Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 331 of 444
Found at i:95549130 original size:15 final size:17
Alignment explanation
Indices: 95549102--95549133 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
95549092 TTGTATATAT
95549102 TATATTTATATTATGTA
1 TATATTTATATTATGTA
95549119 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
95549134 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:95549764 original size:18 final size:18
Alignment explanation
Indices: 95549743--95549787 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
95549733 AAAATTCAGG
95549743 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
95549761 TTTC-AAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
95549778 TTT-AAAAATT
1 TTTCAAAAATT
95549788 CTCATTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:95550472 original size:14 final size:14
Alignment explanation
Indices: 95550453--95550480 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
95550443 TTCATGTCAG
95550453 ATGTCTCCAAGCGA
1 ATGTCTCCAAGCGA
95550467 ATGTCTCCAAGCGA
1 ATGTCTCCAAGCGA
95550481 GTCACCAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (14 bp):
ATGTCTCCAAGCGA
Found at i:95554263 original size:3 final size:3
Alignment explanation
Indices: 95554257--95554349 Score: 73
Period size: 3 Copynumber: 31.0 Consensus size: 3
95554247 CTTATATCTT
* * *
95554257 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAC TTA TAA TATT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
* * * * * *
95554303 TCA T-A CAA TAA TAA TAC TTA TAA TATT TAA TAA TAA T-A CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
95554347 TAA
1 TAA
95554350 AACTATGTTT
Statistics
Matches: 69, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
2 2 0.03
3 63 0.91
4 4 0.06
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:95554276 original size:33 final size:33
Alignment explanation
Indices: 95554263--95554349 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 33
95554253 TCTTTAATAA
* *
95554263 TAATAATAATAATAATAATAATACTTATAATATT
1 TAATAATAATAACAATAATAATACTTAT-ATCTT
* *
95554297 TAATAATCAT-ACAATAATAATACTTATAATATT
1 TAATAATAATAACAATAATAATACTTAT-ATCTT
95554330 TAATAATAAT-ACAATAATAA
1 TAATAATAATAACAATAATAA
95554350 AACTATGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
33 41 0.82
34 9 0.18
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (33 bp):
TAATAATAATAACAATAATAATACTTATATCTT
Found at i:95554285 original size:39 final size:39
Alignment explanation
Indices: 95554234--95554349 Score: 147
Period size: 39 Copynumber: 3.1 Consensus size: 39
95554224 AAATATGTTG
* *
95554234 AATAATAATAATACTTAT-ATCTTTAATAATAATAATAAT
1 AATAATAATAATACTTATAATATTTAATAATAAT-ACAAT
95554273 AATAATAATAATACTTATAATA-TT--TAATAAT-C-AT
1 AATAATAATAATACTTATAATATTTAATAATAATACAAT
*
95554307 -ACAATAATAATACTTATAATATTTAATAATAATACAAT
1 AATAATAATAATACTTATAATATTTAATAATAATACAAT
95554345 AATAA
1 AATAA
95554350 AACTATGTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 14
0.79 0.05 0.17
Matches are distributed among these distances:
33 20 0.30
34 4 0.06
36 7 0.11
37 8 0.12
38 2 0.03
39 23 0.35
40 2 0.03
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (39 bp):
AATAATAATAATACTTATAATATTTAATAATAATACAAT
Found at i:95554314 original size:11 final size:11
Alignment explanation
Indices: 95554258--95554349 Score: 61
Period size: 11 Copynumber: 8.7 Consensus size: 11
95554248 TTATATCTTT
95554258 AATAATAAT--
1 AATAATAATAC
95554267 AATAATAAT--
1 AATAATAATAC
95554276 AATAATAATAC
1 AATAATAATAC
* **
95554287 TTATAAT-ATTT
1 -AATAATAATAC
*
95554298 AATAATCATAC
1 AATAATAATAC
95554309 AATAATAATAC
1 AATAATAATAC
* **
95554320 TTATAAT-ATTT
1 -AATAATAATAC
95554331 AATAATAATAC
1 AATAATAATAC
95554342 AATAATAA
1 AATAATAA
95554350 AACTATGTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
9 18 0.28
10 10 0.16
11 26 0.41
12 10 0.16
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (11 bp):
AATAATAATAC
Found at i:95558254 original size:22 final size:23
Alignment explanation
Indices: 95558222--95558265 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
95558212 ATTCATAAAA
*
95558222 AATTATAAGTATAAATACAATGT
1 AATTATAAGTACAAATACAATGT
*
95558245 AATTAT-AGTACAATTACAATG
1 AATTATAAGTACAAATACAATG
95558266 GTATGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (23 bp):
AATTATAAGTACAAATACAATGT
Found at i:95560118 original size:18 final size:19
Alignment explanation
Indices: 95560069--95560118 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
95560059 AATTTTTTAT
* *
95560069 TCGAATTGATTCAAATAAC
1 TCGAATTAATTTAAATAAC
* *
95560088 TTG-ATTAACTTAAATAAC
1 TCGAATTAATTTAAATAAC
95560106 TCGAATT-ATTTAA
1 TCGAATTAATTTAA
95560119 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (19 bp):
TCGAATTAATTTAAATAAC
Found at i:95560773 original size:11 final size:11
Alignment explanation
Indices: 95560759--95560843 Score: 64
Period size: 11 Copynumber: 7.5 Consensus size: 11
95560749 ATATTCAAAC
95560759 AATAATAACAA
1 AATAATAACAA
95560770 AATAATAACAACAA
1 AATAAT---AACAA
*
95560784 AATAATAGCAA
1 AATAATAACAA
* *
95560795 CATAATAATAA
1 AATAATAACAA
**
95560806 AATGGTAACAA
1 AATAATAACAA
*
95560817 AATAGA-AAGAA
1 AATA-ATAACAA
*
95560828 AATAATAAGAA
1 AATAATAACAA
95560839 AATAA
1 AATAA
95560844 CAGATTTTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
10 1 0.02
11 46 0.79
14 11 0.19
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.18
Consensus pattern (11 bp):
AATAATAACAA
Found at i:95560776 original size:14 final size:14
Alignment explanation
Indices: 95560759--95560805 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
95560749 ATATTCAAAC
*
95560759 AATAATAACAAAAT
1 AATAACAACAAAAT
95560773 AATAACAACAAAAT
1 AATAACAACAAAAT
* *
95560787 AATAGCAACATAAT
1 AATAACAACAAAAT
95560801 AATAA
1 AATAA
95560806 AATGGTAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.68, C:0.11, G:0.02, T:0.19
Consensus pattern (14 bp):
AATAACAACAAAAT
Found at i:95560833 original size:33 final size:33
Alignment explanation
Indices: 95560779--95560841 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
95560769 AAATAATAAC
* * *
95560779 AACAAAATAATAGCAACATAATAATAAAATGGT
1 AACAAAATAAAAGCAAAATAATAAGAAAATGGT
95560812 AACAAAATAGAAAG-AAAATAATAAGAAAAT
1 AACAAAATA-AAAGCAAAATAATAAGAAAAT
95560842 AACAGATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 23 0.88
34 3 0.12
ACGTcount: A:0.67, C:0.06, G:0.10, T:0.17
Consensus pattern (33 bp):
AACAAAATAAAAGCAAAATAATAAGAAAATGGT
Found at i:95561272 original size:14 final size:13
Alignment explanation
Indices: 95561253--95561295 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
95561243 AAATCATAAA
95561253 AAAAATTATAAATT
1 AAAAATT-TAAATT
*
95561267 AAAAATTTAAACT
1 AAAAATTTAAATT
*
95561280 ACAAAAATTAAATT
1 A-AAAATTTAAATT
95561294 AA
1 AA
95561296 TAAGTTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 7 0.28
14 18 0.72
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAAATTTAAATT
Found at i:95562466 original size:37 final size:37
Alignment explanation
Indices: 95562405--95562512 Score: 117
Period size: 37 Copynumber: 2.9 Consensus size: 37
95562395 TTTATAAAAA
**
95562405 AATCTTTACTATTCTTCTCCGTCTTTTCTTTGCAGAG
1 AATCTTTACTATTGATCTCCGTCTTTTCTTTGCAGAG
** * * *
95562442 AATCTTTACTATTGATCTTTGTCTTTTTTTTTCGGAG
1 AATCTTTACTATTGATCTCCGTCTTTTCTTTGCAGAG
** * *
95562479 AAAATTTATTACTGATCTCCGTCTTTTCTTTGCA
1 AATCTTTACTATTGATCTCCGTCTTTTCTTTGCA
95562513 TAATTGTTCT
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.51
Consensus pattern (37 bp):
AATCTTTACTATTGATCTCCGTCTTTTCTTTGCAGAG
Found at i:95565261 original size:49 final size:50
Alignment explanation
Indices: 95565189--95565316 Score: 204
Period size: 50 Copynumber: 2.6 Consensus size: 50
95565179 CTGGTACGCA
*
95565189 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTAATACACG
* * * *
95565238 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTAATACACG
95565288 TAGTAGCCTGCACTTAGTACTACACATGC
1 TAGTAGCCTGCACTTAGTACTACACATGC
95565317 AACAAATTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 31 0.44
50 40 0.56
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTAATACACG
Found at i:95570514 original size:38 final size:38
Alignment explanation
Indices: 95570463--95570539 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
95570453 TAACACTCCA
95570463 TAAATATTTATAAAAATATTTATGGCTCGATTTAAAAT
1 TAAATATTTATAAAAATATTTATGGCTCGATTTAAAAT
95570501 TAAATATTTATAAAAATATTTATGGCTCGATTTAAAAT
1 TAAATATTTATAAAAATATTTATGGCTCGATTTAAAAT
95570539 T
1 T
95570540 CTCGAGGTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (38 bp):
TAAATATTTATAAAAATATTTATGGCTCGATTTAAAAT
Found at i:95575312 original size:17 final size:18
Alignment explanation
Indices: 95575282--95575315 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
95575272 AAATAGTATT
95575282 AAAAGAAAATAAAATAAA
1 AAAAGAAAATAAAATAAA
*
95575300 AAAATAAAA-AAAATAA
1 AAAAGAAAATAAAATAA
95575316 TTTCAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (18 bp):
AAAAGAAAATAAAATAAA
Found at i:95580482 original size:15 final size:16
Alignment explanation
Indices: 95580450--95580483 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
95580440 CTTATTGAGG
95580450 GTTCATCACATAATGA
1 GTTCATCACATAATGA
*
95580466 GTTCATCACGT-ATGA
1 GTTCATCACATAATGA
95580481 GTT
1 GTT
95580484 TTTTTGTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (16 bp):
GTTCATCACATAATGA
Found at i:95585693 original size:16 final size:16
Alignment explanation
Indices: 95585672--95585702 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95585662 GTATGGATAA
*
95585672 ATAAGTAAATTAAATC
1 ATAAGTAAATAAAATC
95585688 ATAAGTAAATAAAAT
1 ATAAGTAAATAAAAT
95585703 ATATTATTAC
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:0.61, C:0.03, G:0.06, T:0.29
Consensus pattern (16 bp):
ATAAGTAAATAAAATC
Found at i:95589786 original size:28 final size:28
Alignment explanation
Indices: 95589746--95589845 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
95589736 GACAAGATTG
* *
95589746 GCACTAAGTGTGCGGGTAAAATTGTACA
1 GCACTAAGTGTGCGGGTAAAATTATATA
* *** *
95589774 GCACTAAGTGTGCGAGTTTGATTCTATA
1 GCACTAAGTGTGCGGGTAAAATTATATA
*
95589802 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCG-GGT-AAAATTATATA
95589831 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
95589846 ATTCACTATA
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
28 37 0.64
29 20 0.34
30 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (28 bp):
GCACTAAGTGTGCGGGTAAAATTATATA
Found at i:95589856 original size:29 final size:28
Alignment explanation
Indices: 95589773--95589848 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
95589763 AAAATTGTAC
* *
95589773 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
95589801 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
95589830 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
95589849 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:95595635 original size:40 final size:39
Alignment explanation
Indices: 95595591--95595767 Score: 151
Period size: 40 Copynumber: 4.4 Consensus size: 39
95595581 GCTCGATTGT
* * *
95595591 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
* *
95595631 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCATAAATGA
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
95595671 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * * *
95595711 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGTACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
95595752 CTTCGGGACTTAGCCC
1 CTTCGGGACATAGCCC
95595768 AGATATCATT
Statistics
Matches: 109, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
39 2 0.02
40 83 0.76
41 22 0.20
42 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:95595758 original size:41 final size:39
Alignment explanation
Indices: 95595619--95595759 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 39
95595609 TTATAGTGAT
*
95595619 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* * * * *
95595659 TCGCATAAATGACTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
*
95595699 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* * *
95595739 TTAGTACAAAAGCCTTCGGGA
1 -TCGCACAAATGCCTTCGGGA
95595760 CTTAGCCCAG
Statistics
Matches: 83, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
40 65 0.78
41 18 0.22
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:95596483 original size:2 final size:2
Alignment explanation
Indices: 95596476--95596511 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
95596466 ATGTGCAAAC
95596476 AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95596512 GCTAGAGCCG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:95602360 original size:80 final size:80
Alignment explanation
Indices: 95602276--95602424 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
95602266 TATGGTAACC
* * * *
95602276 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
95602340 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
95602356 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
95602421 CCGG
66 CCGG
95602425 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:95602366 original size:40 final size:38
Alignment explanation
Indices: 95602317--95602424 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
95602307 ATCACGATTT
*
95602317 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
95602357 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
95602397 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
95602425 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:95610480 original size:80 final size:80
Alignment explanation
Indices: 95610396--95610544 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
95610386 TATGGTAACC
* * * *
95610396 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
95610460 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
95610476 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
95610541 CCGG
66 CCGG
95610545 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:95610486 original size:40 final size:38
Alignment explanation
Indices: 95610437--95610544 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
95610427 ATCACGATTT
*
95610437 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
95610477 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
95610517 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
95610545 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:95613886 original size:40 final size:40
Alignment explanation
Indices: 95613831--95614011 Score: 204
Period size: 40 Copynumber: 4.5 Consensus size: 40
95613821 TGAATGAAAC
* ** *
95613831 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTG-TTAAAT
95613871 CCGGGCTAAGACCCGAAGGCATTCGTG-TGAGTTGTTAAAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCT-AGTTGTTAAAT
* * * *
95613911 CCAGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAC
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTAAAT
* * ***
95613951 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTAAAT
*
95613991 CCGGGTTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
95614012 ATTGGGCTTG
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 118 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTAAAT
Found at i:95614028 original size:80 final size:80
Alignment explanation
Indices: 95613831--95614029 Score: 229
Period size: 80 Copynumber: 2.5 Consensus size: 80
95613821 TGAATGAAAC
* * * * *
95613831 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATACCCGGGCTAAGACCCGAAGGCATTCG
** ***
95613896 TGTGAGTTGTTAAAT
66 TGCAAGTTACCAAAT
* * * *
95613911 CCAGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATACCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGGTTATACCCGGGCTAAGACCCGAAGGCATTC
95613975 GTGCAAGTTACCAAAT
65 GTGCAAGTTACCAAAT
* * *
95613991 CCGGGTTAAGACCCGAAGGCAATTGGGCTTGTGGTTATA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATA
95614030 TCTGGTTAGA
Statistics
Matches: 97, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
79 2 0.02
80 92 0.95
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATACCCGGGCTAAGACCCGAAGGCATTCG
TGCAAGTTACCAAAT
Found at i:95618970 original size:21 final size:20
Alignment explanation
Indices: 95618942--95618980 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
95618932 CAAAACTTGT
95618942 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
95618962 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
95618981 CAAAACACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:95626813 original size:21 final size:20
Alignment explanation
Indices: 95626785--95626823 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
95626775 CAAAACTTGT
95626785 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
95626805 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
95626824 CAAAACACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:95628086 original size:32 final size:32
Alignment explanation
Indices: 95628050--95628114 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
95628040 CTTTGGAAAT
95628050 CGTGTGATCTAAAAATATTAATTTTAGCTAAC
1 CGTGTGATCTAAAAATATTAATTTTAGCTAAC
95628082 CGTGTGATCTAAAAATATTAATTTTAGCTAAC
1 CGTGTGATCTAAAAATATTAATTTTAGCTAAC
95628114 C
1 C
95628115 TTTTAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (32 bp):
CGTGTGATCTAAAAATATTAATTTTAGCTAAC
Found at i:95631055 original size:51 final size:51
Alignment explanation
Indices: 95630978--95631095 Score: 213
Period size: 51 Copynumber: 2.4 Consensus size: 51
95630968 ATCAAGATTC
95630978 GTGAAAATG--TATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
95631027 GTGAAAATGTATATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
*
95631078 GTGAAAGTGTATATATAT
1 GTGAAAATGTATATATAT
95631096 GTGGTAAAGC
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
49 9 0.14
51 57 0.86
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (51 bp):
GTGAAAATGTATATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
Found at i:95631217 original size:37 final size:36
Alignment explanation
Indices: 95631162--95631248 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
95631152 AACTTGGAAA
95631162 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
95631200 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
95631237 TATGTCCGGGTA
1 TATGTCCGGGTA
95631249 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:95633180 original size:23 final size:23
Alignment explanation
Indices: 95633154--95633208 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
95633144 TTATAGCATT
* *
95633154 AAATATATAATATAGAATTTATA
1 AAATATAAAATATACAATTTATA
*
95633177 AAATTTAAAATATACAA-TT-TA
1 AAATATAAAATATACAATTTATA
95633198 AAATA-AAAATA
1 AAATATAAAATA
95633209 GTCGAGGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 6 0.21
21 6 0.21
22 2 0.07
23 14 0.50
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
AAATATAAAATATACAATTTATA
Found at i:95633190 original size:14 final size:14
Alignment explanation
Indices: 95633173--95633207 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
95633163 ATATAGAATT
95633173 TATAAAATTTAAAA
1 TATAAAATTTAAAA
*
95633187 TATACAATTTAAAA
1 TATAAAATTTAAAA
95633201 TA-AAAAT
1 TATAAAAT
95633208 AGTCGAGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (14 bp):
TATAAAATTTAAAA
Found at i:95636024 original size:22 final size:20
Alignment explanation
Indices: 95635995--95636041 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
95635985 AAATATATAA
* *
95635995 AAATATTTTTTATTAATATTT
1 AAATATTTATAATTAA-ATTT
95636016 ATAATATTTATAATTAAATTT
1 A-AATATTTATAATTAAATTT
95636037 AAATA
1 AAATA
95636042 AAAATACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 6 0.26
22 13 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATATTTATAATTAAATTT
Found at i:95636709 original size:10 final size:11
Alignment explanation
Indices: 95636685--95636713 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
95636675 TAGTGGGGAG
95636685 TTTATTTTGAT
1 TTTATTTTGAT
95636696 TTTATTTT-AT
1 TTTATTTTGAT
95636706 TTTATTTT
1 TTTATTTT
95636714 TTCCCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.79
Consensus pattern (11 bp):
TTTATTTTGAT
Found at i:95642828 original size:10 final size:11
Alignment explanation
Indices: 95642804--95642832 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
95642794 TAGTGGGGAG
95642804 TTTATTTTGAT
1 TTTATTTTGAT
95642815 TTTATTTT-AT
1 TTTATTTTGAT
95642825 TTTATTTT
1 TTTATTTT
95642833 TCCCCTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.79
Consensus pattern (11 bp):
TTTATTTTGAT
Found at i:95643093 original size:22 final size:22
Alignment explanation
Indices: 95643065--95643112 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
95643055 ATAGTCTGTT
* *
95643065 TCGACGTAGTTTTGGTTTAGTA
1 TCGACGTAGTTTCGATTTAGTA
95643087 TCGACGTAGTTTCGATTTAGTA
1 TCGACGTAGTTTCGATTTAGTA
95643109 TCGA
1 TCGA
95643113 TTTAAACGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.42
Consensus pattern (22 bp):
TCGACGTAGTTTCGATTTAGTA
Found at i:95644269 original size:13 final size:13
Alignment explanation
Indices: 95644247--95644283 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
95644237 GTTTGGTTTT
*
95644247 ATTTTGGATTTGG
1 ATTTTCGATTTGG
95644260 ATTTTCGATTTGG
1 ATTTTCGATTTGG
*
95644273 CTTTTCGATTT
1 ATTTTCGATTT
95644284 AACTCTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.08, G:0.22, T:0.57
Consensus pattern (13 bp):
ATTTTCGATTTGG
Found at i:95645308 original size:7 final size:7
Alignment explanation
Indices: 95645298--95645323 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
95645288 ATATTATGTT
95645298 ATTAGTA
1 ATTAGTA
95645305 ATTAGTA
1 ATTAGTA
95645312 ATTAGTA
1 ATTAGTA
95645319 ATTAG
1 ATTAG
95645324 GATTAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (7 bp):
ATTAGTA
Found at i:95655302 original size:25 final size:25
Alignment explanation
Indices: 95655274--95655333 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 25
95655264 AACAAGATTC
* *
95655274 ATAAATTTTAATTTAGTTATATTTG
1 ATAAATTTTAATTTAGTTATAATTA
* * *
95655299 ATAAAATTTGAATTTATTTTTAATTA
1 AT-AAATTTTAATTTAGTTATAATTA
95655325 ATAAATTTT
1 ATAAATTTT
95655334 TTATTTTGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (25 bp):
ATAAATTTTAATTTAGTTATAATTA
Found at i:95655471 original size:22 final size:22
Alignment explanation
Indices: 95655433--95655493 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
95655423 TCATTAAATT
*
95655433 TAATATTTAATA-GTTAATTCAA
1 TAAT-TTTAATACATTAATTCAA
95655455 TAATTTTAATACATTAATTCAA
1 TAATTTTAATACATTAATTCAA
95655477 TAATTTTAATACATTAA
1 TAATTTTAATACATTAA
95655494 AATCATAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
21 7 0.19
22 30 0.81
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (22 bp):
TAATTTTAATACATTAATTCAA
Found at i:95655501 original size:22 final size:22
Alignment explanation
Indices: 95655433--95655503 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
95655423 TCATTAAATT
* *
95655433 TAATATTTAATA-GTTAATTCAA
1 TAAT-TTTAATACATTAAATCAA
*
95655455 TAATTTTAATACATTAATTCAA
1 TAATTTTAATACATTAAATCAA
95655477 TAATTTTAATACATTAAAATC-A
1 TAATTTTAATACATT-AAATCAA
95655499 TAATT
1 TAATT
95655504 AATTTTCTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.16
22 34 0.76
23 4 0.09
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.45
Consensus pattern (22 bp):
TAATTTTAATACATTAAATCAA
Found at i:95662651 original size:26 final size:26
Alignment explanation
Indices: 95662613--95662722 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
95662603 CATGAATTTC
* *
95662613 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGGAACATTTACCTAACCCA
95662639 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
* *
95662665 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGGAACATTTACCTAACCCA
95662691 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
95662717 TTATCA
1 TTATCA
95662723 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:95669312 original size:23 final size:23
Alignment explanation
Indices: 95669230--95669316 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
95669220 CCTGATCAGT
*
95669230 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
95669252 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
95669272 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
95669295 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
95669317 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:95669712 original size:15 final size:15
Alignment explanation
Indices: 95669687--95669744 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
95669677 TCATATATAT
95669687 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
95669703 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
95669718 AATAATTTCAATCAA
1 TATAAATTCAATCAA
95669733 TATAAATTCAAT
1 TATAAATTCAAT
95669745 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:95673801 original size:2 final size:2
Alignment explanation
Indices: 95673794--95673827 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
95673784 TCTCTGACTG
95673794 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95673828 TCTTTCAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95675654 original size:21 final size:23
Alignment explanation
Indices: 95675626--95675689 Score: 87
Period size: 21 Copynumber: 2.9 Consensus size: 23
95675616 CCTGATCAGT
95675626 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTAAA
** *
95675648 A-ACGACACACGAGGTGCCTAAA
1 ATACGACACATAAAGTGCCTAAA
95675670 ATACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
95675690 GATCAGTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.44
22 4 0.12
23 15 0.44
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.16
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTAAA
Found at i:95676085 original size:15 final size:15
Alignment explanation
Indices: 95676060--95676117 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
95676050 TCATATATAT
95676060 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
95676076 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
95676091 AATAATTTCAATCAA
1 TATAAATTCAATCAA
95676106 TATAAATTCAAT
1 TATAAATTCAAT
95676118 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:95680335 original size:2 final size:2
Alignment explanation
Indices: 95680328--95680359 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
95680318 GACATTGTAC
95680328 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95680360 TCGGCCATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95680901 original size:28 final size:28
Alignment explanation
Indices: 95680832--95680930 Score: 110
Period size: 28 Copynumber: 3.4 Consensus size: 28
95680822 GACAAGATTG
* * * *
95680832 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
95680862 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
95680890 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
95680919 GCACTAAGTGTG
1 GCACTAAGTGTG
95680931 TGGATTCACT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.39
29 18 0.29
30 18 0.29
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:95687943 original size:29 final size:28
Alignment explanation
Indices: 95687873--95687947 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
95687863 ATACTCGATT
* *
95687873 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
95687901 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
95687930 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
95687948 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:95687964 original size:29 final size:29
Alignment explanation
Indices: 95687931--95688004 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
95687921 CCTTCGAGCT
95687931 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
95687960 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
95687989 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
95688005 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:95695817 original size:29 final size:28
Alignment explanation
Indices: 95695747--95695821 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
95695737 ATACTCGATT
* *
95695747 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
95695775 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
95695804 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
95695822 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:95695838 original size:29 final size:29
Alignment explanation
Indices: 95695805--95695878 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
95695795 CCTTCGAGCT
95695805 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
95695834 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
95695863 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
95695879 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:95706962 original size:42 final size:42
Alignment explanation
Indices: 95706910--95706992 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
95706900 GCTAATAATG
**
95706910 TGCACTTAGTGTGCGAAATTGAGATAGCTTCGGCTATATATT
1 TGCACTTAGTGTGCGAAATCAAGATAGCTTCGGCTATATATT
* *
95706952 TGCATTTAGTGTGCGAGATCAAGATAGCTTCGGCTATATAT
1 TGCACTTAGTGTGCGAAATCAAGATAGCTTCGGCTATATAT
95706993 ATATATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (42 bp):
TGCACTTAGTGTGCGAAATCAAGATAGCTTCGGCTATATATT
Found at i:95706993 original size:2 final size:2
Alignment explanation
Indices: 95706986--95707020 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
95706976 TAGCTTCGGC
*
95706986 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95707021 GGGCACTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95716285 original size:15 final size:15
Alignment explanation
Indices: 95716262--95716296 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
95716252 GGCATGTATA
*
95716262 GGCTAGCTTAGAGTT
1 GGCTTGCTTAGAGTT
95716277 GGCTTGCTTAGAGTT
1 GGCTTGCTTAGAGTT
95716292 GGCTT
1 GGCTT
95716297 ATTTTCGAAA
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:0.14, C:0.14, G:0.34, T:0.37
Consensus pattern (15 bp):
GGCTTGCTTAGAGTT
Found at i:95725020 original size:2 final size:2
Alignment explanation
Indices: 95725013--95725067 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
95725003 TAGGTATGTT
95725013 TA TA TA 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
95725055 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
95725068 GGATTGTGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95732231 original size:21 final size:21
Alignment explanation
Indices: 95732185--95732238 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
95732175 GTGGTCCAAG
*
95732185 GGACACGCCTGTGTGACCCTA
1 GGACACGCCCGTGTGACCCTA
* *
95732206 TGACACGCCCGTGTGACCTTA
1 GGACACGCCCGTGTGACCCTA
*
95732227 GGACATGCCCGT
1 GGACACGCCCGT
95732239 ACTGTAGTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.33, G:0.28, T:0.20
Consensus pattern (21 bp):
GGACACGCCCGTGTGACCCTA
Found at i:95735809 original size:42 final size:42
Alignment explanation
Indices: 95735730--95735811 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
95735720 TTCTTAAGGG
* * *
95735730 TCACACGGCTAAGGCACACGACCGTGTGCTAGGCCGTGTCCT
1 TCACACGGCTAAGACACACAACCGTGTGCTAGCCCGTGTCCT
* *
95735772 TCACACGGCTGAGACACACAACCGTGT-CTCTGCCCGTGTC
1 TCACACGGCTAAGACACACAACCGTGTGCT-AGCCCGTGTC
95735812 TTTACTACCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.20, C:0.35, G:0.26, T:0.20
Consensus pattern (42 bp):
TCACACGGCTAAGACACACAACCGTGTGCTAGCCCGTGTCCT
Found at i:95738757 original size:28 final size:28
Alignment explanation
Indices: 95738725--95738810 Score: 109
Period size: 29 Copynumber: 3.0 Consensus size: 28
95738715 TACCTATATC
*
95738725 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCATATTCATA
* *
95738753 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCATATTCATA
* **
95738782 TGGCCCGTTAGGCCCAGCCATATTCATA
1 TGGCCCATTAGGCCCAATCATATTCATA
95738810 T
1 T
95738811 TCATGCTCAC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 24 0.49
29 25 0.51
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCATATTCATA
Found at i:95755773 original size:28 final size:27
Alignment explanation
Indices: 95755710--95755779 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
95755700 ATAGTGAGTC
95755710 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
95755737 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
95755765 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
95755780 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:95763796 original size:28 final size:27
Alignment explanation
Indices: 95763733--95763802 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
95763723 ATAGTGAGTC
95763733 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
95763760 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
95763788 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
95763803 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:95766405 original size:54 final size:54
Alignment explanation
Indices: 95766222--95766486 Score: 185
Period size: 54 Copynumber: 4.9 Consensus size: 54
95766212 GAATACTTTA
* ** * * * * *
95766222 GTTTACCAAATTACTGAAATACCC-CCAATTGTAAAATTACCAAAGTACCC-CG
1 GTTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTG
* * * * * *** **
95766274 ATTTATAAAACTACCCAAATATCCTCGATTTATAAAATTACCATTTTACCCTCA
1 GTTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTG
* * **** * *
95766328 ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTG
* ** *
95766382 GTTTACAAAATTACCAAAATACCCTTGATCAATAAAATTACCAAAATACCTTTG
1 GTTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTG
** * * *
95766436 GTTTGTAAAATTACTAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCC
1 GTTTACAAAATTACCAAAATACCCTCGA-TTTATAAAATTACCAAAATACCC
95766487 CTGATTTGTA
Statistics
Matches: 160, Mismatches: 50, Indels: 4
0.75 0.23 0.02
Matches are distributed among these distances:
52 17 0.11
53 21 0.13
54 122 0.76
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (54 bp):
GTTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTG
Found at i:95766425 original size:27 final size:27
Alignment explanation
Indices: 95766253--95766500 Score: 185
Period size: 27 Copynumber: 9.2 Consensus size: 27
95766243 CCCCCAATTG
* *
95766253 TAAAATTACCAAAGTACCC-CGATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* * * *
95766279 TAAAACTACCCAAATATCCTCGATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
*** **
95766306 TAAAATTACCATTTTACCCTCAATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* * **** *
95766333 CAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* * *
95766360 CAAAATTACTAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* **
95766387 CAAAATTACCAAAATACCCTTGATCAA
1 TAAAATTACCAAAATACCCTTGATTTA
* * *
95766414 TAAAATTACCAAAATACCTTTGGTTTG
1 TAAAATTACCAAAATACCCTTGATTTA
* * *
95766441 TAAAATTACTAAAATACCCCT-AGTTTG
1 TAAAATTACCAAAATACCCTTGA-TTTA
* *
95766468 TAAAATTACCAAAATACCCCTGATTTG
1 TAAAATTACCAAAATACCCTTGATTTA
95766495 TAAAAT
1 TAAAAT
95766501 ACTGAAATAC
Statistics
Matches: 181, Mismatches: 38, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
26 15 0.08
27 165 0.91
28 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.32
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTTGATTTA
Found at i:95766537 original size:27 final size:27
Alignment explanation
Indices: 95766500--95766744 Score: 321
Period size: 27 Copynumber: 9.1 Consensus size: 27
95766490 ATTTGTAAAA
95766500 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
* * *
95766527 TACTGAAATACCCTTGTAGGGTAAAAA
1 TACTGAAATACCCCTGTAGGGTAGAAT
*
95766554 TA-TCGAAATACCTCTGTAGGGTAGAAT
1 TACT-GAAATACCCCTGTAGGGTAGAAT
* *
95766581 TACTGAAATACCCTTGTAAGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
*
95766608 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
*
95766635 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
* * *
95766662 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAAT
*
95766689 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
* * * * *
95766716 TACAGAGATACCCATGTGGGGTAAAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
95766743 TA
1 TA
95766745 TCATTTTCCC
Statistics
Matches: 190, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 188 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
TACTGAAATACCCCTGTAGGGTAGAAT
Found at i:95766554 original size:81 final size:82
Alignment explanation
Indices: 95766469--95766711 Score: 323
Period size: 81 Copynumber: 3.0 Consensus size: 82
95766459 CCTAGTTTGT
** * * *
95766469 AAAATTACCAAAATACCCCTG-ATTTGTA-AAATACTGAAATACCCCTGTAGGGTAGAATTACTG
1 AAAATTACCAAAATACCCCTGTA-GGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACCG
*
95766532 AAATACCCTTGTAGGGTA
65 AAATACCCCTGTAGGGTA
* * * *
95766550 AAAA-TATCGAAATACCTCTGTAGGGTAGAATTACTGAAATACCCTTGTAAGGTAGAATTACCGA
1 AAAATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACCGA
95766614 AATACCCCTGTAGGGT-
66 AATACCCCTGTAGGGTA
* * * *
95766630 AGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGA
1 AAAATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACCGA
95766695 AATACCCCTGTAGGGTA
66 AATACCCCTGTAGGGTA
95766712 GAATTACAGA
Statistics
Matches: 140, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
80 19 0.14
81 121 0.86
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (82 bp):
AAAATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACCGA
AATACCCCTGTAGGGTA
Found at i:95766984 original size:25 final size:25
Alignment explanation
Indices: 95766950--95767044 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
95766940 AGGAAGTGCT
95766950 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
95766975 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
95767000 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
95767025 AAAAGGGCTTTGCCTCAGTT
1 AAAAGGGCTTTGCCCCAGTT
95767045 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 67 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:95767057 original size:24 final size:24
Alignment explanation
Indices: 95766950--95767071 Score: 81
Period size: 25 Copynumber: 5.0 Consensus size: 24
95766940 AGGAAGTGCT
* *
95766950 AAAAG-GGCTTTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCTCAG-TTATC
* *
95766974 GAAAAG-GGCTTTGCCCCAGTTTACC
1 -AAAAGAGGCTTTGCCTCAG-TTATC
*
95766999 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCTCAG-TTATC
*
95767024 AAAA-AGGGCTTTGCCTCAGTTATT
1 AAAAGA-GGCTTTGCCTCAGTTATC
**
95767048 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCCT-CAGTTAT
95767072 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
24 20 0.23
25 68 0.77
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCTCAGTTATC
Found at i:95767068 original size:50 final size:50
Alignment explanation
Indices: 95766950--95767069 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
95766940 AGGAAGTGCT
** *
95766950 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTAGGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCG
** * * **
95767000 AAAAGGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCTCAG-TTA-TT
1 AAAAGGGCTAGGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCG
95767048 AAAAGAGGCTAGGCCTCCAGTT
1 AAAAG-GGCTAGGCC-CCAGTT
95767070 ATATGATAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
48 5 0.08
49 10 0.16
50 46 0.75
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTAGGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:95770878 original size:38 final size:40
Alignment explanation
Indices: 95770834--95771026 Score: 150
Period size: 39 Copynumber: 5.0 Consensus size: 40
95770824 TGAAACCAAT
* *
95770834 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGG-TATAA
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* * * *
95770872 TACCAGCTCGAAGCCTGTGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* * * *
95770911 TTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATATAA
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* ** *
95770950 TTCCAGCAC-ATAGCCTGC-GGACCCTAAGTCCGGATATAA
1 TACCAGCACGA-AGCCTGCGGGACTTTAAGCCCGGATATAA
* ** *
95770989 TTCCAGCAC-ATAGCCTGC-GGACCCTAAGTCCGGATATA
1 TACCAGCACGA-AGCCTGCGGGACTTTAAGCCCGGATATA
95771027 CATCACTGAA
Statistics
Matches: 135, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
38 20 0.15
39 115 0.85
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (40 bp):
TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
Found at i:95770944 original size:39 final size:39
Alignment explanation
Indices: 95770901--95771026 Score: 216
Period size: 39 Copynumber: 3.2 Consensus size: 39
95770891 GGACTTTAGC
* * * *
95770901 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
95770940 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
95770979 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
95771018 CCGGATATA
1 CCGGATATA
95771027 CATCACTGAA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:95777536 original size:39 final size:39
Alignment explanation
Indices: 95777453--95777549 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
95777443 TGAAACCAAT
*
95777453 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGGTATAA
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
* * * *
95777491 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGG-CATAA
* *
95777530 TTCCAGCACGTAGCCTGCGG
1 TACCAGCACGAAGCCTGCGG
95777550 ACCTTAAGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
38 14 0.29
39 35 0.71
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.20
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
Found at i:95777568 original size:78 final size:78
Alignment explanation
Indices: 95777482--95777645 Score: 181
Period size: 78 Copynumber: 2.1 Consensus size: 78
95777472 GAATTTAAAC
* * * * * *
95777482 CCGG-TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGC
1 CCGGATATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCGGACATAATTCCAACACATAGC
*
95777544 CTGCGGACCTTAAGT
64 CTGCGGACCCTAAGT
* * * * *
95777559 CTGGATATAATTCCGGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAACACATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAACACATAGCCT
95777624 GCGGACCCTAAGT
66 GCGGACCCTAAGT
95777637 CCGGATATA
1 CCGGATATA
95777646 CATCACTGAA
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
77 7 0.10
78 64 0.90
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAACACATAGCCT
GCGGACCCTAAGT
Found at i:95777583 original size:39 final size:39
Alignment explanation
Indices: 95777520--95777645 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
95777510 GGACTTTAGC
* * * *
95777520 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* *
95777559 CTGGATATAATTCCGGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
95777598 CCGGATATAATTCCAACACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
95777637 CCGGATATA
1 CCGGATATA
95777646 CATCACTGAA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:95784007 original size:46 final size:47
Alignment explanation
Indices: 95783956--95784071 Score: 146
Period size: 46 Copynumber: 2.5 Consensus size: 47
95783946 ATGCATGTTT
* * *
95783956 CAGACATGTCTTACACTGGCT-TACGTCTCGAGGCTGATG-TATATCC
1 CAGACATGTCTTACACTGGCTCT-CGTCTCAAGGCCGATGCCATATCC
* * *
95784002 CAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCC
1 CAGACATGTCTTACACTGGCTCTCGTCTCAAGGCCGATGCCATATCC
95784049 CAGACATGGTCTTACACTGGCTC
1 CAGACAT-GTCTTACACTGGCTC
95784072 ATAATAACCC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
46 33 0.55
47 13 0.22
48 14 0.23
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (47 bp):
CAGACATGTCTTACACTGGCTCTCGTCTCAAGGCCGATGCCATATCC
Found at i:95784318 original size:137 final size:137
Alignment explanation
Indices: 95784107--95784383 Score: 482
Period size: 137 Copynumber: 2.0 Consensus size: 137
95784097 AATATCTAAT
* *
95784107 TTATTTCCTATGGTTCAAACAGGATATTCTACTATCTCAATTATCATCATGCATTCTTAATTCCA
1 TTATTTCCTATGGTTCAAACAGGATATTCTACTATCTCAATTATCATCATGAATTCTCAATTCCA
* * * * *
95784172 AGATCAAGCAATTCATGCTATAACAATCCAAAAACATATAATAACGATGTAGTTGTATTATTTAC
66 AAATCAAGCAACTCATGCCACAACAATCCAAAAACATATAATAACAATGTAGTTGTATTATTTAC
95784237 ATACAAC
131 ATACAAC
95784244 TTATTTCCTATGGTTCAAACAGGATATTCTACTATCTCAATTATCATCATGAATTCTCAATTCCA
1 TTATTTCCTATGGTTCAAACAGGATATTCTACTATCTCAATTATCATCATGAATTCTCAATTCCA
*
95784309 AAATCAAGCAACTCATGCCACAGCAATCCAAAAACATATAATAACAATGTAGTTGTATTATTTAC
66 AAATCAAGCAACTCATGCCACAACAATCCAAAAACATATAATAACAATGTAGTTGTATTATTTAC
95784374 ATACAAC
131 ATACAAC
95784381 TTA
1 TTA
95784384 CCTCGGGTTA
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 132 1.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (137 bp):
TTATTTCCTATGGTTCAAACAGGATATTCTACTATCTCAATTATCATCATGAATTCTCAATTCCA
AAATCAAGCAACTCATGCCACAACAATCCAAAAACATATAATAACAATGTAGTTGTATTATTTAC
ATACAAC
Found at i:95788889 original size:42 final size:44
Alignment explanation
Indices: 95788843--95788936 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
95788833 CTCTAACAGG
* *
95788843 GTCTTACACA-AAATCA-AA-TACGATGCCAACCTCCTAGACGTA
1 GTCTTACACATAAATCATAAGT-CGATGCCAACCTCCCAGACATA
* *
95788885 GTCTTACACATAAATCATAAGTCGATGCCAACGTCCCAGACATG
1 GTCTTACACATAAATCATAAGTCGATGCCAACCTCCCAGACATA
95788929 GTCTTACA
1 GTCTTACA
95788937 TGATAACACA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
42 10 0.22
43 6 0.13
44 28 0.62
45 1 0.02
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (44 bp):
GTCTTACACATAAATCATAAGTCGATGCCAACCTCCCAGACATA
Found at i:95794007 original size:40 final size:40
Alignment explanation
Indices: 95793952--95794079 Score: 195
Period size: 40 Copynumber: 3.2 Consensus size: 40
95793942 CGGATGATAA
*
95793952 CCGGGCTCAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
95793992 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * *
95794032 CCGGGCTAGGACCCGAACGCATTTGTGTGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
95794072 CC-GGCTAA
1 CCGGGCTAA
95794080 ATCCTGAAGA
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 5 0.06
40 75 0.94
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:95794357 original size:22 final size:22
Alignment explanation
Indices: 95794315--95794358 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
95794305 AAAATGTGCA
* *
95794315 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
95794337 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
95794359 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:95802137 original size:40 final size:40
Alignment explanation
Indices: 95802074--95802250 Score: 268
Period size: 40 Copynumber: 4.5 Consensus size: 40
95802064 CGGATGATAA
* *
95802074 CCGGGCTCAGACCTGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
95802114 CCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
95802154 CCGGGCTAAGACCCGAAGACATTTGTGCGAGTTGCTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
95802194 CCGGGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
95802234 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
95802251 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 112 0.90
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:95802519 original size:22 final size:22
Alignment explanation
Indices: 95802477--95802520 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
95802467 AAAATGTGCA
* *
95802477 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
95802499 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
95802521 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:95804603 original size:6 final size:6
Alignment explanation
Indices: 95804592--95804708 Score: 90
Period size: 6 Copynumber: 19.5 Consensus size: 6
95804582 TGTATGAAAT
* * *
95804592 TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGCGTG TGTGTG TGCGCG
1 TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG
* * * * * * * * * **
95804640 TGAGTG TGCGTG TGTGCG CGTGAG TGTGCG TGTGCG TGTGCG TATACG
1 TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG
* *
95804688 TGTGGG TGTGCG TGTGTG TGT
1 TGTGTG TGTGTG TGTGTG TGT
95804709 ATGCCATACG
Statistics
Matches: 91, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 91 1.00
ACGTcount: A:0.03, C:0.09, G:0.49, T:0.38
Consensus pattern (6 bp):
TGTGTG
Found at i:95804609 original size:12 final size:12
Alignment explanation
Indices: 95804592--95804708 Score: 117
Period size: 12 Copynumber: 9.6 Consensus size: 12
95804582 TGTATGAAAT
*
95804592 TGTGTGTGTGTG
1 TGTGTGTGCGTG
*
95804604 TGTGTGTGTGTG
1 TGTGTGTGCGTG
95804616 TGTGTGTGCGTG
1 TGTGTGTGCGTG
*
95804628 TGTGTGTGCGCG
1 TGTGTGTGCGTG
*
95804640 TGAGTGTGCGTG
1 TGTGTGTGCGTG
* *
95804652 TGTGCGCGTGAGTG
1 TGT--GTGTGCGTG
*
95804666 TGCGTGTGCGTG
1 TGTGTGTGCGTG
* * *
95804678 TGCGTATACGTG
1 TGTGTGTGCGTG
*
95804690 TGGGTGTGCGTG
1 TGTGTGTGCGTG
95804702 TGTGTGT
1 TGTGTGT
95804709 ATGCCATACG
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
12 78 0.90
14 9 0.10
ACGTcount: A:0.03, C:0.09, G:0.49, T:0.38
Consensus pattern (12 bp):
TGTGTGTGCGTG
Found at i:95804964 original size:5 final size:5
Alignment explanation
Indices: 95804954--95805016 Score: 65
Period size: 5 Copynumber: 12.6 Consensus size: 5
95804944 ACATGTTATA
* * * *
95804954 ATATG ATATG ATATG CTATG A-ATTG ATATG TTATG ATATG TTATG ATACG
1 ATATG ATATG ATATG ATATG ATA-TG ATATG ATATG ATATG ATATG ATATG
*
95805004 TTATG ATATG ATA
1 ATATG ATATG ATA
95805017 ATATATAATC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
4 1 0.02
5 44 0.96
6 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.43
Consensus pattern (5 bp):
ATATG
Found at i:95806638 original size:43 final size:43
Alignment explanation
Indices: 95806589--95806674 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
95806579 TCATATTTCA
95806589 TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
* * * * *
95806632 TTTCTCATCTTATATTCATTTTTCATCTTTTCCATTTTAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
95806675 CAATCATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.23, C:0.21, G:0.00, T:0.56
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
Found at i:95809423 original size:11 final size:11
Alignment explanation
Indices: 95809402--95809439 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
95809392 AAATATCTAA
*
95809402 AAAATATTATT
1 AAAATAATATT
95809413 AAAATAATATT
1 AAAATAATATT
*
95809424 TAAATAAT-TT
1 AAAATAATATT
95809434 AAAATA
1 AAAATA
95809440 TCACCATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AAAATAATATT
Found at i:95812453 original size:27 final size:28
Alignment explanation
Indices: 95812423--95812502 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 28
95812413 TTAATATTAC
*
95812423 ACATATTTATTTAATAATAAAATAAAA-
1 ACATATATATTTAATAATAAAATAAAAT
* * * *
95812450 ACATATGTAATTAATGAGT--GATAAAAT
1 ACATATATATTTAAT-AATAAAATAAAAT
*
95812477 A-ATATATATTTTATAATAAAATAAAA
1 ACATATATATTTAATAATAAAATAAAA
95812503 GTGATGTAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
25 2 0.05
26 16 0.40
27 20 0.50
28 2 0.05
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (28 bp):
ACATATATATTTAATAATAAAATAAAAT
Found at i:95812604 original size:12 final size:12
Alignment explanation
Indices: 95812589--95812675 Score: 55
Period size: 10 Copynumber: 7.6 Consensus size: 12
95812579 ATATGATAAG
95812589 TAATATATAAAA
1 TAATATATAAAA
*
95812601 TAATATAT-ATA
1 TAATATATAAAA
95812612 T-ATATATAATAA
1 TAATATATAA-AA
* *
95812624 -AATGTAGGTAATA
1 TAATATA--TAAAA
95812637 TAATATAT--AA
1 TAATATATAAAA
95812647 TAATATAT--AA
1 TAATATATAAAA
95812657 TAATATA-ATAAA
1 TAATATATA-AAA
95812669 TAATATA
1 TAATATA
95812676 CAAAGAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
10 24 0.40
11 4 0.07
12 23 0.38
13 1 0.02
14 8 0.13
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (12 bp):
TAATATATAAAA
Found at i:95812762 original size:16 final size:16
Alignment explanation
Indices: 95812734--95812771 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
95812724 TATATATAGT
95812734 ATTTAAAATAAATTGA
1 ATTTAAAATAAATTGA
*
95812750 ATTTATAAA-AAATTTA
1 ATTTA-AAATAAATTGA
95812766 ATTTAA
1 ATTTAA
95812772 TTTAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.80
17 3 0.15
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
ATTTAAAATAAATTGA
Found at i:95814030 original size:10 final size:10
Alignment explanation
Indices: 95814015--95814041 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
95814005 ACTATTATTT
95814015 TTTGTTTTTA
1 TTTGTTTTTA
95814025 TTTGTTTTTA
1 TTTGTTTTTA
95814035 TTTGTTT
1 TTTGTTT
95814042 ACTTACGGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.11, T:0.81
Consensus pattern (10 bp):
TTTGTTTTTA
Found at i:95814328 original size:44 final size:44
Alignment explanation
Indices: 95814273--95814659 Score: 508
Period size: 44 Copynumber: 8.8 Consensus size: 44
95814263 TTATATTCAA
*
95814273 ATCTACTCTCTGACAATACAGAGACGCCAAATCTGCTATCCTT-G
1 ATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTAT-CTTCG
* *
95814317 ATCTGCTCTCTGACAATACAGAGATGCCAAATCTTCTATCTTCG
1 ATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCG
* *
95814361 ATCTGCTCTCTGACAATACAGAGACGCCAAATATGTTATCTTCG
1 ATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCG
* * *
95814405 ATCTGCTCTCTGACAATACAAAGACACCAAATCTACTATCTTCG
1 ATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCG
* * *
95814449 ATCTGCTCTCTGACAATACAGAGACACCAAATCTACTATCTTCA
1 ATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCG
* * * *
95814493 ATTTACTCACTGACAATACAGAGACACCAAATCTGCTATCTTCG
1 ATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCG
* * * * * *
95814537 ATCTGCTCTCTGACAATACAAAGATGCGAAATTTGTTATCTTTG
1 ATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCG
* * * * *
95814581 ATCTTCTCTCTGTCAATACGGAGACGCCAAACCTG-TCACCTTCG
1 ATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATCTTCG
95814625 ATCTGCTCTCTGACAATACAGAGACGCCAAATCTG
1 ATCTGCTCTCTGACAATACAGAGACGCCAAATCTG
95814660 TCACCGGTGA
Statistics
Matches: 298, Mismatches: 43, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
43 4 0.01
44 294 0.99
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (44 bp):
ATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCG
Found at i:95826779 original size:21 final size:18
Alignment explanation
Indices: 95826735--95826834 Score: 68
Period size: 17 Copynumber: 5.5 Consensus size: 18
95826725 TTCATAAACG
95826735 AAATATATAATAATATAA
1 AAATATATAATAATATAA
95826753 ACAATATGATAAGTAATATATA
1 A-AATAT-ATAA-TAATATA-A
95826775 AAATA-AT-ATATATATAA
1 AAATATATAATA-ATATAA
* **
95826792 AAATGTA-GGTAATAT--
1 AAATATATAATAATATAA
95826807 -AATATATAATAATATAA
1 AAATATATAATAATATAA
95826824 TAAATAATATA
1 -AAAT-ATATA
95826835 CAAAGAAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 24
0.69 0.05 0.26
Matches are distributed among these distances:
14 5 0.08
15 6 0.09
17 11 0.17
18 10 0.16
19 10 0.16
20 9 0.14
21 11 0.17
22 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (18 bp):
AAATATATAATAATATAA
Found at i:95826821 original size:15 final size:15
Alignment explanation
Indices: 95826801--95826832 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
95826791 AAAATGTAGG
*
95826801 TAATATAATATATAA
1 TAATATAATAAATAA
95826816 TAATATAATAAATAA
1 TAATATAATAAATAA
95826831 TA
1 TA
95826833 TACAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAATATAATAAATAA
Found at i:95828198 original size:18 final size:17
Alignment explanation
Indices: 95828168--95828201 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
95828158 AAACTATTAT
*
95828168 TTTTTGTTTTTTATTTG
1 TTTTTATTTTTTATTTG
95828185 TTTTTATTTATTTATTT
1 TTTTTATTT-TTTATTT
95828202 ACGGGCCGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTTTATTTTTTATTTG
Found at i:95829269 original size:291 final size:289
Alignment explanation
Indices: 95828661--95829311 Score: 680
Period size: 292 Copynumber: 2.2 Consensus size: 289
95828651 CCATCACAAG
* * *
95828661 CATATTTTTA-TAGGTTCTTTAAA-ATAAAATACTAAAGTACCCTCGAATAATATAACTTATTTT
1 CATATTTTTATTAGCTTTTTTAAATA-AAAATACTAAAGTACCTTC-AATAATATAACTTATTTT
* * *
95828724 AATTACAAAAGGACATTTTTGTAATTTCTCTAATTGAGTTGGTGACCCAGTTGAAGGTGACACCA
64 AATTACAAAAGGACATTTCTGTAATTTCCCTAACTGA----GTGACCCAGTTGAAGGTGACACCA
* * * **
95828789 ACTAAATTAGGATCTTAAATAATAGTACAAATATATAATTCATGAAAATAATAAAGAGTGCAAAA
125 ACTAAATTAGGAACTTAAACAATAGTACAAATATACAATTCATGAAAATAATAAAGAGCCCAAAA
* * * *
95828854 TAAAATTAGAATGTATAAAATATCAAAATAAAGTTTTAGTTTAGTGGTAAATTAAAGTTTTTATG
190 TAAAATTAGAATATATAAAATATCAAAATAAAATTTTAGTTCAGTGGTAAATTAAAGGTTTTATG
*
95828919 AATGAAATTGGATTGAGTTTAAATCCCATGACGTT
255 AATGAAATTGGATTGAGTTCAAATCCCATGACGTT
* *
95828954 CATATTTTTATTAGCCTTTTTTAAAATAAAAAAATACTAAAGTGCCTTCAATGATATAACTTATT
1 CATATTTTTATTAG-CTTTTTT-AAAT--AAAAATACTAAAGTACCTTCAATAATATAACTTATT
* * * *
95829019 TTAATTATGAAAAGG-CATTTCTGTAATTTCCCTCACTGA-TGACCCGGTTG-AGGTGACATCAA
62 TTAATTA-CAAAAGGACATTTCTGTAATTTCCCTAACTGAGTGACCCAGTTGAAGGTGACACCAA
* * * * * * * * *
95829081 CTCAGTTAGGAACTTAAACAATTGTATAAATGTACAATTGATTG-AAGTAATAAAGTGCCCATAA
126 CTAAATTAGGAACTTAAACAATAGTACAAATATACAATTCA-TGAAAATAATAAAGAGCCCAAAA
* *
95829145 TAAAATTAGAATATATAAAAATATTAAAATAAAATTTTAGTTGCA-TGGTAACTTAAAGGTTTTA
190 TAAAATTAGAATATAT-AAAATATCAAAATAAAATTTTAGTT-CAGTGGTAAATTAAAGGTTTTA
* * *
95829209 CT-AAT-ACAATTGGTTTGGGTTCAAATCTCACCAT-ATG-T
253 -TGAATGA-AATTGGATTGAGTTCAAA--TC-CCATGACGTT
* *
95829247 -ATGTTTTTATTAG-TTGTTTTAAATAAAAATACTAAAGTACCATTGAATAATATAACTTATTTT
1 CATATTTTTATTAGCTT-TTTTAAATAAAAATACTAAAGTACC-TTCAATAATATAACTTATTTT
95829310 AA
64 AA
95829312 CTAGAAACCC
Statistics
Matches: 301, Mismatches: 40, Indels: 38
0.79 0.11 0.10
Matches are distributed among these distances:
288 16 0.05
289 21 0.07
290 6 0.02
291 78 0.26
292 82 0.27
293 13 0.04
294 7 0.02
295 9 0.03
296 3 0.01
297 42 0.14
298 23 0.08
299 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (289 bp):
CATATTTTTATTAGCTTTTTTAAATAAAAATACTAAAGTACCTTCAATAATATAACTTATTTTAA
TTACAAAAGGACATTTCTGTAATTTCCCTAACTGAGTGACCCAGTTGAAGGTGACACCAACTAAA
TTAGGAACTTAAACAATAGTACAAATATACAATTCATGAAAATAATAAAGAGCCCAAAATAAAAT
TAGAATATATAAAATATCAAAATAAAATTTTAGTTCAGTGGTAAATTAAAGGTTTTATGAATGAA
ATTGGATTGAGTTCAAATCCCATGACGTT
Found at i:95833311 original size:21 final size:20
Alignment explanation
Indices: 95833273--95833311 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
95833263 AATAATGGAG
95833273 AAAGAAGAAGAGGGGTGGCC
1 AAAGAAGAAGAGGGGTGGCC
95833293 AAAG-AGAGAGAGTGGGTGG
1 AAAGAAGA-AGAG-GGGTGG
95833312 TAGAGTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 8 0.47
21 6 0.35
ACGTcount: A:0.38, C:0.05, G:0.49, T:0.08
Consensus pattern (20 bp):
AAAGAAGAAGAGGGGTGGCC
Found at i:95836056 original size:40 final size:41
Alignment explanation
Indices: 95836006--95836191 Score: 158
Period size: 44 Copynumber: 4.4 Consensus size: 41
95835996 GTTTATGAAA
* *
95836006 AAAAATGCCACTAAAGGTCATGACCTTT-GGCGCTTTTCCC
1 AAAAACGCCACTAAAGATCATGACCTTTAGGCGCTTTTCCC
*
95836046 AGAAACGCCACTAAAGATCATGACCTTTTAGCGGCGCTTTTCCC
1 AAAAACGCCACTAAAGATCATGACC-TTTA--GGCGCTTTTCCC
* * * * *
95836090 ACAAATGCCGCTAAAGATCATGACTGTTTAGCAGCACTTTTCCC
1 AAAAACGCCACTAAAGATCATGAC-CTTTAG--GCGCTTTTCCC
* * * * *
95836134 AAAAACGCCGCTAAAGAACATGACTTTTAGCGACACTTTTCCT
1 AAAAACGCCACTAAAGATCATGACCTTTAG-G-CGCTTTTCCC
* *
95836177 ACAAACGCCGCTAAA
1 AAAAACGCCACTAAA
95836192 AGTGTCGCTA
Statistics
Matches: 123, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
40 22 0.18
41 3 0.02
42 2 0.02
43 28 0.23
44 68 0.55
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (41 bp):
AAAAACGCCACTAAAGATCATGACCTTTAGGCGCTTTTCCC
Found at i:95836104 original size:44 final size:43
Alignment explanation
Indices: 95836038--95836191 Score: 209
Period size: 44 Copynumber: 3.5 Consensus size: 43
95836028 ACCTTTGGCG
* * *
95836038 CTTTTCCCAGAAACGCCACTAAAGATCATGACCTTTTAGCGGCG
1 CTTTTCCCACAAACGCCGCTAAAGATCATGA-CTTTTAGCGGCA
* *
95836082 CTTTTCCCACAAATGCCGCTAAAGATCATGACTGTTTAGCAGCA
1 CTTTTCCCACAAACGCCGCTAAAGATCATGACT-TTTAGCGGCA
* * *
95836126 CTTTTCCCAAAAACGCCGCTAAAGAACATGACTTTTAGCGACA
1 CTTTTCCCACAAACGCCGCTAAAGATCATGACTTTTAGCGGCA
*
95836169 CTTTTCCTACAAACGCCGCTAAA
1 CTTTTCCCACAAACGCCGCTAAA
95836192 AGTGTCGCTA
Statistics
Matches: 97, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
43 31 0.32
44 66 0.68
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (43 bp):
CTTTTCCCACAAACGCCGCTAAAGATCATGACTTTTAGCGGCA
Found at i:95836803 original size:30 final size:30
Alignment explanation
Indices: 95836769--95836829 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
95836759 TACTGTAATG
95836769 AAAGTGAAATCAGTAAAAAGTAAACCCATA
1 AAAGTGAAATCAGTAAAAAGTAAACCCATA
95836799 AAAGTGAAATCAGTAAAAAGTAAACCCATA
1 AAAGTGAAATCAGTAAAAAGTAAACCCATA
95836829 A
1 A
95836830 TAAAAAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.13, G:0.13, T:0.16
Consensus pattern (30 bp):
AAAGTGAAATCAGTAAAAAGTAAACCCATA
Found at i:95836815 original size:15 final size:15
Alignment explanation
Indices: 95836769--95836816 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
95836759 TACTGTAATG
95836769 AAAGTGAAATCAGTAA
1 AAAGTGAAATCAGT-A
*
95836785 AAAGT-AAACCCA-TA
1 AAAGTGAAA-TCAGTA
95836799 AAAGTGAAATCAGTA
1 AAAGTGAAATCAGTA
95836814 AAA
1 AAA
95836817 AGTAAACCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 8 0.30
15 12 0.44
16 7 0.26
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.17
Consensus pattern (15 bp):
AAAGTGAAATCAGTA
Found at i:95836819 original size:16 final size:16
Alignment explanation
Indices: 95836769--95836819 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
95836759 TACTGTAATG
95836769 AAAGTGAAATCAGTAA
1 AAAGTGAAATCAGTAA
*
95836785 AAAGT-AAACCCA-T-A
1 AAAGTGAAA-TCAGTAA
95836799 AAAGTGAAATCAGTAA
1 AAAGTGAAATCAGTAA
95836815 AAAGT
1 AAAGT
95836820 AAACCCATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.28
15 8 0.28
16 13 0.45
ACGTcount: A:0.57, C:0.10, G:0.16, T:0.18
Consensus pattern (16 bp):
AAAGTGAAATCAGTAA
Found at i:95838039 original size:15 final size:16
Alignment explanation
Indices: 95838013--95838043 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
95838003 TCTCTCTTAC
95838013 TTTTAGATCATATATA
1 TTTTAGATCATATATA
95838029 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
95838044 AGACAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:95838873 original size:17 final size:16
Alignment explanation
Indices: 95838847--95838878 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
95838837 AGTTAAAAAA
95838847 GAAAAAAATAGATAAG
1 GAAAAAAATAGATAAG
95838863 GAAAAATAATAGATAA
1 GAAAAA-AATAGATAA
95838879 CCAGATGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (16 bp):
GAAAAAAATAGATAAG
Found at i:95842584 original size:11 final size:11
Alignment explanation
Indices: 95842570--95842595 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
95842560 GAGATTATCA
95842570 TTTTTTTAAAT
1 TTTTTTTAAAT
95842581 TTTTTTTAAAT
1 TTTTTTTAAAT
95842592 TTTT
1 TTTT
95842596 AATATTGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTAAAT
Found at i:95842661 original size:39 final size:39
Alignment explanation
Indices: 95842607--95842690 Score: 168
Period size: 39 Copynumber: 2.2 Consensus size: 39
95842597 ATATTGAACT
95842607 TTTTAACTGAAATATGGACTAAAATATTAAAGTTTTAAG
1 TTTTAACTGAAATATGGACTAAAATATTAAAGTTTTAAG
95842646 TTTTAACTGAAATATGGACTAAAATATTAAAGTTTTAAG
1 TTTTAACTGAAATATGGACTAAAATATTAAAGTTTTAAG
95842685 TTTTAA
1 TTTTAA
95842691 GTTTTAAGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (39 bp):
TTTTAACTGAAATATGGACTAAAATATTAAAGTTTTAAG
Found at i:95842687 original size:7 final size:7
Alignment explanation
Indices: 95842667--95842737 Score: 79
Period size: 7 Copynumber: 10.0 Consensus size: 7
95842657 ATATGGACTA
*
95842667 AAATATT
1 AAATTTT
95842674 AAAGTTTT
1 AAA-TTTT
*
95842682 AAGTTTT
1 AAATTTT
*
95842689 AAGTTTT
1 AAATTTT
*
95842696 AAGTTTT
1 AAATTTT
95842703 AAATTTT
1 AAATTTT
* *
95842710 TATTTTT
1 AAATTTT
95842717 AAATTTT
1 AAATTTT
95842724 AAATTTT
1 AAATTTT
95842731 AAATTTT
1 AAATTTT
95842738 TTTGAAGATT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
7 51 0.91
8 5 0.09
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (7 bp):
AAATTTT
Found at i:95842694 original size:14 final size:14
Alignment explanation
Indices: 95842672--95842737 Score: 87
Period size: 14 Copynumber: 4.6 Consensus size: 14
95842662 GACTAAAATA
95842672 TTAAAGTTTTAAGTT
1 TTAAA-TTTTAAGTT
*
95842687 TTAAGTTTTAAGTT
1 TTAAATTTTAAGTT
* *
95842701 TTAAATTTTTATTT
1 TTAAATTTTAAGTT
*
95842715 TTAAATTTTAAATT
1 TTAAATTTTAAGTT
95842729 TTAAATTTT
1 TTAAATTTT
95842738 TTTGAAGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
14 41 0.91
15 4 0.09
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
TTAAATTTTAAGTT
Found at i:95843636 original size:21 final size:21
Alignment explanation
Indices: 95843590--95843658 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
95843580 CCTTAAAAAT
* * *
95843590 TAAACCATAAACCCCAAACCC
1 TAAACCATAAATCCTAAACCA
* * *
95843611 CAAACCCTAAATCCTAAATCA
1 TAAACCATAAATCCTAAACCA
*
95843632 TAAACCATAAATCTTAAACCA
1 TAAACCATAAATCCTAAACCA
95843653 TAAACC
1 TAAACC
95843659 TCCACCCTAA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAACCATAAATCCTAAACCA
Found at i:95843672 original size:7 final size:7
Alignment explanation
Indices: 95843590--95843676 Score: 59
Period size: 7 Copynumber: 12.6 Consensus size: 7
95843580 CCTTAAAAAT
*
95843590 TAAACCA
1 TAAACCC
95843597 TAAACCC
1 TAAACCC
*
95843604 CAAACCC
1 TAAACCC
*
95843611 CAAACCC
1 TAAACCC
*
95843618 TAAATCC
1 TAAACCC
* *
95843625 TAAATCA
1 TAAACCC
*
95843632 TAAACCA
1 TAAACCC
* *
95843639 TAAATCT
1 TAAACCC
*
95843646 TAAACCA
1 TAAACCC
95843653 TAAA-CC
1 TAAACCC
**
95843659 TCCACCC
1 TAAACCC
95843666 TAAACCC
1 TAAACCC
95843673 TAAA
1 TAAA
95843677 TATATATTAC
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
6 3 0.05
7 61 0.95
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:95844320 original size:40 final size:40
Alignment explanation
Indices: 95844194--95844330 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 40
95844184 TGAAAAACGT
* *
95844194 CGCTAATGCTCGATCTTTAGCGGTGTTTTTC-GAAAAGTAC
1 CGCTAATGCTCGATCTTTAGCGGCGTTTTTCAG-AAAGTGC
* * *
95844234 CGCTAAGGCTCGATCTTTAGTGGCGTTTTTCAGAAAGCGC
1 CGCTAATGCTCGATCTTTAGCGGCGTTTTTCAGAAAGTGC
* * * *
95844274 CACTAATACTCGATTTTTAGCGGCGTTTTTCAGAAAGTGT
1 CGCTAATGCTCGATCTTTAGCGGCGTTTTTCAGAAAGTGC
* *
95844314 CGCTAATTCTCAATCTT
1 CGCTAATGCTCGATCTT
95844331 CCACTAAAGC
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 79 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (40 bp):
CGCTAATGCTCGATCTTTAGCGGCGTTTTTCAGAAAGTGC
Found at i:95844466 original size:40 final size:40
Alignment explanation
Indices: 95844386--95844466 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
95844376 TTGCGGCGCT
* *
95844386 TGCTTGATCTTTAGCGGAGTTTTCGGGAAAGCGCCGCTAA
1 TGCTTGATCTTTAGCGGAGTTTTCGGAAAAGCGCCACTAA
* ** *
95844426 TGCTTGATCTTTAGCGGCGTTTTTTGAAAAGCGTCACTAA
1 TGCTTGATCTTTAGCGGAGTTTTCGGAAAAGCGCCACTAA
95844466 T
1 T
95844467 TCTCAATCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (40 bp):
TGCTTGATCTTTAGCGGAGTTTTCGGAAAAGCGCCACTAA
Found at i:95852606 original size:46 final size:47
Alignment explanation
Indices: 95852541--95852857 Score: 430
Period size: 46 Copynumber: 6.9 Consensus size: 47
95852531 TTATCTTTGG
* * * *
95852541 CATGATGCCATTGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
*
95852587 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
* * *
95852633 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
* * *
95852679 CATGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-CGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
* * *
95852725 CATGTTGCCATAGTATCTCTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
* * *
95852771 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
*
95852817 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT
95852858 CATTTCAGAG
Statistics
Matches: 239, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
45 10 0.04
46 223 0.93
47 6 0.03
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
Found at i:95852794 original size:138 final size:138
Alignment explanation
Indices: 95852541--95852857 Score: 535
Period size: 138 Copynumber: 2.3 Consensus size: 138
95852531 TTATCTTTGG
* * * * * *
95852541 CATGATGCCATTGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCCGTCATGTTGCCATAGTATCTC
95852606 TCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
66 TCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
95852671 TTTCATAT
131 TTTCATAT
* *
95852679 CATGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCGTCATGTTGCCATAGTATCTC
1 CATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCCGTCATGTTGCCATAGTATCTC
95852744 TCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
66 TCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
95852809 TTTCATTT
131 TTTCATAT
* *
95852817 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTT
95852858 CATTTCAGAG
Statistics
Matches: 167, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
138 167 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (138 bp):
CATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCCGTCATGTTGCCATAGTATCTC
TCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
TTTCATAT
Found at i:95854648 original size:11 final size:11
Alignment explanation
Indices: 95854632--95854687 Score: 69
Period size: 11 Copynumber: 5.2 Consensus size: 11
95854622 CTTTATATAC
95854632 TAATAAAATAA
1 TAATAAAATAA
95854643 TAATAAAATAA
1 TAATAAAATAA
* *
95854654 TAA-AATATCA
1 TAATAAAATAA
* *
95854664 TATTAAAATAT
1 TAATAAAATAA
95854675 TAATAAAATAA
1 TAATAAAATAA
95854686 TA
1 TA
95854688 TTTATCTCGT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
10 7 0.19
11 29 0.81
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:95859754 original size:40 final size:39
Alignment explanation
Indices: 95859698--95859900 Score: 212
Period size: 40 Copynumber: 5.1 Consensus size: 39
95859688 TGAATGAAAC
* * *
95859698 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
* * *
95859738 TCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
*
95859778 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATA-
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * *
95859817 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
* * **
95859857 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
95859897 CCGG
1 CCGG
95859901 TTAGATTCCG
Statistics
Matches: 139, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 31 0.22
40 103 0.74
41 2 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Done.