Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 303 of 343
Found at i:98808841 original size:21 final size:21
Alignment explanation
Indices: 98808793--98808831 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
98808783 GAAGAAACTC
98808793 AAGAAA-AA-AGGAAGAAAAG
1 AAGAAAGAAGAGGAAGAAAAG
98808812 AAGAAAGAAGAGGAAGAAAA
1 AAGAAAGAAGAGGAAGAAAA
98808832 CGTGAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 10 0.56
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (21 bp):
AAGAAAGAAGAGGAAGAAAAG
Found at i:98809747 original size:27 final size:27
Alignment explanation
Indices: 98809717--98809768 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
98809707 CTTATTTAAA
**
98809717 TTTTTTAGTGATTTTATTAAAAATAAT
1 TTTTTTAAAGATTTTATTAAAAATAAT
98809744 TTTTTTAAAGATTTTATTAAAAATA
1 TTTTTTAAAGATTTTATTAAAAATA
98809769 TAAAAAGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (27 bp):
TTTTTTAAAGATTTTATTAAAAATAAT
Found at i:98810563 original size:21 final size:21
Alignment explanation
Indices: 98810537--98810579 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
98810527 GGTTCGCTGT
*
98810537 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
98810558 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
98810579 A
1 A
98810580 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:98810579 original size:16 final size:16
Alignment explanation
Indices: 98810560--98810592 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
98810550 TGTATTGGAT
*
98810560 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
98810576 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
98810592 T
1 T
98810593 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:98810637 original size:45 final size:44
Alignment explanation
Indices: 98810571--98810665 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
98810561 GGATTAGAGG
* *
98810571 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
98810616 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
98810660 TGTAAT
1 TGTAAT
98810666 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:98810848 original size:18 final size:17
Alignment explanation
Indices: 98810827--98810861 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
98810817 TTATTATTTA
*
98810827 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
98810845 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
98810862 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:98810855 original size:28 final size:27
Alignment explanation
Indices: 98810785--98810857 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
98810775 TTTATTATCA
*
98810785 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
98810813 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
98810840 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
98810858 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:98810974 original size:144 final size:147
Alignment explanation
Indices: 98810746--98811017 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
98810736 ATGATTATTG
98810746 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
98810811 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
98810876 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
98810895 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
98810957 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
98811018 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:98810992 original size:18 final size:17
Alignment explanation
Indices: 98810971--98811005 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
98810961 TTATTATTAA
*
98810971 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
98810989 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
98811006 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:98811080 original size:144 final size:142
Alignment explanation
Indices: 98810758--98811147 Score: 393
Period size: 144 Copynumber: 2.8 Consensus size: 142
98810748 ATTGTTATTT
98810758 AAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTA
1 AAATTTTAATAAGATTA---A-TATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTA
* *
98810823 TTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTT
62 TTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA--AGAAATTTGTTA
* ** ***
98810888 TGGTAAATTATTTTATTT
125 TGGTAAATTACTCAAACC
*
98810906 AAATTTTAATAAGATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAA
1 AAATTTTAATAAGATTAATATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTATTAA
*
98810971 ATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A-ATATTCT-TATAT-G-
66 ATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAAGAAATT-TGT-TATGGT
*
98811031 AATTTACTCAAACC
129 AAATTACTCAAACC
* *** *
98811045 ATAATTATTATTAA-A-T-ATGAT--ACTGT-AA-AATATAA--A-A--T-AACATAATTATTAT
1 A-AATT-TTAATAAGATTAAT-ATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTAT
* *
98811097 TAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
63 TAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
98811148 TATTCTTATA
Statistics
Matches: 218, Mismatches: 18, Indels: 30
0.82 0.07 0.11
Matches are distributed among these distances:
129 61 0.28
130 2 0.01
132 1 0.00
133 1 0.00
135 6 0.03
136 2 0.01
137 2 0.01
138 2 0.01
139 11 0.05
140 11 0.05
141 10 0.05
144 91 0.42
145 1 0.00
148 17 0.08
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (142 bp):
AAATTTTAATAAGATTAATATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTATTAA
ATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAAGAAATTTGTTATGGTAA
ATTACTCAAACC
Found at i:98811092 original size:129 final size:130
Alignment explanation
Indices: 98810954--98811187 Score: 425
Period size: 129 Copynumber: 1.8 Consensus size: 130
98810944 ATCATATTTA
* *
98810954 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
98811019 TATTCTTATATGAATTTACTCAAACCATAAT-TATTATTAAATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATTAAATATGATACTGTAAAATATAAAAT
98811083 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
98811148 TATTCTTATATGAATTTACTCAAATCATAATATATGATTA
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATTA
98811188 TAACTAATAT
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
129 93 0.93
130 7 0.07
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (130 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATTAAATATGATACTGTAAAATATAAAAT
Found at i:98811121 original size:18 final size:17
Alignment explanation
Indices: 98811100--98811134 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
98811090 TTATTATTAA
98811100 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
98811118 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
98811135 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:98811197 original size:17 final size:16
Alignment explanation
Indices: 98811175--98811221 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
98811165 ACTCAAATCA
98811175 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
98811192 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
98811206 TAAATATATGATTTAA
1 T-AATATATGATTTAA
98811222 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:98811222 original size:17 final size:17
Alignment explanation
Indices: 98811194--98811227 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
98811184 ATTATAACTA
*
98811194 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
98811211 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
98811228 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:98811370 original size:93 final size:91
Alignment explanation
Indices: 98811260--98811453 Score: 284
Period size: 92 Copynumber: 2.1 Consensus size: 91
98811250 GATTATAGTT
* *
98811260 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTA-ATATAATTAT-ATAATAATATATAATTTC
* *
98811323 ATAAAATTCTTGATAATAAAAATTTTCTTA
63 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
98811353 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAGTGATATATAATTTCATA
1 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
98811418 AAATTCTTAATAATAAAATGTTCTTA
66 AAATTCTTAATAATAAAATGTTCTTA
98811444 TATGAATTTA
1 TATGAATTTA
98811454 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 21 0.23
92 40 0.43
93 29 0.31
94 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
AAATTCTTAATAATAAAATGTTCTTA
Found at i:98812866 original size:11 final size:11
Alignment explanation
Indices: 98812852--98812878 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
98812842 AAAAATCAAT
98812852 ACAAAAGTTTC
1 ACAAAAGTTTC
98812863 ACAAAAGTTTC
1 ACAAAAGTTTC
98812874 ACAAA
1 ACAAA
98812879 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:98815081 original size:15 final size:15
Alignment explanation
Indices: 98815061--98815091 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
98815051 ATATTATGTA
98815061 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
98815076 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
98815091 T
1 T
98815092 TGAAGGTTGG
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:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATTGAGGTAAAAT
Found at i:98826007 original size:12 final size:12
Alignment explanation
Indices: 98825990--98826015 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
98825980 GATCTCTTGA
98825990 TAACACACAAGC
1 TAACACACAAGC
98826002 TAACACACAAGC
1 TAACACACAAGC
98826014 TA
1 TA
98826016 TGCCAATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.31, G:0.08, T:0.12
Consensus pattern (12 bp):
TAACACACAAGC
Found at i:98833066 original size:69 final size:69
Alignment explanation
Indices: 98832955--98833093 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
98832945 CAAGACTCTA
*
98832955 TCAGCCCTACCACCACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
98833020 CCTG
66 CCTG
98833024 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
98833089 CCTG
66 CCTG
98833093 T
1 T
98833094 TTTTCCTATC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (69 bp):
TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
CCTG
Found at i:98834077 original size:52 final size:52
Alignment explanation
Indices: 98833999--98834134 Score: 227
Period size: 52 Copynumber: 2.6 Consensus size: 52
98833989 ATCAGACCTT
* * * *
98833999 GAAAAGATCAATAAAACTAAGGCCTCTTTTTGAGTCCATCCATGTTTTCTTA
1 GAAAAGACCAATAAAACCAAGGCCTCTTTTTGAGTCCACCCAAGTTTTCTTA
*
98834051 GAAAAGACCAATAAAACCAAGGCCTCTTTCTGAGTCCACCCAAGTTTTCTTA
1 GAAAAGACCAATAAAACCAAGGCCTCTTTTTGAGTCCACCCAAGTTTTCTTA
98834103 GAAAAGACCAATAAAACCAAGGCCTCTTTTTG
1 GAAAAGACCAATAAAACCAAGGCCTCTTTTTG
98834135 GTTCCATGTT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (52 bp):
GAAAAGACCAATAAAACCAAGGCCTCTTTTTGAGTCCACCCAAGTTTTCTTA
Found at i:98847686 original size:12 final size:11
Alignment explanation
Indices: 98847664--98847732 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 11
98847654 GTACACATTA
98847664 TTTATATTATT
1 TTTATATTATT
98847675 TTTATGATTATT
1 TTTAT-ATTATT
98847687 ATTGTAT-TTATT
1 -TT-TATATTATT
*
98847699 TTTACTACTATT
1 TTTA-TATTATT
*
98847711 ATTATATTTATT
1 TTTATA-TTATT
*
98847723 ATTAGTATTA
1 TTTA-TATTA
98847733 GTATTATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
10 2 0.04
11 10 0.21
12 29 0.60
13 4 0.08
14 3 0.06
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (11 bp):
TTTATATTATT
Found at i:98847719 original size:24 final size:23
Alignment explanation
Indices: 98847660--98847740 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 23
98847650 TCATGTACAC
98847660 ATTATT-TATATTATTTTTATGATT
1 ATTATTATAT-TTATTTTTAT-ATT
* *
98847684 ATTATTGTATTTATTTTTACTACT
1 ATTATTATATTTATTTTTA-TATT
*
98847708 ATTATTATATTTATTATTAGTATT
1 ATTATTATATTTATTTTTA-TATT
*
98847732 AGTATTATA
1 ATTATTATA
98847741 ATTACTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 45 0.92
25 4 0.08
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (23 bp):
ATTATTATATTTATTTTTATATT
Found at i:98848002 original size:15 final size:17
Alignment explanation
Indices: 98847952--98848014 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 17
98847942 CCATATTATG
* *
98847952 TATATATTTTATATATTA
1 TATATATATTATAT-TTT
*
98847970 TATATATATATGTATTTT
1 TATATATAT-TATATTTT
98847988 T-TA-ATATTATATTTT
1 TATATATATTATATTTT
98848003 TATATATATTAT
1 TATATATATTAT
98848015 GTATATATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 8 0.21
16 6 0.16
17 9 0.24
18 11 0.29
19 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
TATATATATTATATTTT
Found at i:98848045 original size:25 final size:23
Alignment explanation
Indices: 98847995--98848056 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 23
98847985 TTTTTAATAT
*
98847995 TATATTTTTATATATATTATGTA
1 TATATTTTTATATACATTATGTA
98848018 TATATTTTTAATATCACATTAT-TCA
1 TATATTTTT-ATAT-ACATTATGT-A
98848043 TATATTTTTTATAT
1 TATA-TTTTTATAT
98848057 TATCCCATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
23 9 0.26
24 5 0.15
25 15 0.44
26 5 0.15
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (23 bp):
TATATTTTTATATACATTATGTA
Found at i:98848047 original size:40 final size:35
Alignment explanation
Indices: 98847965--98848047 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 35
98847955 ATATTTTATA
* *
98847965 TATTATATATATATATGTATTTTTTAATATTATAT
1 TATTATATATATATATGTATTTTTTAATATCACAT
*
98848000 TTTTATATATAT-TATGTATATATTTTTAATATCACAT
1 TATTATATATATATATG--TAT-TTTTTAATATCACAT
98848037 TATTCATATAT
1 TATT-ATATAT
98848048 TTTTTATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
34 4 0.10
35 11 0.28
36 3 0.08
37 16 0.40
38 6 0.15
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (35 bp):
TATTATATATATATATGTATTTTTTAATATCACAT
Found at i:98848204 original size:20 final size:20
Alignment explanation
Indices: 98848167--98848205 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
98848157 TGGTATATAT
*
98848167 ATATATATATTTCTTTATTC
1 ATATATATATTTCATTATTC
98848187 ATATAT-TATTATCATTATT
1 ATATATATATT-TCATTATT
98848206 TTCCACTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATATATATTTCATTATTC
Found at i:98848611 original size:15 final size:15
Alignment explanation
Indices: 98848591--98848622 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
98848581 TTATTATCGT
98848591 TTTATACTATTATTA
1 TTTATACTATTATTA
*
98848606 TTTATATTATTATTA
1 TTTATACTATTATTA
98848621 TT
1 TT
98848623 ATCATTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATACTATTATTA
Found at i:98855892 original size:87 final size:87
Alignment explanation
Indices: 98855795--98856207 Score: 594
Period size: 87 Copynumber: 4.7 Consensus size: 87
98855785 CCTTATCTCT
* * * * *
98855795 CTAAACAGTAGGGTAACAGAG-TAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAT
1 CTAAGCAGTAGGGTAACAG-GCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAATAGAT
* * * *
98855859 CGAAGGTGATGGGCCTTCAACCT
65 CAAAGGCGATGGGCCTTAAACCC
* *
98855882 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATC
1 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAATAGATC
*
98855947 AAAGGTGATGGGCCTTAAACCC
66 AAAGGCGATGGGCCTTAAACCC
* * *
98855969 CTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGGAACAGATC
1 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAATAGATC
*
98856034 AAAGGCAATGGGCCTTAAACCC
66 AAAGGCGATGGGCCTTAAACCC
* * * *
98856056 CTAAGCAATAGGGTTACAGACTGAATTTATAGATCTTATCACCCTAAGCAGTAGGGAAATAGATC
1 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAATAGATC
*
98856121 AAAGGCGATGCGCCTTAAACCC
66 AAAGGCGATGGGCCTTAAACCC
* * *
98856143 CTAAACAGTAGGGTAACAGGCTAAATTTATAGATCTTATCACCCTAAGCAGTAGGGAAATAGATC
1 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAATAGATC
98856208 GAAGTTATAA
Statistics
Matches: 298, Mismatches: 27, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
86 1 0.00
87 297 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (87 bp):
CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAATAGATC
AAAGGCGATGGGCCTTAAACCC
Found at i:98855893 original size:44 final size:43
Alignment explanation
Indices: 98855829--98856161 Score: 165
Period size: 44 Copynumber: 7.6 Consensus size: 43
98855819 ATTTACAGAT
98855829 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGC
1 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGC
* * * * * ** **
98855873 CTTCAACCTCTAAGCAGTAGGGTAACAG-GCTGAA-TTTACAGAT
1 CTT-AACCCCTAAGCAGTAGGGAAACAGATC-GAAGGTGATGGGC
* *
98855916 CTTAACCCCCTAAGCAGTAGGGAAATAGATCAAAGGTGATGGGC
1 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGC
* * * * * ** **
98855960 CTTAAACCCCTAAGTAGTAGGGTAACAG-GCTGAA-TTTACAGAT
1 CTT-AACCCCTAAGCAGTAGGGAAACAGATC-GAAGGTGATGGGC
* * * **
98856003 CTTATCACCCTAAGCAGTAGGGGAACAGATCAAAGGCAATGGGC
1 CTTAAC-CCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGC
* ** * * * **
98856047 CTTAAACCCCTAAGCAATAGGGTTACAGA-CTGAA-TTTATAGAT
1 CTT-AACCCCTAAGCAGTAGGGAAACAGATC-GAAGGTGATGGGC
* * * * *
98856090 CTTATCACCCTAAGCAGTAGGGAAATAGATCAAAGGCGATGCGC
1 CTTAAC-CCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGC
* *
98856134 CTTAAACCCCTAAACAGTAGGGTAACAG
1 CTT-AACCCCTAAGCAGTAGGGAAACAG
98856162 GCTAAATTTA
Statistics
Matches: 202, Mismatches: 71, Indels: 32
0.66 0.23 0.10
Matches are distributed among these distances:
42 6 0.03
43 83 0.41
44 105 0.52
45 8 0.04
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (43 bp):
CTTAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGC
Found at i:98856111 original size:43 final size:43
Alignment explanation
Indices: 98855786--98856198 Score: 153
Period size: 43 Copynumber: 9.5 Consensus size: 43
98855776 ATTCACAAGC
* * * * * *
98855786 CTTATCTCTCTAAACAGTAGGGTAACAGAGTAAATTTACAGAT
1 CTTATCACCCTAAGCAGTAGGGTAACAGACTGAATTTATAGAT
* * * * * **
98855829 CTTAACCCCCTAAGCAGTAGGGAAACAGA-TCGAAGGTGAT-GGG
1 CTTATCACCCTAAGCAGTAGGGTAACAGACT-GAA-TTTATAGAT
* * *
98855872 CCT-TCAACCTCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTATC-ACC-CTAAGCAGTAGGGTAACAGACTGAATTTATAGAT
* * * * * * * * **
98855916 CTTAACCCCCTAAGCAGTAGGGAAATAGA-TCAAAGGTGATGGGC
1 CTTATCACCCTAAGCAGTAGGGTAACAGACT-GAA-TTTATAGAT
* * * *
98855960 CTTA-AACCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTATCA-CCCTAAGCAGTAGGGTAACAGACTGAATTTATAGAT
* * *** * **
98856003 CTTATCACCCTAAGCAGTAGGGGAACAGA-TCAAAGGCAATGGGC
1 CTTATCACCCTAAGCAGTAGGGTAACAGACT-GAA-TTTATAGAT
* * *
98856047 CTTA-AACCCCTAAGCAATAGGGTTACAGACTGAATTTATAGAT
1 CTTATCA-CCCTAAGCAGTAGGGTAACAGACTGAATTTATAGAT
* * * *** **
98856090 CTTATCACCCTAAGCAGTAGGGAAATAGA-TCAAAGGCGAT-GCGC
1 CTTATCACCCTAAGCAGTAGGGTAACAGACT-GAA-TTTATAG-AT
* * * *
98856134 CTTA-AACCCCTAAACAGTAGGGTAACAGGCTAAATTTATAGAT
1 CTTATCA-CCCTAAGCAGTAGGGTAACAGACTGAATTTATAGAT
98856177 CTTATCACCCTAAGCAGTAGGG
1 CTTATCACCCTAAGCAGTAGGG
98856199 AAATAGATCG
Statistics
Matches: 253, Mismatches: 93, Indels: 48
0.64 0.24 0.12
Matches are distributed among these distances:
42 5 0.02
43 130 0.51
44 113 0.45
45 5 0.02
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (43 bp):
CTTATCACCCTAAGCAGTAGGGTAACAGACTGAATTTATAGAT
Found at i:98856411 original size:44 final size:45
Alignment explanation
Indices: 98856335--98856456 Score: 140
Period size: 45 Copynumber: 2.7 Consensus size: 45
98856325 GCAACAGTAA
* * * * *
98856335 ATCTCCTTGAAGTTTTAGCGGAGTAGATTGAAG-TCA-CAAGTCTT
1 ATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGAT-AGCAAATCTT
* *
98856379 ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTT
1 ATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTT
* *
98856424 ATTTCCCTGAAGTTGTAGTGGAACAGATTGAAG
1 ATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG
98856457 CTATGAATAA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 28 0.43
45 37 0.57
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTT
Found at i:98857996 original size:12 final size:11
Alignment explanation
Indices: 98857974--98858042 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 11
98857964 GTACACATTA
98857974 TTTATATTATT
1 TTTATATTATT
98857985 TTTATGATTATT
1 TTTAT-ATTATT
98857997 ATTGTAT-TTATT
1 -TT-TATATTATT
*
98858009 TTTACTACTATT
1 TTTA-TATTATT
*
98858021 ATTATATTTATT
1 TTTATA-TTATT
*
98858033 ATTAGTATTA
1 TTTA-TATTA
98858043 GTATTATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
10 2 0.04
11 10 0.21
12 29 0.60
13 4 0.08
14 3 0.06
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (11 bp):
TTTATATTATT
Found at i:98858029 original size:24 final size:23
Alignment explanation
Indices: 98857970--98858050 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 23
98857960 TCATGTACAC
98857970 ATTATT-TATATTATTTTTATGATT
1 ATTATTATAT-TTATTTTTAT-ATT
* *
98857994 ATTATTGTATTTATTTTTACTACT
1 ATTATTATATTTATTTTTA-TATT
*
98858018 ATTATTATATTTATTATTAGTATT
1 ATTATTATATTTATTTTTA-TATT
*
98858042 AGTATTATA
1 ATTATTATA
98858051 ATTACTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 45 0.92
25 4 0.08
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (23 bp):
ATTATTATATTTATTTTTATATT
Found at i:98858276 original size:2 final size:2
Alignment explanation
Indices: 98858262--98858331 Score: 51
Period size: 2 Copynumber: 37.5 Consensus size: 2
98858252 CCATATTATG
* * * *
98858262 TA TA TA T- TT TA TA TA TA TA TA TA TA TA TA TG TA TT TT TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
98858302 TA T- TA TA T- TT TA TA TA TA T- TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
98858332 TTTAATATCA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
1 5 0.09
2 50 0.91
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (2 bp):
TA
Found at i:98858353 original size:24 final size:22
Alignment explanation
Indices: 98858256--98858363 Score: 68
Period size: 24 Copynumber: 4.9 Consensus size: 22
98858246 TTAACACCAT
*
98858256 ATTATGTATATATTTTATATAT
1 ATTATGTATATATTTTATATAC
* *
98858278 ATATATATATATATGTATT-TTTA-
1 AT-TATGTATATAT-T-TTATATAC
*
98858301 A-TA--T-TATATTTTATATAT
1 ATTATGTATATATTTTATATAC
98858319 ATTATGTATATATTTTAATATCAC
1 ATTATGTATATATTTT-ATAT-AC
98858343 ATTAT-TCATATATTTTTATAT
1 ATTATGT-ATATA-TTTTATAT
98858364 TATCCCATGT
Statistics
Matches: 69, Mismatches: 4, Indels: 24
0.71 0.04 0.25
Matches are distributed among these distances:
16 2 0.03
17 4 0.06
18 6 0.09
19 3 0.04
21 3 0.04
22 10 0.14
23 16 0.23
24 19 0.28
25 6 0.09
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (22 bp):
ATTATGTATATATTTTATATAC
Found at i:98858354 original size:37 final size:37
Alignment explanation
Indices: 98858275--98858355 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
98858265 ATATTTTATA
* * *
98858275 TATATATATATATATATGTATTTTTAATATTATATTT
1 TATATATATATATATATATATTTTTAATATCACATTT
*
98858312 TATATATAT-TATGTATATA-TTTTAATATCACATTAT
1 TATATATATATATATATATATTTTTAATATCACATT-T
98858348 TCATATAT
1 T-ATATAT
98858356 TTTTATATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 13 0.34
36 10 0.26
37 15 0.39
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (37 bp):
TATATATATATATATATATATTTTTAATATCACATTT
Found at i:98858517 original size:2 final size:2
Alignment explanation
Indices: 98858467--98858501 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
98858457 ATGTTCTTGG
98858467 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
98858502 TTCTTTATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:98858529 original size:20 final size:20
Alignment explanation
Indices: 98858492--98858530 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
98858482 ATATATATAT
*
98858492 ATATATATATTTCTTTATTC
1 ATATATATATTTCATTATTC
98858512 ATATAT-TATTATCATTATT
1 ATATATATATT-TCATTATT
98858531 TTCCACTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATATATATTTCATTATTC
Found at i:98858914 original size:3 final size:3
Alignment explanation
Indices: 98858906--98858957 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
98858896 ATACCATGTG
* *
98858906 TAT TAT TAT TGT T-T TA- TAC TAT TAT TAT T-T ATAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
98858949 TAT TAT TAT
1 TAT TAT TAT
98858958 CGTTTTCGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 5 0.12
3 37 0.86
4 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:98861475 original size:16 final size:16
Alignment explanation
Indices: 98861454--98861484 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
98861444 CTAAACCTGT
98861454 CCCAAACCCATTTTTA
1 CCCAAACCCATTTTTA
98861470 CCCAAACCCATTTTT
1 CCCAAACCCATTTTT
98861485 CAAGCCTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.39, G:0.00, T:0.32
Consensus pattern (16 bp):
CCCAAACCCATTTTTA
Found at i:98864650 original size:41 final size:41
Alignment explanation
Indices: 98864597--98864676 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
98864587 TTTTAAAATA
* *
98864597 CAGAGCAATAGCGGCGCTTTTGTTAGAACGCCGCTAAAAAC
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
*
98864638 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
98864677 GTCATATAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (41 bp):
CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
Found at i:98868375 original size:25 final size:25
Alignment explanation
Indices: 98868347--98868420 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
98868337 TTTATGTCTA
98868347 TTTTATGATATATTAAAATTAATCT
1 TTTTATGATATATTAAAATTAATCT
*
98868372 TTTTA--AGA-ATT---ATTAAT-T
1 TTTTATGATATATTAAAATTAATCT
*
98868390 ATTCTATGATATATTAAAATTAATCT
1 -TTTTATGATATATTAAAATTAATCT
98868416 TTTTA
1 TTTTA
98868421 AGAATTTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
18 1 0.03
19 10 0.27
21 2 0.05
22 6 0.16
23 2 0.05
25 15 0.41
26 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (25 bp):
TTTTATGATATATTAAAATTAATCT
Found at i:98882472 original size:20 final size:20
Alignment explanation
Indices: 98882429--98882486 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
98882419 ATATTTTTAG
* * * *
98882429 TTTTTATATAACTTTTTCTT
1 TTTTTATAGAATTTTTTATA
98882449 TTTTTATA-AGATTTTTTATA
1 TTTTTATAGA-ATTTTTTATA
*
98882469 TTTTTCTAGAATTTTTTA
1 TTTTTATAGAATTTTTTA
98882487 ATAATATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTTATAGAATTTTTTATA
Found at i:98882925 original size:23 final size:23
Alignment explanation
Indices: 98882899--98882944 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
98882889 GTATTTTTCA
98882899 TGCATATTTTATGATCCATGCAT
1 TGCATATTTTATGATCCATGCAT
98882922 TGCATATTTTATGATCCATGCAT
1 TGCATATTTTATGATCCATGCAT
98882945 ACTAATCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (23 bp):
TGCATATTTTATGATCCATGCAT
Found at i:98883380 original size:30 final size:30
Alignment explanation
Indices: 98883344--98883400 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
98883334 TTTTTTATTT
98883344 AACAAACATATTTTTAATATTATAAAATTC
1 AACAAACATATTTTTAATATTATAAAATTC
*
98883374 AACAAACATGTTTTTAATATTATAAAA
1 AACAAACATATTTTTAATATTATAAAA
98883401 ATTGAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.39
Consensus pattern (30 bp):
AACAAACATATTTTTAATATTATAAAATTC
Found at i:98890959 original size:51 final size:51
Alignment explanation
Indices: 98890890--98891009 Score: 161
Period size: 51 Copynumber: 2.4 Consensus size: 51
98890880 AACTAAGTTA
*
98890890 TCCGGATAAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAAGT-AT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAA-TAAT
* * * * *
98890941 TCCGGATGAAATATGAAGCTCTTGTTGAAGTTAGAGTAATAAGGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
*
98890992 TCCGGATGAAGTATGAAG
1 TCCGGATGAAATATGAAG
98891010 TAAGTTTGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 1 0.02
51 60 0.98
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
Found at i:98896400 original size:44 final size:43
Alignment explanation
Indices: 98896352--98896548 Score: 125
Period size: 44 Copynumber: 4.5 Consensus size: 43
98896342 TAGAGAAGGC
98896352 TGAAGATGACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGAT
1 TGAAGATGACAGATCTTATCTCCC-AAGCAGTAATGGAGCAGAT
* ** * *
98896396 TGAAGAAG-GTGAATCTTATCTTCCCAAGGTAGT-AGGGAAGCAGAT
1 TGAAGATGACAG-ATCTTATC-TCCCAA-GCAGTAATGG-AGCAGAT
* ** * * * * *
98896441 TTAAG-CCACTAG-CCTTATCTCTCCGAGCAGTAGTGGAGAAGGT
1 TGAAGATGAC-AGATCTTATCTC-CCAAGCAGTAATGGAGCAGAT
* * *
98896484 TGAAGATGACAAATCTTATCTCCCTAAACAGTAGTGGAGCAGAT
1 TGAAGATGACAGATCTTATCTCCC-AAGCAGTAATGGAGCAGAT
*
98896528 CGAAGATGAC-GAATCTTATCT
1 TGAAGATGACAG-ATCTTATCT
98896549 TCCCGAGGTA
Statistics
Matches: 113, Mismatches: 28, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
43 19 0.17
44 74 0.65
45 19 0.17
46 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (43 bp):
TGAAGATGACAGATCTTATCTCCCAAGCAGTAATGGAGCAGAT
Found at i:98896480 original size:132 final size:132
Alignment explanation
Indices: 98896228--98896641 Score: 537
Period size: 132 Copynumber: 3.1 Consensus size: 132
98896218 CGGTGAATTC
* * * *
98896228 ACAGATTTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGACGAATCTTATCTTCTCGAGG
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAAGACGAATCTTATCTTCCCGAGG
* * * * * *
98896293 TAGTAGGAAAGCATATTTAAGCTACTAGCCTTATCTCCCTGAACAAAAGTAGAGAAGGCTGAAGA
66 TAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGAAGTGGAGAAGGCTGAAGA
98896358 TG
131 TG
* * ** *
98896360 ACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATTGAAGAAGGTGAATCTTATCTTCCCAAGG
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAAGACGAATCTTATCTTCCCGAGG
* *
98896425 TAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCTCC-GAGCAGTAGTGGAGAAGGTTGAAG
66 TAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTC-CCTGAGCAGAAGTGGAGAAGGCTGAAG
98896489 ATG
130 ATG
* * *
98896492 ACAAATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGACGAATCTTATCTTCCCGAGG
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAAGACGAATCTTATCTTCCCGAGG
* * * * * * *
98896557 TAGTAGGGAAGTAGATTTAAGCCATTAGCCTTATCACCCTAAGCGGCAGTGGAGAAGGCTTAAGA
66 TAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGAAGTGGAGAAGGCTGAAGA
98896622 T-
131 TG
*
98896623 ACA-AACATTATCTCCCTAA
1 ACAGATC-TTATCTCCCTAA
98896642 AGTTGCAGTG
Statistics
Matches: 245, Mismatches: 34, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
130 2 0.01
131 17 0.07
132 224 0.91
133 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (132 bp):
ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAAGACGAATCTTATCTTCCCGAGG
TAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGAAGTGGAGAAGGCTGAAGA
TG
Found at i:98896894 original size:46 final size:46
Alignment explanation
Indices: 98896795--98896901 Score: 135
Period size: 46 Copynumber: 2.3 Consensus size: 46
98896785 ACTTGCAGTG
* *
98896795 GGATGGATTGAAGAAAATGCAAATCCTATACTCCTAAGATGTGGTG
1 GGATGGATTGAAGAAAATGCAAATCCTATACTCCTAAGATGTAGTA
* * **
98896841 GGATGGATTGAAGAAAATGCAGATCCTATAC-CTTTGGGATGTAGTA
1 GGATGGATTGAAGAAAATGCAAATCCTATACTC-CTAAGATGTAGTA
*
98896887 GGTTGGATTGAAGAA
1 GGATGGATTGAAGAA
98896902 GACAATGAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
45 1 0.02
46 52 0.98
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (46 bp):
GGATGGATTGAAGAAAATGCAAATCCTATACTCCTAAGATGTAGTA
Found at i:98898339 original size:20 final size:20
Alignment explanation
Indices: 98898316--98898353 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
98898306 TATTAAATGG
98898316 ATTAATTTAACATTATTATC
1 ATTAATTTAACATTATTATC
* *
98898336 ATTATTTTAATATTATTA
1 ATTAATTTAACATTATTA
98898354 CTATTGTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTAATTTAACATTATTATC
Found at i:98898352 original size:3 final size:3
Alignment explanation
Indices: 98898327--98898636 Score: 115
Period size: 3 Copynumber: 103.7 Consensus size: 3
98898317 TTAATTTAAC
* * * * * * *
98898327 ATT ATT ATC ATT ATT -TT AAT ATT ATT ACT ATT GTT ATT -TA AAT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
98898373 GTT ATT ATT ATAT ATT ATAT ATT ATT ACTT ATT ATT ATT TTT ATT ATT
1 ATT ATT ATT AT-T ATT AT-T ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* ** * *
98898421 AGT AAC A-T GTT ATT ATT ATT ATT ATT A-C ATTT ATT A-T ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
* * **
98898463 ATTT ATT -TT ATT ACT GTT ATT ATT ATT -TT A-T ATAT ATTT ATT ACCA
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T A-TT ATT A-TT
* * ** ** * *
98898509 ATT TTT ATTT ATT ATC ATT AGA AAC A-T ATT GTT ATT TTT ATT -TT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
98898553 ATT ATT ATT GTT ATT CTT ATT ATT ATC ATG A-T ACT A-T ATT AACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* *
98898597 AGTT TTGT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 A-TT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
98898637 ATTTTCATTC
Statistics
Matches: 224, Mismatches: 58, Indels: 50
0.67 0.17 0.15
Matches are distributed among these distances:
2 20 0.09
3 179 0.80
4 24 0.11
5 1 0.00
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:98898353 original size:23 final size:23
Alignment explanation
Indices: 98898327--98898451 Score: 71
Period size: 23 Copynumber: 5.5 Consensus size: 23
98898317 TTAATTTAAC
98898327 ATTATTATCATTATTTTAATATT
1 ATTATTATCATTATTTTAATATT
* ** * *
98898350 ATTACTATTGTTATTTAAATAAT
1 ATTATTATCATTATTTTAATATT
* * *
98898373 GTTATTATTA-TATATTATATATT
1 ATTATTATCATTATTTTA-ATATT
*
98898396 ATTACTTATTATTATTTT--TATT
1 ATTA-TTATCATTATTTTAATATT
* * * *
98898418 ATTAGTAACATGT-TATTATTATT
1 ATTATTATCAT-TATTTTAATATT
98898441 ATTATTA-CATT
1 ATTATTATCATT
98898452 TATTATATTA
Statistics
Matches: 78, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
21 8 0.10
22 17 0.22
23 42 0.54
24 6 0.08
25 5 0.06
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.58
Consensus pattern (23 bp):
ATTATTATCATTATTTTAATATT
Found at i:98898395 original size:17 final size:16
Alignment explanation
Indices: 98898327--98898638 Score: 88
Period size: 17 Copynumber: 19.8 Consensus size: 16
98898317 TTAATTTAAC
*
98898327 ATTATTATCAT-TATT
1 ATTATTATTATATATT
* *
98898342 -TTAATATTAT-TACT
1 ATTATTATTATATATT
* * *
98898356 ATTGTTATTTAAATAAT
1 ATTATTA-TTATATATT
*
98898373 GTTATTATTATATATT
1 ATTATTATTATATATT
98898389 ATATATTATTACT-TATT
1 AT-TATTATTA-TATATT
*
98898406 ATTATTTTTAT-TATT
1 ATTATTATTATATATT
* **
98898421 AGTAACATGT-TATTATT
1 ATTATTAT-TATA-TATT
*
98898438 ATTATTATTACAT-TT
1 ATTATTATTATATATT
98898453 ATTA-TATTATAT-TT
1 ATTATTATTATATATT
*
98898467 ATT-TTATTACTGTTATT
1 ATTATTATTA-T-ATATT
*
98898484 ATTATTTTATATATATTT
1 ATTATTAT-TATATA-TT
** *
98898502 ATTACCAATT-TTTATTT
1 ATTA-TTATTATATA-TT
* * **
98898519 ATTATCATTAGA-AAC
1 ATTATTATTATATATT
* *
98898534 A-TATTGTTAT-TTTT
1 ATTATTATTATATATT
98898548 ATT-TTATTAT-TATT
1 ATTATTATTATATATT
* *
98898562 GTTATTCTTAT-TATT
1 ATTATTATTATATATT
* *
98898577 ATCATGA-TACTATATT
1 ATTATTATTA-TATATT
* *
98898593 AACTAGTT-TTGTACTATT
1 -ATTA-TTATTATA-TATT
98898611 ATTATTATTAT-TATT
1 ATTATTATTATATATT
98898626 ATTATTATTATAT
1 ATTATTATTATAT
98898639 TTTCATTCTA
Statistics
Matches: 213, Mismatches: 55, Indels: 57
0.66 0.17 0.18
Matches are distributed among these distances:
14 48 0.23
15 52 0.24
16 33 0.15
17 59 0.28
18 18 0.08
19 3 0.01
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (16 bp):
ATTATTATTATATATT
Found at i:98898397 original size:20 final size:20
Alignment explanation
Indices: 98898374--98898500 Score: 71
Period size: 19 Copynumber: 6.8 Consensus size: 20
98898364 TTAAATAATG
98898374 TTATTATTATATATTATATA
1 TTATTATTATATATTATATA
*
98898394 TTATTACTTAT-TATTAT-TT
1 TTATTA-TTATATATTATATA
* *
98898413 TTATTATTAGTA-A-CATGTTA
1 TTATTATTA-TATATTAT-ATA
*
98898433 TTATTATTAT-TATTACAT-
1 TTATTATTATATATTATATA
*
98898451 TTATTA-TATTATATT-TATT
1 TTATTATTA-TATATTATATA
* *
98898470 TTATTACTGT-TATTAT-TA
1 TTATTATTATATATTATATA
98898488 TT-TTA-TATATATT
1 TTATTATTATATATT
98898501 TATTACCAAT
Statistics
Matches: 84, Mismatches: 10, Indels: 29
0.68 0.08 0.24
Matches are distributed among these distances:
16 2 0.02
17 9 0.11
18 21 0.25
19 24 0.29
20 24 0.29
21 4 0.05
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (20 bp):
TTATTATTATATATTATATA
Found at i:98898466 original size:14 final size:14
Alignment explanation
Indices: 98898436--98898485 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
98898426 CATGTTATTA
98898436 TTATTATTATTACAT
1 TTATTA-TATTACAT
*
98898451 TTATTATATTATAT
1 TTATTATATTACAT
*
98898465 TTATTTTATTAC-T
1 TTATTATATTACAT
98898478 GTTATTAT
1 -TTATTAT
98898486 TATTTTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 1 0.03
14 23 0.77
15 6 0.20
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (14 bp):
TTATTATATTACAT
Found at i:98898517 original size:31 final size:31
Alignment explanation
Indices: 98898450--98898523 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
98898440 TATTATTACA
* **
98898450 TTTATTATATTATATTTATTTTATTACTGTT
1 TTTATTATATTATATATATTTTATTACAATT
* *
98898481 ATTATTATTTTATATATA-TTTATTACCAATT
1 TTTATTATATTATATATATTTTATTA-CAATT
98898512 TTTATT-TATTAT
1 TTTATTATATTAT
98898524 CATTAGAAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
30 12 0.34
31 23 0.66
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (31 bp):
TTTATTATATTATATATATTTTATTACAATT
Found at i:98899546 original size:19 final size:19
Alignment explanation
Indices: 98899522--98899558 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
98899512 TCGTAGACCA
98899522 AAATCGTTT-TTAATAAATC
1 AAATCGTTTATTAA-AAATC
98899541 AAATCGTTTATTAAAAAT
1 AAATCGTTTATTAAAAAT
98899559 AACCACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (19 bp):
AAATCGTTTATTAAAAATC
Found at i:98900327 original size:8 final size:9
Alignment explanation
Indices: 98900316--98900364 Score: 57
Period size: 8 Copynumber: 5.4 Consensus size: 9
98900306 AAAATTAAAT
98900316 TTTTTAT-A
1 TTTTTATAA
98900324 TTTTTATAA
1 TTTTTATAA
98900333 TTTTTTAATAA
1 -TTTTT-ATAA
*
98900344 TTTTAATAA
1 TTTTTATAA
98900353 TTTTTA-AA
1 TTTTTATAA
98900361 TTTT
1 TTTT
98900365 AAATAATAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
8 13 0.36
9 10 0.28
10 9 0.25
11 4 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:98900346 original size:20 final size:18
Alignment explanation
Indices: 98900313--98900371 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
98900303 TTAAAAATTA
*
98900313 AATTTTTTATATTTTTAT
1 AATTTTTTATATTTTAAT
98900331 AATTTTTTAATAATTTTAAT
1 AATTTTTT-AT-ATTTTAAT
*
98900351 AA-TTTTTAAATTTTAAAT
1 AATTTTTTATATTTT-AAT
98900369 AAT
1 AAT
98900372 AGTTTTGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 5 0.14
18 14 0.40
19 7 0.20
20 9 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
AATTTTTTATATTTTAAT
Found at i:98902714 original size:24 final size:24
Alignment explanation
Indices: 98902682--98902728 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
98902672 GAAATTTACA
98902682 TATCACATCACATGCTTATATGTT
1 TATCACATCACATGCTTATATGTT
*
98902706 TATCGCATCACATGCTTATATGT
1 TATCACATCACATGCTTATATGT
98902729 ACCTAGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (24 bp):
TATCACATCACATGCTTATATGTT
Found at i:98912884 original size:18 final size:18
Alignment explanation
Indices: 98912861--98912947 Score: 129
Period size: 18 Copynumber: 4.8 Consensus size: 18
98912851 CCCAACTACT
*
98912861 GTATACGTGAACAGTGCC
1 GTATACGTGAATAGTGCC
98912879 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
* *
98912897 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTGCC
* *
98912915 GTATACATAAATAGTGCC
1 GTATACGTGAATAGTGCC
98912933 GTATACGTGAATAGT
1 GTATACGTGAATAGT
98912948 ACCATAAACG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 62 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTGCC
Found at i:98919021 original size:17 final size:15
Alignment explanation
Indices: 98918988--98919035 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 15
98918978 CAATTTTCAT
98918988 ATATTTTTTAATTTA
1 ATATTTTTTAATTTA
98919003 ATATTTTTTAATATCTA
1 ATATTTTTTAAT-T-TA
98919020 ATAATTTTTATAATTT
1 AT-ATTTTT-TAATTT
98919036 TTTATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 12 0.41
16 1 0.03
17 5 0.17
18 7 0.24
19 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTTTTTAATTTA
Found at i:98919507 original size:25 final size:26
Alignment explanation
Indices: 98919473--98919524 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
98919463 GCTTGGTTTC
*
98919473 TGTAGTATATAATATATATAG-ATTT
1 TGTAGTATATAATATATAAAGTATTT
* *
98919498 TGTATTATATATTATATAAAGTATTT
1 TGTAGTATATAATATATAAAGTATTT
98919524 T
1 T
98919525 CAAATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (26 bp):
TGTAGTATATAATATATAAAGTATTT
Found at i:98920717 original size:4 final size:4
Alignment explanation
Indices: 98920708--98920734 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
98920698 TCATTCCATC
98920708 TTCT TTCT TTCT TTCT TTCT TTCT TTC
1 TTCT TTCT TTCT TTCT TTCT TTCT TTC
98920735 CTGCATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTCT
Found at i:98923065 original size:3 final size:3
Alignment explanation
Indices: 98923057--98923188 Score: 85
Period size: 3 Copynumber: 44.0 Consensus size: 3
98923047 AGGGGGAGAG
*
98923057 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TACT T-T TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * * *
98923101 TAT TAT T-T TA- TAT ATATT TAT TAC CAT TATT TATT TAT TAT TCT TAG
1 TAT TAT TAT TAT TAT -TA-T TAT TAT TAT TA-T TA-T TAT TAT TAT TAT
* * * * * *
98923148 TAA CA- TAT TGT TAT TTT TAT TAT TTT TAT TTT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
98923189 AATGGCACTA
Statistics
Matches: 100, Mismatches: 20, Indels: 18
0.72 0.14 0.13
Matches are distributed among these distances:
2 9 0.09
3 77 0.77
4 13 0.13
5 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:98927804 original size:32 final size:32
Alignment explanation
Indices: 98927746--98927823 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 32
98927736 TATACTTAAT
*
98927746 AAATAATAATAAAATAATAAAATATCTTATTA
1 AAATAATAATAAAATAATAAAATATCTAATTA
* **
98927778 AAATATTAATAAAAATAAT-ATTTATCTAATT-
1 AAATAATAAT-AAAATAATAAAATATCTAATTA
*
98927809 -AATAATTATAAAATA
1 AAATAATAATAAAATA
98927824 TCATCAACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 6 0.15
30 7 0.18
32 18 0.46
33 8 0.21
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (32 bp):
AAATAATAATAAAATAATAAAATATCTAATTA
Found at i:98928404 original size:18 final size:18
Alignment explanation
Indices: 98928366--98928404 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
98928356 CTATGCTATA
*
98928366 TATTATAAAAAATATACT
1 TATTATAAAAAAAATACT
98928384 TATTCATAAAAAAAATA-T
1 TATT-ATAAAAAAAATACT
98928402 TAT
1 TAT
98928405 AGTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
TATTATAAAAAAAATACT
Found at i:98929879 original size:19 final size:19
Alignment explanation
Indices: 98929828--98929879 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 19
98929818 CTAAGAAAAA
*
98929828 GCATGTAATATTATGACTC
1 GCATGTAATAATATGACTC
*
98929847 GCA---AGT-AT-TGACTC
1 GCATGTAATAATATGACTC
98929861 GCATGTAATAATATGACTC
1 GCATGTAATAATATGACTC
98929880 ACAAATATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 10
0.66 0.08 0.26
Matches are distributed among these distances:
14 9 0.36
15 1 0.04
16 2 0.08
17 2 0.08
18 2 0.08
19 9 0.36
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (19 bp):
GCATGTAATAATATGACTC
Found at i:98930573 original size:10 final size:10
Alignment explanation
Indices: 98930548--98930588 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
98930538 GATTTCTACG
*
98930548 TATATCATATA
1 TATATCACA-A
98930559 TATATCACAA
1 TATATCACAA
*
98930569 TATATCACAC
1 TATATCACAA
98930579 TATATCACAA
1 TATATCACAA
98930589 GACTTGTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (10 bp):
TATATCACAA
Found at i:98931387 original size:20 final size:20
Alignment explanation
Indices: 98931350--98931398 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
98931340 CATTAGGATT
*
98931350 CCCCTCC-TT-CCCCTTTTC
1 CCCCTCCTTTCCCCCCTTTC
*
98931368 TCCCTCCTTTCCCCCCTTTC
1 CCCCTCCTTTCCCCCCTTTC
*
98931388 CCCCTTCTTTC
1 CCCCTCCTTTC
98931399 ATTTGTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 6 0.24
19 2 0.08
20 17 0.68
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (20 bp):
CCCCTCCTTTCCCCCCTTTC
Found at i:98931415 original size:18 final size:18
Alignment explanation
Indices: 98931392--98931434 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
98931382 CCTTTCCCCC
*
98931392 TTCTTTCATTTGTTTATT
1 TTCTTTCATTTATTTATT
*
98931410 TTCTTTCGTTTATTTATT
1 TTCTTTCATTTATTTATT
*
98931428 TACTTTC
1 TTCTTTC
98931435 TTTTTATGCG
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:0.12, C:0.14, G:0.05, T:0.70
Consensus pattern (18 bp):
TTCTTTCATTTATTTATT
Found at i:98933403 original size:30 final size:29
Alignment explanation
Indices: 98933363--98933430 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 29
98933353 TTTTAATAGT
98933363 TTAT-ATTTTTATAATTTTTAAAAAATTAAA
1 TTATAATTTTTATAATTTTT--AAAATTAAA
*
98933393 TTA-AATTTTTATTATTTTTAAAATTAAA
1 TTATAATTTTTATAATTTTTAAAATTAAA
98933421 TTATAATTTT
1 TTATAATTTT
98933431 ACCATGTACA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 12 0.34
29 6 0.17
30 17 0.49
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
TTATAATTTTTATAATTTTTAAAATTAAA
Found at i:98933430 original size:28 final size:29
Alignment explanation
Indices: 98933363--98933431 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
98933353 TTTTAATAGT
*
98933363 TTATATTTTTATAATTTTTAAAAAATTAAA
1 TTATAATTTTATAATTTTT-AAAAATTAAA
*
98933393 TTA-AATTTTTATTATTTTT-AAAATTAAA
1 TTATAA-TTTTATAATTTTTAAAAATTAAA
98933421 TTATAATTTTA
1 TTATAATTTTA
98933432 CCATGTACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 17 0.49
29 3 0.09
30 15 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
TTATAATTTTATAATTTTTAAAAATTAAA
Found at i:98933912 original size:18 final size:17
Alignment explanation
Indices: 98933860--98933945 Score: 57
Period size: 18 Copynumber: 4.7 Consensus size: 17
98933850 TATTTTCCCA
*
98933860 TAAAAATTATAAAATTAT
1 TAAAAAATATAAAATT-T
*
98933878 T-AAAAATAAAAATATTT
1 TAAAAAATATAAA-ATTT
98933895 TAAAAAATATTAAAATTT
1 TAAAAAATA-TAAAATTT
**
98933913 ATATAAACTTATAAAAATTT
1 -TA-AAAAATAT-AAAATTT
*
98933933 ATAAAAGATATAA
1 -TAAAAAATATAA
98933946 TAAAATCTGA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
17 11 0.20
18 17 0.31
19 12 0.22
20 15 0.27
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (17 bp):
TAAAAAATATAAAATTT
Found at i:98933944 original size:19 final size:19
Alignment explanation
Indices: 98933859--98933945 Score: 74
Period size: 20 Copynumber: 4.7 Consensus size: 19
98933849 ATATTTTCCC
*
98933859 ATAAAAATTAT-AAAA-TT
1 ATAAAAAATATAAAAATTT
*
98933876 ATTAAAAATA-AAAATATTT
1 ATAAAAAATATAAAA-ATTT
*
98933895 -TAAAAAATATTAAAATTT
1 ATAAAAAATATAAAAATTT
**
98933913 ATATAAACTTATAAAAATTT
1 ATA-AAAAATATAAAAATTT
*
98933933 ATAAAAGATATAA
1 ATAAAAAATATAA
98933946 TAAAATCTGA
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
17 11 0.20
18 13 0.24
19 15 0.27
20 16 0.29
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (19 bp):
ATAAAAAATATAAAAATTT
Found at i:98934662 original size:25 final size:27
Alignment explanation
Indices: 98934634--98934697 Score: 82
Period size: 25 Copynumber: 2.5 Consensus size: 27
98934624 TATTTTTCCA
98934634 TAAAAAATTATAAAATT-AT-TAAAAT
1 TAAAAAATTATAAAATTGATATAAAAT
*
98934659 TAAAAAA--ATAAAATTGATATAAACT
1 TAAAAAATTATAAAATTGATATAAAAT
98934684 TAAAAAAATTATAA
1 T-AAAAAATTATAA
98934698 GAAAAAAGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 8 0.24
24 2 0.06
25 13 0.39
26 6 0.18
28 4 0.12
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (27 bp):
TAAAAAATTATAAAATTGATATAAAAT
Found at i:98946510 original size:33 final size:33
Alignment explanation
Indices: 98946473--98946563 Score: 155
Period size: 33 Copynumber: 2.8 Consensus size: 33
98946463 CTCTGTTTCA
98946473 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
98946506 GGTTGCTGGACGGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
* *
98946539 GGTTGCTGGATAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
98946564 CAAGAAGAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.18, C:0.09, G:0.43, T:0.31
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:98955794 original size:23 final size:22
Alignment explanation
Indices: 98955759--98955808 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
98955749 ATTTAATTTT
* *
98955759 TAATTTTTAAATTATTTAGTAA
1 TAATATTTAAATTATTTAATAA
*
98955781 TAATATTTAGAATTATTTAATGA
1 TAATATTTA-AATTATTTAATAA
98955804 TAATA
1 TAATA
98955809 CCTGGTGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (22 bp):
TAATATTTAAATTATTTAATAA
Found at i:98956145 original size:30 final size:30
Alignment explanation
Indices: 98956111--98956173 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
98956101 ATTTATTTTA
*
98956111 TTGTTAATTTTCTTATTATTTTAAAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAGACAT
* *
98956141 TTGTTAATTTTTTTATTATTTTAGAGACAT
1 TTGTTAATTTTCTTATTATTTTAAAGACAT
98956171 TTG
1 TTG
98956174 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGACAT
Found at i:98957127 original size:20 final size:19
Alignment explanation
Indices: 98957104--98957152 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 19
98957094 TACCAATTTA
98957104 TTTTATTTTCTTAAAATTATT
1 TTTTATTTTC-T-AAATTATT
*
98957125 TTTGTATTTTCTAATTTA-T
1 TTT-TATTTTCTAAATTATT
98957144 TTTTATTTT
1 TTTTATTTT
98957153 ATTTATTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.23
19 4 0.15
20 5 0.19
21 4 0.15
22 7 0.27
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTATTTTCTAAATTATT
Found at i:98959113 original size:16 final size:16
Alignment explanation
Indices: 98959092--98959125 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
98959082 CAAAAGAATA
98959092 ATAATTATATAATAAT
1 ATAATTATATAATAAT
*
98959108 ATAATTATTTAATAAT
1 ATAATTATATAATAAT
98959124 AT
1 AT
98959126 TAAATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAATTATATAATAAT
Found at i:98964937 original size:16 final size:16
Alignment explanation
Indices: 98964902--98964942 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
98964892 TAATTTACAA
98964902 AATAATAATAATTATAT
1 AATAAT-ATAATTATAT
* *
98964919 AATAATATCATTATTT
1 AATAATATAATTATAT
98964935 AATAATAT
1 AATAATAT
98964943 TAAGTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAATATAATTATAT
Found at i:98966545 original size:21 final size:21
Alignment explanation
Indices: 98966480--98966551 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
98966470 GGGCAGTAGG
*
98966480 TACTGAGTTGGGGCAGCCTG-
1 TACTGAGTTGGGGTAGCCTGT
*
98966500 T--TGAGTTGGGGTA-CTCTCT
1 TACTGAGTTGGGGTAGC-CTGT
* *
98966519 TGCTGATTTGGGGTAGCCTGT
1 TACTGAGTTGGGGTAGCCTGT
98966540 TACTGAGTTGGG
1 TACTGAGTTGGG
98966552 ACACCAACTT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
17 1 0.02
18 13 0.32
19 1 0.02
20 1 0.02
21 24 0.59
22 1 0.02
ACGTcount: A:0.12, C:0.15, G:0.38, T:0.35
Consensus pattern (21 bp):
TACTGAGTTGGGGTAGCCTGT
Found at i:98967323 original size:40 final size:40
Alignment explanation
Indices: 98967245--98967323 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
98967235 AACAAAATAC
* * * *
98967245 TCACTGCATGCATATTAAAAAATAGTCAACACACCAACAA
1 TCACTACATGCATATTAAAAAACAGTCAACAAAACAACAA
*
98967285 TCACTACATGCATATTAAAAAACATTC-ACTAAAACAACA
1 TCACTACATGCATATTAAAAAACAGTCAAC-AAAACAACA
98967324 TGTGACTAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 2 0.06
40 31 0.94
ACGTcount: A:0.49, C:0.24, G:0.05, T:0.22
Consensus pattern (40 bp):
TCACTACATGCATATTAAAAAACAGTCAACAAAACAACAA
Found at i:98971914 original size:61 final size:63
Alignment explanation
Indices: 98971824--98971943 Score: 172
Period size: 61 Copynumber: 1.9 Consensus size: 63
98971814 AATAGAAAAA
* * *
98971824 ACCCAATAATTTAATACAAATACAACCATTTCTGTCATGTACATGGTAGACAACAACCAATTT
1 ACCCAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGCAGACAACAACCAATTT
* * *
98971887 ACCC-ATAATTTAA-ACAAACACAACCATTTTTTTCATGCACATGGCAGACAATAACCA
1 ACCCAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGCAGACAACAACCA
98971944 GTACAATAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
61 38 0.75
62 9 0.18
63 4 0.08
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (63 bp):
ACCCAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGCAGACAACAACCAATTT
Found at i:98972213 original size:12 final size:12
Alignment explanation
Indices: 98972196--98972238 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
98972186 AGTGGGTGTT
98972196 TCAAAATTGAAA
1 TCAAAATTGAAA
98972208 TCAAAATTGAAA
1 TCAAAATTGAAA
**
98972220 T-AGAAATCAAAA
1 TCA-AAATTGAAA
98972232 TCAAAAT
1 TCAAAAT
98972239 CATATTCGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 25 0.93
13 1 0.04
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.23
Consensus pattern (12 bp):
TCAAAATTGAAA
Found at i:98972238 original size:18 final size:18
Alignment explanation
Indices: 98972196--98972238 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
98972186 AGTGGGTGTT
*
98972196 TCAAAATTGAAATCAAAA
1 TCAAAATAGAAATCAAAA
**
98972214 TTGAAATAGAAATCAAAA
1 TCAAAATAGAAATCAAAA
98972232 TCAAAAT
1 TCAAAAT
98972239 CATATTCGAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.23
Consensus pattern (18 bp):
TCAAAATAGAAATCAAAA
Found at i:98977548 original size:51 final size:51
Alignment explanation
Indices: 98977493--98977629 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
98977483 TATGGTAACT
*
98977493 AATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGG
1 AATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
* * ** * * **
98977544 AATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGG
1 AATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
* *
98977595 AATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 AATCTTATAAGATATGATATTATAATCTTAGAGAT
98977630 TTGATGGTAG
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (51 bp):
AATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
Found at i:98980556 original size:51 final size:51
Alignment explanation
Indices: 98980501--98980638 Score: 168
Period size: 51 Copynumber: 2.7 Consensus size: 51
98980491 ATATGGTAAC
*
98980501 TAATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATG
1 TAATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATG
* * ** * * **
98980552 TAATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATG
1 TAATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATG
* * *
98980603 GAATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 TAATCTTATAAGATATGATATTATAATCTTAGAGAT
98980639 TTGATGGTAG
Statistics
Matches: 69, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (51 bp):
TAATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATG
Found at i:98985518 original size:13 final size:13
Alignment explanation
Indices: 98985500--98985525 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98985490 GACAAGAAAA
98985500 GGAAAATTGAGTT
1 GGAAAATTGAGTT
98985513 GGAAAATTGAGTT
1 GGAAAATTGAGTT
98985526 ATGTCACTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (13 bp):
GGAAAATTGAGTT
Found at i:98985642 original size:30 final size:32
Alignment explanation
Indices: 98985608--98985677 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 32
98985598 TGGCCCAAGA
* *
98985608 GTAAATATTCAAAAA-TTGAGGGATTAA-AGT
1 GTAAATATTCAAAAATTTGAAGGACTAATAGT
*
98985638 GTAAATA-TGAAAAATTTGAAGGACTAATAGT
1 GTAAATATTCAAAAATTTGAAGGACTAATAGT
*
98985669 GAAAATATT
1 GTAAATATT
98985678 AAGGGTGGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 6 0.18
30 17 0.52
31 9 0.27
32 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.19, T:0.30
Consensus pattern (32 bp):
GTAAATATTCAAAAATTTGAAGGACTAATAGT
Found at i:98989363 original size:16 final size:17
Alignment explanation
Indices: 98989332--98989364 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
98989322 TTCATAAGTA
98989332 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
98989349 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
98989365 GTACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:98989898 original size:138 final size:138
Alignment explanation
Indices: 98989650--98990000 Score: 546
Period size: 138 Copynumber: 2.5 Consensus size: 138
98989640 TTTGACATGA
* * * * * * *
98989650 TGCCATAGTCTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTCTCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCACGTTGCCATGGTATCTTTCAA
98989714 CCATGGTCTTATTCATTTCATGTCACTCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC
65 CCATGGTCTTATTCATTTCATGTCACTCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC
98989779 ATATCACAT
130 ATATCACAT
98989788 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAAC
* *
98989853 CATGGTCTTATTCATTTC-TCGTC-TTGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT
66 CATGGTCTTATTCATTTCAT-GTCACT-CTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT
*
98989916 CATATCACGT
129 CATATCACAT
* *
98989926 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTGATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAAC
98989991 CATGGTCTTA
66 CATGGTCTTA
98990001 CAAATGTCAT
Statistics
Matches: 198, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
137 6 0.03
138 192 0.97
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.41
Consensus pattern (138 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATGTCACTCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCA
TATCACAT
Found at i:98990015 original size:46 final size:46
Alignment explanation
Indices: 98989650--98990001 Score: 485
Period size: 46 Copynumber: 7.7 Consensus size: 46
98989640 TTTGACATGA
* * * * *
98989650 TGCCATAGTCTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * *
98989696 TGCCATGGTCTCTTTCAACCATGGTCTTATTCATTTCATGTCAC-T
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
98989741 CTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACAT
1 -TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
98989788 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * **
98989834 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC-TCGTCTTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT-ATCACGT
*
98989880 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * *
98989926 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTGATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
98989972 TGCCATGGTATCTTTCAACCATGGTCTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
98990002 AAATGTCATA
Statistics
Matches: 280, Mismatches: 21, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
45 6 0.02
46 272 0.97
47 2 0.01
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:98993196 original size:6 final size:6
Alignment explanation
Indices: 98993187--98993224 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
98993177 TAAGTTTAAG
98993187 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
98993225 TGAACTCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:98996294 original size:41 final size:43
Alignment explanation
Indices: 98996249--98996432 Score: 182
Period size: 41 Copynumber: 4.4 Consensus size: 43
98996239 CCGGTATTCA
* *
98996249 GCCTGCTAGGTTTAAAACCCGA-ATTCA-TTCACCGGCATT-TT
1 GCCTGCTAGGCTCAAAACCCGATA-TCATTTCACCGGCATTATT
* * *
98996290 GCCTGCTAGGCTCGAAGCCCGATATCATTTCATCGGCATTATT
1 GCCTGCTAGGCTCAAAACCCGATATCATTTCACCGGCATTATT
* * * * * *
98996333 GCCTGCTAGGTTTAAAAACCGA-AT-TTATTCACCGGTATT-TC
1 GCCTGCTAGGCTCAAAACCCGATATCAT-TTCACCGGCATTATT
* * *
98996374 GCCTGCTAGGCTCGAAGCCAGATATCATTTCACCGGCATTATT
1 GCCTGCTAGGCTCAAAACCCGATATCATTTCACCGGCATTATT
98996417 GCCTGCTAGGCTCAAA
1 GCCTGCTAGGCTCAAA
98996433 GGGCCGGATA
Statistics
Matches: 112, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
41 39 0.35
42 37 0.33
43 36 0.32
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (43 bp):
GCCTGCTAGGCTCAAAACCCGATATCATTTCACCGGCATTATT
Found at i:98996340 original size:43 final size:42
Alignment explanation
Indices: 98996276--98996429 Score: 177
Period size: 42 Copynumber: 3.6 Consensus size: 42
98996266 CCCGAATTCA
98996276 TTCACCGGCATTTTGCCTGCTAGGCTCGAAGCCCGATATCAT
1 TTCACCGGCATTTTGCCTGCTAGGCTCGAAGCCCGATATCAT
* * ** ** *
98996318 TTCATCGGCATTATTGCCTGCTAGGTTTAAAAACCGA-AT-TT
1 TTCACCGGCATT-TTGCCTGCTAGGCTCGAAGCCCGATATCAT
* * *
98996359 ATTCACCGGTATTTCGCCTGCTAGGCTCGAAGCCAGATATCAT
1 -TTCACCGGCATTTTGCCTGCTAGGCTCGAAGCCCGATATCAT
98996402 TTCACCGGCATTATTGCCTGCTAGGCTC
1 TTCACCGGCATT-TTGCCTGCTAGGCTC
98996430 AAAGGGCCGG
Statistics
Matches: 88, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
41 18 0.20
42 36 0.41
43 34 0.39
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (42 bp):
TTCACCGGCATTTTGCCTGCTAGGCTCGAAGCCCGATATCAT
Found at i:98996355 original size:84 final size:84
Alignment explanation
Indices: 98996249--98996426 Score: 302
Period size: 84 Copynumber: 2.1 Consensus size: 84
98996239 CCGGTATTCA
* * *
98996249 GCCTGCTAGGTTTAAAACCCGAATTCATTCACCGGCATTTTGCCTGCTAGGCTCGAAGCCCGATA
1 GCCTGCTAGGTTTAAAAACCGAATTCATTCACCGGCATTTCGCCTGCTAGGCTCGAAGCCAGATA
*
98996314 TCATTTCATCGGCATTATT
66 TCATTTCACCGGCATTATT
* *
98996333 GCCTGCTAGGTTTAAAAACCGAATTTATTCACCGGTATTTCGCCTGCTAGGCTCGAAGCCAGATA
1 GCCTGCTAGGTTTAAAAACCGAATTCATTCACCGGCATTTCGCCTGCTAGGCTCGAAGCCAGATA
98996398 TCATTTCACCGGCATTATT
66 TCATTTCACCGGCATTATT
98996417 GCCTGCTAGG
1 GCCTGCTAGG
98996427 CTCAAAGGGC
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (84 bp):
GCCTGCTAGGTTTAAAAACCGAATTCATTCACCGGCATTTCGCCTGCTAGGCTCGAAGCCAGATA
TCATTTCACCGGCATTATT
Found at i:99000589 original size:6 final size:6
Alignment explanation
Indices: 99000580--99000619 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
99000570 AAATTAGGAA
*
99000580 AAAAAT AAAAAT AAAAA- AAAAGT -AAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
99000620 GGCTAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 8 0.27
6 22 0.73
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:99000589 original size:17 final size:17
Alignment explanation
Indices: 99000563--99000617 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
99000553 AGAAGCAAAT
* *
99000563 AAAAGAAAAATTAGGAAA
1 AAAAGTAAAATTA-AAAA
*
99000581 AAAA-TAAAAATAAAAA
1 AAAAGTAAAATTAAAAA
99000597 AAAAGTAAAA-TAAAAA
1 AAAAGTAAAATTAAAAA
99000613 TAAAA
1 -AAAA
99000618 ATGGCTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 13 0.41
17 15 0.47
18 4 0.12
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (17 bp):
AAAAGTAAAATTAAAAA
Found at i:99000595 original size:11 final size:11
Alignment explanation
Indices: 99000581--99000617 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
99000571 AATTAGGAAA
99000581 AAAATAAAAAT
1 AAAATAAAAAT
99000592 AAAA-AAAAAGT
1 AAAATAAAAA-T
99000603 AAAATAAAAAT
1 AAAATAAAAAT
99000614 AAAA
1 AAAA
99000618 ATGGCTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.21
11 14 0.58
12 5 0.21
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:99000597 original size:16 final size:16
Alignment explanation
Indices: 99000578--99000617 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
99000568 AAAAATTAGG
99000578 AAAAAAA-TAAAAATAA
1 AAAAAAAGT-AAAATAA
99000594 AAAAAAAGTAAAATAA
1 AAAAAAAGTAAAATAA
99000610 AAATAAAA
1 AAA-AAAA
99000618 ATGGCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAAAAGTAAAATAA
Found at i:99006182 original size:19 final size:20
Alignment explanation
Indices: 99006158--99006196 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
99006148 TTTAGATCAT
*
99006158 TCAAATTTGG-TCAGTTCAA
1 TCAAATTTGGATCAATTCAA
99006177 TCAAATTTGGATCAATTCAA
1 TCAAATTTGGATCAATTCAA
99006197 GTCCAAGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCAAATTTGGATCAATTCAA
Found at i:99008813 original size:28 final size:27
Alignment explanation
Indices: 99008758--99008813 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
99008748 TAATTTACCC
* *
99008758 AAAATTTCCATAACACTTCTTATAAAT
1 AAAATTTCCATAACACTGCTTAAAAAT
* *
99008785 AAAATTTTCATAACACTGGTATAAAAAT
1 AAAATTTCCATAACACTGCT-TAAAAAT
99008813 A
1 A
99008814 CTTTTTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (27 bp):
AAAATTTCCATAACACTGCTTAAAAAT
Found at i:99013582 original size:15 final size:15
Alignment explanation
Indices: 99013564--99013593 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
99013554 CTTATCCTAT
99013564 TAGACACATCACTAC
1 TAGACACATCACTAC
99013579 TAGACACATCACTAC
1 TAGACACATCACTAC
99013594 AAGATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (15 bp):
TAGACACATCACTAC
Found at i:99013780 original size:61 final size:61
Alignment explanation
Indices: 99013711--99013831 Score: 190
Period size: 61 Copynumber: 2.0 Consensus size: 61
99013701 ATCAGACGGT
* *
99013711 AACCAATAC-AAAATAATTTAATTCAAACACAACCATTTCTGTCATGCACATGGTAGACAAC
1 AACCAATACAAAAATAATTT-ATACAAACACAACCATTTCTGTCATGCACATGGCAGACAAC
* *
99013772 AACCAATACAAAAATAATTTATACAAACACAACCATTTTTGTCATGCATATGGCAGACAA
1 AACCAATACAAAAATAATTTATACAAACACAACCATTTCTGTCATGCACATGGCAGACAA
99013832 TAACAGAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 45 0.82
62 10 0.18
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.25
Consensus pattern (61 bp):
AACCAATACAAAAATAATTTATACAAACACAACCATTTCTGTCATGCACATGGCAGACAAC
Found at i:99014076 original size:18 final size:18
Alignment explanation
Indices: 99014055--99014172 Score: 64
Period size: 18 Copynumber: 6.6 Consensus size: 18
99014045 CCCTAAATTG
*
99014055 AAATCCAAATTGAAATGA
1 AAATCAAAATTGAAATGA
* *
99014073 AAATCAAAATCGGAATCG-
1 AAATCAAAATTGAAAT-GA
*
99014091 AAATCGAAATTGAAATTG-
1 AAATCAAAATTGAAA-TGA
* *
99014109 AAAT-AAAAAT-AAGTGA
1 AAATCAAAATTGAAATGA
*** *
99014125 GTGTTTCAAAATTGAAATCA
1 --AAATCAAAATTGAAATGA
* *
99014145 AAATCAAAATCGAAATCA
1 AAATCAAAATTGAAATGA
99014163 AAATCAAAAT
1 AAATCAAAAT
99014173 CAAAATCAAA
Statistics
Matches: 74, Mismatches: 19, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
15 2 0.03
16 2 0.03
17 4 0.05
18 55 0.74
19 7 0.09
20 4 0.05
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (18 bp):
AAATCAAAATTGAAATGA
Found at i:99014111 original size:12 final size:12
Alignment explanation
Indices: 99014049--99014112 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
99014039 AAATAACCCT
*
99014049 AAATTGAAATCC
1 AAATTGAAATCG
99014061 AAATTGAAAT-G
1 AAATTGAAATCG
**
99014072 AAAATCAAAATCG
1 -AAATTGAAATCG
* *
99014085 GAATCGAAATCG
1 AAATTGAAATCG
*
99014097 AAATTGAAATTG
1 AAATTGAAATCG
99014109 AAAT
1 AAAT
99014113 AAAAATAAGT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 41 0.98
13 1 0.02
ACGTcount: A:0.53, C:0.09, G:0.14, T:0.23
Consensus pattern (12 bp):
AAATTGAAATCG
Found at i:99014148 original size:6 final size:6
Alignment explanation
Indices: 99014139--99014184 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
99014129 TTCAAAATTG
*
99014139 AAATCA AAATCA AAATCG AAATCA AAATCA AAATCA AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
99014185 TGAAATCGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.65, C:0.15, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:99014173 original size:18 final size:18
Alignment explanation
Indices: 99014130--99014196 Score: 98
Period size: 18 Copynumber: 3.7 Consensus size: 18
99014120 AGTGAGTGTT
*
99014130 TCAAAATTGAAATCAAAA
1 TCAAAATCGAAATCAAAA
99014148 TCAAAATCGAAATCAAAA
1 TCAAAATCGAAATCAAAA
*
99014166 TCAAAATCAAAATCAAAA
1 TCAAAATCGAAATCAAAA
**
99014184 TTGAAATCGAAAT
1 TCAAAATCGAAAT
99014197 AACCCTAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.60, C:0.13, G:0.06, T:0.21
Consensus pattern (18 bp):
TCAAAATCGAAATCAAAA
Found at i:99014190 original size:6 final size:6
Alignment explanation
Indices: 99014133--99014196 Score: 56
Period size: 6 Copynumber: 10.7 Consensus size: 6
99014123 GAGTGTTTCA
* * * * * * *
99014133 AAATTG AAATCA AAATCA AAATCG AAATCA AAATCA AAATCA AAATCA
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG
*
99014181 AAATTG AAATCG AAAT
1 AAATCG AAATCG AAAT
99014197 AACCCTAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.20
Consensus pattern (6 bp):
AAATCG
Found at i:99014222 original size:16 final size:16
Alignment explanation
Indices: 99014203--99014233 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99014193 AAATAACCCT
*
99014203 AAATAATCCTAAATCG
1 AAATAACCCTAAATCG
99014219 AAATAACCCTAAATC
1 AAATAACCCTAAATC
99014234 CAAAAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.23, G:0.03, T:0.23
Consensus pattern (16 bp):
AAATAACCCTAAATCG
Found at i:99018218 original size:22 final size:21
Alignment explanation
Indices: 99018188--99018253 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
99018178 TACAAATTAA
99018188 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
99018210 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
99018231 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
99018250 ATCT
1 ATCT
99018254 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:99018240 original size:19 final size:19
Alignment explanation
Indices: 99018205--99018338 Score: 213
Period size: 19 Copynumber: 7.2 Consensus size: 19
99018195 AGATTACAAG
99018205 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
99018226 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
99018245 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
99018262 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
99018281 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
99018298 ATCATATCTAGGATTGCAT
1 ATCATATCTAAGATTGCAT
99018317 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
99018336 ATC
1 ATC
99018339 CTTAAAGATT
Statistics
Matches: 107, Mismatches: 2, Indels: 10
0.90 0.02 0.08
Matches are distributed among these distances:
17 33 0.31
19 65 0.61
20 1 0.01
21 8 0.07
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:99018269 original size:36 final size:36
Alignment explanation
Indices: 99018205--99018332 Score: 211
Period size: 36 Copynumber: 3.4 Consensus size: 36
99018195 AGATTACAAG
99018205 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG--TATCATATCTAAGATTGCAT
99018245 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
*
99018281 ATCATATCTAAGATTGTATCATATCTAGGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
99018317 ATCATATCTAAGATTG
1 ATCATATCTAAGATTG
99018333 CATATCCTTA
Statistics
Matches: 87, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
36 71 0.82
38 7 0.08
39 1 0.01
40 8 0.09
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (36 bp):
ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
Found at i:99018279 original size:55 final size:54
Alignment explanation
Indices: 99018205--99018338 Score: 207
Period size: 55 Copynumber: 2.4 Consensus size: 54
99018195 AGATTACAAG
99018205 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTG-T
1 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG--TATCATATCTAAGATTGAT
*
99018262 ATCATATCTAAGATTGCATATCATATCTAAGATTGTATCATATCTAGGATTGCAT
1 ATCATATCTAAGATTGCATATCATATCTAAGATTGTATCATATCTAAGATTG-AT
99018317 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTGCATATC
99018339 CTTAAAGATT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
53 16 0.22
55 49 0.66
56 1 0.01
57 8 0.11
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (54 bp):
ATCATATCTAAGATTGCATATCATATCTAAGATTGTATCATATCTAAGATTGAT
Found at i:99022687 original size:175 final size:175
Alignment explanation
Indices: 99022381--99023279 Score: 1469
Period size: 175 Copynumber: 5.1 Consensus size: 175
99022371 GTAAACTCAT
* * * *
99022381 GAAAGCCAAATCTGCTATGTCTTCGATTT-TCTCCTTGTGAATACAAGGATGCCAAATCATCTTG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGT-TCCTTGTAAACACAAGAATGCCAAATCATCTTG
* * * *
99022445 GATCTGTTTCAGTA-AAATCATCTGAAGGTTAGATCTATTATGTATCTGCTCTCTGTTGAAATGG
65 GATCTGCTTCAGTATAAA-CATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
*
99022509 AGATGGCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
129 AGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
* * *
99022556 GAAAGTCAAATATGTTATGTCTTCGATTGGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
99022621 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAG
99022686 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
* * *
99022731 GAAAGTCAAATCTGCTATGTCTTCGATTTATTCCTTGTAAACACAGGAATACCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * * * *
99022796 ATCTGCTTTAGTATAAACATCTGAAAGTTAGATCTGCTATGTATCTGCTCTCTGTCGAAATGGAA
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAG
* * *
99022861 ATGCCAGACCTGTTATCTTGGATCTGCTTTTGTGTGAGAACATTC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
99022906 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * * *
99022971 ATCCGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTACTCTCCATCAAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAG
99023036 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
* *
99023081 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTATAAACACAAGAATGCCAAATCATCTTGA
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* *
99023146 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTACTCTCCGTCGAAATGGAT
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAG
*
99023211 ATGCCAGACCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
*
99023256 GAAAGTCAAATCTGTTATGTCTTC
1 GAAAGTCAAATCTGCTATGTCTTC
99023280 AGTATAAACA
Statistics
Matches: 673, Mismatches: 49, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
175 669 0.99
176 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
Found at i:99029099 original size:50 final size:50
Alignment explanation
Indices: 99029040--99029139 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
99029030 TGACATATGT
99029040 CTCGTTGAGCACCTTCATTAATGCATCCCTATGCACTTCAGAACTTAGAA
1 CTCGTTGAGCACCTTCATTAATGCATCCCTATGCACTTCAGAACTTAGAA
99029090 CTCGTTGAGCACCTTCATTAATGCATCCCTATGCACTTCAGAACTTAGAA
1 CTCGTTGAGCACCTTCATTAATGCATCCCTATGCACTTCAGAACTTAGAA
99029140 GTAGCATCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (50 bp):
CTCGTTGAGCACCTTCATTAATGCATCCCTATGCACTTCAGAACTTAGAA
Found at i:99031485 original size:14 final size:16
Alignment explanation
Indices: 99031454--99031486 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
99031444 CGATGCGATG
99031454 AAATGCTATGATATGC
1 AAATGCTATGATATGC
99031470 AAATGC-ATGA-ATGC
1 AAATGCTATGATATGC
99031484 AAA
1 AAA
99031487 AAGGACATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 4 0.24
16 6 0.35
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.24
Consensus pattern (16 bp):
AAATGCTATGATATGC
Found at i:99033277 original size:25 final size:25
Alignment explanation
Indices: 99033249--99033298 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
99033239 CACCGGAGTA
*
99033249 AGGCTGTGTACTCCTCTACAGTAGG
1 AGGCTGTGTACTCCTCTACAATAGG
99033274 AGGCTGTGTACTCCTCTACAATAGG
1 AGGCTGTGTACTCCTCTACAATAGG
99033299 TACTAAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (25 bp):
AGGCTGTGTACTCCTCTACAATAGG
Done.