Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold186
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: 1043505
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.30
Warning! 56388 characters in sequence are not A, C, G, or T
File 5 of 6
Found at i:599310 original size:7 final size:7
Alignment explanation
Indices: 599295--599333 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
599285 AAGCAGGTTC
599295 TTTTCTT
1 TTTTCTT
*
599302 TTCTCTTT
1 TTTTC-TT
599310 TTTTCTT
1 TTTTCTT
599317 TTTTCTT
1 TTTTCTT
599324 TTTT-TT
1 TTTTCTT
599330 TTTT
1 TTTT
599334 GGTTTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 6 0.21
7 17 0.59
8 6 0.21
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTCTT
Found at i:599333 original size:13 final size:13
Alignment explanation
Indices: 599308--599362 Score: 56
Period size: 14 Copynumber: 4.0 Consensus size: 13
599298 TCTTTTCTCT
*
599308 TTTTTTCTTTTTTC
1 TTTTTT-TTTTTTG
599322 TTTTTTTTTTTTGG
1 TTTTTTTTTTTT-G
*
599336 TTTTTTTGTTTTG
1 TTTTTTTTTTTTG
*
599349 TTTTGTTGTTTTTG
1 TTTT-TTTTTTTTG
599363 AAAAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
13 11 0.31
14 24 0.69
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:599333 original size:15 final size:15
Alignment explanation
Indices: 599295--599332 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
599285 AAGCAGGTTC
599295 TTTTCTTTTCTCTTT
1 TTTTCTTTTCTCTTT
*
599310 TTTTCTTTTTTCTTT
1 TTTTCTTTTCTCTTT
599325 TTTT-TTTT
1 TTTTCTTTT
599333 TGGTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTCTTTTCTCTTT
Found at i:599340 original size:22 final size:20
Alignment explanation
Indices: 599307--599361 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
599297 TTCTTTTCTC
*
599307 TTTTTTTCTTTTTTCTTTTTT
1 TTTTTTTGTTTTTT-TTTTTT
* *
599328 TTTTTTGGTTTTTTTGTTTTG
1 TTTTTTTGTTTTTTT-TTTTT
*
599349 TTTTGTTGTTTTT
1 TTTTTTTGTTTTT
599362 GAAAAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (20 bp):
TTTTTTTGTTTTTTTTTTTT
Found at i:609631 original size:4 final size:4
Alignment explanation
Indices: 609622--609652 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
609612 AAACAAAACA
609622 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
609653 CACCTCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:612060 original size:78 final size:79
Alignment explanation
Indices: 611676--612177 Score: 586
Period size: 79 Copynumber: 6.4 Consensus size: 79
611666 AGTTTAATAC
* ** * **
611676 TTTGGAGATAAAATC-GAGGTTGGAGTATCTTCTCAGAAATAACATGGTCAGAGTATCCCCGATT
1 TTTGGAAATAAAATCAG-GGTTGGAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCCGATT
*
611740 GTGAAAAATCGATGT
65 GTGAAAAATCAATGT
* * * *
611755 TTTGGAAATAAAATTAGGGTTGGAGTATCCCCTC-GAAAATAACAGGGTCGGAGTATCCCTGATT
1 TTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCAG-AAATAACAAGGTTGGAGTATCCCCGATT
* *
611819 GTGGAAAATCGATGT
65 GTGAAAAATCAATGT
* * ** * *
611834 TTTGGAAATAAAACCAAGGTTAAAGTATCCCCTCAGAAATAACAAGGTTGGAGTACCCCCGATTA
1 TTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCCGATTG
* *
611899 TGGAAAATCGATGT
66 TGAAAAATCAATGT
** * *
611913 TTTAAAAATAAAATC-GAGGTTGGAGTATCTCCTCAGAAATAACAAGGTTAGAGTATCCCCGATT
1 TTTGGAAATAAAATCAG-GGTTGGAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCCGATT
*
611977 GTGAAAAATTAATGT
65 GTGAAAAATCAATGT
* *
611992 TTTGAAAATAAAATCAGGGTTGGAGTATCCCCTCAGAAATAAC-AGGTTGGAGTATCCCCGATTA
1 TTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCCGATTG
*
612056 TGAAAAATCAGTGT
66 TGAAAAATCAATGT
* * * * *
612070 TTTGGAAATAACA-CCGAGGTTGGAG-ATCCCTTCAGAAATAACGAGGTTGGTGTATCCCCGATT
1 TTTGGAAATAAAATCAG-GGTTGGAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCCGATT
* *
612133 GTGAAAAATTAGTGT
65 GTGAAAAATCAATGT
612148 TTTGGAAATAAAA-CAAGGGTTGGAGTATCC
1 TTTGGAAATAAAATC-AGGGTTGGAGTATCC
612178 TCGATTGTGA
Statistics
Matches: 368, Mismatches: 46, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
77 18 0.05
78 104 0.28
79 243 0.66
80 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (79 bp):
TTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCCGATTG
TGAAAAATCAATGT
Found at i:612177 original size:51 final size:50
Alignment explanation
Indices: 612113--612229 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 50
612103 AGAAATAACG
*
612113 AGGTTGGTGTATCCCCGATTGTGAAAAATT-AGTGTTTTGGAAATAAAACA
1 AGGTTGGAGTATCCCCGATTGTGAAAAATTGA-TGTTTTGGAAATAAAACA
* *
612163 AGGGTTGGAGTATCCTCGATTGTGAAAAATTGATGTTTTGGAAATAAAACT
1 A-GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAACA
612214 AGGTTGGAGTATCCCC
1 AGGTTGGAGTATCCCC
612230 TCAAAAATAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
50 15 0.25
51 45 0.74
52 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (50 bp):
AGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAACA
Found at i:612200 original size:129 final size:128
Alignment explanation
Indices: 612035--612304 Score: 373
Period size: 129 Copynumber: 2.1 Consensus size: 128
612025 CAGAAATAAC
*
612035 AGGTTGGAGTATCCCCGATTATGAAAAATCAGTGTTTTGGAAATAACACCGAGGTTGGAG-ATCC
1 AGGTTGGAGTATCCCCGATTATGAAAAATCAGTGTTTTGGAAATAA-AACGAGGTTGGAGTATCC
* * * * *
612099 CTTCAGAAATAACGAGGTTGGTGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACA
65 CCTCAAAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACA
* * * *
612163 AGGGTTGGAGTATCCTCGATTGTGAAAAAT-TGATGTTTTGGAAATAAAACTAGGTTGGAGTATC
1 A-GGTTGGAGTATCCCCGATTATGAAAAATCAG-TGTTTTGGAAATAAAACGAGGTTGGAGTATC
* * * *
612227 CCCTCAAAAATAATGGGGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACT
64 CCCTCAAAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACA
612292 AGGTTGGAGTATC
1 AGGTTGGAGTATC
612305 GCCTCGAAAA
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
128 25 0.20
129 100 0.80
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (128 bp):
AGGTTGGAGTATCCCCGATTATGAAAAATCAGTGTTTTGGAAATAAAACGAGGTTGGAGTATCCC
CTCAAAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACA
Found at i:612293 original size:78 final size:78
Alignment explanation
Indices: 612164--612315 Score: 250
Period size: 78 Copynumber: 1.9 Consensus size: 78
612154 AATAAAACAA
* * *
612164 GGGTTGGAGTATCCTCGATTGTGAAAAATTGATGTTTTGGAAATAAAACTAGGTTGGAGTATCCC
1 GGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACTAGGTTGGAGTATCCC
612229 CTCAAAAATAATG
66 CTCAAAAATAATG
* *
612242 GGGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACTAGGTTGGAGTATCGC
1 GGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACTAGGTTGGAGTATCCC
*
612307 CTCGAAAAT
66 CTCAAAAAT
612316 GAAAACATGA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (78 bp):
GGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACTAGGTTGGAGTATCCC
CTCAAAAATAATG
Found at i:614629 original size:50 final size:50
Alignment explanation
Indices: 614509--614694 Score: 232
Period size: 50 Copynumber: 3.7 Consensus size: 50
614499 AAAAATGCCT
*
614509 GAATGTATCGATA-TATTGAGAA-ATGTATCGATACATCTGGGTTAAAACCTA
1 GAATGTATCGATACGA-TGA-AAGATGTATCGATACATCTGGG-TAAAACCTA
* * * * *
614560 GAATATATCGATACAATGAAAGATTTATCGATACATTTGGGTGAAACCTA
1 GAATGTATCGATACGATGAAAGATGTATCGATACATCTGGGTAAAACCTA
* * * *
614610 GAATGCATCGATATGATGAAGGATGTATCGATACATCTAGGTAAAACCTA
1 GAATGTATCGATACGATGAAAGATGTATCGATACATCTGGGTAAAACCTA
*
614660 GAATGTATCGATACGATGAAGGATGTATCGATACA
1 GAATGTATCGATACGATGAAAGATGTATCGATACA
614695 AATTGTGAAA
Statistics
Matches: 117, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
50 84 0.72
51 32 0.27
52 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.28
Consensus pattern (50 bp):
GAATGTATCGATACGATGAAAGATGTATCGATACATCTGGGTAAAACCTA
Found at i:619492 original size:15 final size:15
Alignment explanation
Indices: 619472--619502 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
619462 TAAAAATGTC
*
619472 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
619487 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
619502 C
1 C
619503 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:621598 original size:13 final size:13
Alignment explanation
Indices: 621580--621605 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
621570 ACATTTTTCC
621580 TTGTATCGATACA
1 TTGTATCGATACA
621593 TTGTATCGATACA
1 TTGTATCGATACA
621606 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:621769 original size:20 final size:20
Alignment explanation
Indices: 621726--621771 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
621716 AAATCTTTTG
621726 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
621747 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
621767 CAAAA
1 CAAAA
621772 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:624176 original size:13 final size:13
Alignment explanation
Indices: 624158--624183 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
624148 TACAGCAAGT
624158 ATGTATCGATACA
1 ATGTATCGATACA
624171 ATGTATCGATACA
1 ATGTATCGATACA
624184 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:626073 original size:18 final size:19
Alignment explanation
Indices: 626050--626085 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
626040 GTGTGAGTGG
*
626050 TGAGAG-AAGAATAAAAAA
1 TGAGAGCAAAAATAAAAAA
626068 TGAGAGCAAAAATAAAAA
1 TGAGAGCAAAAATAAAAA
626086 GAGAGCGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.67, C:0.03, G:0.19, T:0.11
Consensus pattern (19 bp):
TGAGAGCAAAAATAAAAAA
Found at i:628751 original size:9 final size:9
Alignment explanation
Indices: 628737--628775 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
628727 CACTTTCACA
628737 TTTAGATAT
1 TTTAGATAT
628746 TTTAGATATT
1 TTTAGATA-T
628756 TTTAGATAT
1 TTTAGATAT
*
628765 TCTAGAATAT
1 TTTAG-ATAT
628775 T
1 T
628776 CATTTTCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 13 0.48
10 14 0.52
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (9 bp):
TTTAGATAT
Found at i:628761 original size:19 final size:20
Alignment explanation
Indices: 628737--628775 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
628727 CACTTTCACA
*
628737 TTTAGATATTTTAG-ATATT
1 TTTAGATATTCTAGAATATT
628756 TTTAGATATTCTAGAATATT
1 TTTAGATATTCTAGAATATT
628776 CATTTTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (20 bp):
TTTAGATATTCTAGAATATT
Found at i:629020 original size:21 final size:20
Alignment explanation
Indices: 628987--629026 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
628977 TAAGTTAGGC
*
628987 TTAAGTTAGATTTGATGATA
1 TTAAGATAGATTTGATGATA
629007 TTAAGATATGATTTGATGAT
1 TTAAGATA-GATTTGATGAT
629027 TAATTAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (20 bp):
TTAAGATAGATTTGATGATA
Found at i:630109 original size:167 final size:165
Alignment explanation
Indices: 629936--630496 Score: 451
Period size: 167 Copynumber: 3.4 Consensus size: 165
629926 TTTCTTCTTT
* **
629936 GTAAATTTTTTCGAGAGGA-TTTCATGTGTTTAAAATTTTTAAAATTCATCAATTTATTATTATT
1 GTAAATTTTTTCGAG-GGATTTTCTTGTGTTT-AAATTTTTAAAATTCAT-AAAATATTATTATT
* * * *
630000 TAATTGATATTAAATCATTTTTCAAAAATTCATTCATTTTCATGGGTTTTTGAT-TTTTTTCCTT
63 TAATTCACATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTT-ATATTTTTTCCTT
* **
630064 GAAATTTCCTTATTTCC-AAAAAAT-GAAGTTTTCTGCTCC
127 GAAATCT-CTTATTTCCTAAAAAATCG-AGTTTTCTAATCC
* * *
630103 GTAAATTTTTTTGAGGGGATTTTTCTTG-GTTTTTAGTTTTTAAAATTCATAAAATATTATTATT
1 GTAAATTTTTTCGA-GGGA-TTTTCTTGTG-TTTAAATTTTTAAAATTCATAAAATATTATTATT
** *
630167 TAATTCACATTAAATCAGTTTTGGAAAATTCATTCATTTTCATGAGTTTTTTTATTTTTTCCTTG
63 TAATTCACATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTATATTTTTTCCTTG
* *
630232 AAATCTCTTTTTTCCTGAAAAATCGAGTTTTCTAATCC
128 AAATCTCTTATTTCCTAAAAAATCGAGTTTTCTAATCC
* * ** * ** * * * **
630270 ATAAATATTTTCTTGGGATTTTCTTTTGTTTAAATTTTTAAAATGT-ATCTAATAATGTCATGGA
1 GTAAATTTTTTCGAGGGATTTTCTTGTGTTTAAATTTTTAAAAT-TCATAAAATATTATTATTTA
* * * * *** *
630334 ATTCCCATTAAAAT-AGTTTTGAAAAATTAATTTATTTTCATGAG-TTTCGGA-TTTTTCTTTGA
65 ATTCACATT-AAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTATATTTTTTCCTTGA
* *** * ** *
630396 AATCTCTTTTTTTCC-AAGTGACCGAGTTTTCTTCTTC
129 AATCTC-TTATTTCCTAAAAAATCGAGTTTTCTAATCC
** ** *
630433 GTAAATTTTTTCGAGAGGAGTTTTCTCAT-TTTAAAATTTTTAAAATTCATCTAATATTGTTATT
1 GTAAATTTTTTCGAG-GGA-TTTTCTTGTGTTT-AAATTTTTAAAATTCATAAAATATTATTATT
630497 AAACCCCCCA
Statistics
Matches: 321, Mismatches: 58, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
163 41 0.13
164 19 0.06
165 100 0.31
166 19 0.06
167 115 0.36
168 18 0.06
169 9 0.03
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (165 bp):
GTAAATTTTTTCGAGGGATTTTCTTGTGTTTAAATTTTTAAAATTCATAAAATATTATTATTTAA
TTCACATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTATATTTTTTCCTTGAAA
TCTCTTATTTCCTAAAAAATCGAGTTTTCTAATCC
Found at i:630932 original size:10 final size:10
Alignment explanation
Indices: 630894--630932 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
630884 AAGAAAGGTA
630894 AGAAAAAAAT
1 AGAAAAAAAT
*
630904 AGAAGAAAAT
1 AGAAAAAAAT
*
630914 AGGAAAAAAT
1 AGAAAAAAAT
630924 AGAAAAAAA
1 AGAAAAAAA
630933 CTAAACTAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (10 bp):
AGAAAAAAAT
Found at i:631149 original size:19 final size:20
Alignment explanation
Indices: 631122--631159 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
631112 GTGTTTGCAA
631122 CATG-ATTTTATTCCATGAT
1 CATGTATTTTATTCCATGAT
* *
631141 CATGTTTTTTTTTCCATGA
1 CATGTATTTTATTCCATGA
631160 ATAAGCTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.21, C:0.16, G:0.11, T:0.53
Consensus pattern (20 bp):
CATGTATTTTATTCCATGAT
Found at i:632171 original size:12 final size:12
Alignment explanation
Indices: 632154--632179 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
632144 CAAAAAATAA
632154 AAAATAATAAAT
1 AAAATAATAAAT
632166 AAAATAATAAAT
1 AAAATAATAAAT
632178 AA
1 AA
632180 TTTTTTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:632849 original size:153 final size:156
Alignment explanation
Indices: 632545--632926 Score: 493
Period size: 154 Copynumber: 2.5 Consensus size: 156
632535 CTTTTATCAT
* * * * * * ** *
632545 CCTTTTTAAGTCTTTTAAGGGTATCGGGTACTTCTACATCGAAGATGTCCCCTACAAGCATTTTC
1 CCTTTTTAAGTCCTTTAGGGGTATCAGGTACTTCTACGTCGAAGGTATCCCCTAGGAGAATTTTC
* * * * *
632610 ATAA-TTTTCTAGAACCAACTCTTAGGTTGTCACCGGGTCTGCTTTTATGCCAAAGGTGGGTATT
66 GTAATTTTTCTAGAACCAACTCTTAAGTTGTCACCGGGCCTGCTTTTAAGCCAAAGGTGGGCATT
**
632674 TAGGATAGGTTCATCCTGTCTT-AAC
131 TAGGATAGGTTCATCCCATCTTAAAC
* *
632699 CCTTTTTAAGTCCTTTAGGGGTATCAGATACTTCTACGTCGAAGGTATCCCCTAGGAGTATTTTC
1 CCTTTTTAAGTCCTTTAGGGGTATCAGGTACTTCTACGTCGAAGGTATCCCCTAGGAGAATTTTC
* *
632764 GTAATTTTTC-A-AACTAACTCTTAAGTTGTCACCGGGCCTGTTTTTAAGCCAAAGGTGGGCATT
66 GTAATTTTTCTAGAACCAACTCTTAAGTTGTCACCGGGCCTGCTTTTAAGCCAAAGGTGGGCATT
*
632827 TAGGATAGGTTTATCCCATCTTAAAC
131 TAGGATAGGTTCATCCCATCTTAAAC
* * * * * *
632853 CTTTTTTATGTCCCTTAGGGGTATCAGGTACTTCTACGTCGAAGGTATCTCCTAGGGGAATTTTT
1 CCTTTTTAAGTCCTTTAGGGGTATCAGGTACTTCTACGTCGAAGGTATCCCCTAGGAGAATTTTC
632918 GTAATTTTT
66 GTAATTTTT
632927 TTTACGAAAC
Statistics
Matches: 198, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
153 65 0.33
154 128 0.65
155 5 0.03
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (156 bp):
CCTTTTTAAGTCCTTTAGGGGTATCAGGTACTTCTACGTCGAAGGTATCCCCTAGGAGAATTTTC
GTAATTTTTCTAGAACCAACTCTTAAGTTGTCACCGGGCCTGCTTTTAAGCCAAAGGTGGGCATT
TAGGATAGGTTCATCCCATCTTAAAC
Found at i:635428 original size:81 final size:81
Alignment explanation
Indices: 635269--635429 Score: 184
Period size: 81 Copynumber: 2.0 Consensus size: 81
635259 TGACTTTTCA
* * * **
635269 ATTTTAATTTGTTTAGATAATTCCTAATCAGATTGTCATAAGGAGTAGATTTTATCCTTATTGAT
1 ATTTTAAGTTGTTTAGATAAGTCCTAATCAGATTGTCATAAGGAATAGACATTATCCTTATTGAT
* **
635334 TAGCATTGTGTTTAGG
66 AAGCAGAGTGTTTAGG
* *
635350 ATTTTAAGTTGTTTAGATAAGTCCTAATCAGATTAG-GATAAGGAATTGACATT-TCCTTATTGG
1 ATTTTAAGTTGTTTAGATAAGTCCTAATCAGATT-GTCATAAGGAATAGACATTATCCTTATT-G
635413 ATAAG-AGAGTCGTTTAG
64 ATAAGCAGAGT-GTTTAG
635430 TTAGGACTCT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
80 11 0.16
81 55 0.82
82 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (81 bp):
ATTTTAAGTTGTTTAGATAAGTCCTAATCAGATTGTCATAAGGAATAGACATTATCCTTATTGAT
AAGCAGAGTGTTTAGG
Found at i:636324 original size:26 final size:26
Alignment explanation
Indices: 636295--636383 Score: 114
Period size: 26 Copynumber: 3.5 Consensus size: 26
636285 AAAAAGAAAT
*
636295 ATTTTTGTCTAGTTTACTAACATTAG
1 ATTTTTGTCTAGTTTACTAACCTTAG
*
636321 ATTTTTATCTAG-TT--TAACCTTAG
1 ATTTTTGTCTAGTTTACTAACCTTAG
636344 ATTTTTGTCTAGTTTACTAACCTTAG
1 ATTTTTGTCTAGTTTACTAACCTTAG
636370 AAATTTTTGT-TAGT
1 --ATTTTTGTCTAGT
636384 ATTTTTTTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
23 19 0.35
24 2 0.04
25 2 0.04
26 20 0.36
27 4 0.07
28 8 0.15
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTTGTCTAGTTTACTAACCTTAG
Found at i:636343 original size:23 final size:23
Alignment explanation
Indices: 636312--636359 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
636302 TCTAGTTTAC
636312 TAACATTAGATTTTTATCTAGTT
1 TAACATTAGATTTTTATCTAGTT
* *
636335 TAACCTTAGATTTTTGTCTAGTT
1 TAACATTAGATTTTTATCTAGTT
636358 TA
1 TA
636360 CTAACCTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.52
Consensus pattern (23 bp):
TAACATTAGATTTTTATCTAGTT
Found at i:640524 original size:13 final size:13
Alignment explanation
Indices: 640506--640530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
640496 CATAAAGTGT
640506 TGTATCGATACAA
1 TGTATCGATACAA
640519 TGTATCGATACA
1 TGTATCGATACA
640531 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:640528 original size:33 final size:33
Alignment explanation
Indices: 640486--640552 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
640476 TTCAATGATT
640486 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
640519 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
640552 T
1 T
640553 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:640611 original size:13 final size:13
Alignment explanation
Indices: 640593--640617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
640583 GTCACTTAAA
640593 TGTATCGATACAT
1 TGTATCGATACAT
640606 TGTATCGATACA
1 TGTATCGATACA
640618 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:644444 original size:20 final size:21
Alignment explanation
Indices: 644411--644472 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
644401 AAGAAAAGAC
*
644411 AGAATGTATTGATACATTGA-
1 AGAATGTATCGATACATTGAT
* *
644431 AGAATATATCGATACATTTAT
1 AGAATGTATCGATACATTGAT
*
644452 A-CATGTATCGATACATTGAT
1 AGAATGTATCGATACATTGAT
644472 A
1 A
644473 CATATGGGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 34 0.97
21 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (21 bp):
AGAATGTATCGATACATTGAT
Found at i:645155 original size:54 final size:57
Alignment explanation
Indices: 645032--645179 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 57
645022 TTGGTGTCTA
*
645032 CACTAGCCTTGAATCAGTATATTGGCACCTTTTTTATCAACTTTTTTAGTCCAATAT
1 CACTAGCCTTGAATCAGTATATTGGCACCTTTTTTATCAACTTTTTAAGTCCAATAT
* * * *
645089 CACTGGCTTTGAATCAGTATATTGGTACC-TTTTTATC-A-TTTTTAAGTCCAATGT
1 CACTAGCCTTGAATCAGTATATTGGCACCTTTTTTATCAACTTTTTAAGTCCAATAT
* * *
645143 CGCTAGCCTTGAATCAGCACATTGGCACTCTTCTTTT
1 CACTAGCCTTGAATCAGTATATTGGCAC-CTT-TTTT
645180 CTTTAAGTTG
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
54 36 0.47
55 2 0.03
56 9 0.12
57 30 0.39
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (57 bp):
CACTAGCCTTGAATCAGTATATTGGCACCTTTTTTATCAACTTTTTAAGTCCAATAT
Found at i:645261 original size:58 final size:57
Alignment explanation
Indices: 645189--645371 Score: 171
Period size: 58 Copynumber: 3.3 Consensus size: 57
645179 TCTTTAAGTT
*
645189 GTTAGCCTTAAATCAATATATTGGCACTTGTCAAACTTTCTTTCTTAAGTCTGATATC
1 GTTAGCCTTAAATCAACATATTGGCACTTGTCAAACTTTCTTT-TTAAGTCTGATATC
* * * * * * * *
645247 GCTAGCCTTGAATCAACATGTTGGCACAT-TC--A-TTT-TCTTTAAGTC-CATTGTT
1 GTTAGCCTTAAATCAACATATTGGCACTTGTCAAACTTTCTTTTTAAGTCTGA-TATC
* * *
645299 GTTGGCCTTAAATCAACACATTGGCACTTGTCAAACTTTCTTTTTCAAGTTTGATATC
1 GTTAGCCTTAAATCAACATATTGGCACTTGTCAAACTTTCTTTTT-AAGTCTGATATC
* *
645357 GTTGGCCTTGAATCA
1 GTTAGCCTTAAATCA
645372 GCTTGTTGGC
Statistics
Matches: 96, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
51 1 0.01
52 32 0.33
53 4 0.04
54 3 0.03
55 2 0.02
56 3 0.03
57 6 0.06
58 44 0.46
59 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (57 bp):
GTTAGCCTTAAATCAACATATTGGCACTTGTCAAACTTTCTTTTTAAGTCTGATATC
Found at i:645307 original size:52 final size:52
Alignment explanation
Indices: 645251--645426 Score: 160
Period size: 52 Copynumber: 3.3 Consensus size: 52
645241 GATATCGCTA
645251 GCCTTGAATCAACATGTTGGCACATTCATTTTCTTTAAGTCCATTGTTGTTG
1 GCCTTGAATCAACATGTTGGCACATTCATTTTCTTTAAGTCCATTGTTGTTG
* ** * *
645303 GCCTTAAATCAACACATTGGCACTTGTCAAACTTTCTTTTTCAAGT---TTGATATCGTTG
1 GCCTTGAATCAACATGTTGGCACAT-TC--A-TTT-TCTTT-AAGTCCATTG-T-T-GTTG
* * * *
645361 GCCTTGAATCAGCTTGTTGGCATATTCATTTTCTTTAAGTCCATTGTTATTG
1 GCCTTGAATCAACATGTTGGCACATTCATTTTCTTTAAGTCCATTGTTGTTG
*
645413 GCCTTGAATTAACA
1 GCCTTGAATCAACA
645427 GATTGGAACT
Statistics
Matches: 95, Mismatches: 17, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
52 39 0.41
53 7 0.07
54 4 0.04
55 8 0.08
56 4 0.04
57 7 0.07
58 26 0.27
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.41
Consensus pattern (52 bp):
GCCTTGAATCAACATGTTGGCACATTCATTTTCTTTAAGTCCATTGTTGTTG
Found at i:645354 original size:110 final size:110
Alignment explanation
Indices: 645193--645602 Score: 477
Period size: 110 Copynumber: 3.7 Consensus size: 110
645183 TAAGTTGTTA
* * *
645193 GCCTTAAATCAATATATTGGCACTTGTCAAACTTTCTTTCTT-AAGTCTGATATCGCTAGCCTTG
1 GCCTTAAATCAACACATTGGCACTTGTCAAACTTTCTTT-TTCAAGTCTGATATCGATAGCCTTG
* *
645257 AATCAACATGTTGGCACATTCATTTTCTTTAAGTCCATTGTTGTTG
65 AATCAGCATGTTGGCACATTCATTTTCTTTAAGTCCATTGTTATTG
* * *
645303 GCCTTAAATCAACACATTGGCACTTGTCAAACTTTCTTTTTCAAGTTTGATATCGTTGGCCTTGA
1 GCCTTAAATCAACACATTGGCACTTGTCAAACTTTCTTTTTCAAGTCTGATATCGATAGCCTTGA
* *
645368 ATCAGCTTGTTGGCATATTCATTTTCTTTAAGTCCATTGTTATTG
66 ATCAGCATGTTGGCACATTCATTTTCTTTAAGTCCATTGTTATTG
* * * * * ** * * *
645413 GCCTTGAATTAACAGATTGGAACTTGTTAAACCCTCTTTCTCAAGTCCGATATC-ATCGACCTTG
1 GCCTTAAATCAACACATTGGCACTTGTCAAACTTTCTTTTTCAAGTCTGATATCGATAG-CCTTG
* * * *
645477 AATCAGCATATTAGCACCTTCATTTTCTTTAAGTCCATTGTCATTG
65 AATCAGCATGTTGGCACATTCATTTTCTTTAAGTCCATTGTTATTG
* * * * * *
645523 GCCTTAAATCAACACATTGGCACTTGTTAAACTTT-TTTTGT-AGGACCGATATTGCTAGCCTTG
1 GCCTTAAATCAACACATTGGCACTTGTCAAACTTTCTTTT-TCAAGTCTGATATCGATAGCCTTG
* *
645586 AATTAGCATATTGGCAC
65 AATCAGCATGTTGGCAC
645603 CTTTATCATC
Statistics
Matches: 255, Mismatches: 41, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
109 36 0.14
110 219 0.86
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (110 bp):
GCCTTAAATCAACACATTGGCACTTGTCAAACTTTCTTTTTCAAGTCTGATATCGATAGCCTTGA
ATCAGCATGTTGGCACATTCATTTTCTTTAAGTCCATTGTTATTG
Found at i:645646 original size:52 final size:52
Alignment explanation
Indices: 645574--645775 Score: 253
Period size: 52 Copynumber: 3.9 Consensus size: 52
645564 AGGACCGATA
* * * *
645574 TTGCTAGCCTTGAATTAGCATATTGGCACCTTTATCATCTTTAAGCCCAATG
1 TTGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATG
* * * *
645626 TCGCTGG-CTCTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCTAATG
1 TTGCTGGCCT-TGAATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATG
* * * * *
645678 TTGTTGGCCTTTAATCAGCACATTAGCACCTTTATTATCTTTAAGTGCAATG
1 TTGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATG
* *
645730 TTGCTGGCCTTGACTCAGCACATTGGCACCTTTATCATCATTAAGT
1 TTGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATCTTTAAGT
645776 ATGATGTCAC
Statistics
Matches: 127, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
51 2 0.02
52 123 0.97
53 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (52 bp):
TTGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATG
Found at i:645805 original size:104 final size:104
Alignment explanation
Indices: 645579--645797 Score: 251
Period size: 104 Copynumber: 2.1 Consensus size: 104
645569 CGATATTGCT
* * *
645579 AGCCTTGAATTAGCATATTGGCACCTTTATCATCTTTAAGCCCAATGTCGCTGGCTCTGAATCAG
1 AGCCTTGAATCAGCACATTAGCACCTTTATCATCTTTAAGCCCAATGTCGCTGGCTCTGAATCAG
* * * * ****
645644 CATATTGGCACCTTTGTCATCTTTAAGTCTAATGTTGTT
66 CACATTGGCACCTTTATCATCATTAAGTATAATGTCACA
* * * ** * *
645683 GGCCTTTAATCAGCACATTAGCACCTTTATTATCTTTAAGTGCAATGTTGCTGGC-CTTGACTCA
1 AGCCTTGAATCAGCACATTAGCACCTTTATCATCTTTAAGCCCAATGTCGCTGGCTC-TGAATCA
*
645747 GCACATTGGCACCTTTATCATCATTAAGTATGATGTCACA
65 GCACATTGGCACCTTTATCATCATTAAGTATAATGTCACA
645787 AGCCTTGAATC
1 AGCCTTGAATC
645798 TATACATTGG
Statistics
Matches: 93, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
103 1 0.01
104 92 0.99
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (104 bp):
AGCCTTGAATCAGCACATTAGCACCTTTATCATCTTTAAGCCCAATGTCGCTGGCTCTGAATCAG
CACATTGGCACCTTTATCATCATTAAGTATAATGTCACA
Found at i:646451 original size:20 final size:20
Alignment explanation
Indices: 646426--646464 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
646416 GGATACAAAC
*
646426 AGTGAATATATCGATACATA
1 AGTGAATATATCAATACATA
*
646446 AGTGAATGTATCAATACAT
1 AGTGAATATATCAATACAT
646465 GTTTGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (20 bp):
AGTGAATATATCAATACATA
Found at i:646476 original size:21 final size:21
Alignment explanation
Indices: 646450--646499 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
646440 TACATAAGTG
*
646450 AATGTATCAATACATGTTTGA
1 AATGTATCAATACATGTTTCA
*
646471 AATGTATCAATACGTGTTTCA
1 AATGTATCAATACATGTTTCA
646492 AATGTATC
1 AATGTATC
646500 GATATAGGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (21 bp):
AATGTATCAATACATGTTTCA
Found at i:651010 original size:20 final size:21
Alignment explanation
Indices: 650963--651012 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
650953 TAAACCAAAA
*
650963 ATGATTTTAAAAATAAAATTG
1 ATGATTTGAAAAATAAAATTG
* *
650984 ATGATTTGAAAATTAAAGTTG
1 ATGATTTGAAAAATAAAATTG
651005 AT-ATTTGA
1 ATGATTTGA
651013 CTGGAAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (21 bp):
ATGATTTGAAAAATAAAATTG
Found at i:658837 original size:16 final size:14
Alignment explanation
Indices: 658816--658880 Score: 60
Period size: 15 Copynumber: 4.6 Consensus size: 14
658806 TTTATCATTT
*
658816 AAAAAGGTTGGCAA
1 AAAAAAGTTGGCAA
658830 GAAAAAAGTTGGCAA
1 -AAAAAAGTTGGCAA
** **
658845 AAAAAAAAT-AAAA
1 AAAAAAGTTGGCAA
658858 AAAAAAGTTGGCAA
1 AAAAAAGTTGGCAA
658872 AAAAGAAGT
1 AAAA-AAGT
658881 GGTTAGACTA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
13 9 0.23
14 13 0.33
15 17 0.44
ACGTcount: A:0.63, C:0.05, G:0.20, T:0.12
Consensus pattern (14 bp):
AAAAAAGTTGGCAA
Found at i:662489 original size:20 final size:20
Alignment explanation
Indices: 662464--662507 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
662454 TTGTAGCCTA
662464 ATACAAAG-CAATATGTATCG
1 ATACAAAGAC-ATATGTATCG
*
662484 ATACAAAGACCTATGTATCG
1 ATACAAAGACATATGTATCG
662504 ATAC
1 ATAC
662508 TTTAGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (20 bp):
ATACAAAGACATATGTATCG
Found at i:663174 original size:18 final size:18
Alignment explanation
Indices: 663151--663186 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
663141 ATTACAAAAT
*
663151 ATCTCTCTCCCTCTTTTC
1 ATCTCTCCCCCTCTTTTC
*
663169 ATCTCTCCCCCTTTTTTC
1 ATCTCTCCCCCTCTTTTC
663187 TTTTTCAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.44, G:0.00, T:0.50
Consensus pattern (18 bp):
ATCTCTCCCCCTCTTTTC
Found at i:664639 original size:20 final size:20
Alignment explanation
Indices: 664593--664642 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
664583 CTAGCCGATT
*
664593 GTGACCCGGGTGTGCCGGTC
1 GTGACCTGGGTGTGCCGGTC
*
664613 ATGACCTGGGTGTGCCGGTC
1 GTGACCTGGGTGTGCCGGTC
664633 GTGACCTGGG
1 GTGACCTGGG
664643 AGTGACTTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.08, C:0.26, G:0.44, T:0.22
Consensus pattern (20 bp):
GTGACCTGGGTGTGCCGGTC
Found at i:680790 original size:66 final size:66
Alignment explanation
Indices: 680691--680822 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
680681 GTCGTACTTG
680691 TTTTTTATTATTATTGTGACTTTCCTTGTAATTTGACTTTGTGTTTATAAAATGCGTGTTTGTTT
1 TTTTTTATTATTATTGTGACTTTCCTTGTAATTTGACTTTGTGTTTATAAAATGCGTGTTTGTTT
680756 T
66 T
680757 TTTTTTATTATTATTGTGACTTTCCTTGTAATTTGACTTTGTGTTTATAAAATGCGTGTTTGTTT
1 TTTTTTATTATTATTGTGACTTTCCTTGTAATTTGACTTTGTGTTTATAAAATGCGTGTTTGTTT
680822 T
66 T
680823 CTTATTTGTT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.18, C:0.08, G:0.15, T:0.59
Consensus pattern (66 bp):
TTTTTTATTATTATTGTGACTTTCCTTGTAATTTGACTTTGTGTTTATAAAATGCGTGTTTGTTT
T
Found at i:680994 original size:20 final size:19
Alignment explanation
Indices: 680956--680994 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
680946 TCAAGGGGGA
* *
680956 GAAAATTTTTTTATCAAAG
1 GAAAAATTTTTTAACAAAG
680975 GAAAAATTTTTTAACGAAAG
1 GAAAAATTTTTTAAC-AAAG
680995 CCTTAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (19 bp):
GAAAAATTTTTTAACAAAG
Found at i:681614 original size:20 final size:19
Alignment explanation
Indices: 681564--681620 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
681554 TTGTATCGAT
* *
681564 ACATTATATCGATATATGT
1 ACATTATATCGATACATGG
* *
681583 TCATTGTATCGATACATGG
1 ACATTATATCGATACATGG
681602 ACAATTATATCGATACATG
1 AC-ATTATATCGATACATG
681621 AAACTGGCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (19 bp):
ACATTATATCGATACATGG
Found at i:681699 original size:20 final size:20
Alignment explanation
Indices: 681676--681715 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
681666 ATATTGTATC
*
681676 GATACATTATATCGAAACAT
1 GATAAATTATATCGAAACAT
* *
681696 GATAAATTGTATCGATACAT
1 GATAAATTATATCGAAACAT
681716 TGCTTCAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (20 bp):
GATAAATTATATCGAAACAT
Found at i:685327 original size:22 final size:21
Alignment explanation
Indices: 685302--685344 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
685292 AGCATTGTGA
*
685302 TCTTGTGATTTTTGATGAATTT
1 TCTT-TGATATTTGATGAATTT
*
685324 TCTTTGCTATTTGATGAATTT
1 TCTTTGATATTTGATGAATTT
685345 GATGTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.19, C:0.07, G:0.16, T:0.58
Consensus pattern (21 bp):
TCTTTGATATTTGATGAATTT
Found at i:687255 original size:17 final size:18
Alignment explanation
Indices: 687223--687256 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
687213 TTTGTTTTTG
*
687223 CTTGTCTTTATGACTTTC
1 CTTGTATTTATGACTTTC
687241 CTTGTATTT-TGACTTT
1 CTTGTATTTATGACTTT
687257 ATGTTTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.12, C:0.18, G:0.12, T:0.59
Consensus pattern (18 bp):
CTTGTATTTATGACTTTC
Found at i:688098 original size:33 final size:32
Alignment explanation
Indices: 688056--688120 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
688046 TACCACTGTT
*
688056 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTAACGATACATGAG-A-ATTGTATCGATACAA
688089 TGTAACGATACATGATGAATTGTATCGATACA
1 TGTAACGATACATGA-GAATTGTATCGATACA
688121 TTGCTTCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (32 bp):
TGTAACGATACATGAGAATTGTATCGATACAA
Found at i:689050 original size:12 final size:12
Alignment explanation
Indices: 689033--689062 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
689023 AGTCAACTTT
689033 TTCATCATCATC
1 TTCATCATCATC
689045 TTCATCATCATC
1 TTCATCATCATC
689057 TATCAT
1 T-TCAT
689063 AGCCATTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (12 bp):
TTCATCATCATC
Found at i:689089 original size:57 final size:57
Alignment explanation
Indices: 689001--689114 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
688991 CCTTCTAGCC
689001 ATCATAGCCATTTCTTCATCCGAGTCAACTTTTTCATCATCATCTTCATCATCATCT
1 ATCATAGCCATTTCTTCATCCGAGTCAACTTTTTCATCATCATCTTCATCATCATCT
689058 ATCATAGCCATTTCTTCATCCGAGTCAACTTTTTCATCATCATCTTCATCATCATCT
1 ATCATAGCCATTTCTTCATCCGAGTCAACTTTTTCATCATCATCTTCATCATCATCT
689115 TTGATGGTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.25, C:0.30, G:0.05, T:0.40
Consensus pattern (57 bp):
ATCATAGCCATTTCTTCATCCGAGTCAACTTTTTCATCATCATCTTCATCATCATCT
Found at i:689107 original size:12 final size:12
Alignment explanation
Indices: 689090--689115 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
689080 AGTCAACTTT
689090 TTCATCATCATC
1 TTCATCATCATC
689102 TTCATCATCATC
1 TTCATCATCATC
689114 TT
1 TT
689116 TGATGGTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (12 bp):
TTCATCATCATC
Found at i:690700 original size:13 final size:13
Alignment explanation
Indices: 690682--690714 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
690672 ACGTTTCACC
690682 ATGTATCGATACA
1 ATGTATCGATACA
690695 ATGTATCGATACA
1 ATGTATCGATACA
*
690708 CTGTATC
1 ATGTATC
690715 AATATTGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:696610 original size:255 final size:255
Alignment explanation
Indices: 696159--696674 Score: 1023
Period size: 255 Copynumber: 2.0 Consensus size: 255
696149 CTGATCTAAT
*
696159 TTGTTGGTTTAATCAAGTAATGCAGCTTGTTTACCACCTTTGTGAGGCTACAAACAAGCTGAAAA
1 TTGTTGGTTTAATCAAGTAATGCAGCTTATTTACCACCTTTGTGAGGCTACAAACAAGCTGAAAA
696224 ATGATGAAAAAGTGAATGTTTGGGTTATGGTATGAGTAAGGATGCATTGGAGTTGTGTAGTAGCC
66 ATGATGAAAAAGTGAATGTTTGGGTTATGGTATGAGTAAGGATGCATTGGAGTTGTGTAGTAGCC
696289 AAGGTAGGCTAATCTGATTTCAAAATGCAAAATTTTGCTTACATGGTCCTATATCGATACATTTC
131 AAGGTAGGCTAATCTGATTTCAAAATGCAAAATTTTGCTTACATGGTCCTATATCGATACATTTC
696354 AAGCATATATCGATACATTCACTTATGTATTGATACAATGCCTTATTTGATCAAAACAAA
196 AAGCATATATCGATACATTCACTTATGTATTGATACAATGCCTTATTTGATCAAAACAAA
696414 TTGTTGGTTTAATCAAGTAATGCAGCTTATTTACCACCTTTGTGAGGCTACAAACAAGCTGAAAA
1 TTGTTGGTTTAATCAAGTAATGCAGCTTATTTACCACCTTTGTGAGGCTACAAACAAGCTGAAAA
696479 ATGATGAAAAAGTGAATGTTTGGGTTATGGTATGAGTAAGGATGCATTGGAGTTGTGTAGTAGCC
66 ATGATGAAAAAGTGAATGTTTGGGTTATGGTATGAGTAAGGATGCATTGGAGTTGTGTAGTAGCC
696544 AAGGTAGGCTAATCTGATTTCAAAATGCAAAATTTTGCTTACATGGTCCTATATCGATACATTTC
131 AAGGTAGGCTAATCTGATTTCAAAATGCAAAATTTTGCTTACATGGTCCTATATCGATACATTTC
696609 AAGCATATATCGATACATTCACTTATGTATTGATACAATGCCTTATTTGATCAAAACAAA
196 AAGCATATATCGATACATTCACTTATGTATTGATACAATGCCTTATTTGATCAAAACAAA
696669 TTGTTG
1 TTGTTG
696675 AATTTTGAAA
Statistics
Matches: 260, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
255 260 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.34
Consensus pattern (255 bp):
TTGTTGGTTTAATCAAGTAATGCAGCTTATTTACCACCTTTGTGAGGCTACAAACAAGCTGAAAA
ATGATGAAAAAGTGAATGTTTGGGTTATGGTATGAGTAAGGATGCATTGGAGTTGTGTAGTAGCC
AAGGTAGGCTAATCTGATTTCAAAATGCAAAATTTTGCTTACATGGTCCTATATCGATACATTTC
AAGCATATATCGATACATTCACTTATGTATTGATACAATGCCTTATTTGATCAAAACAAA
Found at i:697324 original size:34 final size:35
Alignment explanation
Indices: 697286--697352 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
697276 CCTTACAACA
697286 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
697320 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
697353 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:697828 original size:13 final size:13
Alignment explanation
Indices: 697810--697835 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
697800 CAATTTTTTG
697810 TGTATCGATACAT
1 TGTATCGATACAT
697823 TGTATCGATACAT
1 TGTATCGATACAT
697836 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:697850 original size:32 final size:33
Alignment explanation
Indices: 697790--697853 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
697780 TACAAGCCAA
** *
697790 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
697823 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
697854 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:699626 original size:13 final size:13
Alignment explanation
Indices: 699608--699632 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
699598 ACTGAAGCAA
699608 TGTATCGATACAT
1 TGTATCGATACAT
699621 TGTATCGATACA
1 TGTATCGATACA
699633 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:702783 original size:34 final size:35
Alignment explanation
Indices: 702745--702811 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
702735 CCTTACAACA
702745 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
702779 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
702812 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:703274 original size:20 final size:20
Alignment explanation
Indices: 703249--703300 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
703239 TACAAGCCAA
** *
703249 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTGG
703269 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
703288 TGTATCGATACAA
1 TGTATCGATACAA
703301 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:703306 original size:19 final size:18
Alignment explanation
Indices: 703249--703306 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
703239 TACAAGCCAA
*
703249 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
*
703269 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
703288 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
703307 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
20 12 0.36
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:708246 original size:49 final size:49
Alignment explanation
Indices: 708090--708990 Score: 561
Period size: 49 Copynumber: 19.6 Consensus size: 49
708080 TGAAGAATGA
* * * * * * *
708090 CAATGTGCTGATTCATGGCCAGCAACATTAGACTTGAAGAAGAA--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * ** * * * *
708137 CAATGTGTTGAGACAAGG-CAGCGACATTGGGCTGAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA--AA-GATGAAGGTGC
* * * *
708188 CAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * * *
708237 CAATCTGCTGATTCAAGGCCAGCGACATT-GGTTATAAAGATAAAGGTTC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCT-TAAAGATGAAGGTGC
* * *
708286 CAATATGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTTGAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGAT-G--AAGGTGC
* * * * ** * *
708338 CGATGTGCTAATTCAAGGCCAACGACATCAGTCTTCAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * * * * * *
708387 CAATATGCTGATTCAAGGTCAGCGACAATGGTCTCAAATA-CAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * *
708435 CAATATACTGATTCAAGGCCAGGGATATTGGGC-T-----T--A--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * *
708474 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTGAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * * *
708522 TAATATGCTGATTCAAGGCCAACAATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * *
708561 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* *
708610 AAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * * *
708649 CAATGTGCTGATTCAAGGCCAGCGACATCGGTCTTAAAGATGAAGGTGA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
*
708698 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * *
708737 CAATGTGCTGATTCCAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* *
708786 CAAAATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * **
708825 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA-AACAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * *
708873 AAATATGCTAATTCAAGGCCAGCGATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * * *
708912 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTGAAGA-CAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
*
708960 CAATATGCTGATTCAAGGCCAGCGATATTGG
1 CAATATGCTGATTCAAGGCCAGCGACATTGG
708991 ACTTGAAGGT
Statistics
Matches: 655, Mismatches: 127, Indels: 143
0.71 0.14 0.15
Matches are distributed among these distances:
39 192 0.29
40 6 0.01
41 1 0.00
43 3 0.00
45 3 0.00
46 13 0.02
47 16 0.02
48 136 0.21
49 214 0.33
50 4 0.01
51 18 0.03
52 49 0.07
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
Found at i:708314 original size:150 final size:149
Alignment explanation
Indices: 708134--708468 Score: 372
Period size: 150 Copynumber: 2.2 Consensus size: 149
708124 TGAAGAAGAA
* ** *
708134 TGCCAATGTGTTGAGACAAGG-CAGCGACATTGGGCTG-AGGAAT-GTTAAAGATGCCAATATGC
1 TGCCAATATGTTGATTCAAGGCCAGCGACATTGGGCTGAAAG-ATGGTT-AAGATGCCAATATGC
* * * *
708196 TGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGCCAATCTGCTGATTCAAGGCCAGCG
64 TAATTCAAGGCCAACGACATCAGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
* *
708261 ACATTGGTTATAAAGATA-AAGG
129 ACAATGG-TATAAA-ATACAAAG
* * * * * * *
708283 TTCCAATATGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTTGAGGTGCCGATGTGCTA
1 TGCCAATATGTTGATTCAAGGCCAGCGACATTGGGCTGAAAGATGGTTAAGATGCCAATATGCTA
* * *
708348 ATTCAAGGCCAACGACATCAGTCTTCAAGATGAAGGTGCCAATATGCTGATTCAAGGTCAGCGAC
66 ATTCAAGGCCAACGACATCAGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGAC
* *
708413 AATGGTCTCAAATACAAAG
131 AATGGTATAAAATACAAAG
** * *
708432 TGCCAATATACTGATTCAAGGCCAGGGATATTGGGCT
1 TGCCAATATGTTGATTCAAGGCCAGCGACATTGGGCT
708469 TATGCCAATG
Statistics
Matches: 154, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
148 3 0.02
149 55 0.36
150 91 0.59
151 5 0.03
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (149 bp):
TGCCAATATGTTGATTCAAGGCCAGCGACATTGGGCTGAAAGATGGTTAAGATGCCAATATGCTA
ATTCAAGGCCAACGACATCAGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGAC
AATGGTATAAAATACAAAG
Found at i:708384 original size:101 final size:98
Alignment explanation
Indices: 708179--708413 Score: 283
Period size: 101 Copynumber: 2.4 Consensus size: 98
708169 TGAGGAATGT
* * *
708179 TAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGCCAATCTG
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGCCAATCTG
* * **
708244 CTGATTCAAGGCCAGCGACATTGGTTATAAAGA
66 CTAATTCAAGGCCAACGACATCAGTTATAAAGA
* * * * *
708277 TAAAGGTTCCAATATGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTTGAGGTGCCGAT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGAT-G--AAGGTGCCAAT
* *
708342 GTGCTAATTCAAGGCCAACGACATCAGTCT-TCAAGA
63 CTGCTAATTCAAGGCCAACGACATCAGT-TATAAAGA
* *
708378 TGAAGGTGCCAATATGCTGATTCAAGGTCAGCGACA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACA
708414 ATGGTCTCAA
Statistics
Matches: 115, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
98 44 0.38
99 1 0.01
101 69 0.60
102 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (98 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGCCAATCTG
CTAATTCAAGGCCAACGACATCAGTTATAAAGA
Found at i:708486 original size:39 final size:39
Alignment explanation
Indices: 708432--708946 Score: 292
Period size: 39 Copynumber: 12.0 Consensus size: 39
708422 AAATACAAAG
* * *
708432 TGCCAATATACTGATTCAAGGCCAGGGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
*
708471 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTGAAGACAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT-------A
* * * * *
708517 GGTGCTAATATGCTGATTCAAGGCCAACAATATTGGGCTTG
1 --TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
* *
708558 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGC-T-----T--A
** * *
708605 GGTGAAAATATGCTGATTCAAGGCCAGCGATATTGGGCTTG
1 --TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
* * *
708646 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGTCTTAAAGATGAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGC-T-----T--A
* * *
708693 GGTGACAATATGCTGATTCAAGGCCAGCGATATTGGGCTTG
1 --TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
* * *
708734 TGCCAATGTGCTGATTCCAGGCCAGCGACATTGGTCTTAAAGATGAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGC-T-----T--A
* * *
708781 GGTGCCAAAATGCTGATTCAAGGCCAGCGATATTGGGCTTG
1 --TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
* *
708822 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT-------A
* * * *
708868 GGTGCAAATATGCTAATTCAAGGCCAGCGATATTGGGCTTG
1 --TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
*
708909 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
708947 GAAGACAAAG
Statistics
Matches: 365, Mismatches: 63, Indels: 96
0.70 0.12 0.18
Matches are distributed among these distances:
39 193 0.53
40 3 0.01
43 3 0.01
45 3 0.01
46 1 0.00
48 69 0.19
49 93 0.25
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
Found at i:708533 original size:87 final size:87
Alignment explanation
Indices: 708383--708995 Score: 929
Period size: 88 Copynumber: 7.0 Consensus size: 87
708373 CAAGATGAAG
* * * * * * *
708383 GTGCCAATATGCTGATTCAAGGTCAGCGACAATGGTCTCAAATACAAAGTGCCAATATACTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
708448 CAAGGCCAGGGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * *
708470 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTGAAGACAAGGTGCTAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* *
708535 CAAGGCCAACAATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* **
708557 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGAAAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
708622 TCAAGGCCAGCGATATTGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
* * *
708645 GTGCCAATGTGCTGATTCAAGGCCAGCGACATCGGTCTTAAAGATGAAGGTGACAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
708710 TCAAGGCCAGCGATATTGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
* * *
708733 GTGCCAATGTGCTGATTCCAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAAAATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
708798 TCAAGGCCAGCGATATTGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
* * *
708821 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAGGTGCAAATATGCTAATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
708886 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * *
708908 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTGAAGACAAAGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
708973 CAAGGCCAGCGATATTGGACTT
66 CAAGGCCAGCGATATTGGGCTT
708995 G
1 G
708996 AAGGTGAGAA
Statistics
Matches: 484, Mismatches: 41, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
87 234 0.48
88 250 0.52
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:709163 original size:27 final size:27
Alignment explanation
Indices: 709118--709171 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
709108 AAAGGAACAA
* *
709118 GGTGCCACGGAGTTATGGACTTAAAAG
1 GGTGCCACAGACTTATGGACTTAAAAG
*
709145 GGTGCCACAGACTTGTGGACTTAAAAG
1 GGTGCCACAGACTTATGGACTTAAAAG
709172 AAAAAAGAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (27 bp):
GGTGCCACAGACTTATGGACTTAAAAG
Found at i:709170 original size:60 final size:60
Alignment explanation
Indices: 709081--709587 Score: 408
Period size: 60 Copynumber: 8.1 Consensus size: 60
709071 ACATAAAAAG
* * *
709081 AAAA-GGTACCACAAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTT
* * * * *
709140 AAAAGGGTGCCACAGACTTGTGGACTTAAAAGAAAAAAGAGTGCCACGAAGTTGTGGGCTTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAACAAG-GTGCCACGGAGTTGTGGAC-TT
* * *
709202 AAAAAGAAAGAGGTGCCACGGAGTTGTGGACTTAAAAGGGAA-AAGGGTGCCACAGAGTCGTGGA
1 ----A-AAAG-GGTGCCACAGAGTTGTGGACTTAAAA-GGAACAA-GGTGCCACGGAGTTGTGGA
709266 CTT
58 CTT
* * * * *
709269 AAAAAGAAAAGGTGCCACAGAGTTGTGAACTTAAAAGGAACCATGAGCCATGGAGTTGTGGACTT
1 -AAAAG----GGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTT
* * * * * *
709334 AAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGAACCATGAGCCACGGGGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTT
* * * ** *
709394 GAAAGGGTGCCATAGAGTTGTGGACTTAAAAGGAAAAAAAATGCCACGGAGTTGTGGGCATT
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGG-AACAAGGTGCCACGGAGTTGTGGAC-TT
* ** * **
709456 AAAAAGAGAAAGGTTCCATGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACAAAGTTGTGGACT
1 --AAA-AG---GGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACT
709521 T
60 T
* * * * *
709522 AAAAAGGTGCCACGGAGTTGTGGACTTAAAGGGAGA-AAGAGTGCCACGGAATTGTGGGCTTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGA-ACAAG-GTGCCACGGAGTTGTGGAC-TT
709584 AAAA
1 AAAA
709588 AGAAAAAGGT
Statistics
Matches: 366, Mismatches: 56, Indels: 49
0.78 0.12 0.10
Matches are distributed among these distances:
59 4 0.01
60 139 0.38
61 50 0.14
62 10 0.03
63 5 0.01
64 11 0.03
65 23 0.06
66 29 0.08
67 25 0.07
68 66 0.18
69 4 0.01
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.20
Consensus pattern (60 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTT
Found at i:709184 original size:34 final size:34
Alignment explanation
Indices: 709140--709616 Score: 232
Period size: 34 Copynumber: 14.8 Consensus size: 34
709130 TTATGGACTT
* *
709140 AAAAGGGTGCCACAGACTTGTGGACTTAAAAGAA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGAA
* *
709174 AAAAGAGTGCCAC-GAAGTTGTGGGCTTTAAA-AA
1 AAAAGAGTGCCACAG-AGTTGTGGACTTAAAAGAA
* * **
709207 GAAAGAGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAGA-GTGCCACAGAGTTGTGGACTTAAAAGAA
* * *
709242 AAAAGGGTGCCACAGAGTCGTGGACTTAAAA-AG
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGAA
*
709275 AAAAG-GTGCCACAGAGTTGTGAACTTAAAAGGAA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAA-GAA
** * **
709309 CCATGA--GCCATGGAGTTGTGGACTT------A
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGAA
*
709335 AAAAG-GTGCCATAGAGTTGTGGACTTAAAAGGAA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAA-GAA
** * * *
709369 CCATGA--GCCACGGGGTTGTGGACTT----G--
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGAA
* *
709395 -AAAGGGTGCCATAGAGTTGTGGACTTAAAAGGAA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAA-GAA
* * *
709429 AAAA-AATGCCACGGAGTTGTGGGCATTAAAA-AGA
1 AAAAGAGTGCCACAGAGTTGTGGAC-TTAAAAGA-A
* * ** * *
709463 GAAAG-GTTCCATGGAGTCGTGGACTTAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGAA
* *
709496 ACAAG-GTGCCACAAAGTTGTGGACTT------A
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGAA
* * *
709523 AAAAG-GTGCCACGGAGTTGTGGACTTAAAGGGA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGAA
* * * *
709556 GAAAGAGTGCCACGGAATTGTGGGCTTTAAAA-AGA
1 AAAAGAGTGCCACAGAGTTGTGGAC-TTAAAAGA-A
*
709591 AAAAG-GTGCCACGGAGTTGTGGACTT
1 AAAAGAGTGCCACAGAGTTGTGGACTT
709617 TGGGAAAAGA
Statistics
Matches: 334, Mismatches: 69, Indels: 81
0.69 0.14 0.17
Matches are distributed among these distances:
25 2 0.01
26 3 0.01
27 58 0.17
28 1 0.00
32 24 0.07
33 80 0.24
34 142 0.43
35 24 0.07
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.20
Consensus pattern (34 bp):
AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGAA
Found at i:709425 original size:27 final size:27
Alignment explanation
Indices: 709242--709426 Score: 111
Period size: 27 Copynumber: 6.2 Consensus size: 27
709232 CTTAAAAGGG
* *
709242 AAAAGGGTGCCACAGAGTCGTGGACTT
1 AAAAGGGTGCCATAGAGTTGTGGACTT
* *
709269 AAAAAGAAAAGGTGCCACAGAGTTGTGAACTT
1 -AAAAG----GGTGCCATAGAGTTGTGGACTT
* *
709301 AAAAGGAACCATGAGCCATGGAGTTGTGGACTT
1 AAAAGG------GTGCCATAGAGTTGTGGACTT
*
709334 AAAAAGGTGCCATAGAGTTGTGGACTT
1 AAAAGGGTGCCATAGAGTTGTGGACTT
**
709361 AAAA-GGAACCATGAGCCACGGGGTTGTGGACTT
1 AAAAGGGTGCCAT-AG--A----GTTGTGGACTT
*
709394 GAAAGGGTGCCATAGAGTTGTGGACTT
1 AAAAGGGTGCCATAGAGTTGTGGACTT
709421 AAAAGG
1 AAAAGG
709427 AAAAAAAATG
Statistics
Matches: 124, Mismatches: 15, Indels: 37
0.70 0.09 0.21
Matches are distributed among these distances:
26 6 0.05
27 42 0.34
28 5 0.04
29 1 0.01
31 6 0.05
32 20 0.16
33 38 0.31
34 6 0.05
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCATAGAGTTGTGGACTT
Found at i:709507 original size:128 final size:127
Alignment explanation
Indices: 709074--709676 Score: 591
Period size: 128 Copynumber: 4.7 Consensus size: 127
709064 ATCATGGACA
* ** * *
709074 TAAAAAGAAAAGGTACCACAAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACT
1 TAAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACT
* * * *
709139 TAAAAGGGTGCCACAGACTTGTGGACTTAAAA-GAAAAAAGAGTGCCACGAAGTTGTGGGCTT
66 TAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAA-AATGCCACGGAGTTGTGGGCTT
*
709201 TAAAAAGAAAGAGGTGCCACGGAGTTGTGGACTTAAAAGGGAA-AAGGGTGCCACAGAGTCGTGG
1 TAAAAAGAAA-AGGTGCCACGGAGTTGTGGACTTAAAA-GGAACAA-GGTGCCACAGAGTTGTGG
* ** ** *
709265 ACTTAAAAAGAAAAGGTGCCACAGAGTTGTGAACTTAAAAGGAACCATGA-GCCATGGAGTTGTG
63 ACTT----A-AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAAATGCCACGGAGTTGTG
*
709329 GAC-T
123 GGCTT
** * * * * *
709333 T----A-AAAAGGTGCCATAGAGTTGTGGACTTAAAAGGAACCATGAGCCACGGGGTTGTGGACT
1 TAAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACT
* * * *
709393 TGAAAGGGTGCCATAGAGTTGTGGACTTAAAAGGAAAAAAAATGCCACGGAGTTGTGGGCAT
66 TAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAAATGCCACGGAGTTGTGGGCTT
* * * *
709455 TAAAAAGAGAAAGGTTCCATGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACAAAGTTGTGGAC
1 TAAAAAGA-AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGAC
* * * * * *
709520 TTAAAAAGGTGCCACGGAGTTGTGGACTTAAAGGGAGAAAGAGTGCCACGGAATTGTGGGCTT
65 TTAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAAATGCCACGGAGTTGTGGGCTT
** * * * *
709583 TAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT--TGGGAA-AAGATGCCACTGAGTCGTAGAC
1 TAAAAAG-AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGAC
*
709645 TTAGAAAAGAGATGCCACTGAGTTGTGGACTT
65 TTA-AAAAG-G-TGCCACAGAGTTGTGGACTT
709677 TGAAGAAAAG
Statistics
Matches: 389, Mismatches: 65, Indels: 43
0.78 0.13 0.09
Matches are distributed among these distances:
120 33 0.08
121 15 0.04
122 2 0.01
125 41 0.11
126 36 0.09
127 15 0.04
128 175 0.45
129 24 0.06
132 2 0.01
133 15 0.04
134 27 0.07
135 4 0.01
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.20
Consensus pattern (127 bp):
TAAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACT
TAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAAATGCCACGGAGTTGTGGGCTT
Found at i:709540 original size:27 final size:27
Alignment explanation
Indices: 709498--709551 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
709488 TAAAAGGAAC
709498 AAGGTGCCACAAAGTTGTGGACTTAAA
1 AAGGTGCCACAAAGTTGTGGACTTAAA
**
709525 AAGGTGCCACGGAGTTGTGGACTTAAA
1 AAGGTGCCACAAAGTTGTGGACTTAAA
709552 GGGAGAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (27 bp):
AAGGTGCCACAAAGTTGTGGACTTAAA
Found at i:709631 original size:30 final size:30
Alignment explanation
Indices: 709591--709869 Score: 231
Period size: 30 Copynumber: 9.1 Consensus size: 30
709581 TTTAAAAAGA
* *
709591 AAAAGGTGCCACGGAGTTGTGGACTTTGGG
1 AAAAGATGCCACTGAGTTGTGGACTTTGGG
* * * *
709621 AAAAGATGCCACTGAGTCGTAGAC-TTAGA
1 AAAAGATGCCACTGAGTTGTGGACTTTGGG
*
709650 AAAGAGATGCCACTGAGTTGTGGACTTTGAAG
1 AAA-AGATGCCACTGAGTTGTGGACTTTG-GG
* *
709682 AAAAGATGCCACTAAGTCGTGGACTTT-GG
1 AAAAGATGCCACTGAGTTGTGGACTTTGGG
* * * *
709711 AAAGAGATTCCACTGAGTTATGGGCTTTGAAG
1 AAA-AGATGCCACTGAGTTGTGGACTTTG-GG
*
709743 AAAAGATGCCACTGAGTCGTGGACTTT-GG
1 AAAAGATGCCACTGAGTTGTGGACTTTGGG
* * *
709772 AAAGAGATGCCACTGAGTCGTGGACATTGAAGAA
1 AAA-AGATGCCACTGAGTTGTGGACTTTG--G-G
* * **
709806 AAAAAATGCCACTGAGTTGTGGATTTTGAAAA
1 AAAAGATGCCACTGAGTTGTGGACTTTG--GG
* **
709838 AAAAAATGCCACTGAGTCATGGACTTTGGG
1 AAAAGATGCCACTGAGTTGTGGACTTTGGG
709868 AA
1 AA
709870 GAGAGATTTG
Statistics
Matches: 201, Mismatches: 37, Indels: 22
0.77 0.14 0.08
Matches are distributed among these distances:
29 14 0.07
30 83 0.41
31 44 0.22
32 33 0.16
33 24 0.12
34 3 0.01
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTTGTGGACTTTGGG
Found at i:709707 original size:61 final size:61
Alignment explanation
Indices: 709588--709865 Score: 308
Period size: 61 Copynumber: 4.5 Consensus size: 61
709578 GGCTTTAAAA
* * * *
709588 AGAAAA-AGGTGCCACGGAGTTGTGGACTTTG-GGAAAAGATGCCACTGAGTCGTAGACTT
1 AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTT
*
709647 AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTAAGTCGTGGACTT
1 AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTT
* * * * *
709708 TGGAAAGAGATTCCACTGAGTTATGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGACTT
1 AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTT
* * * * * * *
709769 TGGAAAGAGATGCCACTGAGTCGTGGACATTGAAGAAAAAAAATGCCACTGAGTTGTGGATTTT
1 AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAG--AAAAGATGCCACTGAGTCGTGGA-CTT
* * * **
709833 GAAAAAAAAAATGCCACTGAGTCATGGACTTTG
1 -AGAAAAGAGATGCCACTGAGTTGTGGACTTTG
709866 GGAAGAGAGA
Statistics
Matches: 187, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
59 6 0.03
60 23 0.12
61 110 0.59
63 21 0.11
64 2 0.01
65 25 0.13
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.24
Consensus pattern (61 bp):
AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTT
Found at i:709724 original size:91 final size:90
Alignment explanation
Indices: 709591--709866 Score: 259
Period size: 91 Copynumber: 3.0 Consensus size: 90
709581 TTTAAAAAGA
* * * * *
709591 AAAAGGTGCCACGGAGTTGTGGACTTTGGGAAAAGATGCCACTGAGTCGTAGACTTAGAA-AAGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGGGAAAAGATGCCACTGAGTCATAGACTTAGAAGAAAA
*
709655 GATGCCACTGAGTTGTGGACTTTGAAG
66 GATGCCACTGAGTCGTGGACTTTG--G
* * * * * *
709682 AAAAGATGCCACTAAGTCGTGGACTTT-GGAAAGAGATTCCACTGAGTTATGGGCTTTGAAGAAA
1 AAAAGATGCCACTGAGTCGTGGACTTTGGGAAA-AGATGCCACTGAGTCATAGACTTAGAAGAAA
709746 AGATGCCACTGAGTCGTGGACTTTGG
65 AGATGCCACTGAGTCGTGGACTTTGG
* * * ** * * *
709772 AAAGAGATGCCACTGAGTCGTGGACATTGAAGAAAAAAAATGCCACTGAGTTGTGGATTTTGAAA
1 AAA-AGATGCCACTGAGTCGTGGACTTTG--G-GAAAAGATGCCACTGAGTCATAGACTTAG-AA
* * *
709837 AAAAAAATGCCACTGAGTCATGGACTTTGG
61 GAAAAGATGCCACTGAGTCGTGGACTTTGG
709867 GAAGAGAGAT
Statistics
Matches: 154, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
90 9 0.06
91 66 0.43
92 26 0.17
94 21 0.14
95 32 0.21
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (90 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGGGAAAAGATGCCACTGAGTCATAGACTTAGAAGAAAA
GATGCCACTGAGTCGTGGACTTTGG
Found at i:719406 original size:51 final size:51
Alignment explanation
Indices: 719341--719478 Score: 177
Period size: 51 Copynumber: 2.7 Consensus size: 51
719331 TATATATCTG
* * * * * *
719341 AAATATATCGATACATTTTTTATTGTATTGATACATTCTGTGTTTTAACCT
1 AAATGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTAACCC
*
719392 AAATGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTGACCC
1 AAATGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTAACCC
* * * *
719443 AAATGTATCGATGCATTCTTCAATATATCGATACAT
1 AAATGTATCGATACATTATTCATTGTATCGATACAT
719479 GCAAGCAATT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 76 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (51 bp):
AAATGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTAACCC
Found at i:720365 original size:32 final size:32
Alignment explanation
Indices: 720274--720574 Score: 272
Period size: 32 Copynumber: 9.5 Consensus size: 32
720264 TCATGCTCAT
* * *
720274 AAGTTGGTGGCAACCTTTTTCAAAGCCCACAA
1 AAGTCGGTGGCAACCTTTTTTAAAGCCCACAC
* * * *
720306 AAGTCGGTAGTAACTTTTTCTTAAAGCCCATAC
1 AAGTCGGTGGCAACCTTTT-TTAAAGCCCACAC
* *
720339 AAGTTGGTGGCAACCTTTTTTAAAGCCTACAC
1 AAGTCGGTGGCAACCTTTTTTAAAGCCCACAC
* *
720371 AAGTCGGTGACAA-CTTTCTTAAAAGCCCACAC
1 AAGTCGGTGGCAACCTTT-TTTAAAGCCCACAC
** * **
720403 AAGTCATTGGTAACC-TTTCAAAAGCCCACAC
1 AAGTCGGTGGCAACCTTTTTTAAAGCCCACAC
** * *
720434 AAGTCAATGGCAACC-TCTTTATAGCCCACAC
1 AAGTCGGTGGCAACCTTTTTTAAAGCCCACAC
** * *
720465 AAGTTAGTGGCAACC--CTTCAAATGCCCACAC
1 AAGTCGGTGGCAACCTTTTTTAAA-GCCCACAC
* * * *
720496 AAGTTGGTGGCAACCCTTTTCAAAGCCCATAC
1 AAGTCGGTGGCAACCTTTTTTAAAGCCCACAC
720528 AAGTCGGTGGCAA-CTTTTTCTAAAGCCCACAC
1 AAGTCGGTGGCAACCTTTTT-TAAAGCCCACAC
720560 AAGTCGGTGGCAACC
1 AAGTCGGTGGCAACC
720575 CTCTCAAAAG
Statistics
Matches: 222, Mismatches: 39, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
30 5 0.02
31 82 0.37
32 102 0.46
33 33 0.15
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (32 bp):
AAGTCGGTGGCAACCTTTTTTAAAGCCCACAC
Found at i:720429 original size:31 final size:31
Alignment explanation
Indices: 720328--720603 Score: 216
Period size: 32 Copynumber: 8.7 Consensus size: 31
720318 ACTTTTTCTT
* ** **
720328 AAAGCCCATACAAGTTGGTGGCAACCTTTTTT
1 AAAGCCCACACAAGTCAGTGGCAACC-TTTCA
* * *
720360 AAAGCCTACACAAGTCGGTGACAA-CTTTCTTA
1 AAAGCCCACACAAGTCAGTGGCAACCTTTC--A
* *
720392 AAAGCCCACACAAGTCATTGGTAACCTTTCA
1 AAAGCCCACACAAGTCAGTGGCAACCTTTCA
* *
720423 AAAGCCCACACAAGTCAATGGCAACCTCTT-T
1 AAAGCCCACACAAGTCAGTGGCAACCT-TTCA
* * *
720454 ATAGCCCACACAAGTTAGTGGCAACCCTTCA
1 AAAGCCCACACAAGTCAGTGGCAACCTTTCA
* **
720485 AATGCCCACACAAGTTGGTGGCAACCCTTTTC-
1 AAAGCCCACACAAGTCAGTGGCAA-CC-TTTCA
* * * *
720517 AAAGCCCATACAAGTCGGTGGCAACTTTTTCT
1 AAAGCCCACACAAGTCAGTGGCAAC-CTTTCA
* *
720549 AAAGCCCACACAAGTCGGTGGCAACCCTCTCA
1 AAAGCCCACACAAGTCAGTGGCAA-CCTTTCA
* * *
720581 AAAGCCTACACAATTTAGTGGCA
1 AAAGCCCACACAAGTCAGTGGCA
720604 TCTCCTTTTA
Statistics
Matches: 199, Mismatches: 35, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
30 5 0.03
31 76 0.38
32 109 0.55
33 9 0.05
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (31 bp):
AAAGCCCACACAAGTCAGTGGCAACCTTTCA
Found at i:720748 original size:56 final size:54
Alignment explanation
Indices: 720688--720860 Score: 190
Period size: 54 Copynumber: 3.2 Consensus size: 54
720678 AATATTACTA
* *
720688 GCCTTAAATCAGTATATTAGCACCTTTTTATCATCTTTTTAAGTCCAATATCGTTG
1 GCCTTGAATCAGCATATTAGCACCTTTTTATCATC--TTTAAGTCCAATATCGTTG
* * * * * *
720744 GCCTTGAATCAACATTTTGGTACCTTTTTATCATCATTAAGTCCAATATCGCTG
1 GCCTTGAATCAGCATATTAGCACCTTTTTATCATCTTTAAGTCCAATATCGTTG
* * * *
720798 GCCATGAATCAGCACATTAGCACTCTTCTT-T--TCTTTAAGTCCATTATCGTTG
1 GCCTTGAATCAGCATATTAGCAC-CTTTTTATCATCTTTAAGTCCAATATCGTTG
720850 GCCTTGAATCA
1 GCCTTGAATCA
720861 AAATATTGGC
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
52 28 0.29
54 35 0.36
55 5 0.05
56 29 0.30
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (54 bp):
GCCTTGAATCAGCATATTAGCACCTTTTTATCATCTTTAAGTCCAATATCGTTG
Found at i:720873 original size:52 final size:53
Alignment explanation
Indices: 720725--720873 Score: 169
Period size: 52 Copynumber: 2.8 Consensus size: 53
720715 TTATCATCTT
* *
720725 TTTAAGTCCAATATCGTTGGCCTTGAATCAACATTTTGGTAC-CTTTTTATCA
1 TTTAAGTCCAATATCGTTGGCCTTGAATCAACATATTGGCACTCTTTTTATCA
* * * * *
720777 TCATTAAGTCCAATATCGCTGGCCATGAATCAGCACATTAGCACTCTTCTTT-TC-
1 T--TTAAGTCCAATATCGTTGGCCTTGAATCAACATATTGGCACTCTT-TTTATCA
* *
720831 TTTAAGTCCATTATCGTTGGCCTTGAATCAAAATATTGGCACT
1 TTTAAGTCCAATATCGTTGGCCTTGAATCAACATATTGGCACT
720874 TGTTAAACTT
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
52 36 0.46
54 35 0.44
55 5 0.06
56 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (53 bp):
TTTAAGTCCAATATCGTTGGCCTTGAATCAACATATTGGCACTCTTTTTATCA
Found at i:720916 original size:110 final size:106
Alignment explanation
Indices: 720624--720967 Score: 302
Period size: 110 Copynumber: 3.2 Consensus size: 106
720614 AGCCCAATGC
* * **
720624 CGTTGGCCTTGAATCAACATATTGGCACTTGTCAAACCATCTCTTTCTAATTCCAATATTACTAG
1 CGTTGGCCTTGAATCAACATATTGGCACTTGTTAAA-CATCT-TTTC-AAGTCCAATATCGCTAG
* * * *
720689 CCTTAAATCAGTATATTAGCACCTTTTTATCATCTTTTTAAGTCCAATAT
63 CCTTGAATCAG-ACATTAGCACCTTCTT-T--TC--TTTAAGTCCATTAT
* * * * * *
720739 CGTTGGCCTTGAATCAACATTTTGGTACCTT-TTTATCATC-ATT-AAGTCCAATATCGCTGGCC
1 CGTTGGCCTTGAATCAACATATTGGCA-CTTGTTAAACATCTTTTCAAGTCCAATATCGCTAGCC
*
720801 ATGAATCAGCACATTAGCACTCTTCTTTTCTTTAAGTCCATTAT
65 TTGAATCAG-ACATTAGCAC-CTTCTTTTCTTTAAGTCCATTAT
* * **
720845 CGTTGGCCTTGAATCAAAATATTGGCACTTGTTAAACTTTCTTTTTCAAGTCTGATATCGCTAGC
1 CGTTGGCCTTGAATCAACATATTGGCACTTGTTAAAC-ATC-TTTTCAAGTCCAATATCGCTAGC
* * ** *
720910 CTTGAATCAG-C-TTGGCACATTCATTTTCTTTAAGTTTATTGT
64 CTTGAATCAGACATTAGCACCTTC-TTTTCTTTAAGTCCATTAT
720952 CGTTGGCCTTGAATCA
1 CGTTGGCCTTGAATCA
720968 GTACTGTTAG
Statistics
Matches: 189, Mismatches: 32, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
105 3 0.02
106 44 0.23
107 40 0.21
108 3 0.02
109 2 0.01
110 56 0.30
111 5 0.03
112 2 0.01
114 4 0.02
115 27 0.14
116 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (106 bp):
CGTTGGCCTTGAATCAACATATTGGCACTTGTTAAACATCTTTTCAAGTCCAATATCGCTAGCCT
TGAATCAGACATTAGCACCTTCTTTTCTTTAAGTCCATTAT
Found at i:721268 original size:19 final size:19
Alignment explanation
Indices: 721240--721311 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
721230 AACCCTTGAA
*
721240 TGTATCGATACATGTTCAT
1 TGTATCGATACATGCTCAT
*
721259 TGTATTGATACATGCTCAT
1 TGTATCGATACATGCTCAT
* **
721278 TGTATCGATAGATGGACAAT
1 TGTATCGATACATGCTC-AT
721298 TGTATCGATACATG
1 TGTATCGATACATG
721312 AAACTGACAG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 30 0.67
20 15 0.33
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGCTCAT
Found at i:721379 original size:13 final size:13
Alignment explanation
Indices: 721361--721385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
721351 CATGACGCAT
721361 TGTATCGATACAA
1 TGTATCGATACAA
721374 TGTATCGATACA
1 TGTATCGATACA
721386 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:721383 original size:33 final size:33
Alignment explanation
Indices: 721341--721405 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
721331 TACCACTATT
* *
721341 TGTATCGATACATGACGCATTGTATCGATACAA
1 TGTATCGATACATGACGAATTGTATCAATACAA
*
721374 TGTATCGATACATGATGAATTGTATCAATACA
1 TGTATCGATACATGACGAATTGTATCAATACA
721406 TTGTTTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGACGAATTGTATCAATACAA
Found at i:721399 original size:20 final size:19
Alignment explanation
Indices: 721340--721406 Score: 56
Period size: 20 Copynumber: 3.7 Consensus size: 19
721330 CTACCACTAT
*
721340 TTGTATCGATACATGACGCA
1 TTGTATCGATACATGA-GAA
721360 TTGTATCGATAC-----AA
1 TTGTATCGATACATGAGAA
721374 -TGTATCGATACATGATGAA
1 TTGTATCGATACATGA-GAA
*
721393 TTGTATCAATACAT
1 TTGTATCGATACAT
721407 TGTTTTAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
19 2 0.05
20 24 0.63
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:723141 original size:13 final size:13
Alignment explanation
Indices: 723123--723152 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
723113 ATACATTGTT
723123 CATTGTATCGATA
1 CATTGTATCGATA
723136 CATTGTATCGATA
1 CATTGTATCGATA
723149 CATT
1 CATT
723153 CTGGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:725687 original size:51 final size:51
Alignment explanation
Indices: 725602--725698 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
725592 TCTAAACCCG
* * *
725602 TTTTTTTTCTAAAACACCAATTTTCCACAGTCGAGAATACTCCAACTCCGA
1 TTTTATTTCCAAAACACCAATTTTCCACAATCGAGAATACTCCAACTCCGA
** * *
725653 TTTTATTTCCAAAACACCAATTTTTTACAATCGAGGATACTTCAAC
1 TTTTATTTCCAAAACACCAATTTTCCACAATCGAGAATACTCCAAC
725699 CCCATTATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (51 bp):
TTTTATTTCCAAAACACCAATTTTCCACAATCGAGAATACTCCAACTCCGA
Found at i:725848 original size:79 final size:79
Alignment explanation
Indices: 725730--725913 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 79
725720 CTTCCACCTT
* * * *
725730 GTTATTTTCGAGGGGATACTCAAACCCTGGCTTTATTTCTAAAATATTGA-TTTCTCACAATCA-
1 GTTATTTTCGAGGGGATACTCAAACCCCGGCCTTATTTCTAAAACATAGATTTTC-CACAATCAG
725793 AGGATACTCTAACCCC
65 A-GATACTCTAACCCC
* * * * * *
725809 GTTATTTTTGCGGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATAGATTTTCCATAATCGGA
1 GTTATTTTCGAGGGGATACTCAAACCCCGGCCTTATTTCTAAAACATAGATTTTCCACAATCAGA
*
725874 GATACTCTAATCCC
66 GATACTCTAACCCC
* * *
725888 GTTATTTTCGAAGAGATACTCTAACC
1 GTTATTTTCGAGGGGATACTCAAACC
725914 TCGATTTTAT
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
79 82 0.94
80 5 0.06
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (79 bp):
GTTATTTTCGAGGGGATACTCAAACCCCGGCCTTATTTCTAAAACATAGATTTTCCACAATCAGA
GATACTCTAACCCC
Found at i:725924 original size:79 final size:79
Alignment explanation
Indices: 725795--725959 Score: 181
Period size: 79 Copynumber: 2.1 Consensus size: 79
725785 CACAATCAAG
* ** * * *
725795 GATACTCTAACCCCGTTATTTTTGCGGGGATACTCCAACCCCGGCCTTATTTCTA-AAGCA-TAG
1 GATACTCTAACCCCGTTATTTTCGAAGAGATACTCCAACCCCGACCTTATTTCCAGAA-CACT-G
725858 ATTTTCCATAATCGGA
64 ATTTTCCATAATCGGA
* * * ** *
725874 GATACTCTAATCCCGTTATTTTCGAAGAGATACTCTAACCTCGATTTTATTTCCAGAACACTGGT
1 GATACTCTAACCCCGTTATTTTCGAAGAGATACTCCAACCCCGACCTTATTTCCAGAACACTGAT
*
725939 TTTCCATAATCGGG
66 TTTCCATAATCGGA
725953 GATACTC
1 GATACTC
725960 CAGCCCCATT
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
79 68 0.96
80 3 0.04
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (79 bp):
GATACTCTAACCCCGTTATTTTCGAAGAGATACTCCAACCCCGACCTTATTTCCAGAACACTGAT
TTTCCATAATCGGA
Found at i:729675 original size:52 final size:52
Alignment explanation
Indices: 729597--729724 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
729587 CGAAATATGA
*
729597 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
729649 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
729701 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
729725 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:729751 original size:13 final size:13
Alignment explanation
Indices: 729733--729757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
729723 CAAAGATCAG
729733 TGTATCGATACAA
1 TGTATCGATACAA
729746 TGTATCGATACA
1 TGTATCGATACA
729758 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:729838 original size:13 final size:13
Alignment explanation
Indices: 729820--729844 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
729810 CAAAAAAAAA
729820 TGTATCGATACAT
1 TGTATCGATACAT
729833 TGTATCGATACA
1 TGTATCGATACA
729845 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:730347 original size:55 final size:55
Alignment explanation
Indices: 730250--730896 Score: 345
Period size: 49 Copynumber: 12.6 Consensus size: 55
730240 AAGTGATAAC
* * * * **
730250 GATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAA
* ** *
730305 GATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT--G----AA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAA
* *
730354 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAAGTGATA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTT---AA--A-GATGAG--AA---A-A
730419 AA
54 AA
* * * * ** *
730421 GATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAA
* ** * *
730476 GATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-AAAAT
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAA
730529 G-TGCCAATATGCTGATTCAAGGCCAGCTATATT-AGACTT--A-A--AG------
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGA-ACTTAAAGATGAGAAAAAA
* * *
730572 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--G----AA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAA
* *
730620 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AG------
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAA
* * * *
730664 G-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT--G----AA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAA
* *
730712 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--G----AA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAA
* *
730761 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G----AA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAA
* * * * * *
730810 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-G--AAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAA
* *
730862 GGTGCCAATATGCTAATTCAAGGCCAGCTATATTG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTG
730897 GGCTTAGAGG
Statistics
Matches: 493, Mismatches: 60, Indels: 81
0.78 0.09 0.13
Matches are distributed among these distances:
43 69 0.14
44 1 0.00
45 2 0.00
46 6 0.01
47 1 0.00
48 3 0.01
49 205 0.42
50 2 0.00
51 1 0.00
52 66 0.13
53 6 0.01
54 2 0.00
55 78 0.16
56 1 0.00
57 1 0.00
59 2 0.00
61 6 0.01
62 1 0.00
64 2 0.00
67 38 0.08
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (55 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAA
Found at i:730391 original size:171 final size:171
Alignment explanation
Indices: 730085--730571 Score: 687
Period size: 171 Copynumber: 2.8 Consensus size: 171
730075 GATAAAAGGA
* * * *
730085 CCAATACGTTGATTCACGGCCAACGATATTGGG-TTCAAAGATGAGAAAAAGGA--TAAAAGAGC
1 CCAATATGTTGATTCACGGCCAACGATATTGGGCTT-AAAGATGAGAAAAAGGATGTCAACGTGC
** * * * * * * *
730147 CAATATGC--GGCTAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAG
65 TGAT-T-CAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAG
* *
730210 CGACATTGGACTTAAAGATGAAGATGAGAAAAGTGATAACGATG
128 CGATATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATG
*
730254 CCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAAGATGTCAACGTGCT
1 CCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCT
730319 GATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGA
66 GATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGA
* *
730384 TATTGGACTTAAAAATGATGATGAGAAAAGTGATAAAGATG
131 TATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATG
*
730425 CCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCT
1 CCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCT
*
730490 GATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAG
66 GATTCAAGGCCAGCTACATTGAACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAG
* *
730555 CTATATTAGACTTAAAG
128 CGATATTGGACTTAAAG
730572 GTGCCAATGT
Statistics
Matches: 286, Mismatches: 24, Indels: 11
0.89 0.07 0.03
Matches are distributed among these distances:
169 49 0.17
170 3 0.01
171 191 0.67
172 4 0.01
174 39 0.14
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (171 bp):
CCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCT
GATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGA
TATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATG
Found at i:730628 original size:49 final size:49
Alignment explanation
Indices: 730486--730902 Score: 534
Period size: 49 Copynumber: 8.6 Consensus size: 49
730476 GATGTCAACG
* *
730486 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* * *
730538 TGCTGATTCAAGGCCAGCTATATTAGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
730581 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * *
730630 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
*
730673 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
730722 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
730771 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
730820 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAGGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AA-GATGCCAATA
* * *
730872 TGCTAATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
730903 GAGGGGTTGC
Statistics
Matches: 322, Mismatches: 28, Indels: 30
0.85 0.07 0.08
Matches are distributed among these distances:
43 69 0.21
44 5 0.02
45 2 0.01
46 3 0.01
47 1 0.00
48 5 0.02
49 168 0.52
50 2 0.01
51 4 0.01
52 63 0.20
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:730660 original size:92 final size:92
Alignment explanation
Indices: 730485--730853 Score: 540
Period size: 92 Copynumber: 3.9 Consensus size: 92
730475 GGATGTCAAC
* *
730485 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAAG
* *
730550 GCCAGCTATATTAGACTTAAAGGTGCCAAT
63 GCCAGCTACATTGGACTTAAAGGTGCCAAT
730580 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* *
730645 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCTACATTGGACTTAAAGGTGCCAAT
*
730672 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
730737 AGCTACATTGGACTTAAAGATGAAGATGCCAAT
66 AGCTACATTGGACTT-AA-A-G--G-TGCCAAT
* * * * * *
730770 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
730835 AGCTACATTGGACTTAAAG
66 AGCTACATTGGACTTAAAG
730854 ATGGAAAGGG
Statistics
Matches: 254, Mismatches: 14, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
92 125 0.49
93 2 0.01
94 5 0.02
95 38 0.15
96 1 0.00
97 3 0.01
98 80 0.31
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCTACATTGGACTTAAAGGTGCCAAT
Found at i:730750 original size:141 final size:142
Alignment explanation
Indices: 730529--730902 Score: 546
Period size: 141 Copynumber: 2.6 Consensus size: 142
730519 GATGGAAAAT
* * * * *
730529 GTGCCAATATGCTGATTCAAGGCCAGCTATATTAGACTT-AA-A-G--GTGCCAATGTGCTGATT
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGTGCCAATATGCTGATT
730589 CAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATT
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATT
730654 GGACTT-A-AAG
131 GGACTTAAGAAG
730664 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG-TGCCAATATGCTGAT
730729 TCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATAT
65 TCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATAT
730794 TGGACTTAAAGATGAAG
130 TGGACTT--A-A-GAAG
730811 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAGGGTGCCAATATGCT
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AA--GTGCCAATATGCT
* * *
730876 AATTCAAGGCCAGCTATATTGGGCTTA
62 GATTCAAGGCCAGCTACATTGGACTTA
730903 GAGGGGTTGC
Statistics
Matches: 215, Mismatches: 8, Indels: 17
0.90 0.03 0.07
Matches are distributed among these distances:
135 35 0.16
136 2 0.01
137 1 0.00
138 1 0.00
140 1 0.00
141 86 0.40
145 1 0.00
147 48 0.22
148 1 0.00
149 2 0.01
150 36 0.17
151 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (142 bp):
GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGTGCCAATATGCTGATT
CAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATT
GGACTTAAGAAG
Found at i:730914 original size:98 final size:96
Alignment explanation
Indices: 730486--730902 Score: 426
Period size: 92 Copynumber: 4.3 Consensus size: 96
730476 GATGTCAACG
* * * *
730486 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGG
1 TGCTGATTCAAGGCCAGCTATATTGGACTT-AAGAT-G---AGGTGCCAATATGCTGAGTCAAGG
* * *
730551 CCAGCTATATTAGACTT----A--AAGGTGCCAATG
61 CCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
730581 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTATATTGGACTT-AAGATG-AGGTGCCAATATGCTGAGTCAAGGCCA
* * *
730646 GCGATATTGGACTT----A--AAGGTGCCAATG
64 GCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * * *
730673 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTATATTGGACTT-AAGATG-AGGTGCCAATATGCTGAGTCAAGGCCA
*
730738 GCTACATTGGACTTAAAGATGAAGATGCCAATA
64 GCTACATTGGACTTAAAGATGAAGGTGCCAATA
* *
730771 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTATATTGGACTT-AAGATG-AGGTGCCAATATGCTGAGTCAAGGCCA
730836 GCTACATTGGACTTAAAGATGGAAAGGGTGCCAATA
64 GCTACATTGGACTTAAAGAT-G-AA-GGTGCCAATA
* *
730872 TGCTAATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTA
730903 GAGGGGTTGC
Statistics
Matches: 293, Mismatches: 20, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
92 127 0.43
94 1 0.00
95 35 0.12
96 1 0.00
98 89 0.30
99 1 0.00
100 3 0.01
101 36 0.12
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (96 bp):
TGCTGATTCAAGGCCAGCTATATTGGACTTAAGATGAGGTGCCAATATGCTGAGTCAAGGCCAGC
TACATTGGACTTAAAGATGAAGGTGCCAATA
Found at i:731005 original size:34 final size:33
Alignment explanation
Indices: 730907--731001 Score: 181
Period size: 34 Copynumber: 2.8 Consensus size: 33
730897 GGCTTAGAGG
730907 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
730940 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
730974 GGTTGCCACCGACTTGTGTGGGCTTTGG
1 GGTTGCCACCGACTTGTGTGGGCTTTGG
731002 GAAGGAAAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
33 28 0.46
34 33 0.54
ACGTcount: A:0.16, C:0.19, G:0.37, T:0.28
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
Found at i:731028 original size:37 final size:33
Alignment explanation
Indices: 731006--731549 Score: 527
Period size: 34 Copynumber: 16.9 Consensus size: 33
730996 CTTTGGGAAG
731006 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA
*
731040 GGGAAAAAGAGCGCCACGGAGTTGTGGGCTTTAAAAA
1 --GAAAAAG-GTGCCACGGAGTTGTGGGCTTT-AAAA
731077 GAAAAAGGTGCCACGGAGTTGTGGGCTTT--AA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
*
731108 -AAAGA-GTGCCACGGAGTTGTGGGCTTT--AA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
*
731137 -AAAGA-GTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA
*
731169 GAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
731202 G-AAAAGGTGCCACGGAGTTGTGGGC-TTAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
*
731233 G-----GGTGCCACGGAGTTGTGGACTTTGAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA
**
731262 GGAAAAAAGAGTGCCACAAAGTTGTGGGC-TTAAAA
1 -G-AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAA
*
731297 GAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA
**
731331 GGAAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAA
1 -G-AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAA
*
731367 GAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA
* *
731401 GAAGAAGGTGCCACGGAGTTGTGGGC-TTAAAC
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
*
731433 G-----GGTGCCACGGAGTTGTGGAC-TTAAAGA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA-A
* *
731461 TGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAA
1 -GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
* *
731495 G-----GGTGCCACGGCGTTGTGGAC-TTAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
* * * *
731522 GAAAAA-ATGCCACTGAGTCGTGGACTTT
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTT
731550 GAGACAAAAT
Statistics
Matches: 438, Mismatches: 34, Indels: 76
0.80 0.06 0.14
Matches are distributed among these distances:
27 50 0.11
28 18 0.04
29 56 0.13
30 5 0.01
31 24 0.05
32 48 0.11
33 38 0.09
34 101 0.23
35 18 0.04
36 19 0.04
37 61 0.14
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (33 bp):
GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
Found at i:731323 original size:128 final size:131
Alignment explanation
Indices: 731006--731551 Score: 598
Period size: 128 Copynumber: 4.2 Consensus size: 131
730996 CTTTGGGAAG
* *
731006 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGCGCCACGGAGTTGTGGGCTT
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTT
* *
731071 TAAAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTTGTGGGCTTT
63 TAAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGTGCCACGGAGTTGTGGACTTT
731135 --AA
128 AAAA
*
731137 -AAAGA-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-A
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
731199 AAA-G-AAAAGGTGCCACGGAGTTGTGGGC-TT-AAAAGGGTGCCACGGAGTTGTGGACTTTGAA
66 AAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGTGCCACGGAGTTGTGGACTTT-AA
731260 AA
130 AA
**
731262 GGAAAAAAGAGTGCCACAAAGTTGTGGGC-TT-AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTT
1 -G-AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTT
* **
731325 TGAAAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTG
63 TAAAAAGG-AAAAAG-GTGCCACGGAGTTGTGGGCTTT-AAA-AAG--GGTGCCACGGAGTTGTG
*
731390 GGCTTTGAAAA
122 GACTTT-AAAA
* * *
731401 GAAGAAGGTGCCACGGAGTTGTGGGC-TT---AA-ACG--GGTGCCACGGAGTTGTGGAC-TTAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
* * * * *
731458 AGATGAAAAAAGTGCCACGGAATTGTGGGCTTT-AAAAGGGTGCCACGGCGTTGTGGAC-TTAAA
66 AAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAA
731521 A
131 A
* * * *
731522 GAAAAA-ATGCCACTGAGTCGTGGACTTTGA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGA
731552 GACAAAATGC
Statistics
Matches: 363, Mismatches: 30, Indels: 52
0.82 0.07 0.12
Matches are distributed among these distances:
120 15 0.04
121 11 0.03
122 28 0.08
123 20 0.06
124 24 0.07
125 10 0.03
126 23 0.06
127 6 0.02
128 56 0.15
129 38 0.10
130 28 0.08
131 19 0.05
132 5 0.01
133 19 0.05
134 4 0.01
136 21 0.06
137 8 0.02
138 1 0.00
139 27 0.07
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (131 bp):
GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
AAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAA
A
Found at i:731327 original size:69 final size:67
Alignment explanation
Indices: 730990--731544 Score: 543
Period size: 69 Copynumber: 8.6 Consensus size: 67
730980 CACCGACTTG
* * * *
730990 TGTGGGCTTTGGGAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGCGC
1 TGTGGGCTTT-GAAAAGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAA--GAAGAAG-GTGC
731054 CACGGAGT
60 CACGGAGT
* *
731062 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA-AAG-A-GTGCCACGGA
1 TGTGGGCTTTGAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAGAAGGTGCCACGGA
731123 GT
66 GT
731125 TGTGGGCTTT------AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACG
1 TGTGGGCTTTGAAAAGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGAAGAAGGTGCCACG
731184 GAGT
64 GAGT
731188 TGTGGGCTTT-AAAAG-AAAAG-GTGCCACGGAGTTGTGGGCTT--AA-AAG--GGTGCCACGGA
1 TGTGGGCTTTGAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAGAAGGTGCCACGGA
731245 GT
66 GT
* **
731247 TGTGGACTTTGAAAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTAAAAGAAGAAGGTGCCACG
1 TGTGGGCTTTGAAAA-G-AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAGAAGGTGCCACG
731312 GAGT
64 GAGT
**
731316 TGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCAC
1 TGTGGGCTTTGAAAA-G-AAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGAAGAAGGTGCCAC
731381 GGAGT
63 GGAGT
* *
731386 TGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGTTGTGGGCTT--AA-ACG--GGTGCCACGGA
1 TGTGGGCTTTGAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAGAAGGTGCCACGGA
731445 GT
66 GT
* * *
731447 TGTGGAC-TT-AAAGATGAAAAA-AGTGCCACGGAATTGTGGGCTT-TAA-AAG--GGTGCCACG
1 TGTGGGCTTTGAAA-A-GAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAGAAGGTGCCACG
*
731505 GCGT
64 GAGT
* * *
731509 TGTGGAC-TT-AAAAGAAAAA-A-TGCCACTGAGTCGTGG
1 TGTGGGCTTTGAAAAGAAAAAGAGTGCCACGGAGTTGTGG
731545 ACTTTGAGAC
Statistics
Matches: 434, Mismatches: 23, Indels: 65
0.83 0.04 0.12
Matches are distributed among these distances:
57 6 0.01
58 19 0.04
59 40 0.09
60 17 0.04
61 52 0.12
62 31 0.07
63 50 0.12
64 21 0.05
65 3 0.01
66 25 0.06
67 25 0.06
68 5 0.01
69 60 0.14
70 42 0.10
71 28 0.06
72 10 0.02
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (67 bp):
TGTGGGCTTTGAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAGAAGGTGCCACGGA
GT
Found at i:731545 original size:31 final size:30
Alignment explanation
Indices: 731510--731641 Score: 129
Period size: 31 Copynumber: 4.3 Consensus size: 30
731500 CCACGGCGTT
731510 GTGGACTTAAAAGAAAAAATGCCACTGAGTC
1 GTGGACTT-AAAGAAAAAATGCCACTGAGTC
** *
731541 GTGGACTTTGAGACAAAATGCCACTGAGTC
1 GTGGACTTAAAGAAAAAATGCCACTGAGTC
** *
731571 GTGGACTTTAAAGAGAAGGATGCCACTGCGTC
1 GTGGAC-TTAAAGA-AAAAATGCCACTGAGTC
** * * *
731603 GTGGACTTTGAGCAGAGATTGCCACTGAGTC
1 GTGGACTTAAAG-AAAAAATGCCACTGAGTC
731634 GTGGACTT
1 GTGGACTT
731642 TGAGAAGAGA
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
30 25 0.30
31 38 0.46
32 20 0.24
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (30 bp):
GTGGACTTAAAGAAAAAATGCCACTGAGTC
Found at i:731604 original size:62 final size:63
Alignment explanation
Indices: 731510--731651 Score: 191
Period size: 62 Copynumber: 2.3 Consensus size: 63
731500 CCACGGCGTT
*
731510 GTGGACTTAAAAGA-AAAAATGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACTGAGTC
1 GTGGACTTTAAAGAGAAAAATGCCACTGAGTCGTGGACTTTGAG-CAGAGAATGCCACTGAGTC
** * *
731571 GTGGACTTTAAAGAGAAGGATGCCACTGCGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTC
1 GTGGACTTTAAAGAGAAAAATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTC
731634 GTGGACTTTGAGAAGAGA
1 GTGGACTTT-A-AAGAGA
731652 TTTGAAGAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
61 15 0.21
62 27 0.38
63 22 0.31
64 1 0.01
65 6 0.08
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.23
Consensus pattern (63 bp):
GTGGACTTTAAAGAGAAAAATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTC
Found at i:731642 original size:31 final size:31
Alignment explanation
Indices: 731529--731653 Score: 150
Period size: 31 Copynumber: 4.0 Consensus size: 31
731519 AAAGAAAAAA
*
731529 TGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAG-CAGAGAT
*
731559 TGCCACTGAGTCGTGGACTTTAAAG-AGAAGGA-
1 TGCCACTGAGTCGTGGACTTT-GAGCAG-A-GAT
*
731591 TGCCACTGCGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
*
731622 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
731653 T
1 T
731654 TGAAGAATTG
Statistics
Matches: 83, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
29 1 0.01
30 23 0.28
31 36 0.43
32 22 0.27
33 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
Found at i:737742 original size:27 final size:27
Alignment explanation
Indices: 737687--737742 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
737677 TTTTTGATTG
**
737687 AAAACGGGGTTGGAGTGTCCCCTCGGA
1 AAAACGGGGTTGGAGTGTCCCCGAGGA
* *
737714 AAAATGGGGTTGGAGTGTCCCCGATGA
1 AAAACGGGGTTGGAGTGTCCCCGAGGA
737741 AA
1 AA
737743 TTTTGATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.36, T:0.20
Consensus pattern (27 bp):
AAAACGGGGTTGGAGTGTCCCCGAGGA
Found at i:739933 original size:52 final size:52
Alignment explanation
Indices: 739855--739982 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
739845 CGAAATATGA
*
739855 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
739907 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
739959 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
739983 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:740009 original size:13 final size:13
Alignment explanation
Indices: 739991--740015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
739981 CAAAGATCAG
739991 TGTATCGATACAA
1 TGTATCGATACAA
740004 TGTATCGATACA
1 TGTATCGATACA
740016 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:740096 original size:13 final size:13
Alignment explanation
Indices: 740078--740102 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
740068 CAAAAAAAAA
740078 TGTATCGATACAT
1 TGTATCGATACAT
740091 TGTATCGATACA
1 TGTATCGATACA
740103 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:747024 original size:13 final size:13
Alignment explanation
Indices: 747006--747030 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
746996 CAAAGATCAG
747006 TGTATCGATACAA
1 TGTATCGATACAA
747019 TGTATCGATACA
1 TGTATCGATACA
747031 TTTAAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:747107 original size:19 final size:19
Alignment explanation
Indices: 747083--747134 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
747073 AGCGATACAT
747083 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
747102 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
747121 TGTATCGATACAAA
1 TGTATCGATACAAA
747135 TTGTTAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:748079 original size:49 final size:49
Alignment explanation
Indices: 747873--748349 Score: 493
Period size: 49 Copynumber: 9.8 Consensus size: 49
747863 CGAAGAATGA
* * * * * *
747873 CAATGTGCTGATTCATGGCCAACGACATTGGACTTGAACAAGAA--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAAGGTGC
* * ** * * * ** *
747920 CAATGTGTTGAGACAAGGTCAGCGACTTTGGGCTTAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GAAAAAGGTGC
** *
747972 CAATATGCTGATTCAAGGCCAGCGATTTTGGA-TT-----TAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAAGGTGC
* * *
748015 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAAAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAAGGTGC
* *
748064 TAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAAGGTGC
* **
748113 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAAGGTGC
* *
748162 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATTACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA--A-AAAGGTGC
* * **
748214 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAAGGTGC
* * *
748263 CAATGTGCTGATTCAAGGCTAGCGACTTTGGACTTAAAGAAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAAGGTGC
* * *
748312 CAATATGCTGATTCAAGGCCAGTGATATTGGGCTTAAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
748350 AGAAGATGCC
Statistics
Matches: 358, Mismatches: 58, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
43 36 0.10
44 2 0.01
47 27 0.08
49 218 0.61
50 2 0.01
51 2 0.01
52 71 0.20
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAAGGTGC
Found at i:748515 original size:32 final size:32
Alignment explanation
Indices: 748356--748539 Score: 219
Period size: 33 Copynumber: 5.7 Consensus size: 32
748346 TAAAAGAAGA
* * * * *
748356 TGCCACCAACTTGTGGGGGCTTTTGAAGAACGT
1 TGCCACCGACTTGTGTGGGCTTTAG-AGAATGG
*
748389 TGCCACCGACTTGTGTGGGCTTTAAAGAATGG
1 TGCCACCGACTTGTGTGGGCTTTAGAGAATGG
748421 TTGCCACCGACTTGTGTGGGCTTTAGAGAATGG
1 -TGCCACCGACTTGTGTGGGCTTTAGAGAATGG
* * * *
748454 TTGCCTCCGACTTGTGTAGGTTTTCGAGAATGG
1 -TGCCACCGACTTGTGTGGGCTTTAGAGAATGG
*
748487 TGCCACTGACTTGTGTGGGCTTTAGAGAATGG
1 TGCCACCGACTTGTGTGGGCTTTAGAGAATGG
*
748519 TGCCACTGA-TT-TGTGGGCTTT
1 TGCCACCGACTTGTGTGGGCTTT
748540 GAAGGTTTCC
Statistics
Matches: 134, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
30 10 0.07
31 2 0.01
32 41 0.31
33 81 0.60
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (32 bp):
TGCCACCGACTTGTGTGGGCTTTAGAGAATGG
Found at i:750040 original size:10 final size:9
Alignment explanation
Indices: 750025--750075 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
750015 TTTTTTCTTT
750025 TTTG-TTTG
1 TTTGTTTTG
750033 TTTGTGTTTG
1 TTTGT-TTTG
750043 TTT-TTTT-
1 TTTGTTTTG
*
750050 TTTGTTTTT
1 TTTGTTTTG
750059 TTTGTTTTG
1 TTTGTTTTG
750068 TTTGTTTT
1 TTTGTTTT
750076 TTTTTGTAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
7 3 0.08
8 11 0.29
9 17 0.45
10 7 0.18
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (9 bp):
TTTGTTTTG
Found at i:750044 original size:14 final size:12
Alignment explanation
Indices: 750001--750078 Score: 65
Period size: 12 Copynumber: 6.4 Consensus size: 12
749991 ATCCGAACCC
750001 TTTTTG-TTGTT
1 TTTTTGTTTGTT
*
750012 GTTTTT-TTT-CT
1 -TTTTTGTTTGTT
750023 TTTTTGTTTGTT
1 TTTTTGTTTGTT
750035 TGTGTTTGTTT-TT
1 T-T-TTTGTTTGTT
*
750048 TTTTTGTTTTTTT
1 TTTTTG-TTTGTT
750061 TGTTTTGTTTGTT
1 T-TTTTGTTTGTT
750074 TTTTT
1 TTTTT
750079 TTGTAGAGGA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
10 5 0.09
11 8 0.15
12 17 0.31
13 13 0.24
14 12 0.22
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.83
Consensus pattern (12 bp):
TTTTTGTTTGTT
Found at i:750044 original size:30 final size:29
Alignment explanation
Indices: 750010--750080 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 29
750000 CTTTTTGTTG
750010 TTGTTTTTTTTCTT-TTTTGTTTGTTTGTGT
1 TTGTTTTTTTT-TTGTTTTGTTTGTTT-TGT
*
750040 TTGTTTTTTTTTTGTTTTTTTTGTTTTGT
1 TTGTTTTTTTTTTGTTTTGTTTGTTTTGT
750069 TTGTTTTTTTTT
1 TTGTTTTTTTTT
750081 GTAGAGGACG
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
29 17 0.44
30 22 0.56
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (29 bp):
TTGTTTTTTTTTTGTTTTGTTTGTTTTGT
Found at i:750046 original size:29 final size:29
Alignment explanation
Indices: 750014--750082 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
750004 TTGTTGTTGT
750014 TTTTTTTCTT-TTTTGTTTGTTTGTGTTTG
1 TTTTTTTCTTGTTTTGTTTGTTT-TGTTTG
* *
750043 TTTTTTTTTTGTTTTTTTTGTTTTGTTTG
1 TTTTTTTCTTGTTTTGTTTGTTTTGTTTG
750072 TTTTTTT-TTGT
1 TTTTTTTCTTGT
750083 AGAGGACGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 4 0.11
29 22 0.59
30 11 0.30
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.84
Consensus pattern (29 bp):
TTTTTTTCTTGTTTTGTTTGTTTTGTTTG
Found at i:763994 original size:13 final size:13
Alignment explanation
Indices: 763976--764000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
763966 CAAAGATCAG
763976 TGTATCGATACAA
1 TGTATCGATACAA
763989 TGTATCGATACA
1 TGTATCGATACA
764001 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:772712 original size:1 final size:1
Alignment explanation
Indices: 772708--772792 Score: 62
Period size: 1 Copynumber: 85.0 Consensus size: 1
772698 CCTTCTTTTT
* * * * * * * * * *
772708 AAAAAACAAAAAAACAACACAAAAAACAAAACAATAAAACAAAAAAAAAAAACAAAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
772773 AAAAAACAAAAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAA
772793 GAGAGCAAAT
Statistics
Matches: 60, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Done.