Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 112 of 352
Found at i:35877429 original size:27 final size:26
Alignment explanation
Indices: 35877381--35877438 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
35877371 GCGAGGCTGC
*
35877381 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
35877408 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
35877434 CAGAT
1 CAGAT
35877439 TTATATATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:35877485 original size:71 final size:67
Alignment explanation
Indices: 35877408--35877540 Score: 185
Period size: 67 Copynumber: 1.9 Consensus size: 67
35877398 TCACCAGATA
* * *
35877408 CAGATATTGTGGCTAGGCCACCAGAACAGATTTATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACA-A---ATATATGTGGCGAAGCCACCAGATTGCAGCGA
35877473 GTCTAC
62 GTCTAC
* *
35877479 CAGATATTGTGACGAAGTCACCAGAACAAATATATGTGGCGAGGCCACCAGATTGCAGCGAG
1 CAGATATTGTGACGAAGCCACCAGAACAAATATATGTGGCGAAGCCACCAGATTGCAGCGAG
35877541 GCTGCTAGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
67 32 0.56
70 1 0.02
71 24 0.42
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAAATATATGTGGCGAAGCCACCAGATTGCAGCGAGTCT
AC
Found at i:35878185 original size:27 final size:27
Alignment explanation
Indices: 35878155--35878460 Score: 425
Period size: 27 Copynumber: 11.3 Consensus size: 27
35878145 TACCCCATGA
* *
35878155 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
35878182 GGGTATTTCAGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
35878209 GGGTATTTCAGTAATTCTACCTTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
35878236 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
35878263 GGGTATTTCGGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
35878290 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
35878317 GGGTATTTCTA-CAATTCTACCTTACAG
1 GGGTATTTC-AGTAATTCTACCCTACAG
35878344 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
** *
35878371 GGGTATTTTGGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
35878398 GGGTATTTCAGTAATTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* * * *
35878425 GGATATTTCGGTAATTTTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
35878452 GGGTATTTC
1 GGGTATTTC
35878461 GATAATTTTA
Statistics
Matches: 244, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 242 0.99
28 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:35878461 original size:27 final size:27
Alignment explanation
Indices: 35878155--35878521 Score: 414
Period size: 27 Copynumber: 13.6 Consensus size: 27
35878145 TACCCCATGA
*
35878155 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
35878182 GGGTATTTCAGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
35878209 GGGTATTTCAGTAATTCTACCTTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
**
35878236 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
35878263 GGGTATTTCGGTAATTCTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
35878290 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*** *
35878317 GGGTATTTCTACAATTCTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
35878344 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
35878371 GGGTATTTTGGTAATTCTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
35878398 GGGTATTTCAGTAATTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
35878425 GGATATTTCGGTAATTTTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * **
35878452 GGGTATTTCGATAATTTTA-CAAATCAG
1 GGGTATTTCGGTAATTCTACCCTA-CAG
* * **
35878479 GGGTATTTTGGTAATTTTA-CAAACCAG
1 GGGTATTTCGGTAATTCTACCCTA-CAG
*
35878506 GGGTATTTTGGTAATT
1 GGGTATTTCGGTAATT
35878522 TTGCTAATCG
Statistics
Matches: 296, Mismatches: 43, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
26 2 0.01
27 294 0.99
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:35878467 original size:54 final size:54
Alignment explanation
Indices: 35878155--35878494 Score: 486
Period size: 54 Copynumber: 6.3 Consensus size: 54
35878145 TACCCCATGA
* * * *
35878155 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
* * *
35878209 GGGTATTTCAGTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
35878263 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
***
35878317 GGGTATTTCTACAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
* *
35878371 GGGTATTTTGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
* * * **
35878425 GGATATTTCGGTAATTTTACCTTACAGGGGTATTTC-GATAATTTTA-CAAATCAG
1 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAG-TAATTCTACCCTA-CAG
*
35878479 GGGTATTTTGGTAATT
1 GGGTATTTCGGTAATT
35878495 TTACAAACCA
Statistics
Matches: 257, Mismatches: 27, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
53 3 0.01
54 254 0.99
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (54 bp):
GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
Found at i:35878522 original size:27 final size:27
Alignment explanation
Indices: 35878449--35878550 Score: 143
Period size: 27 Copynumber: 3.8 Consensus size: 27
35878439 TTTTACCTTA
* *
35878449 CAGGGGTATTTCGATAATTTTACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
*
35878476 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAT
* *
35878503 CAGGGGTATTTTGGTAATTTTGCTAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
35878530 C-GAGGGTATTTTGGTAATTTT
1 CAG-GGGTATTTTGGTAATTTT
35878551 GGTAAACTAA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 67 0.99
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAT
Found at i:35878565 original size:27 final size:27
Alignment explanation
Indices: 35878481--35878566 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 27
35878471 CAAATCAGGG
* * **
35878481 GTATTTTGGTAATTTTAC-AAACCAGGG
1 GTATTTTGGTAATTTTGCTAAACGA-AA
* **
35878508 GTATTTTGGTAATTTTGCTAATCGAGG
1 GTATTTTGGTAATTTTGCTAAACGAAA
* *
35878535 GTATTTTGGTAATTTTGGTAAACTAAA
1 GTATTTTGGTAATTTTGCTAAACGAAA
35878562 GTATT
1 GTATT
35878567 CTAAACAGGG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
27 46 0.92
28 4 0.08
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (27 bp):
GTATTTTGGTAATTTTGCTAAACGAAA
Found at i:35887172 original size:12 final size:12
Alignment explanation
Indices: 35887155--35887179 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35887145 CACACAGCCA
35887155 AGACAAACATCC
1 AGACAAACATCC
35887167 AGACAAACATCC
1 AGACAAACATCC
35887179 A
1 A
35887180 TGTGACCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.32, G:0.08, T:0.08
Consensus pattern (12 bp):
AGACAAACATCC
Found at i:35889417 original size:15 final size:15
Alignment explanation
Indices: 35889397--35889434 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
35889387 AACTCGACAT
35889397 TTACTTGTCACTTTA
1 TTACTTGTCACTTTA
35889412 TTACTTGTCACTTTA
1 TTACTTGTCACTTTA
35889427 TTACTTGT
1 TTACTTGT
35889435 TCCTATTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.55
Consensus pattern (15 bp):
TTACTTGTCACTTTA
Found at i:35890696 original size:47 final size:48
Alignment explanation
Indices: 35890628--35890845 Score: 161
Period size: 47 Copynumber: 4.7 Consensus size: 48
35890618 TTTGTGTGCT
* *
35890628 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCATATTGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAATGTGAGAGCC
* ** * *
35890674 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATACGATAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TAATGTGAGAGCC
* * * * **
35890722 AGTGT-AGAACATGCCTGGGACAT-GCATCAGCTACAAAATGT----GTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC--CATAATGTGAGAGCC
* * *
35890766 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTAAT-AGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAATGTGA-GAGCC
* *
35890813 AGTGTAAGACGATGTTTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
35890846 ATTATACCCT
Statistics
Matches: 132, Mismatches: 26, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
43 4 0.03
44 7 0.05
45 17 0.13
46 20 0.15
47 60 0.45
48 22 0.17
49 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAATGTGAGAGCC
Found at i:35890833 original size:92 final size:93
Alignment explanation
Indices: 35890674--35890842 Score: 238
Period size: 92 Copynumber: 1.8 Consensus size: 93
35890664 TGTGAGAGCC
* * *
35890674 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATACGATAGCTAGTGTAGAACATGCCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTAATACGATAGCCAGTGTAGAACATGCCTG
35890739 GGACAT-GCATCAGCTACAAAATGTGTT
66 GGACATGGCATCAGCTACAAAATGTGTT
*
35890766 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTAATA-GATGAGCCAGTGTA-AGACGATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTAATACGAT-AGCCAGTGTAGA-AC-ATGC
*
35890828 TTGGGACATGGCATC
63 CTGGGACATGGCATC
35890843 GGCATTATAC
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
90 4 0.06
91 16 0.24
92 43 0.63
93 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (93 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATTAATACGATAGCCAGTGTAGAACATGCCTG
GGACATGGCATCAGCTACAAAATGTGTT
Found at i:35915691 original size:18 final size:19
Alignment explanation
Indices: 35915654--35915694 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
35915644 ATTTAGAATC
35915654 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
35915673 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
35915691 AAAA
1 AAAA
35915695 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:35915696 original size:31 final size:31
Alignment explanation
Indices: 35915620--35915693 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
35915610 TCAAGTTATC
*
35915620 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
35915652 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
35915682 TTAAATATAAAA
1 TTAAATATAAAA
35915694 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:35917668 original size:101 final size:101
Alignment explanation
Indices: 35917491--35917679 Score: 342
Period size: 101 Copynumber: 1.9 Consensus size: 101
35917481 CCCCATCCCC
* *
35917491 ATAATAATTTATTTAAACTAACATAGCATTGGACATATAATAATAATAGTTAATACACTATTCAT
1 ATAATAATTCATTTAAACTAACATAGCATTGGACATATAATAATAATAGTCAATACACTATTCAT
*
35917556 TTAAATTAATCCTAGAAAGTAATCAACATTGGACAT
66 TTAAATCAATCCTAGAAAGTAATCAACATTGGACAT
*
35917592 ATAATAATTCATTTAAACTAACATAGTATTGGACATATAATAATAATAGTCAATACACTATTCAT
1 ATAATAATTCATTTAAACTAACATAGCATTGGACATATAATAATAATAGTCAATACACTATTCAT
35917657 TTAAATCAATCCTAGAAAGTAAT
66 TTAAATCAATCCTAGAAAGTAAT
35917680 TTGTATAATA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 84 1.00
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (101 bp):
ATAATAATTCATTTAAACTAACATAGCATTGGACATATAATAATAATAGTCAATACACTATTCAT
TTAAATCAATCCTAGAAAGTAATCAACATTGGACAT
Found at i:35920620 original size:7 final size:7
Alignment explanation
Indices: 35920608--35920655 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
35920598 ACACTGAAAA
35920608 CTAAACC
1 CTAAACC
35920615 CTAAACC
1 CTAAACC
* **
35920622 ATAAGTC
1 CTAAACC
*
35920629 TTAAACC
1 CTAAACC
*
35920636 ATAAACC
1 CTAAACC
35920643 CTAAACC
1 CTAAACC
35920650 CTAAAC
1 CTAAAC
35920656 TATAAATATA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:35920647 original size:14 final size:14
Alignment explanation
Indices: 35920609--35920655 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
35920599 CACTGAAAAC
35920609 TAAACCCTAAACCA
1 TAAACCCTAAACCA
** *
35920623 TAAGTCTTAAACCA
1 TAAACCCTAAACCA
*
35920637 TAAACCCTAAACCC
1 TAAACCCTAAACCA
35920651 TAAAC
1 TAAAC
35920656 TATAAATATA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:35920829 original size:14 final size:14
Alignment explanation
Indices: 35920812--35920862 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
35920802 CTGAATCATG
35920812 AACCCTTAACCCCT
1 AACCCTTAACCCCT
* *
35920826 AACCCCTAACACCT
1 AACCCTTAACCCCT
*
35920840 AAACCTTAAACCCC-
1 AACCCTT-AACCCCT
35920854 AACCCTTAA
1 AACCCTTAA
35920863 ACCACACTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 2 0.07
14 23 0.77
15 5 0.17
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (14 bp):
AACCCTTAACCCCT
Found at i:35920865 original size:21 final size:21
Alignment explanation
Indices: 35920812--35920865 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
35920802 CTGAATCATG
*
35920812 AACCCTTAACCCCTAACCCCT
1 AACCCTTAAACCCTAACCCCT
*
35920833 AACACC-TAAACCTTAAACCCC-
1 AAC-CCTTAAACCCT-AACCCCT
35920854 AACCCTTAAACC
1 AACCCTTAAACC
35920866 ACACTTAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 2 0.07
21 18 0.64
22 8 0.29
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (21 bp):
AACCCTTAAACCCTAACCCCT
Found at i:35921215 original size:24 final size:24
Alignment explanation
Indices: 35921160--35921215 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
35921150 AGGGATTTAG
35921160 GATGAGGAAAAAGGGGGAAATAGAA
1 GATG-GGAAAAAGGGGGAAATAGAA
35921185 -ATAGGGAAAAAGGGGGAAAT-GATA
1 GAT-GGGAAAAAGGGGGAAATAGA-A
35921209 GATGGGA
1 GATGGGA
35921216 TTACAGGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
23 2 0.07
24 23 0.82
25 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.41, T:0.11
Consensus pattern (24 bp):
GATGGGAAAAAGGGGGAAATAGAA
Found at i:35921516 original size:42 final size:41
Alignment explanation
Indices: 35921389--35921693 Score: 430
Period size: 41 Copynumber: 7.4 Consensus size: 41
35921379 GGTTATATGA
* * * *
35921389 CTTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGATCCGG
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
* * * * *
35921430 TTTTTAGCGGCTTTTTACCAAAAGTGCCACTAATGCTCTGG
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
*
35921471 CTTTTAGCGGCGTTTTACAAAAAACCGCCGCTAATGCTCTGG
1 CTTTTAGCGGCGTTTTAC-AAAAAGCGCCGCTAATGCTCTGG
*
35921513 CTTTTAGCGGCGTTTTACAAAAAAGCGCCGTTAATGCTCTGG
1 CTTTTAGCGGCGTTTTAC-AAAAAGCGCCGCTAATGCTCTGG
*
35921555 CTTTTAGCGGCGTTTTACAAAAAGCGCCGTTAATGCTCTGG
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
* *
35921596 CTTTTAGCGGCGTTTTACAAAAAACGCCGCTAATGCTCTAG
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
* *
35921637 ATTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
1 CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
* *
35921678 CTTTTTGCGACGTTTT
1 CTTTTAGCGGCGTTTT
35921694 CGGTAAAATG
Statistics
Matches: 238, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
41 161 0.68
42 77 0.32
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (41 bp):
CTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGG
Found at i:35922496 original size:43 final size:43
Alignment explanation
Indices: 35922434--35922519 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
35922424 CTAAAGGTTA
* *
35922434 ATACAAACGCCACTTAAGAACATGACCTTTAGTGGCGCTTTTC
1 ATACAAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTTTC
* *
35922477 ATACAAACGCCGCTAAAGAACATGACTTTTAGCGGCGCTTTTC
1 ATACAAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTTTC
35922520 TCAAAAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
ATACAAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTTTC
Found at i:35926534 original size:12 final size:12
Alignment explanation
Indices: 35926519--35926544 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35926509 ATCATCCTCT
35926519 TCATCAGATTCA
1 TCATCAGATTCA
35926531 TCATCAGATTCA
1 TCATCAGATTCA
35926543 TC
1 TC
35926545 CCTCGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:35928345 original size:9 final size:9
Alignment explanation
Indices: 35928331--35928628 Score: 153
Period size: 9 Copynumber: 34.0 Consensus size: 9
35928321 ATGTATTACA
*
35928331 TAAGTTAAG
1 TAAGTTATG
*
35928340 TAAGTTTTG
1 TAAGTTATG
35928349 TAAGTTATG
1 TAAGTTATG
35928358 TAAGTTATG
1 TAAGTTATG
* *
35928367 ATATGATAT-
1 -TAAGTTATG
* *
35928376 AAATTTATG
1 TAAGTTATG
*
35928385 TAAGGTATG
1 TAAGTTATG
35928394 TAAGTTATG
1 TAAGTTATG
35928403 TAAGTTATG
1 TAAGTTATG
35928412 TAAGTTATG
1 TAAGTTATG
35928421 TAAGTTAT-
1 TAAGTTATG
* *
35928429 TATA-TGATA
1 TA-AGTTATG
*
35928438 TATATTTATG
1 TA-AGTTATG
35928448 T-A-TTATG
1 TAAGTTATG
35928455 TAAGTTATG
1 TAAGTTATG
35928464 TAAGTTATG
1 TAAGTTATG
* *
35928473 -ATA-TCATA
1 TA-AGTTATG
*
35928481 TATATTTATG
1 TA-AGTTATG
*
35928491 T-A-TTTTG
1 TAAGTTATG
* *
35928498 TTAGTTTTG
1 TAAGTTATG
35928507 TAAGTTATG
1 TAAGTTATG
*
35928516 TAATTTATG
1 TAAGTTATG
* *
35928525 -ATA-TCATA
1 TA-AGTTATG
*
35928533 TATATTTATG
1 TA-AGTTATG
35928543 T-A-TTATG
1 TAAGTTATG
*
35928550 TAAGTTTTG
1 TAAGTTATG
35928559 TAAGTTATG
1 TAAGTTATG
*
35928568 TAATTTATG
1 TAAGTTATG
* *
35928577 -ATA-TCATA
1 TA-AGTTATG
* *
35928585 TATATTTATA
1 TA-AGTTATG
35928595 T-A-TTATG
1 TAAGTTATG
*
35928602 TAAGTTTTG
1 TAAGTTATG
35928611 TAAGTTATG
1 TAAGTTATG
35928620 TAAGTTATG
1 TAAGTTATG
35928629 ATATCATGTA
Statistics
Matches: 230, Mismatches: 37, Indels: 44
0.74 0.12 0.14
Matches are distributed among these distances:
7 22 0.10
8 29 0.13
9 156 0.68
10 23 0.10
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (9 bp):
TAAGTTATG
Found at i:35928406 original size:63 final size:61
Alignment explanation
Indices: 35928317--35928472 Score: 222
Period size: 63 Copynumber: 2.5 Consensus size: 61
35928307 TCAAGTGTAT
* ** * *
35928317 ATTTATGTATTACATAAGTTAAGTAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAA
1 ATTTATGTAGTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATAA
* *
35928378 ATTTATGTAAGGTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTATATGATATAT
1 ATTTATGT-A-GTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATAA
*
35928441 ATTTATGTATTATGTAAGTTATGTAAGTTATG
1 ATTTATGTAGTATGTAAGTTATGTAAGTTATG
35928473 ATATCATATA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
61 30 0.35
62 2 0.02
63 53 0.62
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (61 bp):
ATTTATGTAGTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATAA
Found at i:35928485 original size:52 final size:52
Alignment explanation
Indices: 35928339--35928635 Score: 395
Period size: 52 Copynumber: 5.7 Consensus size: 52
35928329 CATAAGTTAA
* * *
35928339 GTAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAAATTTATGTAAGGTAT
1 GTAAGTTTTGTAAGTTATGTAAGTTATGATATCATATATATTTATGT-A-TTAT
* * * *
35928393 GTAAGTTATGTAAGTTATGTAAGTTATG-TAAGTTAT-TATATGATATATATTTAT
1 GTAAGTTTTGTAAGTTATGTAAGTTATGAT-A-TCATATATAT-TTATGTA-TTAT
* *
35928447 GT-A-TTATGTAAGTTATGTAAGTTATGATATCATATATATTTATGTATTTT
1 GTAAGTTTTGTAAGTTATGTAAGTTATGATATCATATATATTTATGTATTAT
* *
35928497 GTTAGTTTTGTAAGTTATGTAATTTATGATATCATATATATTTATGTATTAT
1 GTAAGTTTTGTAAGTTATGTAAGTTATGATATCATATATATTTATGTATTAT
* *
35928549 GTAAGTTTTGTAAGTTATGTAATTTATGATATCATATATATTTATATATTAT
1 GTAAGTTTTGTAAGTTATGTAAGTTATGATATCATATATATTTATGTATTAT
35928601 GTAAGTTTTGTAAGTTATGTAAGTTATGATATCAT
1 GTAAGTTTTGTAAGTTATGTAAGTTATGATATCAT
35928636 GTATTTAATT
Statistics
Matches: 219, Mismatches: 17, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
50 5 0.02
51 9 0.04
52 157 0.72
53 3 0.01
54 38 0.17
55 7 0.03
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.49
Consensus pattern (52 bp):
GTAAGTTTTGTAAGTTATGTAAGTTATGATATCATATATATTTATGTATTAT
Found at i:35928822 original size:30 final size:30
Alignment explanation
Indices: 35928788--35928853 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
35928778 ATGATGTGGA
*
35928788 AAATAACATGGA-AAGAAATTTATTTTAATT
1 AAATAACATGGATAA-AAACTTATTTTAATT
* **
35928818 AAATAATATTTATAAAAACTTATTTTAATT
1 AAATAACATGGATAAAAACTTATTTTAATT
35928848 AAATAA
1 AAATAA
35928854 TATTTAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (30 bp):
AAATAACATGGATAAAAACTTATTTTAATT
Found at i:35928859 original size:15 final size:15
Alignment explanation
Indices: 35928811--35928866 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
35928801 AGAAATTTAT
35928811 TTTAATTAAATAATA
1 TTTAATTAAATAATA
35928826 TTT-A-TAAA-AACTTA
1 TTTAATTAAATAA--TA
35928840 TTTTAATTAAATAATA
1 -TTTAATTAAATAATA
*
35928856 TTTAAATAAAT
1 TTTAATTAAAT
35928867 TAATCCAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
12 2 0.06
13 4 0.12
14 3 0.09
15 16 0.47
16 3 0.09
17 4 0.12
18 2 0.06
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
TTTAATTAAATAATA
Found at i:35928878 original size:30 final size:30
Alignment explanation
Indices: 35928814--35928893 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 30
35928804 AATTTATTTT
***
35928814 AATTAAATAATATTTATAA-AAACTTATTTT
1 AATTAAATAATATTTA-AATAAACTTATCCA
35928844 AATTAAATAATATTTAAATAAA-TTAATCCA
1 AATTAAATAATATTTAAATAAACTT-ATCCA
* *
35928874 AATTATATAAT-TTCAAATAA
1 AATTAAATAATATTTAAATAA
35928894 GATTGAACCT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 12 0.28
30 31 0.72
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (30 bp):
AATTAAATAATATTTAAATAAACTTATCCA
Found at i:35929136 original size:24 final size:24
Alignment explanation
Indices: 35929104--35929150 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
35929094 TTAACTTAAA
*
35929104 TGATAAAACGGACGATAATATTTG
1 TGATAAAACGGACGAGAATATTTG
*
35929128 TGATAAAACGGATGAGAATATTT
1 TGATAAAACGGACGAGAATATTT
35929151 CAATAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (24 bp):
TGATAAAACGGACGAGAATATTTG
Found at i:35936831 original size:43 final size:42
Alignment explanation
Indices: 35936733--35936853 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
35936723 TAGGGTTACT
* * *
35936733 GAGATTACGTCTAAGACCATATCTGGGATATGGCATCGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATAC
*
35936775 GAGACTT-CGTGTAAGACCATAGT-TGGGCTATTGGCATCAATAC
1 GAGA-TTACGTGTAAGACCATA-TCTGGGATA-TGGCATCAATAC
*
35936818 GAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCAT
35936854 TGGTACAGTA
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 32 0.47
43 36 0.53
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATAC
Found at i:35939004 original size:42 final size:42
Alignment explanation
Indices: 35938952--35939042 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
35938942 ATACTGATGC
* * ** * *
35938952 CGATGTCATGTCCTAGACATGGTCTTATACGTGATCTCTTAT
1 CGATGCCATGTCCCAGACATGGTCTTATACGAAATCACTTAA
35938994 CGATGCCATGTCCCAGACATGGTCTTATACGAAATCACTTAA
1 CGATGCCATGTCCCAGACATGGTCTTATACGAAATCACTTAA
35939036 CGATGCC
1 CGATGCC
35939043 GAAGCCATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (42 bp):
CGATGCCATGTCCCAGACATGGTCTTATACGAAATCACTTAA
Found at i:35946209 original size:37 final size:37
Alignment explanation
Indices: 35946150--35946258 Score: 200
Period size: 37 Copynumber: 2.9 Consensus size: 37
35946140 AGCTCAGACG
* *
35946150 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
35946187 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
35946224 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
35946259 ATATATTTCC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:35946530 original size:48 final size:48
Alignment explanation
Indices: 35946404--35946636 Score: 360
Period size: 48 Copynumber: 4.8 Consensus size: 48
35946394 GCACATCGCC
* *
35946404 TACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * * *
35946454 TATATATTTCACA-TCGACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
35946502 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
35946550 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
35946598 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
35946637 TGCATGTTCA
Statistics
Matches: 171, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
48 128 0.75
49 4 0.02
50 39 0.23
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:35946742 original size:47 final size:47
Alignment explanation
Indices: 35946606--35946752 Score: 195
Period size: 47 Copynumber: 3.1 Consensus size: 47
35946596 CATACATATT
* * * *
35946606 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
35946653 CCACATTGGCCATTTGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
35946700 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
35946747 TCACAT
1 TCACAT
35946753 AAAATCCTAA
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 85 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:35951488 original size:15 final size:16
Alignment explanation
Indices: 35951465--35951497 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
35951455 TCATCAAACT
35951465 AAACTTCATATAAAAA
1 AAACTTCATATAAAAA
*
35951481 AAAC-TCATTTAAAAA
1 AAACTTCATATAAAAA
35951496 AA
1 AA
35951498 CAACCCTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAACTTCATATAAAAA
Found at i:35953841 original size:15 final size:15
Alignment explanation
Indices: 35953821--35953869 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
35953811 TTTGCGACAT
35953821 CAACACTACAACTAG
1 CAACACTACAACTAG
* * *
35953836 CAACAC-GCGAC-AT
1 CAACACTACAACTAG
35953849 CAACACTACAACTAG
1 CAACACTACAACTAG
35953864 CAACAC
1 CAACAC
35953870 CAATTTTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
13 7 0.27
14 6 0.23
15 13 0.50
ACGTcount: A:0.45, C:0.37, G:0.08, T:0.10
Consensus pattern (15 bp):
CAACACTACAACTAG
Found at i:35953845 original size:28 final size:28
Alignment explanation
Indices: 35953814--35953869 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
35953804 AAGCATTTTT
35953814 GCGACATCAACACTACAACTAGCAACAC
1 GCGACATCAACACTACAACTAGCAACAC
35953842 GCGACATCAACACTACAACTAGCAACAC
1 GCGACATCAACACTACAACTAGCAACAC
35953870 CAATTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.36, G:0.11, T:0.11
Consensus pattern (28 bp):
GCGACATCAACACTACAACTAGCAACAC
Found at i:35957258 original size:22 final size:22
Alignment explanation
Indices: 35957216--35957259 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
35957206 GTAAAATTCG
*
35957216 TTAAAAAAATGTAAATTTAAAT
1 TTAAAAAAATGTAAATCTAAAT
*
35957238 TTAAAAATAT-TAAATACTAAAT
1 TTAAAAAAATGTAAAT-CTAAAT
35957260 GATTAACCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
TTAAAAAAATGTAAATCTAAAT
Found at i:35961211 original size:27 final size:27
Alignment explanation
Indices: 35961174--35961378 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
35961164 TAAATTGTAC
35961174 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
35961201 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35961228 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35961254 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35961282 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35961310 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35961337 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35961364 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35961379 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35961313 original size:109 final size:108
Alignment explanation
Indices: 35961175--35961378 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
35961165 AAATTGTACA
* *
35961175 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
35961240 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
35961283 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
35961348 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
35961379 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:35969240 original size:27 final size:27
Alignment explanation
Indices: 35969203--35969407 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
35969193 TAAATTGTAC
35969203 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
35969230 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35969257 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35969283 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35969311 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35969339 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35969366 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35969393 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35969408 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35969342 original size:109 final size:108
Alignment explanation
Indices: 35969204--35969407 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
35969194 AAATTGTACA
* *
35969204 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
35969269 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
35969312 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
35969377 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
35969408 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:35976287 original size:40 final size:40
Alignment explanation
Indices: 35976236--35976317 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
35976226 CTAGAACACT
35976236 CACCTCTAAATCTTTTCCTAAAGAATTTAAACTGTAAACA
1 CACCTCTAAATCTTTTCCTAAAGAATTTAAACTGTAAACA
35976276 CACCTCTAAATCTTTTCCTAAAGAATTTAAACTGTAAACA
1 CACCTCTAAATCTTTTCCTAAAGAATTTAAACTGTAAACA
35976316 CA
1 CA
35976318 ATCTGTTTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.32
Consensus pattern (40 bp):
CACCTCTAAATCTTTTCCTAAAGAATTTAAACTGTAAACA
Found at i:35980361 original size:84 final size:84
Alignment explanation
Indices: 35980216--35980375 Score: 191
Period size: 84 Copynumber: 1.9 Consensus size: 84
35980206 CACATATATC
* * *
35980216 ATACAATGCCAATGCCCTAGACGTGGTCTTACATGTTATCACATATCAATGGCACTATCCCAAAC
1 ATACAATGCCAATGCCCTAGACATGGTCTTACATGTAATCACATATCAATGCCACTATCCCAAAC
35980281 AG-GGTCTTACACAAATCAA
66 -GTGGTCTTACACAAATCAA
* * ** * *
35980300 ATACAATGCCGATGTCCC-AGACATGGTCTTACATGTAATTACATATTGATGCCAAC-GTCCCAG
1 ATACAATGCCAATG-CCCTAGACATGGTCTTACATGTAATCACATATCAATGCC-ACTATCCCAA
35980363 ACGTGGTCTTACA
64 ACGTGGTCTTACA
35980376 TGAGAACACA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
83 1 0.02
84 58 0.91
85 5 0.08
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (84 bp):
ATACAATGCCAATGCCCTAGACATGGTCTTACATGTAATCACATATCAATGCCACTATCCCAAAC
GTGGTCTTACACAAATCAA
Found at i:35987374 original size:16 final size:16
Alignment explanation
Indices: 35987355--35987385 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35987345 ATTGTTTTAT
35987355 TACAAAATTTCACTTC
1 TACAAAATTTCACTTC
*
35987371 TACATAATTTCACTT
1 TACAAAATTTCACTT
35987386 ACTCCATTCT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACAAAATTTCACTTC
Found at i:35987652 original size:50 final size:50
Alignment explanation
Indices: 35987598--35987821 Score: 367
Period size: 50 Copynumber: 4.5 Consensus size: 50
35987588 AGTATGCATT
*
35987598 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
* * * *
35987648 GTAGCCTGCACTTAGTACTACGCACGTGACTTATCAATCTGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
* *
35987698 GTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGCACACGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
* *
35987748 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGTTACACATA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
35987798 GTAGCCTGCACTTAGTACTACACA
1 GTAGCCTGCACTTAGTACTACACA
35987822 CGTGACTCAC
Statistics
Matches: 159, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 159 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (50 bp):
GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
Found at i:35991877 original size:17 final size:18
Alignment explanation
Indices: 35991844--35991880 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
35991834 AAAGATAAGA
35991844 TTAAATACAAATAAAAAT
1 TTAAATACAAATAAAAAT
35991862 TTAAA-ACAATATAAAAAT
1 TTAAATACAA-ATAAAAAT
35991880 T
1 T
35991881 ATACTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
TTAAATACAAATAAAAAT
Found at i:35992085 original size:29 final size:28
Alignment explanation
Indices: 35992053--35992128 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
35992043 AGTAATAAAT
*
35992053 AAATAATAAAATAATATAATATATAATGA
1 AAATAATATAATAATATAATATAT-ATGA
* * *
35992082 AAATGATATAATGAATAAAATATATATTA
1 AAATAATATAAT-AATATAATATATATGA
35992111 AAATAATATAATATATAT
1 AAATAATATAATA-ATAT
35992129 GATAAAGCGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 1 0.03
29 27 0.69
30 11 0.28
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (28 bp):
AAATAATATAATAATATAATATATATGA
Found at i:35992093 original size:21 final size:20
Alignment explanation
Indices: 35992045--35992134 Score: 71
Period size: 21 Copynumber: 4.6 Consensus size: 20
35992035 TTGTACATAG
35992045 TAATA-AATAAATAATAAAA
1 TAATATAATAAATAATAAAA
*
35992064 TAATATAATATATAATGAAAA
1 TAATATAATAAATAAT-AAAA
* * *
35992085 TGATATAATGAATAA-AATA
1 TAATATAATAAATAATAAAA
* *
35992104 T-ATATTA-AAATAATATAA
1 TAATATAATAAATAATAAAA
*
35992122 TATATATGATAAA
1 TA-ATATAATAAA
35992135 GCGTATAAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
17 5 0.09
18 8 0.15
19 9 0.16
20 14 0.25
21 19 0.35
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
TAATATAATAAATAATAAAA
Found at i:35993919 original size:44 final size:45
Alignment explanation
Indices: 35993856--35994096 Score: 255
Period size: 44 Copynumber: 5.5 Consensus size: 45
35993846 GAGACGCCAA
* *
35993856 ATCTGCTATCTGACAATACAGAGATGCCAAAT-TGGCTATCTTCG
1 ATCTGCTCTCTGACAATACAGAGACGCCAAATCTGGCTATCTTCG
*
35993900 ATCTGCTCTCTGACAATACAGAGACGCCAAATCT-G-TCTCTTCG
1 ATCTGCTCTCTGACAATACAGAGACGCCAAATCTGGCTATCTTCG
** * *
35993943 ATCTGCTCTCTTTCAATACAGAGACACCAAATCTGTC-ATCTTCG
1 ATCTGCTCTCTGACAATACAGAGACGCCAAATCTGGCTATCTTCG
* * * * *
35993987 ATCTGCTCTCT-ATTAATACAAAGATGCCAAATCTGTC-ATCTTCA
1 ATCTGCTCTCTGA-CAATACAGAGACGCCAAATCTGGCTATCTTCG
* **
35994031 ATCTGCTCTCT-ATCAATATAGAGACGCCAAATCT-ATTATCTTCG
1 ATCTGCTCTCTGA-CAATACAGAGACGCCAAATCTGGCTATCTTCG
* *
35994075 ATCTACTCTCTGTCAATACAGA
1 ATCTGCTCTCTGACAATACAGA
35994097 AATCTACTCT
Statistics
Matches: 167, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
43 38 0.23
44 128 0.77
45 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (45 bp):
ATCTGCTCTCTGACAATACAGAGACGCCAAATCTGGCTATCTTCG
Found at i:35994105 original size:23 final size:23
Alignment explanation
Indices: 35994075--35994119 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
35994065 ATTATCTTCG
35994075 ATCTACTCTCTGTCAATACAGAA
1 ATCTACTCTCTGTCAATACAGAA
35994098 ATCTACTCTCTGTCAATACAGA
1 ATCTACTCTCTGTCAATACAGA
35994120 GACGCCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (23 bp):
ATCTACTCTCTGTCAATACAGAA
Found at i:35994107 original size:67 final size:67
Alignment explanation
Indices: 35994030--35994159 Score: 197
Period size: 67 Copynumber: 1.9 Consensus size: 67
35994020 TGTCATCTTC
* * *
35994030 AATCTGCTCTCTATCAATATAGAGACGCCAAATCTATTATCTTCGATCTACTCTCTGTCAATACA
1 AATCTACTCTCTATCAATACAGAGACGCCAAATCCATTATCTTCGATCTACTCTCTGTCAATACA
35994095 GA
66 GA
* * * *
35994097 AATCTACTCTCTGTCAATACAGAGACGCCAAATCCGTTATCTTTGATCTGCTCTCTGTCAATA
1 AATCTACTCTCTATCAATACAGAGACGCCAAATCCATTATCTTCGATCTACTCTCTGTCAATA
35994160 TAGAGATGCC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (67 bp):
AATCTACTCTCTATCAATACAGAGACGCCAAATCCATTATCTTCGATCTACTCTCTGTCAATACA
GA
Found at i:35994171 original size:44 final size:45
Alignment explanation
Indices: 35994098--35994218 Score: 174
Period size: 44 Copynumber: 2.7 Consensus size: 45
35994088 CAATACAGAA
* *
35994098 ATCTACTCTCTGTCAATACAGAGACGCCAAATCC-GTTATCTTTG
1 ATCTGCTCTCTGTCAATACAGAGACGCCAAATCCTGTTATCTTCG
* *
35994142 ATCTGCTCTCTGTCAATATAGAGATGCCAAA-CCTGTTATCTTCG
1 ATCTGCTCTCTGTCAATACAGAGACGCCAAATCCTGTTATCTTCG
**
35994186 ATCTGCTCTCTAACAATACAGAGACGCCAAATC
1 ATCTGCTCTCTGTCAATACAGAGACGCCAAATC
35994219 TGCTATCAGT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.03
44 64 0.96
45 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (45 bp):
ATCTGCTCTCTGTCAATACAGAGACGCCAAATCCTGTTATCTTCG
Found at i:35994186 original size:111 final size:111
Alignment explanation
Indices: 35993987--35994207 Score: 298
Period size: 111 Copynumber: 2.0 Consensus size: 111
35993977 GTCATCTTCG
* * * *
35993987 ATCTGCTCTCTATTAATACAAAGATGCCAAATCTGTCATCTTCAATCTGCTCTCTATCAATATAG
1 ATCTACTCTCTATCAATACAAAGACGCCAAATCCGTCATCTTCAATCTGCTCTCTATCAATATAG
* **
35994052 AGACGCCAAATCTATTATCTTCGATCTACTCTCTGTCAATACAGAA
66 AGACGCCAAACCTATTATCTTCGATCTACTCTCTAACAATACAGAA
* * * ** *
35994098 ATCTACTCTCTGTCAATACAGAGACGCCAAATCCGTTATCTTTGATCTGCTCTCTGTCAATATAG
1 ATCTACTCTCTATCAATACAAAGACGCCAAATCCGTCATCTTCAATCTGCTCTCTATCAATATAG
* * *
35994163 AGATGCCAAACCTGTTATCTTCGATCTGCTCTCTAACAATACAGA
66 AGACGCCAAACCTATTATCTTCGATCTACTCTCTAACAATACAGA
35994208 GACGCCAAAT
Statistics
Matches: 94, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
111 94 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (111 bp):
ATCTACTCTCTATCAATACAAAGACGCCAAATCCGTCATCTTCAATCTGCTCTCTATCAATATAG
AGACGCCAAACCTATTATCTTCGATCTACTCTCTAACAATACAGAA
Found at i:35994233 original size:155 final size:155
Alignment explanation
Indices: 35993943--35994234 Score: 406
Period size: 155 Copynumber: 1.9 Consensus size: 155
35993933 TGTCTCTTCG
* * * *
35993943 ATCTGCTCTCTTTCAATACAGAGACACCAAATCTGTCATCTTCGATCTGCTCTCTATTAATACAA
1 ATCTACTCTCTGTCAATACAGAGACACCAAATCCGTCATCTTCGATCTGCTCTCTATCAATACAA
* * * * *
35994008 AGATGCCAAATCTGTCATCTTCAATCTGCTCTCTATCAATATAGAGACGCCAAATCTATTATCTT
66 AGATGCCAAACCTGTCATCTTCAATCTGCTCTCTAACAATACAGAGACGCCAAATCTACTATCGT
35994073 CGATCTACTCTCTGTCAATACAGAA
131 CGATCTACTCTCTGTCAATACAGAA
* * * * * *
35994098 ATCTACTCTCTGTCAATACAGAGACGCCAAATCCGTTATCTTTGATCTGCTCTCTGTCAATATAG
1 ATCTACTCTCTGTCAATACAGAGACACCAAATCCGTCATCTTCGATCTGCTCTCTATCAATACAA
* * *
35994163 AGATGCCAAACCTGTTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAATCTGCTATCAG
66 AGATGCCAAACCTGTCATCTTCAATCTGCTCTCTAACAATACAGAGACGCCAAATCTACTATC-G
35994228 T-GATCTA
130 TCGATCTA
35994235 TATTGTCCTT
Statistics
Matches: 118, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
155 117 0.99
156 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (155 bp):
ATCTACTCTCTGTCAATACAGAGACACCAAATCCGTCATCTTCGATCTGCTCTCTATCAATACAA
AGATGCCAAACCTGTCATCTTCAATCTGCTCTCTAACAATACAGAGACGCCAAATCTACTATCGT
CGATCTACTCTCTGTCAATACAGAA
Found at i:36006062 original size:17 final size:18
Alignment explanation
Indices: 36006029--36006065 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
36006019 AAAGATAAGA
36006029 TTAAATACAAATAAAAAT
1 TTAAATACAAATAAAAAT
36006047 TTAAA-ACAATATAAAAAT
1 TTAAATACAA-ATAAAAAT
36006065 T
1 T
36006066 ATACTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
TTAAATACAAATAAAAAT
Found at i:36006249 original size:29 final size:28
Alignment explanation
Indices: 36006217--36006293 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 28
36006207 AGTAATAAAT
*
36006217 AAATAATAAAATAATATAATATATAATGA
1 AAATAATATAATAATATAATATAT-ATGA
* * *
36006246 AAATGATATAATGAATAAAATATATATTA
1 AAATAATATAAT-AATATAATATATATGA
36006275 AAATAATATAATATATATA
1 AAATAATATAATA-ATATA
36006294 TGATAAAGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 1 0.03
29 28 0.70
30 11 0.28
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (28 bp):
AAATAATATAATAATATAATATATATGA
Found at i:36006257 original size:21 final size:20
Alignment explanation
Indices: 36006209--36006293 Score: 70
Period size: 21 Copynumber: 4.3 Consensus size: 20
36006199 TTGTACATAG
36006209 TAATA-AATAAATAATAAAA
1 TAATATAATAAATAATAAAA
*
36006228 TAATATAATATATAATGAAAA
1 TAATATAATAAATAAT-AAAA
* * *
36006249 TGATATAATGAATAA-AATA
1 TAATATAATAAATAATAAAA
* *
36006268 T-ATATTA-AAATAATATAA
1 TAATATAATAAATAATAAAA
36006286 TATATATA
1 TA-ATATA
36006294 TGATAAAGCA
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
17 5 0.10
18 8 0.16
19 9 0.18
20 13 0.25
21 16 0.31
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (20 bp):
TAATATAATAAATAATAAAA
Found at i:36009676 original size:43 final size:43
Alignment explanation
Indices: 36009628--36009782 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 43
36009618 TGTGTTCTCG
* *
36009628 TGTAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTACA
* * * * * * *
36009671 TGTAAGACCATGTCTAGGACATCGACATCG-TATTTTATT-CG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTACA
* * * *
36009712 TGTAAGACC-CTGCCTGGGATAGTGGCATCGATATGTGATAACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATGTGATTACA
*
36009755 TGTAAGACCACGTTTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
36009783 TGTACAATAT
Statistics
Matches: 84, Mismatches: 24, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
41 23 0.27
42 13 0.15
43 47 0.56
44 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTACA
Found at i:36011090 original size:15 final size:15
Alignment explanation
Indices: 36011070--36011100 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36011060 AAGAGAATAT
36011070 CAAGGTAAGGTAAGG
1 CAAGGTAAGGTAAGG
36011085 CAAGGTAAGGTAAGG
1 CAAGGTAAGGTAAGG
36011100 C
1 C
36011101 GAGTTATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.39, T:0.13
Consensus pattern (15 bp):
CAAGGTAAGGTAAGG
Found at i:36042545 original size:43 final size:42
Alignment explanation
Indices: 36042497--36042634 Score: 147
Period size: 43 Copynumber: 3.3 Consensus size: 42
36042487 TCCTAGACGT
* * * *
36042497 GGTCTTACATGTTATCACATATCGATGCTATTGTCCCAGATAG
1 GGTCTTACACGTAATCAAATATCGATGCCA-TGTCCCAGATAG
* * *
36042540 GGTCTTACACG-AATCAAATA-CGATGCCGATGTTCCAGACAT
1 GGTCTTACACGTAATCAAATATCGATGCC-ATGTCCCAGATAG
*
36042581 GGTCTTACACGTAATCAAATATCGATGCCAAAGTCCCAGAT-G
1 GGTCTTACACGTAATCAAATATCGATGCC-ATGTCCCAGATAG
36042623 TGGTCTTACACG
1 -GGTCTTACACG
36042635 AGAACACATA
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
41 26 0.33
42 17 0.22
43 36 0.46
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATATCGATGCCATGTCCCAGATAG
Found at i:36042577 original size:41 final size:42
Alignment explanation
Indices: 36042510--36042635 Score: 139
Period size: 41 Copynumber: 3.0 Consensus size: 42
36042500 CTTACATGTT
* * **
36042510 ATCACATATCGATGCTATTGTCCCAGATAGGGTCTTACACGA
1 ATCAAATATCGATGCCAAAGTCCCAGATAGGGTCTTACACGA
* * * * *
36042552 ATCAAATA-CGATGCCGATGTTCCAGACATGGTCTTACACGTA
1 ATCAAATATCGATGCCAAAGTCCCAGATAGGGTCTTACACG-A
36042594 ATCAAATATCGATGCCAAAGTCCCAGAT-GTGGTCTTACACGA
1 ATCAAATATCGATGCCAAAGTCCCAGATAG-GGTCTTACACGA
36042636 GAACACATAT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 26 0.38
42 17 0.25
43 26 0.38
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (42 bp):
ATCAAATATCGATGCCAAAGTCCCAGATAGGGTCTTACACGA
Found at i:36045923 original size:48 final size:48
Alignment explanation
Indices: 36045848--36046164 Score: 363
Period size: 48 Copynumber: 6.6 Consensus size: 48
36045838 TTAAATAAGA
36045848 TTCC-GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATG
1 TTCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATG
* ** *
36045895 TTCCTGTGTAAGACCATGTCTGGGACATGGCATCAGTAATGATATTTG
1 TTCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATG
* * * * *
36045943 TGCCTATGTAAGACCAAGTCTTGGACATGGCATCGGCGATGATGTATG
1 TTCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATG
* * * *
36045991 TGCCTGTGTAAGACCATGTCTAGGATATGGAATCGGCGATGATATATG
1 TTCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATG
* * * *
36046039 TTCCTATGTAAGACCATGTCTGGGACATGGAATCGGCAATGATATGTG
1 TTCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATG
* * * * * *
36046087 TGCCAGTGTAAGGCCATGTTTGGGACATGGCATCAGCGATGATATGTGG
1 TTCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATAT-G
*
36046136 ATT-C-ATGTAAGACCATGTC-GAGGACATGG
1 -TTCCTGTGTAAGACCATGTCTG-GGACATGG
36046165 AATTGGTACT
Statistics
Matches: 229, Mismatches: 37, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
47 5 0.02
48 221 0.97
49 2 0.01
50 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (48 bp):
TTCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATG
Found at i:36046033 original size:96 final size:96
Alignment explanation
Indices: 36045853--36046164 Score: 403
Period size: 96 Copynumber: 3.2 Consensus size: 96
36045843 TAAGATTCCG
*
36045853 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTTCCTGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTCTGG
** *
36045918 GACATGGCATCAGTAATGATATTTGTGCCTA
66 GACATGGCATCAGCGATGATATATGTGCCTA
* * * *
36045949 TGTAAGACCAAGTCTTGGACATGGCATCGGCGATGATGTATGTGCCTGTGTAAGACCATGTCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTCTGG
* * * *
36046014 GATATGGAATCGGCGATGATATATGTTCCTA
66 GACATGGCATCAGCGATGATATATGTGCCTA
* * * * * *
36046045 TGTAAGACCATGTCTGGGACATGGAATCGGCAATGATATGTGTGCCAGTGTAAGGCCATGTTTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTCTGG
* **
36046110 GACATGGCATCAGCGATGATATGTG-GATTCA
66 GACATGGCATCAGCGATGATATATGTGCCT-A
36046141 TGTAAGACCATGTC-GAGGACATGG
1 TGTAAGACCATGTCTG-GGACATGG
36046165 AATTGGTACT
Statistics
Matches: 185, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
95 2 0.01
96 183 0.99
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTCTGG
GACATGGCATCAGCGATGATATATGTGCCTA
Found at i:36046113 original size:144 final size:144
Alignment explanation
Indices: 36045852--36046167 Score: 433
Period size: 144 Copynumber: 2.2 Consensus size: 144
36045842 ATAAGATTCC
* * *
36045852 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTTCCTGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTAGGACATGGAATCGGCGATGATATATGTTCCTATGTAAGACCATGTCTG
* * * *
36045917 GGACATGGCATCAGTAATGATATTTGTGCCTATGTAAGACCAAGTCTTGGACATGGCATCGGCGA
66 GGACATGGAATCAGCAATGATATGTGTGCCTATGTAAGACCAAGTCTTGGACATGGCATCAGCGA
36045982 TGATGTATGTGCCT
131 TGATGTATGTGCCT
*
36045996 GTGTAAGACCATGTCTAGGATATGGAATCGGCGATGATATATGTTCCTATGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTAGGACATGGAATCGGCGATGATATATGTTCCTATGTAAGACCATGTCTG
* * *
36046061 GGACATGGAATCGGCAATGATATGTGTGCC-AGTGTAAGGCCATGT-TTGGGACATGGCATCAGC
66 GGACATGGAATCAGCAATGATATGTGTGCCTA-TGTAAGACCAAGTCTT-GGACATGGCATCAGC
**
36046124 GATGA--TATGTGGATT
129 GATGATGTATGT-GCCT
* *
36046139 CATGTAAGACCATGTCGAGGACATGGAAT
1 -GTGTAAGACCATGTCTAGGACATGGAAT
36046168 TGGTACTTTA
Statistics
Matches: 152, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
142 5 0.03
143 5 0.03
144 142 0.93
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (144 bp):
GTGTAAGACCATGTCTAGGACATGGAATCGGCGATGATATATGTTCCTATGTAAGACCATGTCTG
GGACATGGAATCAGCAATGATATGTGTGCCTATGTAAGACCAAGTCTTGGACATGGCATCAGCGA
TGATGTATGTGCCT
Found at i:36052774 original size:16 final size:15
Alignment explanation
Indices: 36052730--36052776 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
36052720 AAAGAAACTC
36052730 AAGAGAAATTCTTGA
1 AAGAGAAATTCTTGA
36052745 AA-AGAAA--CTT--
1 AAGAGAAATTCTTGA
36052755 AAGAGAAATTCTTGA
1 AAGAGAAATTCTTGA
36052770 AA-AGAAA
1 AAGAGAAA
36052777 ATTTAAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 11
0.71 0.00 0.29
Matches are distributed among these distances:
10 2 0.07
11 5 0.19
12 3 0.11
13 3 0.11
14 10 0.37
15 4 0.15
ACGTcount: A:0.55, C:0.06, G:0.17, T:0.21
Consensus pattern (15 bp):
AAGAGAAATTCTTGA
Found at i:36052790 original size:26 final size:25
Alignment explanation
Indices: 36052719--36052776 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
36052709 AAACTCTTCT
*
36052719 AAAAGAAACTCAAGAGAAATTCTTG
1 AAAAGAAACTTAAGAGAAATTCTTG
36052744 AAAAGAAACTTAAGAGAAATTCTTG
1 AAAAGAAACTTAAGAGAAATTCTTG
36052769 AAAAGAAA
1 AAAAGAAA
36052777 ATTTAAATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.57, C:0.09, G:0.16, T:0.19
Consensus pattern (25 bp):
AAAAGAAACTTAAGAGAAATTCTTG
Found at i:36057713 original size:24 final size:24
Alignment explanation
Indices: 36057679--36057750 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
36057669 TGACATTGTG
*
36057679 CTAAGTGAAATAAGACCGTGGCAT
1 CTAAGTGAAATAAGACCATGGCAT
* * *
36057703 CTAAGTAAAATAAGTCTATGGCAT
1 CTAAGTGAAATAAGACCATGGCAT
* **
36057727 CTAAGGGAAATAAGTTCATGGCAT
1 CTAAGTGAAATAAGACCATGGCAT
36057751 TGTGCTAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (24 bp):
CTAAGTGAAATAAGACCATGGCAT
Found at i:36064229 original size:52 final size:52
Alignment explanation
Indices: 36064165--36064280 Score: 178
Period size: 52 Copynumber: 2.2 Consensus size: 52
36064155 GATATGACAT
*
36064165 TGTGCTAAGTGAAATTAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
* * * *
36064217 TGTGCTAAGTGAAATAAGCCCATGGCATCTAAGTGAAATAAGTCTATTGCAT
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
*
36064269 TGTGCTAGGTGA
1 TGTGCTAAGTGA
36064281 GAAATTTTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
Found at i:36064233 original size:28 final size:27
Alignment explanation
Indices: 36064165--36064280 Score: 118
Period size: 24 Copynumber: 4.4 Consensus size: 27
36064155 GATATGACAT
* *
36064165 TGTGCTAAGTGAAATTAGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
36064192 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
*
36064217 TGTGCTAAGTGAAATAAGCCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
* *
36064244 --T-CTAAGTGAAATAAGTCTATTGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
*
36064268 TTGTGCTAGGTGA
1 -TGTGCTAAGTGA
36064281 GAAATTTTCT
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
24 40 0.54
25 3 0.04
27 3 0.04
28 28 0.38
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Found at i:36064268 original size:24 final size:24
Alignment explanation
Indices: 36064169--36064260 Score: 121
Period size: 24 Copynumber: 3.7 Consensus size: 24
36064159 TGACATTGTG
* *
36064169 CTAAGTGAAATTAGACCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
36064193 CTAAGTGAAATAAGTCCATGGCAATGT
1 CTAAGTGAAATAAGTCCATGGC-A--T
*
36064220 GCTAAGTGAAATAAGCCCATGGCAT
1 -CTAAGTGAAATAAGTCCATGGCAT
36064245 CTAAGTGAAATAAGTC
1 CTAAGTGAAATAAGTC
36064261 TATTGCATTG
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
24 35 0.58
25 2 0.03
27 2 0.03
28 21 0.35
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (24 bp):
CTAAGTGAAATAAGTCCATGGCAT
Found at i:36064386 original size:51 final size:51
Alignment explanation
Indices: 36064305--36064499 Score: 302
Period size: 51 Copynumber: 3.8 Consensus size: 51
36064295 GAACCTTAGA
* *
36064305 AATAAAATAGCTTTAGACATAAGTGTGGTACTATGTGAAGGCCACTTTGTG
1 AATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTG
* * *
36064356 AATATAATAGCTTTGGACACAGGTGTGGTACTATGTGAAAGCCACTTTGTG
1 AATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTG
* *
36064407 AATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGAG
1 AATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTG
*
36064458 AATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGC
1 AATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGC
36064500 AACTATGTAT
Statistics
Matches: 133, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 1 0.01
51 132 0.99
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (51 bp):
AATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTG
Found at i:36069572 original size:87 final size:87
Alignment explanation
Indices: 36069426--36069605 Score: 333
Period size: 87 Copynumber: 2.1 Consensus size: 87
36069416 CGGAAAAGTA
*
36069426 GAAAACATACAATAATTTAAGAATCCCAAGTTCAACTTCTCGTAATTACAATGAAAATAATAATA
1 GAAAACATACAATAATTTAAGAATCCCAAGTTCAACTTCTCGTAATTACAATAAAAATAATAATA
*
36069491 ATTCCAGTAATAATAGCATAAT
66 ATTCAAGTAATAATAGCATAAT
*
36069513 GAAAACATACTATAATTTAAGAATCCCAAGTTCAACTTCTCGTAATTACAATAAAAATAATAATA
1 GAAAACATACAATAATTTAAGAATCCCAAGTTCAACTTCTCGTAATTACAATAAAAATAATAATA
36069578 ATTCAAGTAATAATAGCATAAT
66 ATTCAAGTAATAATAGCATAAT
36069600 GAAAAC
1 GAAAAC
36069606 CTTATTACAA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.28
Consensus pattern (87 bp):
GAAAACATACAATAATTTAAGAATCCCAAGTTCAACTTCTCGTAATTACAATAAAAATAATAATA
ATTCAAGTAATAATAGCATAAT
Found at i:36070813 original size:23 final size:22
Alignment explanation
Indices: 36070761--36070806 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
36070751 TACCGTAGCC
*
36070761 CAACTTTTGGCTTTCGATATTT
1 CAACTTTTGGCTTTCGACATTT
36070783 CAACTTTTCGGCTTTCGACATTT
1 CAACTTTT-GGCTTTCGACATTT
36070806 C
1 C
36070807 GGCTTTTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.17, C:0.24, G:0.13, T:0.46
Consensus pattern (22 bp):
CAACTTTTGGCTTTCGACATTT
Found at i:36078157 original size:29 final size:29
Alignment explanation
Indices: 36078083--36078201 Score: 120
Period size: 29 Copynumber: 4.2 Consensus size: 29
36078073 TACATACATG
*
36078083 CATATGGCCCACTAGGCCCAA-TC-TCATC
1 CATATGGCCCACTAGGCCCAATTCAT-ATT
* * *
36078111 CAAATGCCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAATTCATATT
* *
36078140 CTTATGGCCCACTAGGCCCAATTCACATT
1 CATATGGCCCACTAGGCCCAATTCATATT
* *
36078169 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAATTCATATT
36078198 -ATAT
1 CATAT
36078202 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
28 21 0.28
29 52 0.70
30 1 0.01
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAATTCATATT
Found at i:36078448 original size:8 final size:8
Alignment explanation
Indices: 36078437--36078475 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
36078427 CATTTCAACT
36078437 TTTCGGCA
1 TTTCGGCA
*
36078445 TTTCGGCT
1 TTTCGGCA
*
36078453 TTTCAGCA
1 TTTCGGCA
36078461 TTTCGGCA
1 TTTCGGCA
36078469 TTTCGGC
1 TTTCGGC
36078476 TTTTGCCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.10, C:0.26, G:0.23, T:0.41
Consensus pattern (8 bp):
TTTCGGCA
Found at i:36078456 original size:24 final size:24
Alignment explanation
Indices: 36078429--36078479 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
36078419 CTTTTCAGCA
*
36078429 TTTCAACTTTTCGGCATTTCGGCT
1 TTTCAACATTTCGGCATTTCGGCT
*
36078453 TTTCAGCATTTCGGCATTTCGGCT
1 TTTCAACATTTCGGCATTTCGGCT
36078477 TTT
1 TTT
36078480 GCCATTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.47
Consensus pattern (24 bp):
TTTCAACATTTCGGCATTTCGGCT
Found at i:36078465 original size:16 final size:16
Alignment explanation
Indices: 36078419--36078472 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
36078409 TAACTTTTAA
**
36078419 CTTTTCAGCATTTCAA
1 CTTTTCAGCATTTCGG
*
36078435 CTTTTCGGCATTTCGG
1 CTTTTCAGCATTTCGG
36078451 CTTTTCAGCATTTCGG
1 CTTTTCAGCATTTCGG
*
36078467 CATTTC
1 CTTTTC
36078473 GGCTTTTGCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.44
Consensus pattern (16 bp):
CTTTTCAGCATTTCGG
Found at i:36084855 original size:26 final size:26
Alignment explanation
Indices: 36084826--36084878 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
36084816 TCAGCGAATC
*
36084826 TGAATGGTATTTTCTTCTGGATTTCT
1 TGAATGGCATTTTCTTCTGGATTTCT
36084852 TGAATGGCATTTTCTTCTGGATTTCT
1 TGAATGGCATTTTCTTCTGGATTTCT
36084878 T
1 T
36084879 TTCTTTGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.13, G:0.19, T:0.53
Consensus pattern (26 bp):
TGAATGGCATTTTCTTCTGGATTTCT
Found at i:36088019 original size:49 final size:48
Alignment explanation
Indices: 36087950--36088087 Score: 152
Period size: 49 Copynumber: 2.9 Consensus size: 48
36087940 ACCATGGTTA
* * *
36087950 ATGAGATCCCGTGTAAGACCATGTCTGGGACAGGGCATCGGTATACGAG-
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAT-CG-GT
* * * * *
36087999 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTGATGTTGGT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATCGGT
* * *
36088047 ATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
36088088 CACCAATATG
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
47 1 0.01
48 36 0.49
49 37 0.50
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATCGGT
Found at i:36088099 original size:48 final size:48
Alignment explanation
Indices: 36087960--36088087 Score: 139
Period size: 48 Copynumber: 2.6 Consensus size: 48
36087950 ATGAGATCCC
* * *
36087960 GTGTAAGACCATGTCTGGGACAGGGCATCGGTATACGAGATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTA-ACGATATGTGAGCCA
* * * *** * * *
36088009 GTGTAAGACCATGTCTAGGACATGGCATTGATGTTGGTATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTAACGATATGTGAGCCA
36088057 GTGTAAGACCATGTCTGGGACATGGCATCGG
1 GTGTAAGACCATGTCTGGGACATGGCATCGG
36088088 CACCAATATG
Statistics
Matches: 64, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
48 36 0.56
49 28 0.44
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTAACGATATGTGAGCCA
Found at i:36090984 original size:108 final size:110
Alignment explanation
Indices: 36090786--36090985 Score: 280
Period size: 108 Copynumber: 1.8 Consensus size: 110
36090776 TCAAGGATAC
* * *
36090786 CATGTAAGACCATGCTAAGGTATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
* * *
36090851 CATGTCATGACATGGCATTGATAAGTTACTATAAGGTAAAGGTCA
66 CATGTCAAGACATAGCAATGATAAGTTACTATAAGGTAAAGGTCA
* * *
36090896 CATGTATGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGA
*
36090958 CCATGTCAAGACATAGCAATGGTAAGTT
65 CCATGTCAAGACATAGCAATGATAAGTT
36090986 TCAAAACGAT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.58
109 7 0.09
110 23 0.29
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (110 bp):
CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
CATGTCAAGACATAGCAATGATAAGTTACTATAAGGTAAAGGTCA
Found at i:36098419 original size:55 final size:54
Alignment explanation
Indices: 36098332--36098586 Score: 287
Period size: 55 Copynumber: 4.8 Consensus size: 54
36098322 ATTAGGGTTT
*
36098332 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
36098387 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
36098442 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
36098495 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* *
36098544 AAGGATACCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
36098587 GTACCCGTGT
Statistics
Matches: 173, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
49 41 0.24
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:36098538 original size:108 final size:110
Alignment explanation
Indices: 36098339--36098588 Score: 331
Period size: 108 Copynumber: 2.4 Consensus size: 110
36098329 TTTAAGGATA
*
36098339 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
36098404 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
36098449 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* * * *
36098511 ACCATGTCAAGACATGGCAATGGTAAGTTTC-AAAAGG---A--TA
65 ACCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
36098551 CCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGT
36098589 ACCCGTGTAT
Statistics
Matches: 125, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
102 31 0.25
103 2 0.02
104 1 0.01
107 8 0.06
108 49 0.39
109 7 0.06
110 27 0.22
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:36098799 original size:16 final size:16
Alignment explanation
Indices: 36098778--36098808 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36098768 ATAAATTTGA
36098778 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
36098794 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
36098809 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:36105467 original size:24 final size:24
Alignment explanation
Indices: 36105440--36105714 Score: 193
Period size: 24 Copynumber: 11.5 Consensus size: 24
36105430 TAATTCACAT
* *
36105440 ACATATTGACATTCAAATCCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
36105464 ACATAGTGCCATAT-AAATCCGCAC
1 ACATAGTGCCAT-TCAAATCCGCAC
* * * *
36105488 ATATAGTGCCATACAAATTCACAC
1 ACATAGTGCCATTCAAATCCGCAC
* * * *
36105512 ACATAGTG-C-TTTAGTAATTCACAT
1 ACATAGTGCCATTCA--AATCCGCAC
* *
36105536 ACATATTGACATTCAAATCCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
*
36105560 ACATAGTGGCATAT-AAATCCGCAC
1 ACATAGTGCCAT-TCAAATCCGCAC
* * *
36105584 ATATAGTGCCATACAAATTCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
* * *
36105608 ACATAGTGCC-TT-AGTAATTCACAT
1 ACATAGTGCCATTCA--AATCCGCAC
* * *
36105632 ACATACTGACATTCAAAGCCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
* * * **
36105656 ACACAGTGCCATACAAATTCTTAC
1 ACATAGTGCCATTCAAATCCGCAC
**
36105680 ACATAGTGCCATTCAAATTAGCAC
1 ACATAGTGCCATTCAAATCCGCAC
36105704 ACATAGTGCCA
1 ACATAGTGCCA
36105715 AAGTCATTTC
Statistics
Matches: 195, Mismatches: 44, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
22 3 0.02
23 2 0.01
24 181 0.93
25 5 0.03
26 4 0.02
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (24 bp):
ACATAGTGCCATTCAAATCCGCAC
Found at i:36105507 original size:72 final size:72
Alignment explanation
Indices: 36105382--36105617 Score: 172
Period size: 72 Copynumber: 3.3 Consensus size: 72
36105372 TCAAGCAAGG
* * * * * ** *
36105382 AAATTCGCACCCATAGTGCCATGTTAACCCGCACACATAGTGACTTAGTAATTCACATACATATT
1 AAATCCGCACACATAGTGCCATATAAACCCGCACACATAGTGACATACAAATTCACACACATATT
36105447 GACATTC
66 GACATTC
* * * *
36105454 AAATCCGCACACATAGTGCCATATAAATCCGCACATATAGTGCCATACAAATTCACACACATAGT
1 AAATCCGCACACATAGTGCCATATAAACCCGCACACATAGTGACATACAAATTCACACACATATT
*
36105519 G-C-TTT
66 GACATTC
* * * * * * * * * * *
36105524 AGTAATTCACATACATATTGACAT-TCAAATCCGCACACATAGTGGCATATAAATCCGCACATAT
1 A--AATCCGCACACATAGTGCCATAT-AAACCCGCACACATAGTGACATACAAATTCACACACAT
* * *
36105588 AGTGCCATAC
63 ATTGACATTC
*
36105598 AAATTCGCACACATAGTGCC
1 AAATCCGCACACATAGTGCC
36105618 TTAGTAATTC
Statistics
Matches: 129, Mismatches: 30, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
70 3 0.02
71 2 0.02
72 121 0.94
73 1 0.01
74 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.25
Consensus pattern (72 bp):
AAATCCGCACACATAGTGCCATATAAACCCGCACACATAGTGACATACAAATTCACACACATATT
GACATTC
Found at i:36105713 original size:96 final size:96
Alignment explanation
Indices: 36105412--36105713 Score: 471
Period size: 96 Copynumber: 3.1 Consensus size: 96
36105402 ATGTTAACCC
*
36105412 GCACACATAGTGACTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCATA
1 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCATA
36105477 TAAATCCGCACATATAGTGCCATACAAATTCA
66 TAAATCCGCACATATAGTGCCATACAAATT-A
* *
36105509 -CACACATAGTGCTTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGGCATA
1 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCATA
*
36105573 TAAATCCGCACATATAGTGCCATACAAATTC
66 TAAATCCGCACATATAGTGCCATACAAATTA
* * *
36105604 GCACACATAGTGCCTTAGTAATTCACATACATACTGACATTCAAAGCCGCACACACAGTGCCATA
1 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCATA
* * ** * *
36105669 CAAATTCTTACACATAGTGCCATTCAAATTA
66 TAAATCCGCACATATAGTGCCATACAAATTA
36105700 GCACACATAGTGCC
1 GCACACATAGTGCC
36105714 AAAGTCATTT
Statistics
Matches: 188, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
96 188 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (96 bp):
GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCATA
TAAATCCGCACATATAGTGCCATACAAATTA
Found at i:36105714 original size:48 final size:48
Alignment explanation
Indices: 36105410--36105714 Score: 268
Period size: 48 Copynumber: 6.4 Consensus size: 48
36105400 CCATGTTAAC
* * * * *
36105410 CCGCACACATAGTGACTTAGTAATTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATAGAAATTCACACACATAGTGACATTCAAAT
* * * * * *
36105458 CCGCACACATAGTGCCATATAAATCCGCACATATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATAGAAATTCACACACATAGTGACATTCAAAT
* * ** * * *
36105506 TCACACACATAGTGCTTTAGTAATTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATAGAAATTCACACACATAGTGACATTCAAAT
* * * * * * *
36105554 CCGCACACATAGTGGCATATAAATCCGCACATATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATAGAAATTCACACACATAGTGACATTCAAAT
* * * * * *
36105602 TCGCACACATAGTGCCTTAGTAATTCACATACATACTGACATTCAAAG
1 CCGCACACATAGTGCCATAGAAATTCACACACATAGTGACATTCAAAT
* * ** *
36105650 CCGCACACACAGTGCCATACAAATTCTTACACATAGTGCCATTCAAAT
1 CCGCACACATAGTGCCATAGAAATTCACACACATAGTGACATTCAAAT
**
36105698 TAGCACACATAGTGCCA
1 CCGCACACATAGTGCCA
36105715 AAGTCATTTC
Statistics
Matches: 192, Mismatches: 65, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
48 192 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (48 bp):
CCGCACACATAGTGCCATAGAAATTCACACACATAGTGACATTCAAAT
Found at i:36114096 original size:37 final size:37
Alignment explanation
Indices: 36114014--36114096 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 37
36114004 AGACACCACT
36114014 TCATCCACCCTGCACACCACATAAAGGCTACAAAAAGGC
1 TCATCCACCCTGCACACCACATAAA-GC-ACAAAAAGGC
*
36114053 CCATCCACCCTGCACACCACATAGAA-C-CATAAAAGGC
1 TCATCCACCCTGCACACCACATA-AAGCACA-AAAAGGC
36114090 TCATCCA
1 TCATCCA
36114097 TCTTACACAC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
36 2 0.05
37 13 0.32
38 1 0.03
39 22 0.55
40 2 0.05
ACGTcount: A:0.37, C:0.39, G:0.11, T:0.13
Consensus pattern (37 bp):
TCATCCACCCTGCACACCACATAAAGCACAAAAAGGC
Found at i:36122441 original size:48 final size:48
Alignment explanation
Indices: 36122370--36122466 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
36122360 AGAGAGGGAG
*
36122370 AAAAGAACGTGCTTTAATTTTTAATTCACTAACTAAAATAAGATTAAT
1 AAAAGAACGTGCTTTAATTTTTAATTCACTAACTAAAATAAGATAAAT
*
36122418 AAAAGATCGTGCTTTAATTTTTAATTCACTAACTAAAATAAGATAAAT
1 AAAAGAACGTGCTTTAATTTTTAATTCACTAACTAAAATAAGATAAAT
36122466 A
1 A
36122467 TATAGAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.35
Consensus pattern (48 bp):
AAAAGAACGTGCTTTAATTTTTAATTCACTAACTAAAATAAGATAAAT
Found at i:36134982 original size:39 final size:40
Alignment explanation
Indices: 36134905--36135051 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
36134895 TAGCTCCTCG
* * *
36134905 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
36134945 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
36134984 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
36135024 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
36135052 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:36135062 original size:80 final size:80
Alignment explanation
Indices: 36134951--36135131 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
36134941 CTCATTCAAT
* * *
36134951 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
36135014 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
36135030 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
36135094 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
36135111 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
36135132 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:36135091 original size:40 final size:40
Alignment explanation
Indices: 36134948--36135131 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
36134938 TAACTCATTC
* *
36134948 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
36134988 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
36135028 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
36135068 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
36135109 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
36135132 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:36141903 original size:39 final size:40
Alignment explanation
Indices: 36141826--36141972 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
36141816 TAGCTCCTCG
* * *
36141826 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
36141866 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
36141905 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
36141945 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
36141973 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:36141983 original size:80 final size:80
Alignment explanation
Indices: 36141872--36142052 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
36141862 CTCATTCAAT
* * *
36141872 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
36141935 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
36141951 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
36142015 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
36142032 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
36142053 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:36142012 original size:40 final size:40
Alignment explanation
Indices: 36141869--36142052 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
36141859 TAACTCATTC
* *
36141869 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
36141909 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
36141949 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
36141989 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
36142030 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
36142053 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:36157916 original size:6 final size:6
Alignment explanation
Indices: 36157907--36157932 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
36157897 AAAGAAGAGA
36157907 GGAAGG GGAAGG GGAAGG GGAAGG GG
1 GGAAGG GGAAGG GGAAGG GGAAGG GG
36157933 TGGCTAGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (6 bp):
GGAAGG
Found at i:36165961 original size:27 final size:27
Alignment explanation
Indices: 36165907--36165966 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
36165897 AACTGCCAGA
* *
36165907 AACAGTAAATGTGGCAAAGCCACCAGT
1 AACAGTAAATGTGACAAAGCCACAAGT
* * *
36165934 AACAGTGAATGTGACATAGTCACAAGT
1 AACAGTAAATGTGACAAAGCCACAAGT
36165961 -ACAGTA
1 AACAGTA
36165967 CTTCCTTCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (27 bp):
AACAGTAAATGTGACAAAGCCACAAGT
Found at i:36166135 original size:27 final size:27
Alignment explanation
Indices: 36166105--36166411 Score: 355
Period size: 27 Copynumber: 11.4 Consensus size: 27
36166095 CATAATTTTT
* * *
36166105 ATTTTACCTTAGAGGGGTATTACAGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* * * *
36166132 ATTTCACCCTATAGGGGCATTACGGTA
1 ATTTTACCCTACAGGGGTATTACGGTC
**
36166159 ATTTTACCCTGTAGGGGTATTACGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* * *
36166186 ATGTTGCCCTACAGGGGCATTACGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* * *
36166213 ATTTTGCCCTATAGGGGCATTACGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* * * *
36166240 ATTTTACCCTACAAGGGTATTATGATA
1 ATTTTACCCTACAGGGGTATTACGGTC
*
36166267 ATTTTACCCTACAGGGGTATTACTGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* * *
36166294 ATTTTACCTTACAGAGGTATTATGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* *
36166321 ATTTTACCCTATAGAGGTATTACGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
*
36166348 ATTTTACCCTACAAGGGTATTACGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* *
36166375 ATTTTACCCTACAAGGGTATTACGGTT
1 ATTTTACCCTACAGGGGTATTACGGTC
36166402 A-TTTACCCTA
1 ATTTTACCCTA
36166412 AATTAGCTTC
Statistics
Matches: 240, Mismatches: 40, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
26 9 0.04
27 231 0.96
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
ATTTTACCCTACAGGGGTATTACGGTC
Found at i:36181845 original size:24 final size:24
Alignment explanation
Indices: 36181752--36181851 Score: 119
Period size: 24 Copynumber: 4.0 Consensus size: 24
36181742 AACTCCTGCT
* *
36181752 CCTTGATCAGCTCCTAAATCTTCTC
1 CCTT-ATCAGCCCCTAAATCCTCTC
* *
36181777 CTTTTTATCAGCCCCTAAATTCTCTC
1 C--CTTATCAGCCCCTAAATCCTCTC
36181803 CCTTATCAGCCCCTAAATCCTCTC
1 CCTTATCAGCCCCTAAATCCTCTC
* *
36181827 CCTTATCAGCTCCTAAATCTTCTC
1 CCTTATCAGCCCCTAAATCCTCTC
36181851 C
1 C
36181852 TGACAGCCTT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
24 44 0.68
25 1 0.02
26 18 0.28
27 2 0.03
ACGTcount: A:0.20, C:0.39, G:0.05, T:0.36
Consensus pattern (24 bp):
CCTTATCAGCCCCTAAATCCTCTC
Found at i:36195622 original size:17 final size:18
Alignment explanation
Indices: 36195571--36195694 Score: 162
Period size: 17 Copynumber: 6.8 Consensus size: 18
36195561 TCATATCTTT
*
36195571 TAAGATTGTATATCATATC
1 TAAGATTG-CTATCATATC
*
36195590 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
36195608 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
* *
36195625 TAATATTGCAATCATATC
1 TAAGATTGCTATCATATC
36195643 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
36195660 TAAGATTGCATATCACATC
1 TAAGATTGC-TATCATATC
36195679 TAAGATTGCATATCAT
1 TAAGATTGC-TATCAT
36195695 TGAAGATTAT
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
17 31 0.33
18 31 0.33
19 31 0.33
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (18 bp):
TAAGATTGCTATCATATC
Found at i:36195626 original size:35 final size:35
Alignment explanation
Indices: 36195571--36195686 Score: 187
Period size: 35 Copynumber: 3.2 Consensus size: 35
36195561 TCATATCTTT
36195571 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC
*
36195608 TAAGATTGTATCATATCTAATATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
36195643 TAAGATTGTATCATATCTAAGATTGCATATCACATC
1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATC
36195679 TAAGATTG
1 TAAGATTG
36195687 CATATCATTG
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
35 52 0.69
36 15 0.20
37 8 0.11
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATC
Found at i:36195851 original size:21 final size:20
Alignment explanation
Indices: 36195813--36195852 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
36195803 TTGGACTTCG
**
36195813 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
36195833 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
36195853 TTTGGGCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:36196547 original size:207 final size:207
Alignment explanation
Indices: 36196090--36197213 Score: 1863
Period size: 207 Copynumber: 5.4 Consensus size: 207
36196080 AAAACTGCTT
* * * * *
36196090 CTTCAATTTGTTCCCTGACAATACAGAGATACCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * * *
36196155 GGGAAAGCTAATTCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * * * * *
36196220 GGATC-TGCTTCAGTCTAATCATTTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTCAAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
36196284 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
36196296 CTTCGATTTCTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAATGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
36196361 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
36196426 GGATCTTGTTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
36196491 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
36196503 CTTTGATTTCTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
36196568 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
36196633 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGGTCTGCTATGTGTCTACCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
36196698 GGAGACGCCAAA
196 GGAGACGCCAAA
*
36196710 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
36196775 GTGGAAGCCAAATCAGCTGTGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
36196840 GGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTGTTTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
* *
36196905 GGAAATGCCAAA
196 GGAGACGCCAAA
* * *
36196917 CTTCGATTTGTTCTCTGAAAATATAGAGATGCCAAATCATCTTAGACTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
36196982 GTGAAAGTCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
36197047 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
36197112 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * *
36197124 CTTCGATTTATTCTCTGATAAAATAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
36197189 GTGAAAGCCAAATCAGCTATGTCTT
66 GTGAAAGCCAAATCAGCTATGTCTT
36197214 GGTTTATTAC
Statistics
Matches: 861, Mismatches: 56, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
206 122 0.14
207 739 0.86
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:36197482 original size:44 final size:44
Alignment explanation
Indices: 36197434--36197575 Score: 148
Period size: 44 Copynumber: 3.3 Consensus size: 44
36197424 ATCTGCTTCA
*
36197434 CTACTGTTTAGGGAGAATAAGATCTGCAAATTTAATCTGTTACC
1 CTACTGCTTAGGGAGAATAAGATCTGCAAATTTAATCTGTTACC
* * **** ** *
36197478 CTACTGCTTAGGG-GATTAAG-GC-GGGTCTTCGATCTGCT-CC
1 CTACTGCTTAGGGAGAATAAGATCTGCAAATTTAATCTGTTACC
*
36197518 ACTACTGCTTAGGGAGAATAAGATCTGCAAATTTAACCTGTTACC
1 -CTACTGCTTAGGGAGAATAAGATCTGCAAATTTAATCTGTTACC
36197563 CTACTGCTTAGGG
1 CTACTGCTTAGGG
36197576 GATTAAGGCA
Statistics
Matches: 73, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
40 2 0.03
41 22 0.30
42 7 0.10
43 7 0.10
44 33 0.45
45 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (44 bp):
CTACTGCTTAGGGAGAATAAGATCTGCAAATTTAATCTGTTACC
Found at i:36197496 original size:85 final size:85
Alignment explanation
Indices: 36197220--36197585 Score: 514
Period size: 85 Copynumber: 4.3 Consensus size: 85
36197210 TCTTGGTTTA
*
36197220 TTACCCTACTGCTTAGGGG-TTAAGGTGCATCGTCTTCGATCTGCTCCACTACTGCTTAGGGA-A
1 TTACCCTACTGCTTAGGGGATTAA-G-GCA-AGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
36197283 ATAAGATCTGCAAATTTAACCTG
63 ATAAGATCTGCAAATTTAACCTG
* * **
36197306 TTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCATCGATTTGCTCTGCTACTGCTTAGGGAG-
1 TTACCCTACTGCTTAGGGGATTAAGGCAAGTC-T--TCGATCTGCTCCACTACTGCTTAGGGAGA
*
36197370 ATAAGATCTG-----TGAACCTG
63 ATAAGATCTGCAAATTTAACCTG
* * *
36197388 TTACCCTACTGCTTAGGGGATTAAGGCAAGTTTTCGATCTGCTTCACTACTGTTTAGGGAGAATA
1 TTACCCTACTGCTTAGGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAATA
*
36197453 AGATCTGCAAATTTAATCTG
66 AGATCTGCAAATTTAACCTG
**
36197473 TTACCCTACTGCTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAATA
1 TTACCCTACTGCTTAGGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAATA
36197538 AGATCTGCAAATTTAACCTG
66 AGATCTGCAAATTTAACCTG
36197558 TTACCCTACTGCTTAGGGGATTAAGGCA
1 TTACCCTACTGCTTAGGGGATTAAGGCA
36197586 CTGAATTTTG
Statistics
Matches: 247, Mismatches: 22, Indels: 23
0.85 0.08 0.08
Matches are distributed among these distances:
79 23 0.09
80 10 0.04
81 1 0.00
82 37 0.15
84 3 0.01
85 115 0.47
86 20 0.08
87 38 0.15
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (85 bp):
TTACCCTACTGCTTAGGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAATA
AGATCTGCAAATTTAACCTG
Found at i:36197497 original size:167 final size:166
Alignment explanation
Indices: 36197220--36197585 Score: 524
Period size: 167 Copynumber: 2.2 Consensus size: 166
36197210 TCTTGGTTTA
*
36197220 TTACCCTACTGCTTAGGGG-TTAAGGTGCATCGTCTTCGATCTGCTCCACTACTGCTTAGGGAAA
1 TTACCCTACTGCTTAGGGGATTAA-G-GCATAGTCTTCGATCTGCTCCACTACTGCTTAGGGAAA
*
36197284 TAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCATCGATTT
64 TAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-G--GTCATCGATCT
**
36197349 GCTCTGCTACTGCTTAGGGAG-ATAAGATCTG-TGAACCTG
126 GCTCCACTACTGCTTAGGGAGAATAAGATCTGATGAACCTG
* * *
36197388 TTACCCTACTGCTTAGGGGATTAAGGCA-AGTTTTCGATCTGCTTCACTACTGTTTAGGGAGAAT
1 TTACCCTACTGCTTAGGGGATTAAGGCATAGTCTTCGATCTGCTCCACTACTGCTTAGGGA-AAT
* *
36197452 AAGATCTGCAAATTTAATCTGTTACCCTACTGCTTAGGGGATTAAGGCGGGTCTTCGATCTGCTC
65 AAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGGGTCATCGATCTGCTC
*
36197517 CACTACTGCTTAGGGAGAATAAGATCTGCAAATTTAACCTG
130 CACTACTGCTTAGGGAGAATAAGATCTG---A-TGAACCTG
36197558 TTACCCTACTGCTTAGGGGATTAAGGCA
1 TTACCCTACTGCTTAGGGGATTAAGGCA
36197586 CTGAATTTTG
Statistics
Matches: 180, Mismatches: 10, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
164 28 0.16
165 10 0.06
166 29 0.16
167 54 0.30
168 20 0.11
169 4 0.02
170 35 0.19
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (166 bp):
TTACCCTACTGCTTAGGGGATTAAGGCATAGTCTTCGATCTGCTCCACTACTGCTTAGGGAAATA
AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGGGTCATCGATCTGCTCC
ACTACTGCTTAGGGAGAATAAGATCTGATGAACCTG
Found at i:36197525 original size:41 final size:41
Alignment explanation
Indices: 36197393--36197531 Score: 111
Period size: 41 Copynumber: 3.3 Consensus size: 41
36197383 ACCTGTTACC
* * *
36197393 CTACTGCTTAGGGGATTAAGGCAAGTTTTCGATCTGCTTCA
1 CTACTGCTTAGGGGATTAAGGCGAGTATTCGATCTGCTCCA
* * * * ** *
36197434 CTACTGTTTAGGGAGAATAAGATCTGCA-AATTTAATCTGTTACC-
1 CTACTGCTTAGGG-GATTAAG-GC-G-AGTATTCGATCTGCT-CCA
* *
36197478 CTACTGCTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGATTAAGGCGAGTATTCGATCTGCTCCA
36197519 CTACTGCTTAGGG
1 CTACTGCTTAGGG
36197532 AGAATAAGAT
Statistics
Matches: 72, Mismatches: 19, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
40 2 0.03
41 34 0.47
42 7 0.10
43 7 0.10
44 20 0.28
45 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (41 bp):
CTACTGCTTAGGGGATTAAGGCGAGTATTCGATCTGCTCCA
Found at i:36198546 original size:8 final size:8
Alignment explanation
Indices: 36198533--36198592 Score: 68
Period size: 8 Copynumber: 7.1 Consensus size: 8
36198523 GGCCTCTCCA
36198533 TTTTTCTT
1 TTTTTCTT
36198541 TTTTTC-T
1 TTTTTCTT
36198548 TTTTTCTAGT
1 TTTTTCT--T
36198558 TTTTTCTAGT
1 TTTTTCT--T
36198568 TTTTTCTT
1 TTTTTCTT
*
36198576 TTTTTCTC
1 TTTTTCTT
36198584 TTTTTCTT
1 TTTTTCTT
36198592 T
1 T
36198593 ACTTTTTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
7 7 0.15
8 22 0.47
10 18 0.38
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.80
Consensus pattern (8 bp):
TTTTTCTT
Found at i:36198570 original size:20 final size:18
Alignment explanation
Indices: 36198533--36198582 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
36198523 GGCCTCTCCA
36198533 TTTTTCTTTTTTTC---T
1 TTTTTCTTTTTTTCTAGT
36198548 TTTTTCTAGTTTTTTCTAGT
1 TTTTTCT--TTTTTTCTAGT
36198568 TTTTTCTTTTTTTCT
1 TTTTTCTTTTTTTCT
36198583 CTTTTTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 7 0.23
17 7 0.23
18 8 0.27
20 8 0.27
ACGTcount: A:0.04, C:0.12, G:0.04, T:0.80
Consensus pattern (18 bp):
TTTTTCTTTTTTTCTAGT
Found at i:36198571 original size:11 final size:10
Alignment explanation
Indices: 36198547--36198582 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
36198537 TCTTTTTTTC
36198547 TTTTTTCTAG
1 TTTTTTCTAG
36198557 TTTTTTCTAG
1 TTTTTTCTAG
36198567 TTTTTTCT--
1 TTTTTTCTAG
36198575 TTTTTTCT
1 TTTTTTCT
36198583 CTTTTTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.31
10 18 0.69
ACGTcount: A:0.06, C:0.11, G:0.06, T:0.78
Consensus pattern (10 bp):
TTTTTTCTAG
Found at i:36199000 original size:40 final size:40
Alignment explanation
Indices: 36198945--36199024 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
36198935 AGGTATTCAA
36198945 TTCTTGACTCTATCAAAGCTTGGAGGAAAAATCTTGATTC
1 TTCTTGACTCTATCAAAGCTTGGAGGAAAAATCTTGATTC
36198985 TTCTTGACT-TCATCAAAGCTTGGAGGAAAAATCTTGATTC
1 TTCTTGACTCT-ATCAAAGCTTGGAGGAAAAATCTTGATTC
36199025 ATAAACTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 1 0.03
40 38 0.97
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (40 bp):
TTCTTGACTCTATCAAAGCTTGGAGGAAAAATCTTGATTC
Found at i:36204404 original size:18 final size:19
Alignment explanation
Indices: 36204370--36204476 Score: 159
Period size: 18 Copynumber: 5.8 Consensus size: 19
36204360 TCATATCTTT
*
36204370 TAAGATTGTATATCATATC
1 TAAGATTGCATATCATATC
*
36204389 TAAGATTGCA-ATCATATA
1 TAAGATTGCATATCATATC
36204407 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
36204424 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
*
36204442 TAAGATTGCATATCACATC
1 TAAGATTGCATATCATATC
36204461 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
36204477 TGAAGATTAT
Statistics
Matches: 79, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.19
18 33 0.42
19 31 0.39
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:36204425 original size:35 final size:36
Alignment explanation
Indices: 36204370--36204476 Score: 162
Period size: 35 Copynumber: 2.9 Consensus size: 36
36204360 TCATATCTTT
36204370 TAAGATTGTATATCATATCTAAGATTGCAATCATATA
1 TAAGATTG-ATATCATATCTAAGATTGCAATCATATA
*
36204407 TAAGATTG-TATCATATCTAAGATTGCAATCATATC
1 TAAGATTGATATCATATCTAAGATTGCAATCATATA
*
36204442 TAAGATTGCATATCACATCTAAGATTGCATATCAT
1 TAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
36204477 TGAAGATTAT
Statistics
Matches: 65, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
35 34 0.52
37 26 0.40
38 5 0.08
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (36 bp):
TAAGATTGATATCATATCTAAGATTGCAATCATATA
Found at i:36219820 original size:68 final size:68
Alignment explanation
Indices: 36219671--36219828 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 68
36219661 CTAGCCGATT
* * * *
36219671 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
*
36219736 TTTA
65 TATA
* * *
36219740 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
36219802 CTATATA
63 C-ATATA
36219809 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
36219829 ACAAATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 8 0.11
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAT
ATA
Found at i:36232398 original size:30 final size:30
Alignment explanation
Indices: 36232362--36232429 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
36232352 TAGGCACTTC
*
36232362 CACATGGGTAAACCACTCGCCCGTGTGAAG
1 CACATGGGTAAACCACGCGCCCGTGTGAAG
*
36232392 CACATGGGTAAACCACGCGCCCGTGTGAGG
1 CACATGGGTAAACCACGCGCCCGTGTGAAG
*
36232422 CCCATGGG
1 CACATGGG
36232430 AAGGCCACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.24, C:0.31, G:0.31, T:0.15
Consensus pattern (30 bp):
CACATGGGTAAACCACGCGCCCGTGTGAAG
Found at i:36241591 original size:20 final size:21
Alignment explanation
Indices: 36241556--36241594 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
36241546 TTAAAATAAT
36241556 TATTTAGTTTTATTTATTTCG
1 TATTTAGTTTTATTTATTTCG
*
36241577 TATTTA-TTTTTTTTATTT
1 TATTTAGTTTTATTTATTT
36241595 TTTTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (21 bp):
TATTTAGTTTTATTTATTTCG
Found at i:36241593 original size:9 final size:9
Alignment explanation
Indices: 36241579--36241604 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
36241569 TTATTTCGTA
36241579 TTTATTTTT
1 TTTATTTTT
36241588 TTTATTTTT
1 TTTATTTTT
36241597 TTTATTTT
1 TTTATTTT
36241605 CCTTTCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTATTTTT
Found at i:36242395 original size:21 final size:21
Alignment explanation
Indices: 36242371--36242416 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
36242361 CACTGGCATA
* *
36242371 TGCCTTAGTCACACGGCCGTG
1 TGCCTCAGCCACACGGCCGTG
*
36242392 TGCCTCAGCCACACGGTCGTG
1 TGCCTCAGCCACACGGCCGTG
36242413 TGCC
1 TGCC
36242417 CCTCTTCACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.13, C:0.37, G:0.28, T:0.22
Consensus pattern (21 bp):
TGCCTCAGCCACACGGCCGTG
Done.