Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 180 of 320
Found at i:59618321 original size:19 final size:19
Alignment explanation
Indices: 59618297--59618337 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
59618287 GTTATAATAT
*
59618297 TAATATTCCTTTAATATTA
1 TAATATTCATTTAATATTA
*
59618316 TAATATTCATTTCATATTA
1 TAATATTCATTTAATATTA
59618335 TAA
1 TAA
59618338 AACAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATTCATTTAATATTA
Found at i:59619135 original size:15 final size:15
Alignment explanation
Indices: 59619087--59619169 Score: 91
Period size: 15 Copynumber: 5.7 Consensus size: 15
59619077 TACAGATAAC
*
59619087 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
* *
59619101 AAGAAATCTA-AGATA
1 AAGAAACCCAGA-ATA
*
59619116 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
59619131 AAGAAACCCAGAATA
1 AAGAAACCCAGAATA
*
59619146 AAGAAATCCAGAATA
1 AAGAAACCCAGAATA
59619161 AAG-AACCCA
1 AAGAAACCCA
59619170 AGATACAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
14 13 0.22
15 44 0.76
16 1 0.02
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.10
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:59620258 original size:14 final size:14
Alignment explanation
Indices: 59620239--59620276 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
59620229 TATGTATATA
59620239 TCATAATTTTTTAT
1 TCATAATTTTTTAT
59620253 TCATAATTTTTTAT
1 TCATAATTTTTTAT
*
59620267 TCATACTTTT
1 TCATAATTTT
59620277 CTGAATCGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (14 bp):
TCATAATTTTTTAT
Found at i:59625693 original size:13 final size:13
Alignment explanation
Indices: 59625675--59625699 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59625665 TAATGGTATA
59625675 TTGAATCCATGAC
1 TTGAATCCATGAC
59625688 TTGAATCCATGA
1 TTGAATCCATGA
59625700 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:59626283 original size:27 final size:27
Alignment explanation
Indices: 59626245--59626422 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
59626235 TAAATTGTAC
*
59626245 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59626272 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59626298 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
59626326 GGCGCTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59626354 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59626381 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
59626408 AGCACTGAGGGTGCG
1 AGCACTAAGTGTGCG
59626423 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 103 0.82
28 22 0.18
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59626359 original size:82 final size:81
Alignment explanation
Indices: 59626249--59626401 Score: 227
Period size: 82 Copynumber: 1.9 Consensus size: 81
59626239 TTGTACAGCA
* *
59626249 CTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGC
1 CTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGTGC
59626313 GAATTGACCATGCGGCG
65 GAATTGACCATGCGGCG
** *
59626330 CTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGC
1 CTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGC
*
59626395 GAGTTGA
65 GAATTGA
59626402 TTATATAGCA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 11 0.17
82 52 0.81
83 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
CTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGCG
AATTGACCATGCGGCG
Found at i:59629135 original size:50 final size:51
Alignment explanation
Indices: 59629011--59629199 Score: 200
Period size: 50 Copynumber: 3.7 Consensus size: 51
59629001 AACCATGTCT
* * * *
59629011 TACACATAGTGGCCTGCACTTAGTACTACACATGTGATCGAAGCTATCGGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGCCATCGGG
* * *
59629062 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CCATCTGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGCCATCGGG
* * * * ****
59629112 TACACATAATAGCTTGCACTTAGTACTACACACGTGACCTAAAACCATTTTA
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AAGCCATCGGG
* * *
59629164 AACACATAGTATCCTGCACATAGTACTACACATGTG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTG
59629200 TTCTCACAAT
Statistics
Matches: 115, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
50 41 0.36
51 39 0.34
52 35 0.30
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (51 bp):
TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGCCATCGGG
Found at i:59636906 original size:27 final size:27
Alignment explanation
Indices: 59636876--59636930 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
59636866 ATCTCATATC
*
59636876 TGTAGGCTA-ATATTACTGAAATGCCCT
1 TGTAGGCTAGA-ATTACTGAAATACCCT
*
59636903 TGTAGGGTAGAATTACTGAAATACCCT
1 TGTAGGCTAGAATTACTGAAATACCCT
59636930 T
1 T
59636931 AGTTTACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (27 bp):
TGTAGGCTAGAATTACTGAAATACCCT
Found at i:59636943 original size:27 final size:27
Alignment explanation
Indices: 59636913--59637205 Score: 116
Period size: 27 Copynumber: 10.9 Consensus size: 27
59636903 TGTAGGGTAG
*
59636913 AATTACTGAAATACCCTTAGTTTACAA
1 AATTACTGAAATACCCTTAGTTTATAA
** * * *
59636940 AATTACCAAAATACTCCTGA-TTTGTGA
1 AATTACTGAAATAC-CCTTAGTTTATAA
* * ** *
59636967 AATTACCGAAATACCC-TCGACCTGTAA
1 AATTACTGAAATACCCTTAG-TTTATAA
**
59636994 AATTACTGAAATACCCTT-GACCTATAA
1 AATTACTGAAATACCCTTAG-TTTATAA
** * * ***
59637021 AATTACCAAAATACTCTCAACCTATAA
1 AATTACTGAAATACCCTTAGTTTATAA
*
59637048 AATTA-TCGAAATACCCTT-GATTTGTAA
1 AATTACT-GAAATACCCTTAG-TTTATAA
** * * **
59637075 AATTACCAAAATACCCCTAATTTGGAA
1 AATTACTGAAATACCCTTAGTTTATAA
* * **
59637102 AATTACCGAAATACCCTTAATTTGGAA
1 AATTACTGAAATACCCTTAGTTTATAA
* *
59637129 AATTA-TAGAAATACCCTTGACTTTAAAA
1 AATTACT-GAAATACCCTT-AGTTTATAA
* * * *
59637157 AATTA-TAAAATACCATTGGTTTACAA
1 AATTACTGAAATACCCTTAGTTTATAA
*
59637183 AATTA-TCGAAATACCCTTGGTTT
1 AATTACT-GAAATACCCTTAGTTT
59637206 GTAGATTTAC
Statistics
Matches: 209, Mismatches: 45, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
26 14 0.07
27 178 0.85
28 17 0.08
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACTGAAATACCCTTAGTTTATAA
Found at i:59636996 original size:54 final size:54
Alignment explanation
Indices: 59636938--59637133 Score: 207
Period size: 54 Copynumber: 3.6 Consensus size: 54
59636928 CTTAGTTTAC
* * * * *
59636938 AAAATTACCAAAATACTCC-TGATTTGTGAAATTACCGAAATACCCTCGACCTGT
1 AAAATTACCGAAATAC-CCTTGATTTGTAAAATTACCAAAATACCCTCAACCTAT
* ** * *
59636992 AAAATTACTGAAATACCCTTGACCTATAAAATTACCAAAATACTCTCAACCTAT
1 AAAATTACCGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCAACCTAT
* ** **
59637046 AAAATTATCGAAATACCCTTGATTTGTAAAATTACCAAAATACCC-CTAATTTGG
1 AAAATTACCGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTC-AACCTAT
* *
59637100 AAAATTACCGAAATACCCTTAATTTGGAAAATTA
1 AAAATTACCGAAATACCCTTGATTTGTAAAATTA
59637134 TAGAAATACC
Statistics
Matches: 117, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
53 3 0.03
54 114 0.97
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (54 bp):
AAAATTACCGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCAACCTAT
Found at i:59637051 original size:81 final size:81
Alignment explanation
Indices: 59636913--59637090 Score: 198
Period size: 81 Copynumber: 2.2 Consensus size: 81
59636903 TGTAGGGTAG
** * ** * *
59636913 AATTACTGAAATACCCTTAGTTTACAAAATTACCAAAATACTCCTGATTTGTGAAATTACCGAAA
1 AATTACTGAAATACCCTTAGCCTACAAAATTACCAAAATACTCCTAACCTATAAAATTACCGAAA
59636978 TACCCTCGACCTGTAA
66 TACCCTCGACCTGTAA
* *
59636994 AATTACTGAAATACCCTT-GACCTATAAAATTACCAAAATACT-CTCAACCTATAAAATTATCGA
1 AATTACTGAAATACCCTTAG-CCTACAAAATTACCAAAATACTCCT-AACCTATAAAATTACCGA
* **
59637057 AATACCCTTGATTTGTAA
64 AATACCCTCGACCTGTAA
**
59637075 AATTACCAAAATACCC
1 AATTACTGAAATACCC
59637091 CTAATTTGGA
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 3 0.04
81 78 0.96
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (81 bp):
AATTACTGAAATACCCTTAGCCTACAAAATTACCAAAATACTCCTAACCTATAAAATTACCGAAA
TACCCTCGACCTGTAA
Found at i:59637104 original size:81 final size:81
Alignment explanation
Indices: 59637019--59637170 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 81
59637009 CTTGACCTAT
* * * **
59637019 AAAATTACCAAAATACTCTCAACCTATAAAATTATCGAAATACCCTTGA-TTTGTAAAATTACCA
1 AAAATTACCAAAATACCCTCAACCTAGAAAATTATAGAAATACCCTTGACTTTAAAAAATTA-CA
59637083 AAATACCCCTAATTTGG
65 AAATACCCCTAATTTGG
* * ** * *
59637100 AAAATTACCGAAATACCCTTAATTTGGAAAATTATAGAAATACCCTTGACTTTAAAAAATTATAA
1 AAAATTACCAAAATACCCTCAACCTAGAAAATTATAGAAATACCCTTGACTTTAAAAAATTACAA
59637165 AATACC
66 AATACC
59637171 ATTGGTTTAC
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 49 0.83
82 10 0.17
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAACCTAGAAAATTATAGAAATACCCTTGACTTTAAAAAATTACAA
AATACCCCTAATTTGG
Found at i:59637185 original size:81 final size:81
Alignment explanation
Indices: 59637046--59637200 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 81
59637036 CTCAACCTAT
* ** * **
59637046 AAAATTATCGAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTAATTTGGAAAATTACCGA
1 AAAATTATAGAAATACCCTTGATTTAAAAAATTACCAAAATACCACTAATTTACAAAATTACCGA
59637111 AATACCCTTAATTTGG
66 AATACCCTTAATTTGG
* * ** *
59637127 AAAATTATAGAAATACCCTTGACTTTAAAAAATTA-TAAAATACCATTGGTTTACAAAATTATCG
1 AAAATTATAGAAATACCCTTGA-TTTAAAAAATTACCAAAATACCACTAATTTACAAAATTACCG
59637191 AAATACCCTT
65 AAATACCCTT
59637201 GGTTTGTAGA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
81 52 0.84
82 10 0.16
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (81 bp):
AAAATTATAGAAATACCCTTGATTTAAAAAATTACCAAAATACCACTAATTTACAAAATTACCGA
AATACCCTTAATTTGG
Found at i:59637732 original size:22 final size:21
Alignment explanation
Indices: 59637683--59637735 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 21
59637673 AATTGTTCTA
59637683 ATTATGGCTTTGTACCAACCT
1 ATTATGGCTTTGTACCAACCT
*
59637704 ACATATGGCTTTGTACCAACCT
1 A-TTATGGCTTTGTACCAACCT
59637726 GATTATGGCT
1 -ATTATGGCT
59637736 GTGTGCGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 26 0.93
23 1 0.04
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (21 bp):
ATTATGGCTTTGTACCAACCT
Found at i:59649312 original size:26 final size:26
Alignment explanation
Indices: 59649283--59649335 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
59649273 AATCACAAAG
59649283 ATCAATTCAAGCAGATCAATATATTC
1 ATCAATTCAAGCAGATCAATATATTC
59649309 ATCAATTCAAGCAGATCAATATATTC
1 ATCAATTCAAGCAGATCAATATATTC
59649335 A
1 A
59649336 CTAAGTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (26 bp):
ATCAATTCAAGCAGATCAATATATTC
Found at i:59651198 original size:51 final size:51
Alignment explanation
Indices: 59651111--59651345 Score: 168
Period size: 51 Copynumber: 4.6 Consensus size: 51
59651101 GTACCTTCTT
* * * * * * * *
59651111 CACAAAGTGGCCTTCACATAGTACCACACTTGTGATCAAAACCATCTGTTA
1 CACATAGTAGCCTGCACTTAGTACTACACATATGATCAAAACCATCTGGTA
** * * * *
59651162 CACATAGTTTCCTGCACTTAGTACTACACATATGATCGAAGCTATCGGGTA
1 CACATAGTAGCCTGCACTTAGTACTACACATATGATCAAAACCATCTGGTA
* * * ** **
59651213 CGCATAGTAGCCTGCACTTAATACTATACATGCGA-CCTAACCATCTGGTA
1 CACATAGTAGCCTGCACTTAGTACTACACATATGATCAAAACCATCTGGTA
* * * * * **
59651263 CACGTAGTAGCCTGCACTTAGTGCTACACACATGACCTAAAACCATTTGAAA
1 CACATAGTAGCCTGCACTTAGTACTACACATATGATC-AAAACCATCTGGTA
**
59651315 CACATAGTAGCCTAG-AAATAGTACTACACAT
1 CACATAGTAGCCT-GCACTTAGTACTACACAT
59651346 GTGTTCTCAC
Statistics
Matches: 138, Mismatches: 43, Indels: 5
0.74 0.23 0.03
Matches are distributed among these distances:
50 37 0.27
51 67 0.49
52 33 0.24
53 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (51 bp):
CACATAGTAGCCTGCACTTAGTACTACACATATGATCAAAACCATCTGGTA
Found at i:59651300 original size:50 final size:50
Alignment explanation
Indices: 59651150--59651345 Score: 169
Period size: 50 Copynumber: 3.9 Consensus size: 50
59651140 TTGTGATCAA
* ** * *
59651150 AACCATCTGTTACACATAGTTTCCTGCACTTAGTACTACACATATGATCG
1 AACCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATATGACCT
* * * * * **
59651200 AAGCTATCGGGTACGCATAGTAGCCTGCACTTAATACTATACATGCGACCT
1 AA-CCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATATGACCT
* * *
59651251 AACCATCTGGTACACGTAGTAGCCTGCACTTAGTGCTACACACATGACCT
1 AACCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATATGACCT
* ** **
59651301 AAAACCATTTGAAACACATAGTAGCCTAG-AAATAGTACTACACAT
1 --AACCATCTGGTACACATAGTAGCCT-GCACTTAGTACTACACAT
59651346 GTGTTCTCAC
Statistics
Matches: 112, Mismatches: 30, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
50 40 0.36
51 38 0.34
52 33 0.29
53 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (50 bp):
AACCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATATGACCT
Found at i:59651735 original size:31 final size:30
Alignment explanation
Indices: 59651700--59651758 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
59651690 CTAAATTCAC
*
59651700 ATTTTGGCAAAATTTAAATTTTTGCCCCTCA
1 ATTTTGGC-AAATTTAAACTTTTGCCCCTCA
* * *
59651731 ATTTTGTCATATTTACACTTTTGCCCCT
1 ATTTTGGCAAATTTAAACTTTTGCCCCT
59651759 AGGCTCGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.46
Consensus pattern (30 bp):
ATTTTGGCAAATTTAAACTTTTGCCCCTCA
Found at i:59669089 original size:32 final size:31
Alignment explanation
Indices: 59669038--59669117 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 31
59669028 ATACCAATTC
*
59669038 AGACCAGTCCTATATATATATATAATACATTG
1 AGACTAGT-CTATATATATATATAATACATTG
59669070 AGACTAGTC---ATATATATATAATACATTG
1 AGACTAGTCTATATATATATATAATACATTG
59669098 AGACTAGTC-ATATATATATA
1 AGACTAGTCTATATATATATA
59669118 CATGTCATGA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
28 28 0.62
30 9 0.20
31 1 0.02
32 7 0.16
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (31 bp):
AGACTAGTCTATATATATATATAATACATTG
Found at i:59669091 original size:28 final size:28
Alignment explanation
Indices: 59669051--59669117 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
59669041 CCAGTCCTAT
59669051 ATATATATATAATACATTGAGACTAGTC
1 ATATATATATAATACATTGAGACTAGTC
59669079 ATATATATATAATACATTGAGACTAGTC
1 ATATATATATAATACATTGAGACTAGTC
59669107 ATATATATATA
1 ATATATATATA
59669118 CATGTCATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (28 bp):
ATATATATATAATACATTGAGACTAGTC
Found at i:59669191 original size:16 final size:17
Alignment explanation
Indices: 59669163--59669207 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 17
59669153 TTATAAACAC
59669163 ATATCATATATTTCATT
1 ATATCATATATTTCATT
59669180 ATATCA-ATATTTCA-T
1 ATATCATATATTTCATT
*
59669195 ATACCATA-ATTTC
1 ATATCATATATTTC
59669208 CATGTATTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 11 0.42
16 9 0.35
17 6 0.23
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATCATATATTTCATT
Found at i:59674659 original size:63 final size:65
Alignment explanation
Indices: 59674580--59674734 Score: 158
Period size: 67 Copynumber: 2.4 Consensus size: 65
59674570 ATATAGTTTG
* * * *
59674580 GCTCTCTTGTAC-ACATGGTGAACAC-TCA-GTACCACCCATGTGACCTAGCCA-ATTTATCTCG
1 GCTCTCTTGT-CTACATGGTG-ACACTTCACGAACCACCCATGCGACCTAGCCACATATATCCCG
59674641 TA
64 TA
* * *
59674643 GCTCTCTTGTCTACATGGTGTC-CTTCACCTGGAACCACGCATGCGACCTAGCTACATATATCCC
1 GCTCTCTTGTCTACATGGTGACACTTCA-C--GAACCACCCATGCGACCTAGCCACATATATCCC
59674707 GTA
63 GTA
59674710 GCTCTCTTGTCTACATGGTGTACAC
1 GCTCTCTTGTCTACATGGTG-ACAC
59674735 ATAGTATCAC
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
61 1 0.01
62 5 0.07
63 18 0.24
66 19 0.25
67 30 0.40
68 1 0.01
69 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGACACTTCACGAACCACCCATGCGACCTAGCCACATATATCCCGTA
Found at i:59676239 original size:45 final size:44
Alignment explanation
Indices: 59676124--59676245 Score: 156
Period size: 47 Copynumber: 2.7 Consensus size: 44
59676114 AGGTTATTTG
*
59676124 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGAGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGACTAGAGA
* *
59676168 TGTAAGCCAGTGTAAAACATTGTCTGGGACATGCATC-GACTGCGAGA
1 TGT--GCCAGTGTAAGACA-TGTCTGGGACATGCATCGGACT-AGAGA
*
59676215 TGTGTCAGTGTAAGACCATGTCTGGGACATG
1 TGTGCCAGTGTAAGA-CATGTCTGGGACATG
59676246 GCATGGGCAT
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
44 3 0.04
45 23 0.34
46 18 0.26
47 24 0.35
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (44 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGACTAGAGA
Found at i:59684845 original size:34 final size:34
Alignment explanation
Indices: 59684802--59684873 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
59684792 CCCATACTCG
59684802 TAACCCACGCCAGAGCGAAATACGAGGCATTACC
1 TAACCCACGCCAGAGCGAAATACGAGGCATTACC
59684836 TAACCCACGCCAGAGCGAAATACGAGGCATTACC
1 TAACCCACGCCAGAGCGAAATACGAGGCATTACC
59684870 TAAC
1 TAAC
59684874 TCGATCTCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.36, C:0.32, G:0.19, T:0.12
Consensus pattern (34 bp):
TAACCCACGCCAGAGCGAAATACGAGGCATTACC
Found at i:59687425 original size:29 final size:29
Alignment explanation
Indices: 59687383--59687529 Score: 140
Period size: 29 Copynumber: 5.2 Consensus size: 29
59687373 GTGAGCATGA
* *
59687383 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
* * *
59687411 ATATAAAGGTGATTTGGGCCTAATAGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
* * *
59687440 ATTTGAAGATGAATTGGGCCTGATGGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
* * *
59687469 ACATGAATGTGAATTGGGCCTGATGGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
* *
59687498 ATTTGAA--TGAAATGGGCC-AAGTGGGCC
1 ATATGAAGGTGAATTGGGCCTAA-TGGGCC
59687525 ATATG
1 ATATG
59687530 CATGTATGTA
Statistics
Matches: 100, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 20 0.20
28 4 0.04
29 75 0.75
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
ATATGAAGGTGAATTGGGCCTAATGGGCC
Found at i:59688989 original size:46 final size:46
Alignment explanation
Indices: 59688795--59689065 Score: 155
Period size: 46 Copynumber: 5.8 Consensus size: 46
59688785 TGGGGTAAAG
* * *
59688795 TGCCGATGCCATATCCCAGACATGGTCTTACAC-ATGCTCTAGCATATCTG-
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTA-GCACT--CGTATC-GA
* * * *
59688845 TGCCGATGCTGTGTCCCAGACATAGTCTTACACT-G-ACACATCTCG-
1 TGCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCACTCGTATCGA
* * * *
59688890 TAGCCGATACATGTCCCAGACATGTCTTACACT-G-ATTTATGTCTCGA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCA-CT-CGTATCGA
* *
59688937 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTTTCGA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTATCGA
* ** * * * *
59688983 TCCCGATGCCATGTTTCAAACATGGTCTTACACTGGCTCTCATAAT-G-
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGT-ATCGA
*
59689030 TGGCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTAGC
59689066 TCAAAATAAC
Statistics
Matches: 177, Mismatches: 32, Indels: 28
0.75 0.14 0.12
Matches are distributed among these distances:
44 12 0.07
45 14 0.08
46 71 0.40
47 25 0.14
48 24 0.14
49 3 0.02
50 28 0.16
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTATCGA
Found at i:59693330 original size:43 final size:42
Alignment explanation
Indices: 59693268--59693391 Score: 162
Period size: 43 Copynumber: 3.0 Consensus size: 42
59693258 TACCATACCA
* **
59693268 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCAAATTG
1 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCAAATTG
* * *
59693310 ATGCCAATAGCCTAGCTATGGTCTTACACGAAATCTCATATTG
1 ATGCC-ATATCCTAGATATGGTCTTACACGAAATCTCAAATTG
59693353 ATGCCATATCC-AGATATGGTCTTACACGTAAA-CTCAAAT
1 ATGCCATATCCTAGATATGGTCTTACACG-AAATCTCAAAT
59693392 AACCCTAATG
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
41 22 0.31
42 13 0.18
43 36 0.51
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGAAATCTCAAATTG
Found at i:59701333 original size:28 final size:28
Alignment explanation
Indices: 59701254--59701471 Score: 204
Period size: 24 Copynumber: 8.4 Consensus size: 28
59701244 GGGAAATTAC
59701254 TCACTTAGCACCA-TGCCATGGACTTATT
1 TCACTTAGCA-CATTGCCATGGACTTATT
59701282 TCACTTAG---ATT-CCATGGAC--ATT
1 TCACTTAGCACATTGCCATGGACTTATT
*
59701304 TCACTTAGCACATTGCCGTGGACTTATT
1 TCACTTAGCACATTGCCATGGACTTATT
*
59701332 TCACTTAG---A-TGCCATGGTCTTATT
1 TCACTTAGCACATTGCCATGGACTTATT
* *
59701356 TCACTTAGCGCATTGTCATGGACTTATT
1 TCACTTAGCACATTGCCATGGACTTATT
* * *
59701384 TCAC-TA--AGA-TGCCATTGTCTTATT
1 TCACTTAGCACATTGCCATGGACTTATT
59701408 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACATTGCCATGGACTTATT
***
59701436 TCACTTAG---A-TGCCATGCTTTTATT
1 TCACTTAGCACATTGCCATGGACTTATT
59701460 TCACTTAGCACA
1 TCACTTAGCACA
59701472 ATGTCATATC
Statistics
Matches: 156, Mismatches: 16, Indels: 37
0.75 0.08 0.18
Matches are distributed among these distances:
22 11 0.07
24 66 0.42
25 9 0.06
26 7 0.04
27 6 0.04
28 57 0.37
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (28 bp):
TCACTTAGCACATTGCCATGGACTTATT
Found at i:59701379 original size:52 final size:52
Alignment explanation
Indices: 59701254--59701471 Score: 325
Period size: 52 Copynumber: 4.2 Consensus size: 52
59701244 GGGAAATTAC
* *
59701254 TCACTTAGCACCA-TGCCATGGACTTATTTCACTTAGATTCCATGGAC--ATT
1 TCACTTAGCA-CATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTTATT
*
59701304 TCACTTAGCACATTGCCGTGGACTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTTATT
* * * *
59701356 TCACTTAGCGCATTGTCATGGACTTATTTCACTAAGATGCCATTGTCTTATT
1 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTTATT
* *
59701408 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCATGCTTTTATT
1 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTTATT
59701460 TCACTTAGCACA
1 TCACTTAGCACA
59701472 ATGTCATATC
Statistics
Matches: 151, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
49 2 0.01
50 41 0.27
52 108 0.72
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (52 bp):
TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTTATT
Found at i:59701402 original size:30 final size:28
Alignment explanation
Indices: 59701270--59701440 Score: 100
Period size: 28 Copynumber: 6.6 Consensus size: 28
59701260 AGCACCATGC
* *
59701270 CATGGACTTATTTCACTTA--G-ATT-C
1 CATGGACTTATTTCACTAAGCGCATTGT
* * *
59701294 CATGGAC--ATTTCACTTAGCACATTGC
1 CATGGACTTATTTCACTAAGCGCATTGT
* * *
59701320 CGTGGACTTATTTCACTTA--G-A-TGC
1 CATGGACTTATTTCACTAAGCGCATTGT
* *
59701344 CATGGTCTTATTTCACTTAGCGCATTGT
1 CATGGACTTATTTCACTAAGCGCATTGT
*
59701372 CATGGACTTATTTCACTAA--G-A-TGC
1 CATGGACTTATTTCACTAAGCGCATTGT
* * * * *
59701396 CATTGTCTTATTTCACTTAGCACATTGC
1 CATGGACTTATTTCACTAAGCGCATTGT
59701424 CATGGACTTATTTCACT
1 CATGGACTTATTTCACT
59701441 TAGATGCCAT
Statistics
Matches: 118, Mismatches: 15, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
22 10 0.08
24 45 0.38
25 5 0.04
26 9 0.08
27 2 0.02
28 47 0.40
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (28 bp):
CATGGACTTATTTCACTAAGCGCATTGT
Found at i:59712863 original size:64 final size:64
Alignment explanation
Indices: 59712782--59712966 Score: 178
Period size: 67 Copynumber: 2.9 Consensus size: 64
59712772 ACACATTATG
* *
59712782 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGCAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGCAGACAAGAGAGCTACGAGATAA
* * * * * * *
59712846 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGCAGACAAGAGAGCTACGAGAT
59712911 AA
63 AA
* * * * *
59712913 ACTG--GCTAGGTCACATGGGTGGTACTATCTGTTCACCATGTC-CACAAGAGAGCT
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG-CAGACAAGAGAGCT
59712967 GAACTATATG
Statistics
Matches: 96, Mismatches: 20, Indels: 11
0.76 0.16 0.09
Matches are distributed among these distances:
63 19 0.20
64 21 0.22
65 8 0.08
66 16 0.17
67 30 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGCAGACAAGAGAGCTACGAGATAA
Found at i:59717307 original size:64 final size:64
Alignment explanation
Indices: 59717226--59717409 Score: 183
Period size: 67 Copynumber: 2.8 Consensus size: 64
59717216 AGACATTATG
* * *
59717226 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGCATACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTATACAAGAGAGCTACGAGATAA
* * * * * * * *
59717290 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAAAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTATACAAGAGAGCTACGAGAT
59717355 AA
63 AA
* * * *
59717357 ACTG--GCTAGGTCACATGGGTGGTACTATGTGTTCACCATGTGTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTATACAAGAGAGC
59717410 CGAACTATAT
Statistics
Matches: 94, Mismatches: 22, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
63 18 0.19
64 22 0.23
65 8 0.09
66 16 0.17
67 28 0.30
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTATACAAGAGAGCTACGAGATAA
Found at i:59722902 original size:25 final size:25
Alignment explanation
Indices: 59722873--59722920 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59722863 TTATAATATG
** *
59722873 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
59722898 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
59722921 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:59723104 original size:25 final size:26
Alignment explanation
Indices: 59723052--59723146 Score: 126
Period size: 25 Copynumber: 3.8 Consensus size: 26
59723042 GAGGAAGTGC
*
59723052 AAAAGGGC-TATGCCCCAG-TTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
59723076 AAAAGGGC-TTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
* *
59723101 AAAAGGGCTTTTGCCCTAGTTTATC-
1 AAAAGGGCTTTTGCCCCAGTTTACCG
*
59723126 AAAAGGGCTTTTGACCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
59723147 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.27
25 33 0.52
26 14 0.22
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCG
Found at i:59723159 original size:25 final size:25
Alignment explanation
Indices: 59723051--59723159 Score: 93
Period size: 25 Copynumber: 4.4 Consensus size: 25
59723041 AGAGGAAGTG
* * *
59723051 CAAAAGGGC-TATGCCCCAG-TTAC
1 CAAAAGGGCTTTTGCCCTAGTTTAT
* *
59723074 CGAAAAGGGC-TTTGCCCCAGTTTAC
1 C-AAAAGGGCTTTTGCCCTAGTTTAT
59723099 CGAAAAGGGCTTTTGCCCTAGTTTAT
1 C-AAAAGGGCTTTTGCCCTAGTTTAT
59723125 CAAAAGGGCTTTTGACCC-AG-TTAT
1 CAAAAGGGCTTTTG-CCCTAGTTTAT
*
59723149 TAAAAGAGGCT
1 CAAAAG-GGCT
59723160 AGGCCTCCAG
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.01
24 26 0.34
25 33 0.43
26 17 0.22
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
CAAAAGGGCTTTTGCCCTAGTTTAT
Found at i:59723404 original size:31 final size:31
Alignment explanation
Indices: 59723365--59723440 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
59723355 ATTGTTGCAG
59723365 TAAAGGCTTCGGCCCAGTGATATGAATAATGA
1 TAAAGGCTTCGGCCCAGTGATATGAATAAT-A
59723397 -AAAGGCTTCGGCCCAGTGATATGAATAATA
1 TAAAGGCTTCGGCCCAGTGATATGAATAATA
59723427 TAAAGGCTTCGGCC
1 TAAAGGCTTCGGCC
59723441 AGGTATATGC
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
30 1 0.02
31 42 0.98
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (31 bp):
TAAAGGCTTCGGCCCAGTGATATGAATAATA
Found at i:59726613 original size:45 final size:41
Alignment explanation
Indices: 59726523--59726628 Score: 104
Period size: 45 Copynumber: 2.5 Consensus size: 41
59726513 AATGCCACTT
* * * *
59726523 TCCCAGACAGGGTCTTACACGAATCAAATACGATGCCGATG
1 TCCCAGACATGGTCTTACACGAACCAAATACGATGCCAACG
*
59726564 TCCCAGACATGGTCTTACACGTAACCACATATATTGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AACCA-A-ATA-CGATGCCAACG
* **
59726609 TCCCACAGGTGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
59726629 AAAATCACAT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 20 0.38
42 4 0.08
43 1 0.02
44 3 0.06
45 25 0.47
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (41 bp):
TCCCAGACATGGTCTTACACGAACCAAATACGATGCCAACG
Found at i:59730599 original size:14 final size:15
Alignment explanation
Indices: 59730580--59730608 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59730570 TCACAAAATT
59730580 TTCACACAT-ATAAA
1 TTCACACATAATAAA
59730594 TTCACACATAATAAA
1 TTCACACATAATAAA
59730609 CTGAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:59735665 original size:39 final size:38
Alignment explanation
Indices: 59735607--59735793 Score: 182
Period size: 39 Copynumber: 4.8 Consensus size: 38
59735597 GAATGATAAC
* * *
59735607 CGGG-TAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
59735645 CGGGCTAAGTCTCAAAGGCATTTGTGCGAGTTACTATATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC--TATT
*
59735685 CGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* *
59735723 CCGGGC-AAGTCTCGAAGGCATTTGTGCGAGTTACTACATC
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT--ATT
* * * *
59735763 CGGGATATGTCCCGAAGGCATTCGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
59735794 AGCTATATCC
Statistics
Matches: 124, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
37 3 0.02
38 8 0.06
39 78 0.63
40 31 0.25
41 4 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (38 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
Found at i:59735741 original size:78 final size:79
Alignment explanation
Indices: 59735606--59735805 Score: 248
Period size: 78 Copynumber: 2.5 Consensus size: 79
59735596 CGAATGATAA
* * *
59735606 CCGGGTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T-CGGGCTAAGTCTCAAAGGCATTTG
1 CCGGGTAAGTCCCGAAGGCATTTGAGCGAGTTACTA-TATCCGGGCTAAGTCTCAAAGGCATTTG
*
59735669 TGCGAGTTACTATAT
65 TGCGAGTTACTACAT
* * *
59735684 TCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC-AAGTCTCGAAGGCATTTG
1 CCGGG-TAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGGCTAAGTCTCAAAGGCATTTG
59735747 TGCGAGTTACTACAT
65 TGCGAGTTACTACAT
* *
59735762 CCGGGATATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCCGG
1 CCGGG-TAAGTCCCGAAGGCATTTGAGCGAGTTA-CTATATCCGG
59735806 TTAAATCACG
Statistics
Matches: 106, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 68 0.64
79 37 0.35
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (79 bp):
CCGGGTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGGCTAAGTCTCAAAGGCATTTGT
GCGAGTTACTACAT
Found at i:59735818 original size:79 final size:78
Alignment explanation
Indices: 59735659--59735819 Score: 207
Period size: 79 Copynumber: 2.1 Consensus size: 78
59735649 CTAAGTCTCA
* * * * *
59735659 AAGGCATTTGTGCGAGTTACTATATTCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTATATC
1 AAGGCATTTGTGCGAGTTACTACATCCGGGATAAGCCCGAAGGCATTCGAGCGAGTTACTATATC
* *
59735724 CGGGCAAGTCTCG
66 CGGGCAAATCACG
*
59735737 AAGGCATTTGTGCGAGTTACTACATCCGGGATATGTCCCGAAGGCATTCGAGCGAG-TAGCTATA
1 AAGGCATTTGTGCGAGTTACTACATCCGGGATAAG-CCCGAAGGCATTCGAGCGAGTTA-CTATA
**
59735801 TCCGGTTAAATCACG
64 TCCGGGCAAATCACG
59735816 AAGG
1 AAGG
59735820 TACCTGGCTT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
78 33 0.46
79 38 0.54
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (78 bp):
AAGGCATTTGTGCGAGTTACTACATCCGGGATAAGCCCGAAGGCATTCGAGCGAGTTACTATATC
CGGGCAAATCACG
Found at i:59738092 original size:22 final size:23
Alignment explanation
Indices: 59738067--59738109 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
59738057 AAAGCCGAGG
59738067 AGCTCAGTAT-GGAG-AAAAGAAA
1 AGCTCA-TATGGGAGCAAAAGAAA
*
59738089 AGCTGATATGGGAGCAAAAGA
1 AGCTCATATGGGAGCAAAAGA
59738110 GTTTCGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 3 0.17
22 9 0.50
23 6 0.33
ACGTcount: A:0.47, C:0.09, G:0.30, T:0.14
Consensus pattern (23 bp):
AGCTCATATGGGAGCAAAAGAAA
Found at i:59743735 original size:40 final size:40
Alignment explanation
Indices: 59743669--59743846 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
59743659 CGGAAGATAA
59743669 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
59743709 TCGGGTTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
59743749 CCGGGCTAAGTTCTGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
59743789 CCGGGCTATGTCCCAAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
59743829 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
59743847 TACCTGGCTT
Statistics
Matches: 117, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 14 0.12
40 103 0.88
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:59752629 original size:42 final size:43
Alignment explanation
Indices: 59752561--59752673 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
59752551 ATGATTTAGG
* * * * *
59752561 TGTAACACCACATCTGGGACGTTGGCATC-GTATTTGATTTCA
1 TGTAAGACCACGTCTGAGACGTTGGCATCAATATTTGATTACA
59752603 TGTAAGACC-CTGTCTGAGACAG-TGGCATCAATATTTGATTACA
1 TGTAAGACCAC-GTCTGAGAC-GTTGGCATCAATATTTGATTACA
59752646 TGTAAGACCACGTCTGAGACGTTGGCAT
1 TGTAAGACCACGTCTGAGACGTTGGCAT
59752674 TGTGTGAGCT
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.02
42 23 0.38
43 36 0.59
44 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGAGACGTTGGCATCAATATTTGATTACA
Found at i:59756512 original size:14 final size:14
Alignment explanation
Indices: 59756493--59756526 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
59756483 TGCATGTGTG
59756493 AAATTTTCGTATGA
1 AAATTTTCGTATGA
59756507 AAATTTTCGTATGA
1 AAATTTTCGTATGA
59756521 AAATTT
1 AAATTT
59756527 AATTGTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (14 bp):
AAATTTTCGTATGA
Found at i:59778437 original size:43 final size:43
Alignment explanation
Indices: 59778371--59778494 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 43
59778361 TCACATATTG
* * * * * *
59778371 ATGCCACTGTCCCAAACAGGGTCTTATACG-AATTCA-TATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAA-TCACAAT-ACA
59778414 ATGCCAATG-CCCTAGACATGGTCTTACACGTAATCACAATACA
1 ATGCCAATGTCCC-AGACATGGTCTTACACGTAATCACAATACA
* *
59778457 ATGCCAATGTCCCAGACATGGTCATACATGTAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
59778495 TCTCGGTAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
42 3 0.04
43 59 0.86
44 7 0.10
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACA
Found at i:59784247 original size:15 final size:15
Alignment explanation
Indices: 59784227--59784262 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
59784217 TTTTATGTTA
*
59784227 GATTTCTATATTATG
1 GATTTCTACATTATG
*
59784242 GATTTCTCCATTATG
1 GATTTCTACATTATG
59784257 GATTTC
1 GATTTC
59784263 CTTATCTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.50
Consensus pattern (15 bp):
GATTTCTACATTATG
Found at i:59786573 original size:17 final size:17
Alignment explanation
Indices: 59786551--59786593 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
59786541 GGGGCTATGT
59786551 GGGCCCAATGGGCCTAC
1 GGGCCCAATGGGCCTAC
59786568 GGGCCCAATGGGCCTAC
1 GGGCCCAATGGGCCTAC
*
59786585 GGTCCCAAT
1 GGGCCCAAT
59786594 TGGATAAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.19, C:0.35, G:0.33, T:0.14
Consensus pattern (17 bp):
GGGCCCAATGGGCCTAC
Found at i:59786805 original size:27 final size:27
Alignment explanation
Indices: 59786787--59786863 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 27
59786777 ATACGCTTAG
*
59786787 TTTGTAAAAATACTAAAATACCCTCGA
1 TTTGTAAAAATACTAAAATACCCTAGA
* * * *
59786814 TTTGTAAAATTACTGAAATACCTTCGA
1 TTTGTAAAAATACTAAAATACCCTAGA
* * * *
59786841 CTTGTAAAATTACCAAAGTACCC
1 TTTGTAAAAATACTAAAATACCC
59786864 CCGATTTACA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
TTTGTAAAAATACTAAAATACCCTAGA
Found at i:59786832 original size:54 final size:54
Alignment explanation
Indices: 59786764--59786870 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
59786754 TTTAGTTTAC
* * *
59786764 TAAAATCACCGAAATACGCTTAG-TTTGTAAAAATACTAAAATACCCTCGATTTG
1 TAAAATCACCGAAATAC-CTTAGACTTGTAAAAATACCAAAATACCCCCGATTTG
* * * * *
59786818 TAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATTT
1 TAAAATCACCGAAATACCTTAGACTTGTAAAAATACCAAAATACCCCCGATTT
59786871 ACAGAATTAC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 4 0.09
54 40 0.91
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (54 bp):
TAAAATCACCGAAATACCTTAGACTTGTAAAAATACCAAAATACCCCCGATTTG
Found at i:59786889 original size:27 final size:27
Alignment explanation
Indices: 59786859--59787066 Score: 249
Period size: 27 Copynumber: 7.7 Consensus size: 27
59786849 ATTACCAAAG
* *
59786859 TACCCCCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
59786886 TACCCTTGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
59786913 TAATCC-CGATTTACATAATTACTGTTT
1 T-ACCCTCGATTTACAGAATTACCGTTT
* *
59786940 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
59786967 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
59786994 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
59787021 TACCTTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
59787048 TACCCTCGATTTACA-AATT
1 TACCCTCGATTTACAGAATT
59787067 TACTAAAATA
Statistics
Matches: 155, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
26 7 0.05
27 145 0.94
28 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:59787078 original size:27 final size:26
Alignment explanation
Indices: 59787048--59787161 Score: 81
Period size: 27 Copynumber: 4.2 Consensus size: 26
59787038 ATTACTGTTT
*
59787048 TACCCTCGATTTACAAATTTACTAAAA
1 TACCCTCGATTTACAAA-TTACCAAAA
* * ** *
59787075 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTT-ACAAATTACCAAAA
*
59787102 TACCCTCAATTTGTA-AAATTACCAAAA
1 TACCCTCGA-TT-TACAAATTACCAAAA
59787129 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-GATTTACAAA-TTACCA-AAA
59787156 TACCCT
1 TACCCT
59787162 TGACTTTCTA
Statistics
Matches: 67, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
25 2 0.03
26 8 0.12
27 51 0.76
28 5 0.07
29 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.31
Consensus pattern (26 bp):
TACCCTCGATTTACAAATTACCAAAA
Found at i:59787211 original size:27 final size:27
Alignment explanation
Indices: 59787172--59787223 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
59787162 TGACTTTCTA
59787172 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
59787199 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
59787224 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:59787341 original size:27 final size:27
Alignment explanation
Indices: 59787264--59787341 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
59787254 AAATGACTAA
* *
59787264 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
59787291 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
59787318 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
59787342 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:59788536 original size:25 final size:25
Alignment explanation
Indices: 59788500--59788547 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59788490 TTATAACATG
* * *
59788500 AAAATGATCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
59788525 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
59788548 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:59791437 original size:47 final size:47
Alignment explanation
Indices: 59791383--59791694 Score: 473
Period size: 47 Copynumber: 6.6 Consensus size: 47
59791373 TTAGGATTTT
** * *
59791383 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
59791430 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
59791477 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
59791524 ATGTGATGAATATGAACATGCATATATGTGATAAGGCCTAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
59791571 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
59791618 ATGTGATGAATGTGGACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
59791665 ATGTGATGAATGTGAA-AGTGTATATATGTG
1 ATGTGATGAATGTGAACA-TGCATATATGTG
59791695 GCGAAGCCGA
Statistics
Matches: 242, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 241 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:59791483 original size:22 final size:22
Alignment explanation
Indices: 59791456--59791530 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
59791446 CATGCATATG
59791456 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
59791478 TGTGATGAATGTG-AGCAT-G-CATA
1 TGTGAT-AA-G-GCCGAATGGCCA-A
59791501 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
59791525 TGTGAT
1 TGTGAT
59791531 GAATATGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:59791624 original size:22 final size:22
Alignment explanation
Indices: 59791597--59791671 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
59791587 CATGCATATG
*
59791597 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
* ** *
59791619 TGTGATGAATGTGGACAT-GCATATA
1 TGTGAT-AAGGCAGA-ATGGC-CA-A
59791644 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
59791666 TGTGAT
1 TGTGAT
59791672 GAATGTGAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 13 0.32
23 10 0.25
24 10 0.25
25 7 0.17
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:59792845 original size:20 final size:20
Alignment explanation
Indices: 59792820--59792860 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
59792810 GGGTGTTACA
*
59792820 TATGATATGCACATGATATG
1 TATGATATGCACATGAGATG
59792840 TATGATATGCACATGAGATG
1 TATGATATGCACATGAGATG
59792860 T
1 T
59792861 TCATAAATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGAGATG
Found at i:59792937 original size:23 final size:23
Alignment explanation
Indices: 59792907--59793048 Score: 230
Period size: 23 Copynumber: 6.1 Consensus size: 23
59792897 AGGAAGTGCA
59792907 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
59792930 AAAGGGCTTATGCCTCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
59792953 AAAGGGCTTGTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
59792976 AAAGGGCTTGTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
59792999 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
59793022 AAAAGGGCTTTTGTCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
59793046 AAA
1 AAA
59793049 AGAGGCTAGG
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
23 91 0.81
24 21 0.19
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:59793300 original size:31 final size:31
Alignment explanation
Indices: 59793262--59793325 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
59793252 CGTTTACAGT
*
59793262 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
59793293 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59793324 AA
1 AA
59793326 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:59796924 original size:47 final size:47
Alignment explanation
Indices: 59796666--59797200 Score: 800
Period size: 47 Copynumber: 11.1 Consensus size: 47
59796656 GAAATGATAG
*
59796666 TAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
59796715 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
59796766 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
59796817 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
59796866 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
59796913 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
59796960 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
59797007 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
59797056 TAGGGCCTAATGGCCGAGGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
59797103 TAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
59797150 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
59797197 TAAG
1 TAAG
59797201 TCCCGAAGGG
Statistics
Matches: 459, Mismatches: 23, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
47 231 0.50
49 128 0.28
51 100 0.22
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:59797052 original size:190 final size:190
Alignment explanation
Indices: 59796666--59797200 Score: 827
Period size: 190 Copynumber: 2.8 Consensus size: 190
59796656 GAAATGATAG
*
59796666 TAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
59796731 ATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
64 ATGTGATGAATGTGAAAGTGTATATAT-GA-G-G-TAAGGCCTAATGGCCGATGTGATGAATGTG
59796796 AAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
125 AAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
59796861 TGTGA
186 TGTGA
*
59796866 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
59796931 GTGATGAATGTGAAAGTGTATATATGAGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGAGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
59796996 TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
131 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * *
59797056 TAGGGCCTAATGGCCGAGGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* ** * * * * * *
59797121 GTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGAGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
59797186 TATAAATGTGATAAG
131 TATATATGTGATAAG
59797201 TCCCGAAGGG
Statistics
Matches: 316, Mismatches: 19, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
190 189 0.60
194 36 0.11
195 1 0.00
196 1 0.00
197 1 0.00
198 53 0.17
200 35 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (190 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGAGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:59797063 original size:143 final size:144
Alignment explanation
Indices: 59796665--59797200 Score: 814
Period size: 143 Copynumber: 3.7 Consensus size: 144
59796655 TGAAATGATA
*
59796665 GTAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCC
59796730 GATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
65 GATGTGATGAATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
59796795 GAAAGTGTATATATATATG
128 GAAAGTGTATATAT-GA-G
59796814 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
1 -G-TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGG
*
59796879 CCGATGTGATGAATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGT
63 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
59796942 GAAAGTGTATATATGAG
128 GAAAGTGTATATATGAG
*
59796959 GTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATACGTGATAAGGCCTAATGGCCG
1 GTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCG
* *
59797023 ATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGAGGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
59797088 AGTGTATATATGTG
131 AGTGTATATATGAG
* * * * * * *
59797102 ATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGACAGGGCCGAGTGGCCA
1 GTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCG
* *
59797166 ACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
59797201 TCCCGAAGGG
Statistics
Matches: 364, Mismatches: 19, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
141 55 0.15
142 1 0.00
143 167 0.46
144 1 0.00
145 1 0.00
146 1 0.00
147 53 0.15
150 1 0.00
151 84 0.23
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (144 bp):
GTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGAG
Found at i:59797375 original size:37 final size:37
Alignment explanation
Indices: 59797319--59797397 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
59797309 CCGAGCTCTA
* * *
59797319 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
59797356 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
59797393 AAGAC
1 AAGAC
59797398 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:59807417 original size:28 final size:28
Alignment explanation
Indices: 59807350--59807418 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
59807340 CAATGCCTCA
* *
59807350 CACACTAAGTGCCATACCCAATATCTCG
1 CACACTAAGTGTCACACCCAATATCTCG
* *
59807378 CACACTAAGTGTCACACTCAATATCTTG
1 CACACTAAGTGTCACACCCAATATCTCG
59807406 CACACTAAGTGTC
1 CACACTAAGTGTC
59807419 GTACATGGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.25
Consensus pattern (28 bp):
CACACTAAGTGTCACACCCAATATCTCG
Found at i:59816885 original size:27 final size:27
Alignment explanation
Indices: 59816874--59817248 Score: 409
Period size: 27 Copynumber: 13.9 Consensus size: 27
59816864 AATGCCCTCA
*
59816874 ATTTGTAAAATTACTAAAATACCCCTG
1 ATTTGTAAAATTACCAAAATACCCCTG
*
59816901 GTTTGTAAAATTACCAAAATACCCCT-
1 ATTTGTAAAATTACCAAAATACCCCTG
59816927 AGTTTGTAAAATTACCAAAATACCCCTG
1 A-TTTGTAAAATTACCAAAATACCCCTG
* * *
59816955 GTTTGTGAAATTACCAAAATACCCCTA
1 ATTTGTAAAATTACCAAAATACCCCTG
* **
59816982 ATTTGTGAAATTACTGAAATA-CCCTCG
1 ATTTGTAAAATTACCAAAATACCCCT-G
* * *
59817009 ACTTATAAAATTACCAAAATACCCCTA
1 ATTTGTAAAATTACCAAAATACCCCTG
* * *
59817036 ATTTGTGAAATTACTAAAATACCCTTG
1 ATTTGTAAAATTACCAAAATACCCCTG
* *
59817063 ACTTGTAAAATTACCAAAATACCCTTG
1 ATTTGTAAAATTACCAAAATACCCCTG
* **
59817090 GTTTACAAAATTACCAAAATACCCCT-
1 ATTTGTAAAATTACCAAAATACCCCTG
59817116 AGTTTGTAAAATTACCAAAATACCCCTG
1 A-TTTGTAAAATTACCAAAATACCCCTG
* * *
59817144 ATTTGTGAAATTACCGAAATA-CCCTC
1 ATTTGTAAAATTACCAAAATACCCCTG
* *
59817170 AGTTTGCAAAATTACTAAAATA-CCCTCG
1 A-TTTGTAAAATTACCAAAATACCCCT-G
* *
59817198 ATTTGTAAAATTACTAAAATACCCTTG
1 ATTTGTAAAATTACCAAAATACCCCTG
* *
59817225 ACTTGTAAAAATTACCAAAGTACC
1 ATTTGT-AAAATTACCAAAATACC
59817249 TTCGATTTAC
Statistics
Matches: 292, Mismatches: 46, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
26 9 0.03
27 259 0.89
28 24 0.08
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
ATTTGTAAAATTACCAAAATACCCCTG
Found at i:59817326 original size:27 final size:27
Alignment explanation
Indices: 59817296--59817480 Score: 273
Period size: 27 Copynumber: 6.9 Consensus size: 27
59817286 AAAATTATTG
*
59817296 AATACCCCTGTAGGGTAGAACTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
*
59817323 AATA-CCCTGTAGGGTAGAATTATCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
59817349 AATACCCCTGTAGGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
59817376 AATACCCTTGTAGGGTAGAATTACTGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
59817403 AATACCCTTGTAGGGTAGAATTACTGA
1 AATACCCCTGTAGGGTAGAATTACCGA
59817430 AATACCCCTGTAGGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* * * *
59817457 GATACCCTTGTGGGGTAAAATTAC
1 AATACCCCTGTAGGGTAGAATTAC
59817481 TATTTTGCCC
Statistics
Matches: 146, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
26 24 0.16
27 122 0.84
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAGAATTACCGA
Found at i:59817722 original size:25 final size:25
Alignment explanation
Indices: 59817684--59817753 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
59817674 AGGAAGTGCT
* *
59817684 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
59817709 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
59817734 AAAAAGGCTTTACCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
59817754 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:59817755 original size:24 final size:25
Alignment explanation
Indices: 59817696--59817766 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 25
59817686 AAGGGCTATG
* * * *
59817696 CCCCAGTTTACCGAAAAGGGCTTTG
1 CCCCAGTTTATCAAAAAAGGCTTTA
59817721 CCCCAGTTTATCAAAAAAGGCTTTA
1 CCCCAGTTTATCAAAAAAGGCTTTA
* *
59817746 CCCCAG-TTATTAAAAGAGGCT
1 CCCCAGTTTATCAAAAAAGGCT
59817767 AGGCCTCCAG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 13 0.32
25 27 0.68
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (25 bp):
CCCCAGTTTATCAAAAAAGGCTTTA
Found at i:59824777 original size:40 final size:40
Alignment explanation
Indices: 59824713--59824791 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
59824703 AAACAGTACC
* * *
59824713 ACTTGGTGTGTAAGGCTAGATGGGTTGATTTTATCCCCAT
1 ACTTGGTATGTAAGGCTAGATGGGTCGATTGTATCCCCAT
* * *
59824753 ACTTGGTATGTAGGGCTGGGTGGGTCGATTGTATCCCCA
1 ACTTGGTATGTAAGGCTAGATGGGTCGATTGTATCCCCA
59824792 CATGGTGTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.18, C:0.16, G:0.32, T:0.34
Consensus pattern (40 bp):
ACTTGGTATGTAAGGCTAGATGGGTCGATTGTATCCCCAT
Found at i:59828699 original size:21 final size:20
Alignment explanation
Indices: 59828658--59828699 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
59828648 TCTCATTTTC
*
59828658 TACCTTCTTCTTTACTCACT
1 TACCTTCTTCTTTACTAACT
59828678 TACCTTCTT-TCTTACCTAACT
1 TACCTTCTTCT-TTA-CTAACT
59828699 T
1 T
59828700 TTCACTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 1 0.05
20 12 0.63
21 6 0.32
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (20 bp):
TACCTTCTTCTTTACTAACT
Found at i:59828912 original size:52 final size:53
Alignment explanation
Indices: 59828850--59828949 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 53
59828840 TGTCTTCGAC
* *
59828850 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATATATAT-ATATATAAT
1 ATGGACTTACATGAATCATTCCTATCTCCAAAGCCATATATATGATATATAAT
* **
59828902 ATGGGCTTACATGGCTCATTCCTATCTCCAAAGCCATATATATGATAT
1 ATGGACTTACATGAATCATTCCTATCTCCAAAGCCATATATATGATAT
59828950 GGACTTACAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 38 0.90
53 4 0.10
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (53 bp):
ATGGACTTACATGAATCATTCCTATCTCCAAAGCCATATATATGATATATAAT
Found at i:59829349 original size:30 final size:30
Alignment explanation
Indices: 59829315--59829375 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
59829305 TCCTTTACTC
*
59829315 AAACTTTT-CAAAAATTACATTTTTGCCCCT
1 AAACTTTTGC-AAAATTACACTTTTGCCCCT
* *
59829345 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
59829375 A
1 A
59829376 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:59831370 original size:27 final size:27
Alignment explanation
Indices: 59831340--59831399 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
59831330 CACAACATTA
59831340 CTCATAGTGATTAATATGTATATGATC
1 CTCATAGTGATTAATATGTATATGATC
*
59831367 CTCATAGTGATTAATATGTATATGATT
1 CTCATAGTGATTAATATGTATATGATC
59831394 CTCATA
1 CTCATA
59831400 CTTGAGATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (27 bp):
CTCATAGTGATTAATATGTATATGATC
Found at i:59834142 original size:44 final size:43
Alignment explanation
Indices: 59834049--59834156 Score: 108
Period size: 44 Copynumber: 2.5 Consensus size: 43
59834039 ATTTATGAAC
* * *
59834049 TCGCACACTTAGTGCCAATTAAATAGCCGAAGTTATAATAATA
1 TCGCACACTTAGTGCCATTTAAATAACCGAACTTATAATAATA
* * * * **
59834092 TTGCACACTTAGTGCCATTTCATTAAACCGAACTTATATTGGTA
1 TCGCACACTTAGTGCCATTTAAAT-AACCGAACTTATAATAATA
* *
59834136 TCGCACATTTAGTACCATTTA
1 TCGCACACTTAGTGCCATTTA
59834157 TTCAGTCATC
Statistics
Matches: 51, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
43 20 0.39
44 31 0.61
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (43 bp):
TCGCACACTTAGTGCCATTTAAATAACCGAACTTATAATAATA
Found at i:59835297 original size:26 final size:27
Alignment explanation
Indices: 59835268--59835323 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
59835258 TGCTCAATAC
59835268 AGTCATACAT-CTCATAAGGGCATAAT
1 AGTCATACATCCTCATAAGGGCATAAT
*** *
59835294 AGTCATTTTTCCTCATAGGGGCATAAT
1 AGTCATACATCCTCATAAGGGCATAAT
59835321 AGT
1 AGT
59835324 TATTTATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (27 bp):
AGTCATACATCCTCATAAGGGCATAAT
Found at i:59835601 original size:78 final size:78
Alignment explanation
Indices: 59835504--59835656 Score: 252
Period size: 78 Copynumber: 2.0 Consensus size: 78
59835494 GCCTTAGCCA
59835504 TGTGAACTACACAGCCTGGCCCAATCTTCTCCACACGTCTATGTGGTTTACCCGTGTAGGCCCAC
1 TGTGAACTACACAGCCTGGCCCAATCTTCTCCACACGTCTATGTGGTTTACCCGTGTAGGCCCAC
59835569 ATGCCCGTGGTCG
66 ATGCCCGTGGTCG
** * * *
59835582 TGTGAACTACACATTCTGGCCCAATCTTCTCTACACGTCTATGTGGTTTACCCGTGTGGGCCCAT
1 TGTGAACTACACAGCCTGGCCCAATCTTCTCCACACGTCTATGTGGTTTACCCGTGTAGGCCCAC
*
59835647 ATGCTCGTGG
66 ATGCCCGTGG
59835657 GGCCTACACA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.18, C:0.31, G:0.23, T:0.29
Consensus pattern (78 bp):
TGTGAACTACACAGCCTGGCCCAATCTTCTCCACACGTCTATGTGGTTTACCCGTGTAGGCCCAC
ATGCCCGTGGTCG
Found at i:59840979 original size:15 final size:15
Alignment explanation
Indices: 59840938--59840979 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
59840928 ATTTCAACTC
59840938 TTTGAGTTATTTCTCT
1 TTTGA-TTATTTCTCT
*
59840954 TTATGA-GATTTCTCT
1 TT-TGATTATTTCTCT
59840969 TTTGATTATTT
1 TTTGATTATTT
59840980 TAGAGGTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
14 3 0.14
15 14 0.64
16 2 0.09
17 3 0.14
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTGATTATTTCTCT
Found at i:59842376 original size:3 final size:3
Alignment explanation
Indices: 59842368--59842396 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
59842358 TGATAACAGC
59842368 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
59842397 GTTGTTGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:59844211 original size:21 final size:21
Alignment explanation
Indices: 59844187--59844226 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59844177 CAAAATAACG
*
59844187 TAGTTTGGCCTTTTAACTTGA
1 TAGTTTGGACTTTTAACTTGA
*
59844208 TAGTTTTGACTTTTAACTT
1 TAGTTTGGACTTTTAACTT
59844227 TAAAAAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.12, G:0.15, T:0.53
Consensus pattern (21 bp):
TAGTTTGGACTTTTAACTTGA
Found at i:59844541 original size:17 final size:17
Alignment explanation
Indices: 59844521--59844574 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
59844511 GATTCCAAAA
59844521 TTATTATTTTTTATTTT
1 TTATTATTTTTTATTTT
*
59844538 TTATATTTTTTTTATTTT
1 TTAT-TATTTTTTATTTT
** *
59844556 TTAAAATTTTTAATTTT
1 TTATTATTTTTTATTTT
59844573 TT
1 TT
59844575 TTAAAATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 16 0.52
18 15 0.48
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTATTATTTTTTATTTT
Found at i:59844544 original size:9 final size:9
Alignment explanation
Indices: 59844527--59844574 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
59844517 AAAATTATTA
59844527 TTTTT-TAT
1 TTTTTATAT
59844535 TTTTTATAT
1 TTTTTATAT
*
59844544 TTTTTTTAT
1 TTTTTATAT
* *
59844553 TTTTTAAAA
1 TTTTTATAT
59844562 TTTTTA-AT
1 TTTTTATAT
59844570 TTTTT
1 TTTTT
59844575 TTAAAATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 11 0.32
9 23 0.68
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTATAT
Found at i:59844550 original size:18 final size:19
Alignment explanation
Indices: 59844522--59844558 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
59844512 ATTCCAAAAT
59844522 TATTATTTTTTATTTTTTA
1 TATTATTTTTTATTTTTTA
59844541 TATT-TTTTTTATTTTTTA
1 TATTATTTTTTATTTTTTA
59844559 AAATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (19 bp):
TATTATTTTTTATTTTTTA
Found at i:59844564 original size:19 final size:19
Alignment explanation
Indices: 59844527--59844581 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
59844517 AAAATTATTA
*
59844527 TTTTTTATTTTTT-ATATT
1 TTTTTTATTTTTTAAAATT
59844545 TTTTTTATTTTTTAAAATT
1 TTTTTTATTTTTTAAAATT
*
59844564 TTTAATT-TTTTTTAAAAT
1 TTT-TTTATTTTTTAAAAT
59844582 ATAAATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 13 0.39
19 18 0.55
20 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTTATTTTTTAAAATT
Found at i:59844565 original size:18 final size:18
Alignment explanation
Indices: 59844527--59844581 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
59844517 AAAATTATTA
* *
59844527 TTTTTTATTTTTTATATT
1 TTTTTTATTTTTTAAAAT
59844545 TTTTTTATTTTTTAAAAT
1 TTTTTTATTTTTTAAAAT
59844563 TTTTAATT-TTTTTTAAAAT
1 TTTT--TTATTTTTTAAAAT
59844582 ATAAATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 20 0.61
19 11 0.33
20 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTATTTTTTAAAAT
Found at i:59844588 original size:18 final size:19
Alignment explanation
Indices: 59844552--59844590 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59844542 ATTTTTTTTA
* *
59844552 TTTTTTAAAATTTTTAATT
1 TTTTTTAAAATTATAAATT
59844571 TTTTTTAAAA-TATAAATT
1 TTTTTTAAAATTATAAATT
59844589 TT
1 TT
59844591 AAAACTTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTTAAAATTATAAATT
Found at i:59846458 original size:21 final size:21
Alignment explanation
Indices: 59846423--59846463 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59846413 TCAACTATAA
*
59846423 TAAATTTGAAGAATTGACAAC
1 TAAATTTGAAGAATTAACAAC
59846444 TAAAGTTTGAA-AATTAACAA
1 TAAA-TTTGAAGAATTAACAA
59846464 TTATGTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.29
Consensus pattern (21 bp):
TAAATTTGAAGAATTAACAAC
Found at i:59852725 original size:11 final size:11
Alignment explanation
Indices: 59852705--59852773 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
59852695 TTGAATCGTG
59852705 TTTT-ATATTT
1 TTTTAATATTT
59852715 TTTTAATATTT
1 TTTTAATATTT
59852726 TTTT--TA-TT
1 TTTTAATATTT
59852734 TTTTAA-A-TT
1 TTTTAATATTT
*
59852743 TTTT-ATGAATT
1 TTTTAAT-ATTT
*
59852754 ATTTAATAATTT
1 TTTTAAT-ATTT
59852766 TTTTAATA
1 TTTTAATA
59852774 GAAACTGAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
8 7 0.15
9 9 0.19
10 5 0.10
11 16 0.33
12 11 0.23
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.70
Consensus pattern (11 bp):
TTTTAATATTT
Found at i:59852733 original size:20 final size:19
Alignment explanation
Indices: 59852713--59852770 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
59852703 TGTTTTATAT
59852713 TTTTTTAATATTTTTTTTA
1 TTTTTTAATATTTTTTTTA
*
59852732 TTTTTTAA-ATTTTTTATGAA
1 TTTTTTAATATTTTTT-T-TA
* *
59852752 TTATTTAATAATTTTTTTA
1 TTTTTTAATATTTTTTTTA
59852771 ATAGAAACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 7 0.22
19 10 0.31
20 9 0.28
21 6 0.19
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTTAATATTTTTTTTA
Found at i:59864062 original size:38 final size:38
Alignment explanation
Indices: 59864001--59864187 Score: 191
Period size: 38 Copynumber: 4.8 Consensus size: 38
59863991 ATTTGACGTG
* *
59864001 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGAATTA
59864041 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
* **
59864079 TATCTGGGTTAAATCTAGCAGGCTTCGTGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * *
59864117 TGTCCGGGTTAAATCCCGCAGG-TCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGAATTA
* * *
59864155 TATCTGAGCTTAAAGTCCCGCAGGCTTAGTGCT
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCT
59864188 AGTAACTGGA
Statistics
Matches: 126, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
37 4 0.03
38 84 0.67
39 13 0.10
40 24 0.19
41 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:59864114 original size:76 final size:78
Alignment explanation
Indices: 59864008--59864187 Score: 233
Period size: 76 Copynumber: 2.3 Consensus size: 78
59863998 GTGTATCCGG
* * *
59864008 GCTTAAAGACCCGCAGGCTATA-TGCTGGAATTATATCCGGGTTAAATCCCGCAGG-CTTCGTGC
1 GCTTAAAGTCCAGCAGGCT-TAGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGTC-TAGTGC
59864071 TGGTAATATATCTG-
64 TGGTAATATATCTGA
* * * *
59864085 GGTTAAA-TCTAGCAGGCTTCGTGCTGGAATTATGTCCGGGTTAAATCCCGCAGGTCTAGTGCTG
1 GCTTAAAGTCCAGCAGGCTTAGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGTCTAGTGCTG
*
59864149 GTATTATATCTGA
66 GTAATATATCTGA
*
59864162 GCTTAAAGTCCCGCAGGCTTAGTGCT
1 GCTTAAAGTCCAGCAGGCTTAGTGCT
59864188 AGTAACTGGA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
75 1 0.01
76 58 0.67
77 13 0.15
78 15 0.17
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (78 bp):
GCTTAAAGTCCAGCAGGCTTAGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGTCTAGTGCTG
GTAATATATCTGA
Found at i:59865044 original size:19 final size:19
Alignment explanation
Indices: 59865020--59865065 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
59865010 GTTACAACAT
59865020 GGGCGTGTTGAAGACACAC
1 GGGCGTGTTGAAGACACAC
59865039 GGGCGTGTTGAAGACACAC
1 GGGCGTGTTGAAGACACAC
59865058 GGGCGTGT
1 GGGCGTGT
59865066 CCCTAAGTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.22, C:0.20, G:0.41, T:0.17
Consensus pattern (19 bp):
GGGCGTGTTGAAGACACAC
Found at i:59866625 original size:119 final size:120
Alignment explanation
Indices: 59866443--59866665 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
59866433 TCCTCGTTCA
*
59866443 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
59866508 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
59866563 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
59866625 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
59866666 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:59866665 original size:40 final size:40
Alignment explanation
Indices: 59866441--59866665 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
59866431 GCTCCTCGTT
* *
59866441 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59866481 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59866521 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59866561 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
59866600 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
59866641 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59866666 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:59873939 original size:119 final size:120
Alignment explanation
Indices: 59873757--59873979 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
59873747 TCCTCGTTCA
*
59873757 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAT
* *
59873822 TTAGTAAC-TCGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
* * **
59873877 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCCGG
* * * *
59873939 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGAGACTTAACCCGGA
59873980 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:59873979 original size:40 final size:40
Alignment explanation
Indices: 59873755--59873979 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
59873745 GCTCCTCGTT
* *
59873755 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
59873795 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
59873835 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59873875 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
59873914 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
59873955 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59873980 CATCATTCAA
Statistics
Matches: 160, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 115 0.72
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:59876630 original size:46 final size:46
Alignment explanation
Indices: 59876563--59876731 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
59876553 AACCCGCCCC
* *
59876563 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* * *
59876609 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
59876657 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
59876702 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
59876732 TGGATGCTCA
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 55 0.55
47 27 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:59876676 original size:93 final size:93
Alignment explanation
Indices: 59876568--59876738 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
59876558 GCCCCTAAGT
* *
59876568 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
59876633 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
59876661 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
59876726 CGAGTTTGGATGC
66 CGAGTTCGGATGC
59876739 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:59888249 original size:15 final size:14
Alignment explanation
Indices: 59888202--59888260 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 14
59888192 GGTTTTGTAA
59888202 CTTGGATTTCTTAAT
1 CTTGGATTTCTT-AT
59888217 CTTGGGAGTTTCTTTAT
1 CTT-GGA-TTTC-TTAT
59888234 CTTGGATTTCTCTAT
1 CTTGGATTTCT-TAT
*
59888249 CTTGGACTTCTT
1 CTTGGATTTCTT
59888261 TATTGGGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
14 2 0.05
15 20 0.51
16 6 0.15
17 9 0.23
18 2 0.05
ACGTcount: A:0.14, C:0.17, G:0.17, T:0.53
Consensus pattern (14 bp):
CTTGGATTTCTTAT
Found at i:59904144 original size:33 final size:34
Alignment explanation
Indices: 59904066--59904147 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
59904056 GTTTCAGTTA
* * *
59904066 GGGCCTTAGCCCATTTCAGTAATAGTAGTAGTCT
1 GGGCCTAAGCCCATTTCAGTAACAGTAGTAGTCG
* *
59904100 GGGCCTGAGCCCATTTCAGTAACAGTATTAGT-G
1 GGGCCTAAGCCCATTTCAGTAACAGTAGTAGTCG
59904133 GGGCCTAAGCCCATT
1 GGGCCTAAGCCCATT
59904148 ACAATGTCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 14 0.33
34 29 0.67
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (34 bp):
GGGCCTAAGCCCATTTCAGTAACAGTAGTAGTCG
Found at i:59916657 original size:11 final size:11
Alignment explanation
Indices: 59916641--59916667 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
59916631 TAGAAATTAG
59916641 TTTGTGAAACT
1 TTTGTGAAACT
59916652 TTTGTGAAACT
1 TTTGTGAAACT
59916663 TTTGT
1 TTTGT
59916668 ATTGATTTTT
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:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:59918200 original size:93 final size:92
Alignment explanation
Indices: 59918068--59918262 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
59918058 TTGATTTTAG
* *
59918068 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
59918132 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
59918160 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
59918225 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
59918253 CAAATTCATA
1 TAAATTCATA
59918263 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:59918320 original size:17 final size:17
Alignment explanation
Indices: 59918295--59918328 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59918285 ATAATTTTAA
*
59918295 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
59918312 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
59918329 TTAATATTAA
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:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:59918330 original size:15 final size:16
Alignment explanation
Indices: 59918295--59918333 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
59918285 ATAATTTTAA
*
59918295 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
59918312 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
59918327 ATTTAAT
1 ATTTAAT
59918334 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:59918337 original size:17 final size:18
Alignment explanation
Indices: 59918299--59918338 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
59918289 TTTTAAATTT
*
59918299 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
59918317 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
59918333 TATTAA
1 TATTAA
59918339 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:59918453 original size:15 final size:15
Alignment explanation
Indices: 59918418--59918469 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
59918408 TTAAGAATTT
*
59918418 TATTAAATTAT-ATA
1 TATTTAATTATAATA
59918432 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
59918446 TATTTAATAATAAT-
1 TATTTAATTATAATA
59918460 TATGTTAATT
1 TAT-TTAATT
59918470 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:59918460 original size:120 final size:120
Alignment explanation
Indices: 59918294--59918585 Score: 459
Period size: 120 Copynumber: 2.4 Consensus size: 120
59918284 AATAATTTTA
* * *
59918294 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATATTAATTAT-TTGAAATTT-TCT
1 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTT--AATTTATAT
* *
59918355 TTTATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAAT-TTTATTTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTT-TTAAG
59918413 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
59918478 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
59918533 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
59918586 TAAATATGAT
Statistics
Matches: 162, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
119 23 0.14
120 128 0.79
121 11 0.07
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
Found at i:59918550 original size:59 final size:59
Alignment explanation
Indices: 59918367--59918550 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
59918357 TATAGTATCA
* *
59918367 TATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
* * * * * * * *
59918426 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTAT
1 TATATTATGATTTGAGTA-AAT-TCATATAAGAAT-ATTAT-TT-ATTAAGAATTTTATTA-AAT
59918485 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTT-TTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATT-ATTTATTAAGAATTTTATTAAAT
59918546 TATAT
1 TATAT
59918551 ATTTTAATTA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 7 0.08
61 12 0.13
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
Found at i:59918568 original size:16 final size:16
Alignment explanation
Indices: 59918547--59918588 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
59918537 TTATTAAATT
*
59918547 ATATATTTTAATTATA
1 ATATATTTTAATAATA
59918563 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
59918578 AT-TATGTTTAA
1 ATATAT-TTTAA
59918589 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:59918573 original size:15 final size:15
Alignment explanation
Indices: 59918538--59918579 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
59918528 TTAAGAATTT
*
59918538 TATTAAATTAT-ATA
1 TATTTAATTATAATA
59918552 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
59918566 TATTTAATAATAAT
1 TATTTAATTATAAT
59918580 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:59918699 original size:154 final size:156
Alignment explanation
Indices: 59918522--59918835 Score: 569
Period size: 154 Copynumber: 2.0 Consensus size: 156
59918512 ATAAGAATAT
* *
59918522 TAATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
59918587 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAAT
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
59918650 AATAATTTACCAAAACAAATTTATGC
131 AATAATTTACCAAAACAAATTTATGC
59918676 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
59918741 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAA
* *
59918806 TAATCATTTACCAAAACAAATTTCTGC
130 TAATAATTTACCAAAACAAATTTATGC
59918833 TAA
1 TAA
59918836 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
154 91 0.59
155 2 0.01
157 60 0.39
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTATGC
Found at i:59918716 original size:18 final size:17
Alignment explanation
Indices: 59918688--59918722 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59918678 ATTATTAAGA
*
59918688 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59918705 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59918723 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59918756 original size:75 final size:75
Alignment explanation
Indices: 59918523--59918758 Score: 203
Period size: 75 Copynumber: 3.1 Consensus size: 75
59918513 TAAGAATATT
* *
59918523 AATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
59918588 AATATGATTA
66 AATATGATTA
* ** * * * * * * *
59918598 AATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT-TA
1 AATTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATATTTAATAATAATTATG
*** * *
59918659 CCAAAACA-AATTTA
62 TTTAAATATGA-TTA
59918673 TGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 ----AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
59918738 TTTAAATATGATTA
62 TTTAAATATGATTA
59918752 AATTATT
1 AATTATT
59918759 TATTATTGAT
Statistics
Matches: 115, Mismatches: 32, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
74 1 0.01
75 29 0.25
76 28 0.24
77 6 0.05
78 27 0.23
79 23 0.20
80 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:59918976 original size:16 final size:16
Alignment explanation
Indices: 59918955--59918993 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
59918945 TTGATTTGCT
*
59918955 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
59918971 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
59918987 ATTACAC
1 ATTACAC
59918994 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:59918994 original size:16 final size:16
Alignment explanation
Indices: 59918968--59919024 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
59918958 ACACAGCTTT
* *
59918968 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
59918984 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
59919000 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
59919016 TCCAATACA
1 TCCAATACA
59919025 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:59925281 original size:17 final size:17
Alignment explanation
Indices: 59925259--59925293 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
59925249 CATAATATGC
59925259 ACTAAATATAGACATAA
1 ACTAAATATAGACATAA
59925276 ACTAAATATAGACATAA
1 ACTAAATATAGACATAA
59925293 A
1 A
59925294 TCTATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (17 bp):
ACTAAATATAGACATAA
Found at i:59925509 original size:17 final size:17
Alignment explanation
Indices: 59925487--59925521 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
59925477 CATAATATGC
59925487 ACTAAATATAGACATAA
1 ACTAAATATAGACATAA
59925504 ACTAAATATAGACATAA
1 ACTAAATATAGACATAA
59925521 A
1 A
59925522 TCTATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (17 bp):
ACTAAATATAGACATAA
Found at i:59925644 original size:228 final size:229
Alignment explanation
Indices: 59925241--59925687 Score: 815
Period size: 228 Copynumber: 2.0 Consensus size: 229
59925231 CATGACTAAC
59925241 TAAGTCATCATAATATGCACTAAATATAGACATAAACTAAATATAGACATAAATCTATTAAAATT
1 TAAGTCATCATAATATGCACTAAATATAGACATAAACTAAATATAGACATAAATCTATTAAAATT
* *
59925306 GCGAACTTAACGAGTTCACTCAAAACATCTGGGGTGGGCGGATATTTAATAAAATAGCCCCCTAA
66 GCGAACTTAACGAGTTCACTCAAAACATCTGGGGTGGGCGGATATTTAATAAAAGAGCCCCATAA
*
59925371 ACCCTAGAGTTCGTTAAAACTTGGAATTCGCCAGAAGGTGAATCCAACAGAGTACGCCACTCAAT
131 ACCCTAGAGTTCGTTAAAACTTGGAATTCACCAGAAGGTGAATCCAACAGAGTACGCCACTCAAT
*
59925436 -AAAAAAATACTGTACTTACTCAAAATATAGACA
196 AAAAAAAATACTATACTTACTCAAAATATAGACA
*
59925469 TAAGTTATCATAATATGCACTAAATATAGACATAAACTAAATATAGACATAAATCTATTAAAATT
1 TAAGTCATCATAATATGCACTAAATATAGACATAAACTAAATATAGACATAAATCTATTAAAATT
** *
59925534 GCGAACTTAACGAGTTTGCTCAAAACATCTGGGGTGGGCGGATATTTAATAGAAGAGCCCCATAA
66 GCGAACTTAACGAGTTCACTCAAAACATCTGGGGTGGGCGGATATTTAATAAAAGAGCCCCATAA
59925599 ACCCTAGAGTTCGTTAAAACTTGGAATTCACCAGAAGGTGAATCCAACAGAGTACGCCACTCAAT
131 ACCCTAGAGTTCGTTAAAACTTGGAATTCACCAGAAGGTGAATCCAACAGAGTACGCCACTCAAT
59925664 AAAAAAAATACTATACTTACTCAA
196 AAAAAAAATACTATACTTACTCAA
59925688 TTAACCAGCT
Statistics
Matches: 210, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
228 188 0.90
229 22 0.10
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (229 bp):
TAAGTCATCATAATATGCACTAAATATAGACATAAACTAAATATAGACATAAATCTATTAAAATT
GCGAACTTAACGAGTTCACTCAAAACATCTGGGGTGGGCGGATATTTAATAAAAGAGCCCCATAA
ACCCTAGAGTTCGTTAAAACTTGGAATTCACCAGAAGGTGAATCCAACAGAGTACGCCACTCAAT
AAAAAAAATACTATACTTACTCAAAATATAGACA
Found at i:59929818 original size:75 final size:75
Alignment explanation
Indices: 59929690--59929839 Score: 248
Period size: 75 Copynumber: 2.0 Consensus size: 75
59929680 AAGGAAAACC
59929690 ATGATTATTCCCTTATAAATAGAGAAGACAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCC
1 ATGATTATTCCCTTATAAATAGAGAAGACAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCC
59929755 AAAAGAATAT
66 AAAAGAATAT
* * *
59929765 ATGATTATTCTCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAGA-GAATTATATTCTTTT
1 ATGATTATTCCCTTATAAATAGAGAAGACAAATGGAAAGTTAGAAAA-ATGAATTATATTCTTTC
*
59929829 CAAAGGAATAT
65 CAAAAGAATAT
59929840 TAATTTCCAT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
75 69 0.99
76 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (75 bp):
ATGATTATTCCCTTATAAATAGAGAAGACAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCC
AAAAGAATAT
Done.