Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
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: 6561538
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 30
Found at i:5041513 original size:25 final size:25
Alignment explanation
Indices: 5041479--5041592 Score: 69
Period size: 25 Copynumber: 4.7 Consensus size: 25
5041469 TACTTACAAG
5041479 TATAATGTATACTTATATTATATACT
1 TATAA-GTATACTTATATTATATACT
* **
5041505 TATAAGTATA-ATATATATATATAGA
1 TATAAGTATACTTATAT-TATATACT
* * **
5041530 TAT-AG-ATA--TAGA-TATAAAAG
1 TATAAGTATACTTATATTATATACT
* *
5041550 TATAATGTATACTTATACTATTTACT
1 TATAA-GTATACTTATATTATATACT
*
5041576 TGTAAGTATACTTATAT
1 TATAAGTATACTTATAT
5041593 ATTATATATA
Statistics
Matches: 67, Mismatches: 14, Indels: 15
0.70 0.15 0.16
Matches are distributed among these distances:
20 8 0.12
21 1 0.01
22 4 0.06
23 6 0.09
24 7 0.10
25 28 0.42
26 13 0.19
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (25 bp):
TATAAGTATACTTATATTATATACT
Found at i:5041558 original size:71 final size:72
Alignment explanation
Indices: 5041423--5041605 Score: 210
Period size: 73 Copynumber: 2.5 Consensus size: 72
5041413 ACATGGACTT
* * * * *
5041423 TTATATATTTATAAGTATAATGTATATAT-TATATACTTGTATTATATACTTACAAGTATAATGT
1 TTATATACTTATAAGTATAATATATATATATATATA-TAGTATTAGATAC-TAAAAGTATAATGT
5041487 ATACTTATA
64 ATACTTATA
*
5041496 TTATATACTTATAAGTATAATATATATATATAGATATAG-ATATAGATA-TAAAAGTATAATGTA
1 TTATATACTTATAAGTATAATATATATATATATATATAGTAT-TAGATACTAAAAGTATAATGTA
5041559 TACTTATA
65 TACTTATA
* * * *
5041567 CTATTTACTTGTAAGTATACTTATATATTATATATATAT
1 TTATATACTTATAAGTATA-ATATATA-TATATATATAT
5041606 TTATTAAAAT
Statistics
Matches: 95, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
71 38 0.40
72 8 0.08
73 44 0.46
74 5 0.05
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (72 bp):
TTATATACTTATAAGTATAATATATATATATATATATAGTATTAGATACTAAAAGTATAATGTAT
ACTTATA
Found at i:5042662 original size:54 final size:54
Alignment explanation
Indices: 5042593--5042917 Score: 551
Period size: 54 Copynumber: 6.0 Consensus size: 54
5042583 GCACATCTAA
* * *
5042593 TGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACACAG
1 TGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAG
* * * *
5042647 TGCCAATATGGAAATTCATACACTTATTATGAATTTCTTAGGTTTCACACACAG
1 TGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAG
* *
5042701 TGCCAATAAGGAAATTCATAAACTTATTATGAATTTATTAGGTTGCACACATAG
1 TGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAG
*
5042755 TGCCAATACGGAAATTCATAAACTTATTATAAATTTCTTAGGTTGCACACATAG
1 TGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAG
5042809 TGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAG
1 TGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAG
*
5042863 TGCCAATGCGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAG
1 TGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAG
5042917 T
1 T
5042918 ACCTATTGGG
Statistics
Matches: 256, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 256 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (54 bp):
TGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAG
Found at i:5043389 original size:22 final size:20
Alignment explanation
Indices: 5043333--5043389 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
5043323 ATTCTAGATC
*
5043333 CATGGTATCGATACTTTTCT
1 CATGGTATCGATACTTTTAT
* *
5043353 CATTGTACCGATACTTTTAT
1 CATGGTATCGATACTTTTAT
5043373 ACTATGGTATCGATACT
1 -C-ATGGTATCGATACT
5043390 CCCTTTCAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 17 0.57
21 1 0.03
22 12 0.40
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (20 bp):
CATGGTATCGATACTTTTAT
Found at i:5043446 original size:94 final size:94
Alignment explanation
Indices: 5043267--5043461 Score: 225
Period size: 94 Copynumber: 2.1 Consensus size: 94
5043257 ACCATGGTAT
*
5043267 CGATACTTCTATACTATGGTACCAATACTCTCTTTCAATATCGATATCATTTCTACATTCTAGAT
1 CGATACTTCTATACTATGGTACCAATACTCCCTTTCAATATCGATATCATTTCTACATTCTAGAT
**
5043332 CCATGGTATCGATACTTTTCTCATT-GTAC
66 CCAAAGTATCGATACTTTTCT-ATTAGTAC
* * * * ** * *
5043361 CGATACTTTTATACTATGGTATCGATACTCCCTTTCAGTATCGATATTGTTT-TACCTTCTGGAT
1 CGATACTTCTATACTATGGTACCAATACTCCCTTTCAATATCGATATCATTTCTACATTCTAGA-
* *
5043425 TCCAAAGTATTGATA-TCTTTCTATTAGTAT
65 TCCAAAGTATCGATACT-TTTCTATTAGTAC
5043455 CGATACT
1 CGATACT
5043462 CACTTCAGTA
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
93 13 0.15
94 72 0.85
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (94 bp):
CGATACTTCTATACTATGGTACCAATACTCCCTTTCAATATCGATATCATTTCTACATTCTAGAT
CCAAAGTATCGATACTTTTCTATTAGTAC
Found at i:5043493 original size:20 final size:18
Alignment explanation
Indices: 5043447--5043498 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
5043437 ATATCTTTCT
5043447 ATTAGTATCGATACTCAC
1 ATTAGTATCGATACTCAC
*
5043465 -TTCAGTATCGATACTAGTAC
1 ATT-AGTATCGATACT--CAC
5043485 ATTAGTATCGATAC
1 ATTAGTATCGATAC
5043499 CATTCATCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 2 0.07
18 12 0.41
20 13 0.45
21 2 0.07
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (18 bp):
ATTAGTATCGATACTCAC
Found at i:5048734 original size:54 final size:54
Alignment explanation
Indices: 5048670--5048843 Score: 303
Period size: 54 Copynumber: 3.2 Consensus size: 54
5048660 GAGGTTTGGT
5048670 ACACATAGTGCCAATATGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGC
1 ACACATAGTGCCAATATGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGC
*
5048724 ACACATAGTGCCAATATGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGT
1 ACACATAGTGCCAATATGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGC
** *
5048778 ACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTAGGTTAC
1 ACACATAGTGCCAATATGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGC
*
5048832 GCACATAGTGCC
1 ACACATAGTGCC
5048844 TATTAGGTAA
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 114 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (54 bp):
ACACATAGTGCCAATATGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGC
Found at i:5055816 original size:14 final size:14
Alignment explanation
Indices: 5055797--5055823 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5055787 ATTGTCCCTA
5055797 TAGAGTGTTGGTTC
1 TAGAGTGTTGGTTC
5055811 TAGAGTGTTGGTT
1 TAGAGTGTTGGTT
5055824 TTATTTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.04, G:0.37, T:0.44
Consensus pattern (14 bp):
TAGAGTGTTGGTTC
Found at i:5061829 original size:2 final size:2
Alignment explanation
Indices: 5061781--5061811 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
5061771 TAGTGTTGTT
*
5061781 TA TA TC 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 TA TA T
5061812 CATGTTTTAG
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:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5067934 original size:31 final size:31
Alignment explanation
Indices: 5067896--5068018 Score: 144
Period size: 31 Copynumber: 4.0 Consensus size: 31
5067886 GAGTCGAGGG
* *
5067896 TTACCTATGTCTTTCGAGACATATGGACTAT
1 TTACCTATGTCTTTCGGGACATATGGACTGT
*
5067927 TTACCTATGT-TCTTCGGGGCATATGGACTGT
1 TTACCTATGTCT-TTCGGGACATATGGACTGT
*
5067958 TTACCTATGTTCTTT-GGGACATATGGATTGT
1 TTACCTATG-TCTTTCGGGACATATGGACTGT
* *
5067989 TTACCTATGT-TCTTCGGAATATATGGACTG
1 TTACCTATGTCT-TTCGGGACATATGGACTG
5068019 GTCTATCGGG
Statistics
Matches: 79, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.01
30 4 0.05
31 70 0.89
32 3 0.04
33 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (31 bp):
TTACCTATGTCTTTCGGGACATATGGACTGT
Found at i:5068013 original size:62 final size:62
Alignment explanation
Indices: 5067896--5068018 Score: 176
Period size: 62 Copynumber: 2.0 Consensus size: 62
5067886 GAGTCGAGGG
**
5067896 TTACCTATGTCTTTCGAGACATATGGACTATTTACCTATGTTCTTCGGGGCATATGGACTGT
1 TTACCTATGTCTTTCGAGACATATGGACTATTTACCTATGTTCTTCGGAACATATGGACTGT
* * * *
5067958 TTACCTATGTTCTTT-GGGACATATGGATTGTTTACCTATGTTCTTCGGAATATATGGACTG
1 TTACCTATG-TCTTTCGAGACATATGGACTATTTACCTATGTTCTTCGGAACATATGGACTG
5068019 GTCTATCGGG
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 49 0.91
63 5 0.09
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (62 bp):
TTACCTATGTCTTTCGAGACATATGGACTATTTACCTATGTTCTTCGGAACATATGGACTGT
Found at i:5068796 original size:20 final size:20
Alignment explanation
Indices: 5068773--5068811 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5068763 ATTACTGTTC
*
5068773 GCACAGTATCGGTACTATTT
1 GCACAGTATCGATACTATTT
* *
5068793 GCACATTATTGATACTATT
1 GCACAGTATCGATACTATT
5068812 CATACAGTAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (20 bp):
GCACAGTATCGATACTATTT
Found at i:5072328 original size:18 final size:18
Alignment explanation
Indices: 5072305--5072343 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
5072295 CTACCTAAAT
*
5072305 ATGACCATTTAGCCGCCC
1 ATGACCATTTAACCGCCC
5072323 ATGACCATTTAACCGCCC
1 ATGACCATTTAACCGCCC
5072341 ATG
1 ATG
5072344 TTTTGTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (18 bp):
ATGACCATTTAACCGCCC
Found at i:5076966 original size:18 final size:18
Alignment explanation
Indices: 5076943--5076981 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
5076933 CTACCTAAAT
*
5076943 ATGACCATTTAGCCGCCC
1 ATGACCATTTAACCGCCC
5076961 ATGACCATTTAACCGCCC
1 ATGACCATTTAACCGCCC
5076979 ATG
1 ATG
5076982 TTTTGTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (18 bp):
ATGACCATTTAACCGCCC
Found at i:5079854 original size:31 final size:31
Alignment explanation
Indices: 5079727--5079854 Score: 125
Period size: 31 Copynumber: 4.1 Consensus size: 31
5079717 AGAGTCGAGG
5079727 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* * *
5079758 GAATTACCTATG-TCTTTC-GAGATATATGGACA
1 G-TTTACCTATGTTC-TACGGA-ACATATGGACA
* * *
5079790 GTATACCTATGTTCTAAGGAACATATTGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* * * *
5079821 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
5079852 GTT
1 GTT
5079855 GTCGAGGTTT
Statistics
Matches: 76, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
31 50 0.66
32 26 0.34
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGGACA
Found at i:5083880 original size:31 final size:32
Alignment explanation
Indices: 5083809--5083915 Score: 103
Period size: 31 Copynumber: 3.4 Consensus size: 32
5083799 AGTCGAGGGT
5083809 TTACCTATGTTCTACGGAACATATGGACAAAA
1 TTACCTATGTTCTACGGAACATATGGACAAAA
* * **
5083841 TTACCTATG-TCTTTCGGGACATATGGACAGTA
1 TTACCTATGTTC-TACGGAACATATGGACAAAA
** **
5083873 -TACCTATGTTCTAAAGAACATATGGA-AAGT
1 TTACCTATGTTCTACGGAACATATGGACAAAA
*
5083903 TTACCTAGGTTCT
1 TTACCTATGTTCT
5083916 TCGGGACCTA
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
30 1 0.02
31 32 0.53
32 27 0.45
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (32 bp):
TTACCTATGTTCTACGGAACATATGGACAAAA
Found at i:5085471 original size:29 final size:30
Alignment explanation
Indices: 5085433--5085491 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
5085423 ATTAAAATTT
5085433 TAAAATTAT-ATTAAAACAAAAAAAATTCC
1 TAAAATTATAATTAAAACAAAAAAAATTCC
** *
5085462 TAAAATTATAATTAAATTAAAAAATATTCC
1 TAAAATTATAATTAAAACAAAAAAAATTCC
5085492 CTCTCCTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.32
Consensus pattern (30 bp):
TAAAATTATAATTAAAACAAAAAAAATTCC
Found at i:5094649 original size:25 final size:27
Alignment explanation
Indices: 5094616--5094679 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 27
5094606 ATATAGTAAC
5094616 TTAAAATATTTTTA-TATTAACTT-A-
1 TTAAAATATTTTTACTATTAACTTAAT
*
5094640 TT-AAATATATTGTACTATTAACTTAAT
1 TTAAAATAT-TTTTACTATTAACTTAAT
5094667 TTAAAAATATTTT
1 TT-AAAATATTTT
5094680 ATTTTCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
23 6 0.19
24 6 0.19
25 9 0.28
26 1 0.03
27 2 0.06
28 2 0.06
29 6 0.19
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (27 bp):
TTAAAATATTTTTACTATTAACTTAAT
Found at i:5095814 original size:31 final size:31
Alignment explanation
Indices: 5095779--5095861 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
5095769 TACCTATTTT
*
5095779 TTTTTGTTTCATTTTAGTAGCCGAC-ATTAAC
1 TTTTTGTTTCATTTTAGTACCCG-CTATTAAC
* *
5095810 TTTTTATTTCATTTTAGTACCCGCTGTTAAC
1 TTTTTGTTTCATTTTAGTACCCGCTATTAAC
*
5095841 TTTTTGTTCCATTTTAGTACC
1 TTTTTGTTTCATTTTAGTACC
5095862 TAAATTTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 1 0.02
31 45 0.98
ACGTcount: A:0.19, C:0.18, G:0.11, T:0.52
Consensus pattern (31 bp):
TTTTTGTTTCATTTTAGTACCCGCTATTAAC
Found at i:5096201 original size:27 final size:29
Alignment explanation
Indices: 5096141--5096215 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 29
5096131 TGTATAACCC
5096141 AAATCAAAATTATTAGGACTATGTTAAAAG
1 AAATCAAAATTATTAGGACTATGTT-AAAG
*
5096171 AAATCAAAATTATTAGGGCTATGTT-AA-
1 AAATCAAAATTATTAGGACTATGTTAAAG
5096198 AAATCAAAATTATTAGGA
1 AAATCAAAATTATTAGGA
5096216 TGCCCTTACA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 17 0.40
28 2 0.05
30 24 0.56
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.31
Consensus pattern (29 bp):
AAATCAAAATTATTAGGACTATGTTAAAG
Found at i:5101182 original size:195 final size:195
Alignment explanation
Indices: 5100842--5101233 Score: 642
Period size: 195 Copynumber: 2.0 Consensus size: 195
5100832 AAAAGTAAAT
* *
5100842 CTTTCAAAAATGACATTATTAGTTTCTTCCAAATCGTTGCTTCTATGCTCAATGAAGGAGAAGAA
1 CTTTCAAAAATGACATTATAAGTTTCTTCCAAATCGTTCCTTCTATGCTCAATGAAGGAGAAGAA
* * *
5100907 GAGCTACATTATTGAAAACAAGAAATTCTATCTCGAAATCGATTAATTCTAACGTAAATAATTCC
66 GAGCTACATTATTGAAAACAACAAATCCTATCTCGAAATAGATTAATTCTAACGTAAATAATTCC
* *
5100972 AACTGCCACCTGAAATGAAACCGATCAAGATA-TTAGTCAAATGAGTCACCAAAATCAAACAAAA
131 AACTGCCACCTGAAATGAAACAGATCAAGATACTTAATC-AATGAGTCACCAAAATCAAACAAAA
5101036 C
195 C
* * *
5101037 CTTTCAGAAATGACATTATAAGTTTCTTCCAAGTCGTTCCTTCTATGTTCAATGAAGGAGAAGAA
1 CTTTCAAAAATGACATTATAAGTTTCTTCCAAATCGTTCCTTCTATGCTCAATGAAGGAGAAGAA
5101102 GAGCTACATTATTGAAAACAACAAATCCTATCTCGAAATAGATTAATTCTAACGTAAATAATTCC
66 GAGCTACATTATTGAAAACAACAAATCCTATCTCGAAATAGATTAATTCTAACGTAAATAATTCC
* * * *
5101167 AACTGGCAGCTGAAATGAAACAGATCAAGATACTTAATCAATGAGTCACCTAAATCAGACAAAAC
131 AACTGCCACCTGAAATGAAACAGATCAAGATACTTAATCAATGAGTCACCAAAATCAAACAAAAC
5101232 CT
1 CT
5101234 GACGATCAAA
Statistics
Matches: 182, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
195 177 0.97
196 5 0.03
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (195 bp):
CTTTCAAAAATGACATTATAAGTTTCTTCCAAATCGTTCCTTCTATGCTCAATGAAGGAGAAGAA
GAGCTACATTATTGAAAACAACAAATCCTATCTCGAAATAGATTAATTCTAACGTAAATAATTCC
AACTGCCACCTGAAATGAAACAGATCAAGATACTTAATCAATGAGTCACCAAAATCAAACAAAAC
Found at i:5102427 original size:2 final size:2
Alignment explanation
Indices: 5102420--5102520 Score: 160
Period size: 2 Copynumber: 53.5 Consensus size: 2
5102410 TTTTAAAATA
5102420 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5102461 AT AT -T AT AT AT AT AT AT AT AT AT AT AT A- AT -T AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5102499 AT AT AT A- AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
5102521 AAAAACACAC
Statistics
Matches: 93, Mismatches: 0, Indels: 12
0.89 0.00 0.11
Matches are distributed among these distances:
1 6 0.06
2 87 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5102561 original size:22 final size:22
Alignment explanation
Indices: 5102535--5102579 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
5102525 ACACACAATT
5102535 TGAAATAAACCCAAAACTTACC
1 TGAAATAAACCCAAAACTTACC
5102557 TGAAATAAACCCAAAACTTACC
1 TGAAATAAACCCAAAACTTACC
5102579 T
1 T
5102580 TTATTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.27, G:0.04, T:0.20
Consensus pattern (22 bp):
TGAAATAAACCCAAAACTTACC
Found at i:5105476 original size:163 final size:163
Alignment explanation
Indices: 5105250--5105552 Score: 597
Period size: 163 Copynumber: 1.9 Consensus size: 163
5105240 ATGAATGCAA
5105250 GAAAATAGGTATAGTTGGCAACCTTTAGTATGTGAATATGTATTGTTATGTTCCTTTCTATGATA
1 GAAAATAGGTATAGTTGGCAACCTTTAGTATGTGAATATGTATTGTTATGTTCCTTTCTATGATA
*
5105315 TGATTTATGTGATGATGTGACTCCGTGATATAAGTTATATGAACATAAACTATGTAAATAATAAT
66 TGATTTATGTGATGATGTGACTCCGTGATAAAAGTTATATGAACATAAACTATGTAAATAATAAT
5105380 GACTTATGTATTGTTATGACTTATAAGTTATAT
131 GACTTATGTATTGTTATGACTTATAAGTTATAT
5105413 GAAAATAGGTATAGTTGGCAACCTTTAGTATGTGAATATGTATTGTTATGTTCCTTTCTATGATA
1 GAAAATAGGTATAGTTGGCAACCTTTAGTATGTGAATATGTATTGTTATGTTCCTTTCTATGATA
5105478 TGATTTATGTGATGATGTGACTCCGTGATAAAAGTTATATGAACATAAACTATGTAAATAATAAT
66 TGATTTATGTGATGATGTGACTCCGTGATAAAAGTTATATGAACATAAACTATGTAAATAATAAT
5105543 GACTTATGTA
131 GACTTATGTA
5105553 ATGACAAGAG
Statistics
Matches: 139, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 139 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (163 bp):
GAAAATAGGTATAGTTGGCAACCTTTAGTATGTGAATATGTATTGTTATGTTCCTTTCTATGATA
TGATTTATGTGATGATGTGACTCCGTGATAAAAGTTATATGAACATAAACTATGTAAATAATAAT
GACTTATGTATTGTTATGACTTATAAGTTATAT
Found at i:5105732 original size:73 final size:73
Alignment explanation
Indices: 5105642--5105791 Score: 291
Period size: 73 Copynumber: 2.1 Consensus size: 73
5105632 AGTAAACTAT
5105642 GTGACTATATGCACATGTGATATGTGACAGAAGAAAAGTAATATGTGATCATAAGAGCAATGAAA
1 GTGACTATATGCACATGTGATATGTGACAGAAGAAAAGTAATATGTGATCATAAGAGCAATGAAA
5105707 GTGTATAA
66 GTGTATAA
*
5105715 GTGACTATATGCGCATGTGATATGTGACAGAAGAAAAGTAATATGTGATCATAAGAGCAATGAAA
1 GTGACTATATGCACATGTGATATGTGACAGAAGAAAAGTAATATGTGATCATAAGAGCAATGAAA
5105780 GTGTATAA
66 GTGTATAA
5105788 GTGA
1 GTGA
5105792 AAATGCCCAT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.26
Consensus pattern (73 bp):
GTGACTATATGCACATGTGATATGTGACAGAAGAAAAGTAATATGTGATCATAAGAGCAATGAAA
GTGTATAA
Found at i:5105947 original size:30 final size:30
Alignment explanation
Indices: 5105902--5106004 Score: 170
Period size: 30 Copynumber: 3.4 Consensus size: 30
5105892 GGTTCTTCGG
* * *
5105902 GACCTATGGACAGTTACCAAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
5105932 GATCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
5105962 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
5105992 GACCTCTGGATAG
1 GACCTCTGGATAG
5106005 GTCTTTCGGG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:5107187 original size:19 final size:19
Alignment explanation
Indices: 5107163--5107211 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
5107153 AGAAGATATA
5107163 TGTTTATGTGATATAAAAG
1 TGTTTATGTGATATAAAAG
5107182 TGTTTATGTGATATAAAAG
1 TGTTTATGTGATATAAAAG
*
5107201 TGTATATGTGA
1 TGTTTATGTGA
5107212 AATGATATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (19 bp):
TGTTTATGTGATATAAAAG
Found at i:5109203 original size:64 final size:63
Alignment explanation
Indices: 5109108--5109244 Score: 170
Period size: 64 Copynumber: 2.2 Consensus size: 63
5109098 CACATTGAAT
* *
5109108 GTGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAAATGGTGCATCGATGCATAAGG-A
1 GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCAT-AGGTA
* * * * *
5109171 GTGCATCGATGCATCCCTTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCATAGGTA
1 GTGCATCGATGCA-CCCTTTAAAGAAG-AAACATCGAAGGCAAATGGTGCATCGATGCATAGGTA
5109235 GTGCATCGAT
1 GTGCATCGAT
5109245 ACACAAGTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
63 18 0.28
64 46 0.72
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCATAGGTA
Found at i:5109281 original size:20 final size:20
Alignment explanation
Indices: 5109256--5109293 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5109246 CACAAGTTAA
*
5109256 AGAATGGATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
5109276 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
5109294 TCAAGGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:5110039 original size:30 final size:30
Alignment explanation
Indices: 5109994--5110096 Score: 179
Period size: 30 Copynumber: 3.4 Consensus size: 30
5109984 GGTTCTTCGG
* *
5109994 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
5110024 GGCCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
5110054 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
5110084 GACCTCTGGATAG
1 GACCTCTGGATAG
5110097 GTCATTCGGG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.31
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:5118377 original size:106 final size:107
Alignment explanation
Indices: 5118192--5118405 Score: 421
Period size: 106 Copynumber: 2.0 Consensus size: 107
5118182 CTGCAACCGT
5118192 ATTGGGGGTAGAAAATGAAGGCAAAAATGTTGTAGAAGTCTGTAAGAGTAAGAATTAGAAATCAC
1 ATTGGGGGTAGAAAATGAAGGCAAAAATGTTGTAGAAGTCTGTAAGAGTAAGAATTAGAAATCAC
5118257 TTGCCTCCAAATATGGTTTGAAGCAGAATGTGACATAT-TTG
66 TTGCCTCCAAATATGGTTTGAAGCAGAATGTGACATATGTTG
5118298 ATTGGGGGTAGAAAATGAAGGCAAAAATGTTGTAGAAGTCTGTAAGAGTAAGAATTAGAAATCAC
1 ATTGGGGGTAGAAAATGAAGGCAAAAATGTTGTAGAAGTCTGTAAGAGTAAGAATTAGAAATCAC
5118363 TTGCCTCCAAATATGGTTTGAAGCAGAATGTGACATATGTTG
66 TTGCCTCCAAATATGGTTTGAAGCAGAATGTGACATATGTTG
5118405 A
1 A
5118406 ACTTGAAGAG
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
106 103 0.96
107 4 0.04
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.27
Consensus pattern (107 bp):
ATTGGGGGTAGAAAATGAAGGCAAAAATGTTGTAGAAGTCTGTAAGAGTAAGAATTAGAAATCAC
TTGCCTCCAAATATGGTTTGAAGCAGAATGTGACATATGTTG
Found at i:5119156 original size:21 final size:21
Alignment explanation
Indices: 5119132--5119178 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
5119122 AAGACAAACA
5119132 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
5119153 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
*
5119174 TGAGT
1 AGAGT
5119179 TAAAGATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.34, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:5119184 original size:21 final size:21
Alignment explanation
Indices: 5119132--5119184 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
5119122 AAGACAAACA
*
5119132 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
*
5119153 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
* *
5119174 TGAGTTAAAGA
1 AGAGTCAAAGA
5119185 TACACTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.43, C:0.08, G:0.32, T:0.17
Consensus pattern (21 bp):
AGAGTCAAAGAGAAACTTGAG
Found at i:5119267 original size:33 final size:33
Alignment explanation
Indices: 5119230--5119295 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
5119220 AAATATATGG
*
5119230 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
*
5119263 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
5119296 TCTTAAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:5121793 original size:200 final size:201
Alignment explanation
Indices: 5121368--5122104 Score: 1169
Period size: 200 Copynumber: 3.7 Consensus size: 201
5121358 GTAAAATTTA
* *
5121368 TCGATCCCAGAAACATATGCATCCTTAAGTATAATGTAATAGGTAAATTTACAATGTAACTGGTA
1 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
* * * *
5121433 TAAATATACCGGTTTTATAAGAGAATAGGTCTACAACATGTATTGACACTTTTTTAATTTTGTGT
66 TAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGTATCGACACGTTTTTAATTTTGTGT
* *
5121498 CGATACTTTTGGTCCATAATGGATGCTAAAAAGGGTGAACACATAAAGTGTCGATACATTTTCAA
131 CGATACTTTTGGTCCATAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
*
5121563 AAAGGG
196 AAAGTG
*
5121569 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATATAACCGGTA
1 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
5121634 TAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGTATCGACAC-TTTTTAATTTTGTGT
66 TAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGTATCGACACGTTTTTAATTTTGTGT
* *
5121698 CGATACTTTTAGTCCATAATAGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
131 CGATACTTTTGGTCCATAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
5121763 AAAGTG
196 AAAGTG
5121769 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
1 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
* * *
5121834 TAAATATACTGGTTTTATGAGAGAATAGGTCTACAACATGTATCGATAC-TTTTTAATTTTGTGT
66 TAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGTATCGACACGTTTTTAATTTTGTGT
** * * * *
5121898 CGATACTTTTGGTTTAGAATGGATTCCAAAAAGGGTGAACGCATAAAGTGTTGATATATTTTCAA
131 CGATACTTTTGGTCCATAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
5121963 AAAGTG
196 AAAGTG
* * * * * *
5121969 TCGATCCCTA-AAACAT-CGAAACCATAATTATAATGTAATAGATAAATTTTCAATGTAACCGGT
1 TCGATCCC-AGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGT
*
5122032 ATAAATATACC-AGTTTTATGAGAGAATAGGTCTACAACATGTATTGACACGTTTTTAATTTTGT
65 ATAAATATACCGA-TTTTATGAGAGAATAGGTCTACAACATGTATCGACACGTTTTTAATTTTGT
5122096 GTCGATACT
129 GTCGATACT
5122105 AATTTAAATA
Statistics
Matches: 500, Mismatches: 33, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
199 86 0.17
200 305 0.61
201 109 0.22
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (201 bp):
TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
TAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGTATCGACACGTTTTTAATTTTGTGT
CGATACTTTTGGTCCATAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
AAAGTG
Found at i:5123592 original size:12 final size:12
Alignment explanation
Indices: 5123575--5123620 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
5123565 CAAGCGGTCA
5123575 ATGAAGATGACG
1 ATGAAGATGACG
5123587 ATGAAGATGACG
1 ATGAAGATGACG
*
5123599 ATGCAGATGACG
1 ATGAAGATGACG
*
5123611 ATGATGATGA
1 ATGAAGATGA
5123621 TGATCCAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.39, C:0.09, G:0.33, T:0.20
Consensus pattern (12 bp):
ATGAAGATGACG
Found at i:5125350 original size:251 final size:252
Alignment explanation
Indices: 5124928--5125382 Score: 684
Period size: 251 Copynumber: 1.8 Consensus size: 252
5124918 TAACGACCCA
5124928 AAAAACATCGAAACTCATAATTATAATGTAATGGGTAATTTTTCAATATAACCGATATAAATATA
1 AAAAACATCGAAACTCATAATTATAATGTAATGGGTAATTTTTCAATATAACCGATATAAATATA
* * *
5124993 CCGGATTTATGAAAAATATGTCTACAACATTTATCGACACTTATTAGTATTGTGTCGATACTTTT
66 CCGGATTTATGAAAAATATGTCTACAACATGTATCGACACTTATTAATATTGTGTCGATAATTTT
* * *
5125058 TGTCCAGAACGGATGCCATAAAGGGGGGAACCTACAAAGTGTCGATACATTTTCATAGAGTGTCG
131 TGTCCAGAACGGATGCCATAAAAGGGGGAACCTACAAAGTGTCGATACATTTTCAAAAAGTGTCG
5125123 AT-CCAAAAGGGTTACACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATTCC
196 ATCCCAAAAGGGTTACACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATTCC
* * * *
5125179 AAAAACATCGAAACTCATAATTATAATGTAATGGGT-CTTTTTGTAATATAACCGGTATACATAT
1 AAAAACATCGAAACTCATAATTATAATGTAATGGGTAATTTTT-CAATATAACCGATATAAATAT
* * * * *
5125243 ACCGGTTTTATGAGAGAATATGTCTATAATATGTATCGACGCTTATTAATATTGTGTCGATAATT
65 ACCGGATTTATGA-AAAATATGTCTACAACATGTATCGACACTTATTAATATTGTGTCGATAATT
* * * *
5125308 TTTGTCCATAATGGATGCCA-AAAAGGGTGAACGC-ATAAAGTGTCGATACATTTTCAAAAAGTG
129 TTTGTCCAGAACGGATGCCATAAAAGGGGGAAC-CTACAAAGTGTCGATACATTTTCAAAAAGTG
5125371 TCGATCCCAAAA
193 TCGATCCCAAAA
5125383 ACATCAAAAC
Statistics
Matches: 181, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
250 5 0.03
251 107 0.59
252 69 0.38
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (252 bp):
AAAAACATCGAAACTCATAATTATAATGTAATGGGTAATTTTTCAATATAACCGATATAAATATA
CCGGATTTATGAAAAATATGTCTACAACATGTATCGACACTTATTAATATTGTGTCGATAATTTT
TGTCCAGAACGGATGCCATAAAAGGGGGAACCTACAAAGTGTCGATACATTTTCAAAAAGTGTCG
ATCCCAAAAGGGTTACACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATTCC
Found at i:5128309 original size:73 final size:73
Alignment explanation
Indices: 5128140--5128297 Score: 173
Period size: 73 Copynumber: 2.2 Consensus size: 73
5128130 AACAGGTCAA
* * * * *
5128140 CATAATGTATCGACACTTG-TGTAATTTGTGTCGATACTTATTGTCCAGGATGAATGCACAAACG
1 CATAAAGTATCGACACTTGAT-AAATTTGTGTCGATACTTATTGTCCAGAATGAATCCACAAAAG
*
5128204 AGGTGCACG
65 AGGTGAACG
* *
5128213 CATAACGTGTCGACACTTGATAAATTTGTGTCGATACTT-TTGGTCCAGAATGAATACCA-AAAA
1 CATAAAGTATCGACACTTGATAAATTTGTGTCGATACTTATT-GTCCAGAATGAAT-CCACAAAA
5128276 G-GGTGTAAC-
64 GAGGTG-AACG
5128285 CATAAAGTATCGA
1 CATAAAGTATCGA
5128298 TACATTTATA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
72 17 0.24
73 52 0.72
74 3 0.04
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (73 bp):
CATAAAGTATCGACACTTGATAAATTTGTGTCGATACTTATTGTCCAGAATGAATCCACAAAAGA
GGTGAACG
Found at i:5128727 original size:23 final size:23
Alignment explanation
Indices: 5128697--5128741 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
5128687 GGTTAAATGC
*
5128697 CTATTACATTATATAAGCGCTAT
1 CTATTACATTATATAAACGCTAT
5128720 CTATTACATTATATAAACGCTA
1 CTATTACATTATATAAACGCTA
5128742 CCTAATATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (23 bp):
CTATTACATTATATAAACGCTAT
Found at i:5128754 original size:23 final size:23
Alignment explanation
Indices: 5128696--5128748 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
5128686 CGGTTAAATG
* *
5128696 CCTATTACATTATATAAGCGCTA
1 CCTAATACATTATATAAACGCTA
* *
5128719 TCTATTACATTATATAAACGCTA
1 CCTAATACATTATATAAACGCTA
5128742 CCTAATA
1 CCTAATA
5128749 TGTTATTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.36
Consensus pattern (23 bp):
CCTAATACATTATATAAACGCTA
Found at i:5131042 original size:453 final size:454
Alignment explanation
Indices: 5130195--5131043 Score: 1400
Period size: 453 Copynumber: 1.9 Consensus size: 454
5130185 AAACATTTTG
5130195 TTGGGTTATGGGGTCCAGCGATCACCCTTAGGGATTCTATCGTATATGGGCGCGATATCAGGTGC
1 TTGGGTTATGGGGTCCAGCGATCACCCTTAGGGATTCTATCGTATATGGGCGCGATATCAGGTGC
* * *
5130260 TTGACAGCCCAACCTGCCGAGGCCCACGTGTGCCTTGCGAAGCCCCTATGCCCGCCCGCAGCACG
66 TTGACAACCCAACCTGCCGAGGCCCACGTATGCCTTGCGAAGCCCCTAGGCCCGCCCGCAGCACG
* * * *
5130325 CTATAAATGCGGGGCTCTGAAATGCTGTGGTGAATTGTGGGGGGTGTCCCACAAGAATCCACCTT
131 CTATAAATGCGAGGCTCTGAAATGCTGTGGTGAACTATGGGGGGTGCCCCACAAGAATCCACCTT
* * *
5130390 GACTTGGGGGAAAATCAGTGATCACCTGCTATAAAGATATGAGGTTAAAATAGTCTACCTACTTA
196 GACTTGGGGGAAAACCAGTGATCACCTGCTACAAAGATATGAGGTTAAAATAGTCCACCTACTTA
* *
5130455 TCACCAATTAGTTTTAAGAAGGAATGATGATCATTCGCTTCAGAACTTTGTAGTTAAGCGTGCTT
261 TCACCAATTAGTTTTAAAAAGGAATGATGATCATTCGCTTCAGAACTTTGTAATTAAGCGTGCTT
5130520 GAACTAGAGTAATCCAATGATGGGTGACCCACTAGGAAGTTATTCAGAAAATGAATGACTCGATC
326 GAACTAGAGTAATCCAATGATGGGTGACCCACTAGGAAGTTATTCAGAAAATGAATGACTCGATC
5130585 CTAACAACTGGTATCAGAACATGTTGTAGGTTTAAATCCCTCAAGTGTCACTAGGGGGTGATTA
391 CTAACAACTGGTATCAGAACATGTTGTAGGTTTAAATCCCTCAAGTGTCACTAGGGGGTGATTA
*
5130649 TTGGGTTATGGGGTCCAGCGATCACCCTTAGGGATTCTATCGTGTATGGGCGCGATATCAGGTGC
1 TTGGGTTATGGGGTCCAGCGATCACCCTTAGGGATTCTATCGTATATGGGCGCGATATCAGGTGC
* * *
5130714 TTGACAACCCAACCTGCCGAGGCCCATGTATGCCTTGCGAAGCCCCTAGGCTCGCCCGCAGCACT
66 TTGACAACCCAACCTGCCGAGGCCCACGTATGCCTTGCGAAGCCCCTAGGCCCGCCCGCAGCACG
* * * *
5130779 CTATAGATGTGAGGCTCTGCAATG-TCGTGGTGAACTAT-GGGGGTGCCCCACAAGAATCTACCT
131 CTATAAATGCGAGGCTCTGAAATGCT-GTGGTGAACTATGGGGGGTGCCCCACAAGAATCCACCT
* *
5130842 TGGCTTGGGGGAAAACCAGTGATCA-CTCGCTACAAAGATATGCGGTTAAAATAGTCCACCTACT
195 TGACTTGGGGGAAAACCAGTGATCACCT-GCTACAAAGATATGAGGTTAAAATAGTCCACCTACT
* *
5130906 TATCACCAATTGGTTTTAAAAAGGAATGGTGATCATTCGCTTC-GAAACTTTGTAATTAAGCGTG
259 TATCACCAATTAGTTTTAAAAAGGAATGATGATCATTCGCTTCAG-AACTTTGTAATTAAGCGTG
* * *
5130970 CTTGAACTAGAGTAATCCAATGATGGGTGACCCACTGGGAAGTTGTTCGGAAAATGAATGACTCG
323 CTTGAACTAGAGTAATCCAATGATGGGTGACCCACTAGGAAGTTATTCAGAAAATGAATGACTCG
5131035 ATCCTAACA
388 ATCCTAACA
5131044 CATTTTATAA
Statistics
Matches: 365, Mismatches: 27, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
452 3 0.01
453 209 0.57
454 153 0.42
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (454 bp):
TTGGGTTATGGGGTCCAGCGATCACCCTTAGGGATTCTATCGTATATGGGCGCGATATCAGGTGC
TTGACAACCCAACCTGCCGAGGCCCACGTATGCCTTGCGAAGCCCCTAGGCCCGCCCGCAGCACG
CTATAAATGCGAGGCTCTGAAATGCTGTGGTGAACTATGGGGGGTGCCCCACAAGAATCCACCTT
GACTTGGGGGAAAACCAGTGATCACCTGCTACAAAGATATGAGGTTAAAATAGTCCACCTACTTA
TCACCAATTAGTTTTAAAAAGGAATGATGATCATTCGCTTCAGAACTTTGTAATTAAGCGTGCTT
GAACTAGAGTAATCCAATGATGGGTGACCCACTAGGAAGTTATTCAGAAAATGAATGACTCGATC
CTAACAACTGGTATCAGAACATGTTGTAGGTTTAAATCCCTCAAGTGTCACTAGGGGGTGATTA
Found at i:5134669 original size:2 final size:2
Alignment explanation
Indices: 5134662--5134688 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5134652 AAATACATAT
5134662 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
5134689 TATATATATA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:5134957 original size:23 final size:23
Alignment explanation
Indices: 5134931--5134999 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
5134921 CACCACAACT
*
5134931 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
5134954 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
5134977 CATAGAATTGCACC-ATAGTGCCA
1 CGTAGAATTGCACCGA-AGTGCCA
5135000 TATAATAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:5135899 original size:20 final size:19
Alignment explanation
Indices: 5135835--5135929 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 19
5135825 AATGAAGGTA
*
5135835 TGCATCGATGCACTATACAG
1 TGCATCGATGCACT-TACTG
* *
5135855 TGTATCGATGCATCCTTAACGG
1 TGCATCGATGCA--CTT-ACTG
5135877 TGCATCGATGCACTTACTTG
1 TGCATCGATGCACTTAC-TG
*
5135897 TGCATTGATGCACTTACTTG
1 TGCATCGATGCACTTAC-TG
*
5135917 TGCATCGGTGCAC
1 TGCATCGATGCAC
5135930 AAAATACATT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
19 2 0.03
20 45 0.70
21 1 0.02
22 16 0.25
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (19 bp):
TGCATCGATGCACTTACTG
Found at i:5136004 original size:64 final size:63
Alignment explanation
Indices: 5135917--5136037 Score: 145
Period size: 64 Copynumber: 1.9 Consensus size: 63
5135907 CACTTACTTG
* *
5135917 TGCATCGGTGCACAAAATACATTCGATGTTT-TTATATCAAGGGAGTGCATCGATGCACGCCTTA
1 TGCATCGATGCACAAAATACATTCGATGTTTCTTAT-TCAAAGG-GTGCATCGATGCACGCCTTA
* * * * * *
5135981 TGCATCGATGCACTAATTGCATTCGGTGTTTCTTCTTTAAAGGGTGCATCGATGCAC
1 TGCATCGATGCACAAAATACATTCGATGTTTCTTATTCAAAGGGTGCATCGATGCAC
5136038 TTTGAATGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
63 14 0.29
64 31 0.65
65 3 0.06
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (63 bp):
TGCATCGATGCACAAAATACATTCGATGTTTCTTATTCAAAGGGTGCATCGATGCACGCCTTA
Found at i:5136528 original size:9 final size:9
Alignment explanation
Indices: 5136514--5136543 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
5136504 GAGCTTACGG
5136514 GGAGAAGAA
1 GGAGAAGAA
5136523 GGAGAAGAA
1 GGAGAAGAA
*
5136532 GAAGAAGAA
1 GGAGAAGAA
5136541 GGA
1 GGA
5136544 AATAAGCTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (9 bp):
GGAGAAGAA
Found at i:5138347 original size:2 final size:2
Alignment explanation
Indices: 5138340--5138391 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
5138330 TAAACTATTC
5138340 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5138382 AT AT AT AT AT
1 AT AT AT AT AT
5138392 TCTTTACAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5140685 original size:23 final size:23
Alignment explanation
Indices: 5140659--5140727 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
5140649 CACCACAGCT
* *
5140659 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTACACCGAAGTGCCA
*
5140682 CGTAGAATTACACC-AGAGTGCCG
1 CGTAGAATTACACCGA-AGTGCCA
* *
5140705 CATAGAATTACACCGTAGTGCCA
1 CGTAGAATTACACCGAAGTGCCA
5140728 TATAATAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 1 0.03
23 37 0.97
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (23 bp):
CGTAGAATTACACCGAAGTGCCA
Found at i:5141693 original size:64 final size:63
Alignment explanation
Indices: 5141603--5141745 Score: 157
Period size: 64 Copynumber: 2.2 Consensus size: 63
5141593 CATCCTTAAC
* * *
5141603 GGTGCATCGATACACTTA-CTTGTGCATCGGTGCACAAAATACATTCGATGTTT-TT-TTATCAA
1 GGTGCATCGATGCAC--ACCTTATGCATCGATGCACAAAATACATTCGATGTTTCTTCTT-T-AA
*
5141665 GG
62 AG
* * *
5141667 GAGTGCATCGATGCACACCTTATGCATCGATGCACTAATTGCATTCGATGTTTCTTCTTTAAAG
1 G-GTGCATCGATGCACACCTTATGCATCGATGCACAAAATACATTCGATGTTTCTTCTTTAAAG
5141731 GGTGCATCGATGCAC
1 GGTGCATCGATGCAC
5141746 TTTGAATGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
63 15 0.22
64 35 0.51
65 16 0.24
66 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (63 bp):
GGTGCATCGATGCACACCTTATGCATCGATGCACAAAATACATTCGATGTTTCTTCTTTAAAG
Found at i:5144347 original size:35 final size:34
Alignment explanation
Indices: 5144262--5144348 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 34
5144252 AATATAATTT
*
5144262 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
*
5144296 TAAATGATAA-ACAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACA-AAATTACAATAA--G-TATTAAATGG
5144334 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
5144349 ACCAAAATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
34 6 0.13
35 22 0.49
36 2 0.04
37 4 0.09
38 11 0.24
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:5150021 original size:24 final size:24
Alignment explanation
Indices: 5149989--5150035 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
5149979 GACTTGTTTG
5149989 AATATTTAATCCTTCTCTAATTAA
1 AATATTTAATCCTTCTCTAATTAA
* *
5150013 AATATTTAATCCTTTTGTAATTA
1 AATATTTAATCCTTCTCTAATTA
5150036 CAGGTCATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (24 bp):
AATATTTAATCCTTCTCTAATTAA
Found at i:5151626 original size:63 final size:63
Alignment explanation
Indices: 5151442--5151618 Score: 345
Period size: 63 Copynumber: 2.8 Consensus size: 63
5151432 AGGGAAATTA
*
5151442 AACCGATTTGGGGACCAAATTAAATGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
1 AACCGATTTGGGGACCAAATTGAATGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
5151505 AACCGATTTGGGGACCAAATTGAATGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
1 AACCGATTTGGGGACCAAATTGAATGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
5151568 AACCGATTTGGGGACCAAATTGAATGTTTTTCAAAACAGAGGGAGCCAAAA
1 AACCGATTTGGGGACCAAATTGAATGTTTTTCAAAACAGAGGGAGCCAAAA
5151619 CGCAGTTTGC
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 113 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (63 bp):
AACCGATTTGGGGACCAAATTGAATGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
Found at i:5152817 original size:20 final size:20
Alignment explanation
Indices: 5152794--5152835 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
5152784 GAATCCTTCG
*
5152794 TCGTGAAATTGAAATCAAAC
1 TCGTGAAACTGAAATCAAAC
* *
5152814 TCGTGAAGCTGAAATCGAAC
1 TCGTGAAACTGAAATCAAAC
5152834 TC
1 TC
5152836 AGAGTTCTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (20 bp):
TCGTGAAACTGAAATCAAAC
Found at i:5153277 original size:105 final size:105
Alignment explanation
Indices: 5152893--5153843 Score: 1652
Period size: 105 Copynumber: 9.0 Consensus size: 105
5152883 CGTTGTGGAG
* *
5152893 CTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
5152958 CTGGAGTCCAATATCCTTCGTCGTGACGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
5152998 CTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
5153063 TCTTGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCT
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
5153104 CTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
5153169 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
5153210 ATGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
5153275 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
5153315 CTGAAATTGAGAAGTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
5153380 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* * *
5153420 CTGTATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
5153485 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
5153525 CT-AACATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTT
1 CTGAA-ATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
5153589 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
64 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* * *
5153631 CTGACATTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
5153696 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
5153736 CTGACATTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
5153801 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
5153841 CTG
1 CTG
5153844 GGTAAAACCT
Statistics
Matches: 814, Mismatches: 28, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
104 1 0.00
105 512 0.63
106 300 0.37
107 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (105 bp):
CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
Found at i:5153546 original size:316 final size:314
Alignment explanation
Indices: 5152893--5153843 Score: 1661
Period size: 316 Copynumber: 3.0 Consensus size: 314
5152883 CGTTGTGGAG
* *
5152893 CTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
5152958 CTGGAGTCCAATATCCTTCGTCGTGACGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGA
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG-TGTTTGTTGA
* * * *
5153023 CAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGATGT
130 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGT
*
5153088 GAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
195 GAAGTTGAAATTGGCTCTG-AATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
5153153 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
258 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
5153210 ATGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
5153275 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTGTTTGTTGAC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTGTTTGTTGAC
5153340 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTG
131 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTG
*
5153405 AAGTTGAAATTGGCTCTGTATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
196 AAGTTGAAATTGGCTCTG-AATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
*
5153470 TTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
260 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
5153525 CT-AACATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTT
1 CTGAA-ATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
* * *
5153589 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGACATTGAGAAATATTTGTTG
64 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTGTTTGTTG
5153654 ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTG
129 ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTG
*
5153719 TGAAGTTGAAATTGGCTCTGACATTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
194 TGAAGTTGAAATTGGCTCTGA-ATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
5153784 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
258 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
5153841 CTG
1 CTG
5153844 GGTAAAACCT
Statistics
Matches: 606, Mismatches: 24, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
314 2 0.00
315 99 0.16
316 392 0.65
317 113 0.19
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (314 bp):
CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTGTTTGTTGAC
AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTG
AAGTTGAAATTGGCTCTGAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
Found at i:5153678 original size:421 final size:422
Alignment explanation
Indices: 5152893--5153843 Score: 1692
Period size: 421 Copynumber: 2.3 Consensus size: 422
5152883 CGTTGTGGAG
* *
5152893 CTGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * *
5152958 CTGGAGTCCAATATCCTTCGTCGTGACGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGA
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTGTTGA
* *
5153023 CAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGATGT
131 CAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGATGT
5153088 GAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
196 GAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
*
5153153 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAATTT
261 AGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAATTT
* *
5153218 GAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
326 GAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTC
5153283 CAATATCCTTCGTTGTGAAGTTGAAATTGGCT
391 CAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
5153315 CTGAAATTGAGAAGTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
5153380 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGTATTTGAGAA-ATGTTTGTTGA
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTGTTGA
* *
5153444 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGT
131 CAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGATGT
5153509 GAAGTTGAAATTGGCTCT-AACATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTG
196 GAAGTTGAAATTGGCTCTGAA-ATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTG
*
5153573 AAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGACA-
260 AAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGA-AT
5153637 TTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAG
324 TTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAG
5153702 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
389 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
5153736 CTGACATTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
5153801 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
5153844 GGTAAAACCT
Statistics
Matches: 506, Mismatches: 21, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
420 2 0.00
421 393 0.78
422 111 0.22
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (422 bp):
CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTGTTGA
CAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGATGT
GAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
AGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAATTT
GAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTC
CAATATCCTTCGTTGTGAAGTTGAAATTGGCT
Found at i:5154656 original size:1 final size:1
Alignment explanation
Indices: 5154650--5154675 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
5154640 ACCCTAAACG
5154650 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
5154676 CAACTTAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:5154690 original size:63 final size:63
Alignment explanation
Indices: 5154591--5154709 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 63
5154581 TTCTTTTCTC
* *
5154591 TTTTTTTTTTTTTTTTTTTTTTAATTTTAGGGCGCCCT-TCCGGGTTTTCACCCTAAACGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTAATCTTAGGACGCCCTCT-CGGGTTTTCACCCTAAACGTTTT
*
5154654 TTTTTTTTTTTTTTTTTTTTTTCAA-CTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTTTTTTTTTTTTTTTTTT-AATCTTAGGACGCCCTCTCGGGTTTTCACCCTAA
5154710 GCGAAGTATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
63 48 0.94
64 3 0.06
ACGTcount: A:0.12, C:0.18, G:0.12, T:0.58
Consensus pattern (63 bp):
TTTTTTTTTTTTTTTTTTTTTTAATCTTAGGACGCCCTCTCGGGTTTTCACCCTAAACGTTTT
Found at i:5165610 original size:68 final size:63
Alignment explanation
Indices: 5165484--5165610 Score: 191
Period size: 68 Copynumber: 1.9 Consensus size: 63
5165474 AGGGAAATTA
*
5165484 AACCGATTTGGGGACCAAATTAAATGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
1 AACCGATTTGGGGACCAAATTAAATGTTTTTCAAAACAGAGGGAGCCAAAACGAAGTTTACCC
*
5165547 AACCGATTTGGGGACCAAATTGAATTGAATGTTTTTCAAAACAGAGGGAGCCAAAACGCAGTTT
1 AACCGATTTGGGGACCAAATT--A---AATGTTTTTCAAAACAGAGGGAGCCAAAACGAAGTTT
5165611 GCCCCTTTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
63 21 0.37
65 1 0.02
68 35 0.61
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (63 bp):
AACCGATTTGGGGACCAAATTAAATGTTTTTCAAAACAGAGGGAGCCAAAACGAAGTTTACCC
Found at i:5167098 original size:57 final size:58
Alignment explanation
Indices: 5167006--5167115 Score: 179
Period size: 57 Copynumber: 1.9 Consensus size: 58
5166996 AGATTCGAAA
* *
5167006 ATCGCAACGCGATTTTCCAAATTCGCAACGTTAATTACCGA-TATAGGTAAACAGTACT
1 ATCGCAACGCGATTTTCCAAATTCACAACGCTAATTACCGACT-TAGGTAAACAGTACT
5167064 ATCGCAACGCGATTTT-CAAATTCACAACGCTAATTACCGACTTAGGTAAACA
1 ATCGCAACGCGATTTTCCAAATTCACAACGCTAATTACCGACTTAGGTAAACA
5167116 CTATAAATTC
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
57 32 0.65
58 17 0.35
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (58 bp):
ATCGCAACGCGATTTTCCAAATTCACAACGCTAATTACCGACTTAGGTAAACAGTACT
Found at i:5167602 original size:57 final size:57
Alignment explanation
Indices: 5167514--5167634 Score: 179
Period size: 57 Copynumber: 2.1 Consensus size: 57
5167504 CGAAATTCGA
** *
5167514 GTTGCGATAGTTGTGTTTACCTATATCGGTAATTAGGGTTGCGAATTTAAAAATCAC
1 GTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTAAAAATCAC
* * **
5167571 GTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGGATTTGAAAATTGC
1 GTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTAAAAATCAC
5167628 GTTGCGA
1 GTTGCGA
5167635 ATTTAGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (57 bp):
GTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTAAAAATCAC
Found at i:5167631 original size:20 final size:21
Alignment explanation
Indices: 5167601--5167652 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
5167591 CTATATCGGT
*
5167601 AATTAGCGTTGCGGATTT-GAA
1 AATT-GCGTTGCGAATTTAGAA
5167622 AATTGCGTTGCGAATTTAGAA
1 AATTGCGTTGCGAATTTAGAA
*
5167643 AATCGCGTTG
1 AATTGCGTTG
5167653 TAATTTTCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.33
Consensus pattern (21 bp):
AATTGCGTTGCGAATTTAGAA
Found at i:5167643 original size:21 final size:20
Alignment explanation
Indices: 5167601--5167720 Score: 75
Period size: 20 Copynumber: 5.9 Consensus size: 20
5167591 CTATATCGGT
*
5167601 AATTAGCGTTGCGGATTTGAA
1 AATT-GCGTTGCGAATTTGAA
5167622 AATTGCGTTGCGAATTTAGAA
1 AATTGCGTTGCGAATTT-GAA
* *
5167643 AATCGCGTTG-TAATTTTCG-A
1 AATTGCGTTGCGAA-TTT-GAA
* * *
5167663 AACTGAGTTGCGAATTTGGA
1 AATTGCGTTGCGAATTTGAA
* * * *
5167683 AACTGTGTTGCGAAATTG-G
1 AATTGCGTTGCGAATTTGAA
*
5167702 AGTTCGCGTTGCGAATTTG
1 AATT-GCGTTGCGAATTTG
5167721 TTGGTTATTT
Statistics
Matches: 79, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
19 3 0.04
20 54 0.68
21 22 0.28
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (20 bp):
AATTGCGTTGCGAATTTGAA
Found at i:5168841 original size:31 final size:31
Alignment explanation
Indices: 5168806--5168864 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
5168796 CATACCTAAA
* *
5168806 GTTTACTTTTTATTTTATTTTAGTACCCGAC
1 GTTTACTTTTTATTTCATTTTAATACCCGAC
* *
5168837 GTTTATTTTTTGTTTCATTTTAATACCC
1 GTTTACTTTTTATTTCATTTTAATACCC
5168865 CCATTGTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.19, C:0.15, G:0.08, T:0.58
Consensus pattern (31 bp):
GTTTACTTTTTATTTCATTTTAATACCCGAC
Found at i:5173691 original size:35 final size:37
Alignment explanation
Indices: 5173613--5173871 Score: 204
Period size: 37 Copynumber: 7.2 Consensus size: 37
5173603 AAATGTATGC
* * *
5173613 AATATATAATTCTT-AAAATATTTTTGAAAA-CTATAT
1 AATATATAGTT-TTGAAAACATTTTTGAAAATATATAT
*
5173649 AATATATAGCTTTT-AAAACATTTTAGAAAATATATAT
1 AATATATAG-TTTTGAAAACATTTTTGAAAATATATAT
* * * * *
5173686 AATATACAGTTTTTCAAATCA-ATTTGAAAACATATAT
1 AATATATAG-TTTTGAAAACATTTTTGAAAATATATAT
* *
5173723 AATATATAGTTTTGAAAATATTTTTGAAAATTTATAT
1 AATATATAGTTTTGAAAACATTTTTGAAAATATATAT
5173760 AATATATAGTTTTGAAAACA--TTT----ATATAT-T
1 AATATATAGTTTTGAAAACATTTTTGAAAATATATAT
* *
5173790 -ATAT-T-GTTTTTAAAAAAATATTTTGAAAATATATAT
1 AATATATAG-TTTTGAAAACAT-TTTTGAAAATATATAT
* * * * *
5173826 ATTATATAATTTTTTAAAATATTTTTGAAAATATGTAT
1 AATATAT-AGTTTTGAAAACATTTTTGAAAATATATAT
5173864 AATATATA
1 AATATATA
5173872 ATTTAAAAAA
Statistics
Matches: 179, Mismatches: 27, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
27 1 0.01
28 10 0.06
29 4 0.02
30 1 0.01
31 8 0.04
35 9 0.05
36 33 0.18
37 76 0.42
38 27 0.15
39 10 0.06
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.45
Consensus pattern (37 bp):
AATATATAGTTTTGAAAACATTTTTGAAAATATATAT
Found at i:5173792 original size:27 final size:26
Alignment explanation
Indices: 5173744--5173805 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 26
5173734 TTGAAAATAT
5173744 TTTTG-AAAATTTATATAATATATAG
1 TTTTGAAAAATTTATATAATATATAG
* *
5173769 TTTTGAAAACATTTATATATTATATTG
1 TTTTGAAAA-ATTTATATAATATATAG
*
5173796 TTTTTAAAAA
1 TTTTGAAAAA
5173806 AATATTTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.16
26 4 0.12
27 23 0.72
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (26 bp):
TTTTGAAAAATTTATATAATATATAG
Found at i:5173814 original size:41 final size:39
Alignment explanation
Indices: 5173769--5173917 Score: 140
Period size: 39 Copynumber: 3.8 Consensus size: 39
5173759 TAATATATAG
5173769 TTTTGAAAACATTTATATATTATATTGTTTTTAAAAAAATA
1 TTTTG-AAA-ATTTATATATTATATTGTTTTTAAAAAAATA
* ** * *
5173810 TTTTGAAAATATATATATTATATAATTTTTTAAAATAT-
1 TTTTGAAAATTTATATATTATATTGTTTTTAAAAAAATA
* * * ** **
5173848 TTTTGAAAATATGTATAATATATAATTTAAAAAAAAAACTA
1 TTTTGAAAATTTATATATTATATTGTTT-TTAAAAAAA-TA
5173889 TTTTGAAAATTTATATATTATA-TGTTTTT
1 TTTTGAAAATTTATATATTATATTGTTTTT
5173918 TTGAAAATAT
Statistics
Matches: 87, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
38 26 0.30
39 30 0.34
40 7 0.08
41 24 0.28
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (39 bp):
TTTTGAAAATTTATATATTATATTGTTTTTAAAAAAATA
Found at i:5173819 original size:66 final size:62
Alignment explanation
Indices: 5173708--5173838 Score: 163
Period size: 66 Copynumber: 2.0 Consensus size: 62
5173698 TTCAAATCAA
* * * *
5173708 TTTGAAAACATATATAATATATAGTTTTGAAAATATTTTTGAAAATTTATATAATATATAGT
1 TTTGAAAACATATATAATATATAGTTTTAAAAAAATTTTTGAAAATATATATAATATATAAT
* * *
5173770 TTTGAAAACATTTATATATTATATTGTTTTTAAAAAAATATTTTGAAAATATATATATTATATAA
1 TTTGAAAACA--TATATAATATATAG-TTTTAAAAAAAT-TTTTGAAAATATATATAATATATAA
5173835 T
62 T
5173836 TTT
1 TTT
5173839 TTAAAATATT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
62 10 0.17
64 12 0.21
65 10 0.17
66 26 0.45
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (62 bp):
TTTGAAAACATATATAATATATAGTTTTAAAAAAATTTTTGAAAATATATATAATATATAAT
Found at i:5173839 original size:39 final size:39
Alignment explanation
Indices: 5173782--5173911 Score: 154
Period size: 39 Copynumber: 3.3 Consensus size: 39
5173772 TGAAAACATT
**
5173782 TATATATTATATTGTTTTTAAAAAAATATTTTGAAAATA
1 TATATATTATATAATTTTTAAAAAAATATTTTGAAAATA
* *
5173821 TATATATTATATAATTTTTTAAAATAT-TTTTGAAAATA
1 TATATATTATATAATTTTTAAAAAAATATTTTGAAAATA
* * ** *
5173859 TGTATAATATATAATTTAAAAAAAAAACTATTTTGAAAATT
1 TATATATTATATAATTT-TTAAAAAAA-TATTTTGAAAATA
5173900 TATATATTATAT
1 TATATATTATAT
5173912 GTTTTTTTGA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
38 26 0.35
39 28 0.37
40 1 0.01
41 20 0.27
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.48
Consensus pattern (39 bp):
TATATATTATATAATTTTTAAAAAAATATTTTGAAAATA
Found at i:5173870 original size:38 final size:37
Alignment explanation
Indices: 5173804--5173930 Score: 119
Period size: 38 Copynumber: 3.3 Consensus size: 37
5173794 TGTTTTTAAA
*
5173804 AAAATATTTTGAAAATATATATATTATATAATTTTTT
1 AAAATATTTTGAAAATATATATAATATATAATTTTTT
* ***
5173841 AAAATATTTTTGAAAATATGTATAATATATAATTTAAAAAA
1 AAAATA-TTTTGAAAATATATATAATATATAATTT---TTT
* * **
5173882 AAAACTATTTTGAAAATTTATATATTATATGTTTTTTT
1 AAAA-TATTTTGAAAATATATATAATATATAATTTTTT
5173920 GAAAATATTTT
1 -AAAATATTTT
5173931 TATATATAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 11
0.75 0.14 0.12
Matches are distributed among these distances:
37 6 0.08
38 32 0.45
39 4 0.06
41 27 0.38
42 2 0.03
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.48
Consensus pattern (37 bp):
AAAATATTTTGAAAATATATATAATATATAATTTTTT
Found at i:5173982 original size:19 final size:21
Alignment explanation
Indices: 5173942--5173983 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
5173932 ATATATAATA
5173942 TATTATTTATCATTATTATCTT
1 TATTATTTAT-ATTATTATCTT
5173964 TATTATTTAT-TTATT-TCTT
1 TATTATTTATATTATTATCTT
5173983 T
1 T
5173984 TTGTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 5 0.25
22 10 0.50
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (21 bp):
TATTATTTATATTATTATCTT
Found at i:5175049 original size:2 final size:2
Alignment explanation
Indices: 5175042--5175066 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5175032 GTCACTAGTT
5175042 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 T
5175067 TATCTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5175304 original size:39 final size:38
Alignment explanation
Indices: 5175251--5175333 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 38
5175241 ATATTTCTCC
*
5175251 TATTTATCTTCATTTTATTT-TTATTTTCTTTATCTTATCT
1 TATTTATCTTCATTTGATTTATTA-TTT-TTTATCTTAT-T
*
5175291 TATTTAT-TTCATTTGCTTTAATTATTTTTTATCTTATT
1 TATTTATCTTCATTTGATTT-ATTATTTTTTATCTTATT
5175329 TATTT
1 TATTT
5175334 TCACTACTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
38 6 0.15
39 20 0.51
40 10 0.26
41 3 0.08
ACGTcount: A:0.19, C:0.10, G:0.01, T:0.70
Consensus pattern (38 bp):
TATTTATCTTCATTTGATTTATTATTTTTTATCTTATT
Found at i:5177597 original size:21 final size:21
Alignment explanation
Indices: 5177564--5177604 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5177554 GTAAAGAAGA
*
5177564 TGGAAGAGAAGATCAAGATGT
1 TGGAAGACAAGATCAAGATGT
* *
5177585 TGGAAGACCAGATGAAGATG
1 TGGAAGACAAGATCAAGATG
5177605 ATCAAAGGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.34, T:0.17
Consensus pattern (21 bp):
TGGAAGACAAGATCAAGATGT
Found at i:5180370 original size:26 final size:26
Alignment explanation
Indices: 5180354--5180441 Score: 142
Period size: 26 Copynumber: 3.4 Consensus size: 26
5180344 TATGATGTGT
5180354 ATAAATGGTAAGTATATGATTATGCG
1 ATAAATGGTAAGTATATGATTATGCG
*
5180380 ATAAAAGGTAAGTATATGATTATGCG
1 ATAAATGGTAAGTATATGATTATGCG
5180406 ATAAAAT-GTAAGTATATGATTATGCG
1 AT-AAATGGTAAGTATATGATTATGCG
*
5180432 ATAAAAGGTA
1 ATAAATGGTA
5180442 TTAATGATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
25 3 0.05
26 51 0.89
27 3 0.05
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (26 bp):
ATAAATGGTAAGTATATGATTATGCG
Found at i:5180938 original size:21 final size:21
Alignment explanation
Indices: 5180912--5180951 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5180902 TACGAAAGTT
* *
5180912 ACTGTAGCAGTGCATCGATGC
1 ACTGTAGCAATACATCGATGC
5180933 ACTGTAGCAATACATCGAT
1 ACTGTAGCAATACATCGAT
5180952 ACACAATTTA
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:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (21 bp):
ACTGTAGCAATACATCGATGC
Found at i:5182032 original size:90 final size:90
Alignment explanation
Indices: 5181911--5182079 Score: 234
Period size: 90 Copynumber: 1.9 Consensus size: 90
5181901 TATATATACA
* * * *
5181911 ATAAAGTTTGAGTTGTCCCACTAGAGAAATTGGTTAAACGCC-CTGTCTTTATGGATAATATTAA
1 ATAAAGCTTGAGCTGTCCCACTAGAGAAATTGGTTAAACGCCTC-GACTTTATGGATAAGATTAA
*
5181975 GCTGACCTGATAAAGGTGATTATATT
65 GCTAACCTGATAAAGGTGATTATATT
* * *
5182001 ATAAAGCTTGAGCTGTCCCTCTA-AGGCAATTGGTTAAACGCCTCGACTTTATGGATAAGATTCA
1 ATAAAGCTTGAGCTGTCCCACTAGA-GAAATTGGTTAAACGCCTCGACTTTATGGATAAGATTAA
5182065 GCTAACCTGATAAAG
65 GCTAACCTGATAAAG
5182080 ATGTTTACAT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
89 1 0.01
90 67 0.97
91 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (90 bp):
ATAAAGCTTGAGCTGTCCCACTAGAGAAATTGGTTAAACGCCTCGACTTTATGGATAAGATTAAG
CTAACCTGATAAAGGTGATTATATT
Found at i:5184033 original size:36 final size:36
Alignment explanation
Indices: 5183993--5184431 Score: 691
Period size: 36 Copynumber: 12.1 Consensus size: 36
5183983 CAAAACAAGG
* * *
5183993 TTTTGTGTCTCTTGAGACAATTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* *
5184029 TTTTGTCTCTCTTGAGATAGTTTTCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
5184065 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* *
5184101 TTTTATCTCTCTTGCGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* *
5184137 TTTTGTCTCTCTTAAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* *
5184173 TTTTGTCTCTTTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
5184209 TTGTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* *
5184245 TTGTGTCTCTCTTGAGACAGTTTCCTTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
5184281 TTTTGTCTCTCTTGAGAGAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
5184317 TTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
5184353 TTTTGTCTCTCTTGAGACAGTTTCACTTGAAACAAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
5184390 TTTT-TCTCTCTTGAGACAGTTTCCCTTGAAACACAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AA
5184426 TCTTTG
1 T-TTTG
5184432 AAATTGTTTC
Statistics
Matches: 372, Mismatches: 27, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
35 1 0.00
36 361 0.97
37 10 0.03
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:5184183 original size:19 final size:19
Alignment explanation
Indices: 5184126--5184183 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
5184116 GACAGTTTCC
5184126 CTTGAAACAAATTTTGTCT
1 CTTGAAACAAATTTTGTCT
* *
5184145 CTCTTAAGAC--A-GTT-TCT
1 CT-TGAA-ACAAATTTTGTCT
5184162 CTTGAAACAAATTTTGTCT
1 CTTGAAACAAATTTTGTCT
5184181 CTT
1 CTT
5184184 TTGAGACAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
15 2 0.07
16 3 0.10
17 6 0.21
18 4 0.14
19 9 0.31
20 3 0.10
21 2 0.07
ACGTcount: A:0.28, C:0.19, G:0.10, T:0.43
Consensus pattern (19 bp):
CTTGAAACAAATTTTGTCT
Found at i:5184440 original size:29 final size:30
Alignment explanation
Indices: 5184408--5184522 Score: 99
Period size: 34 Copynumber: 3.6 Consensus size: 30
5184398 TCTTGAGACA
* * *
5184408 GTTTCCCTTGAAACACAATC-TTTGAAATT
1 GTTTCTCTTGAAACACAAACATTTGAAATC
*
5184437 GTTTCTCTTAAAACACAAAAAACATTTGAAATC
1 GTTTCTCTTGAAACAC---AAACATTTGAAATC
*
5184470 GTTTCTCTTGAAACACACAAAAACCTTTGAAAAT-
1 GTTTCTCTTG-AA-ACAC--AAACATTTG-AAATC
5184504 GTTTCTCTTGAAACACAAA
1 GTTTCTCTTGAAACACAAA
5184523 GACCTTCGAG
Statistics
Matches: 73, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
29 14 0.19
30 3 0.04
32 7 0.10
33 19 0.26
34 22 0.30
35 8 0.11
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (30 bp):
GTTTCTCTTGAAACACAAACATTTGAAATC
Found at i:5184499 original size:34 final size:32
Alignment explanation
Indices: 5184427--5184522 Score: 138
Period size: 34 Copynumber: 2.9 Consensus size: 32
5184417 GAAACACAAT
*
5184427 CTTTGAAATTGTTTCTCTTAAAACACAAAAAAC
1 CTTTGAAA-TGTTTCTCTTGAAACACAAAAAAC
*
5184460 ATTTGAAATCGTTTCTCTTGAAACACACAAAAAC
1 CTTTGAAAT-GTTTCTCTTGAAACACA-AAAAAC
5184494 CTTTGAAAATGTTTCTCTTGAAACACAAA
1 CTTTG-AAATGTTTCTCTTGAAACACAAA
5184523 GACCTTCGAG
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
32 1 0.02
33 25 0.44
34 27 0.47
35 4 0.07
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (32 bp):
CTTTGAAATGTTTCTCTTGAAACACAAAAAAC
Found at i:5184671 original size:84 final size:84
Alignment explanation
Indices: 5184520--5185019 Score: 542
Period size: 84 Copynumber: 6.0 Consensus size: 84
5184510 CTTGAAACAC
* * *
5184520 AAAGACCTTCGAGTTCGACTACACTCAGCTCTGAGGGCACATCATTTACAGCATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACACTCAGCTC-CAAGGCACATCATTTACAGCATAACTCAAGGCG
5184585 AGAAGGGTTATCTGTCACCA
65 AGAAGGGTTATCTGTCACCA
* * * *
5184605 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTCAAGACTA
1 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGA
* *
5184670 GAAGGGTTATATGTAACCA
66 GAAGGGTTATCTGTCACCA
* * * * * * *
5184689 AAAGACCTTCGAGTTCGAATACGCTCAACTCCAAGGCATATCATTTGCAGCATAACTTAAGACGA
1 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGA
* *
5184754 GAATGGTTATCTGCTAACC-
66 GAAGGGTTATCTG-TCACCA
** * * * * * *
5184773 AAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGAATATCATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGA
5184838 GAAGGGTTATCTG---CC-
66 GAAGGGTTATCTGTCACCA
* * * * * * *
5184853 AAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAGCATAACTCAAGGCG
*
5184918 AGAAGGGTTATATGTCACCA
65 AGAAGGGTTATCTGTCACCA
* * * * * *
5184938 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACATCATAGCTCAAGGC
1 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATC--ATTTACAGCATAACTCAAGGC
* *
5185003 GAAAAGGGCTATCTGTC
64 GAGAAGGGTTATCTGTC
5185020 TACAAAGGTT
Statistics
Matches: 356, Mismatches: 51, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
80 26 0.07
81 38 0.11
84 199 0.56
85 61 0.17
86 32 0.09
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (84 bp):
AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGA
GAAGGGTTATCTGTCACCA
Found at i:5184976 original size:249 final size:251
Alignment explanation
Indices: 5184519--5184980 Score: 660
Period size: 249 Copynumber: 1.8 Consensus size: 251
5184509 TCTTGAAACA
* * *
5184519 CAAAGACCTTCGAGTTCGACTACACTCAGCTCTGAGGGCACATCATTTACAGCATAACTCAAGGC
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTCTCAAGGAACATCATTTACAGCATAACTCAAGGC
* * * *
5184584 TAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
66 GAGAAGGGTTATCTG--ACCAAAAGACCCTCAAGTTCGACTACACTCAGCTCCAAGGCACATCAT
*
5184649 TTACAACATAACTCAAGACTAGAAGGGTTATATGTAACCAAAAGACCTTCGAGTTCGAATACGCT
129 TTACAACATAACTCAAGACTAGAAGGGTTATATGTAACCAAAAGACCTTCGAGTTCGAATACACT
*
5184714 CAACTCCAAGGCATATCATTTGCAGCATAACTTAAGACGAGAATGGTTATCTGCTAAC
194 CAACTCAAAGGCATATCATTTGCAGCATAACTTAAGACGAGAATGGTTATCTGCTAAC
** * * * * *
5184772 CAAAGACCTTCGAGTTCGACTATGCTCAGCTC-CAAGGAATATCATTTGCAGCATAGCTTAAGTC
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTCTCAAGGAACATCATTTACAGCATAACTCAAGGC
* * *
5184836 GAGAAGGGTTATCTG-CC-AAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
66 GAGAAGGGTTATCTGACCAAAAGACCCTCAAGTTCGACTACACTCAGC-TCCAAGGCACATCATT
* * * *
5184899 TACAACATAACTCAAGGCTAGAAGGGTTATATGTCACCAAAAGACCTTCGAGTTCGATTACATTC
130 TACAACATAACTCAAGACTAGAAGGGTTATATGTAACCAAAAGACCTTCGAGTTCGAATACACTC
*
5184964 AGCTCAAAGGCATATCA
195 AACTCAAAGGCATATCA
5184981 AATTTACATC
Statistics
Matches: 184, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
248 25 0.14
249 91 0.49
252 38 0.21
253 30 0.16
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (251 bp):
CAAAGACCTTCGAGTTCGACTACACTCAGCTCTCAAGGAACATCATTTACAGCATAACTCAAGGC
GAGAAGGGTTATCTGACCAAAAGACCCTCAAGTTCGACTACACTCAGCTCCAAGGCACATCATTT
ACAACATAACTCAAGACTAGAAGGGTTATATGTAACCAAAAGACCTTCGAGTTCGAATACACTCA
ACTCAAAGGCATATCATTTGCAGCATAACTTAAGACGAGAATGGTTATCTGCTAAC
Found at i:5185794 original size:11 final size:11
Alignment explanation
Indices: 5185778--5185802 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5185768 TAATATATAG
5185778 TTTTGAAAACA
1 TTTTGAAAACA
5185789 TTTTGAAAACA
1 TTTTGAAAACA
5185800 TTT
1 TTT
5185803 ATATATATTA
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:5185872 original size:12 final size:12
Alignment explanation
Indices: 5185855--5185879 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5185845 TAATATATGG
5185855 TTTTTGAAAACA
1 TTTTTGAAAACA
5185867 TTTTTGAAAACA
1 TTTTTGAAAACA
5185879 T
1 T
5185880 ATATATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:5185882 original size:38 final size:38
Alignment explanation
Indices: 5185604--5185989 Score: 416
Period size: 37 Copynumber: 10.2 Consensus size: 38
5185594 TGAAAAAATA
*
5185604 ATTTTTGAAAATGTATATAATATATAGTTTTTG-AAAC
1 ATTTTTGAAAATATATATAATATATAGTTTTTGAAAAC
5185641 ATTTTT-AAAA-ACTATATAATATATAGTTTTT-AAAAC
1 ATTTTTGAAAATA-TATATAATATATAGTTTTTGAAAAC
* * *
5185677 ATTTTAGAAAATATATATAATATATAGTTTTTCAAATC
1 ATTTTTGAAAATATATATAATATATAGTTTTTGAAAAC
*
5185715 A-TTTTGAAAACATATATAATATATAG-TTTTGAAAAC
1 ATTTTTGAAAATATATATAATATATAGTTTTTGAAAAC
*
5185751 ATTTTTGAAAATTTATATAATATATAG-TTTTGAAAAC
1 ATTTTTGAAAATATATATAATATATAGTTTTTGAAAAC
* * ***
5185788 A-TTTTGAAAACATTTATATATATTATATGGTTTAAAAAAAC
1 ATTTTTG-AAA-A--TATATATAATATATAGTTTTTGAAAAC
*
5185829 A-TTTTGAAAATATATATAATATATGGTTTTTGAAAAC
1 ATTTTTGAAAATATATATAATATATAGTTTTTGAAAAC
* *
5185866 ATTTTTGAAAACATATATATATTATATAGTTTTTTAAAAC
1 ATTTTTG-AAA-ATATATATAATATATAGTTTTTGAAAAC
** *
5185906 ATTTTTGAAAATACGTATAATATATAGTTTTTAAAAAAACC
1 ATTTTTGAAAATATATATAATATATAGTTTTT--GAAAA-C
* * *
5185947 A-TTTTGAAAATTTATATATTATAT-GTTTTTTGAAAAT
1 ATTTTTGAAAATATATATAATATATAG-TTTTTGAAAAC
5185984 ATTTTT
1 ATTTTT
5185990 ATATATAATA
Statistics
Matches: 298, Mismatches: 32, Indels: 37
0.81 0.09 0.10
Matches are distributed among these distances:
36 46 0.15
37 114 0.38
38 39 0.13
39 8 0.03
40 76 0.26
41 15 0.05
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (38 bp):
ATTTTTGAAAATATATATAATATATAGTTTTTGAAAAC
Found at i:5192382 original size:24 final size:24
Alignment explanation
Indices: 5192355--5192426 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
5192345 AAACGGAGAT
*
5192355 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
5192379 ATCA-AATATCAGAACAGAATCCAC
1 ATCAGAA-ATCAGAACAGAATTCAG
* *
5192403 ATCAGAGATCAGAACAAAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
5192427 GTAATGTATC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
23 2 0.05
24 36 0.92
25 1 0.03
ACGTcount: A:0.51, C:0.19, G:0.12, T:0.17
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:5194943 original size:13 final size:13
Alignment explanation
Indices: 5194910--5194967 Score: 71
Period size: 13 Copynumber: 4.3 Consensus size: 13
5194900 GGTCAACGAT
*
5194910 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
5194925 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
5194938 GGTCAACAGGTCG
1 GGTCAACGGGTCG
*
5194951 GGTAAACGGGTCG
1 GGTCAACGGGTCG
5194964 GGTC
1 GGTC
5194968 GGGTTATGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
13 26 0.68
15 12 0.32
ACGTcount: A:0.21, C:0.22, G:0.41, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:5197081 original size:24 final size:24
Alignment explanation
Indices: 5197054--5197141 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
5197044 GATATCAAAA
*
5197054 ATCAAAACAGAATTCAGATCAGAT
1 ATCAGAACAGAATTCAGATCAGAT
* * * *
5197078 ATCAGAACAAAATCCACATCAGAA
1 ATCAGAACAGAATTCAGATCAGAT
* *
5197102 ATCAGAACAGAATTCAGGTAATG-T
1 ATCAGAACAGAATTCAGATCA-GAT
5197126 ATCAGAACAGAATTCA
1 ATCAGAACAGAATTCA
5197142 AGTCGGAAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
24 51 0.98
25 1 0.02
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.19
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGATCAGAT
Found at i:5197118 original size:12 final size:12
Alignment explanation
Indices: 5197059--5197118 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
5197049 CAAAAATCAA
5197059 AACAGAATTCAG
1 AACAGAATTCAG
*
5197071 ATCAG-ATATCAG
1 AACAGAAT-TCAG
* * *
5197083 AACAAAATCCAC
1 AACAGAATTCAG
* *
5197095 ATCAGAAATCAG
1 AACAGAATTCAG
5197107 AACAGAATTCAG
1 AACAGAATTCAG
5197119 GTAATGTATC
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
11 2 0.06
12 30 0.88
13 2 0.06
ACGTcount: A:0.50, C:0.20, G:0.13, T:0.17
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:5197153 original size:24 final size:24
Alignment explanation
Indices: 5197052--5197155 Score: 88
Period size: 24 Copynumber: 4.3 Consensus size: 24
5197042 GAGATATCAA
*
5197052 AAATCAAAACAGAATTC-AGATCAG
1 AAATCAGAACAGAATTCAAG-TCAG
* * *
5197076 ATATCAGAACAAAATCCACA-TCAG
1 AAATCAGAACAGAATTCA-AGTCAG
* *
5197100 AAATCAGAACAGAATTCAGGTAATG
1 AAATCAGAACAGAATTCAAGTCA-G
* *
5197125 -TATCAGAACAGAATTCAAGTCGG
1 AAATCAGAACAGAATTCAAGTCAG
5197148 AAATCAGA
1 AAATCAGA
5197156 TAAAATATTT
Statistics
Matches: 61, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
23 1 0.02
24 58 0.95
25 1 0.02
26 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.18
Consensus pattern (24 bp):
AAATCAGAACAGAATTCAAGTCAG
Found at i:5199654 original size:13 final size:13
Alignment explanation
Indices: 5199636--5199690 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
5199626 ACGGGCCAAC
5199636 GGTCAACGGGTCG
1 GGTCAACGGGTCG
5199649 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
5199662 GGTCAACAGGTCG
1 GGTCAACGGGTCG
* * *
5199675 CGTAAACGGGTTG
1 GGTCAACGGGTCG
5199688 GGT
1 GGT
5199691 TGGGTTATGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.18, C:0.20, G:0.44, T:0.18
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:5205288 original size:23 final size:23
Alignment explanation
Indices: 5205258--5205311 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
5205248 TAGATGTCCT
5205258 AAAGGACCACGTAAAATAATCCC
1 AAAGGACCACGTAAAATAATCCC
* **
5205281 AAAGGACCACGTAGAATTGTCCC
1 AAAGGACCACGTAAAATAATCCC
*
5205304 GAAGGACC
1 AAAGGACC
5205312 GTGTAGAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.41, C:0.26, G:0.20, T:0.13
Consensus pattern (23 bp):
AAAGGACCACGTAAAATAATCCC
Found at i:5205496 original size:44 final size:44
Alignment explanation
Indices: 5205395--5205497 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 44
5205385 CATAGACAAG
* * *
5205395 TAATCACGTAG-TTATGTCACATAGCTTATATCTTATGTTCATG
1 TAATCACATAGATCATGTCACATAGCTTATATCTTATGTTCATA
* *
5205438 TAATCACGTAGATCATGTCACGTAGCTTATATCTTAT-TCTCATA
1 TAATCACATAGATCATGTCACATAGCTTATATCTTATGT-TCATA
** *
5205482 TGTTCACATTGATCAT
1 TAATCACATAGATCAT
5205498 ATATCACATA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 12 0.24
44 39 0.76
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (44 bp):
TAATCACATAGATCATGTCACATAGCTTATATCTTATGTTCATA
Found at i:5207997 original size:44 final size:46
Alignment explanation
Indices: 5207947--5208038 Score: 143
Period size: 44 Copynumber: 2.0 Consensus size: 46
5207937 GGTAATCATG
* *
5207947 AAAATAAGCTTACGAGCTTAT-GGA-ATAATGGTTAGTATCTTGGT
1 AAAATAAGCTTACGAGCTTATGGGATAAAATGGTAAGTATCTTGGT
*
5207991 AAAATAAGCTTACGAGCTTATGGGATAAAATGGTAAGTATTTTGGT
1 AAAATAAGCTTACGAGCTTATGGGATAAAATGGTAAGTATCTTGGT
5208037 AA
1 AA
5208039 GAAATTTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 21 0.49
45 3 0.07
46 19 0.44
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.33
Consensus pattern (46 bp):
AAAATAAGCTTACGAGCTTATGGGATAAAATGGTAAGTATCTTGGT
Found at i:5210983 original size:2 final size:2
Alignment explanation
Indices: 5210976--5211013 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
5210966 AGAGCTTCTT
5210976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5211014 AATAAATCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5213804 original size:24 final size:24
Alignment explanation
Indices: 5213777--5213831 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
5213767 CACCACATCT
*
5213777 CGTATAAATTACACCGAAGTGCCA
1 CGTAGAAATTACACCGAAGTGCCA
*
5213801 CGTAGAAATTGCACCGAAGTGCCA
1 CGTAGAAATTACACCGAAGTGCCA
*
5213825 CATAGAA
1 CGTAGAA
5213832 TATCCCGAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (24 bp):
CGTAGAAATTACACCGAAGTGCCA
Found at i:5213881 original size:44 final size:46
Alignment explanation
Indices: 5213832--5213917 Score: 140
Period size: 44 Copynumber: 1.9 Consensus size: 46
5213822 CCACATAGAA
5213832 TATCCCGAAGGACCACATAG-A-TGTCCCGAAGGACCACGTAAAAT
1 TATCCCGAAGGACCACATAGAATTGTCCCGAAGGACCACGTAAAAT
* *
5213876 TATCCCGAAGGACCACGTAGAATTGTCCCGAAGGACCGCGTA
1 TATCCCGAAGGACCACATAGAATTGTCCCGAAGGACCACGTA
5213918 GAACCCTCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 19 0.50
45 1 0.03
46 18 0.47
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (46 bp):
TATCCCGAAGGACCACATAGAATTGTCCCGAAGGACCACGTAAAAT
Found at i:5213918 original size:23 final size:23
Alignment explanation
Indices: 5213790--5213920 Score: 130
Period size: 23 Copynumber: 5.8 Consensus size: 23
5213780 ATAAATTACA
5213790 CCGAAGTG-CCACGTAGAAATTG-C
1 CCGAAG-GACCACGTAG-AATTGTC
* *
5213813 ACCGAAGTG-CCACATAGAA-TATC
1 -CCGAAG-GACCACGTAGAATTGTC
*
5213836 CCGAAGGACCACATAG-A-TGTC
1 CCGAAGGACCACGTAGAATTGTC
* *
5213857 CCGAAGGACCACGTAAAATTATC
1 CCGAAGGACCACGTAGAATTGTC
5213880 CCGAAGGACCACGTAGAATTGTC
1 CCGAAGGACCACGTAGAATTGTC
*
5213903 CCGAAGGACCGCGTAGAA
1 CCGAAGGACCACGTAGAA
5213921 CCCTCGACTC
Statistics
Matches: 94, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.20
22 16 0.17
23 44 0.47
24 15 0.16
ACGTcount: A:0.34, C:0.27, G:0.24, T:0.15
Consensus pattern (23 bp):
CCGAAGGACCACGTAGAATTGTC
Found at i:5214419 original size:15 final size:17
Alignment explanation
Indices: 5214391--5214422 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
5214381 ATATCTTATT
5214391 ATCATATATCCACATAG
1 ATCATATATCCACATAG
5214408 ATCAT-TAT-CACATAG
1 ATCATATATCCACATAG
5214423 TATAACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (17 bp):
ATCATATATCCACATAG
Found at i:5218392 original size:3 final size:3
Alignment explanation
Indices: 5218384--5218454 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
5218374 TAATTGTTAA
5218384 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5218432 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
5218455 AAGTAGAATC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5222028 original size:15 final size:15
Alignment explanation
Indices: 5222010--5222040 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5222000 ATAATATTAT
5222010 AGAAGGAAATACTAC
1 AGAAGGAAATACTAC
*
5222025 AGAAGGAAATATTAC
1 AGAAGGAAATACTAC
5222040 A
1 A
5222041 TACTACTTTT
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:0.55, C:0.10, G:0.19, T:0.16
Consensus pattern (15 bp):
AGAAGGAAATACTAC
Found at i:5224167 original size:59 final size:59
Alignment explanation
Indices: 5224087--5224203 Score: 207
Period size: 59 Copynumber: 2.0 Consensus size: 59
5224077 CATAGTGAAA
*
5224087 TTCTTCTACCGTTGCCCGTGGTTTTTACCCTATATTATTTAGGGGTTTTCCACGTAAAC
1 TTCTTATACCGTTGCCCGTGGTTTTTACCCTATATTATTTAGGGGTTTTCCACGTAAAC
* *
5224146 TTCTTATATCGTTGCCTGTGGTTTTTACCCTATATTATTTAGGGGTTTTCCACGTAAA
1 TTCTTATACCGTTGCCCGTGGTTTTTACCCTATATTATTTAGGGGTTTTCCACGTAAA
5224204 ATTTGTGTCT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (59 bp):
TTCTTATACCGTTGCCCGTGGTTTTTACCCTATATTATTTAGGGGTTTTCCACGTAAAC
Found at i:5227961 original size:31 final size:31
Alignment explanation
Indices: 5227920--5227978 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
5227910 GTTAACAATG
5227920 GGGTACTAAAATGAAACAAAAAATAAACGCC
1 GGGTACTAAAATGAAACAAAAAATAAACGCC
* *
5227951 GGGTATTAAAATGAAACAAAAAGTAAAC
1 GGGTACTAAAATGAAACAAAAAATAAAC
5227979 TTTAGGCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.56, C:0.12, G:0.17, T:0.15
Consensus pattern (31 bp):
GGGTACTAAAATGAAACAAAAAATAAACGCC
Found at i:5229729 original size:20 final size:23
Alignment explanation
Indices: 5229689--5229734 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 23
5229679 TGCTTGAATG
5229689 ATGCACATGGTAGCCTACTTG-A
1 ATGCACATGGTAGCCTACTTGTA
*
5229711 ATGCACAT-GT-GCCTTCTTGTA
1 ATGCACATGGTAGCCTACTTGTA
5229732 ATG
1 ATG
5229735 ATTTGGTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 6 0.27
22 8 0.36
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (23 bp):
ATGCACATGGTAGCCTACTTGTA
Found at i:5229997 original size:20 final size:20
Alignment explanation
Indices: 5229972--5230019 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
5229962 TCCAACTAAG
5229972 TTCAGCTACATGCTAGCTCC
1 TTCAGCTACATGCTAGCTCC
5229992 TTCAGCTACATGCTAGCTCC
1 TTCAGCTACATGCTAGCTCC
*
5230012 TCCAGCTA
1 TTCAGCTA
5230020 AGTTGAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.29
Consensus pattern (20 bp):
TTCAGCTACATGCTAGCTCC
Found at i:5235292 original size:20 final size:20
Alignment explanation
Indices: 5235267--5235379 Score: 190
Period size: 20 Copynumber: 5.7 Consensus size: 20
5235257 TTTTCCTAAT
5235267 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
5235287 TCGCAATGCAAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
5235307 TCGCAATGTGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
5235327 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
5235347 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
5235367 TCGCAAAGCGAAT
1 TCGCAATGCGAAT
5235380 CTGACTATCG
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 86 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:5235389 original size:20 final size:20
Alignment explanation
Indices: 5235366--5235417 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
5235356 GAATACGTAA
*
5235366 ATCGCAAAGCGAATCTGACT
1 ATCGCAATGCGAATCTGACT
5235386 ATCGCAATGCGAATCTGACT
1 ATCGCAATGCGAATCTGACT
5235406 ATCGCAATGCGA
1 ATCGCAATGCGA
5235418 TTTACATAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAATCTGACT
Found at i:5235417 original size:60 final size:60
Alignment explanation
Indices: 5235267--5235399 Score: 205
Period size: 60 Copynumber: 2.2 Consensus size: 60
5235257 TTTTCCTAAT
* * *
5235267 TCGCAATGCGAATACGTAAATCGCAATGCAAATACGTAAATCGCAATGTGAATATGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAAAGCGAATATGTAAA
* *
5235327 TCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAAAGCGAATCTG-ACTA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAAAGCGAATATGTA-AA
5235387 TCGCAATGCGAAT
1 TCGCAATGCGAAT
5235400 CTGACTATCG
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
59 1 0.01
60 66 0.99
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (60 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAAAGCGAATATGTAAA
Found at i:5235623 original size:22 final size:22
Alignment explanation
Indices: 5235597--5235662 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
5235587 GGCGACATCC
*
5235597 GTCCCCATCTTCGACAAAATCA
1 GTCCCCATCTCCGACAAAATCA
* *
5235619 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACAAAATCA
* * *
5235641 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACAAAATCA
5235663 TTCACGGTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.26, C:0.38, G:0.14, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACAAAATCA
Found at i:5236060 original size:34 final size:34
Alignment explanation
Indices: 5236017--5236136 Score: 125
Period size: 34 Copynumber: 3.4 Consensus size: 34
5236007 CGATTTTCAT
5236017 TTCACGTTGCGATTCTTGCGTTGCGATAGTCAAA
1 TTCACGTTGCGATTCTTGCGTTGCGATAGTCAAA
* ** *
5236051 TTCACGTTGCGATAGTCATTTTCATGTTGCGATTTTC-AT
1 TTCACGTTGCGAT--TC--TTGC--GTTGCGATAGTCAAA
*
5236090 TTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAA
1 TTCACGTTGCGATTCTTGCGTTGCGATAGTCAAA
*
5236124 TTCGCGTTGCGAT
1 TTCACGTTGCGAT
5236137 AGTCATTTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
33 10 0.14
34 27 0.39
35 3 0.04
36 2 0.03
37 2 0.03
38 3 0.04
39 13 0.19
40 10 0.14
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.39
Consensus pattern (34 bp):
TTCACGTTGCGATTCTTGCGTTGCGATAGTCAAA
Found at i:5236123 original size:73 final size:73
Alignment explanation
Indices: 5236004--5236177 Score: 276
Period size: 73 Copynumber: 2.4 Consensus size: 73
5235994 GATTCTGTCA
*
5236004 TTGCGATTTTCATTTCACGTTGCGATTCTTGCGTTGCGATAGTCAAATTCACGTTGCGATAGTCA
1 TTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCACGTTGCGATAGTCA
5236069 TTTTCATG
66 TTTTCATG
*
5236077 TTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCA
1 TTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCACGTTGCGATAGTCA
**
5236142 TTTTTGTG
66 TTTTCATG
** *
5236150 TTGCGATAGTCATTTTCGTGTTGCGATT
1 TTGCGATTTTCA-TTTCGCGTTGCGATT
5236178 TTCATTTTCG
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 79 0.85
74 14 0.15
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.43
Consensus pattern (73 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCACGTTGCGATAGTCA
TTTTCATG
Found at i:5236173 original size:40 final size:40
Alignment explanation
Indices: 5236036--5236196 Score: 165
Period size: 40 Copynumber: 4.2 Consensus size: 40
5236026 CGATTCTTGC
* *
5236036 GTTGCGATAGTCAAATTCACGTTGCGATAGTCATTTTCAT
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGT
** * *
5236076 GTTGCGATTTTC-ATTTCGCGTTGCGAT--TC---TT-GC
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGT
*
5236109 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTTGT
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGT
** * **
5236149 GTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGT
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGT
5236189 GTTGCGAT
1 GTTGCGAT
5236197 TTTAAGTTTC
Statistics
Matches: 98, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
33 10 0.10
34 16 0.16
36 2 0.02
37 2 0.02
39 15 0.15
40 53 0.54
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.43
Consensus pattern (40 bp):
GTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGT
Found at i:5236199 original size:20 final size:20
Alignment explanation
Indices: 5236036--5236196 Score: 138
Period size: 20 Copynumber: 8.4 Consensus size: 20
5236026 CGATTCTTGC
** **
5236036 GTTGCGATAGTCAAATTCAC
1 GTTGCGATAGTCATTTTCGT
*
5236056 GTTGCGATAGTCATTTTCAT
1 GTTGCGATAGTCATTTTCGT
** *
5236076 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATAGTCATTTTCGT
*
5236095 GTTGCGAT--TC---TT-GC
1 GTTGCGATAGTCATTTTCGT
** *
5236109 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCATTTTCGT
*
5236129 GTTGCGATAGTCATTTTTGT
1 GTTGCGATAGTCATTTTCGT
5236149 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
5236169 GTTGCGATTTTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
5236189 GTTGCGAT
1 GTTGCGAT
5236197 TTTAAGTTTC
Statistics
Matches: 121, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
14 10 0.08
15 2 0.02
16 2 0.02
17 2 0.02
19 14 0.12
20 91 0.75
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.43
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:5236206 original size:20 final size:20
Alignment explanation
Indices: 5236163--5236206 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
5236153 CGATAGTCAT
* *
5236163 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
5236183 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
5236203 TTTC
1 TTTC
5236207 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:5238101 original size:20 final size:20
Alignment explanation
Indices: 5238076--5238126 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
5238066 AGAATAGTTT
*
5238076 ACTATCACAATGCGAAAATG
1 ACTATCACAACGCGAAAATG
*
5238096 ACTATCGCAACGCGAAAATG
1 ACTATCACAACGCGAAAATG
*
5238116 ACTATCGCAAC
1 ACTATCACAAC
5238127 AACAAAATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.18
Consensus pattern (20 bp):
ACTATCACAACGCGAAAATG
Found at i:5238133 original size:20 final size:20
Alignment explanation
Indices: 5238088--5238179 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
5238078 TATCACAATG
*
5238088 CGAAAATGACTATCGCAACG
1 CGAAAATGACTATCGCAACA
5238108 CGAAAATGACTATCGCAACA
1 CGAAAATGACTATCGCAACA
* *
5238128 --ACAA--A--ATCGCAACG
1 CGAAAATGACTATCGCAACA
**
5238142 C-AAAATGACTATCGCAATG
1 CGAAAATGACTATCGCAACA
**
5238161 CGAATTTGACTATCGCAAC
1 CGAAAATGACTATCGCAAC
5238180 GAAAGAATCG
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
14 8 0.14
15 3 0.05
16 1 0.02
17 1 0.02
18 3 0.05
19 9 0.16
20 33 0.57
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.17
Consensus pattern (20 bp):
CGAAAATGACTATCGCAACA
Found at i:5238171 original size:53 final size:53
Alignment explanation
Indices: 5238090--5238216 Score: 157
Period size: 53 Copynumber: 2.4 Consensus size: 53
5238080 TCACAATGCG
*
5238090 AAAATGACTATCGCAACGCGAAAATGACTATCGCAAC-AACAAAATCGCAACGC
1 AAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAA-AAAATCGCAACGC
** * *
5238143 AAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAAAGAATCGCAATGC
1 AAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAAAATCGCAACGC
* ** *
5238196 GAAATGAAAATCGCATTGCGA
1 AAAATGACTATCGCAATGCGA
5238217 TTCTCTCGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 62 0.97
54 2 0.03
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.17
Consensus pattern (53 bp):
AAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAAAATCGCAACGC
Found at i:5238209 original size:19 final size:19
Alignment explanation
Indices: 5238130--5238216 Score: 58
Period size: 19 Copynumber: 4.8 Consensus size: 19
5238120 TCGCAACAAC
* *
5238130 AAAATCGCAACGCAAAATG
1 AAAATCGCAATGCGAAATG
** *
5238149 ACTATCGCAATGCGAATTTG
1 AAAATCGCAATGCGAA-ATG
**
5238169 ACTATCGCAA--CGAAA-G
1 AAAATCGCAATGCGAAATG
5238185 --AATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
*
5238202 AAAATCGCATTGCGA
1 AAAATCGCAATGCGA
5238217 TTCTCTCGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
14 7 0.13
16 6 0.11
17 1 0.02
18 4 0.07
19 24 0.44
20 12 0.22
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:5238250 original size:20 final size:20
Alignment explanation
Indices: 5238225--5238487 Score: 201
Period size: 20 Copynumber: 13.3 Consensus size: 20
5238215 GATTCTCTCG
*
5238225 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAATTTCGCA
* *
5238245 TTGCGATAGTCATTTTCCCA
1 TTGCGATAGTCAATTTCGCA
* * *
5238265 TTGCGATAGTTATTTTCGCG
1 TTGCGATAGTCAATTTCGCA
*
5238285 TTGCGATAGTC-ATTGTCGCG
1 TTGCGATAGTCAATT-TCGCA
*
5238305 TTGCGATAGTCATTTTCGCGCA
1 TTGCGATAGTCAATTT--CGCA
*
5238327 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCAATTTCGCA
5238341 TTGCGATAGTCAAATTT-GCA
1 TTGCGATAGTC-AATTTCGCA
* *
5238361 TTACGATAGTCAAATTCGCA
1 TTGCGATAGTCAATTTCGCA
5238381 TTGCGATAGTC-ATTTC-CA
1 TTGCGATAGTCAATTTCGCA
*
5238399 CGTTGCGATAGTC-ATTTCTGCG
1 --TTGCGATAGTCAATTTC-GCA
*
5238421 TTGCGATAGTC-ATTTCCGCG
1 TTGCGATAGTCAATTT-CGCA
**
5238441 TTGCGATAGTC-ATTTCTGTG
1 TTGCGATAGTCAATTTC-GCA
* *
5238461 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAATTTCGCA
5238481 TTGCGAT
1 TTGCGAT
5238488 TTTAAGTTTC
Statistics
Matches: 204, Mismatches: 20, Indels: 38
0.78 0.08 0.15
Matches are distributed among these distances:
14 7 0.03
16 4 0.02
18 5 0.02
19 13 0.06
20 157 0.77
21 7 0.03
22 11 0.05
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCAATTTCGCA
Done.