Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 293 of 344
Found at i:97919283 original size:168 final size:168
Alignment explanation
Indices: 97918852--97919531 Score: 604
Period size: 178 Copynumber: 4.0 Consensus size: 168
97918842 TCTACAATCC
* * * * * * * * * *
97918852 TCAGTCTGCTTCCTTGCTATCTCAGGAAGAT---TCTACAATCTTCAACCTTCTCTCTTGATACC
1 TCAGTCTACTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTCCCTTGCTACT
* ** *
97918914 TC-AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTTTGGAAGATGAGATTCGCC
66 TCAAG-GAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCC
* * * * *
97918978 ATTTTCGATCTGCTCCACTACT-GCTTAGGGAGATAAGATCTACAATAT
130 ATCTTCGATCTGCTCCACTGCTATCTCA--G-G---AG----ACAAGAT
* * * * *
97919026 TCAGTCTACTTCATTGCTACCTCAGGAAGATAAGACTACAAACTTTAACCTGCTCTCTTGCTACC
1 TCAGTCTACTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTCCCTTGCTA-C
* * * * * * *
97919091 TT--AGAGAGATAAGGCTGATGGCTAAAAACTACTCCCCTACTACCCCGGGAAGATAAGATTCAC
65 TTCAAG-GAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGC
* *
97919154 CATTTTCAATCTGC-CTCACTGCTATCTCGAGGAGACAAGA-
129 CATCTTCGATCTGCTC-CACTGCTATCTC-AGGAGACAAGAT
* * *
97919194 TCAGTCTACTCCCTTGCTACCTCAGGAAGATAATACTACAATCATTAGCCTACTCCCTTGCTACT
1 TCAGTCTACTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTCCCTTGCTACT
* * *
97919259 TCAAGGAAATAAGTCTGGTGGCTAAAATTTGCTCCCTTGCTACCTCGGGAAGATAAGATTCGCCA
66 TCAAGGAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCA
* * *
97919324 TCTTCGATCTGCTCCACCGTTATCTCAGGGAGATAAGATCT
131 TCTTCGATCTGCTCCACTGCTATCTCA-GGAGACAAGA--T
* * * *
97919365 TCAATCTTCAGTTTGCTCCCTTGCTACCTCAGGAAGATAGGACTACAATCTTTAGCTTGTTCCCT
1 TCAGTC-T-A-----CTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTCCCT
* * * *
97919430 TGCTACCTCAGGGAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTTGGGAAGATAAAA
59 TGCTACTTCAAGGAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGA
* *
97919495 TTCGCCGTCTTCGATCTGCTCCACTGCCATCTCAGGA
124 TTCGCCATCTTCGATCTGCTCCACTGCTATCTCAGGA
97919532 AGATAAAATC
Statistics
Matches: 421, Mismatches: 64, Indels: 39
0.80 0.12 0.07
Matches are distributed among these distances:
167 4 0.01
168 134 0.32
169 8 0.02
171 5 0.01
172 1 0.00
173 3 0.01
174 28 0.07
176 2 0.00
177 99 0.24
178 136 0.32
179 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (168 bp):
TCAGTCTACTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTCCCTTGCTACT
TCAAGGAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCA
TCTTCGATCTGCTCCACTGCTATCTCAGGAGACAAGAT
Found at i:97919396 original size:45 final size:45
Alignment explanation
Indices: 97919286--97919449 Score: 140
Period size: 45 Copynumber: 3.7 Consensus size: 45
97919276 GTGGCTAAAA
* *
97919286 TTTGCTCCCTTGCTACCTC-GGGAAGATAAGAT-TCGCCATCTTC-G
1 TTTGCTCCCTTGCTACCTCAGGG-AGATAAGATCT-ACAATCTTCAG
* * * * *
97919330 ATCTGCTCCAC-CGTTATCTCAGGGAGATAAGATCTTCAATCTTCAG
1 -TTTGCTCC-CTTGCTACCTCAGGGAGATAAGATCTACAATCTTCAG
* * *
97919376 TTTGCTCCCTTGCTACCTCAGGAAGATAGGA-CTACAATCTTTAG
1 TTTGCTCCCTTGCTACCTCAGGGAGATAAGATCTACAATCTTCAG
* * *
97919420 CTTGTTCCCTTGCTACCTCAGGGAAATAAG
1 TTTGCTCCCTTGCTACCTCAGGGAGATAAG
97919450 GCTGGTGGCT
Statistics
Matches: 95, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
44 37 0.39
45 52 0.55
46 6 0.06
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (45 bp):
TTTGCTCCCTTGCTACCTCAGGGAGATAAGATCTACAATCTTCAG
Found at i:97919429 original size:44 final size:45
Alignment explanation
Indices: 97919202--97919449 Score: 145
Period size: 44 Copynumber: 5.6 Consensus size: 45
97919192 GATCAGTCTA
* * *
97919202 CTCCCTTGCTACCTCAGGAAGATAATA-CTACAATCATT-AGCCTA
1 CTCCCTTGCTACCTCAGGAAGATAAGATCTACAATC-TTCAGCTTG
* ***** ** **
97919246 CTCCCTTGCTACTTCAAGGAA-ATAAG-TCTGGTGGCTAAAATTTG
1 CTCCCTTGCTACCTC-AGGAAGATAAGATCTACAATCTTCAGCTTG
* * * *
97919290 CTCCCTTGCTACCTCGGGAAGATAAGAT-TCGCCATCTTC-GATCTG
1 CTCCCTTGCTACCTCAGGAAGATAAGATCT-ACAATCTTCAGCT-TG
* * * * * *
97919335 CTCCAC-CGTTATCTCAGGGAGATAAGATCTTCAATCTTCAGTTTG
1 CTCC-CTTGCTACCTCAGGAAGATAAGATCTACAATCTTCAGCTTG
* *
97919380 CTCCCTTGCTACCTCAGGAAGATAGGA-CTACAATCTTTAGCTTG
1 CTCCCTTGCTACCTCAGGAAGATAAGATCTACAATCTTCAGCTTG
*
97919424 TTCCCTTGCTACCTCAGGGAA-ATAAG
1 CTCCCTTGCTACCTCA-GGAAGATAAG
97919450 GCTGGTGGCT
Statistics
Matches: 152, Mismatches: 40, Indels: 24
0.70 0.19 0.11
Matches are distributed among these distances:
43 5 0.03
44 78 0.51
45 65 0.43
46 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (45 bp):
CTCCCTTGCTACCTCAGGAAGATAAGATCTACAATCTTCAGCTTG
Found at i:97920251 original size:11 final size:11
Alignment explanation
Indices: 97920235--97920263 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
97920225 ATTATTTCAA
97920235 TGCAACATGCT
1 TGCAACATGCT
97920246 TGCAACATGCT
1 TGCAACATGCT
97920257 TGCAACA
1 TGCAACA
97920264 AATCATAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (11 bp):
TGCAACATGCT
Found at i:97920969 original size:46 final size:46
Alignment explanation
Indices: 97920902--97920993 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
97920892 CCTCCGGAGA
97920902 AAGCTTTCTTCACTACGTAGGCCCCCTCCCAATTTAGCATCCATTT
1 AAGCTTTCTTCACTACGTAGGCCCCCTCCCAATTTAGCATCCATTT
97920948 AAGCTTTCTTCACTACGTAGGCCCCCTCCCAATTTAGCATCCATTT
1 AAGCTTTCTTCACTACGTAGGCCCCCTCCCAATTTAGCATCCATTT
97920994 CCCTCTGAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.22, C:0.35, G:0.11, T:0.33
Consensus pattern (46 bp):
AAGCTTTCTTCACTACGTAGGCCCCCTCCCAATTTAGCATCCATTT
Found at i:97928132 original size:19 final size:20
Alignment explanation
Indices: 97928108--97928154 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
97928098 TGACTGACTT
* *
97928108 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
97928127 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
97928147 -AATGCAAA
1 TAATGCAAA
97928155 AAAAAGGCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:97931869 original size:16 final size:14
Alignment explanation
Indices: 97931834--97931871 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
97931824 CATAATATAT
*
97931834 ACAATATAATTCAA
1 ACAATATAATTAAA
97931848 ACAATATATATTAAA
1 ACAATATA-ATTAAA
97931863 ACAA-ATAAT
1 ACAATATAAT
97931872 GAATCTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 2 0.09
14 11 0.50
15 9 0.41
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (14 bp):
ACAATATAATTAAA
Found at i:97934203 original size:5 final size:5
Alignment explanation
Indices: 97934193--97934249 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
97934183 TCTTACTGTT
* *
97934193 TTTAA TTTAA TTTAA TTTAA TTTAA TGTTCAA TATTAA ATAATA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA T-TT-AA T-TTAA TTTA-A TTTAA
97934242 TTTAA TTT
1 TTTAA TTT
97934250 TTGAAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 32 0.73
6 7 0.16
7 5 0.11
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (5 bp):
TTTAA
Found at i:97935405 original size:130 final size:130
Alignment explanation
Indices: 97935068--97935401 Score: 360
Period size: 130 Copynumber: 2.6 Consensus size: 130
97935058 GTCCAACGAA
* * * * * *
97935068 AAATCGAAACCCAGCAC-AGTAGGGCATGATTC-CTCGAATTTCTAGACATCGAACATTGCCTT-
1 AAATCGCAACACAGCACGA-TAGGGCACGATTCTC-CGAATTGCCAAACATCGAACATTGCCTTC
* * * * ** *
97935130 ATTTT---AAAGTTTAGAAAATATGAGTGAAATTTTAAAGGGATGTTCGATTATTTTGAACAAAC
64 GTTTTAAAAAATTTTA-AAGACATGAGTGAAATTCCAAAGGAATGTTCGATTATTTTGAACAAAC
*
97935192 GGG
128 AGG
* * * * *
97935195 AAATTGCAACCCAGCACGATAGGGTACGATTCTCCGAATTGCTAAACATCGAACATTTCCTTCGT
1 AAATCGCAACACAGCACGATAGGGCACGATTCTCCGAATTGCCAAACATCGAACATTGCCTTCGT
*
97935260 TTTAAAAAATTTTAAAGACATGAGTGAAATTCCAAAGGAATGTTCGATTATTTTGAGCAAACAGG
66 TTTAAAAAATTTTAAAGACATGAGTGAAATTCCAAAGGAATGTTCGATTATTTTGAACAAACAGG
* * *
97935325 AAATCGTAACACAGCACGATAGGGCACG-TTTTCCCGAATTGCCAAACATC-AGCATTGCCTTCG
1 AAATCGCAACACAGCACGATAGGGCACGATTCT-CCGAATTGCCAAACATCGAACATTGCCTTCG
*
97935388 TTTTAAAGAATTTT
65 TTTTAAAAAATTTT
97935402 TAAATGAATA
Statistics
Matches: 175, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
127 51 0.29
128 6 0.03
129 27 0.15
130 84 0.48
131 7 0.04
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (130 bp):
AAATCGCAACACAGCACGATAGGGCACGATTCTCCGAATTGCCAAACATCGAACATTGCCTTCGT
TTTAAAAAATTTTAAAGACATGAGTGAAATTCCAAAGGAATGTTCGATTATTTTGAACAAACAGG
Found at i:97941312 original size:5 final size:5
Alignment explanation
Indices: 97941302--97941338 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
97941292 TCTGTGTGTT
*
97941302 TTTTA TTTTA TTTT- TATT- TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
97941339 CACAATTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 6 0.21
5 23 0.79
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTA
Found at i:97941323 original size:18 final size:17
Alignment explanation
Indices: 97941300--97941338 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
97941290 AATCTGTGTG
97941300 TTTTTTATTTTATTTTTA
1 TTTTTTATTTTA-TTTTA
97941318 TTTTTTATTTTATTTTA
1 TTTTTTATTTTATTTTA
97941335 TTTT
1 TTTT
97941339 CACAATTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTATTTTATTTTA
Found at i:97945755 original size:11 final size:11
Alignment explanation
Indices: 97945739--97945774 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
97945729 CTGTGTGTTC
97945739 TTTATTTTATT
1 TTTATTTTATT
97945750 TTTATTTT-TAT
1 TTTATTTTAT-T
97945761 TTTATTTTATT
1 TTTATTTTATT
97945772 TTT
1 TTT
97945775 TTCACAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.04
11 21 0.91
12 1 0.04
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:97945774 original size:6 final size:5
Alignment explanation
Indices: 97945739--97945773 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
97945729 CTGTGTGTTC
97945739 TTTAT TTTATT TTTATT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTA-T TTTA-T TTTAT TTTAT TTTAT TTT
97945774 TTTCACAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:97945775 original size:17 final size:17
Alignment explanation
Indices: 97945739--97945774 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
97945729 CTGTGTGTTC
97945739 TTTATTTTATTTTTATT
1 TTTATTTTATTTTTATT
97945756 TTTATTTTA-TTTTATT
1 TTTATTTTATTTTTATT
97945772 TTT
1 TTT
97945775 TTCACAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTATTTTATTTTTATT
Found at i:97948154 original size:43 final size:43
Alignment explanation
Indices: 97948060--97948160 Score: 129
Period size: 43 Copynumber: 2.3 Consensus size: 43
97948050 AACGGCCATG
97948060 ACGTGGTCTTACAT-GTAATCACATATCGATGCCACAGTTCCAA
1 ACGTGGTCTTAC-TCGTAATCACATATCGATGCCACAGTTCCAA
*
97948103 ACAG-GGTCTTACTCGTAATCACATATCGATGCCA-ACGTAT-TAA
1 AC-GTGGTCTTACTCGTAATCACATATCGATGCCACA-GT-TCCAA
97948146 ACGTGGTCTTACTCG
1 ACGTGGTCTTACTCG
97948161 CACACATATA
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
42 3 0.06
43 47 0.90
44 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
ACGTGGTCTTACTCGTAATCACATATCGATGCCACAGTTCCAA
Found at i:97959433 original size:24 final size:24
Alignment explanation
Indices: 97959401--97959473 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
97959391 AGTCTGTCTA
*
97959401 GAGAAGATTTAGGAGCTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
*
97959425 GAGAGGATTTAGGAGCTGATCAGG
1 GAGAGGATTTAGGAGCTGATAAGG
*
97959449 GAGAGGATTTAGGAGCTGATTAGG
1 GAGAGGATTTAGGAGCTGATAAGG
97959473 G
1 G
97959474 TGAACTGTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.32, C:0.05, G:0.41, T:0.22
Consensus pattern (24 bp):
GAGAGGATTTAGGAGCTGATAAGG
Found at i:97960964 original size:27 final size:27
Alignment explanation
Indices: 97960903--97960997 Score: 77
Period size: 28 Copynumber: 3.4 Consensus size: 27
97960893 AGGAAGCGTC
* * *
97960903 CTGGTGGCTATGCCACAAATTATCTGA-T
1 CTGGTGGCTCTGCCCCATA-TATCT-ATT
*
97960931 CTAGTGGCTCTGCCCCATATATCTATT
1 CTGGTGGCTCTGCCCCATATATCTATT
* *
97960958 CTGGTGGCTCTGCCACGAT-TATCTGTAT
1 CTGGTGGCTCTGCC-CCATATATCTAT-T
*
97960986 CTGGTGACTCTG
1 CTGGTGGCTCTG
97960998 TCACATTATC
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.02
27 25 0.45
28 30 0.54
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCCCATATATCTATT
Found at i:97961005 original size:27 final size:27
Alignment explanation
Indices: 97960903--97961010 Score: 112
Period size: 27 Copynumber: 3.9 Consensus size: 27
97960893 AGGAAGCGTC
*
97960903 CTGGTGGCTATGCCACAAATTATCTG-AT
1 CTGGTGGCTCTGCCAC--ATTATCTGTAT
* * *
97960931 CTAGTGGCTCTGCCCCATATATCTAT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
97960958 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* *
97960986 CTGGTGACTCTGTCACATTATCTGT
1 CTGGTGGCTCTGCCACATTATCTGT
97961011 TCTAGCAGCC
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
26 2 0.03
27 35 0.52
28 30 0.45
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:97967792 original size:18 final size:18
Alignment explanation
Indices: 97967771--97967810 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
97967761 ATATAATGGT
*
97967771 AATAGTGATAATAATAAA
1 AATAGTGACAATAATAAA
* *
97967789 AATAGTGACAATGATAAT
1 AATAGTGACAATAATAAA
97967807 AATA
1 AATA
97967811 ACAGTGTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (18 bp):
AATAGTGACAATAATAAA
Found at i:97969664 original size:16 final size:19
Alignment explanation
Indices: 97969642--97969679 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
97969632 TCAAGTTAGC
*
97969642 AAAAA-ATAAATACA-AAT
1 AAAAATATAAGTACACAAT
97969659 AAAAATATAAGTACACAAT
1 AAAAATATAAGTACACAAT
97969678 AA
1 AA
97969680 TTCTAGACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 8 0.44
19 5 0.28
ACGTcount: A:0.71, C:0.08, G:0.03, T:0.18
Consensus pattern (19 bp):
AAAAATATAAGTACACAAT
Found at i:97969828 original size:29 final size:29
Alignment explanation
Indices: 97969772--97969828 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
97969762 AAAATCCATC
*
97969772 AAATTTTATAAAAAAATTATTTTTTTATA
1 AAATTTTATAAAAAAATTATTTTCTTATA
97969801 AAATTTTAT-AAAAAATTATTTTCCTTAT
1 AAATTTTATAAAAAAATTATTTT-CTTAT
97969829 TTTGAGTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (29 bp):
AAATTTTATAAAAAAATTATTTTCTTATA
Found at i:97980177 original size:23 final size:23
Alignment explanation
Indices: 97980147--97980205 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
97980137 ACCCTAAGCA
** *
97980147 TGCTAGAGCAGTTGACAAAGTCG
1 TGCTAGAGCAGCAGACAAAGACG
* *
97980170 TGCTAGAGTAGCAGACAGAGACG
1 TGCTAGAGCAGCAGACAAAGACG
97980193 TGCTAGAGCAGCA
1 TGCTAGAGCAGCA
97980206 AGCTATAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.19, G:0.32, T:0.17
Consensus pattern (23 bp):
TGCTAGAGCAGCAGACAAAGACG
Found at i:97981535 original size:21 final size:20
Alignment explanation
Indices: 97981511--97981550 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
97981501 ATGTTAATAA
*
97981511 TAAATTAATACAAAATTAACT
1 TAAAATAATA-AAAATTAACT
*
97981532 TAAAATAATAATAATTAAC
1 TAAAATAATAAAAATTAAC
97981551 AAATCTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAATAATAAAAATTAACT
Found at i:97987538 original size:10 final size:10
Alignment explanation
Indices: 97987525--97987585 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
97987515 ATTTTTTATG
97987525 ATTTTAATTA
1 ATTTTAATTA
97987535 ATTTCTAA-TA
1 ATTT-TAATTA
*
97987545 ATTTT-ATAA
1 ATTTTAATTA
97987554 ATTTTAATT-
1 ATTTTAATTA
*
97987563 -TTTTTA-TA
1 ATTTTAATTA
*
97987571 ATTTTAATGA
1 ATTTTAATTA
97987581 ATTTT
1 ATTTT
97987586 TTATGTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
7 1 0.03
8 6 0.15
9 12 0.30
10 18 0.45
11 3 0.08
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (10 bp):
ATTTTAATTA
Found at i:97987585 original size:18 final size:17
Alignment explanation
Indices: 97987533--97987604 Score: 63
Period size: 18 Copynumber: 4.0 Consensus size: 17
97987523 TGATTTTAAT
97987533 TAATTTCTAATAATTTTA
1 TAATTT-TAATAATTTTA
**
97987551 TAAATTTTAATTTTTTTA
1 T-AATTTTAATAATTTTA
*
97987569 TAATTTTAATGAATTTTT
1 TAATTTTAAT-AATTTTA
* *
97987587 TATGTTTTTATAATTTTA
1 TA-ATTTTAATAATTTTA
97987605 GAATGCATCT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
17 9 0.21
18 23 0.53
19 11 0.26
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (17 bp):
TAATTTTAATAATTTTA
Found at i:97987595 original size:28 final size:27
Alignment explanation
Indices: 97987542--97987604 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
97987532 TTAATTTCTA
*
97987542 ATAATTTT-ATAAATTTTAATTTTTTT
1 ATAATTTTAATAAATTTTAATGTTTTT
* *
97987568 ATAATTTTAATGAATTTTTTATGTTTTT
1 ATAATTTTAAT-AAATTTTAATGTTTTT
97987596 ATAATTTTA
1 ATAATTTTA
97987605 GAATGCATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 8 0.25
27 2 0.06
28 22 0.69
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (27 bp):
ATAATTTTAATAAATTTTAATGTTTTT
Found at i:97987596 original size:46 final size:45
Alignment explanation
Indices: 97987516--97987604 Score: 115
Period size: 46 Copynumber: 2.0 Consensus size: 45
97987506 GTATTTTTTA
* *
97987516 TTTTTTATGATTTTAATTAATTTCTAATAATTTTATAAATTTTAAT
1 TTTTTTATAATTTTAATGAATTTCTAATAATTTTAT-AATTTTAAT
* * **
97987562 TTTTTTATAATTTTAATGAATTTTTTATGTTTTTATAATTTTA
1 TTTTTTATAATTTTAATGAATTTCTAATAATTTTATAATTTTA
97987605 GAATGCATCT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 7 0.19
46 30 0.81
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (45 bp):
TTTTTTATAATTTTAATGAATTTCTAATAATTTTATAATTTTAAT
Found at i:97988045 original size:9 final size:9
Alignment explanation
Indices: 97988031--97988098 Score: 73
Period size: 9 Copynumber: 7.6 Consensus size: 9
97988021 ATAAGTATAA
97988031 AATTAACCG
1 AATTAACCG
*
97988040 AATTAATCG
1 AATTAACCG
*
97988049 AATTAACAG
1 AATTAACCG
* *
97988058 AATTACCCT
1 AATTAACCG
*
97988067 AATTACCCG
1 AATTAACCG
* *
97988076 AATTATCCA
1 AATTAACCG
97988085 AATTAACCG
1 AATTAACCG
97988094 AATTA
1 AATTA
97988099 TTTGTATATA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:97988197 original size:13 final size:13
Alignment explanation
Indices: 97988181--97988205 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97988171 AATTTTTATG
97988181 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
97988194 ATTGGGTTGGGT
1 ATTGGGTTGGGT
97988206 TGGGTACTTG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:97988205 original size:18 final size:18
Alignment explanation
Indices: 97988182--97988219 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
97988172 ATTTTTATGA
97988182 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
97988200 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
97988218 TT
1 TT
97988220 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:97991954 original size:26 final size:27
Alignment explanation
Indices: 97991925--97992006 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 27
97991915 CCTTTATCCC
*
97991925 TTTTAAAATTATTTATA-ACTTA-TTTA
1 TTTTAAAATTATATATATA-TTATTTTA
*
97991951 TTTT-AAATTGTATATATATTATTTTA
1 TTTTAAAATTATATATATATTATTTTA
* * *
97991977 TTTTAATA-TATATATGTATTA-TATA
1 TTTTAAAATTATATATATATTATTTTA
97992002 TTTTA
1 TTTTA
97992007 TATTATTATT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
25 21 0.45
26 24 0.51
27 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTAAAATTATATATATATTATTTTA
Found at i:97991958 original size:25 final size:26
Alignment explanation
Indices: 97991925--97992012 Score: 76
Period size: 25 Copynumber: 3.4 Consensus size: 26
97991915 CCTTTATCCC
*
97991925 TTTTAAAATTATTTATA-ACTTA-TTTA
1 TTTT-AAATTATATATATA-TTATTTTA
*
97991951 TTTTAAATTGTATATATATTATTTTA
1 TTTTAAATTATATATATATTATTTTA
* *
97991977 TTTT-AATATATATATGTATTA-TATA
1 TTTTAAAT-TATATATATATTATTTTA
*
97992002 TTTTATATTAT
1 TTTTAAATTAT
97992013 TATTTACTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
25 26 0.50
26 26 0.50
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTTAAATTATATATATATTATTTTA
Found at i:97992028 original size:23 final size:24
Alignment explanation
Indices: 97991965--97992080 Score: 89
Period size: 26 Copynumber: 4.8 Consensus size: 24
97991955 AAATTGTATA
*
97991965 TATATTA-TTTTATTTTA-A-TAT
1 TATATTACTTATATTTTATATTAT
*
97991986 ATATATGTATTATATATTTTATATTAT
1 -TATAT-TACT-TATATTTTATATTAT
97992013 TAT-TTACTTATATTTTAT-TATAT
1 TATATTACTTATATTTTATAT-TAT
*
97992036 TATATTACTTCATATTTTTCTATTAT
1 TATATTACTT-ATA-TTTTATATTAT
* *
97992062 CATATTAATATATATTTTA
1 TATATTACT-TATATTTTA
97992081 ACATATATCA
Statistics
Matches: 77, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
22 6 0.08
23 18 0.23
24 10 0.13
25 16 0.21
26 22 0.29
27 5 0.06
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (24 bp):
TATATTACTTATATTTTATATTAT
Found at i:97992042 original size:5 final size:5
Alignment explanation
Indices: 97991961--97992042 Score: 55
Period size: 5 Copynumber: 16.4 Consensus size: 5
97991951 TTTTAAATTG
* * * *
97991961 TATA- TATAT TATTT TATTT TA-AT ATATAT ATGTAT TATA- TATTT TATAT
1 TATAT TATAT TATAT TATAT TATAT -TATAT -TATAT TATAT TATAT TATAT
*
97992010 TATTAT T-TACT TATAT TTTAT TATAT TATAT TA
1 TA-TAT TATA-T TATAT TATAT TATAT TATAT TA
97992043 CTTCATATTT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
4 10 0.16
5 40 0.63
6 13 0.21
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:97992112 original size:44 final size:42
Alignment explanation
Indices: 97992058--97992208 Score: 114
Period size: 44 Copynumber: 3.5 Consensus size: 42
97992048 TATTTTTCTA
* *
97992058 TTATCATATTAATATATATTTTAACATATATCATTACTTATTAT
1 TTATTATATT-ATATATATTTTAACATATAT-ATTACATATTAT
* * *
97992102 TTATTATATTATAT-T-TTTATCACATA-ATA-TAAATATAAT
1 TTATTATATTATATATATTT-TAACATATATATTACATATTAT
* * *
97992141 ATTATTATATTATTTTACATTTTAACAATATATTATTTCATATTA-
1 -TTATTATATTA-TATATATTTTAAC-ATATA-TATTACATATTAT
97992186 TTATTATCTATTATATATATTTT
1 TTATTA--TATTATATATATTTT
97992209 CAGGTATATT
Statistics
Matches: 83, Mismatches: 13, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
39 7 0.08
40 12 0.14
41 7 0.08
42 10 0.12
43 10 0.12
44 16 0.19
45 10 0.12
46 11 0.13
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (42 bp):
TTATTATATTATATATATTTTAACATATATATTACATATTAT
Found at i:97992394 original size:21 final size:22
Alignment explanation
Indices: 97992360--97992403 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
97992350 TATTTCAAAA
*
97992360 TTCATTATTAATT-ACTATGTT
1 TTCATTATTAATTAAATATGTT
97992381 TTCATGTATT-ATTAAATATGTT
1 TTCAT-TATTAATTAAATATGTT
97992403 T
1 T
97992404 ATTATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (22 bp):
TTCATTATTAATTAAATATGTT
Found at i:98002923 original size:15 final size:15
Alignment explanation
Indices: 98002900--98002985 Score: 82
Period size: 15 Copynumber: 5.3 Consensus size: 15
98002890 TTTCAAAATC
98002900 AAAAAAGAAAAAAAA
1 AAAAAAGAAAAAAAA
* *
98002915 CAAACAGAAAATCAAAAA
1 AAAAAAG-AAA--AAAAA
*
98002933 AAAAAAAAAAAAAAA
1 AAAAAAGAAAAAAAA
98002948 AAAAAAGAAAAAAAA
1 AAAAAAGAAAAAAAA
98002963 AAAGAGAAGAGAAAAAAGA
1 AAA-A-AAGA-AAAAAA-A
98002982 AAAA
1 AAAA
98002986 TGGAGAGGCC
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
15 27 0.47
16 4 0.07
17 7 0.12
18 16 0.28
19 4 0.07
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.01
Consensus pattern (15 bp):
AAAAAAGAAAAAAAA
Found at i:98002953 original size:28 final size:28
Alignment explanation
Indices: 98002894--98002965 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
98002884 TTGAGGTTTC
* * * *
98002894 AAAATCAAAAAAGAAAAAAAACAAACAG
1 AAAATCAAAAAAAAAAAAAAAAAAAAAA
98002922 AAAATCAAAAAAAAAAAAAAAAAAAAAA
1 AAAATCAAAAAAAAAAAAAAAAAAAAAA
*
98002950 AAAA-GAAAAAAAAAAA
1 AAAATCAAAAAAAAAAA
98002966 GAGAAGAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 11 0.28
28 28 0.72
ACGTcount: A:0.88, C:0.06, G:0.04, T:0.03
Consensus pattern (28 bp):
AAAATCAAAAAAAAAAAAAAAAAAAAAA
Found at i:98002970 original size:14 final size:14
Alignment explanation
Indices: 98002928--98002985 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
98002918 ACAGAAAATC
*
98002928 AAAAAAAAAAA-AA
1 AAAAAAAAAAAGAG
*
98002941 AAAAAAAAAAAAAG
1 AAAAAAAAAAAGAG
98002955 AAAAAAAAAAAGAG
1 AAAAAAAAAAAGAG
* *
98002969 AAGAGAAAAAAGA-
1 AAAAAAAAAAAGAG
98002982 AAAA
1 AAAA
98002986 TGGAGAGGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
13 14 0.36
14 25 0.64
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGAG
Found at i:98002985 original size:1 final size:1
Alignment explanation
Indices: 98002900--98002965 Score: 69
Period size: 1 Copynumber: 66.0 Consensus size: 1
98002890 TTTCAAAATC
* * * * ** *
98002900 AAAAAAGAAAAAAAACAAACAGAAAATCAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
98002965 A
1 A
98002966 GAGAAGAGAA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.89, C:0.05, G:0.05, T:0.02
Consensus pattern (1 bp):
A
Found at i:98002992 original size:19 final size:19
Alignment explanation
Indices: 98002936--98002985 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
98002926 TCAAAAAAAA
* * *
98002936 AAAAAAAAAAAAAAAAAAG
1 AAAAAAAAAAAGAGAAGAG
98002955 AAAAAAAAAAAGAGAAGAG
1 AAAAAAAAAAAGAGAAGAG
98002974 AAAAAAGAAAAA
1 AAAAAA-AAAAA
98002986 TGGAGAGGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAGAGAAGAG
Found at i:98004213 original size:206 final size:205
Alignment explanation
Indices: 98003858--98004401 Score: 898
Period size: 206 Copynumber: 2.7 Consensus size: 205
98003848 GGCTGAAGTA
98003858 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
*
98003923 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* * ** *
98003988 TCAAAGTTTGGCATCTCCATATTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTT
131 TCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGAT
98004053 TATACTGAAGC
196 TA-ACTGAAGC
* * *
98004064 AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGCTGATTTAG
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGCTGATTTGG
*
98004128 CTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
65 CTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
* *
98004193 ATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGA
130 ATCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGA
98004258 TTAACTGAAGC
195 TTAACTGAAGC
* * *
98004269 AGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGG-AGAAATCGAAGACATAGCT-ATTTGGT
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
*
98004332 TTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
98004397 T-GAAG
131 TCGAAG
98004402 AAGCAGATTT
Statistics
Matches: 316, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
202 4 0.01
203 69 0.22
204 16 0.05
205 44 0.14
206 183 0.58
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (205 bp):
AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
TTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
TCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGAT
TAACTGAAGC
Found at i:98006007 original size:26 final size:27
Alignment explanation
Indices: 98005978--98006061 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 27
98005968 CCTTTATCCC
*
98005978 TTTTAAAATTATTTATA-ACTTA-TTTA
1 TTTTAAAATTATATATATA-TTATTTTA
*
98006004 TTTT-AAATTGTATATATATTATTTTA
1 TTTTAAAATTATATATATATTATTTTA
* * *
98006030 TTTTAATATATATATATGTATTA-TATA
1 TTTTAAAAT-TATATATATATTATTTTA
98006057 TTTTA
1 TTTTA
98006062 TATTATTATT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
25 13 0.27
26 13 0.27
27 11 0.23
28 11 0.23
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTAAAATTATATATATATTATTTTA
Found at i:98006057 original size:17 final size:17
Alignment explanation
Indices: 98006016--98006090 Score: 64
Period size: 18 Copynumber: 4.3 Consensus size: 17
98006006 TTAAATTGTA
98006016 TATATATTAT-T-TTAT
1 TATATATTATATATTAT
*
98006031 TTTAATATATATATATGTAT
1 TAT-ATAT-TATATAT-TAT
*
98006051 TATATATTTTATATTAT
1 TATATATTATATATTAT
* *
98006068 TATTTACTTATATTTTAT
1 TATATA-TTATATATTAT
98006086 TATAT
1 TATAT
98006091 TATATTACTT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
15 2 0.04
16 4 0.09
17 11 0.23
18 20 0.43
19 5 0.11
20 5 0.11
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (17 bp):
TATATATTATATATTAT
Found at i:98006083 original size:23 final size:24
Alignment explanation
Indices: 98006014--98006170 Score: 112
Period size: 24 Copynumber: 6.5 Consensus size: 24
98006004 TTTTAAATTG
* *
98006014 TATA-TATATTA-TTTTATTTTAA
1 TATATTATATTACTTATATTTTAT
*
98006036 TATATATATATGTA-TTATATATT-T
1 TATAT-TATAT-TACTTATATTTTAT
98006060 TATATTATTATTTACTTATATTTTAT
1 TATATTA-TA-TTACTTATATTTTAT
98006086 TATATTATATTACTTCATATTTT-T
1 TATATTATATTACTT-ATATTTTAT
* * * *
98006110 CTATTATCATATTAATAATATTTTAA
1 -TA-TATTATATTACTTATATTTTAT
*
98006136 CATA-TATCATTACTTAT-TATTTAT
1 TATATTAT-ATTACTTATAT-TTTAT
98006160 TATATTATATT
1 TATATTATATT
98006171 TTTATCACAT
Statistics
Matches: 107, Mismatches: 14, Indels: 26
0.73 0.10 0.18
Matches are distributed among these distances:
22 4 0.04
23 5 0.05
24 40 0.37
25 40 0.37
26 18 0.17
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (24 bp):
TATATTATATTACTTATATTTTAT
Found at i:98006090 original size:50 final size:50
Alignment explanation
Indices: 98006028--98006167 Score: 137
Period size: 50 Copynumber: 2.8 Consensus size: 50
98006018 TATATTATTT
* * *
98006028 TATTTTAATATATATATATGTA-TT-ATATATTTTATATTATTAT-TTACTTA
1 TATTTTAATATAT-TATAT-TACTTCATAT-TTTTATATTATCATATTAATAA
* *
98006078 TATTTTATTATATTATATTACTTCATATTTTTCTATTATCATATTAATAA
1 TATTTTAATATATTATATTACTTCATATTTTTATATTATCATATTAATAA
*
98006128 TATTTTAACATA-TATCATTACTT-ATTATTTATTATATTAT
1 TATTTTAATATATTAT-ATTACTTCA-TATTT-TTATATTAT
98006168 ATTTTTATCA
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
48 2 0.03
49 23 0.30
50 43 0.57
51 8 0.11
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.59
Consensus pattern (50 bp):
TATTTTAATATATTATATTACTTCATATTTTTATATTATCATATTAATAA
Found at i:98006097 original size:5 final size:5
Alignment explanation
Indices: 98006014--98006097 Score: 57
Period size: 5 Copynumber: 16.4 Consensus size: 5
98006004 TTTTAAATTG
* * * *
98006014 TATA- TATAT TATTT TATTT TAATAT ATATAT ATGTAT TATA- TATTT
1 TATAT TATAT TATAT TATAT T-ATAT -TATAT -TATAT TATAT TATAT
*
98006060 TATAT TATTAT T-TACT TATAT TTTAT TATAT TATAT TA
1 TATAT TA-TAT TATA-T TATAT TATAT TATAT TATAT TA
98006098 CTTCATATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
4 9 0.14
5 37 0.57
6 18 0.28
7 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:98013480 original size:6 final size:6
Alignment explanation
Indices: 98013450--98013574 Score: 69
Period size: 6 Copynumber: 20.3 Consensus size: 6
98013440 AAGAAACATT
* * *
98013450 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
98013499 ATCATA ATCAAA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* *
98013548 ATCAGGTA AT-AGG ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
98013575 GTGAATGCAA
Statistics
Matches: 89, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
5 5 0.06
6 72 0.81
7 8 0.09
8 4 0.04
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:98013538 original size:25 final size:25
Alignment explanation
Indices: 98013510--98013574 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
98013500 TCATAATCAA
* *
98013510 AATCAGAATCAGAATTAGGTGACAG
1 AATCAGAATCAGAATCAGGTAACAG
* *
98013535 AATCAGAATCAGTATCAGGTAATAG
1 AATCAGAATCAGAATCAGGTAACAG
* *
98013560 GATCAAAATCAGAAT
1 AATCAGAATCAGAAT
98013575 GTGAATGCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAG
Found at i:98013552 original size:37 final size:37
Alignment explanation
Indices: 98013459--98013552 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
98013449 TATCAGAACT
*
98013459 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
98013496 AGAATCATAATCAAAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
98013533 AGAATCAGAATCAGTATCAG
1 AGAATCAAAATCAGAATCAG
98013553 GTAATAGGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:98013732 original size:27 final size:27
Alignment explanation
Indices: 98013690--98013811 Score: 140
Period size: 27 Copynumber: 4.5 Consensus size: 27
98013680 GCAGCATGGT
* * *
98013690 ACCAG-AACAAATATTGTAACAGAGTC
1 ACCAGAAACAGATATTGTGACAGAGCC
* *
98013716 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGAAACAGATATTGTGACAGAGCC
* *
98013743 ACCA-AAACAGATATTTGTGGCATAGCC
1 ACCAGAAACAGATA-TTGTGACAGAGCC
*
98013770 ACCAGAAACAGAATATTGTGACAGACCC
1 ACCAGAAACAG-ATATTGTGACAGAGCC
98013798 ACCAGAAACAGATA
1 ACCAGAAACAGATA
98013812 ATATGGCAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
26 13 0.16
27 39 0.48
28 27 0.33
29 3 0.04
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (27 bp):
ACCAGAAACAGATATTGTGACAGAGCC
Found at i:98013819 original size:55 final size:54
Alignment explanation
Indices: 98013715--98013826 Score: 145
Period size: 55 Copynumber: 2.1 Consensus size: 54
98013705 GTAACAGAGT
* * * * * *
98013715 CACCAGATACAGATATTGTGGCAGAGCCACCAAAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTGTGACAGACCCACCAAAACAGATATATATGGCAAAGC
98013769 CACCAGAAACAGAATATTGTGACAGACCCACCAGAAACAGATA-ATATGGCAAAGC
1 CACCAGAAACAG-ATATTGTGACAGACCCACCA-AAACAGATATATATGGCAAAGC
98013824 CAC
1 CAC
98013827 TTAACAGAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 11 0.22
55 30 0.60
56 9 0.18
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (54 bp):
CACCAGAAACAGATATTGTGACAGACCCACCAAAACAGATATATATGGCAAAGC
Found at i:98014112 original size:20 final size:20
Alignment explanation
Indices: 98014068--98014112 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
98014058 AATTGGCATG
* *
98014068 AAGCCCAGAATAACGATACA
1 AAGCCCACAATAACGACACA
*
98014088 AAGCCCACAATAACGGCACA
1 AAGCCCACAATAACGACACA
*
98014108 CAGCC
1 AAGCC
98014113 TTCGGTAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.33, G:0.16, T:0.07
Consensus pattern (20 bp):
AAGCCCACAATAACGACACA
Found at i:98014438 original size:27 final size:27
Alignment explanation
Indices: 98014389--98014774 Score: 380
Period size: 27 Copynumber: 14.3 Consensus size: 27
98014379 AAGGGTAAAA
* * *
98014389 CGGTAATTTTACCCCAACA-GGGTATCT
1 CGGTAATTCTA-CCCTACAGGGGTATTT
* *
98014416 CGGTAATTTTACCCTATAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
** * *
98014443 TAGTATTTCTACCCTACAAGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
*
98014470 CGATAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
** *
98014497 CAATAATTCTACCCTATAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* * *
98014524 CGATAATTCTACCTTATAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* *
98014551 CAGTAATTTTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* * *
98014578 CGGTAATTCTACCTTATAGGGGTATTG
1 CGGTAATTCTACCCTACAGGGGTATTT
* * *
98014605 CAGTTATTCTACCTTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* * *
98014632 CGGAAATTCTACCTTA-TGGGAGTATTT
1 CGGTAATTCTACCCTACAGGG-GTATTT
** * *
98014659 AAGTAATTCTACGCTACAAGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* * * * *
98014686 CGGTAATTTTATCTTATAGGAGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* *
98014713 CAGTAATTCCACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
*
98014740 CGGTAATTCTACCTTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
*
98014767 CAGTAATT
1 CGGTAATT
98014775 TTACAAATTA
Statistics
Matches: 293, Mismatches: 63, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
26 8 0.03
27 283 0.97
28 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
CGGTAATTCTACCCTACAGGGGTATTT
Found at i:98014787 original size:27 final size:26
Alignment explanation
Indices: 98014756--98014830 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
98014746 TTCTACCTTA
*
98014756 CAGGGGTATTTCAGTAATTTTACAAAT
1 CAGGGGTATTT-AGTAATTTTACAAAC
* *
98014783 TAGGGGTATTTTGATAATTTTACAAAC
1 CAGGGGTATTTAG-TAATTTTACAAAC
*
98014810 CAGGGGTATTTTGGTAATTTT
1 CAGGGGTA-TTTAGTAATTTT
98014831 GCTAATCGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 36 0.88
28 4 0.10
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (26 bp):
CAGGGGTATTTAGTAATTTTACAAAC
Found at i:98014793 original size:54 final size:54
Alignment explanation
Indices: 98014391--98014774 Score: 493
Period size: 54 Copynumber: 7.1 Consensus size: 54
98014381 GGGTAAAACG
* * * * * *
98014391 GTAATTTTACCCCAACA-GGGTATCTCGGTAATTTTACCCTATAGGGGTATTTTA
1 GTAATTCTA-CCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
* * * * *
98014445 GTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
* * *
98014499 ATAATTCTACCCTATAGGGGTATTTCGATAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
* *
98014553 GTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTGCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
* * * *
98014607 GTTATTCTACCTTACAGGGGTATTTCGGAAATTCTACCTTAT-GGGAGTATTTAA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGG-GTATTTCA
* * * * *
98014661 GTAATTCTACGCTACAAGGGTATTTCGGTAATTTTATCTTATAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
* *
98014715 GTAATTCCACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
98014769 GTAATT
1 GTAATT
98014775 TTACAAATTA
Statistics
Matches: 286, Mismatches: 41, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
53 9 0.03
54 275 0.96
55 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
Found at i:98014849 original size:27 final size:27
Alignment explanation
Indices: 98014816--98014910 Score: 145
Period size: 27 Copynumber: 3.5 Consensus size: 27
98014806 AAACCAGGGG
*
98014816 TATTTTGGTAATTTTGCTAATCGAGGT
1 TATTTTGGTAATTTTGCTAATCGAGGC
* *
98014843 TACTTTGGTAATTTTGCTAATCGAGGG
1 TATTTTGGTAATTTTGCTAATCGAGGC
*
98014870 TATTTTGGTAATTTTACTAATCGAGGC
1 TATTTTGGTAATTTTGCTAATCGAGGC
*
98014897 TATTTTAGTAATTT
1 TATTTTGGTAATTT
98014911 GGTAAGCTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.47
Consensus pattern (27 bp):
TATTTTGGTAATTTTGCTAATCGAGGC
Found at i:98014855 original size:54 final size:54
Alignment explanation
Indices: 98014792--98014910 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
98014782 TTAGGGGTAT
* * *
98014792 TTTGATAATTTTACAAACC-AGGGGTATTTTGGTAATTTTGCTAATCGAGGTTAC
1 TTTGGTAATTTTACAAACCGA-GGGTATTTTGGTAATTTTACTAATCGAGGCTAC
* * * *
98014846 TTTGGTAATTTTGCTAATCGAGGGTATTTTGGTAATTTTACTAATCGAGGCTAT
1 TTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTACTAATCGAGGCTAC
*
98014900 TTTAGTAATTT
1 TTTGGTAATTT
98014911 GGTAAGCTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 55 0.98
55 1 0.02
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (54 bp):
TTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTACTAATCGAGGCTAC
Found at i:98019794 original size:23 final size:23
Alignment explanation
Indices: 98019768--98019812 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
98019758 TTATTTAATT
98019768 GATTT-AGGATTAGGATTTTTTAG
1 GATTTAAGG-TTAGGATTTTTTAG
*
98019791 GATTTAAGGTTAGGGTTTTTTA
1 GATTTAAGGTTAGGATTTTTTA
98019813 AGTTAAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (23 bp):
GATTTAAGGTTAGGATTTTTTAG
Found at i:98019822 original size:15 final size:16
Alignment explanation
Indices: 98019793--98019832 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
98019783 TTTTTTAGGA
*
98019793 TTTAAGGTTAGGGTTT
1 TTTAAGGTTAAGGTTT
98019809 TTTAA-GTTAAGGTTT
1 TTTAAGGTTAAGGTTT
*
98019824 TTTAGGGTT
1 TTTAAGGTT
98019833 TTAAGATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.53
Consensus pattern (16 bp):
TTTAAGGTTAAGGTTT
Found at i:98019982 original size:38 final size:39
Alignment explanation
Indices: 98019919--98019997 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 39
98019909 TAAATTAGAG
98019919 TTTAGGGTATTAGGGTTAATCGATTAAA-TTAGGGATTAA
1 TTTAGGGTATTAGGGTTAATCGATTAAATTTAGGG-TTAA
* *
98019958 TTTAGGGT-TTAGGGTTGATTGATTAAATTTAGGGTTAA
1 TTTAGGGTATTAGGGTTAATCGATTAAATTTAGGGTTAA
98019996 TT
1 TT
98019998 GATACATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 23 0.62
39 14 0.38
ACGTcount: A:0.29, C:0.01, G:0.27, T:0.43
Consensus pattern (39 bp):
TTTAGGGTATTAGGGTTAATCGATTAAATTTAGGGTTAA
Found at i:98020928 original size:126 final size:126
Alignment explanation
Indices: 98020538--98021043 Score: 719
Period size: 125 Copynumber: 4.0 Consensus size: 126
98020528 TTTCTGCAAG
* * * *
98020538 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGCCGAAAAAAGCTTCAAGTAGAATGCACTGT
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCG-AAAACGCTTCAAGCAGGATGCACTGT
* * * * *
98020603 CAGCAAAATTTCTAGAAAAAGCTCCCACATGAACGCTCTTTTGCTACAGTAGTTCGTAGAAA
65 CAGCAAAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
* * *
98020665 AATAATTCTGAGTAGACATTTCTAAACAAATAATGTCGAAAACGCTTCAAGCA-GATCCACTGTC
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* ** * *
98020729 AGCAAATTTTTGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACGGTAGTTCGTAGAAA
66 AGCAAAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
* * * *
98020790 AATAATTTTGAGTAGACGTTTTTGAACAAATAGTGTCGAAAATGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* * * *
98020855 AGCAAAATTTCAAAAAAAAACTCCCACGTGGACTCTCTTTTGCTACAGCAATTCGTAAAAA
66 AGCAAAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
* * *
98020916 AACAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCG-AAACGCTTCAAGTAGGATGCACTGTC
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* *
98020980 AGGAAAATTTCAAAAAAAAGCTCCCACGTGGACGTTCTTTTGCTACAGTAGTTCGTAAAAA
66 AGCAAAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
98021041 AAT
1 AAT
98021044 GAGGCTATAA
Statistics
Matches: 336, Mismatches: 42, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
125 191 0.57
126 110 0.33
127 35 0.10
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (126 bp):
AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
Found at i:98020998 original size:251 final size:252
Alignment explanation
Indices: 98020538--98021043 Score: 728
Period size: 251 Copynumber: 2.0 Consensus size: 252
98020528 TTTCTGCAAG
*
98020538 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGCCGAAAAAAGCTTCAAGTAGAATGCACTGT
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGCCGAAAAAAGCTTCAAGCAGAATGCACTGT
* * * * * * *
98020603 CAGCAAAATTTCTAGAAAAAGCTCCCACATGAACGCTCTTTTGCTACAGTAGTTCGTAGAAAAAT
66 CAGCAAAATTTCAAAAAAAAACTCCCACATGAACGCTCTTTTGCTACAGCAATTCGTAAAAAAAC
98020668 AATTCTGAGTAGACATTTCTAAACAAATAATGTCGAAAACGCTTCAAGCAGATCCACTGTCAGCA
131 AATTCTGAGTAGACATTTCTAAACAAATAATGTCGAAAACGCTTCAAGCAGATCCACTGTCAGCA
* ** * *
98020733 AATTTTTGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACGGTAGTTCGTAGAAA
196 AAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
* * * * * *
98020790 AATAATTTTGAGTAGACGTTTTTGAACAAATAGTGTCG-AAAATGCTTCAAGCAGGATGCACTGT
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGCCGAAAAAAGCTTCAAGCAGAATGCACTGT
* * *
98020854 CAGCAAAATTTCAAAAAAAAACTCCCACGTGGACTCTCTTTTGCTACAGCAATTCGTAAAAAAAC
66 CAGCAAAATTTCAAAAAAAAACTCCCACATGAACGCTCTTTTGCTACAGCAATTCGTAAAAAAAC
* * * * * *
98020919 AATTCTGAGTAGACGTTTCTGAACAAATAGTGTCG-AAACGCTTCAAGTAGGATGCACTGTCAGG
131 AATTCTGAGTAGACATTTCTAAACAAATAATGTCGAAAACGCTTCAAGCA-GATCCACTGTCAGC
*
98020983 AAAATTTCAAAAAAAAGCTCCCACGTGGACGTTCTTTTGCTACAGTAGTTCGTAAAAA
195 AAAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
98021041 AAT
1 AAT
98021044 GAGGCTATAA
Statistics
Matches: 224, Mismatches: 29, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
250 13 0.06
251 177 0.79
252 34 0.15
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (252 bp):
AATAATTCTGAGTAGACATTTCTGAACAAATAGTGCCGAAAAAAGCTTCAAGCAGAATGCACTGT
CAGCAAAATTTCAAAAAAAAACTCCCACATGAACGCTCTTTTGCTACAGCAATTCGTAAAAAAAC
AATTCTGAGTAGACATTTCTAAACAAATAATGTCGAAAACGCTTCAAGCAGATCCACTGTCAGCA
AAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
Found at i:98023637 original size:18 final size:18
Alignment explanation
Indices: 98023596--98023638 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
98023586 GACTAGGAAA
* *
98023596 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
*
98023614 AAGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
98023632 AGGATAC
1 AGGATAC
98023639 GTACTTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:98024245 original size:7 final size:7
Alignment explanation
Indices: 98024235--98024259 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
98024225 CACAATACAC
98024235 AATACTA
1 AATACTA
98024242 AATACTA
1 AATACTA
98024249 AATACTA
1 AATACTA
98024256 AATA
1 AATA
98024260 TGAAACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:98025290 original size:48 final size:47
Alignment explanation
Indices: 98025237--98025347 Score: 118
Period size: 48 Copynumber: 2.3 Consensus size: 47
98025227 ATGCAAACAT
*
98025237 CATAAATGAAAAAAAAATCAAGCAGTATTG-AAATTGTAATTATAA-TTG
1 CATAAAT-AAAAAAAAATCAAACAGTATTGCAAATT-TAATTA-AATTTG
** **
98025285 CATAAATAAATAAAATGTCAAATTGTATTGCAAATTTAATTAAATTTG
1 CATAAATAAA-AAAAAATCAAACAGTATTGCAAATTTAATTAAATTTG
*
98025333 CATAAATTAAAAAAA
1 CATAAATAAAAAAAA
98025348 TATCGAATGG
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
47 9 0.17
48 39 0.74
49 5 0.09
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (47 bp):
CATAAATAAAAAAAAATCAAACAGTATTGCAAATTTAATTAAATTTG
Found at i:98025348 original size:48 final size:47
Alignment explanation
Indices: 98025261--98025371 Score: 136
Period size: 48 Copynumber: 2.3 Consensus size: 47
98025251 AAATCAAGCA
* *
98025261 GTATTGAAATTGTAATTATAATTGCATAAATAAATAAAATGTCAAATT
1 GTATTGAAATT-TAATTATAATTGCATAAATAAATAAAATATCAAATG
*
98025309 GTATTGCAAATTTAATTA-AATTTGCATAAATTAAA-AAAATATCGAATG
1 GTATTG-AAATTTAATTATAA-TTGCATAAA-TAAATAAAATATCAAATG
98025357 GTATTGATAATTTAA
1 GTATTGA-AATTTAA
98025372 AATTTTCACT
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
47 3 0.05
48 44 0.79
49 9 0.16
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.38
Consensus pattern (47 bp):
GTATTGAAATTTAATTATAATTGCATAAATAAATAAAATATCAAATG
Found at i:98034951 original size:21 final size:21
Alignment explanation
Indices: 98034913--98034952 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
98034903 TTAAACAAAC
*
98034913 AAATTTCATAGAATTTTGAGA
1 AAATTTCATAGAAATTTGAGA
98034934 AAATTTCA-ATGAAATTTGA
1 AAATTTCATA-GAAATTTGA
98034953 TAGATTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (21 bp):
AAATTTCATAGAAATTTGAGA
Found at i:98057958 original size:29 final size:29
Alignment explanation
Indices: 98057914--98058023 Score: 150
Period size: 29 Copynumber: 3.8 Consensus size: 29
98057904 GAAGAGGTGG
* * *
98057914 AGAACTTGTTCGTTGAGAGTTCGAGATAA
1 AGAACTTGTTCATTGAGAATTCGAGATGA
*
98057943 AGAACTTGTTCATTGAGAGTTC-ACGATGA
1 AGAACTTGTTCATTGAGAATTCGA-GATGA
*
98057972 AGAACTTGTTCATTGAGAATTCGCGATGA
1 AGAACTTGTTCATTGAGAATTCGAGATGA
*
98058001 AGAAATTGTTCATTGAGAATTCG
1 AGAACTTGTTCATTGAGAATTCG
98058024 TGTCTAGGTG
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
28 1 0.01
29 73 0.99
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (29 bp):
AGAACTTGTTCATTGAGAATTCGAGATGA
Found at i:98058725 original size:13 final size:13
Alignment explanation
Indices: 98058705--98058753 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
98058695 AACGGCACCA
98058705 ATATTTTTCTTAAT
1 ATATTTTT-TTAAT
98058719 A-ATTTTTTT-AT
1 ATATTTTTTTAAT
*
98058730 ATATTTTTTTAAA
1 ATATTTTTTTAAT
*
98058743 ATATTATTTTA
1 ATATTTTTTTA
98058754 TTTAGTGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 3 0.10
12 10 0.32
13 17 0.55
14 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (13 bp):
ATATTTTTTTAAT
Found at i:98058733 original size:25 final size:25
Alignment explanation
Indices: 98058705--98058754 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
98058695 AACGGCACCA
98058705 ATATTTTTCTTAATAAT-TT-TTTTAT
1 ATATTTTT-TTAA-AATATTATTTTAT
98058730 ATATTTTTTTAAAATATTATTTTAT
1 ATATTTTTTTAAAATATTATTTTAT
98058755 TTAGTGGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.13
24 6 0.26
25 14 0.61
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (25 bp):
ATATTTTTTTAAAATATTATTTTAT
Found at i:98061765 original size:25 final size:25
Alignment explanation
Indices: 98061717--98061766 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
98061707 TTTGGCTTGA
**
98061717 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
*
98061742 CATTTACTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
98061767 AAAATTATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:98064498 original size:15 final size:15
Alignment explanation
Indices: 98064478--98064509 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
98064468 ATTTATTTAC
*
98064478 TTTAATTAATTAATT
1 TTTAATTAAATAATT
98064493 TTTAATTAAATAATT
1 TTTAATTAAATAATT
98064508 TT
1 TT
98064510 CTCAATCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTAATTAAATAATT
Found at i:98073793 original size:47 final size:47
Alignment explanation
Indices: 98073727--98073856 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
98073717 GTGCGAATAA
* * *
98073727 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCATAA-AGGAGT
1 TACCTTGATTTGGCTACGGGCTATGGTATAGGTACTC-TAAGAGAAGT
* * * *
98073774 TACCTTGATTTAGCCACGGGCTATAGTATAGGTACTCTAAGATAAGT
1 TACCTTGATTTGGCTACGGGCTATGGTATAGGTACTCTAAGAGAAGT
*
98073821 TACCTTGATTTGGCTTCGGGCTATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCTATGGTATAGGTACT
98073857 TATCGATTGA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
46 3 0.04
47 68 0.96
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCTATGGTATAGGTACTCTAAGAGAAGT
Found at i:98076605 original size:55 final size:54
Alignment explanation
Indices: 98076517--98076702 Score: 234
Period size: 55 Copynumber: 3.4 Consensus size: 54
98076507 CATTAGGGTT
*
98076517 CAAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAGGTCTCTAAGG
* * * * * * *
98076572 CAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGGT-CTCTAAGG
*
98076627 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGA-GT-TCATAAGG
1 C-AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGGTCTC-TAAGG
98076680 CAAGGATACCATGTAAGACCATG
1 CAAGGATACCATGTAAGACCATG
98076703 TTGATACATG
Statistics
Matches: 110, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
52 5 0.05
53 22 0.20
54 9 0.08
55 70 0.64
56 4 0.04
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (54 bp):
CAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGGTCTCTAAGG
Found at i:98078449 original size:40 final size:40
Alignment explanation
Indices: 98078394--98078581 Score: 229
Period size: 40 Copynumber: 4.7 Consensus size: 40
98078384 TGATAACCGA
* *
98078394 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGG
* *
98078434 GCTAAGTCTCGAAGGCA-TTGTTGCGAGTTACTAATTCCCG
1 GCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAATTCCGG
*
98078474 GCTAAGTCCCGAAGGCATTTGTACGAGTTACT-ATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGG
** **
98078514 GCTAAACCCCGAAGGCATTTGTGCGAACTACTATATT-CGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGG
* *
98078554 GCTAAGTCCCGAAGGCATTCGAGCGAGT
1 GCTAAGTCCCGAAGGCATTTGTGCGAGT
98078582 GGCTATACTC
Statistics
Matches: 125, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
39 5 0.04
40 114 0.91
41 4 0.03
42 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGG
Found at i:98078588 original size:40 final size:40
Alignment explanation
Indices: 98078394--98078607 Score: 213
Period size: 40 Copynumber: 5.4 Consensus size: 40
98078384 TGATAACCGA
*
98078394 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATT-CGG
* * *
98078434 GCTAAGTCTCGAAGGCA-TTGTTGCGAGTTACTA-ATTCCCG
1 GCTAAGTCCCGAAGGCATTTG-TGCGAGTGACTATATT-CGG
* * *
98078474 GCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATTCGG
** *
98078514 GCTAAACCCCGAAGGCATTTGTGCGAACT-ACTATATTCGG
1 GCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTATATTCGG
* * * *
98078554 GCTAAGTCCCGAAGGCATTCGAGCGAGTGGCTATACTC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATTCGG
* *
98078593 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
98078608 TACTTGGTTT
Statistics
Matches: 147, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 19 0.13
40 121 0.82
41 7 0.05
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATTCGG
Found at i:98080059 original size:16 final size:16
Alignment explanation
Indices: 98080038--98080071 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
98080028 CTGCGTATCC
98080038 TTAGTATTCCAAGTGG
1 TTAGTATTCCAAGTGG
*
98080054 TTAGTATTCCTAGTGG
1 TTAGTATTCCAAGTGG
98080070 TT
1 TT
98080072 CAACGGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.44
Consensus pattern (16 bp):
TTAGTATTCCAAGTGG
Found at i:98087564 original size:26 final size:26
Alignment explanation
Indices: 98087534--98087587 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
98087524 CAGTACAGAA
98087534 CTCGGATAATGTTCTTGTTGATTTAT
1 CTCGGATAATGTTCTTGTTGATTTAT
98087560 CTCGGATAATGTTCTTGTTGATTTAT
1 CTCGGATAATGTTCTTGTTGATTTAT
98087586 CT
1 CT
98087588 TGAAAATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.50
Consensus pattern (26 bp):
CTCGGATAATGTTCTTGTTGATTTAT
Found at i:98091676 original size:30 final size:30
Alignment explanation
Indices: 98091641--98091703 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
98091631 TTTTATTTTA
98091641 TTGTTAATTTTCTTATTATTTTAAAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
* *
98091671 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
98091701 TTG
1 TTG
98091704 CTTGTTACGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGGCAT
Found at i:98094648 original size:18 final size:18
Alignment explanation
Indices: 98094625--98094659 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
98094615 TTAGTAGCTT
*
98094625 TTCCTTTTGTTTTTATTG
1 TTCCTTTTATTTTTATTG
98094643 TTCCTTTTATTTTTATT
1 TTCCTTTTATTTTTATT
98094660 TCTTTTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.11, G:0.06, T:0.74
Consensus pattern (18 bp):
TTCCTTTTATTTTTATTG
Found at i:98099073 original size:28 final size:28
Alignment explanation
Indices: 98099033--98099182 Score: 266
Period size: 28 Copynumber: 5.4 Consensus size: 28
98099023 TAAATTGTAC
98099033 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
98099061 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
98099089 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
98099117 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
98099145 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
98099172 AGCACTGAGTG
1 AGCACTAAGTG
98099183 CGCGGACTTA
Statistics
Matches: 120, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
27 20 0.17
28 100 0.83
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:98099099 original size:56 final size:56
Alignment explanation
Indices: 98099008--98099182 Score: 271
Period size: 56 Copynumber: 3.1 Consensus size: 56
98098998 GGGATTGGCG
* * * *
98099008 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
98099065 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
98099121 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
98099176 CTGAGTG
1 CTAAGTG
98099183 CGCGGACTTA
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
55 19 0.17
56 76 0.69
57 15 0.14
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:98099197 original size:27 final size:27
Alignment explanation
Indices: 98099033--98099199 Score: 111
Period size: 28 Copynumber: 6.0 Consensus size: 27
98099023 TAAATTGTAC
* * * *
98099033 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGCGCGA-CTTGAATATAT
* * * *
98099061 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGCGCGA-CTTGAATATAT
* * * *
98099089 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGCGCGA-CTTGAATATAT
* * *
98099117 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGCGCGA-CTTGAATATAT
* * *
98099145 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGCGCGACTTGAATATAT
*
98099172 AGCACTGAGTGCGCGGACTT-AATATAT
1 AGCACTAAGTGCGC-GACTTGAATATAT
98099199 A
1 A
98099200 CTTTTGAATC
Statistics
Matches: 132, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
27 29 0.22
28 103 0.78
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGCGCGACTTGAATATAT
Found at i:98107417 original size:28 final size:28
Alignment explanation
Indices: 98107377--98107530 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
98107367 TAAATTGTAC
*
98107377 AGCACTAACTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
98107405 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
98107433 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
98107461 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
98107489 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
98107516 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
98107531 GACTTAATAT
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 24 0.20
28 99 0.80
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:98107446 original size:56 final size:56
Alignment explanation
Indices: 98107352--98107530 Score: 270
Period size: 56 Copynumber: 3.2 Consensus size: 56
98107342 GGGATTGGCG
* * * * *
98107352 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAACTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
98107409 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
98107465 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
98107520 CTGAGTGTGCG
1 CTAAGTGTGCG
98107531 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
55 23 0.20
56 75 0.66
57 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:98112879 original size:46 final size:46
Alignment explanation
Indices: 98112812--98112983 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
98112802 AACCCGCCCC
*
98112812 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
98112858 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACA-CC-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
98112906 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
98112951 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
98112984 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 3 0.03
45 1 0.01
46 60 0.56
47 28 0.26
48 3 0.03
49 3 0.03
50 2 0.02
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:98112924 original size:93 final size:93
Alignment explanation
Indices: 98112817--98112987 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
98112807 GCCCCTAAGT
* *
98112817 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
98112882 CGAGTTCGGATGCCTAGTTACACCTCAC
66 CGAGTTCGGATGCCTAGTTACACCTCAC
* *
98112910 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
98112975 CGAGTTCGGATGC
66 CGAGTTCGGATGC
98112988 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACACCTCAC
Found at i:98113441 original size:30 final size:30
Alignment explanation
Indices: 98113407--98113466 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
98113397 ATTTAATACG
98113407 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
98113437 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
98113467 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:98120069 original size:15 final size:15
Alignment explanation
Indices: 98120045--98120074 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
98120035 AATCACTGTT
98120045 GAAGAAAAAGAAAAA
1 GAAGAAAAAGAAAAA
*
98120060 GAAGATAAAGAAAAA
1 GAAGAAAAAGAAAAA
98120075 TTAGGGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (15 bp):
GAAGAAAAAGAAAAA
Found at i:98120187 original size:19 final size:16
Alignment explanation
Indices: 98120163--98120245 Score: 67
Period size: 17 Copynumber: 4.7 Consensus size: 16
98120153 AATGAGCATA
98120163 TTAATTTTTAAAGTTTTAT
1 TTAATTTTT-AA-TTTT-T
98120182 TTAATTTTTAATTTATTT
1 TTAATTTTTAA-TT-TTT
*
98120200 TTATTTTTTGAATTTTT
1 TTAATTTTT-AATTTTT
* *
98120217 TTAAATTTTATGTTTTT
1 TTAATTTTTA-ATTTTT
98120234 TTAATTTATTAA
1 TTAATTT-TTAA
98120246 AACTTTTTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
16 1 0.02
17 21 0.40
18 18 0.34
19 13 0.25
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (16 bp):
TTAATTTTTAATTTTT
Found at i:98120253 original size:45 final size:47
Alignment explanation
Indices: 98120167--98120263 Score: 110
Period size: 46 Copynumber: 2.1 Consensus size: 47
98120157 AGCATATTAA
*** **
98120167 TTTTTAAAGTTTTATTTAATTTTTAATTTATTTTTA-TTTTTTGAATT
1 TTTTTAAAGTTTTATTT-ATTTTTAATTTATTAAAACTTTTTCCAATT
98120214 TTTTTAAA-TTTTATGTT-TTTTTAATTTATTAAAACTTTTTCCAATT
1 TTTTTAAAGTTTTAT-TTATTTTTAATTTATTAAAACTTTTTCCAATT
98120260 TTTT
1 TTTT
98120264 AAAAAGTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
45 14 0.33
46 19 0.44
47 10 0.23
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (47 bp):
TTTTTAAAGTTTTATTTATTTTTAATTTATTAAAACTTTTTCCAATT
Found at i:98122038 original size:20 final size:20
Alignment explanation
Indices: 98122013--98122055 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
98122003 TTGTTATACC
98122013 TAAATTTATACTCTAATTTT
1 TAAATTTATACTCTAATTTT
98122033 TAAATTTATACTCTAATTTT
1 TAAATTTATACTCTAATTTT
98122053 TAA
1 TAA
98122056 CATAATTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (20 bp):
TAAATTTATACTCTAATTTT
Found at i:98124938 original size:26 final size:26
Alignment explanation
Indices: 98124899--98124951 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
98124889 CTGTCGTAGT
98124899 AAGTCTGCACTTAAGTAGCAGCTGCA
1 AAGTCTGCACTTAAGTAGCAGCTGCA
*
98124925 AAGTCTGCATTTAAGTAGCAGCTGCA
1 AAGTCTGCACTTAAGTAGCAGCTGCA
98124951 A
1 A
98124952 CGCGATGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (26 bp):
AAGTCTGCACTTAAGTAGCAGCTGCA
Found at i:98131183 original size:142 final size:142
Alignment explanation
Indices: 98130927--98131195 Score: 389
Period size: 142 Copynumber: 1.9 Consensus size: 142
98130917 ATAGACAAGA
** * * * *
98130927 GGAAAACTTGGGCATCTAAAGCAAAACTGATTTAAAAGGGAATAACAGTCTTTCACTCTCATCAC
1 GGAAAACCAGGGCATCTAAAACAAAACTCATTTAAAAGGGAACAACAGTCTATCACTCTCATCAC
** * *
98130992 CTACCATCTCCTTCGAGACTCGATTACGTTAGGAAACAGAAGATATATGAATGAAAATTGATACA
66 CTACCATCTCCCCCGAGACTCAATTACGTTAGGAAACAGAAGATATATGAATGAAAACTGATACA
98131057 AAACAAATATGT
131 AAACAAATATGT
*
98131069 GGAAAACCAGGGCATCTAAAACAAAAC-CATTTTAAAAGGGAACAACAGTCTATCATTCTCATCA
1 GGAAAACCAGGGCATCTAAAACAAAACTCA-TTTAAAAGGGAACAACAGTCTATCACTCTCATCA
* *
98131133 CCTACCATCTCCCCCGAGACTCAATTA-TTATATGAAACAGAAGATATATGAATGAAAACTGAT
65 CCTACCATCTCCCCCGAGACTCAATTACGT-TAGGAAACAGAAGATATATGAATGAAAACTGAT
98131196 TAAAAAAAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
141 2 0.02
142 110 0.98
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (142 bp):
GGAAAACCAGGGCATCTAAAACAAAACTCATTTAAAAGGGAACAACAGTCTATCACTCTCATCAC
CTACCATCTCCCCCGAGACTCAATTACGTTAGGAAACAGAAGATATATGAATGAAAACTGATACA
AAACAAATATGT
Found at i:98140733 original size:10 final size:10
Alignment explanation
Indices: 98140699--98140746 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
98140689 AATTTAGGAT
*
98140699 TTATTTTTAA
1 TTATCTTTAA
*
98140709 TTATATTTAA
1 TTATCTTTAA
98140719 TTATCTTTAA
1 TTATCTTTAA
* *
98140729 TTATCTGTAT
1 TTATCTTTAA
98140739 TTATCTTT
1 TTATCTTT
98140747 TAGAATTTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:98144478 original size:25 final size:26
Alignment explanation
Indices: 98144424--98144507 Score: 86
Period size: 25 Copynumber: 3.3 Consensus size: 26
98144414 GCAACCCAAT
*
98144424 TTTTATTTTATTTTATTTATTGT-TTTC
1 TTTTATTTTATTTTA-TTATT-TATTAC
* *
98144451 TTTTGTTTTCTTTT-TTATTTATTAC
1 TTTTATTTTATTTTATTATTTATTAC
*
98144476 -TTTATTTTATTTTATTATTTGTTAC
1 TTTTATTTTATTTTATTATTTATTAC
98144501 -TTTATTT
1 TTTTATTT
98144508 GGATATTAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
24 12 0.24
25 25 0.51
27 12 0.24
ACGTcount: A:0.15, C:0.05, G:0.04, T:0.76
Consensus pattern (26 bp):
TTTTATTTTATTTTATTATTTATTAC
Found at i:98145713 original size:92 final size:92
Alignment explanation
Indices: 98145538--98145713 Score: 253
Period size: 92 Copynumber: 1.9 Consensus size: 92
98145528 TTTTTAAGAA
* * **
98145538 TGTGTTAGGATGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTTTTCGTGTCAAAAGGTTTG
1 TGTGTTAGGATGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCA
* *
98145603 ATATGTTCTTAAGAAAAAAATTAGTAG
66 ATATATTCCTAAGAAAAAAATTAGTAG
* * * *
98145630 TGTGTTGGGTTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTGTCTTCGCGTCAAAAGGTTCA
1 TGTGTTAGGATGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCA
*
98145695 ATATATTCCTAAGTAAAAA
66 ATATATTCCTAAGAAAAAA
98145714 TAAATTAATA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (92 bp):
TGTGTTAGGATGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCA
ATATATTCCTAAGAAAAAAATTAGTAG
Found at i:98149522 original size:14 final size:15
Alignment explanation
Indices: 98149496--98149525 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
98149486 TGTTAAAAGG
98149496 AGCAATCTGGGCATC
1 AGCAATCTGGGCATC
98149511 AGCAAT-TGGGCATC
1 AGCAATCTGGGCATC
98149525 A
1 A
98149526 ATGGCTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (15 bp):
AGCAATCTGGGCATC
Found at i:98153764 original size:12 final size:13
Alignment explanation
Indices: 98153747--98153779 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
98153737 TTTAAAAAAT
98153747 AATTAAAATTA-A
1 AATTAAAATTATA
*
98153759 AATTAAAATTATT
1 AATTAAAATTATA
98153772 AATTAAAA
1 AATTAAAA
98153780 AATTTGTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAAAATTATA
Found at i:98158173 original size:9 final size:9
Alignment explanation
Indices: 98158154--98158186 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
98158144 TAGTACTTAT
98158154 TTTTTTCTTC
1 TTTTTT-TTC
98158164 TTTTTTTTC
1 TTTTTTTTC
98158173 -TTTTTTTC
1 TTTTTTTTC
98158181 TTTTTT
1 TTTTTT
98158187 ATTTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 8 0.36
10 6 0.27
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:98158178 original size:20 final size:20
Alignment explanation
Indices: 98158153--98158191 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
98158143 TTAGTACTTA
98158153 TTTTTTTCTTCTTTT-TTTTC
1 TTTTTTTCTT-TTTTATTTTC
98158173 TTTTTTTCTTTTTTATTTT
1 TTTTTTTCTTTTTTATTTT
98158192 TTTAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (20 bp):
TTTTTTTCTTTTTTATTTTC
Found at i:98158480 original size:118 final size:118
Alignment explanation
Indices: 98158320--98158668 Score: 572
Period size: 118 Copynumber: 3.0 Consensus size: 118
98158310 TATTTCCGGT
****
98158320 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
98158385 CCCACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCCACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
* *
98158438 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAACTC
1 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
98158503 CCCACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCCACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
* *
98158556 TAGCGGAGTTTTACTTGTCACGTCACACTACCTTTTGACACGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* * * * **
98158621 CCTACCCTGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCCACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACC
98158669 ATGGAAAACA
Statistics
Matches: 215, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 215 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCCACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
Found at i:98159648 original size:7 final size:6
Alignment explanation
Indices: 98159621--98159682 Score: 60
Period size: 5 Copynumber: 10.5 Consensus size: 6
98159611 ATTAATATTT
*
98159621 AAAT-A AAAT-A AAAT-A AAATAA TAAATAAA AAATTAA AAA-AT AAATAA
1 AAATAA AAATAA AAATAA AAATAA -AAAT-AA AAA-TAA AAATAA AAATAA
98159668 AAATAA AAATAA AAA
1 AAATAA AAATAA AAA
98159683 GAAAGATTGG
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
5 18 0.36
6 17 0.34
7 12 0.24
8 3 0.06
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:98159662 original size:19 final size:18
Alignment explanation
Indices: 98159621--98159680 Score: 72
Period size: 19 Copynumber: 3.4 Consensus size: 18
98159611 ATTAATATTT
*
98159621 AAATAAA-ATAAAATAAA
1 AAATAAATAAAAAATAAA
98159638 ATAATAAATAAAAAATTAAA
1 A-AATAAATAAAAAA-TAAA
98159658 AAATAAAT-AAAAAT-AA
1 AAATAAATAAAAAATAAA
98159674 AAATAAA
1 AAATAAA
98159681 AAGAAAGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
16 9 0.23
17 2 0.05
18 11 0.28
19 12 0.31
20 5 0.13
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (18 bp):
AAATAAATAAAAAATAAA
Found at i:98159682 original size:12 final size:12
Alignment explanation
Indices: 98159621--98159682 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
98159611 ATTAATATTT
98159621 AAAT-AAAAT-A
1 AAATAAAAATAA
98159631 AAAT-AAAATAA
1 AAATAAAAATAA
98159642 TAAATAAAAAATTAA
1 -AAAT-AAAAA-TAA
*
98159657 AAA-ATAAATAA
1 AAATAAAAATAA
98159668 AAATAAAAATAA
1 AAATAAAAATAA
98159680 AAA
1 AAA
98159683 GAAAGATTGG
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
10 9 0.20
11 7 0.16
12 18 0.41
14 7 0.16
15 3 0.07
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
AAATAAAAATAA
Found at i:98167016 original size:19 final size:19
Alignment explanation
Indices: 98166992--98167030 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
98166982 CCAATGTAAT
98166992 TTTTTTTACTGTTTTGCTA
1 TTTTTTTACTGTTTTGCTA
*
98167011 TTTTTTTATTGTTTTGCTA
1 TTTTTTTACTGTTTTGCTA
98167030 T
1 T
98167031 CATTTCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.10, C:0.08, G:0.10, T:0.72
Consensus pattern (19 bp):
TTTTTTTACTGTTTTGCTA
Found at i:98167758 original size:538 final size:533
Alignment explanation
Indices: 98166746--98167815 Score: 1646
Period size: 538 Copynumber: 2.0 Consensus size: 533
98166736 GTCAAACCTA
* *
98166746 AACCTAAAATTACATTAATTGAACTCAGAAAATTTTCATTCATGAATACTTTTAACTACACTTGT
1 AACCTAAAATTACATGAATTAAACTCAGAAAATTTTCATTCATGAATACTTTTAACTACACTTGT
** * *
98166811 ACATGGTTAAGCCGAAGGTCTGCTTGAAAAGTGAGAGGATTTGAACAAAAATATAAGCTCAAAAA
66 ACATGGTTAAGCCGAAGGTCCACTCGAAAAGTGAGAGGATCTGAACAAAAATATAAGCTCAAAAA
* * * * *
98166876 ATAGGCTTAGACAAAAAATAAGGCCTGTTTTTTAAACGGATCAAGCCTAGGATAAGCTTTTTTGG
131 ATAGACTTAGACAAAAAACAAGGCCCGTTTTCTAAACGGATCAAGCCTAGGATAAGCTTCTTTGG
* **
98166941 TCAGAGCTTGACCCAACCTGGCCTAATTTGTAAATAAAAAACCAATGTAATTTTTTTTACTGTTT
196 TCAGAGCCTGACCCAACCTGGCCTAATTTGTAAATAAAAAAAAAATGTAATTTTTTTTACTGTTT
* *
98167006 TGCTATTTTTTTATTGTTTTGCTATCATTTCATTATTATAATGCTGATATTTTATTGTTATTGTT
261 TGCTATTTTTTAATTGTTTTGCTATCATTTCATTATTATAATGATGATATTTTATTGTTATTGTT
* *
98167071 TGGATATTGTATAACTCTTATTTTATTATTAATTTTGCTATTATTTTAGAGATATTTGCCTGTTA
326 TGGATATTGTATAACTCTTATTTTATTATTAATTTTGCTACTATTTTAGAGATATTTGCCTGCTA
*
98167136 AGTTACACTTATCTTAGTGTTATTTAAGTATTTTTTTAATTTTTTATTTGTTGGGAAACATTTAT
391 AGTTACACTTATCTTAGTCTTATTTAAGTATTTTTTTAATTTTTTATTTGTTGGGAAACATTTAT
98167201 TTTAATATTTTTAGTGTATTTGATATATTATATTTTTAAAATTTATTTCTATATAAAAATAATAA
456 TTTAATATTTTTAGTGTATTTGATATATTATATTTTTAAAATTTATTTCTATATAAAAATAATAA
98167266 TATAAAAAATTTT
521 TATAAAAAATTTT
* *
98167279 AACCTAAAATTACATGAATTAAACTCAGAAAATTTTCATTCATGAATACTTTTAATTGCACTTGT
1 AACCTAAAATTACATGAATTAAACTCAGAAAATTTTCATTCATGAATACTTTTAACTACACTTGT
* * * *
98167344 ACATGGTTAGGCCGAAGGTCCACTCGAAAAGTGAGAGGATCTGGATAAAAATATAGGCTCAAAAA
66 ACATGGTTAAGCCGAAGGTCCACTCGAAAAGTGAGAGGATCTGAACAAAAATATAAGCTCAAAAA
* *
98167409 ATAGATTTAGAC-AAAAACAAGGCCCGTTTTCTAAACGGATCAAGCCTAGGGTAAG-TTCTTTGG
131 ATAGACTTAGACAAAAAACAAGGCCCGTTTTCTAAACGGATCAAGCCTAGGATAAGCTTCTTTGG
* * *
98167472 TC-GAGGCCTGACCTAACTTGGCCTGAATTTGTAAA-AAAAAAAAAATTGATGCTATTTTTTTTA
196 TCAGA-GCCTGACCCAACCTGGCCT-AATTTGTAAATAAAAAAAAAA-TG-T--AATTTTTTTTA
* * *
98167535 CTGTTTTGCTACTGCTTTTTAATTGTTTTGCTATTATTTCATTATTATATTGAT-ACTATTTTGT
255 CTGTTTTGCTA-T--TTTTTAATTGTTTTGCTATCATTTCATTATTATAATGATGA-TATTTTAT
*
98167599 TGTTATTGTTTGGATATTGTATAACTCTTATTTTATTATTAATTTTGCTACTATTTTAGAGGTAT
316 TGTTATTGTTTGGATATTGTATAACTCTTATTTTATTATTAATTTTGCTACTATTTTAGAGATAT
* *
98167664 TTGCTTGCTAAGTTACATTTATCTTAGTCTTATTTAAGTATTTTTTTAATTTTTTATTTGTTGGG
381 TTGCCTGCTAAGTTACACTTATCTTAGTCTTATTTAAGTATTTTTTTAATTTTTTATTTGTTGGG
* * * * *
98167729 AAATATTTATTTTAATTTTTTTAGTGTATTTGATGTATTATATTTTTTAAATTTATTTTTATATA
446 AAACATTTATTTTAATATTTTTAGTGTATTTGATATATTATATTTTTAAAATTTATTTCTATATA
98167794 AAAATAATAATATAAAAAATTT
511 AAAATAATAATATAAAAAATTT
98167816 AATATGGGCG
Statistics
Matches: 486, Mismatches: 41, Indels: 15
0.90 0.08 0.03
Matches are distributed among these distances:
530 2 0.00
531 33 0.07
532 51 0.10
533 129 0.27
535 21 0.04
536 1 0.00
537 1 0.00
538 248 0.51
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (533 bp):
AACCTAAAATTACATGAATTAAACTCAGAAAATTTTCATTCATGAATACTTTTAACTACACTTGT
ACATGGTTAAGCCGAAGGTCCACTCGAAAAGTGAGAGGATCTGAACAAAAATATAAGCTCAAAAA
ATAGACTTAGACAAAAAACAAGGCCCGTTTTCTAAACGGATCAAGCCTAGGATAAGCTTCTTTGG
TCAGAGCCTGACCCAACCTGGCCTAATTTGTAAATAAAAAAAAAATGTAATTTTTTTTACTGTTT
TGCTATTTTTTAATTGTTTTGCTATCATTTCATTATTATAATGATGATATTTTATTGTTATTGTT
TGGATATTGTATAACTCTTATTTTATTATTAATTTTGCTACTATTTTAGAGATATTTGCCTGCTA
AGTTACACTTATCTTAGTCTTATTTAAGTATTTTTTTAATTTTTTATTTGTTGGGAAACATTTAT
TTTAATATTTTTAGTGTATTTGATATATTATATTTTTAAAATTTATTTCTATATAAAAATAATAA
TATAAAAAATTTT
Found at i:98170855 original size:21 final size:21
Alignment explanation
Indices: 98170826--98170878 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
98170816 TTTTGGATAT
98170826 TTTCC-CCCA-TAATCCCCTAA
1 TTTCCTCCCACTAAT-CCCTAA
*
98170846 TTTCCTCCCACTTATCCCTAA
1 TTTCCTCCCACTAATCCCTAA
*
98170867 CTTCGCTCCCAC
1 TTTC-CTCCCAC
98170879 ACCTCCTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.18
21 13 0.46
22 10 0.36
ACGTcount: A:0.19, C:0.47, G:0.02, T:0.32
Consensus pattern (21 bp):
TTTCCTCCCACTAATCCCTAA
Found at i:98172161 original size:51 final size:51
Alignment explanation
Indices: 98172090--98172203 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
98172080 CTGATCACAT
98172090 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
98172141 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
98172192 TTGTCGCTTGTC
1 TTATCACTTGTC
98172204 GCTTGTCACT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:98175863 original size:18 final size:18
Alignment explanation
Indices: 98175840--98175905 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
98175830 GTAGGATTTG
98175840 TTTTGATTTGATATGACA
1 TTTTGATTTGATATGACA
* **
98175858 TTTTGATATGATAT-ATG
1 TTTTGATTTGATATGACA
* *
98175875 TTTT--TGGTAATATGACA
1 TTTTGAT-TTGATATGACA
98175892 TTTTGATTTGATAT
1 TTTTGATTTGATAT
98175906 TTGTATATGT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 10 0.29
18 18 0.51
19 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.17, T:0.53
Consensus pattern (18 bp):
TTTTGATTTGATATGACA
Found at i:98177496 original size:60 final size:60
Alignment explanation
Indices: 98177429--98177561 Score: 203
Period size: 60 Copynumber: 2.2 Consensus size: 60
98177419 ATCTCGGGTT
* ** *
98177429 ACATTTTAGTCATTTATATTTGAAATGTTACGTTTTAGTCATTTACATTAACGTGTTGTA
1 ACATTTTAGTCACTTATATTTGAAACATTACGTTTTAGTCACTTACATTAACGTGTTGTA
* * *
98177489 ACATTTTAGTCACTTATATTTGAAACATTATGTTTTAGTCACTTGCATTAATGTGTTGTA
1 ACATTTTAGTCACTTATATTTGAAACATTACGTTTTAGTCACTTACATTAACGTGTTGTA
98177549 ACATTTTAGTCAC
1 ACATTTTAGTCAC
98177562 CGAGCTGTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.47
Consensus pattern (60 bp):
ACATTTTAGTCACTTATATTTGAAACATTACGTTTTAGTCACTTACATTAACGTGTTGTA
Found at i:98177998 original size:14 final size:14
Alignment explanation
Indices: 98177981--98178028 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
98177971 GAAAAGAATG
98177981 AAAAATAAAGAAAA
1 AAAAATAAAGAAAA
*
98177995 AAAAAGAAAGTTAAAA
1 AAAAATAAAG--AAAA
*
98178011 AAACATAAAAGAAAA
1 AAAAAT-AAAGAAAA
98178026 AAA
1 AAA
98178029 TTAAATTGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 9 0.32
15 7 0.25
16 8 0.29
17 4 0.14
ACGTcount: A:0.81, C:0.02, G:0.08, T:0.08
Consensus pattern (14 bp):
AAAAATAAAGAAAA
Found at i:98183760 original size:30 final size:31
Alignment explanation
Indices: 98183726--98183789 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
98183716 ATTTATTTTA
*
98183726 TTGTTAA-TTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTTATTATTATTTTAGAA-GCAT
98183756 TTGTTAATTTTTATTATTATTTTAGAAGCAT
1 TTGTTAATTTTTATTATTATTTTAGAAGCAT
98183787 TTG
1 TTG
98183790 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 7 0.23
31 22 0.71
32 2 0.06
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.58
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAGAAGCAT
Found at i:98188709 original size:30 final size:30
Alignment explanation
Indices: 98188675--98188735 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
98188665 CATAATAAGG
98188675 AATGCAATCAATAAAGTTGGTTAGAATTCC
1 AATGCAATCAATAAAGTTGGTTAGAATTCC
98188705 AATGCAATCAATAAAGTTGGTTAGAATTCC
1 AATGCAATCAATAAAGTTGGTTAGAATTCC
98188735 A
1 A
98188736 GTCCTAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (30 bp):
AATGCAATCAATAAAGTTGGTTAGAATTCC
Found at i:98194766 original size:21 final size:21
Alignment explanation
Indices: 98194743--98194912 Score: 128
Period size: 21 Copynumber: 8.2 Consensus size: 21
98194733 GTGTTTTACT
* *
98194743 TTCTGTTTAGCTCTTACGAGT
1 TTCTGTTCAGCTCTTACGAGC
* * * * *
98194764 TTCTGTTTAACTCCTATGAGT
1 TTCTGTTCAGCTCTTACGAGC
*
98194785 TTCTGTTCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTACGAGC
* ** *
98194806 TTCTATTCAATTCTTATGAGC
1 TTCTGTTCAGCTCTTACGAGC
** * * *
98194827 TTCTGTTCAATTATTAAGAGT
1 TTCTGTTCAGCTCTTACGAGC
*
98194848 TTCTATTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
*
98194869 TTCTGTTAAGCT-TT-CGAGC
1 TTCTGTTCAGCTCTTACGAGC
* **
98194888 TTCTGTTAAGCTCTTTTGAGC
1 TTCTGTTCAGCTCTTACGAGC
98194909 TTCT
1 TTCT
98194913 ATTAACCCTT
Statistics
Matches: 124, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.14
20 4 0.03
21 103 0.83
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTACGAGC
Found at i:98194958 original size:21 final size:21
Alignment explanation
Indices: 98194898--98194960 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
98194888 TTCTGTTAAG
*
98194898 CTCTTTTGAGCTTCTATT-AA
1 CTCTTTTGAGCTTTTATTCAA
* * * *
98194918 CCCTTATG-GGTTTTCGTTCAA
1 CTCTTTTGAGCTTTT-ATTCAA
98194939 CTCTTTTGAGCTTTTATTCAA
1 CTCTTTTGAGCTTTTATTCAA
98194960 C
1 C
98194961 CCTTATGGGT
Statistics
Matches: 31, Mismatches: 9, Indels: 5
0.69 0.20 0.11
Matches are distributed among these distances:
19 4 0.13
20 8 0.26
21 14 0.45
22 5 0.16
ACGTcount: A:0.17, C:0.22, G:0.13, T:0.48
Consensus pattern (21 bp):
CTCTTTTGAGCTTTTATTCAA
Found at i:98194977 original size:21 final size:20
Alignment explanation
Indices: 98194912--98194977 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
98194902 TTTGAGCTTC
98194912 TATT-AACCCTTATGGGTTT
1 TATTCAACCCTTATGGGTTT
* * * *
98194931 TCGTTCAACTCTTTTGAGCTTT
1 T-ATTCAACCCTTATG-GGTTT
98194953 TATTCAACCCTTATGGGTTT
1 TATTCAACCCTTATGGGTTT
98194973 CTATT
1 -TATT
98194978 TAGCTTTCAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 1 0.03
20 6 0.17
21 23 0.66
22 5 0.14
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (20 bp):
TATTCAACCCTTATGGGTTT
Found at i:98197356 original size:50 final size:50
Alignment explanation
Indices: 98197284--98197474 Score: 185
Period size: 50 Copynumber: 3.8 Consensus size: 50
98197274 GGTCACATAG
* * *
98197284 GTATGTACATATATGATGTTATATTGGATCTTGTATATTCG-GATATAAA
1 GTATGCACATATGTGATATTATATTGGATCTTGTATATTCGAGATATAAA
* *
98197333 GCTATGCACAAATGTGATATTATATTTGAAT-TTGTATATTC-AGCCATAT-AA
1 G-TATGCACATATGTGATATTATA-TTGGATCTTGTATATTCGAG--ATATAAA
* * * * * *
98197384 GTAAGCACATATGTGATATTATATTTGATCTTGCATATTTGAGA-ACATAG
1 GTATGCACATATGTGATATTATATTGGATCTTGTATATTCGAGATATA-AA
* *
98197434 GTATGCATATATGTGATATTATATTTGATCTTGTATATTCG
1 GTATGCACATATGTGATATTATATTGGATCTTGTATATTCG
98197475 GCCAAATGAA
Statistics
Matches: 116, Mismatches: 17, Indels: 17
0.77 0.11 0.11
Matches are distributed among these distances:
48 1 0.01
49 6 0.05
50 95 0.82
51 10 0.09
52 4 0.03
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (50 bp):
GTATGCACATATGTGATATTATATTGGATCTTGTATATTCGAGATATAAA
Found at i:98197448 original size:100 final size:100
Alignment explanation
Indices: 98197290--98197478 Score: 247
Period size: 100 Copynumber: 1.9 Consensus size: 100
98197280 ATAGGTATGT
* * *
98197290 ACATATATGATGTTATATTGGATCTTGTATATTCGGATATAAAGCTATGCACAAATGTGATATTA
1 ACATATATGATATTATATTGGATCTTGCATATTCGGATACAAAGCTATGCACAAATGTGATATTA
98197355 TATTTGAAT-TTGTATATTCAGCCATATAAGTAAGC
66 TATTTG-ATCTTGTATATTCAGCCATATAAGTAAGC
* * * * * * *
98197390 ACATATGTGATATTATATTTGATCTTGCATATTTGAGA-ACATAGGTATGCATATATGTGATATT
1 ACATATATGATATTATATTGGATCTTGCATATTCG-GATACAAAGCTATGCACAAATGTGATATT
*
98197454 ATATTTGATCTTGTATATTCGGCCA
65 ATATTTGATCTTGTATATTCAGCCA
98197479 AATGAATGAT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
99 2 0.03
100 72 0.95
101 2 0.03
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (100 bp):
ACATATATGATATTATATTGGATCTTGCATATTCGGATACAAAGCTATGCACAAATGTGATATTA
TATTTGATCTTGTATATTCAGCCATATAAGTAAGC
Done.