Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 15 of 208
Found at i:6013688 original size:23 final size:23
Alignment explanation
Indices: 6013643--6013758 Score: 142
Period size: 24 Copynumber: 4.9 Consensus size: 23
6013633 TACTTAGACA
*
6013643 ATTTGCCGTCAATTCATCATTTAC
1 ATTT-CCGTCAATTCATCCTTTAC
* * *
6013667 ATTACTGTCGATTCATCCTTTAC
1 ATTTCCGTCAATTCATCCTTTAC
* *
6013690 ATTTTCCGTCAATTCCTCATTTAC
1 A-TTTCCGTCAATTCATCCTTTAC
*
6013714 ATTTTTCGTCAATTCATCCTTTAC
1 A-TTTCCGTCAATTCATCCTTTAC
6013738 ATTTCCGTCAATTCATCCTTT
1 ATTTCCGTCAATTCATCCTTT
6013759 CCCAATAATG
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
23 36 0.46
24 42 0.54
ACGTcount: A:0.22, C:0.27, G:0.06, T:0.46
Consensus pattern (23 bp):
ATTTCCGTCAATTCATCCTTTAC
Found at i:6013743 original size:47 final size:46
Alignment explanation
Indices: 6013643--6013754 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 46
6013633 TACTTAGACA
*
6013643 ATTTGCCGTCAATTCATCATTTACATTACTGTCGATTCATCCTTTAC
1 ATTT-CCGTCAATTCATCATTTACATTACTGTCAATTCATCCTTTAC
* **
6013690 ATTTTCCGTCAATTCCTCATTTACATTTTTCGTCAATTCATCCTTTAC
1 A-TTTCCGTCAATTCATCATTTACATTACT-GTCAATTCATCCTTTAC
6013738 ATTTCCGTCAATTCATC
1 ATTTCCGTCAATTCATC
6013755 CTTTCCCAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
47 38 0.66
48 20 0.34
ACGTcount: A:0.22, C:0.27, G:0.06, T:0.45
Consensus pattern (46 bp):
ATTTCCGTCAATTCATCATTTACATTACTGTCAATTCATCCTTTAC
Found at i:6029624 original size:44 final size:44
Alignment explanation
Indices: 6029570--6029676 Score: 196
Period size: 44 Copynumber: 2.4 Consensus size: 44
6029560 GAGCACTTCC
*
6029570 GATCAGTGACAAGTGATAAGTGGTAGTTTTAGCTACACTTATCT
1 GATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCT
6029614 GATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCT
1 GATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCT
*
6029658 GATCAGTGATAAGTGATAA
1 GATCAGTGACAAGTGATAA
6029677 ATGTGATCCG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (44 bp):
GATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCT
Found at i:6034027 original size:3 final size:3
Alignment explanation
Indices: 6034013--6034059 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
6034003 GTGAGGTAAG
* * *
6034013 TAT TAG TAT TAT TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6034060 AGATGAGTGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:6034030 original size:12 final size:12
Alignment explanation
Indices: 6034013--6034059 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
6034003 GTGAGGTAAG
6034013 TATTAGTATTAT
1 TATTAGTATTAT
6034025 TATTAGTATTAT
1 TATTAGTATTAT
6034037 TATTAGTATTAT
1 TATTAGTATTAT
*
6034049 TATTATTATTA
1 TATTAGTATTA
6034060 AGATGAGTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:6051211 original size:23 final size:23
Alignment explanation
Indices: 6051183--6051280 Score: 169
Period size: 23 Copynumber: 4.3 Consensus size: 23
6051173 GTGTTATTGA
*
6051183 TCAGTGGTAGCTTCGGCTACGTT
1 TCAGTGGTAGCTTCGGCTACATT
*
6051206 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
*
6051229 ACAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
6051252 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
6051275 TCAGTG
1 TCAGTG
6051281 TGGCACTATT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:6056243 original size:23 final size:23
Alignment explanation
Indices: 6056216--6056271 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
6056206 AATTTAGTAT
6056216 ATTGAACAAAATAAACTAATTAA
1 ATTGAACAAAATAAACTAATTAA
** *
6056239 ATTGAACATGA-AAACTGATTAA
1 ATTGAACAAAATAAACTAATTAA
*
6056261 ATCGAA-AAAAT
1 ATTGAACAAAAT
6056272 TTGGCTTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
21 2 0.08
22 15 0.58
23 9 0.35
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.25
Consensus pattern (23 bp):
ATTGAACAAAATAAACTAATTAA
Found at i:6062861 original size:15 final size:16
Alignment explanation
Indices: 6062841--6062881 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
6062831 TTTCACTCGC
6062841 TTTGTTTCATTTC-AT
1 TTTGTTTCATTTCGAT
*
6062856 TTTGTTTTATTTCTGAT
1 TTTGTTTCATTTC-GAT
6062873 TTT-TTTCAT
1 TTTGTTTCAT
6062882 GTTAATTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 12 0.55
16 5 0.23
17 5 0.23
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.71
Consensus pattern (16 bp):
TTTGTTTCATTTCGAT
Found at i:6063708 original size:41 final size:41
Alignment explanation
Indices: 6063662--6063744 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
6063652 AATCACTTCC
6063662 TTTCTTTTTGGATCATTTAAAATGTTCTTGCATGGTTTTGA
1 TTTCTTTTTGGATCATTTAAAATGTTCTTGCATGGTTTTGA
6063703 TTTCTTTTTGGATCATTTAAAATGTTCTTGCATGGTTTTGA
1 TTTCTTTTTGGATCATTTAAAATGTTCTTGCATGGTTTTGA
6063744 T
1 T
6063745 GATGACAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.19, C:0.10, G:0.17, T:0.54
Consensus pattern (41 bp):
TTTCTTTTTGGATCATTTAAAATGTTCTTGCATGGTTTTGA
Found at i:6081202 original size:16 final size:18
Alignment explanation
Indices: 6081181--6081214 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6081171 ATTTTCATTT
6081181 TATTA-TTAA-AAAATTA
1 TATTATTTAATAAAATTA
6081197 TATTATTTAATAAAATTA
1 TATTATTTAATAAAATTA
6081215 AAAAAAACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 4 0.25
18 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTATTTAATAAAATTA
Found at i:6083084 original size:14 final size:14
Alignment explanation
Indices: 6083065--6083094 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
6083055 TCCTCGATCT
6083065 AGACCAAATCAACC
1 AGACCAAATCAACC
6083079 AGACCAAATCAACC
1 AGACCAAATCAACC
6083093 AG
1 AG
6083095 GCTATTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.33, G:0.10, T:0.07
Consensus pattern (14 bp):
AGACCAAATCAACC
Found at i:6088201 original size:18 final size:19
Alignment explanation
Indices: 6088178--6088217 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
6088168 ATCGTTTCTC
*
6088178 ATTATCCATTAAT-TAAAT
1 ATTATCAATTAATCTAAAT
*
6088196 ATTATCAATTCATCTAAAT
1 ATTATCAATTAATCTAAAT
6088215 ATT
1 ATT
6088218 TAATCCAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTATCAATTAATCTAAAT
Found at i:6092351 original size:3 final size:3
Alignment explanation
Indices: 6092343--6092375 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6092333 TTCGTTACGC
6092343 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6092376 GCAAAATGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6096690 original size:34 final size:33
Alignment explanation
Indices: 6096652--6096751 Score: 90
Period size: 34 Copynumber: 3.2 Consensus size: 33
6096642 CTAAACACAA
*
6096652 TAATTTATAACTTAATCCTAAATTACTAATAAAT
1 TAATTTATAAC-TAATCCTAAATTACTAACAAAT
*
6096686 TAATTT-TAA--AA---T-AATTACAAACACAA-
1 TAATTTATAACTAATCCTAAATTACTAACA-AAT
*
6096712 AAATTTATAACATAATCCTAAATTACTAACAAAT
1 TAATTTATAAC-TAATCCTAAATTACTAACAAAT
6096746 TAATTT
1 TAATTT
6096752 TAAAATGATT
Statistics
Matches: 51, Mismatches: 5, Indels: 20
0.67 0.07 0.26
Matches are distributed among these distances:
26 14 0.27
27 6 0.12
30 4 0.08
33 6 0.12
34 21 0.41
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (33 bp):
TAATTTATAACTAATCCTAAATTACTAACAAAT
Found at i:6096737 original size:60 final size:60
Alignment explanation
Indices: 6096644--6096762 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
6096634 ATATTAAACT
* * *
6096644 AAACACAATAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
6096704 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATGATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
6096763 TAAAAAAGAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:6096875 original size:23 final size:22
Alignment explanation
Indices: 6096849--6096917 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 22
6096839 TAAAACAATA
6096849 TATTACATTTTTTCTTTCTTTCT
1 TATT-CATTTTTTCTTTCTTTCT
*
6096872 TATTC-TTATTCTTCTTTTTTTCT
1 TATTCATT-TT-TTCTTTCTTTCT
*
6096895 T-CTCATTTCTTTCTTTTCTTTCT
1 TATTCATTT-TTTC-TTTCTTTCT
6096918 CTCTTCCGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
21 2 0.05
22 9 0.24
23 27 0.71
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (22 bp):
TATTCATTTTTTCTTTCTTTCT
Found at i:6096918 original size:20 final size:19
Alignment explanation
Indices: 6096861--6096919 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
6096851 TTACATTTTT
6096861 TCTTTCTTTCTTATTCTTAT-
1 TCTTTCTTTCTT-TTCTT-TC
6096881 TC-TTCTTT-TTTTC-TTC
1 TCTTTCTTTCTTTTCTTTC
6096897 TCATTTCTTTCTTTTCTTTC
1 TC-TTTCTTTCTTTTCTTTC
6096917 TCT
1 TCT
6096920 CTTCCGGATG
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
15 1 0.03
16 3 0.09
17 3 0.09
18 8 0.24
19 12 0.35
20 7 0.21
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (19 bp):
TCTTTCTTTCTTTTCTTTC
Found at i:6097198 original size:16 final size:17
Alignment explanation
Indices: 6097179--6097214 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6097169 ATAACAAATT
*
6097179 AATATTTT-ATTTAAAA
1 AATATTTTAATATAAAA
6097195 AATATTTTAATATAAAA
1 AATATTTTAATATAAAA
6097212 AAT
1 AAT
6097215 TGATTCACGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATTTTAATATAAAA
Found at i:6101125 original size:5 final size:5
Alignment explanation
Indices: 6101115--6101145 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
6101105 TTAAACTATA
*
6101115 CTCTC CTCTC CTCTC CCCTC CTCTC CTCTC C
1 CTCTC CTCTC CTCTC CTCTC CTCTC CTCTC C
6101146 AAATAAGGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (5 bp):
CTCTC
Found at i:6117715 original size:23 final size:22
Alignment explanation
Indices: 6117695--6117737 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
6117685 TACTAAAAGT
*
6117695 AATTATATTTTAAAATAAAAATA
1 AATTAAATTTT-AAATAAAAATA
6117718 AATTAAATTTTAAATAAAAA
1 AATTAAATTTTAAATAAAAA
6117738 CAATTTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AATTAAATTTTAAATAAAAATA
Found at i:6117732 original size:16 final size:18
Alignment explanation
Indices: 6117713--6117755 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
6117703 TTTAAAATAA
*
6117713 AAATAAATTA-AATTTT-
1 AAATAAATAACAATTTTG
6117729 AAATAAA-AACAATTTTG
1 AAATAAATAACAATTTTG
6117746 AAATAAATAA
1 AAATAAATAA
6117756 TTATTTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 1 0.04
16 13 0.57
17 7 0.30
18 2 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
AAATAAATAACAATTTTG
Found at i:6121243 original size:17 final size:17
Alignment explanation
Indices: 6121221--6121277 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
6121211 TTGAAGATTG
6121221 AGATTTTTTCTTTTTGA
1 AGATTTTTTCTTTTTGA
*****
6121238 AGATTTATTGAAGATTG-
1 AGATTT-TTTCTTTTTGA
6121255 AGATTTTTTCTTTTTGA
1 AGATTTTTTCTTTTTGA
6121272 AGATTT
1 AGATTT
6121278 GTTGCATCAT
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
16 5 0.18
17 18 0.64
18 5 0.18
ACGTcount: A:0.25, C:0.04, G:0.16, T:0.56
Consensus pattern (17 bp):
AGATTTTTTCTTTTTGA
Found at i:6121251 original size:34 final size:34
Alignment explanation
Indices: 6121208--6121277 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
6121198 TATACCAAAC
6121208 TTATTGAAGATTGAGATTTTTTCTTTTTGAAGAT
1 TTATTGAAGATTGAGATTTTTTCTTTTTGAAGAT
6121242 TTATTGAAGATTGAGATTTTTTCTTTTTGAAGAT
1 TTATTGAAGATTGAGATTTTTTCTTTTTGAAGAT
6121276 TT
1 TT
6121278 GTTGCATCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.26, C:0.03, G:0.17, T:0.54
Consensus pattern (34 bp):
TTATTGAAGATTGAGATTTTTTCTTTTTGAAGAT
Found at i:6144972 original size:20 final size:20
Alignment explanation
Indices: 6144921--6144961 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6144911 AACAAAAATA
*
6144921 AAAAGAAAGAACGAAAGAAAG
1 AAAAGAAA-AAGGAAAGAAAG
6144942 AAAAGAAAAAGGAAAGAAAG
1 AAAAGAAAAAGGAAAGAAAG
6144962 TAAGGAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAAGGAAAGAAAG
Found at i:6145436 original size:41 final size:39
Alignment explanation
Indices: 6145389--6145501 Score: 131
Period size: 37 Copynumber: 2.9 Consensus size: 39
6145379 TTCGACTTTG
6145389 AGTCGATGAGACACTGGATGTCAATTTACTACTTCGGATTA
1 AGTCGATGAGACACTGGATGTCAATTTA-TACTTCGG-TTA
* * * * *
6145430 ATTCGATGAGGCACTAGATGCCAATTTAT--TTCGGTTT
1 AGTCGATGAGACACTGGATGTCAATTTATACTTCGGTTA
*
6145467 AGTCGATGAGACACTGGGTGTCAATTTATTACTTC
1 AGTCGATGAGACACTGGATGTCAATTTA-TACTTC
6145502 AAATTATTCA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
37 25 0.42
38 6 0.10
40 4 0.07
41 24 0.41
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (39 bp):
AGTCGATGAGACACTGGATGTCAATTTATACTTCGGTTA
Found at i:6149819 original size:21 final size:21
Alignment explanation
Indices: 6149795--6149845 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
6149785 TTTAAAATAC
*
6149795 TTTAAAAATATTTTTTTTATT
1 TTTAAAAATATTTTTTGTATT
*
6149816 TTT-AAAATATTTTTTGTGTT
1 TTTAAAAATATTTTTTGTATT
6149836 TATTAAAAAT
1 T-TTAAAAAT
6149846 CGGGCCAGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 16 0.62
21 5 0.19
22 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TTTAAAAATATTTTTTGTATT
Found at i:6151468 original size:25 final size:24
Alignment explanation
Indices: 6151434--6151634 Score: 140
Period size: 25 Copynumber: 8.2 Consensus size: 24
6151424 ACACACCATC
* *
6151434 GCTCTTATGAGCGTCCCGATACTTG
1 GCTCTCATGAGCTTCCCGATA-TTG
* *
6151459 GCTCTCATGAGCTTCCCGTTATTTA
1 GCTCTCATGAGCTTCCCGATA-TTG
* * *
6151484 GCTCTTATGAGCATCTCGATATATG
1 GCTCTCATGAGCTTCCCGATAT-TG
* * *
6151509 GCTCTCATAAGCTTCTCGATTAATG
1 GCTCTCATGAGCTTCCCGA-TATTG
* *
6151534 GCTCT-TTGGAGCTTCCCAATATTG
1 GCTCTCAT-GAGCTTCCCGATATTG
* *
6151558 GTTCGCATGAGCTTCCCGA-ATTTG
1 GCTCTCATGAGCTTCCCGATA-TTG
* *
6151582 GCTCTCTTGAGCTTCCCAAT-TATG
1 GCTCTCATGAGCTTCCCGATAT-TG
*
6151606 GCTCGT-ATGAGCTTCCGGATAATTG
1 GCTC-TCATGAGCTTCCCGAT-ATTG
6151631 GCTC
1 GCTC
6151635 GCAAAATCTT
Statistics
Matches: 136, Mismatches: 30, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
23 2 0.01
24 54 0.40
25 77 0.57
26 3 0.02
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.35
Consensus pattern (24 bp):
GCTCTCATGAGCTTCCCGATATTG
Found at i:6151571 original size:24 final size:23
Alignment explanation
Indices: 6151542--6151621 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 23
6151532 TGGCTCTTTG
*
6151542 GAGCTTCCCAATATTGGTTCGCAT
1 GAGCTTCCCAAT-TTGGCTCGCAT
* *
6151566 GAGCTTCCCGAATTTGGCTCTCTT
1 GAGCTTCCC-AATTTGGCTCGCAT
*
6151590 GAGCTTCCCAATTATGGCTCGTAT
1 GAGCTTCCCAATT-TGGCTCGCAT
6151614 GAGCTTCC
1 GAGCTTCC
6151622 GGATAATTGG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.08
24 41 0.85
25 3 0.06
ACGTcount: A:0.17, C:0.28, G:0.21, T:0.34
Consensus pattern (23 bp):
GAGCTTCCCAATTTGGCTCGCAT
Found at i:6154508 original size:12 final size:12
Alignment explanation
Indices: 6154491--6154516 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6154481 TCGAATAAGC
6154491 ATGTATATATAT
1 ATGTATATATAT
6154503 ATGTATATATAT
1 ATGTATATATAT
6154515 AT
1 AT
6154517 AATGCTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:6155190 original size:41 final size:41
Alignment explanation
Indices: 6155145--6155286 Score: 203
Period size: 41 Copynumber: 3.5 Consensus size: 41
6155135 AGGCTAAGCG
*
6155145 CCTAGCAGGCTACGTGCCAGTGATTTGAATCGAGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGAGTTATAAA
*
6155186 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGAGTTATAAA
* * * *
6155227 CCTAGCAGGCTACGTGCCGGTGATCTGAATCAAGCTATAAG
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGAGTTATAAA
* * *
6155268 TCTAGCAGTCTATGTGCCG
1 CCTAGCAGGCTACGTGCCG
6155287 TTGAATCTGT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 91 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCGAGTTATAAA
Found at i:6178544 original size:30 final size:30
Alignment explanation
Indices: 6178508--6178572 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
6178498 GGCTAAATAG
*
6178508 TTTGTTTCGGTTCTTGCCTGTATTGCATTA
1 TTTGTTTCGATTCTTGCCTGTATTGCATTA
6178538 TTTGTTTCGATTCTTGCCTGTATTGCATTA
1 TTTGTTTCGATTCTTGCCTGTATTGCATTA
6178568 TTTGT
1 TTTGT
6178573 GGGAGTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.11, C:0.15, G:0.18, T:0.55
Consensus pattern (30 bp):
TTTGTTTCGATTCTTGCCTGTATTGCATTA
Found at i:6183566 original size:92 final size:91
Alignment explanation
Indices: 6183409--6183617 Score: 260
Period size: 92 Copynumber: 2.3 Consensus size: 91
6183399 TTGATTTTAG
* * *
6183409 TAAATTCATATAAGAACATTTTATTATTAACAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAACAATTTTATGAAATTATATATAACTATTAAATTAT
* * *
6183474 ATTTAAT-ATTAATTATTTTAATTTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* *
6183501 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAACAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
6183565 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
6183593 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
6183618 GTTATAATTA
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
90 1 0.01
91 28 0.27
92 70 0.69
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAACAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:6183580 original size:24 final size:25
Alignment explanation
Indices: 6183545--6183592 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
6183535 TTATGAAATT
6183545 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
6183569 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
6183593 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:6183747 original size:66 final size:61
Alignment explanation
Indices: 6183671--6183893 Score: 171
Period size: 66 Copynumber: 3.6 Consensus size: 61
6183661 AAATATATTT
6183671 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTAATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-A-TATCATATATTATGATTTGAGTAAATT-ATATAA
6183736 G
61 G
* * * * **
6183737 AATATTAATTATTAAGAATTTTA-TTAA-ATTATATATT-TTAATT-A-T-AA-TATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAATATCATATATTATGATTTGAGTAAATTATATAAG
*
6183791 AATAATAATTATGTT-AATTTATATTTTACAATATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTT--AATATCATATATTATGATTTGAGTAAATT-ATATA
6183855 AG
60 AG
* *
6183857 AATATTAATTATTAAGAATTTT-TTTAA-ATTATATATT
1 AATATTAATTATTTA-AATTTTATTTAATATCATATATT
6183894 TTAATTATAA
Statistics
Matches: 124, Mismatches: 16, Indels: 39
0.69 0.09 0.22
Matches are distributed among these distances:
53 5 0.04
54 13 0.10
55 5 0.04
56 3 0.02
57 2 0.02
58 3 0.02
59 10 0.08
60 8 0.06
61 19 0.15
62 3 0.02
63 3 0.02
64 7 0.06
65 7 0.06
66 31 0.25
67 5 0.04
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (61 bp):
AATATTAATTATTTAAATTTTATTTAATATCATATATTATGATTTGAGTAAATTATATAAG
Found at i:6183771 original size:120 final size:120
Alignment explanation
Indices: 6183633--6183925 Score: 466
Period size: 120 Copynumber: 2.4 Consensus size: 120
6183623 AATTATTTTA
* * *
6183633 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
* *
6183695 TTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
63 TTTACAATATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
6183753 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
6183818 ACAATATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAATATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
* *
6183873 AATTTTTTTAAATTATATATTTTAATTATAATACATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
6183926 TAAATATGAT
Statistics
Matches: 162, Mismatches: 8, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
119 6 0.04
120 154 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAATATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
Found at i:6183793 original size:15 final size:15
Alignment explanation
Indices: 6183758--6183809 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
6183748 TTAAGAATTT
*
6183758 TATTAAATTAT-ATA
1 TATTTAATTATAATA
6183772 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
6183786 TATTTAATAATAAT-
1 TATTTAATTATAATA
6183800 TATGTTAATT
1 TAT-TTAATT
6183810 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:6184041 original size:157 final size:157
Alignment explanation
Indices: 6183862--6184171 Score: 557
Period size: 157 Copynumber: 2.0 Consensus size: 157
6183852 ATAAGAATAT
* *
6183862 TAATTATTAAGAATTTTTTTAAATTATATATTTTAATTATAATACATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATACATTTAATAATAATTATGTTT
* *
6183927 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
6183992 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
*
6184019 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATACATTTAATAATAATTATGTTT
6184084 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
6184149 TAATTATTTACCAAATCAAATTT
131 TAATAATTTACCAAAACAAATTT
6184172 ATGCTAAGGG
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 146 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATACATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:6184059 original size:18 final size:17
Alignment explanation
Indices: 6184031--6184065 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6184021 ATTATTAAGA
*
6184031 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6184048 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6184066 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6184325 original size:16 final size:16
Alignment explanation
Indices: 6184304--6184334 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6184294 TTGCTATTAC
6184304 ACCTCTAATCTAATAT
1 ACCTCTAATCTAATAT
6184320 ACCTCTAATCTAATA
1 ACCTCTAATCTAATA
6184335 CAACGAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.35
Consensus pattern (16 bp):
ACCTCTAATCTAATAT
Found at i:6187014 original size:19 final size:19
Alignment explanation
Indices: 6186990--6187027 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6186980 TGGAATGGGA
*
6186990 TGGGATGGGAGTGGGTCCT
1 TGGGATGGGAGAGGGTCCT
6187009 TGGGATGGGAGAGGGTCCT
1 TGGGATGGGAGAGGGTCCT
6187028 GTTTAAGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.11, G:0.53, T:0.24
Consensus pattern (19 bp):
TGGGATGGGAGAGGGTCCT
Found at i:6188629 original size:27 final size:26
Alignment explanation
Indices: 6188599--6188656 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
6188589 CTGACACTAC
*
6188599 CCAATTAAATTAGCGGCACCAAAGGTG
1 CCAAATAAATTAGCGGCACC-AAGGTG
* * *
6188626 CCAAATAAATTGGTGGCACCATGGTG
1 CCAAATAAATTAGCGGCACCAAGGTG
6188652 CCAAA
1 CCAAA
6188657 GGAAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAAATAAATTAGCGGCACCAAGGTG
Found at i:6188755 original size:19 final size:19
Alignment explanation
Indices: 6188728--6188797 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
6188718 TCAACTCATT
*
6188728 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
6188747 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
6188765 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
6188784 TTTTAATTTAATAA
1 TTTTAATTTAATAA
6188798 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:6188776 original size:37 final size:37
Alignment explanation
Indices: 6188733--6188803 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
6188723 TCATTTTTTT
6188733 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
6188770 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
6188804 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:6189152 original size:20 final size:19
Alignment explanation
Indices: 6189113--6189153 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
6189103 ACTTAATAGT
* *
6189113 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
6189132 TTATTAAATAAAAAAACGAG
1 TTATTAAATAAAAAAA-GAG
6189152 TT
1 TT
6189154 GAAGGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:6189251 original size:28 final size:29
Alignment explanation
Indices: 6189212--6189279 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
6189202 TTACACATTT
6189212 TTTTGGTAAAT-AAAAAAAAGTTGTAATA
1 TTTTGGTAAATAAAAAAAAAGTTGTAATA
6189240 TTTTGGTAAATAAAAAAAAAGTTGTAATA
1 TTTTGGTAAATAAAAAAAAAGTTGTAATA
*
6189269 TTTTAGTAAAT
1 TTTTGGTAAAT
6189280 TTTTATTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 11 0.29
29 27 0.71
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (29 bp):
TTTTGGTAAATAAAAAAAAAGTTGTAATA
Found at i:6189848 original size:17 final size:17
Alignment explanation
Indices: 6189826--6189859 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6189816 GATTATATTA
6189826 TGTTAAA-ATAATCATAT
1 TGTTAAATATAAT-ATAT
6189843 TGTTAAATATAATATAT
1 TGTTAAATATAATATAT
6189860 ATTTCAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
TGTTAAATATAATATAT
Found at i:6197588 original size:20 final size:22
Alignment explanation
Indices: 6197546--6197593 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
6197536 TCGGTTAAGT
*
6197546 AGAAAAGTGGAAAGATAGAAGG
1 AGAAAAGTGGAAAAATAGAAGG
6197568 AGAAAA-TGGAAAAAT-GAAGG
1 AGAAAAGTGGAAAAATAGAAGG
*
6197588 AAAAAA
1 AGAAAA
6197594 AATTGATTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.42
21 8 0.33
22 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.29, T:0.08
Consensus pattern (22 bp):
AGAAAAGTGGAAAAATAGAAGG
Found at i:6197594 original size:21 final size:21
Alignment explanation
Indices: 6197548--6197593 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6197538 GGTTAAGTAG
* *
6197548 AAAAGTGGAAAGATAGAAGGA
1 AAAAATGGAAAAATAGAAGGA
*
6197569 GAAAATGGAAAAAT-GAAGGA
1 AAAAATGGAAAAATAGAAGGA
6197589 AAAAA
1 AAAAA
6197594 AATTGATTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.63, C:0.00, G:0.28, T:0.09
Consensus pattern (21 bp):
AAAAATGGAAAAATAGAAGGA
Found at i:6197628 original size:16 final size:15
Alignment explanation
Indices: 6197607--6197636 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6197597 TGATTGGTAA
6197607 GAAAGAAAAGTAGAAG
1 GAAAGAAAA-TAGAAG
6197623 GAAAGAAAATAGAA
1 GAAAGAAAATAGAA
6197637 AAGATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (15 bp):
GAAAGAAAATAGAAG
Found at i:6204013 original size:42 final size:42
Alignment explanation
Indices: 6203954--6204037 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
6203944 ATGAATAACG
6203954 ACCCTTTATTTGTTTCTACACAGGGATGTTTGTAGTGCAAGT
1 ACCCTTTATTTGTTTCTACACAGGGATGTTTGTAGTGCAAGT
6203996 ACCCTTTATTTGTTTCTACACAGGGATGTTTGTAGTGCAAGT
1 ACCCTTTATTTGTTTCTACACAGGGATGTTTGTAGTGCAAGT
6204038 GCACACCTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (42 bp):
ACCCTTTATTTGTTTCTACACAGGGATGTTTGTAGTGCAAGT
Found at i:6206474 original size:11 final size:11
Alignment explanation
Indices: 6206460--6206502 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
6206450 AAATACCTCT
6206460 AAAATAATAAC
1 AAAATAATAAC
*
6206471 AAAATTAATAAT
1 AAAA-TAATAAC
6206483 AAAATAATAAC
1 AAAATAATAAC
*
6206494 AACATAATA
1 AAAATAATA
6206503 GTGAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAATAAC
Found at i:6211242 original size:25 final size:25
Alignment explanation
Indices: 6211195--6211242 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
6211185 TTTGGTGGTC
* * *
6211195 AAATCATGCTTTTAACGCCAAAAGG
1 AAATCACGCTTTTAACACAAAAAGG
*
6211220 AAATCACGTTTTTAACACAAAAA
1 AAATCACGCTTTTAACACAAAAA
6211243 CCCTCGTCCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.46, C:0.19, G:0.10, T:0.25
Consensus pattern (25 bp):
AAATCACGCTTTTAACACAAAAAGG
Found at i:6216651 original size:23 final size:23
Alignment explanation
Indices: 6216625--6216716 Score: 71
Period size: 23 Copynumber: 3.9 Consensus size: 23
6216615 GGACTCACCA
*
6216625 CAGCTTGTATGAGCTTAGCGTTT
1 CAGCTTGTATGAGCTTACCGTTT
* *
6216648 CAGC-TCTACGGAGCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
*
6216671 CAGCTCG-ATAGAGCTTACCGTTTAT
1 CAGCTTGTAT-GAGCTTACCG-TT-T
* *
6216696 CAGCTCGGAATGAGCTTACCG
1 CAGCT-TGTATGAGCTTACCG
6216717 ATCATGGCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
22 3 0.05
23 31 0.56
24 2 0.04
25 6 0.11
26 11 0.20
27 2 0.04
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (23 bp):
CAGCTTGTATGAGCTTACCGTTT
Found at i:6216716 original size:26 final size:23
Alignment explanation
Indices: 6216635--6216716 Score: 85
Period size: 23 Copynumber: 3.4 Consensus size: 23
6216625 CAGCTTGTAT
* * **
6216635 GAGCTTAGCGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCTCGATA
6216658 GAGCTTACCGTTTCAGCTCGATA
1 GAGCTTACCGTTTCAGCTCGATA
6216681 GAGCTTACCGTTTATCAGCTCGGA-A
1 GAGCTTACCG-TT-TCAGCTC-GATA
6216706 TGAGCTTACCG
1 -GAGCTTACCG
6216717 ATCATGGCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 29 0.57
24 2 0.04
25 8 0.16
26 12 0.24
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCGATA
Found at i:6219953 original size:12 final size:12
Alignment explanation
Indices: 6219936--6219961 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6219926 ACCCCCTACC
6219936 CGTATCCGTTGT
1 CGTATCCGTTGT
6219948 CGTATCCGTTGT
1 CGTATCCGTTGT
6219960 CG
1 CG
6219962 GAATAGAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.27, G:0.27, T:0.38
Consensus pattern (12 bp):
CGTATCCGTTGT
Found at i:6220930 original size:67 final size:67
Alignment explanation
Indices: 6220822--6220952 Score: 201
Period size: 67 Copynumber: 2.0 Consensus size: 67
6220812 TTTTCAATTC
* * *
6220822 AGAGAGCACACTCCTGCGAACCTCATTTATTATAGCAGGATTACTAG-TCTAGGCTAAATCCCCT
1 AGAGAGCACACTCCCGCGAACCTCATTTATTACAGCAGGATTACCAGCTC-AGGCTAAATCCCCT
6220886 ACA
65 ACA
* *
6220889 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGCTCAGGCTAAATCCCCT
1 AGAGAGCACACTCCCGCGAACCTCATTTATTACAGCAGGATTACCAGCTCAGGCTAAATCCCCT
6220953 GTAATATAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 56 0.97
68 2 0.03
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTATTACAGCAGGATTACCAGCTCAGGCTAAATCCCCTA
CA
Found at i:6224206 original size:37 final size:36
Alignment explanation
Indices: 6224138--6224255 Score: 144
Period size: 37 Copynumber: 3.5 Consensus size: 36
6224128 AACTATAAAG
*
6224138 GCCGAATGC--ACATAT-TCACTTATACCCACCTAT
1 GCCGAATGCATACATATATCACTTATATCCACCTAT
*
6224171 GCCGAATGCATACATATATACACTTATATCTACCTAT
1 GCCGAATGCATACATATAT-CACTTATATCCACCTAT
6224208 GCCGAATGCATACA-A-AT-A--TATATCCACCTAT
1 GCCGAATGCATACATATATCACTTATATCCACCTAT
*
6224239 GCCGAATGCCTACATAT
1 GCCGAATGCATACATAT
6224256 GCACACATAA
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
31 25 0.33
32 1 0.01
33 10 0.13
35 8 0.11
36 2 0.03
37 29 0.39
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (36 bp):
GCCGAATGCATACATATATCACTTATATCCACCTAT
Found at i:6224615 original size:41 final size:41
Alignment explanation
Indices: 6224445--6224608 Score: 283
Period size: 41 Copynumber: 4.0 Consensus size: 41
6224435 ATCATATTAG
*
6224445 GATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
1 GATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCA
*
6224486 GATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
1 GATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCA
* *
6224527 TATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
1 GATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCA
*
6224568 GATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
1 GATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCA
6224609 ATTCACCAAT
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 115 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
GATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCA
Found at i:6224615 original size:82 final size:82
Alignment explanation
Indices: 6224446--6224608 Score: 326
Period size: 82 Copynumber: 2.0 Consensus size: 82
6224436 TCATATTAGG
6224446 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
6224511 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
6224528 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
6224593 TTTATAACCTGATTCA
66 TTTATAACCTGATTCA
6224609 ATTCACCAAT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:6224870 original size:15 final size:17
Alignment explanation
Indices: 6224829--6224872 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
6224819 TTGTTCGATC
6224829 CACATATATATATTACA
1 CACATATATATATTACA
*
6224846 CACATATATATATT-CG
1 CACATATATATATTACA
6224862 CACAT-TATATA
1 CACATATATATA
6224873 AACACAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 14 0.54
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (17 bp):
CACATATATATATTACA
Found at i:6229331 original size:43 final size:43
Alignment explanation
Indices: 6229259--6229385 Score: 136
Period size: 43 Copynumber: 3.0 Consensus size: 43
6229249 GGATTCCGTT
*
6229259 ATGTG-TTATCATGTAAGACCACGCCTGGGACGTTGGCATTGAC
1 ATGTGATTA-CATGTAAGACCACGTCTGGGACGTTGGCATTGAC
* * * **
6229302 CTGT-ACTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGTT
1 ATGTGA-TTACATGTAAGACCAC-GTCTGGGAC-GTTGGCATTGAC
6229345 ATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATTG
1 ATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATTG
6229386 TACGATATGT
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.03
43 60 0.88
44 6 0.09
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATTGAC
Found at i:6229882 original size:17 final size:17
Alignment explanation
Indices: 6229845--6229892 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
6229835 GAATTTAGAA
*
6229845 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
6229861 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
6229878 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
6229893 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:6231187 original size:46 final size:46
Alignment explanation
Indices: 6231117--6231248 Score: 160
Period size: 46 Copynumber: 2.9 Consensus size: 46
6231107 CATGGCAAAG
* * *
6231117 TGTGAAACA-TAGGTATGGTATTTCAGCGAAGAAAACCATGCT-GAGT
1 TGTGAAA-AGTAGGCATGGTATTTCAGTGAAGAAAACCAT-ATAGAGT
* * *
6231163 TGTGAAAAGTAGGCATGTTGTTTCAGTGAAGAAAACTATATAGAGT
1 TGTGAAAAGTAGGCATGGTATTTCAGTGAAGAAAACCATATAGAGT
* *
6231209 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATA
1 TGTGAAAAGTAGGCATGGTATTTCAGTGAAGAAAACCATA
6231249 CTAAGTTATA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 2 0.03
46 71 0.97
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGCATGGTATTTCAGTGAAGAAAACCATATAGAGT
Found at i:6235514 original size:8 final size:7
Alignment explanation
Indices: 6235487--6235511 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6235477 TCACCTTTAC
6235487 AAAAGAA
1 AAAAGAA
6235494 AAAAGAA
1 AAAAGAA
6235501 AAAAGAA
1 AAAAGAA
6235508 AAAA
1 AAAA
6235512 AGATCTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:6238308 original size:5 final size:5
Alignment explanation
Indices: 6238291--6238322 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
6238281 AAAAATATGG
6238291 GGCCC GAGCCC GGCCC GGCCC GGCCC GGCCC G
1 GGCCC G-GCCC GGCCC GGCCC GGCCC GGCCC G
6238323 TTTTTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.03, C:0.56, G:0.41, T:0.00
Consensus pattern (5 bp):
GGCCC
Found at i:6238402 original size:16 final size:16
Alignment explanation
Indices: 6238365--6238404 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
6238355 TTAATAAAAT
* *
6238365 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
6238381 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
6238397 TAAAATTA
1 TAAAATTA
6238405 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:6238404 original size:22 final size:22
Alignment explanation
Indices: 6238337--6238389 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
6238327 TAATTAAAAT
* * *
6238337 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAACTAATTGTTAA
*
6238359 TAAAATTAAAACTAATTGTTAT
1 TAAAATTAAAACTAATTGTTAA
6238381 TAAAATTAA
1 TAAAATTAA
6238390 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATTAAAACTAATTGTTAA
Found at i:6238483 original size:59 final size:59
Alignment explanation
Indices: 6238415--6238554 Score: 262
Period size: 59 Copynumber: 2.4 Consensus size: 59
6238405 TCAAATTATT
*
6238415 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTGGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTGGATTAGTAAATTTATCA
*
6238474 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTGGATTAGTAAATTTATCA
6238533 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
6238555 ATTAATTGTT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 79 1.00
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.46
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTGGATTAGTAAATTTATCA
Found at i:6238548 original size:9 final size:9
Alignment explanation
Indices: 6238536--6238563 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
6238526 TTTATCAAAT
6238536 TATTAATTG
1 TATTAATTG
6238545 TATTAATTG
1 TATTAATTG
6238554 TATTAATTG
1 TATTAATTG
6238563 T
1 T
6238564 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:6238707 original size:23 final size:24
Alignment explanation
Indices: 6238660--6238705 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
6238650 AAATAAACTT
6238660 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
6238684 AAAATAAAAAA-TATATATATTT
1 AAAATAAAAAACTAT-TATATTT
6238706 AATATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:6249138 original size:3 final size:3
Alignment explanation
Indices: 6249130--6249156 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6249120 TTTGTTAACT
6249130 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
6249157 CTATCATCTT
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:6249370 original size:30 final size:31
Alignment explanation
Indices: 6249294--6249396 Score: 81
Period size: 32 Copynumber: 3.4 Consensus size: 31
6249284 GTACATATTT
6249294 TACATATA-ATTTGTTTAATATATATACGTATA
1 TACATATATATTT-TTT-ATATATATACGTATA
*
6249326 TTCATAT-T-TCTTTTTATATATAT-C-TATA
1 TACATATATAT-TTTTTATATATATACGTATA
* * *
6249354 TACATATATATATTTTTATTTTTATAAGTATA
1 TACATATATAT-TTTTTATATATATACGTATA
* *
6249386 TATATTTATAT
1 TACATATATAT
6249397 GTATGTATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
28 10 0.18
29 2 0.04
30 20 0.35
31 4 0.07
32 21 0.37
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (31 bp):
TACATATATATTTTTTATATATATACGTATA
Found at i:6249390 original size:36 final size:36
Alignment explanation
Indices: 6249311--6249390 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
6249301 AATTTGTTTA
* *
6249311 ATATATATACGTATATTCATATTTCTTTTTATATAT
1 ATATATATACATATATTCATATTTATTTTTATATAT
* *
6249347 ATCTATATACATATATAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAT-TCATATTTATTTTTATATA-T
6249383 ATATATAT
1 ATATATAT
6249391 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (36 bp):
ATATATATACATATATTCATATTTATTTTTATATAT
Found at i:6251713 original size:19 final size:20
Alignment explanation
Indices: 6251673--6251716 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
6251663 GTCTCTTTAG
* *
6251673 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
6251692 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
6251711 GCATTA
1 GCATTA
6251717 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:6256178 original size:87 final size:85
Alignment explanation
Indices: 6255994--6256245 Score: 326
Period size: 87 Copynumber: 2.9 Consensus size: 85
6255984 CAGATCAGTG
* * *
6255994 AAGACAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCTTTGCCT-TCA
1 AAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCTC-
* *
6256058 TTGGTTACAGTGGAGCTGGTTA
64 TCGGTTGCAGTGGAGCTGGTTA
* * * * *
6256080 AAGAAGTAGATCTTGCCTTCCTGCATTGATAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTC
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAACCTTGCCTCTC
*
6256145 TCGGTTGTAGTGGAGCTGGTTA
64 TCGGTTGCAGTGGAGCTGGTTA
* * *
6256167 AAGAAGCAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCATCTAT
1 AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAA-CCTTGCCTCTCT
6256232 CGGTTGCAGTGGAG
65 CGGTTGCAGTGGAG
6256246 TAGATTGAAG
Statistics
Matches: 142, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
85 41 0.29
86 29 0.20
87 70 0.49
88 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (85 bp):
AAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCTCTC
GGTTGCAGTGGAGCTGGTTA
Found at i:6256182 original size:43 final size:44
Alignment explanation
Indices: 6256066--6256193 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 44
6256056 CATTGGTTAC
*
6256066 AGTGGAGCTGGTTAAAGAAGTAGATCTTGCCTTCCTGCATTGAT
1 AGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCATTGAT
* * ** * * *
6256110 AGTGAAGCAGGTCGAAGACA-CAAACCTTGCC-TCTCT-CGGTTG-T
1 AGTGGAGCTGGTTAAAGA-AGCAGATCTTGCCTTC-CTGC-ATTGAT
*
6256153 AGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTACATT
1 AGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCATT
6256194 AACAGCGAAG
Statistics
Matches: 63, Mismatches: 15, Indels: 13
0.69 0.16 0.14
Matches are distributed among these distances:
42 1 0.02
43 31 0.49
44 30 0.48
45 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (44 bp):
AGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCATTGAT
Found at i:6256369 original size:44 final size:43
Alignment explanation
Indices: 6256260--6257057 Score: 211
Period size: 44 Copynumber: 17.8 Consensus size: 43
6256250 TTGAAGCCAG
* * *
6256260 AGATCTTATCTCCCTG-AGATTGCAGCGGAGCAGATT-AAAGAC
1 AGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATAC
* * * * ** *
6256302 ACTATCCTATTTCCCTAAAGTTACAGTGGAGTGGATTAAAATAG
1 A-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
* ** * ***
6256346 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGA-TCGCAT-C
1 A-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
* * * * ** *
6256388 AGGTCTTATCTCCTTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AA-TAC
* *** *
6256434 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAATAC
* * * *
6256478 AGATCTTATCTCCCTG-AGATTGCAGCGGAGCAGA-TCAAAGAC
1 AGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATAC
* * * * *
6256520 ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTGAAATAAA
1 A-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAT-AC
* ** * *
6256565 AGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAATTAAAACC
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT----T--AA--AATA-C
* * *** *
6256617 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGA-TCGCA-CC
1 -A-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
* * * * * ** * *
6256660 AGGTCTTATCTCCCTGAGGTTACAGGGGAGTAAACCGAAGACTTTC
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-A-ATAC
* * *
6256706 AGATCTTATCTCCCTGAGGATTACA-TCGGAGCAGATT-GAAGAC
1 AGATCTTATCTCCCTGAAG-TTACAGT-GGAGCAGATTAAAATAC
* * * *
6256749 ATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
1 A-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
* ** * *
6256793 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAATTAAAACC
1 A-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT----T--AA--AATA-C
* * * ** *** *
6256846 AAGGATCTTATTTCTCTAAAGTTACAGCAGAGCAGA-TCGCA-CC
1 -A-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
* * * ** * *
6256889 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTC
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-A-ATAC
* * * *
6256935 AGATCTTATCTCCCTG-AGATATCAGCGGAGCAGATTGAAGATAGT
1 AGATCTTATCTCCCTGAAGTTA-CAGTGGAGCAGATT-AAAATA-C
* * * *
6256980 A-ACCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAA
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAT-AC
* * *
6257023 AGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT
6257058 CACATCACAT
Statistics
Matches: 540, Mismatches: 160, Indels: 110
0.67 0.20 0.14
Matches are distributed among these distances:
41 78 0.14
42 7 0.01
43 77 0.14
44 196 0.36
45 13 0.02
46 81 0.15
47 11 0.02
48 2 0.00
49 2 0.00
50 3 0.01
51 1 0.00
52 5 0.01
53 1 0.00
54 63 0.12
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
Found at i:6256439 original size:87 final size:88
Alignment explanation
Indices: 6256346--6256835 Score: 262
Period size: 87 Copynumber: 5.5 Consensus size: 88
6256336 ATTAAAATAG
* * * *
6256346 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGGTTAC
1 AGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGAATCAGGTCTTATCTCCCTGAGGTTAC
*
6256411 AGTGGAGTAGACCGAAGAATTTC
66 AGCGGAGTAGACCGAAGAATTTC
* ** * * *
6256434 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGAT
1 AGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGAA-TCAG-G-TCTTATCTCCCTGAGGT
* * * *
6256498 TGCAGCGGAGCAGATCAAAG-A---C
63 TACAGCGGAGTAGACCGAAGAATTTC
** * ** * * * * * *
6256520 ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTGAAATAAAAGATCTTATCTCTCTGAAGT
1 AGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCG-AAT--CAGGTCTTATCTCCCTGAGGT
* * *
6256585 TACAGCAGAGTAGATCGCATCA-AATTAAAACC
63 TACAGCGGAGTAGACCG-A--AGAATT----TC
* * * *
6256617 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTCCCTGAGGTTA
1 -AGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGAATCAGGTCTTATCTCCCTGAGGTTA
* * *
6256682 CAGGGGAGTAAACCGAAGACTTTC
65 CAGCGGAGTAGACCGAAGAATTTC
* * * * * ** * *
6256706 A-GATCTTATCTCCCTGAGGATTACATCGGAGCAGATTGAAGACATAATCCTATCTCCCTGAAGT
1 AGGATCTTATCTCCCTGAAG-TTACAGCAGAGCAGATCGAA-TCA-GGTCTTATCTCCCTGAGGT
* ** ** **
6256770 TACAGTGGAGCGGA-TTAA-AA-TAA
63 TACAGCGGAGTAGACCGAAGAATTTC
* * *
6256793 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
1 AGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGAATCA
6256836 AATTAAAACC
Statistics
Matches: 301, Mismatches: 77, Indels: 50
0.70 0.18 0.12
Matches are distributed among these distances:
86 4 0.01
87 123 0.41
88 40 0.13
89 9 0.03
90 57 0.19
92 1 0.00
93 3 0.01
94 1 0.00
95 30 0.10
97 2 0.01
98 31 0.10
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (88 bp):
AGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGAATCAGGTCTTATCTCCCTGAGGTTAC
AGCGGAGTAGACCGAAGAATTTC
Found at i:6256782 original size:229 final size:229
Alignment explanation
Indices: 6256478--6257064 Score: 991
Period size: 229 Copynumber: 2.6 Consensus size: 229
6256468 TTGAAGCCAG
* **
6256478 AGATCTTATCTCCCTGAGATTGCAGCGGAGCAGATCAAAGACACT-ATCCTATCTCCCTGAAGTT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAAGTT
*
6256542 ACAGTGGAGCGGATTGAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
* *
6256607 AATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTC
131 AATTAAAACCAAGGATCTTATCTCTCTAAAGTTACAGCAGAGCAGATCGCACCAGGTCTTATCTC
6256672 CCTGAGGTTACAGGGGAGTAAACCGAAGACTTTC
196 CCTGAGGTTACAGGGGAGTAAACCGAAGACTTTC
*
6256706 AGATCTTATCTCCCTGAGGATTACATCGGAGCAGATTGAAGACA-TAATCCTATCTCCCTGAAGT
1 AGATCTTATCTCCCTGA-GATTACAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAAGT
*
6256770 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
65 TACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
*
6256835 AAATTAAAACCAAGGATCTTATTTCTCTAAAGTTACAGCAGAGCAGATCGCACCAGGTCTTATCT
130 AAATTAAAACCAAGGATCTTATCTCTCTAAAGTTACAGCAGAGCAGATCGCACCAGGTCTTATCT
* *
6256900 CCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTC
195 CCCTGAGGTTACAGGGGAGTAAACCGAAGACTTTC
* * *
6256935 AGATCTTATCTCCCTGAGA-TATCAGCGGAGCAGATTGAAGATAGTAACCCTATCTCCCTGAAGT
1 AGATCTTATCTCCCTGAGATTA-CAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAAGT
* *
6256999 TACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATC
65 TACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
6257064 A
130 A
6257065 CATTGAAGCC
Statistics
Matches: 338, Mismatches: 17, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
227 2 0.01
228 39 0.12
229 297 0.88
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (229 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAAGTT
ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
AATTAAAACCAAGGATCTTATCTCTCTAAAGTTACAGCAGAGCAGATCGCACCAGGTCTTATCTC
CCTGAGGTTACAGGGGAGTAAACCGAAGACTTTC
Found at i:6256868 original size:54 final size:54
Alignment explanation
Indices: 6256783--6256886 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
6256773 AGTGGAGCGG
* * *
6256783 ATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAA
1 ATTAAAACAAAGGATCTTATCTCTCTAAAGTTACAGCAGAGCAGATCGCATCAA
* *
6256837 ATTAAAACCAAGGATCTTATTTCTCTAAAGTTACAGCAGAGCAGATCGCA
1 ATTAAAACAAAGGATCTTATCTCTCTAAAGTTACAGCAGAGCAGATCGCA
6256887 CCAGGTCTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (54 bp):
ATTAAAACAAAGGATCTTATCTCTCTAAAGTTACAGCAGAGCAGATCGCATCAA
Found at i:6258638 original size:3 final size:3
Alignment explanation
Indices: 6258630--6258656 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6258620 TTTGTTAACT
6258630 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
6258657 CTATCATCTT
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:6258870 original size:30 final size:31
Alignment explanation
Indices: 6258794--6258896 Score: 81
Period size: 32 Copynumber: 3.4 Consensus size: 31
6258784 GTACATATTT
6258794 TACATATA-ATTTGTTTAATATATATACGTATA
1 TACATATATATTT-TTT-ATATATATACGTATA
*
6258826 TTCATAT-T-TCTTTTTATATATAT-C-TATA
1 TACATATATAT-TTTTTATATATATACGTATA
* * *
6258854 TACATATATATATTTTTATTTTTATAAGTATA
1 TACATATATAT-TTTTTATATATATACGTATA
* *
6258886 TATATTTATAT
1 TACATATATAT
6258897 GTATGTATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
28 10 0.18
29 2 0.04
30 20 0.35
31 4 0.07
32 21 0.37
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (31 bp):
TACATATATATTTTTTATATATATACGTATA
Found at i:6258890 original size:36 final size:36
Alignment explanation
Indices: 6258811--6258890 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
6258801 AATTTGTTTA
* *
6258811 ATATATATACGTATATTCATATTTCTTTTTATATAT
1 ATATATATACATATATTCATATTTATTTTTATATAT
* *
6258847 ATCTATATACATATATAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAT-TCATATTTATTTTTATATA-T
6258883 ATATATAT
1 ATATATAT
6258891 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (36 bp):
ATATATATACATATATTCATATTTATTTTTATATAT
Found at i:6264538 original size:21 final size:22
Alignment explanation
Indices: 6264492--6264538 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
6264482 ATCAAGCAAA
* *
6264492 AAAATCCTAAAAAGGAATAATG
1 AAAATCCTAAAAAAGAAAAATG
*
6264514 -AAATCC-AAAAAATAAAAATG
1 AAAATCCTAAAAAAGAAAAATG
6264534 AAAAT
1 AAAAT
6264539 GAAAAAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (22 bp):
AAAATCCTAAAAAAGAAAAATG
Found at i:6268180 original size:3 final size:3
Alignment explanation
Indices: 6268172--6268203 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
6268162 GACGCTGATG
*
6268172 CTC CTC CTC CTC CTC CTC CTA CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
6268204 GCTGCTGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.62, G:0.00, T:0.34
Consensus pattern (3 bp):
CTC
Found at i:6271853 original size:101 final size:101
Alignment explanation
Indices: 6271665--6272071 Score: 514
Period size: 101 Copynumber: 4.0 Consensus size: 101
6271655 AATTTATCCA
* * * * *
6271665 TTACATTCGTAGTGCCATAACCCAATTATGATCTTATCATCAAAATGTCATAACCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
6271730 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* *
6271766 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATTATCAGAATG-CTATAGCCCAGCTATGG
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTC-ATAGCCCAGCTATGG
* * * *
6271830 TTTTACATATAAACGCTGTCATGG-CCTAACCATGGTT
65 TCTTACATATAAACACTGCCATGGTCC-AACCATGGTC
* * * * * * *
6271867 TTAAGTTCACAGTTCCATAACCCAGTTATGGTCTTATCATCAGAATGCCAAAGCCTAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
* *
6271932 CTTACATACAAACACTGCCATAGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* * * *
6271968 TTACGTTCATAGTGCTATAACTCAGTTATGGTCTT-TCCATTAAAATGTCATAGCCCAGCTATGA
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTAT-CATCAAAATGTCATAGCCCAGCTATGG
* * * *
6272032 TTTTACATTTAAACATTGCCATGGTCCAATCATGGTC
65 TCTTACATATAAACACTGCCATGGTCCAACCATGGTC
6272069 TTA
1 TTA
6272072 TCCATCAATT
Statistics
Matches: 261, Mismatches: 40, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
100 4 0.02
101 254 0.97
102 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:6274749 original size:25 final size:24
Alignment explanation
Indices: 6274706--6274758 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
6274696 AAATTCAAAC
6274706 GAGCCATATCAGGAAGCTCATAAA
1 GAGCCATATCAGGAAGCTCATAAA
* *
6274730 GAGCCTATATCGGGACGCTCATAAA
1 GAGCC-ATATCAGGAAGCTCATAAA
6274755 GAGC
1 GAGC
6274759 TGCGGTCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCTCATAAA
Found at i:6275126 original size:23 final size:22
Alignment explanation
Indices: 6275060--6275118 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 22
6275050 GACATTTATG
*
6275060 CAATTCACACATATACAACATT
1 CAATTCAAACATATACAACATT
*
6275082 CAATTCGAACATATACGAACATT
1 CAATTCAAACATATAC-AACATT
6275105 CAATTCAAACATAT
1 CAATTCAAACATAT
6275119 TCAAACATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 14 0.42
23 19 0.58
ACGTcount: A:0.46, C:0.24, G:0.03, T:0.27
Consensus pattern (22 bp):
CAATTCAAACATATACAACATT
Found at i:6275139 original size:32 final size:33
Alignment explanation
Indices: 6275084--6275149 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
6275074 ACAACATTCA
*
6275084 ATTCGAACATATACGAACATTCAATTCAAACAT
1 ATTCAAACATATACGAACATTCAATTCAAACAT
6275117 ATTCAAACATATAC-AACATTCAATTCAAACAT
1 ATTCAAACATATACGAACATTCAATTCAAACAT
6275149 A
1 A
6275150 ATTTAGTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.27
Consensus pattern (33 bp):
ATTCAAACATATACGAACATTCAATTCAAACAT
Found at i:6292566 original size:18 final size:18
Alignment explanation
Indices: 6292543--6292582 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6292533 TATAATTTTA
*
6292543 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
6292561 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
6292579 AAAA
1 AAAA
6292583 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:6292709 original size:30 final size:30
Alignment explanation
Indices: 6292665--6292727 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
6292655 ACTTAACAAG
*
6292665 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
*
6292695 CAAATATCTTTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
6292725 CAA
1 CAA
6292728 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATATCTCTAAAATAATAACAAAATTAA
Found at i:6294929 original size:19 final size:20
Alignment explanation
Indices: 6294885--6294929 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
6294875 TACAATTTTG
6294885 TTTTAATAATAAAATTTTAA
1 TTTTAATAATAAAATTTTAA
** *
6294905 CATTAAT-ATTAAATTTTAA
1 TTTTAATAATAAAATTTTAA
6294924 TTTTAA
1 TTTTAA
6294930 ATGATTTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTAATAATAAAATTTTAA
Found at i:6301155 original size:20 final size:20
Alignment explanation
Indices: 6301130--6301169 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6301120 AGTAACAATC
6301130 ACTCACTGGAGACACAGACT
1 ACTCACTGGAGACACAGACT
6301150 ACTCACTGGAGACACAGACT
1 ACTCACTGGAGACACAGACT
6301170 GTGATGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.30, G:0.20, T:0.15
Consensus pattern (20 bp):
ACTCACTGGAGACACAGACT
Found at i:6315569 original size:15 final size:15
Alignment explanation
Indices: 6315549--6315581 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6315539 TAATAAAATA
6315549 ATTATTTAAATTTAT
1 ATTATTTAAATTTAT
*
6315564 ATTATTTATATTTAT
1 ATTATTTAAATTTAT
6315579 ATT
1 ATT
6315582 TGCCATTGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTATTTAAATTTAT
Found at i:6316911 original size:25 final size:26
Alignment explanation
Indices: 6316874--6316932 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
6316864 AATCAAGTTA
* *
6316874 AGTGAAATTAAATTCGAGTCGAATTG
1 AGTGAAATGAAATTCGAGTCGAATCG
*
6316900 AGT-AAATGAAATTTGAGTCGAATCG
1 AGTGAAATGAAATTCGAGTCGAATCG
6316925 AGTGAAAT
1 AGTGAAAT
6316933 TGTTCGAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 22 0.76
26 7 0.24
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.29
Consensus pattern (26 bp):
AGTGAAATGAAATTCGAGTCGAATCG
Found at i:6317186 original size:18 final size:19
Alignment explanation
Indices: 6317165--6317201 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6317155 ATCTTGAATT
*
6317165 TTTTATAAA-TATTTTGAA
1 TTTTAAAAACTATTTTGAA
6317183 TTTTAAAAACTATTTTGAA
1 TTTTAAAAACTATTTTGAA
6317202 ATTATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTTAAAAACTATTTTGAA
Found at i:6317722 original size:11 final size:11
Alignment explanation
Indices: 6317706--6317730 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6317696 AATTTTAACG
6317706 AATTAAAAAAT
1 AATTAAAAAAT
6317717 AATTAAAAAAT
1 AATTAAAAAAT
6317728 AAT
1 AAT
6317731 AGTTATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATTAAAAAAT
Found at i:6318712 original size:29 final size:29
Alignment explanation
Indices: 6318680--6318749 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
6318670 ATGCTGTACC
*
6318680 AAATAATAATAATTCATATTT-GTCCTCTT
1 AAATAATAATAATTC-TATTTAATCCTCTT
* * *
6318709 AAATATAAAAAAATTCTATTTAATCCTTTT
1 AAATA-ATAATAATTCTATTTAATCCTCTT
6318739 AAA-AATAATAA
1 AAATAATAATAA
6318750 ATTTATATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
28 5 0.15
29 11 0.33
30 17 0.52
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (29 bp):
AAATAATAATAATTCTATTTAATCCTCTT
Found at i:6318751 original size:29 final size:29
Alignment explanation
Indices: 6318684--6318757 Score: 71
Period size: 30 Copynumber: 2.6 Consensus size: 29
6318674 TGTACCAAAT
*
6318684 AATAAT-AATTCATATTTGTCCTCTTAAA
1 AATAATAAATTCATATTTATCCTCTTAAA
* * *
6318712 TATAAAAAAATTC-TATTTAATCCTTTTAAA
1 AAT-AATAAATTCATATTT-ATCCTCTTAAA
*
6318742 AATAATAAATTTATAT
1 AATAATAAATTCATAT
6318758 ATATAAATCC
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
28 2 0.06
29 14 0.40
30 19 0.54
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.43
Consensus pattern (29 bp):
AATAATAAATTCATATTTATCCTCTTAAA
Found at i:6321155 original size:32 final size:32
Alignment explanation
Indices: 6321105--6321176 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
6321095 AAAATACCCT
*
6321105 AATAATAATAAATCAAATAAGCCAAATTTTAA
1 AATAATAATAAATAAAATAAGCCAAATTTTAA
6321137 AATAA-AATAAAATAAAATAAGCCAAATTTT-A
1 AATAATAAT-AAATAAAATAAGCCAAATTTTAA
6321168 AATAATAAT
1 AATAATAAT
6321177 TTTATAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
31 9 0.24
32 28 0.76
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (32 bp):
AATAATAATAAATAAAATAAGCCAAATTTTAA
Found at i:6321377 original size:26 final size:26
Alignment explanation
Indices: 6321330--6321382 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
6321320 TTGAAAGGAA
* *
6321330 ATTTTAAAAATGTTCTAAATATATTTT
1 ATTTAAAAAATATTCTAAATAT-TTTT
*
6321357 ATTTAAAAAATATTC-ATATATTTTT
1 ATTTAAAAAATATTCTAAATATTTTT
6321382 A
1 A
6321383 GTAATTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 5 0.22
27 13 0.57
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (26 bp):
ATTTAAAAAATATTCTAAATATTTTT
Found at i:6321486 original size:22 final size:22
Alignment explanation
Indices: 6321458--6321502 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6321448 TTCATTTTCA
*
6321458 ATTATTTTAACATTTTTTAAAT
1 ATTATTTTAACATATTTTAAAT
* *
6321480 ATTATTTTATCGTATTTTAAAT
1 ATTATTTTAACATATTTTAAAT
6321502 A
1 A
6321503 CATATCAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTATTTTAACATATTTTAAAT
Found at i:6334580 original size:15 final size:15
Alignment explanation
Indices: 6334568--6334598 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6334558 TGAAATTAAG
6334568 ATAATAAAAATTATA
1 ATAATAAAAATTATA
*
6334583 ATGATAAAAATTATA
1 ATAATAAAAATTATA
6334598 A
1 A
6334599 GTATTAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
ATAATAAAAATTATA
Found at i:6340343 original size:16 final size:16
Alignment explanation
Indices: 6340305--6340344 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
6340295 GATTCGTCAA
*
6340305 AAAAT-ATAATACATT
1 AAAATAATAATAAATT
6340320 ACAAATAATAATAAATT
1 A-AAATAATAATAAATT
6340337 AAAATAAT
1 AAAATAAT
6340345 TTCCTTTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 11 0.50
17 10 0.45
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATAATAATAAATT
Found at i:6351897 original size:13 final size:13
Alignment explanation
Indices: 6351879--6351916 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
6351869 TTCTTCATTA
6351879 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
**
6351892 CTTTTGAGGAGTG
1 CTTTTGAAAAGTG
6351905 CTTTTGAAAAGT
1 CTTTTGAAAAGT
6351917 TTGGTTTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:6358221 original size:17 final size:18
Alignment explanation
Indices: 6358186--6358225 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
6358176 ATTTTACACA
*
6358186 TAAATAAATACCTTTACC
1 TAAATAAATACCTTAACC
*
6358204 TAAATAAA-CCCTTAACC
1 TAAATAAATACCTTAACC
6358221 TAAAT
1 TAAAT
6358226 CATTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAATAAATACCTTAACC
Found at i:6362900 original size:20 final size:19
Alignment explanation
Indices: 6362857--6362901 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
6362847 AATGGATATC
*
6362857 TTTAATAAATATAATTTCA
1 TTTATTAAATATAATTTCA
* *
6362876 CTTATTAAATATTATTTTCA
1 TTTATTAAATA-TAATTTCA
6362896 TTTATT
1 TTTATT
6362902 TTATTATTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTATTAAATATAATTTCA
Found at i:6365233 original size:115 final size:115
Alignment explanation
Indices: 6364943--6365848 Score: 870
Period size: 115 Copynumber: 7.8 Consensus size: 115
6364933 TTACCATCCT
* * * *
6364943 GCGCCGCAAAATCTC-AAGACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGC
1 GCGCCGCAAAATATCTTA-ACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGC
* * * * *
6365007 GATTATGAGGAAACGCCGCTAAAGCA-AGTATTAGCGGCGCATTGTG-GAAA
65 GCTTACGAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTTTTGAG-AA
** * * * * *
6365057 GCGCCGCAAAA-ATCTTAATGAAAACGCATCGTTTTGGTCTCGCTGTATATTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGCG
* *
6365121 CTTACGAAAAAACGCCGCTAAAGCATACTATTAGCGGCGCGTTTTGAGAA
66 CTTACGAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTTTTGAGAA
* * *
6365171 GCGCCGCAAAATATATTAACCAAAACGCAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGCG
* * * ** *
6365236 -TTCACTAGAAAACACCGCTAAAGCATAGTATTTGCGGCGC-TTCTAAAAAA
66 CTT-ACGAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTT-TTGAGAA
* * * * * * *
6365286 GCGCCGCAAAATATCCTAACCAAAATGCACCGTTTTGGTCTTGGTGTATATTACAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGCG
* * * * *
6365351 CTTACGGGAAAACACCGTTAAAGCATAATATTAGCGGCG-TTTTGTGAGAA
66 CTTACGAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTTT-TGAGAA
* * * * *
6365401 GAGCTGCAAAATATCTTAACCAAAACACAGAGTTT-GGTCTTGAGGTATACTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGCG
* * * * * * *
6365465 C-AAAGGGAAAACGCCGTTAACGCATACTATTAGCGGCGCGTTTGGAGAA
66 CTTACGAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTTTTGAGAA
* *
6365514 GCGCCGCAAAATTTCTTAACCAAAACGCAGCGTTTTCAGCGTTTTGGTCTTGATGTATACTATAA
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCG-TTT-A-------GGTCTTGATGTATACTAGAA
* * * *
6365579 TTAGTTGCGCATACTG-GAAAACGCCGCTAAATCATAGTATTAGCGGCGC--TTTGCAAAAA
57 TTAGTGGCGCTTAC-GAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTTTTG--AGAA
* * * * * * *
6365638 GCACCGCAAAATATGC-TCACCAAAACGTAGAGTTT-GGCCTTGAGGTATATTAGAATTAGTGGC
1 GCGCCGCAAAATAT-CTTAACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGC
* * * * *
6365701 GCTTATGGGAACACGCCGCTAAAGCATACTATTAGCGGCGTGTTTTGAGAA
65 GCTTACGAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTTTTGAGAA
* * * * *
6365752 GTGCCGCAAAATATATTAACCAAAATGCAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGCG
6365817 -TTCACGAGAAAACGCCGCTAAAGCATAGTATT
66 CTT-ACGAGAAAACGCCGCTAAAGCATAGTATT
6365849 GAAGCGCCGG
Statistics
Matches: 644, Mismatches: 117, Indels: 61
0.78 0.14 0.07
Matches are distributed among these distances:
113 130 0.20
114 167 0.26
115 248 0.39
116 6 0.01
122 3 0.00
123 30 0.05
124 58 0.09
125 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (115 bp):
GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTAGGTCTTGATGTATACTAGAATTAGTGGCG
CTTACGAGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTTTTGAGAA
Found at i:6365660 original size:124 final size:123
Alignment explanation
Indices: 6365433--6365786 Score: 322
Period size: 114 Copynumber: 2.9 Consensus size: 123
6365423 AAACACAGAG
* *
6365433 TTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGGGAAAACGCCGTTAACGCATACTATTAG
1 TTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGGGAAAACGCCGCTAAAGCATACTATTAG
* * * *
6365498 CGGCGCGTTTGGAGAAGCGCCGCAAAATTTCTTAACCAAAACGCAGCGTTTTCAGCGT
66 CGGCGCGTTTGAAAAAGCACCGCAAAATTGCTTAACCAAAACGCAGCGTTTTCAGCGT
* * * ** * *
6365556 TTTGGTCTTGATGTATACTATAATTAGTTGCGCATACTGGAAAACGCCGCTAAATCATAGTATTA
1 TTTGGTCTTGAGGTATACTAGAATTAGTGGCGCA-AAGGGAAAACGCCGCTAAAGCATACTATTA
* *
6365621 GCGGCGC-TTTGCAAAAAGCACCGCAAAATATGC-TCACC-AAA---A-CG---T-AGAG-
65 GCGGCGCGTTTG-AAAAAGCACCGCAAAAT-TGCTTAACCAAAACGCAGCGTTTTCAGCGT
* * * * *
6365670 TTTGGCCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGAACACGCCGCTAAAGCATACTATTA
1 TTTGGTCTTGAGGTATACTAGAATTAGTGGCGC-AAAGGGAAAACGCCGCTAAAGCATACTATTA
* * ** * *
6365735 GCGGCGTGTTTTG-AGAAGTGCCGCAAAATAT-ATTAACCAAAATGCAGCGTTT
65 GCGGCGCG-TTTGAAAAAGCACCGCAAAAT-TGCTTAACCAAAACGCAGCGTTT
6365787 AAGTCTTGAT
Statistics
Matches: 184, Mismatches: 32, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
114 78 0.42
115 6 0.03
116 5 0.03
118 1 0.01
119 4 0.02
120 1 0.01
123 38 0.21
124 49 0.27
125 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (123 bp):
TTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGGGAAAACGCCGCTAAAGCATACTATTAG
CGGCGCGTTTGAAAAAGCACCGCAAAATTGCTTAACCAAAACGCAGCGTTTTCAGCGT
Found at i:6365759 original size:114 final size:113
Alignment explanation
Indices: 6365556--6365848 Score: 304
Period size: 114 Copynumber: 2.6 Consensus size: 113
6365546 TTTTCAGCGT
* * * *
6365556 TTTGGTCTTGATGTATACTATAATTAGTTGCGCATACT-GGAAAACGCCGCTAAATCATAGTATT
1 TTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTA-TGGGAAAACGCCGCTAAAGCATAGTATT
* * *
6365620 AGCGGCGCTTTGCAAAAAGCACCGCAAAATATGCTCACCAAAACGTAGAG
65 AGCGGCGCTTTG-AAAAAGCACCGCAAAATATACTAACCAAAACGCAGAG
* * * * *
6365670 TTTGGCCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGAACACGCCGCTAAAGCATACTATTA
1 TTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTATGGGAAAACGCCGCTAAAGCATAGTATTA
* * ** * * *
6365735 GCGGCGTGTTTTG-AGAAGTGCCGCAAAATATATTAACCAAAATGCAGCG
66 GCGGC--GCTTTGAAAAAGCACCGCAAAATATACTAACCAAAACGCAGAG
* * * *
6365784 TTTAAGTCTTGATGTATACTGGAATTAGTGGCG-TTCACGAGAAAACGCCGCTAAAGCATAGTAT
1 TTT-GGTCTTGATGTATACTAGAATTAGTGGCGCTT-ATGGGAAAACGCCGCTAAAGCATAGTAT
6365848 T
64 T
6365849 GAAGCGCCGG
Statistics
Matches: 146, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
113 1 0.01
114 91 0.62
115 49 0.34
116 5 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (113 bp):
TTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTATGGGAAAACGCCGCTAAAGCATAGTATTA
GCGGCGCTTTGAAAAAGCACCGCAAAATATACTAACCAAAACGCAGAG
Found at i:6366238 original size:14 final size:14
Alignment explanation
Indices: 6366207--6366250 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
6366197 TTTGGGTTTA
* *
6366207 GGGTTTAGGAGTTA
1 GGGTTTAGGATTTG
*
6366221 GGGTTTAAGATTTG
1 GGGTTTAGGATTTG
*
6366235 GGGTTTGGGATTTG
1 GGGTTTAGGATTTG
6366249 GG
1 GG
6366251 CCATTTTAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (14 bp):
GGGTTTAGGATTTG
Found at i:6367200 original size:83 final size:86
Alignment explanation
Indices: 6367060--6367243 Score: 198
Period size: 83 Copynumber: 2.2 Consensus size: 86
6367050 AACTTTTCCG
** * * *
6367060 AATGCGGCGCCGTTTCAGTGTTGGCAAAAATTTTATAGTGGCGTTTTAAAGGGAAACGCCACAA-
1 AATGCGGCGCCGTTTCAGTACTGGAAAAAATTTAATAGTGGCGTTTTAAAGGAAAACGCCACAAT
*
6367124 TAATTA-AT-TAAA-TTTCCC
66 TAATTATATATAAACTTCCCC
* * ** *
6367142 TATGCGGCGCCGTTTCTGTACTGGAAAATAATTTAATAGTGGCGTTTTTTTA-GAAAACGCCGCA
1 AATGCGGCGCCGTTTCAGTACTGGAAAA-AATTTAATAGTGGCG-TTTTAAAGGAAAACGCCACA
*
6367206 ATTATTTATATATAAACTTCCCC
64 ATTAATTATATATAAACTTCCCC
*
6367229 AATGCGGCGCTGTTT
1 AATGCGGCGCCGTTT
6367244 GTGAACTTCA
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
82 23 0.28
83 25 0.30
84 10 0.12
85 2 0.02
86 4 0.05
87 18 0.22
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (86 bp):
AATGCGGCGCCGTTTCAGTACTGGAAAAAATTTAATAGTGGCGTTTTAAAGGAAAACGCCACAAT
TAATTATATATAAACTTCCCC
Found at i:6371282 original size:43 final size:43
Alignment explanation
Indices: 6371209--6371474 Score: 320
Period size: 43 Copynumber: 6.2 Consensus size: 43
6371199 CAAACAAATG
* * *
6371209 GCGGAGTTTGT-GAAAGAATGCCGCTAAAAGAGCATGATCTTTA
1 GCGGCGTTTGTGGAAAGAACGCCGCT-AAAGAACATGATCTTTA
* *
6371252 GCGGCATTTGTGGAAAGAACGCCACTAAAGAACATGATCTTTA
1 GCGGCGTTTGTGGAAAGAACGCCGCTAAAGAACATGATCTTTA
* * * *
6371295 GCGGCGTTTGTGGAAAGTACGCCGCTAAAGACCCTGACCTTTA
1 GCGGCGTTTGTGGAAAGAACGCCGCTAAAGAACATGATCTTTA
* *
6371338 GCGGTGTTTGTGGAAAGAGCGCCGCTAAAGAACATGATCTTTA
1 GCGGCGTTTGTGGAAAGAACGCCGCTAAAGAACATGATCTTTA
* * * * *
6371381 GCGGTGTTTGTAGAAAGAGCGTCGCTAAAGAACATAATCTTTA
1 GCGGCGTTTGTGGAAAGAACGCCGCTAAAGAACATGATCTTTA
* * * *
6371424 GTGGCGTTTGTGGGAAA-AGCGCCGCTAAAAAACATGACCTTTA
1 GCGGCGTTTGT-GGAAAGAACGCCGCTAAAGAACATGATCTTTA
6371467 GCGGCGTT
1 GCGGCGTT
6371475 AATAAACGCC
Statistics
Matches: 193, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
43 177 0.92
44 16 0.08
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (43 bp):
GCGGCGTTTGTGGAAAGAACGCCGCTAAAGAACATGATCTTTA
Found at i:6371495 original size:28 final size:28
Alignment explanation
Indices: 6371464--6371530 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
6371454 AACATGACCT
6371464 TTAGCGGCGTTAATAAACGCCGCAAAAG
1 TTAGCGGCGTTAATAAACGCCGCAAAAG
6371492 TTAGCGGCGTTAATAAACGCCGCAAAAG
1 TTAGCGGCGTTAATAAACGCCGCAAAAG
6371520 TTAGCGGCGTT
1 TTAGCGGCGTT
6371531 GTCAATAGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (28 bp):
TTAGCGGCGTTAATAAACGCCGCAAAAG
Found at i:6375460 original size:20 final size:19
Alignment explanation
Indices: 6375412--6375500 Score: 83
Period size: 20 Copynumber: 4.7 Consensus size: 19
6375402 TTCTTACAAC
*
6375412 TTTATAAAATTTTAT-ATT
1 TTTATAATATTTTATAATT
* *
6375430 TCTCT-ATATTTTATAATT
1 TTTATAATATTTTATAATT
**
6375448 TTTAATAATATTTTACGATT
1 TTT-ATAATATTTTATAATT
* *
6375468 TTTTTAAAATTTTATAATT
1 TTTATAATATTTTATAATT
6375487 TTTATAAATATTTT
1 TTTAT-AATATTTT
6375501 TTACGATTTA
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
17 8 0.15
18 8 0.15
19 17 0.31
20 21 0.39
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (19 bp):
TTTATAATATTTTATAATT
Found at i:6375530 original size:20 final size:19
Alignment explanation
Indices: 6375465--6375530 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 19
6375455 ATATTTTACG
* *
6375465 ATTTTTTTAAA-ATTTTATA
1 ATTTTTATAAATATTTT-TT
6375484 ATTTTTATAAATATTTTTT
1 ATTTTTATAAATATTTTTT
** *
6375503 ACGATTTATATATATTTTTCT
1 A-TTTTTATAAATATTTTT-T
6375524 ATTTTTA
1 ATTTTTA
6375531 ACATTTGAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 12 0.32
20 23 0.62
21 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTTATAAATATTTTTT
Found at i:6375697 original size:86 final size:87
Alignment explanation
Indices: 6375596--6375777 Score: 235
Period size: 86 Copynumber: 2.1 Consensus size: 87
6375586 AATTTTTAAT
** * * *
6375596 AAAAATAGGGGTTTAATTACTTTTATTTGAAAAAGTTTCAGAGTC-TTTTTATGCATTTTGAAAG
1 AAAAATAGGAATTTAATTA-TTTTATTTGAAAAAGTTTAAGAGACTTTTTTATGAATTTTGAAAG
* *
6375660 TTCAAGTACCCAATTAAGTG-AA
65 TTCAAGTACCCAAATAAATGTAA
* *
6375682 AAAAATAGGAATTTAATTATTTTTTTTGAAAAGGTTTAAGAGACTTTTTTATGAATTTTGAAAGT
1 AAAAATAGGAATTTAATTATTTTATTTGAAAAAGTTTAAGAGACTTTTTTATGAATTTTGAAAGT
* *
6375747 TTAAGTACCTAAATAAATGTAA
66 TCAAGTACCCAAATAAATGTAA
6375769 AAAAA-AGGA
1 AAAAATAGGA
6375778 CTTAAAAACT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
85 21 0.25
86 55 0.66
87 7 0.08
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (87 bp):
AAAAATAGGAATTTAATTATTTTATTTGAAAAAGTTTAAGAGACTTTTTTATGAATTTTGAAAGT
TCAAGTACCCAAATAAATGTAA
Found at i:6381176 original size:21 final size:21
Alignment explanation
Indices: 6381151--6381211 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 21
6381141 TCATTATGTT
6381151 AAGCATAAAGTTCTGTCCCCA
1 AAGCATAAAGTTCTGTCCCCA
* * *
6381172 TAGCAT-TAGTTAACTGT--CAA
1 AAGCATAAAGTT--CTGTCCCCA
6381192 AAGCATAAAGTTCTGTCCCC
1 AAGCATAAAGTTCTGTCCCC
6381212 GTAGTACTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 10
0.64 0.13 0.22
Matches are distributed among these distances:
19 4 0.14
20 11 0.38
21 10 0.34
22 4 0.14
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (21 bp):
AAGCATAAAGTTCTGTCCCCA
Found at i:6387873 original size:134 final size:134
Alignment explanation
Indices: 6387633--6387904 Score: 517
Period size: 134 Copynumber: 2.0 Consensus size: 134
6387623 TGTCTGCTGA
*
6387633 AGAGTTGAAACTCAATAATTTTAGTATGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTTTG
1 AGAGTTGAAACTCAATAATTTTAGTACGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTTTG
*
6387698 TAGGAGGTTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
66 TAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
6387763 GAAC
131 GAAC
*
6387767 AGAGTTGAAACTCAATAATTTTATTACGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTTTG
1 AGAGTTGAAACTCAATAATTTTAGTACGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTTTG
6387832 TAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
66 TAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
6387897 GAAC
131 GAAC
6387901 AGAG
1 AGAG
6387905 GTACGCCTTC
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 135 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.38
Consensus pattern (134 bp):
AGAGTTGAAACTCAATAATTTTAGTACGAGTTCTTTTCCTTGTGCTTAAAATGTGTATATTTTTG
TAGGAGATTTCTTCAGCAAGATTTTGATACAACCCTTGCTTTTGTTAATCATGAAAGGAAACAAA
GAAC
Found at i:6412874 original size:2 final size:2
Alignment explanation
Indices: 6412867--6412897 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6412857 AACTCCTTTA
*
6412867 CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
6412898 GTACGGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Done.