Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 184 of 290
Found at i:59127402 original size:81 final size:81
Alignment explanation
Indices: 59127154--59127709 Score: 525
Period size: 81 Copynumber: 6.9 Consensus size: 81
59127144 TAATAAATAG
* * * * * * *
59127154 AAATTACCGAAATACCCCTGATTGGTGAAATTACCGAAATAC-CCCT-AATTTCTGAAATTACCG
1 AAATTACCGAAATACCCCCGATTTGTAAAATTA-CTAAA-ACACCCTCGATTTGTAAAATTACCG
*
59127217 AAACACCCTCGATTTGTA
64 AAATACCCTCGATTTGTA
* * * *
59127235 AAATTACC-AAAGTACCCCCGATTTGTAAAATTACCAAAATACCCTCGA-TTGTGAAATTACTGA
1 AAATTACCGAAA-TACCCCCGATTTGTAAAATTACTAAAACACCCTCGATTTGTAAAATTACCGA
*
59127298 AATACCCTCAATTTGTA
65 AATACCCTCGATTTGTA
* * *
59127315 AAATTACTGAAATACCCCCGATTTGTGAAATTACTAAAACACCTTCGATTTGTAAAATTACCGAA
1 AAATTACCGAAATACCCCCGATTTGTAAAATTACTAAAACACCCTCGATTTGTAAAATTACCGAA
*
59127380 ACACCCTCGATTTGTA
66 ATACCCTCGATTTGTA
* * * * * * * *
59127396 AAATTACTGAAACACCCTCAAATTGTAAAATTACCT-AAATACCCTCGATTTGTGAAATTATCGA
1 AAATTACCGAAATACCCCCGATTTGTAAAATTA-CTAAAACACCCTCGATTTGTAAAATTACCGA
* * *
59127460 AACACCCTTGATTTCTA
65 AATACCCTCGATTTGTA
* * * * * ** * * * *
59127477 AAATTGCCAAAATA-ACTCGATTTTTAAAATTACCGACACACCCTCAATTTGTTAAATTACTGAA
1 AAATTACCGAAATACCCCCGATTTGTAAAATTACTAAAACACCCTCGATTTGTAAAATTACCGAA
*
59127541 ATACCCTCAATTTGTA
66 ATACCCTCGATTTGTA
** * * * *
59127557 AAATTACCGAAATACCATCGATTTGTAAAATTA-TCGAAACACCCCCGATTTCTAAAATTATCGA
1 AAATTACCGAAATACCCCCGATTTGTAAAATTACT-AAAACACCCTCGATTTGTAAAATTACCGA
* *
59127621 AATACCCTTG-TAGTGTA
65 AATACCCTCGAT-TTGTA
* * * * *
59127638 AAATTACCAAAACACCCCCGATTTGTAAAATTACTGAAACACCCCCGATTTGTAAAATTATCGAA
1 AAATTACCGAAATACCCCCGATTTGTAAAATTACTAAAACACCCTCGATTTGTAAAATTACCGAA
59127703 ATACCCT
66 ATACCCT
59127710 TGTACTGTAA
Statistics
Matches: 394, Mismatches: 70, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
79 2 0.01
80 140 0.36
81 249 0.63
82 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (81 bp):
AAATTACCGAAATACCCCCGATTTGTAAAATTACTAAAACACCCTCGATTTGTAAAATTACCGAA
ATACCCTCGATTTGTA
Found at i:59127760 original size:27 final size:27
Alignment explanation
Indices: 59127688--59127761 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
59127678 ACCCCCGATT
*
59127688 TGTAAAATTATCGAAATACCCTTGTAC
1 TGTAAAATTATCGAAATACCATTGTAC
* *
59127715 TGTAAAATTA-CTAAAATACCATTGTAG
1 TGTAAAATTATC-GAAATACCATTGTAC
* *
59127742 TGTAAAATGATCGACATACC
1 TGTAAAATTATCGAAATACC
59127762 CCTATAGGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.03
27 37 0.95
28 1 0.03
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCATTGTAC
Found at i:59129601 original size:13 final size:13
Alignment explanation
Indices: 59129583--59129616 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
59129573 GGTCACATGC
59129583 CCGTGTGGACAGG
1 CCGTGTGGACAGG
59129596 CCGTGTGGACAGG
1 CCGTGTGGACAGG
*
59129609 CTGTGTGG
1 CCGTGTGG
59129617 TCACACGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.12, C:0.21, G:0.47, T:0.21
Consensus pattern (13 bp):
CCGTGTGGACAGG
Found at i:59131109 original size:43 final size:42
Alignment explanation
Indices: 59131040--59131156 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 42
59131030 CACACAGTAC
* *
59131040 CGTACCAATGCCATATCCCAGATATGGTCTTACATGTAA-TCT
1 CGTATCAATGCCATATCCCAGATATGGTCTTACACG-AAGTCT
* * *
59131082 CGTATCAATGCCAATAGCCCAGCTATGGTTTTACACGAAGTCT
1 CGTATCAATGCC-ATATCCCAGATATGGTCTTACACGAAGTCT
* * *
59131125 CATATCGATGCCATATCCCAAATATGGTCTTA
1 CGTATCAATGCCATATCCCAGATATGGTCTTA
59131157 AACATAATCT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
CGTATCAATGCCATATCCCAGATATGGTCTTACACGAAGTCT
Found at i:59136804 original size:12 final size:13
Alignment explanation
Indices: 59136776--59136808 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
59136766 TTATTTCTTT
59136776 TTCTCCATCTACC
1 TTCTCCATCTACC
*
59136789 TTCTCC-TCTTCC
1 TTCTCCATCTACC
59136801 TTCTCCAT
1 TTCTCCAT
59136809 AGCTGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:59137909 original size:28 final size:28
Alignment explanation
Indices: 59137877--59137938 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
59137867 ATTTACTAGA
*
59137877 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
59137905 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
59137933 ATACCC
1 ATACCC
59137939 TCTAGGGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:59138079 original size:28 final size:26
Alignment explanation
Indices: 59138048--59138137 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 26
59138038 AGGAAGCGTC
*
59138048 CTGGTGGTTATGCCACAAATTATCTGTT
1 CTGGTGG-CATGCCACAAA-TATCTGTT
* **
59138076 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGG-CATGCCACAAATATCTGTT
*
59138103 CTGGTTGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCA-TGCCAC-AAATATCTGT-T
59138132 CTGGTG
1 CTGGTG
59138138 ACTCTGTCAC
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
26 1 0.02
27 20 0.41
28 22 0.45
29 6 0.12
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.34
Consensus pattern (26 bp):
CTGGTGGCATGCCACAAATATCTGTT
Found at i:59138106 original size:27 final size:28
Alignment explanation
Indices: 59138058--59138137 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 28
59138048 CTGGTGGTTA
* *
59138058 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGGCAC
** *
59138086 TGCCAC-GTATATCTGTTCTGGTTGCAC
1 TGCCACAAAATATCTGTTCTGGTGGCAC
59138113 TGCCACAAAATATCTGTATCTGGTG
1 TGCCACAAAATATCTGT-TCTGGTG
59138138 ACTCTGTCAC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 22 0.52
28 14 0.33
29 6 0.14
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGGCAC
Found at i:59138156 original size:55 final size:56
Alignment explanation
Indices: 59138058--59138162 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 56
59138048 CTGGTGGTTA
* * *
59138058 TGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-TCTGGTTGCAC
1 TGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTATCTGGTTGCAC
* * *
59138113 TGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTATCTGG
1 TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTATCTGG
59138163 CAGCCATGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
55 22 0.52
56 20 0.48
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (56 bp):
TGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTATCTGGTTGCAC
Found at i:59140846 original size:27 final size:25
Alignment explanation
Indices: 59140785--59140844 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
59140775 GAATGGATTT
*
59140785 TATATATATAATTCATCTTAAGGTA
1 TATATATATAACTCATCTTAAGGTA
59140810 TATATATATAACTCATCTTAAGGTA
1 TATATATATAACTCATCTTAAGGTA
*
59140835 TATATTTATA
1 TATATATATA
59140845 TAGGTAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (25 bp):
TATATATATAACTCATCTTAAGGTA
Found at i:59144361 original size:6 final size:6
Alignment explanation
Indices: 59144343--59144430 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
59144333 AAGAAACATT
* * *
59144343 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
59144392 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
59144431 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:59144393 original size:31 final size:31
Alignment explanation
Indices: 59144352--59144430 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
59144342 TATCAGAACT
* *
59144352 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
59144383 AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
59144414 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
59144431 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:59144628 original size:31 final size:32
Alignment explanation
Indices: 59144571--59144632 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
59144561 ACGAAGTCAC
* *
59144571 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
59144603 CAGATATATATA-TGTGGCGAAGCCACCAGA
1 CAGATATAGATATTGTGGCGAAGCCACCAGA
59144633 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:59144976 original size:27 final size:28
Alignment explanation
Indices: 59144945--59145114 Score: 187
Period size: 27 Copynumber: 6.3 Consensus size: 28
59144935 GGGTAAAATG
* *
59144945 GTAATTTTACCCCACAAGGGTATCTCGA
1 GTAATTTTACCCTACAAGGGTATTTCGA
* *
59144973 -TAATTCTACCCTACAGGGGTATTTC-A
1 GTAATTTTACCCTACAAGGGTATTTCGA
* *
59144999 GTAATTCTACCCTACAGGGGTATTTCG-
1 GTAATTTTACCCTACAAGGGTATTTCGA
*
59145026 GT-ATTTCTACCCTACAAGGGTATTT-TA
1 GTAATTT-TACCCTACAAGGGTATTTCGA
59145053 GT-ATTTCTACCCTACAAGGGTATTTC-A
1 GTAATTT-TACCCTACAAGGGTATTTCGA
59145080 GT-ATTTCTACCCTACAAGGGTATTTCG-
1 GTAATTT-TACCCTACAAGGGTATTTCGA
59145107 GTAATTTT
1 GTAATTTT
59145115 GTAAATCGAG
Statistics
Matches: 128, Mismatches: 7, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
26 4 0.03
27 120 0.94
28 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (28 bp):
GTAATTTTACCCTACAAGGGTATTTCGA
Found at i:59145003 original size:54 final size:54
Alignment explanation
Indices: 59144945--59145114 Score: 227
Period size: 54 Copynumber: 3.1 Consensus size: 54
59144935 GGGTAAAATG
* * * *
59144945 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCA
* * * *
59144999 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCA
*
59145053 GT-ATTTCTACCCTACAAGGGTATTTC-AGTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTT-TACCCTACAAGGGTATTTCGA-TATTTCTACCCTACAAGGGTATTTCA
59145107 GTAATTTT
1 GTAATTTT
59145115 GTAAATCGAG
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 3 0.03
54 93 0.93
55 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (54 bp):
GTAATTTTACCCTACAAGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCA
Found at i:59145181 original size:81 final size:80
Alignment explanation
Indices: 59145096--59145362 Score: 270
Period size: 81 Copynumber: 3.3 Consensus size: 80
59145086 CTACCCTACA
* ** ** *
59145096 AGGGTATTTCGGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTGCAAATCAGGGGTATTTTG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTAATTTGATAATTTTACAAATCAGGGGTATTTTG
*
59145161 GTAATTTTACAAGTCG
66 GTAATTTTACAA-ACG
* ** * *
59145177 AGGGTATTTCAATAATTTTACAGGTCGAGGGT-ATTTTAGTAATTTCACAAATCAGGGGTATTTT
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTAATTTGA-TAATTTTACAAATCAGGGGTATTTT
*
59145241 GGTAATTTTACAAACT
65 GGTAATTTTACAAACG
* * * * *
59145257 AGGGGTATTTTGATAATTTTACAAA-CCAGAGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
1 A-GGGTATTTCGATAATTTTACAAATCGAG-GGTAATTTGATAATTTTACAAATCAGGGGTATTT
* *
59145321 TGGTAATTTTATAAACAA
64 TGGTAATTTTACAAAC-G
*
59145339 AGGGTATTT-TAGTAATTTTACAAA
1 AGGGTATTTCGA-TAATTTTACAAA
59145363 CCAGGGGTAT
Statistics
Matches: 154, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
80 9 0.06
81 141 0.92
82 4 0.03
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (80 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTAATTTGATAATTTTACAAATCAGGGGTATTTTG
GTAATTTTACAAACG
Found at i:59145390 original size:27 final size:27
Alignment explanation
Indices: 59145135--59145383 Score: 286
Period size: 27 Copynumber: 9.2 Consensus size: 27
59145125 GGTAAAATGA
* *
59145135 TAATTTTGCAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
** ***
59145162 TAATTTTACAAGTC-GAGGGTATTTCAA
1 TAATTTTACAAACCAG-GGGTATTTTGG
*** *
59145189 TAATTTTACAGGTC-GAGGGTATTTTAG
1 TAATTTTACAAACCAG-GGGTATTTTGG
* *
59145216 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
59145243 TAATTTTACAAACTAGGGGTATTTTGA
1 TAATTTTACAAACCAGGGGTATTTTGG
*
59145270 TAATTTTACAAACCAGAGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
59145297 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
59145324 TAATTTTATAAACAAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
59145351 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
59145378 TAATTT
1 TAATTT
59145384 GGTAAACTAA
Statistics
Matches: 192, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 190 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:59147714 original size:17 final size:18
Alignment explanation
Indices: 59147687--59147722 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
59147677 AATCAAATTT
59147687 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
59147705 ATGC-TATTAATTTATTA
1 ATGCATATTAAATTATTA
59147722 A
1 A
59147723 AATAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:59156987 original size:25 final size:25
Alignment explanation
Indices: 59156959--59157028 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
59156949 CTCTCAAAAT
*
59156959 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
59156984 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
59157009 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
59157029 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:59162226 original size:12 final size:12
Alignment explanation
Indices: 59162209--59162252 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
59162199 TATACAAGTC
59162209 AAAAAAAATTCG
1 AAAAAAAATTCG
59162221 AAAAAAAATTC-
1 AAAAAAAATTCG
*
59162232 AAAAAAATTTCG
1 AAAAAAAATTCG
59162244 AAAAGAAAA
1 AAAA-AAAA
59162253 AAAATCTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 10 0.36
12 15 0.54
13 3 0.11
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.16
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:59162233 original size:23 final size:24
Alignment explanation
Indices: 59162207--59162252 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
59162197 GTTATACAAG
59162207 TCAAAAAAAATTCGAAAA-AAAAT
1 TCAAAAAAAATTCGAAAAGAAAAT
*
59162230 TCAAAAAAATTTCGAAAAGAAAA
1 TCAAAAAAAATTCGAAAAGAAAA
59162253 AAAATCTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.67, C:0.09, G:0.07, T:0.17
Consensus pattern (24 bp):
TCAAAAAAAATTCGAAAAGAAAAT
Found at i:59163195 original size:5 final size:5
Alignment explanation
Indices: 59163185--59163241 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
59163175 AAGAGAAAAT
*
59163185 AAAGA AAAGA AAAGAA AAAGA AAA-A GAAGAA AAAGAA AAAGA AATA-A
1 AAAGA AAAGA AAAG-A AAAGA AAAGA AAAG-A AAAG-A AAAGA AA-AGA
59163232 AAAGA AAAGA
1 AAAGA AAAGA
59163242 GAGGCAAGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.56
6 16 0.36
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:59163214 original size:25 final size:25
Alignment explanation
Indices: 59163189--59163237 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
59163179 GAAAATAAAG
59163189 AAAAGAAAAGAAAAAGAAAAAGAAGA
1 AAAAGAAAA-AAAAAGAAAAAGAAGA
* *
59163215 AAAAGAAAAAGAAATAAAAAGAA
1 AAAAGAAAAAAAAAGAAAAAGAA
59163238 AAGAGAGGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (25 bp):
AAAAGAAAAAAAAAGAAAAAGAAGA
Found at i:59163216 original size:15 final size:15
Alignment explanation
Indices: 59163185--59163239 Score: 74
Period size: 16 Copynumber: 3.5 Consensus size: 15
59163175 AAGAGAAAAT
*
59163185 AAAGAAAAGAAAAGAA
1 AAAGAAAA-AGAAGAA
59163201 AAAGAAAAAGAAGAA
1 AAAGAAAAAGAAGAA
*
59163216 AAAGAAAAAGAAATAA
1 AAAGAAAAAG-AAGAA
59163232 AAAGAAAA
1 AAAGAAAA
59163240 GAGAGGCAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
15 16 0.44
16 20 0.56
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (15 bp):
AAAGAAAAAGAAGAA
Found at i:59163239 original size:6 final size:6
Alignment explanation
Indices: 59163185--59163228 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
59163175 AAGAGAAAAT
59163185 AAAG-A AAAG-A AAAGAA AAAGAA AAAG-- -AAGAA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
59163228 A
1 A
59163229 TAAAAAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
3 3 0.09
5 9 0.26
6 23 0.66
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:59163240 original size:21 final size:20
Alignment explanation
Indices: 59163174--59163241 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 20
59163164 ACATTCTTGT
* *
59163174 AAAGAGAAAATAAAGAAAAGA
1 AAAGA-AAAAGAAAAAAAAGA
*
59163195 AAAGAAAAAGAAAAAGAAGAA
1 AAAGAAAAAGAAAAAAAAG-A
59163216 AAAGAAAAAGAAATAAAAAGA
1 AAAGAAAAAGAAA-AAAAAGA
59163237 AAAGA
1 AAAGA
59163242 GAGGCAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.27
21 25 0.61
22 5 0.12
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGAAAAAAAAGA
Found at i:59171595 original size:24 final size:25
Alignment explanation
Indices: 59171568--59171644 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 25
59171558 GCCTAGCCTC
*
59171568 TTTTAAT-AATTGGAGCAAAGCCCT
1 TTTTAATAAACTGGAGCAAAGCCCT
* *
59171592 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGAGCAAAGCCCT
*** *
59171617 TTTCGGTAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGAGCAAAGCCCT
59171642 TTT
1 TTT
59171645 GAACTTCCTC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 6 0.13
25 41 0.87
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (25 bp):
TTTTAATAAACTGGAGCAAAGCCCT
Found at i:59171614 original size:25 final size:25
Alignment explanation
Indices: 59171582--59171644 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
59171572 AATAATTGGA
*
59171582 GCAAAGCCCTTTTTGATAAACTGGG
1 GCAAAGCCCTTTTCGATAAACTGGG
*
59171607 GCAAAGCCCTTTTCGGTAAACTGGG
1 GCAAAGCCCTTTTCGATAAACTGGG
59171632 GCAAAGCCCTTTT
1 GCAAAGCCCTTTT
59171645 GAACTTCCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (25 bp):
GCAAAGCCCTTTTCGATAAACTGGG
Found at i:59171703 original size:10 final size:10
Alignment explanation
Indices: 59171690--59171728 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
59171680 ATATATGAAT
59171690 ATATCATGGC
1 ATATCATGGC
*
59171700 ATATCATGTGT
1 ATATCATG-GC
59171711 ATATCATGGC
1 ATATCATGGC
59171721 ATATCATG
1 ATATCATG
59171729 TATAAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:59171715 original size:21 final size:21
Alignment explanation
Indices: 59171689--59171729 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
59171679 CATATATGAA
59171689 TATATCATGGCATATCATGTG
1 TATATCATGGCATATCATGTG
59171710 TATATCATGGCATATCATGT
1 TATATCATGGCATATCATGT
59171730 ATAAAACAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (21 bp):
TATATCATGGCATATCATGTG
Found at i:59176867 original size:32 final size:32
Alignment explanation
Indices: 59176825--59177050 Score: 185
Period size: 32 Copynumber: 7.0 Consensus size: 32
59176815 AAATGGTACA
* *
59176825 ACTTGAAAAGGTTATGTAAACTTTGTGTGTAT
1 ACTTGAAAAGGTTAGGTATACTTTGTGTGTAT
*
59176857 ACTTGGAAAGGTTAGGTATAC-TT-TGTGTAT
1 ACTTGAAAAGGTTAGGTATACTTTGTGTGTAT
** * *
59176887 ACCATATGAAAAGGAAAGGTACACTTTGTGTGTAC
1 A-C-T-TGAAAAGGTTAGGTATACTTTGTGTGTAT
* *
59176922 ACTTGGAAATGTTAGGTATAC-TT-TGTGTAT
1 ACTTGAAAAGGTTAGGTATACTTTGTGTGTAT
** * *
59176952 ACCATATGAAAAGGAAAGGTATACCTTGTGTGTAC
1 A-C-T-TGAAAAGGTTAGGTATACTTTGTGTGTAT
*
59176987 ACTTGGAAAGGTTAGGTATAC-TT-TGTGTAT
1 ACTTGAAAAGGTTAGGTATACTTTGTGTGTAT
**
59177017 ACCATATGAAAAGGAAAGGTATACTTTGTGTGTA
1 A-C-T-TGAAAAGGTTAGGTATACTTTGTGTGTA
59177051 CCACTTGGAA
Statistics
Matches: 153, Mismatches: 26, Indels: 27
0.74 0.13 0.13
Matches are distributed among these distances:
30 22 0.14
31 9 0.06
32 49 0.32
33 45 0.29
34 8 0.05
35 20 0.13
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (32 bp):
ACTTGAAAAGGTTAGGTATACTTTGTGTGTAT
Found at i:59176897 original size:65 final size:65
Alignment explanation
Indices: 59176844--59177063 Score: 395
Period size: 65 Copynumber: 3.4 Consensus size: 65
59176834 GGTTATGTAA
* *
59176844 ACTTTGTGTGTATACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTAC
1 ACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTAT
*
59176909 ACTTTGTGTGTACACTTGGAAATGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTAT
*
59176974 ACCTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTAT
59177039 ACTTTGTGTGTACCACTTGGAAAGG
1 ACTTTGTGTGTA-CACTTGGAAAGG
59177064 AATGTACACC
Statistics
Matches: 148, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
65 136 0.92
66 12 0.08
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (65 bp):
ACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTAT
Found at i:59177063 original size:33 final size:33
Alignment explanation
Indices: 59176844--59177065 Score: 231
Period size: 33 Copynumber: 6.8 Consensus size: 33
59176834 GGTTATGTAA
* **
59176844 ACTTTGTGTGTA-TACTTGGAAAGGTTAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
* * *
59176876 ACTTTGTGTATACCA-TATGAAAAGGAAAGGTAC
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGGTAT
* **
59176909 ACTTTGTGTGTA-CACTTGGAAATGTTAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
* *
59176941 ACTTTGTGTATACCA-TATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGGTAT
* **
59176974 ACCTTGTGTGTA-CACTTGGAAAGGTTAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
* *
59177006 ACTTTGTGTATACCA-TATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGGTAT
59177039 ACTTTGTGTGTACCACTTGGAAAGGAA
1 ACTTTGTGTGTACCACTTGGAAAGGAA
59177066 TGTACACCTC
Statistics
Matches: 152, Mismatches: 29, Indels: 17
0.77 0.15 0.09
Matches are distributed among these distances:
32 63 0.41
33 88 0.58
34 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.33
Consensus pattern (33 bp):
ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
Found at i:59177093 original size:130 final size:130
Alignment explanation
Indices: 59176847--59177101 Score: 354
Period size: 130 Copynumber: 2.0 Consensus size: 130
59176837 TATGTAAACT
*
59176847 TTGTGTGTATACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTACACT
1 TTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTACACT
** * ** * * * *
59176912 TTGTGTGTACACTTGGAAATGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTATACC
66 TTGTGTGTACACTTGGAAATGGAAGGTACACTAAGTGGACAACATAGGAAAAGGAAAGGTATACC
*
59176977 TTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTATACT
1 TTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTACACT
*
59177042 TTGTGTGTACCACTTGGAAA-GGAATGTACACCTCAAGTGGACAAC-T-GGAAAAGGAAAGGT
66 TTGTGTGTA-CACTTGGAAATGGAAGGTACA-CT-AAGTGGACAACATAGGAAAAGGAAAGGT
59177102 CCATCAGAAA
Statistics
Matches: 110, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
130 91 0.83
131 13 0.12
132 6 0.05
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (130 bp):
TTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTACACT
TTGTGTGTACACTTGGAAATGGAAGGTACACTAAGTGGACAACATAGGAAAAGGAAAGGTATACC
Found at i:59181964 original size:42 final size:42
Alignment explanation
Indices: 59181843--59181964 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
59181833 TACCATACCA
* *
59181843 ATGCCATATCCTAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCTAGATATGGTCTTACACGTAATCTCATATCG
* * * *
59181885 ATGCCAATAGCCCAGTTATGGTCTTACAC-AAAGTCTCATATCG
1 ATGCC-ATATCCTAGATATGGTCTTACACGTAA-TCTCATATCG
**
59181928 ATGCCATATCCTAGATATAATCTTACACGTAATCTCA
1 ATGCCATATCCTAGATATGGTCTTACACGTAATCTCA
59181965 ATAACCCTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 30 0.46
43 35 0.54
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGTAATCTCATATCG
Found at i:59183565 original size:38 final size:38
Alignment explanation
Indices: 59183504--59183576 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
59183494 AAACTTGTTC
** * * *
59183504 TTACATGATGTGGAAATTTTGAAAATTAAAATATAAAA
1 TTACATGATGCAGAAAATATGAAAATGAAAATATAAAA
59183542 TTACATGATGCAGAAAATATGAAAATGAAAATATA
1 TTACATGATGCAGAAAATATGAAAATGAAAATATA
59183577 TCAAATTTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.52, C:0.04, G:0.14, T:0.30
Consensus pattern (38 bp):
TTACATGATGCAGAAAATATGAAAATGAAAATATAAAA
Found at i:59187215 original size:31 final size:31
Alignment explanation
Indices: 59187177--59187239 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
59187167 CTTTTCATAC
59187177 TTCATATTTCATAACACTAGGCCAAAGCCTT
1 TTCATATTTCATAACACTAGGCCAAAGCCTT
** * *
59187208 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTAGGCCAAAGCCTT
59187239 T
1 T
59187240 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTAGGCCAAAGCCTT
Found at i:59187523 original size:47 final size:47
Alignment explanation
Indices: 59187454--59187546 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
59187444 TAGCCTCTTT
59187454 TAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTA
1 TAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTA
* *
59187501 TAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCT
1 TAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCT
59187547 TTTGCACTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (47 bp):
TAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTA
Found at i:59187550 original size:24 final size:24
Alignment explanation
Indices: 59187445--59187549 Score: 167
Period size: 24 Copynumber: 4.4 Consensus size: 24
59187435 CTAGAGGCCT
*
59187445 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
59187470 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
59187494 AGCCC-TATAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
59187517 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
59187541 AGCCCTTTT
1 AGCCCTTTT
59187550 GCACTTCCTC
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 22 0.29
24 49 0.65
25 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:59187624 original size:20 final size:20
Alignment explanation
Indices: 59187599--59187665 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
59187589 TTATGAATAC
59187599 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
59187619 ATCATGTACATAGCATACAT
1 ATCATGTGCATATCATACAT
*
59187639 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
59187659 ACCATGT
1 ATCATGT
59187666 TTACTAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:59191644 original size:46 final size:46
Alignment explanation
Indices: 59191465--59191723 Score: 197
Period size: 46 Copynumber: 5.5 Consensus size: 46
59191455 ATTGTGTGCT
* **
59191465 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCC
* *
59191511 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTAAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CAAGATGAGAGCC
* **
59191559 AGTGTAAGACATGTCTAGGACATGCATCGGCCT-TGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATG-AGAGCC
* * * * *
59191605 AATGTAAGACATGTTTGGGACATGCATTGGCTACAAGATGTGTG--
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCC
* * * * * **
59191649 AGTGTAAGGCCATGCCTGGGACATGGCTTCGGCATGGATATG-TGAGAGTT
1 AGTGTAA-GACATGTCTGGGACAT-GCATCGGC-T--ACAAGATGAGAGCC
59191699 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
59191724 GCATTGACTT
Statistics
Matches: 170, Mismatches: 27, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
44 6 0.04
45 15 0.09
46 63 0.37
47 31 0.18
48 30 0.18
49 5 0.03
50 20 0.12
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCC
Found at i:59204772 original size:27 final size:26
Alignment explanation
Indices: 59204725--59204802 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 26
59204715 TTGGAGGAAG
* * * *
59204725 TACTGTACAGGTGGCTCTGCCATAAT
1 TACTGTACTGGTGGGTTTGCCACAAT
*
59204751 TACTGTTACTGGTGGGTTTGCCACATT
1 TACTG-TACTGGTGGGTTTGCCACAAT
59204778 TACTGATACTGGTGGGTTTGCCACA
1 TACTG-TACTGGTGGGTTTGCCACA
59204803 TATACTATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
26 5 0.11
27 40 0.89
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (26 bp):
TACTGTACTGGTGGGTTTGCCACAAT
Found at i:59204803 original size:27 final size:27
Alignment explanation
Indices: 59204750--59204808 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
59204740 TCTGCCATAA
*
59204750 TTACTGTTACTGGTGGGTTTGCCACAT
1 TTACTGATACTGGTGGGTTTGCCACAT
59204777 TTACTGATACTGGTGGGTTTGCCACAT
1 TTACTGATACTGGTGGGTTTGCCACAT
*
59204804 ATACT
1 TTACT
59204809 ATTACTGACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.39
Consensus pattern (27 bp):
TTACTGATACTGGTGGGTTTGCCACAT
Found at i:59204814 original size:27 final size:27
Alignment explanation
Indices: 59204751--59204815 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
59204741 CTGCCATAAT
* *
59204751 TACTGTTACTGGTGGGTTTGCCACATT
1 TACTATTACTGGTGGGTTTGCCACATA
59204778 TACTGA-TACTGGTGGGTTTGCCACATA
1 TACT-ATTACTGGTGGGTTTGCCACATA
59204805 TACTATTACTG
1 TACTATTACTG
59204816 ACAGCTTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (27 bp):
TACTATTACTGGTGGGTTTGCCACATA
Found at i:59207154 original size:27 final size:29
Alignment explanation
Indices: 59207097--59207154 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 29
59207087 CAATAAACGT
*
59207097 TGTTGAATTTGAATGTGTATGATTTTATA
1 TGTTGAATTTGAATGTGTATGAATTTATA
*
59207126 TGTTGAATTT-AAT-TGTATGAATTTCTA
1 TGTTGAATTTGAATGTGTATGAATTTATA
59207153 TG
1 TG
59207155 GTTATAGCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 14 0.52
28 3 0.11
29 10 0.37
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.52
Consensus pattern (29 bp):
TGTTGAATTTGAATGTGTATGAATTTATA
Found at i:59207297 original size:41 final size:42
Alignment explanation
Indices: 59207251--59207370 Score: 156
Period size: 41 Copynumber: 2.9 Consensus size: 42
59207241 TAACAGTGAT
*
59207251 ATATCAGGCTTATT-CCTAGTAGGCTTTGATGCCGGTGTA-TG
1 ATATCAGGCTTATTACCTAGCAGGCTTT-ATGCCGGTGTATTG
* *
59207292 ATATCAGGCTTATTGCCTAGCAGGCTTTATGCTGGTGTATTG
1 ATATCAGGCTTATTACCTAGCAGGCTTTATGCCGGTGTATTG
* * *
59207334 A-ATCAGGTTTATTACCTAGCAGGCTCTATGCCAGTGT
1 ATATCAGGCTTATTACCTAGCAGGCTTTATGCCGGTGT
59207371 TTTATACAAG
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 55 0.79
42 15 0.21
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (42 bp):
ATATCAGGCTTATTACCTAGCAGGCTTTATGCCGGTGTATTG
Found at i:59212276 original size:46 final size:47
Alignment explanation
Indices: 59212169--59212283 Score: 144
Period size: 46 Copynumber: 2.4 Consensus size: 47
59212159 GCCACATTAT
* *
59212169 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGCCATCGAGAC
* * * *
59212217 GAGAGCTAGTGTAAGATATGTCTGGGACAT-GCATCGCCCTCGAGAT
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGCCATCGAGAC
59212263 GTA-AGCCAGTGTAAGACATGT
1 G-AGAGCCAGTGTAAGACATGT
59212284 TTCGGACTTG
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 29 0.50
47 14 0.24
48 15 0.26
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGCCATCGAGAC
Found at i:59229902 original size:38 final size:38
Alignment explanation
Indices: 59229704--59229950 Score: 217
Period size: 38 Copynumber: 6.4 Consensus size: 38
59229694 ATAAAATAAA
* * *
59229704 TTGTGCTGAG-ATTGTATCCGGGCTTAAAGACCCGCAGGCT
1 TTGTGCTG-GTATTATATCCGGG-TTAAA-TCCCGCAAGCT
* * * * *
59229744 ATATGCTGGAATTATATACGGGTTAAATCCCGCAGGCT
1 TTGTGCTGGTATTATATCCGGGTTAAATCCCGCAAGCT
* *
59229782 TTGTGCTGGTAATATATCCGGGTTAAATCCTGCAAGCT
1 TTGTGCTGGTATTATATCCGGGTTAAATCCCGCAAGCT
* * *
59229820 TTGTGCTAGTAATATATCCGGGTTAAATCTCGCAAGCT
1 TTGTGCTGGTATTATATCCGGGTTAAATCCCGCAAGCT
* * * *
59229858 TCGTGCTGGTATTATATCCGGGTTAAATCCCACAGGCC
1 TTGTGCTGGTATTATATCCGGGTTAAATCCCGCAAGCT
* * * * * *
59229896 TAGTGCTAGTATTATATCTGAGTTTAAAGTCCCGTACGCT
1 TTGTGCTGGTATTATATCCG-GGTTAAA-TCCCGCAAGCT
* *
59229936 TCGTGCTGGTGTTAT
1 TTGTGCTGGTATTAT
59229951 GTTTGGGTTT
Statistics
Matches: 171, Mismatches: 33, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
38 124 0.73
39 12 0.07
40 35 0.20
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (38 bp):
TTGTGCTGGTATTATATCCGGGTTAAATCCCGCAAGCT
Found at i:59232004 original size:28 final size:28
Alignment explanation
Indices: 59231972--59232036 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
59231962 ATTTACTAGA
*
59231972 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
59232000 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
59232028 ATACCCCTA
1 ATACCCCTA
59232037 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:59232200 original size:27 final size:28
Alignment explanation
Indices: 59232154--59232231 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
59232144 GGTGGCTATG
* *
59232154 CCACAAATTATCTGTTCTGGTGGCCCTA
1 CCACAAAATATCTGTTCTGGTGGCACTA
** *
59232182 CCAC-GTATATCTGTTCTGGTGGCACTG
1 CCACAAAATATCTGTTCTGGTGGCACTA
59232209 CCACAAAATATCTGTATCTGGTG
1 CCACAAAATATCTGT-TCTGGTG
59232232 ACTATGTCAC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 22 0.54
28 12 0.29
29 7 0.17
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
CCACAAAATATCTGTTCTGGTGGCACTA
Found at i:59232719 original size:19 final size:19
Alignment explanation
Indices: 59232695--59232733 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
59232685 TTTTAATTAT
* *
59232695 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
59232714 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
59232733 T
1 T
59232734 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:59237395 original size:40 final size:40
Alignment explanation
Indices: 59237204--59237388 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
59237194 TTGAATGATG
* * * * *
59237204 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
59237244 TCCAGACTAAGAT-CCGAAGGCATTTGTGAGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
59237284 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59237323 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59237364 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59237389 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 34 0.28
40 79 0.65
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59237410 original size:79 final size:79
Alignment explanation
Indices: 59237257--59237421 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
59237247 AGACTAAGAT
* **
59237257 CCGAAGGCATTTGTGAGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGAGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
59237322 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
59237336 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGAGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
59237399 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
59237415 CCGAAGG
1 CCGAAGG
59237422 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGAGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:59245348 original size:39 final size:40
Alignment explanation
Indices: 59245247--59245431 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
59245237 TTGAATGATG
* * *
59245247 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
59245286 ATCCGGACTAAGAT-CCGAAGGCATTTGTCCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
59245327 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
59245366 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
59245405 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
59245432 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 80 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:59245383 original size:79 final size:81
Alignment explanation
Indices: 59245247--59245431 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
59245237 TTGAATGATG
*
59245247 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
59245311 TGTCCGAGATACTA-A
66 TGTCCGAGATACTATA
* * * **
59245326 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
59245388 TTTGTGCGAGTTACTATA
64 TTTGTCCGAGATACTATA
* *
59245406 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59245432 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTCCGAGATACTATA
Found at i:59245453 original size:79 final size:79
Alignment explanation
Indices: 59245300--59245464 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
59245290 GGACTAAGAT
* **
59245300 CCGAAGGCATTTGTCCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTCCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
59245365 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
59245379 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTCCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
59245442 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
59245458 CCGAAGG
1 CCGAAGG
59245465 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTCCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:59251213 original size:28 final size:28
Alignment explanation
Indices: 59251181--59251245 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
59251171 ATTTACTAGA
*
59251181 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
59251209 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
59251237 ATACCCCTA
1 ATACCCCTA
59251246 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:59251409 original size:27 final size:28
Alignment explanation
Indices: 59251351--59251440 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
59251341 GGGAAGCATC
*
59251351 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
59251379 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
59251406 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
59251435 CTGGTG
1 CTGGTG
59251441 ACTATGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:59251459 original size:55 final size:56
Alignment explanation
Indices: 59251351--59251465 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
59251341 GGGAAGCATC
* * * *
59251351 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCATGCCACATATATCTGTAT
* * *
59251406 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTATGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCATGCCACATATATCTGTAT
59251462 CTGG
1 CTGG
59251466 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.60
56 19 0.38
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCATGCCACATATATCTGTAT
Found at i:59251928 original size:19 final size:19
Alignment explanation
Indices: 59251904--59251942 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
59251894 TTTTAATTAT
* *
59251904 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
59251923 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
59251942 T
1 T
59251943 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:59253950 original size:13 final size:13
Alignment explanation
Indices: 59253929--59253964 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
59253919 AATATAATCT
59253929 TAAATATTAAATA
1 TAAATATTAAATA
* *
59253942 TAAAAATTAAATC
1 TAAATATTAAATA
59253955 TAAATATTAA
1 TAAATATTAA
59253965 TAAATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAATATTAAATA
Found at i:59257001 original size:46 final size:46
Alignment explanation
Indices: 59256934--59257062 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
59256924 TGTAACCCGC
* * *
59256934 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
59256980 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
59257026 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59257063 TGCCCAAATA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59266186 original size:93 final size:92
Alignment explanation
Indices: 59266028--59266209 Score: 224
Period size: 93 Copynumber: 2.0 Consensus size: 92
59266018 TTATTAACTG
* * * *
59266028 TAAAATGGTATCGATACCAGGCAAGGTATCAATACTTTGTTAAGGGTATTAATACATTTGATTTT
1 TAAAATGATATCGATACCAGGAAAGGTATCAATAATTTGTTAAGGGTATCAATACATTTGATTTT
*
59266093 TGTTCAATTTTTCAAAACATTGAAGCT
66 TGCTCAATTTTTCAAAACATTGAAGCT
* * *
59266120 TAAAATGATATCGATACCAGGAAAGGGTATCGATAATTT-TTGCAA-GGTATCGATACTTTTGAT
1 TAAAATGATATCGATACCAGGAAA-GGTATCAATAATTTGTT--AAGGGTATCAATACATTTGAT
* * *
59266183 TTTTGCTCGATTTTTCTAAACTTTGAA
63 TTTTGCTCAATTTTTCAAAACATTGAA
59266210 ATTCAAATTG
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
92 24 0.32
93 50 0.66
94 2 0.03
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (92 bp):
TAAAATGATATCGATACCAGGAAAGGTATCAATAATTTGTTAAGGGTATCAATACATTTGATTTT
TGCTCAATTTTTCAAAACATTGAAGCT
Found at i:59266931 original size:56 final size:57
Alignment explanation
Indices: 59266867--59266973 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 57
59266857 TCATTTTCTT
** *
59266867 TTTGGAGAAAATGACATTCATTTCCAAATAATTT-CATTTCTCCATTTTCATTATCA
1 TTTGGAGAAAACCACAATCATTTCCAAATAATTTCCATTTCTCCATTTTCATTATCA
* *
59266923 TTTGGAGAAAACCATAATCATTTCCAAATACTTTCCATTTCTCCATTTTCA
1 TTTGGAGAAAACCACAATCATTTCCAAATAATTTCCATTTCTCCATTTTCA
59266974 CCATTTCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
56 29 0.64
57 16 0.36
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.41
Consensus pattern (57 bp):
TTTGGAGAAAACCACAATCATTTCCAAATAATTTCCATTTCTCCATTTTCATTATCA
Found at i:59268220 original size:47 final size:47
Alignment explanation
Indices: 59268142--59268451 Score: 460
Period size: 47 Copynumber: 6.6 Consensus size: 47
59268132 CCCTTCGGGA
* * * * * *
59268142 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59268188 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59268236 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59268283 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59268330 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59268377 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59268426 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
59268452 CACAATTATC
Statistics
Matches: 244, Mismatches: 16, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
46 2 0.01
47 195 0.80
48 2 0.01
49 45 0.18
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59274473 original size:15 final size:16
Alignment explanation
Indices: 59274446--59274475 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59274436 AGATATTCCA
59274446 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
59274462 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
59274476 GGCAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:59280088 original size:28 final size:28
Alignment explanation
Indices: 59280048--59280117 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
59280038 ATGAAAATTT
** *
59280048 CACTAAGCATGCGAGTTTGGTTAAT-GAG
1 CACTAAGTGTGCGAGTTTGATT-ATCGAG
59280076 CACTAAGTGTGCGAGTTTGATTATCGAG
1 CACTAAGTGTGCGAGTTTGATTATCGAG
59280104 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
59280118 AGGAAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.05
28 36 0.95
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTGATTATCGAG
Found at i:59282708 original size:38 final size:38
Alignment explanation
Indices: 59282661--59282806 Score: 206
Period size: 38 Copynumber: 3.8 Consensus size: 38
59282651 GGCCTAAAGA
*
59282661 CCCGCAGGCTAT-ATGCTGG-AATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCGTGCTGGTAA-TATATCCGGGTTAAAT
*
59282699 CTCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
59282737 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* * * *
59282775 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGG
59282807 CCTTCGTACC
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
37 1 0.01
38 96 0.97
39 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
Found at i:59282847 original size:43 final size:43
Alignment explanation
Indices: 59282799--59282953 Score: 274
Period size: 43 Copynumber: 3.6 Consensus size: 43
59282789 GCTGGTATTA
*
59282799 TATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
59282842 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
59282885 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATATG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
59282928 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
59282954 GTAATGCTGG
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:59284344 original size:3 final size:3
Alignment explanation
Indices: 59284331--59284359 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
59284321 ATGAGTTGAA
59284331 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
59284360 GATATGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:59285476 original size:27 final size:27
Alignment explanation
Indices: 59285435--59285515 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
59285425 AGCATGGCTG
* *
59285435 CCAGAA-CTGATATTGTGACAGAGTCA
1 CCAGAATCAGATATTGTGACAGAGCCA
*
59285461 CCAGATAT-AGATATTGTGGCAGAGCCA
1 CCAGA-ATCAGATATTGTGACAGAGCCA
* * *
59285488 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAATCAGATATTGTGACAGAGCCA
59285515 C
1 C
59285516 TTAACAGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.15
27 40 0.85
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGAATCAGATATTGTGACAGAGCCA
Found at i:59285675 original size:97 final size:98
Alignment explanation
Indices: 59285537--59285741 Score: 295
Period size: 97 Copynumber: 2.1 Consensus size: 98
59285527 AGTGGCACAA
* *
59285537 AGCCATCGATAACGGGTCTATAATCGGCACGAAGCCCACAATATCAATACAAAGCCCACAATAAT
1 AGCCATCGATAACGGGTCTATAATCGGCACAAAGCCCACAATATCAATACAAAGCCCACAATAAC
* * * *
59285602 GGCACACAGCCTTCGGTAACATGATCGGCACTC
66 AGCACACAACCTTCAGTAACATGATCGGAACTC
* * * * *
59285635 A-CCATTGATAACGGGTCTATCATCGGCACAAAGCCTACAATATCGATACGAAGCCCACAATAAC
1 AGCCATCGATAACGGGTCTATAATCGGCACAAAGCCCACAATATCAATACAAAGCCCACAATAAC
*
59285699 AGCACACAACCTTCAGTAACATGATTGGAACTC
66 AGCACACAACCTTCAGTAACATGATCGGAACTC
59285732 AGCCATCGAT
1 AGCCATCGAT
59285742 CGGTCAACAG
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
97 85 0.91
98 8 0.09
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.19
Consensus pattern (98 bp):
AGCCATCGATAACGGGTCTATAATCGGCACAAAGCCCACAATATCAATACAAAGCCCACAATAAC
AGCACACAACCTTCAGTAACATGATCGGAACTC
Found at i:59285786 original size:27 final size:26
Alignment explanation
Indices: 59285747--59285825 Score: 95
Period size: 27 Copynumber: 3.0 Consensus size: 26
59285737 TCGATCGGTC
*
59285747 AACAGATATTGTGACAAAGTCACCAG
1 AACAGATATTGTGACAAAGCCACCAG
* *
59285773 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAAAGCCACCAG
* *
59285800 AACAGATATTTGTGGCATAGCCACCA
1 AACAGATA-TTGTGACAAAGCCACCA
59285826 AAACGTTTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
26 8 0.17
27 39 0.83
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGACAAAGCCACCAG
Found at i:59286074 original size:27 final size:28
Alignment explanation
Indices: 59286044--59286231 Score: 68
Period size: 27 Copynumber: 7.0 Consensus size: 28
59286034 AACACCCTAG
*
59286044 GGGTAAAAT-GGTAATTTTACCCTACAA
1 GGGTAAAATCGGTAATTCTACCCTACAA
** *
59286071 GGGT-ATCTCGGTAATTCTACCCTACAG
1 GGGTAAAATCGGTAATTCTACCCTACAA
** * *** ***
59286098 GGGT-ATTTCAGTAATTCTATGATATTG
1 GGGTAAAATCGGTAATTCTACCCTACAA
** * *
59286125 GGGT-ATTTCAGTAATTCTACCTTACAA
1 GGGTAAAATCGGTAATTCTACCCTACAA
** * *
59286152 GGGT-ATTTCAGTAATTCTACCCTACAG
1 GGGTAAAATCGGTAATTCTACCCTACAA
** *
59286179 GGGT-ATTTCAGTAATTCTACCCTA-AA
1 GGGTAAAATCGGTAATTCTACCCTACAA
** *
59286205 GGCGT-ATTTCAGTAATTCTACCCTACA
1 GG-GTAAAATCGGTAATTCTACCCTACA
59286232 GATATGAGAT
Statistics
Matches: 138, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.04
27 132 0.96
28 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (28 bp):
GGGTAAAATCGGTAATTCTACCCTACAA
Found at i:59286112 original size:54 final size:54
Alignment explanation
Indices: 59286054--59286232 Score: 241
Period size: 54 Copynumber: 3.3 Consensus size: 54
59286044 GGGTAAAATG
* * * *
59286054 GTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
*** ** * *
59286108 GTAATTCTATGATATTGGGGTATTTCAGTAATTCTACCTTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
* *
59286162 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTAAAGGCGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
59286216 GTAATTCTACCCTACAG
1 GTAATTCTACCCTACAG
59286233 ATATGAGATT
Statistics
Matches: 105, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
Found at i:59286178 original size:81 final size:81
Alignment explanation
Indices: 59286054--59286231 Score: 266
Period size: 81 Copynumber: 2.2 Consensus size: 81
59286044 GGGTAAAATG
* * **
59286054 GTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTATG
1 GTAATTCTACCCTACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
** *
59286119 ATATTGGGGTATTTCA
66 ATAAAGGCGTATTTCA
* *
59286135 GTAATTCTACCTTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
*
59286200 CTAAAGGCGTATTTCA
66 ATAAAGGCGTATTTCA
59286216 GTAATTCTACCCTACA
1 GTAATTCTACCCTACA
59286232 GATATGAGAT
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (81 bp):
GTAATTCTACCCTACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
ATAAAGGCGTATTTCA
Found at i:59288353 original size:27 final size:27
Alignment explanation
Indices: 59288312--59288393 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
59288302 CAGCATGGCT
* * *
59288312 ACCAGAA-CTGATATTGTGATAGAGTC
1 ACCAGAATCAGATATTGTGACAGAGCC
*
59288338 ACCAGATAT-AGATATTGTGGCAGAGCC
1 ACCAGA-ATCAGATATTGTGACAGAGCC
* * *
59288365 ACCAGAATCAGATAATGTGGCAAAGCC
1 ACCAGAATCAGATATTGTGACAGAGCC
59288392 AC
1 AC
59288394 TTAACAGAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
26 8 0.17
27 39 0.83
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (27 bp):
ACCAGAATCAGATATTGTGACAGAGCC
Found at i:59288645 original size:27 final size:26
Alignment explanation
Indices: 59288606--59288688 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
59288596 TCGATCGGTC
* *
59288606 AACAGATATTGTGACAAAGTCACCAG
1 AACAGATATTGTGGCAAAGCCACCAG
*
59288632 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
*
59288659 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
59288686 AAC
1 AAC
59288689 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:59288933 original size:27 final size:28
Alignment explanation
Indices: 59288903--59288961 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
59288893 AACACCCTAG
59288903 GGGTAAAAT-GGTAATTTTACCCCATAA
1 GGGTAAAATCGGTAATTTTACCCCATAA
** * *
59288930 GGGT-ATCTCGGTAATTTTACCCTATAG
1 GGGTAAAATCGGTAATTTTACCCCATAA
59288957 GGGTA
1 GGGTA
59288962 TTTCAGTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (28 bp):
GGGTAAAATCGGTAATTTTACCCCATAA
Found at i:59288962 original size:27 final size:27
Alignment explanation
Indices: 59288930--59289296 Score: 432
Period size: 27 Copynumber: 13.6 Consensus size: 27
59288920 TACCCCATAA
* * * *
59288930 GGGTATCTCGGTAATTTTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
59288957 GGGTATTTCAGTAATTCTACCATATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
59288984 GGGTAGTTT-GGTAATTCTACCTTACAA
1 GGGTA-TTTCAGTAATTCTACCCTACAG
59289011 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
59289038 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
59289065 GCGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * * *
59289092 GGGTATTTCGGTATTTCTACTCTACAT
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
59289119 GGGTATTTCAGTAATTTTACCCTACGG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
59289146 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * * * *
59289173 GGGTATTTCGGTATTTCTACACTAAAA
1 GGGTATTTCAGTAATTCTACCCTACAG
*
59289200 GGGTATTT-AGGTAATTCTACCCTACAA
1 GGGTATTTCA-GTAATTCTACCCTACAG
* * * *
59289227 GGGCATTTCGGTAATTCTAACCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
59289254 TGGTATTTTAGTAATTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
59289281 GGGTATTTCAGTAATT
1 GGGTATTTCAGTAATT
59289297 TTACAAATCG
Statistics
Matches: 286, Mismatches: 50, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
26 3 0.01
27 280 0.98
28 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:59289310 original size:27 final size:27
Alignment explanation
Indices: 59289280--59289539 Score: 268
Period size: 27 Copynumber: 9.7 Consensus size: 27
59289270 CTACCCTACA
59289280 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
59289307 AGGGTATTTCAGTAATTTTGCAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
*
59289334 AGGGTATTTC-GATAATTTTACAAGTCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
59289361 AGGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
59289387 ACGGTATTTCGGTAATTTTATAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
* * * *
59289414 GGGGTACTTT-GGTGATTTTACAAGTCG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
59289441 AGGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
59289467 ATGGTATTTCGGTAATTTTATAAATC-
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
59289493 AGGGGTACTTT-GGTAATTTTACAACT-G
1 A-GGGTA-TTTCAGTAATTTTACAAATCG
*
59289520 GGGGTATTTCAGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
59289540 GTAAATTAAA
Statistics
Matches: 195, Mismatches: 24, Indels: 29
0.79 0.10 0.12
Matches are distributed among these distances:
25 3 0.02
26 65 0.33
27 118 0.61
28 9 0.05
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:59289313 original size:54 final size:54
Alignment explanation
Indices: 59288940--59289475 Score: 282
Period size: 54 Copynumber: 10.0 Consensus size: 54
59288930 GGGTATCTCG
* * * * * * * *
59288940 GTAATTTTACCCTATAGGGGTATTTCAGTAATTCTACCATATAG-GGGTAGTTTG
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTA-CAAATCGAGGGTATTTTA
* * ** *
59288994 GTAATTCTACCTTACAAGGGTATTTCAGTAATTCTAC-CCTAC-AGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAAT-CGA-GGGTATTTTA
* ** **
59289048 GTAATTCTACCCTAC-AGGCGTATTTCAGTAATTCTAC-CCTAC-AGGGGTATTTCG
1 GTAATTCTACCCTACAAGG-GTATTTCAGTAATTTTACAAAT-CGA-GGGTATTTTA
* * * ** *
59289102 GTATTTCTACTCTACATGGGTATTTCAGTAATTTTAC-CCTACGGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAAT-CGAGGGTATTTTA
* * *
59289156 GTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTACACTAA--AAGGGTA-TTTA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTT-TACA--AATCGAGGGTATTTTA
* * * **
59289209 GGTAATTCTACCCTACAAGGGCATTTCGGTAATTCTAACCTAT--AGTGGTATTTTA
1 -GTAATTCTACCCTACAAGGGTATTTCAGTAATT-TTACAAATCGAG-GGTATTTTA
*
59289264 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTA
** ** * * *
59289318 GTAATT-TTGCAAACTGAGGGTATTTC-GATAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTCTACCCTAC-AAGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTTA
* ** * * * * * * *
59289372 GTAATTTTACAAT-CGACGGTATTTCGGTAATTTTATAAA-CTGGGGGTACTTTG
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAATC-GAGGGTATTTTA
* * ** * *
59289425 GTGATTTTACAAGT-CGAGGGTATTTCAGTAATTTTAC-AATCGATGGTATTT
1 GTAATTCTAC-CCTACAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTT
59289476 CGGTAATTTT
Statistics
Matches: 394, Mismatches: 63, Indels: 51
0.78 0.12 0.10
Matches are distributed among these distances:
52 2 0.01
53 71 0.18
54 305 0.77
55 15 0.04
56 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTA
Found at i:59289340 original size:81 final size:81
Alignment explanation
Indices: 59289010--59289485 Score: 319
Period size: 81 Copynumber: 5.9 Consensus size: 81
59289000 CTACCTTACA
* * * * **
59289010 AGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTAC-AGGCGTATTTC
1 AGGGTATTTCGGTAATTCTACACTACAAGGGTATTTCAGTAATTTTACAATACGAGG-GTATTTC
* ** *
59289074 AGTAATTCTACCCTACAG
65 AGTAATT-TTCCAAACTG
* * * ** * *
59289092 -GGGTATTTCGGTATTTCTACTCTACATGGGTATTTCAGTAATTTTACCCTACGGGGGTATTTTA
1 AGGGTATTTCGGTAATTCTACACTACAAGGGTATTTCAGTAATTTTACAATACGAGGGTATTTCA
* ** *
59289156 GTAATTCTACCCTACAG
66 GTAATT-TTCCAAACTG
* * * ** * *
59289173 -GGGTATTTCGGTATTTCTACACTAAAAGGGTATTT-AGGTAATTCTACCCTACAAGGGCATTTC
1 AGGGTATTTCGGTAATTCTACACTACAAGGGTATTTCA-GTAATTTTACAATACGAGGGTATTTC
* * * *
59289236 GGTAA--TTCTAACCTAT
65 AGTAATTTTCCAAACT-G
** *
59289252 AGTGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAA-ATCGAGGGTATTT
1 AG-GGTATTTCGGTAATTCTACACTACAAGGGTATTTCAGTAATTTTACAATA-CGAGGGTATTT
*
59289316 CAGTAATTTTGCAAACTG
64 CAGTAATTTTCCAAACTG
* * * * *
59289334 AGGGTATTTCGATAATTTTACAAGT-CGAGGGTATTTCAGTAATTTTACAAT-CGACGGTATTTC
1 AGGGTATTTCGGTAATTCTAC-ACTACAAGGGTATTTCAGTAATTTTACAATACGAGGGTATTTC
* **
59289397 GGTAATTTTATAAACTG
65 AGTAATTTTCCAAACTG
* * * * * *
59289414 GGGGTACTTT-GGTGATTTTACAAGT-CGAGGGTATTTCAGTAATTTTACAAT-CGATGGTATTT
1 AGGGTA-TTTCGGTAATTCTAC-ACTACAAGGGTATTTCAGTAATTTTACAATACGAGGGTATTT
*
59289476 CGGTAATTTT
64 CAGTAATTTT
59289486 ATAAATCAGG
Statistics
Matches: 329, Mismatches: 53, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
78 3 0.01
80 92 0.28
81 222 0.67
82 6 0.02
83 6 0.02
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (81 bp):
AGGGTATTTCGGTAATTCTACACTACAAGGGTATTTCAGTAATTTTACAATACGAGGGTATTTCA
GTAATTTTCCAAACTG
Found at i:59289419 original size:53 final size:52
Alignment explanation
Indices: 59289280--59289539 Score: 233
Period size: 53 Copynumber: 4.9 Consensus size: 52
59289270 CTACCCTACA
* * *
59289280 AGGGTATTTCAGTAATTTTACAAA-TCGAGGGTATTTCAGTAATTTTGCAAACTG
1 AGGGTATTTCGGTAATTTTA-AAACT-GAGGGTATTTCAGTAATTTTACAATC-G
* * *
59289334 AGGGTATTTCGATAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAATCG
1 AGGGTATTTCGGTAATTTTAAAACT-GAGGGTATTTCAGTAATTTTACAATCG
* * * *
59289387 ACGGTATTTCGGTAATTTTATAAACTGGGGGTACTTT-GGTGATTTTACAAGTCG
1 AGGGTATTTCGGTAATTTTA-AAACTGAGGGTA-TTTCAGTAATTTTACAA-TCG
* * * * *
59289441 AGGGTATTTCAGTAATTTTACAA-TCGATGGTATTTCGGTAATTTTATAAATC-
1 AGGGTATTTCGGTAATTTTAAAACT-GAGGGTATTTCAGTAATTTTA-CAATCG
* *
59289493 AGGGGTACTTT-GGTAATTTTACAACTGGGGGTATTTCAGTAATTTTA
1 A-GGGTA-TTTCGGTAATTTTAAAACTGAGGGTATTTCAGTAATTTTA
59289540 GTAAATTAAA
Statistics
Matches: 173, Mismatches: 23, Indels: 21
0.80 0.11 0.10
Matches are distributed among these distances:
52 5 0.03
53 91 0.53
54 77 0.45
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.39
Consensus pattern (52 bp):
AGGGTATTTCGGTAATTTTAAAACTGAGGGTATTTCAGTAATTTTACAATCG
Found at i:59289432 original size:80 final size:80
Alignment explanation
Indices: 59289280--59289539 Score: 373
Period size: 80 Copynumber: 3.2 Consensus size: 80
59289270 CTACCCTACA
* * ** *
59289280 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAACTGAGGGTA-TTTC
1 AGGGTATTTCAGTAATTTTAC-AATCGACGGTATTTCGGTAATTTTATAAACTGGGGGTACTTT-
*
59289344 GATAATTTTACAAGTCG
64 GGTAATTTTACAAGTCG
59289361 AGGGTATTTCAGTAATTTTACAATCGACGGTATTTCGGTAATTTTATAAACTGGGGGTACTTTGG
1 AGGGTATTTCAGTAATTTTACAATCGACGGTATTTCGGTAATTTTATAAACTGGGGGTACTTTGG
*
59289426 TGATTTTACAAGTCG
66 TAATTTTACAAGTCG
* *
59289441 AGGGTATTTCAGTAATTTTACAATCGATGGTATTTCGGTAATTTTATAAA-TCAGGGGTACTTTG
1 AGGGTATTTCAGTAATTTTACAATCGACGGTATTTCGGTAATTTTATAAACT-GGGGGTACTTTG
*
59289505 GTAATTTTACAACT-G
65 GTAATTTTACAAGTCG
*
59289520 GGGGTATTTCAGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
59289540 GTAAATTAAA
Statistics
Matches: 165, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
79 21 0.13
80 120 0.73
81 24 0.15
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.39
Consensus pattern (80 bp):
AGGGTATTTCAGTAATTTTACAATCGACGGTATTTCGGTAATTTTATAAACTGGGGGTACTTTGG
TAATTTTACAAGTCG
Found at i:59296900 original size:40 final size:40
Alignment explanation
Indices: 59296847--59297000 Score: 231
Period size: 40 Copynumber: 3.9 Consensus size: 40
59296837 TTGAGAGTTA
*
59296847 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
59296887 TATATCCAGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
59296927 TATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
59296967 TATATCCGGGCTAA-ACCTCGAAG-GCATTCGTGCT
1 TATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
59297001 GGAATTATGA
Statistics
Matches: 104, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
39 12 0.12
40 92 0.88
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
Found at i:59297075 original size:29 final size:28
Alignment explanation
Indices: 59297040--59297168 Score: 118
Period size: 29 Copynumber: 4.5 Consensus size: 28
59297030 CTTCAACCGA
* *
59297040 GCACTATGTGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGATC-GTAATTGAG
* * *
59297069 GCACTATGTGTGCGAGTTCTTCAATCGA-
1 GCACTATGTGTGCGAGATCGT-AATTGAG
*
59297097 GCACTATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGA-TCGTAATTGAG
** * *
59297126 GCACTATGTGTGCGACTTCTTTAATCGA-
1 GCACTATGTGTGCGAGATC-GTAATTGAG
59297154 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
59297169 AATCAGTCAG
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
28 38 0.46
29 44 0.54
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGTAATTGAG
Found at i:59297098 original size:57 final size:57
Alignment explanation
Indices: 59297008--59297196 Score: 238
Period size: 57 Copynumber: 3.3 Consensus size: 57
59296998 GCTGGAATTA
* * * * *
59297008 TGAGGCACTGTGTGTGCAAGCTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAGT
** *
59297065 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAGT
* * *
59297122 TGAGGCACTATGTGTGCGACTTCTTTAATCGAGCACTATGTGTGCGAAATCAGTCAG-
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGT-AGT
* *
59297179 TG-GGCACTGTGTATGCGA
1 TGAGGCACTATGTGTGCGA
59297197 AGTTTGTTTC
Statistics
Matches: 115, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
56 14 0.12
57 100 0.87
58 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAGT
Found at i:59297109 original size:28 final size:27
Alignment explanation
Indices: 59297012--59297168 Score: 134
Period size: 28 Copynumber: 5.6 Consensus size: 27
59297002 GAATTATGAG
* * * *
59297012 GCACTGTGTGTGCAAGCTCTTCAACCGA
1 GCACTATGTGTGCGAGTTCTT-AATCGA
* * * * *
59297040 GCACTATGTGTGCCAGATCAGTAGTTGA
1 GCACTATGTGTGCGAGTTC-TTAATCGA
59297068 GGCACTATGTGTGCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCGAGTTCTT-AATCGA
** *
59297097 GCACTATGTGTGCGAGATTGGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTAATCGA
*
59297125 GGCACTATGTGTGCGACTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTC-TTAATCGA
59297154 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
59297169 AATCAGTCAG
Statistics
Matches: 104, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
28 58 0.56
29 46 0.44
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAATCGA
Found at i:59297185 original size:28 final size:27
Alignment explanation
Indices: 59297040--59297196 Score: 84
Period size: 28 Copynumber: 5.6 Consensus size: 27
59297030 CTTCAACCGA
* *
59297040 GCACTATGTGTGCCAGATCAGT-AGTTGAG
1 GCACTATGTGTGCGAGATC-GTCA-ATG-G
* * *
59297069 GCACTATGTGTGCGAGTTCTTCAATCGA
1 GCACTATGTGTGCGAGATCGTCAAT-GG
*
59297097 GCACTATGTGTGCGAGATTGGT-AATTGAG
1 GCACTATGTGTGCGAGA-TCGTCAA-TG-G
** * * *
59297126 GCACTATGTGTGCGACTTCTTTAATCGA
1 GCACTATGTGTGCGAGATCGTCAAT-GG
* *
59297154 GCACTATGTGTGCGAAATCAGTCAGTGG
1 GCACTATGTGTGCGAGATC-GTCAATGG
* *
59297182 GCACTGTGTATGCGA
1 GCACTATGTGTGCGA
59297197 AGTTTGTTTC
Statistics
Matches: 98, Mismatches: 22, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
28 55 0.56
29 43 0.44
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTATGTGTGCGAGATCGTCAATGG
Found at i:59306728 original size:59 final size:54
Alignment explanation
Indices: 59306624--59306756 Score: 137
Period size: 59 Copynumber: 2.4 Consensus size: 54
59306614 TAGGATCTGA
* *
59306624 ATTTAGCCTGGACTGGTAATTCAGATCTAATCTCATTTGAGTATATGTCATCGTAGGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCTAATCTCATATGAGTATAT-T-A-CG--GAGG
* *
59306683 ATTTAGCCTGGGCTGGTAATTCCGA-C-AATACTC-TATGAGTTTATATTACGGAGG
1 ATTTAGCCTGGACTGGTAATTCAGATCTAAT-CTCATATGAG--TATATTACGGAGG
59306737 ATTTAGCCTGGACTGGTAAT
1 ATTTAGCCTGGACTGGTAAT
59306757 CCCGCCGTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 11
0.80 0.06 0.13
Matches are distributed among these distances:
54 22 0.33
56 2 0.03
57 9 0.14
58 5 0.08
59 28 0.42
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.35
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATTCAGATCTAATCTCATATGAGTATATTACGGAGG
Found at i:59312110 original size:94 final size:94
Alignment explanation
Indices: 59311947--59312197 Score: 457
Period size: 94 Copynumber: 2.7 Consensus size: 94
59311937 AATGTGACCG
* * *
59311947 TATATGCTATTTGAATTAAGTAAGTTGCCATATTATAATGAGTTAACATTGACACTATGTGTGCA
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
59312012 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
* *
59312041 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACAATGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
59312106 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
59312135 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTG
59312198 TGAGCTTAAT
Statistics
Matches: 151, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 151 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.40
Consensus pattern (94 bp):
TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
GAATTAAATGTCACTTTGTGTGCAGATTT
Found at i:59319841 original size:94 final size:94
Alignment explanation
Indices: 59319678--59319951 Score: 494
Period size: 94 Copynumber: 2.9 Consensus size: 94
59319668 AATGTGACCG
* * *
59319678 TATATGCTATTTGAATTAAGTAAGTTGCCATATTATAATGAGTTAACATTGGCACTATGTGTGCA
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
59319743 GAATTAAATGTCACTTTGTGTGCAAATTT
66 GAATTAAATGTCACTTTGTGTGCAAATTT
*
59319772 TATATGCTATTTGAATTAAGTAAATTTCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
59319837 GAATTAAATGTCACTTTGTGTGCAAATTT
66 GAATTAAATGTCACTTTGTGTGCAAATTT
59319866 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
* *
59319931 GAATTAAATGGCACTATGTGT
66 GAATTAAATGTCACTTTGTGT
59319952 ACAGATTTGA
Statistics
Matches: 173, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 173 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (94 bp):
TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
GAATTAAATGTCACTTTGTGTGCAAATTT
Found at i:59320042 original size:24 final size:25
Alignment explanation
Indices: 59319988--59320051 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
59319978 GAAAATTTCA
59319988 AGCACTATGTGTGCG-GTTTAGTAT
1 AGCACTATGTGTGCGAGTTTAGTAT
* *
59320012 GGAACTATGTGTGCGAGCTTTA-T-T
1 AGCACTATGTGTGCGAG-TTTAGTAT
59320036 AGCACTATGTGTGCGA
1 AGCACTATGTGTGCGA
59320052 ATTCGGTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 28 0.82
25 2 0.06
26 4 0.12
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (25 bp):
AGCACTATGTGTGCGAGTTTAGTAT
Found at i:59321473 original size:55 final size:55
Alignment explanation
Indices: 59321404--59321510 Score: 205
Period size: 55 Copynumber: 1.9 Consensus size: 55
59321394 TGAACGATTC
59321404 ACTAGTACATATCTCAAGCATAACAACAAGATATACCATTTGAACTAAGTAATTT
1 ACTAGTACATATCTCAAGCATAACAACAAGATATACCATTTGAACTAAGTAATTT
*
59321459 ACTAGTACATATCTCAAGCATAACAAGAAGATATACCATTTGAACTAAGTAA
1 ACTAGTACATATCTCAAGCATAACAACAAGATATACCATTTGAACTAAGTAA
59321511 CAACCATTTC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (55 bp):
ACTAGTACATATCTCAAGCATAACAACAAGATATACCATTTGAACTAAGTAATTT
Found at i:59321733 original size:17 final size:18
Alignment explanation
Indices: 59321706--59321742 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
59321696 CCTTAAAATG
59321706 GATTTTAAAAATA-AATTA
1 GATTTTAAAAA-AGAATTA
59321724 GATTTT-AAAAAGAATTA
1 GATTTTAAAAAAGAATTA
59321741 GA
1 GA
59321743 AAAGAAAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.06
17 11 0.61
18 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (18 bp):
GATTTTAAAAAAGAATTA
Found at i:59324321 original size:126 final size:126
Alignment explanation
Indices: 59324152--59324404 Score: 443
Period size: 126 Copynumber: 2.0 Consensus size: 126
59324142 AGGGGCTAAA
*
59324152 ATACAATAAAGTGCTTTGGAAAACATACATATCTAAGATTTAAATGCCTACTTTTGTAAATCAAA
1 ATACAATAAAGTGCTTTGGAAAACATACATATCTAAAATTTAAATGCCTACTTTTGTAAATCAAA
*
59324217 GCATAATTTTTTAACACTTTTATTTTGAGATTTTTCATTCTTTCAATGTGGTCCCTAAAAC
66 GCATAATGTTTTAACACTTTTATTTTGAGATTTTTCATTCTTTCAATGTGGTCCCTAAAAC
* *
59324278 ATACAATAAAGTGCTTTGGAAAACATACATATCTAAAATTTAAATGTCTACTTTTGTAAATCAAT
1 ATACAATAAAGTGCTTTGGAAAACATACATATCTAAAATTTAAATGCCTACTTTTGTAAATCAAA
* * *
59324343 GGATAATGTTTTAATACTTTTATTTTGAGATTTTTCATTCTTTCAATGTGGTCCTTAAAAC
66 GCATAATGTTTTAACACTTTTATTTTGAGATTTTTCATTCTTTCAATGTGGTCCCTAAAAC
59324404 A
1 A
59324405 CTTGTTTTTA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 120 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (126 bp):
ATACAATAAAGTGCTTTGGAAAACATACATATCTAAAATTTAAATGCCTACTTTTGTAAATCAAA
GCATAATGTTTTAACACTTTTATTTTGAGATTTTTCATTCTTTCAATGTGGTCCCTAAAAC
Found at i:59329311 original size:105 final size:105
Alignment explanation
Indices: 59329129--59329502 Score: 669
Period size: 105 Copynumber: 3.6 Consensus size: 105
59329119 TGTATATAAA
** *
59329129 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
59329194 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
59329234 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
59329299 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
59329339 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
59329403 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
59329444 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
59329503 ATAACGGTTA
Statistics
Matches: 260, Mismatches: 7, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
105 259 1.00
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:59332997 original size:36 final size:36
Alignment explanation
Indices: 59332957--59333029 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
59332947 GCATTATATA
59332957 TGATATTTATGTTATCGAATTGTTGGTTGGTAAGTT
1 TGATATTTATGTTATCGAATTGTTGGTTGGTAAGTT
* *
59332993 TGATATTTATGTTATTGAATTTTTGGTTGGTAAGTT
1 TGATATTTATGTTATCGAATTGTTGGTTGGTAAGTT
59333029 T
1 T
59333030 ACTTATTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.22, C:0.01, G:0.23, T:0.53
Consensus pattern (36 bp):
TGATATTTATGTTATCGAATTGTTGGTTGGTAAGTT
Found at i:59335912 original size:25 final size:25
Alignment explanation
Indices: 59335884--59335962 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
59335874 CTAATGGCCG
59335884 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
59335909 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
59335931 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
59335956 ATGTGAT
1 ATGTGAT
59335963 AGGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:59335934 original size:47 final size:48
Alignment explanation
Indices: 59335871--59336095 Score: 391
Period size: 49 Copynumber: 4.7 Consensus size: 48
59335861 ATGATAGTAA
*
59335871 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAG
59335918 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAG
59335965 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAG
*
59336014 GGCCTAATGGGCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAG
59336063 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
59336096 CCCGAAGGGC
Statistics
Matches: 172, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
47 79 0.46
49 89 0.52
50 4 0.02
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (48 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAG
Found at i:59336041 original size:96 final size:95
Alignment explanation
Indices: 59335871--59336095 Score: 389
Period size: 96 Copynumber: 2.3 Consensus size: 95
59335861 ATGATAGTAA
59335871 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
59335936 ATGAATGTGAAAGTG-TATATATGTGATAG
66 ATGAATGTGAAAGTGATATATATGTGATAG
* *
59335965 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGGCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATG
59336030 TGATGAATGTGAAAGTGTATATATATGTGATAG
64 TGATGAATGTGAAAGTG-ATATATATGTGATAG
59336063 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
59336096 CCCGAAGGGC
Statistics
Matches: 124, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
94 33 0.27
96 45 0.36
98 42 0.34
99 4 0.03
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (95 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGATATATATGTGATAG
Found at i:59336268 original size:36 final size:37
Alignment explanation
Indices: 59336213--59336290 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
59336203 CCGAGCTCTA
* * *
59336213 AAGACCCGATGACTACGTGTGGGGATTTTGT-CGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
59336249 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
59336286 AAGAC
1 AAGAC
59336291 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 27 0.73
37 10 0.27
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:59338316 original size:20 final size:19
Alignment explanation
Indices: 59338283--59338323 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
59338273 GTCCCCTGTA
*
59338283 TTTTCAAAAATTTCCTAAG
1 TTTTCAAAAATTTCCCAAG
*
59338302 TTTTCTAAAAGTTTCCCAAG
1 TTTTC-AAAAATTTCCCAAG
59338322 TT
1 TT
59338324 ATCAGCTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (19 bp):
TTTTCAAAAATTTCCCAAG
Found at i:59344171 original size:20 final size:20
Alignment explanation
Indices: 59344146--59344190 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
59344136 CACCAAAGAA
59344146 GTTCTGAGATGATTTCAATC
1 GTTCTGAGATGATTTCAATC
59344166 GTTCTGAGATGATTTCAATC
1 GTTCTGAGATGATTTCAATC
59344186 GTTCT
1 GTTCT
59344191 AGAGCCACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (20 bp):
GTTCTGAGATGATTTCAATC
Found at i:59345487 original size:23 final size:21
Alignment explanation
Indices: 59345461--59345508 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
59345451 TAAGCAATTT
*
59345461 ACTAACATGCTTCTCACAATAAA
1 ACTAACA--CTTCCCACAATAAA
59345484 ACT-A-ACTTCCCACAATAAA
1 ACTAACACTTCCCACAATAAA
59345503 ACTAAC
1 ACTAAC
59345509 TCATTTGTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
19 16 0.73
20 1 0.05
21 1 0.05
22 1 0.05
23 3 0.14
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.23
Consensus pattern (21 bp):
ACTAACACTTCCCACAATAAA
Found at i:59345497 original size:19 final size:19
Alignment explanation
Indices: 59345470--59345509 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
59345460 TACTAACATG
*
59345470 CTTCTCACAATAAAACTAA
1 CTTCCCACAATAAAACTAA
59345489 CTTCCCACAATAAAACTAA
1 CTTCCCACAATAAAACTAA
59345508 CT
1 CT
59345510 CATTTGTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (19 bp):
CTTCCCACAATAAAACTAA
Found at i:59346413 original size:49 final size:48
Alignment explanation
Indices: 59346341--59346572 Score: 250
Period size: 49 Copynumber: 4.7 Consensus size: 48
59346331 CTGGTACGCA
* *
59346341 TAGTAGCCTGCACTTAGAACTACACATGCT-ACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACG-TGACCAATTAT-CAGTACACG
** *
59346390 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCAG-TACACG
* * * *
59346440 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCA-GTACACG
* *** **
59346491 AAGTAGCCTGCACTTAGTACTACACATACGACCAATTATTTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTA-TCAGTACACG
59346540 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
59346573 TCACAATAGC
Statistics
Matches: 150, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 68 0.45
50 46 0.31
51 34 0.23
52 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGTACACG
Found at i:59350874 original size:40 final size:40
Alignment explanation
Indices: 59350822--59351051 Score: 327
Period size: 40 Copynumber: 5.8 Consensus size: 40
59350812 ATAACCACAA
* * * *
59350822 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
59350862 GTACGAATGCCTTCGGGTCTTAGCCCGGATATATCATCTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
59350902 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
59350942 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
59350982 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
59351022 GCATAAATGCCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
59351052 GTATTCAAAT
Statistics
Matches: 174, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 170 0.98
41 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:59357825 original size:20 final size:20
Alignment explanation
Indices: 59357802--59357847 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
59357792 GGGTTAAGAT
*
59357802 TGAGCTGAATTAAGCTTGAG
1 TGAGCTGAATTAAGCTCGAG
* * *
59357822 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTAAGCTCGAG
59357842 TGAGCT
1 TGAGCT
59357848 AGAAACAAGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTAAGCTCGAG
Found at i:59368685 original size:14 final size:14
Alignment explanation
Indices: 59368666--59368695 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
59368656 TTTATCTCAT
59368666 TTGTAGGTATAAGG
1 TTGTAGGTATAAGG
59368680 TTGTAGGTATAAGG
1 TTGTAGGTATAAGG
59368694 TT
1 TT
59368696 AAGCATTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (14 bp):
TTGTAGGTATAAGG
Found at i:59370174 original size:47 final size:47
Alignment explanation
Indices: 59370096--59370318 Score: 356
Period size: 47 Copynumber: 4.7 Consensus size: 47
59370086 CCCTTCGGGA
* * * * * *
59370096 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59370143 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59370190 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59370237 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59370284 CTTATCACATATATACACTTTCACATCCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
59370319 AGAATCCTAA
Statistics
Matches: 163, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 163 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59374343 original size:27 final size:26
Alignment explanation
Indices: 59374295--59374354 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
59374285 GTGAGGCTGC
*
59374295 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
59374322 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
59374348 CAGATAT
1 CAGATAT
59374355 ATATATGTAG
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:59374399 original size:71 final size:67
Alignment explanation
Indices: 59374322--59374463 Score: 194
Period size: 67 Copynumber: 2.1 Consensus size: 67
59374312 TCACCAGATA
* * *
59374322 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTAGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTAGCGAAGCCACCAGATTGCAGCGA
59374387 GGCTGC
62 GGCTGC
* * *
59374393 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTAGCGAAGCCACCAGATTGCAGCGAGGCT
59374458 GC
66 GC
59374460 CAGA
1 CAGA
59374464 ACGCTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
67 40 0.62
71 25 0.38
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTAGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:59374441 original size:27 final size:26
Alignment explanation
Indices: 59374393--59374444 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
59374383 GCGAGGCTGC
*
59374393 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
59374419 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
59374445 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:59374721 original size:8 final size:8
Alignment explanation
Indices: 59374704--59374740 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
59374694 TACCAAAGTG
*
59374704 GGCCCGTT
1 GGCCCATT
59374712 GGCCCATT
1 GGCCCATT
*
59374720 GGCCCGTT
1 GGCCCATT
59374728 GGCCCATT
1 GGCCCATT
59374736 GGCCC
1 GGCCC
59374741 GTTTTCGATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.05, C:0.41, G:0.32, T:0.22
Consensus pattern (8 bp):
GGCCCATT
Found at i:59374725 original size:16 final size:16
Alignment explanation
Indices: 59374704--59374743 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
59374694 TACCAAAGTG
59374704 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
59374720 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
59374736 GGCCCGTT
1 GGCCCGTT
59374744 TTCGATCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.05, C:0.38, G:0.33, T:0.25
Consensus pattern (16 bp):
GGCCCGTTGGCCCATT
Found at i:59392753 original size:28 final size:28
Alignment explanation
Indices: 59392714--59392774 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
59392704 ATGGTTAGAC
* *
59392714 ACACGGGCGTGTGTCTAGGCCGTGTGTG
1 ACACAGGCGTGTGTCTAGGCCGTGTATG
59392742 ACACAGGCGTGTGTCTAGGCCGTGTATG
1 ACACAGGCGTGTGTCTAGGCCGTGTATG
59392770 ACACA
1 ACACA
59392775 CGGCTCCCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.18, C:0.23, G:0.36, T:0.23
Consensus pattern (28 bp):
ACACAGGCGTGTGTCTAGGCCGTGTATG
Found at i:59395575 original size:30 final size:30
Alignment explanation
Indices: 59395527--59395587 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
59395517 TTCCCGAGCC
*
59395527 TAGGGGCAAAAGTTTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
* *
59395557 TAGGGGCAAAA-TGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGT-GTAATTATGCAAAAGTT
59395587 T
1 T
59395588 GTATTAAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:59396306 original size:49 final size:50
Alignment explanation
Indices: 59396226--59396453 Score: 307
Period size: 49 Copynumber: 4.6 Consensus size: 50
59396216 AGCTATTGTG
*
59396226 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
59396276 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
59396326 CGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
59396376 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
59396426 -GGTCGCATGTGTAGTACTAAGTGCAGGC
1 AGGTCACATGTGTAGTACTAAGTGCAGGC
59396454 AATTGTGTAT
Statistics
Matches: 152, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
49 67 0.44
50 46 0.30
51 39 0.26
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Done.