Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 31 of 175
Found at i:8278435 original size:21 final size:20
Alignment explanation
Indices: 8278411--8278452 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
8278401 AACATAAACC
8278411 ATATTTCTTAAATTTTAAAAT
1 ATATTT-TTAAATTTTAAAAT
* *
8278432 ATATTTTTTATTTTTAAAAT
1 ATATTTTTAAATTTTAAAAT
8278452 A
1 A
8278453 CACTACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTTTTAAATTTTAAAAT
Found at i:8278548 original size:14 final size:14
Alignment explanation
Indices: 8278529--8278566 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
8278519 TTTTTTCCCA
8278529 ATCCACCTCCACCG
1 ATCCACCTCCACCG
8278543 ATCCACCTCCACCG
1 ATCCACCTCCACCG
8278557 ATCCACCTCC
1 ATCCACCTCC
8278567 GGTCCTCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.21, C:0.58, G:0.05, T:0.16
Consensus pattern (14 bp):
ATCCACCTCCACCG
Found at i:8278698 original size:15 final size:15
Alignment explanation
Indices: 8278675--8278710 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
8278665 CTTTTATTCC
*
8278675 TTTCCTTACACTGTA
1 TTTCTTTACACTGTA
8278690 TTTCTTTACACTGTA
1 TTTCTTTACACTGTA
8278705 TTTCTT
1 TTTCTT
8278711 CCTCCTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.22, G:0.06, T:0.56
Consensus pattern (15 bp):
TTTCTTTACACTGTA
Found at i:8284166 original size:27 final size:26
Alignment explanation
Indices: 8284136--8284196 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
8284126 TAAGCCTAAG
* *
8284136 TATTTTAAGTTACTTTATATATTATTT
1 TATTTTAAGTTACTTTACATATTA-CT
*
8284163 TATTTTAAGTTATTTTACATATTACT
1 TATTTTAAGTTACTTTACATATTACT
8284189 TATTTTAA
1 TATTTTAA
8284197 AATTAACCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (26 bp):
TATTTTAAGTTACTTTACATATTACT
Found at i:8290375 original size:17 final size:17
Alignment explanation
Indices: 8290353--8290388 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
8290343 CACTTTGAGT
8290353 AAAAAAATGAAAAA-TA
1 AAAAAAATGAAAAAGTA
8290369 AAAAAAATGAAAAAGTA
1 AAAAAAATGAAAAAGTA
8290386 AAA
1 AAA
8290389 GTAGATAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (17 bp):
AAAAAAATGAAAAAGTA
Found at i:8291768 original size:44 final size:44
Alignment explanation
Indices: 8291656--8291901 Score: 315
Period size: 44 Copynumber: 5.7 Consensus size: 44
8291646 AATCACAAGC
*
8291656 CCTAGTTCCCTGACCAGCAGCGGAATAGGTGGAAGACTGTAAGT
1 CCTAGTTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGT
* **
8291700 CCTAG-TCCCTGACCAACAGTGGAATAGGTGGAAGGTTGTAAGT
1 CCTAGTTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGT
* *
8291743 CCTAGTTCCCTGACCAGGAGTGGAATAGGTGGAAGACTGTAAGC
1 CCTAGTTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGT
* * * * *
8291787 CCTAGTTCCCTGACCAACAATAGAATAGATGGAAAACTGTAAG-
1 CCTAGTTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGT
8291830 CTCTAGTTCCCTGACCAGCAGTGGAATAGGTGGAAGA---TAAGT
1 C-CTAGTTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGT
**
8291872 CCTA-TCTCCCTGGTCAGCAGTGGAATAGGT
1 CCTAGT-TCCCTGACCAGCAGTGGAATAGGT
8291902 TGAGAAATTA
Statistics
Matches: 176, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.01
41 29 0.16
42 1 0.01
43 40 0.23
44 105 0.60
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (44 bp):
CCTAGTTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGT
Found at i:8292100 original size:45 final size:46
Alignment explanation
Indices: 8292043--8292156 Score: 117
Period size: 45 Copynumber: 2.5 Consensus size: 46
8292033 AGTAAGTAGG
* ***
8292043 TCTTATCCCCCTGAAGTTGTAGTGGGA-CAGATCGAAGATGGCAAA
1 TCTTATCTCCCTGAAGTTGTAGTGGGAGCAGATCGAAGACAACAAA
* * * * * *
8292088 TCTTATCTCCCTGAGGTTGCAGT-GGAGCAGATTGAAGCCAATAAT
1 TCTTATCTCCCTGAAGTTGTAGTGGGAGCAGATCGAAGACAACAAA
8292133 TC-TATCTCCCTGAAGTTGTAGTGG
1 TCTTATCTCCCTGAAGTTGTAGTGG
8292157 AGCGGATTAA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
44 21 0.38
45 34 0.62
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (46 bp):
TCTTATCTCCCTGAAGTTGTAGTGGGAGCAGATCGAAGACAACAAA
Found at i:8292183 original size:44 final size:44
Alignment explanation
Indices: 8292086--8292198 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
8292076 GAAGATGGCA
* *
8292086 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * *
8292130 AAT-TCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAG-TAAT
1 AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* *
8292173 AGATCTTATCTCTCTGAAGTTACAGT
1 A-ATCTTATCTCCCTGAAGTTGCAGT
8292199 AGAGTGGATC
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
43 5 0.09
44 52 0.90
45 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:8292344 original size:50 final size:50
Alignment explanation
Indices: 8292290--8292939 Score: 464
Period size: 50 Copynumber: 13.0 Consensus size: 50
8292280 GCAGTGGAAC
* * * *
8292290 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGATATTGCAATTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * ** *
8292340 AGATTAAAGCTACAACAGCGAATCTTAC-TCCACAGGCGA-TGCAGTGGAAC
1 AGATTAAAGCCACATCAGTGAATCTTACTTCC-CCGAC-ATTGCAGTTAAAA
* *
8292390 AGATTAAAGCCATATCAGTGAATCTTACTTCCCCGACATTTCAGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * ** *
8292440 AGATTAGAGCTACAACAGCGAATCTTAC-TCCCCAGACGA-TACAGTGGAAC
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCC-GAC-ATTGCAGTTAAAA
* * *
8292490 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * ** *
8292540 AGATTAAAGCTACAACAGCGAATCTTAC-TCCCCAGACGA-TGCAGTGGAAC
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCC-GAC-ATTGCAGTTAAAA
* * *
8292590 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTT-AAA
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * *** *
8292639 AGATTAAAGCTACAACAGCGAATCTTAC-TCCCCAAGAGA-TGTAGCGGAAT
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCC--GACATTGCAGTTAAAA
* * *
8292689 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTACAA
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * ** * * ** *
8292739 AGATTAAAGCTACAACAGCAAATCTTAC-TCTCCAGGCGA-TGCAGTGGAAC
1 AGATTAAAGCCACATCAGTGAATCTTACTTC-CCCGAC-ATTGCAGTTAAAA
* * * *
8292789 ATATTAAAGCCACATCGGTGAATCTTCCTTCTCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * ** *
8292839 AGATTAAAGCTACAACAGCGAATCTTAC-TCCCCAAGC-TATGCAGTGGAAC
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGA-CAT-TGCAGTTAAAA
* * * *
8292889 AGATT-AAGCCACATCGGTGAATCTTGCTTCCCCAACATTGTAGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
8292938 AG
1 AG
8292940 CTACCACAGC
Statistics
Matches: 448, Mismatches: 127, Indels: 51
0.72 0.20 0.08
Matches are distributed among these distances:
48 4 0.01
49 83 0.19
50 339 0.76
51 22 0.05
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
Found at i:8292438 original size:100 final size:100
Alignment explanation
Indices: 8292260--8293239 Score: 1282
Period size: 100 Copynumber: 9.9 Consensus size: 100
8292250 GAGAATAGCA
* *
8292260 AATCTTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
1 AATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* *
8292325 ATATTGCAATTAAAAAGATTAAAGCTACAACAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* * * *
8292360 AATCTTACTCCACAGGCGATGCAGTGGAACAGATTAAAGCCATATCAGTGAATCTTACTTCCCCG
1 AATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* *
8292425 ACATTTCAGTTAAAAAGATTAGAGCTACAACAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* * *
8292460 AATCTTACTCCCCAGACGATACAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTG
1 AATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
8292525 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* *
8292560 AATCTTACTCCCCAGACGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTG
1 AATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
8292625 ACATTGCAGTT-AAAAGATTAAAGCTACAACAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* * * * *
8292659 AATCTTACTCCCCAAGAGATGTAGCGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
1 AATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* *
8292724 ACATTGCAGTTACAAAGATTAAAGCTACAACAGCA
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* * * *
8292759 AATCTTACTCTCCAGGCGATGCAGTGGAACATATTAAAGCCACATCGGTGAATCTTCCTTCTCCG
1 AATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
8292824 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* * *
8292859 AATCTTACTCCCCAAGCTATGCAGTGGAACAGATT-AAGCCACATCGGTGAATCTTGCTTCCCCA
1 AATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* *
8292923 ACATTGTAGTT----A-A--AAAGCTACCACAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* * * *
8292951 AATCTTACTCCCCAGGTGACGCAGTGGAACAGATTAAAGCCACAAT-GGCGAACCTTGCTTCCCC
1 AATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCC
* * *
8293015 GACATTACAATTAAAAATATTAAAGCTACAACAGCG
65 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* * * * * * * * *
8293051 AATCTTACTTCTCAAGCGGTGCAGTGGAATAGATTAATGCCACAACGGCGAATCTTGCTTTCCCG
1 AATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * * *
8293116 ATATTGCAATTAGAAAGATTAAAGCTACAATAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
** * * ** * * * *
8293151 AATCTTACTTTCCAGGC-AGTGTAGTGGAACAGATTGAAGATACAACAGCGAATCTTGCTTCCTC
1 AATCTTACTCCCCAGGCGA-TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
**
8293215 GACATCACAGTTAAACAA-ATTAAAG
65 GACATTGCAGTTAAA-AAGATTAAAG
8293240 TTACGAGTTA
Statistics
Matches: 773, Mismatches: 94, Indels: 26
0.87 0.11 0.03
Matches are distributed among these distances:
92 45 0.06
93 31 0.04
94 3 0.00
95 1 0.00
97 1 0.00
98 1 0.00
99 129 0.17
100 560 0.72
101 2 0.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (100 bp):
AATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
Found at i:8293087 original size:50 final size:48
Alignment explanation
Indices: 8293033--8293206 Score: 150
Period size: 50 Copynumber: 3.5 Consensus size: 48
8293023 AATTAAAAAT
*
8293033 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGCAGTGGAATAG
1 ATTAAAGCTACAACAGCGAATCTTACTT-TCAAGCAGTGCAGTGGAA-AG
* * * * ** * * * *
8293083 ATTAATGCCACAACGGCGAATCTTGCTTTCCCGATATTGCAATTAGAAAG
1 ATTAAAGCTACAACAGCGAATCTTACTTTCAAG-CAGTGC-AGTGGAAAG
* * *
8293133 ATTAAAGCTACAATAGCGAATCTTACTTTCCAGGCAGTGTAGTGGAACAG
1 ATTAAAGCTACAACAGCGAATCTTACTTT-CAAGCAGTGCAGTGGAA-AG
* *
8293183 ATTGAAGATACAACAGCGAATCTT
1 ATTAAAGCTACAACAGCGAATCTT
8293207 GCTTCCTCGA
Statistics
Matches: 94, Mismatches: 26, Indels: 8
0.73 0.20 0.06
Matches are distributed among these distances:
49 8 0.09
50 79 0.84
51 7 0.07
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (48 bp):
ATTAAAGCTACAACAGCGAATCTTACTTTCAAGCAGTGCAGTGGAAAG
Found at i:8294873 original size:27 final size:26
Alignment explanation
Indices: 8294843--8294903 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
8294833 TAAGCCTAAG
* *
8294843 TATTTTAAGTTACTTTATATATTATTT
1 TATTTTAAGTTACTTTACATATTA-CT
*
8294870 TATTTTAAGTTATTTTACATATTACT
1 TATTTTAAGTTACTTTACATATTACT
8294896 TATTTTAA
1 TATTTTAA
8294904 AATTAACCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (26 bp):
TATTTTAAGTTACTTTACATATTACT
Found at i:8297170 original size:50 final size:52
Alignment explanation
Indices: 8297087--8297217 Score: 140
Period size: 56 Copynumber: 2.5 Consensus size: 52
8297077 GGTGCCCCAT
* * **
8297087 GCCATGTCCTAGACATGGTCTTACGGGGGACCTCTC-ATCTC-GATGGCAAC
1 GCCATGTCCCAGACATGGTCTTACAGGAAACCTCTCAATCTCAGATGGCAAC
* * * *
8297137 GCTATGTCCCAGACATGGTCTTACATGAAACCTCTCATAATCTCAATGATGTCAAT
1 GCCATGTCCCAGACATGGTCTTACAGGAAACCTCTC--AATCTC-A-GATGGCAAC
8297193 GCCATGTCCCAGACATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
8297218 ATGGATCTCA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
50 30 0.45
53 5 0.08
56 31 0.47
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (52 bp):
GCCATGTCCCAGACATGGTCTTACAGGAAACCTCTCAATCTCAGATGGCAAC
Found at i:8298612 original size:24 final size:24
Alignment explanation
Indices: 8298566--8298612 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
8298556 AGATACAGAA
* * *
8298566 ATGAAATATATGAAATGGTTATTG
1 ATGAAATACATGAAATAGATATTG
*
8298590 ATGAAATGCATGAAATAGATATT
1 ATGAAATACATGAAATAGATATT
8298613 AATATAGTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.34
Consensus pattern (24 bp):
ATGAAATACATGAAATAGATATTG
Found at i:8298684 original size:14 final size:15
Alignment explanation
Indices: 8298656--8298684 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8298646 GAGAAGCTAT
8298656 TTAAAATACATATTA
1 TTAAAATACATATTA
8298671 TTAAAATA-ATATTA
1 TTAAAATACATATTA
8298685 AAGTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATACATATTA
Found at i:8306172 original size:35 final size:35
Alignment explanation
Indices: 8306128--8306215 Score: 133
Period size: 35 Copynumber: 2.5 Consensus size: 35
8306118 ACGATCCAAC
8306128 CCCTCCGAAACACACCAATGCTCATAAAAGCTAGT
1 CCCTCCGAAACACACCAATGCTCATAAAAGCTAGT
* * *
8306163 CCAGT-CGAAACACAGCAATGCTCATAACAGCTAGT
1 CC-CTCCGAAACACACCAATGCTCATAAAAGCTAGT
8306198 CCCTCCGAAACACACCAA
1 CCCTCCGAAACACACCAA
8306216 ACAAAGAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 1 0.02
35 44 0.96
36 1 0.02
ACGTcount: A:0.38, C:0.35, G:0.12, T:0.15
Consensus pattern (35 bp):
CCCTCCGAAACACACCAATGCTCATAAAAGCTAGT
Found at i:8308251 original size:16 final size:18
Alignment explanation
Indices: 8308220--8308259 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
8308210 ATGCCATAGC
*
8308220 ATTTCATATATGTTCATA
1 ATTTCATATATGTTCACA
8308238 ATTTCATAT-T-TTCACA
1 ATTTCATATATGTTCACA
8308254 ATTTCA
1 ATTTCA
8308260 CAAGCATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 1 0.05
18 9 0.43
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.50
Consensus pattern (18 bp):
ATTTCATATATGTTCACA
Found at i:8308926 original size:18 final size:17
Alignment explanation
Indices: 8308905--8308939 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8308895 TTATTATTAA
*
8308905 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8308923 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8308940 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8309053 original size:14 final size:15
Alignment explanation
Indices: 8309004--8309055 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
8308994 GTAAAATATA
8309004 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
8309019 TATTAAATATATTAT
1 AATTAAATATATTAT
8309034 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
8309047 AATTTAATA
1 AATTAAATA
8309056 AAATTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:8309113 original size:119 final size:120
Alignment explanation
Indices: 8308883--8309190 Score: 482
Period size: 119 Copynumber: 2.6 Consensus size: 120
8308873 ATTTAATCAT
*
8308883 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT-TTAATA
8308948 ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA
65 ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGT-AAATGA-AA
*
8309005 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTAATAA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTAATAA
*
8309068 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
66 TTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
* * *
8309123 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA-AATAATTTAAAAT
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAA-AATTT-TAAT
8309186 AATTA
64 AATTA
8309191 TAACTAATAA
Statistics
Matches: 175, Mismatches: 6, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
118 9 0.05
119 101 0.58
120 62 0.35
121 2 0.01
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTAATAA
TTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
Found at i:8309272 original size:92 final size:92
Alignment explanation
Indices: 8309176--8309403 Score: 227
Period size: 92 Copynumber: 2.5 Consensus size: 92
8309166 GATTTAAAAT
* * *
8309176 AATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAA
1 AATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA
8309238 T-TATAACATATAATTTAATAATTAATATTA
64 TAT-TAA-ATATAATTTAATAATTAATATTA
* * * * *
8309268 AATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATA
* *
8309333 TTAAATATAATTTAAT-AGTGATA-TA
66 TTAAATATAATTTAATAATTAATATTA
* * *
8309358 TAATTTCATAAAATTCTTAATAATAAAATGT-TTTTATATGAATTTA
1 -AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
8309404 CTAAAATCAA
Statistics
Matches: 117, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 74 0.63
93 13 0.11
94 1 0.01
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
AATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATA
TTAAATATAATTTAATAATTAATATTA
Found at i:8314241 original size:13 final size:13
Alignment explanation
Indices: 8314223--8314249 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8314213 TAAAAACAAC
8314223 TATATTGTTTAAA
1 TATATTGTTTAAA
8314236 TATATTGTTTAAA
1 TATATTGTTTAAA
8314249 T
1 T
8314250 TAAACCGAAA
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:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TATATTGTTTAAA
Found at i:8322166 original size:28 final size:29
Alignment explanation
Indices: 8322125--8322193 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
8322115 AGGGTTTTAA
* * *
8322125 AAATATTTAATTTTATTTATAGTTAT-TT
1 AAATATATAATTTTAATTATAGATATGTT
* *
8322153 AAATATATATTTTTAATTGTAGATATGTT
1 AAATATATAATTTTAATTATAGATATGTT
*
8322182 TAATATATAATT
1 AAATATATAATT
8322194 ATATTAGAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
28 21 0.64
29 12 0.36
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (29 bp):
AAATATATAATTTTAATTATAGATATGTT
Found at i:8323529 original size:18 final size:20
Alignment explanation
Indices: 8323503--8323539 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
8323493 GAAGATTTCT
8323503 TTGGAGGT-GTA-AAACGGG
1 TTGGAGGTGGTAGAAACGGG
*
8323521 TTGGCGGTGGTAGAAACGG
1 TTGGAGGTGGTAGAAACGG
8323540 CTCCTATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.44
19 3 0.19
20 6 0.38
ACGTcount: A:0.24, C:0.08, G:0.46, T:0.22
Consensus pattern (20 bp):
TTGGAGGTGGTAGAAACGGG
Found at i:8329309 original size:19 final size:19
Alignment explanation
Indices: 8329282--8329341 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
8329272 TTAAAATCAA
*
8329282 TAAAATTTATAAATATTAT
1 TAAATTTTATAAATATTAT
*
8329301 TAAATTTTAATAAAAATT-T
1 TAAATTTT-ATAAATATTAT
* *
8329320 TAAATATTAAAAAT-TTAT
1 TAAATTTTATAAATATTAT
8329338 TAAA
1 TAAA
8329342 AATATATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
17 2 0.06
18 9 0.26
19 15 0.44
20 8 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATTTTATAAATATTAT
Found at i:8329323 original size:29 final size:28
Alignment explanation
Indices: 8329283--8329351 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 28
8329273 TAAAATCAAT
*
8329283 AAAATTTATAAATATTATTAAATTTTAATA
1 AAAATTTATAAATATTA--AAAATTTAATA
*
8329313 AAAATTT-TAAATATTAAAAATTTATTA
1 AAAATTTATAAATATTAAAAATTTAATA
*
8329340 AAAATATATAAA
1 AAAATTTATAAA
8329352 AATTGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.43
28 4 0.11
29 9 0.26
30 7 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
AAAATTTATAAATATTAAAAATTTAATA
Found at i:8329360 original size:9 final size:10
Alignment explanation
Indices: 8329321--8329383 Score: 51
Period size: 11 Copynumber: 6.2 Consensus size: 10
8329311 TAAAAATTTT
8329321 AAATAT-TAA
1 AAATATATAA
*
8329330 AAATTTATTAA
1 AAATATA-TAA
8329341 AAATATATAA
1 AAATATATAA
*
8329351 AAAT-TGTAAA
1 AAATATAT-AA
8329361 AAATATATAA
1 AAATATATAA
8329371 TAGAA-ATATAA
1 -A-AATATATAA
8329382 AA
1 AA
8329384 TTTTATGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
9 8 0.18
10 16 0.36
11 18 0.41
12 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (10 bp):
AAATATATAA
Found at i:8329362 original size:20 final size:20
Alignment explanation
Indices: 8329310--8329370 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
8329300 TTAAATTTTA
8329310 ATAAAAATTT-T--AAATAT
1 ATAAAAATTTATAAAAATAT
8329327 -TAAAAATTTATTAAAAATAT
1 ATAAAAATTTA-TAAAAATAT
8329347 ATAAAAATTGTA-AAAAATAT
1 ATAAAAATT-TATAAAAATAT
8329367 ATAA
1 ATAA
8329371 TAGAAATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
16 9 0.24
18 1 0.03
20 18 0.47
21 8 0.21
22 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
ATAAAAATTTATAAAAATAT
Found at i:8329482 original size:22 final size:22
Alignment explanation
Indices: 8329457--8329500 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8329447 TATAAAAAAT
*
8329457 CTAAAA-TATATAAAATATATAA
1 CTAAAATTATA-AATATATATAA
8329479 CTAAAATTATAAATATATATAA
1 CTAAAATTATAAATATATATAA
8329501 TTGTCTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (22 bp):
CTAAAATTATAAATATATATAA
Found at i:8329696 original size:101 final size:101
Alignment explanation
Indices: 8329577--8329778 Score: 377
Period size: 101 Copynumber: 2.0 Consensus size: 101
8329567 AAAACTATAA
8329577 ACATTATTAGAAAATGTAAAATATAAAAAAAATATTAGTAATCATAAAAGATTATAAAAAAATTA
1 ACATTATTAGAAAATGTAAAATATAAAAAAAATATTAGTAATCATAAAAGATTATAAAAAAATTA
*
8329642 TTACAAACTTTAAAAATAGTAAAAAATATTGTATCC
66 TTACAAACTTTAAAAATAGTAAAAAATAGTGTATCC
* *
8329678 ACATTATTAGAAAATGTAAAATATAATAAAAATATTAGTAATCATAAAATATTATAAAAAAATTA
1 ACATTATTAGAAAATGTAAAATATAAAAAAAATATTAGTAATCATAAAAGATTATAAAAAAATTA
8329743 TTACAAACTTTAAAAATAGTAAAAAATAGTGTATCC
66 TTACAAACTTTAAAAATAGTAAAAAATAGTGTATCC
8329779 CGGAATAAAG
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (101 bp):
ACATTATTAGAAAATGTAAAATATAAAAAAAATATTAGTAATCATAAAAGATTATAAAAAAATTA
TTACAAACTTTAAAAATAGTAAAAAATAGTGTATCC
Found at i:8330175 original size:17 final size:19
Alignment explanation
Indices: 8330155--8330191 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
8330145 ATATATGAAA
8330155 TAATT-AAA-AATATAATT
1 TAATTGAAATAATATAATT
*
8330172 TAATTGAAATAATATTATT
1 TAATTGAAATAATATAATT
8330191 T
1 T
8330192 TTTATTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
19 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATTGAAATAATATAATT
Found at i:8333727 original size:45 final size:44
Alignment explanation
Indices: 8333676--8333774 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 44
8333666 TATGTGTAAG
8333676 TATGTATGTACATATAAATATATATACT-TATAAAAATTTAGAAAA
1 TATGTATGTACATATAAATATATATA-TATATAAAAA-TTAGAAAA
* * * * * *
8333721 TATGTATATAGATATGAATATATGTATATATATAAATTATAAAA
1 TATGTATGTACATATAAATATATATATATATAAAAATTAGAAAA
*
8333765 TATATATGTA
1 TATGTATGTA
8333775 TAAAAATATC
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
44 16 0.36
45 29 0.64
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.40
Consensus pattern (44 bp):
TATGTATGTACATATAAATATATATATATATAAAAATTAGAAAA
Found at i:8333767 original size:24 final size:23
Alignment explanation
Indices: 8333740--8333803 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 23
8333730 AGATATGAAT
8333740 ATATGTATATATATAAATTATAA
1 ATATGTATATATATAAATTATAA
* * * *
8333763 A-ATATATATGTATAAAAATATCA
1 ATATGTATATATAT-AAATTATAA
* *
8333786 ATAAGTGTATATATAAAT
1 ATATGTATATATATAAAT
8333804 CAAAGTTATA
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
22 10 0.33
23 12 0.40
24 8 0.27
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (23 bp):
ATATGTATATATATAAATTATAA
Found at i:8334988 original size:14 final size:14
Alignment explanation
Indices: 8334969--8334996 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8334959 ACATTATGTC
8334969 AATATCAATATCAA
1 AATATCAATATCAA
8334983 AATATCAATATCAA
1 AATATCAATATCAA
8334997 CGTTCGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (14 bp):
AATATCAATATCAA
Found at i:8335319 original size:20 final size:18
Alignment explanation
Indices: 8335294--8335333 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
8335284 ATGAAATGAA
8335294 ATATTTAATATAAATAATAT
1 ATATTT-ATAT-AATAATAT
8335314 ATATTTATATAATAATAT
1 ATATTTATATAATAATAT
8335332 AT
1 AT
8335334 GTAAAAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 4 0.20
20 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTTATATAATAATAT
Found at i:8338673 original size:131 final size:131
Alignment explanation
Indices: 8338504--8338839 Score: 483
Period size: 131 Copynumber: 2.6 Consensus size: 131
8338494 CATGGTTTTA
**
8338504 ATCTGCTCTGCTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* * * * * * *
8338569 GGAGGTAAGACTGGTGGCTTAAATCTGCTTCCTATTACCTCGGGAAGATAAGATTCACCATCTTC
66 GGAGATAAGACTGATGACTTAAATCTGCTTCCTACTACCTAGGGAAGATAAAACTCACCATCTTC
8338634 G
131 G
* * * *
8338635 ATCTGCTCCACTACTGCTTAGGGATATAAGATTTACAATCTTCAACCCACTCCACTACTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* * *
8338700 GGAGATAGGACTGATGACTTAAATCTGCTTCCTACTATCTAGGGAAGATAAAACTCACCGTCTTC
66 GGAGATAAGACTGATGACTTAAATCTGCTTCCTACTACCTAGGGAAGATAAAACTCACCATCTTC
8338765 G
131 G
** ** *
8338766 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCTGCTGCTGCTCAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
8338831 GGAGATAAG
66 GGAGATAAG
8338840 GCTTGATATG
Statistics
Matches: 179, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
131 179 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (131 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
GGAGATAAGACTGATGACTTAAATCTGCTTCCTACTACCTAGGGAAGATAAAACTCACCATCTTC
G
Found at i:8338808 original size:44 final size:44
Alignment explanation
Indices: 8338503--8338810 Score: 154
Period size: 44 Copynumber: 7.0 Consensus size: 44
8338493 TCATGGTTTT
** *
8338503 AATCTGCTCTGCTACTGCTTAGGGAGATAAGATCTACAATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTC
* * * * * **** *
8338547 AACCTACTCCACTGCTGCTCAGGGAGGTAAGA-CTGGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTC
* * * * *
8338590 AATCTGCTTC-CTATTACCTCGGGAAGATAAGAT-T-CACCATCTTC
1 AATCTGCTCCACTACTGCTTAGGG-AGATAAGATCTGCA--ATCTTC
* * * *
8338634 GATCTGCTCCACTACTGCTTAGGGATATAAGATTTACAATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTC
* ** * * *
8338678 AACCCACTCCACTACTGCTCAGGGAGATAGGA-CTG--ATGACTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAT--CTTC
* *
8338721 AATCTGCTTCCTACTA-T-C-TAGGGAAGATAA-AACT-CACCGTCTTC
1 AATCTGC-TCC-ACTACTGCTTAGGG-AGATAAGATCTGCA--ATCTTC
* *
8338765 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTC
8338809 AA
1 AA
8338811 CCTACTCTGC
Statistics
Matches: 185, Mismatches: 57, Indels: 44
0.65 0.20 0.15
Matches are distributed among these distances:
41 2 0.01
42 16 0.09
43 40 0.22
44 101 0.55
45 22 0.12
46 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTC
Found at i:8350947 original size:24 final size:23
Alignment explanation
Indices: 8350920--8350983 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
8350910 AGATATGAAT
8350920 ATATGTATATATATAAATTATAA
1 ATATGTATATATATAAATTATAA
* * * *
8350943 A-ATATATATGTATAAAAATATCA
1 ATATGTATATATAT-AAATTATAA
*
8350966 ATAAGTATATATATAAAT
1 ATATGTATATATATAAAT
8350984 CAAAGCTATA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
22 10 0.32
23 12 0.39
24 9 0.29
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (23 bp):
ATATGTATATATATAAATTATAA
Found at i:8350983 original size:22 final size:23
Alignment explanation
Indices: 8350905--8350983 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 23
8350895 AGAAAATATG
* *
8350905 TATATAGATATGAATATATGTATA
1 TATATAAATATAAATATA-GTATA
*
8350929 TATATAAATTATAAAATATA-TATG
1 TATATAAA-TAT-AAATATAGTATA
* *
8350953 TATAAAAATATCAATA-AGTATA
1 TATATAAATATAAATATAGTATA
8350975 TATATAAAT
1 TATATAAAT
8350984 CAAAGCTATA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
21 1 0.02
22 15 0.33
23 3 0.07
24 17 0.38
25 3 0.07
26 6 0.13
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.39
Consensus pattern (23 bp):
TATATAAATATAAATATAGTATA
Found at i:8351190 original size:3 final size:3
Alignment explanation
Indices: 8351170--8351277 Score: 56
Period size: 3 Copynumber: 36.0 Consensus size: 3
8351160 AAATGGAAAT
* * * * * * * *
8351170 ATA ACA ATA ACA ACA ATA ATA TTG ATA ATA ATA CTA ATA CTA ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
8351218 ATA CTA ATA ATA ATA TTA AT- ATA TTA GTT TTA ATA ATA ATA TATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
*
8351263 ATA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA
8351278 GAACATATTA
Statistics
Matches: 75, Mismatches: 28, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
2 2 0.03
3 71 0.95
4 2 0.03
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:8351239 original size:6 final size:6
Alignment explanation
Indices: 8351198--8351238 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
8351188 ATATTGATAA
* *
8351198 TAATAC TAATAC TAATAC TAATAC TAATAA TAATAT TAATA
1 TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC TAATA
8351239 TATTAGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.37
Consensus pattern (6 bp):
TAATAC
Found at i:8353826 original size:16 final size:16
Alignment explanation
Indices: 8353807--8353842 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
8353797 TTATTTAGTT
8353807 ATTTATTTA-TTCTTGC
1 ATTTATTTATTTCTT-C
8353823 ATTTATTTATTTCTTC
1 ATTTATTTATTTCTTC
8353839 ATTT
1 ATTT
8353843 CCCTTATCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.19, C:0.11, G:0.03, T:0.67
Consensus pattern (16 bp):
ATTTATTTATTTCTTC
Found at i:8366381 original size:98 final size:98
Alignment explanation
Indices: 8366221--8366398 Score: 288
Period size: 98 Copynumber: 1.8 Consensus size: 98
8366211 TTAAAGATAG
*
8366221 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTTTGAAGTT
1 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
8366286 ATAGTAGAGTAGATCACATCAGATTGAAACCGA
66 ATAGTAGAGTAGATCACATCAGATTGAAACCGA
* * *
8366319 TAATCCTATCTCTCTGA-AGTTACAGTGGAGTGGATTAAAATCACA-GATCTTATCTCTCTGAAG
1 TAATCCTATCTCCCTGAGA-TTACAGTGGAGCGGATTAAAAT-AAAGGATCTTATCTCTCTGAAG
8366382 TTATAGTAGAGTAGATC
64 TTATAGTAGAGTAGATC
8366399 GTATCTGTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
97 1 0.01
98 71 0.96
99 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.31
Consensus pattern (98 bp):
TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
ATAGTAGAGTAGATCACATCAGATTGAAACCGA
Found at i:8366501 original size:129 final size:129
Alignment explanation
Indices: 8366305--8366686 Score: 529
Period size: 129 Copynumber: 3.0 Consensus size: 129
8366295 TAGATCACAT
* * *
8366305 CAGATTGAAACCGATAATCCTATCTCTCTGAAGTTACAGTGGAGTGGATTAAAATCACA-GATCT
1 CAGATTGAAGCTGATAATCCTATCTCTCTGAAGTTACAGTGGAGTGGATTAAAAT-AAAGGATCT
* * *
8366369 TATCTCTCTGAAGTTATAGTAGAGTAGATCGTATCTGTTCTTATCTCCCTGAGATTACAGCAAAG
65 TATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGATTACAGCAAAG
* *
8366434 TAGATTGAAGCTGATAATCCTATCTCCCTG-AGATTACAGTGGAGTGGATTAAAATAAAGGATCT
1 CAGATTGAAGCTGATAATCCTATCTCTCTGAAG-TTACAGTGGAGTGGATTAAAATAAAGGATCT
* * * **
8366498 TATCTCTCTGAAGTTACAGTAGAGTGGATCGTATCAGGTCTTATCTTCTTGAGATTACAGCGGAG
65 TATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGATTACAGCAAAG
* **
8366563 CAGATTGAAGCTTG-TAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATTTAGGATCT
1 CAGATTGAAGC-TGATAATCCTATCTCTCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCT
* * *
8366627 TATCTCTCTG-AGTTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACAG
65 TATCTCTCTGAAG-TTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGATTACAG
8366687 TGGAGTAGAC
Statistics
Matches: 224, Mismatches: 24, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
128 6 0.03
129 214 0.96
130 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (129 bp):
CAGATTGAAGCTGATAATCCTATCTCTCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTT
ATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGATTACAGCAAAG
Found at i:8366502 original size:44 final size:43
Alignment explanation
Indices: 8366325--8366958 Score: 262
Period size: 44 Copynumber: 14.7 Consensus size: 43
8366315 CCGATAATCC
* *
8366325 TATCTCTCTGA-AGTTACAGTGGAGTGGATTAAAATCACAGATCT
1 TATCTCTCTGAGA-TTACAGTGGAGTAGATTAAAATCA-GGATCT
* * *** * *
8366369 TATCTCTCTGA-AGTTATAGTAGAGTAGA-TCGTATC-TGTTCT
1 TATCTCTCTGAGA-TTACAGTGGAGTAGATTAAAATCAGGATCT
* *** ** * ** *
8366410 TATCTCCCTGAGATTACAGCAAAGTAGATTGAAGCTGATAATCC
1 TATCTCTCTGAGATTACAGTGGAGTAGATT-AAAATCAGGATCT
* * *
8366454 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCT
1 TATCTCTCTGAGATTACAGTGGAGTAGATTAAAAT-CAGGATCT
* * ***
8366498 TATCTCTCTGA-AGTTACAGTAGAGTGGA-TCGTATCAGG-TCT
1 TATCTCTCTGAGA-TTACAGTGGAGTAGATTAAAATCAGGATCT
* * * * * * *
8366539 TATCT-TCTTGAGATTACAGCGGAGCAGATT-GAAGCTTGTAATCC
1 TATCTCTC-TGAGATTACAGTGGAGTAGATTAAAATC-AG-GATCT
** *
8366583 TATCTCTCTGA-AGTTACAGTGGAGCGGATTAAAATTTAGGATCT
1 TATCTCTCTGAGA-TTACAGTGGAGTAGATTAAAA-TCAGGATCT
* * ***
8366627 TATCTCTCTGAGTTTACAGTAGAGTAGA-TCGCATCAGG-TCT
1 TATCTCTCTGAGATTACAGTGGAGTAGATTAAAATCAGGATCT
* ** *
8366668 TATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAAATTTA-GATCT
1 TATCTCTCTGAGATTACAGTGGAGTAGA--TTA-AAA-TCAGGATCT
* * * * * *
8366714 TATCTCCCTGAGATTACAGCGGAGCAGATT-AAAGCTAGTAATCC
1 TATCTCTCTGAGATTACAGTGGAGTAGATTAAAATC-AG-GATCT
** *
8366758 TATCTCTCTGA-AGTTACAGTGGAGCGGATTAAAATTTAGGATCT
1 TATCTCTCTGAGA-TTACAGTGGAGTAGATTAAAA-TCAGGATCT
* * ***
8366802 TATCTCTCTGAGGTTACAGTAGAGTAGA-TCGCATCA-GATCT
1 TATCTCTCTGAGATTACAGTGGAGTAGATTAAAATCAGGATCT
* * * ** *
8366843 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAAA-CACTATCC
1 TATCTCTCTGAGATTACAGTGGAGTAGATT-AAAATCAGGATCT
* * * * * * *
8366886 TATCCCCCTGAGATTCCAGTGGGGTGGATTAAAATAAAAGATCT
1 TATCTCTCTGAGATTACAGTGGAGTAGATTAAAAT-CAGGATCT
* *
8366930 TATCTCTCT-AAAGTTACAGTAGAGTAGAT
1 TATCTCTCTGAGA-TTACAGTGGAGTAGAT
8366959 CGTATCAGAT
Statistics
Matches: 434, Mismatches: 120, Indels: 72
0.69 0.19 0.12
Matches are distributed among these distances:
40 2 0.00
41 108 0.25
42 25 0.06
43 48 0.11
44 210 0.48
45 12 0.03
46 29 0.07
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (43 bp):
TATCTCTCTGAGATTACAGTGGAGTAGATTAAAATCAGGATCT
Found at i:8366672 original size:85 final size:85
Alignment explanation
Indices: 8366583--8366877 Score: 324
Period size: 85 Copynumber: 3.4 Consensus size: 85
8366573 CTTGTAATCC
* *
8366583 TATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGTTTACAGTA
1 TATCTCTCTGAAGTTACAGTGGAGCAGATTAAAATTTAGGATCTTATCTCTCTGAGATTACAGTA
*
8366648 GAGTAGATCGCATCAGGTCT
66 GAGTAGATCGCATCAGATCT
* * ** *
8366668 TATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAAATTTA-GATCTTATCTCCCTGAGATTACA
1 TATCTCTCTGAAGTTACAGTGGAGCAGA--TTA-AAATTTAGGATCTTATCTCTCTGAGATTACA
** * *** * *
8366732 GCGGAGCAGATTAAAGCTAGTAATCC
63 GTAGAGTAGATCGCATC-AG--ATCT
* *
8366758 TATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTA
1 TATCTCTCTGAAGTTACAGTGGAGCAGATTAAAATTTAGGATCTTATCTCTCTGAGATTACAGTA
8366823 GAGTAGATCGCATCAGATCT
66 GAGTAGATCGCATCAGATCT
* *
8366843 TATCTCCCTG-AGATTACAGCGGAGCAGATTGAAAA
1 TATCTCTCTGAAG-TTACAGTGGAGCAGATT-AAAA
8366878 CACTATCCTA
Statistics
Matches: 167, Mismatches: 34, Indels: 17
0.77 0.16 0.08
Matches are distributed among these distances:
84 2 0.01
85 52 0.31
86 4 0.02
87 41 0.25
88 41 0.25
90 27 0.16
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (85 bp):
TATCTCTCTGAAGTTACAGTGGAGCAGATTAAAATTTAGGATCTTATCTCTCTGAGATTACAGTA
GAGTAGATCGCATCAGATCT
Found at i:8366764 original size:129 final size:128
Alignment explanation
Indices: 8366372--8366877 Score: 391
Period size: 129 Copynumber: 3.9 Consensus size: 128
8366362 CAGATCTTAT
* * * * * * * ***
8366372 CTCTCTGAAGTTATAGTAGAGTAGATCGTATCTGTTCTTATCTCCCTGAGATTACAGCAAAGTAG
1 CTCTCTGAAGTTACAGTAGAGTGGATCGAATCAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAG
* * * * * ** *** * *
8366437 ATTGAAGCTGATA-ATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTA
66 ATCGAAGAT-TTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAGCTAGAATCCTA
* * * *
8366500 TCTCTCTGAAGTTACAGTAGAGTGGATCGTATCAGGTCTTATCT-TCTTGAGATTACAGCGGAGC
1 -CTCTCTGAAGTTACAGTAGAGTGGATCGAATCAGGTCTTATCTCTC-TGAGGTTACAGTGGAGT
* * * * * * ** * *
8366564 AGATTGAAGCTTGTA-ATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATTAAAATTTAGGATCT
64 AGATCGAAGATT-TAGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTAAAAGCTAGAATCC
8366627 TA
127 TA
* *
8366629 TCTCTCTG-AGTTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACAGTGGAGT
1 -CTCTCTGAAG-TTACAGTAGAGTGGATCGAATCAGGTCTTATCTCTCTGAGGTTACAGTGGAGT
*
8366693 AGACCGAAGAAATTTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAGCTAGTAATC
64 AGATCGAAG--ATTTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAGCTAG-AATC
8366757 CTA
126 CTA
* * ** * *
8366760 TCTCTCTGAAGTTACAGTGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGA
1 -CTCTCTGAAGTTACAGTAGAGTGGA-TCGAA-TCAGG-TCTTATCTCTCTGAGGTTACAGTGGA
* *
8366825 GTAGATCG--CA-TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAA
62 GTAGATCGAAGATTTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAA
8366878 CACTATCCTA
Statistics
Matches: 321, Mismatches: 40, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
128 4 0.01
129 207 0.64
130 11 0.03
131 58 0.18
132 5 0.02
133 4 0.01
134 32 0.10
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (128 bp):
CTCTCTGAAGTTACAGTAGAGTGGATCGAATCAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAG
ATCGAAGATTTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAGCTAGAATCCTA
Found at i:8366781 original size:175 final size:175
Alignment explanation
Indices: 8366536--8366866 Score: 581
Period size: 175 Copynumber: 1.9 Consensus size: 175
8366526 TCGTATCAGG
* * * *
8366536 TCTTATCTTCTTGAGATTACAGCGGAGCAGATTGAAGCTTGTAATCCTATCTCTCTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCTCTGAAGTTACA
* *
8366601 GTGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGTTTACAGTAGAGTAGATCGCATCAGGT
66 GTGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGAT
* * *
8366666 CTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAAATTTAGA
131 CTTATCTCCCTGAGATTACAGCGGAGTAGACCGAAGAAATTTAGA
8366711 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCTCTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCTCTGAAGTTACA
8366776 GTGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGAT
66 GTGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGAT
8366841 CTTATCTCCCTGAGATTACAGCGGAG
131 CTTATCTCCCTGAGATTACAGCGGAG
8366867 CAGATTGAAA
Statistics
Matches: 147, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
175 147 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (175 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCTCTGAAGTTACA
GTGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGAT
CTTATCTCCCTGAGATTACAGCGGAGTAGACCGAAGAAATTTAGA
Found at i:8366946 original size:128 final size:129
Alignment explanation
Indices: 8366708--8366979 Score: 370
Period size: 128 Copynumber: 2.1 Consensus size: 129
8366698 GAAGAAATTT
* * * *
8366708 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCTCTGAAGTT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAACTACTAATCCTATCCCCCTGAAGTT
** * * *
8366773 ACAGTGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATC
66 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATC
8366837 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAAC-ACT-ATCCTATCCCCCTG-AGA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAACTACTAATCCTATCCCCCTGAAG-
* * * *
8366899 TTCCAGTGGGGTGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGTAT
64 TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCAT
8366964 C
129 C
* *
8366965 AGATATTCTCTCCCT
1 AGATCTTATCTCCCT
8366980 AAGCAGTAGT
Statistics
Matches: 126, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
127 2 0.02
128 82 0.65
129 38 0.30
130 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (129 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAACTACTAATCCTATCCCCCTGAAGTT
ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATC
Found at i:8368961 original size:16 final size:16
Alignment explanation
Indices: 8368942--8368977 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
8368932 TTATTTAGTT
8368942 ATTTATTTA-TTCTTGC
1 ATTTATTTATTTCTT-C
8368958 ATTTATTTATTTCTTC
1 ATTTATTTATTTCTTC
8368974 ATTT
1 ATTT
8368978 CCCTTGTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.19, C:0.11, G:0.03, T:0.67
Consensus pattern (16 bp):
ATTTATTTATTTCTTC
Found at i:8380000 original size:46 final size:46
Alignment explanation
Indices: 8379933--8380024 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
8379923 ACAAGTAGAG
8379933 TAAGTTCATTTAGGTTGTTTCCTTTACAATTGTTATCTTCTTCTAT
1 TAAGTTCATTTAGGTTGTTTCCTTTACAATTGTTATCTTCTTCTAT
8379979 TAAGTTCATTTAGGTTGTTTCCTTTACAATTGTTATCTTCTTCTAT
1 TAAGTTCATTTAGGTTGTTTCCTTTACAATTGTTATCTTCTTCTAT
8380025 ATATTATCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.20, C:0.15, G:0.11, T:0.54
Consensus pattern (46 bp):
TAAGTTCATTTAGGTTGTTTCCTTTACAATTGTTATCTTCTTCTAT
Found at i:8381534 original size:21 final size:20
Alignment explanation
Indices: 8381476--8381535 Score: 50
Period size: 21 Copynumber: 3.0 Consensus size: 20
8381466 ACGGTTAAGG
* *
8381476 AAATAAAAATTTTTAATA-C
1 AAATAAAAATCTTTAAAATC
* **
8381495 AAATTAAAATTCTAAAAAATC
1 AAA-TAAAAATCTTTAAAATC
8381516 TAAATAAAAATCTTTAAAAT
1 -AAATAAAAATCTTTAAAAT
8381536 GGTATAAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
19 3 0.10
20 10 0.33
21 14 0.47
22 3 0.10
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAAAAATCTTTAAAATC
Found at i:8382844 original size:13 final size:13
Alignment explanation
Indices: 8382821--8382863 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
8382811 TATGATTTTC
*
8382821 TTACTATTTTTAA
1 TTACAATTTTTAA
* *
8382834 TTAGAATTTTT-T
1 TTACAATTTTTAA
8382846 TTACAATTTTTAA
1 TTACAATTTTTAA
8382859 TTACA
1 TTACA
8382864 TTAATGAGGC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (13 bp):
TTACAATTTTTAA
Found at i:8384283 original size:30 final size:31
Alignment explanation
Indices: 8384222--8384290 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 31
8384212 AAAAATTTCA
8384222 TTTAAAACTTCATTTAAGTGAAAATTAAAAATT
1 TTTAAAACTTCATTTAA--GAAAATTAAAAATT
*
8384255 TTTAAAACTTCATTTAA-AAAATTCAAAATT
1 TTTAAAACTTCATTTAAGAAAATTAAAAATT
*
8384285 ATTAAA
1 TTTAAA
8384291 TATATTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 17 0.50
33 17 0.50
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (31 bp):
TTTAAAACTTCATTTAAGAAAATTAAAAATT
Found at i:8399048 original size:18 final size:19
Alignment explanation
Indices: 8399015--8399050 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8399005 GTTTTCTCGT
8399015 TCTCTTATTAGGTTTTTTG
1 TCTCTTATTAGGTTTTTTG
*
8399034 TCTCTTCTT-GGTTTTTT
1 TCTCTTATTAGGTTTTTT
8399051 AAAAAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.06, C:0.14, G:0.14, T:0.67
Consensus pattern (19 bp):
TCTCTTATTAGGTTTTTTG
Found at i:8399541 original size:25 final size:25
Alignment explanation
Indices: 8399513--8399562 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
8399503 CAAATAAGTG
8399513 TTAGTAAATTAATTTGTTTAAATCT
1 TTAGTAAATTAATTTGTTTAAATCT
8399538 TTAGTAAATTAATTTGTTTAAATCT
1 TTAGTAAATTAATTTGTTTAAATCT
8399563 GAACATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.52
Consensus pattern (25 bp):
TTAGTAAATTAATTTGTTTAAATCT
Found at i:8409581 original size:22 final size:24
Alignment explanation
Indices: 8409535--8409581 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
8409525 TAGTTATATA
*
8409535 TTATTTTTATAATATTATATATTT
1 TTATTTTTATAATATTACATATTT
*
8409559 TTATTTTTATTA-ATT-CATATTT
1 TTATTTTTATAATATTACATATTT
8409581 T
1 T
8409582 AATAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 3 0.14
24 11 0.52
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (24 bp):
TTATTTTTATAATATTACATATTT
Found at i:8409620 original size:57 final size:57
Alignment explanation
Indices: 8409559--8409701 Score: 177
Period size: 57 Copynumber: 2.5 Consensus size: 57
8409549 TTATATATTT
* *
8409559 TTATTTTTATT-AATTCATATTTTAATAATAA-TA-TTAAGAATGTTATTAAATTATATA
1 TTATTTTTATTAAATT-ATA-TTTAATAATAATTAGTTAA-AATATAATTAAATTATATA
* *
8409616 TTA-TTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAAATTATTTA
1 TTATTTTTATTAAATTATATTTAATAATAATTA-GTTAAAATATAATTAAATTATATA
8409673 TTATTTATTATTAAATTATATTTAATAAT
1 TTATTT-TTATTAAATTATATTTAATAAT
8409702 GATCTTATTA
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
55 11 0.15
56 11 0.15
57 26 0.35
58 6 0.08
59 21 0.28
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.54
Consensus pattern (57 bp):
TTATTTTTATTAAATTATATTTAATAATAATTAGTTAAAATATAATTAAATTATATA
Found at i:8409713 original size:59 final size:56
Alignment explanation
Indices: 8409554--8409715 Score: 170
Period size: 59 Copynumber: 2.8 Consensus size: 56
8409544 TAATATTATA
* * *
8409554 TATTT-TTATTTTTATT-AATTCATATTTTAATAATA-ATATTAAGAATGTTATTAAAT
1 TATTTATTATTTTTATTAAATT-ATA-TTTAATAATATTTATTAA-AATATAATTAAAT
* * *
8409610 TATATATTA-TTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAAAT
1 TATTTATTATTTTTATTAAATTATATTTAATAAT-ATT-TATTAAAATATAATTAAAT
8409667 TATTTATTATTTATTATTAAATTATATTTAATAATGATCTTATTAAAAT
1 TATTTATTATTT-TTATTAAATTATATTTAATAAT-AT-TTATTAAAAT
8409716 TTAAAAACAA
Statistics
Matches: 88, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
55 9 0.10
56 14 0.16
57 26 0.30
58 7 0.08
59 31 0.35
60 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (56 bp):
TATTTATTATTTTTATTAAATTATATTTAATAATATTTATTAAAATATAATTAAAT
Found at i:8409903 original size:16 final size:17
Alignment explanation
Indices: 8409884--8409927 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
8409874 CTGATTACCA
*
8409884 CTCTATTCTATTAC-AG
1 CTCTATTCCATTACAAG
8409900 CTCTATTCCATTACAAG
1 CTCTATTCCATTACAAG
8409917 -TCTATTCCATT
1 CTCTATTCCATT
8409928 CCCCCAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 24 0.92
17 2 0.08
ACGTcount: A:0.25, C:0.27, G:0.05, T:0.43
Consensus pattern (17 bp):
CTCTATTCCATTACAAG
Found at i:8412971 original size:69 final size:69
Alignment explanation
Indices: 8412888--8413053 Score: 217
Period size: 69 Copynumber: 2.4 Consensus size: 69
8412878 TTACTATTTT
* * *
8412888 TTATCGGTTTATCCGACTAGCGCTGGGCACAACCTTTGTTAGCTTGTCTGACTAGTGCTGGGCAC
1 TTATCGGTTCATCCGACTAGCGCTGGGCACAACCTTTGTCAGCTTGTCTGACTAGTGCTAGGCAC
8412953 ACAA
66 ACAA
* ** * *
8412957 TTATCGGTTCATCCGATTAGCGCTGGGCGTAACTTTTGTCAGCTTGTTTGACTAGTGCTAGGCAC
1 TTATCGGTTCATCCGACTAGCGCTGGGCACAACCTTTGTCAGCTTGTCTGACTAGTGCTAGGCAC
8413022 ACAA
66 ACAA
* * *
8413026 TCATTGG-TCAAACCGACTAGCGCTGGGC
1 TTATCGGTTC-ATCCGACTAGCGCTGGGC
8413054 GCAAACATCG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
68 2 0.02
69 82 0.98
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.30
Consensus pattern (69 bp):
TTATCGGTTCATCCGACTAGCGCTGGGCACAACCTTTGTCAGCTTGTCTGACTAGTGCTAGGCAC
ACAA
Found at i:8419286 original size:21 final size:20
Alignment explanation
Indices: 8419254--8419292 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
8419244 TTTATTGTAT
8419254 ATATTTT-ATATATTTTATA
1 ATATTTTAATATATTTTATA
8419273 ATATTTTAATTATATTTTAT
1 ATATTTTAA-TATATTTTAT
8419293 TTTAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
ATATTTTAATATATTTTATA
Found at i:8419289 original size:11 final size:10
Alignment explanation
Indices: 8419224--8419293 Score: 67
Period size: 9 Copynumber: 7.2 Consensus size: 10
8419214 TGATAATAAT
*
8419224 TTATATTATA
1 TTATATTTTA
8419234 TTA-ATTTTGA
1 TTATATTTT-A
*
8419244 TT-TATTGTA
1 TTATATTTTA
8419253 -TATATTTTA
1 TTATATTTTA
8419262 -TATATTTTA
1 TTATATTTTA
*
8419271 TAATATTTTAA
1 TTATATTTT-A
8419282 TTATATTTTA
1 TTATATTTTA
8419292 TT
1 TT
8419294 TTAATTATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
8 1 0.02
9 20 0.40
10 20 0.40
11 9 0.18
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (10 bp):
TTATATTTTA
Found at i:8419295 original size:16 final size:15
Alignment explanation
Indices: 8419274--8419307 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
8419264 TATTTTATAA
8419274 TATTTTAATTATATTT
1 TATTTTAATTAT-TTT
8419290 TATTTTAATTATTTT
1 TATTTTAATTATTTT
8419305 TAT
1 TAT
8419308 ATGTGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTTAATTATTTT
Found at i:8419325 original size:22 final size:22
Alignment explanation
Indices: 8419282--8419325 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8419272 AATATTTTAA
* *
8419282 TTATATTTTATTTTAATTATTT
1 TTATATTGTATTTTAATAATTT
8419304 TTATATGTGTATTTT-ATAATTT
1 TTATAT-TGTATTTTAATAATTT
8419326 ATTCTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (22 bp):
TTATATTGTATTTTAATAATTT
Found at i:8420416 original size:16 final size:17
Alignment explanation
Indices: 8420383--8420414 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
8420373 TCACTTTTAA
8420383 AAATATATAACAATTTT
1 AAATATATAACAATTTT
8420400 AAAT-TATAA-AATTTT
1 AAATATATAACAATTTT
8420415 TATATAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATATATAACAATTTT
Found at i:8429438 original size:23 final size:24
Alignment explanation
Indices: 8429410--8429457 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
8429400 GTTTTGGTGC
*
8429410 TGTTATTTTT-CTGCTGTTTTTGT
1 TGTTATTTTTGCTACTGTTTTTGT
*
8429433 TGTTATTTTTGCTATTGTTTTTGT
1 TGTTATTTTTGCTACTGTTTTTGT
8429457 T
1 T
8429458 ATTTGTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.06, C:0.06, G:0.17, T:0.71
Consensus pattern (24 bp):
TGTTATTTTTGCTACTGTTTTTGT
Found at i:8429456 original size:21 final size:22
Alignment explanation
Indices: 8429410--8429476 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
8429400 GTTTTGGTGC
*
8429410 TGTTATTTTTCTGCTGTTTTTGT
1 TGTTA-TTTTCTGCTATTTTTGT
8429433 TGTTATTTT-TGCTATTGTTT-T
1 TGTTATTTTCTGCTATT-TTTGT
*
8429454 TGTTATTTGTACTGTTATTTTTG
1 TGTTATTT-T-CTGCTATTTTTG
8429477 CTTCTGTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
21 15 0.41
22 8 0.22
23 8 0.22
24 6 0.16
ACGTcount: A:0.09, C:0.06, G:0.16, T:0.69
Consensus pattern (22 bp):
TGTTATTTTCTGCTATTTTTGT
Found at i:8435958 original size:22 final size:22
Alignment explanation
Indices: 8435930--8435984 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
8435920 ATGCTTCCTA
*
8435930 TGTTGCGACATCGAACCCTCCG
1 TGTTGCGACATCGAAACCTCCG
*
8435952 TGTTGCGACATCGAAACCTCTG
1 TGTTGCGACATCGAAACCTCCG
8435974 TGTTGCGACAT
1 TGTTGCGACAT
8435985 ACTAACCAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (22 bp):
TGTTGCGACATCGAAACCTCCG
Found at i:8443430 original size:8 final size:8
Alignment explanation
Indices: 8443417--8443442 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
8443407 TTAGGGGCAT
8443417 TTTGGTAA
1 TTTGGTAA
8443425 TTTGGTAA
1 TTTGGTAA
8443433 TTTGGTAA
1 TTTGGTAA
8443441 TT
1 TT
8443443 AAAATGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (8 bp):
TTTGGTAA
Found at i:8444288 original size:41 final size:41
Alignment explanation
Indices: 8444242--8444603 Score: 197
Period size: 41 Copynumber: 8.6 Consensus size: 41
8444232 CATTGAATGT
*
8444242 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGA-TCAAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTC-AA
* * *
8444283 AAGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTCAA
* **
8444324 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATC-CTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGAATCAC-TGATT-CAA
* * * * * * *
8444368 AAGGGGTTGTTATGTGTTGATTTCCCGTATCATTGATT-AT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTCAA
* *
8444408 AAGGTGGTTGCTAAGTGCTGATTCCACCGGGATC-CT--TTAAA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CC-GAATCACTGATTCAA
* * *
8444449 CATGAGGCGGTTGCTAAGTGCTGATTCCACAGGGATC-CT-A-TGAA
1 -A--AGG-GGTTGCTAAGTGCTGATTCC-C-CGAATCACTGATTCAA
* * * **
8444493 CTTGAGGTGGTTGCTAAGTGCTGATTCCACCGTATC-CTTTATTTGA
1 ---AAGG-GGTTGCTAAGTGCTGATTCC-CCGAATCAC-TGATTCAA
* * * * *
8444539 AAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGATT-AT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTCAA
8444579 AAGGTGGTTGCTAAGTGCTGATTCC
1 AAGG-GGTTGCTAAGTGCTGATTCC
8444604 ATGGGGATCC
Statistics
Matches: 257, Mismatches: 42, Indels: 44
0.75 0.12 0.13
Matches are distributed among these distances:
40 10 0.04
41 84 0.33
42 56 0.22
43 38 0.15
44 66 0.26
45 1 0.00
46 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTCAA
Found at i:8444463 original size:44 final size:44
Alignment explanation
Indices: 8444409--8444695 Score: 345
Period size: 44 Copynumber: 6.6 Consensus size: 44
8444399 ATTGATTATA
*
8444409 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTAAACATG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
* * * *
8444453 AGGCGGTTGCTAAGTGCTGATTCCACAGGGATCCTATGAACTTG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
* **
8444497 AGGTGGTTGCTAAGTGCTGATTCCACC-GTATCCTTT--ATTTG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
* * * * ** *
8444538 AAAGG-GGTTGCTATGTGTTGATTCC-CC-GTAT-CATTGATTATA
1 --AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
**
8444580 AGGTGGTTGCTAAGTGCTGATTCCATGGGGATCCTTTGAACATG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
*
8444624 AGGTGGTTGCTAAGTGTTGATTCCACCGGGATCCTTTGAACATG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
8444668 AGGTGGTTGCTAAGTGCTGATTCCACCG
1 AGGTGGTTGCTAAGTGCTGATTCCACCG
8444696 TGTAACGGTT
Statistics
Matches: 206, Mismatches: 29, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
40 6 0.03
41 28 0.14
42 20 0.10
43 13 0.06
44 139 0.67
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (44 bp):
AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
Found at i:8444572 original size:171 final size:172
Alignment explanation
Indices: 8444325--8444696 Score: 638
Period size: 171 Copynumber: 2.2 Consensus size: 172
8444315 TTGATTCTAA
*
8444325 AGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGTTATGTGTTGATT
1 AGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGTTGATT
*
8444390 TCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTAAACATGAG
66 CCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTAAACATGAG
*
8444455 GCGGTTGCTAAGTGCTGATTCCACAGGGATCCTATGAACTTG
131 GCGGTTGCTAAGTGCTGATTCCACAGGGATCCTATGAACATG
*
8444497 AGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTTATT-TGAAAGGGGTTGCTATGTGTTGATT
1 AGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGTTGATT
** *
8444561 CCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCATGGGGATCCTTTGAACATGAG
66 CCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTAAACATGAG
* * * *
8444626 GTGGTTGCTAAGTGTTGATTCCACCGGGATCCTTTGAACATG
131 GCGGTTGCTAAGTGCTGATTCCACAGGGATCCTATGAACATG
8444668 AGGTGGTTGCTAAGTGCTGATTCCACCGT
1 AGGTGGTTGCTAAGTGCTGATTCCACCGT
8444697 GTAACGGTTA
Statistics
Matches: 189, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
171 151 0.80
172 38 0.20
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (172 bp):
AGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGTTGATT
CCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTAAACATGAG
GCGGTTGCTAAGTGCTGATTCCACAGGGATCCTATGAACATG
Found at i:8444611 original size:127 final size:123
Alignment explanation
Indices: 8444282--8444691 Score: 376
Period size: 127 Copynumber: 3.2 Consensus size: 123
8444272 CACTGATCAA
* *
8444282 AAAGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGATTAT-AAGGTGGTTGCTAAGTGCTGATT
** * * * * * * *
8444347 CCACCGTATCCTTG-ATTGTGAAAGG-GGTTGTTATGTGTTGATTTC-CCGTATCATTGATT
65 CCAAGGGATCCTTGAACT-TG--AGGTGGTTGCTAAGTGTTGATTCCACCGTATCCTTTATT
* * * ** * *
8444406 ATAAGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTAAACATGAGGCGGTTGCTAAGTGCT
1 A-AAGG-GGTTGCTAAGTGCTGATTCC-CC-GAAT-CATTGATTATAAGGTGGTTGCTAAGTGCT
*
8444471 GATTCCACAGGGATCCTATGAACTTGAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTTATT
61 GATTCCA-AGGGATCCT-TGAACTTGAGGTGGTTGCTAAGTGTTGATTCCACCGTATCCTTTA-T
8444536 T
123 T
* * *
8444537 GAAAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATT
1 -AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGATTATAAGGTGGTTGCTAAGTGCTGATT
* * * **
8444602 CCATGGGGATCCTTTGAACATGAGGTGGTTGCTAAGTGTTGATTCCACCGGGATCCTTTGAAC
65 CCA-AGGGATCC-TTGAACTTGAGGTGGTTGCTAAGTGTTGATTCCACC-GTATCCTTT-ATT
*
8444665 ATGAGGTGGTTGCTAAGTGCTGATTCC
1 A-AAGG-GGTTGCTAAGTGCTGATTCC
8444692 ACCGTGTAAC
Statistics
Matches: 231, Mismatches: 38, Indels: 29
0.78 0.13 0.10
Matches are distributed among these distances:
124 1 0.00
125 4 0.02
126 20 0.09
127 73 0.32
128 45 0.19
129 47 0.20
130 32 0.14
131 8 0.03
132 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.34
Consensus pattern (123 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
CAAGGGATCCTTGAACTTGAGGTGGTTGCTAAGTGTTGATTCCACCGTATCCTTTATT
Found at i:8451498 original size:23 final size:22
Alignment explanation
Indices: 8451446--8451498 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
8451436 TCCTTGTCTT
*
8451446 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
8451468 CTTATTTTCTCTTCTTTCTT-TAA
1 TTTCTTTTCT-TTCTTT-TTCTAA
8451491 TTTCTTTT
1 TTTCTTTT
8451499 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 15 0.62
24 2 0.08
ACGTcount: A:0.09, C:0.17, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:8451512 original size:18 final size:18
Alignment explanation
Indices: 8451491--8451530 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8451481 CTTTCTTTAA
* * *
8451491 TTTCTTTTTCACTTTTCT
1 TTTCTGTTTCACATTCCT
8451509 TTTCTGTTTCACATTCCT
1 TTTCTGTTTCACATTCCT
8451527 TTTC
1 TTTC
8451531 ACTCTCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.25, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTCTGTTTCACATTCCT
Found at i:8467270 original size:117 final size:117
Alignment explanation
Indices: 8467064--8467300 Score: 438
Period size: 117 Copynumber: 2.0 Consensus size: 117
8467054 ATTCTTTAAA
*
8467064 GACAGTTATTGCCTATGTTACTCAGACTAGGAATGAATATTGGATCAGATACAAATATTTTGGAT
1 GACAGTTATTGCCTATGTTACTCAGACTAGGAATGAATATCGGATCAGATACAAATATTTTGGAT
* *
8467129 TTTTAATAACTTCTTTTATATCTTTAGAGAATCATACCTTAACATCTATCAT
66 TTTTAATAACTTCTTTTATATCTTTAGAGAACCATACCTTAACATCGATCAT
8467181 GACAGTTATTGCCTATGTTACTCAGACTAGGAATGAATATCGGATCAGATACAAATATTTTGGAT
1 GACAGTTATTGCCTATGTTACTCAGACTAGGAATGAATATCGGATCAGATACAAATATTTTGGAT
*
8467246 TTTTAGTAACTTCTTTTATATCTTTAGAGAACCATACCTTAACATCGATCAT
66 TTTTAATAACTTCTTTTATATCTTTAGAGAACCATACCTTAACATCGATCAT
8467298 GAC
1 GAC
8467301 TATTGGATGA
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (117 bp):
GACAGTTATTGCCTATGTTACTCAGACTAGGAATGAATATCGGATCAGATACAAATATTTTGGAT
TTTTAATAACTTCTTTTATATCTTTAGAGAACCATACCTTAACATCGATCAT
Found at i:8475704 original size:13 final size:13
Alignment explanation
Indices: 8475686--8475723 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
8475676 ACACTCAAAT
8475686 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
8475699 TTCTCAAAAGTAC
1 TTCTCAAAAGCAC
*
8475712 TTCGCAAAAGCA
1 TTCTCAAAAGCA
8475724 ATAAAGAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:8477071 original size:44 final size:44
Alignment explanation
Indices: 8476990--8477073 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
8476980 GAAAATGAAT
* * * *
8476990 AAAATTATAGAAATGTAAAAAGATATATACGTGTGTATATACAC
1 AAAATCATAGAAATGTAAAAAGATATACACATATGTATATACAC
* * *
8477034 AAAATCATAGAAATGTAAATATATATACATATATGTATAT
1 AAAATCATAGAAATGTAAAAAGATATACACATATGTATAT
8477074 CTTTTAAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (44 bp):
AAAATCATAGAAATGTAAAAAGATATACACATATGTATATACAC
Found at i:8477281 original size:13 final size:12
Alignment explanation
Indices: 8477256--8477294 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8477246 GACATATATG
*
8477256 TATATAAAAATA
1 TATATACAAATA
8477268 TATAATACAAATA
1 TAT-ATACAAATA
*
8477281 TATATATAAATA
1 TATATACAAATA
8477293 TA
1 TA
8477295 CATGAGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (12 bp):
TATATACAAATA
Found at i:8478927 original size:22 final size:22
Alignment explanation
Indices: 8478899--8478940 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
8478889 ATGAACTGAT
8478899 CATCGGCCGCCGCACCGGCCAC
1 CATCGGCCGCCGCACCGGCCAC
*
8478921 CATCGGCCGCCGCGCCGGCC
1 CATCGGCCGCCGCACCGGCC
8478941 GCCGTATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.10, C:0.55, G:0.31, T:0.05
Consensus pattern (22 bp):
CATCGGCCGCCGCACCGGCCAC
Found at i:8483998 original size:38 final size:38
Alignment explanation
Indices: 8483946--8484246 Score: 289
Period size: 38 Copynumber: 7.9 Consensus size: 38
8483936 TAGAAATGTA
* * * *
8483946 ATGTTATTCAGGCTATATGCTTAGCAGACTGTGTGCCG
1 ATGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCG
* * * *
8483984 GTGTTATTCGGGCTATGTGCCCAACATGCTGTGTGCCG
1 ATGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCG
* * * * * *
8484022 ATGTTATTCGGGATATGTTCCTTGCAGGATTTGTGTCG
1 ATGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCG
* *
8484060 ATTTTATTCGGGCTATGTGCCTAGTAGGCTGTGTGCCG
1 ATGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCG
* * * * *
8484098 GTGTTATTTGGGTTGTGTGCCTAGCAGGCTTTGTGCCG
1 ATGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCG
* *
8484136 ATGATATTCGGGCTATGTACCTAGCAGGCTGTGTGCCG
1 ATGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCG
* * * * * *
8484174 GTGTTATTCGGGCTCTGTGCCTAGCAGCCTTTATG-CT
1 ATGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCG
* * * *
8484211 AGTGTTATTTGGGCTCTGTGCCTAGCAAGCTTTGTG
1 A-TGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTG
8484247 TCGGTGTATT
Statistics
Matches: 209, Mismatches: 53, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
37 1 0.00
38 208 1.00
ACGTcount: A:0.14, C:0.19, G:0.31, T:0.36
Consensus pattern (38 bp):
ATGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCG
Found at i:8484153 original size:114 final size:114
Alignment explanation
Indices: 8483946--8484246 Score: 341
Period size: 114 Copynumber: 2.6 Consensus size: 114
8483936 TAGAAATGTA
* * * * * * *
8483946 ATGTTATTCAGGCTATATGCTTAGCAGACTGTGTGCCGGTGTTATTCGGGCTATGTGCCCAACAT
1 ATGTTATTCGGGCTATGTGCCTAGCAGACTGTGTGCCGGTGTTATTTGGGCTATGTGCCTAGCAA
* * * * * *
8484011 GCTGTGTGCCGATGTTATTCGGGATATGTTCCTTGCAGGATTTGTGTCG
66 GCTTTGTGCCGATGATATTCGGGATATGTACCTAGCAGGATGTGTGCCG
* * * * * *
8484060 ATTTTATTCGGGCTATGTGCCTAGTAGGCTGTGTGCCGGTGTTATTTGGGTTGTGTGCCTAGCAG
1 ATGTTATTCGGGCTATGTGCCTAGCAGACTGTGTGCCGGTGTTATTTGGGCTATGTGCCTAGCAA
* *
8484125 GCTTTGTGCCGATGATATTCGGGCTATGTACCTAGCAGGCTGTGTGCCG
66 GCTTTGTGCCGATGATATTCGGGATATGTACCTAGCAGGATGTGTGCCG
* * * * * ** *
8484174 GTGTTATTCGGGCTCTGTGCCTAGCAGCCTTTATGCTAGTGTTATTTGGGCTCTGTGCCTAGCAA
1 ATGTTATTCGGGCTATGTGCCTAGCAGACTGTGTGCCGGTGTTATTTGGGCTATGTGCCTAGCAA
8484239 GCTTTGTG
66 GCTTTGTG
8484247 TCGGTGTATT
Statistics
Matches: 155, Mismatches: 32, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
114 155 1.00
ACGTcount: A:0.14, C:0.19, G:0.31, T:0.36
Consensus pattern (114 bp):
ATGTTATTCGGGCTATGTGCCTAGCAGACTGTGTGCCGGTGTTATTTGGGCTATGTGCCTAGCAA
GCTTTGTGCCGATGATATTCGGGATATGTACCTAGCAGGATGTGTGCCG
Found at i:8486267 original size:26 final size:25
Alignment explanation
Indices: 8486236--8486285 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
8486226 AACGAATTTT
*
8486236 GTCAAAATTTTATTGAGTGTAAAATC
1 GTCAAAATTTTATT-AGGGTAAAATC
8486262 GTCAAAATTTTATTAGGGTAAAAT
1 GTCAAAATTTTATTAGGGTAAAAT
8486286 TAGGGTGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (25 bp):
GTCAAAATTTTATTAGGGTAAAATC
Found at i:8495194 original size:14 final size:15
Alignment explanation
Indices: 8495172--8495248 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
8495162 CAACCAAACA
8495172 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
8495186 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
8495201 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
8495221 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
8495235 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
8495249 ACCATAAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:8495213 original size:20 final size:20
Alignment explanation
Indices: 8495188--8495227 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8495178 AATATTTTCC
*
8495188 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
8495208 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
8495228 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:8495233 original size:34 final size:35
Alignment explanation
Indices: 8495176--8495242 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
8495166 CAAACACCAG
*
8495176 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
8495211 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
8495243 TATTTTACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:8495905 original size:19 final size:18
Alignment explanation
Indices: 8495872--8495907 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8495862 AAACCGCCTA
*
8495872 TATAATAAAATTAAAATG
1 TATAAAAAAATTAAAATG
8495890 TATAAAAAATATTAAAAT
1 TATAAAAAA-ATTAAAAT
8495908 AAAACTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
TATAAAAAAATTAAAATG
Found at i:8500485 original size:21 final size:19
Alignment explanation
Indices: 8500443--8500495 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
8500433 ATTTAATTAG
*
8500443 AATATATAAACTAAATTTTA
1 AATATTTAAA-TAAATTTTA
8500463 AATATTTAAATATAATCTTTA
1 AATATTTAAATA-AAT-TTTA
8500484 AATATTTGAAAT
1 AATATTT-AAAT
8500496 TAGTATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 12 0.41
21 11 0.38
22 4 0.14
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (19 bp):
AATATTTAAATAAATTTTA
Found at i:8501200 original size:179 final size:180
Alignment explanation
Indices: 8500890--8501249 Score: 526
Period size: 179 Copynumber: 2.0 Consensus size: 180
8500880 TTTTGAAGAG
* * *
8500890 AAATTTGTGTGATTGTCAAATAAGATGCCCATGTGATTGTGGCATTATGTATTGTTTCCAGCTCG
1 AAATTTATGTGATTGTCAAATAAGATGCCCATATGATTGTAGCATTATGTATTGTTTCCAGCTCG
* ** * * * * *
8500955 CAATTTAAGCCTCTTCATATCTAAATGTCTTTTCTTAAATTATAGACATCTTTCCTTACCAAACT
66 CAATTGAAGCCTCCCCATATCTAAAAGTATTTTCCTAAATTACAGACATCCTTCCTTACCAAACT
*
8501020 CTGGAATCAAAAGGTCTTGTTTCTATGGTAGTAAGATCTTGATTCTTGCA
131 CTAGAATCAAAAGGTCTTGTTTCTATGGTAGTAAGATCTTGATTCTTGCA
**
8501070 AAATTTATGTGATTGTCAAATAAGAT-TTCATATGATTGTAGCATTATGTATTGTTTCCAGCTCG
1 AAATTTATGTGATTGTCAAATAAGATGCCCATATGATTGTAGCATTATGTATTGTTTCCAGCTCG
* ***
8501134 CAATTCGAA-CCTCCCCATATCTAAAAGTATTTTCCTAAATTACAGGCATCCTTCCTTGTTAAAC
66 CAATT-GAAGCCTCCCCATATCTAAAAGTATTTTCCTAAATTACAGACATCCTTCCTTACCAAAC
*
8501198 TCTAGAATCAAAAGGTCTTGTTTCTATGGTCGTAAGATCTTGATTCTTGCA
130 TCTAGAATCAAAAGGTCTTGTTTCTATGGTAGTAAGATCTTGATTCTTGCA
8501249 A
1 A
8501250 CACTTTGCCA
Statistics
Matches: 160, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
179 133 0.83
180 27 0.17
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (180 bp):
AAATTTATGTGATTGTCAAATAAGATGCCCATATGATTGTAGCATTATGTATTGTTTCCAGCTCG
CAATTGAAGCCTCCCCATATCTAAAAGTATTTTCCTAAATTACAGACATCCTTCCTTACCAAACT
CTAGAATCAAAAGGTCTTGTTTCTATGGTAGTAAGATCTTGATTCTTGCA
Found at i:8504988 original size:185 final size:185
Alignment explanation
Indices: 8504673--8505046 Score: 685
Period size: 185 Copynumber: 2.0 Consensus size: 185
8504663 GGAGAAGAAA
8504673 AAGACTTTTCTGATGAAATGATAGAAAAGATTAATAAAAATCATATTTCTAAAAAAGAAATATAT
1 AAGACTTTTCTGATGAAATGATAGAAAAGATTAATAAAAATCATATTTCTAAAAAAGAAATATAT
*
8504738 AAGATCTCTAAGTTTAAAATATGGACTCAGAGACATATAGAAAAAATTAGCGGTAACATAGTCGC
66 AAGATCTCTAAGTTTAAAATATGGACTCAGAGACATATAGAAAAAATTAGCGGTAACACAGTCGC
* *
8504803 TAAGAATACAAAAGGAGGATTAACAGAACTCCCTTTTTTTACCAAAGATAAAATC
131 TAAGAATACAAAAGGAGGATTAACAGAAATCCCTCTTTTTACCAAAGATAAAATC
*
8504858 AAGACTTTTCTGATGAAATGATAGAAAAGATTAATAAAAATCATATTTCTAAAGAAGAAATATAT
1 AAGACTTTTCTGATGAAATGATAGAAAAGATTAATAAAAATCATATTTCTAAAAAAGAAATATAT
8504923 AAGATCTCTAAGTTTAAAATATGGACTCAGAGACATATAGAAAAAATTAGCGGTAACACAGTCGC
66 AAGATCTCTAAGTTTAAAATATGGACTCAGAGACATATAGAAAAAATTAGCGGTAACACAGTCGC
* * *
8504988 TAAGGATATAAGAGGAGGATTAACAGAAATCCCTCTTTTTACCAAAGATAAAATC
131 TAAGAATACAAAAGGAGGATTAACAGAAATCCCTCTTTTTACCAAAGATAAAATC
8505043 AAGA
1 AAGA
8505047 GAAATAGACT
Statistics
Matches: 182, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
185 182 1.00
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.26
Consensus pattern (185 bp):
AAGACTTTTCTGATGAAATGATAGAAAAGATTAATAAAAATCATATTTCTAAAAAAGAAATATAT
AAGATCTCTAAGTTTAAAATATGGACTCAGAGACATATAGAAAAAATTAGCGGTAACACAGTCGC
TAAGAATACAAAAGGAGGATTAACAGAAATCCCTCTTTTTACCAAAGATAAAATC
Found at i:8505601 original size:17 final size:17
Alignment explanation
Indices: 8505581--8505613 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8505571 TAATTATCTT
*
8505581 AATTAAATTATTAAAAA
1 AATTAAAATATTAAAAA
8505598 AATTAAAATATTAAAA
1 AATTAAAATATTAAAA
8505614 TAAGAAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTAAAATATTAAAAA
Found at i:8506338 original size:17 final size:17
Alignment explanation
Indices: 8506316--8506351 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
8506306 ATCATCAAAT
8506316 TATCATTTAGAACTCGC
1 TATCATTTAGAACTCGC
8506333 TATCATTTAGAACTCGC
1 TATCATTTAGAACTCGC
8506350 TA
1 TA
8506352 ATTGAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (17 bp):
TATCATTTAGAACTCGC
Found at i:8506421 original size:31 final size:31
Alignment explanation
Indices: 8506386--8506450 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
8506376 CAATCTAGTG
*
8506386 ATTTAAAT-AAAAGCTTTCGAATAATTTAATA
1 ATTTAAATGAAAA-CTTTCAAATAATTTAATA
* *
8506417 ATTTAAATGAAAACTTTTAAATAATTTGATA
1 ATTTAAATGAAAACTTTCAAATAATTTAATA
8506448 ATT
1 ATT
8506451 ATTTTTGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.42
Consensus pattern (31 bp):
ATTTAAATGAAAACTTTCAAATAATTTAATA
Found at i:8508310 original size:46 final size:46
Alignment explanation
Indices: 8508243--8508334 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
8508233 CGAGTAAAAG
8508243 TAAACCAACTGCCAAACAGAACTCTGACTGCTATTGGATAAATTGT
1 TAAACCAACTGCCAAACAGAACTCTGACTGCTATTGGATAAATTGT
8508289 TAAACCAACTGCCAAACAGAACTCTGACTGCTATTGGATAAATTGT
1 TAAACCAACTGCCAAACAGAACTCTGACTGCTATTGGATAAATTGT
8508335 CATTATAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (46 bp):
TAAACCAACTGCCAAACAGAACTCTGACTGCTATTGGATAAATTGT
Found at i:8513335 original size:17 final size:17
Alignment explanation
Indices: 8513313--8513345 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8513303 GCTTGTTTTT
8513313 GTTTATCAAAAGCATTA
1 GTTTATCAAAAGCATTA
8513330 GTTTATCAAAAGCATT
1 GTTTATCAAAAGCATT
8513346 CAAGGCCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
GTTTATCAAAAGCATTA
Found at i:8519200 original size:15 final size:17
Alignment explanation
Indices: 8519180--8519211 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
8519170 ATTGTCTATA
8519180 TATTTTA-AATA-ATTT
1 TATTTTATAATATATTT
8519195 TATTTTATAATATATTT
1 TATTTTATAATATATTT
8519212 AAATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTTATAATATATTT
Found at i:8519212 original size:26 final size:28
Alignment explanation
Indices: 8519177--8519230 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
8519167 AATATTGTCT
8519177 ATATATTTTAAATAATTTTATTT-TATA
1 ATATATTTTAAATAATTTTATTTATATA
**
8519204 ATATA-TTTAAATTTTTTTATTTATATA
1 ATATATTTTAAATAATTTTATTTATATA
8519231 CTTCTATGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
ATATATTTTAAATAATTTTATTTATATA
Found at i:8520432 original size:3 final size:3
Alignment explanation
Indices: 8520417--8520474 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
8520407 AAAAGGTATT
* * **
8520417 TAA TAA TAT TAA TAA TGA TGC TAA TAA TAA TAA TAA TATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
8520463 TAA -AA -AA TAA TA
1 TAA TAA TAA TAA TA
8520475 GCACATATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 4 0.09
3 40 0.85
4 3 0.06
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8521244 original size:19 final size:18
Alignment explanation
Indices: 8521200--8521246 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
8521190 AATAGTTTCG
*
8521200 AAAGGAAGA-AAAAATAA
1 AAAGGAAAATAAAAATAA
* *
8521217 AGAGAAAAATAAAAATAAA
1 AAAGGAAAATAAAAAT-AA
8521236 AAAGGAAAATA
1 AAAGGAAAATA
8521247 GATCTTATAC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 6 0.26
18 6 0.26
19 11 0.48
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.09
Consensus pattern (18 bp):
AAAGGAAAATAAAAATAA
Found at i:8521895 original size:12 final size:12
Alignment explanation
Indices: 8521880--8521906 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8521870 TACAATTTTT
8521880 TATACATATATA
1 TATACATATATA
8521892 TATACATATATA
1 TATACATATATA
8521904 TAT
1 TAT
8521907 CTTTTACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATACATATATA
Found at i:8521949 original size:12 final size:12
Alignment explanation
Indices: 8521928--8521958 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8521918 TTTTATAATC
*
8521928 TTATTCATTTCT
1 TTATTTATTTCT
8521940 TTATTTATTTCT
1 TTATTTATTTCT
8521952 TTATTTA
1 TTATTTA
8521959 CATTTCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTTATTTCT
Found at i:8524710 original size:42 final size:41
Alignment explanation
Indices: 8524651--8524778 Score: 157
Period size: 42 Copynumber: 3.0 Consensus size: 41
8524641 TAAAAATATC
* * *
8524651 AAGGAAGCGACATGGGAAAGCAACATCCATGTCTAGACAAAA
1 AAGGAAGCAACTTGGGAAAGCAACATCCAAGT-TAGACAAAA
* *
8524693 AAGGAAGCAACTTGGGAAAACAATATCCAAGTTAGACAAAAA
1 AAGGAAGCAACTTGGGAAAGCAACATCCAAGTTAGAC-AAAA
* * *
8524735 AAGAAAACAACTTGAGAAAGCAACATCCAAGTTTAGACAAAA
1 AAGGAAGCAACTTGGGAAAGCAACATCCAAG-TTAGACAAAA
8524777 AA
1 AA
8524779 AAAAGTTGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 5 0.07
42 63 0.85
43 6 0.08
ACGTcount: A:0.52, C:0.16, G:0.19, T:0.13
Consensus pattern (41 bp):
AAGGAAGCAACTTGGGAAAGCAACATCCAAGTTAGACAAAA
Found at i:8529291 original size:16 final size:16
Alignment explanation
Indices: 8529270--8529301 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8529260 CTAAAAAATG
8529270 AGCTTTAGCAGCGTTT
1 AGCTTTAGCAGCGTTT
*
8529286 AGCTTTAGCGGCGTTT
1 AGCTTTAGCAGCGTTT
8529302 CTAAGAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.38
Consensus pattern (16 bp):
AGCTTTAGCAGCGTTT
Found at i:8529538 original size:83 final size:82
Alignment explanation
Indices: 8529451--8529647 Score: 193
Period size: 82 Copynumber: 2.4 Consensus size: 82
8529441 AAGTATTCGT
* * * *
8529451 CGCTAATGGTCGGGGGTTTTAGTGGCGTTTTT-AATCAACCGCCGCTAACGTTAAGGTATTTAGC
1 CGCTAATGGT-AGGGGTTTTAGTGGCGTTTTTAAAT-AACCACCGCTAAAGTTAAGATATTTAGC
8529515 GGCATTTTCTTT-GAAGCAC
64 GGCATTTT-TTTAGAAGCAC
* * ** * *
8529534 CGCTAATGATTGGTCTTTTAGCT-GCGTTTTTAAATAAGCACCGCTAAAGTTAAGATTTTTAGCG
1 CGCTAATGGTAGGGGTTTTAG-TGGCGTTTTTAAATAACCACCGCTAAAGTTAAGATATTTAGCG
* *
8529598 GCGTTTTTTTGAGAAGCGC
65 GCATTTTTTT-AGAAGCAC
* * *
8529617 CGCTAATGTTAGGGGTTTTAGCGGTGTTTTT
1 CGCTAATGGTAGGGGTTTTAGTGGCGTTTTT
8529648 GTTGAAGCGC
Statistics
Matches: 92, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
81 3 0.03
82 46 0.50
83 43 0.47
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (82 bp):
CGCTAATGGTAGGGGTTTTAGTGGCGTTTTTAAATAACCACCGCTAAAGTTAAGATATTTAGCGG
CATTTTTTTAGAAGCAC
Found at i:8529565 original size:82 final size:82
Alignment explanation
Indices: 8529467--8529624 Score: 196
Period size: 82 Copynumber: 1.9 Consensus size: 82
8529457 TGGTCGGGGG
* * *
8529467 TTTTAGTGGCGTTTTT-AATCAACCGCCGCTAACGTTAAGGTATTTAGCGGCATTTTCTTT-GAA
1 TTTTAGTGGCGTTTTTAAAT-AACCACCGCTAAAGTTAAGATATTTAGCGGCATTTT-TTTAGAA
8529530 GCACCGCTAATGATTGGTC
64 GCACCGCTAATGATTGGTC
* * *
8529549 TTTTAGCT-GCGTTTTTAAATAAGCACCGCTAAAGTTAAGATTTTTAGCGGCGTTTTTTTGAGAA
1 TTTTAG-TGGCGTTTTTAAATAACCACCGCTAAAGTTAAGATATTTAGCGGCATTTTTTT-AGAA
*
8529613 GCGCCGCTAATG
64 GCACCGCTAATG
8529625 TTAGGGGTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
81 3 0.05
82 44 0.68
83 18 0.28
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (82 bp):
TTTTAGTGGCGTTTTTAAATAACCACCGCTAAAGTTAAGATATTTAGCGGCATTTTTTTAGAAGC
ACCGCTAATGATTGGTC
Found at i:8529621 original size:42 final size:41
Alignment explanation
Indices: 8529466--8529660 Score: 112
Period size: 41 Copynumber: 4.7 Consensus size: 41
8529456 ATGGTCGGGG
* ** * * *
8529466 GTTTTAGTGGCGTTTTTAATCAACCGCCGCTAACGTTAAG-
1 GTTTTAGCGGCGTTTTTGTTGAAGCGCCGCTAAAGTTAAGA
* * * * *
8529506 GTATTTAGCGGCATTTTCT-TTGAAGCACCGCTAATGATT-GGT
1 GT-TTTAGCGGCGTTTT-TGTTGAAGCGCCGCTAAAG-TTAAGA
* * ** *
8529548 CTTTTAGCTGCGTTTTTAAAT-AAGCACCGCTAAAGTTAAGA
1 GTTTTAGCGGCGTTTTT-GTTGAAGCGCCGCTAAAGTTAAGA
* * * *
8529589 TTTTTAGCGGCGTTTTT-TTGAGAAGCGCCGCTAATGTTAGGG
1 GTTTTAGCGGCGTTTTTGTT--GAAGCGCCGCTAAAGTTAAGA
*
8529631 GTTTTAGCGGTGTTTTTGTTGAAGCGCCGC
1 GTTTTAGCGGCGTTTTTGTTGAAGCGCCGC
8529661 AAAAAATATT
Statistics
Matches: 120, Mismatches: 24, Indels: 21
0.73 0.15 0.13
Matches are distributed among these distances:
39 1 0.01
40 5 0.04
41 76 0.63
42 36 0.30
43 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (41 bp):
GTTTTAGCGGCGTTTTTGTTGAAGCGCCGCTAAAGTTAAGA
Found at i:8529794 original size:24 final size:23
Alignment explanation
Indices: 8529749--8529800 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
8529739 AATATTCAGA
8529749 AAAAT-AACACATAGAAATAATTT
1 AAAATAAACACATAGAAATAA-TT
*
8529772 AAAATAAATCACATGGAAA-AATT
1 AAAATAAA-CACATAGAAATAATT
8529795 AAAATA
1 AAAATA
8529801 CTATTATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 13 0.50
24 4 0.15
25 9 0.35
ACGTcount: A:0.63, C:0.08, G:0.06, T:0.23
Consensus pattern (23 bp):
AAAATAAACACATAGAAATAATT
Found at i:8530613 original size:7 final size:7
Alignment explanation
Indices: 8530601--8530702 Score: 78
Period size: 7 Copynumber: 13.7 Consensus size: 7
8530591 GGATTAAGGT
8530601 TTAGGGG
1 TTAGGGG
8530608 TTAGGGG
1 TTAGGGG
*
8530615 TTAGGGAT
1 TTAGGG-G
8530623 TTAGGGG
1 TTAGGGG
8530630 TTAGGGG
1 TTAGGGG
*
8530637 TTAGGAG
1 TTAGGGG
*
8530644 TTAGGGAT
1 TTAGGG-G
*
8530652 TTAAGGG
1 TTAGGGG
*
8530659 TTAAGTGGAT
1 TT-AG-GG-G
*
8530669 TTAAGGG
1 TTAGGGG
8530676 TTAGGGG
1 TTAGGGG
*
8530683 TTAGGGAT
1 TTAGGG-G
*
8530691 TTAGGGT
1 TTAGGGG
8530698 TTAGG
1 TTAGG
8530703 ATGTCAATGG
Statistics
Matches: 76, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
7 51 0.67
8 20 0.26
9 3 0.04
10 2 0.03
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:8530626 original size:22 final size:22
Alignment explanation
Indices: 8530600--8530702 Score: 127
Period size: 22 Copynumber: 4.6 Consensus size: 22
8530590 GGGATTAAGG
8530600 TTTAGGGGTTAGGGGTTAGGGA
1 TTTAGGGGTTAGGGGTTAGGGA
8530622 TTTAGGGGTTAGGGGTTA-GGA
1 TTTAGGGGTTAGGGGTTAGGGA
* * *
8530643 GTTAGGGATTTAAGGGTTAAGTGGA
1 TTTAGGG-GTTAGGGGTT-AG-GGA
*
8530668 TTTAAGGGTTAGGGGTTAGGGA
1 TTTAGGGGTTAGGGGTTAGGGA
*
8530690 TTTAGGGTTTAGG
1 TTTAGGGGTTAGG
8530703 ATGTCAATGG
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
21 9 0.13
22 40 0.59
23 3 0.04
24 8 0.12
25 8 0.12
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (22 bp):
TTTAGGGGTTAGGGGTTAGGGA
Found at i:8530640 original size:29 final size:29
Alignment explanation
Indices: 8530584--8530661 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
8530574 GTATGGATTA
* *
8530584 GGGTTTGGGA-TTAAGGTTTAGGGGTTAG
1 GGGTTAGGGATTTAAGGGTTAGGGGTTAG
*
8530612 GGGTTAGGGATTTAGGGGTTAGGGGTTAG
1 GGGTTAGGGATTTAAGGGTTAGGGGTTAG
*
8530641 GAGTTAGGGATTTAAGGGTTA
1 GGGTTAGGGATTTAAGGGTTA
8530662 AGTGGATTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 9 0.20
29 35 0.80
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (29 bp):
GGGTTAGGGATTTAAGGGTTAGGGGTTAG
Found at i:8530677 original size:46 final size:44
Alignment explanation
Indices: 8530601--8530700 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 44
8530591 GGATTAAGGT
* * *
8530601 TTAGGGGTTAGGGGTTAGGGATTTAGGGGTTAGGGGTTA-GGAG
1 TTAGGGTTTAAGGGTTAGGGATTTAAGGGTTAGGGGTTAGGGAG
*
8530644 TTAGGGATTTAAGGGTTAAGTGGATTTAAGGGTTAGGGGTTAGGGAT
1 TTAGGG-TTTAAGGGTT-AG-GGATTTAAGGGTTAGGGGTTAGGGAG
8530691 TTAGGGTTTA
1 TTAGGGTTTA
8530701 GGATGTCAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
43 6 0.12
44 8 0.16
45 2 0.04
46 24 0.49
47 9 0.18
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.34
Consensus pattern (44 bp):
TTAGGGTTTAAGGGTTAGGGATTTAAGGGTTAGGGGTTAGGGAG
Found at i:8532615 original size:12 final size:12
Alignment explanation
Indices: 8532598--8532622 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8532588 AGTTTGAAAC
8532598 TGTTCATAATTT
1 TGTTCATAATTT
8532610 TGTTCATAATTT
1 TGTTCATAATTT
8532622 T
1 T
8532623 CACTATCCTG
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:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TGTTCATAATTT
Found at i:8532677 original size:17 final size:17
Alignment explanation
Indices: 8532651--8532689 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
8532641 ATAGAAAACG
8532651 ATAA-AATGTTATTA-GA
1 ATAATAATGTTA-TACGA
8532667 ATAATAATGTTATACGA
1 ATAATAATGTTATACGA
8532684 ATAATA
1 ATAATA
8532690 TTATGAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (17 bp):
ATAATAATGTTATACGA
Found at i:8533101 original size:12 final size:12
Alignment explanation
Indices: 8533057--8533107 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
8533047 CTCGTTGCAA
8533057 AATTTTGTTCAT
1 AATTTTGTTCAT
*
8533069 AA-TTTGTTTAT
1 AATTTTGTTCAT
**
8533080 -ATCCTGTTCAT
1 AATTTTGTTCAT
*
8533091 AATTTTGTTCAC
1 AATTTTGTTCAT
8533103 AATTT
1 AATTT
8533108 CAATGGGTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 1 0.03
11 14 0.47
12 15 0.50
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.55
Consensus pattern (12 bp):
AATTTTGTTCAT
Found at i:8534919 original size:66 final size:66
Alignment explanation
Indices: 8534826--8534997 Score: 229
Period size: 66 Copynumber: 2.6 Consensus size: 66
8534816 AGCAAATTAC
* * *
8534826 ACAACTTAAAGCGGAGGCAGTATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAA
1 ACAACTTAAAGCAGATGCAGTAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAA
8534890 CT
65 CT
* * *
8534892 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGC
1 ACAACTTAAAGCAGATGCAGTAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAAC
8534957 T
66 T
* * * * *
8534958 GCAGCTTAAAACAGATGCGGTAGCGAGAGAAGCAGAGGTT
1 ACAACTTAAAGCAGATGCAGTAGCGAGAGAAGCTGAGGTT
8534998 GCAGCGAGGG
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 89 0.96
67 4 0.04
ACGTcount: A:0.40, C:0.17, G:0.27, T:0.16
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAGTAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAAC
T
Found at i:8535003 original size:21 final size:21
Alignment explanation
Indices: 8534979--8535036 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
8534969 CAGATGCGGT
* *
8534979 AGCGAGAGAAGCAGAGGTTGC
1 AGCGAGGGAAGCAGAGGCTGC
*
8535000 AGCGAGGGAAGTAGAGGCTGC
1 AGCGAGGGAAGCAGAGGCTGC
*
8535021 AGCAAGGGAAGCAGAG
1 AGCGAGGGAAGCAGAG
8535037 CAACGTAGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.14, G:0.45, T:0.07
Consensus pattern (21 bp):
AGCGAGGGAAGCAGAGGCTGC
Found at i:8535258 original size:23 final size:21
Alignment explanation
Indices: 8535216--8535258 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8535206 TATTGATATT
* *
8535216 TTTTATATATTATTCGTTTAA
1 TTTTAAATATTATTAGTTTAA
8535237 TTTTAAATATTATATAGATTTA
1 TTTTAAATATTAT-TAG-TTTA
8535259 TTTCTTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 2 0.11
23 4 0.22
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (21 bp):
TTTTAAATATTATTAGTTTAA
Found at i:8536002 original size:43 final size:43
Alignment explanation
Indices: 8535949--8536325 Score: 296
Period size: 43 Copynumber: 8.8 Consensus size: 43
8535939 CCGGATCAAA
* * * *
8535949 CGCCACTAAAGGTCATGGTCTTTTGCAGCGTTTGTGGGAAAAG
1 CGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTTGGAAAAG
* * *
8535992 CGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGTTTGGAAAA-
1 CGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTG-TTGGAAAAG
* * ** *
8536035 CGCCGCTAAATGTTATTTTCTTTAGCGGTGTTTGTTGGAAAAG
1 CGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTTGGAAAAG
* * ** * * *
8536078 CGCCGTTAAAAGTTGTTGTCTTTAGCGGCGTTTGTCGGATAAG
1 CGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTTGGAAAAG
* *
8536121 CGCCACTAAAGGTCATGGTCTTTAACGGCGTTTGTTGGATAAA-
1 CGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTTGGA-AAAG
* ** * ** *
8536164 TGTTGCTAAAGGTCATGGTCTTTTGCGGTATTTGTTAGAAAAG
1 CGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTTGGAAAAG
* *
8536207 CACCGTTAAAGGTCATGGTCTTTAGCGGCGTTTG-TGGAAAAAG
1 CGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTTGG-AAAAG
* * ** ** * *
8536250 TGCGGCTAAAGACCATGACCTTTAGCAGCATTTG-T-GATGAAAG
1 CGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTTGGA--AAAG
* * * *
8536293 CGTCACTAAAGGTCTTGGTTTTTAGCGGCGTTT
1 CGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTT
8536326 ATTTCTAAAA
Statistics
Matches: 258, Mismatches: 69, Indels: 14
0.76 0.20 0.04
Matches are distributed among these distances:
41 1 0.00
42 14 0.05
43 234 0.91
44 9 0.03
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (43 bp):
CGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTTGGAAAAG
Found at i:8536284 original size:129 final size:127
Alignment explanation
Indices: 8535955--8536320 Score: 347
Period size: 129 Copynumber: 2.8 Consensus size: 127
8535945 CAAACGCCAC
* * * *
8535955 TAAAGGTCATGGTCTTTTGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGATTAGGGTCTTTAGCGG
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGG
* * ** * * *
8536020 CGTTTGTTTGGAAAACGCCGCTAAATGTTATTTTCTTTAGCGGTGTTTGTTGGAAAAGCGCCGT
65 CGTTTG-TTGGAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGTATTTGTTAGAAAAGCACCGT
* ** * * * * *
8536084 TAAAAGTTGTTGTCTTTAGCGGCGTTTGTCGGATAAGCGCCACTAAAGGTCATGGTCTTTAACGG
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGG
* ** *
8536149 CGTTTGTTGGATAAATGTTGCTAAAGGTCATGGTCTTTTGCGGTATTTGTTAGAAAAGCACCGT
65 CGTTTGTTGGA-AAACGCCGCTAAAGGTCATGGTCTTTAGCGGTATTTGTTAGAAAAGCACCGT
* * * ** *
8536213 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAAGTGCGGCTAAAGACCATGACCTTTAGCAG
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGATCATGGTCTTTAGCGG
* * * * * *
8536278 CATTTG-TGATGAAAGCGTCACTAAAGGTCTTGGTTTTTAGCGG
65 CGTTTGTTG--GAAAACGCCGCTAAAGGTCATGGTCTTTAGCGG
8536321 CGTTTATTTC
Statistics
Matches: 187, Mismatches: 46, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
128 9 0.05
129 176 0.94
130 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (127 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGC
GTTTGTTGGAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGTATTTGTTAGAAAAGCACCGT
Done.