Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 300 of 433
Found at i:93678636 original size:14 final size:15
Alignment explanation
Indices: 93678607--93678636 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
93678597 AAAAATTTAG
93678607 ACATGATACTTTCAC
1 ACATGATACTTTCAC
93678622 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
93678636 A
1 A
93678637 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:93679156 original size:49 final size:51
Alignment explanation
Indices: 93679068--93679197 Score: 158
Period size: 49 Copynumber: 2.6 Consensus size: 51
93679058 TGTCACTAGT
93679068 GACT-CAAGTGTGGTACTATGTGAAGGCCACTTTAAGAAG-AGATAGCTTG
1 GACTACAAGTGTGGTACTATGTGAAGGCCACTTTAAGAAGAAGATAGCTTG
* ** * * *
93679117 GTC-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTTGCTTT
1 GACTACAAGTGTGGTACTATGTGAAGGCCACTTTAAGAAGAAGATAGCTTG
* * *
93679167 GACTATAAGGGTGGTACTATGTGCAGGCCAC
1 GACTACAAGTGTGGTACTATGTGAAGGCCAC
93679198 CGGGTATCCG
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
49 35 0.51
50 9 0.13
51 24 0.35
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (51 bp):
GACTACAAGTGTGGTACTATGTGAAGGCCACTTTAAGAAGAAGATAGCTTG
Found at i:93689540 original size:58 final size:57
Alignment explanation
Indices: 93689452--93689601 Score: 144
Period size: 57 Copynumber: 2.6 Consensus size: 57
93689442 ATTGACCTCA
* *
93689452 TTACAAATAA-GATTTAGCCCGGA-TGGGTAATCCTGATGTAATCCC-TCTCAAGCATATG
1 TTACAAA-AAGGATTTAGCCTGGACT-GGTAATCCTGAT-TAAGCCCTTCT-AAGCATATG
* ** * * * * * *
93689510 TTTCAATTAGGGTTTAGCTTGGACTGGTAATCCTAATTGAGCTCTTCTGAGCATATG
1 TTACAAAAAGGATTTAGCCTGGACTGGTAATCCTGATTAAGCCCTTCTAAGCATATG
93689567 TTACAAAAAGGATTTAGCCTGGACTGGTAATCCTG
1 TTACAAAAAGGATTTAGCCTGGACTGGTAATCCTG
93689602 TAATTATAAT
Statistics
Matches: 72, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
57 42 0.58
58 29 0.40
59 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (57 bp):
TTACAAAAAGGATTTAGCCTGGACTGGTAATCCTGATTAAGCCCTTCTAAGCATATG
Found at i:93698394 original size:40 final size:39
Alignment explanation
Indices: 93698229--93698412 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
93698219 AAATTGAATG
* * *
93698229 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
93698269 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
93698309 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
93698349 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
93698388 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
93698413 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:93698437 original size:80 final size:81
Alignment explanation
Indices: 93698269--93698457 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
93698259 GCTGGAAATT
* * * *
93698269 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
93698334 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
93698350 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
93698413 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
93698429 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
93698458 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:93706507 original size:40 final size:39
Alignment explanation
Indices: 93706342--93706525 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
93706332 AAATTGAATG
* * *
93706342 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
93706382 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
93706422 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
93706462 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
93706501 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
93706526 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:93706550 original size:80 final size:81
Alignment explanation
Indices: 93706382--93706570 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
93706372 GCTGGAAATT
* * * *
93706382 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
93706447 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
93706463 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
93706526 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
93706542 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
93706571 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:93710222 original size:39 final size:39
Alignment explanation
Indices: 93710178--93710323 Score: 220
Period size: 39 Copynumber: 3.7 Consensus size: 39
93710168 TGTGTGAGAT
93710178 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGATG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGATG
* * *
93710217 TTATATCCGAGCTAAGTTCCAAAGGCATTCGTACTGATG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGATG
* * * *
93710256 ATATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGATG
*
93710295 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCAAAGGCATT
93710324 TGTGTTGGAA
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGATG
Found at i:93717095 original size:2 final size:2
Alignment explanation
Indices: 93717088--93717113 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
93717078 TTTTGCTAAT
93717088 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
93717114 CGGTGGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93718216 original size:38 final size:38
Alignment explanation
Indices: 93718166--93718390 Score: 242
Period size: 39 Copynumber: 5.8 Consensus size: 38
93718156 GATAATTGAG
* *
93718166 GATTT-TAACCGGGCTAAGACCC-ACAGGCCTT-GTG-T
1 GATTTATATCCGGGCTAAGACCCGA-AGGCATTCGTGCT
*
93718201 GAGATTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCT
1 --GATTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCT
** *
93718241 GATGTTATATCCGGGCTAAGTTCCGAAGGCATTCGTACT
1 GAT-TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCT
* *
93718280 GATGATATATCCGGGCTAAGTCCCGAAGGCATTCGTGCT
1 GAT-TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCT
* * *
93718319 GGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCT
1 GAT-TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCT
* *
93718358 GGTGTTATATCCGGGCTAAGTCCCGAAGGCATT
1 GAT-TTATATCCGGGCTAAGACCCGAAGGCATT
93718391 TGTGTTAGAA
Statistics
Matches: 171, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
37 5 0.03
38 24 0.14
39 141 0.82
40 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (38 bp):
GATTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCT
Found at i:93718254 original size:39 final size:39
Alignment explanation
Indices: 93718206--93718390 Score: 316
Period size: 39 Copynumber: 4.7 Consensus size: 39
93718196 TGTGTGAGAT
93718206 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATG
* *
93718245 TTATATCCGGGCTAAGTTCCGAAGGCATTCGTACTGATG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATG
* *
93718284 ATATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATG
* *
93718323 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATG
93718362 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
93718391 TGTGTTAGAA
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 137 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATG
Found at i:93723386 original size:35 final size:35
Alignment explanation
Indices: 93723340--93723409 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
93723330 CAAACAACAA
*
93723340 GCACTGATTCAATTTTCTTATCATTCTCTTTCGAG
1 GCACTGATTCAATTTTCTTATCATTCACTTTCGAG
93723375 GCACTGATTCAATTTTCTTATCATTCACTTTCGAG
1 GCACTGATTCAATTTTCTTATCATTCACTTTCGAG
93723410 TCTAACACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.44
Consensus pattern (35 bp):
GCACTGATTCAATTTTCTTATCATTCACTTTCGAG
Found at i:93726462 original size:42 final size:43
Alignment explanation
Indices: 93726405--93726525 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 43
93726395 GTAATTCAAT
** *
93726405 ATCGATGCCTCTGTCCCAGACAAGGTCTTATAC-AAA-AACAG
1 ATCGATGCCAATGTCCCAGACAAGGTCTTATACGAAATAACAA
* * * **
93726446 ATACGATGCCGATGTCCCAGACATGGTCTTACACGTAAATTTCAA
1 AT-CGATGCCAATGTCCCAGACAAGGTCTTATACG-AAATAACAA
*
93726491 ATCGATGCCAATGTCCCAGACACGGTCTTATACGA
1 ATCGATGCCAATGTCCCAGACAAGGTCTTATACGA
93726526 TAATCTAGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
41 2 0.03
42 27 0.41
43 1 0.02
44 32 0.48
45 4 0.06
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
ATCGATGCCAATGTCCCAGACAAGGTCTTATACGAAATAACAA
Found at i:93726518 original size:86 final size:85
Alignment explanation
Indices: 93726366--93726523 Score: 228
Period size: 86 Copynumber: 1.8 Consensus size: 85
93726356 GACAAGTACA
* * **
93726366 ATGCCAATGTCCCAGACGTGGCCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAAGGT
1 ATGCCAATGTCCCAGACATGGCCTTACACGTAATTCAATATCGATGCCAATGTCCCAGACAAGGT
93726431 CTTATACAAAAACAGATACG
66 CTTATACAAAAACAGATACG
* * *
93726451 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATTTCAA-ATCGATGCCAATGTCCCAGACACG
1 ATGCCAATGTCCCAGACATGGCCTTACACGT-AA-TTCAATATCGATGCCAATGTCCCAGACAAG
93726515 GTCTTATAC
64 GTCTTATAC
93726524 GATAATCTAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
85 27 0.42
86 32 0.50
87 5 0.08
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (85 bp):
ATGCCAATGTCCCAGACATGGCCTTACACGTAATTCAATATCGATGCCAATGTCCCAGACAAGGT
CTTATACAAAAACAGATACG
Found at i:93728350 original size:16 final size:16
Alignment explanation
Indices: 93728326--93728359 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
93728316 TATTGTTTAG
*
93728326 TTATCTATTTAATTAA
1 TTATCTATTAAATTAA
*
93728342 TTATTTATTAAATTAA
1 TTATCTATTAAATTAA
93728358 TT
1 TT
93728360 CCCACATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATCTATTAAATTAA
Found at i:93728438 original size:20 final size:21
Alignment explanation
Indices: 93728413--93728456 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
93728403 AATAAAATAT
93728413 AATAAA-ATATTTATAA-TAAA
1 AATAAATATATTTA-AATTAAA
93728433 AATAAATTATATTTAAATTAAA
1 AATAAA-TATATTTAAATTAAA
93728455 AA
1 AA
93728457 AAAGTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
22 13 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AATAAATATATTTAAATTAAA
Found at i:93729119 original size:24 final size:24
Alignment explanation
Indices: 93729104--93729155 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
93729094 AATTAATGTC
*
93729104 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
*
93729128 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATGCT
93729152 AAAT
1 AAAT
93729156 CTTCTAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:93731536 original size:43 final size:44
Alignment explanation
Indices: 93731487--93731653 Score: 189
Period size: 43 Copynumber: 3.9 Consensus size: 44
93731477 GGTTATCGAG
* *
93731487 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
93731531 -TGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * * *
93731573 ATATGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
93731616 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
93731654 TGTACGAGTT
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
42 7 0.07
43 98 0.93
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:93734733 original size:2 final size:2
Alignment explanation
Indices: 93734726--93734755 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
93734716 CCTGTTGGTG
93734726 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93734756 TTATGCAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93735854 original size:20 final size:20
Alignment explanation
Indices: 93735829--93735868 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
93735819 GTTTATTGAC
93735829 AATGATTATGCATATTGAGG
1 AATGATTATGCATATTGAGG
*
93735849 AATGATTATGCGTATTGAGG
1 AATGATTATGCATATTGAGG
93735869 TCCTCAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.35
Consensus pattern (20 bp):
AATGATTATGCATATTGAGG
Found at i:93736148 original size:22 final size:21
Alignment explanation
Indices: 93736110--93736151 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
93736100 AAGAAGTTGA
93736110 TAATTTTTTATATTATATATG
1 TAATTTTTTATATTATATATG
*
93736131 TAATTTGTTTTTATTATATAT
1 TAATTT-TTTATATTATATAT
93736152 TGATTTATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (21 bp):
TAATTTTTTATATTATATATG
Found at i:93736164 original size:22 final size:22
Alignment explanation
Indices: 93736110--93736165 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
93736100 AAGAAGTTGA
*
93736110 TAATTT-TTTATATTATATATG
1 TAATTTATTTTTATTATATATG
*
93736131 TAATTTGTTTTTATTATATAT-
1 TAATTTATTTTTATTATATATG
*
93736152 TGATTTATGTTTTA
1 TAATTTAT-TTTTA
93736166 AACTATGTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TAATTTATTTTTATTATATATG
Found at i:93742994 original size:27 final size:29
Alignment explanation
Indices: 93742964--93743022 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
93742954 ATACAAGAGC
*
93742964 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
93742991 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
93743020 ATA
1 ATA
93743023 GAATCAAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 3 0.12
29 18 0.69
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:93743156 original size:145 final size:145
Alignment explanation
Indices: 93742893--93743187 Score: 572
Period size: 145 Copynumber: 2.0 Consensus size: 145
93742883 AGCTCGAGGT
*
93742893 ACTTACCCGATTCGCTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
1 ACTTACCCGATTCACTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
93742958 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
66 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
93743023 GAATCAAACTCGCAC
131 GAATCAAACTCGCAC
*
93743038 ACTTATCCGATTCACTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
1 ACTTACCCGATTCACTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
93743103 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
66 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
93743168 GAATCAAACTCGCAC
131 GAATCAAACTCGCAC
93743183 ACTTA
1 ACTTA
93743188 GTGCTGTACA
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 148 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (145 bp):
ACTTACCCGATTCACTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
GAATCAAACTCGCAC
Found at i:93743214 original size:30 final size:29
Alignment explanation
Indices: 93743120--93743221 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
93743110 TATAGTGAAT
* * *
93743120 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
93743149 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
93743177 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
93743207 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
93743222 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:93751004 original size:27 final size:29
Alignment explanation
Indices: 93750974--93751032 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
93750964 ATACAAGAGC
*
93750974 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
93751001 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
93751030 ATA
1 ATA
93751033 GAATCAAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 3 0.12
29 18 0.69
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:93751166 original size:145 final size:145
Alignment explanation
Indices: 93750903--93751197 Score: 590
Period size: 145 Copynumber: 2.0 Consensus size: 145
93750893 AGCTCGAGGT
93750903 ACTTACCCGATTCGCTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
1 ACTTACCCGATTCGCTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
93750968 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
66 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
93751033 GAATCAAACTCGCAC
131 GAATCAAACTCGCAC
93751048 ACTTACCCGATTCGCTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
1 ACTTACCCGATTCGCTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
93751113 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
66 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
93751178 GAATCAAACTCGCAC
131 GAATCAAACTCGCAC
93751193 ACTTA
1 ACTTA
93751198 GTGCTGTACA
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 150 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (145 bp):
ACTTACCCGATTCGCTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
GAATCAAACTCGCAC
Found at i:93751224 original size:30 final size:29
Alignment explanation
Indices: 93751130--93751231 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
93751120 TATAGTGAAT
* * *
93751130 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
93751159 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
93751187 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
93751217 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
93751232 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:93754017 original size:2 final size:2
Alignment explanation
Indices: 93754010--93754035 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
93754000 CCTGTTGGTG
93754010 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
93754036 TTATGCGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93755430 original size:21 final size:21
Alignment explanation
Indices: 93755383--93755424 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
93755373 AAGAAGTTGA
93755383 TAATTTGTTATATTATATATG
1 TAATTTGTTATATTATATATG
*
93755404 TAATTTGTTTTTATTATATAT
1 TAATTTG-TTATATTATATAT
93755425 TGATTTATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (21 bp):
TAATTTGTTATATTATATATG
Found at i:93755437 original size:22 final size:23
Alignment explanation
Indices: 93755388--93755438 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
93755378 GTTGATAATT
* *
93755388 TGTTATATTATATATGTAATTTG
1 TGTTTTATTATATATGTAATTTA
*
93755411 T-TTTTATTATATAT-TGATTTA
1 TGTTTTATTATATATGTAATTTA
93755432 TGTTTTA
1 TGTTTTA
93755439 AAATATGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 6 0.25
22 17 0.71
23 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (23 bp):
TGTTTTATTATATATGTAATTTA
Found at i:93756079 original size:19 final size:18
Alignment explanation
Indices: 93756055--93756098 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
93756045 GTTTAGAACA
93756055 TTCATTT-ATCAATAATCAT
1 TTCATTTAATCAATAA-C-T
93756074 TTCATTTCAATCAATAACT
1 TTCATTT-AATCAATAACT
93756093 TTCATT
1 TTCATT
93756099 CATATTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 14 0.61
20 1 0.04
21 8 0.35
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (18 bp):
TTCATTTAATCAATAACT
Found at i:93757552 original size:22 final size:23
Alignment explanation
Indices: 93757457--93757553 Score: 94
Period size: 22 Copynumber: 4.3 Consensus size: 23
93757447 AAGATTCTCC
*
93757457 TGAGCTGATAACAGTAAGCTCTAT
1 TGAGCTGA-AACAGTAAGCTCTAA
* *
93757481 TGAGATGAAACGGTAAGCTCT-A
1 TGAGCTGAAACAGTAAGCTCTAA
*
93757503 TCGAGCTG-AATAGTAAGCTC-ATA
1 T-GAGCTGAAACAGTAAGCTCTA-A
*
93757526 CGAGCTG-AACAGTAAGCTCTAA
1 TGAGCTGAAACAGTAAGCTCTAA
93757548 TGAGCT
1 TGAGCT
93757554 AAAAATAGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
22 34 0.57
23 19 0.32
24 7 0.12
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAA
Found at i:93762469 original size:29 final size:29
Alignment explanation
Indices: 93762407--93762509 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
93762397 GTGACGAGAT
* * *
93762407 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
93762436 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
93762465 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
93762494 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
93762510 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:93764287 original size:21 final size:22
Alignment explanation
Indices: 93764263--93764308 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
93764253 AATCACTTTA
*
93764263 TAAAACTTGT-AT-ATCTATCAT
1 TAAAACTT-TCATAATCCATCAT
93764284 T-AAACTTTCATAATCCATCAT
1 TAAAACTTTCATAATCCATCAT
93764305 TAAA
1 TAAA
93764309 CATTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
19 1 0.05
20 8 0.38
21 10 0.48
22 2 0.10
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAAACTTTCATAATCCATCAT
Found at i:93773707 original size:31 final size:31
Alignment explanation
Indices: 93773664--93773750 Score: 131
Period size: 31 Copynumber: 2.8 Consensus size: 31
93773654 TCAATCTCAG
93773664 CATAT-ACTGGGCCAAAGCCTTTACATTATT
1 CATATCACTGGGCCAAAGCCTTTACATTATT
* * *
93773694 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCAAAGCCTTTACATTATT
*
93773725 CATATCACTAGGCCAAAGCCTTTACA
1 CATATCACTGGGCCAAAGCCTTTACA
93773751 GTAAACGATA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 4 0.08
31 45 0.92
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTACATTATT
Found at i:93774075 original size:11 final size:11
Alignment explanation
Indices: 93774059--93774117 Score: 65
Period size: 9 Copynumber: 5.8 Consensus size: 11
93774049 TATATGAATT
93774059 TATCATGTACA
1 TATCATGTACA
93774070 TATCA--TACA
1 TATCATGTACA
93774079 TATCA--TACA
1 TATCATGTACA
*
93774088 TATCATGTGCA
1 TATCATGTACA
93774099 TATCATGT-CA
1 TATCATGTACA
*
93774109 AATCATGTA
1 TATCATGTA
93774118 TATCAAAATC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
9 18 0.42
10 9 0.21
11 16 0.37
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (11 bp):
TATCATGTACA
Found at i:93778184 original size:22 final size:23
Alignment explanation
Indices: 93778122--93778245 Score: 130
Period size: 23 Copynumber: 5.3 Consensus size: 23
93778112 GAGCTTCTCC
93778122 TGAGCTGATAACAGTAAGCTCTAT
1 TGAGCTGA-AACAGTAAGCTCTAT
93778146 TGAGCTGAAACAGTAAGCTCTAT
1 TGAGCTGAAACAGTAAGCTCTAT
*
93778169 TGAGCTG-AACAATAAGCTC-AT
1 TGAGCTGAAACAGTAAGCTCTAT
* * *
93778190 ACGAGTTGAAACAGTAAGCT-TCAA
1 -TGAGCTGAAACAGTAAGCTCT-AT
*
93778214 TGAGCTGAAAATAGTAAGCTCT-T
1 TGAGCTG-AAACAGTAAGCTCTAT
93778237 TCGAGCTGA
1 T-GAGCTGA
93778246 TATATCGCTA
Statistics
Matches: 84, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.02
22 16 0.19
23 39 0.46
24 26 0.31
25 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAT
Found at i:93778425 original size:45 final size:45
Alignment explanation
Indices: 93778361--93778447 Score: 174
Period size: 45 Copynumber: 1.9 Consensus size: 45
93778351 CAGTTCAAAT
93778361 AGGGCTCGGTAACATATACATTAAATCATTAAATCATTCATAAAC
1 AGGGCTCGGTAACATATACATTAAATCATTAAATCATTCATAAAC
93778406 AGGGCTCGGTAACATATACATTAAATCATTAAATCATTCATA
1 AGGGCTCGGTAACATATACATTAAATCATTAAATCATTCATA
93778448 CTTCCAATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.30
Consensus pattern (45 bp):
AGGGCTCGGTAACATATACATTAAATCATTAAATCATTCATAAAC
Found at i:93785392 original size:43 final size:42
Alignment explanation
Indices: 93785337--93785460 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 42
93785327 TATCGAGATG
* *
93785337 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTTATA
1 TGATAACATGTAAGACCATATCTGGGACA-TGGCATTGTTATA
* * * * * * *
93785380 TGATTTA-GTGTAAAACCCTATTTGGGACAATGGCATTGATATG
1 TGA-TAACATGTAAGACCATATCTGGGAC-ATGGCATTGTTATA
* *
93785423 TGATAACATGTAAGACCATATCTAGGATATGGCATTGT
1 TGATAACATGTAAGACCATATCTGGGACATGGCATTGT
93785461 ACGAGTTTTA
Statistics
Matches: 63, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
42 11 0.17
43 48 0.76
44 4 0.06
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.34
Consensus pattern (42 bp):
TGATAACATGTAAGACCATATCTGGGACATGGCATTGTTATA
Found at i:93787760 original size:42 final size:42
Alignment explanation
Indices: 93787714--93787835 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 42
93787704 TGGTGTTAAT
* *
93787714 ATGAGATTTCATGTAAGGCCATGTCTGGGACATGGCATCGAA
1 ATGAGATTTCATATAAGACCATGTCTGGGACATGGCATCGAA
* * * * * *
93787756 ATGAGATTTCGTAAAAGACCATATCTAGGATATGGCATCGAT
1 ATGAGATTTCATATAAGACCATGTCTGGGACATGGCATCGAA
* ** *
93787798 GTGAGATCCCATATAAGACCACGTCTGGGACATGGCAT
1 ATGAGATTTCATATAAGACCATGTCTGGGACATGGCAT
93787836 TGGCATCTTA
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (42 bp):
ATGAGATTTCATATAAGACCATGTCTGGGACATGGCATCGAA
Found at i:93797132 original size:55 final size:54
Alignment explanation
Indices: 93797072--93797313 Score: 209
Period size: 55 Copynumber: 4.6 Consensus size: 54
93797062 ATAGGCATCA
* * * *
93797072 TAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGTAAATCATG
1 TAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGCAAGGATACCATG
* * * *
93797127 TAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGCAAAGG-TCCCATG
1 TAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC-AAGGATACCATG
* *
93797182 GAAGACCATGCCAAG-CATGGC-ATTGGTGAG-TTCATAAGGCAAGGATACCATG
1 TAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGCAAGGATACCATG
* ** * *
93797234 TAAGTCCATGTTAAGACATGGCAA-TGGCAAGTTTC-AA---AAGGATACCACG
1 TAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGCAAGGATACCATG
* *
93797283 TAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 TAAGACCATGCCAAGACATGGCAATTGGTAAG
93797314 GTACTCGCGT
Statistics
Matches: 153, Mismatches: 26, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
49 37 0.24
51 5 0.03
52 25 0.16
53 15 0.10
54 24 0.16
55 44 0.29
56 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
TAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGCAAGGATACCATG
Found at i:93797408 original size:23 final size:24
Alignment explanation
Indices: 93797382--93797426 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
93797372 AAGGTAAGGT
*
93797382 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
93797405 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
93797427 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:93797526 original size:16 final size:16
Alignment explanation
Indices: 93797505--93797535 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93797495 ATAAATTTGA
93797505 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
93797521 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
93797536 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:93808056 original size:58 final size:58
Alignment explanation
Indices: 93807988--93808099 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
93807978 GTTATCATGT
* * * ** *
93807988 AAGACCATATTTGGGATATGGCGTTGATATGAGATTTCGTGTAAGACCACGTCTATAA
1 AAGACCATATTTGAGATATGGCATCGATATGAGATCCCATGTAAGACCACGTCTATAA
* *
93808046 AAGACCATATTTGAGATATGGCATCGATGTGTGATCCCATGTAAGACCACGTCT
1 AAGACCATATTTGAGATATGGCATCGATATGAGATCCCATGTAAGACCACGTCT
93808100 GTAATAGCCC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (58 bp):
AAGACCATATTTGAGATATGGCATCGATATGAGATCCCATGTAAGACCACGTCTATAA
Found at i:93810954 original size:68 final size:67
Alignment explanation
Indices: 93810882--93811031 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
93810872 CATCATGTGT
* * * *
93810882 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
93810944 ATGTAG
62 ATGTAG
** * *
93810950 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
93811015 AG
66 AG
93811017 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
93811032 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:93812548 original size:18 final size:18
Alignment explanation
Indices: 93812525--93812562 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
93812515 TCAAGGTTGA
93812525 CCAAAGCTTGGAAAATAG
1 CCAAAGCTTGGAAAATAG
93812543 CCAAAGCTTGGAAAATAG
1 CCAAAGCTTGGAAAATAG
93812561 CC
1 CC
93812563 TAGGTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.16
Consensus pattern (18 bp):
CCAAAGCTTGGAAAATAG
Found at i:93812973 original size:46 final size:48
Alignment explanation
Indices: 93812878--93813187 Score: 186
Period size: 46 Copynumber: 6.5 Consensus size: 48
93812868 GGGTGTTACA
* * * *
93812878 GTAATACCATGTCTGGGACATGGCAAT-GGCATTGAGACG-AGAG-CTAGT
1 GTAAGACCATGTCTGGGACAT-GC-ATCAGCCTTGAGATGTAGAGTC-AGT
93812926 GTAAGA-CATGTCTGGGACATGCATCAGCCTTGAGATGTA-AG-CTAGT
1 GTAAGACCATGTCTGGGACATGCATCAGCCTTGAGATGTAGAGTC-AGT
* * * * *
93812972 GTAAGA-CATGTCTGAGACATGCATCA-AC-T-ACAAGATA-TGTCAGT
1 GTAAGACCATGTCTGGGACATGCATCAGCCTTGAGATG-TAGAGTCAGT
* ** * *
93813016 GTAAGATCATGTCTGGGACATGGCATTGGCAC-AGATATGTGAGAG-CTAGT
1 GTAAGACCATGTCTGGGACAT-GCATCAGC-CTTGAGATGT-AGAGTC-AGT
** * * * *
93813066 GTAAGACCATGTCTGGGACATGGGTCAGCCTCGA-TTTTGATAGTCAGT
1 GTAAGACCATGTCTGGGACATGCATCAGCCTTGAGATGT-AGAGTCAGT
* *
93813114 GTAAGACCATGTCTGGGACATGGCATC-GACTT--GATGAATGAGTCAGT
1 GTAAGACCATGTCTGGGACAT-GCATCAGCCTTGAGATGTA-GAGTCAGT
93813161 GTAAGACCATGTCTGGGACATGACATC
1 GTAAGACCATGTCTGGGACATG-CATC
93813188 GGCATTATAC
Statistics
Matches: 210, Mismatches: 34, Indels: 37
0.75 0.12 0.13
Matches are distributed among these distances:
43 3 0.01
44 13 0.06
45 17 0.08
46 49 0.23
47 48 0.23
48 41 0.20
49 15 0.07
50 24 0.11
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGCATCAGCCTTGAGATGTAGAGTCAGT
Found at i:93813126 original size:48 final size:48
Alignment explanation
Indices: 93813063--93813182 Score: 160
Period size: 47 Copynumber: 2.5 Consensus size: 48
93813053 TGTGAGAGCT
*
93813063 AGTGTAAGACCATGTCTGGGACATGGGTCAGCCTCGA-TT-TTG-AT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGG-CA---TCGACTTGATGAATGAGTC
93813111 AGTGTAAGACCATGTCTGGGACAT-GGCATCGACTTGATGAATGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGGCATCGACTTGATGAATGAGTC
93813158 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
93813183 ACATCGGCAT
Statistics
Matches: 66, Mismatches: 1, Indels: 10
0.86 0.01 0.13
Matches are distributed among these distances:
43 4 0.06
44 2 0.03
45 2 0.03
46 4 0.06
47 30 0.45
48 24 0.36
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGGCATCGACTTGATGAATGAGTC
Found at i:93816415 original size:46 final size:47
Alignment explanation
Indices: 93816311--93816479 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 47
93816301 GTAAGGTGCT
* * *
93816311 GATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTAGCT-
1 GATGCCATGTCCCAAACATGGTCTTACACTGACTACATCTC-AAGGTC
*
93816357 GATG-CATGTCCCAAACAT-GTCTTACACTGACTTACGTCTCAAGGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTGAC-TACATCTCAAGGTC
* *
93816403 GATG-CATGTCCCAAACAT-GTCTTACACTAGCACT-CATCTCAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACT-G-ACTACATCTCAAGGTC
* *
93816449 GACGCCATGTCCCAGACATGGTCTTACACTG
1 GATGCCATGTCCCAAACATGGTCTTACACTG
93816480 GCTCTCATAA
Statistics
Matches: 107, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
44 13 0.12
45 16 0.15
46 50 0.47
47 16 0.15
48 12 0.11
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGACTACATCTCAAGGTC
Found at i:93816477 original size:94 final size:92
Alignment explanation
Indices: 93816308--93816532 Score: 239
Period size: 94 Copynumber: 2.4 Consensus size: 92
93816298 GGGGTAAGGT
* * *
93816308 GCTGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAGCTGATGCATGTCCCAA
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCACACATCTCATAGCCGACGCATGTCCCAA
93816371 ACATGTCTTACACTGACTTACGTC-TCAA-G-G
64 ACATGTCTTACACTGAC-T-C-TCAT-AATGTG
* * * *
93816401 TC-GATGCATGTCCCAAACATGTCTTACACTAGCACTCATCTCA-ATGCCGACGCCATGTCCCAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCATA-GCCGACG-CATGTCCCAA
*
93816464 ACATGGTCTTACACTGGCTCTCATAATGTG
64 ACAT-GTCTTACACTGACTCTCATAATGTG
*
93816494 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCACA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACACA
93816533 CAAGTGACCC
Statistics
Matches: 111, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
90 10 0.09
91 19 0.17
92 20 0.18
93 17 0.15
94 45 0.41
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (92 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCATAGCCGACGCATGTCCCAAAC
ATGTCTTACACTGACTCTCATAATGTG
Found at i:93822448 original size:72 final size:72
Alignment explanation
Indices: 93822364--93822551 Score: 211
Period size: 72 Copynumber: 2.6 Consensus size: 72
93822354 TATGTAATGT
** *
93822364 GGGTCCGAGTACTAACTTTGTATATAAACCCGTGAGTAACTCGCTGAGCGAGG-A-TATCATGTT
1 GGGTCCGAGTACTAACTTTGTATATAAACCCGTGAGTAACTCAATGAGCG-GGCATTA-CATGAT
93822427 AATGCTTTG
64 AATGCTTTG
* *
93822436 GGGTCCTG-GTACTAACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGCGGGCATTACATGATA
1 GGGTCC-GAGTACTAACTTTGTATATAAACCCGTGAGTAACTCAATGAGCGGGCATTACATGATA
93822500 ATGCTTTG
65 ATGCTTTG
* * * * * * * *
93822508 GGGTCCAAGTGCTGACTTTGTGTACAGACCTGTGAGTAGCTCAA
1 GGGTCCGAGTACTAACTTTGTATATAAACCCGTGAGTAACTCAA
93822552 ATGCAGGCAT
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
71 2 0.02
72 96 0.95
73 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (72 bp):
GGGTCCGAGTACTAACTTTGTATATAAACCCGTGAGTAACTCAATGAGCGGGCATTACATGATAA
TGCTTTG
Found at i:93827403 original size:39 final size:40
Alignment explanation
Indices: 93827291--93827470 Score: 172
Period size: 40 Copynumber: 4.5 Consensus size: 40
93827281 GACTCGCTCC
* * * * *
93827291 AATGCCTTCGGGA-TGAAGCCTGG-TTATAGTGACTCGCACG
1 AATGCCTTCGGGACT-TAGCCCGGATT-TAGTAACTTGCACA
* *
93827331 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCACA
* *
93827371 AATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCACA
* * * *
93827410 AATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCACA
93827451 AA-GCCTTCGGGACTTAGCCC
1 AATGCCTTCGGGACTTAGCCC
93827471 AGACATCATT
Statistics
Matches: 116, Mismatches: 18, Indels: 12
0.79 0.12 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.28
40 69 0.59
41 13 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCACA
Found at i:93827405 original size:79 final size:80
Alignment explanation
Indices: 93827322--93827470 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 80
93827312 GGTTATAGTG
* * * *
93827322 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAATGCCTTCGGG-C
1 ACTCGCACAAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAA-GCCTTCGGGAC
93827384 TTAGCCCGGATTTATTA
64 TTAGCCCGGATTTATTA
** *
93827401 ACTCGCACAAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
93827466 AGCCC
66 AGCCC
93827471 AGACATCATT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.05
79 42 0.70
80 15 0.25
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:93835423 original size:79 final size:81
Alignment explanation
Indices: 93835322--93835506 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
93835312 ACGACTCGCT
** * *
93835322 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
93835385 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
93835402 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
93835466 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
93835482 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
93835507 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:93835506 original size:40 final size:39
Alignment explanation
Indices: 93835315--93835506 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
93835305 GGATATAACG
* ** * *
93835315 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
93835355 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
93835395 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
93835434 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
93835474 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
93835507 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:93837713 original size:13 final size:13
Alignment explanation
Indices: 93837695--93837719 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93837685 AGTATAAACA
93837695 AATGAAGAATTTG
1 AATGAAGAATTTG
93837708 AATGAAGAATTT
1 AATGAAGAATTT
93837720 ATATTCTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (13 bp):
AATGAAGAATTTG
Found at i:93840721 original size:72 final size:71
Alignment explanation
Indices: 93840561--93840748 Score: 207
Period size: 72 Copynumber: 2.6 Consensus size: 71
93840551 TATGTAATGT
* * * ** * *
93840561 GGGTCCGGGTACTAACTTTGTATATAAACCCGTGAGTAACTCGCTGAGCTAGCATATCATGTTAA
1 GGGTCC-GGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGCGAGCATATCATGATAA
*
93840626 TGCTTTG
65 TGCTTTA
* *
93840633 GGGTCCTGGTAATGACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGCGGGCAT-TACATGATA
1 GGGTCC-GGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGCGAGCATAT-CATGATA
93840697 ATGCTTTA
64 ATGCTTTA
* * * *
93840705 GGGTCCGAGTGCTGACTTTGTGTACAGACCTGTGAGTAGCTCAA
1 GGGTCCG-GTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAA
93840749 ATGCAGGCAT
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
71 2 0.02
72 96 0.98
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (71 bp):
GGGTCCGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGCGAGCATATCATGATAAT
GCTTTA
Found at i:93843727 original size:27 final size:27
Alignment explanation
Indices: 93843695--93843747 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
93843685 CAATTCTAAC
93843695 AAAATTTATTTCTAAAATTAAAAATTA
1 AAAATTTATTTCTAAAATTAAAAATTA
*
93843722 AAAATTTATTTTTAAAATTAAAAATT
1 AAAATTTATTTCTAAAATTAAAAATT
93843748 GTTTTGACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (27 bp):
AAAATTTATTTCTAAAATTAAAAATTA
Found at i:93844989 original size:4 final size:4
Alignment explanation
Indices: 93844980--93845006 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
93844970 AATTTAACTA
93844980 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
93845007 AGTAATTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:93846836 original size:42 final size:43
Alignment explanation
Indices: 93846776--93846900 Score: 207
Period size: 42 Copynumber: 2.9 Consensus size: 43
93846766 CGTTTATTTA
*
93846776 AAAAAACGCCGCTAAAGACTAGGACCTTTAGCGGCGCTTTACC
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTACC
* * *
93846819 -AAAAACGCCGCTAAAGACCATGACCTTTAGTGGCGCTTTTCC
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTACC
93846861 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTT
93846901 TCTCACAAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
42 38 0.51
43 37 0.49
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTACC
Found at i:93846911 original size:43 final size:42
Alignment explanation
Indices: 93846777--93846913 Score: 211
Period size: 43 Copynumber: 3.2 Consensus size: 42
93846767 GTTTATTTAA
* *
93846777 AAAAACGCCGCTAAAGACTAGGACCTTTAGCGGCGCTTTACC
1 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCC
* *
93846819 AAAAACGCCGCTAAAGACCATGACCTTTAGTGGCGCTTTTCC
1 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCC
93846861 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCTC
1 -AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTC-C
*
93846905 ACAAACGCC
1 AAAAACGCC
93846914 ACTAGAAATC
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
42 38 0.44
43 47 0.55
44 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCC
Found at i:93851714 original size:14 final size:15
Alignment explanation
Indices: 93851651--93851719 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
93851641 ACTAATTAAT
* *
93851651 CTAAACCCTAAACCT
1 CTAAACCCTTAACCC
* *
93851666 CTTAACCCTTATCCC
1 CTAAACCCTTAACCC
* *
93851681 ATAAACAC-TAACCC
1 CTAAACCCTTAACCC
*
93851695 CTAAACTCTTAACCC
1 CTAAACCCTTAACCC
93851710 C-AAACCCTTA
1 CTAAACCCTTA
93851720 CACCTTAAAC
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
14 19 0.45
15 23 0.55
ACGTcount: A:0.36, C:0.41, G:0.00, T:0.23
Consensus pattern (15 bp):
CTAAACCCTTAACCC
Found at i:93851830 original size:46 final size:46
Alignment explanation
Indices: 93851778--93851871 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
93851768 CTTCAAATAC
* * *
93851778 TAGTTAACTCCTAAACCTTAAACTCTAAACTATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
*
93851824 TAGTTAACTCATAAACCTTAAACCCTAAACCGTATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
93851870 TA
1 TA
93851872 AACCTTAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.31
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:93851878 original size:14 final size:14
Alignment explanation
Indices: 93851835--93851886 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
93851825 AGTTAACTCA
* *
93851835 TAAACCTTAAACCC
1 TAAACCATAAACCT
* * *
93851849 TAAACCGTATATCT
1 TAAACCATAAACCT
93851863 TAAACCATAAACCT
1 TAAACCATAAACCT
*
93851877 TAAACTATAA
1 TAAACCATAA
93851887 TGATAATTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.27
Consensus pattern (14 bp):
TAAACCATAAACCT
Found at i:93851929 original size:25 final size:25
Alignment explanation
Indices: 93851891--93851938 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
93851881 CTATAATGAT
*
93851891 AATTAATTCGATATTTTAAATTCAA
1 AATTAATTCAATATTTTAAATTCAA
93851916 AATTAATTCAATATTTTAAATTC
1 AATTAATTCAATATTTTAAATTC
93851939 GATACTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (25 bp):
AATTAATTCAATATTTTAAATTCAA
Found at i:93852114 original size:41 final size:41
Alignment explanation
Indices: 93852069--93852359 Score: 388
Period size: 41 Copynumber: 7.1 Consensus size: 41
93852059 GTTATATGAC
*
93852069 TTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * *
93852110 TTTTAGCGGTGTTTTTCAAAAAGCGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * *
93852151 TCTTAGCGGCGTTTTTCCAAAAGCCCCGCTAATGCTCTTGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* *
93852192 TCTTAGCGGCGTTTTCCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * *
93852233 TTTTAGCGGCGTTTTCCCAAAAGCGCAGCTAATGCTCTGAT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* *
93852274 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * * *
93852314 TTTTAGCGGCATTTTTGACAACA-CGCCGCTATTGCTCTGTGT
1 TTTTAGCGGCGTTTTT-CCAAAAGCGCCGCTAATGCTCTG-GT
93852356 TTTT
1 TTTT
93852360 CAAATTTATG
Statistics
Matches: 226, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
40 30 0.13
41 190 0.84
42 6 0.03
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:93856009 original size:2 final size:2
Alignment explanation
Indices: 93856002--93856040 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
93855992 ATACGTGATA
93856002 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93856041 CACACACATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:93859189 original size:46 final size:46
Alignment explanation
Indices: 93859115--93859209 Score: 154
Period size: 46 Copynumber: 2.1 Consensus size: 46
93859105 TTATAAAGGA
* *
93859115 AATAAAAACCTAATATAATAGAGGAAATAAATAAAACTAAAACTCT
1 AATAAAAACCTAATATAATAAAGAAAATAAATAAAACTAAAACTCT
* *
93859161 AATAAAAATCTAATATAATAAAGAAAATATATAAAACTAAAACTCT
1 AATAAAAACCTAATATAATAAAGAAAATAAATAAAACTAAAACTCT
93859207 AAT
1 AAT
93859210 TGTTGTCGTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.24
Consensus pattern (46 bp):
AATAAAAACCTAATATAATAAAGAAAATAAATAAAACTAAAACTCT
Found at i:93866406 original size:46 final size:46
Alignment explanation
Indices: 93866356--93866531 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
93866346 TGGTTGAGCA
93866356 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
93866402 TCCGAACGCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
93866447 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
93866495 CCCGAGCTCGTTGAGTTGAGTCCGATTTTACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93866532 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.58
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:93869624 original size:22 final size:23
Alignment explanation
Indices: 93869598--93869641 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
93869588 CCTGATCAGA
93869598 ATACGACACAT-AAGTGCCTGAC
1 ATACGACACATAAAGTGCCTGAC
93869620 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
93869642 TCAGTAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAC
Found at i:93869878 original size:28 final size:29
Alignment explanation
Indices: 93869846--93869929 Score: 127
Period size: 28 Copynumber: 3.0 Consensus size: 29
93869836 AACACACCAG
* *
93869846 TATAATCC-TCCAAAACACACCAGTATCA
1 TATAATCCATCCAAAACACACCAGAATAA
*
93869874 TATAATCCTTCC-AAACACACCAGAATAA
1 TATAATCCATCCAAAACACACCAGAATAA
93869902 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCCATCCAAAACACACCAGAATA
93869930 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.30, G:0.04, T:0.20
Consensus pattern (29 bp):
TATAATCCATCCAAAACACACCAGAATAA
Found at i:93869901 original size:23 final size:23
Alignment explanation
Indices: 93869832--93869929 Score: 72
Period size: 28 Copynumber: 3.8 Consensus size: 23
93869822 AAATGTCCAA
*
93869832 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
93869855 CCAAAACACACCAGTATCATATAATCCTT
1 CCAAAACACACCAG----A-ATAATCC-T
93869884 CC-AAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----A-ATAATCC-T
93869912 CCAAAACACACCAGAATA
1 CCAAAACACACCAGAATA
93869930 GCACAAAGTG
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
23 14 0.22
24 3 0.05
25 1 0.02
28 32 0.50
29 14 0.22
ACGTcount: A:0.47, C:0.32, G:0.04, T:0.17
Consensus pattern (23 bp):
CCAAAACACACCAGAATAATCCT
Found at i:93875528 original size:46 final size:45
Alignment explanation
Indices: 93875432--93875600 Score: 150
Period size: 46 Copynumber: 3.6 Consensus size: 45
93875422 GGGGTCAGGT
* *
93875432 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GACACCTCTCGTA
1 GCCGATG-CATGTCCCATACAT-GTCTTACACTAGACACATCTCGTA
*
93875478 GCCGATGTATGTCCCATACATGTCTTACACTAG-CTTACATCTCG-A
1 GCCGATGCATGTCCCATACATGTCTTACACTAGAC--ACATCTCGTA
* * * *
93875523 GGCCGAAGCACGTCCCATACATGTCTTACACTA-ACACTTGTCTC-AA
1 -GCCGATGCATGTCCCATACATGTCTTACACTAGACAC--ATCTCGTA
93875569 TGCCGATGCCATGTCCCATACATGGTCTTACA
1 -GCCGATG-CATGTCCCATACAT-GTCTTACA
93875601 TTGGCTCTAA
Statistics
Matches: 103, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
44 13 0.13
45 14 0.14
46 55 0.53
47 13 0.13
48 8 0.08
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCATACATGTCTTACACTAGACACATCTCGTA
Found at i:93878005 original size:40 final size:40
Alignment explanation
Indices: 93877920--93878070 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
93877910 AATTGAATGA
* * *
93877920 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
93877960 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
93878001 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
93878040 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
93878071 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:93878084 original size:40 final size:40
Alignment explanation
Indices: 93877957--93878086 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
93877947 ATGCTGGAAA
* * * *
93877957 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
93877997 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
93878037 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
93878077 TTATATCCGG
1 TTATATCCGG
93878087 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:93886012 original size:40 final size:40
Alignment explanation
Indices: 93885927--93886077 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
93885917 AATTGAATGA
* * *
93885927 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
93885967 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
93886008 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
93886047 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
93886078 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:93886091 original size:40 final size:40
Alignment explanation
Indices: 93885964--93886093 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
93885954 ATGCTGGAAA
* * * *
93885964 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
93886004 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
93886044 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
93886084 TTATATCCGG
1 TTATATCCGG
93886094 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:93900989 original size:33 final size:32
Alignment explanation
Indices: 93900952--93901017 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 32
93900942 ACACTCCCGT
*
93900952 ATGCCTGGCCCGTGTCCTTCACACGGCCATGAC
1 ATGCCT-GCCCGTGTCCTTCACAAGGCCATGAC
*
93900985 A----TGCCCGTGTCCTTCATAAGGCCATGAC
1 ATGCCTGCCCGTGTCCTTCACAAGGCCATGAC
93901013 ATGCC
1 ATGCC
93901018 CGTTTCCTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
28 25 0.93
29 1 0.04
33 1 0.04
ACGTcount: A:0.18, C:0.36, G:0.23, T:0.23
Consensus pattern (32 bp):
ATGCCTGCCCGTGTCCTTCACAAGGCCATGAC
Found at i:93900991 original size:28 final size:28
Alignment explanation
Indices: 93900959--93901025 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
93900949 CGTATGCCTG
*
93900959 GCCCGTGTCCTTCACACGGCCATGACAT
1 GCCCGTGTCCTTCACAAGGCCATGACAT
*
93900987 GCCCGTGTCCTTCATAAGGCCATGACAT
1 GCCCGTGTCCTTCACAAGGCCATGACAT
*
93901015 GCCCGTTTCCT
1 GCCCGTGTCCT
93901026 AGCCCGTGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.16, C:0.37, G:0.21, T:0.25
Consensus pattern (28 bp):
GCCCGTGTCCTTCACAAGGCCATGACAT
Found at i:93906893 original size:71 final size:71
Alignment explanation
Indices: 93906809--93906972 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
93906799 CGATTTGTCT
93906809 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
93906874 CTTTCA
66 CTTTCA
* *
93906880 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
93906945 CTTTCA
66 CTTTCA
93906951 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
93906973 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:93907010 original size:71 final size:70
Alignment explanation
Indices: 93906809--93907006 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
93906799 CGATTTGTCT
* * * * *
93906809 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
93906874 CTTTCA
65 CTTTCA
* * * *
93906880 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
93906945 CTTTCA
65 CTTTCA
* *
93906951 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACATATGCGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
93907007 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:93912630 original size:46 final size:46
Alignment explanation
Indices: 93912563--93912733 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
93912553 AACCCGCCCC
*
93912563 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCCA
*
93912609 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G--T-GTTCGCATCCA
* * ***
93912657 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCCA
*
93912702 TAAGTGAACTCGGACTCAACTCAATGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
93912734 ATGCTGAACC
Statistics
Matches: 105, Mismatches: 11, Indels: 18
0.78 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 58 0.55
47 28 0.27
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCCA
Found at i:93912675 original size:93 final size:92
Alignment explanation
Indices: 93912568--93912737 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
93912558 GCCCCTAAGT
***
93912568 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
93912633 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTC-GATGCCTAGTTACATCTCAC
*
93912661 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
93912726 TGAGTTCGATGC
66 CGAGTTCGATGC
93912738 TGAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 5 0.07
93 67 0.93
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGATGCCTAGTTACATCTCAC
Found at i:93917684 original size:18 final size:18
Alignment explanation
Indices: 93917652--93917698 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 18
93917642 CATAACAGCC
*
93917652 CACATTTTCCTTCCT-TT
1 CACATTTTTCTTCCTCTT
93917669 CACATTTTTCTATCCTCTT
1 CACATTTTTCT-TCCTCTT
93917688 CTACAATTTTT
1 C-AC-ATTTTT
93917699 ACGAAATAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 4 0.16
19 3 0.12
20 2 0.08
21 6 0.24
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (18 bp):
CACATTTTTCTTCCTCTT
Found at i:93921042 original size:14 final size:14
Alignment explanation
Indices: 93921023--93921058 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
93921013 CACCCTAAGG
93921023 TTTGTCAACCAATC
1 TTTGTCAACCAATC
93921037 TTTGTCAACCAATC
1 TTTGTCAACCAATC
93921051 TTTG-CAAC
1 TTTGTCAAC
93921059 TGTGACTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (14 bp):
TTTGTCAACCAATC
Found at i:93924892 original size:11 final size:11
Alignment explanation
Indices: 93924876--93924909 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
93924866 TATATCATAG
93924876 CATATCATGTA
1 CATATCATGTA
*
93924887 CATATCATG-G
1 CATATCATGTA
93924897 CATATCATGTA
1 CATATCATGTA
93924908 CA
1 CA
93924910 AAAGCAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (11 bp):
CATATCATGTA
Found at i:93924893 original size:21 final size:21
Alignment explanation
Indices: 93924867--93924909 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
93924857 ATATGTGAAT
93924867 ATATCATAGCATATCATGTAC
1 ATATCATAGCATATCATGTAC
*
93924888 ATATCATGGCATATCATGTAC
1 ATATCATAGCATATCATGTAC
93924909 A
1 A
93924910 AAAGCAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (21 bp):
ATATCATAGCATATCATGTAC
Found at i:93924974 original size:25 final size:25
Alignment explanation
Indices: 93924946--93924993 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
93924936 ATAAGATAAC
* * *
93924946 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAAAGGTCATTTTCA
93924971 CCTAGGGGCAAAAAGGTCATTTT
1 CCTAGGGGCAAAAAGGTCATTTT
93924994 AACATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAAAGGTCATTTTCA
Found at i:93930732 original size:28 final size:28
Alignment explanation
Indices: 93930692--93930749 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
93930682 TTGCTAGCAT
*
93930692 ATCGACTCAGCCTCAAGAATTTTGCCTC
1 ATCGACTCAGCCTCAAGAATTCTGCCTC
93930720 ATCGACTCAGCCTCAAGAATTCTGCCTC
1 ATCGACTCAGCCTCAAGAATTCTGCCTC
93930748 AT
1 AT
93930750 ACTCCGCAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.28
Consensus pattern (28 bp):
ATCGACTCAGCCTCAAGAATTCTGCCTC
Found at i:93932791 original size:10 final size:10
Alignment explanation
Indices: 93932778--93932816 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
93932768 ATATGTGAAT
93932778 ATATCATGGC
1 ATATCATGGC
93932788 ATATCATGTGC
1 ATATCATG-GC
93932799 ATATCATGGC
1 ATATCATGGC
93932809 ATATCATG
1 ATATCATG
93932817 TACAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:93932804 original size:21 final size:21
Alignment explanation
Indices: 93932778--93932817 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
93932768 ATATGTGAAT
93932778 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
93932799 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
93932818 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:93932885 original size:25 final size:25
Alignment explanation
Indices: 93932857--93932907 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
93932847 ATAAGATAAC
* * *
93932857 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAAAGGTCATTTTCA
93932882 CCTAGGGGCAAAAAGGTCATTTTCA
1 CCTAGGGGCAAAAAGGTCATTTTCA
93932907 C
1 C
93932908 ATTATATGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (25 bp):
CCTAGGGGCAAAAAGGTCATTTTCA
Found at i:93940657 original size:19 final size:18
Alignment explanation
Indices: 93940633--93940693 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
93940623 AATTAGTGCC
93940633 ATCTCAATTAACCGAAGCT
1 ATCTCAATTAA-CGAAGCT
* *
93940652 ATCTCAA-TAA-G-TGCC
1 ATCTCAATTAACGAAGCT
93940667 ATCTCAATTAAGCGAAGCT
1 ATCTCAATTAA-CGAAGCT
93940686 ATCTCAAT
1 ATCTCAAT
93940694 ATCACAAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 9 0.26
16 4 0.12
18 4 0.12
19 17 0.50
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (18 bp):
ATCTCAATTAACGAAGCT
Found at i:93940670 original size:34 final size:34
Alignment explanation
Indices: 93940622--93940694 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
93940612 CGATTCCGCA
*
93940622 CAATTAGTGCCATCTCAATTAACCGAAGCTATCT
1 CAATAAGTGCCATCTCAATTAACCGAAGCTATCT
*
93940656 CAATAAGTGCCATCTCAATTAAGCGAAGCTATCT
1 CAATAAGTGCCATCTCAATTAACCGAAGCTATCT
93940690 CAATA
1 CAATA
93940695 TCACAAACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (34 bp):
CAATAAGTGCCATCTCAATTAACCGAAGCTATCT
Found at i:93943579 original size:23 final size:26
Alignment explanation
Indices: 93943548--93943597 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 26
93943538 TCTAACCATC
93943548 TTCTCTGTC-CCAGA-TTCAAA-TCT
1 TTCTCTGTCACCAGATTTCAAACTCT
* *
93943571 TTCTGTGTCATCAGATTTCAAACTCT
1 TTCTCTGTCACCAGATTTCAAACTCT
93943597 T
1 T
93943598 ACAATTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 8 0.36
24 4 0.18
25 6 0.27
26 4 0.18
ACGTcount: A:0.22, C:0.26, G:0.10, T:0.42
Consensus pattern (26 bp):
TTCTCTGTCACCAGATTTCAAACTCT
Found at i:93947833 original size:43 final size:43
Alignment explanation
Indices: 93947756--93947840 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
93947746 TACATGAATT
* * *
93947756 GCATCCATCATGAACTCGGACCACTCAACAAGCTCGGATGCTC
1 GCATCCATAATAAACTCGAACCACTCAACAAGCTCGGATGCTC
* * *
93947799 GCATCCATAATAAACTCGAACCTCTCGACGAGCTCGGATGCT
1 GCATCCATAATAAACTCGAACCACTCAACAAGCTCGGATGCT
93947841 ACATACCTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (43 bp):
GCATCCATAATAAACTCGAACCACTCAACAAGCTCGGATGCTC
Found at i:93951509 original size:29 final size:29
Alignment explanation
Indices: 93951476--93951578 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
93951466 CCTTCGAGCT
** * *
93951476 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
93951505 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
93951534 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
93951563 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
93951579 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:93951518 original size:58 final size:58
Alignment explanation
Indices: 93951447--93951578 Score: 147
Period size: 58 Copynumber: 2.3 Consensus size: 58
93951437 AATTTAAGCC
** * * * * *
93951447 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
93951505 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
93951563 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
93951579 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:93957898 original size:40 final size:40
Alignment explanation
Indices: 93957853--93958019 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
93957843 CGGAATATAA
93957853 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
93957893 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
93957933 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
93957973 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
93958012 CCGGATAT
1 CCGGATAT
93958020 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:93963526 original size:40 final size:41
Alignment explanation
Indices: 93963481--93963611 Score: 160
Period size: 40 Copynumber: 3.3 Consensus size: 41
93963471 CGGAATATAA
*
93963481 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
93963521 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
93963561 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
93963601 CCGGATATAAT
1 CCGGATATAAT
93963612 TTCCAGCATA
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 4 0.05
40 70 0.93
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:93964477 original size:17 final size:19
Alignment explanation
Indices: 93964454--93964499 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
93964444 AAGAAGCATG
93964454 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
93964472 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
93964490 AATCATGCTC
1 AATCATGCTC
93964500 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:93966224 original size:47 final size:48
Alignment explanation
Indices: 93966054--93966260 Score: 310
Period size: 49 Copynumber: 4.3 Consensus size: 48
93966044 GTATGAGATA
93966054 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GTG
93966103 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GTG
93966152 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
* * * * * * *
93966199 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
*
93966246 TATAAATGTGATAAG
1 TATATATGTGATAAG
93966261 TCCCGAAGGG
Statistics
Matches: 149, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 56 0.38
49 93 0.62
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (48 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
Found at i:93968449 original size:40 final size:40
Alignment explanation
Indices: 93968383--93968614 Score: 338
Period size: 40 Copynumber: 5.8 Consensus size: 40
93968373 GAGAATTGAG
* * * *
93968383 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
93968423 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
93968463 AGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
93968503 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* * *
93968543 AGTAATGCAACCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
93968583 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCA
93968615 ATCATGCTGG
Statistics
Matches: 174, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 174 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:93972562 original size:49 final size:48
Alignment explanation
Indices: 93972502--93972755 Score: 379
Period size: 47 Copynumber: 5.3 Consensus size: 48
93972492 GTATGAGATA
93972502 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GTG
93972551 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GTG
93972600 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
* *
93972647 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
* * * * * * *
93972694 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
*
93972741 TATAAATGTGATAAG
1 TATATATGTGATAAG
93972756 TCCCGAAGGG
Statistics
Matches: 195, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 100 0.51
48 5 0.03
49 90 0.46
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (48 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
Found at i:93974946 original size:40 final size:40
Alignment explanation
Indices: 93974880--93975110 Score: 347
Period size: 40 Copynumber: 5.8 Consensus size: 40
93974870 GAGAATTGAG
* * * *
93974880 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
93974920 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
93974960 AGTGATGTATCC-GACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
93974999 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* * *
93975039 AGTAATGCAACCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
93975079 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCA
93975111 ATCATGCTGG
Statistics
Matches: 176, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 39 0.22
40 137 0.78
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:93974992 original size:79 final size:80
Alignment explanation
Indices: 93974890--93975110 Score: 345
Period size: 79 Copynumber: 2.8 Consensus size: 80
93974880 AGTGATATAT
* * *
93974890 CCGGGCTAAATCCCGAAGAGCATTTGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTC
1 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTC
* * *
93974955 GTGCTAGTGATGTAT
66 GTGCTAGTAATGCAA
*
93974970 CC-GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTC
1 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTC
93975034 GTGCTAGTAATGCAA
66 GTGCTAGTAATGCAA
* * *
93975049 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
93975111 ATCATGCTGG
Statistics
Matches: 129, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
79 72 0.56
80 57 0.44
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTC
GTGCTAGTAATGCAA
Found at i:93975091 original size:119 final size:120
Alignment explanation
Indices: 93974880--93975110 Score: 347
Period size: 119 Copynumber: 1.9 Consensus size: 120
93974870 GAGAATTGAG
* * * * * *
93974880 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTTGTGCTAGTGATGTATCCGGACTAAGTTCCG
1 AGTGATATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTAATGCAACCGGACTAAGTCCCG
*
93974945 AAGAGCATTCGTGCTAGTGATGTATCC-GACTAAGTTCCGAAGAGCATTCGTGCT
66 AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* * *
93974999 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTAATGCAACCGGACTAAGTCCCG
1 AGTGATATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTAATGCAACCGGACTAAGTCCCG
* *
93975064 AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
66 AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGAAGAGCA
93975111 ATCATGCTGG
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
119 83 0.84
120 16 0.16
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (120 bp):
AGTGATATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTAATGCAACCGGACTAAGTCCCG
AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:93979058 original size:49 final size:47
Alignment explanation
Indices: 93978998--93979202 Score: 293
Period size: 47 Copynumber: 4.3 Consensus size: 47
93978988 GTATGAGATA
* *
93978998 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTG
* * *
93979047 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
93979094 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * * *
93979141 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
93979188 TATAAATGTGATAAG
1 TATATATGTGATAAG
93979203 TCCCGAAGGG
Statistics
Matches: 145, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 102 0.70
49 43 0.30
ACGTcount: A:0.31, C:0.08, G:0.32, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:93982957 original size:39 final size:39
Alignment explanation
Indices: 93982903--93982980 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
93982893 TGACTTGCTG
93982903 GCGAGTTGGAGTATTGGTGTATACTAGCATTAAAGTATT
1 GCGAGTTGGAGTATTGGTGTATACTAGCATTAAAGTATT
93982942 GCGAGTTGGAGTATTGGTGTATACTAGCATTAAAGTATT
1 GCGAGTTGGAGTATTGGTGTATACTAGCATTAAAGTATT
93982981 CTCTTGTTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (39 bp):
GCGAGTTGGAGTATTGGTGTATACTAGCATTAAAGTATT
Found at i:93985228 original size:17 final size:17
Alignment explanation
Indices: 93985206--93985240 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
93985196 GATAAACCAG
93985206 AAACAGAAAAAGAAATT
1 AAACAGAAAAAGAAATT
93985223 AAACAGAAAAAGAAATT
1 AAACAGAAAAAGAAATT
93985240 A
1 A
93985241 TCCCTAGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.71, C:0.06, G:0.11, T:0.11
Consensus pattern (17 bp):
AAACAGAAAAAGAAATT
Found at i:93995827 original size:53 final size:52
Alignment explanation
Indices: 93995762--93995991 Score: 219
Period size: 53 Copynumber: 4.3 Consensus size: 52
93995752 TAAAATTACC
* * * *
93995762 AAATTACTGAAATACCCCC-AGTTGTAAAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCGAAATACCCCCGA-TTGTAAAATTACCAAA-TACCCTCGATTTGTA
** * *
93995815 AAATTACCGAAATACCGTCGATTGTAAAATTACTAAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCCCGATTGTAAAATTAC-CAAATACCCTCGATTTGTA
* * * *
93995868 AAATTACCAAAATACCCCCGGTTTATAAAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCGAAATACCCCC-GATTGTAAAATTA-CCAAATACCCTCGATTTGTA
**** * * * *
93995922 AAATTACCGAAATACAGTTGATTGTAAAATTACTGAAATACTCTTGATTTATA
1 AAATTACCGAAATACCCCCGATTGTAAAATTAC-CAAATACCCTCGATTTGTA
93995975 AAATTACCGAAATACCC
1 AAATTACCGAAATACCC
93995992 TTGTAGGATA
Statistics
Matches: 142, Mismatches: 30, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
52 1 0.01
53 95 0.67
54 45 0.32
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (52 bp):
AAATTACCGAAATACCCCCGATTGTAAAATTACCAAATACCCTCGATTTGTA
Found at i:93995878 original size:80 final size:78
Alignment explanation
Indices: 93995762--93995990 Score: 273
Period size: 80 Copynumber: 2.9 Consensus size: 78
93995752 TAAAATTACC
*
93995762 AAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCGAA
1 AAATTACTGAAATACCCTCGA-TTGTAAAATTACCAAA-TACCCCCGGTTTATAAAATTACCGAA
93995826 ATACCGTCGA-TTGTA
64 ATACC-TCGATTTGTA
* *
93995841 AAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAATACCCCCGGTTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGA-TTGTAAAATTACC-AAATACCCCCGGTTTATAAAATTACCGAA
93995906 ATATCCTCGATTTGTA
64 ATA-CCTCGATTTGTA
* ** * * * ** *
93995922 AAATTACCGAAATACAGTTGATTGTAAAATTACTGAAATACTCTTGATTTATAAAATTACCGAAA
1 AAATTACTGAAATACCCTCGATTGTAAAATTAC-CAAATACCCCCGGTTTATAAAATTACCGAAA
93995987 TACC
65 TACC
93995991 CTTGTAGGAT
Statistics
Matches: 130, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
79 18 0.14
80 86 0.66
81 26 0.20
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (78 bp):
AAATTACTGAAATACCCTCGATTGTAAAATTACCAAATACCCCCGGTTTATAAAATTACCGAAAT
ACCTCGATTTGTA
Found at i:93995994 original size:27 final size:27
Alignment explanation
Indices: 93995762--93995992 Score: 218
Period size: 27 Copynumber: 8.7 Consensus size: 27
93995752 TAAAATTACC
* * *
93995762 AAATTACTGAAATACCC-CCAGTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
93995788 AAATTACC-AAAGTACCCCCGGTTTATA
1 AAATTACCGAAA-TACCCTCGATTTGTA
*
93995815 AAATTACCGAAATACCGTCGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** *
93995841 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
93995868 AAATTACCAAAATACCCCCGGTTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
93995895 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** *
93995922 AAATTACCGAAATACAGTTGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
93995948 AAATTACTGAAATACTCTTGATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
93995975 AAATTACCGAAATACCCT
1 AAATTACCGAAATACCCT
93995993 TGTAGGATAG
Statistics
Matches: 167, Mismatches: 33, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
25 3 0.02
26 57 0.34
27 104 0.62
28 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:93996006 original size:27 final size:27
Alignment explanation
Indices: 93995976--93996386 Score: 491
Period size: 27 Copynumber: 15.3 Consensus size: 27
93995966 TGATTTATAA
* *
93995976 AATTACCGAAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
93996003 AATTACTAAAATACCCTTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
93996030 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
93996057 AATTACCGAAATACCCCTGTAATGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
93996084 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
93996111 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
93996138 AATTGCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
93996165 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
93996192 AATTATTGAAATACCCCTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
93996219 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
93996246 AAATATCGAAATACCCCTGTA-GGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
93996272 AATTACTAAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
93996299 AATTAACGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
93996326 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * * *
93996353 AATTACTGAGATACCCTTATGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
93996380 AATTACC
1 AATTACC
93996387 CTTTTTGCCC
Statistics
Matches: 324, Mismatches: 59, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 22 0.07
27 302 0.93
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:93996008 original size:107 final size:107
Alignment explanation
Indices: 93995762--93995991 Score: 275
Period size: 107 Copynumber: 2.2 Consensus size: 107
93995752 TAAAATTACC
** * * * * * *
93995762 AAATTACTGAAATACCCCCAGTTG-TAAAATTA-CCAAAGTACCCCCGGTTTATAAAATTACCGA
1 AAATTACCAAAATACCCCCGGTGGATAAAATTACCCAAA-TATCCTCGATTTGTAAAATTACCGA
* *
93995825 AATACCGTCGATTGTAAAATTACTAAAATACCCTCGACTTGTA
65 AATACAGTCGATTGTAAAATTACTAAAATACCCTCGACTTATA
**
93995868 AAATTACCAAAATACCCCCGGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAA
1 AAATTACCAAAATACCCCCGGTGGATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAA
* * * * *
93995933 ATACAGTTGATTGTAAAATTACTGAAATACTCTTGATTTATA
66 ATACAGTCGATTGTAAAATTACTAAAATACCCTCGACTTATA
*
93995975 AAATTACCGAAATACCC
1 AAATTACCAAAATACCC
93995992 TTGTAGGATA
Statistics
Matches: 106, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
106 20 0.19
107 81 0.76
108 5 0.05
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (107 bp):
AAATTACCAAAATACCCCCGGTGGATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAA
ATACAGTCGATTGTAAAATTACTAAAATACCCTCGACTTATA
Found at i:93996015 original size:80 final size:80
Alignment explanation
Indices: 93995783--93996016 Score: 247
Period size: 80 Copynumber: 2.9 Consensus size: 80
93995773 ATACCCCCAG
* * *
93995783 TTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCGAAATACCGTCG-ATTGTAAAATTA
1 TTGTAAAATTACCAAAATACCCCCGATTTATAAAATTACCGAAATACCCTCGTA-TGTAAAATTA
*
93995847 CTAAAATACCCTCGAC
65 CTAAAATACACTCGAC
* * * *
93995863 TTGTAAAATTACCAAAATACCCCCGGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTA
1 TTGTAAAATTACCAAAATACCCCCGATTTATAAAATTACCGAAATACCCTCG-TATGTAAAATTA
** * *
93995928 CCGAAATACAGTTGA-
65 CTAAAATACACTCGAC
** * ** * * *
93995943 TTGTAAAATTACTGAAATACTCTTGATTTATAAAATTACCGAAATACCCTTGTAGGATAGAATTA
1 TTGTAAAATTACCAAAATACCCCCGATTTATAAAATTACCGAAATACCCTCGTATG-TAAAATTA
93996008 CTAAAATAC
65 CTAAAATAC
93996017 CCTTGTAGAG
Statistics
Matches: 127, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
79 2 0.02
80 105 0.83
81 20 0.16
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (80 bp):
TTGTAAAATTACCAAAATACCCCCGATTTATAAAATTACCGAAATACCCTCGTATGTAAAATTAC
TAAAATACACTCGAC
Found at i:93996767 original size:22 final size:22
Alignment explanation
Indices: 93996735--93996793 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
93996725 CCCGTTATCG
*
93996735 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
93996757 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
93996779 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
93996794 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:93996981 original size:27 final size:27
Alignment explanation
Indices: 93996951--93997031 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
93996941 ATTTTGTTAA
* *
93996951 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTATGCCACAATATCTGATTCTG
*
93996978 GTGGCTATGCCACAAATATTTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGATTCTG
*
93997005 GTGGCTCTGCCACAATATCT-ATTCTG
1 GTGGCTATGCCACAATATCTGATTCTG
93997031 G
1 G
93997032 CAGCCATACT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 12 0.26
27 29 0.62
28 6 0.13
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGATTCTG
Found at i:93997182 original size:6 final size:6
Alignment explanation
Indices: 93997151--93997266 Score: 94
Period size: 6 Copynumber: 18.8 Consensus size: 6
93997141 TTGCATTCAC
* * * *
93997151 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTA ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
93997200 -TTACCTG ATACTG ATTCTG ATTTTG ATTC-G GTTACCTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
93997250 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
93997267 AGTTTTGATA
Statistics
Matches: 87, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
5 7 0.08
6 68 0.78
7 7 0.08
8 5 0.06
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Done.