Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 339 of 427
Found at i:98839997 original size:132 final size:132
Alignment explanation
Indices: 98839843--98841043 Score: 2053
Period size: 132 Copynumber: 9.1 Consensus size: 132
98839833 CGAATACGGA
* *
98839843 GATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAACACAGGGATACCATGCTGAAATCTTCG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
* * *
98839908 ATCTGCTTCACTGTAAGCACAGGAATGTTAGATCTGCTATCTTCGATTTGTTCCCTATAAACACA
66 ATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTATTCCCTATAAACACA
98839973 GG
131 GG
98839975 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
98840040 ATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTATTCCCTATAAACACA
66 ATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTATTCCCTATAAACACA
98840105 GG
131 GG
* * * * * * *
98840107 GATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAACATATGGATGCGATGTTAAAATCTTTG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
* *
98840172 ATCTGTTTCGCTATAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTATTCCCTATAAACACA
66 ATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTATTCCCTATAAACACA
98840237 GG
131 GG
*
98840239 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAAACAGGGATGCCATGCTGAAATCTTCG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
98840304 ATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTATTCCCTATAAACACA
66 ATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTATTCCCTATAAACACA
98840369 GG
131 GG
98840371 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
* * * * *
98840436 ATCTGCTTCACCGTAAGCACAGGAATGTCAGATCTGCTATCTTTGATTTTTTCCCTATAAACATA
66 ATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTATTCCCTATAAACACA
98840501 GG
131 GG
* *
98840503 GATGCCAAATCTGCTATCTTTAACTTGTTCCATATAAACACAGGGATGCCATGCTGAAATCTTCG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
* *
98840568 ATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTACTATCTTTGATTTATTCCCTATAAACACA
66 ATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTATTCCCTATAAACACA
98840633 GG
131 GG
* * *
98840635 GATGCAAAATCTGCTATCTTTAACTTGTTCCCTATAAATACAGGGATGCCATGCTGAAATCTTCG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
* * *
98840700 ATCTGCTTCGCTGTAAGCACAGGAATGTCAAATCTGCTATCTTCGATTTGTTCCCTATAAACACT
66 ATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTATTCCCTATAAACACA
98840765 GG
131 GG
98840767 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
* * *
98840832 ATCTGCTTCACTGTAAGCATAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACA
66 ATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTATTCCCTATAAACACA
98840897 GG
131 GG
* *
98840899 GATTCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACTGGGATGCCATGCTGAAATCTTCG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
*
98840964 ATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTGCTATCTTCGATCTGT-TTCCCTATAAACA
66 ATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT-T-TATTCCCTATAAACA
98841028 CAGG
129 CAGG
98841032 GATGCCAAATCT
1 GATGCCAAATCT
98841044 AGTTTCTTTG
Statistics
Matches: 1009, Mismatches: 58, Indels: 3
0.94 0.05 0.00
Matches are distributed among these distances:
132 979 0.97
133 29 0.03
134 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (132 bp):
GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
ATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTATTCCCTATAAACACA
GG
Found at i:98847153 original size:32 final size:32
Alignment explanation
Indices: 98847117--98847184 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
98847107 TTAAAATAAA
98847117 AAAAGGTTGAAAAACTAAGATAGACGAAGAAT
1 AAAAGGTTGAAAAACTAAGATAGACGAAGAAT
98847149 AAAAGGTTGAAAAACTAAGATAGACGAAGAAT
1 AAAAGGTTGAAAAACTAAGATAGACGAAGAAT
98847181 AAAA
1 AAAA
98847185 TAAGAAAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.59, C:0.06, G:0.21, T:0.15
Consensus pattern (32 bp):
AAAAGGTTGAAAAACTAAGATAGACGAAGAAT
Found at i:98847413 original size:22 final size:21
Alignment explanation
Indices: 98847383--98847448 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
98847373 TACAAATTAA
98847383 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
98847405 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
98847426 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
98847445 ATCT
1 ATCT
98847449 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:98847435 original size:19 final size:19
Alignment explanation
Indices: 98847400--98847478 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
98847390 AGATTACAAG
98847400 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
98847421 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
98847440 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
98847457 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
98847476 ATC
1 ATC
98847479 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:98847442 original size:14 final size:15
Alignment explanation
Indices: 98847422--98847478 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
98847412 AGATTGCATA
98847422 TCATATCTAAGATTG
1 TCATATCTAAGATTG
98847437 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
98847456 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
98847473 -CATATC
1 TCATATC
98847479 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:98847464 original size:36 final size:39
Alignment explanation
Indices: 98847400--98847478 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 39
98847390 AGATTACAAG
98847400 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
98847440 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
98847476 ATC
1 ATC
98847479 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Found at i:98848989 original size:29 final size:30
Alignment explanation
Indices: 98848956--98849019 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
98848946 GCAGAGTGAA
*
98848956 GAGCTTACA-AGTGAGCTCTTACGC-TTGGT
1 GAGCTTACAGA-TGAGCTCTCACGCTTTGGT
* *
98848985 GAGCTTGCAGATGAGCTCTCATGCTTTGGT
1 GAGCTTACAGATGAGCTCTCACGCTTTGGT
98849015 GAGCT
1 GAGCT
98849020 CGCACATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (30 bp):
GAGCTTACAGATGAGCTCTCACGCTTTGGT
Found at i:98859377 original size:33 final size:33
Alignment explanation
Indices: 98859335--98859400 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
98859325 CCATCAATGA
98859335 TTGCACCACCCACTAGTCAGTATGTATCGTCTT
1 TTGCACCACCCACTAGTCAGTATGTATCGTCTT
*
98859368 TTGCACCACCCACTAGTCAGTATGTATTGTCTT
1 TTGCACCACCCACTAGTCAGTATGTATCGTCTT
98859401 ATTCTCGTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (33 bp):
TTGCACCACCCACTAGTCAGTATGTATCGTCTT
Found at i:98860214 original size:20 final size:21
Alignment explanation
Indices: 98860168--98860207 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
98860158 GAGTATTTTG
98860168 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAGATTATGA
98860189 ATGTTTAATGATAG-TTATG
1 ATGTTTAATGATAGATTATG
98860208 CAAGTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (21 bp):
ATGTTTAATGATAGATTATGA
Found at i:98860794 original size:12 final size:12
Alignment explanation
Indices: 98860777--98860802 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
98860767 AGAATAGGGC
98860777 TTTAGCGGCGTT
1 TTTAGCGGCGTT
98860789 TTTAGCGGCGTT
1 TTTAGCGGCGTT
98860801 TT
1 TT
98860803 ATGATAAAAC
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:98860956 original size:41 final size:41
Alignment explanation
Indices: 98860894--98861113 Score: 334
Period size: 41 Copynumber: 5.4 Consensus size: 41
98860884 CATTTTTTAC
*
98860894 TAAAATGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
** * * *
98860934 TAAAACGATGCTAAAAACCAGAGCACTAGCGACGCTGTTGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
*
98860975 TAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTTGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
*
98861016 TAAAACGCCGTTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* * *
98861057 TAAAACGTCGCTAAAAACCAGAGCATTAGCGGCGTTTTTAG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
98861098 TAAAACGCCGCTAAAA
1 TAAAACGCCGCTAAAA
98861114 GTCATATAAC
Statistics
Matches: 160, Mismatches: 19, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
40 14 0.09
41 146 0.91
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (41 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
Found at i:98861295 original size:14 final size:14
Alignment explanation
Indices: 98861276--98861313 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
98861266 TATCATTACA
98861276 GTTTAAGGTTTATG
1 GTTTAAGGTTTATG
* *
98861290 GTTTAAGATATATG
1 GTTTAAGGTTTATG
98861304 GTTT-AGGTTT
1 GTTTAAGGTTT
98861314 TAAGCAGGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (14 bp):
GTTTAAGGTTTATG
Found at i:98861306 original size:21 final size:21
Alignment explanation
Indices: 98861282--98861366 Score: 64
Period size: 21 Copynumber: 3.7 Consensus size: 21
98861272 TACAGTTTAA
98861282 GGTTTATGGTTTAAGATATAT
1 GGTTTATGGTTTAAGATATAT
*
98861303 GGTTTA-GGTTTTAAGCAGGTTTAT
1 GGTTTATGG-TTTAAG-A--TATAT
*
98861327 GAGTTAACTATGGTTTAAGATATAC
1 G-GTT---TATGGTTTAAGATATAT
*
98861352 GGTTTAGGGTTTAAG
1 GGTTTATGGTTTAAG
98861367 GTTTAAGAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 18
0.70 0.05 0.25
Matches are distributed among these distances:
20 2 0.04
21 22 0.43
22 1 0.02
24 8 0.16
25 7 0.14
27 1 0.02
28 8 0.16
29 2 0.04
ACGTcount: A:0.27, C:0.04, G:0.27, T:0.42
Consensus pattern (21 bp):
GGTTTATGGTTTAAGATATAT
Found at i:98861344 original size:49 final size:46
Alignment explanation
Indices: 98861286--98861382 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 46
98861276 GTTTAAGGTT
* * *
98861286 TATGGTTTAAGATATATGGTTTAGGTTTTAAGCAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATACGGTTTAGGGTTT-A--AGGTTTAAGAGTTAAC
98861335 TATGGTTTAAGATATACGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
1 TATGGTTTAAGATATACGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
98861381 TA
1 TA
98861383 GTATTTGAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 17 0.38
48 1 0.02
49 27 0.60
ACGTcount: A:0.30, C:0.04, G:0.25, T:0.41
Consensus pattern (46 bp):
TATGGTTTAAGATATACGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
Found at i:98861946 original size:14 final size:14
Alignment explanation
Indices: 98861927--98861971 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
98861917 TTAATTATCA
98861927 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
98861941 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
*
98861955 GTATAGTTTAGGGT
1 TTATAGTTTAGGGT
98861969 TTA
1 TTA
98861972 ATTTTTAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:98862273 original size:31 final size:33
Alignment explanation
Indices: 98862238--98862299 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
98862228 AAAAAGTTTA
98862238 ATATTCAAAATA-AAAAAATTTAAAA-AAAATG
1 ATATTCAAAATATAAAAAATTTAAAAGAAAATG
** *
98862269 ATATTCTCAATATAAAAATTTTAAAAGAAAA
1 ATATTCAAAATATAAAAAATTTAAAAGAAAA
98862300 AAATAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 10 0.38
32 12 0.46
33 4 0.15
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (33 bp):
ATATTCAAAATATAAAAAATTTAAAAGAAAATG
Found at i:98865719 original size:2 final size:2
Alignment explanation
Indices: 98865712--98865738 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
98865702 TTGATTTTAG
98865712 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
98865739 GTTTTCTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:98866927 original size:19 final size:19
Alignment explanation
Indices: 98866904--98866950 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
98866894 ATTTAATCTA
*
98866904 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
98866922 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
98866942 ATTTTTATT
1 ATTTTTATT
98866951 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:98873025 original size:43 final size:43
Alignment explanation
Indices: 98872939--98873033 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
98872929 TCCAAGATAG
* ** ** *
98872939 GGTCTTACACATAATCGATTAACAATGTCAATGTCTTAGACAT
1 GGTCTTACACATAATCGATAAACAATACCAATGTCCCACACAT
*
98872982 GGTTTTACACATAATC-ATAATACAATACCAATGTCCCACACAT
1 GGTCTTACACATAATCGATAA-ACAATACCAATGTCCCACACAT
98873025 GGTCTTACA
1 GGTCTTACA
98873034 TGTAATCACA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 3 0.07
43 40 0.93
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.31
Consensus pattern (43 bp):
GGTCTTACACATAATCGATAAACAATACCAATGTCCCACACAT
Found at i:98873907 original size:45 final size:45
Alignment explanation
Indices: 98873843--98873932 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
98873833 TAATTAACCT
98873843 TGGTTTATAAACATTTAAAACATCAAATATAAGGCCATTTATGTC
1 TGGTTTATAAACATTTAAAACATCAAATATAAGGCCATTTATGTC
*
98873888 TGGTTTATAAACATTTAAAACATCAAATATAAGGCTATTTATGTC
1 TGGTTTATAAACATTTAAAACATCAAATATAAGGCCATTTATGTC
98873933 AAACTCCACT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (45 bp):
TGGTTTATAAACATTTAAAACATCAAATATAAGGCCATTTATGTC
Found at i:98878875 original size:34 final size:34
Alignment explanation
Indices: 98878832--98878900 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
98878822 CATGGGCTTA
98878832 ATATTTCTAAGTTAAGAAATGTAATTAATCTAAC
1 ATATTTCTAAGTTAAGAAATGTAATTAATCTAAC
98878866 ATATTTCTAAGTTAAGAAATGTAATTAATCTAAC
1 ATATTTCTAAGTTAAGAAATGTAATTAATCTAAC
98878900 A
1 A
98878901 CAATTATGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (34 bp):
ATATTTCTAAGTTAAGAAATGTAATTAATCTAAC
Found at i:98887470 original size:2 final size:2
Alignment explanation
Indices: 98887463--98887489 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
98887453 AACTATTGTA
98887463 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
98887490 ATAAATAGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:98888469 original size:23 final size:23
Alignment explanation
Indices: 98888404--98888469 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
98888394 TAACATTGTA
98888404 CGTGAACATGTTCAATTATATATT
1 CGTGAACATGTTCAATTA-ATATT
* * **
98888428 CATGAATATGTTCGTTTAATATT
1 CGTGAACATGTTCAATTAATATT
* *
98888451 TGTGAACATATTCAATTAA
1 CGTGAACATGTTCAATTAA
98888470 GTTAAATGAA
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
23 18 0.56
24 14 0.44
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (23 bp):
CGTGAACATGTTCAATTAATATT
Found at i:98891997 original size:17 final size:17
Alignment explanation
Indices: 98891975--98892041 Score: 59
Period size: 17 Copynumber: 4.0 Consensus size: 17
98891965 ATTAATTGTT
98891975 TTAAATTATTTATTATA
1 TTAAATTATTTATTATA
* *
98891992 TTAAATTA-TAATTATT
1 TTAAATTATTTATTATA
*
98892008 TTTAATTACTTT-TTATAA
1 TTAAATTA-TTTATTAT-A
*
98892026 TT-AATTATTTTTTATA
1 TTAAATTATTTATTATA
98892042 ACATTGTCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
16 17 0.41
17 21 0.51
18 3 0.07
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (17 bp):
TTAAATTATTTATTATA
Found at i:98892004 original size:33 final size:33
Alignment explanation
Indices: 98891967--98892033 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
98891957 ATACTTTAAT
*
98891967 TAATTGTTTTAAATTA-TTTATTAT-ATTAAATTA
1 TAATTATTTTAAATTACTTT-TTATAATT-AATTA
*
98892000 TAATTATTTTTAATTACTTTTTATAATTAATTA
1 TAATTATTTTAAATTACTTTTTATAATTAATTA
98892033 T
1 T
98892034 TTTTTATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 24 0.80
34 6 0.20
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (33 bp):
TAATTATTTTAAATTACTTTTTATAATTAATTA
Found at i:98911603 original size:41 final size:41
Alignment explanation
Indices: 98911558--98911675 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
98911548 TGAAAGATAA
98911558 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
98911599 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
98911629 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
98911670 ATGTAG
1 ATGTAG
98911676 ACAAGATAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:98911614 original size:71 final size:71
Alignment explanation
Indices: 98911526--98911689 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
98911516 GAGATGTATC
98911526 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
98911591 AGGACA
66 AGGACA
98911597 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
98911662 AGGACA
66 AGGACA
*
98911668 CCATGTAGACAAGATAGCTACG
1 CCATGTAGACAAGAGAGCTACG
98911690 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:98913737 original size:23 final size:23
Alignment explanation
Indices: 98913706--98913749 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
98913696 TTTTGAGCAA
98913706 TTTAA-TTTTTTCTTTTATTTTGT
1 TTTAATTTTTTTC-TTTATTTTGT
*
98913729 TTTACTTTTTTTCTTTATTTT
1 TTTAATTTTTTTCTTTATTTT
98913750 CCATTCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTAATTTTTTTCTTTATTTTGT
Found at i:98920483 original size:3 final size:3
Alignment explanation
Indices: 98920477--98920575 Score: 80
Period size: 3 Copynumber: 34.0 Consensus size: 3
98920467 TTCTAAGATT
* ** *
98920477 TTA TTA TTA TTAA TTA TTA GTA TGG TT- TTA -TA TTA -AA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
98920520 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TAA TTA TT- TAA TTG GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
98920567 TTA TTA TTA
1 TTA TTA TTA
98920576 AATAAATTAA
Statistics
Matches: 74, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
2 6 0.08
3 65 0.88
4 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:98920800 original size:23 final size:22
Alignment explanation
Indices: 98920772--98920828 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
98920762 ATAATGACAA
*
98920772 TTGTAATAAAA-ATATTGGTACAT
1 TTGTAATAAAAGATA-T-GTACAC
98920795 TTGTAATAAATAGATATGTACAC
1 TTGTAATAAA-AGATATGTACAC
98920818 TTGTAATAAAA
1 TTGTAATAAAA
98920829 TAACTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 1 0.03
23 25 0.81
24 2 0.06
25 3 0.10
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (22 bp):
TTGTAATAAAAGATATGTACAC
Found at i:98920957 original size:23 final size:24
Alignment explanation
Indices: 98920914--98920962 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
98920904 AATAAAATAA
98920914 ATGGTGACAATTGTATGGTAT-TG
1 ATGGTGACAATTGTATGGTATATG
* *
98920937 ATGGTGTACACTTGTGT-GTATATG
1 ATGGTG-ACAATTGTATGGTATATG
98920961 AT
1 AT
98920963 TAAATACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.24, C:0.06, G:0.29, T:0.41
Consensus pattern (24 bp):
ATGGTGACAATTGTATGGTATATG
Found at i:98921057 original size:22 final size:21
Alignment explanation
Indices: 98921025--98921065 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
98921015 TAAACAAAGT
98921025 AAATAAAAGAATAAAAGAATG
1 AAATAAAAGAATAAAAGAATG
*
98921046 AAATAAAAAGAATCAAAGAA
1 AAAT-AAAAGAATAAAAGAA
98921066 AAGAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.12
Consensus pattern (21 bp):
AAATAAAAGAATAAAAGAATG
Found at i:98922001 original size:23 final size:23
Alignment explanation
Indices: 98921975--98922036 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 23
98921965 TTTACTGATT
* *
98921975 AGGCACTTTATGTGTCGTATTTC
1 AGGCACCTCATGTGTCGTATTTC
*
98921998 AGGCACCTCGTGTGTCGTA--TC
1 AGGCACCTCATGTGTCGTATTTC
*
98922019 AGGCACCTCGTGTGTCGT
1 AGGCACCTCATGTGTCGT
98922037 TTTAGATACT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 20 0.56
23 16 0.44
ACGTcount: A:0.15, C:0.24, G:0.27, T:0.34
Consensus pattern (23 bp):
AGGCACCTCATGTGTCGTATTTC
Found at i:98922020 original size:21 final size:22
Alignment explanation
Indices: 98921985--98922036 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
98921975 AGGCACTTTA
98921985 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA-TTCAGGCACCTCG
98922008 TGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTCAGGCACCTCG
98922029 TGTGTCGT
1 TGTGTCGT
98922037 TTTAGATACT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 20 0.69
23 9 0.31
ACGTcount: A:0.12, C:0.25, G:0.29, T:0.35
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCG
Found at i:98924297 original size:13 final size:13
Alignment explanation
Indices: 98924279--98924305 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
98924269 ATCTTTTTCA
98924279 CTTGTTTAACTGT
1 CTTGTTTAACTGT
98924292 CTTGTTTAACTGT
1 CTTGTTTAACTGT
98924305 C
1 C
98924306 CCACTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.52
Consensus pattern (13 bp):
CTTGTTTAACTGT
Found at i:98925664 original size:30 final size:29
Alignment explanation
Indices: 98925628--98925685 Score: 107
Period size: 30 Copynumber: 2.0 Consensus size: 29
98925618 AGGATACGGC
98925628 CCAGAATAAGGTGGTACATACTAATATGGA
1 CCAGAATAAGGTGGTACATACTAA-ATGGA
98925658 CCAGAATAAGGTGGTACATACTAAATGG
1 CCAGAATAAGGTGGTACATACTAAATGG
98925686 GGTGTAGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (29 bp):
CCAGAATAAGGTGGTACATACTAAATGGA
Found at i:98928146 original size:17 final size:17
Alignment explanation
Indices: 98928124--98928156 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
98928114 TTAACTTTAA
98928124 CTAAATTATT-TAATAAT
1 CTAAATT-TTCTAATAAT
98928141 CTAAATTTTCTAATAA
1 CTAAATTTTCTAATAA
98928157 ATAAGCATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (17 bp):
CTAAATTTTCTAATAAT
Found at i:98928484 original size:22 final size:21
Alignment explanation
Indices: 98928459--98928509 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
98928449 GTTTTTTATC
*
98928459 ATTTATTTATTTTTAATTATTG
1 ATTTATTTATTTTCAATT-TTG
** *
98928481 ATTTAAGTATTTTCAATTTTT
1 ATTTATTTATTTTCAATTTTG
98928502 ATTTATTT
1 ATTTATTT
98928510 TTGGTTATAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (21 bp):
ATTTATTTATTTTCAATTTTG
Found at i:98933575 original size:27 final size:27
Alignment explanation
Indices: 98933539--98933597 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
98933529 AATTGCATCT
98933539 TCTTCCAAATCTATGCTTTCATTATCA
1 TCTTCCAAATCTATGCTTTCATTATCA
98933566 TCTTCCAAATCTATGCTTTCATTATCA
1 TCTTCCAAATCTATGCTTTCATTATCA
98933593 TCTTC
1 TCTTC
98933598 AACCAAAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.24, C:0.27, G:0.03, T:0.46
Consensus pattern (27 bp):
TCTTCCAAATCTATGCTTTCATTATCA
Found at i:98940613 original size:15 final size:15
Alignment explanation
Indices: 98940595--98940625 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
98940585 CTAAAAATTG
98940595 AGTGACCAAAATGAA
1 AGTGACCAAAATGAA
*
98940610 AGTGACTAAAATGAA
1 AGTGACCAAAATGAA
98940625 A
1 A
98940626 TCCCCTAAAA
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:0.55, C:0.10, G:0.19, T:0.16
Consensus pattern (15 bp):
AGTGACCAAAATGAA
Found at i:98940675 original size:31 final size:30
Alignment explanation
Indices: 98940612--98940675 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
98940602 AAAATGAAAG
* * *
98940612 TGACTAAAATGAAATCCCCTAAAAATTGGA
1 TGACCAAAATGAAAGCCCCTAAAAATTAGA
* *
98940642 TGACCAAAATGAAAGCACCCTAGAGATTAGA
1 TGACCAAAATGAAAGC-CCCTAAAAATTAGA
98940673 TGA
1 TGA
98940676 ACAACTAGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.20
Consensus pattern (30 bp):
TGACCAAAATGAAAGCCCCTAAAAATTAGA
Found at i:98943722 original size:3 final size:3
Alignment explanation
Indices: 98943709--98943746 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
98943699 TGAGCTTGAG
*
98943709 GAA GTA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
98943747 GCAACTGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:98944287 original size:27 final size:27
Alignment explanation
Indices: 98944249--98944304 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
98944239 TCAATAAAGG
98944249 TGATGGGAATGATCAATTTTCATGCTA
1 TGATGGGAATGATCAATTTTCATGCTA
*
98944276 TGATGGGGATGATCAATTTTCATGCTA
1 TGATGGGAATGATCAATTTTCATGCTA
98944303 TG
1 TG
98944305 TGTTATAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.38
Consensus pattern (27 bp):
TGATGGGAATGATCAATTTTCATGCTA
Found at i:98953020 original size:19 final size:20
Alignment explanation
Indices: 98952997--98953068 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
98952987 AAATTACAAA
*
98952997 AAAAAATCAAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
98953017 AAAAATTCAAAATAATTTT-
1 AAAAATTCAAAATAATTTTC
* *
98953036 TAAAATTTAAAAT-ATTTAT-
1 AAAAATTCAAAATAATTT-TC
98953055 AAAAATTCTAAAAT
1 AAAAATTC-AAAAT
98953069 TTATTTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
18 4 0.09
19 18 0.40
20 23 0.51
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:98980206 original size:22 final size:21
Alignment explanation
Indices: 98980181--98980221 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
98980171 TTAAATCTCT
98980181 AAGATTACAAGATCATATCTTC
1 AAGATTAC-AGATCATATCTTC
* *
98980203 AAGATTGCATATCATATCT
1 AAGATTACAGATCATATCT
98980222 AAGATTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (21 bp):
AAGATTACAGATCATATCTTC
Found at i:98980227 original size:19 final size:19
Alignment explanation
Indices: 98980178--98980270 Score: 118
Period size: 19 Copynumber: 4.8 Consensus size: 19
98980168 AAATTAAATC
* *
98980178 TCTAAGATTACAAGATCATA
1 TCTAAGATTGC-ATATCATA
98980198 TCTTCAAGATTGCATATCATA
1 TC-T-AAGATTGCATATCATA
*
98980219 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
98980238 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
98980255 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
98980271 CTTAAAGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 9
0.85 0.04 0.12
Matches are distributed among these distances:
17 17 0.26
19 29 0.44
20 3 0.05
21 10 0.15
22 7 0.11
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:98980256 original size:36 final size:39
Alignment explanation
Indices: 98980178--98980270 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 39
98980168 AAATTAAATC
* *
98980178 TCTAAGATTACAAGATCATATCTTCAAGATTGCATATCATA
1 TCTAAGATTGC-ATATCATATCTTCAAGATTG-ATATCATA
*
98980219 TCTAAGATTGTATATCATATC-T-AAGATTG-TATCATA
1 TCTAAGATTGCATATCATATCTTCAAGATTGATATCATA
98980255 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
98980271 CTTAAAGATT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
36 22 0.46
38 7 0.15
39 1 0.02
40 9 0.19
41 9 0.19
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (39 bp):
TCTAAGATTGCATATCATATCTTCAAGATTGATATCATA
Found at i:98980270 original size:14 final size:15
Alignment explanation
Indices: 98980214--98980270 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
98980204 AGATTGCATA
98980214 TCATATCTAAGATTG
1 TCATATCTAAGATTG
98980229 TATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
98980248 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
98980265 -CATATC
1 TCATATC
98980271 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:98980999 original size:132 final size:132
Alignment explanation
Indices: 98980844--98981558 Score: 1187
Period size: 132 Copynumber: 5.4 Consensus size: 132
98980834 CGAAATGGAG
* * *
98980844 ATGTCAGATTTGTTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCA
1 ATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCA
* * *
98980909 ACTTGTTCCCTATAAACACAGGGATGCCATGTTGAAATCTTTGATCTGCTTCGCTGTAATCATAG
66 ACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAG
98980974 GA
131 GA
*
98980976 ATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTCTCTTCA
1 ATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCA
98981041 ACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAG
66 ACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAG
98981106 GA
131 GA
* *
98981108 ATGTCAGATCTGCTATCTTTGATTTGTTCCTTATAAACACAGGGATGCCAAATCTGCTATCTTCA
1 ATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCA
98981173 ACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAG
66 ACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAG
98981238 GA
131 GA
* * *
98981240 GTGTTAGATCTACTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCA
1 ATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCA
* * * *
98981305 ACTTGTTCCCTATAAACATAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGTTGTAAGCACAA
66 ACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAG
98981370 GA
131 GA
* * ** *
98981372 GTGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGAAAAATCTACTATCTTCA
1 ATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCA
* * *
98981437 ACTTGTTCCCTATAAACATAGGGATGCCATGCTAAAATCTTCGATCTGCTTCGCTGTAAGCACAG
66 ACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAG
98981502 GA
131 GA
* * *
98981504 GTGTCAGATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
1 ATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
98981559 TGTTTCTCTG
Statistics
Matches: 552, Mismatches: 31, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 552 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (132 bp):
ATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCA
ACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAG
GA
Found at i:98981572 original size:44 final size:43
Alignment explanation
Indices: 98980857--98981558 Score: 465
Period size: 44 Copynumber: 16.0 Consensus size: 43
98980847 TCAGATTTGT
* *
98980857 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTAC
1 TATCTT-GATCTGTTCCCTATAAACACAGGGATGCCAAATCTGC
* * ** *
98980901 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGT-TGA
1 TATCTTGATC-TGTTCCCTATAAACACAGGGATGCCAAATCTGC
* * * * * * * *
98980944 AATCTTTGATCTGCTTCGCTGTAATCATAGGAATGTCAGATCTGC
1 TATC-TTGATCTG-TTCCCTATAAACACAGGGATGCCAAATCTGC
*
98980989 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 TATCTT-GATCTGTTCCCTATAAACACAGGGATGCCAAATCTGC
* * * *
98981033 TCTCTTCAACTTGTTCCCTATAAACACAGGGATGCC--ATGCTGA
1 TATCTTGATC-TGTTCCCTATAAACACAGGGATGCCAAAT-CTGC
* * * * * * *
98981076 AATCTTCGATCTGCTTCGCTGTAATCACAGGAATGTCAGATCTGC
1 TATCTT-GATCTG-TTCCCTATAAACACAGGGATGCCAAATCTGC
* *
98981121 TATCTTTGATTTGTTCCTTATAAACACAGGGATGCCAAATCTGC
1 TATC-TTGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGC
* * *
98981165 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCC--ATGCTGA
1 TATCTTGATC-TGTTCCCTATAAACACAGGGATGCCAAAT-CTGC
* * * * ** * *
98981208 AATCTTCGATCTGCTTCGCTGTAATCACA-GGAGTGTTAGATCTAC
1 TATCTT-GATCTG-TTCCCTATAAACACAGGGA-TGCCAAATCTGC
*
98981253 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 TATCTT-GATCTGTTCCCTATAAACACAGGGATGCCAAATCTGC
* * * *
98981297 TATCTTCAACTTGTTCCCTATAAACATAGGGATGCC--ATGCTGA
1 TATCTTGATC-TGTTCCCTATAAACACAGGGATGCCAAAT-CTGC
* ** * * * * *
98981340 AATCTTCGATCTGCTTCGTTGTAAGCACA-AGAGTGTCAGATCTGC
1 TATCTT-GATCTG-TTCCCTATAAACACAGGGA-TGCCAAATCTGC
** *
98981385 TATCTTCGATCTGTTCCCTATAAACACAGGGATGAAAAATCTAC
1 TATCTT-GATCTGTTCCCTATAAACACAGGGATGCCAAATCTGC
* * * **
98981429 TATCTTCAACTTGTTCCCTATAAACATAGGGATGCC--ATGCTAA
1 TATCTTGATC-TGTTCCCTATAAACACAGGGATGCCAAAT-CTGC
* * * * * *
98981472 AATCTTCGATCTGCTTCGCTGTAAGCACA-GGAGTGTCAGATCTGC
1 TATCTT-GATCTG-TTCCCTATAAACACAGGGA-TGCCAAATCTGC
98981517 TATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
1 TATC-TTGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
98981559 TGTTTCTCTG
Statistics
Matches: 497, Mismatches: 124, Indels: 74
0.72 0.18 0.11
Matches are distributed among these distances:
42 8 0.02
43 61 0.12
44 348 0.70
45 68 0.14
46 12 0.02
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (43 bp):
TATCTTGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGC
Found at i:98988150 original size:19 final size:19
Alignment explanation
Indices: 98988115--98988212 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
98988105 ATATTACAAG
98988115 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
98988136 ATCATATCTAAGATTGCAG
1 ATCATATCTAAGATTGCAT
98988155 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
98988172 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
98988191 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
98988210 ATC
1 ATC
98988213 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:98988181 original size:36 final size:37
Alignment explanation
Indices: 98988113--98988212 Score: 148
Period size: 36 Copynumber: 2.6 Consensus size: 37
98988103 CAATATTACA
98988113 AGATCATATCTTCAAGATTGCATATCATATCTAAGATTGC
1 AGATCATATC-T-AAGATTG-ATATCATATCTAAGATTGC
98988153 AGATCATATCTAAGATTG-TATCATATCTAAGATTGC
1 AGATCATATCTAAGATTGATATCATATCTAAGATTGC
*
98988189 ATATCATATCTAAGATTGCATATC
1 AGATCATATCTAAGATTG-ATATC
98988213 CTTAAAGATT
Statistics
Matches: 57, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
36 35 0.61
38 11 0.19
39 1 0.02
40 10 0.18
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (37 bp):
AGATCATATCTAAGATTGATATCATATCTAAGATTGC
Found at i:98989153 original size:16 final size:17
Alignment explanation
Indices: 98989132--98989168 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
98989122 TAACCATCTG
98989132 AATATTT-TTTGTTTTA
1 AATATTTATTTGTTTTA
98989148 AATATTTAATTTGTTTTA
1 AATATTT-ATTTGTTTTA
98989166 AAT
1 AAT
98989169 TAAAATGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
18 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
AATATTTATTTGTTTTA
Found at i:98990098 original size:24 final size:24
Alignment explanation
Indices: 98990062--98990112 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
98990052 AAACTAGCAC
*
98990062 CTCGACTCCCATATTCATGTTCAT
1 CTCGACTCCCATATTCATATTCAT
98990086 CTCGAC-CCTCATATTCATATTCAT
1 CTCGACTCC-CATATTCATATTCAT
98990110 CTC
1 CTC
98990113 CACCGCTGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.22, C:0.35, G:0.06, T:0.37
Consensus pattern (24 bp):
CTCGACTCCCATATTCATATTCAT
Found at i:98991628 original size:26 final size:25
Alignment explanation
Indices: 98991599--98991650 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
98991589 TGTTCCTGGA
98991599 TAAAT-ATGATAACTAGGTCATTTTTT
1 TAAATGATGA-AA-TAGGTCATTTTTT
*
98991625 TAAATGGTGAAATAGGTCATTTTTT
1 TAAATGATGAAATAGGTCATTTTTT
98991650 T
1 T
98991651 CAAAATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 14 0.58
26 7 0.29
27 3 0.12
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (25 bp):
TAAATGATGAAATAGGTCATTTTTT
Found at i:98992077 original size:16 final size:16
Alignment explanation
Indices: 98992058--98992099 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
98992048 TTCAATTAAG
98992058 TTAATTTTAAAGTATT
1 TTAATTTTAAAGTATT
*
98992074 TTAATTTTTAAAATTATT
1 TTAA-TTTT-AAAGTATT
98992092 TT-ATTTTA
1 TTAATTTTA
98992100 TTGATATAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 1 0.04
16 8 0.35
17 5 0.22
18 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TTAATTTTAAAGTATT
Found at i:98992084 original size:17 final size:18
Alignment explanation
Indices: 98992058--98992098 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
98992048 TTCAATTAAG
98992058 TTAA-TTTT-AAAGTATT
1 TTAATTTTTAAAAGTATT
*
98992074 TTAATTTTTAAAATTATT
1 TTAATTTTTAAAAGTATT
98992092 TT-ATTTT
1 TTAATTTT
98992099 ATTGATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 4 0.18
17 9 0.41
18 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTAATTTTTAAAAGTATT
Found at i:98992807 original size:15 final size:15
Alignment explanation
Indices: 98992787--98992816 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
98992777 CATTTTATTT
*
98992787 ATATTAGGATAATTA
1 ATATTAAGATAATTA
98992802 ATATTAAGATAATTA
1 ATATTAAGATAATTA
98992817 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:98993619 original size:18 final size:18
Alignment explanation
Indices: 98993596--98993637 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
98993586 TCTCCATCTC
*
98993596 AATTTCCGTCATTT-ATTT
1 AATTT-CGTAATTTAATTT
98993614 AATTTCGTAATTTCAATTT
1 AATTTCGTAATTT-AATTT
98993633 AATTT
1 AATTT
98993638 AAATACTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 7 0.33
18 5 0.24
19 9 0.43
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.55
Consensus pattern (18 bp):
AATTTCGTAATTTAATTT
Found at i:98995649 original size:21 final size:21
Alignment explanation
Indices: 98995625--98995664 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
98995615 TGGCTAAGGC
98995625 ACATG-TCTGTGTGACCTAGGG
1 ACATGCTC-GTGTGACCTAGGG
*
98995646 ACATGCTCGTGTGATCTAG
1 ACATGCTCGTGTGACCTAG
98995665 TCGTGTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (21 bp):
ACATGCTCGTGTGACCTAGGG
Found at i:98996542 original size:5 final size:5
Alignment explanation
Indices: 98996532--98996556 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
98996522 TTAAAACTTA
98996532 AAAAC AAAAC AAAAC AAAAC AAAAC
1 AAAAC AAAAC AAAAC AAAAC AAAAC
98996557 CCTTTAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:98998964 original size:30 final size:30
Alignment explanation
Indices: 98998930--98998987 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
98998920 ATTTTATTGC
98998930 TAATTTTGTTATTATTTTAAAGACATTTGT
1 TAATTTTGTTATTATTTTAAAGACATTTGT
**
98998960 TAATTTTGTTATTATTTTAGGGACATTT
1 TAATTTTGTTATTATTTTAAAGACATTT
98998988 ACTTGTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAAAGACATTTGT
Found at i:98999557 original size:3 final size:3
Alignment explanation
Indices: 98999549--98999575 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
98999539 GCGCTCCCCG
98999549 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
98999576 AATCTCATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:99000848 original size:14 final size:14
Alignment explanation
Indices: 99000829--99000861 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
99000819 TATTATAATT
99000829 ATAAAATAAAAGAA
1 ATAAAATAAAAGAA
*
99000843 ATAAAATAAATGAA
1 ATAAAATAAAAGAA
99000857 ATAAA
1 ATAAA
99000862 GAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (14 bp):
ATAAAATAAAAGAA
Found at i:99001791 original size:6 final size:6
Alignment explanation
Indices: 99001780--99001818 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
99001770 TATGTACCGA
* *
99001780 TACTGT TACTGT TACTAT TACTGT TAATGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TAC
99001819 GGTATCTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (6 bp):
TACTGT
Found at i:99006169 original size:10 final size:10
Alignment explanation
Indices: 99006138--99006168 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
99006128 AAGGTTGTTA
99006138 TTAGCCCTTT
1 TTAGCCCTTT
99006148 TTAGCCCTTT
1 TTAGCCCTTT
99006158 TTAG-CCTTT
1 TTAGCCCTTT
99006167 TT
1 TT
99006169 TTTCATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.10, C:0.26, G:0.10, T:0.55
Consensus pattern (10 bp):
TTAGCCCTTT
Found at i:99011914 original size:47 final size:47
Alignment explanation
Indices: 99011805--99011915 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
99011795 CCGGGATAAG
*
99011805 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
99011852 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
99011899 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
99011916 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:99019130 original size:47 final size:47
Alignment explanation
Indices: 99019021--99019131 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
99019011 CCGGGATAAG
*
99019021 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
99019068 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
99019115 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
99019132 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:99030922 original size:21 final size:23
Alignment explanation
Indices: 99030898--99030944 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
99030888 AAATTAAGAT
99030898 ATTGAATTT-TTTTTACTTTA-A
1 ATTGAATTTATTTTTACTTTATA
*
99030919 ATTGAATTTATTTTTATTTTATA
1 ATTGAATTTATTTTTACTTTATA
99030942 ATT
1 ATT
99030945 CAAATAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.39
22 10 0.43
23 4 0.17
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (23 bp):
ATTGAATTTATTTTTACTTTATA
Found at i:99032502 original size:29 final size:29
Alignment explanation
Indices: 99032460--99032516 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
99032450 TTAACAAGCA
*
99032460 AATGCCTCTAAAATAATAACAAAATTAAC
1 AATGCCTCTAAAATAAAAACAAAATTAAC
*
99032489 AATGCCTTTAAAATAAAAACAAAATTAA
1 AATGCCTCTAAAATAAAAACAAAATTAA
99032517 TAATAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.58, C:0.14, G:0.04, T:0.25
Consensus pattern (29 bp):
AATGCCTCTAAAATAAAAACAAAATTAAC
Found at i:99034713 original size:2 final size:2
Alignment explanation
Indices: 99034706--99034734 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
99034696 CGTAGCTTAA
99034706 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
99034735 AAAGGAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:99037827 original size:13 final size:13
Alignment explanation
Indices: 99037793--99037829 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
99037783 AATAAAAAAA
*
99037793 AATATAAATTATT
1 AATATAAATTAAT
99037806 AATATTAAATTAAT
1 AATA-TAAATTAAT
99037820 AATATAAATT
1 AATATAAATT
99037830 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATATAAATTAAT
Found at i:99051497 original size:17 final size:17
Alignment explanation
Indices: 99051456--99051489 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
99051446 AGATAGCTGC
99051456 AGGTATATGGTCATACT
1 AGGTATATGGTCATACT
99051473 AGGTATATGGTCATACT
1 AGGTATATGGTCATACT
99051490 GTGTATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (17 bp):
AGGTATATGGTCATACT
Found at i:99052078 original size:14 final size:14
Alignment explanation
Indices: 99052059--99052089 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
99052049 TCCTAAAATA
99052059 ATCAAAACTAATGG
1 ATCAAAACTAATGG
99052073 ATC-AAACTAATGG
1 ATCAAAACTAATGG
99052086 ATCA
1 ATCA
99052090 GATTAATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.81
14 3 0.19
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (14 bp):
ATCAAAACTAATGG
Found at i:99063482 original size:22 final size:22
Alignment explanation
Indices: 99063457--99063517 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
99063447 ATGTTTTAAC
* **
99063457 ATATTAAAATTTATATTTTTTT
1 ATATTTAAATTTATATTCATTT
* *
99063479 ATATTTACATTTTTATTCATTT
1 ATATTTAAATTTATATTCATTT
*
99063501 AAATTTAAATTTATATT
1 ATATTTAAATTTATATT
99063518 AATTATTCTT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (22 bp):
ATATTTAAATTTATATTCATTT
Found at i:99064057 original size:2 final size:2
Alignment explanation
Indices: 99064050--99064090 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
99064040 ACCGATGAAG
99064050 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
99064091 TTATCTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:99064906 original size:17 final size:17
Alignment explanation
Indices: 99064880--99064913 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99064870 TATTTTCTTT
99064880 CTCAAATAGCATCTCAA
1 CTCAAATAGCATCTCAA
*
99064897 CTCAAGTAGCATCTCAA
1 CTCAAATAGCATCTCAA
99064914 GTTTAAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.29, G:0.09, T:0.24
Consensus pattern (17 bp):
CTCAAATAGCATCTCAA
Found at i:99067913 original size:27 final size:28
Alignment explanation
Indices: 99067883--99067935 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
99067873 TTGTTAAAAC
99067883 TCTTCCAAAA-AAAAACTCA-AGAGAAAT
1 TCTT-CAAAAGAAAAACTCAGAGAGAAAT
*
99067910 TCTTGAAAAGAAAAACTCAGAGAGAA
1 TCTTCAAAAGAAAAACTCAGAGAGAA
99067936 TTTATTAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 13 0.57
28 6 0.26
ACGTcount: A:0.55, C:0.15, G:0.13, T:0.17
Consensus pattern (28 bp):
TCTTCAAAAGAAAAACTCAGAGAGAAAT
Found at i:99068791 original size:23 final size:22
Alignment explanation
Indices: 99068748--99068791 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
99068738 ACATTCCAAA
* *
99068748 AAATATAAAGTTATAAGTTAAT
1 AAATATAAAATTACAAGTTAAT
*
99068770 AAATAGTAAAATTACAATTTAA
1 AAATA-TAAAATTACAAGTTAA
99068792 CTCTTAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
AAATATAAAATTACAAGTTAAT
Found at i:99076470 original size:39 final size:39
Alignment explanation
Indices: 99076416--99076579 Score: 188
Period size: 39 Copynumber: 4.2 Consensus size: 39
99076406 AGTGATGAAG
*
99076416 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * *
99076455 TATATCTGAACTTAAGGTCCGCAGGCTACATGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * *
99076494 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGAAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
99076533 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAT
99076572 TATA-CCGG
1 TATATCCGG
99076580 GTTTAAATTC
Statistics
Matches: 104, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
38 9 0.09
39 95 0.91
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:99078616 original size:39 final size:39
Alignment explanation
Indices: 99078573--99078651 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
99078563 TGTTATAGAG
*
99078573 TTAGAGTTATATCATGTCATTTGATGATTTAGTATTTGT
1 TTAGAGTTATATCATGTCATTTGATGATTTAGCATTTGT
99078612 TTAGAGTTATATCATGTCATTTGATGATTTAGCATTTGT
1 TTAGAGTTATATCATGTCATTTGATGATTTAGCATTTGT
99078651 T
1 T
99078652 GCGGATCATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.25, C:0.06, G:0.18, T:0.51
Consensus pattern (39 bp):
TTAGAGTTATATCATGTCATTTGATGATTTAGCATTTGT
Found at i:99078821 original size:16 final size:17
Alignment explanation
Indices: 99078800--99078831 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
99078790 TTCACTATTA
99078800 TGTCTTTTG-TATTTTC
1 TGTCTTTTGATATTTTC
99078816 TGTCTTTTGATATTTT
1 TGTCTTTTGATATTTT
99078832 GCATGCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.09, C:0.09, G:0.12, T:0.69
Consensus pattern (17 bp):
TGTCTTTTGATATTTTC
Found at i:99082981 original size:24 final size:24
Alignment explanation
Indices: 99082954--99083003 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
99082944 AATGTTTATC
99082954 TTATTATT-ATTTT-A-ATAATAT
1 TTATTATTAATTTTAATATAATAT
99082975 TTATTATTAATTTTAATATAATAT
1 TTATTATTAATTTTAATATAATAT
99082999 TTATT
1 TTATT
99083004 TTGATAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.31
22 5 0.19
23 1 0.04
24 12 0.46
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATTATTAATTTTAATATAATAT
Found at i:99082981 original size:29 final size:30
Alignment explanation
Indices: 99082898--99082970 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
99082888 AATAGTATTT
*
99082898 TATTA-ATTTAATATTAAAGTGATTATCTTAA
1 TATTATATTTAATA-TAATGT-ATTATCTTAA
* *
99082929 TATTATATTTAATTTAATGT-TTATCTTAT
1 TATTATATTTAATATAATGTATTATCTTAA
99082958 TATTAT-TTTAATA
1 TATTATATTTAATA
99082971 ATATTTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 6 0.16
29 14 0.38
31 10 0.27
32 7 0.19
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (30 bp):
TATTATATTTAATATAATGTATTATCTTAA
Found at i:99083003 original size:39 final size:37
Alignment explanation
Indices: 99082960--99083032 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 37
99082950 TATCTTATTA
99082960 TTATTTTAAT-AATATTTATTATTAATTTTAATATAATAT
1 TTATTTTAATAAATA-TTA-TATTAA-TTTAATATAATAT
*
99082999 TTATTTTGATAAATATTATATTAATTTAATATAA
1 TTATTTTAATAAATATTATATTAATTTAATATAA
99083033 AAGTGATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 10 0.31
38 6 0.19
39 12 0.38
40 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (37 bp):
TTATTTTAATAAATATTATATTAATTTAATATAATAT
Found at i:99083004 original size:17 final size:17
Alignment explanation
Indices: 99082979--99083030 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
99082969 TAATATTTAT
*
99082979 TATTAATTTTAATATAA
1 TATTTATTTTAATATAA
*
99082996 TATTTATTTTGATA-AA
1 TATTTATTTTAATATAA
* *
99083012 TA-TTATATTAATTTAA
1 TATTTATTTTAATATAA
99083028 TAT
1 TAT
99083031 AAAAGTGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 8 0.29
16 8 0.29
17 12 0.43
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TATTTATTTTAATATAA
Found at i:99086145 original size:19 final size:19
Alignment explanation
Indices: 99086121--99086158 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
99086111 TTATATTGTG
99086121 TTGTTGTGTGATTTACCAT
1 TTGTTGTGTGATTTACCAT
99086140 TTGTTGTGTGATTTACCAT
1 TTGTTGTGTGATTTACCAT
99086159 ATTGAAGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.21, T:0.53
Consensus pattern (19 bp):
TTGTTGTGTGATTTACCAT
Found at i:99096278 original size:11 final size:11
Alignment explanation
Indices: 99096264--99096302 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
99096254 ATCAAATTCC
99096264 AAAAAAAC--A
1 AAAAAAACAAA
99096273 AAAAAAACAAA
1 AAAAAAACAAA
99096284 AAAAAAACAACA
1 AAAAAAACAA-A
99096296 AAAAAAA
1 AAAAAAA
99096303 AGAAAAAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 8 0.30
11 11 0.41
12 8 0.30
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:99096289 original size:20 final size:19
Alignment explanation
Indices: 99096264--99096309 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
99096254 ATCAAATTCC
99096264 AAAAAAACAAAAAAAACAAA
1 AAAAAAACAAAAAAAA-AAA
*
99096284 AAAAAAACAACAAAAAAAA
1 AAAAAAACAAAAAAAAAAA
*
99096303 AGAAAAA
1 AAAAAAA
99096310 GGTTGCTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAAAAAAAAA
Found at i:99096299 original size:9 final size:9
Alignment explanation
Indices: 99096264--99096288 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
99096254 ATCAAATTCC
99096264 AAAAAAACA
1 AAAAAAACA
99096273 AAAAAAACA
1 AAAAAAACA
99096282 AAAAAAA
1 AAAAAAA
99096289 AACAACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:99097000 original size:19 final size:19
Alignment explanation
Indices: 99096976--99097015 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
99096966 AAATCAGAAT
*
99096976 AAAAAAGAGAAAGAA-AAAG
1 AAAAAAAAGAAA-AAGAAAG
99096995 AAAAAAAAGAAAAAGAAAG
1 AAAAAAAAGAAAAAGAAAG
99097014 AA
1 AA
99097016 TCAATCAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAAAAAGAAAAAGAAAG
Found at i:99097002 original size:21 final size:22
Alignment explanation
Indices: 99096971--99097012 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
99096961 AAAAAAAATC
*
99096971 AGAATAAAAAAGAGAAAGAAAA
1 AGAATAAAAAAGAAAAAGAAAA
99096993 AGAA-AAAAAAGAAAAAGAAA
1 AGAATAAAAAAGAAAAAGAAA
99097013 GAATCAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (22 bp):
AGAATAAAAAAGAAAAAGAAAA
Found at i:99098180 original size:64 final size:64
Alignment explanation
Indices: 99098106--99098299 Score: 316
Period size: 64 Copynumber: 3.0 Consensus size: 64
99098096 TATCATTCAT
** *
99098106 ATCACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGC
1 ATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGC
* *
99098170 ATCACATCTAGTTAGGTGCATTTGATTCATTTTGATCATAACATCCTAATTATTTAACATAAGC
1 ATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGC
* * *
99098234 ATCACATTTAGTTAAGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGTCATAAGC
1 ATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGC
99098298 AT
1 AT
99098300 GATACATGAA
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 120 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (64 bp):
ATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGC
Found at i:99098861 original size:180 final size:175
Alignment explanation
Indices: 99098507--99099044 Score: 717
Period size: 176 Copynumber: 3.0 Consensus size: 175
99098497 GCAGTGGAGT
* * *
99098507 AGACTGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAGACTGGTGAATC
1 AGACTGAAAATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCAGAGA-TGGTGAATC
*
99098571 CTATCTTCATGTATCGGCAATGGAGTAGATTTTACCACTAGCCTTATTTCTCTGAGGTAGCAAGA
65 CTATTTTCATGTATCGGCAATGGAGTAGATTTTACCACTAGCCTTATTTCTCTGAGGTAGCAAGA
* * *
99098636 GAGCAAGTTGAAAGATGAGTGTTATCTTT-CTGAGGTAGCAAGGAAGT
130 GAGCAGGTTGAAA-ATGAGTCTTAT-TTTCCTGAGGTAGCAAGGAAGC
*
99098683 AGACTGAAAATTGAAGATTTTATCTCCCTG-AGATTGCAGCGGAGCAGATCTTTACAGATGGTGA
1 AGACTGAAAATTGAAGATTTTATCTCCCTGAAG-TTGCAGCGGAGCAGATC---AGAGATGGTGA
* * * * *
99098747 ATCTTATTTTCATGTATCGACAATGGAGCAGATTTTACCACCAAGCCTTATTTCTCTGACGTAGC
62 ATCCTATTTTCATGTATCGGCAATGGAGTAGATTTTACCA-CTAGCCTTATTTCTCTGAGGTAGC
* *
99098812 AAGAGAGCAGGTTGAAGAATGAGTTTTATTTTCCTGAGGTAGTAAGGAAGC
126 AAGAGAGCAGGTTGAA-AATGAGTCTTATTTTCCTGAGGTAGCAAGGAAGC
* **
99098863 AGAATGGGAATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATC-GAGAATGGTGAATC
1 AGACTGAAAATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCAGAG-ATGGTGAATC
* * *
99098927 CTATCTTT-ATGTATCGGTAATGGAGTAGATTTTACCACTAGCCTTATTTCTTTGAGGTGGCAAG
65 CTAT-TTTCATGTATCGGCAATGGAGTAGATTTTACCACTAGCCTTATTTCTCTGAGGTAGCAAG
* * *
99098991 AGAGCAGGTTAAAAAGGGAGTCTTATTTTCTTGAGGTAGCAAGGAAGC
129 AGAGCAGGTTGAAAA-TGAGTCTTATTTTCCTGAGGTAGCAAGGAAGC
99099039 AGACTG
1 AGACTG
99099045 TAGACTGAAA
Statistics
Matches: 318, Mismatches: 32, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
175 4 0.01
176 114 0.36
177 39 0.12
178 3 0.01
179 45 0.14
180 110 0.35
181 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (175 bp):
AGACTGAAAATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCAGAGATGGTGAATCC
TATTTTCATGTATCGGCAATGGAGTAGATTTTACCACTAGCCTTATTTCTCTGAGGTAGCAAGAG
AGCAGGTTGAAAATGAGTCTTATTTTCCTGAGGTAGCAAGGAAGC
Found at i:99104818 original size:14 final size:16
Alignment explanation
Indices: 99104796--99104835 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
99104786 CAATAACTAT
*
99104796 TATATAATATTTTTAA
1 TATAGAATATTTTTAA
99104812 -A-AGAATA-TTTTAA
1 TATAGAATATTTTTAA
99104825 TATAGAATATT
1 TATAGAATATT
99104836 AAGTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 6
0.74 0.04 0.22
Matches are distributed among these distances:
13 6 0.30
14 6 0.30
15 7 0.35
16 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (16 bp):
TATAGAATATTTTTAA
Found at i:99112420 original size:53 final size:53
Alignment explanation
Indices: 99112279--99112429 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
99112269 ACAAGTGTGC
* **
99112279 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
99112332 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
99112385 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
99112430 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:99118367 original size:24 final size:24
Alignment explanation
Indices: 99118338--99118392 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
99118328 GTTTATGCCC
*
99118338 TTTTATTTGT-G-TATTTTTATTAT
1 TTTTATTTGTCGTTATTATT-TTAT
99118361 TTATTA-TTGTCGTTATTATTTTAT
1 TT-TTATTTGTCGTTATTATTTTAT
99118385 TTTTATTT
1 TTTTATTT
99118393 CTTTTCTCGT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
23 9 0.33
24 12 0.44
25 6 0.22
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.73
Consensus pattern (24 bp):
TTTTATTTGTCGTTATTATTTTAT
Found at i:99121392 original size:13 final size:14
Alignment explanation
Indices: 99121366--99121394 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
99121356 ACTAACGACG
99121366 AATTAAACCATTAT
1 AATTAAACCATTAT
99121380 AATTAAA-CATTAT
1 AATTAAACCATTAT
99121393 AA
1 AA
99121395 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:99126491 original size:26 final size:26
Alignment explanation
Indices: 99126460--99126567 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
99126450 TGAAATGCCC
*
99126460 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
99126486 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
99126512 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
99126538 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
99126564 ATCA
1 ATCA
99126568 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:99127180 original size:7 final size:7
Alignment explanation
Indices: 99127135--99127351 Score: 53
Period size: 7 Copynumber: 29.7 Consensus size: 7
99127125 AATTATCCTA
*
99127135 AACCCTA
1 AACCCTT
*
99127142 AACCCCT
1 AACCCTT
99127149 AACCCTT
1 AACCCTT
**
99127156 GTCACCTT
1 AAC-CCTT
*
99127164 AATGCCTT
1 AA-CCCTT
99127172 AACCCTT
1 AACCCTT
*
99127179 AACTCCTA
1 AAC-CCTT
99127187 AACCCTT
1 AACCCTT
*
99127194 AACCTTT
1 AACCCTT
*
99127201 AACAC--
1 AACCCTT
99127206 AAGCCCCATT
1 AA--CCC-TT
*
99127216 AACCCCTA
1 AA-CCCTT
*
99127224 AACCC-C
1 AACCCTT
* *
99127230 AAACATAT
1 AACCCT-T
*
99127238 AACTCCTA
1 AAC-CCTT
99127246 AACCCTT
1 AACCCTT
*
99127253 AACCCCT
1 AACCCTT
*
99127260 AAACCTT
1 AACCCTT
* *
99127267 AAATCCTA
1 -AACCCTT
*
99127275 AACCCCT
1 AACCCTT
*
99127282 AACCCCTA
1 AA-CCCTT
99127290 AACCCTT
1 AACCCTT
*
99127297 AACCATT
1 AACCCTT
*
99127304 AACTCTT
1 AACCCTT
*
99127311 AATCCTT
1 AACCCTT
**
99127318 AAATCTT
1 AACCCTT
* *
99127325 AAACTCTA
1 -AACCCTT
*
99127333 AACCCTA
1 AACCCTT
*
99127340 AACCCCT
1 AACCCTT
99127347 AACCC
1 AACCC
99127352 ATGTCCCCTT
Statistics
Matches: 149, Mismatches: 47, Indels: 28
0.67 0.21 0.12
Matches are distributed among these distances:
5 2 0.01
6 3 0.02
7 97 0.65
8 39 0.26
9 6 0.04
10 2 0.01
ACGTcount: A:0.35, C:0.39, G:0.01, T:0.24
Consensus pattern (7 bp):
AACCCTT
Found at i:99127255 original size:15 final size:15
Alignment explanation
Indices: 99127237--99127348 Score: 86
Period size: 15 Copynumber: 7.7 Consensus size: 15
99127227 CCCAAACATA
*
99127237 TAACTCCTAAACCCT
1 TAACCCCTAAACCCT
99127252 TAACCCCTAAA-CCT
1 TAACCCCTAAACCCT
** *
99127266 TAAATCCTAAACCCC
1 TAACCCCTAAACCCT
99127281 TAACCCCTAAACCCT
1 TAACCCCTAAACCCT
* * *
99127296 TAA-CCATTAACTCT
1 TAACCCCTAAACCCT
* * *
99127310 TAATCCTTAAA-TCT
1 TAACCCCTAAACCCT
* *
99127324 TAAACTCTAAACCCT
1 TAACCCCTAAACCCT
*
99127339 AAACCCCTAA
1 TAACCCCTAA
99127349 CCCATGTCCC
Statistics
Matches: 75, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
14 34 0.45
15 41 0.55
ACGTcount: A:0.38, C:0.37, G:0.00, T:0.26
Consensus pattern (15 bp):
TAACCCCTAAACCCT
Found at i:99127269 original size:22 final size:22
Alignment explanation
Indices: 99127242--99127469 Score: 84
Period size: 22 Copynumber: 10.7 Consensus size: 22
99127232 ACATATAACT
99127242 CCTAAACCCTTAACCCCTAAAC
1 CCTAAACCCTTAACCCCTAAAC
* * * *
99127264 CTTAAATCCTAAACCCCTAACC
1 CCTAAACCCTTAACCCCTAAAC
* *
99127286 CCTAAACCCTTAA-CCATTAAC
1 CCTAAACCCTTAACCCCTAAAC
* * * ** *
99127307 TCTTAATCCTTAAATCTTAAAC
1 CCTAAACCCTTAACCCCTAAAC
* *
99127329 TCTAAACCCTAAACCCCT-AAC
1 CCTAAACCCTTAACCCCTAAAC
*** ** *
99127350 CCATGTCCCCTTAATGCATAAAC
1 CC-TAAACCCTTAACCCCTAAAC
* *
99127373 CCATAAACCCCTAA-CCC--AAG
1 CC-TAAACCCTTAACCCCTAAAC
*
99127393 CC----CCCTTAACCCTTAAAC
1 CCTAAACCCTTAACCCCTAAAC
* *
99127411 TACT-AACCCATAACCCCTAAAC
1 -CCTAAACCCTTAACCCCTAAAC
* *
99127433 CCTTAACTCC-TAACCACTAAAC
1 CCTAAAC-CCTTAACCCCTAAAC
*
99127455 CATAAA-CCTTAACCC
1 CCTAAACCCTTAACCC
99127470 TTGAACAATA
Statistics
Matches: 145, Mismatches: 48, Indels: 27
0.66 0.22 0.12
Matches are distributed among these distances:
15 6 0.04
16 2 0.01
18 2 0.01
19 1 0.01
20 6 0.04
21 26 0.18
22 87 0.60
23 15 0.10
ACGTcount: A:0.36, C:0.40, G:0.01, T:0.22
Consensus pattern (22 bp):
CCTAAACCCTTAACCCCTAAAC
Found at i:99127273 original size:29 final size:28
Alignment explanation
Indices: 99127242--99127348 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 28
99127232 ACATATAACT
99127242 CCTAAACCCTTAACCCCTAAACCTTAAA
1 CCTAAACCCTTAACCCCTAAACCTTAAA
*
99127270 TCCTAAACCCCTAACCCCTAAACCCTT-AA
1 -CCTAAACCCTTAACCCCTAAA-CCTTAAA
* * * * *
99127299 CCATTAACTCTTAATCCTTAAATCTTAAA
1 CC-TAAACCCTTAACCCCTAAACCTTAAA
*
99127328 CTCTAAACCCTAAACCCCTAA
1 C-CTAAACCCTTAACCCCTAA
99127349 CCCATGTCCC
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
28 5 0.08
29 52 0.84
30 5 0.08
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.25
Consensus pattern (28 bp):
CCTAAACCCTTAACCCCTAAACCTTAAA
Found at i:99127348 original size:8 final size:7
Alignment explanation
Indices: 99127219--99127344 Score: 65
Period size: 7 Copynumber: 17.4 Consensus size: 7
99127209 CCCCATTAAC
99127219 CCCTAAA
1 CCCTAAA
*
99127226 CCCCAAA
1 CCCTAAA
*
99127233 -CATATAA
1 CCCTA-AA
99127240 CTCCTAAA
1 C-CCTAAA
*
99127248 CCCTTAAC
1 CCC-TAAA
99127256 CCCTAAA
1 CCCTAAA
*
99127263 CCTTAAA
1 CCCTAAA
*
99127270 TCCTAAA
1 CCCTAAA
*
99127277 CCCCTAAC
1 -CCCTAAA
99127285 CCCTAAA
1 CCCTAAA
*
99127292 CCCTTAA
1 CCCTAAA
* *
99127299 CCATTAA
1 CCCTAAA
* *
99127306 CTCTTAAT
1 C-CCTAAA
*
99127314 CCTTAAA
1 CCCTAAA
* *
99127321 TCTTAAA
1 CCCTAAA
*
99127328 CTCTAAA
1 CCCTAAA
99127335 CCCTAAA
1 CCCTAAA
99127342 CCC
1 CCC
99127345 CTAACCCATG
Statistics
Matches: 90, Mismatches: 23, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
6 2 0.02
7 67 0.74
8 18 0.20
9 3 0.03
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (7 bp):
CCCTAAA
Found at i:99127390 original size:15 final size:15
Alignment explanation
Indices: 99127370--99127430 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
99127360 TTAATGCATA
99127370 AACCCATAAACCCCT
1 AACCCATAAACCCCT
**
99127385 AACCCA-AGCCCCCTT
1 AACCCATAAACCCC-T
* **
99127400 AACCCTTAAACTACT
1 AACCCATAAACCCCT
99127415 AACCCAT-AACCCCT
1 AACCCATAAACCCCT
99127429 AA
1 AA
99127431 ACCCTTAACT
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
14 12 0.35
15 19 0.56
16 3 0.09
ACGTcount: A:0.38, C:0.44, G:0.02, T:0.16
Consensus pattern (15 bp):
AACCCATAAACCCCT
Found at i:99127410 original size:38 final size:37
Alignment explanation
Indices: 99127331--99127410 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
99127321 TCTTAAACTC
* * **
99127331 TAAACCCTAAACCCCTAACCCATGTCCCCTTAATGCA
1 TAAACCCTAAACCCCTAACCCAAGCCCCCTTAACCCA
*
99127368 TAAACCCATAAACCCCTAACCCAAGCCCCCTTAACCCT
1 TAAACCC-TAAACCCCTAACCCAAGCCCCCTTAACCCA
99127406 TAAAC
1 TAAAC
99127411 TACTAACCCA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 7 0.19
38 30 0.81
ACGTcount: A:0.35, C:0.42, G:0.04, T:0.19
Consensus pattern (37 bp):
TAAACCCTAAACCCCTAACCCAAGCCCCCTTAACCCA
Found at i:99127513 original size:14 final size:15
Alignment explanation
Indices: 99127482--99127516 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
99127472 GAACAATATA
*
99127482 CCATAATCCCTGAAT
1 CCATAATCCATGAAT
99127497 CCATAATCCAT-AAT
1 CCATAATCCATGAAT
99127511 CCATAA
1 CCATAA
99127517 ACCTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.40, C:0.31, G:0.03, T:0.26
Consensus pattern (15 bp):
CCATAATCCATGAAT
Found at i:99127540 original size:22 final size:22
Alignment explanation
Indices: 99127512--99127617 Score: 68
Period size: 22 Copynumber: 5.1 Consensus size: 22
99127502 ATCCATAATC
99127512 CATAAACCTTAAAATATTAACT
1 CATAAACCTTAAAATATTAACT
*
99127534 CATAAACC-----ATA--AACC
1 CATAAACCTTAAAATATTAACT
* * *
99127549 CCTAAACCTTAAACTATAAACT
1 CATAAACCTTAAAATATTAACT
* * *
99127571 CATAATCCCTAAACCTA-TAA-T
1 CATAAACCTTAAA-ATATTAACT
99127592 CCATAAACCTTAAAATATTAACT
1 -CATAAACCTTAAAATATTAACT
99127615 CAT
1 CAT
99127618 CATAAACCCT
Statistics
Matches: 62, Mismatches: 11, Indels: 22
0.65 0.12 0.23
Matches are distributed among these distances:
15 10 0.16
17 3 0.05
20 2 0.03
21 3 0.05
22 40 0.65
23 4 0.06
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.27
Consensus pattern (22 bp):
CATAAACCTTAAAATATTAACT
Found at i:99127546 original size:7 final size:7
Alignment explanation
Indices: 99127444--99127605 Score: 72
Period size: 7 Copynumber: 22.3 Consensus size: 7
99127434 CTTAACTCCT
99127444 AACCACTA
1 AACCA-TA
99127452 AACCATA
1 AACCATA
*
99127459 AACCTTA
1 AACCATA
* * *
99127466 ACCCTTG
1 AACCATA
*
99127473 AACAATA
1 AACCATA
*
99127480 TACCATA
1 AACCATA
* *
99127487 ATCCCTGA
1 AACCAT-A
*
99127495 ATCCATA
1 AACCATA
*
99127502 ATCCATA
1 AACCATA
*
99127509 ATCCATA
1 AACCATA
*
99127516 AACCTTA
1 AACCATA
** *
99127523 AAATATT
1 AACCATA
99127530 AACTCATA
1 AAC-CATA
99127538 AACCATA
1 AACCATA
*
99127545 AACCCCTA
1 AA-CCATA
*
99127553 AACCTTA
1 AACCATA
*
99127560 AACTATA
1 AACCATA
99127567 AACTCATA
1 AAC-CATA
* *
99127575 ATCCCTA
1 AACCATA
99127582 AACCTATA
1 AACC-ATA
*
99127590 ATCCATA
1 AACCATA
*
99127597 AACCTTA
1 AACCATA
99127604 AA
1 AA
99127606 ATATTAACTC
Statistics
Matches: 115, Mismatches: 34, Indels: 11
0.72 0.21 0.07
Matches are distributed among these distances:
7 83 0.72
8 32 0.28
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.25
Consensus pattern (7 bp):
AACCATA
Found at i:99127561 original size:37 final size:37
Alignment explanation
Indices: 99127514--99127639 Score: 119
Period size: 37 Copynumber: 3.2 Consensus size: 37
99127504 CCATAATCCA
*
99127514 TAAACCTTAAAATATTAACTCATAAACCATAAACCCC
1 TAAACCTTAAAATATTAACTCATAAACCCTAAACCCC
* * *
99127551 TAAACCTTAAACTATAAACTCATAATCCCTAAACCTATAATCC
1 TAAACCTTAAAATATTAACTCATAAACCCTAAACC------CC
99127594 ATAAACCTTAAAATATTAACTCATCATAAACCCTAAA-CCC
1 -TAAACCTTAAAATATTAA--C-TCATAAACCCTAAACCCC
99127634 TAAACC
1 TAAACC
99127640 ATAATGATAA
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
37 31 0.43
39 6 0.08
40 2 0.03
43 2 0.03
44 16 0.22
46 2 0.03
47 13 0.18
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (37 bp):
TAAACCTTAAAATATTAACTCATAAACCCTAAACCCC
Found at i:99127590 original size:15 final size:15
Alignment explanation
Indices: 99127551--99127601 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
99127541 CATAAACCCC
* *
99127551 TAAACCT-TAAACTA
1 TAAACCTATAATCCA
*
99127565 TAAA-CTCATAATCCC
1 TAAACCT-ATAATCCA
99127580 TAAACCTATAATCCA
1 TAAACCTATAATCCA
99127595 TAAACCT
1 TAAACCT
99127602 TAAAATATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 2 0.07
14 4 0.13
15 22 0.73
16 2 0.07
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAACCTATAATCCA
Found at i:99128100 original size:39 final size:40
Alignment explanation
Indices: 99128050--99128144 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
99128040 TTTTACGGAT
99128050 TTTTTTAAAAAAG-GCCACTAATGCTCGACCTATAGCGGCG
1 TTTTTT-AAAAAGCGCCACTAATGCTCGACCTATAGCGGCG
* * * *
99128090 TTTTTTAAAAAGCGTCGCTAATGCTCGATCTATAGCGGTG
1 TTTTTTAAAAAGCGCCACTAATGCTCGACCTATAGCGGCG
*
99128130 TTTTTCAAAAAGCGC
1 TTTTTTAAAAAGCGC
99128145 TGCTAAATCT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
39 6 0.12
40 42 0.88
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (40 bp):
TTTTTTAAAAAGCGCCACTAATGCTCGACCTATAGCGGCG
Found at i:99128150 original size:40 final size:40
Alignment explanation
Indices: 99128067--99128199 Score: 162
Period size: 40 Copynumber: 3.3 Consensus size: 40
99128057 AAAAAGGCCA
* * *
99128067 CTAATGCTCGACCTATAGCGGCGTTTTTTAAAAAGCGTCG
1 CTAATGCTCGATCTATAGCGGTGTTTTTCAAAAAGCGTCG
99128107 CTAATGCTCGATCTATAGCGGTGTTTTTCAAAAAGCG-CTG
1 CTAATGCTCGATCTATAGCGGTGTTTTTCAAAAAGCGTC-G
* * *
99128147 CTAAAT-CTCTATCTATAGCGGTATTTCTTGAAAAAGCGTCG
1 CT-AATGCTCGATCTATAGCGGTGTTT-TTCAAAAAGCGTCG
99128188 CTAATGCCTCGA
1 CTAATG-CTCGA
99128200 AGGCTCAAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
39 1 0.01
40 58 0.73
41 16 0.20
42 5 0.06
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (40 bp):
CTAATGCTCGATCTATAGCGGTGTTTTTCAAAAAGCGTCG
Found at i:99130379 original size:22 final size:22
Alignment explanation
Indices: 99130360--99130401 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
99130350 CTTAATTTAT
99130360 TTTATTT-TATATAAATATTTG
1 TTTATTTATATATAAATATTTG
* *
99130381 TTTATTTATATTTATATATTT
1 TTTATTTATATATAAATATTT
99130402 TTGTTCGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTATTTATATATAAATATTTG
Found at i:99130823 original size:87 final size:85
Alignment explanation
Indices: 99130573--99130997 Score: 473
Period size: 87 Copynumber: 5.0 Consensus size: 85
99130563 ATTCCCACTA
* * * * * *
99130573 TTCAACAGATTTTATTTCATTTTTTATTTTATTTCCAAACGAGAATTAAAGTTAAATAAAATTTG
1 TTCAACAGATTTTATTCCA-TTTTGATTTTGTTTCCAAAAGAGAATTAAAATTAAATAAAATCTG
* **
99130638 TTTCGGGATTTATTCCCACCG
65 TTTCAGGATTTATTCCCGTCG
* * * * * *
99130659 TTCAATAAATTTTATTCTATTTTGATTTTATTTCCAAAATTAGAATTAAAATTAAATAAAATCTA
1 TTCAACAGATTTTATTCCATTTTGATTTTGTTTCCAAAA-GAGAATTAAAATTAAATAAAATCTG
*
99130724 TTTCGGGATTTATTCCCGTCG
65 TTTCAGGATTTATTCCCGTCG
* *
99130745 TTCAACAGATTTTATTCCATTCTTTATTTTTGTTTCCAAAAGAGTATTAAAATTAAATAAAATCT
1 TTCAACAGATTTTATTCCATT-TTGA-TTTTGTTTCCAAAAGAGAATTAAAATTAAATAAAATCT
99130810 GTTTCAGGATTTATTCCCG-CTG
64 GTTTCAGGATTTATTCCCGTC-G
* *
99130832 TTCAATAGATTTTATTCCATTCTTGATTTTGTTGTCAAACAAGA-AATTAAAATTAAATAAAATC
1 TTCAACAGATTTTATTCCATT-TTGATTTTGTT-TCCAA-AAGAGAATTAAAATTAAATAAAATC
*
99130896 TGTTTCAGGATTTATTCCCTTCG
63 TGTTTCAGGATTTATTCCCGTCG
* * * ** * *
99130919 TTTAACAGATTTTATTCAATTTTGATGTTGTTTCCAAATTAGAATT-TAATTGAAT--AATCTGT
1 TTCAACAGATTTTATTCCATTTTGATTTTGTTTCCAAAAGAGAATTAAAATTAAATAAAATCTGT
* *
99130981 TTCGGGATTTAATCCCG
66 TTCAGGATTTATTCCCG
99130998 CCATTTAACA
Statistics
Matches: 293, Mismatches: 38, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
82 21 0.07
84 9 0.03
85 26 0.09
86 91 0.31
87 128 0.44
88 18 0.06
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (85 bp):
TTCAACAGATTTTATTCCATTTTGATTTTGTTTCCAAAAGAGAATTAAAATTAAATAAAATCTGT
TTCAGGATTTATTCCCGTCG
Found at i:99130837 original size:173 final size:172
Alignment explanation
Indices: 99130573--99130999 Score: 535
Period size: 173 Copynumber: 2.5 Consensus size: 172
99130563 ATTCCCACTA
* * * * *
99130573 TTCAACAGATTTTATTTCATTTTTTATTTTATTTCCAAACGAGAATTAAAGTTAAATAAAATTTG
1 TTCAACAGATTTTATTCCA-TTTTTATTTTGTTTCCAAAAGAGAATTAAAATTAAATAAAATCTG
* *
99130638 TTTCGGGATTTATTCCCACCGTTCAATAAATTTTATTCTATT-TTGATTTTATT-TCCAAA-ATT
65 TTTCGGGATTTATTCCCGCCGTTCAATAAATTTTATTCCATTCTTGATTTTATTGT-CAAACA--
*
99130700 AG-AATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCGTCG
127 AGAAATTAAAATTAAATAAAATCTATTTCAGGATTTATTCCCGTCG
*
99130745 TTCAACAGATTTTATTCCATTCTTTATTTTTGTTTCCAAAAGAGTATTAAAATTAAATAAAATCT
1 TTCAACAGATTTTATTCCATT-TTTA-TTTTGTTTCCAAAAGAGAATTAAAATTAAATAAAATCT
* * * *
99130810 GTTTCAGGATTTATTCCCGCTGTTCAATAGATTTTATTCCATTCTTGATTTTGTTGTCAAACAAG
64 GTTTCGGGATTTATTCCCGCCGTTCAATAAATTTTATTCCATTCTTGATTTTATTGTCAAACAAG
* *
99130875 AAATTAAAATTAAATAAAATCTGTTTCAGGATTTATTCCCTTCG
129 AAATTAAAATTAAATAAAATCTATTTCAGGATTTATTCCCGTCG
* * * * ** * *
99130919 TTTAACAGATTTTATTCAATTTTGATGTTGTTTCCAAATTAGAATT-TAATTGAAT--AATCTGT
1 TTCAACAGATTTTATTCCATTTTTATTTTGTTTCCAAAAGAGAATTAAAATTAAATAAAATCTGT
*
99130981 TTCGGGATTTAATCCCGCC
66 TTCGGGATTTATTCCCGCC
99131000 ATTTAACAGA
Statistics
Matches: 222, Mismatches: 27, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
169 23 0.10
171 9 0.04
172 39 0.18
173 76 0.34
174 73 0.33
175 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (172 bp):
TTCAACAGATTTTATTCCATTTTTATTTTGTTTCCAAAAGAGAATTAAAATTAAATAAAATCTGT
TTCGGGATTTATTCCCGCCGTTCAATAAATTTTATTCCATTCTTGATTTTATTGTCAAACAAGAA
ATTAAAATTAAATAAAATCTATTTCAGGATTTATTCCCGTCG
Found at i:99131214 original size:43 final size:43
Alignment explanation
Indices: 99131167--99131321 Score: 186
Period size: 43 Copynumber: 3.6 Consensus size: 43
99131157 TAACATGACT
* * *
99131167 TTTAGCGGCGCTTTTGCCACAAATGCCGCTAAAGGTCATATTC
1 TTTAGCGGCGCTTTTGACACAAACGCCGCCAAAGGTCATATTC
* * * * *
99131210 TTTAGCGACGTTTTTGATA-AAAGCGCCACCAAAGGTCATGTTC
1 TTTAGCGGCGCTTTTGACACAAA-CGCCGCCAAAGGTCATATTC
* * *
99131253 TTTAGCGGCGTTTTTGACACAAACGCCGCCAAAGGTTATATTT
1 TTTAGCGGCGCTTTTGACACAAACGCCGCCAAAGGTCATATTC
*
99131296 TTTAGCGGCGCTTTTGCCACAAACGC
1 TTTAGCGGCGCTTTTGACACAAACGC
99131322 TGCTAAAGAA
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 3 0.03
43 88 0.94
44 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTGACACAAACGCCGCCAAAGGTCATATTC
Found at i:99131342 original size:86 final size:86
Alignment explanation
Indices: 99131150--99131343 Score: 201
Period size: 86 Copynumber: 2.3 Consensus size: 86
99131140 GAAAAAAAGG
* * * * *
99131150 CACTAAATAACATGACTTTTAGCGGCGCTTTTGCCACAAATGCCGCTAAAGGTCATATTCTTTAG
1 CACTAAAGAACATGACCTTTAGCGGCGCTTTTGACACAAACGCCGCCAAAGGTCATATTCTTTAG
* *
99131215 CGACGTTTTTGATAAAAGCGC
66 CGACGCTTTTGACAAAAGCGC
* ** ** * * *
99131236 CACCAAAGGTCATGTTCTTTAGCGGCGTTTTTGACACAAACGCCGCCAAAGGTTATATTTTTTAG
1 CACTAAAGAACATGACCTTTAGCGGCGCTTTTGACACAAACGCCGCCAAAGGTCATATTCTTTAG
* *
99131301 CGGCGCTTTTGCCACAAA-CGC
66 CGACGCTTTTGACA-AAAGCGC
**
99131322 TGCTAAAGAACATGACCTTTAG
1 CACTAAAGAACATGACCTTTAG
99131344 TGCTTTTGCC
Statistics
Matches: 83, Mismatches: 24, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
86 80 0.96
87 3 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (86 bp):
CACTAAAGAACATGACCTTTAGCGGCGCTTTTGACACAAACGCCGCCAAAGGTCATATTCTTTAG
CGACGCTTTTGACAAAAGCGC
Found at i:99131732 original size:21 final size:21
Alignment explanation
Indices: 99131707--99131748 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
99131697 TTCTGCTCTG
99131707 CTCTGCTTCCCTCACTGCTGC
1 CTCTGCTTCCCTCACTGCTGC
99131728 CTCTGCTTCCCTCACTGCTGC
1 CTCTGCTTCCCTCACTGCTGC
99131749 TCCGCTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.05, C:0.48, G:0.14, T:0.33
Consensus pattern (21 bp):
CTCTGCTTCCCTCACTGCTGC
Found at i:99132996 original size:26 final size:28
Alignment explanation
Indices: 99132958--99133013 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 28
99132948 AATTATAATA
99132958 TTACATATAATTAAAAAATCGTAAA-ATC
1 TTACATATAATT-AAAAATCGTAAATATC
* *
99132986 TTAC-TAT-ATTATAATTCGTAAATATC
1 TTACATATAATTAAAAATCGTAAATATC
99133012 TT
1 TT
99133014 CATCCACAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 10 0.40
26 8 0.32
27 3 0.12
28 4 0.16
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.41
Consensus pattern (28 bp):
TTACATATAATTAAAAATCGTAAATATC
Done.