Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 193 of 297
Found at i:65529681 original size:15 final size:15
Alignment explanation
Indices: 65529663--65529810 Score: 65
Period size: 15 Copynumber: 9.5 Consensus size: 15
65529653 TAATTGTAAT
65529663 AATAATAATAATATA
1 AATAATAATAATATA
* *
65529678 AATAATAGTAAAATA
1 AATAATAATAATATA
*
65529693 ATGATAGTAATAATA-A
1 A--ATAATAATAATATA
* *
65529709 TGATAGTAATAATATA
1 -AATAATAATAATATA
*
65529725 AAT-A-AAT-ATGGAGA
1 AATAATAATAAT--ATA
65529739 GAAT-ATATATAATATAA
1 -AATAATA-ATAATAT-A
*
65529756 TAATAACAATAATATA
1 -AATAATAATAATATA
65529772 AATAATAAT-ATATA
1 AATAATAATAATATA
* *
65529786 CATGAAAAAATATATATA
1 AAT--AATAATA-ATATA
65529804 AATAATA
1 AATAATA
65529811 CCAAAAATAA
Statistics
Matches: 100, Mismatches: 17, Indels: 31
0.68 0.11 0.21
Matches are distributed among these distances:
12 2 0.02
13 3 0.03
14 9 0.09
15 40 0.40
16 13 0.13
17 22 0.22
18 11 0.11
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (15 bp):
AATAATAATAATATA
Found at i:65529756 original size:47 final size:48
Alignment explanation
Indices: 65529659--65529776 Score: 138
Period size: 47 Copynumber: 2.5 Consensus size: 48
65529649 ATGATAATTG
*
65529659 TAATAATAATAATAATATAAAT-AATAGTAAAATAATGATAGTAATAA
1 TAATAATAATAATAATATAAATAAATAGGAAAATAATGATAGTAATAA
* *
65529706 TAATGATAGTAATAATATAAATAAATATGGAGAGAAT-AT-ATA-TAAT-A
1 TAATAATAATAATAATATAAATAAATA-GGA-A-AATAATGATAGTAATAA
*
65529753 TAATAATAACAATAATATAAATAA
1 TAATAATAATAATAATATAAATAA
65529777 TAATATATAC
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
47 42 0.69
48 8 0.13
49 5 0.08
50 3 0.05
51 3 0.05
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (48 bp):
TAATAATAATAATAATATAAATAAATAGGAAAATAATGATAGTAATAA
Found at i:65529769 original size:26 final size:26
Alignment explanation
Indices: 65529740--65529811 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 26
65529730 ATATGGAGAG
65529740 AATATATATAATATAATA-AT-AACAA
1 AATATATATAATATAATACATGAA-AA
*
65529765 TAATATAAATAATAATATATACATGAAAA
1 -AATATATATAAT-ATA-ATACATGAAAA
65529794 AATATATATAA-ATAATAC
1 AATATATATAATATAATAC
65529812 CAAAAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
25 4 0.10
26 14 0.35
27 3 0.08
28 13 0.32
29 4 0.10
30 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (26 bp):
AATATATATAATATAATACATGAAAA
Found at i:65532648 original size:20 final size:20
Alignment explanation
Indices: 65532623--65532662 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
65532613 CAAATCTTTT
*
65532623 GCACATGTTCTCTTCAATAG
1 GCACATGATCTCTTCAATAG
65532643 GCACATGATCTCTTCAATAG
1 GCACATGATCTCTTCAATAG
65532663 ACATATTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (20 bp):
GCACATGATCTCTTCAATAG
Found at i:65532672 original size:18 final size:20
Alignment explanation
Indices: 65532623--65532672 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
65532613 CAAATCTTTT
*
65532623 GCACATGTTCTCTTCAATAG
1 GCACATATTCTCTTCAATAG
65532643 GCACATGA-TCTCTTCAATA-
1 GCACAT-ATTCTCTTCAATAG
65532662 G-ACATATTCTC
1 GCACATATTCTC
65532673 GAGCATACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 1 0.04
18 8 0.30
19 1 0.04
20 17 0.63
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (20 bp):
GCACATATTCTCTTCAATAG
Found at i:65533911 original size:20 final size:18
Alignment explanation
Indices: 65533866--65533915 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
65533856 ATATTCAATC
65533866 CACATATTCAA-ACATTTT
1 CACA-ATTCAATACATTTT
65533884 CACAATTCAATACATTTT
1 CACAATTCAATACATTTT
65533902 CATTCAATTCAATA
1 CA--CAATTCAATA
65533916 TCAATACTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.21
18 13 0.45
20 10 0.34
ACGTcount: A:0.40, C:0.22, G:0.00, T:0.38
Consensus pattern (18 bp):
CACAATTCAATACATTTT
Found at i:65534343 original size:19 final size:19
Alignment explanation
Indices: 65534319--65534386 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 19
65534309 TATTATACAA
65534319 AATTTATAGCCTATTCTAC
1 AATTTATAGCCTATTCTAC
*
65534338 AATTTAATTTAGTCCCTATGAC-AC
1 AATTT-A--TAG--CCTAT-TCTAC
*
65534362 AATTTATAGTCTATTCTAC
1 AATTTATAGCCTATTCTAC
65534381 AATTTA
1 AATTTA
65534387 ATCCTTCTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
18 1 0.03
19 17 0.44
20 1 0.03
21 3 0.08
22 3 0.08
23 1 0.03
24 12 0.31
25 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.43
Consensus pattern (19 bp):
AATTTATAGCCTATTCTAC
Found at i:65534355 original size:24 final size:24
Alignment explanation
Indices: 65534298--65534388 Score: 67
Period size: 21 Copynumber: 4.1 Consensus size: 24
65534288 AATTTCTTGC
*
65534298 AATTTAGTCCCTATTATACAA---
1 AATTTAGTCCCTATTCTACAATTT
*
65534319 AATTTA-TAGCCTATTCTACAATTT
1 AATTTAGT-CCCTATTCTACAATTT
*
65534343 AATTTAGTCCCTATGAC-ACAATTT
1 AATTTAGTCCCTAT-TCTACAATTT
65534367 -A--TAGT--CTATTCTACAATTT
1 AATTTAGTCCCTATTCTACAATTT
65534386 AAT
1 AAT
65534389 CCTTCTCCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
18 1 0.02
19 11 0.20
20 2 0.04
21 21 0.38
23 1 0.02
24 18 0.32
25 2 0.04
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (24 bp):
AATTTAGTCCCTATTCTACAATTT
Found at i:65534376 original size:43 final size:45
Alignment explanation
Indices: 65534298--65534388 Score: 141
Period size: 43 Copynumber: 2.1 Consensus size: 45
65534288 AATTTCTTGC
*
65534298 AATTTAGTCCCTATTATACAAAATTTATAGCCTATTCTACAATTT
1 AATTTAGTCCCTATTAGACAAAATTTATAGCCTATTCTACAATTT
* *
65534343 AATTTAGTCCCTA-T-GACACAATTTATAGTCTATTCTACAATTT
1 AATTTAGTCCCTATTAGACAAAATTTATAGCCTATTCTACAATTT
65534386 AAT
1 AAT
65534389 CCTTCTCCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 29 0.67
44 1 0.02
45 13 0.30
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (45 bp):
AATTTAGTCCCTATTAGACAAAATTTATAGCCTATTCTACAATTT
Found at i:65534622 original size:14 final size:14
Alignment explanation
Indices: 65534603--65534637 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
65534593 CCTAATTTTT
*
65534603 TCTTTCTTTCTTTC
1 TCTTTCTTTCCTTC
65534617 TCTTTCTTTCCTTC
1 TCTTTCTTTCCTTC
65534631 T-TTTCTT
1 TCTTTCTT
65534638 CTCTGTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
TCTTTCTTTCCTTC
Found at i:65534624 original size:18 final size:17
Alignment explanation
Indices: 65534601--65534637 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
65534591 TCCCTAATTT
*
65534601 TTTCTTTCTTTCTTTCTC
1 TTTCTTTCCTTCTTT-TC
65534619 TTTCTTTCCTTCTTTTC
1 TTTCTTTCCTTCTTTTC
65534636 TT
1 TT
65534638 CTCTGTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTCTTTCCTTCTTTTC
Found at i:65534855 original size:3 final size:3
Alignment explanation
Indices: 65534847--65534904 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
65534837 TTATTTTATT
*
65534847 TAA TAA TAA TAA T-A TAA T-A TAA -AA TAA TAA TAA TAA TAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
65534892 TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TA
65534905 TATTTTAACA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
2 7 0.15
3 40 0.85
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:65538924 original size:3 final size:3
Alignment explanation
Indices: 65538918--65538944 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
65538908 TTAGTTGTTG
65538918 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
65538945 AATAAATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:65539242 original size:31 final size:32
Alignment explanation
Indices: 65539193--65539256 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
65539183 ATATTATATA
*
65539193 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
65539224 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
65539256 A
1 A
65539257 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:65539338 original size:141 final size:139
Alignment explanation
Indices: 65539048--65539346 Score: 318
Period size: 141 Copynumber: 2.1 Consensus size: 139
65539038 AATTTTAGAA
* * *
65539048 TAAA-AGATATTTATTAATTAAATAATTAAATAATGAGATTTTTGTTTGATAAATAAATTAAATA
1 TAAATAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAATAAATAAATTAAATA
* * * * * * * * *
65539112 ATGACAATTGTAATGAATTTATTGGTACAAATGTGAAATATAAGTGTGTACAATTGTAATATTAG
66 ATGACAAATGTAATGAA-TAATTGGTACAAATGTGAAATAAAAATGTATACAAATGTAAAATAAA
*
65539177 TATTTAATAT
130 TATTGAATAT
* * * *
65539187 TATATAAGATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAATATATTAAAT
1 TAAAT-AGATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAATAAATAAATTAAAT
* * *
65539252 TATGACAAATGT-ATGGTAA-AATTTGT-GAAATGTGTAATAATAAAAATGTATACAAATGTAAA
65 AATGACAAATGTAAT-G-AATAATTGGTACAAATGTG--A-AATAAAAATGTATACAAATGTAAA
*
65539314 ATAAATATTGATTAT
125 ATAAATATTGAATAT
65539329 TAAATAGATATTTATTAA
1 TAAATAGATATTTATTAA
65539347 CTTATTATAT
Statistics
Matches: 131, Mismatches: 22, Indels: 12
0.79 0.13 0.07
Matches are distributed among these distances:
139 10 0.08
140 7 0.05
141 78 0.60
142 36 0.27
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (139 bp):
TAAATAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAATAAATAAATTAAATA
ATGACAAATGTAATGAATAATTGGTACAAATGTGAAATAAAAATGTATACAAATGTAAAATAAAT
ATTGAATAT
Found at i:65540140 original size:19 final size:15
Alignment explanation
Indices: 65540094--65540135 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
65540084 CGATGAATTT
*
65540094 ATTGAATTTATATTG
1 ATTGAAATTATATTG
65540109 ATTGAAATTATATTG
1 ATTGAAATTATATTG
65540124 ATTG-AATTATAT
1 ATTGAAATTATAT
65540136 AATATACATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:65540790 original size:19 final size:20
Alignment explanation
Indices: 65540766--65540807 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
65540756 ATGAAACGAT
65540766 AAATTGA-AT-TGAGAATTGA
1 AAATTGAGATATGAG-ATTGA
65540785 AAATTGAGATATGAGATTGA
1 AAATTGAGATATGAGATTGA
65540805 AAA
1 AAA
65540808 CATGAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 10 0.48
21 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (20 bp):
AAATTGAGATATGAGATTGA
Found at i:65544390 original size:264 final size:264
Alignment explanation
Indices: 65543920--65544448 Score: 1058
Period size: 264 Copynumber: 2.0 Consensus size: 264
65543910 TCATTTCATT
65543920 CATCAATACACTATTGTCTATTCGTGAACAATGATTCATACTATGCATTTTCATAATCTCATTTC
1 CATCAATACACTATTGTCTATTCGTGAACAATGATTCATACTATGCATTTTCATAATCTCATTTC
65543985 ATTAATTCAACAATCATTCCCTGAACCTTTGGTTCATTCATTCATTCTCATTTCTCAATTTCAAT
66 ATTAATTCAACAATCATTCCCTGAACCTTTGGTTCATTCATTCATTCTCATTTCTCAATTTCAAT
65544050 TTCTTATTTCATTTCTCAATCAAGGTCATTTACTTTCATTCAATTTTACCATTCTATTCGTTACC
131 TTCTTATTTCATTTCTCAATCAAGGTCATTTACTTTCATTCAATTTTACCATTCTATTCGTTACC
65544115 CCTATTAACAAGACCCGGACTTTGGCAGATACAAGGATCCAACCAAACACTCCAGTATCGCACCC
196 CCTATTAACAAGACCCGGACTTTGGCAGATACAAGGATCCAACCAAACACTCCAGTATCGCACCC
65544180 AGTG
261 AGTG
65544184 CATCAATACACTATTGTCTATTCGTGAACAATGATTCATACTATGCATTTTCATAATCTCATTTC
1 CATCAATACACTATTGTCTATTCGTGAACAATGATTCATACTATGCATTTTCATAATCTCATTTC
65544249 ATTAATTCAACAATCATTCCCTGAACCTTTGGTTCATTCATTCATTCTCATTTCTCAATTTCAAT
66 ATTAATTCAACAATCATTCCCTGAACCTTTGGTTCATTCATTCATTCTCATTTCTCAATTTCAAT
65544314 TTCTTATTTCATTTCTCAATCAAGGTCATTTACTTTCATTCAATTTTACCATTCTATTCGTTACC
131 TTCTTATTTCATTTCTCAATCAAGGTCATTTACTTTCATTCAATTTTACCATTCTATTCGTTACC
65544379 CCTATTAACAAGACCCGGACTTTGGCAGATACAAGGATCCAACCAAACACTCCAGTATCGCACCC
196 CCTATTAACAAGACCCGGACTTTGGCAGATACAAGGATCCAACCAAACACTCCAGTATCGCACCC
65544444 AGTG
261 AGTG
65544448 C
1 C
65544449 CTCATCGGAT
Statistics
Matches: 265, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
264 265 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.37
Consensus pattern (264 bp):
CATCAATACACTATTGTCTATTCGTGAACAATGATTCATACTATGCATTTTCATAATCTCATTTC
ATTAATTCAACAATCATTCCCTGAACCTTTGGTTCATTCATTCATTCTCATTTCTCAATTTCAAT
TTCTTATTTCATTTCTCAATCAAGGTCATTTACTTTCATTCAATTTTACCATTCTATTCGTTACC
CCTATTAACAAGACCCGGACTTTGGCAGATACAAGGATCCAACCAAACACTCCAGTATCGCACCC
AGTG
Found at i:65544778 original size:18 final size:19
Alignment explanation
Indices: 65544755--65544793 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
65544745 ATATATTCAC
65544755 ACATTTTCA-CAATTCAAT
1 ACATTTTCATCAATTCAAT
65544773 ACATTTTCATTCAATTCAAT
1 ACATTTTCA-TCAATTCAAT
65544793 A
1 A
65544794 TCAATACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (19 bp):
ACATTTTCATCAATTCAAT
Found at i:65545704 original size:21 final size:22
Alignment explanation
Indices: 65545688--65545733 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
65545678 TTATTTTATT
65545688 TAATAATAAT-ATAATTTAAAA
1 TAATAATAATAATAATTTAAAA
*
65545709 TAATAATAATAATAATCTAATAA
1 TAATAATAATAATAATTTAA-AA
65545732 TA
1 TA
65545734 TATTTTAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
22 8 0.36
23 4 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATAATAATAATAATTTAAAA
Found at i:65559016 original size:19 final size:21
Alignment explanation
Indices: 65558992--65559030 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65558982 TGTCATTTAA
65558992 TTTT-AAAAAC-AATCCACTC
1 TTTTAAAAAACTAATCCACTC
65559011 TTTTAAAAAACTAATCCACT
1 TTTTAAAAAACTAATCCACT
65559031 AAAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (21 bp):
TTTTAAAAAACTAATCCACTC
Found at i:65559209 original size:13 final size:13
Alignment explanation
Indices: 65559191--65559215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65559181 TAGTATATAT
65559191 ACATGTATTTATC
1 ACATGTATTTATC
65559204 ACATGTATTTAT
1 ACATGTATTTAT
65559216 TTTGTCCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (13 bp):
ACATGTATTTATC
Found at i:65559430 original size:31 final size:32
Alignment explanation
Indices: 65559395--65559464 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
65559385 GTTACTTTAG
65559395 TTATTATAATG-AGTCTTTAATT-ATGTCTTGT-
1 TTATTA-AATGCA-TCTTTAATTAATGTCTTGTA
*
65559426 TTATTAAATGCATGTTTAATTAATGTCTTGTA
1 TTATTAAATGCATCTTTAATTAATGTCTTGTA
65559458 TTATTAA
1 TTATTAA
65559465 TCTACATCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
30 12 0.34
31 16 0.46
32 7 0.20
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (32 bp):
TTATTAAATGCATCTTTAATTAATGTCTTGTA
Found at i:65559463 original size:16 final size:15
Alignment explanation
Indices: 65559417--65559465 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
65559407 GTCTTTAATT
65559417 ATGTCTTGTTTATTAA
1 ATGTCTTGTTTATT-A
*
65559433 ATG-CATGTTTAATTA
1 ATGTCTTGTTT-ATTA
65559448 ATGTCTTGTATTATTA
1 ATGTCTTGT-TTATTA
65559464 AT
1 AT
65559466 CTACATCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 10 0.36
16 16 0.57
17 2 0.07
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (15 bp):
ATGTCTTGTTTATTA
Found at i:65566425 original size:16 final size:16
Alignment explanation
Indices: 65566379--65566432 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
65566369 ATCTAAGTTT
65566379 TTTTGAATTTATATATA
1 TTTT-AATTTATATATA
** *
65566396 TTATTTGTTT-TATAAA
1 TT-TTAATTTATATATA
65566412 TTTTAATTTATATATA
1 TTTTAATTTATATATA
65566428 TTTTA
1 TTTTA
65566433 TGAATTGTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 5 0.17
16 17 0.59
17 5 0.17
18 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (16 bp):
TTTTAATTTATATATA
Found at i:65566494 original size:23 final size:25
Alignment explanation
Indices: 65566468--65566518 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
65566458 TATAAGTTAT
65566468 GAAAAGTTATATAT-T-TAATAAAA
1 GAAAAGTTATATATATCTAATAAAA
** *
65566491 GAAATTTTATATATATCTGATAAAA
1 GAAAAGTTATATATATCTAATAAAA
65566516 GAA
1 GAA
65566519 TGCCAAGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 12 0.52
24 1 0.04
25 10 0.43
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.35
Consensus pattern (25 bp):
GAAAAGTTATATATATCTAATAAAA
Found at i:65572357 original size:22 final size:19
Alignment explanation
Indices: 65572332--65572381 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
65572322 TATCCAAACA
65572332 ATAACAACAAAATAGTAACAAT
1 ATAACAACAAAAT-G--ACAAT
*
65572354 ATAATAACAAAATGACAAT
1 ATAACAACAAAATGACAAT
*
65572373 AAAACAACA
1 ATAACAACA
65572382 TCAAAATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 12 0.48
21 1 0.04
22 12 0.48
ACGTcount: A:0.66, C:0.14, G:0.04, T:0.16
Consensus pattern (19 bp):
ATAACAACAAAATGACAAT
Found at i:65574427 original size:40 final size:40
Alignment explanation
Indices: 65574383--65574463 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
65574373 TCAAAAACAT
65574383 AAAAATTATAAGAAAAAGAATTAAATTGACTATCCATTTG
1 AAAAATTATAAGAAAAAGAATTAAATTGACTATCCATTTG
65574423 AAAAATTATAAGAAAAAGAATTAAATTGACTATCCATTTG
1 AAAAATTATAAGAAAAAGAATTAAATTGACTATCCATTTG
65574463 A
1 A
65574464 GCTTGAAACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (40 bp):
AAAAATTATAAGAAAAAGAATTAAATTGACTATCCATTTG
Found at i:65574603 original size:5 final size:5
Alignment explanation
Indices: 65574593--65574670 Score: 149
Period size: 5 Copynumber: 15.8 Consensus size: 5
65574583 TTTGTTTTAT
65574593 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
65574643 TATAA TATAA TATAA TATAA TAT-A TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
65574671 CTTAATTCTT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.06
5 68 0.94
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:65578441 original size:12 final size:12
Alignment explanation
Indices: 65578424--65578456 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
65578414 CGGCCCGCCC
65578424 ATATTAATTTTT
1 ATATTAATTTTT
65578436 ATATT-ATTTTT
1 ATATTAATTTTT
65578447 ATA-TAATTTT
1 ATATTAATTTT
65578457 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:65578614 original size:30 final size:30
Alignment explanation
Indices: 65578578--65578635 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
65578568 CAATTTAACA
*
65578578 AGCAAATGCCTCTAAAATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAAATT
* *
65578608 AGCAAATGTCTTTAAAATAATAAAAAAA
1 AGCAAATGCCTCTAAAATAATAAAAAAA
65578636 ATTTTGACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.24
Consensus pattern (30 bp):
AGCAAATGCCTCTAAAATAATAAAAAAATT
Found at i:65578700 original size:22 final size:22
Alignment explanation
Indices: 65578675--65578717 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
65578665 TATCCAAACA
65578675 ATAACAAC-AAAATAGTAGCAAC
1 ATAA-AACTAAAATAGTAGCAAC
*
65578697 ATAATACTAAAATAGTAGCAA
1 ATAAAACTAAAATAGTAGCAA
65578718 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.58, C:0.14, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAAAACTAAAATAGTAGCAAC
Found at i:65579832 original size:21 final size:21
Alignment explanation
Indices: 65579808--65579870 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
65579798 CAGAAACCCG
65579808 TAAGGGTTGAACGAAAGCTCA
1 TAAGGGTTGAACGAAAGCTCA
* * *
65579829 TAAGAGCTGAACGGAAA-CCCA
1 TAAGGGTTGAAC-GAAAGCTCA
* *
65579850 TAAGGGTTAAACAAAAGCTCA
1 TAAGGGTTGAACGAAAGCTCA
65579871 ATAGAGCTGA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 3 0.09
21 25 0.78
22 4 0.12
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (21 bp):
TAAGGGTTGAACGAAAGCTCA
Found at i:65579867 original size:42 final size:42
Alignment explanation
Indices: 65579796--65579899 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
65579786 ATAAATGCTA
* * *
65579796 AACAGAAACCCGTAAGGGTTGAACGAAAGCTC-ATAAGAGCTG
1 AACAGAAACCCATAAGGGTTAAACAAAAGCTCAAT-AGAGCTG
*
65579838 AACGGAAACCCATAAGGGTTAAACAAAAGCTCAATAGAGCTG
1 AACAGAAACCCATAAGGGTTAAACAAAAGCTCAATAGAGCTG
* *
65579880 AACAGAAACCTATTAGGGTT
1 AACAGAAACCCATAAGGGTT
65579900 GAACTGAAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 52 0.96
43 2 0.04
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.16
Consensus pattern (42 bp):
AACAGAAACCCATAAGGGTTAAACAAAAGCTCAATAGAGCTG
Found at i:65587022 original size:42 final size:42
Alignment explanation
Indices: 65586956--65587075 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 42
65586946 GGCTGCACAG
* * * * * * *
65586956 AAGCACATAAGTGCTAAACAGAAACCCGTAAGGGTTAAATAA
1 AAGCTCATAAGAGCTGAACGGAAACCCATAAAGGTTAAACAA
* *
65586998 AAGCTCATAAGAGCTGAACGGAAACCTATAAAGGTTAAACAG
1 AAGCTCATAAGAGCTGAACGGAAACCCATAAAGGTTAAACAA
* *
65587040 AAGCTCA-ATAGAGCTGAACGAAAACCCATTAAGGTT
1 AAGCTCATA-AGAGCTGAACGGAAACCCATAAAGGTT
65587076 GAACTGAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.02
42 64 0.98
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (42 bp):
AAGCTCATAAGAGCTGAACGGAAACCCATAAAGGTTAAACAA
Found at i:65589635 original size:27 final size:28
Alignment explanation
Indices: 65589605--65589666 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
65589595 AAGAATGTTA
65589605 AAATTATTCTAAAAGAAAAA-TC-AAGAG
1 AAATTATT-TAAAAGAAAAACTCAAAGAG
* *
65589632 AAATT-CTTGAAAGAAAAACTCAAAGAG
1 AAATTATTTAAAAGAAAAACTCAAAGAG
*
65589659 AATTTATT
1 AAATTATT
65589667 AACTCAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
25 10 0.36
26 3 0.11
27 14 0.50
28 1 0.04
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (28 bp):
AAATTATTTAAAAGAAAAACTCAAAGAG
Found at i:65596968 original size:356 final size:356
Alignment explanation
Indices: 65596315--65597021 Score: 1414
Period size: 356 Copynumber: 2.0 Consensus size: 356
65596305 CTTAAACTAT
65596315 AATTTCATTGCTCAAGAACCAATAGATGTAAATTTGTAGAAATAATAGAAAGTCCTTGTCCATTC
1 AATTTCATTGCTCAAGAACCAATAGATGTAAATTTGTAGAAATAATAGAAAGTCCTTGTCCATTC
65596380 CTTTTGTGGAGTAAAATTGGTTGCATAAGGTGAAAGGTTTTTTACTTTGTTACAAGTATCATGAT
66 CTTTTGTGGAGTAAAATTGGTTGCATAAGGTGAAAGGTTTTTTACTTTGTTACAAGTATCATGAT
65596445 ATGTTGTACCCTAGAAGATGTATTGAAGCATATTAGTTTTTTGGGCTATGCTGTTATTTTATTTG
131 ATGTTGTACCCTAGAAGATGTATTGAAGCATATTAGTTTTTTGGGCTATGCTGTTATTTTATTTG
65596510 CTTCTTGATGCTGTTTTTTTTTTTTTTTTTACTTGTTACCACACCTTCCCTATAGACGAAGAAAG
196 CTTCTTGATGCTGTTTTTTTTTTTTTTTTTACTTGTTACCACACCTTCCCTATAGACGAAGAAAG
65596575 AATGGTGGGACAATTCTCATTATGGGATAGATGATTTAATTTCTGTTTCCATGAGATCATATATT
261 AATGGTGGGACAATTCTCATTATGGGATAGATGATTTAATTTCTGTTTCCATGAGATCATATATT
65596640 TGATTTTATGCATGCAGGATAAGGTTTAGTA
326 TGATTTTATGCATGCAGGATAAGGTTTAGTA
65596671 AATTTCATTGCTCAAGAACCAATAGATGTAAATTTGTAGAAATAATAGAAAGTCCTTGTCCATTC
1 AATTTCATTGCTCAAGAACCAATAGATGTAAATTTGTAGAAATAATAGAAAGTCCTTGTCCATTC
65596736 CTTTTGTGGAGTAAAATTGGTTGCATAAGGTGAAAGGTTTTTTACTTTGTTACAAGTATCATGAT
66 CTTTTGTGGAGTAAAATTGGTTGCATAAGGTGAAAGGTTTTTTACTTTGTTACAAGTATCATGAT
65596801 ATGTTGTACCCTAGAAGATGTATTGAAGCATATTAGTTTTTTGGGCTATGCTGTTATTTTATTTG
131 ATGTTGTACCCTAGAAGATGTATTGAAGCATATTAGTTTTTTGGGCTATGCTGTTATTTTATTTG
65596866 CTTCTTGATGCTGTTTTTTTTTTTTTTTTTACTTGTTACCACACCTTCCCTATAGACGAAGAAAG
196 CTTCTTGATGCTGTTTTTTTTTTTTTTTTTACTTGTTACCACACCTTCCCTATAGACGAAGAAAG
65596931 AATGGTGGGACAATTCTCATTATGGGATAGATGATTTAATTTCTGTTTCCATGAGATCATATATT
261 AATGGTGGGACAATTCTCATTATGGGATAGATGATTTAATTTCTGTTTCCATGAGATCATATATT
65596996 TGATTTTATGCATGCAGGATAAGGTT
326 TGATTTTATGCATGCAGGATAAGGTT
65597022 GAGTTTTGAA
Statistics
Matches: 351, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
356 351 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (356 bp):
AATTTCATTGCTCAAGAACCAATAGATGTAAATTTGTAGAAATAATAGAAAGTCCTTGTCCATTC
CTTTTGTGGAGTAAAATTGGTTGCATAAGGTGAAAGGTTTTTTACTTTGTTACAAGTATCATGAT
ATGTTGTACCCTAGAAGATGTATTGAAGCATATTAGTTTTTTGGGCTATGCTGTTATTTTATTTG
CTTCTTGATGCTGTTTTTTTTTTTTTTTTTACTTGTTACCACACCTTCCCTATAGACGAAGAAAG
AATGGTGGGACAATTCTCATTATGGGATAGATGATTTAATTTCTGTTTCCATGAGATCATATATT
TGATTTTATGCATGCAGGATAAGGTTTAGTA
Found at i:65603319 original size:22 final size:22
Alignment explanation
Indices: 65603294--65603338 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
65603284 TTTAATAAAG
65603294 AAAATA-TCTACAAAATATTCCT
1 AAAATATTC-ACAAAATATTCCT
*
65603316 AAAATATTCACAGAATATTCCT
1 AAAATATTCACAAAATATTCCT
65603338 A
1 A
65603339 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAATATTCACAAAATATTCCT
Found at i:65606581 original size:22 final size:22
Alignment explanation
Indices: 65606527--65606571 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
65606517 TTTAATAAAG
*
65606527 AAAATATCTACAAAATATTCCT
1 AAAATATTTACAAAATATTCCT
*
65606549 AAAATATTTACAGAATATTCCT
1 AAAATATTTACAAAATATTCCT
65606571 A
1 A
65606572 CAGTTTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATTTACAAAATATTCCT
Found at i:65609986 original size:11 final size:11
Alignment explanation
Indices: 65609970--65609999 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
65609960 TTACTACGTG
65609970 AAAAGAAAGAA
1 AAAAGAAAGAA
65609981 AAAAGAAAGAA
1 AAAAGAAAGAA
65609992 AAAA-AAAG
1 AAAAGAAAG
65610000 CATAATAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAGAAAGAA
Found at i:65623053 original size:18 final size:18
Alignment explanation
Indices: 65623032--65623069 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
65623022 TATGAAATGT
65623032 GAGTATGATTCAAAAGAC
1 GAGTATGATTCAAAAGAC
65623050 GAGTATGATTCAAAAGAC
1 GAGTATGATTCAAAAGAC
65623068 GA
1 GA
65623070 CATGTGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.21
Consensus pattern (18 bp):
GAGTATGATTCAAAAGAC
Found at i:65628358 original size:67 final size:67
Alignment explanation
Indices: 65628249--65628385 Score: 247
Period size: 67 Copynumber: 2.0 Consensus size: 67
65628239 TTTCTCTTAA
65628249 CTTCCATTGCGCTGCCTGTTTCTTGACTTAAAATAGGCGTATTCGAAATTGACTAATTTCAAGCT
1 CTTCCATTGCGCTGCCTGTTTCTTGACTTAAAATAGGCGTATTCGAAATTGACTAATTTCAAGCT
65628314 TG
66 TG
* * *
65628316 CTTCCATTGCGCTGCCTGTTTCTTGACTTAAAATTGGTGTATTCGAAATTGACTAATTTCAGGCT
1 CTTCCATTGCGCTGCCTGTTTCTTGACTTAAAATAGGCGTATTCGAAATTGACTAATTTCAAGCT
65628381 TG
66 TG
65628383 CTT
1 CTT
65628386 TGGCTTTATA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (67 bp):
CTTCCATTGCGCTGCCTGTTTCTTGACTTAAAATAGGCGTATTCGAAATTGACTAATTTCAAGCT
TG
Found at i:65628593 original size:12 final size:12
Alignment explanation
Indices: 65628558--65628593 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
65628548 AATTTATAAT
65628558 CATATTTTTAAA
1 CATATTTTTAAA
*
65628570 CAATAATTTTAAA
1 C-ATATTTTTAAA
65628583 CATATTTTTAA
1 CATATTTTTAA
65628594 TTTTATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (12 bp):
CATATTTTTAAA
Found at i:65628596 original size:18 final size:18
Alignment explanation
Indices: 65628573--65628608 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
65628563 TTTTAAACAA
65628573 TAATTTTA-AACATATTTT
1 TAATTTTATAA-ATATTTT
65628591 TAATTTTATAAATATTTT
1 TAATTTTATAAATATTTT
65628609 GCCAGTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
TAATTTTATAAATATTTT
Found at i:65632864 original size:29 final size:30
Alignment explanation
Indices: 65632832--65632895 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
65632822 TTAATTAATT
65632832 TTTTTAAAATT-TTAAAAATAA-TACAGATA
1 TTTTTAAAATTATTAAAAATAACT-CAGATA
* * *
65632861 TTTTTATAATTATTAAAAGTAACTCATATA
1 TTTTTAAAATTATTAAAAATAACTCAGATA
65632891 TTTTT
1 TTTTT
65632896 GAATATTGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 10 0.33
30 19 0.63
31 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (30 bp):
TTTTTAAAATTATTAAAAATAACTCAGATA
Found at i:65634634 original size:32 final size:32
Alignment explanation
Indices: 65634593--65634655 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
65634583 GATACATATT
65634593 GCACGAGAAAAAAACCCTTTCCAAAATCTAAA
1 GCACGAGAAAAAAACCCTTTCCAAAATCTAAA
65634625 GCACGAGAAAAAAACCCTTTCCAAAATCTAA
1 GCACGAGAAAAAAACCCTTTCCAAAATCTAA
65634656 CTCGTAGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.49, C:0.25, G:0.10, T:0.16
Consensus pattern (32 bp):
GCACGAGAAAAAAACCCTTTCCAAAATCTAAA
Found at i:65640083 original size:14 final size:15
Alignment explanation
Indices: 65640054--65640086 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
65640044 AGAACTCCGT
65640054 AATTAATTCAAGTTG
1 AATTAATTCAAGTTG
*
65640069 AATTAA-TCAATTTG
1 AATTAATTCAAGTTG
65640083 AATT
1 AATT
65640087 TTTATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (15 bp):
AATTAATTCAAGTTG
Found at i:65640902 original size:21 final size:20
Alignment explanation
Indices: 65640873--65640911 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
65640863 TTATGCTATA
65640873 TATTATAAAAATAATATATT
1 TATTATAAAAATAATATATT
*
65640893 TATTCATAAAAATATTATA
1 TATT-ATAAAAATAATATA
65640912 GCTTTTTTTT
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:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
TATTATAAAAATAATATATT
Found at i:65641060 original size:12 final size:12
Alignment explanation
Indices: 65641038--65641069 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
65641028 TATAAAGGTT
65641038 ATATATATTATAA
1 ATAT-TATTATAA
65641051 ATATTATTATAA
1 ATATTATTATAA
65641063 ATATTAT
1 ATATTAT
65641070 ATTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATTATTATAA
Found at i:65644795 original size:12 final size:12
Alignment explanation
Indices: 65644773--65644807 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
65644763 TTCCTTTAAC
65644773 TTTTTATTTTTTA
1 TTTTTA-TTTTTA
65644786 TTTTTATTTTTA
1 TTTTTATTTTTA
65644798 -TTTTATTTTT
1 TTTTTATTTTT
65644808 TGAATCTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 10 0.45
12 6 0.27
13 6 0.27
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:65644808 original size:7 final size:6
Alignment explanation
Indices: 65644773--65644807 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
65644763 TTCCTTTAAC
65644773 TTTTTA TTTTTTA TTTTTA TTTTTA -TTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
65644808 TGAATCTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:65647170 original size:2 final size:2
Alignment explanation
Indices: 65647163--65647189 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
65647153 CTATTACTTT
65647163 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
65647190 TTTACTCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:65648438 original size:132 final size:132
Alignment explanation
Indices: 65648195--65648442 Score: 354
Period size: 132 Copynumber: 1.9 Consensus size: 132
65648185 TTGGAAAATG
* * * * *
65648195 TGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTGCAACCCAGCACGAT
1 TGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCAGCACGAT
* * * *
65648260 AGGGCACGATTCCCCGAATTGCCGAACGTCGAACATTTCCTTCGTTTTAAAAGGTTTTTAGAAAA
66 AGGGCACGATTCCCCGAATTGCCAAACATCGAACATGTCCTCCGTTTTAAAAGGTTTTTAGAAAA
65648325 CA
131 CA
* ** *
65648327 TGAACGAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGTAACCCAGCACGAT
1 TGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCAGCACGAT
*
65648392 AGGGCACGATTCCCCGAATTGCTAAACATCGAACATCGT-CTCCGTTTTAAA
66 AGGGCACGATTCCCCGAATTGCCAAACATCGAACAT-GTCCTCCGTTTTAAA
65648443 GAATTTTTAA
Statistics
Matches: 101, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
132 100 0.99
133 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (132 bp):
TGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCAGCACGAT
AGGGCACGATTCCCCGAATTGCCAAACATCGAACATGTCCTCCGTTTTAAAAGGTTTTTAGAAAA
CA
Found at i:65650434 original size:44 final size:44
Alignment explanation
Indices: 65650361--65650583 Score: 291
Period size: 44 Copynumber: 5.2 Consensus size: 44
65650351 AGGAACACCG
* ** * *
65650361 ATCTGTTATTTTTTATCTACTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
65650405 ATCTGTTATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
65650449 ATCTGTTATTTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
65650493 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
65650533 ATC----ATCTTCGATCTGCTATCCGCCGCTATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
65650573 ATCTGTTATCT
1 ATCTGTTATCT
65650584 GTTTCAAGGA
Statistics
Matches: 162, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
40 76 0.47
44 86 0.53
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:65650514 original size:40 final size:41
Alignment explanation
Indices: 65650375--65650576 Score: 264
Period size: 40 Copynumber: 4.8 Consensus size: 41
65650365 GTTATTTTTT
* *
65650375 ATCTACTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCG
1 ATCTGCTCTCCGCCGCTACAGAGACGCCAAATC---TATCTTCG
* *
65650419 ATCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTTATTTTCG
1 ATCTGCTCTCCGCCGCTACAGAGACGCCAAATC---TATCTTCG
*
65650463 ATCTGCTCTCCGCCGCTACAGAGATGCCAAATC-ATCTTCG
1 ATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATCTTCG
*
65650503 ATCTGCTCTCCGCCGCTACAGAGATGCCAAATC-ATCTTCG
1 ATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATCTTCG
* *
65650543 ATCTGCTATCCGCCGCTATAGAGACGCCAAATCT
1 ATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
65650577 GTTATCTGTT
Statistics
Matches: 147, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
40 76 0.52
44 71 0.48
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (41 bp):
ATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATCTTCG
Found at i:65656059 original size:13 final size:13
Alignment explanation
Indices: 65656041--65656082 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
65656031 CCGGCTCCGT
*
65656041 CCGCCGCCATCCA
1 CCGCCGCCAGCCA
*
65656054 CCGCCGCCGGCCA
1 CCGCCGCCAGCCA
*
65656067 CCGCCGCCGGCCA
1 CCGCCGCCAGCCA
65656080 CCG
1 CCG
65656083 TGAAAATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.10, C:0.62, G:0.26, T:0.02
Consensus pattern (13 bp):
CCGCCGCCAGCCA
Found at i:65656949 original size:44 final size:44
Alignment explanation
Indices: 65656882--65657583 Score: 967
Period size: 44 Copynumber: 16.2 Consensus size: 44
65656872 AGGAACACCG
* ** * * *
65656882 ATCTGTTATTTTTTATCTACTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
65656926 ATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
65656970 ATCTGTTATTTTCGATCTGCTCTCCGCCTCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
65657014 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
65657054 ATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
*
65657098 ATTTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 A-TCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
65657143 ATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
*
65657187 ATCTGTTATTTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
65657231 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
65657271 ATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
65657315 ATCTTGTTATCTTCGATTTGCTCTCCACCGCTACAGAGATGCCAA
1 ATC-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
*
65657360 ATCTGTTATCTTCGATCTGTTCTCCGCTCTACCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCG-----CCGCTACAGAGATGCCAA
65657409 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
**
65657449 ATCTGTTATCTTCGATCTGCTCTCTACCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
65657493 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* * *
65657533 ATC----ATCTTCGATCTGCTATCCGCCGCTATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
65657573 ATCTGTTATCT
1 ATCTGTTATCT
65657584 GTTTCAAGGA
Statistics
Matches: 596, Mismatches: 39, Indels: 46
0.88 0.06 0.07
Matches are distributed among these distances:
40 173 0.29
44 303 0.51
45 99 0.17
49 21 0.04
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
Found at i:65657053 original size:84 final size:85
Alignment explanation
Indices: 65656882--65657583 Score: 847
Period size: 84 Copynumber: 8.1 Consensus size: 85
65656872 AGGAACACCG
* ** * * *
65656882 ATCTGTTATTTTTTATCTACTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC---TATCTTCGATCTGCT
* *
65656947 CTCTGCCGCTACAGAGACGCCAA
63 CTCCGCCGCTACAGAGATGCCAA
* *
65656970 ATCTGTTATTTTCGATCTGCTCTCCGCCTCTACAGAGATGCCAAATC-ATCTTCGATCTGCTCTC
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTATCTTCGATCTGCTCTC
65657034 CGCCGCTACAGAGATGCCAA
66 CGCCGCTACAGAGATGCCAA
* * *
65657054 ATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAAATTTTGTTATCTTCGATCTGC
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAA---T-CTATCTTCGATCTGC
65657119 TCTCCGCCGCTACAGAGATGCCAA
62 TCTCCGCCGCTACAGAGATGCCAA
* * *
65657143 ATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAAATCTGTTATTTTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC---TATCTTCGATCTGCT
65657208 CTCCGCCGCTACAGAGATGCCAA
63 CTCCGCCGCTACAGAGATGCCAA
*
65657231 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGTT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC---TATCTTCGATCTGCT
*
65657292 CTCCGCCGCTACAGAGACGCCAA
63 CTCCGCCGCTACAGAGATGCCAA
* * *
65657315 ATCTTGTTATCTTCGATTTGCTCTCCACCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGT
1 ATC-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC---TATCTTCGATCTGC
65657380 TCTCCGCTCTACCGCTACAGAGATGCCAA
62 TCTCCG-----CCGCTACAGAGATGCCAA
65657409 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC---TATCTTCGATCTGCT
**
65657470 CTCTACCGCTACAGAGATGCCAA
63 CTCCGCCGCTACAGAGATGCCAA
*
65657493 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC-ATCTTCGATCTGCTATC
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTATCTTCGATCTGCTCTC
* *
65657553 CGCCGCTATAGAGACGCCAA
66 CGCCGCTACAGAGATGCCAA
65657573 ATCTGTTATCT
1 ATCTGTTATCT
65657584 GTTTCAAGGA
Statistics
Matches: 559, Mismatches: 33, Indels: 48
0.87 0.05 0.08
Matches are distributed among these distances:
80 35 0.06
84 220 0.39
86 1 0.00
87 1 0.00
88 81 0.14
89 201 0.36
94 20 0.04
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (85 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTATCTTCGATCTGCTCTC
CGCCGCTACAGAGATGCCAA
Found at i:65657282 original size:217 final size:216
Alignment explanation
Indices: 65656896--65657583 Score: 1031
Period size: 217 Copynumber: 3.2 Consensus size: 216
65656886 GTTATTTTTT
* * * *
65656896 ATCTACTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAG
1 ATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAG
*
65656961 AGACGCCAAATCTGTTATTTTCGATCTGCTCTCCGCCTCTACAGAGATGCCAAATCATCTTCGAT
66 AGACGCCAAATCTGTTATTTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGAT
65657026 CTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAG
131 CTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAG
65657091 ACGCCAAATTTTGTTATCTTCG
196 ACGCCAAA-TTTGTTATCTTCG
*
65657113 ATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAG
1 ATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAG
65657178 AGACGCCAAATCTGTTATTTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGAT
66 AGACGCCAAATCTGTTATTTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGAT
65657243 CTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAG
131 CTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAG
65657308 ACGCCAAATCTTGTTATCTTCG
196 ACGCCAAAT-TTGTTATCTTCG
* * *
65657330 ATTTGCTCTCCACCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGTTCTCCGCTCTACCGC
1 ATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGTTCTCCG-----CCGC
* *
65657395 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTT
61 TACAGAGACGCCAAATCTGTTATTTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC----
** *
65657456 ATCTTCGATCTGCTCTCTACCGCTACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCC
122 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGTTCTCCGCC
* *
65657517 GCTACAGAGATGCCAAA----TCATCTTCG
187 GCTACAGAGACGCCAAATTTGTTATCTTCG
* *
65657543 ATCTGCTATCCGCCGCTATAGAGACGCCAAATCTGTTATCT
1 ATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCT
65657584 GTTTCAAGGA
Statistics
Matches: 441, Mismatches: 20, Indels: 24
0.91 0.04 0.05
Matches are distributed among these distances:
213 44 0.10
216 1 0.00
217 263 0.60
218 75 0.17
222 58 0.13
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.30
Consensus pattern (216 bp):
ATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAG
AGACGCCAAATCTGTTATTTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGAT
CTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAG
ACGCCAAATTTGTTATCTTCG
Found at i:65669197 original size:120 final size:120
Alignment explanation
Indices: 65668767--65669197 Score: 331
Period size: 120 Copynumber: 3.6 Consensus size: 120
65668757 TATCTAGTCC
* * * ** * * *
65668767 AACGAGAGAATCGAAACCCAACAC-AGTAGGGCACGGTTCTTCGAATTTCCAAACGTTGAACATT
1 AACGAGA-AATTGAAACCCAGCACGA-TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATT
*
65668831 GTCTCGCTTTGGAAAACGTGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACA
64 GTCTCGCTTTGGAAAAAGTGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACA
** * *
65668888 AACGAGAAATTTCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCGAACGA-CAAACATT-
1 AACGAGAAATTGAAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAAC-ATCGAACATTG
** *** * * * * ** * *
65668951 TCCTTCG-TTTTTAAAAAGTTTTTAGAAA--ACATGAA-CGAAATTCTAAAGAGATTAGTC-C-
65 T-C-TCGCTTTGGAAAAAGTGAAT-GAAATTCCA--AAGGGATATTC-GATTA-TTTTG-CACA
* * * * * ** * * *
65669009 AACGAGAGAATCGAAACCCAACGCGGTAGGGCACGGTTCTTCGAATTTCCAAACGTTGAACATTG
1 AACGAGA-AATTGAAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTG
*
65669074 TCTCGCTTTGGAAAATGTGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACA
65 TCTCGCTTTGGAAAAAGTGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACA
* * *
65669130 AACGAGAAATTGAAACACAGCACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACATCGT
1 AACGAGAAATTGAAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGT
65669195 CTC
66 CTC
65669198 CGTTTTAAAG
Statistics
Matches: 224, Mismatches: 67, Indels: 39
0.68 0.20 0.12
Matches are distributed among these distances:
119 4 0.02
120 110 0.49
121 44 0.20
122 62 0.28
123 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (120 bp):
AACGAGAAATTGAAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGT
CTCGCTTTGGAAAAAGTGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACA
Found at i:65669537 original size:104 final size:104
Alignment explanation
Indices: 65669357--65669564 Score: 398
Period size: 104 Copynumber: 2.0 Consensus size: 104
65669347 TTAAAAATAA
*
65669357 AAAATAATTTAATTGCGAAGTAATAAAAAGCGGAGGGGCTAAACGCGCAAATAGCTCCTCCAATG
1 AAAATAATTTAATTGCGAAGTAATAAAAAGCGGAGGGGCTAAACGCGCAAATAGCCCCTCCAATG
*
65669422 AAAACACGCGGATCCTGAAGTTGGAGCGGGTCGGGTCGC
66 AAAACACGCGGATCCTGAAGTTAGAGCGGGTCGGGTCGC
65669461 AAAATAATTTAATTGCGAAGTAATAAAAAGCGGAGGGGCTAAACGCGCAAATAGCCCCTCCAATG
1 AAAATAATTTAATTGCGAAGTAATAAAAAGCGGAGGGGCTAAACGCGCAAATAGCCCCTCCAATG
65669526 AAAACACGCGGATCCTGAAGTTAGAGCGGGTCGGGTCGC
66 AAAACACGCGGATCCTGAAGTTAGAGCGGGTCGGGTCGC
65669565 GGGTCGGCCA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (104 bp):
AAAATAATTTAATTGCGAAGTAATAAAAAGCGGAGGGGCTAAACGCGCAAATAGCCCCTCCAATG
AAAACACGCGGATCCTGAAGTTAGAGCGGGTCGGGTCGC
Found at i:65669832 original size:13 final size:13
Alignment explanation
Indices: 65669814--65669855 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
65669804 CCGGCTCCGT
*
65669814 CCGCCGCCATCCA
1 CCGCCGCCAGCCA
*
65669827 CCGCCGCCGGCCA
1 CCGCCGCCAGCCA
*
65669840 CCGCCGCCGGCCA
1 CCGCCGCCAGCCA
65669853 CCG
1 CCG
65669856 TGAAAATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.10, C:0.62, G:0.26, T:0.02
Consensus pattern (13 bp):
CCGCCGCCAGCCA
Found at i:65669960 original size:127 final size:124
Alignment explanation
Indices: 65669771--65670022 Score: 425
Period size: 127 Copynumber: 2.0 Consensus size: 124
65669761 TTTCTCTCAA
65669771 ACTCTCTCAAGGCCTTCTCCCTCCGACCAAACTCCGGCTCCGTCCGCCGCCATCCACCGCCGCCG
1 ACTCTCTCAAGGCCTTCTCCCTCCGACCAAACTCCGGCTCCGTCCGCCGCCATCCACCGCCGCCG
65669836 GCCACCGCCGC-CGGCCACCGTGAAAATTTCAAAAAGGGTGTTTTTTTTTATGTTTCTTATAT
66 GCCACCG-CGCACGGCCACC--GAAAATTTCAAAAAGGGTG-TTTTTTTTATGTTTCTTATAT
*
65669898 ACTCTCTCAAGGCCTTCTCCCTCCGACCAAACTCCGGCTCCGTCCGCCGCCATCCGCCGCCGCCG
1 ACTCTCTCAAGGCCTTCTCCCTCCGACCAAACTCCGGCTCCGTCCGCCGCCATCCACCGCCGCCG
***
65669963 GCCACCGCGCACGGTGGCCGAAAATTTCAAAAAGGGTGTTTTTTTTATGTTTCTTATAT
66 GCCACCGCGCACGGCCACCGAAAATTTCAAAAAGGGTGTTTTTTTTATGTTTCTTATAT
65670022 A
1 A
65670023 TATACCTTGA
Statistics
Matches: 120, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
124 22 0.18
125 19 0.16
126 3 0.03
127 76 0.63
ACGTcount: A:0.18, C:0.37, G:0.19, T:0.26
Consensus pattern (124 bp):
ACTCTCTCAAGGCCTTCTCCCTCCGACCAAACTCCGGCTCCGTCCGCCGCCATCCACCGCCGCCG
GCCACCGCGCACGGCCACCGAAAATTTCAAAAAGGGTGTTTTTTTTATGTTTCTTATAT
Found at i:65670237 original size:128 final size:129
Alignment explanation
Indices: 65670103--65670359 Score: 498
Period size: 129 Copynumber: 2.0 Consensus size: 129
65670093 AAAAGAAAAG
65670103 AAAAAACCTTAAGCCGGTTTGCACTTCCTTTTTTTGATGGCTTTGTTATTATCT-ATTTTTTTTT
1 AAAAAACCTTAAGCCGGTTTGCACTTCCTTTTTTTGATGGCTTTGTTATTATCTCATTTTTTTTT
65670167 GTATTGCTTGCTATTTTTTTTAAAAGAAAAATCTTCAGAGAGATTACACTTTTTTTCTTCAATC
66 GTATTGCTTGCTATTTTTTTTAAAAGAAAAATCTTCAGAGAGATTACACTTTTTTTCTTCAATC
*
65670231 AAAAAACCTTAAGCCGGTTTGCACTTCCTTTTTTTGATGGCTTTGTTATTATCTCTTTTTTTTTT
1 AAAAAACCTTAAGCCGGTTTGCACTTCCTTTTTTTGATGGCTTTGTTATTATCTCATTTTTTTTT
65670296 GTATTGCTTGCTATTTTTTTTAAAAGAAAAATCTTCAGAGAGATTACACTTTTTTTCTTCAATC
66 GTATTGCTTGCTATTTTTTTTAAAAGAAAAATCTTCAGAGAGATTACACTTTTTTTCTTCAATC
65670360 TTTTTTTTTT
Statistics
Matches: 127, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
128 54 0.43
129 73 0.57
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.49
Consensus pattern (129 bp):
AAAAAACCTTAAGCCGGTTTGCACTTCCTTTTTTTGATGGCTTTGTTATTATCTCATTTTTTTTT
GTATTGCTTGCTATTTTTTTTAAAAGAAAAATCTTCAGAGAGATTACACTTTTTTTCTTCAATC
Found at i:65671668 original size:77 final size:78
Alignment explanation
Indices: 65671576--65671736 Score: 218
Period size: 79 Copynumber: 2.1 Consensus size: 78
65671566 ACAACTGTCT
* *
65671576 TTCTCTCCCCAACTTTATAGTATCTCAA-T-CGACTCTTCCTCTCTTCATGACTCTTTGCCCACT
1 TTCTCTCCCCAACTTTACAG-ATCTCAATTCCGACTCTTCCTCTCTTCATGACTCTCTGCCCACT
*
65671639 TATGGTGAATTGCC
65 TAGGGTGAATTGCC
* ** *
65671653 TTCTCTCCCCAACTTTACAGATCTTAATTGCCTCCTCTTCTTCTCTTCATGACTCTCTGCCCACT
1 TTCTCTCCCCAACTTTACAGATCTCAATT-CCGACTCTTCCTCTCTTCATGACTCTCTGCCCACT
*
65671718 TAGGGTGAATTGCT
65 TAGGGTGAATTGCC
65671732 TTCTC
1 TTCTC
65671737 CTCTTCATCC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
76 6 0.08
77 20 0.27
79 47 0.64
ACGTcount: A:0.17, C:0.33, G:0.11, T:0.40
Consensus pattern (78 bp):
TTCTCTCCCCAACTTTACAGATCTCAATTCCGACTCTTCCTCTCTTCATGACTCTCTGCCCACTT
AGGGTGAATTGCC
Found at i:65672051 original size:29 final size:29
Alignment explanation
Indices: 65672018--65672076 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
65672008 ATCATATGAA
65672018 TGCTTCATTTTTAATAATTTTAGAATTTG
1 TGCTTCATTTTTAATAATTTTAGAATTTG
65672047 TGCTTCATTTTTAATAATTTTAGAATTTG
1 TGCTTCATTTTTAATAATTTTAGAATTTG
65672076 T
1 T
65672077 AAATATAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.56
Consensus pattern (29 bp):
TGCTTCATTTTTAATAATTTTAGAATTTG
Found at i:65672417 original size:69 final size:69
Alignment explanation
Indices: 65672330--65672466 Score: 229
Period size: 69 Copynumber: 2.0 Consensus size: 69
65672320 CGAGGGATGA
* * *
65672330 GATCCCACATAGTTCGGTTTGCATAGAATAAAGCTTCCCTAACTTAAATATGCACTCAAAACATG
1 GATCCCACACAGTACGGTTTGCATAGAATAAAGCTTCCCTAACTTAAATATACACTCAAAACATG
65672395 ATTT
66 ATTT
* *
65672399 GATCCCACACAGTACGGTTTGCATAGAATAAAGCTTCCTTTACTTAAATATACACTCAAAACATG
1 GATCCCACACAGTACGGTTTGCATAGAATAAAGCTTCCCTAACTTAAATATACACTCAAAACATG
65672464 ATT
66 ATT
65672467 CGTGAACATA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (69 bp):
GATCCCACACAGTACGGTTTGCATAGAATAAAGCTTCCCTAACTTAAATATACACTCAAAACATG
ATTT
Found at i:65680427 original size:14 final size:13
Alignment explanation
Indices: 65680408--65680445 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
65680398 ATTTAATATT
65680408 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
65680422 TAATTATTAAGGA
1 TAATTATTTAGGA
65680435 TAATTATTTAG
1 TAATTATTTAG
65680446 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:65680474 original size:10 final size:10
Alignment explanation
Indices: 65680461--65680518 Score: 64
Period size: 10 Copynumber: 5.8 Consensus size: 10
65680451 AATTTAGGAT
* *
65680461 TTATTTTTAT
1 TTATCTTTAA
65680471 TTATCTTTAA
1 TTATCTTTAA
65680481 TTATCTTTAA
1 TTATCTTTAA
*
65680491 TAATCTTTAA
1 TTATCTTTAA
*
65680501 TTAT-TTGTAT
1 TTATCTT-TAA
65680511 TTATCTTT
1 TTATCTTT
65680519 TAGAATTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
9 2 0.05
10 37 0.90
11 2 0.05
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:65680489 original size:20 final size:19
Alignment explanation
Indices: 65680465--65680518 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
65680455 TAGGATTTAT
65680465 TTTTATTTATCTTTAATTA
1 TTTTATTTATCTTTAATTA
* *
65680484 TCTTTAATAATCTTTAATTA
1 T-TTTATTTATCTTTAATTA
65680504 TTTGTATTTATCTTT
1 TTT-TATTTATCTTT
65680519 TAGAATTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATTTATCTTTAATTA
Found at i:65683030 original size:40 final size:40
Alignment explanation
Indices: 65682975--65683092 Score: 209
Period size: 40 Copynumber: 3.0 Consensus size: 40
65682965 GGAAAAAAAA
65682975 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
65683015 TATAACTGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
65683055 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
65683093 GTTACATTCG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:65703490 original size:20 final size:20
Alignment explanation
Indices: 65703465--65703508 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
65703455 GCAATAGCCT
65703465 GAACACAAATCAGATACGTA
1 GAACACAAATCAGATACGTA
65703485 GAACACAAATCAGATACGTA
1 GAACACAAATCAGATACGTA
65703505 -AACA
1 GAACA
65703509 AAACTCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.52, C:0.20, G:0.14, T:0.14
Consensus pattern (20 bp):
GAACACAAATCAGATACGTA
Found at i:65705998 original size:21 final size:21
Alignment explanation
Indices: 65705969--65706008 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
65705959 TTCTTAATTT
*
65705969 TTTTTAAAAAGTATAAAAATC
1 TTTTCAAAAAGTATAAAAATC
*
65705990 TTTTCAAAAATTATAAAAA
1 TTTTCAAAAAGTATAAAAA
65706009 AAATTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (21 bp):
TTTTCAAAAAGTATAAAAATC
Found at i:65708158 original size:29 final size:29
Alignment explanation
Indices: 65708126--65708261 Score: 116
Period size: 29 Copynumber: 4.7 Consensus size: 29
65708116 AGTTCATCGA
* * *
65708126 GACAGTAAACACGGGATAAAGTTTG-ATGG
1 GACAGTAAACACGAGATAAAGTCTGTA-AG
* *
65708155 GACAGTAAACATGAGATAAAGTTTGTCAA-
1 GACAGTAAACACGAGATAAAGTCTGT-AAG
* * * *
65708184 GATAGTAAACATGGGATAAAGTCAGTAAG
1 GACAGTAAACACGAGATAAAGTCTGTAAG
* * *
65708213 GATAGTAAACAAGAGATAAAGTCTGCT-GG
1 GACAGTAAACACGAGATAAAGTCTG-TAAG
65708242 GACAGTAAACACGAGATAAA
1 GACAGTAAACACGAGATAAA
65708262 ATCCACTAGG
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
28 2 0.02
29 86 0.96
30 1 0.01
31 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.20
Consensus pattern (29 bp):
GACAGTAAACACGAGATAAAGTCTGTAAG
Found at i:65708249 original size:58 final size:58
Alignment explanation
Indices: 65708125--65708261 Score: 143
Period size: 58 Copynumber: 2.4 Consensus size: 58
65708115 TAGTTCATCG
** * * *
65708125 AGACAGTAAACACGGGATAAAGTTTGATGGGACAGTAAACATGAGATAAAGTTTGTCA
1 AGACAGTAAACACGGGATAAAGTCAGATAGGACAGTAAACAAGAGATAAAGTCTGTCA
* * * *
65708183 AGATAGTAAACATGGGATAAAGTCAG-TAAGGATAGTAAACAAGAGATAAAGTCTG-CTG
1 AGACAGTAAACACGGGATAAAGTCAGAT-AGGACAGTAAACAAGAGATAAAGTCTGTC-A
* *
65708241 GGACAGTAAACACGAGATAAA
1 AGACAGTAAACACGGGATAAA
65708262 ATCCACTAGG
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
57 2 0.03
58 62 0.97
ACGTcount: A:0.45, C:0.10, G:0.26, T:0.20
Consensus pattern (58 bp):
AGACAGTAAACACGGGATAAAGTCAGATAGGACAGTAAACAAGAGATAAAGTCTGTCA
Found at i:65708279 original size:29 final size:29
Alignment explanation
Indices: 65708184--65708279 Score: 77
Period size: 29 Copynumber: 3.3 Consensus size: 29
65708174 AGTTTGTCAA
* * * *
65708184 GATAGTAAACATGGGATAAAGT-CAGTAAG
1 GATAGTAAACAAGAGATAAAATCCACT-AG
* ** *
65708213 GATAGTAAACAAGAGATAAAGTCTGCTGG
1 GATAGTAAACAAGAGATAAAATCCACTAG
* *
65708242 GACAGTAAACACGAGATAAAATCCACTAG
1 GATAGTAAACAAGAGATAAAATCCACTAG
*
65708271 GATAATAAA
1 GATAGTAAA
65708280 TAGAAGATAA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 51 0.98
30 1 0.02
ACGTcount: A:0.47, C:0.11, G:0.23, T:0.19
Consensus pattern (29 bp):
GATAGTAAACAAGAGATAAAATCCACTAG
Found at i:65710419 original size:45 final size:45
Alignment explanation
Indices: 65710355--65710564 Score: 197
Period size: 46 Copynumber: 4.6 Consensus size: 45
65710345 GATCGGAGTG
* * * *
65710355 TGCCATGGTATCTTTCAACCATGGTCTTAGTTATTCTCATCGTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTTCATCGTGA
* *
65710400 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTTTCGTCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTA-TTTTCATCGTGA
* ** * * * *
65710446 TGCCATAGTGTTTTTCAACCACAGTCTTATTCATTTTCCGTTGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTT-CATCGTGA
* * * * *
65710492 TGCCATAGTTTCTTTCAACTATGGTCTTATTT-CTTTGATTCATGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTTCA-TCGTGA
* * *
65710537 TGCCATAGCGTCTTTCAGCTATGGTCTT
1 TGCCATAGTGTCTTTCAACCATGGTCTT
65710565 GATAGAATCA
Statistics
Matches: 136, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
45 65 0.48
46 71 0.52
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.45
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTTCATCGTGA
Found at i:65712723 original size:26 final size:26
Alignment explanation
Indices: 65712669--65712729 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
65712659 TCTCATCTCT
*
65712669 ATTTTACCC-TGACAAAATTTTAACG
1 ATTTTACCCTTGACAAAATTTTAACA
* * *
65712694 ATTTTACCCTTTATAAAATTTTGACA
1 ATTTTACCCTTGACAAAATTTTAACA
*
65712720 ATTTTGCCCT
1 ATTTTACCCT
65712730 AGTAAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 9 0.30
26 21 0.70
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.43
Consensus pattern (26 bp):
ATTTTACCCTTGACAAAATTTTAACA
Found at i:65712892 original size:6 final size:6
Alignment explanation
Indices: 65712881--65712919 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
65712871 TGATTACAAG
65712881 TTTCCA TTTCCA TTT-CA TTTCCA TTTCCA TTTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA -TTTCCA TTT
65712920 TTGGAAACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
7 6 0.19
ACGTcount: A:0.15, C:0.28, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTCCA
Found at i:65712901 original size:11 final size:12
Alignment explanation
Indices: 65712881--65712919 Score: 62
Period size: 11 Copynumber: 3.2 Consensus size: 12
65712871 TGATTACAAG
65712881 TTTCCATTTCCA
1 TTTCCATTTCCA
65712893 TTT-CATTTCCA
1 TTTCCATTTCCA
65712904 TTTCCATTTTCCA
1 TTTCCA-TTTCCA
65712917 TTT
1 TTT
65712920 TTGGAAACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.44
12 5 0.20
13 9 0.36
ACGTcount: A:0.15, C:0.28, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTCCATTTCCA
Found at i:65718528 original size:42 final size:42
Alignment explanation
Indices: 65718456--65718571 Score: 128
Period size: 42 Copynumber: 2.8 Consensus size: 42
65718446 CCATGTCAAT
* * * *
65718456 GCCATATCCTAGATATGGTCTTACATGAAAT-ATCATATTGAC
1 GCCATATCCTAGACATGGTCTTATACGAAATCAT-ATACTGAC
* *
65718498 GCCATGTCCCT-GACATGGTCTTATACGAAATCATATACTGAT
1 GCCATAT-CCTAGACATGGTCTTATACGAAATCATATACTGAC
* *
65718540 GTCATATCCTAGATATGGTCTTATACGAAATC
1 GCCATATCCTAGACATGGTCTTATACGAAATC
65718572 TCGGTAGTCC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
41 3 0.05
42 54 0.87
43 5 0.08
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (42 bp):
GCCATATCCTAGACATGGTCTTATACGAAATCATATACTGAC
Found at i:65724106 original size:32 final size:32
Alignment explanation
Indices: 65724069--65724133 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
65724059 AATGCTTACC
*
65724069 ATGCCCATCATCCGTTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
65724101 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
65724133 A
1 A
65724134 AATGCTTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:65725412 original size:18 final size:19
Alignment explanation
Indices: 65725375--65725412 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
65725365 TTAATTTGGT
*
65725375 TTTACTTAATTTATCATTA
1 TTTACTTAATTTACCATTA
*
65725394 TTTAC-TAATTTACCTTTA
1 TTTACTTAATTTACCATTA
65725412 T
1 T
65725413 ACCCTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTACTTAATTTACCATTA
Found at i:65728892 original size:46 final size:46
Alignment explanation
Indices: 65728825--65729039 Score: 222
Period size: 46 Copynumber: 4.7 Consensus size: 46
65728815 CGCCCCTAAG
* * * *
65728825 TGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAA
1 TGAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
* * *
65728871 TGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGAACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAAA
* * * *
65728918 CGAACTCGAACTCAACTCAATGAGTTCGGACATTTGTATCCATAAG
1 TGAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
* * *
65728964 TGAACTC-AGACTCAACTCAATGAGTTCGGACATTTGTATCCATAAG
1 TGAACTCGA-ACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
*
65729010 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGAACTCAACTCAACGAGTTCGGA
65729040 TGCTCAACCA
Statistics
Matches: 143, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
43 5 0.03
44 2 0.01
45 2 0.01
46 97 0.68
47 29 0.20
48 1 0.01
49 2 0.01
50 5 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (46 bp):
TGAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
Found at i:65739797 original size:27 final size:28
Alignment explanation
Indices: 65739767--65739820 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
65739757 GGAGAAAAGG
*
65739767 GAGG-GAAGAAA-AGAGAAGGAAAAATAA
1 GAGGAGAAGAAATAGA-AAAGAAAAATAA
65739794 GAGGAGAAGAAATAGAAAAGAAAAATA
1 GAGGAGAAGAAATAGAAAAGAAAAATA
65739821 GAAAAGAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 17 0.71
29 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.06
Consensus pattern (28 bp):
GAGGAGAAGAAATAGAAAAGAAAAATAA
Found at i:65739821 original size:13 final size:14
Alignment explanation
Indices: 65739798--65739831 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
65739788 AAATAAGAGG
65739798 AGAAGAAATAGAAA
1 AGAAGAAATAGAAA
65739812 AGAA-AAATAGAAA
1 AGAAGAAATAGAAA
65739825 AGAAGAA
1 AGAAGAA
65739832 GTAGGAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (14 bp):
AGAAGAAATAGAAA
Found at i:65739828 original size:27 final size:28
Alignment explanation
Indices: 65739771--65739831 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
65739761 AAAAGGGAGG
* **
65739771 GAAGAAAAGAGAAGGAAAAATAAGAGGA
1 GAAGAAAAGAGAAAGAAAAATAAGAAAA
65739799 GAAGAAATAGA-AAAGAAAAAT-AGAAAA
1 GAAGAAA-AGAGAAAGAAAAATAAGAAAA
65739826 GAAGAA
1 GAAGAA
65739832 GTAGGAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 10 0.34
28 16 0.55
29 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (28 bp):
GAAGAAAAGAGAAAGAAAAATAAGAAAA
Found at i:65742552 original size:40 final size:39
Alignment explanation
Indices: 65742468--65742652 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
65742458 TTGAATGATG
* * * *
65742468 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
65742508 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
65742548 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
65742587 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
65742628 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
65742653 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65742604 original size:79 final size:81
Alignment explanation
Indices: 65742468--65742652 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
65742458 TTGAATGATG
*
65742468 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
65742532 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
65742547 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
65742609 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
65742627 ACCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65742653 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:65742674 original size:79 final size:79
Alignment explanation
Indices: 65742521--65742685 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
65742511 GGACTAAGAT
* * **
65742521 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
65742586 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
65742600 CCGAAGGCATTTGTGCGAGTTACT-ATAACCAGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCAGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
65742663 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
65742679 CCGAAGG
1 CCGAAGG
65742686 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:65745449 original size:21 final size:21
Alignment explanation
Indices: 65745423--65745464 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
65745413 CTTCAGGGAA
65745423 TGATTCATTTATCTCCTGTTC
1 TGATTCATTTATCTCCTGTTC
65745444 TGATTCATTTATCTCCTGTTC
1 TGATTCATTTATCTCCTGTTC
65745465 GTGAAGTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.24, G:0.10, T:0.52
Consensus pattern (21 bp):
TGATTCATTTATCTCCTGTTC
Found at i:65756557 original size:15 final size:16
Alignment explanation
Indices: 65756537--65756612 Score: 79
Period size: 15 Copynumber: 5.0 Consensus size: 16
65756527 CATTATGATA
65756537 TTGTATCTTGGATTT-
1 TTGTATCTTGGATTTC
65756552 TTGTATCTTGGATTTC
1 TTGTATCTTGGATTTC
*
65756568 TT-TATCTAGGATTTC
1 TTGTATCTTGGATTTC
* *
65756583 TT-TGTCTTGGACTTC
1 TTGTATCTTGGATTTC
* *
65756598 TT-TGTCTTGGTTTTC
1 TTGTATCTTGGATTTC
65756613 ATGTCATCTC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
15 52 0.96
16 2 0.04
ACGTcount: A:0.11, C:0.13, G:0.18, T:0.58
Consensus pattern (16 bp):
TTGTATCTTGGATTTC
Found at i:65762840 original size:13 final size:14
Alignment explanation
Indices: 65762810--65762837 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
65762800 TCGATCCACC
65762810 TATATTAATTTTTT
1 TATATTAATTTTTT
65762824 TATATTAATTTTTT
1 TATATTAATTTTTT
65762838 ATAAAATAAA
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:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATATTAATTTTTT
Found at i:65771258 original size:24 final size:22
Alignment explanation
Indices: 65771221--65771275 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 22
65771211 TGGTCCCTTC
*
65771221 TTTCTTTTTTACTTTGTTT-AT
1 TTTCTTTTTTACTTTCTTTCAT
65771242 ATTTCTTTACTTTACTTTCTTTCAT
1 -TTTCTTT--TTTACTTTCTTTCAT
65771267 TTTCTTTTT
1 TTTCTTTTT
65771276 CGGGTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 9 0.31
24 18 0.62
25 2 0.07
ACGTcount: A:0.11, C:0.15, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTCTTTTTTACTTTCTTTCAT
Found at i:65775871 original size:16 final size:16
Alignment explanation
Indices: 65775850--65775885 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
65775840 GTATTTTAGT
65775850 AAAAAATATGAAACAA
1 AAAAAATATGAAACAA
* *
65775866 AAAAAATGTGAAAGAA
1 AAAAAATATGAAACAA
65775882 AAAA
1 AAAA
65775886 TATTTTGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.11, T:0.11
Consensus pattern (16 bp):
AAAAAATATGAAACAA
Found at i:65779414 original size:17 final size:17
Alignment explanation
Indices: 65779394--65779431 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
65779384 AAAAATGCCC
65779394 TTAAACTTAAAAAAAAA
1 TTAAACTTAAAAAAAAA
65779411 TTAAACTTAAAAAAAAA
1 TTAAACTTAAAAAAAAA
65779428 TTAA
1 TTAA
65779432 GCCCTTGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (17 bp):
TTAAACTTAAAAAAAAA
Found at i:65779629 original size:19 final size:18
Alignment explanation
Indices: 65779592--65779687 Score: 58
Period size: 19 Copynumber: 5.3 Consensus size: 18
65779582 GACATGTAGA
* *
65779592 AAAAAATTAT-AAATAAT
1 AAAAAATAATAAAATTAT
65779609 AAAAAATAATAAAAGTTAT
1 AAAAAATAATAAAA-TTAT
* *
65779628 -AAAAAT-ATTAAATTTT
1 AAAAAATAATAAAATTAT
*
65779644 AATAAAA-ATATAAAACTATT
1 AA-AAAATA-ATAAAATTA-T
65779664 AAAAATTATAA-AAAATTAT
1 AAAAA--ATAATAAAATTAT
65779683 AAAAA
1 AAAAA
65779688 TCGCAAAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
16 3 0.05
17 15 0.25
18 13 0.21
19 18 0.30
20 9 0.15
21 2 0.03
22 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (18 bp):
AAAAAATAATAAAATTAT
Found at i:65779634 original size:28 final size:27
Alignment explanation
Indices: 65779594--65779688 Score: 88
Period size: 28 Copynumber: 3.5 Consensus size: 27
65779584 CATGTAGAAA
*
65779594 AAAATTAT--AAATAATAAAAAATAAT
1 AAAATTATAAAAATATTAAAAAATAAT
***
65779619 AAAAGTTATAAAAATATTAAATTTTAAT
1 AAAA-TTATAAAAATATTAAAAAATAAT
* *
65779647 AAAAATATAAAACTATTAAAAATTATAA-
1 AAAATTATAAAAATATTAAAAA--ATAAT
65779675 AAAATTATAAAAAT
1 AAAATTATAAAAAT
65779689 CGCAAAAATA
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
25 4 0.07
26 4 0.07
27 14 0.26
28 29 0.54
29 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (27 bp):
AAAATTATAAAAATATTAAAAAATAAT
Found at i:65779677 original size:27 final size:27
Alignment explanation
Indices: 65779592--65779688 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 27
65779582 GACATGTAGA
*
65779592 AAAAAATTATAAATAATA--AAAAATAAT
1 AAAAAA-TATAAA-AATATTAAAAATTAT
** **
65779619 AAAAGTTATAAAAATATTAAATTTTA-
1 AAAAAATATAAAAATATTAAAAATTAT
*
65779645 ATAAAAATATAAAACTATTAAAAATTAT
1 A-AAAAATATAAAAATATTAAAAATTAT
65779673 AAAAAATTATAAAAAT
1 AAAAAA-TATAAAAAT
65779689 CGCAAAAATA
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
25 4 0.07
26 7 0.13
27 34 0.63
28 9 0.17
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (27 bp):
AAAAAATATAAAAATATTAAAAATTAT
Found at i:65779688 original size:19 final size:19
Alignment explanation
Indices: 65779593--65779786 Score: 79
Period size: 18 Copynumber: 10.5 Consensus size: 19
65779583 ACATGTAGAA
*
65779593 AAAAATTATAAATAA-TA-
1 AAAAATTATAAAAAATTAT
* *
65779610 AAAAATAAT-AAAAGTTAT
1 AAAAATTATAAAAAATTAT
* **
65779628 AAAAA-TATTAAATTTTAAT
1 AAAAATTATAAAAAATT-AT
*
65779647 AAAAA-TAT--AAAACTATT
1 AAAAATTATAAAAAATTA-T
65779664 AAAAATTATAAAAAATTAT
1 AAAAATTATAAAAAATTAT
***
65779683 AAAAA-TCGCAAAAA-TAT
1 AAAAATTATAAAAAATTAT
* * * **
65779700 AGAAGTTTTAAAATTTTAT
1 AAAAATTATAAAAAATTAT
**
65779719 -AAAATTGCAAGAAAATTAT
1 AAAAATTATAA-AAAATTAT
*
65779738 AAAAATTGTAAAGAAA-TAT
1 AAAAATTATAAA-AAATTAT
65779757 -AAAATTCATAAAAGAAATTAT
1 AAAAATT-AT-AAA-AAATTAT
65779778 AAAAATTAT
1 AAAAATTAT
65779787 CGTGCCAAAA
Statistics
Matches: 132, Mismatches: 28, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
16 4 0.03
17 27 0.20
18 35 0.27
19 30 0.23
20 25 0.19
21 5 0.04
22 6 0.05
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (19 bp):
AAAAATTATAAAAAATTAT
Found at i:65779751 original size:21 final size:21
Alignment explanation
Indices: 65779709--65779784 Score: 63
Period size: 21 Copynumber: 3.7 Consensus size: 21
65779699 TAGAAGTTTT
* *
65779709 AAAATTTTATAAAATTG-CAAG
1 AAAATTATA-AAAATTGTAAAG
65779730 AAAATTATAAAAATTGTAAAG
1 AAAATTATAAAAATTGTAAAG
*
65779751 -AAA-TAT-AAAATTCATAAA-
1 AAAATTATAAAAATT-GTAAAG
65779769 AGAAATTATAAAAATT
1 A-AAATTATAAAAATT
65779785 ATCGTGCCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
18 6 0.13
19 7 0.15
20 13 0.28
21 14 0.30
22 6 0.13
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.30
Consensus pattern (21 bp):
AAAATTATAAAAATTGTAAAG
Found at i:65779754 original size:20 final size:22
Alignment explanation
Indices: 65779731--65779784 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
65779721 AATTGCAAGA
*
65779731 AAATTATAAAAATT-GT-AAAG
1 AAATTATAAAAATTCATAAAAG
65779751 AAA-TAT-AAAATTCATAAAAG
1 AAATTATAAAAATTCATAAAAG
65779771 AAATTATAAAAATT
1 AAATTATAAAAATT
65779785 ATCGTGCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 6 0.21
19 4 0.14
20 10 0.34
21 3 0.10
22 6 0.21
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.30
Consensus pattern (22 bp):
AAATTATAAAAATTCATAAAAG
Found at i:65780032 original size:29 final size:29
Alignment explanation
Indices: 65779970--65780031 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
65779960 TTTTTAATGC
65779970 ATTTTACAATCTTTAATGATTTTTATAAA
1 ATTTTACAATCTTTAATGATTTTTATAAA
* *
65779999 ATTTTACAATTTTTATAT-ATTTTT-TAAT
1 ATTTTACAATCTTTA-ATGATTTTTATAAA
65780027 ATTTT
1 ATTTT
65780032 TTCCTAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 8 0.27
29 20 0.67
30 2 0.07
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (29 bp):
ATTTTACAATCTTTAATGATTTTTATAAA
Found at i:65781904 original size:49 final size:47
Alignment explanation
Indices: 65781794--65782016 Score: 177
Period size: 49 Copynumber: 4.7 Consensus size: 47
65781784 ATGGGATAAG
* * * ** * * * *
65781794 ATGTTGATGCCATGTCCTAGACATGGTCTTTCACTGGCTAACACATCA
1 ATGTCGATGCCATGTCCCAGACA-GGTCTTACACTGATTCATATAACA
*
65781842 A-GTCGATGCCATGTCCCAGACATGTCTTACACTGAATTTCATATAACA
1 ATGTCGATGCCATGTCCCAGACAGGTCTTACACTG-A-TTCATATAACA
* * * *
65781890 ATGTCGATGCCATGTCCAAGACAGGTCTTACACTGGCTCTCATCTATCA
1 ATGTCGATGCCATGTCCCAGACAGGTCTTACACT-GAT-TCATATAACA
* * * * *
65781939 GTGTTGATGCCATGTCCCACACAGGTCTTACATTGA--CACATAACA
1 ATGTCGATGCCATGTCCCAGACAGGTCTTACACTGATTCATATAACA
*
65781984 A-G-CTGATGCCATGTCCCAGACAGGTTTTACACT
1 ATGTC-GATGCCATGTCCCAGACAGGTCTTACACT
65782017 AGCTTGTATA
Statistics
Matches: 140, Mismatches: 29, Indels: 16
0.76 0.16 0.09
Matches are distributed among these distances:
44 27 0.19
45 6 0.04
46 10 0.07
47 19 0.14
48 10 0.07
49 67 0.48
50 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (47 bp):
ATGTCGATGCCATGTCCCAGACAGGTCTTACACTGATTCATATAACA
Found at i:65782014 original size:93 final size:92
Alignment explanation
Indices: 65781798--65782016 Score: 230
Period size: 98 Copynumber: 2.3 Consensus size: 92
65781788 GATAAGATGT
* *
65781798 TGATGCCATGTCCTAGACATGGTCTTT-CACTGGCTAACACATCAAGTCGATGCCATGTCCCAGA
1 TGATGCCATGTCCAAGACA-GGT-TTTACACTGGCTAACACATCAAGTCGATGCCATGTCCCACA
* *
65781862 CATGTCTTACACTGAATTTCATATAACAATG
64 CAGGTCTTACACTGAA--TCACATAACAATG
* ** * *
65781893 TCGATGCCATGTCCAAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTTGATGCCATGTCCCA
1 T-GATGCCATGTCCAAGACAGGTTTTACACTGGCTAACA-C-ATCA-AGTCGATGCCATGTCCCA
*
65781958 CACAGGTCTTACATTG-A-CACATAACAA-G
62 CACAGGTCTTACACTGAATCACATAACAATG
*
65781986 CTGATGCCATGTCCCAGACAGGTTTTACACT
1 -TGATGCCATGTCCAAGACAGGTTTTACACT
65782017 AGCTTGTATA
Statistics
Matches: 106, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
93 28 0.26
94 12 0.11
95 14 0.13
96 18 0.17
97 5 0.05
98 29 0.27
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (92 bp):
TGATGCCATGTCCAAGACAGGTTTTACACTGGCTAACACATCAAGTCGATGCCATGTCCCACACA
GGTCTTACACTGAATCACATAACAATG
Found at i:65783556 original size:11 final size:11
Alignment explanation
Indices: 65783538--65783580 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
65783528 TTTTTTTTAT
65783538 TACTATTTTGC
1 TACTATTTTGC
* **
65783549 TACCATTTCAC
1 TACTATTTTGC
*
65783560 TACTATGTTGC
1 TACTATTTTGC
65783571 TACTATTTTG
1 TACTATTTTG
65783581 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.49
Consensus pattern (11 bp):
TACTATTTTGC
Found at i:65785370 original size:24 final size:25
Alignment explanation
Indices: 65785333--65785385 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
65785323 TTTAATTAGT
65785333 AAATATATATTTT-AT-AATTTATAA
1 AAATATATATTTTAATAAATTT-TAA
65785357 AAATATAT-TATTTAATAAATTTTAA
1 AAATATATAT-TTTAATAAATTTTAA
65785382 AAAT
1 AAAT
65785386 GAACGCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.04
24 11 0.42
25 9 0.35
26 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AAATATATATTTTAATAAATTTTAA
Found at i:65785372 original size:22 final size:23
Alignment explanation
Indices: 65785322--65785372 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
65785312 TTTTTCAATC
*
65785322 ATTTAA-TTAGTAAATATATATT
1 ATTTAATTTAGTAAAAATATATT
65785344 -TTATAATTTA-TAAAAATATATT
1 ATT-TAATTTAGTAAAAATATATT
65785366 ATTTAAT
1 ATTTAAT
65785373 AAATTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 2 0.08
22 18 0.72
23 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATTTAATTTAGTAAAAATATATT
Found at i:65785374 original size:25 final size:24
Alignment explanation
Indices: 65785333--65785385 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
65785323 TTTAATTAGT
*
65785333 AAATATATATTTTAT-AATTTATAA
1 AAATATATATTTAATAAATTT-TAA
65785357 AAATATATTATTTAATAAATTTTAA
1 AAATATA-TATTTAATAAATTTTAA
65785382 AAAT
1 AAAT
65785386 GAACGCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 7 0.27
25 14 0.54
26 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATATATATTTAATAAATTTTAA
Found at i:65791056 original size:12 final size:12
Alignment explanation
Indices: 65791041--65791074 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
65791031 ATGCAGAAGG
65791041 AGATGCAAGAAC
1 AGATGCAAGAAC
*
65791053 AGATGCAAGCAC
1 AGATGCAAGAAC
*
65791065 AAATGCAAGA
1 AGATGCAAGA
65791075 GTAATTAGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.18, G:0.24, T:0.09
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:65798920 original size:40 final size:39
Alignment explanation
Indices: 65798883--65798974 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
65798873 GCTACTCGTT
*
65798883 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
65798923 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
65798962 CAAATGCCTTCGG
1 CAAATGCCTTCGG
65798975 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:65798954 original size:39 final size:40
Alignment explanation
Indices: 65798864--65799027 Score: 167
Period size: 40 Copynumber: 4.1 Consensus size: 40
65798854 CGGAATTTAA
** *
65798864 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
65798904 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
65798943 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
65798983 CCAGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
65799023 CCGGA
1 CCGGA
65799028 CATCATTCAA
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 56 0.54
41 12 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:65799287 original size:102 final size:102
Alignment explanation
Indices: 65799111--65799313 Score: 397
Period size: 102 Copynumber: 2.0 Consensus size: 102
65799101 CGAACACAAT
*
65799111 ACACTTATCATTCTTGCAATTTCGGCTCAATAGCCACACACAAAGAGCATGATTTTGATTTGCTT
1 ACACTTATCATTCTTGCAATTTCGGCTCAATAGCCACACACAAAGAGCATGATTTTGATTTGCAT
65799176 AAAACATGATCTAATCAAATCATAATTTAAGCTCTTG
66 AAAACATGATCTAATCAAATCATAATTTAAGCTCTTG
65799213 ACACTTATCATTCTTGCAATTTCGGCTCAATAGCCACACACAAAGAGCATGATTTTGATTTGCAT
1 ACACTTATCATTCTTGCAATTTCGGCTCAATAGCCACACACAAAGAGCATGATTTTGATTTGCAT
65799278 AAAACATGATCTAATCAAATCATAATTTAAGCTCTT
66 AAAACATGATCTAATCAAATCATAATTTAAGCTCTT
65799314 TTACTCAAGC
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (102 bp):
ACACTTATCATTCTTGCAATTTCGGCTCAATAGCCACACACAAAGAGCATGATTTTGATTTGCAT
AAAACATGATCTAATCAAATCATAATTTAAGCTCTTG
Found at i:65799595 original size:155 final size:155
Alignment explanation
Indices: 65799313--65799620 Score: 580
Period size: 155 Copynumber: 2.0 Consensus size: 155
65799303 TTTAAGCTCT
*
65799313 TTTACTCAAGCACTTACCTCGAATGTTGTCGAACGATTCCGATAGCTATTCGACCACTTTTTCCT
1 TTTACTCAAGAACTTACCTCGAATGTTGTCGAACGATTCCGATAGCTATTCGACCACTTTTTCCT
*
65799378 CCCCTTTATCGGATTTAGTTCCCCTTTGCTCTTGAGCTTAATTAAACAAATAAATTGATTTAATC
66 CCCCTTTATCGGATTTAGTTCCCCTTTGCACTTGAGCTTAATTAAACAAATAAATTGATTTAATC
65799443 ATTTGAGCATCGAAAAGAGGAACAC
131 ATTTGAGCATCGAAAAGAGGAACAC
*
65799468 TTTACTCAAGAACTTACCTCGGATGTTGTCGAACGATTCCGATAGCTATTCGACCACTTTTTCCT
1 TTTACTCAAGAACTTACCTCGAATGTTGTCGAACGATTCCGATAGCTATTCGACCACTTTTTCCT
*
65799533 TCCCTTTATCGGATTTAGTTCCCCTTTGCACTTGAGCTTAATTAAACAAATAAATTGATTTAATC
66 CCCCTTTATCGGATTTAGTTCCCCTTTGCACTTGAGCTTAATTAAACAAATAAATTGATTTAATC
65799598 ATTTGAGCATCGAAAAGAGGAAC
131 ATTTGAGCATCGAAAAGAGGAAC
65799621 TCAAGGCACT
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
155 149 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (155 bp):
TTTACTCAAGAACTTACCTCGAATGTTGTCGAACGATTCCGATAGCTATTCGACCACTTTTTCCT
CCCCTTTATCGGATTTAGTTCCCCTTTGCACTTGAGCTTAATTAAACAAATAAATTGATTTAATC
ATTTGAGCATCGAAAAGAGGAACAC
Found at i:65800060 original size:206 final size:205
Alignment explanation
Indices: 65799701--65800116 Score: 789
Period size: 206 Copynumber: 2.0 Consensus size: 205
65799691 CAACATTTTA
65799701 GCTAA-TTTCCCCCTTGGCCGAATTTTCTAAGCCAAGACAAAAGCATCAATATGCTTGCCTCTAA
1 GCTAATTTTCCCCCTTGGCCGAATTTTCTAAGCCAAGACAAAAGCATCAATATGCTTGCCTCTAA
65799765 CCGAATACATGCAACACCAATCTCCTTCCTATGGCCGAATATGCATGTCTATGTTGGGGCCGATT
66 CCGAATACATGCAACACCAATCTCCTTCCTATGGCCGAATATGCATGTCTATGTTGGGGCCGATT
65799830 GCAACACTTAATACATTCTACAAGTATGGTCACTTGTATTGACTAAACACCATTTTGTTTCAAGT
131 GCAACACTTAATACATTCTACAAGTATGGTCACTTGTATTGACTAAACACCATTTTGTTTCAAGT
65799895 TCAAAACTTGG
196 TCAAAACTT-G
*
65799906 GCTAATTTTCCCCCTTGGCCGAATTTTCTAAGCCAAGACAAAAGCATCAATATGCTTGCCTCTGA
1 GCTAATTTTCCCCCTTGGCCGAATTTTCTAAGCCAAGACAAAAGCATCAATATGCTTGCCTCTAA
*
65799971 TCGAATACATGCAACACCAATCTCCTTCCTATGGCCGAATATGCATGTCTATGTTGGGGCCGATT
66 CCGAATACATGCAACACCAATCTCCTTCCTATGGCCGAATATGCATGTCTATGTTGGGGCCGATT
*
65800036 GCAACACTTAATACTTTCTACAAGTATGGTCACTTGTATTGACTAAACACCATTTTGTTTCAAGT
131 GCAACACTTAATACATTCTACAAGTATGGTCACTTGTATTGACTAAACACCATTTTGTTTCAAGT
65800101 TCAAAACTTG
196 TCAAAACTTG
65800111 GCTAAT
1 GCTAAT
65800117 ACACACATAT
Statistics
Matches: 207, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
205 12 0.06
206 195 0.94
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (205 bp):
GCTAATTTTCCCCCTTGGCCGAATTTTCTAAGCCAAGACAAAAGCATCAATATGCTTGCCTCTAA
CCGAATACATGCAACACCAATCTCCTTCCTATGGCCGAATATGCATGTCTATGTTGGGGCCGATT
GCAACACTTAATACATTCTACAAGTATGGTCACTTGTATTGACTAAACACCATTTTGTTTCAAGT
TCAAAACTTG
Found at i:65802145 original size:13 final size:14
Alignment explanation
Indices: 65802126--65802159 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
65802116 TTATTCCTAC
65802126 TTCTTCTTTTCTAT
1 TTCTTCTTTTCTAT
65802140 TT-TTCTTTTCTAT
1 TTCTTCTTTTCTAT
65802153 TTCTTCT
1 TTCTTCT
65802160 CCTCTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (14 bp):
TTCTTCTTTTCTAT
Found at i:65802183 original size:28 final size:27
Alignment explanation
Indices: 65802137--65802190 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
65802127 TCTTCTTTTC
*
65802137 TATTTTTCTTTTCTATTTCTTCTCCTCT
1 TATTTTTCTTCTCTATTTCTTC-CCTCT
65802165 TATTTTTCCTTCTCT-TTTCTTCCCTC
1 TATTTTT-CTTCTCTATTTCTTCCCTC
65802191 CCTTTTCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 14 0.58
29 6 0.25
ACGTcount: A:0.06, C:0.30, G:0.00, T:0.65
Consensus pattern (27 bp):
TATTTTTCTTCTCTATTTCTTCCCTCT
Found at i:65803876 original size:17 final size:17
Alignment explanation
Indices: 65803856--65803895 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
65803846 AGTCCATTTA
*
65803856 ATTTTTAATTTGTTTTT
1 ATTTTTAATTTATTTTT
**
65803873 ATTTTTCTTTTATTTTT
1 ATTTTTAATTTATTTTT
65803890 ATTTTT
1 ATTTTT
65803896 TGCGTTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (17 bp):
ATTTTTAATTTATTTTT
Found at i:65812971 original size:46 final size:46
Alignment explanation
Indices: 65812918--65813136 Score: 246
Period size: 46 Copynumber: 4.7 Consensus size: 46
65812908 TGGTTGAGCA
65812918 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
* *
65812964 TCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATACAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
* * * * * * *
65813010 TCCGAACTCATTGAGTTGAGTTCGAGTTC-GTGAGATGTA-AC-TAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACAAATG
* * * *
65813055 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
* *
65813103 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
65813137 GGGGCGGGTT
Statistics
Matches: 146, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
45 3 0.02
46 107 0.73
47 33 0.23
48 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
Found at i:65817860 original size:32 final size:32
Alignment explanation
Indices: 65817824--65817888 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
65817814 TGTAAGCATT
*
65817824 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAACGGATGATGGGCA
65817856 TTAGCATTTTAATAGTTAACGGATGATGGGCA
1 TTAGCATTTTAATAGTTAACGGATGATGGGCA
65817888 T
1 T
65817889 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.37
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAACGGATGATGGGCA
Done.