Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 123 of 284
Found at i:40893827 original size:335 final size:335
Alignment explanation
Indices: 40893217--40893886 Score: 1331
Period size: 335 Copynumber: 2.0 Consensus size: 335
40893207 AACTTCCTAA
40893217 GAATCAGTGACTGAGATTAGTTTCTATTTACAAGGAAACTCCTATGGAATTTAACCTTAAATTGG
1 GAATCAGTGACTGAGATTAGTTTCTATTTACAAGGAAACTCCTATGGAATTTAACCTTAAATTGG
40893282 GAACTGATGAGGATGGAGAAGAAATCGTCAGGGGGAGATATCGACGACTAGTAGGAAGACTCATC
66 GAACTGATGAGGATGGAGAAGAAATCGTCAGGGGGAGATATCGACGACTAGTAGGAAGACTCATC
40893347 TACCTATCTCACACCCGTCCAGACATAGCCTTCAGTGTAAGTGTTATCAGTCAATATATGCAGCT
131 TACCTATCTCACACCCGTCCAGACATAGCCTTCAGTGTAAGTGTTATCAGTCAATATATGCAGCT
40893412 TCCAGGTGCTTCTCCCTCGGGGCATGCATGTACTGACTGATAACACTTACACTAAAGGCTATGTC
196 TCCAGGTGCTTCTCCCTCGGGGCATGCATGTACTGACTGATAACACTTACACTAAAGGCTATGTC
40893477 TGGACGGATGTGAGATAGGTAGATGAGTCTTCCTACTAGTCGTTGATATCTCCCCCTGTCGATTT
261 TGGACGGATGTGAGATAGGTAGATGAGTCTTCCTACTAGTCGTTGATATCTCCCCCTGTCGATTT
40893542 CTTCTCCATC
326 CTTCTCCATC
40893552 GAATCAGTGACTGAGATTAGTTTCTATTTACAAGGAAACTCCTATGGAATTTAACCTTAAATTGG
1 GAATCAGTGACTGAGATTAGTTTCTATTTACAAGGAAACTCCTATGGAATTTAACCTTAAATTGG
40893617 GAACTGATGAGGATGGAGAAGAAATCGTCAGGGGGAGATATCGACGACTAGTAGGAAGACTCATC
66 GAACTGATGAGGATGGAGAAGAAATCGTCAGGGGGAGATATCGACGACTAGTAGGAAGACTCATC
40893682 TACCTATCTCACACCCGTCCAGACATAGCCTTCAGTGTAAGTGTTATCAGTCAATATATGCAGCT
131 TACCTATCTCACACCCGTCCAGACATAGCCTTCAGTGTAAGTGTTATCAGTCAATATATGCAGCT
40893747 TCCAGGTGCTTCTCCCTCGGGGCATGCATGTACTGACTGATAACACTTACACTAAAGGCTATGTC
196 TCCAGGTGCTTCTCCCTCGGGGCATGCATGTACTGACTGATAACACTTACACTAAAGGCTATGTC
*
40893812 TGGACGGGTGTGAGATAGGTAGATGAGTCTTCCTACTAGTCGTTGATATCTCCCCCTGTCGATTT
261 TGGACGGATGTGAGATAGGTAGATGAGTCTTCCTACTAGTCGTTGATATCTCCCCCTGTCGATTT
40893877 CTTCTCCATC
326 CTTCTCCATC
40893887 CTCATCAGTT
Statistics
Matches: 334, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
335 334 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (335 bp):
GAATCAGTGACTGAGATTAGTTTCTATTTACAAGGAAACTCCTATGGAATTTAACCTTAAATTGG
GAACTGATGAGGATGGAGAAGAAATCGTCAGGGGGAGATATCGACGACTAGTAGGAAGACTCATC
TACCTATCTCACACCCGTCCAGACATAGCCTTCAGTGTAAGTGTTATCAGTCAATATATGCAGCT
TCCAGGTGCTTCTCCCTCGGGGCATGCATGTACTGACTGATAACACTTACACTAAAGGCTATGTC
TGGACGGATGTGAGATAGGTAGATGAGTCTTCCTACTAGTCGTTGATATCTCCCCCTGTCGATTT
CTTCTCCATC
Found at i:40909876 original size:24 final size:22
Alignment explanation
Indices: 40909819--40909878 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 22
40909809 TTAGATTAAT
* *
40909819 TTATATTTTAGATATTATTATA
1 TTATATTTTAAATATCATTATA
*
40909841 TTAAATTATTTAAATATCATTTATTA
1 TTATA-T-TTTAAATATCA-TTA-TA
40909867 TTATATTTTAAA
1 TTATATTTTAAA
40909879 ATTTTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
22 4 0.13
23 1 0.03
24 15 0.50
25 4 0.13
26 6 0.20
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATATTTTAAATATCATTATA
Found at i:40910295 original size:20 final size:20
Alignment explanation
Indices: 40910253--40910305 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
40910243 TTCAATTGTT
* * *
40910253 TTTTTAGTCGGTTCAATCGA
1 TTTTTAGTTGGTTCAACCAA
*
40910273 TTTTTAGTTGGTTTAACCAA
1 TTTTTAGTTGGTTCAACCAA
*
40910293 TTTGTA-TTGGTTC
1 TTTTTAGTTGGTTC
40910306 TCAATTCAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.19, C:0.11, G:0.19, T:0.51
Consensus pattern (20 bp):
TTTTTAGTTGGTTCAACCAA
Found at i:40911386 original size:50 final size:52
Alignment explanation
Indices: 40911327--40911425 Score: 148
Period size: 50 Copynumber: 1.9 Consensus size: 52
40911317 TTAATAAAAT
* ** *
40911327 CATGCATTATGTAACTCTTGTGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGAATTATGTAACTCTCATGTTAGTTAAAATTTGCATCATTAAATTATGA
40911377 CATGAATTATGTAACTCTCATGTTAGTTAAAATTTGCATCATTAAATTA
1 CATGAATTATGTAACTCTCATGTTAGTTAAAATTTGCATCATTAAATTA
40911426 ATTCATGCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 25 0.58
51 11 0.26
52 7 0.16
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.41
Consensus pattern (52 bp):
CATGAATTATGTAACTCTCATGTTAGTTAAAATTTGCATCATTAAATTATGA
Found at i:40911444 original size:52 final size:50
Alignment explanation
Indices: 40911326--40911445 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 50
40911316 TTTAATAAAA
** *
40911326 TCATGCATTATGTAACTCTTGTGTTAGTTAAGTTTGCATCATAAATTATG
1 TCATGCATTATGTAACTCTCATGTTAGTTAAATTTGCATCATAAATTATG
* *
40911376 ACATGAATTATGTAACTCTCATGTTAGTTAAAATTTGCATCATTAAATTAAT-
1 TCATGCATTATGTAACTCTCATGTTAGTT-AAATTTGCATCA-TAAATT-ATG
40911428 TCATGCATTGA-GTAACTC
1 TCATGCATT-ATGTAACTC
40911446 ATTTGTTCAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 25 0.42
51 11 0.19
52 20 0.34
53 3 0.05
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (50 bp):
TCATGCATTATGTAACTCTCATGTTAGTTAAATTTGCATCATAAATTATG
Found at i:40924287 original size:27 final size:26
Alignment explanation
Indices: 40924231--40924287 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
40924221 CAACCTTAAC
* * *
40924231 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
40924257 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
40924284 CCTA
1 CCTA
40924288 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:40925548 original size:5 final size:5
Alignment explanation
Indices: 40925538--40925574 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
40925528 GTAGATGAAG
40925538 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAGA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAA-A AGAAA A
40925575 AACTGGATCC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:40925556 original size:15 final size:16
Alignment explanation
Indices: 40925511--40925574 Score: 69
Period size: 15 Copynumber: 4.0 Consensus size: 16
40925501 GGCTATGGGG
*
40925511 GAAAAGAAGAAGGGAAA
1 GAAAAGAAGAA-GAAAA
* *
40925528 GTAGATGAAG-AGAAAA
1 G-AAAAGAAGAAGAAAA
40925544 GAAAAGAA-AAGAAAA
1 GAAAAGAAGAAGAAAA
40925559 GAAAAGAAGAAGAAAA
1 GAAAAGAAGAAGAAAA
40925575 AACTGGATCC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 19 0.49
16 12 0.31
17 2 0.05
18 6 0.15
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (16 bp):
GAAAAGAAGAAGAAAA
Found at i:40926531 original size:19 final size:18
Alignment explanation
Indices: 40926494--40926537 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
40926484 ATACATACAG
40926494 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
40926511 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
40926530 TACTAATT
1 TAATAATT
40926538 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:40927846 original size:19 final size:19
Alignment explanation
Indices: 40927799--40927847 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
40927789 AGGCAACCCA
40927799 ATTTTAATTT-TTTTTTTC
1 ATTTTAATTTATTTTTTTC
* *
40927817 ATTTTCA-TTATTTTATTTT
1 ATTTTAATTTATTTT-TTTC
40927836 ATTTT-ATTTATT
1 ATTTTAATTTATT
40927848 ATTTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.08
18 11 0.42
19 13 0.50
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (19 bp):
ATTTTAATTTATTTTTTTC
Found at i:40934239 original size:50 final size:49
Alignment explanation
Indices: 40934119--40934348 Score: 232
Period size: 50 Copynumber: 4.6 Consensus size: 49
40934109 CTGATACGCA
* * * **
40934119 TAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTC-ACCATCTAGTACACG
*
40934168 TAGTAGCCTGCACTTAGTACTACACACGTGATCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTCACCATCTAGTACACG
* * * * *
40934218 TAGTAGCCTGCACTTACTACTACACACGTTA-TCGAAGTCAT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTC--A-CCATCT-AGTACACG
* * * * *
40934269 TAGTAGCCTGCACTTAGTACTACACATGTGACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCACCA-TCTAGTACACG
40934319 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
40934349 TATTCACAAT
Statistics
Matches: 151, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
48 2 0.01
49 31 0.21
50 79 0.52
51 38 0.25
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTCACCATCTAGTACACG
Found at i:40940527 original size:69 final size:69
Alignment explanation
Indices: 40940416--40940556 Score: 282
Period size: 69 Copynumber: 2.0 Consensus size: 69
40940406 AGAAAAGAAG
40940416 GTAAGCATATAGCTTAGTAAGTAAGTACGAAATTGATATTCAATTTATCAAAGTAAATCAATCAT
1 GTAAGCATATAGCTTAGTAAGTAAGTACGAAATTGATATTCAATTTATCAAAGTAAATCAATCAT
40940481 ACTA
66 ACTA
40940485 GTAAGCATATAGCTTAGTAAGTAAGTACGAAATTGATATTCAATTTATCAAAGTAAATCAATCAT
1 GTAAGCATATAGCTTAGTAAGTAAGTACGAAATTGATATTCAATTTATCAAAGTAAATCAATCAT
40940550 ACTA
66 ACTA
40940554 GTA
1 GTA
40940557 TATAATCACA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.32
Consensus pattern (69 bp):
GTAAGCATATAGCTTAGTAAGTAAGTACGAAATTGATATTCAATTTATCAAAGTAAATCAATCAT
ACTA
Found at i:40941574 original size:50 final size:50
Alignment explanation
Indices: 40941361--40941590 Score: 216
Period size: 50 Copynumber: 4.6 Consensus size: 50
40941351 CTGATACGCA
* * * *** *
40941361 TAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATCCAGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGTATGGTACACG
* * *
40941410 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTCAACAGTATGGTACACG
* * * * * * *
40941460 TAGTAGCCTGCACTAACTACAACACACGTTA-TCGA-AGTAATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGT-A-TG-GTACACG
* * *
40941511 TAGTAGCCTGCACTTAGTACTACATATGTGACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGTATGGTACACG
40941561 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
40941591 TATTCACAAT
Statistics
Matches: 144, Mismatches: 29, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 29 0.20
50 70 0.49
51 35 0.24
52 3 0.02
53 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGTATGGTACACG
Found at i:40944267 original size:10 final size:10
Alignment explanation
Indices: 40944239--40944288 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
40944229 TAATTTTAGG
40944239 ATTTAT-TTT
1 ATTTATCTTT
*
40944248 CATTTTTCTTT
1 -ATTTATCTTT
*
40944259 AATTATCTTT
1 ATTTATCTTT
40944269 ATTTAT-TTGT
1 ATTTATCTT-T
40944279 ATTTATCTTT
1 ATTTATCTTT
40944289 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 2 0.06
10 26 0.79
11 5 0.15
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:40947978 original size:68 final size:67
Alignment explanation
Indices: 40947906--40948055 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
40947896 CATCATGTGT
* * * *
40947906 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
40947968 ATGTAG
62 ATGTAG
** * *
40947974 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
40948039 AG
66 AG
40948041 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
40948056 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:40948011 original size:64 final size:64
Alignment explanation
Indices: 40947930--40948113 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
40947920 AGACATTATG
* *
40947930 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
40947994 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
40948059 AA
63 AA
* * * *
40948061 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
40948114 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:40954073 original size:46 final size:46
Alignment explanation
Indices: 40954006--40954180 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
40953996 TGTAACCCGC
40954006 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
40954052 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
40954102 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
40954145 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
40954181 ATTTAACATC
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 62 0.57
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:40954126 original size:93 final size:93
Alignment explanation
Indices: 40954014--40954182 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 93
40954004 GCCCATAAGT
** *
40954014 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
40954079 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
40954107 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
40954172 CGAGCTCGGAT
66 CGAGCTCGGAT
40954183 TTAACATCAA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:40957688 original size:29 final size:29
Alignment explanation
Indices: 40957655--40957712 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
40957645 GATGGCACTA
40957655 AAAGAGAAAAAAGGATGATGTTTTGTTTT
1 AAAGAGAAAAAAGGATGATGTTTTGTTTT
*
40957684 AAAGAGAAAGAAGGATGATGTTTTGTTTT
1 AAAGAGAAAAAAGGATGATGTTTTGTTTT
40957713 TCTTCCCACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.34
Consensus pattern (29 bp):
AAAGAGAAAAAAGGATGATGTTTTGTTTT
Found at i:40963911 original size:23 final size:22
Alignment explanation
Indices: 40963859--40963911 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
40963849 TCCACGTCTT
*
40963859 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
40963881 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
40963904 TTTCTTTT
1 TTTCTTTT
40963912 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:40973943 original size:19 final size:19
Alignment explanation
Indices: 40973919--40973978 Score: 111
Period size: 19 Copynumber: 3.2 Consensus size: 19
40973909 ATATTTTTTC
40973919 TAAGATTTATCTACTTAAA
1 TAAGATTTATCTACTTAAA
40973938 TAAGATTTATCTACTTAAA
1 TAAGATTTATCTACTTAAA
*
40973957 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACTTAAA
40973976 TAA
1 TAA
40973979 CTTTAAAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (19 bp):
TAAGATTTATCTACTTAAA
Found at i:40978575 original size:42 final size:41
Alignment explanation
Indices: 40978479--40978575 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 41
40978469 TCCTAATTGG
*
40978479 AAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAA
1 AAAAATAGTTCCTTTATTCTAATAAACTACTAAAACATAAA
* *
40978520 AGAAATTAGTTCCTTTATTCTAATAAACTACTAAAAGATATAA
1 A-AAAATAGTTCCTTTATTCTAATAAACTACTAAAACATA-AA
40978563 TAAAAATA-TTCCT
1 -AAAAATAGTTCCT
40978576 AGAATATGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 1 0.02
42 40 0.82
43 7 0.14
44 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.33
Consensus pattern (41 bp):
AAAAATAGTTCCTTTATTCTAATAAACTACTAAAACATAAA
Found at i:40978614 original size:19 final size:18
Alignment explanation
Indices: 40978592--40978631 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
40978582 TGAATAAAAC
40978592 TTATCTACAAAAATAAGAT
1 TTATCTACAAAAATAA-AT
**
40978611 TTATCTACCTAAATAAAT
1 TTATCTACAAAAATAAAT
40978629 TTA
1 TTA
40978632 AAATATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCTACAAAAATAAAT
Found at i:40985623 original size:24 final size:25
Alignment explanation
Indices: 40985591--40985643 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
40985581 AAAGGTTCCA
* *
40985591 GTATATGAGTG-CCCTTTATGGGAC
1 GTATATGAGAGCCCCTTTATAGGAC
*
40985615 GTATATGAGAGCCCCTTTATAGGAT
1 GTATATGAGAGCCCCTTTATAGGAC
40985640 GTAT
1 GTAT
40985644 GAATGTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (25 bp):
GTATATGAGAGCCCCTTTATAGGAC
Found at i:40989572 original size:86 final size:86
Alignment explanation
Indices: 40989462--40989636 Score: 350
Period size: 86 Copynumber: 2.0 Consensus size: 86
40989452 GAAAGGTAAT
40989462 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
1 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
40989527 TTCGAAAGGGGGTTAGCAAAA
66 TTCGAAAGGGGGTTAGCAAAA
40989548 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
1 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
40989613 TTCGAAAGGGGGTTAGCAAAA
66 TTCGAAAGGGGGTTAGCAAAA
40989634 GAA
1 GAA
40989637 TTCCTCTCTT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (86 bp):
GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
TTCGAAAGGGGGTTAGCAAAA
Found at i:40989749 original size:6 final size:6
Alignment explanation
Indices: 40989740--40989843 Score: 73
Period size: 6 Copynumber: 16.8 Consensus size: 6
40989730 TCTTTTTTCG
* * * **
40989740 CTTTTT CTTTTT CAATTTT CATTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
40989791 CAATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
40989839 GTTTT
1 CTTTT
40989844 CTGAAATAAA
Statistics
Matches: 73, Mismatches: 23, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
6 60 0.82
7 10 0.14
8 3 0.04
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.70
Consensus pattern (6 bp):
CTTTTT
Found at i:40989752 original size:21 final size:21
Alignment explanation
Indices: 40989723--40989778 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
40989713 CAAGCTCTCT
* *
40989723 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-ATTTC
* **
40989744 TTCTTTTTCAATTTTCATTTC
1 TTCATTTTCTTTTTTCATTTC
40989765 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
40989779 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.11, C:0.18, G:0.02, T:0.70
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCATTTC
Found at i:40989806 original size:18 final size:18
Alignment explanation
Indices: 40989740--40989843 Score: 91
Period size: 18 Copynumber: 5.6 Consensus size: 18
40989730 TCTTTTTTCG
40989740 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTCAA-TTT
* **
40989759 CATTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCAATTT
* **
40989779 CTCTCACTTTTTCAATTT
1 CTTTTTCTTTTTCAATTT
*
40989797 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCAATTT
**
40989815 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCAATTT
*
40989833 CTTTTTGTTTT
1 CTTTTTCTTTT
40989844 CTGAAATAAA
Statistics
Matches: 66, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
18 48 0.73
19 3 0.05
20 7 0.11
21 8 0.12
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.70
Consensus pattern (18 bp):
CTTTTTCTTTTTCAATTT
Found at i:40989842 original size:11 final size:12
Alignment explanation
Indices: 40989728--40989845 Score: 62
Period size: 12 Copynumber: 9.4 Consensus size: 12
40989718 TCTCTTTCAA
40989728 TTTCTTTTTTCGCTT
1 TTTC-TTTTTCG--T
*
40989743 TTTCTTTTTCAAT
1 TTTCTTTTTC-GT
*
40989756 TTTCATTTCTTCAT
1 TTTC-TTT-TTCGT
40989770 TTTCTTTTTC-T
1 TTTCTTTTTCGT
** **
40989781 CTCACTTTTTCAA
1 -TTTCTTTTTCGT
40989794 TTTCTTTTTC-T
1 TTTCTTTTTCGT
** *
40989805 TTTGCAATTTCTT
1 TTT-CTTTTTCGT
40989818 TTTCTTTTTCGT
1 TTTCTTTTTCGT
40989830 TTTCTTTTT-GT
1 TTTCTTTTTCGT
40989841 TTTCT
1 TTTCT
40989846 GAAATAAATC
Statistics
Matches: 84, Mismatches: 12, Indels: 18
0.74 0.11 0.16
Matches are distributed among these distances:
11 11 0.13
12 39 0.46
13 12 0.14
14 15 0.18
15 7 0.08
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTCTTTTTCGT
Found at i:40989951 original size:11 final size:10
Alignment explanation
Indices: 40989926--40989986 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
40989916 ACCAATAAAA
40989926 TAAA-TGAGC
1 TAAATTGAGC
*
40989935 TGAATTGTAGC
1 TAAATTG-AGC
40989946 TAAATTGAGC
1 TAAATTGAGC
**
40989956 TCGATTGAGC
1 TAAATTGAGC
40989966 TGAAA-TGAGC
1 T-AAATTGAGC
*
40989976 TCAATTGAGC
1 TAAATTGAGC
40989986 T
1 T
40989987 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:40989987 original size:20 final size:20
Alignment explanation
Indices: 40989927--40989987 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
40989917 CCAATAAAAT
*
40989927 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
40989947 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
40989968 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
40989988 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:40990777 original size:43 final size:43
Alignment explanation
Indices: 40990730--40990856 Score: 159
Period size: 43 Copynumber: 3.0 Consensus size: 43
40990720 TATTGACTTA
*
40990730 TGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
1 TGATTTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATT
* * * *
40990773 TGATTT-TGTGTAAGACCCTGTCTGGGACAGTGGGATTGATATT
1 TGATTTACGTGTAAGACCATGTCTGGGACATTGGCATTG-TATT
* * *
40990816 TGA-TTACATGTAAGACCACGTCTGGAACATTGGCATTGTAT
1 TGATTTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
40990857 GAGCTTTTCG
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 32 0.46
43 38 0.54
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATT
Found at i:40994938 original size:20 final size:20
Alignment explanation
Indices: 40994915--40994953 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
40994905 ACAAAAGCAT
40994915 CTCTCATCAGGAAAGTATTC
1 CTCTCATCAGGAAAGTATTC
*
40994935 CTCTCATCGGGAAAGTATT
1 CTCTCATCAGGAAAGTATT
40994954 GAAGTTGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (20 bp):
CTCTCATCAGGAAAGTATTC
Found at i:40995168 original size:30 final size:28
Alignment explanation
Indices: 40995114--40995170 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
40995104 TTTCTTCCAC
* *
40995114 ACTTTCTTTTTGCTCACTCTCTTTTTCA
1 ACTTTCTTTTTGCACACACTCTTTTTCA
40995142 ACTTTACTTTCTTGCACACACTCTTTTTC
1 ACTTT-CTTT-TTGCACACACTCTTTTTC
40995171 TTTTTCAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.20
29 4 0.16
30 16 0.64
ACGTcount: A:0.14, C:0.30, G:0.04, T:0.53
Consensus pattern (28 bp):
ACTTTCTTTTTGCACACACTCTTTTTCA
Found at i:40996255 original size:11 final size:11
Alignment explanation
Indices: 40996232--40996264 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 11
40996222 AAAAAAAAAA
40996232 TTCGAATTTTT
1 TTCGAATTTTT
40996243 TTCTGAATTTTT
1 TTC-GAATTTTT
40996255 TTCGAATTTT
1 TTCGAATTTT
40996265 GAACTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (11 bp):
TTCGAATTTTT
Found at i:41000632 original size:99 final size:100
Alignment explanation
Indices: 41000519--41000705 Score: 322
Period size: 99 Copynumber: 1.9 Consensus size: 100
41000509 GAAGCTATCT
* * *
41000519 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTA-AT
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGAC
41000583 TGCACTTAGTACTACACACGTGATCACAGTTTTTG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTTG
* *
41000618 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGAC
41000683 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
41000706 CCTCACAATA
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 59 0.72
100 23 0.28
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGAC
TGCACTTAGTACTACACACGTGATCACAGTTTTTG
Found at i:41000648 original size:51 final size:49
Alignment explanation
Indices: 41000514--41000707 Score: 183
Period size: 49 Copynumber: 3.9 Consensus size: 49
41000504 TAGCCGAAGC
* * * * *
41000514 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCAAT
* * * ** * *
41000563 AATCTGGTACACGTAGTA-ATTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGA-C-CAAT
* ** * * *
41000613 TTTTGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCAAT
* *
41000662 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACC
41000708 TCACAATAGT
Statistics
Matches: 114, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
48 21 0.18
49 57 0.50
50 16 0.14
51 20 0.18
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCAAT
Found at i:41000689 original size:49 final size:49
Alignment explanation
Indices: 41000527--41000700 Score: 206
Period size: 49 Copynumber: 3.5 Consensus size: 49
41000517 CTGGTACGCA
* *
41000527 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
** * * * * ** * *
41000576 TAGTA-ATTGCACTTAGTACTACACACGTGATCACAGTTTTTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCCGGTACACG
*
41000626 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
41000675 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
41000701 CGTGACCTCA
Statistics
Matches: 99, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
48 21 0.21
49 42 0.42
50 16 0.16
51 20 0.20
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:41001952 original size:21 final size:22
Alignment explanation
Indices: 41001926--41001966 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
41001916 CATTTAACAC
41001926 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
41001947 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
41001967 ACAATTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:41003114 original size:107 final size:107
Alignment explanation
Indices: 41002928--41003143 Score: 414
Period size: 107 Copynumber: 2.0 Consensus size: 107
41002918 GTTATATTCT
* *
41002928 ATGCTTATTATATGTGAAAGTGCATGTGTGAAAATTTCATGCTTTGATTTTGTCATTTGTATGTG
1 ATGCTTATTATATGTGAAAGTGCAGGTGTGAAAATTTAATGCTTTGATTTTGTCATTTGTATGTG
41002993 AAATTATTAAATAGGACTTATGTGAGAAATTTTGAAAATGTG
66 AAATTATTAAATAGGACTTATGTGAGAAATTTTGAAAATGTG
41003035 ATGCTTATTATATGTGAAAGTGCAGGTGTGAAAATTTAATGCTTTGATTTTGTCATTTGTATGTG
1 ATGCTTATTATATGTGAAAGTGCAGGTGTGAAAATTTAATGCTTTGATTTTGTCATTTGTATGTG
41003100 AAATTATTAAATAGGACTTATGTGAGAAATTTTGAAAATGTG
66 AAATTATTAAATAGGACTTATGTGAGAAATTTTGAAAATGTG
41003142 AT
1 AT
41003144 AGGTTAATTT
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 107 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (107 bp):
ATGCTTATTATATGTGAAAGTGCAGGTGTGAAAATTTAATGCTTTGATTTTGTCATTTGTATGTG
AAATTATTAAATAGGACTTATGTGAGAAATTTTGAAAATGTG
Found at i:41004703 original size:43 final size:43
Alignment explanation
Indices: 41004642--41004793 Score: 227
Period size: 43 Copynumber: 3.6 Consensus size: 43
41004632 AGGCTTTGAA
*
41004642 CCTAGCAGGCTATAATGCCGGTTAGTTAATATCGAGCTTCGAG
1 CCTAGCAGGCTATAATGCCGGTGAGTTAATATCGAGCTTCGAG
* * *
41004685 CCTAGCAGGCTATAATGCCGGTGAGTTAATATTGGGCTTCGAT
1 CCTAGCAGGCTATAATGCCGGTGAGTTAATATCGAGCTTCGAG
*
41004728 CCTAGAAGGCTATAATGCCGGTGAGTTAATATC-AGGCTTCGAG
1 CCTAGCAGGCTATAATGCCGGTGAGTTAATATCGA-GCTTCGAG
*
41004771 CCTAGCAGGC-GTAATGCCGGTGA
1 CCTAGCAGGCTATAATGCCGGTGA
41004794 ATGAGTTCAG
Statistics
Matches: 98, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
42 12 0.12
43 86 0.88
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (43 bp):
CCTAGCAGGCTATAATGCCGGTGAGTTAATATCGAGCTTCGAG
Found at i:41004778 original size:86 final size:85
Alignment explanation
Indices: 41004633--41004793 Score: 252
Period size: 86 Copynumber: 1.9 Consensus size: 85
41004623 TTACTATTCA
* * *
41004633 GGCTTTGAACCTAGCAGGCTATAATGCCGGTTAGTTAATATCGAGCTTCGAGCCTAGCAGGCTAT
1 GGCTTCGAACCTAGAAGGCTATAATGCCGGTGAGTTAATATCGAGCTTCGAGCCTAGCAGGC-AT
41004698 AATGCCGGTGAGTTAATATTG
65 AATGCCGGTGAGTTAATATTG
* *
41004719 GGCTTCGATCCTAGAAGGCTATAATGCCGGTGAGTTAATATC-AGGCTTCGAGCCTAGCAGGCGT
1 GGCTTCGAACCTAGAAGGCTATAATGCCGGTGAGTTAATATCGA-GCTTCGAGCCTAGCAGGCAT
41004783 AATGCCGGTGA
65 AATGCCGGTGA
41004794 ATGAGTTCAG
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
85 13 0.19
86 56 0.81
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.27
Consensus pattern (85 bp):
GGCTTCGAACCTAGAAGGCTATAATGCCGGTGAGTTAATATCGAGCTTCGAGCCTAGCAGGCATA
ATGCCGGTGAGTTAATATTG
Found at i:41032491 original size:20 final size:20
Alignment explanation
Indices: 41032454--41032492 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
41032444 CTATTCTGAC
*
41032454 TTTAAAAAATCTTAAAAATT
1 TTTAAAAAATATTAAAAATT
41032474 TTTAAAAAATAATTAAAAA
1 TTTAAAAAAT-ATTAAAAA
41032493 ATATATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
TTTAAAAAATATTAAAAATT
Found at i:41033757 original size:53 final size:53
Alignment explanation
Indices: 41033694--41033794 Score: 202
Period size: 53 Copynumber: 1.9 Consensus size: 53
41033684 TTCGGTTGAC
41033694 AAGATTCGAAAACAAGGGGCCGAAGAGTTTAGAGCAAAGATCGATGATTCGAA
1 AAGATTCGAAAACAAGGGGCCGAAGAGTTTAGAGCAAAGATCGATGATTCGAA
41033747 AAGATTCGAAAACAAGGGGCCGAAGAGTTTAGAGCAAAGATCGATGAT
1 AAGATTCGAAAACAAGGGGCCGAAGAGTTTAGAGCAAAGATCGATGAT
41033795 GATCCCGAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.42, C:0.13, G:0.29, T:0.17
Consensus pattern (53 bp):
AAGATTCGAAAACAAGGGGCCGAAGAGTTTAGAGCAAAGATCGATGATTCGAA
Found at i:41047066 original size:26 final size:26
Alignment explanation
Indices: 41047036--41047094 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
41047026 AAGCTCTTCC
41047036 TTGTGCCATCCCTAAGCAGCCCCTCT
1 TTGTGCCATCCCTAAGCAGCCCCTCT
*
41047062 TTGTGCCATCCCTAAGCAGCCCCTTT
1 TTGTGCCATCCCTAAGCAGCCCCTCT
41047088 TTGTGCC
1 TTGTGCC
41047095 GTCCATGGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.14, C:0.39, G:0.17, T:0.31
Consensus pattern (26 bp):
TTGTGCCATCCCTAAGCAGCCCCTCT
Found at i:41048078 original size:40 final size:40
Alignment explanation
Indices: 41048023--41048119 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
41048013 TTACTAAAAC
41048023 TGTTACCATAAGCATG-TTAAGCACACCACTAAATTGAATA
1 TGTTACCATAAGCATGTTTAAGCACACCA-TAAATTGAATA
* * ** *
41048063 TGTTACTATGAGCATGTTTAAGCATTCCATTAATTGAATA
1 TGTTACCATAAGCATGTTTAAGCACACCATAAATTGAATA
*
41048103 TGTTACCGTAAGCATGT
1 TGTTACCATAAGCATGT
41048120 AAAACATGCC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 38 0.79
41 10 0.21
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (40 bp):
TGTTACCATAAGCATGTTTAAGCACACCATAAATTGAATA
Found at i:41052337 original size:16 final size:16
Alignment explanation
Indices: 41052313--41052343 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41052303 GGGCCAAAAC
41052313 GGGCCTGTGGGCCCAT
1 GGGCCTGTGGGCCCAT
*
41052329 GGGCTTGTGGGCCCA
1 GGGCCTGTGGGCCCA
41052344 CACGGGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.29, G:0.45, T:0.19
Consensus pattern (16 bp):
GGGCCTGTGGGCCCAT
Found at i:41052542 original size:41 final size:41
Alignment explanation
Indices: 41052497--41052577 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
41052487 GTTTGACCGT
* *
41052497 TAAGGTTGCACGGGTCACCCGAGACGACTGTGGACCTACTA
1 TAAGGTTGCACGGGTCACCCAAGACGACTATGGACCTACTA
*
41052538 TAAGGTTGCATGGGTCACCCAAGACGACTATGGACCTACT
1 TAAGGTTGCACGGGTCACCCAAGACGACTATGGACCTACT
41052578 GTTGGGTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.21
Consensus pattern (41 bp):
TAAGGTTGCACGGGTCACCCAAGACGACTATGGACCTACTA
Found at i:41056593 original size:18 final size:18
Alignment explanation
Indices: 41056570--41056611 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
41056560 AATGAATTGT
41056570 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
41056588 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
41056606 ATTAAA
1 ATTAAA
41056612 AATGCATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (18 bp):
ATTAAATTGCTTGATGTG
Found at i:41057803 original size:47 final size:47
Alignment explanation
Indices: 41057750--41058160 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
41057740 TTAGGATTCT
41057750 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41057797 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41057844 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41057891 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41057938 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41057985 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41058032 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
41058079 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
41058126 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
41058161 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:41058335 original size:37 final size:37
Alignment explanation
Indices: 41058279--41058357 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
41058269 CCGAGCTCTA
* * *
41058279 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
41058316 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
41058353 AAGAC
1 AAGAC
41058358 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:41059481 original size:32 final size:32
Alignment explanation
Indices: 41059445--41059509 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
41059435 TCATAATCAC
41059445 ATAGTTTCTAGTGACATGTCATATTGTATCCT
1 ATAGTTTCTAGTGACATGTCATATTGTATCCT
41059477 ATAGTTTCTAGTGACATGTCATATTGTATCCT
1 ATAGTTTCTAGTGACATGTCATATTGTATCCT
41059509 A
1 A
41059510 AATTATTCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (32 bp):
ATAGTTTCTAGTGACATGTCATATTGTATCCT
Found at i:41062598 original size:13 final size:13
Alignment explanation
Indices: 41062580--41062604 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41062570 AGAAAAAGAG
41062580 AGGAGGAAACTCA
1 AGGAGGAAACTCA
41062593 AGGAGGAAACTC
1 AGGAGGAAACTC
41062605 TTGAAAAATT
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:0.44, C:0.16, G:0.32, T:0.08
Consensus pattern (13 bp):
AGGAGGAAACTCA
Found at i:41063726 original size:22 final size:22
Alignment explanation
Indices: 41063692--41063735 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
41063682 TGATCAGTAG
*
41063692 GTGTGAAATTCGAATGTATATA
1 GTGTGAAAGTCGAATGTATATA
*
41063714 GTGTGATAGTCGAATGTATATA
1 GTGTGAAAGTCGAATGTATATA
41063736 TATATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAAAGTCGAATGTATATA
Found at i:41064679 original size:38 final size:38
Alignment explanation
Indices: 41064618--41064730 Score: 145
Period size: 38 Copynumber: 2.9 Consensus size: 38
41064608 ATTTGATGTG
*
41064618 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
**
41064658 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * * *
41064696 TATCAGGGATAAATCCCGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
41064731 TTATATTCGG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 53 0.80
39 5 0.08
40 8 0.12
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:41064731 original size:38 final size:38
Alignment explanation
Indices: 41064634--41064736 Score: 152
Period size: 38 Copynumber: 2.7 Consensus size: 38
41064624 GGCTTAAAGA
** * *
41064634 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
41064672 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
* *
41064710 CCCGCAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTATTATAT
41064737 TCGGGCCTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.28
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
Found at i:41064901 original size:43 final size:43
Alignment explanation
Indices: 41064734--41064888 Score: 301
Period size: 43 Copynumber: 3.6 Consensus size: 43
41064724 GCTGGTATTA
41064734 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
41064777 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
41064820 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGGGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
41064863 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
41064889 GTAATGCCGG
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 111 1.00
ACGTcount: A:0.10, C:0.26, G:0.35, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:41065285 original size:45 final size:42
Alignment explanation
Indices: 41065218--41065325 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 42
41065208 TTGACTTGAT
* *
41065218 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
**
41065263 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
41065305 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
41065326 ACAGGCGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 34 0.60
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:41069541 original size:38 final size:38
Alignment explanation
Indices: 41069485--41069564 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
41069475 GATGTGTATT
* * *
41069485 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
41069523 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
41069561 CGGG
1 CGGG
41069565 CCTTCGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:41069634 original size:43 final size:43
Alignment explanation
Indices: 41069557--41069638 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
41069547 GCTGGTATTA
* **
41069557 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
41069600 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
41069639 AATGATATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.12, C:0.26, G:0.34, T:0.28
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:41070023 original size:45 final size:45
Alignment explanation
Indices: 41069955--41070066 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 45
41069945 TTGATTTGAT
* * *
41069955 TATTCGAGCCTTT-GAGCTTAGCAGACTATAATGCCAGTGAGAT-A
1 TATTCG-GGCTTTCGAGCCTAGCAGACTATAATGCCAGTGAAATGA
* *
41069999 CTATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGACTATAATGCCAGTGAAATGA
*
41070045 TA-TCGGGC-CTCGAGCCTAGCAG
1 TATTCGGGCTTTCGAGCCTAGCAG
41070067 GCGAAATGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
43 13 0.22
44 11 0.19
45 34 0.58
46 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGACTATAATGCCAGTGAAATGA
Found at i:41070068 original size:43 final size:45
Alignment explanation
Indices: 41069968--41070081 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 45
41069958 TCGAGCCTTT
* * * * *
41069968 GAGCTTAGCAGACTATAATGCCAGTGAGATACTATTCGGGCTTTC
1 GAGCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCTCTC
41070013 GAGCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCGGGC-CTC
1 GAGCCTAGCAGGCTATAATGCCGGTGAAAT-ACTATTCGGGCTCTC
*
41070056 GAGCCTAGCAGGCGA-AATGCCGGTGA
1 GAGCCTAGCAGGCTATAATGCCGGTGA
41070082 TTTGAGAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 11 0.18
43 16 0.26
44 6 0.10
45 28 0.45
46 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (45 bp):
GAGCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCTCTC
Found at i:41084223 original size:19 final size:19
Alignment explanation
Indices: 41084189--41084227 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
41084179 GATTTCGTAC
*
41084189 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
41084209 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
41084227 T
1 T
41084228 CTTTCGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:41086212 original size:32 final size:32
Alignment explanation
Indices: 41086176--41086238 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
41086166 GCCCTTCCGT
41086176 CCAAACCAGGGTATCTTCTTCCATGACGAGAC
1 CCAAACCAGGGTATCTTCTTCCATGACGAGAC
*
41086208 CCAAACCAGGGTATCTTTTTCCATGACGAGA
1 CCAAACCAGGGTATCTTCTTCCATGACGAGA
41086239 GCTTGAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (32 bp):
CCAAACCAGGGTATCTTCTTCCATGACGAGAC
Found at i:41100918 original size:40 final size:39
Alignment explanation
Indices: 41100855--41100940 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 39
41100845 TAACAACTTA
**
41100855 TCGGCTAAAATGGCACTTAGTGTGCGGTTTGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTTGAAATAGCT
* *
41100894 TCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTTGAAATAGCT
*
41100934 TTGGCTA
1 TCGGCTA
41100941 TATGTATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 10 0.24
40 31 0.76
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.31
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTTGAAATAGCT
Found at i:41105203 original size:2 final size:2
Alignment explanation
Indices: 41105196--41105228 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
41105186 GTGCGACAGA
41105196 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
41105229 ACGAATAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:41109342 original size:39 final size:39
Alignment explanation
Indices: 41109145--41109327 Score: 303
Period size: 39 Copynumber: 4.7 Consensus size: 39
41109135 CATGGTATTT
41109145 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* *
41109184 GAAATATATCCAGACATGAGGTCCGTAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
41109223 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* *
41109262 GGAATATATCCGGACATGAGGTCCGCAGGCTATATGCTA
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* *
41109301 GAAATATATCCGGACTTGAAGTCCGCA
1 GAAATATATCCGGACATGAGGTCCGCA
41109328 AGCCACGTGC
Statistics
Matches: 133, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 133 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (39 bp):
GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
Found at i:41119536 original size:12 final size:12
Alignment explanation
Indices: 41119518--41119551 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
41119508 TTCCTCGTTT
41119518 CTTTTCACTCAC
1 CTTTTCACTCAC
* *
41119530 TTTTTCACACAC
1 CTTTTCACTCAC
41119542 CTTTTCACTC
1 CTTTTCACTC
41119552 TTTTCTTTCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.18, C:0.38, G:0.00, T:0.44
Consensus pattern (12 bp):
CTTTTCACTCAC
Found at i:41123677 original size:22 final size:22
Alignment explanation
Indices: 41123649--41123704 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
41123639 AACCTATACA
41123649 CTACTCAAACATCAATTTTAAC
1 CTACTCAAACATCAATTTTAAC
41123671 CTACTCAAACATCAATTTTAAC
1 CTACTCAAACATCAATTTTAAC
* *
41123693 CAAATCAAACAT
1 CTACTCAAACAT
41123705 ATATGCATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.29
Consensus pattern (22 bp):
CTACTCAAACATCAATTTTAAC
Found at i:41124706 original size:19 final size:20
Alignment explanation
Indices: 41124682--41124720 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
41124672 AAGCTTATAG
*
41124682 TTTCATGTA-TAACATATTC
1 TTTCATATATTAACATATTC
*
41124701 TTTCATATATTAACTTATTC
1 TTTCATATATTAACATATTC
41124721 ATGACTGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (20 bp):
TTTCATATATTAACATATTC
Found at i:41128781 original size:30 final size:30
Alignment explanation
Indices: 41128747--41128843 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
41128737 TAAACTAAAA
41128747 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
41128777 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
41128807 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
41128836 ATGAGCTA
1 -TGAGCTA
41128844 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:41130046 original size:117 final size:117
Alignment explanation
Indices: 41129905--41130137 Score: 439
Period size: 117 Copynumber: 2.0 Consensus size: 117
41129895 CCAAAAACAT
41129905 AGGTTGGCCTTACCTTCTCAAAATGAAACGAAAATTTCAAATGTGGCCAAACAAGGTGATTAATA
1 AGGTTGGCCTTACCTTCTCAAAATGAAACGAAAATTTCAAATGTGGCCAAACAAGGTGATTAATA
*
41129970 AATGAATCAAAATTGAAACCCAAATCATTGAATTTCACCTTCTTATCAAAAA
66 AATGAATCAAAATTGAAACCCAAATAATTGAATTTCACCTTCTTATCAAAAA
*
41130022 AGGTTGGCCTTACCTTCTCGAAATGAAACGAAAATTTCAAATGTGGCCAAACAAGGTGATTAATA
1 AGGTTGGCCTTACCTTCTCAAAATGAAACGAAAATTTCAAATGTGGCCAAACAAGGTGATTAATA
*
41130087 AATGAATCAAAATTGAAACCCAAGTAATTGAATTTCACCTTCTTATCAAAA
66 AATGAATCAAAATTGAAACCCAAATAATTGAATTTCACCTTCTTATCAAAA
41130138 GTTTGAACAT
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 113 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (117 bp):
AGGTTGGCCTTACCTTCTCAAAATGAAACGAAAATTTCAAATGTGGCCAAACAAGGTGATTAATA
AATGAATCAAAATTGAAACCCAAATAATTGAATTTCACCTTCTTATCAAAAA
Found at i:41142275 original size:30 final size:30
Alignment explanation
Indices: 41142241--41142337 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
41142231 TAAACTAAAA
* *
41142241 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * *
41142271 TGAGCTGAGATTAAACTCCTAAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* *
41142301 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGATTTAGCTCGTGAGCT-AAAGT
41142331 TGAGCTA
1 TGAGCTA
41142338 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
30 48 0.92
31 4 0.08
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:41143337 original size:27 final size:27
Alignment explanation
Indices: 41143303--41143433 Score: 129
Period size: 27 Copynumber: 4.9 Consensus size: 27
41143293 CCAAATTGAT
* *
41143303 AAATGACTATTTTACCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
*
41143330 AAATGACTGTTTTGCCCTTATGAGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
41143357 AGATGATTGTTTTGCCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *** * **
41143384 AAATGATTGAAATGCCCCTACATGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
41143411 AATTGACTATTTTGCCC-TATGTG
1 AAATGACTGTTTTGCCCTTATGTG
41143434 AGGTATTTAT
Statistics
Matches: 83, Mismatches: 21, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
26 4 0.05
27 79 0.95
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (27 bp):
AAATGACTGTTTTGCCCTTATGTGGTA
Found at i:41158303 original size:11 final size:10
Alignment explanation
Indices: 41158278--41158338 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
41158268 ACCAATAAAA
41158278 TAAA-TGAGC
1 TAAATTGAGC
*
41158287 TGAATTGTAGC
1 TAAATTG-AGC
41158298 TAAATTGAGC
1 TAAATTGAGC
**
41158308 TCGATTGAGC
1 TAAATTGAGC
41158318 TGAAA-TGAGC
1 T-AAATTGAGC
*
41158328 TCAATTGAGC
1 TAAATTGAGC
41158338 T
1 T
41158339 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:41158339 original size:20 final size:20
Alignment explanation
Indices: 41158279--41158339 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
41158269 CCAATAAAAT
*
41158279 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
41158299 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
41158320 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
41158340 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:41159620 original size:45 final size:44
Alignment explanation
Indices: 41159553--41159649 Score: 158
Period size: 45 Copynumber: 2.2 Consensus size: 44
41159543 CAAAACGCAT
* * *
41159553 TGGATCTCCATTACGAGTGTCAACGACCCAATTTTGGTAGGAGA
1 TGGATCACCATTACGAGCGTCAACGACCCAATTTCGGTAGGAGA
41159597 TGGATCACGCATTACGAGCGTCAACGACCCAATTTCGGTAGGAGA
1 TGGATCAC-CATTACGAGCGTCAACGACCCAATTTCGGTAGGAGA
41159642 TGGATCAC
1 TGGATCAC
41159650 AAGCCCAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 7 0.14
45 42 0.86
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (44 bp):
TGGATCACCATTACGAGCGTCAACGACCCAATTTCGGTAGGAGA
Found at i:41165548 original size:30 final size:30
Alignment explanation
Indices: 41165454--41165550 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
41165444 TAAACTAAAA
* *
41165454 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * * *
41165484 TGAGCTGAGGCTAAACTCCTAAGTTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
41165514 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
41165543 ATGAGCTA
1 -TGAGCTA
41165551 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:41167727 original size:30 final size:30
Alignment explanation
Indices: 41167656--41167738 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
41167646 CTTTTGTTTC
* *
41167656 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
41167687 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
41167716 ATTTTCTTTTTCTTTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
41167739 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.12, C:0.22, G:0.01, T:0.65
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:41167817 original size:5 final size:5
Alignment explanation
Indices: 41167807--41167863 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
41167797 CTCTTGCCTC
*
41167807 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
41167854 TCTTT TCTTT
1 TCTTT TCTTT
41167864 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:41167847 original size:15 final size:14
Alignment explanation
Indices: 41167807--41167863 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
41167797 CTCTTGCCTC
*
41167807 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
41167822 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
41167837 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
41167854 TCTTTTCTTT
1 TCTTTTCTTT
41167864 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:41167873 original size:21 final size:20
Alignment explanation
Indices: 41167805--41167874 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
41167795 GCCTCTTGCC
41167805 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
41167828 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
41167848 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
41167868 TCTCTTT
1 TCTCTTT
41167875 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:41170505 original size:30 final size:30
Alignment explanation
Indices: 41170420--41170516 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
41170410 TAAACTAAAA
* *
41170420 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
41170450 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
41170480 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
41170509 ATGAGCTA
1 -TGAGCTA
41170517 GAAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:41172468 original size:22 final size:23
Alignment explanation
Indices: 41172443--41172502 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
41172433 TGGACTGAAT
41172443 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
41172465 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
41172487 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
41172503 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:41172470 original size:4 final size:4
Alignment explanation
Indices: 41172452--41172485 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
41172442 TATAAAAATT
41172452 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
41172486 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:41173891 original size:23 final size:22
Alignment explanation
Indices: 41173839--41173891 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
41173829 TCCTCGTCTT
*
41173839 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
41173861 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
41173884 TTTCTTTT
1 TTTCTTTT
41173892 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:41178459 original size:21 final size:21
Alignment explanation
Indices: 41178433--41178495 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
41178423 TTGGTATTTG
41178433 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
41178454 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
41178475 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
41178496 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:41182355 original size:13 final size:12
Alignment explanation
Indices: 41182334--41182370 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
41182324 AAACCGTATG
41182334 CAATTTTTTTTT
1 CAATTTTTTTTT
41182346 CAATTTTTTTTT
1 CAATTTTTTTTT
41182358 CAATTTTTTTTT
1 CAATTTTTTTTT
41182370 C
1 C
41182371 GAACTCCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:41184567 original size:19 final size:19
Alignment explanation
Indices: 41184534--41184577 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
41184524 AGGGCCTACA
* *
41184534 GGCCCATTGGACCCA-CAT
1 GGCCCATTCGACCCAGAAT
41184552 GGCCCAGTTCGACCCAGAAT
1 GGCCCA-TTCGACCCAGAAT
41184572 GGCCCA
1 GGCCCA
41184578 ATATTGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 8 0.36
20 8 0.36
ACGTcount: A:0.23, C:0.39, G:0.25, T:0.14
Consensus pattern (19 bp):
GGCCCATTCGACCCAGAAT
Found at i:41187231 original size:28 final size:28
Alignment explanation
Indices: 41187186--41187241 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
41187176 GACCCATACC
**
41187186 AAATCCTTCTTAGTAGGCGTTAAGGGTA
1 AAATCCTTCTTAAAAGGCGTTAAGGGTA
* *
41187214 AAATCTTTCTTAAAAGGCGTTAGGGGTA
1 AAATCCTTCTTAAAAGGCGTTAAGGGTA
41187242 GCCCACTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.32
Consensus pattern (28 bp):
AAATCCTTCTTAAAAGGCGTTAAGGGTA
Found at i:41200241 original size:26 final size:26
Alignment explanation
Indices: 41200208--41200280 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
41200198 CTCTTTTAAT
*
41200208 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
41200234 AATTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
41200260 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
41200281 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:41200382 original size:9 final size:10
Alignment explanation
Indices: 41200330--41200382 Score: 58
Period size: 9 Copynumber: 5.4 Consensus size: 10
41200320 TTATGAATAC
41200330 ATCATGTGCAT
1 ATCATGT-CAT
*
41200341 ATCAT-ACAT
1 ATCATGTCAT
41200350 ATCATGTGCAT
1 ATCATGT-CAT
41200361 ATCATGTCA-
1 ATCATGTCAT
41200370 ATCATGT-AT
1 ATCATGTCAT
41200379 ATCA
1 ATCA
41200383 AAATCCCATG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 1 0.03
9 19 0.51
10 2 0.05
11 15 0.41
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:41207618 original size:29 final size:29
Alignment explanation
Indices: 41207585--41207644 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
41207575 ACTTAAGCTG
*
41207585 ATATCTTTGATAAATTAGATAATCGTGGC
1 ATATCTTTGATAAATCAGATAATCGTGGC
41207614 ATATCTTTGATAAATCAGATAATCGTGGC
1 ATATCTTTGATAAATCAGATAATCGTGGC
41207643 AT
1 AT
41207645 TGTGTTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (29 bp):
ATATCTTTGATAAATCAGATAATCGTGGC
Found at i:41209263 original size:20 final size:20
Alignment explanation
Indices: 41208417--41209251 Score: 1490
Period size: 20 Copynumber: 41.8 Consensus size: 20
41208407 TTATGAATCC
41208417 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41208437 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41208457 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41208477 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41208497 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41208517 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41208537 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41208557 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41208577 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41208597 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41208617 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41208637 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41208657 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41208677 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41208697 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41208717 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41208737 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41208757 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41208777 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41208797 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41208817 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41208837 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41208857 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41208877 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41208897 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41208917 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41208937 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41208957 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41208977 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41208997 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41209017 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41209037 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41209057 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41209077 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41209097 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41209117 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41209137 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41209157 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41209177 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41209197 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
41209217 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
41209237 ATCATGTGCATATCA
1 ATCATGTGCATATCA
41209252 AGTCAATCAT
Statistics
Matches: 775, Mismatches: 40, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 775 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:41209263 original size:40 final size:40
Alignment explanation
Indices: 41208417--41209250 Score: 1668
Period size: 40 Copynumber: 20.9 Consensus size: 40
41208407 TTATGAATCC
41208417 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41208457 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41208497 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41208537 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41208577 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41208617 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41208657 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41208697 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41208737 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41208777 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41208817 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41208857 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41208897 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41208937 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41208977 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41209017 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41209057 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41209097 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41209137 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41209177 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
41209217 ATCATGTGCATATCATACATATCATGTGCATATC
1 ATCATGTGCATATCATACATATCATGTGCATATC
41209251 AAGTCAATCA
Statistics
Matches: 794, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 794 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (40 bp):
ATCATGTGCATATCATACATATCATGTGCATATCGTACAT
Found at i:41209269 original size:9 final size:10
Alignment explanation
Indices: 41208417--41209269 Score: 509
Period size: 9 Copynumber: 85.4 Consensus size: 10
41208407 TTATGAATCC
41208417 ATCATGTGCAT
1 ATCATGT-CAT
*
41208428 ATCAT-ACAT
1 ATCATGTCAT
41208437 ATCATGTGCAT
1 ATCATGT-CAT
41208448 ATC--GTACAT
1 ATCATGT-CAT
41208457 ATCATGTGCAT
1 ATCATGT-CAT
*
41208468 ATCAT-ACAT
1 ATCATGTCAT
41208477 ATCATGTGCAT
1 ATCATGT-CAT
41208488 ATC--GTACAT
1 ATCATGT-CAT
41208497 ATCATGTGCAT
1 ATCATGT-CAT
*
41208508 ATCAT-ACAT
1 ATCATGTCAT
41208517 ATCATGTGCAT
1 ATCATGT-CAT
41208528 ATC--GTACAT
1 ATCATGT-CAT
41208537 ATCATGTGCAT
1 ATCATGT-CAT
*
41208548 ATCAT-ACAT
1 ATCATGTCAT
41208557 ATCATGTGCAT
1 ATCATGT-CAT
41208568 ATC--GTACAT
1 ATCATGT-CAT
41208577 ATCATGTGCAT
1 ATCATGT-CAT
*
41208588 ATCAT-ACAT
1 ATCATGTCAT
41208597 ATCATGTGCAT
1 ATCATGT-CAT
41208608 ATC--GTACAT
1 ATCATGT-CAT
41208617 ATCATGTGCAT
1 ATCATGT-CAT
*
41208628 ATCAT-ACAT
1 ATCATGTCAT
41208637 ATCATGTGCAT
1 ATCATGT-CAT
41208648 ATC--GTACAT
1 ATCATGT-CAT
41208657 ATCATGTGCAT
1 ATCATGT-CAT
*
41208668 ATCAT-ACAT
1 ATCATGTCAT
41208677 ATCATGTGCAT
1 ATCATGT-CAT
41208688 ATC--GTACAT
1 ATCATGT-CAT
41208697 ATCATGTGCAT
1 ATCATGT-CAT
*
41208708 ATCAT-ACAT
1 ATCATGTCAT
41208717 ATCATGTGCAT
1 ATCATGT-CAT
41208728 ATC--GTACAT
1 ATCATGT-CAT
41208737 ATCATGTGCAT
1 ATCATGT-CAT
*
41208748 ATCAT-ACAT
1 ATCATGTCAT
41208757 ATCATGTGCAT
1 ATCATGT-CAT
41208768 ATC--GTACAT
1 ATCATGT-CAT
41208777 ATCATGTGCAT
1 ATCATGT-CAT
*
41208788 ATCAT-ACAT
1 ATCATGTCAT
41208797 ATCATGTGCAT
1 ATCATGT-CAT
41208808 ATC--GTACAT
1 ATCATGT-CAT
41208817 ATCATGTGCAT
1 ATCATGT-CAT
*
41208828 ATCAT-ACAT
1 ATCATGTCAT
41208837 ATCATGTGCAT
1 ATCATGT-CAT
41208848 ATC--GTACAT
1 ATCATGT-CAT
41208857 ATCATGTGCAT
1 ATCATGT-CAT
*
41208868 ATCAT-ACAT
1 ATCATGTCAT
41208877 ATCATGTGCAT
1 ATCATGT-CAT
41208888 ATC--GTACAT
1 ATCATGT-CAT
41208897 ATCATGTGCAT
1 ATCATGT-CAT
*
41208908 ATCAT-ACAT
1 ATCATGTCAT
41208917 ATCATGTGCAT
1 ATCATGT-CAT
41208928 ATC--GTACAT
1 ATCATGT-CAT
41208937 ATCATGTGCAT
1 ATCATGT-CAT
*
41208948 ATCAT-ACAT
1 ATCATGTCAT
41208957 ATCATGTGCAT
1 ATCATGT-CAT
41208968 ATC--GTACAT
1 ATCATGT-CAT
41208977 ATCATGTGCAT
1 ATCATGT-CAT
*
41208988 ATCAT-ACAT
1 ATCATGTCAT
41208997 ATCATGTGCAT
1 ATCATGT-CAT
41209008 ATC--GTACAT
1 ATCATGT-CAT
41209017 ATCATGTGCAT
1 ATCATGT-CAT
*
41209028 ATCAT-ACAT
1 ATCATGTCAT
41209037 ATCATGTGCAT
1 ATCATGT-CAT
41209048 ATC--GTACAT
1 ATCATGT-CAT
41209057 ATCATGTGCAT
1 ATCATGT-CAT
*
41209068 ATCAT-ACAT
1 ATCATGTCAT
41209077 ATCATGTGCAT
1 ATCATGT-CAT
41209088 ATC--GTACAT
1 ATCATGT-CAT
41209097 ATCATGTGCAT
1 ATCATGT-CAT
*
41209108 ATCAT-ACAT
1 ATCATGTCAT
41209117 ATCATGTGCAT
1 ATCATGT-CAT
41209128 ATC--GTACAT
1 ATCATGT-CAT
41209137 ATCATGTGCAT
1 ATCATGT-CAT
*
41209148 ATCAT-ACAT
1 ATCATGTCAT
41209157 ATCATGTGCAT
1 ATCATGT-CAT
41209168 ATC--GTACAT
1 ATCATGT-CAT
41209177 ATCATGTGCAT
1 ATCATGT-CAT
*
41209188 ATCAT-ACAT
1 ATCATGTCAT
41209197 ATCATGTGCAT
1 ATCATGT-CAT
41209208 ATC--GTACAT
1 ATCATGT-CAT
41209217 ATCATGTGCAT
1 ATCATGT-CAT
*
41209228 ATCAT-ACAT
1 ATCATGTCAT
41209237 ATCATGTGCAT
1 ATCATGT-CAT
*
41209248 ATCAAGTCA-
1 ATCATGTCAT
41209257 ATCATGT-AT
1 ATCATGTCAT
41209266 ATCA
1 ATCA
41209270 AAATCCCATG
Statistics
Matches: 675, Mismatches: 84, Indels: 168
0.73 0.09 0.18
Matches are distributed among these distances:
8 1 0.00
9 338 0.50
10 2 0.00
11 334 0.49
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:41214546 original size:10 final size:10
Alignment explanation
Indices: 41214518--41214575 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
41214508 TTAAGATAAA
41214518 TGTTT-AATG
1 TGTTTAAATG
*
41214527 TGTTT-TATG
1 TGTTTAAATG
41214536 TGTTTAAATG
1 TGTTTAAATG
41214546 TGTTTAATATG
1 TGTTTAA-ATG
*
41214557 TCTGTTTTAATG
1 --TGTTTAAATG
41214569 TGTTTAA
1 TGTTTAA
41214576 TTTCAGGTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
9 13 0.32
10 16 0.39
11 3 0.07
12 3 0.07
13 6 0.15
ACGTcount: A:0.22, C:0.02, G:0.19, T:0.57
Consensus pattern (10 bp):
TGTTTAAATG
Found at i:41214568 original size:23 final size:21
Alignment explanation
Indices: 41214520--41214576 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 21
41214510 AAGATAAATG
41214520 TTTAATGTGTTT--TATGTGT
1 TTTAATGTGTTTAATATGTGT
*
41214539 TTAAATGTGTTTAATATGTCTGT
1 TTTAATGTGTTTAATATG--TGT
41214562 TTTAATGTGTTTAAT
1 TTTAATGTGTTTAAT
41214577 TTCAGGTGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 11 0.34
21 4 0.12
23 17 0.53
ACGTcount: A:0.23, C:0.02, G:0.18, T:0.58
Consensus pattern (21 bp):
TTTAATGTGTTTAATATGTGT
Found at i:41214576 original size:9 final size:9
Alignment explanation
Indices: 41214518--41214576 Score: 55
Period size: 9 Copynumber: 5.9 Consensus size: 9
41214508 TTAAGATAAA
41214518 TGTTTAATG
1 TGTTTAATG
*
41214527 TGTTTTATG
1 TGTTTAATG
41214536 TGTTTAAATG
1 TGTTT-AATG
41214546 TGTTTAATATG
1 TGTTT-A-ATG
41214557 TCTGTTTTAATG
1 --TG-TTTAATG
41214569 TGTTTAAT
1 TGTTTAAT
41214577 TTCAGGTGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
9 19 0.44
10 12 0.28
11 3 0.07
12 3 0.07
13 3 0.07
14 3 0.07
ACGTcount: A:0.22, C:0.02, G:0.19, T:0.58
Consensus pattern (9 bp):
TGTTTAATG
Found at i:41215424 original size:15 final size:15
Alignment explanation
Indices: 41215398--41215429 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
41215388 ATTTGAAACC
41215398 ATTCCATTTGAGCCT
1 ATTCCATTTGAGCCT
41215413 ATTCCATTTGAGCCT
1 ATTCCATTTGAGCCT
41215428 AT
1 AT
41215430 CTTTCATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (15 bp):
ATTCCATTTGAGCCT
Found at i:41225154 original size:22 final size:22
Alignment explanation
Indices: 41225128--41225171 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
41225118 GTCGAGCACG
41225128 AGACGTTACCAGACTTATCTTA
1 AGACGTTACCAGACTTATCTTA
41225150 AGACGTTACCAGACTTATCTTA
1 AGACGTTACCAGACTTATCTTA
41225172 CTTTTCGGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (22 bp):
AGACGTTACCAGACTTATCTTA
Found at i:41225218 original size:24 final size:24
Alignment explanation
Indices: 41225169--41225223 Score: 85
Period size: 25 Copynumber: 2.3 Consensus size: 24
41225159 CAGACTTATC
41225169 TTACTTTTCGGGGCATAAAAAAATT
1 TTACTTTTCGGGGCATAAAAAAA-T
*
41225194 TTACTTTTTGGGGCAT-AAAAAAT
1 TTACTTTTCGGGGCATAAAAAAAT
41225217 TTACTTT
1 TTACTTT
41225224 AAAAAAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 8 0.28
24 6 0.21
25 15 0.52
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (24 bp):
TTACTTTTCGGGGCATAAAAAAAT
Found at i:41226488 original size:53 final size:53
Alignment explanation
Indices: 41226417--41226624 Score: 202
Period size: 53 Copynumber: 3.9 Consensus size: 53
41226407 CTTTCCTTTT
41226417 TAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
1 TAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * * * * * *
41226470 TGAACTCACCATTTCCATGCCTTGGCATAGTCTTACATGGAATCTTTGCATTA
1 TAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * * * *
41226523 TAATAGTTTATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTG
1 TAA-A-CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * *
41226578 TAAAACTTACCAATGCCATGGCTT-AGCATGGTCTTACTTGGTATCCT
1 T-AAACTTACCATTGCCATGTCTTGA-CATGGTCTTACATGGTATCCT
41226625 AGAACCCTAA
Statistics
Matches: 119, Mismatches: 32, Indels: 7
0.75 0.20 0.04
Matches are distributed among these distances:
53 47 0.39
54 34 0.29
55 36 0.30
56 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (53 bp):
TAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:41236364 original size:27 final size:26
Alignment explanation
Indices: 41236316--41236375 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
41236306 GCGAGGCTGC
*
41236316 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
41236343 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
41236369 CAGATAT
1 CAGATAT
41236376 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:41236460 original size:27 final size:26
Alignment explanation
Indices: 41236414--41236465 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
41236404 GCGAGGCTGC
41236414 CAGATATTGTGACGAAGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
* *
41236440 CAGATATATGTGGCGAGGCCACCAAA
1 CAGATAT-TGTGACGAAGCCACCAAA
41236466 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:41243525 original size:29 final size:29
Alignment explanation
Indices: 41243451--41243565 Score: 92
Period size: 29 Copynumber: 4.0 Consensus size: 29
41243441 TACCTATATC
* * * *
41243451 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTACGCCCAAACCACATTTATA
* *
41243479 TGGCCCATTAGGCTCAAACCAC-TTGTATA
1 TGGCCCATTACGCCCAAACCACATT-TATA
* *
41243508 TGGCCTATTACGCCCAAATCACATTTATA
1 TGGCCCATTACGCCCAAACCACATTTATA
* * * *
41243537 TGGCCCGTTAGGCCC-AGCCACATTCATA
1 TGGCCCATTACGCCCAAACCACATTTATA
41243565 T
1 T
41243566 TCATGCTCAC
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
28 26 0.38
29 41 0.59
30 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
TGGCCCATTACGCCCAAACCACATTTATA
Found at i:41243801 original size:16 final size:16
Alignment explanation
Indices: 41243776--41243806 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41243766 ATAGCCAAAC
41243776 TTTCGACATTTTGGCA
1 TTTCGACATTTTGGCA
*
41243792 TTTCGGCATTTTGGC
1 TTTCGACATTTTGGC
41243807 TTTTGCCGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.45
Consensus pattern (16 bp):
TTTCGACATTTTGGCA
Found at i:41247008 original size:29 final size:28
Alignment explanation
Indices: 41246973--41247047 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
41246963 AATCATATTC
* *
41246973 ATATGGCCGATTAGGCTCAAACCACCTGT
1 ATATGGCC-ATTAGGCCCAAACCACATGT
* *
41247002 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGG-CCATTAGGCCCAAACCACATGT
41247031 ATATGGCTCATTAGGCC
1 ATATGGC-CATTAGGCC
41247048 TAGTCACATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 37 0.93
30 2 0.05
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (28 bp):
ATATGGCCATTAGGCCCAAACCACATGT
Found at i:41247305 original size:16 final size:16
Alignment explanation
Indices: 41247280--41247310 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41247270 ACTTTCAGCT
41247280 TTTCGACATTTTGGCA
1 TTTCGACATTTTGGCA
*
41247296 TTTCGGCATTTTGGC
1 TTTCGACATTTTGGC
41247311 TTTTGCCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.45
Consensus pattern (16 bp):
TTTCGACATTTTGGCA
Found at i:41250004 original size:28 final size:28
Alignment explanation
Indices: 41249942--41250038 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
41249932 TATTAAGTCT
*
41249942 GCACACTCAGTGCTATATAATC-AACTC
1 GCACACTTAGTGCTATATAATCAAACTC
41249969 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATCAAACTC
* * * *
41249997 GCACACTTAGTGCTGTACAATTTAAACCC
1 GCACACTTAGTGCTATATAA-TCAAACTC
41250026 GCACACTTAGTGC
1 GCACACTTAGTGC
41250039 CAATCTCATG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.33
28 23 0.37
29 19 0.30
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCAAACTC
Found at i:41252015 original size:53 final size:53
Alignment explanation
Indices: 41251940--41252044 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
41251930 TTTCTTTTTA
* * * *
41251940 AACTTACCATTGCAATGTCTTGACATAGTCTTACGTGGTATCTTTGCCTTATG
1 AACTCACCATTGCAATGCCTTGACATAGTCTTACATGGGATCTTTGCCTTATG
* *
41251993 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCTTTGCCTTAT
1 AACTCACCATTGCAATGCCTTGACATAGTCTTACATGGGATCTTTGCCTTAT
41252045 AGTAGTTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (53 bp):
AACTCACCATTGCAATGCCTTGACATAGTCTTACATGGGATCTTTGCCTTATG
Found at i:41252079 original size:55 final size:53
Alignment explanation
Indices: 41251957--41252084 Score: 148
Period size: 53 Copynumber: 2.4 Consensus size: 53
41251947 CATTGCAATG
* * * * *
41251957 TCTTGACATAGTCTTACGTGGTATCTTTGCCTTATGAACTCACCATTGCCATG
1 TCTTGACATGGTCTTACATGGGATCTTTGCCTTATGAACTCACCAATGCCATA
* ** * *
41252010 CCTTGACATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATGCCATA
1 TCTTGACATGGTCTTACATGGGATCTTTGCCTTAT-G-AACTCACCAATGCCATA
41252065 TCTTGACATGGTCTTACATG
1 TCTTGACATGGTCTTACATG
41252085 ATTTCCTTTC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
53 31 0.50
54 1 0.02
55 30 0.48
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (53 bp):
TCTTGACATGGTCTTACATGGGATCTTTGCCTTATGAACTCACCAATGCCATA
Found at i:41261344 original size:10 final size:10
Alignment explanation
Indices: 41261329--41261353 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
41261319 TTGTGATGTA
41261329 TGAAATGTGG
1 TGAAATGTGG
41261339 TGAAATGTGG
1 TGAAATGTGG
41261349 TGAAA
1 TGAAA
41261354 ATGAATTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.28
Consensus pattern (10 bp):
TGAAATGTGG
Found at i:41275461 original size:67 final size:67
Alignment explanation
Indices: 41275353--41275482 Score: 224
Period size: 67 Copynumber: 1.9 Consensus size: 67
41275343 AATAGAACAA
* **
41275353 TATTATCATTTTATATCATCTTCCCCAAATTAAGACATGGAAACCCTAGGAAAGGGAAGTGTTTT
1 TATTATCATTTTATATCATATTCCCCAAATTAAGACATGGAAACCCTAGGAAAGAAAAGTGTTTT
41275418 TC
66 TC
*
41275420 TATTATCATTTTATATCATATTCCCCAAATTAAGACATGGAAACCCTGGGAAAGAAAAGTGTT
1 TATTATCATTTTATATCATATTCCCCAAATTAAGACATGGAAACCCTAGGAAAGAAAAGTGTT
41275483 CAAGCAAGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (67 bp):
TATTATCATTTTATATCATATTCCCCAAATTAAGACATGGAAACCCTAGGAAAGAAAAGTGTTTT
TC
Found at i:41278805 original size:42 final size:41
Alignment explanation
Indices: 41278746--41278873 Score: 150
Period size: 42 Copynumber: 3.0 Consensus size: 41
41278736 ATGTTATCAA
* *
41278746 ATATCGATGCCACTGTCCCAGACAGGGTCTCACACGAAATC
1 ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAATC
*
41278787 ATATGCGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTC
1 ATAT-CGATGCCAATGTCCCAGACAGGGTCTTACACG-AAA--TC
* * *
41278832 AAATCGGTGCCAAGGTCCCAGAC-GTGGTCTTACACGAAATC
1 ATATCGATGCCAATGTCCCAGACAG-GGTCTTACACGAAATC
41278873 A
1 A
41278874 GATATCGAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
41 7 0.09
42 29 0.39
43 6 0.08
44 28 0.37
45 5 0.07
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (41 bp):
ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAATC
Found at i:41281765 original size:43 final size:42
Alignment explanation
Indices: 41281717--41281821 Score: 147
Period size: 43 Copynumber: 2.5 Consensus size: 42
41281707 CCGGCATTAC
* *
41281717 GCCTGCTAGGCACAAAGGCCTGAATACACATCACCGGCAGGAA
1 GCCTGCTAGGCACAAAGGCC-AAATACACATCACCGGCACGAA
* *
41281760 GCCTGCTAGGCACGAAGGGCCAAATACACATCACCGGCACTAA
1 GCCTGCTAGGCAC-AAAGGCCAAATACACATCACCGGCACGAA
*
41281803 GCCTGCTAGGCACGAAGGC
1 GCCTGCTAGGCACAAAGGC
41281822 TCGAATATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 4 0.07
43 45 0.82
44 6 0.11
ACGTcount: A:0.30, C:0.31, G:0.27, T:0.11
Consensus pattern (42 bp):
GCCTGCTAGGCACAAAGGCCAAATACACATCACCGGCACGAA
Found at i:41281891 original size:38 final size:38
Alignment explanation
Indices: 41281826--41281900 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 38
41281816 GAAGGCTCGA
* * * *
41281826 ATATAATACCAGCACTAGGCTTACGGGATTTATCCCGG
1 ATATAATACCAGCACAAAGCCTACGGGATTTAACCCGG
* *
41281864 ATATAATACCAGTACAAAGCCTGCGGGATTTAACCCG
1 ATATAATACCAGCACAAAGCCTACGGGATTTAACCCG
41281901 AATACACATC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACAAAGCCTACGGGATTTAACCCGG
Found at i:41293373 original size:49 final size:50
Alignment explanation
Indices: 41293182--41293378 Score: 207
Period size: 50 Copynumber: 3.9 Consensus size: 50
41293172 ATCTATTGTG
* * * *
41293182 AGGTCGCATGTGTATTACTAAGTGTAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT
* * * * * * **
41293233 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * ** *
41293283 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTATATGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* *
41293333 -GGTCGCATGTGTAGTACTAAGTGCAGGCAACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
41293379 GCTTTGGCTA
Statistics
Matches: 118, Mismatches: 28, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
49 39 0.33
50 43 0.36
51 36 0.31
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:41298667 original size:40 final size:40
Alignment explanation
Indices: 41297668--41298653 Score: 1843
Period size: 40 Copynumber: 24.6 Consensus size: 40
41297658 TTGAATGATG
* * * * *
41297668 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
41297708 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
41297748 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41297788 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41297828 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41297868 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41297908 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41297948 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41297988 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41298028 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41298068 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41298108 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41298148 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41298188 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41298228 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41298268 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41298308 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41298348 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41298388 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41298428 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41298468 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41298508 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41298548 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41298588 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
41298629 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
41298654 AACGAGTAGC
Statistics
Matches: 933, Mismatches: 9, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
39 1 0.00
40 922 0.99
41 10 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41308262 original size:40 final size:40
Alignment explanation
Indices: 41308199--41308382 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
41308189 TATTCGAATG
* *
41308199 ATATCCGGGCTAAG-TCCCAAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
41308239 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
41308279 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
41308319 ATATCCGAGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
41308359 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
41308383 CTTGTGCGAG
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 117 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Done.