Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 118 of 144
Found at i:27606208 original size:30 final size:30
Alignment explanation
Indices: 27606172--27606618 Score: 628
Period size: 30 Copynumber: 14.9 Consensus size: 30
27606162 AAATTATCCA
** *
27606172 AAAATTACATTTAAACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
27606202 AAAATTATATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
27606232 AAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * *
27606262 AAAATTATATTTTAACCCCAAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * *
27606292 AAAATTATATTTTGACCCTAAAATTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * *
27606322 AAAAATATATTTTTAACCCCAAAACTTTTCC
1 AAAATTACA-TTTTGACCCCAAAACTTTTCC
27606353 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
27606383 AAAATTATATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
27606413 AAAATTATATTTTAACCCCAAAAC-TTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
27606442 TAAAATTACATTTTGACCCCAAAACTTTTAC
1 -AAAATTACATTTTGACCCCAAAACTTTTCC
27606473 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
27606503 AAAATTACATTTTGACCCTAAAAC-TTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
27606532 TAAAATTACATTTTGACCCCAAAACTTTTCT
1 -AAAATTACATTTTGACCCCAAAACTTTTCC
*
27606563 AAAATTACATCTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
27606593 AAAATTACATCTTGACCCCCAAACTT
1 AAAATTACATTTTGACCCCAAAACTT
27606619 CCCTAAATCC
Statistics
Matches: 379, Mismatches: 33, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
29 10 0.03
30 336 0.89
31 33 0.09
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:27606773 original size:59 final size:59
Alignment explanation
Indices: 27606609--27606783 Score: 151
Period size: 59 Copynumber: 3.0 Consensus size: 59
27606599 ACATCTTGAC
* * * * * * *
27606609 CCCCAAACTTCCCTAAATCCCATTTTCAACCCCGATTTCACCAAAACTTACC-GTTT-TG
1 CCCCAAACTTTCCAAAATTCCATTTTTAGCCCCGATTTTACCAAAA-TTACCATTTTATG
* * ** * * *
27606667 CCTCCGAACTTTCCAAAATTTCATTTTT-GACCTTGTTTTTGCCAAAATTTACCATTTTATT
1 CC-CCAAACTTTCCAAAATTCCATTTTTAG-CCCCGATTTTACCAAAA-TTACCATTTTATG
*
27606728 CCCCAAACTTTCC-AAATTCCATTTTTAGCCCCGATTTTACAAAAATTACCATTTTA
1 CCCCAAACTTTCCAAAATTCCATTTTTAGCCCCGATTTTACCAAAATTACCATTTTA
27606784 CCCCTAAAAA
Statistics
Matches: 90, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
58 13 0.14
59 60 0.67
60 14 0.16
61 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.05, T:0.37
Consensus pattern (59 bp):
CCCCAAACTTTCCAAAATTCCATTTTTAGCCCCGATTTTACCAAAATTACCATTTTATG
Found at i:27613877 original size:18 final size:18
Alignment explanation
Indices: 27613850--27613886 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27613840 AGGAACTAAT
27613850 TTGATCTTGTCCCTATTA
1 TTGATCTTGTCCCTATTA
* *
27613868 TTGATTTTGTCCTTATTA
1 TTGATCTTGTCCCTATTA
27613886 T
1 T
27613887 AAAAGGACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.57
Consensus pattern (18 bp):
TTGATCTTGTCCCTATTA
Found at i:27614362 original size:49 final size:49
Alignment explanation
Indices: 27614300--27614396 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
27614290 GAGGGTGTGA
27614300 CAAATGTCACATTTATTTATATAATTAATTATTTTATTCTTTAATACAT
1 CAAATGTCACATTTATTTATATAATTAATTATTTTATTCTTTAATACAT
*
27614349 CAAATGTCCCATTTATTTATATAATTAATTATTTTATTCTTTAATACA
1 CAAATGTCACATTTATTTATATAATTAATTATTTTATTCTTTAATACA
27614397 CCCTATAATA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (49 bp):
CAAATGTCACATTTATTTATATAATTAATTATTTTATTCTTTAATACAT
Found at i:27614751 original size:3 final size:3
Alignment explanation
Indices: 27614743--27614796 Score: 99
Period size: 3 Copynumber: 17.7 Consensus size: 3
27614733 CAAAACCCAT
27614743 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27614791 TATA TT
1 T-TA TT
27614797 TTTTAATATT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 47 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27617695 original size:2 final size:2
Alignment explanation
Indices: 27617688--27617720 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
27617678 CAAACATAAC
27617688 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27617721 GTTTGTTGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27625787 original size:18 final size:19
Alignment explanation
Indices: 27625746--27625780 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27625736 CAAATACTTC
27625746 GTAAAATAAAGAAATAAAA
1 GTAAAATAAAGAAATAAAA
27625765 G-AAAATAAA-AAATAAA
1 GTAAAATAAAGAAATAAA
27625781 GTTAAAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 8 0.50
19 1 0.06
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (19 bp):
GTAAAATAAAGAAATAAAA
Found at i:27626819 original size:21 final size:20
Alignment explanation
Indices: 27626795--27626843 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
27626785 TTTCTTTTTG
27626795 TAAAATTTGAAAATTTGAAA
1 TAAAATTTGAAAATTTGAAA
** * *
27626815 TTAAAGCTTGTAAATTTTAAA
1 -TAAAATTTGAAAATTTGAAA
27626836 TAAAATTT
1 TAAAATTT
27626844 TCATTTATTT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (20 bp):
TAAAATTTGAAAATTTGAAA
Found at i:27627605 original size:4 final size:4
Alignment explanation
Indices: 27627598--27627675 Score: 102
Period size: 4 Copynumber: 18.2 Consensus size: 4
27627588 CAAATAAATG
*
27627598 GAAA GAAA GAAA GAAA GAAA GAAAA GAAAA GAAA GAAA GAAA GAAA GAAG
1 GAAA GAAA GAAA GAAA GAAA G-AAA G-AAA GAAA GAAA GAAA GAAA GAAA
27627648 GAGAA GAAA GAAA GAAA GGGAAA GAAA G
1 GA-AA GAAA GAAA GAAA --GAAA GAAA G
27627676 GTAATGTGTT
Statistics
Matches: 68, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
4 52 0.76
5 12 0.18
6 4 0.06
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:27627624 original size:21 final size:21
Alignment explanation
Indices: 27627599--27627675 Score: 102
Period size: 22 Copynumber: 3.6 Consensus size: 21
27627589 AAATAAATGG
27627599 AAAGAAAGAAAGAAAGAAAGA
1 AAAGAAAGAAAGAAAGAAAGA
27627620 AAAGAAAAGAAAGAAAGAAAG-
1 AAAG-AAAGAAAGAAAGAAAGA
*
27627641 AAAGAAGGAGAAGAAAGAAAGA
1 AAAGAAAGA-AAGAAAGAAAGA
*
27627663 AAGGGAAAGAAAG
1 AA-AGAAAGAAAG
27627676 GTAATGTGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
20 4 0.08
21 19 0.39
22 21 0.43
23 5 0.10
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
AAAGAAAGAAAGAAAGAAAGA
Found at i:27630611 original size:14 final size:14
Alignment explanation
Indices: 27630592--27630628 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
27630582 AAATAGGTTA
27630592 AAATTCATCATTAT
1 AAATTCATCATTAT
27630606 AAATTCATCATTAT
1 AAATTCATCATTAT
27630620 -AATTCATCA
1 AAATTCATCA
27630629 ATAGTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATTCATCATTAT
Found at i:27630791 original size:21 final size:21
Alignment explanation
Indices: 27630765--27630811 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
27630755 TTAGGGTCCA
*
27630765 ATTGCCTC-GGAGGAGTAGAGT
1 ATTGCC-CGGGAGGAGTAAAGT
27630786 ATTGCCCGGGAGGAGTAAAGT
1 ATTGCCCGGGAGGAGTAAAGT
27630807 ATTGC
1 ATTGC
27630812 AGTGGCTCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (21 bp):
ATTGCCCGGGAGGAGTAAAGT
Found at i:27632833 original size:16 final size:16
Alignment explanation
Indices: 27632812--27632861 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
27632802 TGATGGGGGT
27632812 ATTATTTTGATAATTA
1 ATTATTTTGATAATTA
*
27632828 ATTATTTT-TTATATT-
1 ATTATTTTGATA-ATTA
*
27632843 A-TATTTTGGTAATTA
1 ATTATTTTGATAATTA
27632858 ATTA
1 ATTA
27632862 GCTAGGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (16 bp):
ATTATTTTGATAATTA
Found at i:27633322 original size:95 final size:95
Alignment explanation
Indices: 27633054--27633327 Score: 428
Period size: 95 Copynumber: 2.9 Consensus size: 95
27633044 TTATATTATT
27633054 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTTACTAACAACAAAATAAAAT
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTAC-TACTAACAACAAAATAAAAT
* *** *
27633119 TACTAACTAAT-TTTTTTAAACATTATTAAA
65 TACTAACTAGTAAAATTTAAATATTATTAAA
* *
27633149 TTTTAAATCAATAAATATGAACGAT-GTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
*
27633213 ACTAACTAGCAAAATTTAAATATTATTAAA
66 ACTAACTAGTAAAATTTAAATATTATTAAA
*
27633243 TTTTAAATCAATAAATATGAACAATATTTTTTACTTATTACTACTACTAACAACAAAATAAAATT
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
*
27633308 ACTAATTAGTAAAA-TTAAAT
66 ACTAACTAGTAAAATTTAAAT
27633328 TAAAGTAAAT
Statistics
Matches: 164, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
93 29 0.18
94 62 0.38
95 73 0.45
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.38
Consensus pattern (95 bp):
TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
ACTAACTAGTAAAATTTAAATATTATTAAA
Found at i:27633714 original size:15 final size:15
Alignment explanation
Indices: 27633672--27633714 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
27633662 CTTTTTTTCT
* *
27633672 TTCTCCTTCTTCCCC
1 TTCTTCTTCTTCTCC
*
27633687 TTCTTCTCCTTCTCC
1 TTCTTCTTCTTCTCC
27633702 TTCTTCTTCTTCT
1 TTCTTCTTCTTCT
27633715 TTTTTTTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (15 bp):
TTCTTCTTCTTCTCC
Found at i:27633715 original size:9 final size:9
Alignment explanation
Indices: 27633672--27633711 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
27633662 CTTTTTTTCT
27633672 TTCTCCTTC
1 TTCTCCTTC
*
27633681 TTCCCCTTC
1 TTCTCCTTC
27633690 TTCTCCTTC
1 TTCTCCTTC
* *
27633699 TCCTTCTTC
1 TTCTCCTTC
27633708 TTCT
1 TTCT
27633712 TCTTTTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (9 bp):
TTCTCCTTC
Found at i:27657033 original size:35 final size:36
Alignment explanation
Indices: 27656945--27657040 Score: 149
Period size: 36 Copynumber: 2.7 Consensus size: 36
27656935 AAATACTCTG
* *
27656945 AAGCATTTTGATTGCTATCAGATAAGTTAAAAGGAT
1 AAGCATTTTCATTGCTATCAGATAAGCTAAAAGGAT
*
27656981 AAGCATTTTCATCGCTATCAGATAAGCTAAAA-GAT
1 AAGCATTTTCATTGCTATCAGATAAGCTAAAAGGAT
*
27657016 TAGCATTTTCATTGCTATCAGATAA
1 AAGCATTTTCATTGCTATCAGATAA
27657041 ATGAGTGGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
35 26 0.47
36 29 0.53
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (36 bp):
AAGCATTTTCATTGCTATCAGATAAGCTAAAAGGAT
Found at i:27660425 original size:48 final size:46
Alignment explanation
Indices: 27660365--27660473 Score: 141
Period size: 46 Copynumber: 2.3 Consensus size: 46
27660355 TACCAAAGTA
*
27660365 CTAATCAGAGAGCACA-TAAGTGCTGGGCAAT-AGAGAGCACACACAATG
1 CTAATCAGAGAGCACACAAAGTGCT----AATCAGAGAGCACACACAATG
* *
27660413 CTAAACAGAGAGCACACAAAGTGCTAATCAGAGAGCACACACAGTG
1 CTAATCAGAGAGCACACAAAGTGCTAATCAGAGAGCACACACAATG
27660459 CTAATCAGAGAGCAC
1 CTAATCAGAGAGCAC
27660474 GAGACGTGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
45 3 0.05
46 30 0.55
48 15 0.27
49 7 0.13
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.13
Consensus pattern (46 bp):
CTAATCAGAGAGCACACAAAGTGCTAATCAGAGAGCACACACAATG
Found at i:27660426 original size:23 final size:23
Alignment explanation
Indices: 27660396--27660494 Score: 121
Period size: 23 Copynumber: 4.3 Consensus size: 23
27660386 GCTGGGCAAT
27660396 AGAGAGCACACACAATGCTAAAC
1 AGAGAGCACACACAATGCTAAAC
*
27660419 AGAGAGCACACA-AAGTGCTAATC
1 AGAGAGCACACACAA-TGCTAAAC
* *
27660442 AGAGAGCACACACAGTGCTAATC
1 AGAGAGCACACACAATGCTAAAC
* *
27660465 AGAGAGCACGAGAC-GTGCTAAAC
1 AGAGAGCAC-ACACAATGCTAAAC
27660488 AGAGAGC
1 AGAGAGC
27660495 GTGCTAGTGT
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
22 2 0.03
23 63 0.91
24 4 0.06
ACGTcount: A:0.42, C:0.23, G:0.24, T:0.10
Consensus pattern (23 bp):
AGAGAGCACACACAATGCTAAAC
Found at i:27660483 original size:46 final size:46
Alignment explanation
Indices: 27660396--27660494 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 46
27660386 GCTGGGCAAT
*
27660396 AGAGAGCACACACAATGCTAAACAGAGAGCACACAAAGTGCTAATC
1 AGAGAGCACACACAATGCTAAACAGAGAGCACACAAAGTGCTAAAC
* * * *
27660442 AGAGAGCACACACAGTGCTAATCAGAGAGCACGA-GACGTGCTAAAC
1 AGAGAGCACACACAATGCTAAACAGAGAGCAC-ACAAAGTGCTAAAC
27660488 AGAGAGC
1 AGAGAGC
27660495 GTGCTAGTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 46 0.98
47 1 0.02
ACGTcount: A:0.42, C:0.23, G:0.24, T:0.10
Consensus pattern (46 bp):
AGAGAGCACACACAATGCTAAACAGAGAGCACACAAAGTGCTAAAC
Found at i:27661388 original size:19 final size:19
Alignment explanation
Indices: 27661353--27661398 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
27661343 AAAAGGTTGA
27661353 TTTTCTTCTCTTCTTGCTCC
1 TTTTCTTCTCTTCTTGC-CC
27661373 TTTCTCTTCTC-T-TTGCCC
1 TTT-TCTTCTCTTCTTGCCC
27661391 TTTTCTTC
1 TTTTCTTC
27661399 AATTTGGTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.20
18 5 0.20
19 4 0.16
20 4 0.16
21 7 0.28
ACGTcount: A:0.00, C:0.35, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTCTTCTCTTCTTGCCC
Found at i:27670482 original size:7 final size:7
Alignment explanation
Indices: 27670470--27670501 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
27670460 GGACTTGTTC
27670470 AAAATAA
1 AAAATAA
27670477 AAAATAA
1 AAAATAA
27670484 AAAATAA
1 AAAATAA
27670491 AAAATAA
1 AAAATAA
27670498 AAAA
1 AAAA
27670502 GCGGCATACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:27673078 original size:33 final size:36
Alignment explanation
Indices: 27673036--27673103 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
27673026 ATATAAGTTT
*
27673036 AAAT-AAAAAATA-TTTTACTT-ACAAAAATAAAAA
1 AAATAAAAAAATATTTTTACTTGAAAAAAATAAAAA
*
27673069 AAATAAAAAAATATTTTTTCTTGAAAAAAATAAAA
1 AAATAAAAAAATATTTTTACTTGAAAAAAATAAAA
27673104 GAGTCAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 4 0.13
34 8 0.27
35 7 0.23
36 11 0.37
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (36 bp):
AAATAAAAAAATATTTTTACTTGAAAAAAATAAAAA
Found at i:27674287 original size:28 final size:28
Alignment explanation
Indices: 27674254--27674313 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
27674244 AAGGGTTTGA
* *
27674254 GGTTATATGTTACAAG-TTTGAG-GTTCAG
1 GGTTATA-GTT-CAAGATTTAAGAGTCCAG
27674282 GGTTATAGTTCAAGATTTAAGAGTCCAG
1 GGTTATAGTTCAAGATTTAAGAGTCCAG
27674310 GGTT
1 GGTT
27674314 TAAGGTTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.14
27 8 0.29
28 16 0.57
ACGTcount: A:0.27, C:0.08, G:0.28, T:0.37
Consensus pattern (28 bp):
GGTTATAGTTCAAGATTTAAGAGTCCAG
Found at i:27675032 original size:32 final size:32
Alignment explanation
Indices: 27674988--27675063 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
27674978 TCACTTAATT
27674988 AAATTATCTTTTATTTATTATTATTTTAAATG
1 AAATTATCTTTTATTTATTATTATTTTAAATG
* *
27675020 AAGTTATATTTTATTTATTATTATTTTAAATG
1 AAATTATCTTTTATTTATTATTATTTTAAATG
27675052 AAATTATCTTTT
1 AAATTATCTTTT
27675064 GTTTGCTTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (32 bp):
AAATTATCTTTTATTTATTATTATTTTAAATG
Found at i:27675044 original size:15 final size:15
Alignment explanation
Indices: 27674996--27675047 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
27674986 TTAAATTATC
27674996 TTTTATTTATTATTA
1 TTTTATTTATTATTA
**
27675011 TTTTAAATGAAGTTA-TA
1 TTTT--ATTTA-TTATTA
27675028 TTTTATTTATTATTA
1 TTTTATTTATTATTA
27675043 TTTTA
1 TTTTA
27675048 AATGAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 3 0.10
15 14 0.48
17 9 0.31
18 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (15 bp):
TTTTATTTATTATTA
Found at i:27676421 original size:17 final size:17
Alignment explanation
Indices: 27676397--27676447 Score: 93
Period size: 17 Copynumber: 2.9 Consensus size: 17
27676387 AATTAACATG
27676397 TAAAAAAAGTGTTTTTTA
1 TAAAAAAA-TGTTTTTTA
27676415 TAAAAAAATGTTTTTTA
1 TAAAAAAATGTTTTTTA
27676432 TAAAAAAATGTTTTTT
1 TAAAAAAATGTTTTTT
27676448 TCGTTTGCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 25 0.76
18 8 0.24
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (17 bp):
TAAAAAAATGTTTTTTA
Found at i:27684562 original size:19 final size:19
Alignment explanation
Indices: 27684523--27684558 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27684513 AAATAAGCAA
*
27684523 AAGTTCAAGTAAACAACAT
1 AAGTCCAAGTAAACAACAT
27684542 AAGTCCAAGT-AACAACA
1 AAGTCCAAGTAAACAACA
27684559 ATAACACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.19, G:0.11, T:0.17
Consensus pattern (19 bp):
AAGTCCAAGTAAACAACAT
Found at i:27684950 original size:58 final size:58
Alignment explanation
Indices: 27684888--27685007 Score: 170
Period size: 58 Copynumber: 2.1 Consensus size: 58
27684878 GAAAATAATT
* *
27684888 GTTTATGAGTATTATTTAGGAATAAAATTATA-TTTGGATTTAAAAATATTTGGGTTTA
1 GTTTATGAGTATTATTTAAGAATAAAATTATATTTTGG-TTTAAAAATATTTGAGTTTA
* * * *
27684946 GTTTATGAGTGTTTTTTAATAATGAAATTATATTTTGGTTTAAAAATATTTGAGTTTA
1 GTTTATGAGTATTATTTAAGAATAAAATTATATTTTGGTTTAAAAATATTTGAGTTTA
27685004 GTTT
1 GTTT
27685008 GTTGATGAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
58 50 0.91
59 5 0.09
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (58 bp):
GTTTATGAGTATTATTTAAGAATAAAATTATATTTTGGTTTAAAAATATTTGAGTTTA
Found at i:27685021 original size:58 final size:58
Alignment explanation
Indices: 27684912--27685022 Score: 154
Period size: 58 Copynumber: 1.9 Consensus size: 58
27684902 TTTAGGAATA
* **
27684912 AAATTATATTTGGATTTAAAAATATTTGGGTTTAGTTTATGAGTGTTTTTTAATAATG
1 AAATTATATTTGGATTTAAAAATATTTGAGTTTAGTTTATGAGTGAGTTTTAATAATG
*
27684970 AAATTATATTTTGG-TTTAAAAATATTTGAGTTTAGTTTGTTGA-TGAGTTTTAA
1 AAATTATA-TTTGGATTTAAAAATATTTGAGTTTAGTTT-ATGAGTGAGTTTTAA
27685023 ATATTAAGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
58 39 0.83
59 8 0.17
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.50
Consensus pattern (58 bp):
AAATTATATTTGGATTTAAAAATATTTGAGTTTAGTTTATGAGTGAGTTTTAATAATG
Found at i:27686862 original size:26 final size:27
Alignment explanation
Indices: 27686833--27686885 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
27686823 ACGTGCCAGT
* * *
27686833 CATATATTTGCAG-CTGAGCTGCCATA
1 CATAGATTTGCAGAATGAACTGCCATA
27686859 CATAGATTTGCAGAATGAACTGCCATA
1 CATAGATTTGCAGAATGAACTGCCATA
27686886 ACACTTGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (27 bp):
CATAGATTTGCAGAATGAACTGCCATA
Found at i:27690990 original size:202 final size:202
Alignment explanation
Indices: 27690644--27691047 Score: 808
Period size: 202 Copynumber: 2.0 Consensus size: 202
27690634 GTTTACGGTT
27690644 ACAACCCTCTCTTAATCTACCAGCAAATGGATAATAGTAAACCAGTGTGTGCGCAAGTGCATGCT
1 ACAACCCTCTCTTAATCTACCAGCAAATGGATAATAGTAAACCAGTGTGTGCGCAAGTGCATGCT
27690709 TAATAAGAATAGTCGGGTCCTTCCCTCGCATGGATGGATTATATGGGTAGAATTGGATGACCGGA
66 TAATAAGAATAGTCGGGTCCTTCCCTCGCATGGATGGATTATATGGGTAGAATTGGATGACCGGA
27690774 ATTTGAAGCCGAAGACTCTCTTGATCATCAATGTCAGACAAAAGTAAGTATAGATGTGGGGTGGA
131 ATTTGAAGCCGAAGACTCTCTTGATCATCAATGTCAGACAAAAGTAAGTATAGATGTGGGGTGGA
27690839 GTTGGCA
196 GTTGGCA
27690846 ACAACCCTCTCTTAATCTACCAGCAAATGGATAATAGTAAACCAGTGTGTGCGCAAGTGCATGCT
1 ACAACCCTCTCTTAATCTACCAGCAAATGGATAATAGTAAACCAGTGTGTGCGCAAGTGCATGCT
27690911 TAATAAGAATAGTCGGGTCCTTCCCTCGCATGGATGGATTATATGGGTAGAATTGGATGACCGGA
66 TAATAAGAATAGTCGGGTCCTTCCCTCGCATGGATGGATTATATGGGTAGAATTGGATGACCGGA
27690976 ATTTGAAGCCGAAGACTCTCTTGATCATCAATGTCAGACAAAAGTAAGTATAGATGTGGGGTGGA
131 ATTTGAAGCCGAAGACTCTCTTGATCATCAATGTCAGACAAAAGTAAGTATAGATGTGGGGTGGA
27691041 GTTGGCA
196 GTTGGCA
27691048 GGAGCAACAA
Statistics
Matches: 202, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
202 202 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (202 bp):
ACAACCCTCTCTTAATCTACCAGCAAATGGATAATAGTAAACCAGTGTGTGCGCAAGTGCATGCT
TAATAAGAATAGTCGGGTCCTTCCCTCGCATGGATGGATTATATGGGTAGAATTGGATGACCGGA
ATTTGAAGCCGAAGACTCTCTTGATCATCAATGTCAGACAAAAGTAAGTATAGATGTGGGGTGGA
GTTGGCA
Found at i:27694311 original size:30 final size:29
Alignment explanation
Indices: 27694285--27694582 Score: 226
Period size: 30 Copynumber: 10.0 Consensus size: 29
27694275 CCAAAAATAG
* *
27694285 TATTTTGACCCCAAAACTTTCGAAAAATTA
1 TATTTTAACCCCAAAACTTTC-TAAAATTA
* *
27694315 TATTTTAACCCTC-AAACTTTTCCAAAATCA
1 TATTTTAACCC-CAAAAC-TTTCTAAAATTA
* *** *
27694345 TATTTTAACCCTAATTTTTTTTGAAAATTA
1 TATTTTAACCCCAAAACTTTCT-AAAATTA
** *
27694375 TATTTTAACCCTTAAACTATTCCAAAATTA
1 TATTTTAACCCCAAAACT-TTCTAAAATTA
*
27694405 TATTTTAACCCTAAAACTTTCTAAAAATTA
1 TATTTTAACCCCAAAACTTTCT-AAAATTA
* * *
27694435 CATTTTGACCCCTAAACTTCTCTAAAATTA
1 TATTTTAACCCCAAAACTT-TCTAAAATTA
* *
27694465 TATTTTAGCCCTAAAACTTTCTAAGAATTA
1 TATTTTAACCCCAAAACTTTCTAA-AATTA
* *
27694495 CATTTTGACCCTC-AAAC-TTCTAAAATTA
1 TATTTTAACCC-CAAAACTTTCTAAAATTA
* * *
27694523 TATTTTGA-CCCAAAAGCTTTTTGAAATTCA
1 TATTTTAACCCCAAAA-CTTTCTAAAATT-A
* * *
27694553 TATTTTGACCCTAAAATTTTCTGAAAATTA
1 TATTTTAACCCCAAAACTTTCT-AAAATTA
27694583 CTTTTTACTC
Statistics
Matches: 215, Mismatches: 38, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.00
27 5 0.02
28 13 0.06
29 25 0.12
30 150 0.70
31 21 0.10
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.40
Consensus pattern (29 bp):
TATTTTAACCCCAAAACTTTCTAAAATTA
Found at i:27694372 original size:60 final size:60
Alignment explanation
Indices: 27694274--27694582 Score: 292
Period size: 60 Copynumber: 5.2 Consensus size: 60
27694264 CCTTAAACTA
* * * *
27694274 TCCAAAAATAGTATTTTGACCCCAAAACTTTC-GAAAAATTATATTTTAACCCTCAAACTTT
1 TCCAAAATTA-TATTTTAACCCTAAAACTTTCTG-AAAATTATATTTTGACCCTCAAACTTT
* *** * * * *
27694335 TCCAAAATCATATTTTAACCCTAATTTTTTTTGAAAATTATATTTTAACCCTTAAACTAT
1 TCCAAAATTATATTTTAACCCTAAAACTTTCTGAAAATTATATTTTGACCCTCAAACTTT
* * *
27694395 TCCAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCC-CTAAACTTC
1 TCCAAAATTATATTTTAACCCTAAAACTTTCTGAAAATTATATTTTGACCCTC-AAACTTT
* * *
27694455 TCTAAAATTATATTTTAGCCCTAAAACTTTCT-AAGAATTACATTTTGACCCTCAAAC--T
1 TCCAAAATTATATTTTAACCCTAAAACTTTCTGAA-AATTATATTTTGACCCTCAAACTTT
* * * *
27694513 TCTAAAATTATATTTTGACCC-AAAAGCTTTTTG-AAATTCATATTTTGACCCT-AAAATTT
1 TCCAAAATTATATTTTAACCCTAAAA-CTTTCTGAAAATT-ATATTTTGACCCTCAAACTTT
*
27694572 TCTGAAAATTA
1 TC-CAAAATTA
27694583 CTTTTTACTC
Statistics
Matches: 208, Mismatches: 30, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
57 11 0.05
58 37 0.18
59 5 0.02
60 145 0.70
61 10 0.05
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.39
Consensus pattern (60 bp):
TCCAAAATTATATTTTAACCCTAAAACTTTCTGAAAATTATATTTTGACCCTCAAACTTT
Found at i:27694432 original size:90 final size:88
Alignment explanation
Indices: 27694285--27694582 Score: 289
Period size: 90 Copynumber: 3.3 Consensus size: 88
27694275 CCAAAAATAG
* * * * *
27694285 TATTTTGACCCCAAAACTTTCGAAAAATTATATTTTAACCCTCAAACTTTTCCAAAATCATATTT
1 TATTTTAACCCTAAAACTTTC-CAAAATTATATTTTAACCCTCAAAC-TTTCTAAAATTATATTT
**
27694350 TAACCCTAATTTTTTTTGAAAATTA
64 TAACCCTAAACTTTTTTGAAAATTA
* * *
27694375 TATTTTAACCCTTAAACTATTCCAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTT
1 TATTTTAACCCTAAAACT-TTCCAAAATTATATTTTAACCCTCAAACTTTCT-AAAATTATATTT
* * *
27694440 TGACCCCTAAACTTCTCT-AAAATTA
64 T-AACCCTAAACTTTTTTGAAAATTA
* * * *
27694465 TATTTTAGCCCTAAAACTTTCTAAGAATTACATTTTGACCCTCAAAC-TTCTAAAATTATATTTT
1 TATTTTAACCCTAAAACTTTCCAA-AATTATATTTTAACCCTCAAACTTTCTAAAATTATATTTT
* *
27694529 GACCCAAAAGC-TTTTTG-AAATTCA
65 AACCCTAAA-CTTTTTTGAAAATT-A
* * *
27694553 TATTTTGACCCTAAAATTTTCTGAAAATTA
1 TATTTTAACCCTAAAACTTTC-CAAAATTA
27694583 CTTTTTACTC
Statistics
Matches: 171, Mismatches: 29, Indels: 18
0.78 0.13 0.08
Matches are distributed among these distances:
87 14 0.08
88 37 0.22
89 15 0.09
90 91 0.53
91 14 0.08
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.40
Consensus pattern (88 bp):
TATTTTAACCCTAAAACTTTCCAAAATTATATTTTAACCCTCAAACTTTCTAAAATTATATTTTA
ACCCTAAACTTTTTTGAAAATTA
Found at i:27694608 original size:88 final size:88
Alignment explanation
Indices: 27694297--27694621 Score: 223
Period size: 90 Copynumber: 3.6 Consensus size: 88
27694287 TTTTGACCCC
* * * * * * * * **
27694297 AAAACTTTCGAAAAATTATATTTTAACCCTCAAACTTTTCCAAAATCATATTTT-AACCCTAATT
1 AAAACTTTCTAAGAATTACATTTTGACCCTCAAAC--TTCCAAAATTACATTTTGACCCCAAAAC
* * *
27694361 TTTTTTGAAAATTATATTTTAACCCT
64 TTCTCT-AAAATTATATTTTAGCCCT
* * * * * * *
27694387 TAAACTATTCCAA-AATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCCCTAAA
1 AAAACT-TTCTAAGAATTACATTTTGACCCTCAAAC-TTC-CAAAATTACATTTTGACCCCAAAA
27694451 CTTCTCTAAAATTATATTTTAGCCCT
63 CTTCTCTAAAATTATATTTTAGCCCT
* *
27694477 AAAACTTTCTAAGAATTACATTTTGACCCTCAAACTTCTAAAATTATATTTTGA-CCCAAAAGCT
1 AAAACTTTCTAAGAATTACATTTTGACCCTCAAACTTCCAAAATTACATTTTGACCCCAAAA-CT
* *
27694541 T-TTTGAAATTCATATTTT-GACCCT
65 TCTCTAAAATT-ATATTTTAG-CCCT
* * * ** * *
27694565 AAAATTTTCTGAA-AATTAC-TTTTTACTCTCAAGTTTTCCAAAATTCCATTTTTACCC
1 AAAACTTTCT-AAGAATTACATTTTGACCCTCAA-ACTTCCAAAATTACATTTTGACCC
27694622 TCGATTTTAC
Statistics
Matches: 194, Mismatches: 31, Indels: 21
0.79 0.13 0.09
Matches are distributed among these distances:
87 25 0.13
88 58 0.30
89 16 0.08
90 79 0.41
91 16 0.08
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.41
Consensus pattern (88 bp):
AAAACTTTCTAAGAATTACATTTTGACCCTCAAACTTCCAAAATTACATTTTGACCCCAAAACTT
CTCTAAAATTATATTTTAGCCCT
Found at i:27694634 original size:29 final size:28
Alignment explanation
Indices: 27694567--27694752 Score: 128
Period size: 29 Copynumber: 6.4 Consensus size: 28
27694557 TTGACCCTAA
* * *
27694567 AATTTTCTGAAAATTAC-TTTTTACTCTC
1 AATTTTC-CAAAATTCCATTTTTACCCTC
27694595 AAGTTTTCCAAAATTCCATTTTTACCCTC
1 AA-TTTTCCAAAATTCCATTTTTACCCTC
* * *
27694624 GATTTTACCAAAATTACCA-TCTTACCCCC
1 AATTTT-CCAAAATT-CCATTTTTACCCTC
* *
27694653 AAACTTTCTAAAATTCCATTTTTAACCCT-
1 -AATTTTCCAAAATTCCATTTTT-ACCCTC
* *
27694682 AATTTTACCAAAGTTACCA-TTTTACCCCC
1 AATTTT-CCAAAATT-CCATTTTTACCCTC
* * *
27694711 AAACTTTCCAAAATTCTATTTTTAACCTC
1 -AATTTTCCAAAATTCCATTTTTACCCTC
*
27694740 GATTTTACCAAAA
1 AATTTT-CCAAAA
27694753 AATAACATTT
Statistics
Matches: 123, Mismatches: 22, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
28 31 0.25
29 73 0.59
30 19 0.15
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (28 bp):
AATTTTCCAAAATTCCATTTTTACCCTC
Found at i:27694792 original size:59 final size:57
Alignment explanation
Indices: 27694599--27694825 Score: 258
Period size: 58 Copynumber: 3.9 Consensus size: 57
27694589 ACTCTCAAGT
* * *
27694599 TTTCCAAAATTCCATTTTTACCCTCGATTTTACCAAAATTACCATCTTACCCCCAAAC
1 TTTCCAAAATTCCATTTTTAACC-CAATTTTACCAAAATTACCATTTTACCCCCAAAC
* *
27694657 TTTCTAAAATTCCATTTTTAACCCTAATTTTACCAAAGTTACCATTTTACCCCCAAAC
1 TTTCCAAAATTCCATTTTTAACCC-AATTTTACCAAAATTACCATTTTACCCCCAAAC
* * * * ***
27694715 TTTCCAAAATTCTATTTTTAACCTCGATTTTACCAAAAAATAACATTTTACCCTTGAAC
1 TTTCCAAAATTCCATTTTTAACC-CAATTTTACC-AAAATTACCATTTTACCCCCAAAC
* * *
27694774 TTTCCAAAA-TCTCGTTTTTGACCCAATTTCGACCAAAATTACCATTTTACCC
1 TTTCCAAAATTC-CATTTTTAACCCAATTT-TACCAAAATTACCATTTTACCC
27694826 TCGGATATCC
Statistics
Matches: 143, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
57 1 0.01
58 103 0.72
59 39 0.27
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (57 bp):
TTTCCAAAATTCCATTTTTAACCCAATTTTACCAAAATTACCATTTTACCCCCAAAC
Found at i:27695169 original size:95 final size:96
Alignment explanation
Indices: 27695029--27695217 Score: 242
Period size: 95 Copynumber: 2.0 Consensus size: 96
27695019 AAAACTTTAA
* * **
27695029 AATCAAGGCAATATTCTCTTATTTCGAGTTTCGAAATCTTGCGCCTTAACTTACTAGGTGCGATT
1 AATCAAGGCAATATTCTCTTATTTCGAGTTTCGAAATCTTGCGCCTTAACTCACTAGGTGCAACC
*
27695094 TTTCTTCAAATCGAAATAATCGAATATCCTT
66 CTTCTTCAAATCGAAATAATCGAATATCCTT
*
27695125 AATCAAGGCGATATT-TCTTATCTTCGA--TTCTGAAAAT-TTGCGCCTTAACTCACTAGGTGCA
1 AATCAAGGCAATATTCTCTTAT-TTCGAGTTTC-G-AAATCTTGCGCCTTAACTCACTAGGTGCA
* * *
27695186 ACCCTTCTTTAAATCGAGATAATTGAATATCC
63 ACCCTTCTTCAAATCGAAATAATCGAATATCC
27695218 CTTTTCCAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
94 3 0.04
95 55 0.68
96 23 0.28
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.36
Consensus pattern (96 bp):
AATCAAGGCAATATTCTCTTATTTCGAGTTTCGAAATCTTGCGCCTTAACTCACTAGGTGCAACC
CTTCTTCAAATCGAAATAATCGAATATCCTT
Found at i:27696644 original size:25 final size:26
Alignment explanation
Indices: 27696615--27696674 Score: 95
Period size: 25 Copynumber: 2.3 Consensus size: 26
27696605 AAAAACAAAC
27696615 ATATTTTAAAAAATAAACATA-GATA
1 ATATTTTAAAAAATAAACATACGATA
27696640 ATATTTTAAAAAATAAACATACGATA
1 ATATTTTAAAAAATAAACATACGATA
* *
27696666 TTTTTTTAA
1 ATATTTTAA
27696675 GGCTACTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 21 0.66
26 11 0.34
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (26 bp):
ATATTTTAAAAAATAAACATACGATA
Found at i:27697897 original size:22 final size:24
Alignment explanation
Indices: 27697858--27697903 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
27697848 TTAATTAATG
*
27697858 CAACATTCAAATTCATTTAAATTT
1 CAACAATCAAATTCATTTAAATTT
27697882 CAACAATC-AATT-ATTTAAATTT
1 CAACAATCAAATTCATTTAAATTT
27697904 ATTTTAGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
23 4 0.19
24 7 0.33
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.41
Consensus pattern (24 bp):
CAACAATCAAATTCATTTAAATTT
Found at i:27697932 original size:11 final size:10
Alignment explanation
Indices: 27697918--27697974 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
27697908 TAGATATAAT
27697918 TTAAAATATTA
1 TTAAAA-ATTA
27697929 TT-AAAATTA
1 TTAAAAATTA
* *
27697938 TAAAAAAATA
1 TTAAAAATTA
*
27697948 GTAAAAATTA
1 TTAAAAATTA
27697958 TTAAAAGATTA
1 TTAAAA-ATTA
27697969 -TAAAAA
1 TTAAAAA
27697975 AATTAAATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 6 0.16
10 26 0.68
11 6 0.16
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:27697969 original size:31 final size:30
Alignment explanation
Indices: 27697919--27697977 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 30
27697909 AGATATAATT
27697919 TAAAATATTATTAAAATTATAAAAAAATAG
1 TAAAATATTATTAAAATTATAAAAAAATAG
27697949 TAAAA-ATTATTAAAAGATTATAAAAAAAT
1 TAAAATATTATT-AAA-ATTATAAAAAAAT
27697978 TAAATTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 6 0.22
30 8 0.30
31 13 0.48
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (30 bp):
TAAAATATTATTAAAATTATAAAAAAATAG
Found at i:27697972 original size:20 final size:20
Alignment explanation
Indices: 27697918--27697974 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
27697908 TAGATATAAT
* *
27697918 TTAAAATATTATTAAAATTA
1 TTAAAAAATTATAAAAATTA
*
27697938 -TAAAAAAATAGTAAAAATTA
1 TTAAAAAATTA-TAAAAATTA
*
27697958 TTAAAAGATTATAAAAA
1 TTAAAAAATTATAAAAA
27697975 AATTAAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 8 0.27
20 14 0.47
21 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
TTAAAAAATTATAAAAATTA
Found at i:27697979 original size:11 final size:11
Alignment explanation
Indices: 27697931--27697979 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
27697921 AAATATTATT
27697931 AAAATTATAAA
1 AAAATTATAAA
27697942 AAAA-TAGT--A
1 AAAATTA-TAAA
*
27697951 AAAATTATTAA
1 AAAATTATAAA
*
27697962 AAGATTATAAA
1 AAAATTATAAA
27697973 AAAATTA
1 AAAATTA
27697980 AATTAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
9 6 0.19
10 4 0.13
11 21 0.68
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:27698507 original size:19 final size:19
Alignment explanation
Indices: 27698483--27698523 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
27698473 CATTATAAAC
27698483 TTACTA-TTTTAAATAATTT
1 TTACTACTTTTAAA-AATTT
*
27698502 TTACTACTTTTTAAAATTT
1 TTACTACTTTTAAAAATTT
27698521 TTA
1 TTA
27698524 TAATATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (19 bp):
TTACTACTTTTAAAAATTT
Found at i:27703970 original size:2 final size:2
Alignment explanation
Indices: 27703958--27703987 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
27703948 GATGGTCCTT
27703958 TC TC TC ATC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC -TC TC TC TC TC TC TC TC TC TC TC T
27703988 TATTTTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:27713241 original size:3 final size:3
Alignment explanation
Indices: 27713228--27713307 Score: 124
Period size: 3 Copynumber: 26.3 Consensus size: 3
27713218 TTTAATCCAA
* * *
27713228 TTC TCTC TTC TTC TTC TCC TTC TTC TCC TTC TTC ATC TTC TTC TTC
1 TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
27713274 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
27713308 ATTTTATTAC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
3 67 0.96
4 3 0.04
ACGTcount: A:0.01, C:0.36, G:0.00, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:27724092 original size:39 final size:40
Alignment explanation
Indices: 27724047--27724125 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
27724037 ATTTGTTCAG
*
27724047 ATCTATTCTTGTGAAATAA-TTTTTTATTAATATTTGCCA
1 ATCTATTCTTGTAAAATAATTTTTTTATTAATATTTGCCA
27724086 ATCTATTCTTGTAAAATAATTTTTTTATTAATATTTGCCA
1 ATCTATTCTTGTAAAATAATTTTTTTATTAATATTTGCCA
27724126 CATATGACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 18 0.47
40 20 0.53
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (40 bp):
ATCTATTCTTGTAAAATAATTTTTTTATTAATATTTGCCA
Found at i:27726783 original size:64 final size:64
Alignment explanation
Indices: 27726682--27726804 Score: 246
Period size: 64 Copynumber: 1.9 Consensus size: 64
27726672 ACACATTCAC
27726682 GAACCAAAATCCAAACAACTTTCTTCTCCAATCCCCGTCTCCAACTATCAAATTGACTTAGATT
1 GAACCAAAATCCAAACAACTTTCTTCTCCAATCCCCGTCTCCAACTATCAAATTGACTTAGATT
27726746 GAACCAAAATCCAAACAACTTTCTTCTCCAATCCCCGTCTCCAACTATCAAATTGACTT
1 GAACCAAAATCCAAACAACTTTCTTCTCCAATCCCCGTCTCCAACTATCAAATTGACTT
27726805 GAATCTAAGG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.34, C:0.33, G:0.06, T:0.28
Consensus pattern (64 bp):
GAACCAAAATCCAAACAACTTTCTTCTCCAATCCCCGTCTCCAACTATCAAATTGACTTAGATT
Found at i:27726954 original size:31 final size:31
Alignment explanation
Indices: 27726919--27726977 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
27726909 TAATCCAGTG
27726919 ACTTAAATGAAAACTTTCAAATAATTCAACT
1 ACTTAAATGAAAACTTTCAAATAATTCAACT
*
27726950 ACTTAAATGAAAACTTTCAAGTAATTCA
1 ACTTAAATGAAAACTTTCAAATAATTCA
27726978 GTAAACATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.32
Consensus pattern (31 bp):
ACTTAAATGAAAACTTTCAAATAATTCAACT
Found at i:27733117 original size:3 final size:3
Alignment explanation
Indices: 27733109--27733160 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
27733099 ATAACAAGAT
27733109 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
27733157 ATA A
1 ATA A
27733161 ATCATATTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:27733366 original size:3 final size:3
Alignment explanation
Indices: 27733360--27733395 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
27733350 ACAGTAGTAG
*
27733360 TAA TAA TAA TAA TAA TAA TAA TAC TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
27733396 AACAGAGAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:27741981 original size:17 final size:18
Alignment explanation
Indices: 27741946--27741986 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
27741936 ATTTTTTAGG
*
27741946 TTTAAATTTATTATTAAA
1 TTTAAATTCATTATTAAA
27741964 TTTAAATTCATT-TTAAA
1 TTTAAATTCATTATTAAA
27741981 TTTAAA
1 TTTAAA
27741987 ATATTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTAAATTCATTATTAAA
Found at i:27744011 original size:30 final size:30
Alignment explanation
Indices: 27743946--27744022 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
27743936 GGAGGTCTCT
* *
27743946 AAACTGTTC-AAAAATTGTATTTTGAACCCT
1 AAACT-TTCTAAAAATTATATTTTGAACCCA
* *
27743976 GAAC-TTCTTAAAAATTATATTTTGACCCCA
1 AAACTTTC-TAAAAATTATATTTTGAACCCA
27744006 AAACTTTCTAAAAATTA
1 AAACTTTCTAAAAATTA
27744023 CCATTCTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 3 0.08
30 33 0.85
31 3 0.08
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.36
Consensus pattern (30 bp):
AAACTTTCTAAAAATTATATTTTGAACCCA
Found at i:27744092 original size:29 final size:28
Alignment explanation
Indices: 27744060--27744210 Score: 96
Period size: 29 Copynumber: 5.2 Consensus size: 28
27744050 CTCATTTGTA
27744060 ACCCCGATTTCACCAAAAATTACCATTTT
1 ACCCCGATTT-ACCAAAAATTACCATTTT
*
27744089 ACCCTTGAACTTT-CC-AAAATT-CCATTTTT
1 ACCC-CG-A-TTTACCAAAAATTACCA-TTTT
* *
27744118 AACCTCGATTTTACCAAAAATTACCATTTC
1 -ACCCCGA-TTTACCAAAAATTACCATTTT
* **
27744148 ACCCCCAACTATCC-AAAATT-CCATTTTT
1 ACCCCGATTTA-CCAAAAATTACCA-TTTT
* *
27744176 GACCTCGATTTCACCAAAAATTACCATTTC
1 -ACCCCGATTT-ACCAAAAATTACCATTTT
27744206 ACCCC
1 ACCCC
27744211 CGAACTTTTC
Statistics
Matches: 92, Mismatches: 16, Indels: 28
0.68 0.12 0.21
Matches are distributed among these distances:
27 3 0.03
28 18 0.20
29 36 0.39
30 25 0.27
31 7 0.08
32 3 0.03
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.32
Consensus pattern (28 bp):
ACCCCGATTTACCAAAAATTACCATTTT
Found at i:27744182 original size:58 final size:58
Alignment explanation
Indices: 27744037--27744248 Score: 284
Period size: 59 Copynumber: 3.6 Consensus size: 58
27744027 TCTTCTCCTG
* * * * * **
27744037 AACTTTCTAAAA-TCTCATTTGTAACCCCGATTTCACCAAAAATTACCATTTTACCCTTG
1 AACTTTCCAAAATTC-CATTTTTGACCTCGATTTCACCAAAAATTACCATTTCACCC-CC
* *
27744096 AACTTTCCAAAATTCCATTTTTAACCTCGATTTTACCAAAAATTACCATTTCACCCCC
1 AACTTTCCAAAATTCCATTTTTGACCTCGATTTCACCAAAAATTACCATTTCACCCCC
*
27744154 AACTATCCAAAATTCCATTTTTGACCTCGATTTCACCAAAAATTACCATTTCACCCCC
1 AACTTTCCAAAATTCCATTTTTGACCTCGATTTCACCAAAAATTACCATTTCACCCCC
*
27744212 GAACTTTTCAAAATTCCATTTTTGACC-CGATTTCACC
1 -AACTTTCCAAAATTCCATTTTTGACCTCGATTTCACC
27744249 CCCGAACTTT
Statistics
Matches: 139, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
58 65 0.47
59 72 0.52
60 2 0.01
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (58 bp):
AACTTTCCAAAATTCCATTTTTGACCTCGATTTCACCAAAAATTACCATTTCACCCCC
Found at i:27744256 original size:40 final size:40
Alignment explanation
Indices: 27744201--27744279 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
27744191 AAAAATTACC
*
27744201 ATTTCACCCCCGAACTTTTCAAAATTCCATTTTTGACCCG
1 ATTTCACCCCCGAACTTTCCAAAATTCCATTTTTGACCCG
*
27744241 ATTTCACCCCCGAACTTTCCAAAATTTCATTTTTGACCC
1 ATTTCACCCCCGAACTTTCCAAAATTCCATTTTTGACCC
27744280 TAATTTCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.25, C:0.33, G:0.06, T:0.35
Consensus pattern (40 bp):
ATTTCACCCCCGAACTTTCCAAAATTCCATTTTTGACCCG
Found at i:27744323 original size:99 final size:98
Alignment explanation
Indices: 27744143--27744338 Score: 241
Period size: 99 Copynumber: 2.0 Consensus size: 98
27744133 AAAAATTACC
* * *
27744143 ATTTCACCCCCAACTATCCAAAATTCCATTTTTGACCTCGATTTCACCAAAAATTACCATTTCAC
1 ATTTCACCCCCAACTATCCAAAATTCCATTTTTGACCTCAATTTCACAAAAAAATACCATTTCAC
* * * * *
27744208 CCCCGAACTTTTCAAAATTCCATTTTTGACCCG
66 CCCCAAACCTTCCAAAATCCCATTTTTAACCCG
* * * * *
27744241 ATTTCACCCCCGAACTTTCCAAAATTTCATTTTTGACC-CTAATTTCATAAAAAAATGCCATTTT
1 ATTTCACCCCC-AACTATCCAAAATTCCATTTTTGACCTC-AATTTCACAAAAAAATACCATTTC
*
27744305 ACCCCTAAACCTTCCAAAATCCCATTTTTAACCC
64 ACCCCCAAACCTTCCAAAATCCCATTTTTAACCC
27744339 CGAATTTTCC
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
98 12 0.15
99 70 0.85
ACGTcount: A:0.31, C:0.32, G:0.04, T:0.33
Consensus pattern (98 bp):
ATTTCACCCCCAACTATCCAAAATTCCATTTTTGACCTCAATTTCACAAAAAAATACCATTTCAC
CCCCAAACCTTCCAAAATCCCATTTTTAACCCG
Found at i:27747236 original size:21 final size:22
Alignment explanation
Indices: 27747205--27747247 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
27747195 TGCATTTAAT
27747205 TAATATTTTAAATTTAAAAATA
1 TAATATTTTAAATTTAAAAATA
* *
27747227 TAAT-TTTTAATTTTTAAAATA
1 TAATATTTTAAATTTAAAAATA
27747248 GATTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TAATATTTTAAATTTAAAAATA
Found at i:27747254 original size:21 final size:21
Alignment explanation
Indices: 27747210--27747255 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
27747200 TTAATTAATA
*
27747210 TTTTAAATTTAAAAATATAAT
1 TTTTAAATTTAAAAATAGAAT
* * *
27747231 TTTTAATTTTTAAAATAGATT
1 TTTTAAATTTAAAAATAGAAT
27747252 TTTT
1 TTTT
27747256 TATTATCTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTTAAATTTAAAAATAGAAT
Found at i:27751494 original size:20 final size:22
Alignment explanation
Indices: 27751476--27751519 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
27751466 GAGGCAGCAT
27751476 ACCTGTCCAACT-TGCAGCAGC
1 ACCTGTCCAACTGTGCAGCAGC
27751497 ACCTGTCCAACTGTGCAG-AGC
1 ACCTGTCCAACTGTGCAGCAGC
27751518 AC
1 AC
27751520 TGGTTGTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.25, C:0.36, G:0.20, T:0.18
Consensus pattern (22 bp):
ACCTGTCCAACTGTGCAGCAGC
Found at i:27755723 original size:41 final size:38
Alignment explanation
Indices: 27755678--27755760 Score: 105
Period size: 41 Copynumber: 2.1 Consensus size: 38
27755668 GTTTTGGTTT
* *
27755678 TTTTTATTGTTTTGGTTGCTTTTTTTGCTGTTTTGA-TGTTG
1 TTTTTACTGTTTTGGTT--TTTTTAT--TGTTTTGATTGTTG
27755719 TTTTTACTGTTTTGGTTTTTTTATTGTTTTGATTGTTG
1 TTTTTACTGTTTTGGTTTTTTTATTGTTTTGATTGTTG
27755757 TTTT
1 TTTT
27755761 GGTGTTGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
37 8 0.21
38 9 0.23
39 6 0.15
41 16 0.41
ACGTcount: A:0.06, C:0.04, G:0.19, T:0.71
Consensus pattern (38 bp):
TTTTTACTGTTTTGGTTTTTTTATTGTTTTGATTGTTG
Found at i:27755755 original size:35 final size:34
Alignment explanation
Indices: 27755666--27755786 Score: 91
Period size: 35 Copynumber: 3.3 Consensus size: 34
27755656 AATTATATTG
* * *
27755666 TTGTTTTGGTTTTTTTTATTGTTTTGGTTGCTTTTTT
1 TTGTTTTGATTGTTTTTA-TGTTTTGGTT--TTTTTA
27755703 TGCTGTTTTGATGTTGTTTTTACTGTTTTGGTTTTTTTA
1 T--TGTTTTGA--TTGTTTTTA-TGTTTTGGTTTTTTTA
* *
27755742 TTGTTTTGATTGTTGTTT-TGGTGTTGTTTTTTTTA
1 TTGTTTTGATTGTT-TTTAT-GTTTTGGTTTTTTTA
*
27755777 CTGTTTTGAT
1 TTGTTTTGAT
27755787 GTTATTTTTG
Statistics
Matches: 71, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
34 1 0.01
35 27 0.38
36 3 0.04
37 9 0.13
39 13 0.18
41 18 0.25
ACGTcount: A:0.06, C:0.03, G:0.21, T:0.70
Consensus pattern (34 bp):
TTGTTTTGATTGTTTTTATGTTTTGGTTTTTTTA
Found at i:27755794 original size:20 final size:19
Alignment explanation
Indices: 27755667--27755795 Score: 92
Period size: 20 Copynumber: 6.9 Consensus size: 19
27755657 ATTATATTGT
* *
27755667 TGTTTTGGT-TTTTTTTAT
1 TGTTTTGATGTTTTTTTAC
* *
27755685 TGTTTTGGTTGCTTTTTTTGC
1 TGTTTT-GATG-TTTTTTTAC
27755706 TGTTTTGATGTTGTTTTTAC
1 TGTTTTGATGTT-TTTTTAC
*
27755726 TGTTTTG--GTTTTTTTAT
1 TGTTTTGATGTTTTTTTAC
*
27755743 TGTTTTGATTGTTGTTTT--
1 TGTTTTGA-TGTTTTTTTAC
* *
27755761 GGTGTTG-T-TTTTTTTAC
1 TGTTTTGATGTTTTTTTAC
27755778 TGTTTTGATGTTATTTTT
1 TGTTTTGATGTT-TTTTT
27755796 GTTGCTATTG
Statistics
Matches: 87, Mismatches: 12, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
15 6 0.07
16 1 0.01
17 18 0.21
18 15 0.17
19 6 0.07
20 28 0.32
21 13 0.15
ACGTcount: A:0.06, C:0.03, G:0.20, T:0.71
Consensus pattern (19 bp):
TGTTTTGATGTTTTTTTAC
Found at i:27755795 original size:12 final size:12
Alignment explanation
Indices: 27755780--27755864 Score: 72
Period size: 12 Copynumber: 7.4 Consensus size: 12
27755770 TTTTTTACTG
*
27755780 TTTTGATGTTAT
1 TTTTGTTGTTAT
*
27755792 TTTTGTTGCTAT
1 TTTTGTTGTTAT
* * *
27755804 TGTTGCTGTTGT
1 TTTTGTTGTTAT
*
27755816 TTTTGTTGCTAT
1 TTTTGTTGTTAT
27755828 TTTTGTTGTT-T
1 TTTTGTTGTTAT
27755839 TTATTGTTG----
1 TT-TTGTTGTTAT
27755848 TTTTGTTGTTAT
1 TTTTGTTGTTAT
27755860 TTTTG
1 TTTTG
27755865 CTACAGTTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
8 6 0.11
9 2 0.04
11 3 0.05
12 46 0.81
ACGTcount: A:0.07, C:0.04, G:0.20, T:0.69
Consensus pattern (12 bp):
TTTTGTTGTTAT
Found at i:27755796 original size:35 final size:34
Alignment explanation
Indices: 27755692--27755796 Score: 102
Period size: 35 Copynumber: 2.9 Consensus size: 34
27755682 TATTGTTTTG
* *
27755692 GTTGCTTTTTTTGCTGTTTTGATGTTGTTTTTACTGT
1 GTTGCTTTTTTTACTGTTTTGATGTT-TTTTT--GGT
* * * *
27755729 TTTGGTTTTTTTATTGTTTTGATTGTTGTTTTGGT
1 GTTGCTTTTTTTACTGTTTTGA-TGTTTTTTTGGT
*
27755764 GTTGTTTTTTTTACTGTTTTGATGTTATTTTTG
1 GTTGCTTTTTTTACTGTTTTGATGTT-TTTTTG
27755797 TTGCTATTGT
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
34 4 0.07
35 26 0.46
37 22 0.39
38 4 0.07
ACGTcount: A:0.07, C:0.04, G:0.21, T:0.69
Consensus pattern (34 bp):
GTTGCTTTTTTTACTGTTTTGATGTTTTTTTGGT
Found at i:27755838 original size:56 final size:56
Alignment explanation
Indices: 27755778--27755909 Score: 142
Period size: 56 Copynumber: 2.4 Consensus size: 56
27755768 TTTTTTTTAC
*** *
27755778 TGTTTTGATGTTATTTTTGTTGCTATTGTTGCTGTTGTTTTTG-TTGCTATTTTTGT
1 TGTTTTGATGTTATTTTTGTTGCTATTGTTGCTACAG-TTTTGATTGCTATTTTGGT
* * * * *
27755834 TGTTTTTATTGTT-GTTTTGTTGTTATTTTTGCTACAGTTTTGATTGTTATTTTGGT
1 TGTTTTGA-TGTTATTTTTGTTGCTATTGTTGCTACAGTTTTGATTGCTATTTTGGT
*
27755890 TGTTTGGATGTTATTTTTGT
1 TGTTTTGATGTTATTTTTGT
27755910 GTTTTTATTA
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
55 9 0.15
56 48 0.79
57 4 0.07
ACGTcount: A:0.09, C:0.04, G:0.21, T:0.66
Consensus pattern (56 bp):
TGTTTTGATGTTATTTTTGTTGCTATTGTTGCTACAGTTTTGATTGCTATTTTGGT
Found at i:27755863 original size:24 final size:23
Alignment explanation
Indices: 27755675--27755863 Score: 72
Period size: 23 Copynumber: 8.2 Consensus size: 23
27755665 GTTGTTTTGG
* *
27755675 TTTTTTTTATTGTTTTG--GTTG
1 TTTTTTTTGTTGTTTTGTTGTTA
* * * *
27755696 CTTTTTTTGCTGTTTTGATGTTG
1 TTTTTTTTGTTGTTTTGTTGTTA
*
27755719 TTTTTACTGTT-TTGGTTT-TT-TTA
1 TTTTT--T-TTGTTGTTTTGTTGTTA
* *
27755742 TTGTTTTGATTGTTGTTTTGGTGTTG
1 TT-TTTT--TTGTTGTTTTGTTGTTA
** *
27755768 TTTTTTTTACTGTTTTGATGTTA
1 TTTTTTTTGTTGTTTTGTTGTTA
* * *
27755791 ---TTTTTGTTGCTATTGTTGCTG
1 TTTTTTTTGTTG-TTTTGTTGTTA
* *
27755812 TTGTTTTTGTTGCTATTT-TTGTTG
1 TTTTTTTTGTTG-T-TTTGTTGTTA
*
27755836 TTTTTATTGTTGTTTTGTTGTTA
1 TTTTTTTTGTTGTTTTGTTGTTA
27755859 TTTTT
1 TTTTT
27755864 GCTACAGTTT
Statistics
Matches: 125, Mismatches: 27, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
20 7 0.06
21 21 0.17
22 4 0.03
23 38 0.30
24 36 0.29
25 13 0.10
26 6 0.05
ACGTcount: A:0.06, C:0.04, G:0.20, T:0.70
Consensus pattern (23 bp):
TTTTTTTTGTTGTTTTGTTGTTA
Found at i:27755923 original size:20 final size:21
Alignment explanation
Indices: 27755900--27755947 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
27755890 TGTTTGGATG
*
27755900 TTATTT-TTGTGTTTTTATTA
1 TTATTTCTTGTGTTTTTAATA
*
27755920 TTATTTCGTTGTTTTTTTAATA
1 TTATTTC-TTGTGTTTTTAATA
27755942 TTATTT
1 TTATTT
27755948 GAATATTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
22 18 0.75
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.73
Consensus pattern (21 bp):
TTATTTCTTGTGTTTTTAATA
Found at i:27755936 original size:22 final size:22
Alignment explanation
Indices: 27755906--27755947 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
27755896 GATGTTATTT
*
27755906 TTGTGTTTTTATTATTATTTCG
1 TTGTGTTTTTAATATTATTTCG
*
27755928 TTGTTTTTTTAATATTATTT
1 TTGTGTTTTTAATATTATTT
27755948 GAATATTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (22 bp):
TTGTGTTTTTAATATTATTTCG
Found at i:27756049 original size:17 final size:19
Alignment explanation
Indices: 27756019--27756070 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
27756009 TATAAAAAAA
27756019 TTTTAATGTATTTTAA-ATT
1 TTTTAATGT-TTTTAATATT
27756038 TGTTT-AT-TTTTTAATATT
1 T-TTTAATGTTTTTAATATT
27756056 TTTTAATGTTTTTAA
1 TTTTAATGTTTTTAA
27756071 GTTTATTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 9 0.31
18 7 0.24
19 10 0.34
20 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTAATGTTTTTAATATT
Found at i:27757291 original size:20 final size:21
Alignment explanation
Indices: 27757262--27757306 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
27757252 AAATTATAAA
27757262 AAAATTCAAAA-TA-ATTTTT
1 AAAATTCAAAATTATATTTTT
27757281 AAAATTCCAAAATTATATTTTT
1 AAAATT-CAAAATTATATTTTT
27757303 AAAA
1 AAAA
27757307 ATATATAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 5 0.22
21 2 0.09
22 10 0.43
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAATTCAAAATTATATTTTT
Found at i:27757342 original size:32 final size:31
Alignment explanation
Indices: 27757302--27757364 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
27757292 ATTATATTTT
* *
27757302 TAAAAATATATAGAAA-AATTTAAAAATATTA
1 TAAAAATATATA-AAAGAAGTTAAAAAAATTA
27757333 TAAAGAATATATAAAAGAAGTTAAAAAAATTA
1 TAAA-AATATATAAAAGAAGTTAAAAAAATTA
27757365 ATTTTTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 7 0.25
32 21 0.75
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (31 bp):
TAAAAATATATAAAAGAAGTTAAAAAAATTA
Found at i:27759692 original size:16 final size:17
Alignment explanation
Indices: 27759661--27759693 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27759651 TACCTAACAT
*
27759661 TTTCATTAATAATTTTA
1 TTTCATTAAAAATTTTA
27759678 TTTCA-TAAAAATTTTA
1 TTTCATTAAAAATTTTA
27759694 ACATCTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTCATTAAAAATTTTA
Found at i:27760704 original size:5 final size:5
Alignment explanation
Indices: 27760694--27760719 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
27760684 ATTTAAGTTA
27760694 GTGAT GTGAT GTGAT GTGAT GTGAT G
1 GTGAT GTGAT GTGAT GTGAT GTGAT G
27760720 GAGGTATAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.38
Consensus pattern (5 bp):
GTGAT
Found at i:27768260 original size:11 final size:12
Alignment explanation
Indices: 27768238--27768295 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
27768228 TAATAACAAA
27768238 TTTTAATAATAT
1 TTTTAATAATAT
27768250 TTTTAAT-ATAT
1 TTTTAATAATAT
*
27768261 TATTGAA-AATAT
1 T-TTTAATAATAT
* *
27768273 TTAATATTAATA-
1 TT-TTAATAATAT
27768285 TTTTAATAATA
1 TTTTAATAATA
27768296 AATATTTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
11 13 0.36
12 19 0.53
13 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (12 bp):
TTTTAATAATAT
Found at i:27770535 original size:17 final size:18
Alignment explanation
Indices: 27770513--27770554 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
27770503 ACCATTTCAT
27770513 TTATAAT-TATGAAAATA
1 TTATAATATATGAAAATA
* *
27770530 TTATAAATATTTGAAAATG
1 TTAT-AATATATGAAAATA
27770549 TTATAA
1 TTATAA
27770555 CATAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 4 0.19
18 5 0.24
19 12 0.57
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (18 bp):
TTATAATATATGAAAATA
Found at i:27771259 original size:16 final size:17
Alignment explanation
Indices: 27771218--27771264 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
27771208 ATTGATTCTT
*
27771218 TAATTTATCAAAGAACTA
1 TAATTTAT-AAATAACTA
*
27771236 TTATTTATAAATAAC-A
1 TAATTTATAAATAACTA
27771252 TAATTTATAAATA
1 TAATTTATAAATA
27771265 TAAATAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 13 0.50
17 6 0.23
18 7 0.27
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.40
Consensus pattern (17 bp):
TAATTTATAAATAACTA
Found at i:27780694 original size:77 final size:77
Alignment explanation
Indices: 27780567--27780727 Score: 322
Period size: 77 Copynumber: 2.1 Consensus size: 77
27780557 GTAGAGATAA
27780567 CAAAAATGCTGCCTTAGTCGTTCTCCTCTCATGATTACAAGGAAACAAATTTGAAAGCAAAACTG
1 CAAAAATGCTGCCTTAGTCGTTCTCCTCTCATGATTACAAGGAAACAAATTTGAAAGCAAAACTG
27780632 ATGCTTAATATG
66 ATGCTTAATATG
27780644 CAAAAATGCTGCCTTAGTCGTTCTCCTCTCATGATTACAAGGAAACAAATTTGAAAGCAAAACTG
1 CAAAAATGCTGCCTTAGTCGTTCTCCTCTCATGATTACAAGGAAACAAATTTGAAAGCAAAACTG
27780709 ATGCTTAATATG
66 ATGCTTAATATG
27780721 CAAAAAT
1 CAAAAAT
27780728 AACACCATTA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 84 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (77 bp):
CAAAAATGCTGCCTTAGTCGTTCTCCTCTCATGATTACAAGGAAACAAATTTGAAAGCAAAACTG
ATGCTTAATATG
Found at i:27780760 original size:77 final size:77
Alignment explanation
Indices: 27780602--27780760 Score: 189
Period size: 77 Copynumber: 2.1 Consensus size: 77
27780592 CTCTCATGAT
* * * *
27780602 TACAAGGAAACAAATTTGAAAGCAAAACTGATGCTTAATATGCAAAAATGCTGCCTTAGTCGTTC
1 TACAAGGAAACAAATTTGAAAGCAAAACTGATGCTTAATATGCAAAAATACTACCTTAGTCATCC
** * *
27780667 TCCTCTCATGAT
66 TCAACTCATCAC
*
27780679 TACAAGGAAACAAATTTGAAAGCAAAACTGATGCTTAATATGCAAAAATAAC-ACCATTATTCAT
1 TACAAGGAAACAAATTTGAAAGCAAAACTGATGCTTAATATGCAAAAAT-ACTACC-TTAGTCAT
27780743 CCT-AAC-CATTCAC
64 CCTCAACTCA-TCAC
27780756 TACAA
1 TACAA
27780761 TCCCAAGGGG
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
76 2 0.03
77 59 0.84
78 9 0.13
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (77 bp):
TACAAGGAAACAAATTTGAAAGCAAAACTGATGCTTAATATGCAAAAATACTACCTTAGTCATCC
TCAACTCATCAC
Found at i:27793998 original size:19 final size:19
Alignment explanation
Indices: 27793970--27794016 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
27793960 CTAATATAAT
*
27793970 TTATTCAAATAGAAAAAAC
1 TTATTTAAATAGAAAAAAC
* *
27793989 TTATTTAAAT-GAAAATAT
1 TTATTTAAATAGAAAAAAC
27794007 TTA-TTAAATA
1 TTATTTAAATA
27794017 TATTGTCACC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 6 0.25
18 9 0.38
19 9 0.38
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (19 bp):
TTATTTAAATAGAAAAAAC
Found at i:27794010 original size:18 final size:19
Alignment explanation
Indices: 27793967--27794016 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
27793957 TTACTAATAT
*
27793967 AATTTATTCAAATAGAAAA
1 AATTTATTTAAATAGAAAA
*
27793986 AACTTATTTAAAT-GAAAA
1 AATTTATTTAAATAGAAAA
*
27794004 TATTTA-TTAAATA
1 AATTTATTTAAATA
27794017 TATTGTCACC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 6 0.23
18 9 0.35
19 11 0.42
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (19 bp):
AATTTATTTAAATAGAAAA
Found at i:27798457 original size:43 final size:43
Alignment explanation
Indices: 27798376--27798499 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
27798366 TTTGTTAATA
* *
27798376 TTAGTGGCGTTTGTAGAAAAATGC-CC-CTAAAGATCATGTTCT
1 TTAGTGGCGTTTGTGGGAAAA-GCGCCGCTAAAGATCATGTTCT
*
27798418 TTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
1 TTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTCT
* * * *
27798461 TTAGCGGTGTTTGTGAGATAAGCGCCGCTAAAGATCATG
1 TTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATG
27798500 GTCTGTAACA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
41 2 0.03
42 21 0.29
43 49 0.68
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTCT
Found at i:27802922 original size:19 final size:21
Alignment explanation
Indices: 27802874--27802922 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
27802864 ATCCTCATCA
27802874 CAGACTCATCAGCCTCAGCCT
1 CAGACTCATCAGCCTCAGCCT
*
27802895 CA-ACT-ATCAGCTTCAG-C-
1 CAGACTCATCAGCCTCAGCCT
27802912 CAGACTCATCA
1 CAGACTCATCA
27802923 TCTTGTGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.08
18 4 0.16
19 14 0.56
20 3 0.12
21 2 0.08
ACGTcount: A:0.29, C:0.39, G:0.12, T:0.20
Consensus pattern (21 bp):
CAGACTCATCAGCCTCAGCCT
Found at i:27807184 original size:15 final size:15
Alignment explanation
Indices: 27807164--27807193 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27807154 TCAAAACCAA
27807164 TATTTTTACAATATT
1 TATTTTTACAATATT
27807179 TATTTTTACAATATT
1 TATTTTTACAATATT
27807194 CAATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTTTACAATATT
Found at i:27807199 original size:16 final size:15
Alignment explanation
Indices: 27807165--27807201 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
27807155 CAAAACCAAT
*
27807165 ATTTTTACAATATTT
1 ATTTTTACAATATTA
27807180 ATTTTTACAATATTCA
1 ATTTTTACAATATT-A
27807196 ATTTTT
1 ATTTTT
27807202 TTTAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTTACAATATTA
Found at i:27807217 original size:18 final size:19
Alignment explanation
Indices: 27807176--27807218 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
27807166 TTTTTACAAT
*
27807176 ATTTATTTTTACAATATTCA
1 ATTT-TTTTTAAAATATTCA
*
27807196 ATTTTTTTTAAAATTTTC-
1 ATTTTTTTTAAAATATTCA
27807214 ATTTT
1 ATTTT
27807219 AAATTATGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 12 0.57
20 4 0.19
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTTTTAAAATATTCA
Found at i:27810598 original size:2 final size:2
Alignment explanation
Indices: 27810587--27810644 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
27810577 TTGAAATAAG
27810587 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27810628 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
27810645 TGCTAATGTT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27815299 original size:94 final size:95
Alignment explanation
Indices: 27815091--27815309 Score: 266
Period size: 94 Copynumber: 2.3 Consensus size: 95
27815081 AGTATGTTTC
** *
27815091 AAGGAATAAATTCCCTTTCAAATTTGTAATGTTGTGTGTTAAGAAATAGATTCCCCAACCAAAAA
1 AAGGAATAAATTCCCTTTCAAATTTGTAATGTTGCATGTGAAGAAATAGATTCCCCAACCAAAAA
*
27815156 AATATTCTTCACATTTGTAATAGTTGTGTA
66 AATATTCTTCACATTTCTAATAGTTGTGTA
* * ** *
27815186 AAGGAATAAAATCCCTTTCAAATTTGTAATAG-TGCATGTGAGGGGATAGGTTCCCCAA-CAAAA
1 AAGGAATAAATTCCCTTTCAAATTTGTAAT-GTTGCATGTGAAGAAATAGATTCCCCAACCAAAA
* *
27815249 AGATATT-TATCACATTTCTATTAGTTGTGTCA
65 AAATATTCT-TCACATTTCTAATAGTTGTGT-A
* *
27815281 TA-GAATAAATTCCATTTCAAATTTGTAAT
1 AAGGAATAAATTCCCTTTCAAATTTGTAAT
27815310 CATGTGTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
93 1 0.01
94 55 0.51
95 50 0.47
96 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (95 bp):
AAGGAATAAATTCCCTTTCAAATTTGTAATGTTGCATGTGAAGAAATAGATTCCCCAACCAAAAA
AATATTCTTCACATTTCTAATAGTTGTGTA
Found at i:27816847 original size:24 final size:23
Alignment explanation
Indices: 27816791--27816862 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
27816781 TCATTTAACT
*
27816791 TAATCGAACATGTTTACGAACAA
1 TAATCGAACATGTTCACGAACAA
* * * *
27816814 TAAACAAACATGTTCATGAATATA
1 TAATCGAACATGTTCACGAACA-A
* *
27816838 TAATCGAACATGGTCACAAACAA
1 TAATCGAACATGTTCACGAACAA
27816861 TA
1 TA
27816863 TTAATGAATA
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
23 20 0.54
24 17 0.46
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.25
Consensus pattern (23 bp):
TAATCGAACATGTTCACGAACAA
Found at i:27831426 original size:14 final size:14
Alignment explanation
Indices: 27831407--27831458 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
27831397 TTTTTATTAC
27831407 AAAATTAATACAAA
1 AAAATTAATACAAA
**
27831421 AAAATT-ATACACC
1 AAAATTAATACAAA
27831434 AAAATATAATACAAA
1 AAAAT-TAATACAAA
27831449 AAAATTAATA
1 AAAATTAATA
27831459 ACTTAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 10 0.31
14 12 0.38
15 10 0.31
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATTAATACAAA
Found at i:27831430 original size:13 final size:13
Alignment explanation
Indices: 27831407--27831455 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
27831397 TTTTTATTAC
27831407 AAAATTAATACAAA
1 AAAATT-ATACAAA
27831421 AAAATTATACACCAA
1 AAAATTATACA--AA
* *
27831436 AATATAATACAAA
1 AAAATTATACAAA
27831449 AAAATTA
1 AAAATTA
27831456 ATAACTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 12 0.41
14 6 0.21
15 11 0.38
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAATTATACAAA
Found at i:27831620 original size:28 final size:28
Alignment explanation
Indices: 27831585--27831678 Score: 77
Period size: 28 Copynumber: 3.3 Consensus size: 28
27831575 AATTAAATAT
27831585 TAAATAATAATAACTCAATATTTTTAAA
1 TAAATAATAATAACTCAATATTTTTAAA
*** *
27831613 TAAATAAT-ATAAAAAAATATTTATT-TA
1 TAAATAATAATAACTCAATATTT-TTAAA
* *
27831640 TCAAATAATAATAATCTCCAGATTTTTACAA
1 T-AAATAATAATAA-CTCAATATTTTTA-AA
27831671 T-AATAATA
1 TAAATAATA
27831679 TAAGAAAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
27 13 0.26
28 17 0.34
29 13 0.26
30 5 0.10
31 2 0.04
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.38
Consensus pattern (28 bp):
TAAATAATAATAACTCAATATTTTTAAA
Found at i:27831706 original size:56 final size:55
Alignment explanation
Indices: 27831577--27831708 Score: 160
Period size: 57 Copynumber: 2.3 Consensus size: 55
27831567 AAAAATTAAA
*
27831577 TTAAATATTAAATAATAATAACTCAATATTTTTAAATAAATAATATAAAAAAATAT
1 TTAAATA-TAAATAATAATAACTCAAGATTTTTAAATAAATAATATAAAAAAATAT
** *
27831633 TTATTTATCAAATAATAATAATCTCCAGATTTTTACAAT-AATAATATAAGAAAAA-AT
1 TTAAATAT-AAATAATAATAA-CTCAAGATTTTTA-AATAAATAATATAA-AAAAATAT
*
27831690 TTAAATATAAAAAATAATA
1 TTAAATATAAATAATAATA
27831709 CACTTTTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
55 1 0.02
56 27 0.42
57 29 0.45
58 8 0.12
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (55 bp):
TTAAATATAAATAATAATAACTCAAGATTTTTAAATAAATAATATAAAAAAATAT
Found at i:27831744 original size:15 final size:15
Alignment explanation
Indices: 27831724--27831758 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
27831714 TTATATATTT
27831724 TTAAATTAAAAAAAA
1 TTAAATTAAAAAAAA
*
27831739 TTAAATTAAATAAAA
1 TTAAATTAAAAAAAA
27831754 TTAAA
1 TTAAA
27831759 ATTTGACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TTAAATTAAAAAAAA
Found at i:27831873 original size:25 final size:25
Alignment explanation
Indices: 27831838--27831887 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
27831828 CAGATCTGTT
27831838 TAACAGCAAATTTTTGAAGAAGGAA
1 TAACAGCAAATTTTTGAAGAAGGAA
*
27831863 TAACAGTAAATTTTTGAAGAAGGAA
1 TAACAGCAAATTTTTGAAGAAGGAA
27831888 AGGAAGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.26
Consensus pattern (25 bp):
TAACAGCAAATTTTTGAAGAAGGAA
Found at i:27833826 original size:26 final size:26
Alignment explanation
Indices: 27833777--27833826 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
27833767 TCTATTTAAA
**
27833777 TTTGAATTTATTTAATAATTTTTATG
1 TTTGAATTTATTTAATAAGGTTTATG
*
27833803 TTTGAATTTATTTAATTAGGTTTA
1 TTTGAATTTATTTAATAAGGTTTA
27833827 GCAAATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (26 bp):
TTTGAATTTATTTAATAAGGTTTATG
Found at i:27833903 original size:6 final size:6
Alignment explanation
Indices: 27833892--27833932 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
27833882 ATATTTGCAT
*
27833892 ACATAA ACATAA ATA-AGA ACATAA ACATAA ACATAA ACATA
1 ACATAA ACATAA ACATA-A ACATAA ACATAA ACATAA ACATA
27833933 TTTAATGGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.66, C:0.15, G:0.02, T:0.17
Consensus pattern (6 bp):
ACATAA
Found at i:27834370 original size:6 final size:6
Alignment explanation
Indices: 27834359--27834389 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
27834349 ATAGTGCTGC
27834359 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA G
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA G
27834390 CCGGCTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.32, G:0.35, T:0.16
Consensus pattern (6 bp):
GGCTCA
Found at i:27836352 original size:13 final size:13
Alignment explanation
Indices: 27836336--27836363 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27836326 TAATTTTTTA
27836336 TTTTAAAAAATAT
1 TTTTAAAAAATAT
27836349 TTTTAAAAAATAT
1 TTTTAAAAAATAT
27836362 TT
1 TT
27836364 AATATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTAAAAAATAT
Found at i:27836376 original size:16 final size:17
Alignment explanation
Indices: 27836355--27836393 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
27836345 ATATTTTTAA
27836355 AAAATATTT-AATATAT
1 AAAATATTTAAATATAT
27836371 AAAATATTTAAATATAT
1 AAAATATTTAAATATAT
*
27836388 CAAATA
1 AAAATA
27836394 AATTAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATATTTAAATATAT
Found at i:27837639 original size:21 final size:21
Alignment explanation
Indices: 27837600--27837639 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27837590 TCTTAAAAGG
* *
27837600 AAAAAATTTAAATATCAAATT
1 AAAAAACTTAAATACCAAATT
*
27837621 AAAAAACTTAAGTACCAAA
1 AAAAAACTTAAATACCAAA
27837640 GTGAGCATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (21 bp):
AAAAAACTTAAATACCAAATT
Found at i:27839357 original size:31 final size:31
Alignment explanation
Indices: 27839322--27839388 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
27839312 GATTATTTTA
27839322 TTTGAGATAAATCTCAAA-ATTATATATAAAT
1 TTTGA-ATAAATCTCAAATATTATATATAAAT
* * * * *
27839353 TTTGATTTAATGTGAAATGTTATATATAAAT
1 TTTGAATAAATCTCAAATATTATATATAAAT
27839384 TTTGA
1 TTTGA
27839389 TTTTTTATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (31 bp):
TTTGAATAAATCTCAAATATTATATATAAAT
Found at i:27839405 original size:29 final size:31
Alignment explanation
Indices: 27839341--27839421 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
27839331 AATCTCAAAA
*
27839341 TTATATATAAATTTTGATTTAATGTGAAATG
1 TTATATATAAATTTTGATTTAATATGAAATG
** *
27839372 TTATATATAAATTTTGATTTTTTAT-AATTG
1 TTATATATAAATTTTGATTTAATATGAAATG
*
27839402 -TATACATAATATTTTGATTT
1 TTATATATAA-ATTTTGATTT
27839422 GATTTAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 8 0.18
30 14 0.32
31 22 0.50
ACGTcount: A:0.36, C:0.01, G:0.09, T:0.54
Consensus pattern (31 bp):
TTATATATAAATTTTGATTTAATATGAAATG
Found at i:27839716 original size:47 final size:47
Alignment explanation
Indices: 27839663--27839758 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
27839653 AAACAACACA
27839663 AAAATGTATGGTTTTAAATCTGGTTGTTAAAAGATAATTCAAAAAGG
1 AAAATGTATGGTTTTAAATCTGGTTGTTAAAAGATAATTCAAAAAGG
27839710 AAAATGTATGGTTTTAAATCTGGTTGTTAAAAGATAATTCAAAAAGG
1 AAAATGTATGGTTTTAAATCTGGTTGTTAAAAGATAATTCAAAAAGG
27839757 AA
1 AA
27839759 CTGTTTATCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.33
Consensus pattern (47 bp):
AAAATGTATGGTTTTAAATCTGGTTGTTAAAAGATAATTCAAAAAGG
Found at i:27841148 original size:32 final size:31
Alignment explanation
Indices: 27841084--27841149 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
27841074 ATAGCTTATA
*
27841084 TTTTTATAATTTTTAAAAGATTAAATAAAAT
1 TTTTTATAATTTTTAAAAGATAAAATAAAAT
* *
27841115 TTTTTATCATTTTT-AAAGAGTCAAAATACAAT
1 TTTTTATAATTTTTAAAAGA-T-AAAATAAAAT
27841147 TTT
1 TTT
27841150 ATCATTACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 5 0.17
31 14 0.47
32 11 0.37
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (31 bp):
TTTTTATAATTTTTAAAAGATAAAATAAAAT
Found at i:27843080 original size:6 final size:6
Alignment explanation
Indices: 27843069--27843101 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
27843059 TCTGAGCTCA
27843069 ATGGGC ATGGGC ATGGGC ATGGGC ATGGGC ATG
1 ATGGGC ATGGGC ATGGGC ATGGGC ATGGGC ATG
27843102 AGACGTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.15, G:0.48, T:0.18
Consensus pattern (6 bp):
ATGGGC
Found at i:27854365 original size:31 final size:31
Alignment explanation
Indices: 27854330--27854402 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
27854320 ATTTGGGCCA
27854330 AGACTAAAATTT-CAAAATTTAAAAAGTAAAG
1 AGACTAAAATTTAC-AAATTTAAAAAGTAAAG
* * * *
27854361 AGACTAAAATTTACCAATTTGAAAAGTATAT
1 AGACTAAAATTTACAAATTTAAAAAGTAAAG
27854392 AGACTAAAATT
1 AGACTAAAATT
27854403 GATTAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 36 0.97
32 1 0.03
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (31 bp):
AGACTAAAATTTACAAATTTAAAAAGTAAAG
Found at i:27854462 original size:23 final size:23
Alignment explanation
Indices: 27854435--27854482 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
27854425 AAAATCTATA
27854435 ACTTTTGCAAAGTATAGAGACTT
1 ACTTTTGCAAAGTATAGAGACTT
27854458 ACTTTTGCAAAGTATAGAGACTT
1 ACTTTTGCAAAGTATAGAGACTT
27854481 AC
1 AC
27854483 AGCATAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (23 bp):
ACTTTTGCAAAGTATAGAGACTT
Found at i:27858698 original size:22 final size:23
Alignment explanation
Indices: 27858668--27858711 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
27858658 TAGGGGCGAA
*
27858668 GCCAGAAATATGATATTAAAAGG
1 GCCAGAAATAAGATATTAAAAGG
*
27858691 GCCA-AAATAAGATTTTAAAAG
1 GCCAGAAATAAGATATTAAAAG
27858712 TATGTGGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.23
Consensus pattern (23 bp):
GCCAGAAATAAGATATTAAAAGG
Found at i:27863042 original size:20 final size:21
Alignment explanation
Indices: 27863005--27863057 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 21
27862995 TTTATAATTC
*
27863005 TTTTTTTAATATTGATTTTTTTA
1 TTTTTTTAA-A-TGATTTTTATA
27863028 TTTTTTTAAAT-ATTTTTATA
1 TTTTTTTAAATGATTTTTATA
*
27863048 -GTTTTTAAAT
1 TTTTTTTAAAT
27863058 TACTTGTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 9 0.32
20 8 0.29
21 1 0.04
22 1 0.04
23 9 0.32
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (21 bp):
TTTTTTTAAATGATTTTTATA
Found at i:27866332 original size:31 final size:31
Alignment explanation
Indices: 27866294--27866352 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
27866284 TTGTCATGAT
27866294 CAAGATGTCGTGATGCTCTTCCATACTTACC
1 CAAGATGTCGTGATGCTCTTCCATACTTACC
*
27866325 CAAGATGTCGTGATGGTCTTCCATACTT
1 CAAGATGTCGTGATGCTCTTCCATACTT
27866353 CTAAATTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (31 bp):
CAAGATGTCGTGATGCTCTTCCATACTTACC
Found at i:27866958 original size:23 final size:21
Alignment explanation
Indices: 27866917--27866958 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
27866907 TTCTTTTCAT
*
27866917 TTATTAAAATTTTATATATAG
1 TTATTAAAATTTTAAATATAG
27866938 TTATATAAAATTTTTAAATAT
1 TTAT-TAAAA-TTTTAAATAT
27866959 TTACATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 5 0.28
23 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TTATTAAAATTTTAAATATAG
Found at i:27875461 original size:30 final size:30
Alignment explanation
Indices: 27875422--27875486 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
27875412 CAATGTATCC
*
27875422 TTGTCTCCTAACAATTTATCACATGCGCCT
1 TTGTCTCCTAACAATTTATCACATACGCCT
* ** *
27875452 TTGTTTCCTAACCTTTTATCCCATACGCCT
1 TTGTCTCCTAACAATTTATCACATACGCCT
27875482 TTGTC
1 TTGTC
27875487 ACCAACCACC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.18, C:0.31, G:0.09, T:0.42
Consensus pattern (30 bp):
TTGTCTCCTAACAATTTATCACATACGCCT
Found at i:27875543 original size:60 final size:60
Alignment explanation
Indices: 27875479--27875595 Score: 139
Period size: 60 Copynumber: 1.9 Consensus size: 60
27875469 ATCCCATACG
* * *
27875479 CCTTTGTC-ACCAACCACCTCATCACATGTACCGTTT-TCACTTAATATTTTATCACCTGTA
1 CCTTTGTCTACCAA-CACCTCATCACATGCACC-TTTATCACCTAATATTTTACCACCTGTA
* * * *
27875539 CCTTTGTCTTCTAATACCTTATCACATGCACCTTTATCACCTAATATTTTACCACCT
1 CCTTTGTCTACCAACACCTCATCACATGCACCTTTATCACCTAATATTTTACCACCT
27875596 TTAACCCATG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 3 0.06
60 42 0.88
61 3 0.06
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.38
Consensus pattern (60 bp):
CCTTTGTCTACCAACACCTCATCACATGCACCTTTATCACCTAATATTTTACCACCTGTA
Found at i:27875554 original size:30 final size:30
Alignment explanation
Indices: 27875515--27875595 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
27875505 TGTACCGTTT
* * *
27875515 TCACTTAATATTTTATCACCTGTACCTTTG
1 TCACCTAATATTTTATCACCTGCACCTTTA
** ** *
27875545 TCTTCTAATACCTTATCACATGCACCTTTA
1 TCACCTAATATTTTATCACCTGCACCTTTA
*
27875575 TCACCTAATATTTTACCACCT
1 TCACCTAATATTTTATCACCT
27875596 TTAACCCATG
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.26, C:0.28, G:0.04, T:0.42
Consensus pattern (30 bp):
TCACCTAATATTTTATCACCTGCACCTTTA
Found at i:27875640 original size:15 final size:15
Alignment explanation
Indices: 27875620--27875649 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27875610 TTTAACACCT
27875620 ACTATCATGTTACCC
1 ACTATCATGTTACCC
27875635 ACTATCATGTTACCC
1 ACTATCATGTTACCC
27875650 TATGCAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.07, T:0.33
Consensus pattern (15 bp):
ACTATCATGTTACCC
Found at i:27875720 original size:15 final size:15
Alignment explanation
Indices: 27875676--27875753 Score: 75
Period size: 15 Copynumber: 5.2 Consensus size: 15
27875666 CCACTAACAC
27875676 GTCCCATGCTCCTTT
1 GTCCCATGCTCCTTT
* * ** *
27875691 ATCTCATAATGCTTT
1 GTCCCATGCTCCTTT
27875706 GTCCCATGCTCCTTT
1 GTCCCATGCTCCTTT
* ** *
27875721 GTCTCATAATGCTTT
1 GTCCCATGCTCCTTT
27875736 GTCCCATGCTCCTTT
1 GTCCCATGCTCCTTT
27875751 GTC
1 GTC
27875754 TTCTTATACT
Statistics
Matches: 45, Mismatches: 18, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.13, C:0.32, G:0.13, T:0.42
Consensus pattern (15 bp):
GTCCCATGCTCCTTT
Found at i:27875751 original size:30 final size:30
Alignment explanation
Indices: 27875676--27875754 Score: 149
Period size: 30 Copynumber: 2.6 Consensus size: 30
27875666 CCACTAACAC
*
27875676 GTCCCATGCTCCTTTATCTCATAATGCTTT
1 GTCCCATGCTCCTTTGTCTCATAATGCTTT
27875706 GTCCCATGCTCCTTTGTCTCATAATGCTTT
1 GTCCCATGCTCCTTTGTCTCATAATGCTTT
27875736 GTCCCATGCTCCTTTGTCT
1 GTCCCATGCTCCTTTGTCT
27875755 TCTTATACTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.13, C:0.32, G:0.13, T:0.43
Consensus pattern (30 bp):
GTCCCATGCTCCTTTGTCTCATAATGCTTT
Done.