Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 318 of 325
Found at i:96286476 original size:29 final size:29
Alignment explanation
Indices: 96286444--96286505 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
96286434 TAAAAGAAAC
* *
96286444 AGAATGAAAGCAAACGAA-AAAGAACAGGG
1 AGAAAGAAAGCAAA-GAAGAAAGAAAAGGG
*
96286473 AGAAAGAAAGGAAAGAAGAAAGAAAAGGG
1 AGAAAGAAAGCAAAGAAGAAAGAAAAGGG
96286502 -GAAA
1 AGAAA
96286506 TAAGTTTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.63, C:0.05, G:0.31, T:0.02
Consensus pattern (29 bp):
AGAAAGAAAGCAAAGAAGAAAGAAAAGGG
Found at i:96288061 original size:39 final size:39
Alignment explanation
Indices: 96287954--96288088 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
96287944 GACCTCGAGT
* * *
96287954 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
96287995 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
96288033 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
96288072 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
96288089 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:96294148 original size:5 final size:5
Alignment explanation
Indices: 96294138--96294173 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
96294128 AATAATTAAG
96294138 TATAT TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
96294174 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:96294242 original size:30 final size:30
Alignment explanation
Indices: 96294203--96294263 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
96294193 TAAAAGAAAC
* *
96294203 AGAATGAAAGCAAACGAA-AAAGAACAGGGG
1 AGAAAGAAAGCAAA-GAAGAAAGAAAAGGGG
*
96294233 AGAAAGAAAGGAAAGAAGAAAGAAAAGGGG
1 AGAAAGAAAGCAAAGAAGAAAGAAAAGGGG
96294263 A
1 A
96294264 AATAAGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 3 0.11
30 24 0.89
ACGTcount: A:0.61, C:0.05, G:0.33, T:0.02
Consensus pattern (30 bp):
AGAAAGAAAGCAAAGAAGAAAGAAAAGGGG
Found at i:96295833 original size:39 final size:39
Alignment explanation
Indices: 96295726--96295860 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
96295716 GACCTCGAGT
* * *
96295726 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
96295767 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
96295805 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
96295844 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
96295861 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:96297831 original size:22 final size:22
Alignment explanation
Indices: 96297791--96297832 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
96297781 TGGCCACCCA
*
96297791 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
96297813 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
96297833 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:96297922 original size:23 final size:21
Alignment explanation
Indices: 96297909--96297955 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
96297899 TTTTTTGGTT
96297909 TTTTGGAGGAGGATTGTTCTTTG
1 TTTTGGAGGAGGATT-TT-TTTG
96297932 TTTTGGAGGAGG-TTTTTTT-
1 TTTTGGAGGAGGATTTTTTTG
96297951 TTTTG
1 TTTTG
96297956 TTTTTTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.21
20 3 0.12
21 2 0.08
22 2 0.08
23 12 0.50
ACGTcount: A:0.11, C:0.02, G:0.32, T:0.55
Consensus pattern (21 bp):
TTTTGGAGGAGGATTTTTTTG
Found at i:96297955 original size:24 final size:24
Alignment explanation
Indices: 96297909--96297987 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
96297899 TTTTTTGGTT
* * *
96297909 TTTTGGAGGAGG-ATTGTTCTTTG
1 TTTTGGAGGAGGTTTTTTTTTTTG
96297932 TTTTGGAGGAGGTTTTTTTTTTTG
1 TTTTGGAGGAGGTTTTTTTTTTTG
***
96297956 TTTTTTTGGAGGTGTTTTTTTGTTT-
1 TTTTGGAGGAGGT-TTTTTTT-TTTG
96297981 TTTTGGA
1 TTTTGGA
96297988 AAGAAGGTTG
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 12 0.27
24 18 0.41
25 11 0.25
26 3 0.07
ACGTcount: A:0.09, C:0.01, G:0.29, T:0.61
Consensus pattern (24 bp):
TTTTGGAGGAGGTTTTTTTTTTTG
Found at i:96298327 original size:3 final size:3
Alignment explanation
Indices: 96298313--96298394 Score: 57
Period size: 3 Copynumber: 27.0 Consensus size: 3
96298303 GAGCTTCGTT
* *
96298313 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
96298357 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA
96298395 GATATGCCCT
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 48 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:96298351 original size:27 final size:29
Alignment explanation
Indices: 96298314--96298379 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 29
96298304 AGCTTCGTTT
*
96298314 TATTATT-TTATTATTTTTACTAT-TATTTA
1 TATTATTATTATTATTTCT-C-ATGTATTTA
96298343 TATTATTATTATTATTTCTCATGTA--TA
1 TATTATTATTATTATTTCTCATGTATTTA
96298370 TATTATTATT
1 TATTATTATT
96298380 TATATTATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 12 0.35
28 2 0.06
29 10 0.29
30 10 0.29
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (29 bp):
TATTATTATTATTATTTCTCATGTATTTA
Found at i:96298373 original size:21 final size:18
Alignment explanation
Indices: 96298313--96298394 Score: 85
Period size: 18 Copynumber: 4.3 Consensus size: 18
96298303 GAGCTTCGTT
*
96298313 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
96298333 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
96298351 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
96298372 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
96298390 -TATTA
1 TTATTA
96298395 GATATGCCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 5 0.09
18 18 0.33
19 9 0.17
20 10 0.19
21 12 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:96298399 original size:15 final size:12
Alignment explanation
Indices: 96298316--96298390 Score: 64
Period size: 12 Copynumber: 6.0 Consensus size: 12
96298306 CTTCGTTTTA
*
96298316 TTATTTTATTAT
1 TTATATTATTAT
* *
96298328 TTTTACTATTAT
1 TTATATTATTAT
96298340 TTATATTATTA-
1 TTATATTATTAT
96298351 TTATTATT-TCTCAT
1 TTA-TATTAT-T-AT
96298365 GTATATATTATTAT
1 -T-TATATTATTAT
96298379 TTATATTATTAT
1 TTATATTATTAT
96298391 ATTAGATATG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
11 4 0.08
12 34 0.67
13 2 0.04
14 2 0.04
15 6 0.12
16 3 0.06
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (12 bp):
TTATATTATTAT
Found at i:96304041 original size:6 final size:6
Alignment explanation
Indices: 96304032--96304069 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
96304022 GGAGTTATAT
*
96304032 GGCAAT GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GG
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GG
96304070 TAAAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.45, C:0.16, G:0.37, T:0.03
Consensus pattern (6 bp):
GGCAAA
Found at i:96305366 original size:66 final size:66
Alignment explanation
Indices: 96305266--96305392 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
96305256 CATTCATATA
*
96305266 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACACATT
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
96305331 C
66 C
*
96305332 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACA
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACA
96305393 TAAGCATAGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (66 bp):
ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
C
Found at i:96305666 original size:43 final size:44
Alignment explanation
Indices: 96305456--96306397 Score: 618
Period size: 43 Copynumber: 21.6 Consensus size: 44
96305446 ATTCACAAGC
* * *
96305456 CTTAAGCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGACAGAT
* * *
96305501 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACA-GAT
* * * * *
96305545 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTG-CAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * * *
96305587 CTTATCTCCCTAAGCAGCA-GGAAACAGATCGAAGATGA-AGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * **
96305629 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * * *
96305672 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGACAGA-T
* * *
96305716 CTTAA-CCCCTAAGCAGTTGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGACAGAT
* * *
96305760 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACA-GAT
* * * * *
96305804 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTG-CAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * *
96305846 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * **
96305889 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * * *
96305932 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGACAGA-T
* * *
96305976 CTTAACCCTCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGACAGAT
* * * *
96306021 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATAG-G
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * * *
96306064 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGACAGA-T
* * * *
96306108 CTTAAGCCCCTAAGCAGTAGGGTAACAG-GCTAAAGATTTACA-AT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGACAGAT
* ** * * **
96306152 CTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * * * *
96306195 CTTTAA-CCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAAC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGACAGAT
* * * * *
96306238 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAAGATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGACAGAT
* * * *
96306283 CTTAACCCCCTAA-CTAGTAGGGTAACAGGTTGAA-TTTACAGAT
1 CTTAACCCCCTAAGC-AGTAGGGTAACAGATCGAAGATGACAGAT
* * * * * ** **
96306326 CTTAACCCCTTAAGCAGTTGGGAAATATATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* *
96306370 CTTAAACCCCTAAGTAGTAGGGTAACAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG
96306398 GCTGGAAATT
Statistics
Matches: 706, Mismatches: 142, Indels: 99
0.75 0.15 0.10
Matches are distributed among these distances:
41 12 0.02
42 98 0.14
43 231 0.33
44 223 0.32
45 138 0.20
46 4 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (44 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
Found at i:96305792 original size:131 final size:131
Alignment explanation
Indices: 96305444--96306310 Score: 1140
Period size: 131 Copynumber: 6.6 Consensus size: 131
96305434 TAGAATCAGT
*
96305444 GAATTCACAAGCCTTAAGCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * * *
96305509 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTAAC-A
65 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAA
96305572 GACC
129 G-CC
* * * * * * *
96305576 GAA-TTGC-AGATCTTATCTCCCTAAGCAGCA-GGAAACA-GATCGAAGA-TGA-AGATCTTAAC
1 GAATTTACAAG-CCTTAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAAC
96305635 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
63 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
96305700 AGCC
128 AGCC
* *
96305704 AAATTTACAAGCCTTAACCCCTAAGCAGTTGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 GAATTTACAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* * * * *
96305769 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTAAC-AG
66 CTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAAG
96305832 ACC
130 -CC
* * * * * *
96305835 GAA-TTGC-AGATCTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAAC
1 GAATTTACAAG-CCTTAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAAC
96305895 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
63 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
96305960 AGCC
128 AGCC
*
96305964 AAATTTACAAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAACCC-CTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* *
96306029 CCTAAGCAGTAGGGAAACAGATCAAAGATGATAGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
65 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
96306094 CC
130 CC
*
96306096 GAATTTACAAGCCTTAAGCCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACA-ATCTTAACCC
1 GAATTTACAAGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
** *
96306160 CCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAA-CCCCTAAGCAGTAGGGTAACAAG
65 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
96306224 CC
130 CC
* * *
96306226 GAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAAGATTTACAAATCTTAACCC
1 GAATTTACAAGCCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
*
96306291 CCTAA-CTAGTAGGGTAACAG
65 CCTAAGC-AGTAGGGAAACAG
96306311 GTTGAATTTA
Statistics
Matches: 649, Mismatches: 58, Indels: 57
0.85 0.08 0.07
Matches are distributed among these distances:
128 81 0.12
129 101 0.16
130 142 0.22
131 194 0.30
132 128 0.20
133 3 0.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (131 bp):
GAATTTACAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
CTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
C
Found at i:96306361 original size:88 final size:87
Alignment explanation
Indices: 96305629--96306362 Score: 348
Period size: 87 Copynumber: 8.4 Consensus size: 87
96305619 AGATGAAGAT
* * ****
96305629 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-TGGGCTTTAACCCCCTAAGCAGTA
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGATTTACAAATC-TTAA-CCCCTAAGCAGTA
* *
96305692 GGGTAACAAGCCAAATTTACAAGC
64 GGGTAACAAGCCGAATTTACAAAC
* * * *
96305716 CTT-AACCCCTAAGCAGTTGGGTAACAG-GCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTA
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATC-GAAGATTTACAAATCTTAA-CCCCTAAGCAGTA
* * * **
96305779 GGGAAAC-AGATCGAA--GACGAAGGGT
64 GGGTAACAAG-CCGAATTTAC-AA--AC
* * * * * * *
96305804 CTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-A-TTGCAGATCTTATCTCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGATTTACAAATCTTAAC-CCCTAAGCAGTAG
* * * * * *
96305866 GGAAAC-AGATCGAAGATGA-AGAT
65 GGTAACAAG-CCGAA-TTTACAAAC
* * ****
96305889 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-TGGGCTTTAACCCCCTAAGCAGTA
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGATTTACAAATC-TTAA-CCCCTAAGCAGTA
* *
96305952 GGGTAACAAGCCAAATTTACAAGC
64 GGGTAACAAGCCGAATTTACAAAC
* * *
96305976 CTT-AACCCTCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGATCTTAACCCCCTAAGCAGT
1 CTTAAACCC-CTAAGCAGTAGGGAAACAGATC-GAAGATTTACAAATCTTAA-CCCCTAAGCAGT
* * * * * * **
96306039 AGGGAAAC-AGATCAAAGATGATAGGC
63 AGGGTAACAAG-CCGAA-TTTACAAAC
* * * * **
96306065 TTTAACCCCCTAAGCAGTAGGGTAACA-AGCCG-A-ATTTACAAGCCTTAAGCCCCTAAGCAGTA
1 CTTAAACCCCTAAGCAGTAGGGAAACAGA-TCGAAGATTTACAAATCTTAA-CCCCTAAGCAGTA
* ** *
96306127 GGGTAACAGGCTAAAGATTTAC-AAT
64 GGGTAACAAGC-CGA-ATTTACAAAC
* * * * * ****
96306152 CTTAACCCCCTAAGCAGTAGGGAAACAGAT-AAAAAATGA-TGGGCTTTAACCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGATTTACAAATC-TTAACCCCTAAGCAGTAG
96306215 GGTAACAAGCCGAATTTACAAAC
65 GGTAACAAGCCGAATTTACAAAC
* * *
96306238 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAAGATTTACAAATCTTAACCCCCTAA-CTAGTA
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGATTTACAAATCTTAA-CCCCTAAGC-AGTA
* ** * *
96306302 GGGTAACAGGTTGAATTTACAGAT
64 GGGTAACAAGCCGAATTTACAAAC
* * *
96306326 CTT-AACCCCTTAAGCAGTTGGGAAATATATCGAAGAT
1 CTTAAACCCC-TAAGCAGTAGGGAAACAGATCGAAGAT
96306363 GATGGGCCTT
Statistics
Matches: 501, Mismatches: 105, Indels: 81
0.73 0.15 0.12
Matches are distributed among these distances:
85 38 0.08
86 108 0.22
87 187 0.37
88 109 0.22
89 53 0.11
90 6 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (87 bp):
CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGATTTACAAATCTTAACCCCTAAGCAGTAGG
GTAACAAGCCGAATTTACAAAC
Found at i:96306532 original size:68 final size:68
Alignment explanation
Indices: 96306415--96306613 Score: 303
Period size: 68 Copynumber: 2.9 Consensus size: 68
96306405 ATTACAAATT
* *
96306415 TCTTTT-TCCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
*
96306478 AGGA
66 A-AA
*
96306482 TCTTTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
96306547 AAA
66 AAA
* * * *
96306550 CCTCTTCTTCCAGAAATGGCATTGGAGAGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAG
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAG
96306614 TGAAAGAAGA
Statistics
Matches: 121, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
67 6 0.05
68 114 0.94
69 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (68 bp):
TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
AAA
Found at i:96306773 original size:44 final size:44
Alignment explanation
Indices: 96306725--96307409 Score: 590
Period size: 44 Copynumber: 15.6 Consensus size: 44
96306715 GATTTCAACA
96306725 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * * * * *
96306769 TGGCATCCCTGTGCTTACAGGGAACAAATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * * * *
96306813 TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAA-ATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAAACA--TCAG-ATT
*
96306857 TGGCATCCCTGCGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * * *
96306901 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAGATAGT-AGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACA-TCAGATT
* * * * * * **
96306945 TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ACATCAG-ATT
96306989 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
96307033 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * * * *
96307077 TGGCATCCCTGTGCTTATAGGGAAC-GGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACATCAGATT
* * * * * * **
96307121 TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ACATCAG-ATT
96307165 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
*
96307209 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * * * *
96307253 TGGCATCCCTGTGCTTATAGGGAAC-GGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACATCAGATT
* * * * ** * * **
96307297 TGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACATCAG-ATT
* *
96307341 TGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
96307385 TGGCATCCCTGTGCTTATAGGGAAC
1 TGGCATCCCTGTGCTTATAGGGAAC
96307410 GGATCGAAGA
Statistics
Matches: 515, Mismatches: 98, Indels: 56
0.77 0.15 0.08
Matches are distributed among these distances:
42 4 0.01
43 28 0.05
44 448 0.87
45 31 0.06
46 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
Found at i:96306903 original size:132 final size:132
Alignment explanation
Indices: 96306666--96307059 Score: 725
Period size: 132 Copynumber: 3.0 Consensus size: 132
96306656 TGGAGCAGAC
* * *
96306666 CGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCCAAGATTTCAACATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
*
96306731 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTACAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
96306796 AT
131 AT
*
96306798 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAAATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
*
96306863 CCCTGCGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
96306928 AT
131 AT
*
96306930 CGAAGATAGTAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
96306995 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
96307060 GTTGAAAACA
Statistics
Matches: 253, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 253 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (132 bp):
CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
AT
Found at i:96307039 original size:176 final size:176
Alignment explanation
Indices: 96306857--96307409 Score: 1025
Period size: 176 Copynumber: 3.1 Consensus size: 176
96306847 AATTTCAGCA
*
96306857 TGGCATCCCTGCGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGG
** *
96306922 GAACAAATCGAAGATAGTAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
96306987 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
96307033 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGG
96307098 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
96307163 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
*
96307209 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGG
* *
96307274 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
66 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
* *
96307339 CATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
96307385 TGGCATCCCTGTGCTTATAGGGAAC
1 TGGCATCCCTGTGCTTATAGGGAAC
96307410 GGATCGAAGA
Statistics
Matches: 368, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
176 368 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (176 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGG
GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
Found at i:96307088 original size:132 final size:132
Alignment explanation
Indices: 96306678--96307225 Score: 685
Period size: 132 Copynumber: 4.2 Consensus size: 132
96306668 AAGATAGCAA
* * *
96306678 ATCTGACATTCCTGTGCTTACAGTGAAGCAGATCCAAGATTTCAACATGGCATCCCTGTGCTTAT
1 ATCTGACATCCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTAT
* * * *
96306743 AGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTACAGGGAACAAATCGAAGATAGC
66 AGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACATC
96306808 AG
131 AG
* * *
96306810 ATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAAATTTCAGCATGGCATCCCTGCGCTTAT
1 ATCTGACATCCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTAT
* *
96306875 AGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAATCGAAGATAGT
66 AGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACA-T
96306940 -AG
130 CAG
*
96306942 ATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTAT
1 ATCTGACATCCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTAT
* *
96307007 AGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATC
66 AGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACATC
96307072 AG
131 AG
* * * * * * ** * *
96307074 ATTTGGCATCCCTGTGCTTATAGGGAA-CGGATCGAAGATAGCAG-ATCTGACATTCCTGTGCTT
1 ATCTGACATCCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCA--TGGCATCCCTGTGCTT
* * * * ** * *
96307137 ACAGTGAAGC-AGATCAAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAA
64 ATAGGGAA-CAAGTTGAAA-ACATCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAATCGAAA
96307199 ACATCAG
126 ACATCAG
* *
96307206 ATTTGGCATCCCTGTGCTTA
1 ATCTGACATCCCTGTGCTTA
96307226 TAGGGAACAA
Statistics
Matches: 380, Mismatches: 29, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
130 1 0.00
131 14 0.04
132 358 0.94
133 6 0.02
134 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (132 bp):
ATCTGACATCCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTAT
AGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACATC
AG
Found at i:96307440 original size:44 final size:43
Alignment explanation
Indices: 96306666--96307445 Score: 547
Period size: 44 Copynumber: 17.7 Consensus size: 43
96306656 TGGAGCAGAC
* * * * * *
96306666 CGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGAT
1 CGAAGATATCAGATCTGGCATCCCTGTGCTTATAGGGAA-CA-AT
* *
96306711 CCAAGATTTCA-A-CATGGCATCCCTGTGCTTATAGGGAACAAGT
1 CGAAGATATCAGATC-TGGCATCCCTGTGCTTATAGGGAACAA-T
* * * * *
96306754 TGAAAACATCAGATTTGGCATCCCTGTGCTTACAGGGAACAAAT
1 CGAAGATATCAGATCTGGCATCCCTGTGCTTATAGGGAAC-AAT
* * * * *
96306798 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGAT
1 CGAAGATATCAGATCTGGCATCCCTGTGCTTATAGGGAA-CA-AT
* * * *
96306843 CAAAAATTTCAG--CATGGCATCCCTGCGCTTATAGGGAACAAGT
1 CGAAGATATCAGATC-TGGCATCCCTGTGCTTATAGGGAACAA-T
* * * *
96306886 TGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAAT
1 CGAAGATATCAGATCTGGCATCCCTGTGCTTATAGGGAAC-AAT
* * * *
96306930 CGAAGATAGT-AGATCTGACATTCCTGTGCTTACAGTGAAGCAGAT
1 CGAAGATA-TCAGATCTGGCATCCCTGTGCTTATAGGGAA-CA-AT
* *
96306975 CAAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAACAAGT
1 CGAAGATATCAGATC-TGGCATCCCTGTGCTTATAGGGAACAA-T
* * * *
96307018 TGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGT
1 CGAAGATATCAGATCTGGCATCCCTGTGCTTATAGGGAACAA-T
* * * * *
96307062 TGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACGGAT
1 CGAAGATATCAGATCTGGCATCCCTGTGCTTATAGGGAAC-AAT
* * * * *
96307106 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGAT
1 CGAAGATATCAGATCTGGCATCCCTGTGCTTATAGGGAA-CA-AT
* *
96307151 CAAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAACAAGT
1 CGAAGATATCAGATC-TGGCATCCCTGTGCTTATAGGGAACAA-T
* * * *
96307194 TGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGT
1 CGAAGATATCAGATCTGGCATCCCTGTGCTTATAGGGAACAA-T
* * * * * *
96307238 TGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACGGAT
1 CGAAGATATCAGATCTGGCATCCCTGTGCTTATAGGGAAC-AAT
* * * * * *
96307282 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGAT
1 CGAAGATATCAGATCTGGCATCCCTGTGCTTATAGGGAA-CA-AT
* *
96307327 CGAAGATTTCAG--CATGACATCCCTGTGCTTATAGGGAACAAGT
1 CGAAGATATCAGATC-TGGCATCCCTGTGCTTATAGGGAACAA-T
* * * * * *
96307370 TGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACGGAT
1 CGAAGATATCAGATCTGGCATCCCTGTGCTTATAGGGAAC-AAT
* * * *
96307414 CGAAGATAGCAAATCTGACATTCCTGTGCTTA
1 CGAAGATATCAGATCTGGCATCCCTGTGCTTA
96307446 CAGTGAAGCA
Statistics
Matches: 585, Mismatches: 115, Indels: 71
0.76 0.15 0.09
Matches are distributed among these distances:
42 5 0.01
43 54 0.09
44 464 0.79
45 62 0.11
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
CGAAGATATCAGATCTGGCATCCCTGTGCTTATAGGGAACAAT
Found at i:96307848 original size:22 final size:22
Alignment explanation
Indices: 96307808--96307849 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
96307798 TGGCCACCCA
*
96307808 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
96307830 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
96307850 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:96307969 original size:21 final size:21
Alignment explanation
Indices: 96307924--96307992 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
96307914 GTTTTTGGTT
*
96307924 TTTTGGAGGAGGATTGTTCTTTG
1 TTTTGGAGGAGG-TT-TTTTTTG
96307947 TTTTGGAGGAGGTTTTTTTTG
1 TTTTGGAGGAGGTTTTTTTTG
**
96307968 TTTT-TTGGAGGTGTTTTTTTG
1 TTTTGGAGGAGGT-TTTTTTTG
96307989 TTTT
1 TTTT
96307993 TTGGAAAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 6 0.14
21 22 0.52
22 2 0.05
23 12 0.29
ACGTcount: A:0.09, C:0.01, G:0.30, T:0.59
Consensus pattern (21 bp):
TTTTGGAGGAGGTTTTTTTTG
Found at i:96307979 original size:20 final size:21
Alignment explanation
Indices: 96307954--96307997 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
96307944 TTGTTTTGGA
96307954 GGAGGT-TTTTTTTGTTTTTT
1 GGAGGTGTTTTTTTGTTTTTT
96307974 GGAGGTGTTTTTTTGTTTTTT
1 GGAGGTGTTTTTTTGTTTTTT
96307995 GGA
1 GGA
96307998 AAGAAGGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.07, C:0.00, G:0.30, T:0.64
Consensus pattern (21 bp):
GGAGGTGTTTTTTTGTTTTTT
Found at i:96307994 original size:23 final size:23
Alignment explanation
Indices: 96307915--96308022 Score: 98
Period size: 23 Copynumber: 4.7 Consensus size: 23
96307905 GGGAGGGTGG
*
96307915 TTTTTGGTTTTTTGGAGGAGGATT
1 TTTTTTGTTTTTTGGAGGAGG-TT
*
96307939 GTTCTTTG--TTTTGGAGGAGGTT
1 -TTTTTTGTTTTTTGGAGGAGGTT
*
96307961 TTTTTTGTTTTTTGGAGG-TG-T
1 TTTTTTGTTTTTTGGAGGAGGTT
*
96307982 TTTTTTGTTTTTTGGAAAGAAGGTT
1 TTTTTTGTTTTTTGG--AGGAGGTT
* *
96308007 GTTTTTGTTTCTTGGA
1 TTTTTTGTTTTTTGGA
96308023 AAGGCTAGTT
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
21 22 0.32
22 3 0.04
23 24 0.35
24 1 0.01
25 19 0.28
ACGTcount: A:0.11, C:0.02, G:0.30, T:0.57
Consensus pattern (23 bp):
TTTTTTGTTTTTTGGAGGAGGTT
Found at i:96308339 original size:3 final size:3
Alignment explanation
Indices: 96308325--96308406 Score: 57
Period size: 3 Copynumber: 27.0 Consensus size: 3
96308315 GAGCTTCGTT
* *
96308325 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
96308369 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA
96308407 GATATGCCCT
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 48 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:96308363 original size:27 final size:29
Alignment explanation
Indices: 96308326--96308391 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 29
96308316 AGCTTCGTTT
*
96308326 TATTATT-TTATTATTTTTACTAT-TATTTA
1 TATTATTATTATTATTTCT-C-ATGTATTTA
96308355 TATTATTATTATTATTTCTCATGTA--TA
1 TATTATTATTATTATTTCTCATGTATTTA
96308382 TATTATTATT
1 TATTATTATT
96308392 TATATTATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 12 0.35
28 2 0.06
29 10 0.29
30 10 0.29
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (29 bp):
TATTATTATTATTATTTCTCATGTATTTA
Found at i:96308385 original size:21 final size:18
Alignment explanation
Indices: 96308325--96308406 Score: 85
Period size: 18 Copynumber: 4.3 Consensus size: 18
96308315 GAGCTTCGTT
*
96308325 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
96308345 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
96308363 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
96308384 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
96308402 -TATTA
1 TTATTA
96308407 GATATGCCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 5 0.09
18 18 0.33
19 9 0.17
20 10 0.19
21 12 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:96308411 original size:15 final size:12
Alignment explanation
Indices: 96308328--96308402 Score: 64
Period size: 12 Copynumber: 6.0 Consensus size: 12
96308318 CTTCGTTTTA
*
96308328 TTATTTTATTAT
1 TTATATTATTAT
* *
96308340 TTTTACTATTAT
1 TTATATTATTAT
96308352 TTATATTATTA-
1 TTATATTATTAT
96308363 TTATTATT-TCTCAT
1 TTA-TATTAT-T-AT
96308377 GTATATATTATTAT
1 -T-TATATTATTAT
96308391 TTATATTATTAT
1 TTATATTATTAT
96308403 ATTAGATATG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
11 4 0.08
12 34 0.67
13 2 0.04
14 2 0.04
15 6 0.12
16 3 0.06
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (12 bp):
TTATATTATTAT
Found at i:96309902 original size:27 final size:27
Alignment explanation
Indices: 96309872--96309943 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
96309862 AGTCTCAATT
* ** *
96309872 GACTACCTTGTGTTT-GATGTCCTGATG
1 GACTACCTTGTGTTTAG-TATCCAAATA
**
96309899 GACTACCCCGTGTTTAGTATCCAAATA
1 GACTACCTTGTGTTTAGTATCCAAATA
96309926 GACTACCTTGTGTTTAGT
1 GACTACCTTGTGTTTAGT
96309944 GTCTCGGTGG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
GACTACCTTGTGTTTAGTATCCAAATA
Found at i:96317167 original size:18 final size:17
Alignment explanation
Indices: 96317130--96317185 Score: 78
Period size: 16 Copynumber: 3.2 Consensus size: 17
96317120 ATCCAGGTTC
*
96317130 ATTTTTATTTTTTT-TC
1 ATTTTTATTTTTTTATA
96317146 ATTTTTATTTTTTTAGTA
1 ATTTTTATTTTTTTA-TA
96317164 ATTTTATATTTTTTTATA
1 ATTTT-TATTTTTTTATA
96317182 ATTT
1 ATTT
96317186 AAAAAAGAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
16 14 0.39
18 12 0.33
19 10 0.28
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (17 bp):
ATTTTTATTTTTTTATA
Found at i:96317650 original size:18 final size:18
Alignment explanation
Indices: 96317629--96317671 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
96317619 ACTTAAGTAA
*
96317629 TAAAAATTAAATTTATTT
1 TAAAAATGAAATTTATTT
*
96317647 TAAATATGAAATTTATTT
1 TAAAAATGAAATTTATTT
96317665 TAAAAAT
1 TAAAAAT
96317672 ATTTCATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TAAAAATGAAATTTATTT
Found at i:96318958 original size:17 final size:17
Alignment explanation
Indices: 96318938--96319036 Score: 144
Period size: 17 Copynumber: 5.6 Consensus size: 17
96318928 CAATGATATG
96318938 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
96318955 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
96318973 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
96318990 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
96319008 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
96319027 CAATCTTAGA
1 CAATCTTAGA
96319037 AGATATGATT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 31 0.42
18 31 0.42
19 11 0.15
20 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:96318976 original size:35 final size:35
Alignment explanation
Indices: 96318930--96319036 Score: 187
Period size: 35 Copynumber: 3.0 Consensus size: 35
96318920 ATAATCTTCA
96318930 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
96318966 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
96319001 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
96319037 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
35 51 0.74
36 5 0.07
37 13 0.19
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:96318978 original size:18 final size:18
Alignment explanation
Indices: 96318938--96319036 Score: 157
Period size: 18 Copynumber: 5.6 Consensus size: 18
96318928 CAATGATATG
96318938 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
96318955 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
96318973 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
96318990 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
96319008 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
96319027 CAATCTTAGA
1 CAATCTTAGA
96319037 AGATATGATT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
17 31 0.41
18 33 0.44
19 11 0.15
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:96319576 original size:17 final size:17
Alignment explanation
Indices: 96319511--96319576 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
96319501 TCTAAACCAA
*
96319511 TATATTTTATATTTT-T
1 TATATATTATATTTTAT
96319527 TATATAATTATTATTCTTA-
1 TATAT-ATTA-TATT-TTAT
*
96319546 TAAATA-TAT-TTTTAT
1 TATATATTATATTTTAT
96319561 TATATATTATATTTTA
1 TATATATTATATTTTA
96319577 AATTTATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
14 3 0.08
15 7 0.17
16 9 0.22
17 10 0.25
18 5 0.12
19 6 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TATATATTATATTTTAT
Found at i:96319600 original size:26 final size:25
Alignment explanation
Indices: 96319553--96319601 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
96319543 TTATAAATAT
* * *
96319553 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
96319578 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
96319602 TTTTATATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:96325087 original size:86 final size:85
Alignment explanation
Indices: 96324939--96325198 Score: 404
Period size: 86 Copynumber: 3.1 Consensus size: 85
96324929 CCACTGCTGA
*
96324939 TTTGCAGTTA-TAGCCACTTGTTGTCG-GTGCACAACATATTTGCAGATTAAACAAACTGCCACT
1 TTTGCAGTTACT-GCCACTTGTTGT-GAGTGCACAACATATTTGCAGATTAAACAAACTACCACT
96325002 TGGTTCGTGATTGAACCACATTG
64 TGGTTCGTGATTGAACCACA-TG
*
96325025 TTTGCAGTTACTGCCACTTTTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTACCACTTG
1 TTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTACCACTTG
*
96325090 GTTCGTGA-T--ACCACATA
66 GTTCGTGATTGAACCACATG
*
96325107 TTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTACAGATTAAACAAACTACCACTTG
1 TTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTACCACTTG
*
96325172 GTTTGTGATTGAACCACACTG
66 GTTCGTGATTGAACCACA-TG
96325193 TTTGCA
1 TTTGCA
96325199 AATTAAACTG
Statistics
Matches: 161, Mismatches: 7, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
82 71 0.44
83 7 0.04
85 8 0.05
86 74 0.46
87 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (85 bp):
TTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTACCACTTG
GTTCGTGATTGAACCACATG
Found at i:96326935 original size:21 final size:22
Alignment explanation
Indices: 96326896--96326961 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
96326886 TTTCTTTTTA
*
96326896 AATTAATTAATATAATAATAC-AT
1 AATTAATT-AT-TTATAATACTAT
* *
96326919 GATTATATTATTT-TAATACTTT
1 AATTA-ATTATTTATAATACTAT
96326941 AATTAATTATTTATAATACTA
1 AATTAATTATTTATAATACTA
96326962 ATTTCGGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 13 0.37
22 13 0.37
23 6 0.17
24 3 0.09
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
AATTAATTATTTATAATACTAT
Found at i:96331464 original size:22 final size:22
Alignment explanation
Indices: 96331436--96331511 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
96331426 AAGTGTGTAT
96331436 ATGTGATAAGGCTGAATGGCCA
1 ATGTGATAAGGCTGAATGGCCA
* *
96331458 ATGTGATGAATG-TGAAAGTGTG-TA
1 ATGTGAT-AAGGCTG-AA-TG-GCCA
*
96331482 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCTGAATGGCCA
96331505 ATGTGAT
1 ATGTGAT
96331512 GAATGTGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 8 0.19
25 9 0.21
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCTGAATGGCCA
Found at i:96331471 original size:47 final size:47
Alignment explanation
Indices: 96331401--96331603 Score: 277
Period size: 47 Copynumber: 4.3 Consensus size: 47
96331391 AGCTTAAGAT
96331401 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
*
96331448 TGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
96331495 CGAATGGCCAATGTGATGAATGTGAAAGTGCATACATGAGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
96331542 CGAATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
*
96331587 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
96331604 AAAGTGTGCA
Statistics
Matches: 137, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
45 21 0.15
46 6 0.04
47 110 0.80
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:96331728 original size:39 final size:40
Alignment explanation
Indices: 96331674--96331758 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
96331664 AAATGAATTG
* * * *
96331674 TGCTGAGATTGTATCC-GGTTTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
*
96331713 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
96331753 TGCTGG
1 TGCTGG
96331759 TGAATTAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 15 0.38
40 25 0.62
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.31
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:96334768 original size:25 final size:21
Alignment explanation
Indices: 96334721--96334763 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
96334711 CAAGATTTTC
*
96334721 TTTCTTCTTTGAAGATAATAA
1 TTTCTTCTTTCAAGATAATAA
*
96334742 TTTCTTCTTTCAAG-GAATAA
1 TTTCTTCTTTCAAGATAATAA
96334762 TT
1 TT
96334764 AAATTGGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (21 bp):
TTTCTTCTTTCAAGATAATAA
Found at i:96348602 original size:23 final size:23
Alignment explanation
Indices: 96348573--96348621 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
96348563 AAAAAAGTAG
96348573 AAAATTGAATAGTAAGATCAGCA
1 AAAATTGAATAGTAAGATCAGCA
96348596 AAAATTGAATAGTAAGATCAGCA
1 AAAATTGAATAGTAAGATCAGCA
96348619 AAA
1 AAA
96348622 TCTGTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.20
Consensus pattern (23 bp):
AAAATTGAATAGTAAGATCAGCA
Found at i:96358416 original size:2 final size:2
Alignment explanation
Indices: 96358409--96358439 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
96358399 AGAGCCTGGA
96358409 AT 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 AT A
96358440 GAGGATTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96361355 original size:2 final size:2
Alignment explanation
Indices: 96361348--96361385 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
96361338 ATTGCCAAAA
*
96361348 AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96361386 CAAGTTGGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:96371496 original size:131 final size:129
Alignment explanation
Indices: 96371278--96371723 Score: 576
Period size: 129 Copynumber: 3.4 Consensus size: 129
96371268 GCACAGTAGA
* * * ** * *
96371278 GCACGATTCCTCGAATTTCTAGACATTGAACATTGCCTT-ATTTT--AGAATTTTGAAAACATGA
1 GCACGATTCC-CAAATTTCCAAACATCAAACATTGCCTTCGTTTTAAAGAATTTTTAAAACATGA
* * * *
96371340 GTGAAATTCTAAAGGAATATTCGATTATTTCGAAGATACGGGAAATTGCAACCCAGCACGATAGG
65 TTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
* * * * *
96371405 GCACGATTCTCCGAATTGCCAAACGTTAAACATTACCTTCGTTTTAAAGAATTTTTAAAGACATG
1 GCACGATTC-CCAAATTTCCAAACATCAAACATTGCCTTCGTTTTAAAGAATTTTTAAA-ACATG
*
96371470 ATTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCATGATTG
64 ATTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATTG
96371535 G
129 G
* * * *
96371536 GCACAATTCCCTAAATTTCCAAACCTCAAACATTGCATTCGTTTTAAA-AATTTTTAAAACATGG
1 GCACGATTCCC-AAATTTCCAAACATCAAACATTGCCTTCGTTTTAAAGAATTTTTAAAACATGA
*
96371600 TTGAAATTCCAAAGGAATATTCGATTATTTTGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
65 TTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
* * * * *
96371665 GCACGATTCCCCAAATTTCCCAACATCGAACGTTGCCTTTGTTTTTAAGAATTTTTAAA
1 GCACGATT-CCCAAATTTCCAAACATCAAACATTGCCTTCGTTTTAAAGAATTTTTAAA
96371724 TGAATAATTA
Statistics
Matches: 280, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
127 31 0.11
128 5 0.02
129 104 0.37
130 36 0.13
131 104 0.37
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (129 bp):
GCACGATTCCCAAATTTCCAAACATCAAACATTGCCTTCGTTTTAAAGAATTTTTAAAACATGAT
TGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
Found at i:96371646 original size:129 final size:128
Alignment explanation
Indices: 96371278--96371723 Score: 556
Period size: 131 Copynumber: 3.4 Consensus size: 128
96371268 GCACAGTAGA
* * * ** * * *
96371278 GCACGATTCCTCGAATTTCTAGACATTGAACATTGCCTT-ATTTT-AGAATTTTGAAAACATGAG
1 GCACGATTCC-CAAATTTCCAAACATCAAACATTGCCTTCGTTTTAAAAATTTTTAAAACATG-G
* * *
96371341 -TGAAATTCTAAAGGAATATTCGATTATTTCGAAGATACGGGAAATTGCAACCCAGCACGATAGG
64 TTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
* * * * *
96371405 GCACGATTCTCCGAATTGCCAAACGTTAAACATTACCTTCGTTTTAAAGAATTTTTAAAGACATG
1 GCACGATTC-CCAAATTTCCAAACATCAAACATTGCCTTCGTTTTAAA-AATTTTTAAA-ACATG
* *
96371470 ATTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCATGATTG
63 GTTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATTG
96371535 G
128 G
* * *
96371536 GCACAATTCCCTAAATTTCCAAACCTCAAACATTGCATTCGTTTTAAAAATTTTTAAAACATGGT
1 GCACGATTCCC-AAATTTCCAAACATCAAACATTGCCTTCGTTTTAAAAATTTTTAAAACATGGT
*
96371601 TGAAATTCCAAAGGAATATTCGATTATTTTGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
65 TGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
* * * * *
96371665 GCACGATTCCCCAAATTTCCCAACATCGAACGTTGCCTTTGTTTTTAAGAATTTTTAAA
1 GCACGATT-CCCAAATTTCCAAACATCAAACATTGCCTTCG-TTTTAAAAATTTTTAAA
96371724 TGAATAATTA
Statistics
Matches: 278, Mismatches: 32, Indels: 15
0.86 0.10 0.05
Matches are distributed among these distances:
127 31 0.11
128 5 0.02
129 99 0.36
130 40 0.14
131 103 0.37
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (128 bp):
GCACGATTCCCAAATTTCCAAACATCAAACATTGCCTTCGTTTTAAAAATTTTTAAAACATGGTT
GAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
Found at i:96379830 original size:2 final size:2
Alignment explanation
Indices: 96379823--96379852 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
96379813 GGTCTAAAAA
96379823 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
96379853 ATATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:96379857 original size:2 final size:2
Alignment explanation
Indices: 96379852--96379878 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
96379842 TCTCTCTCTC
96379852 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 T
96379879 CAAATGATTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96380363 original size:45 final size:45
Alignment explanation
Indices: 96380300--96380387 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
96380290 TCTCTACCTA
* *
96380300 TTTATTTCATTCATCATGGATATCAAACACCTTTACCCTAAGTAT
1 TTTATTTCATTCAACATGGATATCAAACACCTTTACCCCAAGTAT
* * *
96380345 TTTA-TTCTATTCAACATGGTTATCAAATACTTTTACCCCAAGT
1 TTTATTTC-ATTCAACATGGATATCAAACACCTTTACCCCAAGT
96380388 CTATATTAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 3 0.08
45 34 0.92
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.41
Consensus pattern (45 bp):
TTTATTTCATTCAACATGGATATCAAACACCTTTACCCCAAGTAT
Found at i:96381122 original size:66 final size:66
Alignment explanation
Indices: 96381016--96381149 Score: 173
Period size: 66 Copynumber: 2.0 Consensus size: 66
96381006 ATTTTGAAGC
* * * *
96381016 TGTAGTTGGAGTTCGTCATATTTTCTTGTTGCCTTTGCTTCCCTTAT-TGTTGCCTCCACTTTAA
1 TGTAGCTGGAGTTCATCATATTTTCTTGTAGCCTTTGCTT-CCTTATATGCTGCCTCCACTTTAA
96381080 GT
65 GT
* * *
96381082 TGTAGCTGGAGTTCATCATATTTTCTT-TGAGCCTTTGCTTCTTTCTATGCTGCCTCCGCTTTAA
1 TGTAGCTGGAGTTCATCATATTTTCTTGT-AGCCTTTGCTTCCTTATATGCTGCCTCCACTTTAA
96381146 GT
65 GT
96381148 TG
1 TG
96381150 AGCAATTTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
65 5 0.08
66 54 0.92
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.47
Consensus pattern (66 bp):
TGTAGCTGGAGTTCATCATATTTTCTTGTAGCCTTTGCTTCCTTATATGCTGCCTCCACTTTAAG
T
Found at i:96383207 original size:40 final size:41
Alignment explanation
Indices: 96383132--96383208 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
96383122 CAATTATGAG
* *
96383132 AAAAACGCCGCTATAGGTTTAACCTTTTGTGGCGTTTATGC
1 AAAAACGCCGCTATAGCTTTAACCTTTTGCGGCGTTTATGC
*
96383173 AAAAACGCCGCTATTGCTTT-ACCTTTTGCGGCGTTT
1 AAAAACGCCGCTATAGCTTTAACCTTTTGCGGCGTTT
96383209 TTCTCATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 15 0.45
41 18 0.55
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (41 bp):
AAAAACGCCGCTATAGCTTTAACCTTTTGCGGCGTTTATGC
Found at i:96388424 original size:19 final size:19
Alignment explanation
Indices: 96388400--96388469 Score: 117
Period size: 19 Copynumber: 3.8 Consensus size: 19
96388390 ATCTTCAATT
96388400 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
96388419 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
96388438 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
96388455 ACATGCAATCTTAGA
1 ATATGCAATCTTAGA
96388470 AGATATGATT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
17 16 0.33
19 32 0.67
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:96388781 original size:17 final size:17
Alignment explanation
Indices: 96388757--96388791 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96388747 ATGTTTCCCG
*
96388757 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
96388775 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
96388792 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:96398822 original size:78 final size:78
Alignment explanation
Indices: 96398724--96398957 Score: 414
Period size: 78 Copynumber: 3.0 Consensus size: 78
96398714 GTGTTTACGC
*
96398724 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAG
96398789 ATTTGACCTTCAT
66 ATTTGACCTTCAT
* *
96398802 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGACATAACAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAG
*
96398867 ATTGGACCTTCAT
66 ATTTGACCTTCAT
*
96398880 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAG
*
96398945 ATCTGACCTTCAT
66 ATTTGACCTTCAT
96398958 GTGTTTACAT
Statistics
Matches: 147, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 147 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (78 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAG
ATTTGACCTTCAT
Found at i:96399095 original size:44 final size:45
Alignment explanation
Indices: 96398897--96399170 Score: 295
Period size: 45 Copynumber: 6.1 Consensus size: 45
96398887 GATCCAAGAT
*
96398897 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
96398944 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* * * *
96398989 GATTTGGCATCTCTGTATTTGACAGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
96399034 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
96399078 GATTTGGCGTCCCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * *
96399123 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
96399168 GAT
1 GAT
96399171 ATCGCCTTCC
Statistics
Matches: 187, Mismatches: 33, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
43 1 0.01
44 43 0.23
45 112 0.60
46 4 0.02
47 22 0.12
48 4 0.02
49 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:96399106 original size:89 final size:90
Alignment explanation
Indices: 96398971--96399170 Score: 287
Period size: 89 Copynumber: 2.2 Consensus size: 90
96398961 TTTACATCGA
* * * *
96398971 AGCAGATCCAAGAT-GACAGATTTGGCATCTCTGTATTTGACAGGGAGCAAATCGGAGATAACAG
1 AGCAGATCAAAGATAG-CAGATTTGGCATCCCTGTATTAGACAGGGAGCAAATCGAAGATAACAG
96399035 ATTTGGCATCTCTGTATTAGACGGGG
65 ATTTGGCATCTCTGTATTAGACGGGG
** * * *
96399061 AGCAGATTGAAGA-AGCAGATTTGGCGTCCCTGTATTAGACGGGGAGCAGATCGAAGATAACAGA
1 AGCAGATCAAAGATAGCAGATTTGGCATCCCTGTATTAGACAGGGAGCAAATCGAAGATAACAGA
*
96399125 TTTGGCGTCTCTGTATTAGACGGGG
66 TTTGGCATCTCTGTATTAGACGGGG
96399150 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAGCAGAT
96399171 ATCGCCTTCC
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
89 78 0.80
90 19 0.20
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.23
Consensus pattern (90 bp):
AGCAGATCAAAGATAGCAGATTTGGCATCCCTGTATTAGACAGGGAGCAAATCGAAGATAACAGA
TTTGGCATCTCTGTATTAGACGGGG
Found at i:96399140 original size:134 final size:136
Alignment explanation
Indices: 96398897--96399153 Score: 333
Period size: 134 Copynumber: 1.9 Consensus size: 136
96398887 GATCCAAGAT
* *
96398897 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGA-ATAGCAGATCTGACCTCCATGTGA
* *
96398962 TTACATCGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTTGACAGGGAGCAAATCGGA
65 TTACATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGGA
96399027 GATAACA
130 GATAACA
* * * * *
96399034 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAG-A-AGCAGATTTGGCGTCCCTGT-AT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAATAGCAGATCTGACCTCCATGTGAT
* * * * *
96399096 TAGA-CGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCA
66 TACATC--GAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACAGGGAGCA
96399154 GATCAAAGAT
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
132 1 0.01
133 4 0.04
134 60 0.58
135 1 0.01
137 38 0.37
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (136 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAATAGCAGATCTGACCTCCATGTGAT
TACATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGGAG
ATAACA
Found at i:96399554 original size:36 final size:35
Alignment explanation
Indices: 96399514--96399593 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 35
96399504 ATGGAAATAT
96399514 AATCTTCAATGATATGCAATATTAGATATGATATGC
1 AATCTT-AATGATATGCAATATTAGATATGATATGC
* *
96399550 AATCTTAGAT-ATGATACAATCTTAGATATGATATGC
1 AATCTTA-ATGAT-ATGCAATATTAGATATGATATGC
96399586 AATCTTAA
1 AATCTTAA
96399594 AGGATATGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
35 4 0.10
36 36 0.90
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (35 bp):
AATCTTAATGATATGCAATATTAGATATGATATGC
Found at i:96399560 original size:14 final size:15
Alignment explanation
Indices: 96399543--96399580 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
96399533 TATTAGATAT
96399543 GATATG-CAATCTTA
1 GATATGACAATCTTA
96399557 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
96399574 GATATGA
1 GATATGA
96399581 TATGCAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:96399601 original size:17 final size:19
Alignment explanation
Indices: 96399522--96399592 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
96399512 ATAATCTTCA
*
96399522 ATGATATGCAATATTAGAT
1 ATGATATGCAATCTTAGAT
96399541 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
96399560 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
96399577 ATGATATGCAATCTTA
1 ATGATATGCAATCTTA
96399593 AAGGATATGA
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
17 17 0.35
19 32 0.65
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:96399905 original size:17 final size:17
Alignment explanation
Indices: 96399883--96399917 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
96399873 ATGTTTCCCA
96399883 AATTTTTT-ATATATTTT
1 AATTTTTTAATA-ATTTT
96399900 AATTTTTTAATAATTTT
1 AATTTTTTAATAATTTT
96399917 A
1 A
96399918 GTATCATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATTTTTTAATAATTTT
Found at i:96403292 original size:15 final size:15
Alignment explanation
Indices: 96403272--96403302 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
96403262 ATCCCTTTGA
96403272 TTTTCTAACAAAATT
1 TTTTCTAACAAAATT
96403287 TTTTCTAACAAAATT
1 TTTTCTAACAAAATT
96403302 T
1 T
96403303 GGTCCCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTTCTAACAAAATT
Found at i:96409770 original size:19 final size:22
Alignment explanation
Indices: 96409729--96409772 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
96409719 ATTTTGATTG
*
96409729 ATTGAATTTATTTTTAATATCA
1 ATTGAATTTATTTTAAATATCA
96409751 ATTG-ATTT-TTTTAAAT-TCA
1 ATTGAATTTATTTTAAATATCA
96409770 ATT
1 ATT
96409773 CACTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 7 0.33
21 4 0.19
22 4 0.19
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
ATTGAATTTATTTTAAATATCA
Found at i:96423751 original size:44 final size:44
Alignment explanation
Indices: 96423703--96423805 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
96423693 ACATATTGGT
* *
96423703 GCATATCTTACAACACATTATAGCATATCA-ACTTTCATAACGAA
1 GCATATCTTATAACACATCATAGCATATCAGA-TTTCATAACGAA
* * * * **
96423747 GCATAACTTATAAGATATCATAGCATATTAGATTTCATATGGAA
1 GCATATCTTATAACACATCATAGCATATCAGATTTCATAACGAA
*
96423791 ACATATCTTATAACA
1 GCATATCTTATAACA
96423806 TAACATATCC
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
44 46 0.98
45 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (44 bp):
GCATATCTTATAACACATCATAGCATATCAGATTTCATAACGAA
Found at i:96429564 original size:22 final size:21
Alignment explanation
Indices: 96429525--96429565 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
96429515 CATCAAAAAT
96429525 TATTTTTTATTAACATTTATA
1 TATTTTTTATTAACATTTATA
96429546 TATTTTTATGATTAA-ATTTA
1 TATTTTT-T-ATTAACATTTA
96429566 AGTGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTTTTTATTAACATTTATA
Found at i:96432775 original size:22 final size:21
Alignment explanation
Indices: 96432740--96432815 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
96432730 AAAAGGTATC
* *
96432740 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
96432761 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
96432784 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
96432803 TGC-AATCATATCT
1 TACAAATCATATCT
96432816 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:96432832 original size:35 final size:37
Alignment explanation
Indices: 96432769--96432847 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
96432759 ATTACAAAAT
96432769 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
96432805 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
96432840 CATATCAT
1 CATATCAT
96432848 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:96432845 original size:14 final size:15
Alignment explanation
Indices: 96432790--96432845 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
96432780 AGATTGCATA
96432790 TCATATCTAAGATTG
1 TCATATCTAAGATTG
96432805 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
96432823 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
96432840 -CATATC
1 TCATATC
96432846 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:96432855 original size:17 final size:19
Alignment explanation
Indices: 96432776--96432847 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
96432766 AATCATATCT
96432776 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
96432795 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
96432813 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
96432830 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
96432848 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:96433225 original size:44 final size:45
Alignment explanation
Indices: 96433177--96433449 Score: 252
Period size: 45 Copynumber: 6.1 Consensus size: 45
96433167 GGAAGGCGAT
* *
96433177 ATCTGCTATCTTTGATCTGCT-CCCATCTAATACAGGGACGCCAA
1 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
96433221 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
** *
96433266 ATCTGCT-TCTTAAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *** * *
96433310 ATCTGTTATCTCCAATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * * * *
96433355 ATCTG-TCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGCT-ATCTTTGATCTGCTCCCCG-TCTAATACAGA-G-ACGCCAA
* * *
96433400 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGTGATGCCAA
1 ATCTGCTA--TCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
96433447 ATC
1 ATC
96433450 ATCTTGGATC
Statistics
Matches: 188, Mismatches: 29, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
43 6 0.03
44 66 0.35
45 86 0.46
46 1 0.01
47 19 0.10
48 5 0.03
49 5 0.03
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (45 bp):
ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:96433266 original size:45 final size:45
Alignment explanation
Indices: 96433177--96433375 Score: 258
Period size: 45 Copynumber: 4.5 Consensus size: 45
96433167 GGAAGGCGAT
* * *
96433177 ATCTGCTATCTTTGATCTGCT-CCCATCTAATACAGGGACGCCAA
1 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
96433221 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* ** *
96433266 ATCTGCT-TCTTAAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*** * *
96433310 ATCTGTTATCTCCAATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
96433355 ATCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTTGATCTGCT
96433376 TCGATGTAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
44 60 0.44
45 77 0.56
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:96433300 original size:89 final size:89
Alignment explanation
Indices: 96433177--96433359 Score: 260
Period size: 89 Copynumber: 2.1 Consensus size: 89
96433167 GGAAGGCGAT
** * ***
96433177 ATCTGCTATCTTTGATCTGCTCCCATCTAATACAGGGACGCCAAATCTGTTATCTTTGATCTGCT
1 ATCTGCTATCTTAAATCTGCTCCCATCTAATACAGAGACGCCAAATCTGTTATCTCCAATCTGCT
96433242 CCCCGTCTAATACAGAGACGCCAA
66 CCCCGTCTAATACAGAGACGCCAA
* * *
96433266 ATCTGCT-TCTTAAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCAATTTGC
1 ATCTGCTATCTTAAATCTGCT-CCCATCTAATACAGAGACGCCAAATCTGTTATCTCCAATCTGC
*
96433330 TCCCCGTCTAATACAGAGATGCCAA
65 TCCCCGTCTAATACAGAGACGCCAA
96433355 ATCTG
1 ATCTG
96433360 TCATCTTGGA
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
88 11 0.13
89 72 0.87
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.31
Consensus pattern (89 bp):
ATCTGCTATCTTAAATCTGCTCCCATCTAATACAGAGACGCCAAATCTGTTATCTCCAATCTGCT
CCCCGTCTAATACAGAGACGCCAA
Found at i:96433521 original size:78 final size:78
Alignment explanation
Indices: 96433389--96433683 Score: 421
Period size: 78 Copynumber: 3.8 Consensus size: 78
96433379 ATGTAAACAC
* *
96433389 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGTGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
96433454 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * *
96433467 ATGAAGGTCCA-ATATGTTATGTCTTTGATCTACTCCCCATCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATC
* *
96433531 TTGAATCTGCTTTA
65 TTGGATCTGCTTCA
* *
96433545 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTACTCCCCGTCTAATATAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
96433610 TGGATCTACTTCA
66 TGGATCTGCTTCA
* * * * **
96433623 ATGAAGGTCAGATCTGCTATGTCTTTGATCTTCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATC
96433684 TGTTTTTTCG
Statistics
Matches: 192, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
77 2 0.01
78 188 0.98
79 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:96434035 original size:364 final size:365
Alignment explanation
Indices: 96433300--96434193 Score: 1328
Period size: 364 Copynumber: 2.4 Consensus size: 365
96433290 GTCTAATACA
* * * * * * *
96433300 GAGATGCCAAATCTGTTATCTCCAATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATC
1 GAGATGCCAAATCTGTT-TCTTCGATTTGTTCTCTGAC-AGTACAGAGATGCCAAA----TCATC
* *
96433365 TTGGATCTGCTTC-GATGTAAACACATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGT
60 TTAGATCTGCTTCAG-TGTAAACACGTGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGT
* *
96433429 CTAATACAGTGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATATGTTATGTCTTTG
124 CTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATATGTTATGTCTTCG
* *
96433494 ATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTGAATCTGCTTTAATGAAGGTCAGATC
189 ATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTGAATCTGCTTCAACGAAGGTCAGATC
* *
96433559 TGCTGTGTCTTCGATCTACTCCCCGTCTAATATAGAGATGCCAAATCATCTTGGATCTACTTCAA
254 TGCTGTGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTACTTCAA
* * *
96433624 TGAAGGTCAGATCTGCTATGTCTTTGATCTTCTCTCCGTCGAATATG
319 TGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCATCAAATATG
*
96433671 GAGATGCCAAATCTGTTTTTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGAT
1 GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGAT
* *
96433736 CTGTTTCAGCGTAAACACGTGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATAC
66 CTGCTTCAGTGTAAACACGTGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATAC
* *
96433801 AGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCT
131 AGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATATGTTATGTCTTCGATCTACT
* * * *
96433866 -CCCGTCTAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAACGAAGGTCAGATCTGTTGTG
196 CCCCATCTAATACAGAGATGCCAAATCATCTTGAATCTGCTTCAACGAAGGTCAGATCTGCTGTG
* *
96433930 TCTTCGATCTACTCCCCGTCTAATACAGAGATGCTAAATCATCTTAGATCTGCTTCAATGAAGGT
261 TCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTACTTCAATGAAGGT
96433995 CAGATCTGCTATGTCTTCGATCTTCTCTCCATCAAATATG
326 CAGATCTGCTATGTCTTCGATCTTCTCTCCATCAAATATG
*
96434035 GAGATGCTAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGAT
1 GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGAT
* * * * ** **
96434100 CTGCTTCAGTGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCCATCTGCTCCTTGTC-AACGC
66 CTGCTTCAGTGTAAACACGTGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATAC
* *
96434164 A-AGGATGCCAAATCGTCTTGGATCTACTTC
131 AGA-GATGCCAAATCATCTTGGATCTGCTTC
96434194 GATGTGAAAA
Statistics
Matches: 478, Mismatches: 43, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
362 1 0.00
363 29 0.06
364 270 0.56
365 131 0.27
366 1 0.00
369 16 0.03
370 13 0.03
371 17 0.04
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (365 bp):
GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGAT
CTGCTTCAGTGTAAACACGTGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATAC
AGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATATGTTATGTCTTCGATCTACT
CCCCATCTAATACAGAGATGCCAAATCATCTTGAATCTGCTTCAACGAAGGTCAGATCTGCTGTG
TCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTACTTCAATGAAGGT
CAGATCTGCTATGTCTTCGATCTTCTCTCCATCAAATATG
Found at i:96434047 original size:78 final size:78
Alignment explanation
Indices: 96433755--96434017 Score: 431
Period size: 78 Copynumber: 3.4 Consensus size: 78
96433745 CGTAAACACG
96433755 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
96433820 GGATCTGCTTCAA
66 GGATCTGCTTCAA
* *
96433833 TGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCT-CCCGTCTAATATAGAGATGCCAAATCATCT
1 TGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
96433896 TGGATCTGCTTCAA
65 TGGATCTGCTTCAA
* * * * *
96433910 CGAAGGTCAGATCTGTTGTGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCTAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
*
96433975 AGATCTGCTTCAA
66 GGATCTGCTTCAA
96433988 TGAAGGTCAGATCTGCTATGTCTTCGATCT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCT
96434018 TCTCTCCATC
Statistics
Matches: 171, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
76 2 0.01
77 70 0.41
78 97 0.57
79 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (78 bp):
TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
GGATCTGCTTCAA
Found at i:96441654 original size:13 final size:14
Alignment explanation
Indices: 96441631--96441659 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
96441621 AAAAAAAAAG
96441631 ATCATAGTTTTCAA
1 ATCATAGTTTTCAA
96441645 ATCA-AGTTTTCAA
1 ATCATAGTTTTCAA
96441658 AT
1 AT
96441660 TTCGATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (14 bp):
ATCATAGTTTTCAA
Found at i:96442687 original size:22 final size:21
Alignment explanation
Indices: 96442652--96442746 Score: 74
Period size: 18 Copynumber: 4.7 Consensus size: 21
96442642 AAAAGGCATC
* *
96442652 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
96442673 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
96442696 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
96442715 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
96442733 TGCATATCATATCT
1 TACAAATCATATCT
96442747 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
18 17 0.27
19 17 0.27
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:96442695 original size:23 final size:22
Alignment explanation
Indices: 96442652--96442709 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
96442642 AAAAGGCATC
* *
96442652 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
96442673 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
96442696 TGCATATCATATCT
1 TACAAATCATATCT
96442710 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:96442712 original size:19 final size:19
Alignment explanation
Indices: 96442688--96442761 Score: 141
Period size: 19 Copynumber: 3.9 Consensus size: 19
96442678 AATCATATCT
96442688 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
96442707 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
96442725 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
96442744 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
96442762 TGAAGATTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.33
19 36 0.67
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:96442734 original size:37 final size:38
Alignment explanation
Indices: 96442681--96442761 Score: 141
Period size: 37 Copynumber: 2.2 Consensus size: 38
96442671 ATTACAAAAT
96442681 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
96442717 CA-ATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
96442754 CATATCAT
1 CATATCAT
96442762 TGAAGATTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
37 31 0.74
38 5 0.12
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:96442781 original size:37 final size:37
Alignment explanation
Indices: 96442691--96442770 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
96442681 CATATCTTCT
* *
96442691 AAGATTGCATATCATATCTAAGATTGCAATCATATCT
1 AAGATTACATATCATATCTAAGATTGCAATCATATCG
*
96442728 AAGATTGCATATCATATCTAAGATTGCATATCAT-T-G
1 AAGATTACATATCATATCTAAGATTGCA-ATCATATCG
96442764 AAGATTA
1 AAGATTA
96442771 TATTTCCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
36 6 0.15
37 29 0.73
38 5 0.12
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (37 bp):
AAGATTACATATCATATCTAAGATTGCAATCATATCG
Found at i:96444763 original size:16 final size:16
Alignment explanation
Indices: 96444732--96444762 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
96444722 CCTATAAGGG
96444732 TGTATAATATTAAAAA
1 TGTATAATATTAAAAA
96444748 TGTA-AATATTAAAAA
1 TGTATAATATTAAAAA
96444763 AATGACACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
TGTATAATATTAAAAA
Found at i:96444901 original size:7 final size:8
Alignment explanation
Indices: 96444884--96444911 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
96444874 TATAAAAAGC
96444884 TTTTTCTT
1 TTTTTCTT
96444892 TTTTTCTT
1 TTTTTCTT
96444900 TTTTTCTT
1 TTTTTCTT
96444908 TTTT
1 TTTT
96444912 GTGGCATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTCTT
Found at i:96445815 original size:17 final size:17
Alignment explanation
Indices: 96445775--96445817 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
96445765 TTCCTCTTCA
* *
96445775 TCCTCTATTTATTTTCT
1 TCCTCTTTTTATTTTCC
*
96445792 TCCTCTTTTTCTTTTCC
1 TCCTCTTTTTATTTTCC
96445809 TCCTCTTTT
1 TCCTCTTTT
96445818 CTCTCATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.65
Consensus pattern (17 bp):
TCCTCTTTTTATTTTCC
Found at i:96449110 original size:18 final size:18
Alignment explanation
Indices: 96449087--96449122 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
96449077 GATATGATAC
96449087 TAAAAT-TATTAAAAAAAT
1 TAAAATATA-TAAAAAAAT
96449105 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
96449123 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:96449411 original size:22 final size:21
Alignment explanation
Indices: 96449376--96449451 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
96449366 AAAAGGTATC
* *
96449376 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
96449397 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
96449420 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
96449439 TGC-AATCATATCT
1 TACAAATCATATCT
96449452 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:96449436 original size:19 final size:19
Alignment explanation
Indices: 96449412--96449519 Score: 181
Period size: 19 Copynumber: 5.9 Consensus size: 19
96449402 AATCATATCT
96449412 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
96449431 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
96449449 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
96449466 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
96449483 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
96449502 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
96449520 TAAAGATTAT
Statistics
Matches: 86, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 33 0.38
18 16 0.19
19 37 0.43
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:96449527 original size:17 final size:19
Alignment explanation
Indices: 96449415--96449527 Score: 132
Period size: 17 Copynumber: 6.3 Consensus size: 19
96449405 CATATCTTCT
*
96449415 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCA
*
96449434 AAGATTGCA-ATCATATCT
1 AAGATTGCATATCATATCA
*
96449452 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCA
*
96449469 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCA
*
96449486 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCA
96449505 AAGATTGCATATCAT-T-A
1 AAGATTGCATATCATATCA
96449522 AAGATT
1 AAGATT
96449528 ATATTTCCAT
Statistics
Matches: 90, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
17 39 0.43
18 17 0.19
19 34 0.38
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (19 bp):
AAGATTGCATATCATATCA
Found at i:96449988 original size:44 final size:45
Alignment explanation
Indices: 96449872--96450071 Score: 235
Period size: 45 Copynumber: 4.5 Consensus size: 45
96449862 AGAAGGCGAT
* * *
96449872 ATCTGCTATCTTTC-ATCTGCTCCCCATCTAATACAGAGACACTAA
1 ATCTGCTATC-TTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
96449917 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
96449962 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATATAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * *
96450006 ATCTGTTATC-TCTGATTTGCTCCCTGTCTATTACAGAGATGCCAA
1 ATCTGCTATCTTC-GATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
96450051 ATCTGTTATCTTGGATCTGCT
1 ATCTGCTATCTTCGATCTGCT
96450072 TTGATGTAAA
Statistics
Matches: 135, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
44 45 0.33
45 89 0.66
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:96449993 original size:89 final size:90
Alignment explanation
Indices: 96449872--96450071 Score: 253
Period size: 89 Copynumber: 2.2 Consensus size: 90
96449862 AGAAGGCGAT
*
96449872 ATCTGCTATCTTTCATCTGCTCCCCATCTAATACAGAGACACTAAATCTGTTATCT-TCGATCTG
1 ATCTGCTATCTTTCATCTGCTCCCCATCTAATACAGAGACACCAAATCTGTTATCTCT-GATCTG
96449936 CTCCCCGTCTAATACAGAGACGCCAA
65 CTCCCCGTCTAATACAGAGACGCCAA
* * ** *
96449962 ATCTGCT-TC-TTCAATCTGCTCCCCGTCTAATATAGAGATGCCAAATCTGTTATCTCTGATTTG
1 ATCTGCTATCTTTC-ATCTGCTCCCCATCTAATACAGAGACACCAAATCTGTTATCTCTGATCTG
* * *
96450025 CTCCCTGTCTATTACAGAGATGCCAA
65 CTCCCCGTCTAATACAGAGACGCCAA
* **
96450051 ATCTGTTATCTTGGATCTGCT
1 ATCTGCTATCTTTCATCTGCT
96450072 TTGATGTAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
88 3 0.03
89 73 0.78
90 17 0.18
91 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (90 bp):
ATCTGCTATCTTTCATCTGCTCCCCATCTAATACAGAGACACCAAATCTGTTATCTCTGATCTGC
TCCCCGTCTAATACAGAGACGCCAA
Found at i:96450214 original size:78 final size:77
Alignment explanation
Indices: 96450085--96450534 Score: 607
Period size: 78 Copynumber: 5.8 Consensus size: 77
96450075 ATGTAAACAC
* * * *
96450085 ATGAAGGTCAAATCTGCTATGTCTTCAATCTGCTCCCCTTCTAATATAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCT-CCCGTCTAATACAGAGATGCCAAATCATCT
96450150 TGGATCTGCTTCA
65 TGGATCTGCTTCA
* * *
96450163 ATGAAGGTCCA-ATCTGTTATGTCTTTGATTTGCTCCCTGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCC-GTCTAATACAGAGATGCCAAATCATC
96450227 TTGGATCTGCTTCA
64 TTGGATCTGCTTCA
* * * *
96450241 ATGAAGGTCAGATCTACTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATTCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCT-CCCGTCTAATACAGAGATGCCAAATCATCT
* * *
96450306 TAGTTCTACTTCA
65 TGGATCTGCTTCA
* **
96450319 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC-CCGTCTAATACAGAGATGCCAAATCATCT
96450384 TGGATCTGCTTCA
65 TGGATCTGCTTCA
*
96450397 ATGAAGGTCCA-ATCTGCTGTGTCTTCGATCTGCTCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCGTCTAATACAGAGATGCCAAATCATCT
96450461 TGGATCTGCTTCA
65 TGGATCTGCTTCA
* * * * **
96450474 ATAAAGGTCAGATCTACTATGTCTTCGATCTGCCCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC-CCGTCTAATACAGAGATGCCAAATC
96450535 TGTTTCTTCG
Statistics
Matches: 329, Mismatches: 35, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
76 2 0.01
77 73 0.22
78 247 0.75
79 7 0.02
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (77 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCGTCTAATACAGAGATGCCAAATCATCTT
GGATCTGCTTCA
Found at i:96450875 original size:220 final size:220
Alignment explanation
Indices: 96450477--96451065 Score: 964
Period size: 220 Copynumber: 2.7 Consensus size: 220
96450467 TGCTTCAATA
* * *
96450477 AAGGTCAGATCTACTATGTCTTCGATCTGCCCTCCGTCGAATATGGAGATGCCAAATCTGTTTCT
1 AAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCT
*
96450542 TCGATTTGTTCTCTGACAGTACAGAGATGCCAAAACATCTTAGATCTGCTTCAGCGTAAACACGT
66 TCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGT
* * * * * *
96450607 GAAAGCCAAATATGCTATGTCTTTGATCTGCTCCTTGTAAATGCAAGGATTCCAAATCATCTTGG
131 GAAAGGCAAATCTGCTATGTCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAATCATCTTGG
*
96450672 ATTTACTTCGATGTGAAAACATCCG
196 ATCTACTTCGATGTGAAAACATCCG
*
96450697 AAGGTTAGATCTGCTATGTCTTCAATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCT
1 AAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCT
*
96450762 TCGATTTGTTCTCTGACAGTACAGAGATACCAAATCATCTTAGATCTGCTTCAGCGTAAACACGT
66 TCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGT
*
96450827 GAAAGGCAAATCTGCTATGTCTTCGATCTACTCCTTGTCAACGCAAGGATGCCAAATCATCTTGG
131 GAAAGGCAAATCTGCTATGTCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAATCATCTTGG
96450892 ATCTACTTCGATGTGAAAACATCCG
196 ATCTACTTCGATGTGAAAACATCCG
*
96450917 AAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATATGTTTCT
1 AAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCT
* * ** * * *
96450982 TTGATTTGTTCTCTGACAATACAGAGATGTTAAATCATCTTGGATCCGCTTCAGCGTAAACACCT
66 TCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGT
96451047 G-AAGGTCAAATCTGCTATG
131 GAAAGG-CAAATCTGCTATG
96451066 CTTTAGCCTG
Statistics
Matches: 344, Mismatches: 24, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
219 4 0.01
220 340 0.99
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (220 bp):
AAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCT
TCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGT
GAAAGGCAAATCTGCTATGTCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAATCATCTTGG
ATCTACTTCGATGTGAAAACATCCG
Found at i:96457576 original size:17 final size:18
Alignment explanation
Indices: 96457554--96457588 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
96457544 GATATGATAC
*
96457554 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
96457571 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
96457589 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:96457887 original size:23 final size:21
Alignment explanation
Indices: 96457842--96457917 Score: 77
Period size: 22 Copynumber: 3.7 Consensus size: 21
96457832 AAAAGGTATC
* *
96457842 TACAAATTAAATCTTTAAGAT
1 TACAAATCATATCTTTAAGAT
96457863 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTT-TAAGAT
*
96457886 TACATATCATATC--TAAGAT
1 TACAAATCATATCTTTAAGAT
*
96457905 TGC-AATCATATCT
1 TACAAATCATATCT
96457918 AAGATTGTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
18 8 0.17
19 8 0.17
21 3 0.06
22 19 0.40
23 9 0.19
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTTTAAGAT
Found at i:96457902 original size:19 final size:19
Alignment explanation
Indices: 96457878--96457968 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
96457868 AATCATATCT
*
96457878 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
96457897 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
96457915 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
96457932 TCTAAGATTGCATACCATA
1 TCTAAGATTGCATATCATA
96457951 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
96457969 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:96457933 original size:35 final size:36
Alignment explanation
Indices: 96457890--96457960 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
96457880 TAAGATTACA
*
96457890 TATCATATCTAAGATTGCA-ATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATACCATATCTAAGATTG
96457925 TATCATATCTAAGATTGCATACCATATCTAAGATTG
1 TATCATATCTAAGATTGCATACCATATCTAAGATTG
96457961 CATATCATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 19 0.56
36 15 0.44
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATACCATATCTAAGATTG
Found at i:96458611 original size:21 final size:21
Alignment explanation
Indices: 96458587--96458638 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
96458577 CGAATCTTCG
*
96458587 ACGTTGCAACATCTTTCCATA
1 ACGTCGCAACATCTTTCCATA
*
96458608 ACGTCGCAACATCTTTCCATG
1 ACGTCGCAACATCTTTCCATA
96458629 ACGTCGCAAC
1 ACGTCGCAAC
96458639 CTTACATGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (21 bp):
ACGTCGCAACATCTTTCCATA
Found at i:96468189 original size:13 final size:13
Alignment explanation
Indices: 96468171--96468215 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
96468161 ATTTGCTTTC
96468171 AATTAAAATTATA
1 AATTAAAATTATA
*
96468184 AATTAAAA-AATA
1 AATTAAAATTATA
* *
96468196 ATTTAAAATTATC
1 AATTAAAATTATA
96468209 AATTAAA
1 AATTAAA
96468216 TTTTATTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAAAATTATA
Found at i:96468686 original size:19 final size:18
Alignment explanation
Indices: 96468641--96468691 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
96468631 CCAAGCGCGG
*
96468641 TTCTTAATAA-TTTTTAA
1 TTCTTATTAATTTTTTAA
* *
96468658 TTTTTCTTAATTTTTTATA
1 TTCTTATTAATTTTTTA-A
96468677 TTCTTATTAATTTTT
1 TTCTTATTAATTTTT
96468692 AAATAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 7 0.26
18 6 0.22
19 14 0.52
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TTCTTATTAATTTTTTAA
Found at i:96485403 original size:4 final size:4
Alignment explanation
Indices: 96485394--96485422 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
96485384 TTCTGCGGTC
96485394 TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
96485423 TAGCAGTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:96485922 original size:58 final size:60
Alignment explanation
Indices: 96485802--96485924 Score: 146
Period size: 58 Copynumber: 2.1 Consensus size: 60
96485792 CAATCTTGAT
* * * *
96485802 TAGTTGGATGACTAAATTAGAAGAATTGATAATTGGGTGACCAAAAAATAAAAGGGACAA
1 TAGTTGGATGACTAAATTAGAAGAAATGATAATTGAGTGACCAAAAAAGAAAAAGGACAA
* *
96485862 TAGTTGGGTGA-TCAAATTA-AA-AAATGATAATTGAGTGACCAAAACAGAAAATAGGA-AA
1 TAGTTGGATGACT-AAATTAGAAGAAATGATAATTGAGTGACCAAAAAAGAAAA-AGGACAA
96485920 TAGTT
1 TAGTT
96485925 AAGTGACTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
58 33 0.60
59 6 0.11
60 16 0.29
ACGTcount: A:0.47, C:0.07, G:0.22, T:0.24
Consensus pattern (60 bp):
TAGTTGGATGACTAAATTAGAAGAAATGATAATTGAGTGACCAAAAAAGAAAAAGGACAA
Found at i:96489074 original size:19 final size:19
Alignment explanation
Indices: 96489031--96489094 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
96489021 AGTAAATTCT
*
96489031 TTAAAAACTATAAGAATCATA
1 TTAAAAATTATAA-AAT-ATA
96489052 --AAAAATTATAAAATATA
1 TTAAAAATTATAAAATATA
* *
96489069 TTAAAAATAAAAAAATAT-
1 TTAAAAATTATAAAATATA
96489087 TTAAAAAT
1 TTAAAAAT
96489095 ATTAAAAACC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.08
18 11 0.29
19 24 0.63
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (19 bp):
TTAAAAATTATAAAATATA
Found at i:96489081 original size:27 final size:27
Alignment explanation
Indices: 96489051--96489102 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
96489041 TAAGAATCAT
96489051 AAAAAAT-TATAAAATATATTAAAAATA
1 AAAAAATATATAAAA-ATATTAAAAATA
*
96489078 AAAAAATATTTAAAAATATTAAAAA
1 AAAAAATATATAAAAATATTAAAAA
96489103 CCATTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (27 bp):
AAAAAATATATAAAAATATTAAAAATA
Found at i:96489101 original size:18 final size:19
Alignment explanation
Indices: 96489052--96489101 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
96489042 AAGAATCATA
*
96489052 AAAAATTATAAAATATATT
1 AAAAATAATAAAATATATT
*
96489071 AAAAATAAAAAAATAT-TT
1 AAAAATAATAAAATATATT
*
96489089 AAAAATATTAAAA
1 AAAAATAATAAAA
96489102 ACCATTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAATAATAAAATATATT
Found at i:96490114 original size:43 final size:43
Alignment explanation
Indices: 96490055--96490140 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
96490045 ATGTGTCGTA
*
96490055 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
1 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAAGTGAT
96490098 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAAGTGAT
1 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAAGTGAT
96490141 CCTTTGAGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (43 bp):
ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAAGTGAT
Found at i:96493729 original size:18 final size:18
Alignment explanation
Indices: 96493706--96493761 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 18
96493696 TTTAAAAATA
96493706 ATAAAAATTTAATTATTT
1 ATAAAAATTTAATTATTT
96493724 ATAAAACTATTTAAATTTATTT
1 ATAAAA--ATTT-AA-TTATTT
* *
96493746 ATAAATATTAAATTAT
1 ATAAAAATTTAATTAT
96493762 AAATTACATT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 10 0.31
19 2 0.06
20 7 0.22
21 2 0.06
22 11 0.34
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
ATAAAAATTTAATTATTT
Found at i:96509462 original size:17 final size:17
Alignment explanation
Indices: 96509437--96509500 Score: 60
Period size: 17 Copynumber: 3.7 Consensus size: 17
96509427 AAAAACATAA
*
96509437 TTATGAAATTATGTATT
1 TTATTAAATTATGTATT
96509454 TTATTAAATTA--TATT
1 TTATTAAATTATGTATT
* *
96509469 TAATAATAATTTTATGTATT
1 T--TATTAA-ATTATGTATT
96509489 TTATTAAATTAT
1 TTATTAAATTAT
96509501 ATTTAATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
15 5 0.14
17 19 0.51
18 8 0.22
20 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TTATTAAATTATGTATT
Found at i:96509484 original size:35 final size:35
Alignment explanation
Indices: 96509445--96509514 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
96509435 AATTATGAAA
96509445 TTATGTATTTTATTAAATTATATTTAATAATAATT
1 TTATGTATTTTATTAAATTATATTTAATAATAATT
96509480 TTATGTATTTTATTAAATTATATTTAATAATAATT
1 TTATGTATTTTATTAAATTATATTTAATAATAATT
96509515 ATATTAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (35 bp):
TTATGTATTTTATTAAATTATATTTAATAATAATT
Found at i:96510105 original size:21 final size:21
Alignment explanation
Indices: 96510078--96510152 Score: 132
Period size: 21 Copynumber: 3.6 Consensus size: 21
96510068 AACCAGGTCT
*
96510078 TGGAGGTGGAGCAGCATACTG
1 TGGAGGTGGAGCAGCATATTG
*
96510099 CGGAGGTGGAGCAGCATATTG
1 TGGAGGTGGAGCAGCATATTG
96510120 TGGAGGTGGAGCAGCATATTG
1 TGGAGGTGGAGCAGCATATTG
96510141 TGGAGGTGGAGC
1 TGGAGGTGGAGC
96510153 CATGACTGGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.23, C:0.12, G:0.45, T:0.20
Consensus pattern (21 bp):
TGGAGGTGGAGCAGCATATTG
Found at i:96510243 original size:69 final size:69
Alignment explanation
Indices: 96510157--96510295 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
96510147 TGGAGCCATG
96510157 ACTGGAGGACCTTCATAATGACCTTGAGCAGGGTAAGGATAAGCATACTTGGGATCACTCATTTT
1 ACTGGAGGACCTTCATAATGACCTTGAGCAGGGTAAGGATAAGCATACTTGGGATCACTCATTTT
96510222 TGGA
66 TGGA
96510226 ACTGGAGGACCTTCATAATGACCTTGAGCAGGGTAAGGATAAGCATACTTGGGATCACTCATTTT
1 ACTGGAGGACCTTCATAATGACCTTGAGCAGGGTAAGGATAAGCATACTTGGGATCACTCATTTT
96510291 TGGA
66 TGGA
96510295 A
1 A
96510296 ACTAAAACTC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (69 bp):
ACTGGAGGACCTTCATAATGACCTTGAGCAGGGTAAGGATAAGCATACTTGGGATCACTCATTTT
TGGA
Found at i:96511472 original size:6 final size:6
Alignment explanation
Indices: 96511461--96511496 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
96511451 ACAATGCCTT
96511461 TGGCTA TGGCTA TGGCTA TGGCTA TGGCTA TGGCTA
1 TGGCTA TGGCTA TGGCTA TGGCTA TGGCTA TGGCTA
96511497 CATTAGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (6 bp):
TGGCTA
Found at i:96514715 original size:9 final size:9
Alignment explanation
Indices: 96514701--96514725 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
96514691 TATAAGAGCT
96514701 GAAGAAGGA
1 GAAGAAGGA
96514710 GAAGAAGGA
1 GAAGAAGGA
96514719 GAAGAAG
1 GAAGAAG
96514726 ACGGAATCTT
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:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (9 bp):
GAAGAAGGA
Found at i:96516873 original size:21 final size:21
Alignment explanation
Indices: 96516848--96516917 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
96516838 AGTGATGGCA
*
96516848 CCACCTCCACATTATGCTGCT
1 CCACCTCCACAGTATGCTGCT
*
96516869 GCACCTCCACAGTATGCTGCT
1 CCACCTCCACAGTATGCTGCT
*
96516890 CCACCTCCACAGAATGCTGCT
1 CCACCTCCACAGTATGCTGCT
*
96516911 CCGCCTC
1 CCACCTC
96516918 TAAGGCCTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.19, C:0.44, G:0.14, T:0.23
Consensus pattern (21 bp):
CCACCTCCACAGTATGCTGCT
Found at i:96518103 original size:3 final size:3
Alignment explanation
Indices: 96518095--96518338 Score: 280
Period size: 3 Copynumber: 81.7 Consensus size: 3
96518085 TTAATTCATT
* * * *
96518095 TTA TTA TTA TT- TTA CTA TTA TTTA TTA TCA TCA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
96518140 TTA TTA TT- TTT TTA CTA TTA CTA TTA TTT TCTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
96518185 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * **
96518233 TTA TTA TT- TTG CTA TTA TTA TTA TTA TTG TTA TTA TTA CTA TTA CGA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
96518280 TT- TCTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
96518325 TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TT
96518339 TTTTAAACCA
Statistics
Matches: 204, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
2 7 0.03
3 191 0.94
4 6 0.03
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:96519025 original size:157 final size:157
Alignment explanation
Indices: 96518739--96519060 Score: 644
Period size: 157 Copynumber: 2.1 Consensus size: 157
96518729 CCTAACTTAT
96518739 GGGGTTTCGATTTGCTCGATAAATCCAAACCAAACAAACTTTTTAAAAAATTTTAATATTCTCGG
1 GGGGTTTCGATTTGCTCGATAAATCCAAACCAAACAAACTTTTTAAAAAATTTTAATATTCTCGG
96518804 GAATTAGAAAAACATCGTGTTCTAACTTACGGAATATGATTTCTTTCTAAAACCGAGATAGTCAA
66 GAATTAGAAAAACATCGTGTTCTAACTTACGGAATATGATTTCTTTCTAAAACCGAGATAGTCAA
96518869 ATTTCTTTCAAAATAAATAAAATTTTC
131 ATTTCTTTCAAAATAAATAAAATTTTC
96518896 GGGGTTTCGATTTGCTCGATAAATCCAAACCAAACAAACTTTTTAAAAAATTTTAATATTCTCGG
1 GGGGTTTCGATTTGCTCGATAAATCCAAACCAAACAAACTTTTTAAAAAATTTTAATATTCTCGG
96518961 GAATTAGAAAAACATCGTGTTCTAACTTACGGAATATGATTTCTTTCTAAAACCGAGATAGTCAA
66 GAATTAGAAAAACATCGTGTTCTAACTTACGGAATATGATTTCTTTCTAAAACCGAGATAGTCAA
96519026 ATTTCTTTCAAAATAAATAAAATTTTC
131 ATTTCTTTCAAAATAAATAAAATTTTC
96519053 GGGGTTTC
1 GGGGTTTC
96519061 TTTTCATTTC
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 165 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.34
Consensus pattern (157 bp):
GGGGTTTCGATTTGCTCGATAAATCCAAACCAAACAAACTTTTTAAAAAATTTTAATATTCTCGG
GAATTAGAAAAACATCGTGTTCTAACTTACGGAATATGATTTCTTTCTAAAACCGAGATAGTCAA
ATTTCTTTCAAAATAAATAAAATTTTC
Found at i:96538578 original size:2 final size:2
Alignment explanation
Indices: 96538571--96538598 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
96538561 GTAGCTAAAT
96538571 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96538599 CATAAACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.