Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold49
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: 1668912
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 42860 characters in sequence are not A, C, G, or T
File 5 of 9
Found at i:735806 original size:20 final size:21
Alignment explanation
Indices: 735759--735809 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
735749 GCCAATGACC
**
735759 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
735780 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
735800 TGTATCGATA
1 TGTATCGATA
735810 TAATGTATCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:735817 original size:13 final size:13
Alignment explanation
Indices: 735799--735829 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
735789 ACATTTGGTC
*
735799 ATGTATCGATATA
1 ATGTATCGATACA
735812 ATGTATCGATACA
1 ATGTATCGATACA
735825 ATGTA
1 ATGTA
735830 ATCTGTATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:736485 original size:31 final size:31
Alignment explanation
Indices: 736447--736510 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
736437 TTTTAATCAC
736447 ATATTTCTTACTCCCCATTAATCATAAATTT
1 ATATTTCTTACTCCCCATTAATCATAAATTT
*
736478 ATATTTCTTACTCCCCCTTAATCATAAATTT
1 ATATTTCTTACTCCCCATTAATCATAAATTT
736509 AT
1 AT
736511 TTGCAAAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.45
Consensus pattern (31 bp):
ATATTTCTTACTCCCCATTAATCATAAATTT
Found at i:738164 original size:20 final size:21
Alignment explanation
Indices: 738135--738175 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
738125 TGTTTTTGAT
738135 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
738154 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
738176 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:744501 original size:13 final size:13
Alignment explanation
Indices: 744483--744507 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
744473 CATTTTATAG
744483 TGTATCGATACAA
1 TGTATCGATACAA
744496 TGTATCGATACA
1 TGTATCGATACA
744508 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:744523 original size:32 final size:33
Alignment explanation
Indices: 744460--744527 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
744450 CGTTACAAGC
**
744460 CAATGTATCGATACATTTTATAGTGTATCGATA
1 CAATGTATCGATACATACTATAGTGTATCGATA
*
744493 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATAGTGTATCGATA
744525 CAA
1 CAA
744528 GTTTGACTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATAGTGTATCGATA
Found at i:744606 original size:20 final size:21
Alignment explanation
Indices: 744559--744611 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
744549 GCCAATGACC
**
744559 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
744580 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
744600 TGTATCGATACA
1 TGTATCGATACA
744612 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:744617 original size:13 final size:13
Alignment explanation
Indices: 744599--744623 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
744589 ACATTTGGTC
744599 ATGTATCGATACA
1 ATGTATCGATACA
744612 ATGTATCGATAC
1 ATGTATCGATAC
744624 TGTGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:751232 original size:20 final size:20
Alignment explanation
Indices: 751207--751257 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
751197 ACCCTGAAAA
751207 GTATCGATACACATTTA-AAT
1 GTATCGATACACA-TTACAAT
* *
751227 GTATCGATACAGATTACATT
1 GTATCGATACACATTACAAT
751247 GTATCGATACA
1 GTATCGATACA
751258 TTATATCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (20 bp):
GTATCGATACACATTACAAT
Found at i:751259 original size:13 final size:13
Alignment explanation
Indices: 751241--751271 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
751231 CGATACAGAT
*
751241 TACATTGTATCGA
1 TACATTATATCGA
751254 TACATTATATCGA
1 TACATTATATCGA
751267 TACAT
1 TACAT
751272 GACCAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (13 bp):
TACATTATATCGA
Found at i:751286 original size:20 final size:21
Alignment explanation
Indices: 751261--751311 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
751251 CGATACATTA
**
751261 TATCGATACATGACCAA-ATG
1 TATCGATACATGAAAAAGATG
*
751281 TATCGATACTTGAAAAAGATG
1 TATCGATACATGAAAAAGATG
751302 TATCGATACA
1 TATCGATACA
751312 GGTCATTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (21 bp):
TATCGATACATGAAAAAGATG
Found at i:752710 original size:56 final size:55
Alignment explanation
Indices: 752636--752781 Score: 145
Period size: 56 Copynumber: 2.6 Consensus size: 55
752626 TTCATTGGAT
*
752636 TTAACCTTGCCTA-CTACATCTTAGGCTTTTTCATTTAAATGATAATTTT-ACAAGAC
1 TTAA-CTTG-CTAGCTACATCTTAGGCTTTTTCATTTAAATGACAATTTTAAC-AGAC
** *
752692 TTAATCTTGCTAGCTACATCTTAGGCTTTCTT-ATTTAGGTGCCAATTTTAACAGAC
1 TTAA-CTTGCTAGCTACATCTTAGGCTTT-TTCATTTAAATGACAATTTTAACAGAC
* * * *
752748 TTCACTTTTCTAGCTACATCTTAGACCTTTTCAT
1 TTAAC-TTGCTAGCTACATCTTAGGCTTTTTCAT
752782 CTTGGTATCA
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
55 6 0.08
56 66 0.87
57 4 0.05
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.42
Consensus pattern (55 bp):
TTAACTTGCTAGCTACATCTTAGGCTTTTTCATTTAAATGACAATTTTAACAGAC
Found at i:754621 original size:21 final size:22
Alignment explanation
Indices: 754597--754654 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
754587 TATCTTTTAT
754597 TTTTTCACTTTTT-A-TTTCTTC
1 TTTTTCA-TTTTTCATTTTCTTC
*
754618 TTTTTCATTTTTCATTTTTTTC
1 TTTTTCATTTTTCATTTTCTTC
*
754640 -TTTTCTTTTTTCATT
1 TTTTTCATTTTTCATT
754655 GCGAAAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.15
21 22 0.67
22 6 0.18
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTTCATTTTTCATTTTCTTC
Found at i:754628 original size:28 final size:28
Alignment explanation
Indices: 754597--754654 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
754587 TATCTTTTAT
754597 TTTTTCACTTTTTATT-TCTTC-TTTTTCA
1 TTTTTCA-TTTTT-TTCTCTTCTTTTTTCA
*
754625 TTTTTCATTTTTTTCTTTTCTTTTTTCA
1 TTTTTCATTTTTTTCTCTTCTTTTTTCA
754653 TT
1 TT
754655 GCGAAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 2 0.07
27 9 0.33
28 16 0.59
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.76
Consensus pattern (28 bp):
TTTTTCATTTTTTTCTCTTCTTTTTTCA
Found at i:754635 original size:6 final size:7
Alignment explanation
Indices: 754597--754654 Score: 50
Period size: 7 Copynumber: 8.3 Consensus size: 7
754587 TATCTTTTAT
754597 TTTTTCA
1 TTTTTCA
754604 CTTTTT-A
1 -TTTTTCA
754611 TTTCTTC-
1 TTT-TTCA
754618 TTTTTCA
1 TTTTTCA
754625 TTTTTCA
1 TTTTTCA
*
754632 TTTTT-T
1 TTTTTCA
*
754638 TCTTTTCT
1 T-TTTTCA
754646 TTTTTCA
1 TTTTTCA
754653 TT
1 TT
754655 GCGAAAGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
6 7 0.16
7 29 0.67
8 7 0.16
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:762775 original size:12 final size:12
Alignment explanation
Indices: 762770--762803 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
762760 TTTTTTTTCA
762770 ATTTTTCAATGT
1 ATTTTTCAATGT
762782 ATTTTTCAATGT
1 ATTTTTCAATGT
762794 ATTTTTCAAT
1 ATTTTTCAAT
762804 TTTATTCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (12 bp):
ATTTTTCAATGT
Found at i:763108 original size:19 final size:20
Alignment explanation
Indices: 763064--763113 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
763054 ACACCTAGAT
*
763064 GTATCGATATATATTGCTTA
1 GTATCGATACATATTGCTTA
* *
763084 GTATCGATACATGTT-CTTG
1 GTATCGATACATATTGCTTA
763103 GTATCGATACA
1 GTATCGATACA
763114 CACTGAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:766173 original size:32 final size:33
Alignment explanation
Indices: 766114--766175 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
766104 CAAGCCAATG
*
766114 TATCGATACATTTTGGGATGTATCGATACATTA
1 TATCGATACATCTTGGGATGTATCGATACATTA
*
766147 TATCGATACATCTTGTG-TGTATCGATACA
1 TATCGATACATCTTGGGATGTATCGATACA
766176 AACAGTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (33 bp):
TATCGATACATCTTGGGATGTATCGATACATTA
Found at i:766264 original size:20 final size:21
Alignment explanation
Indices: 766217--766267 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
766207 GCCAATGACC
**
766217 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTAGTCA
*
766238 AGTATCGATACATT-TAGTCA
1 TGTATCGATACATTCTAGTCA
766258 TGTATCGATA
1 TGTATCGATA
766268 TAATGTATCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (21 bp):
TGTATCGATACATTCTAGTCA
Found at i:766864 original size:22 final size:22
Alignment explanation
Indices: 766837--766881 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
766827 TTTTCTTTTC
766837 TCTCCCCCTTAATCAAAA-AATT
1 TCTCCCCCTTAAT-AAAATAATT
766859 TCTCCCCCTTAATAAAATAATT
1 TCTCCCCCTTAATAAAATAATT
766881 T
1 T
766882 AACAATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAATAATT
Found at i:766979 original size:50 final size:47
Alignment explanation
Indices: 766848--766943 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
766838 CTCCCCCTTA
*
766848 ATCAAAAAATTTCTCCCCCTTAATAAAATAATTTAACAATTTCGCAT
1 ATCAAAAAATTTCTCCCCCTTAATAAAATAATTTAACAATTTCGCAC
*
766895 ATCAAAAAATTTCTCCCCCTTAATAAAATAATTTAACAATTTTGCAC
1 ATCAAAAAATTTCTCCCCCTTAATAAAATAATTTAACAATTTCGCAC
766942 AT
1 AT
766944 TAACAATTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.34
Consensus pattern (47 bp):
ATCAAAAAATTTCTCCCCCTTAATAAAATAATTTAACAATTTCGCAC
Found at i:768808 original size:13 final size:13
Alignment explanation
Indices: 768790--768814 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
768780 ATAAACCCTT
768790 TGTATCGATACAC
1 TGTATCGATACAC
768803 TGTATCGATACA
1 TGTATCGATACA
768815 GAGAATGCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:769030 original size:8 final size:8
Alignment explanation
Indices: 769012--769042 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
769002 TTTTCAACAT
769012 CAAACATCA
1 CAAA-ATCA
769021 CAAAATCA
1 CAAAATCA
769029 CAAAATCA
1 CAAAATCA
769037 CAAAAT
1 CAAAAT
769043 TTAATCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.61, C:0.26, G:0.00, T:0.13
Consensus pattern (8 bp):
CAAAATCA
Found at i:774749 original size:33 final size:32
Alignment explanation
Indices: 774707--774768 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
774697 CAAGCCAATG
*
774707 TATCGATACATTTTGGGATGTATCAATACATTA
1 TATCGATACATCTTGGG-TGTATCAATACATTA
* *
774740 TATCGATACATCTTGTGTGTATCGATACA
1 TATCGATACATCTTGGGTGTATCAATACA
774769 AACAGTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.42
33 15 0.58
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.39
Consensus pattern (32 bp):
TATCGATACATCTTGGGTGTATCAATACATTA
Found at i:774868 original size:13 final size:13
Alignment explanation
Indices: 774850--774874 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
774840 ATATTTGGTC
774850 ATGTATCGATACA
1 ATGTATCGATACA
774863 ATGTATCGATAC
1 ATGTATCGATAC
774875 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:775872 original size:15 final size:17
Alignment explanation
Indices: 775852--775883 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
775842 ATAACTTTAG
775852 CTCCCT-ATT-TTCTTC
1 CTCCCTGATTCTTCTTC
775867 CTCCCTGATTCTTCTTC
1 CTCCCTGATTCTTCTTC
775884 TTTACCAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.06, C:0.41, G:0.03, T:0.50
Consensus pattern (17 bp):
CTCCCTGATTCTTCTTC
Found at i:784760 original size:17 final size:18
Alignment explanation
Indices: 784730--784778 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 18
784720 CAAAAACTAG
*
784730 AAAATATAAGAAATTGAAA
1 AAAATATAAGAAA-TAAAA
784749 AAAATAT-A-AAATAAAA
1 AAAATATAAGAAATAAAA
*
784765 AAAAT-GAAGAAATA
1 AAAATATAAGAAATA
784779 GCTTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 10 0.38
17 8 0.31
18 1 0.04
19 7 0.27
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.18
Consensus pattern (18 bp):
AAAATATAAGAAATAAAA
Found at i:787003 original size:6 final size:6
Alignment explanation
Indices: 786961--787097 Score: 51
Period size: 6 Copynumber: 22.8 Consensus size: 6
786951 TAATTTTTTA
* * *
786961 AAATTT -AATTT -AATTT -ATTTT AAATTA AAAATT AAATTT AAATCATGT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAAT--T-T
*
787009 AAATTT AAATAATT CAAATAAT AAATTT AAA-TT --ATTT AAATTT AAAATATT
1 AAATTT AAAT--TT -AAAT-TT AAATTT AAATTT AAATTT AAATTT -AAAT-TT
* * *
787060 TAATTT --ATGAT AAATTT AAA-AT -AATTT AAATTT AAATT
1 AAATTT AAAT-TT AAATTT AAATTT AAATTT AAATTT AAATT
787098 AATTAAAACG
Statistics
Matches: 101, Mismatches: 13, Indels: 34
0.68 0.09 0.23
Matches are distributed among these distances:
3 1 0.01
4 6 0.06
5 19 0.19
6 45 0.45
7 14 0.14
8 7 0.07
9 9 0.09
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:787027 original size:15 final size:14
Alignment explanation
Indices: 786980--787104 Score: 67
Period size: 15 Copynumber: 9.4 Consensus size: 14
786970 TTAATTTATT
786980 TTAAA-TTAAA-AA
1 TTAAATTTAAATAA
*
786992 TTAAATTTAAATCA
1 TTAAATTTAAATAA
787006 TGTAAATTT--A-AA
1 T-TAAATTTAAATAA
*
787018 -T-AATTCAAATAA
1 TTAAATTTAAATAA
*
787030 -TAAATTTAAATTAT
1 TTAAATTTAAA-TAA
787044 TTAAATTTAAA-ATA
1 TTAAATTTAAATA-A
* *
787058 TTTAATTT--ATGA
1 TTAAATTTAAATAA
787070 -TAAATTTAAAATAA
1 TTAAATTT-AAATAA
787084 TTTAAATTTAAATTAA
1 -TTAAATTTAAA-TAA
787100 TTAAA
1 TTAAA
787105 ACGGGCTAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 31
0.68 0.08 0.24
Matches are distributed among these distances:
9 4 0.05
10 1 0.01
11 7 0.08
12 11 0.13
13 14 0.16
14 14 0.16
15 25 0.29
16 10 0.12
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (14 bp):
TTAAATTTAAATAA
Found at i:787036 original size:22 final size:22
Alignment explanation
Indices: 787008--787049 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
786998 TTAAATCATG
787008 TAAATTTAAATAATTCAAATAA
1 TAAATTTAAATAATTCAAATAA
* *
787030 TAAATTTAAATTATTTAAAT
1 TAAATTTAAATAATTCAAAT
787050 TTAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAATTTAAATAATTCAAATAA
Found at i:787089 original size:16 final size:16
Alignment explanation
Indices: 787030--787101 Score: 61
Period size: 16 Copynumber: 5.0 Consensus size: 16
787020 ATTCAAATAA
*
787030 TAAATTT-AAATTATT
1 TAAATTTAAAATAATT
787045 TAAATTTAAAAT-ATT
1 TAAATTTAAAATAATT
*
787060 T-AATTT---ATGA--
1 TAAATTTAAAATAATT
787070 TAAATTTAAAATAATT
1 TAAATTTAAAATAATT
*
787086 TAAATTTAAATTAATT
1 TAAATTTAAAATAATT
787102 AAAACGGGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
10 1 0.02
11 7 0.15
12 1 0.02
14 8 0.17
15 11 0.23
16 19 0.40
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (16 bp):
TAAATTTAAAATAATT
Found at i:787701 original size:6 final size:6
Alignment explanation
Indices: 787692--787726 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
787682 GAGAGAAGAG
*
787692 AGAGAA AGAGAA AGAGAA AGGGAA AGAGAA AGAGA
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGA
787727 TTACAATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (6 bp):
AGAGAA
Found at i:788997 original size:8 final size:8
Alignment explanation
Indices: 788984--789031 Score: 96
Period size: 8 Copynumber: 6.0 Consensus size: 8
788974 TTCCCCTTTT
788984 ATCTTCAA
1 ATCTTCAA
788992 ATCTTCAA
1 ATCTTCAA
789000 ATCTTCAA
1 ATCTTCAA
789008 ATCTTCAA
1 ATCTTCAA
789016 ATCTTCAA
1 ATCTTCAA
789024 ATCTTCAA
1 ATCTTCAA
789032 GAAGCATCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (8 bp):
ATCTTCAA
Found at i:801129 original size:24 final size:24
Alignment explanation
Indices: 801097--801142 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
801087 CCCAATAATG
*
801097 TAAGTTAACTGAAGGGGTTCTTGA
1 TAAGTTAACTAAAGGGGTTCTTGA
801121 TAAGTTAACTAAAGGGGTTCTT
1 TAAGTTAACTAAAGGGGTTCTT
801143 AGAGTTGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (24 bp):
TAAGTTAACTAAAGGGGTTCTTGA
Found at i:817523 original size:1 final size:1
Alignment explanation
Indices: 817519--817579 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
817509 TTTTCTTTTT
* * * * * * * *
817519 AAAAAAAAATAAAAAAAAACAAAAAAAAACAAAACAAAGAAAAAAAAGAGAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
817580 GAACATGCTT
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.87, C:0.05, G:0.07, T:0.02
Consensus pattern (1 bp):
A
Found at i:817533 original size:10 final size:10
Alignment explanation
Indices: 817519--817579 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
817509 TTTTCTTTTT
*
817519 AAAAAAAAAT
1 AAAAAAAAAC
817529 AAAAAAAAAC
1 AAAAAAAAAC
817539 AAAAAAAAAC
1 AAAAAAAAAC
817549 AAAACAAAGAA-
1 AAAA-AAA-AAC
* *
817560 AAAAAAGAGAG
1 AAAAAA-AAAC
817571 AAAAAAAAA
1 AAAAAAAAA
817580 GAACATGCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
10 28 0.64
11 14 0.32
12 2 0.05
ACGTcount: A:0.87, C:0.05, G:0.07, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:817544 original size:19 final size:19
Alignment explanation
Indices: 817519--817565 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
817509 TTTTCTTTTT
*
817519 AAAAAAAAATAAAAAAAAAC
1 AAAAAAAAA-CAAAAAAAAC
* *
817539 AAAAAAAAACAAAACAAAG
1 AAAAAAAAACAAAAAAAAC
817558 AAAAAAAA
1 AAAAAAAA
817566 GAGAGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.89, C:0.06, G:0.02, T:0.02
Consensus pattern (19 bp):
AAAAAAAAACAAAAAAAAC
Found at i:818731 original size:93 final size:95
Alignment explanation
Indices: 818613--818802 Score: 312
Period size: 93 Copynumber: 2.0 Consensus size: 95
818603 TGGCACTTCC
* *
818613 CAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAA
1 CAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTAAAAACCCACACAA
818678 GTTGGTGGCA-CTTCCCA-TCCTCAAAGAG
66 GTTGGTGGCATCTTCCCAGTCCTCAAAGAG
* * *
818706 CAGGACGCTTTCTCCTTTCATCCTTTAGTCCTCAAAGAGCAGGACGCCTTTAAAAACCCATACAA
1 CAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTAAAAACCCACACAA
*
818771 GTTGGTGGCATTTTCCCAGTCCTCAAAGAG
66 GTTGGTGGCATCTTCCCAGTCCTCAAAGAG
818801 CA
1 CA
818803 AGATGGATTT
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
93 70 0.79
94 6 0.07
95 13 0.15
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (95 bp):
CAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTAAAAACCCACACAA
GTTGGTGGCATCTTCCCAGTCCTCAAAGAG
Found at i:818928 original size:62 final size:61
Alignment explanation
Indices: 818752--819226 Score: 430
Period size: 61 Copynumber: 7.9 Consensus size: 61
818742 GAGCAGGACG
* * * * * * **
818752 CCTTTAAAAACCCATACAAGTTGGTGGCATTTTCCCAGTCCTCAAAGAGCAAGATG-GATTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CTAGTCCTCAAAGAGCAGGATGCCTTTT
* * * * * *
818813 -C----AAAGCCCACATAAGCTGGTGGCACCTTC-AAT-CTCAAAGAGTAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
** * *
818867 CCTTTTAAAGTGCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGTCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* *
818929 CCTTTTAAAGCCCATACAAGTTGGTGGCACATTCTAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* * * **
818990 CTTTTTAAAGTCCACACAAGTTGGTGGCACTTTTCTAGCCCTCAAAGAGCAATATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
819052 CCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCTTT-T
** * * * * * *
819113 CCTTGCAAAGCCTACACAAGTTGGTGGCACCTTCCAATCTTCAAAGAACAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCTTT-T
** ** * * * * *
819174 CCTTGCAAAGCCCATGCAAGCTGGTGGCACCTGCTAGTCCCCAAGGAGCAGGA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGA
819227 CCTATTTCAT
Statistics
Matches: 344, Mismatches: 59, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
53 13 0.04
54 5 0.01
55 2 0.01
56 21 0.06
59 20 0.06
60 8 0.02
61 174 0.51
62 101 0.29
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:818996 original size:61 final size:61
Alignment explanation
Indices: 818814--819226 Score: 447
Period size: 61 Copynumber: 6.8 Consensus size: 61
818804 GATGGATTTC
* * * * *
818814 AAAGCCCACATAAGCTGGTGGCACCTTC-AAT-CTCAAAGAGTAGGACGCCTTTTCCTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
** * * *
818873 AAAGTGCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTT
1 AAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
* * *
818935 AAAGCCCATACAAGTTGGTGGCACATTCTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
* * * **
818996 AAAGTCCACACAAGTTGGTGGCACTTTTCTAGCCCTCAAAGAGCAATATGCCTTTTCCTTTT
1 AAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
* * **
819058 AAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTGC
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTT
* * * * * **
819119 AAAGCCTACACAAGTTGGTGGCACCTTCCAATCTTCAAAGAACAGGATG-CTTTCTCCTTGC
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTT
** * * * *
819180 AAAGCCCATGCAAGCTGGTGGCACCTGCTAGTCCCCAAGGAGCAGGA
1 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGA
819227 CCTATTTCAT
Statistics
Matches: 302, Mismatches: 47, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
59 20 0.07
60 7 0.02
61 174 0.58
62 101 0.33
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (61 bp):
AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
Found at i:819006 original size:123 final size:122
Alignment explanation
Indices: 818767--819226 Score: 501
Period size: 123 Copynumber: 3.8 Consensus size: 122
818757 AAAAACCCAT
* * ** * *
818767 ACAAGTTGGTGGCA-TTTTCCCAGTCCTCAAAGAGCAAGATGGATTT-C----AAAGCCCACATA
1 ACAAGTTGGTGGCACTTTT-CTAGTCCTCAAAGAGCAGGATGCTTTTCCTTTTAAAGCCCATACA
* * * *
818826 AGCTGGTGGCACCTTC-AAT-CTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGTGCAC
65 AGCTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGTCCAC
*
818882 ACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCATACA
1 ACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATG-CTTTTCCTTTTAAAGCCCATACA
* * *
818947 AGTTGGTGGCACATTCTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTAAAGTCCAC
65 AGCTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGTCCAC
* **
819005 ACAAGTTGGTGGCACTTTTCTAGCCCTCAAAGAGCAATATGCCTTTTCCTTTTAAAGCCCATACA
1 ACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATG-CTTTTCCTTTTAAAGCCCATACA
* * **
819070 AGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTGCAAAG-CCTAC
65 AGCTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGTCC-AC
* * * * * ** *
819128 ACAAGTTGGTGGCAC-CTTCCAATCTTCAAAGAACAGGATGCTTTCTCCTTGCAAAGCCCATGCA
1 ACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCTTT-TCCTTTTAAAGCCCATACA
* * *
819192 AGCTGGTGGCACCTGCTAGTCCCCAAGGAGCAGGA
65 AGCTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGA
819227 CCTATTTCAT
Statistics
Matches: 293, Mismatches: 40, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
115 33 0.11
116 7 0.02
117 1 0.00
121 28 0.10
122 71 0.24
123 153 0.52
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (122 bp):
ACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCTTTTCCTTTTAAAGCCCATACAA
GCTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGTCCAC
Found at i:819879 original size:13 final size:13
Alignment explanation
Indices: 819861--819890 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
819851 ATACATTATT
819861 CATTGTATCGATA
1 CATTGTATCGATA
819874 CATTGTATCGATA
1 CATTGTATCGATA
819887 CATT
1 CATT
819891 TTGGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:822431 original size:80 final size:80
Alignment explanation
Indices: 822249--822420 Score: 224
Period size: 80 Copynumber: 2.1 Consensus size: 80
822239 CGTTATTTTT
*
822249 ATCAGGGATACTCCAACCCCATTATTTTCGAAGGAATACTCCAACCCTAGTTTTATTTCCAAAAT
1 ATCAGGGATACTCCAACCCCATTATTTTCGAAGGAATACTCCAACCCTAGTTTTATTTCCAAAAC
*
822314 ACCCGATTTTTCACA
66 ACCCGATTTTCCACA
* * *
822329 ATCGGGGATACTCCAACCCCATTATTTTC-AAGGGGATACTCCAACCCT-GATTTTATTTCCAGA
1 ATCAGGGATACTCCAACCCCATTATTTTCGAA-GGAATACTCCAACCCTAG-TTTTATTTCCAAA
* *
822392 ACA-TCGATTTTCCATA
64 ACACCCGATTTTCCACA
*
822408 GTCAAGGGATACT
1 ATC-AGGGATACT
822421 TTAGCCCCAT
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
79 15 0.19
80 65 0.81
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (80 bp):
ATCAGGGATACTCCAACCCCATTATTTTCGAAGGAATACTCCAACCCTAGTTTTATTTCCAAAAC
ACCCGATTTTCCACA
Found at i:843171 original size:64 final size:64
Alignment explanation
Indices: 843091--843411 Score: 277
Period size: 64 Copynumber: 5.0 Consensus size: 64
843081 ATCATAGCTA
*
843091 AACCTATATCTTTTTGAATAAATTAAGAA-TCAAACTTGTCTCTTTTTGAACAAGTTAAAATTTG
1 AACCTATATCTTTTTGAATAAGTTAA-AAGTCAAACTTGTCTCTTTTTGAACAAGTTAAAATTTG
* * * * * * **
843155 AACCTATGTCTTTTTGAATAGGTAAAAAGTCAAACTTATCTATTTTTGAACAAGTTAAAAGTCA
1 AACCTATATCTTTTTGAATAAGTTAAAAGTCAAACTTGTCTCTTTTTGAACAAGTTAAAATTTG
* * * ** * * * * * **
843219 AACTTATATCTTTCTAAATAAGTTAAAAGTCAAACTCATTTATTTTTTAAGAAGTCAAAATTCA
1 AACCTATATCTTTTTGAATAAGTTAAAAGTCAAACTTGTCTCTTTTTGAACAAGTTAAAATTTG
* * * * * * * *
843283 AACTTGTATCTTTATGAATAGGTCAAAATTTAAACTTGTCTCTTTTCT-AACAAGATAAAATTTG
1 AACCTATATCTTTTTGAATAAGTTAAAAGTCAAACTTGTCTCTTTT-TGAACAAGTTAAAATTTG
* * * * ** * *
843347 AACCTATCTTTTTTTGAATACGATAGGAGTCAAACTTGTCTCTTTCTGAACAAGTCAAAATTTG
1 AACCTATATCTTTTTGAATAAGTTAAAAGTCAAACTTGTCTCTTTTTGAACAAGTTAAAATTTG
843411 A
1 A
843412 GCTTGTATCT
Statistics
Matches: 202, Mismatches: 52, Indels: 6
0.78 0.20 0.02
Matches are distributed among these distances:
63 3 0.01
64 198 0.98
65 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (64 bp):
AACCTATATCTTTTTGAATAAGTTAAAAGTCAAACTTGTCTCTTTTTGAACAAGTTAAAATTTG
Found at i:843254 original size:32 final size:32
Alignment explanation
Indices: 843090--843302 Score: 176
Period size: 32 Copynumber: 6.7 Consensus size: 32
843080 CATCATAGCT
* *
843090 AAACCTATATCTTTTTGAATAAATTAAGAA-TC
1 AAACTTATATCTTTTTGAATAAGTTAA-AAGTC
* * * * *
843122 AAACTTGTCTCTTTTTGAACAAGTTAAAATTT
1 AAACTTATATCTTTTTGAATAAGTTAAAAGTC
* * * * *
843154 GAACCTATGTCTTTTTGAATAGGTAAAAAGTC
1 AAACTTATATCTTTTTGAATAAGTTAAAAGTC
* * *
843186 AAACTTATCTATTTTTGAACAAGTTAAAAGTC
1 AAACTTATATCTTTTTGAATAAGTTAAAAGTC
* *
843218 AAACTTATATCTTTCTAAATAAGTTAAAAGTC
1 AAACTTATATCTTTTTGAATAAGTTAAAAGTC
* * * * * * *
843250 AAACTCATTTATTTTTTAAGAAGTCAAAATTC
1 AAACTTATATCTTTTTGAATAAGTTAAAAGTC
* *
843282 AAACTTGTATCTTTATGAATA
1 AAACTTATATCTTTTTGAATA
843303 GGTCAAAATT
Statistics
Matches: 138, Mismatches: 42, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
31 2 0.01
32 136 0.99
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (32 bp):
AAACTTATATCTTTTTGAATAAGTTAAAAGTC
Found at i:845780 original size:9 final size:9
Alignment explanation
Indices: 845766--845791 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
845756 TATATGTTGG
845766 GGTCATTTA
1 GGTCATTTA
845775 GGTCATTTA
1 GGTCATTTA
845784 GGTCATTT
1 GGTCATTT
845792 TTCATTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.12, G:0.23, T:0.46
Consensus pattern (9 bp):
GGTCATTTA
Found at i:845966 original size:58 final size:58
Alignment explanation
Indices: 845776--846207 Score: 286
Period size: 58 Copynumber: 7.4 Consensus size: 58
845766 GGTCATTTAG
* * * *
845776 GTCATTTAGGTCATTTTTCATTA-TCTAGAGTCTTTCATGCAAATTTCATGTATTTTA-AT
1 GTCATTTAGGTCATTTTCCATGACT-TAGAGACTTTAATGC-AATTTCATGTA-TTTAGAT
* * * * * * *
845835 GTCATATAGGTCATTTTCCATGACTTAGAGACTTTGAGGTAAATTCCATATATTTTGAT
1 GTCATTTAGGTCATTTTCCATGACTTAGAGACTTTAATG-CAATTTCATGTATTTAGAT
* ** * * * *
845894 GTCATTTAGATCATTTTTAAAGACTTAGGGACTTTGATGCAATTTCTTGTATTTAGAT
1 GTCATTTAGGTCATTTTCCATGACTTAGAGACTTTAATGCAATTTCATGTATTTAGAT
* * * * *
845952 GTCATTTAGTTCATTTTCCATGATTTAAAGACTTTAATG-ATATTTCATGCCATTT-GGT
1 GTCATTTAGGTCATTTTCCATGACTTAGAGACTTTAATGCA-ATTTCATG-TATTTAGAT
* * * * * * *
846010 GTCATTTAGGCCATTTTTCATGACTTTGGGACTTTAATGTAATTCCATGTATTTTGAT
1 GTCATTTAGGTCATTTTCCATGACTTAGAGACTTTAATGCAATTTCATGTATTTAGAT
* * * * *
846068 GTCATTTATGTCATTTTCTATGA-TCTACAGACTTTTAT-CTAATTTTCATGTATTTTGAT
1 GTCATTTAGGTCATTTTCCATGACT-TAGAGACTTTAATGC-AA-TTTCATGTATTTAGAT
* * * * * * * * *
846127 GCCATTTAGGTAATTATCTATGATCTAAG-GATTTTTATGTAATTTCATATATTTTA-AT
1 GTCATTTAGGTCATTTTCCATGA-CTTAGAGACTTTAATGCAATTTCATGTA-TTTAGAT
* * *
846185 GTCGTTTTGGTCATTTTTCATGA
1 GTCATTTAGGTCATTTTCCATGA
846208 TTTACAAATT
Statistics
Matches: 289, Mismatches: 70, Indels: 29
0.74 0.18 0.07
Matches are distributed among these distances:
57 6 0.02
58 154 0.53
59 126 0.44
60 2 0.01
61 1 0.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (58 bp):
GTCATTTAGGTCATTTTCCATGACTTAGAGACTTTAATGCAATTTCATGTATTTAGAT
Found at i:846133 original size:59 final size:58
Alignment explanation
Indices: 846038--846181 Score: 173
Period size: 59 Copynumber: 2.5 Consensus size: 58
846028 CATGACTTTG
* * * * * * *
846038 GGACTTTAATGTAATTCCATGTATTTTGATGTCATTTATGTCATTTTCTATGATCTACA
1 GGACTTTTATCTAATTTCATGTATTTTGATGCCATTTAGGTAATTATCTATGATCTA-A
846097 -GACTTTTATCTAATTTTCATGTATTTTGATGCCATTTAGGTAATTATCTATGATCTAA
1 GGACTTTTATCTAA-TTTCATGTATTTTGATGCCATTTAGGTAATTATCTATGATCTAA
* * *
846155 GGATTTTTATGTAATTTCATATATTTT
1 GGACTTTTATCTAATTTCATGTATTTT
846182 AATGTCGTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
58 24 0.33
59 49 0.67
ACGTcount: A:0.26, C:0.11, G:0.12, T:0.50
Consensus pattern (58 bp):
GGACTTTTATCTAATTTCATGTATTTTGATGCCATTTAGGTAATTATCTATGATCTAA
Found at i:846202 original size:175 final size:174
Alignment explanation
Indices: 845817--846207 Score: 398
Period size: 175 Copynumber: 2.2 Consensus size: 174
845807 CTTTCATGCA
* * * *
845817 AATTTCATGTATTTTAATGTCATATAGGTCATTTTCCATGACTTAGAGACTTTGAGGTAAATTCC
1 AATTTCATATATTTTAATGTCATTTAGGTCATTTTTCATGACTTAGAGACTTTAAGGTAAATTCC
** *
845882 ATATATTTTGATGTCATTTAGATCATTTTTAAAGACTTAGGGACTTTGATGCAATTTCTTGTATT
66 ATATATTTTGATGTCATTTAGATCATTTTTAAAGACTTACAGACTTTGATGCAATTTCATGTATT
* * * * *
845947 TAGATGTCATTTAGTTCATTTTCCATGATTTAAAGACTTTAATG
131 TAGATGCCATTTAGGTAATTATCCATGATCTAAAGACTTTAATG
** ** * * * *
845991 ATATTTCATGCCA-TTTGGTGTCATTTAGGCCATTTTTCATGACTTTGGGACTTTAATGT-AATT
1 A-ATTTCAT-ATATTTTAATGTCATTTAGGTCATTTTTCATGACTTAGAGACTTTAAGGTAAATT
* * *
846054 CCATGTATTTTGATGTCATTTATG-TCATTTTCT-ATGA-TCTACAGACTTTTAT-CTAATTTTC
64 CCATATATTTTGATGTCATTTA-GATCATTTT-TAAAGACT-TACAGACTTTGATGC-AA-TTTC
* * * * *
846115 ATGTATTTTGATGCCATTTAGGTAATTATCTATGATCTAAGGATTTTTATG
124 ATGTATTTAGATGCCATTTAGGTAATTATCCATGATCTAAAGACTTTAATG
* *
846166 TAATTTCATATATTTTAATGTCGTTTTGGTCATTTTTCATGA
1 -AATTTCATATATTTTAATGTCATTTAGGTCATTTTTCATGA
846208 TTTACAAATT
Statistics
Matches: 174, Mismatches: 34, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
173 2 0.01
174 49 0.28
175 121 0.70
176 2 0.01
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (174 bp):
AATTTCATATATTTTAATGTCATTTAGGTCATTTTTCATGACTTAGAGACTTTAAGGTAAATTCC
ATATATTTTGATGTCATTTAGATCATTTTTAAAGACTTACAGACTTTGATGCAATTTCATGTATT
TAGATGCCATTTAGGTAATTATCCATGATCTAAAGACTTTAATG
Found at i:852200 original size:9 final size:9
Alignment explanation
Indices: 852167--852205 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
852157 GAGAAAAAGT
852167 AAATATTCTA
1 AAATA-TCTA
*
852177 GAATATCTA
1 AAATATCTA
852186 ACAATATCTA
1 A-AATATCTA
852196 AAATATCTA
1 AAATATCTA
852205 A
1 A
852206 GTGTGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 13 0.50
10 13 0.50
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (9 bp):
AAATATCTA
Found at i:852200 original size:19 final size:20
Alignment explanation
Indices: 852168--852205 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
852158 AGAAAAAGTA
*
852168 AATATTCTAGAATATCTAAC
1 AATATTCTAAAATATCTAAC
852188 AATA-TCTAAAATATCTAA
1 AATATTCTAAAATATCTAA
852206 GTGTGTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.34
Consensus pattern (20 bp):
AATATTCTAAAATATCTAAC
Found at i:854090 original size:68 final size:69
Alignment explanation
Indices: 853937--854093 Score: 185
Period size: 69 Copynumber: 2.3 Consensus size: 69
853927 GCATATCCTT
* ** * *
853937 AAGAGAAGCTTTTGAAATCTTTGAAAACTTCCTCAATGGTAGCTTGTAAAATTCTTTTAAAACAT
1 AAGAAAAGCTTTTGAAATCTTTGAAAACTTCCTCAAAAGTAGCTTGTAAAATTCTCTGAAAACAT
854002 CTTC
66 CTTC
* * * * *
854006 AAAAAAAGCTTGTGAAATTTTTGAAAA-TATCCTTAAAAG-AGGCTTGTGAAA-TCTCTGAAAAC
1 AAGAAAAGCTTTTGAAATCTTTGAAAACT-TCCTCAAAAGTA-GCTTGTAAAATTCTCTGAAAAC
854068 ATCTTC
64 ATCTTC
854074 AAGAAAAGCTTTTGAAATCT
1 AAGAAAAGCTTTTGAAATCT
854094 ACTAAAACAT
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
68 34 0.47
69 39 0.53
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (69 bp):
AAGAAAAGCTTTTGAAATCTTTGAAAACTTCCTCAAAAGTAGCTTGTAAAATTCTCTGAAAACAT
CTTC
Found at i:854101 original size:34 final size:34
Alignment explanation
Indices: 853937--854111 Score: 124
Period size: 34 Copynumber: 5.1 Consensus size: 34
853927 GCATATCCTT
* * * * *
853937 AAGAGAAGCTTTTGAAATCTTTGAAAACTTCCTC
1 AAGAAAAGCTTGTGAAATCTCTGAAAACATCTTC
** * * *
853971 AATG-GTAGCTTGTAAAATTCTTTTAAAACATCTTC
1 AA-GAAAAGCTTGTGAAA-TCTCTGAAAACATCTTC
* * * *
854006 AAAAAAAGCTTGTGAAATTTTTGAAAATATCCTT-
1 AAGAAAAGCTTGTGAAATCTCTGAAAACAT-CTTC
*
854040 AA-AAGAGGCTTGTGAAATCTCTGAAAACATCTTC
1 AAGAA-AAGCTTGTGAAATCTCTGAAAACATCTTC
* *
854074 AAGAAAAGCTTTTGAAATCTACT-AAAACATCATC
1 AAGAAAAGCTTGTGAAATCT-CTGAAAACATCTTC
854108 AAGA
1 AAGA
854112 GAGGCTCATA
Statistics
Matches: 113, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
33 5 0.04
34 74 0.65
35 34 0.30
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (34 bp):
AAGAAAAGCTTGTGAAATCTCTGAAAACATCTTC
Found at i:857306 original size:17 final size:17
Alignment explanation
Indices: 857284--857318 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
857274 ATGAATAGGC
*
857284 AAAGAAATATACCAACA
1 AAAGAAACATACCAACA
857301 AAAGAAACATACCAACA
1 AAAGAAACATACCAACA
857318 A
1 A
857319 CCTTTGGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.66, C:0.20, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAGAAACATACCAACA
Found at i:864301 original size:18 final size:18
Alignment explanation
Indices: 864278--864315 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
864268 GCCTGGCTAG
864278 TAGGTGGAGGATTCGACA
1 TAGGTGGAGGATTCGACA
864296 TAGGTGGAGGATTCGACA
1 TAGGTGGAGGATTCGACA
864314 TA
1 TA
864316 TATGGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.11, G:0.37, T:0.24
Consensus pattern (18 bp):
TAGGTGGAGGATTCGACA
Found at i:864526 original size:19 final size:19
Alignment explanation
Indices: 864502--864569 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
864492 AATTCAACGA
864502 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
864521 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
864536 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
864553 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
864570 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:864540 original size:32 final size:32
Alignment explanation
Indices: 864504--864566 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
864494 TTCAACGATT
*
864504 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
864536 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
864567 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:864541 original size:13 final size:13
Alignment explanation
Indices: 864523--864547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
864513 ACATAAGTTT
864523 TGTATCGATACAA
1 TGTATCGATACAA
864536 TGTATCGATACA
1 TGTATCGATACA
864548 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:864627 original size:13 final size:13
Alignment explanation
Indices: 864609--864634 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
864599 CATTTTTCTG
864609 TGTATCGATACAT
1 TGTATCGATACAT
864622 TGTATCGATACAT
1 TGTATCGATACAT
864635 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:864631 original size:33 final size:33
Alignment explanation
Indices: 864589--864655 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
864579 GCCAAGGAAA
***
864589 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
864622 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
864655 T
1 T
864656 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:867063 original size:51 final size:53
Alignment explanation
Indices: 866994--867334 Score: 190
Period size: 52 Copynumber: 6.5 Consensus size: 53
866984 AGTTTATCAA
* * * * *
866994 TTCTCCACAATCGAGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
867045 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * * *
867099 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAAT
** ** * * *
867152 CCCGTT-A-TTTCGAGGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAAT
1 TTC-TTCACAATC--GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAAT
* * *
867205 TT-TTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA-T
* * *
867258 TTCCTT--TAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
867310 TT-TTCACAATTGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
867335 CTCGTTATTT
Statistics
Matches: 219, Mismatches: 46, Indels: 49
0.70 0.15 0.16
Matches are distributed among these distances:
50 4 0.02
51 37 0.17
52 80 0.37
53 45 0.21
54 45 0.21
55 5 0.02
56 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:867168 original size:27 final size:26
Alignment explanation
Indices: 867110--867178 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
867100 TCTTCACAAT
867110 CGGGGATACTCCAACCCCGTTAATCA
1 CGGGGATACTCCAACCCCGTTAATCA
*
867136 TCGGGGATACTCCAACCCCGTTATTTCGA
1 -CGGGGATACTCCAACCCCGTTA-ATC-A
867165 -GGGGATACTCCAAC
1 CGGGGATACTCCAAC
867179 TCCGGTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 36 0.92
28 2 0.05
29 1 0.03
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (26 bp):
CGGGGATACTCCAACCCCGTTAATCA
Found at i:867355 original size:28 final size:28
Alignment explanation
Indices: 867323--867394 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
867313 TCACAATTGA
*
867323 GGATACTCCAACCTCGTTA-TTTC-ATCGG
1 GGATACTCCAACCCCGTTACTTTCGA--GG
867351 GGATACTCCAACCCCGTTACTTTCGAGG
1 GGATACTCCAACCCCGTTACTTTCGAGG
867379 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
867395 GCTTTATTCC
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 36 0.88
29 4 0.10
30 1 0.02
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTTCGAGG
Found at i:867361 original size:211 final size:212
Alignment explanation
Indices: 866997--867401 Score: 620
Period size: 211 Copynumber: 1.9 Consensus size: 212
866987 TTATCAATTC
* * *
866997 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGA
* *
867062 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* *
867127 CGTTAATCATCGGGGATACTCCAACCCCGTTA-TTTCGAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCGGCTTTATC
867191 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * * *
867208 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGAG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGAG
* *
867272 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATTGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* *
867335 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCGGCTTT
867400 AT
193 AT
867402 TCCCAAAATA
Statistics
Matches: 175, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
210 30 0.17
211 82 0.47
212 63 0.36
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:867428 original size:107 final size:107
Alignment explanation
Indices: 867057--867473 Score: 286
Period size: 107 Copynumber: 3.9 Consensus size: 107
867047 TTCTATAATC
* * * * * *
867057 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAAATACCAATTTC-TCACAATTGAGGATACTCC
**
867122 AACCCCGTTAATCATCG-GGGATACTCCAACCCCGTTA-TTTCGA
64 AACCCCGTT-ATTTTCGAGGGATACTCCAACCCCGTTACTTTCGA
* * * * * * * * *
867165 GGGGATACTCCAACTCCG-GTTT-TATCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTC-CAAAAATACCAATTTCT-CACAATTGAGGATACTCC
** * * ** * *
867228 AATCCTGGTTTTATTTTC-A---AAACGCCAATTTTCCTTTA--ATCGA
64 AA-CCCCG--TTATTTTCGAGGGATACTCCAA--CCCCGTTACTTTCGA
* * *
867271 --GGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATTGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATTGAGGATACTCCAA
*
867334 CCTCGTTATTTCATCG-GGGATACTCCAACCCCGTTACTTTCGA
66 CCCCGTTATTT--TCGAGGGATACTCCAACCCCGTTACTTTCGA
* * *** * *
867377 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATTGAGGATACTCCAA
*
867441 CCCCGTTATTTTCGAAGGGATACTCCAATCCCG
66 CCCCGTTATTTTCG-AGGGATACTCCAACCCCG
867474 ATTTTTTTTT
Statistics
Matches: 245, Mismatches: 42, Indels: 45
0.74 0.13 0.14
Matches are distributed among these distances:
101 6 0.02
103 6 0.02
104 39 0.16
105 28 0.11
106 53 0.22
107 71 0.29
108 40 0.16
109 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATTGAGGATACTCCAA
CCCCGTTATTTTCGAGGGATACTCCAACCCCGTTACTTTCGA
Found at i:867497 original size:79 final size:79
Alignment explanation
Indices: 867348--867550 Score: 230
Period size: 79 Copynumber: 2.6 Consensus size: 79
867338 GTTATTTCAT
* * *
867348 CGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
867413 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
867427 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
867491 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * *
867506 CGGGGATACTCTAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
867551 TGTTATTATC
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 8 0.08
79 96 0.92
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:873066 original size:35 final size:35
Alignment explanation
Indices: 873027--873094 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
873017 CTAGATTTTC
873027 TTCTTGATTCATCTAAAATACCACTGGACAAGCTG
1 TTCTTGATTCATCTAAAATACCACTGGACAAGCTG
873062 TTCTTGATTCATCTAAAATACCACTGGACAAGC
1 TTCTTGATTCATCTAAAATACCACTGGACAAGC
873095 CGTACATGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (35 bp):
TTCTTGATTCATCTAAAATACCACTGGACAAGCTG
Found at i:874461 original size:21 final size:22
Alignment explanation
Indices: 874437--874479 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
874427 AAAGATTATA
874437 CAAGAATAT-ATCAA-CTAAGCT
1 CAAG-ATATCATCAACCTAAGCT
*
874458 CAAGATCTCATCAACCTAAGCT
1 CAAGATATCATCAACCTAAGCT
874480 AACCAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 9 0.47
22 7 0.37
ACGTcount: A:0.42, C:0.26, G:0.09, T:0.23
Consensus pattern (22 bp):
CAAGATATCATCAACCTAAGCT
Found at i:882436 original size:13 final size:13
Alignment explanation
Indices: 882418--882443 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
882408 TACACCAAGT
882418 ATGTATCGATACA
1 ATGTATCGATACA
882431 ATGTATCGATACA
1 ATGTATCGATACA
882444 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:885870 original size:13 final size:13
Alignment explanation
Indices: 885852--885890 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
885842 ACATTTTTCT
885852 TTGTATCGATACA
1 TTGTATCGATACA
885865 TTGTATCGATACA
1 TTGTATCGATACA
*
885878 CTGTATCGATACA
1 TTGTATCGATACA
885891 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:886054 original size:20 final size:20
Alignment explanation
Indices: 886011--886056 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
886001 AAATCTTTTG
886011 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
886032 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
886052 CAAAA
1 CAAAA
886057 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:887761 original size:17 final size:17
Alignment explanation
Indices: 887741--887776 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
887731 AAAAGGGGAG
887741 AATGCGTAAATTTGCTA
1 AATGCGTAAATTTGCTA
887758 AATGCGTAAATTTGCTA
1 AATGCGTAAATTTGCTA
887775 AA
1 AA
887777 ATTACCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (17 bp):
AATGCGTAAATTTGCTA
Found at i:888500 original size:34 final size:32
Alignment explanation
Indices: 888440--888502 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
888430 GCCAAACTTG
**
888440 TATCGATACACCAAGTATGTATCGATACAATA
1 TATCGATACACCAAAAATGTATCGATACAATA
888472 TATCGATACACCAAAAAATTGTATCGATACA
1 TATCGATACACC-AAAAA-TGTATCGATACA
888503 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 12 0.44
33 3 0.11
34 12 0.44
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (32 bp):
TATCGATACACCAAAAATGTATCGATACAATA
Found at i:891543 original size:16 final size:15
Alignment explanation
Indices: 891517--891546 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
891507 CTGTGTGATG
891517 AAAAGAAAAAAAAAT
1 AAAAGAAAAAAAAAT
891532 AAAAGTAAAAAAAAA
1 AAAAG-AAAAAAAAA
891547 ATTGAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.87, C:0.00, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAGAAAAAAAAAT
Found at i:891653 original size:19 final size:20
Alignment explanation
Indices: 891629--891666 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
891619 CAAGCAATCT
891629 TTATATATAATTAT-TTATA
1 TTATATATAATTATATTATA
*
891648 TTATATATATTTATATTAT
1 TTATATATAATTATATTAT
891667 TTTTAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTATATATAATTATATTATA
Found at i:891658 original size:15 final size:15
Alignment explanation
Indices: 891628--891666 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
891618 TCAAGCAATC
891628 TTTATA-TATAATTA
1 TTTATATTATAATTA
891642 TTTATATTAT-ATATA
1 TTTATATTATAAT-TA
891657 TTTATATTAT
1 TTTATATTAT
891667 TTTTAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTATATTATAATTA
Found at i:891750 original size:19 final size:20
Alignment explanation
Indices: 891726--891765 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
891716 AATTAATTTT
891726 TTATTTTAA-TATATTTATA
1 TTATTTTAATTATATTTATA
*
891745 TTATTTTAATTATTTTTATA
1 TTATTTTAATTATATTTATA
891765 T
1 T
891766 AAATTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTTTAATTATATTTATA
Found at i:891792 original size:81 final size:81
Alignment explanation
Indices: 891636--891800 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
891626 TCTTTATATA
*
891636 TAATTATTTATATTATATATATTTATATTATTTTTAATTATATTTAAAATATTATTTATATAAAA
1 TAATTATTTATATTATATATATTTATATTATTTTTAATTATATTTAAAATATTATATATATAAAA
*
891701 TATAATATATCGATAAAT
66 TAT-ATATATCCA-AAAT
* * *
891719 TAATTTTTTATTTTA-ATATATTTATATTA-TTTTAATTATTTTTATATAA-ATTATAT-TATAA
1 TAATTATTTATATTATATATATTTATATTATTTTTAATTATATTTA-A-AATATTATATATATAA
891780 AATCAT-TCATATCCAAAAT
64 AAT-ATAT-ATATCCAAAAT
891799 TA
1 TA
891801 TTTAAGATTT
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
80 7 0.10
81 28 0.38
82 23 0.32
83 15 0.21
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (81 bp):
TAATTATTTATATTATATATATTTATATTATTTTTAATTATATTTAAAATATTATATATATAAAA
TATATATATCCAAAAT
Found at i:892619 original size:22 final size:22
Alignment explanation
Indices: 892579--892651 Score: 76
Period size: 22 Copynumber: 3.2 Consensus size: 22
892569 ATTAAAAAAT
* *
892579 ATAAAATTTTA-ATATTTATTT
1 ATAAAATTTTATTTATTTATTA
*
892600 TTAAAATTTTATTTATTTATTA
1 ATAAAATTTTATTTATTTATTA
892622 ATAAAATATTATATTATAATTTATTA
1 ATAAAAT-TT-TATT-T-ATTTATTA
892648 ATAA
1 ATAA
892652 TATATAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
21 10 0.23
22 14 0.33
23 2 0.05
24 4 0.09
25 1 0.02
26 12 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATAAAATTTTATTTATTTATTA
Found at i:892665 original size:26 final size:26
Alignment explanation
Indices: 892565--892658 Score: 72
Period size: 26 Copynumber: 3.7 Consensus size: 26
892555 TATTTATATT
* *
892565 ATTTATTAA-AAAATATAAAATTTTAA
1 ATTTATTAATAAAATATAATATTAT-A
** *
892591 TATTTATTTTTAAAAT-T-TTATT-T-
1 -ATTTATTAATAAAATATAATATTATA
*
892614 ATTTATTAATAAAATATTATATTATA
1 ATTTATTAATAAAATATAATATTATA
*
892640 ATTTATTAATAATATATAA
1 ATTTATTAATAAAATATAA
892659 ATTTATACAC
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
22 13 0.25
23 1 0.02
24 4 0.08
25 2 0.04
26 20 0.38
27 8 0.15
28 5 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTTATTAATAAAATATAATATTATA
Found at i:893511 original size:14 final size:14
Alignment explanation
Indices: 893492--893546 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
893482 AAATAGATAA
893492 AAAATTAATAATTT
1 AAAATTAATAATTT
*
893506 AAAATTAATTGATTT
1 AAAATTAA-TAATTT
*
893521 AAATTTAA-ATATTT
1 AAAATTAATA-ATTT
893535 -AAATTAAATAAT
1 AAAATT-AATAAT
893547 ATTATTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 4 0.12
14 16 0.48
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
AAAATTAATAATTT
Found at i:893563 original size:70 final size:65
Alignment explanation
Indices: 893489--893626 Score: 145
Period size: 70 Copynumber: 2.0 Consensus size: 65
893479 TTTAAATAGA
* * *
893489 TAAAAAATTAA-TAATTTAAAATTAATTGATTTA-AATTTAAATATTTAAATTAAATAATATTAT
1 TAAAAAATTAAGTAA--TAAAAATAA-T-ATTTATAAGTTAAA-ATATAAATT-AATAAT-TTAT
893552 TTTATTT
59 TTTATTT
* *
893559 TAAAATATTAAGTTAATAAAAATAATATTTATAAGTTAAAATATAAATTATTAATTTATTTTATT
1 TAAAAAATTAAG-TAATAAAAATAATATTTATAAGTTAAAATATAAATTAATAATTTATTTTATT
893624 T
65 T
893625 TA
1 TA
893627 TTATTTGTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
66 13 0.22
67 5 0.08
68 13 0.22
69 8 0.13
70 18 0.30
72 3 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (65 bp):
TAAAAAATTAAGTAATAAAAATAATATTTATAAGTTAAAATATAAATTAATAATTTATTTTATTT
Found at i:894406 original size:16 final size:17
Alignment explanation
Indices: 894387--894418 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
894377 AAAATGATTC
894387 AATCCAAAA-CGATTTG
1 AATCCAAAATCGATTTG
894403 AATCCAAAATCGATTT
1 AATCCAAAATCGATTT
894419 AAAAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (17 bp):
AATCCAAAATCGATTTG
Found at i:894453 original size:15 final size:15
Alignment explanation
Indices: 894435--894469 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
894425 TTTAAAACTT
894435 AAAATAATTCAATTC
1 AAAATAATTCAATTC
* *
894450 AAAATAATTTAATTT
1 AAAATAATTCAATTC
894465 AAAAT
1 AAAAT
894470 TAACTCGATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATAATTCAATTC
Found at i:894744 original size:122 final size:122
Alignment explanation
Indices: 894527--894768 Score: 441
Period size: 122 Copynumber: 2.0 Consensus size: 122
894517 CTTCCTCCAC
* *
894527 TATTTACATAAGATAAAAGCCGTCCCTTCCGTAAATAAAAGTCCCGATGCTTCATTTACGACTAC
1 TATTTACATAAGATAAAAGCCGTCCCTTCCGTAAATAAAAGTCCCGATGCATCATTTACGACAAC
*
894592 TGTTTCATCTCCTCTTCTTTCTTCGGTACTAGACTGGAAAAGCGTATAAATTTTCAG
66 TGTTTCATCTCCTCTTCTTTCTTCGGTACTAGACTGGAAAAGCCTATAAATTTTCAG
894649 TATTTACATAAGATAAAAGCCGTCCC-TCCTGTAAATAAAAGTCCCGATGCATCATTTACGACAA
1 TATTTACATAAGATAAAAGCCGTCCCTTCC-GTAAATAAAAGTCCCGATGCATCATTTACGACAA
894713 CTGTTTCATCTCCTCTTCTTTCTTCGGTACTAGACTGGAAAAGCCTATAAATTTTC
65 CTGTTTCATCTCCTCTTCTTTCTTCGGTACTAGACTGGAAAAGCCTATAAATTTTC
894769 CTCAAACTTC
Statistics
Matches: 116, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
121 3 0.03
122 113 0.97
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (122 bp):
TATTTACATAAGATAAAAGCCGTCCCTTCCGTAAATAAAAGTCCCGATGCATCATTTACGACAAC
TGTTTCATCTCCTCTTCTTTCTTCGGTACTAGACTGGAAAAGCCTATAAATTTTCAG
Found at i:901002 original size:18 final size:18
Alignment explanation
Indices: 900979--901014 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
900969 TGCCATAAAT
*
900979 TTCAAAAGACACTTTGGA
1 TTCAAAAGACACGTTGGA
900997 TTCAAAAGACACGTTGGA
1 TTCAAAAGACACGTTGGA
901015 GTATACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (18 bp):
TTCAAAAGACACGTTGGA
Found at i:904502 original size:24 final size:23
Alignment explanation
Indices: 904463--904547 Score: 67
Period size: 23 Copynumber: 3.8 Consensus size: 23
904453 TTAAGTTTAA
*
904463 ATTTTATT-ATTTATTTAATTAT
1 ATTTTATTAATTAATTTAATTAT
904485 ATTTTGATTAATTAATTT-ATT-T
1 ATTTT-ATTAATTAATTTAATTAT
904507 GATTTT-TTAA-TAATTTAA-TA-
1 -ATTTTATTAATTAATTTAATTAT
*
904527 ATTTGATTAATTGTAATTTAA
1 ATTTTATTAA-T-TAATTTAA
904548 AAAAAAAACT
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
19 4 0.08
20 11 0.21
21 5 0.10
22 6 0.12
23 19 0.37
24 7 0.13
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (23 bp):
ATTTTATTAATTAATTTAATTAT
Found at i:904974 original size:40 final size:40
Alignment explanation
Indices: 904921--905002 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
904911 TGTTTGTAAA
* *
904921 AAAAAAATTATTAGATTTTAGACAACCTTATAAAATTGAG
1 AAAAAAATAATTAGATTTTAAACAACCTTATAAAATTGAG
904961 AAAAAAATAATTAGATTTTAAACAACCTTATAAAATTGAG
1 AAAAAAATAATTAGATTTTAAACAACCTTATAAAATTGAG
905001 AA
1 AA
905003 CATAACTTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (40 bp):
AAAAAAATAATTAGATTTTAAACAACCTTATAAAATTGAG
Found at i:906237 original size:3 final size:3
Alignment explanation
Indices: 906229--906264 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
906219 GTAAAATAAG
906229 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
906265 TCTATGCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:907899 original size:16 final size:17
Alignment explanation
Indices: 907870--907901 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
907860 AAATAAATAT
907870 TAAATATAATTTAAAAA
1 TAAATATAATTTAAAAA
907887 TAAATAT-ATTTAAAA
1 TAAATATAATTTAAAA
907902 TTTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATATAATTTAAAAA
Found at i:907934 original size:14 final size:15
Alignment explanation
Indices: 907904--907937 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
907894 ATTTAAAATT
907904 TTTTAAAAAATTATA
1 TTTTAAAAAATTATA
907919 TTTTAAAAAATT-TA
1 TTTTAAAAAATTATA
907933 TTTTA
1 TTTTA
907938 TATTTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTAAAAAATTATA
Found at i:908333 original size:4 final size:4
Alignment explanation
Indices: 908324--908348 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
908314 AACATAAGAT
908324 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
908349 GCCCATGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:908842 original size:29 final size:29
Alignment explanation
Indices: 908788--908847 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
908778 TAGTATCATT
* *
908788 ATTTAATTTATATAAATATTTTTATTTAA
1 ATTTAATTTATATAAATATTTATATTAAA
908817 ATTTAA-TTATA-AAATATATTAATATTAAA
1 ATTTAATTTATATAAATAT-TT-ATATTAAA
908846 AT
1 AT
908848 ATTTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 6 0.22
28 7 0.26
29 14 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
ATTTAATTTATATAAATATTTATATTAAA
Found at i:908968 original size:19 final size:18
Alignment explanation
Indices: 908926--908962 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
908916 TAATTATGAC
*
908926 ATAATAAAATATATAAAT
1 ATAATAAAATACATAAAT
908944 ATAATACAAATACATAAAT
1 ATAATA-AAATACATAAAT
908963 TGAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAATAAAATACATAAAT
Found at i:909809 original size:3 final size:3
Alignment explanation
Indices: 909803--909874 Score: 103
Period size: 3 Copynumber: 24.7 Consensus size: 3
909793 TAAAAAAAGC
909803 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
909851 GTT ATT A-C ATA ATT -TT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
909875 GTGGACTAGA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
2 3 0.05
3 59 0.95
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:910005 original size:19 final size:21
Alignment explanation
Indices: 909954--910006 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
909944 AACCTTTAGT
909954 TAAA-TTTAATCATAAAATATA
1 TAAATTTTAAT-ATAAAATATA
*
909975 TAAATATTAATATAAAA-ATA
1 TAAATTTTAATATAAAATATA
*
909995 -AATTTTTAATAT
1 TAAATTTTAATAT
910007 TTTTATAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 10 0.36
20 3 0.11
21 10 0.36
22 5 0.18
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATTTTAATATAAAATATA
Found at i:910912 original size:20 final size:21
Alignment explanation
Indices: 910889--910927 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
910879 CAAAGCAATA
910889 TGTATCGATAC-TTCTAGGTC
1 TGTATCGATACTTTCTAGGTC
*
910909 TGTATCTATACTTTCTAGG
1 TGTATCGATACTTTCTAGG
910928 GTTTTGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.44
Consensus pattern (21 bp):
TGTATCGATACTTTCTAGGTC
Found at i:913225 original size:33 final size:33
Alignment explanation
Indices: 913179--913243 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
913169 TTTTCGGTAG
* *
913179 GTTTTGGAAGAAGAATTTGATGGAAATTAAAGT
1 GTTTTGGAAGAAGAATTTGATGAAAAATAAAGT
* * *
913212 GTTTTTGATGAAGATTTTGATGAAAAATAAAG
1 GTTTTGGAAGAAGAATTTGATGAAAAATAAAG
913244 AGTAATGATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (33 bp):
GTTTTGGAAGAAGAATTTGATGAAAAATAAAGT
Found at i:913651 original size:13 final size:15
Alignment explanation
Indices: 913620--913651 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
913610 AAATCACAAA
913620 AAAACAATATTATTC
1 AAAACAATATTATTC
913635 AAAACAA-ATTA-TC
1 AAAACAATATTATTC
913648 AAAA
1 AAAA
913652 GTGCAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 4 0.24
15 7 0.41
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAACAATATTATTC
Found at i:915131 original size:22 final size:22
Alignment explanation
Indices: 915105--915148 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
915095 CAATACCTTC
915105 CTCTTAACTATAACCTTTAGCT
1 CTCTTAACTATAACCTTTAGCT
915127 CTCTTAACTATAACCTTTAGCT
1 CTCTTAACTATAACCTTTAGCT
915149 GCTAGCCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.05, T:0.41
Consensus pattern (22 bp):
CTCTTAACTATAACCTTTAGCT
Found at i:918920 original size:28 final size:28
Alignment explanation
Indices: 918880--918960 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 28
918870 TTTCATAATC
*
918880 GGGGGTACTCCAACCCCGTTATTTTATT
1 GGGGATACTCCAACCCCGTTATTTTATT
* **
918908 GGGGATACTCCAATCCCGTTATTTT-CG
1 GGGGATACTCCAACCCCGTTATTTTATT
918935 GGGGATACTCCAACCCCG--ATTTTATT
1 GGGGATACTCCAACCCCGTTATTTTATT
918961 TCTAAAATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
25 5 0.11
27 17 0.38
28 23 0.51
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTTATT
Found at i:918946 original size:27 final size:27
Alignment explanation
Indices: 918878--918952 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
918868 TTTTTCATAA
918878 TCGGGGG-TACTCCAACCCCGTTATTT
1 TCGGGGGATACTCCAACCCCGTTATTT
** *
918904 TATTGGGGATACTCCAATCCCGTTATTT
1 T-CGGGGGATACTCCAACCCCGTTATTT
918932 TCGGGGGATACTCCAACCCCG
1 TCGGGGGATACTCCAACCCCG
918953 ATTTTATTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.02
27 21 0.51
28 19 0.46
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.29
Consensus pattern (27 bp):
TCGGGGGATACTCCAACCCCGTTATTT
Found at i:919008 original size:51 final size:50
Alignment explanation
Indices: 918935--919097 Score: 166
Period size: 51 Copynumber: 3.2 Consensus size: 50
918925 GTTATTTTCG
*
918935 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACT-CAACCCCGATTTTATTTCTAAAATATCAATTTTTCACAATC
* * * ** * *
918986 GGGGATACTCGAACTCCAATTTTATTTCCAAAATATTGATTTCTCATAATC
1 GGGGATACTC-AACCCCGATTTTATTTCTAAAATATCAATTTTTCACAATC
****
919037 GGGGATACTTCAACCCCGGCCCTATTTCT-AAATCATCAATTTTTCACAATC
1 GGGGATAC-TCAACCCCGATTTTATTTCTAAAAT-ATCAATTTTTCACAATC
*
919088 GAGGATACTC
1 GGGGATACTC
919098 CAATCTCGTT
Statistics
Matches: 89, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
50 7 0.08
51 80 0.90
52 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (50 bp):
GGGGATACTCAACCCCGATTTTATTTCTAAAATATCAATTTTTCACAATC
Found at i:919173 original size:79 final size:79
Alignment explanation
Indices: 919090--919257 Score: 187
Period size: 79 Copynumber: 2.1 Consensus size: 79
919080 TCACAATCGA
* * ** * *
919090 GGATACTCCAA-TCTCGTTATTTTCGAGGGGATACTCCAACCCC-GATTTTATTTTCAAAATATC
1 GGATACTCCAACCCT-GTTATTTTCGAAGAAATACTCCAACCCCAG-TTTTATTTTCAAAACACC
919153 GATTTTCTATAATCAG
64 GATTTTCTATAATCAG
* * * * *
919169 GGATACTCTAACCCTGTTATTTTCGAAGAAATACTCCAATCTCAGTTTTATTTTTAGAACACCGA
1 GGATACTCCAACCCTGTTATTTTCGAAGAAATACTCCAACCCCAGTTTTATTTTCAAAACACCGA
**
919234 TTTTCTATAATTGG
66 TTTTCTATAATCAG
919248 GGATACTCCA
1 GGATACTCCA
919258 GCCCCGTTGT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
79 70 0.96
80 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (79 bp):
GGATACTCCAACCCTGTTATTTTCGAAGAAATACTCCAACCCCAGTTTTATTTTCAAAACACCGA
TTTTCTATAATCAG
Found at i:922270 original size:3 final size:3
Alignment explanation
Indices: 922262--922301 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
922252 CGAGCCAACT
* *
922262 TCA TCA TCA TCA TCA TCA TCA TCA TCA TGA TCA TCT TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
922302 TATCTTTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.03, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:924000 original size:19 final size:19
Alignment explanation
Indices: 923976--924022 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
923966 TCTTTATATA
923976 TCGATACAATGAACATGTG
1 TCGATACAATGAACATGTG
923995 TCGATACAATGAACATGTG
1 TCGATACAATGAACATGTG
924014 TCGATACAA
1 TCGATACAA
924023 AGCAATATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (19 bp):
TCGATACAATGAACATGTG
Found at i:924037 original size:20 final size:19
Alignment explanation
Indices: 923974--924040 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
923964 GTTCTTTATA
923974 TATCGATACAATGAACATG
1 TATCGATACAATGAACATG
*
923993 TGTCGATACAATGAACATG
1 TATCGATACAATGAACATG
* * *
924012 TGTCGATACAAAGCAATATG
1 TATCGATACAATG-AACATG
924032 TATCGATAC
1 TATCGATAC
924041 TTTTGGGCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
19 30 0.70
20 13 0.30
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (19 bp):
TATCGATACAATGAACATG
Found at i:926250 original size:22 final size:22
Alignment explanation
Indices: 926222--926274 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
926212 TTGCTGGTTG
926222 AGGTGGCTGATATCATTGTCTA
1 AGGTGGCTGATATCATTGTCTA
*
926244 AGGTGGCTGATATCATTGTTTA
1 AGGTGGCTGATATCATTGTCTA
*
926266 TGGTGGCTG
1 AGGTGGCTG
926275 GCATAGCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.11, G:0.32, T:0.38
Consensus pattern (22 bp):
AGGTGGCTGATATCATTGTCTA
Found at i:930878 original size:52 final size:51
Alignment explanation
Indices: 930788--930987 Score: 193
Period size: 52 Copynumber: 3.9 Consensus size: 51
930778 GAAGAATAAT
* * * ** * *
930788 AAAGGTTCTAATATGCGGATTCAAGGCCAATGATATTGGGCTTAACGATGAC
1 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA-GATGAC
* * *
930840 AAAGGTGTTAATGTGCTGATTCAAAGCCAGGGACATTGGACTTAAAGATGAC
1 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAGATGAC
* ** * * *
930892 AAAGGTGCCAATGTGCTGATTCAAGGCCAATGATATTGGACTTGAAGATAAG
1 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAGATGAC
* * * *
930944 AAAGGTGCTAATGTGTTGATTCAAGGTCAGCAACATTGGGCTTA
1 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
930988 GAAAGTGTGG
Statistics
Matches: 121, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
51 1 0.01
52 118 0.98
53 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.27
Consensus pattern (51 bp):
AAAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGATGAC
Found at i:931218 original size:96 final size:96
Alignment explanation
Indices: 931038--931551 Score: 514
Period size: 96 Copynumber: 5.4 Consensus size: 96
931028 CTAACGACAT
* * * * *
931038 TGGGC-TTAGAAGGAGATGCCACCAACTTGTGTGGGCTTT-A-AAGAGG-TG-CAACTGATTTGT
1 TGGGCTTTAGAAGG-GTTGCCATCGACTTGTGTGGGCTTTGAGAAGAGGTTGCCACCT-ACTTGT
* ** *
931098 GTGGGCTTTAGAAAGGGTTATCACCAA-TTCATG
64 GTGGGCTTTAGAAAAGGTTGCCACCAACTT-GTG
* * * *
931131 TTGGCTTTAGAAGGGTTGCCATTGGCTTGTGTAGGCTTTAGAGAAGA-GTTGCCACCTACTTGTG
1 TGGGCTTTAGAAGGGTTGCCATCGACTTGTGTGGGCTTT-GAGAAGAGGTTGCCACCTACTTGTG
* * * *
931195 TGGACTTT-GAGGAGGGTTGTCACCAACTTGTG
65 TGGGCTTTAGA-AAAGGTTGCCACCAACTTGTG
* * * *
931227 TGGGCTTTGAGAAGGGTTGCCATCAACTTGTGTGGGCTTT-TGAAGAGGTTGCCACCAATTTGTG
1 TGGGCTTT-AGAAGGGTTGCCATCGACTTGTGTGGGCTTTGAGAAGAGGTTGCCACCTACTTGTG
931291 TGGGCTTTAGAGAAAGGTTGCCACCAACTTGTG
65 TGGGCTTTAGA-AAAGGTTGCCACCAACTTGTG
**
931324 TAAGCTTTAGAAGGGTTGCCATCGACTTGTGTGGGCTTT-A-AAGAAGGTTGCCA-CTGACTTGT
1 TGGGCTTTAGAAGGGTTGCCATCGACTTGTGTGGGCTTTGAGAAG-AGGTTGCCACCT-ACTTGT
* *
931386 GTGGGCTTTAGAGAAGGTTGCCATCAACTTGTG
64 GTGGGCTTTAGAAAAGGTTGCCACCAACTTGTG
* * *
931419 TGGGCTTTATAAGAGGTTGCCATCGACTTTTGTGGGCTTTG-GAAGAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAG-GGTTGCCATCGACTTGTGTGGGCTTTGAGAAGAGGTTGCCACCTACTTGTG
* * * *
931483 TGGGTTTTAGAGAAGGGTTGCCATCGACTTGTG
65 TGGGCTTTAGA-AAAGGTTGCCACCAACTTGTG
* * *
931516 TGGGCTTTAGAAAGGGTTGCCACCAACTTGTATGGG
1 TGGGCTTTAG-AAGGGTTGCCATCGACTTGTGTGGG
931552 TTTAAAAGGA
Statistics
Matches: 355, Mismatches: 47, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
93 23 0.06
94 8 0.02
95 42 0.12
96 170 0.48
97 109 0.31
98 3 0.01
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.31
Consensus pattern (96 bp):
TGGGCTTTAGAAGGGTTGCCATCGACTTGTGTGGGCTTTGAGAAGAGGTTGCCACCTACTTGTGT
GGGCTTTAGAAAAGGTTGCCACCAACTTGTG
Found at i:931226 original size:32 final size:32
Alignment explanation
Indices: 931038--931551 Score: 446
Period size: 32 Copynumber: 16.1 Consensus size: 32
931028 CTAACGACAT
*
931038 TGGGC-TT-AGAAGGAGATGCCACCAACTTGTG
1 TGGGCTTTGAGAAGG-GTTGCCACCAACTTGTG
* ** *
931069 TGGGCTTT-A-AAGAGG-TGCAACTGATTTGTG
1 TGGGCTTTGAGAAG-GGTTGCCACCAACTTGTG
** *
931099 TGGGCTTT-AGAAAGGGTTATCACCAA-TTCATG
1 TGGGCTTTGAG-AAGGGTTGCCACCAACTT-GTG
* ****
931131 TTGGCTTT-AGAAGGGTTGCCATTGGCTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCAACTTGTG
* * *
931162 TAGGCTTTAGAGAAGAGTTGCCACCTACTTGTG
1 TGGGCTTT-GAGAAGGGTTGCCACCAACTTGTG
* * *
931195 TGGACTTTGAGGAGGGTTGTCACCAACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCAACTTGTG
*
931227 TGGGCTTTGAGAAGGGTTGCCATCAACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCAACTTGTG
* *
931259 TGGGCTTT-TGAAGAGGTTGCCACCAATTTGTG
1 TGGGCTTTGAGAAG-GGTTGCCACCAACTTGTG
*
931291 TGGGCTTTAGAGAAAGGTTGCCACCAACTTGTG
1 TGGGCTTT-GAGAAGGGTTGCCACCAACTTGTG
** * *
931324 TAAGCTTT-AGAAGGGTTGCCATCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCAACTTGTG
* **
931355 TGGGCTTTAAAGAA-GGTTGCCACTGACTTGTG
1 TGGGCTTT-GAGAAGGGTTGCCACCAACTTGTG
*
931387 TGGGCTTTAGAGAA-GGTTGCCATCAACTTGTG
1 TGGGCTTT-GAGAAGGGTTGCCACCAACTTGTG
* * * *
931419 TGGGCTTT-ATAAGAGGTTGCCATCGACTTTTG
1 TGGGCTTTGAGAAG-GGTTGCCACCAACTTGTG
*
931451 TGGGCTTTG-GAAGAGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAG-GGTTGCCACCAACTTGTG
* * *
931483 TGGGTTTTAGAGAAGGGTTGCCATCGACTTGTG
1 TGGGCTTT-GAGAAGGGTTGCCACCAACTTGTG
*
931516 TGGGCTTT-AGAAAGGGTTGCCACCAACTTGTA
1 TGGGCTTTGAG-AAGGGTTGCCACCAACTTGTG
931548 TGGG
1 TGGG
931552 TTTAAAAGGA
Statistics
Matches: 398, Mismatches: 65, Indels: 39
0.79 0.13 0.08
Matches are distributed among these distances:
30 23 0.06
31 63 0.16
32 229 0.58
33 76 0.19
34 7 0.02
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.31
Consensus pattern (32 bp):
TGGGCTTTGAGAAGGGTTGCCACCAACTTGTG
Found at i:943709 original size:13 final size:13
Alignment explanation
Indices: 943691--943716 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
943681 ACATTTTAGG
943691 ATGTATCGATACA
1 ATGTATCGATACA
943704 ATGTATCGATACA
1 ATGTATCGATACA
943717 TATTGGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:943733 original size:32 final size:33
Alignment explanation
Indices: 943669--943736 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
943659 CATTACAAGC
* *
943669 CAATGTATTGATACATTTTAGGATGTATCGATA
1 CAATGTATCGATACATATTAGGATGTATCGATA
*
943702 CAATGTATCGATACATATT-GGGTGTATCGATA
1 CAATGTATCGATACATATTAGGATGTATCGATA
943734 CAA
1 CAA
943737 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATATTAGGATGTATCGATA
Found at i:943824 original size:20 final size:21
Alignment explanation
Indices: 943777--943829 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
943767 GCCAATGACC
*
943777 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
943798 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
943818 TGTATCGATACA
1 TGTATCGATACA
943830 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:952477 original size:33 final size:32
Alignment explanation
Indices: 952435--952502 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
952425 TGTTACAAGC
* * *
952435 CAATGTATCGATACATTTTGGGATGTGTCGATA
1 CAATGTATCGATACATATTGGG-TGTATCAATA
952468 CAATGTATCGATACATATTGGGTGTATCAATA
1 CAATGTATCGATACATATTGGGTGTATCAATA
952500 CAA
1 CAA
952503 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 11 0.34
33 21 0.66
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCAATA
Found at i:952601 original size:13 final size:13
Alignment explanation
Indices: 952583--952607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
952573 ACATGTGGTC
952583 ATGTATCGATACA
1 ATGTATCGATACA
952596 ATGTATCGATAC
1 ATGTATCGATAC
952608 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:952602 original size:33 final size:31
Alignment explanation
Indices: 952560--952628 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 31
952550 ATACATTCTT
*
952560 TACAAGTATCGATACATGTG-GTCATGTATCGA
1 TACAAGTATCGATAC-TGTGAATC-TGTATCGA
952592 TACAATGTATCGATACTGTGCAATCTGTATCGA
1 TACAA-GTATCGATACTGTG-AATCTGTATCGA
952625 TACA
1 TACA
952629 TTTGAAGGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
32 9 0.27
33 22 0.67
34 2 0.06
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (31 bp):
TACAAGTATCGATACTGTGAATCTGTATCGA
Found at i:953259 original size:156 final size:155
Alignment explanation
Indices: 952921--953310 Score: 410
Period size: 156 Copynumber: 2.5 Consensus size: 155
952911 ATCCTAACAA
* * * * * * * *
952921 ACCCAGTGACAACTTAGGA-TGCAGTTCTAAAGAATTATCAGAATACCTCTAGGGGACACCTTCG
1 ACCCAGTGACAACCTAAGACT-CAATTCTAAAAAATTACCAAAATACCCCTAGGGGATACCTTCG
* * *
952985 ACGTGAAAGAATCTCGACTCCCCTAAAGGACCTAAAAAGATGTAAAATGGGATGAACTTATCCTA
65 ACGTGAAAGTATCTCGACTCCCCTAAAGGACCTAAAAAGATATAAAATGGGATGAACCTATCCTA
* * *
953050 AATACTCATCTTGGGCATAAAAGTAG
130 AATACCCATCTTCGGCATAAAAGGAG
* * * * *
953076 ACCCAGTGATAACTTAGGACTCAATTCTAGAAAATTACCAAAATTCCCCTAGGGGATACCTTCGA
1 ACCCAGTGACAACCTAAGACTCAATTCTAAAAAATTACCAAAATACCCCTAGGGGATACCTTCGA
* * ** * *
953141 TGTGAAAGTATCTCG-GTACCTTTAGAGGACTTAAAAAGAATATAAAATGGGATGAACCTATCCT
66 CGTGAAAGTATCTCGACT-CCCCTAAAGGACCTAAAAAG-ATATAAAATGGGATGAACCTATCCT
953205 AAATACCCA-CTTTCGGCATAAAAGCGA-
129 AAATACCCATC-TTCGGCATAAAAG-GAG
* * * ** * *
953232 ACCCGGTGACAACCTAAGACTCGATTCTAAAAAATTATCAAAATACCTTTAGGGGATACTTTCAA
1 ACCCAGTGACAACCTAAGACTCAATTCTAAAAAATTACCAAAATACCCCTAGGGGATACCTTCGA
*
953297 CGTGAAACTATCTC
66 CGTGAAAGTATCTC
953311 AGTAACCCTA
Statistics
Matches: 195, Mismatches: 35, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
154 1 0.01
155 84 0.43
156 109 0.56
157 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (155 bp):
ACCCAGTGACAACCTAAGACTCAATTCTAAAAAATTACCAAAATACCCCTAGGGGATACCTTCGA
CGTGAAAGTATCTCGACTCCCCTAAAGGACCTAAAAAGATATAAAATGGGATGAACCTATCCTAA
ATACCCATCTTCGGCATAAAAGGAG
Found at i:955067 original size:12 final size:12
Alignment explanation
Indices: 955042--955082 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
955032 TCCATCCTTC
*
955042 TTTTTTCATTTCT
1 TTTTTTC-TCTCT
955055 TTTTTTCTCTCT
1 TTTTTTCTCTCT
*
955067 TTTTTTCTCTAT
1 TTTTTTCTCTCT
955079 TTTT
1 TTTT
955083 CTTTCACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 19 0.73
13 7 0.27
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTCTCTCT
Found at i:955221 original size:19 final size:20
Alignment explanation
Indices: 955184--955221 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
955174 TGTTTTTTAT
* *
955184 CTTTTTTCTTTTTTTATTTC
1 CTTTTTTCTTGTTTAATTTC
955204 CTTTTTT-TTGTTTAATTT
1 CTTTTTTCTTGTTTAATTT
955222 TGATTAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.08, C:0.11, G:0.03, T:0.79
Consensus pattern (20 bp):
CTTTTTTCTTGTTTAATTTC
Done.