Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 38 of 187
Found at i:11916039 original size:25 final size:24
Alignment explanation
Indices: 11915865--11916039 Score: 120
Period size: 25 Copynumber: 7.0 Consensus size: 24
11915855 CCGTTATTTA
* * *
11915865 GCTCTTATGAGCATCCTGTTATATG
1 GCTCTCATGAGCTTCCCGTTA-ATG
* *
11915890 GCTCTCATGAGCTTCCCGATATTAG
1 GCTCTCATGAGCTTCCCGTTAAT-G
* *
11915915 GCTCTCATGACCTTCCCAATTAATG
1 GCTCTCATGAGCTTCCC-GTTAATG
* * * *
11915940 GCTTTCTTGAGATTCCCGTTTATG
1 GCTCTCATGAGCTTCCCGTTAATG
**
11915964 GCTCGT-ATGAGCTTCCCAATAATTG
1 GCTC-TCATGAGCTTCCCGTTAA-TG
* *
11915989 GCT-TGCAAGAGCTTCCCATTATATG
1 GCTCT-CATGAGCTTCCCGTTA-ATG
*
11916014 GCTCACATGAGCTTCCCGTTACATG
1 GCTCTCATGAGCTTCCCGTTA-ATG
11916039 G
1 G
11916040 TTCAAAAGAG
Statistics
Matches: 115, Mismatches: 27, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
23 1 0.01
24 20 0.17
25 90 0.78
26 4 0.03
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (24 bp):
GCTCTCATGAGCTTCCCGTTAATG
Found at i:11916050 original size:25 final size:25
Alignment explanation
Indices: 11915995--11916063 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
11915985 ATTGGCTTGC
* * *
11915995 AAGAGCTTCCCATTATATGGCTCAC
1 AAGAGCTTCCCGTTACATGGCTCAA
* *
11916020 ATGAGCTTCCCGTTACATGGTTCAA
1 AAGAGCTTCCCGTTACATGGCTCAA
*
11916045 AAGAGCTTCCTGATTACAT
1 AAGAGCTTCCCG-TTACAT
11916064 ACTCGTATGG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 30 0.83
26 6 0.17
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (25 bp):
AAGAGCTTCCCGTTACATGGCTCAA
Found at i:11923588 original size:2 final size:2
Alignment explanation
Indices: 11923581--11923608 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11923571 AAAAAGGTTC
11923581 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
11923609 TCAGCCTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11926690 original size:17 final size:17
Alignment explanation
Indices: 11926670--11926704 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11926660 AATTTTAATT
**
11926670 ATAATAAAGTAAATAAA
1 ATAATAAAACAAATAAA
11926687 ATAATAAAACAAATAAA
1 ATAATAAAACAAATAAA
11926704 A
1 A
11926705 GGAAAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (17 bp):
ATAATAAAACAAATAAA
Found at i:11930122 original size:2 final size:2
Alignment explanation
Indices: 11930115--11930139 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11930105 GTTCAAGTAA
11930115 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11930140 ACATATGATG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11933286 original size:19 final size:18
Alignment explanation
Indices: 11933262--11933334 Score: 56
Period size: 19 Copynumber: 3.9 Consensus size: 18
11933252 TTTTTCTTCT
11933262 CTTCAACAGAAAGCAAAAA
1 CTTCAACAGAAA-CAAAAA
**
11933281 CTTCAACTCAAACAAAAGA
1 CTTCAACAGAAACAAAA-A
* *
11933300 CTTAAATAGAAACACAAAA
1 CTTCAACAGAAACA-AAAA
* * *
11933319 CATCAATAGAAGCAAA
1 CTTCAACAGAAACAAA
11933335 TTTTTGGTTG
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
18 7 0.16
19 33 0.77
20 3 0.07
ACGTcount: A:0.58, C:0.21, G:0.08, T:0.14
Consensus pattern (18 bp):
CTTCAACAGAAACAAAAA
Found at i:11934236 original size:21 final size:23
Alignment explanation
Indices: 11934194--11934238 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
11934184 TGTCTAAATA
**
11934194 TTTAATATTATAATTTTCTATTT
1 TTTAATATTATAATTTAATATTT
11934217 TTTAAT-TTA-AATTTAATATTT
1 TTTAATATTATAATTTAATATTT
11934238 T
1 T
11934239 ACTTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 3 0.15
23 6 0.30
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTAATATTATAATTTAATATTT
Found at i:11939568 original size:14 final size:14
Alignment explanation
Indices: 11939549--11939591 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
11939539 AGTAATTTAA
11939549 TTTCAAATTAATTT
1 TTTCAAATTAATTT
11939563 TTTCAAATATAATATT
1 TTTCAAAT-TAAT-TT
*
11939579 TTT-TAATTAATTT
1 TTTCAAATTAATTT
11939592 AATATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 2 0.08
14 12 0.46
15 7 0.27
16 5 0.19
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTCAAATTAATTT
Found at i:11939644 original size:11 final size:11
Alignment explanation
Indices: 11939581--11939653 Score: 50
Period size: 11 Copynumber: 6.9 Consensus size: 11
11939571 ATAATATTTT
11939581 TTAA-TTAAT-
1 TTAATTTAATA
11939590 TTAATATTAA-A
1 TTAAT-TTAATA
11939601 TTTAATTTAATA
1 -TTAATTTAATA
* *
11939613 TTTATCTAGATA
1 TTAATTTA-ATA
*
11939625 ATAA--T-ATA
1 TTAATTTAATA
11939633 TTAATTTAATA
1 TTAATTTAATA
11939644 TTAATTTAAT
1 TTAATTTAAT
11939654 TTCTATCTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
8 6 0.12
9 4 0.08
10 2 0.04
11 27 0.54
12 11 0.22
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (11 bp):
TTAATTTAATA
Found at i:11943663 original size:33 final size:33
Alignment explanation
Indices: 11943621--11943686 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
11943611 AAAATTGTTT
11943621 TATAAAATTGTTTATTTTACACGTACATGCAAA
1 TATAAAATTGTTTATTTTACACGTACATGCAAA
* *
11943654 TATAAAATTGTTTATTTTACATGTACGTGCAAA
1 TATAAAATTGTTTATTTTACACGTACATGCAAA
11943687 CCCTGTCACC
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:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (33 bp):
TATAAAATTGTTTATTTTACACGTACATGCAAA
Found at i:11945625 original size:3 final size:3
Alignment explanation
Indices: 11945613--11945694 Score: 57
Period size: 3 Copynumber: 28.3 Consensus size: 3
11945603 ATTTTTTAGC
* * * * *
11945613 TAT T-T TAT TAT TAT T-T TTT TA- TGT TAT TAT CAT TA- TAC CAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
*
11945658 TAT TAT TA- TAT TATT TAT TAT CAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
11945695 TCTATATTCG
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
2 9 0.15
3 47 0.76
4 6 0.10
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:11945670 original size:15 final size:16
Alignment explanation
Indices: 11945652--11945694 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
11945642 TCATTATACC
11945652 ATTATTTATTATTA-T
1 ATTATTTATTATTATT
*
11945667 ATTATTTATTATCATT
1 ATTATTTATTATTATT
11945683 ATTA-TTATTATT
1 ATTATTTATTATT
11945695 TCTATATTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTATTTATTATTATT
Found at i:11945766 original size:22 final size:22
Alignment explanation
Indices: 11945728--11945783 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
11945718 TTTTTTATAA
* *
11945728 TATATATATATATGCATT-TTT
1 TATATATATACACGCATTGTTT
11945749 TATATAGTATACACGCATTGTTTT
1 TATATA-TATACACGCATTG-TTT
11945773 TATAATATATA
1 TAT-ATATATA
11945784 TATATGCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 6 0.21
22 10 0.34
24 10 0.34
25 3 0.10
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (22 bp):
TATATATATACACGCATTGTTT
Found at i:11945785 original size:26 final size:26
Alignment explanation
Indices: 11945708--11945785 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 26
11945698 ATATTCGTAC
11945708 ACACGCATTGTTTTTTATAATATATATAT
1 ACACGCATTG-TTTTTAT-A-ATATATAT
* * *
11945737 ATATGCA-T-TTTTTAT-ATA-GTAT
1 ACACGCATTGTTTTTATAATATATAT
11945759 ACACGCATTGTTTTTATAATATATAT
1 ACACGCATTGTTTTTATAATATATAT
11945785 A
1 A
11945786 TATGCATTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
22 8 0.21
23 4 0.10
24 7 0.18
25 3 0.08
26 11 0.28
28 1 0.03
29 5 0.13
ACGTcount: A:0.35, C:0.09, G:0.08, T:0.49
Consensus pattern (26 bp):
ACACGCATTGTTTTTATAATATATAT
Found at i:11946464 original size:19 final size:19
Alignment explanation
Indices: 11946436--11946481 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
11946426 CAAATTTTCT
**
11946436 TATATATTGTACTTATATA
1 TATATATTGTAAATATATA
*
11946455 TATATTTTGTAAATATATA
1 TATATATTGTAAATATATA
11946474 TATATATT
1 TATATATT
11946482 TCATATTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATATTGTAAATATATA
Found at i:11950025 original size:22 final size:19
Alignment explanation
Indices: 11949978--11950016 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
11949968 TGGAAGGCTG
11949978 AAAGAAAGGAAACAAAATC
1 AAAGAAAGGAAACAAAATC
11949997 AAAGAAAGAAGAAACAAAAT
1 AAAGAAAG--GAAACAAAAT
11950017 ATAAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.72, C:0.08, G:0.15, T:0.05
Consensus pattern (19 bp):
AAAGAAAGGAAACAAAATC
Found at i:11950743 original size:7 final size:7
Alignment explanation
Indices: 11950726--11950755 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
11950716 ATATTATGTC
11950726 AAATA-A
1 AAATATA
11950732 AAATATA
1 AAATATA
11950739 AAATATA
1 AAATATA
11950746 AAATATA
1 AAATATA
11950753 AAA
1 AAA
11950756 ATTCAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAATATA
Found at i:11950774 original size:18 final size:18
Alignment explanation
Indices: 11950753--11950804 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
11950743 ATAAAATATA
11950753 AAAATTCAAAAAAATTAT
1 AAAATTCAAAAAAATTAT
*
11950771 AAAATTCATAAAAGAACTAT
1 AAAATTCA-AAAA-AATTAT
*
11950791 TAAATT-AAAAAAAT
1 AAAATTCAAAAAAAT
11950805 CAAAACTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.07
18 12 0.41
19 5 0.17
20 10 0.34
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAATTCAAAAAAATTAT
Found at i:11964128 original size:16 final size:16
Alignment explanation
Indices: 11964104--11964141 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
11964094 ATTGGTTCGC
* *
11964104 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
11964120 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
11964136 TGTAAT
1 TGTAAT
11964142 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:11964186 original size:45 final size:44
Alignment explanation
Indices: 11964120--11964210 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
11964110 GGATTAGAGG
*
11964120 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
11964165 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
11964209 TG
1 TG
11964211 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 18 0.44
45 23 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:11964662 original size:91 final size:90
Alignment explanation
Indices: 11964565--11964756 Score: 242
Period size: 90 Copynumber: 2.1 Consensus size: 90
11964555 TAGTAATTTA
** *
11964565 TGTTAGTGTTTTGTGATTTTTTAGTAATGTAAAAT-ATTAAAAAAATATTTTTATAGTTATTTCG
1 TGTTAGTGTTTTGTGATTTAATAGTAATGTAAAATCATTAAAAAAA-A-TGTTATAGTTATTTCG
11964629 TTAGTAATTTATAATTAGTTTACAAAT
64 TTAGTAATTTATAATTAGTTTACAAAT
* * ***** *
11964656 TGTTAGTGTTTTGTGATTTAATAGTAATGTAAATTCTTTTTTTTAAATGTTATAGTTATTTTGTT
1 TGTTAGTGTTTTGTGATTTAATAGTAATGTAAAATCATTAAAAAAAATGTTATAGTTATTTCGTT
* *
11964721 AGTAATTTATGATTAGTTTATAAAT
66 AGTAATTTATAATTAGTTTACAAAT
11964746 TGTTAGTGTTT
1 TGTTAGTGTTT
11964757 AGTTTATGGT
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
90 50 0.57
91 33 0.38
92 4 0.05
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.54
Consensus pattern (90 bp):
TGTTAGTGTTTTGTGATTTAATAGTAATGTAAAATCATTAAAAAAAATGTTATAGTTATTTCGTT
AGTAATTTATAATTAGTTTACAAAT
Found at i:11964845 original size:103 final size:105
Alignment explanation
Indices: 11964658--11964916 Score: 366
Period size: 105 Copynumber: 2.5 Consensus size: 105
11964648 TTACAAATTG
** * *
11964658 TTAGTGTTTTGTGATTTAATAGTAATGTAAATTCTTTTTT-TTA-AATGTTATAGTTATTTTGTT
1 TTAGTGTTTTGTGATTTTTTAGTAATGTAAATT-TTTTTTAATATAATTTTATAGTTATTTTGTT
*
11964721 AGTAATTTATGATTA-GTT-TATAAATTGTTAGTGTTTAGT
65 AGTAATTAATGATTAGGTTATATAAATTGTTAGTGTTTAGT
* *
11964760 TTA-TGGTTTTGTGATTTTTTAGTAATGTAAATTTTTTTTAAAATAATTTTATAGTTTTTTTGTT
1 TTAGT-GTTTTGTGATTTTTTAGTAATGTAAATTTTTTTTAATATAATTTTATAGTTATTTTGTT
11964824 AGTAATTAATGATTAGGTTATATAAATTGTTAGTGTTTAGT
65 AGTAATTAATGATTAGGTTATATAAATTGTTAGTGTTTAGT
* * * *
11964865 TTAGTGTTTTGTGATTTTTTATTAATGTAACTTTTTTATAATGTAATTTTAT
1 TTAGTGTTTTGTGATTTTTTAGTAATGTAAATTTTTTTTAATATAATTTTAT
11964917 TTTTATTTGA
Statistics
Matches: 139, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
101 7 0.05
102 30 0.22
103 32 0.23
104 3 0.02
105 66 0.47
106 1 0.01
ACGTcount: A:0.27, C:0.01, G:0.15, T:0.57
Consensus pattern (105 bp):
TTAGTGTTTTGTGATTTTTTAGTAATGTAAATTTTTTTTAATATAATTTTATAGTTATTTTGTTA
GTAATTAATGATTAGGTTATATAAATTGTTAGTGTTTAGT
Found at i:11964906 original size:16 final size:16
Alignment explanation
Indices: 11964878--11964914 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
11964868 GTGTTTTGTG
11964878 ATTTTTTATTAATGTA
1 ATTTTTTATTAATGTA
11964894 ACTTTTTTA-TAATGTA
1 A-TTTTTTATTAATGTA
11964910 ATTTT
1 ATTTT
11964915 ATTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 9 0.45
17 7 0.35
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (16 bp):
ATTTTTTATTAATGTA
Found at i:11972854 original size:13 final size:12
Alignment explanation
Indices: 11972820--11972860 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
11972810 AATTAGGAAC
11972820 GAAAAGAAAAAA
1 GAAAAGAAAAAA
11972832 GAAAAGAAAAGAA
1 GAAAAGAAAA-AA
*
11972845 GAACA-AAAAAA
1 GAAAAGAAAAAA
11972856 GAAAA
1 GAAAA
11972861 AAATGAGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 6 0.23
12 14 0.54
13 6 0.23
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (12 bp):
GAAAAGAAAAAA
Found at i:11974270 original size:45 final size:45
Alignment explanation
Indices: 11974153--11974588 Score: 309
Period size: 45 Copynumber: 9.8 Consensus size: 45
11974143 TAAACTAAAA
* ** * *
11974153 ATAGCAGATCTTGCCTTCATGTACTGACAGTAAAGTA-GATCGAAG
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGGCT-GAAG
* * * * *
11974198 ACACCAG-CCTTGTCTTCTTGTACTGACAGCGAAGCAGGCTGAAG
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGGCTGAAG
* * * *
11974242 ATAGCAGATCTTACCTTCTTGTACTGACAGCGAAGCAGACTAAAG
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGGCTGAAG
* * * * *
11974287 ATAGCATATCTTGTCTTTCTGTACTGACAGCGAAGTA-GATCGAAG
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGGCT-GAAG
* * * * * *
11974332 ACA-C-GAGCCTTACCTTTCTGTATTGACAGCGAAAC-GGACTGAAG
1 ATAGCAGA-TCTTGCCTTCCTGTACTGACAGCGAAGCAGG-CTGAAG
* * * *
11974376 ATAACAGATCTTGCCTTCCTGTACTGACAGTGAAGTA-GATCGAAG
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGGCT-GAAG
* * * * * **
11974421 ACACCAG-CCTTGCATTCCTGTACTGACAGCGGAGCAAACTGAAG
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGGCTGAAG
*
11974465 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCA-GATCGAAG
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGGCT-GAAG
* * * * * * *
11974510 ACACCA-ACCTTGCCTTCCTATACTGACAGTGGAGCAGACTGAAG
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGGCTGAAG
* * *
11974554 ATAGCAGA-CATTGCCTTTCTGTACTGGCAGTGAAG
1 ATAGCAGATC-TTGCCTTCCTGTACTGACAGCGAAG
11974589 TAGATCAGAA
Statistics
Matches: 302, Mismatches: 73, Indels: 32
0.74 0.18 0.08
Matches are distributed among these distances:
43 1 0.00
44 133 0.44
45 166 0.55
46 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (45 bp):
ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGGCTGAAG
Found at i:11974359 original size:134 final size:134
Alignment explanation
Indices: 11974146--11974410 Score: 356
Period size: 134 Copynumber: 2.0 Consensus size: 134
11974136 AGCGGAGTAA
* **
11974146 ACTAAAAATAGCAGATCTTGCCTTCATGTACTGACAGTAAAGTAGATCGAAGACACCAGCCTTGT
1 ACTAAAAATAGCAGATCTTGCCTTCATGTACTGACAGCAAAGTAGATCGAAGACACCAGCCTTAC
* * *
11974211 CTTCTTGTACTGACAGCGAAGCAGG-CTGAAGATAGCAGATCTTACCTTCTTGTACTGACAGCGA
66 CTTCTTGTACTGACAGCGAAAC-GGACTGAAGATAACAGATCTTACCTTCCTGTACTGACAGCGA
11974275 AGCAG
130 AGCAG
* * * * *
11974280 ACTAAAGATAGCATATCTTGTCTTTC-TGTACTGACAGCGAAGTAGATCGAAGACACGAGCCTTA
1 ACTAAAAATAGCAGATCTTG-CCTTCATGTACTGACAGCAAAGTAGATCGAAGACACCAGCCTTA
* * *
11974344 CCTT-TCTGTATTGACAGCGAAACGGACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGTG
65 CCTTCT-TGTACTGACAGCGAAACGGACTGAAGATAACAGATCTTACCTTCCTGTACTGACAGCG
11974408 AAG
129 AAG
11974411 TAGATCGAAG
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
133 3 0.03
134 107 0.94
135 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (134 bp):
ACTAAAAATAGCAGATCTTGCCTTCATGTACTGACAGCAAAGTAGATCGAAGACACCAGCCTTAC
CTTCTTGTACTGACAGCGAAACGGACTGAAGATAACAGATCTTACCTTCCTGTACTGACAGCGAA
GCAG
Found at i:11974387 original size:89 final size:89
Alignment explanation
Indices: 11974206--11974599 Score: 450
Period size: 89 Copynumber: 4.4 Consensus size: 89
11974196 AGACACCAGC
* * * * * * * *
11974206 CTTGTCTTCTTGTACTGACAGCGAAGCAG-GCTGAAGATAGCAGATCTTACCTTCTTGTACTGAC
1 CTTGCCTTCCTGTACTGACAGCGAAGTAGATC-GAAGACACCAG-CCTTACCTTCCTGTACTGAC
* *
11974270 AGCGAAGCAGACTAAAGATAGCATAT
64 AGCGAAGCAGACTGAAGATAGCAGAT
* * * * *
11974296 CTTGTCTTTCTGTACTGACAGCGAAGTAGATCGAAGACACGAGCCTTACCTTTCTGTATTGACAG
1 CTTGCCTTCCTGTACTGACAGCGAAGTAGATCGAAGACACCAGCCTTACCTTCCTGTACTGACAG
* * *
11974361 CGAAACGGACTGAAGATAACAGAT
66 CGAAGCAGACTGAAGATAGCAGAT
* * *
11974385 CTTGCCTTCCTGTACTGACAGTGAAGTAGATCGAAGACACCAGCCTTGCATTCCTGTACTGACAG
1 CTTGCCTTCCTGTACTGACAGCGAAGTAGATCGAAGACACCAGCCTTACCTTCCTGTACTGACAG
* *
11974450 CGGAGCAAACTGAAGATAGCAGAT
66 CGAAGCAGACTGAAGATAGCAGAT
* * * *
11974474 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTTCCTATACTGACAG
1 CTTGCCTTCCTGTACTGACAGCGAAGTAGATCGAAGACACCAGCCTTACCTTCCTGTACTGACAG
* *
11974539 TGGAGCAGACTGAAGATAGCAGA-
66 CGAAGCAGACTGAAGATAGCAGAT
* * *
11974562 CATTGCCTTTCTGTACTGGCAGTGAAGTAGATCAGAAG
1 C-TTGCCTTCCTGTACTGACAGCGAAGTAGATC-GAAG
11974600 CAGTAGCCTT
Statistics
Matches: 261, Mismatches: 40, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
88 1 0.00
89 221 0.85
90 38 0.15
91 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (89 bp):
CTTGCCTTCCTGTACTGACAGCGAAGTAGATCGAAGACACCAGCCTTACCTTCCTGTACTGACAG
CGAAGCAGACTGAAGATAGCAGAT
Found at i:11974847 original size:50 final size:50
Alignment explanation
Indices: 11974793--11975074 Score: 240
Period size: 50 Copynumber: 5.6 Consensus size: 50
11974783 ACAGTGAAAT
** *
11974793 GATTGAAGCTGTAATGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACA
1 GATTGAAGCTACAACGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACA
* * ** * ** * ** *
11974843 GATTGAAGCTACAATGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAA
1 GATTGAAGCTACAACGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACA
*** *
11974893 GATTGAAGCCGTAACGGTGAATCTTACTTCCTTGGTGGTGCAGTGGAACA
1 GATTGAAGCTACAACGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACA
*** * * ** ** * * * *
11974943 GATTGAAGCTACAACAACGAATCTTGCTTCCCTAACATTACAATTGAAAA
1 GATTGAAGCTACAACGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACA
* * *
11974993 GATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGTAGTGGAACA
1 GATTGAAGCTACAACGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACA
* *
11975043 GATTGAAGCTACAACAGCGAATCTTACTTCCT
1 GATTGAAGCTACAACGGTGAATCTTACTTCCT
11975075 CGACATTGTA
Statistics
Matches: 172, Mismatches: 60, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
50 172 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (50 bp):
GATTGAAGCTACAACGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACA
Found at i:11974925 original size:100 final size:100
Alignment explanation
Indices: 11974793--11975082 Score: 427
Period size: 100 Copynumber: 2.9 Consensus size: 100
11974783 ACAGTGAAAT
* * *
11974793 GATTGAAGCTGTAATGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAAT
1 GATTGAAGCCGTAACGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAAC
* *
11974858 GGTGAATCTTGCTTCCCCGACATTGCAATTAAAAA
66 AGCGAATCTTGCTTCCCCGACATTGCAATTAAAAA
*
11974893 GATTGAAGCCGTAACGGTGAATCTTACTTCCTTGGTGGTGCAGTGGAACAGATTGAAGCTACAAC
1 GATTGAAGCCGTAACGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAAC
* ** * *
11974958 AACGAATCTTGCTTCCCTAACATTACAATTGAAAA
66 AGCGAATCTTGCTTCCCCGACATTGCAATTAAAAA
** * *
11974993 GATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGTAGTGGAACAGATTGAAGCTACAAC
1 GATTGAAGCCGTAACGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAAC
* *
11975058 AGCGAATCTTACTTCCTCGACATTG
66 AGCGAATCTTGCTTCCCCGACATTG
11975083 TAGTTAATCA
Statistics
Matches: 168, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 168 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (100 bp):
GATTGAAGCCGTAACGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAAC
AGCGAATCTTGCTTCCCCGACATTGCAATTAAAAA
Found at i:11975288 original size:44 final size:42
Alignment explanation
Indices: 11975111--11975348 Score: 151
Period size: 44 Copynumber: 5.6 Consensus size: 42
11975101 AAACCAATCC
*
11975111 TATCTCCCTGAAGTTACAGTGGAGC-GAATTAAAAACACAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAG-A-T-AAAATACAGATCT
* * * * *** * *
11975155 TATCTCTCTAAAGTTACAGTAGAACAGATCGTATTCAG-TTT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATAAAATACAGATCT
* * * * * * *
11975196 TATCTCCCAGAAGTTGCAATGGAACAGACAAAAGAAATCA-ATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TAAA-ATA-CAGATCT
* *
11975240 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTACAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TAAAA-TACAGATCT
* * * * * *
11975284 TATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCAG-TAT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATAAAATACAGATCT
11975325 TATCTCCCTGAAGTTACAGTGGAG
1 TATCTCCCTGAAGTTACAGTGGAG
11975349 TAAACTAAAA
Statistics
Matches: 145, Mismatches: 42, Indels: 17
0.71 0.21 0.08
Matches are distributed among these distances:
41 48 0.33
42 8 0.06
43 8 0.06
44 80 0.55
45 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (42 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATAAAATACAGATCT
Found at i:11975328 original size:129 final size:129
Alignment explanation
Indices: 11975091--11975339 Score: 383
Period size: 129 Copynumber: 1.9 Consensus size: 129
11975081 TGTAGTTAAT
*
11975091 CAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCGAATTAAAAACACAGATCTT
1 CAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCGAATTAAAAACACAGATCTT
** * *
11975156 ATCTCTCTAAAGTTACAGTAGAACAGATCGTATTCAGTTTTATCTCCCAGAAGTTGCAATGGAA
66 ATCTCTCTAAAGTTACAGTAGAACAGATCACATCCAGTATTATCTCCCAGAAGTTGCAATGGAA
* * *
11975220 CAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAACTACAGATCT
1 CAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCGAATTAAAAAC-ACAGATCT
* * *
11975284 TATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCAGTATTATCTCCCTGAAGTT
65 TATCTCTCTAAAGTTACAGTAGAACAGATCACATCCAGTATTATCTCCCAGAAGTT
11975340 ACAGTGGAGT
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
128 5 0.05
129 103 0.95
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (129 bp):
CAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCGAATTAAAAACACAGATCTT
ATCTCTCTAAAGTTACAGTAGAACAGATCACATCCAGTATTATCTCCCAGAAGTTGCAATGGAA
Found at i:11977673 original size:74 final size:73
Alignment explanation
Indices: 11977538--11977681 Score: 198
Period size: 74 Copynumber: 2.0 Consensus size: 73
11977528 CTCGGATTTG
* ** *
11977538 AAAAAGGGATCATGCCTAATAAGTTAGGACACGATCTTTTCTTAATTCTTGAGATCGTTTAAAAC
1 AAAAAGGGATCATGCCTAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAAC
11977603 TTGAAAAA
66 TTGAAAAA
* * * * *
11977611 AAAAAGGGGATCATGCCTAGTAAGTTAGGACATGATCTCTTCTTGATTCCCGATATCATTTAATA
1 AAAAA-GGGATCATGCCTAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
11977676 CTTGAA
65 CTTGAA
11977682 TTTGAAAAGA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
73 5 0.08
74 56 0.92
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (73 bp):
AAAAAGGGATCATGCCTAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAAC
TTGAAAAA
Found at i:11978797 original size:17 final size:17
Alignment explanation
Indices: 11978754--11978829 Score: 55
Period size: 18 Copynumber: 4.3 Consensus size: 17
11978744 CGGACATTTT
11978754 TTTTTGGAAATAC-AAGAA
1 TTTTT-GAAATACGAA-AA
* *
11978772 TCTTAGAAATACGAAAA
1 TTTTTGAAATACGAAAA
*
11978789 TTTTTGAAAACACGAAAA
1 TTTTTG-AAATACGAAAA
* * *
11978807 TCTTTAAAAGACGAGAAA
1 TTTTTGAAATACGA-AAA
11978825 TTTTT
1 TTTTT
11978830 TTTTGAAAAC
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
17 20 0.43
18 26 0.57
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (17 bp):
TTTTTGAAATACGAAAA
Found at i:11978843 original size:23 final size:22
Alignment explanation
Indices: 11978789--11978873 Score: 99
Period size: 22 Copynumber: 4.0 Consensus size: 22
11978779 AATACGAAAA
11978789 TTTTTGAAAACACGAAAA----
1 TTTTTGAAAACACGAAAATTTT
* *
11978807 TCTTT-AAAAGACGAGAAATTTT
1 TTTTTGAAAACACGA-AAATTTT
*
11978829 TTTTTGAAAACACGAAAATTAT
1 TTTTTGAAAACACGAAAATTTT
11978851 TTTTTGAAAACACGAAAATTTT
1 TTTTTGAAAACACGAAAATTTT
11978873 T
1 T
11978874 GAAACACGAG
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
17 8 0.15
18 7 0.13
22 32 0.58
23 8 0.15
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (22 bp):
TTTTTGAAAACACGAAAATTTT
Found at i:11979087 original size:32 final size:34
Alignment explanation
Indices: 11979040--11979102 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
11979030 AATAAAATTA
*
11979040 AATACGACTAT-AAAAAATGCTTTAAAAAAACCT
1 AATACGACAATAAAAAAATGCTTTAAAAAAACCT
11979073 AATACGA-AATAAAAAAATGCTTTAAAAAAA
1 AATACGACAATAAAAAAATGCTTTAAAAAAA
11979103 ACAAGAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.22
Consensus pattern (34 bp):
AATACGACAATAAAAAAATGCTTTAAAAAAACCT
Found at i:11979247 original size:17 final size:17
Alignment explanation
Indices: 11979224--11979263 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
11979214 ACGACTCGGG
*
11979224 CTTTTTCCTTTTTTT-T
1 CTTTTTTCTTTTTTTCT
11979240 CTTTTTTCTTTTTTTCT
1 CTTTTTTCTTTTTTTCT
11979257 CTTTTTT
1 CTTTTTT
11979264 TGGCCTGCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (17 bp):
CTTTTTTCTTTTTTTCT
Found at i:11979375 original size:24 final size:24
Alignment explanation
Indices: 11979344--11979389 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
11979334 TGCTGGGTTG
11979344 GCCTGCTGCTGCACTAGGCCTGGA
1 GCCTGCTGCTGCACTAGGCCTGGA
*
11979368 GCCTGCTGCTGCACTGGGCCTG
1 GCCTGCTGCTGCACTAGGCCTG
11979390 CACTTGCTGT
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:0.09, C:0.35, G:0.35, T:0.22
Consensus pattern (24 bp):
GCCTGCTGCTGCACTAGGCCTGGA
Found at i:11979546 original size:16 final size:18
Alignment explanation
Indices: 11979524--11979572 Score: 66
Period size: 16 Copynumber: 2.8 Consensus size: 18
11979514 TTAGGCTGTT
11979524 GCGGGTCGGGTCGGA-TC
1 GCGGGTCGGGTCGGATTC
11979541 -CGGGTCGGGTCGCGATTC
1 GCGGGTCGGGTCG-GATTC
*
11979559 GTGGGTCGGGTCGG
1 GCGGGTCGGGTCGG
11979573 TCTGACCCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 12 0.43
17 2 0.07
18 3 0.11
19 11 0.39
ACGTcount: A:0.04, C:0.22, G:0.53, T:0.20
Consensus pattern (18 bp):
GCGGGTCGGGTCGGATTC
Found at i:11979627 original size:20 final size:22
Alignment explanation
Indices: 11979597--11979640 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
11979587 TTTCAATAAT
11979597 TTTTTTCCTTTCTTTCTT-TTC
1 TTTTTTCCTTTCTTTCTTCTTC
11979618 TTTTTT-CTTTCTTTCTTCTTC
1 TTTTTTCCTTTCTTTCTTCTTC
11979639 TT
1 TT
11979641 CTTCTTCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTTCCTTTCTTTCTTCTTC
Found at i:11979631 original size:24 final size:23
Alignment explanation
Indices: 11979596--11979643 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
11979586 TTTTCAATAA
11979596 TTTTTTTCCTTTCTTTCTT-TTCT
1 TTTTTTTCCTTTC-TTCTTCTTCT
*
11979619 TTTTTCTTTCTTTCTTCTTCTTCT
1 TTTTT-TTCCTTTCTTCTTCTTCT
11979643 T
1 T
11979644 CTTCTTCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTTTCCTTTCTTCTTCTTCT
Found at i:11979645 original size:20 final size:20
Alignment explanation
Indices: 11979604--11979646 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
11979594 AATTTTTTTC
*
11979604 CTTTCTTTCTTTTCTTTTTT
1 CTTTCTTTCTTTTCTTTCTT
11979624 CTTTCTTTCTTCTTC-TTCTT
1 CTTTCTTTCTT-TTCTTTCTT
11979644 CTT
1 CTT
11979647 CTTCAAGCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
CTTTCTTTCTTTTCTTTCTT
Found at i:11979784 original size:14 final size:15
Alignment explanation
Indices: 11979757--11979788 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
11979747 CTTTTGCTGC
11979757 TGAAACTCTTTTTTT
1 TGAAACTCTTTTTTT
11979772 TGAAACT-TTTTTTT
1 TGAAACTCTTTTTTT
11979786 TGA
1 TGA
11979789 TTCGGGGCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.22, C:0.09, G:0.09, T:0.59
Consensus pattern (15 bp):
TGAAACTCTTTTTTT
Found at i:11980044 original size:30 final size:29
Alignment explanation
Indices: 11980001--11980144 Score: 182
Period size: 30 Copynumber: 4.9 Consensus size: 29
11979991 TAATTTTGAG
*
11980001 AAAATTTAGGGGTCATAATGTAATTTCAA
1 AAAATTTAGGGGTCAAAATGTAATTTCAA
*
11980030 AAAATTTTATGGGTCAAAATGTAATTTCAA
1 AAAA-TTTAGGGGTCAAAATGTAATTTCAA
* * *
11980060 AAATTTTAGGGGTCAAAATATAATTTTAGA
1 AAAATTTAGGGGTCAAAATGTAATTTCA-A
*
11980090 AAAATTTAGGTGTCAAAATGTAATTTCAA
1 AAAATTTAGGGGTCAAAATGTAATTTCAA
* *
11980119 AAAGTTTAGGGG-CTAAAATATAATTT
1 AAAATTTAGGGGTC-AAAATGTAATTT
11980145 TTATTTTTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
28 1 0.01
29 47 0.47
30 51 0.52
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (29 bp):
AAAATTTAGGGGTCAAAATGTAATTTCAA
Found at i:11980145 original size:59 final size:59
Alignment explanation
Indices: 11980001--11980145 Score: 199
Period size: 59 Copynumber: 2.5 Consensus size: 59
11979991 TAATTTTGAG
* * *
11980001 AAAA-TTTAGGGGTCATAATGTAATTTCAAAAAATTTTATGGGTCAAAATGTAATTTCA
1 AAAAGTTTAGGGGTCAAAATATAATTTTAAAAAATTTTATGGGTCAAAATGTAATTTCA
*
11980059 AAAATTTTAGGGGTCAAAATATAATTTTAGAAAAA-TTTA-GGTGTCAAAATGTAATTTCA
1 AAAAGTTTAGGGGTCAAAATATAATTTTA-AAAAATTTTATGG-GTCAAAATGTAATTTCA
11980118 AAAAGTTTAGGGG-CTAAAATATAATTTT
1 AAAAGTTTAGGGGTC-AAAATATAATTTT
11980146 TATTTTTTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
58 7 0.09
59 67 0.85
60 5 0.06
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.36
Consensus pattern (59 bp):
AAAAGTTTAGGGGTCAAAATATAATTTTAAAAAATTTTATGGGTCAAAATGTAATTTCA
Found at i:11980285 original size:16 final size:19
Alignment explanation
Indices: 11980241--11980285 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 19
11980231 TAAAAACTAT
11980241 GTATATAAATATATATAGGC
1 GTATATAAATATATATA-GC
*
11980261 GTGTATAAAT-TATA-A-C
1 GTATATAAATATATATAGC
11980277 GTATATAAA
1 GTATATAAA
11980286 GAAATACAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 9 0.39
18 1 0.04
19 4 0.17
20 9 0.39
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (19 bp):
GTATATAAATATATATAGC
Found at i:11980382 original size:28 final size:28
Alignment explanation
Indices: 11980351--11980406 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
11980341 AAATATGTAC
* *
11980351 ATGTATATGTGTATATATATATTATAAA
1 ATGTATATATGTATATATACATTATAAA
* *
11980379 ATGTATGTATGTATATGTACATTATAAA
1 ATGTATATATGTATATATACATTATAAA
11980407 TAAAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (28 bp):
ATGTATATATGTATATATACATTATAAA
Found at i:11980556 original size:22 final size:22
Alignment explanation
Indices: 11980526--11980568 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11980516 ACACCAAAAC
*
11980526 AGGCTTTTAGCAGCGCTTTTTT
1 AGGCCTTTAGCAGCGCTTTTTT
*
11980548 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCAGCGCTTTTT
11980569 AGCGCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.21, G:0.26, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCAGCGCTTTTTT
Found at i:11980780 original size:127 final size:128
Alignment explanation
Indices: 11980623--11980859 Score: 325
Period size: 127 Copynumber: 1.9 Consensus size: 128
11980613 TAACTTTACC
* * * * *
11980623 GGCGCTTTTTCCACAAACGCCGCTATAGATCATGACCTTTAGCGGCGC-TTTCGCACAAACGCCG
1 GGCGCTTCTCCCACAAACGCCGCTAAAGATCATGACCTTTAGAGGCGCTTTTAGCACAAACGCCG
* * * *
11980687 CTAAAGACCACGACCTTTAGCGGTGCTT-TCCCACAAACGCCGCTATAGACCACGATCTTTAGT
66 CTAAAGAACA-AACCTTTAGCGGCGCTTCTCCCAAAAACGCCGCTATAGACCACGATCTTTAGT
* **
11980750 GGCGCTTCTCCCACAATCGCCGCTAAAGATCATGACCTTTAGAGGCGCTTTTATTACAAACGCCG
1 GGCGCTTCTCCCACAAACGCCGCTAAAGATCATGACCTTTAGAGGCGCTTTTAGCACAAACGCCG
**
11980815 CTAAAGAACAAACCTTTAGCGGCGCTTCTTGCAAAAACGCCGCTA
66 CTAAAGAACAAACCTTTAGCGGCGCTTCTCCCAAAAACGCCGCTA
11980860 AAAACATAAC
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
127 58 0.62
128 36 0.38
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.23
Consensus pattern (128 bp):
GGCGCTTCTCCCACAAACGCCGCTAAAGATCATGACCTTTAGAGGCGCTTTTAGCACAAACGCCG
CTAAAGAACAAACCTTTAGCGGCGCTTCTCCCAAAAACGCCGCTATAGACCACGATCTTTAGT
Found at i:11980832 original size:85 final size:85
Alignment explanation
Indices: 11980623--11980874 Score: 276
Period size: 85 Copynumber: 3.0 Consensus size: 85
11980613 TAACTTTACC
* * *
11980623 GGCGCTTTTTCCACAAACGCCGCTATAGATCATGACCTTTAGCGGCGCTT-TCGCACAAACGCCG
1 GGCGC-TTTACCACAAACGCCGCTATAGAACACGACCTTTAGCGGCGCTTCTCGCACAAACGCCG
* * *
11980687 CTAAAGACCACGACCTTTAGC
65 CTAAAGAACATGACCTTTAGA
* * * * * * *
11980708 GGTGCTTTCCCACAAACGCCGCTATAGACCACGATCTTTAGTGGCGCTTCTCCCACAATCGCCGC
1 GGCGCTTTACCACAAACGCCGCTATAGAACACGACCTTTAGCGGCGCTTCTCGCACAAACGCCGC
*
11980773 TAAAGATCATGACCTTTAGA
66 TAAAGAACATGACCTTTAGA
** * * * *
11980793 GGCGCTTTTATTACAAACGCCGCTAAAGAACA-AACCTTTAGCGGCGCTTCTTGCAAAAACGCCG
1 GGCGC-TTTACCACAAACGCCGCTATAGAACACGACCTTTAGCGGCGCTTCTCGCACAAACGCCG
*
11980857 CTAAA-AACATAACCTTTA
65 CTAAAGAACATGACCTTTA
11980875 AAAAAATTAT
Statistics
Matches: 139, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
84 50 0.36
85 68 0.49
86 21 0.15
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (85 bp):
GGCGCTTTACCACAAACGCCGCTATAGAACACGACCTTTAGCGGCGCTTCTCGCACAAACGCCGC
TAAAGAACATGACCTTTAGA
Found at i:11980871 original size:42 final size:42
Alignment explanation
Indices: 11980616--11980874 Score: 252
Period size: 42 Copynumber: 6.1 Consensus size: 42
11980606 GCGTCGCTAA
* * * *
11980616 CTTTACCGGCGCTTTTTCCACAAACGCCGCTATAGATCATGAC
1 CTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGAACATGAC
* * *
11980659 CTTTAGCGGCGCTTTCGCACAAACGCCGCTAAAGACCACGAC
1 CTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGAACATGAC
* * * * *
11980701 CTTTAGCGGTGCTTTCCCACAAACGCCGCTATAGACCACGAT
1 CTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGAACATGAC
* * *
11980743 CTTTAGTGGCGCTTCTCCCACAATCGCCGCTAAAGATCATGAC
1 CTTTAGCGGCGCTT-TCCCACAAACGCCGCTAAAGAACATGAC
* *** *
11980786 CTTTAGAGGCGCTTTTATTACAAACGCCGCTAAAGAACA-AAC
1 CTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGAACATGAC
** * *
11980828 CTTTAGCGGCGCTTCTTGCAAAAACGCCGCTAAA-AACATAAC
1 CTTTAGCGGCGCTT-TCCCACAAACGCCGCTAAAGAACATGAC
11980870 CTTTA
1 CTTTA
11980875 AAAAAATTAT
Statistics
Matches: 183, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
41 6 0.03
42 111 0.61
43 64 0.35
44 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGAACATGAC
Found at i:11980987 original size:114 final size:116
Alignment explanation
Indices: 11980786--11981015 Score: 392
Period size: 115 Copynumber: 2.0 Consensus size: 116
11980776 AGATCATGAC
* * *
11980786 CTTTAGAGGCGCTTTTATTACAAACGCCGCTAAAGAACAAACCTTTAGCGGCGCTTCTTGCAAAA
1 CTTTAGAGGCGCTTTTACTACAAACGCCGCTAAAGAACAAAACTTTAGCGGCGCTTCTAGCAAAA
*
11980851 ACGCCGCTAAAAACATAACCTTT-AAAAAAATTATTTTAATCAAATAATAT
66 ACGCCACTAAAAACATAACCTTTAAAAAAAATTATTTTAATCAAATAATAT
* *
11980901 CTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGAA-AAAACTTTAGCGGCGCTTCTAGCAAAA
1 CTTTAGAGGCGCTTTTACTACAAACGCCGCTAAAGAACAAAACTTTAGCGGCGCTTCTAGCAAAA
11980965 ACGCCACTAAAAACATAACCTTTAAAAAAAATTATTTTAATCAAATAATAT
66 ACGCCACTAAAAACATAACCTTTAAAAAAAATTATTTTAATCAAATAATAT
11981016 TTATTTTTAT
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
114 47 0.44
115 61 0.56
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (116 bp):
CTTTAGAGGCGCTTTTACTACAAACGCCGCTAAAGAACAAAACTTTAGCGGCGCTTCTAGCAAAA
ACGCCACTAAAAACATAACCTTTAAAAAAAATTATTTTAATCAAATAATAT
Found at i:11985046 original size:16 final size:16
Alignment explanation
Indices: 11985024--11985068 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
11985014 AAAATGGCGC
11985024 TTAAAATTTTTTTTAAG
1 TTAAAATTTTTTTT-AG
*
11985041 -TAAAATTATTTTTTGG
1 TTAAAATT-TTTTTTAG
11985057 TTAAAATTTTTT
1 TTAAAATTTTTT
11985069 AATTTAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (16 bp):
TTAAAATTTTTTTTAG
Found at i:11985066 original size:33 final size:37
Alignment explanation
Indices: 11985024--11985101 Score: 105
Period size: 35 Copynumber: 2.3 Consensus size: 37
11985014 AAAATGGCGC
11985024 TTAAAATTTTTTTTAA-GTAAA-AT-T-ATTTTTTGG
1 TTAAAATTTTTTTTAATGTAAACATCTAATTTTTTGG
*
11985057 TTAAAA--TTTTTTAATTTAAACATCTAATTTTTTGG
1 TTAAAATTTTTTTTAATGTAAACATCTAATTTTTTGG
11985092 TTAAAATTTT
1 TTAAAATTTT
11985102 GAGATACTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
31 8 0.21
32 4 0.11
33 8 0.21
34 1 0.03
35 15 0.39
37 2 0.05
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (37 bp):
TTAAAATTTTTTTTAATGTAAACATCTAATTTTTTGG
Found at i:11986898 original size:41 final size:41
Alignment explanation
Indices: 11986838--11987074 Score: 330
Period size: 41 Copynumber: 5.8 Consensus size: 41
11986828 AGATTTTATT
* ** * *
11986838 ATTAGAGGCGCTTTTTCAAAAACGCCGCTAAAGGCACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCCGAGC
* * *
11986879 ATTAGCGGCGCATTCTCAAAAACGCCGCTAAATCCCCGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCCGAGC
* *
11986920 ATTAGCAGCGCTTTCCCAAAAACGCCGCTAAAGCCCCGAGA
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCCGAGC
*
11986961 ATTAGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCCGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCCGAGC
* *
11987002 ATTAGCGGCGCTTTCCCAAAAACACCACTAAAGCCCCGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCCGAGC
***
11987043 ATTAGCGGCGCTTTATAAAAAACGCCGCTAAA
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAA
11987075 TGCCTCAAAA
Statistics
Matches: 174, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 174 1.00
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.17
Consensus pattern (41 bp):
ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCCGAGC
Found at i:11987204 original size:40 final size:40
Alignment explanation
Indices: 11987134--11987250 Score: 123
Period size: 40 Copynumber: 3.0 Consensus size: 40
11987124 GCGCTTCTTG
* * *
11987134 GAAAA-CGCTGCTAATACT-TATTTTTAGCGGCGTTTTTC
1 GAAAAGCGCCGCTAATACTCGATCTTTAGCGGCGTTTTTC
* *
11987172 -AAAATGCGCCGTTAATACTCGATCTTTAGCGGCGTTTTAC
1 GAAAA-GCGCCGCTAATACTCGATCTTTAGCGGCGTTTTTC
* * * *
11987212 GTAAAGCGCCGCTAATGCTCGATTTTTAGTGGCGTTTTT
1 GAAAAGCGCCGCTAATACTCGATCTTTAGCGGCGTTTTT
11987251 TGTCTAAACG
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
37 4 0.06
39 11 0.17
40 46 0.72
41 3 0.05
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (40 bp):
GAAAAGCGCCGCTAATACTCGATCTTTAGCGGCGTTTTTC
Found at i:11987273 original size:12 final size:12
Alignment explanation
Indices: 11987256--11987281 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11987246 TTTTTTGTCT
11987256 AAACGCCGCTAA
1 AAACGCCGCTAA
11987268 AAACGCCGCTAA
1 AAACGCCGCTAA
11987280 AA
1 AA
11987282 CCCTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:12004167 original size:19 final size:18
Alignment explanation
Indices: 12004108--12004168 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 18
12004098 AAAATAGTTA
12004108 TTTTAGAAATTTTTTTATT
1 TTTTAG-AATTTTTTTATT
* *
12004127 ATTTAGAA-TTTTTAACTTT
1 TTTTAGAATTTTTTTA--TT
12004146 TTTTAGAATTTTTTTATCT
1 TTTTAGAATTTTTTTAT-T
12004165 TTTT
1 TTTT
12004169 TTTAAATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 6 0.18
18 3 0.09
19 19 0.56
20 6 0.18
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTAGAATTTTTTTATT
Found at i:12004847 original size:11 final size:11
Alignment explanation
Indices: 12004825--12004882 Score: 80
Period size: 11 Copynumber: 5.2 Consensus size: 11
12004815 AACTAATCCT
12004825 CTCTCAAATTTC
1 CTCTC-AATTTC
12004837 CTCTCAATTTC
1 CTCTCAATTTC
*
12004848 CTCTAAATTTC
1 CTCTCAATTTC
*
12004859 CTCTCAATTTG
1 CTCTCAATTTC
*
12004870 CTCTCAAATTC
1 CTCTCAATTTC
12004881 CT
1 CT
12004883 TCCAAAATTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 36 0.88
12 5 0.12
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:12004882 original size:22 final size:23
Alignment explanation
Indices: 12004825--12004879 Score: 94
Period size: 22 Copynumber: 2.4 Consensus size: 23
12004815 AACTAATCCT
12004825 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
*
12004848 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATTTCCTCTCAATTTC
12004870 CTCTCAAATT
1 CTCTCAAATT
12004880 CCTTCCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 21 0.70
23 9 0.30
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.44
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:12004920 original size:51 final size:51
Alignment explanation
Indices: 12004860--12004959 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
12004850 CTAAATTTCC
12004860 TCTCAATTTGCTCTCAAATTCCT-TCCAAAATTCTCTGAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAAATTCTCTGAAATCCATATTTAA
* * * *
12004911 TCTCAATTTGCTCTCAAATTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAAATTCTCTGAAATCCATATTT
12004960 TTAAATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.03, T:0.43
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAAATTCTCTGAAATCCATATTTAA
Found at i:12006798 original size:18 final size:18
Alignment explanation
Indices: 12006771--12006810 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12006761 CAGGTACGTT
* *
12006771 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
12006789 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
12006807 TCCT
1 TCCT
12006811 TTTTCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:12007085 original size:21 final size:21
Alignment explanation
Indices: 12007052--12007098 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
12007042 CAACTCCGAC
12007052 AACCAAATGCCCTACCGGAAG
1 AACCAAATGCCCTACCGGAAG
* *
12007073 AACCAGAAT-CCCTGCCGGAGG
1 AACCA-AATGCCCTACCGGAAG
12007094 AACCA
1 AACCA
12007099 CAACCGCCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.36, C:0.34, G:0.21, T:0.09
Consensus pattern (21 bp):
AACCAAATGCCCTACCGGAAG
Found at i:12007389 original size:7 final size:7
Alignment explanation
Indices: 12007377--12007432 Score: 55
Period size: 7 Copynumber: 7.9 Consensus size: 7
12007367 TTTTAAAAAT
12007377 CCTAAAC
1 CCTAAAC
12007384 CCTAAA-
1 CCTAAAC
12007390 CCTAAAAAC
1 CCT--AAAC
12007399 CCTAAAC
1 CCTAAAC
12007406 CCTAAA-
1 CCTAAAC
12007412 CCTAAAAAC
1 CCT--AAAC
12007421 CCTAAA-
1 CCTAAAC
12007427 CCTAAA
1 CCTAAA
12007433 AACCCTAACC
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
6 12 0.28
7 19 0.44
8 6 0.14
9 6 0.14
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (7 bp):
CCTAAAC
Found at i:12007395 original size:22 final size:22
Alignment explanation
Indices: 12007351--12007705 Score: 138
Period size: 22 Copynumber: 16.0 Consensus size: 22
12007341 TTTAATTGAC
* ***
12007351 AAACCCTAAACCCTTATTTTAA
1 AAACCCTAAACCCTAAACCTAA
*
12007373 AAATCCTAAACCCTAAACCTAA
1 AAACCCTAAACCCTAAACCTAA
12007395 AAACCCTAAACCCTAAACCTAA
1 AAACCCTAAACCCTAAACCTAA
12007417 AAACCCTAAA-CCTAAAAACCCT--
1 AAACCCTAAACCCT--AAA-CCTAA
* ** * **
12007439 -AACCCTTAACTTTAAAACTCT
1 AAACCCTAAACCCTAAACCTAA
* * *
12007460 ACACCCTTAA-CTTAAAAACCCT--
1 AAACCCTAAACCCT--AAA-CCTAA
*
12007482 AACCCCTAAACCCT-AACTCTTAA
1 AAACCCTAAACCCTAAAC-C-TAA
* * * * *
12007505 CTTTAAAACCCTACACCCTTAACTTAA
1 ----AAACCCT-AAACCCTAAACCTAA
* *
12007532 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTAAACCTAA
* * *
12007554 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTAAACCTAA
* * *
12007575 AAACCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTAAACCTAA
* ** * *
12007597 AATCTATAAACCCTTAACTTAA
1 AAACCCTAAACCCTAAACCTAA
* * *
12007619 AAAACCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTAAACCTAA
* *
12007641 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTAAACCTAA
* *
12007662 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTAAACCTAA
* *
12007684 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTAAACCTAA
12007705 A
1 A
12007706 TATAATTTGA
Statistics
Matches: 273, Mismatches: 37, Indels: 47
0.76 0.10 0.13
Matches are distributed among these distances:
19 3 0.01
20 6 0.02
21 70 0.26
22 160 0.59
23 13 0.05
24 5 0.02
27 7 0.03
28 6 0.02
29 3 0.01
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (22 bp):
AAACCCTAAACCCTAAACCTAA
Found at i:12007400 original size:15 final size:15
Alignment explanation
Indices: 12007380--12007440 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 15
12007370 TAAAAATCCT
12007380 AAACCCTAAACCTAA
1 AAACCCTAAACCTAA
12007395 AAACCCTAAACCCTAAACCTAA
1 AAACCCT--A----AA-CCTAA
12007417 AAACCCTAAACCTAA
1 AAACCCTAAACCTAA
12007432 AAACCCTAA
1 AAACCCTAA
12007441 CCCTTAACTT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
15 21 0.54
16 2 0.05
17 1 0.03
20 1 0.03
21 2 0.05
22 12 0.31
ACGTcount: A:0.52, C:0.34, G:0.00, T:0.13
Consensus pattern (15 bp):
AAACCCTAAACCTAA
Found at i:12007466 original size:43 final size:43
Alignment explanation
Indices: 12007417--12007705 Score: 387
Period size: 43 Copynumber: 6.9 Consensus size: 43
12007407 CTAAACCTAA
* * * *
12007417 AAACCCTAAACCTAAAAACCCTAACCCTTAACTTTAAAACTCT
1 AAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT
*
12007460 ACACCCTTAACTTAAAAACCCTAACCC----C-T--AAACCCT
1 AAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT
* *
12007496 -AACTCTTAACTTTAAAACCCTACACCCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCTA-ACCCTTAACTTAAAAACCCT
*
12007539 AAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAAAACCCT
1 AAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT
* * ** *
12007582 AAACCTTTAACTTAAAATCTATAAACCCTTAACTTAAAAAACCT
1 AAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCT
12007626 AAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT
12007669 AAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
1 AAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
12007706 TATAATTTGA
Statistics
Matches: 215, Mismatches: 21, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
35 19 0.09
36 10 0.05
38 1 0.00
39 1 0.00
40 1 0.00
41 1 0.00
43 125 0.58
44 57 0.27
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (43 bp):
AAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT
Found at i:12007560 original size:65 final size:64
Alignment explanation
Indices: 12007489--12007702 Score: 338
Period size: 65 Copynumber: 3.3 Consensus size: 64
12007479 CCTAACCCCT
*
12007489 AAACCCTAACTCTTAACTTTAAAACCCTACACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTTAAAACCCTA-ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * **
12007554 AAACCCTAACCCTTAACTTTAAAACCCTAAACCTTTAACTTAAAATCTATAAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTTAAAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* *
12007619 AAAACCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
12007684 AAACCCTAACCCTTAACTT
1 AAACCCTAACCCTTAACTT
12007703 AAATATAATT
Statistics
Matches: 135, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
64 12 0.09
65 102 0.76
66 21 0.16
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (64 bp):
AAACCCTAACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
Found at i:12007840 original size:37 final size:38
Alignment explanation
Indices: 12007799--12007966 Score: 114
Period size: 37 Copynumber: 4.4 Consensus size: 38
12007789 TTTTGACTGG
12007799 TACTAACAATTAATA-ATTTGATATAATTTGATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
* * * *
12007836 TACTAACCATTAATACAATT-AT-CAA-TTAATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
* * ** * * * * * **
12007871 TACATTCACATAATGTTAGATTTGAAAAAATGTT-TTGACTGG
1 TAC--TAACA-ATTAATACATTTGATATAAT-TTGAT-AATTT
12007913 TACTAACAATTAATA-ATTTGATATAATTTGATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
12007950 TACTAACAATTAATACA
1 TACTAACAATTAATACA
12007967 ATTATCAATT
Statistics
Matches: 93, Mismatches: 27, Indels: 21
0.66 0.19 0.15
Matches are distributed among these distances:
35 12 0.13
36 2 0.02
37 38 0.41
38 22 0.24
39 5 0.05
40 6 0.06
41 1 0.01
42 7 0.08
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.41
Consensus pattern (38 bp):
TACTAACAATTAATACATTTGATATAATTTGATAATTT
Found at i:12007905 original size:114 final size:114
Alignment explanation
Indices: 12007705--12007983 Score: 540
Period size: 114 Copynumber: 2.4 Consensus size: 114
12007695 CTTAACTTAA
12007705 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
*
12007770 TGTTAGGTTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
66 TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
12007819 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
12007884 TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
66 TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
*
12007933 ATATAATTTGATAATTTTACTAACAATTAATACAATTATCAATTAATAATT
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATT
12007984 GAAAAAAATA
Statistics
Matches: 163, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 163 1.00
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (114 bp):
ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
Found at i:12011430 original size:125 final size:126
Alignment explanation
Indices: 12010996--12011436 Score: 673
Period size: 125 Copynumber: 3.5 Consensus size: 126
12010986 CCAAACATGT
*
12010996 TACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCT--TAATTAGCATCCTG
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-TAGCATCCTG
* *
12011059 CTAGAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACC
65 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
*
12011120 TAATGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCAT-CTGC
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAATAGCATCCTGC
* *
12011183 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAAC
66 TTGAAGCG-TTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGACC
*
12011246 TACTGTAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGC
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAATAGCATCCTGC
12011310 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
* * * * * *
12011371 TACTGTAGCAAAAGCGCGTACAC-ATGGGTGCGACTTCAGAAATCCTTCTGATAA-AGCATCCTG
1 TACTGTAGCAAAAGCGCGTCCACGA-GGGCGCGATTTCACAAATTCTTCTCATAATAGCATCCTG
12011434 CTT
65 CTT
12011437 TGTTTTTATC
Statistics
Matches: 293, Mismatches: 16, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
123 11 0.04
124 54 0.18
125 109 0.37
126 105 0.36
127 14 0.05
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (126 bp):
TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAATAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
Found at i:12013282 original size:19 final size:19
Alignment explanation
Indices: 12013254--12013293 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
12013244 TATCACATTA
*
12013254 AACATGTGCTTAATAGTCT
1 AACATATGCTTAATAGTCT
*
12013273 AACATATGCTTAATATTCT
1 AACATATGCTTAATAGTCT
12013292 AA
1 AA
12013294 TATTTTCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
AACATATGCTTAATAGTCT
Found at i:12019300 original size:3 final size:3
Alignment explanation
Indices: 12019285--12019323 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
12019275 CCAACAGAGC
* * *
12019285 GAA GAA GAG GAA GAA GAA GAA TAA GAA AAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
12019324 AACACTGCTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:12031513 original size:15 final size:15
Alignment explanation
Indices: 12031493--12031528 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
12031483 TTGAACATTT
12031493 AAATAATAAA-AATAA
1 AAATAA-AAATAATAA
12031508 AAATAAAAATAATAA
1 AAATAAAAATAATAA
12031523 AAATAA
1 AAATAA
12031529 GTTCAACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AAATAAAAATAATAA
Found at i:12033700 original size:2 final size:2
Alignment explanation
Indices: 12033693--12033718 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12033683 GTTTAGTTTA
12033693 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
12033719 TAAAGTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12039799 original size:43 final size:43
Alignment explanation
Indices: 12039715--12039835 Score: 104
Period size: 43 Copynumber: 2.8 Consensus size: 43
12039705 TCGTACAATG
* * * ** *
12039715 CCAACATCTCAGACGTGGTCTTACATGTGATCAC-AGATCGATA
1 CCAACATCCCAGAAGTGGTCTTACACGAAAACACAAG-TCGATA
* * *
12039758 CC-ACTATCCCAGAAAG-GGTCTTGCACGTAAACACAAGTCGATG
1 CCAAC-ATCCCAG-AAGTGGTCTTACACGAAAACACAAGTCGATA
*
12039801 CCAACATCCCAGACGTGGTCTTACACGAAAACACA
1 CCAACATCCCAGAAGTGGTCTTACACGAAAACACA
12039836 TATCAAAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
42 4 0.06
43 53 0.84
44 6 0.10
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (43 bp):
CCAACATCCCAGAAGTGGTCTTACACGAAAACACAAGTCGATA
Found at i:12049397 original size:2 final size:2
Alignment explanation
Indices: 12049390--12049420 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12049380 AAGAAAAAGA
12049390 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
12049421 ATTTTCCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12052282 original size:46 final size:46
Alignment explanation
Indices: 12052195--12052282 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
12052185 GACATCACAT
* *
12052195 AAGAGAGTCCTTATAACAACGAGAGAGAATATGATAAAATGTACAC
1 AAGAGAGTCCTTATAACAACAAGAGAGAATATGAGAAAATGTACAC
* *
12052241 AAGAGAG-CACTTATAACAACAATAGAGAATATGAGAGAATGT
1 AAGAGAGTC-CTTATAACAACAAGAGAGAATATGAGAAAATGT
12052283 GGAAGTGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 1 0.03
46 36 0.97
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.19
Consensus pattern (46 bp):
AAGAGAGTCCTTATAACAACAAGAGAGAATATGAGAAAATGTACAC
Found at i:12056375 original size:26 final size:26
Alignment explanation
Indices: 12056339--12056395 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
12056329 CAAACAAGGC
12056339 CAAGCTTAAAATACAGCACACAGAAT
1 CAAGCTTAAAATACAGCACACAGAAT
12056365 CAAGCTTAAAATACAGCACACAGAAT
1 CAAGCTTAAAATACAGCACACAGAAT
12056391 CAAGC
1 CAAGC
12056396 AGTAAATTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.49, C:0.25, G:0.12, T:0.14
Consensus pattern (26 bp):
CAAGCTTAAAATACAGCACACAGAAT
Found at i:12071394 original size:8 final size:8
Alignment explanation
Indices: 12071381--12071408 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
12071371 TATACTAAAC
12071381 AATAAAAT
1 AATAAAAT
12071389 AATAAAAT
1 AATAAAAT
12071397 AATAAAAT
1 AATAAAAT
12071405 AATA
1 AATA
12071409 TTTAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AATAAAAT
Found at i:12079918 original size:19 final size:20
Alignment explanation
Indices: 12079881--12079921 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
12079871 TACAACACAA
*
12079881 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
12079901 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
12079920 TT
1 TT
12079922 GCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:12080801 original size:18 final size:18
Alignment explanation
Indices: 12080778--12080822 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
12080768 GCAATTTTTC
*
12080778 ATTTTCAATAAAATGAAA
1 ATTTTCAATAAAATAAAA
12080796 ATTTTC-A-AAAATAAAA
1 ATTTTCAATAAAATAAAA
*
12080812 AATTTCAATAA
1 ATTTTCAATAA
12080823 TTTATCAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 13 0.57
17 2 0.09
18 8 0.35
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (18 bp):
ATTTTCAATAAAATAAAA
Found at i:12081078 original size:19 final size:20
Alignment explanation
Indices: 12081041--12081081 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
12081031 TACAGCACAA
*
12081041 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
12081061 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
12081080 TT
1 TT
12081082 GCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:12081636 original size:41 final size:39
Alignment explanation
Indices: 12081552--12081636 Score: 93
Period size: 41 Copynumber: 2.1 Consensus size: 39
12081542 TTTTATTACT
*
12081552 ATAATATAAATATTTACTTAATTATTAAGTAAAAATATT
1 ATAATATAAATATTTACTTAATTATTAAGTAAAAATATA
* *
12081591 ATAATATATAT-TTTAACTTTAATTTATTAA-TAATATATATA
1 ATAATATAAATATTT-AC-TTAA-TTATTAAGTAA-AAATATA
12081632 ATAAT
1 ATAAT
12081637 TTTACACCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
38 3 0.08
39 12 0.31
40 7 0.18
41 17 0.44
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (39 bp):
ATAATATAAATATTTACTTAATTATTAAGTAAAAATATA
Found at i:12083786 original size:36 final size:36
Alignment explanation
Indices: 12083734--12083817 Score: 105
Period size: 36 Copynumber: 2.3 Consensus size: 36
12083724 ATAAATAATT
* * * * *
12083734 ATCACTTTTAAATATTACAACTATATCATTATGCCGA
1 ATCACTTAT-AATATTACAAATACATCAGTAGGCCGA
*
12083771 ATCACTTATAATATTACAAATACATTAGTAGGCCGA
1 ATCACTTATAATATTACAAATACATCAGTAGGCCGA
12083807 ATCACTTATAA
1 ATCACTTATAA
12083818 GTTCAATTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
36 33 0.80
37 8 0.20
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (36 bp):
ATCACTTATAATATTACAAATACATCAGTAGGCCGA
Found at i:12084110 original size:43 final size:43
Alignment explanation
Indices: 12084063--12084144 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
12084053 ATCATATATT
*
12084063 GATGCC-ACTGTCCCAAATAG-GGTCTTACACGTAAACACAAGTC
1 GATGCCAAC-GTCCCAAA-AGTGGTCTTACACGAAAACACAAGTC
* *
12084106 GATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACA
1 GATGCCAACGTCCCAAAAGTGGTCTTACACGAAAACACA
12084145 TATCGGAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 1 0.03
43 31 0.91
44 2 0.06
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (43 bp):
GATGCCAACGTCCCAAAAGTGGTCTTACACGAAAACACAAGTC
Found at i:12090441 original size:36 final size:36
Alignment explanation
Indices: 12090364--12090443 Score: 124
Period size: 36 Copynumber: 2.2 Consensus size: 36
12090354 AATATTGTTG
* *
12090364 CTGGTATATTGTTGCTTATGTTGTTATTCATAGCTG
1 CTGGTATATTGTTGCTTATGTTGTTATACATAGCTA
* *
12090400 TTGGTATATTGTTGCTTATGTTGTTATACATGGCTA
1 CTGGTATATTGTTGCTTATGTTGTTATACATAGCTA
12090436 CTGGTATA
1 CTGGTATA
12090444 CATGGCTAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.19, C:0.10, G:0.23, T:0.49
Consensus pattern (36 bp):
CTGGTATATTGTTGCTTATGTTGTTATACATAGCTA
Found at i:12091172 original size:21 final size:21
Alignment explanation
Indices: 12091134--12091185 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
12091124 ATCTTTATGG
* *
12091134 TGAGTTGGGGCAGCTTGTTGA-
1 TGAGTTGGGGCAACTTG-TAAT
*
12091155 TGAGTTGGGGCAATTTGTAAT
1 TGAGTTGGGGCAACTTGTAAT
12091176 TGAGTTGGGG
1 TGAGTTGGGG
12091186 TAACCTATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.17, C:0.06, G:0.42, T:0.35
Consensus pattern (21 bp):
TGAGTTGGGGCAACTTGTAAT
Found at i:12091931 original size:28 final size:28
Alignment explanation
Indices: 12091898--12091952 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
12091888 CACACACACC
12091898 TAAAAAACAATCACTACATGCATATTAT
1 TAAAAAACAATCACTACATGCATATTAT
* * *
12091926 TAAAAAATACTCATTACATGCATATTA
1 TAAAAAACAATCACTACATGCATATTA
12091953 AAAAATAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (28 bp):
TAAAAAACAATCACTACATGCATATTAT
Found at i:12091957 original size:25 final size:26
Alignment explanation
Indices: 12091923--12091983 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
12091913 ACATGCATAT
**
12091923 TATTAAAAAATACTC-ATTACATGCA
1 TATTAAAAAATACTCAACAACATGCA
* *
12091948 TATTAAAAAATAGTCAACAACATGTA
1 TATTAAAAAATACTCAACAACATGCA
12091974 TATTAAAAAA
1 TATTAAAAAA
12091984 ACAGTCATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 14 0.45
26 17 0.55
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (26 bp):
TATTAAAAAATACTCAACAACATGCA
Found at i:12092018 original size:96 final size:96
Alignment explanation
Indices: 12091903--12092170 Score: 357
Period size: 96 Copynumber: 2.8 Consensus size: 96
12091893 ACACCTAAAA
*
12091903 AACAATCACTACATGCATATTATTAAAAAATACTCATTACATGCATATTAAAAAATAGTCAACAA
1 AACAATCACTACATGCATATTATTAAAAAATACTCACTACATGCATATTAAAAAATAGTCAACAA
*
12091968 CATGTATATTAAAAAAACAGTCATGCACACC
66 CATGTATATTAAAAAAACAGTCATACACACC
* * * * *
12091999 AACAATCACAACATTCATATTATTAAAATATACTCACTGCATGCATATTAAAAAATAGTCAACAG
1 AACAATCACTACATGCATATTATTAAAAAATACTCACTACATGCATATTAAAAAATAGTCAACAA
*
12092064 CATGTATATT-AAAAAATAGTCATACACACC
66 CATGTATATTAAAAAAACAGTCATACACACC
* * * * *
12092094 AACAATCACTGCATGC--A-TATTAAAAAATAGTCAACAACATGTATATTAAAAAATAGTC-ACT
1 AACAATCACTACATGCATATTATTAAAAAATACTC-ACTACATGCATATTAAAAAATAGTCAACA
* *
12092155 ACTTGCATATTAAAAA
65 ACATGTATATTAAAAA
12092171 CACTCACTAA
Statistics
Matches: 150, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
92 23 0.15
93 27 0.18
95 31 0.21
96 69 0.46
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.27
Consensus pattern (96 bp):
AACAATCACTACATGCATATTATTAAAAAATACTCACTACATGCATATTAAAAAATAGTCAACAA
CATGTATATTAAAAAAACAGTCATACACACC
Found at i:12092066 original size:26 final size:26
Alignment explanation
Indices: 12092019--12092085 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
12092009 ACATTCATAT
* * *
12092019 TATTAAAATATACTC-ACTGCATGCA
1 TATTAAAAAATAGTCAACAGCATGCA
*
12092044 TATTAAAAAATAGTCAACAGCATGTA
1 TATTAAAAAATAGTCAACAGCATGCA
12092070 TATTAAAAAATAGTCA
1 TATTAAAAAATAGTCA
12092086 TACACACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 13 0.35
26 24 0.65
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (26 bp):
TATTAAAAAATAGTCAACAGCATGCA
Found at i:12092164 original size:25 final size:26
Alignment explanation
Indices: 12092105--12092170 Score: 98
Period size: 26 Copynumber: 2.6 Consensus size: 26
12092095 ACAATCACTG
12092105 CATGCATATTAAAAAATAGTCAACAA
1 CATGCATATTAAAAAATAGTCAACAA
* *
12092131 CATGTATATTAAAAAATAGTC-ACTA
1 CATGCATATTAAAAAATAGTCAACAA
*
12092156 CTTGCATATTAAAAA
1 CATGCATATTAAAAA
12092171 CACTCACTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 16 0.44
26 20 0.56
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.29
Consensus pattern (26 bp):
CATGCATATTAAAAAATAGTCAACAA
Found at i:12093407 original size:62 final size:61
Alignment explanation
Indices: 12093323--12093451 Score: 222
Period size: 62 Copynumber: 2.1 Consensus size: 61
12093313 ATGCAACATA
*
12093323 AATAACCAATACAAAATAATTTAATACAAACACAACCATTTCTGTCATACACATGGCAGAC
1 AATAACCAATAAAAAATAATTTAATACAAACACAACCATTTCTGTCATACACATGGCAGAC
* *
12093384 AATAACCAATAGAAAAATAATTTAATACAAACACAACCATTTTTGTCATGCACATGGCAGAC
1 AATAACCAATA-AAAAATAATTTAATACAAACACAACCATTTCTGTCATACACATGGCAGAC
12093446 AATAAC
1 AATAAC
12093452 AAACAATAAC
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
61 11 0.17
62 53 0.83
ACGTcount: A:0.48, C:0.21, G:0.08, T:0.23
Consensus pattern (61 bp):
AATAACCAATAAAAAATAATTTAATACAAACACAACCATTTCTGTCATACACATGGCAGAC
Found at i:12093676 original size:6 final size:6
Alignment explanation
Indices: 12093662--12093749 Score: 77
Period size: 6 Copynumber: 14.7 Consensus size: 6
12093652 AGATAACCCT
* * * * *
12093662 AAATTG AAATCG AAATTG AAATCA AAATCG AAATTG GAATCG AAATCG
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG
* * * * * *
12093710 AAATCA AAATTG AAATCA AAATTG AAATCA AAATCA AAAT
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAAT
12093750 TAGAACCAGT
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.56, C:0.10, G:0.11, T:0.23
Consensus pattern (6 bp):
AAATCG
Found at i:12093689 original size:18 final size:18
Alignment explanation
Indices: 12093668--12093750 Score: 94
Period size: 18 Copynumber: 4.6 Consensus size: 18
12093658 CCCTAAATTG
12093668 AAATCGAAATTGAAATCA
1 AAATCGAAATTGAAATCA
* *
12093686 AAATCGAAATTGGAATCG
1 AAATCGAAATTGAAATCA
** **
12093704 AAATCGAAATCAAAATTG
1 AAATCGAAATTGAAATCA
*
12093722 AAATCAAAATTGAAATCA
1 AAATCGAAATTGAAATCA
*
12093740 AAATCAAAATT
1 AAATCGAAATT
12093751 AGAACCAGTG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (18 bp):
AAATCGAAATTGAAATCA
Found at i:12104038 original size:17 final size:18
Alignment explanation
Indices: 12104016--12104050 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12104006 ATAAAATTAT
*
12104016 TAAAAA-TTATTTAAATC
1 TAAAAATTTATTAAAATC
12104033 TAAAAATTTATTAAAATC
1 TAAAAATTTATTAAAATC
12104051 CATAACAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAAATTTATTAAAATC
Found at i:12104098 original size:17 final size:18
Alignment explanation
Indices: 12104063--12104102 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
12104053 TAACAACTTT
* *
12104063 TAAAATTACCAAATTTTA
1 TAAAATTACAAAATATTA
12104081 TAAAATT-CAAAATATTA
1 TAAAATTACAAAATATTA
12104098 TAAAA
1 TAAAA
12104103 ATTTATAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAATTACAAAATATTA
Found at i:12115843 original size:56 final size:56
Alignment explanation
Indices: 12115754--12115878 Score: 189
Period size: 56 Copynumber: 2.2 Consensus size: 56
12115744 TATATAAAAC
* ** *
12115754 TATGTAAAATTATTAAGCCCAATAACTTTTGTTAATGGTTAGTAA-ATTTATCAAAT
1 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGA-TTATCAAAT
12115810 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
1 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
*
12115866 TAGGTAAAATTAT
1 TATGTAAAATTAT
12115879 GTTATGGTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 62 0.98
57 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.38
Consensus pattern (56 bp):
TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
Found at i:12115898 original size:23 final size:23
Alignment explanation
Indices: 12115872--12115979 Score: 180
Period size: 23 Copynumber: 4.7 Consensus size: 23
12115862 AAATTAGGTA
* *
12115872 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
12115895 AAATTAGGTTAGGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
12115918 AAATTAGGTTAGGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
*
12115941 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAAAT
*
12115964 AAATTAGGGTAGGGTT
1 AAATTAGGTTAGGGTT
12115980 AGGGTTTTTA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 81 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (23 bp):
AAATTAGGTTAGGGTTTTTAAAT
Found at i:12115980 original size:29 final size:29
Alignment explanation
Indices: 12115947--12116762 Score: 1261
Period size: 29 Copynumber: 28.3 Consensus size: 29
12115937 AAATAAATTA
*
12115947 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
12115976 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
12116005 GGTTATGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
12116034 GGTTAGGGTTTTTAATTAAATTAGGGTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
12116063 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * *
12116092 GGTTAGGATTTTTAAATAAATTAGGTTAT
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
12116121 GGTTAGGGTTTTTAATTAAATTAGGTTTAG
1 GGTTAGGGTTTTTAATTAAATTAGG-TTAG
* *
12116151 GGTTAGGATTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
12116180 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
12116209 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
12116238 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
12116267 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
12116296 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
12116325 GGTTAGGGTTTTTAATTAAATTAGGTTTAG
1 GGTTAGGGTTTTTAATTAAATTAGG-TTAG
12116355 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
12116384 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
12116413 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
12116442 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
12116471 TGTTAGGG-TTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
**** *
12116499 GGTTAGGG-TTAGGGTTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
12116527 GGTTAGGGTTTTTAATTAAATTAGGGTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
12116556 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
12116585 GGTCAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
12116614 GGTTAGGGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
12116643 GGTTAGGGTTTTTAATTAAATTAAGTTTAG
1 GGTTAGGGTTTTTAATTAAATT-AGGTTAG
*
12116673 GGTTAGGGTTTTT-ATTTAA--A--TTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
12116696 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
12116725 TGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
12116754 TGTTAGGGT
1 GGTTAGGGT
12116763 ATGAAATAAA
Statistics
Matches: 727, Mismatches: 50, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
23 13 0.02
24 8 0.01
26 2 0.00
28 52 0.07
29 578 0.80
30 74 0.10
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:12119117 original size:30 final size:31
Alignment explanation
Indices: 12119083--12119149 Score: 109
Period size: 32 Copynumber: 2.2 Consensus size: 31
12119073 GCCATTGATG
12119083 AAAATATAAAAAAA-TTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
*
12119113 AAAATATAAAAAAATTTTGAAATTATTTTAAA
1 AAAATATAAAAAAA-TTTAAAATTATTTTAAA
12119145 AAAAT
1 AAAAT
12119150 GAAATTGAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 14 0.41
32 20 0.59
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (31 bp):
AAAATATAAAAAAATTTAAAATTATTTTAAA
Found at i:12119129 original size:21 final size:20
Alignment explanation
Indices: 12119089--12119130 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
12119079 GATGAAAATA
**
12119089 TAAAAAAATTAAAATTATTT
1 TAAAAAAATTAAAAAAATTT
12119109 TAAAAAAATATAAAAAAATTT
1 TAAAAAAAT-TAAAAAAATTT
12119130 T
1 T
12119131 GAAATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAAAATTAAAAAAATTT
Found at i:12119208 original size:22 final size:22
Alignment explanation
Indices: 12119183--12119254 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
12119173 TAATATAGAT
*
12119183 TTGAGA-GATTTTTGGAATGAAA
1 TTGAGAGGA-TTTTGGAAGGAAA
12119205 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGAGGATTTTGGAAGGAAA
12119227 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGAGGATTTTGGAAGGAAA
12119249 TTGAGA
1 TTGAGA
12119255 TAGGATTTGT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
22 46 0.96
23 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.31
Consensus pattern (22 bp):
TTGAGAGGATTTTGGAAGGAAA
Found at i:12134321 original size:13 final size:13
Alignment explanation
Indices: 12134305--12134338 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12134295 AATAAACAGT
12134305 TAATAAAATTAAA
1 TAATAAAATTAAA
* *
12134318 TAATCAAATTAAT
1 TAATAAAATTAAA
12134331 TAATAAAA
1 TAATAAAA
12134339 CAAATTAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (13 bp):
TAATAAAATTAAA
Found at i:12140859 original size:29 final size:28
Alignment explanation
Indices: 12140826--12140881 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
12140816 ATACTTTTCT
*
12140826 AAATAATCTTTAAGTTT-TTGTTTTAAAAA
1 AAATAAACTTTAA-TTTGTT-TTTTAAAAA
*
12140855 AAATAAACTTTTATTTGTTTTTTAAAA
1 AAATAAACTTTAATTTGTTTTTTAAAA
12140882 TCTAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (28 bp):
AAATAAACTTTAATTTGTTTTTTAAAAA
Found at i:12141854 original size:42 final size:41
Alignment explanation
Indices: 12141797--12142046 Score: 275
Period size: 42 Copynumber: 5.9 Consensus size: 41
12141787 GTTTACAGAT
12141797 AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTGGAA
1 AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT-GAA
* *
12141839 AAAAACGCCTCTAAAGGTCATGTTCTTTAGCAGCGCTTGAA
1 AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTGAA
* * * *
12141880 AACCAAACGCCGCTAAAGGACATGTTCTTTTGCGACGCTTTAA
1 AA--AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTGAA
* *
12141923 AATTAAACGCCACTAAAAGTCATGTTCTTTAGCGGCGCTTGAA
1 AA--AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTGAA
** * *
12141966 TAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGATTAAA
1 -AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTGAA
** * * * *
12142008 TAAAAACGTAGCTATAGATCACGTACTTTAGCGGCGCTT
1 -AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT
12142047 TTTCACAAAC
Statistics
Matches: 176, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
41 5 0.03
42 101 0.57
43 68 0.39
44 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTGAA
Found at i:12141895 original size:85 final size:84
Alignment explanation
Indices: 12141795--12142001 Score: 292
Period size: 85 Copynumber: 2.4 Consensus size: 84
12141785 GCGTTTACAG
* * *
12141795 ATAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTGGAAAA-AAACGCCTCTAAAGGTCA
1 ATAAAAACGCCGCTAAAGGACATGTTCTTTAGCGGCGCTT-GAAAATAAACGCCACTAAAAGTCA
12141859 TGTTCTTTAGCAGCGCTTGA
65 TGTTCTTTAGCAGCGCTTGA
* * *
12141879 A-AACCAAACGCCGCTAAAGGACATGTTCTTTTGCGACGCTTTAAAATTAAACGCCACTAAAAGT
1 ATAA--AAACGCCGCTAAAGGACATGTTCTTTAGCGGCGCTTGAAAA-TAAACGCCACTAAAAGT
*
12141943 CATGTTCTTTAGCGGCGCTTGA
63 CATGTTCTTTAGCAGCGCTTGA
*
12141965 ATAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
1 ATAAAAACGCCGCTAAAGGACATGTTCTTTAGCGGCG
12142002 ATTAAATAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
83 2 0.02
84 5 0.05
85 63 0.58
86 36 0.33
87 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (84 bp):
ATAAAAACGCCGCTAAAGGACATGTTCTTTAGCGGCGCTTGAAAATAAACGCCACTAAAAGTCAT
GTTCTTTAGCAGCGCTTGA
Found at i:12144341 original size:26 final size:27
Alignment explanation
Indices: 12144303--12144353 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
12144293 AACTTACAGT
12144303 TTCTGGTCATCGTCGATTTCTAGCTTC
1 TTCTGGTCATCGTCGATTTCTAGCTTC
12144330 TTCTGG-CATCGTCGATTTCTAGCT
1 TTCTGGTCATCGTCGATTTCTAGCT
12144354 AAAATATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.12, C:0.25, G:0.20, T:0.43
Consensus pattern (27 bp):
TTCTGGTCATCGTCGATTTCTAGCTTC
Found at i:12144757 original size:149 final size:148
Alignment explanation
Indices: 12144517--12144799 Score: 494
Period size: 149 Copynumber: 1.9 Consensus size: 148
12144507 AAGTATTTGT
* * * *
12144517 GGCGTTTTTATGAAAAACGCCGCAAACTAATAATTTTTAGTAGATAAAAAAAGGATTTTTAGCAT
1 GGCGTTTTTACGAAAAACACCGCAAACTAATAATTTCTAGCAGATAAAAAAAGGATTTTTAGCAT
* * *
12144582 AACAAAATGACGTCGTTTTGTTCAAAATGAAATGATTTTTTGTGGCGTTTTTATGAAAAACGCCG
66 AACAAAACGACGTCGTTTTGTTCAAAATGAAATGATTTTTTGTGGCATTTTTACGAAAAACGCCG
12144647 CAAAAGGTAAGCAATAGC
131 CAAAAGGTAAGCAATAGC
12144665 GGCGTTTTTACGAAAAACACCGCAAACTAATAATTTCTAGCAGATAAAATAAAGGATTTTTAGCA
1 GGCGTTTTTACGAAAAACACCGCAAACTAATAATTTCTAGCAGATAAAA-AAAGGATTTTTAGCA
12144730 TAACAAAACGACGTCGTTTTGTTCAAAATGAAATGATTTTTTGTGGCATTTTTACGAAAAACGCC
65 TAACAAAACGACGTCGTTTTGTTCAAAATGAAATGATTTTTTGTGGCATTTTTACGAAAAACGCC
12144795 GCAAA
130 GCAAA
12144800 CTAATAATTT
Statistics
Matches: 127, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
148 45 0.35
149 82 0.65
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (148 bp):
GGCGTTTTTACGAAAAACACCGCAAACTAATAATTTCTAGCAGATAAAAAAAGGATTTTTAGCAT
AACAAAACGACGTCGTTTTGTTCAAAATGAAATGATTTTTTGTGGCATTTTTACGAAAAACGCCG
CAAAAGGTAAGCAATAGC
Found at i:12145647 original size:7 final size:7
Alignment explanation
Indices: 12145635--12145695 Score: 50
Period size: 7 Copynumber: 7.9 Consensus size: 7
12145625 ATCGTTAAAA
12145635 CCCTAAC
1 CCCTAAC
*
12145642 CCCTAAAT
1 CCCT-AAC
12145650 CCCTAAC
1 CCCTAAC
12145657 CCCTAAATC
1 CCCT-AA-C
12145666 CCCTAAC
1 CCCTAAC
*
12145673 CCTTAAATC
1 CCCT-AA-C
12145682 TCCCTAAC
1 -CCCTAAC
12145690 CCCTAA
1 CCCTAA
12145696 AGCATACCAC
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
7 20 0.45
8 13 0.30
9 8 0.18
10 3 0.07
ACGTcount: A:0.31, C:0.48, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCTAAC
Found at i:12145671 original size:16 final size:16
Alignment explanation
Indices: 12145635--12145696 Score: 99
Period size: 15 Copynumber: 3.9 Consensus size: 16
12145625 ATCGTTAAAA
12145635 CCCTAACCCCTAAAT-
1 CCCTAACCCCTAAATC
12145650 CCCTAACCCCTAAATC
1 CCCTAACCCCTAAATC
*
12145666 CCCTAACCCTTAAATC
1 CCCTAACCCCTAAATC
12145682 TCCCTAACCCCTAAA
1 -CCCTAACCCCTAAA
12145697 GCATACCACC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
15 15 0.35
16 15 0.35
17 13 0.30
ACGTcount: A:0.32, C:0.47, G:0.00, T:0.21
Consensus pattern (16 bp):
CCCTAACCCCTAAATC
Found at i:12146158 original size:114 final size:113
Alignment explanation
Indices: 12145952--12146224 Score: 379
Period size: 114 Copynumber: 2.4 Consensus size: 113
12145942 TAAATCATTT
* *
12145952 TAAATCCCTAAGCATTAGCGGCGCTTTCATAAAAACACCGCTAAATCCCCGAAAGCACAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTC-TAAAAACGCCGCTAAATCCCCGAAAGCACAGAAAAC
* *
12146017 GGCGCCGTTTGGCTTAGTTTTTCTTGCGGCGCTTTCCCAAAAACGCCGC
65 AGCGCCGTTGGGCTTAGTTTTTCTTGCGGCGCTTTCCCAAAAACGCCGC
* * * *
12146066 TAAATCCCTGAGCATTAGCGGCGCTTTCTGAAAAACGCCACTAATTCCCTGAAAGCTA-AGGAAA
1 TAAATCCCTGAGCATTAGCGGCGCTTTCT-AAAAACGCCGCTAAATCCCCGAAAGC-ACAGAAAA
* *
12146130 CAGCGTCGTTGGGCTTAGGTTTTT-TTGCGGCGCTTTCCCAAAAACGCCTC
64 CAGCGCCGTTGGGCTTA-GTTTTTCTTGCGGCGCTTTCCCAAAAACGCCGC
* *
12146180 TAAAGCCATGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAA
1 TAAATCCCTGAGCATTAGCGGCGCTTTCT-AAAAACGCCGCTAAA
12146225 GCCCTGAGCA
Statistics
Matches: 141, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
113 1 0.01
114 133 0.94
115 7 0.05
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (113 bp):
TAAATCCCTGAGCATTAGCGGCGCTTTCTAAAAACGCCGCTAAATCCCCGAAAGCACAGAAAACA
GCGCCGTTGGGCTTAGTTTTTCTTGCGGCGCTTTCCCAAAAACGCCGC
Found at i:12146213 original size:41 final size:41
Alignment explanation
Indices: 12146156--12146265 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 41
12146146 AGGTTTTTTT
* *
12146156 GCGGCGCTTTCCCAAAAACGCCTCTAAAGCCATGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCACTAAAGCCATGAGCATTA
* *
12146197 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCACTAAAGCCATGAGCATTA
* *
12146238 GAGGCGCTTTCTTAAAAACGCCACTAAA
1 GCGGCGCTTTCTCAAAAACGCCACTAAA
12146266 CACTCGAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTCTCAAAAACGCCACTAAAGCCATGAGCATTA
Found at i:12146256 original size:155 final size:156
Alignment explanation
Indices: 12146042--12146380 Score: 474
Period size: 156 Copynumber: 2.2 Consensus size: 156
12146032 AGTTTTTCTT
* * *
12146042 GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTGAAAAACGCCAC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGAGGCGCTTTCTGAAAAACGCCAC
* * * * *
12146107 TAATTCCCT-G-AAAGCT-AAGGAAAC-AGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC-
66 TAA-ACACTCGAAAAGCTCAA-AAAACGA-CGTCGTAGAGCTTAGGTTTTTTTGCGGCGCTTTCT
12146167 CCAAAAACGCCT-CTAAAGCCATGAGCATTA
128 CC-AAAACG-CTGCTAAAGCCATGAGCATTA
*
12146197 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGAGGCGCTTTCTTAAAAACGCCAC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGAGGCGCTTTCTGAAAAACGCCAC
12146262 TAAACACTCGAAAAGCTCAAAAAACGACGTCGTAGAGCTTAGGTTTTTTTGCGGCGCTTTCTCCA
66 TAAACACTCGAAAAGCTCAAAAAACGACGTCGTAGAGCTTAGGTTTTTTTGCGGCGCTTTCTCCA
* *
12146327 AAACGCTGTTAAAGCCCTGAGCATTA
131 AAACGCTGCTAAAGCCATGAGCATTA
* *
12146353 GCGGCGCTTCCTTAAAAACGCCGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
12146381 CCCACGAAAG
Statistics
Matches: 165, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
154 3 0.02
155 67 0.41
156 90 0.55
157 5 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (156 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGAGGCGCTTTCTGAAAAACGCCAC
TAAACACTCGAAAAGCTCAAAAAACGACGTCGTAGAGCTTAGGTTTTTTTGCGGCGCTTTCTCCA
AAACGCTGCTAAAGCCATGAGCATTA
Found at i:12146330 original size:115 final size:113
Alignment explanation
Indices: 12146197--12146565 Score: 515
Period size: 114 Copynumber: 3.2 Consensus size: 113
12146187 ATGAGCATTA
*
12146197 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGAGGCGCTTTCTTAAAAACGCCAC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCAC
* * * * *
12146262 TAAACACTCGAAAAGCTCAAAAAACGACGTCGTAGAGCTTAGGTTTTTTT
66 TAAAC-CACG-AAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTT
* * * * *
12146312 GCGGCGCTTTCTCCAAAACGCTGTTAAAGCCCTGAGCATTAGCGGCGCTTCCTTAAAAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCAC
*
12146377 TAAACCCACGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTT
66 TAAA-CCACGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTT
* *
12146426 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGAATTAGCGGCGCTTTCTTATAAACGCCAC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCAC
* * * *
12146491 AAAATCCCCGAAAGCTCGGTAAACGGCGTCGTTGGGCTTAGG-TTTTTT
66 TAAA-CCACGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTT
**
12146539 GCGGCGCTTTCTGGAAAACGCCGCTAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAA
12146566 TTCTTATTTC
Statistics
Matches: 226, Mismatches: 27, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
113 31 0.14
114 128 0.57
115 66 0.29
116 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (113 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCAC
TAAACCACGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTT
Found at i:12146444 original size:270 final size:269
Alignment explanation
Indices: 12145952--12146488 Score: 715
Period size: 270 Copynumber: 2.0 Consensus size: 269
12145942 TAAATCATTT
* * * *
12145952 TAAATCCCTAAGCATTAGCGGCGCTTTCATAAAAACACCGCTAAATCCCCGAAAGCACAGAAAAC
1 TAAAGCCCTAAGCATTAGAGGCGCTTTCATAAAAACACCACTAAATCCCCGAAAGCACAAAAAAC
* * *
12146017 GGCGCCGTTTGGCTTAGTTTTTCTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCTGAGCATT
66 GACGCCGTTAGGCTTAGTTTTTCTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATT
* * * *
12146082 AGCGGCGCTTTCTGAAAAACGCCACTAATTCCCTGAAAGCTAAGGAAACAGCGTCGTTGGGCTTA
131 AGCGGCGCTTCCTGAAAAACGCCACTAATACCCCGAAAGCTAAGAAAACAGCGTCGTTGGGCTTA
* *
12146147 GGTTTTTTTGCGGCGCTTTCCCAAAAACGCCTCTAAAGCCATGAGCATTAGCGGCGCTTTCTCAA
196 GGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCATGAGAATTAGCGGCGCTTTCTCAA
12146212 AAACGCCGC
261 AAACGCCGC
* * * * *
12146221 TAAAGCCCTGAGCATTAGAGGCGCTTTCTTAAAAACGCCACTAAA-CACTCGAAAAGCTCAAAAA
1 TAAAGCCCTAAGCATTAGAGGCGCTTTCATAAAAACACCACTAAATC-CCCG-AAAGCACAAAAA
* * *
12146285 ACGACGTCG-TAGAGCTTAGGTTTTT-TTGCGGCGCTTTCTCC-AAAACGCTGTTAAAGCCCTGA
64 ACGACGCCGTTAG-GCTTA-GTTTTTCTTGCGGCGCTTTC-CCAAAAACGCCGCTAAAGCCCTGA
* * * *
12146347 GCATTAGCGGCGCTTCCTTAAAAACGCCGCTAA-ACCCACGAAAGCTCAGAAAACGGCGTCGTTG
126 GCATTAGCGGCGCTTCCTGAAAAACGCCACTAATACCC-CGAAAGCTAAGAAAACAGCGTCGTTG
* * *
12146411 GGCTTAGTTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGAATTAGCGGCGCTT
190 GGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCATGAGAATTAGCGGCGCTT
* *
12146476 TCTTATAAACGCC
255 TCTCAAAAACGCC
12146489 ACAAAATCCC
Statistics
Matches: 232, Mismatches: 30, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
268 1 0.00
269 47 0.20
270 176 0.76
271 8 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (269 bp):
TAAAGCCCTAAGCATTAGAGGCGCTTTCATAAAAACACCACTAAATCCCCGAAAGCACAAAAAAC
GACGCCGTTAGGCTTAGTTTTTCTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATT
AGCGGCGCTTCCTGAAAAACGCCACTAATACCCCGAAAGCTAAGAAAACAGCGTCGTTGGGCTTA
GGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCATGAGAATTAGCGGCGCTTTCTCAA
AAACGCCGC
Found at i:12146651 original size:12 final size:12
Alignment explanation
Indices: 12146634--12146659 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12146624 TTTTTTATCC
12146634 AAACGCCGCTAA
1 AAACGCCGCTAA
12146646 AAACGCCGCTAA
1 AAACGCCGCTAA
12146658 AA
1 AA
12146660 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:12153095 original size:64 final size:64
Alignment explanation
Indices: 12153015--12153134 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 64
12153005 GCCTATATCG
* * * * *
12153015 GGACGCTCATAAAGAGTTGTGGCATGTCCGCAATATATACAGAATCAATACCGATCATATAACA
1 GGACGCTCACAAAGAGTTGCGGCATATCCGCAACACATACAGAATCAATACCGATCATATAACA
* * *
12153079 GGACGCTCACAAAGAGTTGCGGTATATCCGCAACACATGCAGGATCAATACCGATC
1 GGACGCTCACAAAGAGTTGCGGCATATCCGCAACACATACAGAATCAATACCGATC
12153135 GAGATGCTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (64 bp):
GGACGCTCACAAAGAGTTGCGGCATATCCGCAACACATACAGAATCAATACCGATCATATAACA
Found at i:12153544 original size:5 final size:5
Alignment explanation
Indices: 12153529--12153558 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
12153519 TTTAACACAT
12153529 TTCATA TTCAA TTCAA TTCAA TTCAA TTCA
1 TTCA-A TTCAA TTCAA TTCAA TTCAA TTCA
12153559 CATCTTAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (5 bp):
TTCAA
Found at i:12156337 original size:19 final size:19
Alignment explanation
Indices: 12156288--12156345 Score: 89
Period size: 22 Copynumber: 2.9 Consensus size: 19
12156278 AACTCTATCT
12156288 TTCAATAGTTACACAAACA
1 TTCAATAGTTACACAAACA
12156307 TTGACTAATAGTTACACAAACA
1 TT--C-AATAGTTACACAAACA
12156329 TTCAATAGTTACACAAA
1 TTCAATAGTTACACAAA
12156346 TTAAACTCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
19 16 0.44
20 1 0.03
21 1 0.03
22 18 0.50
ACGTcount: A:0.47, C:0.19, G:0.07, T:0.28
Consensus pattern (19 bp):
TTCAATAGTTACACAAACA
Done.