Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 46 of 167
Found at i:14275610 original size:27 final size:26
Alignment explanation
Indices: 14275551--14275612 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 26
14275541 CGAGTCATAT
14275551 CAGGAAGCTCACAAAGAGCCAATTAA
1 CAGGAAGCTCACAAAGAGCCAATTAA
*
14275577 CAGGAAGTTCACAAAGAGCCATATT-A
1 CAGGAAGCTCACAAAGAGCCA-ATTAA
14275603 CAGGGAAGCT
1 CA-GGAAGCT
14275613 TATAAGAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 23 0.72
27 9 0.28
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.15
Consensus pattern (26 bp):
CAGGAAGCTCACAAAGAGCCAATTAA
Found at i:14276548 original size:17 final size:17
Alignment explanation
Indices: 14276526--14276559 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
14276516 ACCCAATTAA
14276526 GCTTGCTTGAATTTCTT
1 GCTTGCTTGAATTTCTT
14276543 GCTTGCTTGAATTTCTT
1 GCTTGCTTGAATTTCTT
14276560 TCTCTTAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.53
Consensus pattern (17 bp):
GCTTGCTTGAATTTCTT
Found at i:14281234 original size:30 final size:30
Alignment explanation
Indices: 14281198--14281254 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
14281188 CACGGATTGG
**
14281198 CACATGGGTGTGTGGCCAGCCCATGTGGAT
1 CACATGGGCATGTGGCCAGCCCATGTGGAT
* *
14281228 CACATGGGCATGTGGCCATCCCGTGTG
1 CACATGGGCATGTGGCCAGCCCATGTG
14281255 AAAATGCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.16, C:0.26, G:0.35, T:0.23
Consensus pattern (30 bp):
CACATGGGCATGTGGCCAGCCCATGTGGAT
Found at i:14283038 original size:15 final size:14
Alignment explanation
Indices: 14283023--14283081 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 14
14283013 ATAGCAAAAT
14283023 AAAAATAAAAATAA
1 AAAAATAAAAATAA
* *
14283037 TAATATAAAAAATTAA
1 AAAAAT-AAAAA-TAA
14283053 AAAAATTAAAACATAA
1 AAAAA-TAAAA-ATAA
*
14283069 AAAATTAAAAATA
1 AAAAATAAAAATA
14283082 TAAGTATAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.19
15 10 0.28
16 17 0.47
17 2 0.06
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:14283055 original size:9 final size:8
Alignment explanation
Indices: 14283042--14283079 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
14283032 AATAATAATA
14283042 TAAAAAAT
1 TAAAAAAT
14283050 TAAAAAAAT
1 T-AAAAAAT
*
14283059 TAAAACA-
1 TAAAAAAT
14283066 TAAAAAAT
1 TAAAAAAT
14283074 TAAAAA
1 TAAAAA
14283080 TATAAGTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 6 0.23
8 12 0.46
9 8 0.31
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (8 bp):
TAAAAAAT
Found at i:14283056 original size:24 final size:23
Alignment explanation
Indices: 14283029--14283084 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
14283019 AAATAAAAAT
*
14283029 AAAAATAATAATATAAAAAATTAA
1 AAAAATAA-AACATAAAAAATTAA
14283053 AAAAATTAAAACATAAAAAATTAA
1 AAAAA-TAAAACATAAAAAATTAA
*
14283077 AAATATAA
1 AAAAATAA
14283085 GTATAAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.10
24 23 0.79
25 3 0.10
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (23 bp):
AAAAATAAAACATAAAAAATTAA
Found at i:14283128 original size:38 final size:36
Alignment explanation
Indices: 14283065--14283152 Score: 90
Period size: 37 Copynumber: 2.4 Consensus size: 36
14283055 AAATTAAAAC
* *
14283065 ATAAA-AAATTAAAAATATAAGTATAAGAATAAATTA
1 ATAAATAAAATAAAAATATAAGTATAACAATAAA-TA
* * *
14283101 ATTAGTAAAATAAAAATAAATAA-TATAACAATTAATA
1 ATAAATAAAATAAAAAT--ATAAGTATAACAATAAATA
14283138 ATAAATAAAATAAAA
1 ATAAATAAAATAAAA
14283153 TTGGGGTGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
36 3 0.07
37 25 0.60
38 10 0.24
39 4 0.10
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.27
Consensus pattern (36 bp):
ATAAATAAAATAAAAATATAAGTATAACAATAAATA
Found at i:14299064 original size:2 final size:2
Alignment explanation
Indices: 14299059--14299093 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14299049 AACATATATA
14299059 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
14299094 TTGGTGTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:14303190 original size:11 final size:11
Alignment explanation
Indices: 14303174--14303232 Score: 73
Period size: 11 Copynumber: 5.2 Consensus size: 11
14303164 CTTTATATAC
14303174 TAATAAAATAA
1 TAATAAAATAA
14303185 TAATAAAATAA
1 TAATAAAATAA
*
14303196 TAATAAAATATCT
1 TAATAAAATA--A
* *
14303209 TATTAAAATAT
1 TAATAAAATAA
14303220 TAATAAAATAA
1 TAATAAAATAA
14303231 TA
1 TA
14303233 TTTATCTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
11 33 0.79
13 9 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:14306296 original size:244 final size:244
Alignment explanation
Indices: 14305867--14306349 Score: 939
Period size: 244 Copynumber: 2.0 Consensus size: 244
14305857 ACTATTTTGT
14305867 ACATATATTTCCATATGACCAGTTCTTGTAAATATATCACACAACCATTTCATTTAACCATTCGT
1 ACATATATTTCCATATGACCAGTTCTTGTAAATATATCACACAACCATTTCATTTAACCATTCGT
14305932 CGTCTGATACATATTACCTGAATATCAATTGTTCAATAGATGTCATAGCGTCTCCCATCCACGGT
66 CGTCTGATACATATTACCTGAATATCAATTGTTCAATAGATGTCATAGCGTCTCCCATCCACGGT
14305997 CTTATTTATCTTTGACATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGCCATG
131 CTTATTTATCTTTGACATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGCCATG
**
14306062 TTGCCATGGTATCTTTCAACCATGGTATTATTCATTTCATATCACGTTC
196 TTGCCATGGTATCTTTCAACCATGGTATTACACATTTCATATCACGTTC
14306111 ACATATATTTCCATATGACCAGTTCTTGTAAATATATCACACAACCATTTCATTTAACCATTCGT
1 ACATATATTTCCATATGACCAGTTCTTGTAAATATATCACACAACCATTTCATTTAACCATTCGT
14306176 CGTCTGATACATATTACCTGAATATCAATTGTTCAATAGATGTCATAGCGTCTCCCATCCACGGT
66 CGTCTGATACATATTACCTGAATATCAATTGTTCAATAGATGTCATAGCGTCTCCCATCCACGGT
14306241 CTTATTTATCTTTGACATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGCCATG
131 CTTATTTATCTTTGACATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGCCATG
*
14306306 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
196 TTGCCATGGTATCTTTCAACCATGGTATTACACATTTCATATCA
14306350 GAGAGCACAC
Statistics
Matches: 236, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
244 236 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.39
Consensus pattern (244 bp):
ACATATATTTCCATATGACCAGTTCTTGTAAATATATCACACAACCATTTCATTTAACCATTCGT
CGTCTGATACATATTACCTGAATATCAATTGTTCAATAGATGTCATAGCGTCTCCCATCCACGGT
CTTATTTATCTTTGACATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGCCATG
TTGCCATGGTATCTTTCAACCATGGTATTACACATTTCATATCACGTTC
Found at i:14308483 original size:27 final size:27
Alignment explanation
Indices: 14308417--14308494 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
14308407 TCTTTATATA
14308417 CTAATAAAATAATAAAAAAATATCTTAT
1 CTAAT-AAATAATAAAAAAATATCTTAT
*
14308445 -TAA-AATATTAATAAAATAATAT-TTAT
1 CTAATAA-A-TAATAAAAAAATATCTTAT
* *
14308471 CTAATTAAATAATTATAAAATATC
1 CTAA-TAAATAATAAAAAAATATC
14308495 AAAATATCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
25 2 0.05
26 5 0.12
27 30 0.75
28 1 0.03
29 2 0.05
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (27 bp):
CTAATAAATAATAAAAAAATATCTTAT
Found at i:14310522 original size:2 final size:2
Alignment explanation
Indices: 14310515--14310545 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14310505 ATGCTAGCTT
14310515 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14310546 TAAGTGATTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14319482 original size:41 final size:42
Alignment explanation
Indices: 14319404--14319482 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
14319394 AATACTCGAT
**
14319404 ATCTCGCACACTAAGTGCCAATACATAGTTGAAGCTATTATA
1 ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTATTATA
*
14319446 ATCTCGCACACTAAGTGCC-TTACATAGCCGAAGCTAT
1 ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTAT
14319483 CTCGGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 15 0.44
42 19 0.56
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (42 bp):
ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTATTATA
Found at i:14319812 original size:20 final size:20
Alignment explanation
Indices: 14319782--14319820 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
14319772 TGCTTTAAAA
14319782 CACATTTTCAC-TTTTTCCC
1 CACATTTTCACATTTTTCCC
14319801 CACATATTTCACATTTTTCC
1 CACAT-TTTCACATTTTTCC
14319821 TAATTTAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.21, C:0.33, G:0.00, T:0.46
Consensus pattern (20 bp):
CACATTTTCACATTTTTCCC
Found at i:14323850 original size:18 final size:19
Alignment explanation
Indices: 14323827--14323863 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
14323817 CATTCAAACA
14323827 CCAGAAAAGT-AATCATTT
1 CCAGAAAAGTAAATCATTT
14323845 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
14323864 TTCAGAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:14325426 original size:3 final size:3
Alignment explanation
Indices: 14325418--14325444 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14325408 TTGCATGGAA
14325418 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
14325445 CCAATCCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14327983 original size:24 final size:21
Alignment explanation
Indices: 14327948--14327994 Score: 51
Period size: 24 Copynumber: 2.1 Consensus size: 21
14327938 AAGGATAAAG
14327948 AAACAAACAAGATCATAAAACAAA
1 AAACAAACAAGA-CA-AAAA-AAA
14327972 AAACATAA-AAGACAAAAAAAA
1 AAACA-AACAAGACAAAAAAAA
14327993 AA
1 AA
14327995 CCGACAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 5 0.23
22 4 0.18
23 2 0.09
24 9 0.41
25 2 0.09
ACGTcount: A:0.77, C:0.13, G:0.04, T:0.06
Consensus pattern (21 bp):
AAACAAACAAGACAAAAAAAA
Found at i:14328801 original size:19 final size:18
Alignment explanation
Indices: 14328774--14328809 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
14328764 GGTTTAAGTA
14328774 TTAAATTAAATATTAAAG
1 TTAAATTAAATATTAAAG
14328792 TTAAATTTAAATATTAAA
1 TTAAA-TTAAATATTAAA
14328810 TACTATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TTAAATTAAATATTAAAG
Found at i:14329436 original size:299 final size:297
Alignment explanation
Indices: 14328891--14329786 Score: 1037
Period size: 299 Copynumber: 3.0 Consensus size: 297
14328881 AAATTTTAGT
14328891 AAATAAACATTCGTATACAATGGGATTTGAACCTAAACCAATTACATTAACAAAATGTTTAATTT
1 AAATAAACATTCGTATACAATGGGATTTGAACCTAAACCAATTACATTAACAAAATGTTTAATTT
14328956 ATGACTTAACTAAAACTTTATTTTAATATTTTAATATATTTTAATTTTATTATTCACATTTTATT
66 ATGACTTAACTAAAACTTTATTTTAATATTTTAATATATTTTAATTTTATTATTCACATTTTATT
14329021 ACTTACATCAATTGTATATCAATACTTACTATTTATTAAGTGTTTTATTGAGTTGGTGGCTCCCT
131 ACTTACATCAATTGTATATCAATACTTACTATTTATTAAGTGTTTTATTGAGTTGGTGGCTCCCT
** * *
14329086 CAACCAAGTCACCAACTCGGCTAGAGTTATGGTTAGGGAAATTTTCATAATTAAAATAAGTTATA
196 CAACCAAGTCACCAACTCGGCTAG-G--A-AATTACGAAAATTTTCATAATTAAAATAAGTTATA
* *
14329151 TTATTCAATGGTACTTTAATCCTTTT-A-TTTAA-AAAAGAC
257 TTATTCAAGGGTACTTTAAT-CTTTTCATTTTAAGAAAAAAC
14329190 AAATAAACATTCGTATACAATGGGATTTGAACCTAAACCAATTACATTAACAAAATGTTTAATTT
1 AAATAAACATTCGTATACAATGGGATTTGAACCTAAACCAATTACATTAACAAAATGTTTAATTT
14329255 ATGACTTAACTAAAACTTTATTTTAATATTTTAATATATTTTAATTTTATTATTCACATTTTATT
66 ATGACTTAACTAAAACTTTATTTTAATATTTTAATATATTTTAATTTTATTATTCACATTTTATT
14329320 ACTTACATCAATTGTATATCAATACTTACTATTTATTAAGTGTTTTATTGAGTTGGTGGCTCCCT
131 ACTTACATCAATTGTATATCAATACTTACTATTTATTAAGTGTTTTATTGAGTTGGTGGCTCCCT
14329385 CAACCAAGTCACCAACTCGGCTAGGAAATTACGAAAATGTCATTCCATAATTAAAATAAGTTATA
196 CAACCAAGTCACCAACTCGGCTAGGAAATTACGAAAAT-T--TT-CATAATTAAAATAAGTTATA
** *
14329450 TTATTTGAGGGTAGTTTAATCTTTTCATTTTAAGAAAAAAC
257 TTATTCAAGGGTACTTTAATCTTTTCATTTTAAGAAAAAAC
* * * *** * * *** * * *
14329491 AATTAAA-ATAT-GCAGATGGTAGGATTTAAATCC-GCGCCAATTAGA--AA-AAAATCCTTAAA
1 AAATAAACAT-TCGTATACAATGGGATTTGAA-CCTAAACCAATTACATTAACAAAAT-GTTTAA
** * * * * * * * * * * **
14329550 TTTACCA-TTCAACCAAAGCTTCATTTTAATATATTTTAGACATTTTTATTTTAATATGCGCAAG
63 TTTATGACTT-AACTAAAACTTTATTTTAATAT-TTTAATATATTTTAATTTTATTATTCACATT
* *
14329614 TTAATATCTT-CATCAATTGTATATCAATACTTACTATTTATTAAGTGTTTTATTGAGTTGGTGT
126 TTATTA-CTTACATCAATTGTATATCAATACTTACTATTTATTAAGTGTTTTATTGAGTTGGTGG
* * * * * * * *
14329678 CAT-CCTCAATCGAGTGACCAACTCGGTTAGGAAATTATGGAAATATCCTTCCCTCATTAAAA-A
190 C-TCCCTCAACCAAGTCACCAACTCGGCTAGGAAATTA-CGAAA-AT--TTTCATAATTAAAATA
* * * * *
14329741 AGCTATACTATTCGAA-GGTATTTTAGTCTTTTCATTTTAACAAAAA
250 AGTTATATTATTC-AAGGGTACTTTAATCTTTTCATTTTAAGAAAAA
14329787 CTAATTAAAA
Statistics
Matches: 524, Mismatches: 55, Indels: 37
0.85 0.09 0.06
Matches are distributed among these distances:
295 8 0.02
296 2 0.00
297 7 0.01
298 76 0.15
299 377 0.72
300 36 0.07
301 17 0.03
302 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (297 bp):
AAATAAACATTCGTATACAATGGGATTTGAACCTAAACCAATTACATTAACAAAATGTTTAATTT
ATGACTTAACTAAAACTTTATTTTAATATTTTAATATATTTTAATTTTATTATTCACATTTTATT
ACTTACATCAATTGTATATCAATACTTACTATTTATTAAGTGTTTTATTGAGTTGGTGGCTCCCT
CAACCAAGTCACCAACTCGGCTAGGAAATTACGAAAATTTTCATAATTAAAATAAGTTATATTAT
TCAAGGGTACTTTAATCTTTTCATTTTAAGAAAAAAC
Found at i:14330138 original size:19 final size:19
Alignment explanation
Indices: 14330114--14330154 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
14330104 GTTTCAGGAG
14330114 CCATACGGGCTGGGCCATT
1 CCATACGGGCTGGGCCATT
14330133 CCATACGGGCTGGGCCATT
1 CCATACGGGCTGGGCCATT
14330152 CCA
1 CCA
14330155 CACAGGCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.34, G:0.29, T:0.20
Consensus pattern (19 bp):
CCATACGGGCTGGGCCATT
Found at i:14330162 original size:19 final size:19
Alignment explanation
Indices: 14330121--14330162 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
14330111 GAGCCATACG
* *
14330121 GGCTGGGCCATTCCATACG
1 GGCTGGGCCATTCCACACA
14330140 GGCTGGGCCATTCCACACA
1 GGCTGGGCCATTCCACACA
14330159 GGCT
1 GGCT
14330163 AGACACACGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.33, G:0.31, T:0.19
Consensus pattern (19 bp):
GGCTGGGCCATTCCACACA
Found at i:14330208 original size:29 final size:30
Alignment explanation
Indices: 14330152--14330208 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
14330142 CTGGGCCATT
* * *
14330152 CCACACAGGCTAGACACACGGCCGTGTGAG
1 CCACACAAGCTAGACACACGACCATGTGAG
*
14330182 CCACACAAGCTA-CCACACGACCATGTG
1 CCACACAAGCTAGACACACGACCATGTG
14330209 CCAAACCATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 12 0.52
30 11 0.48
ACGTcount: A:0.30, C:0.37, G:0.23, T:0.11
Consensus pattern (30 bp):
CCACACAAGCTAGACACACGACCATGTGAG
Found at i:14331318 original size:20 final size:19
Alignment explanation
Indices: 14331270--14331330 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
14331260 AGGAAAACTT
14331270 TATTTTTA--TTAATTTAA
1 TATTTTTATTTTAATTTAA
* *
14331287 TATTTTTATTTTATTTTAG
1 TATTTTTATTTTAATTTAA
*
14331306 TATTTTTGTTTTTAATTTAA
1 TATTTTT-ATTTTAATTTAA
14331326 T-TTTT
1 TATTTT
14331331 ACATTCTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 8 0.22
19 18 0.50
20 10 0.28
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TATTTTTATTTTAATTTAA
Found at i:14331809 original size:22 final size:23
Alignment explanation
Indices: 14331784--14331829 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
14331774 CAACCAAACC
14331784 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
14331806 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
14331829 A
1 A
14331830 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:14331835 original size:23 final size:23
Alignment explanation
Indices: 14331791--14331835 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14331781 ACCAATTCAA
*
14331791 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
14331814 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
14331836 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:14333355 original size:106 final size:106
Alignment explanation
Indices: 14333170--14333577 Score: 807
Period size: 106 Copynumber: 3.8 Consensus size: 106
14333160 TCTTCACTAA
14333170 AAATTAATTATCTCTTCATAAAAAATTCGAATGATGTTTTCGTTTGTTTCTATTGAAAATAGACT
1 AAATTAATTATCTCTTCATAAAAAATTCGAATGATGTTTTCGTTTGTTTCTATTGAAAATAGACT
14333235 CATTCAAGATCCTATGCATATAAATAATAATGAAATTATAG
66 CATTCAAGATCCTATGCATATAAATAATAATGAAATTATAG
14333276 AAATTAATTATCTCTTCATAAAAAATTCGAATGATGTTTTCGTTTGTTTCTATTGAAAATAGACT
1 AAATTAATTATCTCTTCATAAAAAATTCGAATGATGTTTTCGTTTGTTTCTATTGAAAATAGACT
14333341 CATTCAAGATCCTATGCATATAAATAATAATGAAATTATAG
66 CATTCAAGATCCTATGCATATAAATAATAATGAAATTATAG
14333382 AAATTAATTATCTCTTCATAAAAAATTCGAATGATGTTTTCGTTTGTTTCTATTGAAAATAGACT
1 AAATTAATTATCTCTTCATAAAAAATTCGAATGATGTTTTCGTTTGTTTCTATTGAAAATAGACT
14333447 CATTCAAGATCCTATGCATATAAATAATAATGAAATTATAG
66 CATTCAAGATCCTATGCATATAAATAATAATGAAATTATAG
14333488 AAATTAATTATCTCTTCATAAAAAATTCGAATGATGTTTTCGTTTGTTTCTATTGAAAATAGACT
1 AAATTAATTATCTCTTCATAAAAAATTCGAATGATGTTTTCGTTTGTTTCTATTGAAAATAGACT
*
14333553 CATTCAAGATTCTATGCATATAAAT
66 CATTCAAGATCCTATGCATATAAAT
14333578 TTAAGCCCCT
Statistics
Matches: 301, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 301 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (106 bp):
AAATTAATTATCTCTTCATAAAAAATTCGAATGATGTTTTCGTTTGTTTCTATTGAAAATAGACT
CATTCAAGATCCTATGCATATAAATAATAATGAAATTATAG
Found at i:14334401 original size:59 final size:59
Alignment explanation
Indices: 14334321--14334440 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 59
14334311 CCCTTAATTT
* *
14334321 ATCAATTTTCCTGCTGGTTTCATGCCCTTGCCGTCTAGCCCAAATAAATTTTGGGTCTA
1 ATCAATTTTCCTGCTGATTTCATGCCCTTGCCGTCCAGCCCAAATAAATTTTGGGTCTA
14334380 ATCAATTTTCCTGCTGATTTCATGCCCTTGCCGTCCAGCCCAAATAAATTTTGGGTCTA
1 ATCAATTTTCCTGCTGATTTCATGCCCTTGCCGTCCAGCCCAAATAAATTTTGGGTCTA
14334439 AT
1 AT
14334441 TCTTTTTAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.37
Consensus pattern (59 bp):
ATCAATTTTCCTGCTGATTTCATGCCCTTGCCGTCCAGCCCAAATAAATTTTGGGTCTA
Found at i:14339136 original size:25 final size:25
Alignment explanation
Indices: 14339065--14339125 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
14339055 ACGAGAGACA
14339065 AACGGTAAGCTCATCCGAGCTGAAT
1 AACGGTAAGCTCATCCGAGCTGAAT
* * *
14339090 ATCGGTAAGCTCCTCCGAGCTGGAT
1 AACGGTAAGCTCATCCGAGCTGAAT
14339115 AACGGTAAGCT
1 AACGGTAAGCT
14339126 TATGCAAGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (25 bp):
AACGGTAAGCTCATCCGAGCTGAAT
Found at i:14341609 original size:169 final size:169
Alignment explanation
Indices: 14341330--14341670 Score: 673
Period size: 169 Copynumber: 2.0 Consensus size: 169
14341320 ATCTGGATAC
14341330 AGAGTCGGAAATATGATGTTTCATTACGGGTCATTGATACATCTGTTTCCATTTATTGTACAATT
1 AGAGTCGGAAATATGATGTTTCATTACGGGTCATTGATACATCTGTTTCCATTTATTGTACAATT
14341395 AATTACTTCTGAAATGAACAAACATAATACCATTTTGAGCTTCGTGCAAAATTTTTTGTATCAGC
66 AATTACTTCTGAAATGAACAAACATAATACCATTTTGAGCTTCGTGCAAAATTTTTTGTATCAGC
*
14341460 TCTGGACTTTTGAGTACACTAAATATATTTCTGAATAAT
131 TCTGGACTTTTCAGTACACTAAATATATTTCTGAATAAT
14341499 AGAGTCGGAAATATGATGTTTCATTACGGGTCATTGATACATCTGTTTCCATTTATTGTACAATT
1 AGAGTCGGAAATATGATGTTTCATTACGGGTCATTGATACATCTGTTTCCATTTATTGTACAATT
14341564 AATTACTTCTGAAATGAACAAACATAATACCATTTTGAGCTTCGTGCAAAATTTTTTGTATCAGC
66 AATTACTTCTGAAATGAACAAACATAATACCATTTTGAGCTTCGTGCAAAATTTTTTGTATCAGC
14341629 TCTGGACTTTTCAGTACACTAAATATATTTCTGAATAAT
131 TCTGGACTTTTCAGTACACTAAATATATTTCTGAATAAT
14341668 AGA
1 AGA
14341671 CAATCATTGT
Statistics
Matches: 171, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 171 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (169 bp):
AGAGTCGGAAATATGATGTTTCATTACGGGTCATTGATACATCTGTTTCCATTTATTGTACAATT
AATTACTTCTGAAATGAACAAACATAATACCATTTTGAGCTTCGTGCAAAATTTTTTGTATCAGC
TCTGGACTTTTCAGTACACTAAATATATTTCTGAATAAT
Found at i:14342564 original size:34 final size:34
Alignment explanation
Indices: 14342515--14342582 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
14342505 TGAAGCAGAA
*
14342515 GTATCGTCCACCGTATACACTTTTAGTAATGTCT
1 GTATCGTCCACCGTATACACTTTTACTAATGTCT
* *
14342549 GTATCTTCCATCGTATACACTTTTACTAATGTCT
1 GTATCGTCCACCGTATACACTTTTACTAATGTCT
14342583 ATCCTTTCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (34 bp):
GTATCGTCCACCGTATACACTTTTACTAATGTCT
Found at i:14345646 original size:25 final size:25
Alignment explanation
Indices: 14345612--14345670 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
14345602 AGCGATAAAC
*
14345612 GGTAAGCTCATTCGAGCTGAATATT
1 GGTAAGCTCATCCGAGCTGAATATT
*
14345637 GGTAAGCTCATCCGATCTGAATATT
1 GGTAAGCTCATCCGAGCTGAATATT
14345662 GGTAAGCTC
1 GGTAAGCTC
14345671 TTCCAAATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (25 bp):
GGTAAGCTCATCCGAGCTGAATATT
Found at i:14347777 original size:46 final size:44
Alignment explanation
Indices: 14347675--14347779 Score: 115
Period size: 46 Copynumber: 2.3 Consensus size: 44
14347665 TATTTTTATA
*
14347675 TTATTTTTTTCTTTTTTGTTTCTATTTTATTATGCACTGTTCTT
1 TTATTTTTTTCTTTGTTGTTTCTATTTTATTATGCACTGTTCTT
* *
14347719 TTATTGTTTTTTCGTTTGTT-TTTCTATTTTATTAT-CGCTTTATCTT
1 TTA-T-TTTTTTC-TTTGTTGTTTCTATTTTATTATGCACTGT-TCTT
14347765 CTTATTTATTTTCTT
1 -TTATTT-TTTTCTT
14347780 ATTAGTTTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
44 3 0.06
45 9 0.17
46 32 0.62
47 8 0.15
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.70
Consensus pattern (44 bp):
TTATTTTTTTCTTTGTTGTTTCTATTTTATTATGCACTGTTCTT
Found at i:14348663 original size:21 final size:20
Alignment explanation
Indices: 14348635--14348692 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
14348625 TTTTTGTTCT
14348635 AAAA-AAAGAATAAAAAATCG
1 AAAAGAAAGAATAAAAAA-CG
*
14348655 AAAAGAAAGAA-AAAAAAGG
1 AAAAGAAAGAATAAAAAACG
14348674 AAAAGGAAA-ACATAAAAAA
1 AAAA-GAAAGA-ATAAAAAA
14348693 GAGAAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 6 0.18
20 15 0.45
21 12 0.36
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.05
Consensus pattern (20 bp):
AAAAGAAAGAATAAAAAACG
Found at i:14351517 original size:25 final size:25
Alignment explanation
Indices: 14351489--14351538 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
14351479 CGAAAAGTGT
14351489 GATTTTTGGATTTCGATTCTGTAAA
1 GATTTTTGGATTTCGATTCTGTAAA
14351514 GATTTTTGGATTTCGATTCTGTAAA
1 GATTTTTGGATTTCGATTCTGTAAA
14351539 CTAGACTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (25 bp):
GATTTTTGGATTTCGATTCTGTAAA
Found at i:14353568 original size:13 final size:13
Alignment explanation
Indices: 14353550--14353576 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14353540 GCTTTTAATT
14353550 TGGATTTGGCATC
1 TGGATTTGGCATC
14353563 TGGATTTGGCATC
1 TGGATTTGGCATC
14353576 T
1 T
14353577 ACCTAGGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.41
Consensus pattern (13 bp):
TGGATTTGGCATC
Found at i:14357962 original size:26 final size:26
Alignment explanation
Indices: 14357931--14358038 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
14357921 TGAAATGCCC
*
14357931 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
14357957 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
14357983 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
14358009 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
14358035 ATCA
1 ATCA
14358039 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:14364341 original size:14 final size:14
Alignment explanation
Indices: 14364324--14364350 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14364314 GTGTCTATAA
14364324 TTTAAAATTTAGGG
1 TTTAAAATTTAGGG
14364338 TTTAAAATTTAGG
1 TTTAAAATTTAGG
14364351 ATTCATGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (14 bp):
TTTAAAATTTAGGG
Found at i:14364388 original size:15 final size:15
Alignment explanation
Indices: 14364357--14364391 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14364347 TAGGATTCAT
**
14364357 GATTTCAAGATTTAA
1 GATTTCAAGATACAA
14364372 GATTTCAAGATACAA
1 GATTTCAAGATACAA
14364387 GATTT
1 GATTT
14364392 AGAGCTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (15 bp):
GATTTCAAGATACAA
Found at i:14365992 original size:23 final size:23
Alignment explanation
Indices: 14365948--14365992 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14365938 TTGTATTAAA
**
14365948 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAAAATAAATATG
*
14365971 ATTAAAAATAAAAAATATATAT
1 ATTAAAAATAAAAAATAAATAT
14365993 TTAGTATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
ATTAAAAATAAAAAATAAATATG
Found at i:14367088 original size:27 final size:26
Alignment explanation
Indices: 14367069--14367124 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
14367059 TTTTATTATT
14367069 TTTAAGAATAAAACTAATTTTACGAC
1 TTTAAGAATAAAACTAATTTTACGAC
**
14367095 TTTATTAATAAAACTAATTTTACGAC
1 TTTAAGAATAAAACTAATTTTACGAC
14367121 TTTA
1 TTTA
14367125 TTCATAGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (26 bp):
TTTAAGAATAAAACTAATTTTACGAC
Found at i:14367104 original size:26 final size:26
Alignment explanation
Indices: 14367075--14367126 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
14367065 TATTTTTAAG
14367075 AATAAAACTAATTTTACGACTTTATT
1 AATAAAACTAATTTTACGACTTTATT
14367101 AATAAAACTAATTTTACGACTTTATT
1 AATAAAACTAATTTTACGACTTTATT
14367127 CATAGGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (26 bp):
AATAAAACTAATTTTACGACTTTATT
Found at i:14369484 original size:2 final size:2
Alignment explanation
Indices: 14369477--14369501 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14369467 ATTGCTCCAT
14369477 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
14369502 TTTTGTTTTG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:14370615 original size:9 final size:9
Alignment explanation
Indices: 14370601--14370648 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
14370591 AATCGAATCG
14370601 AGTTATTCA
1 AGTTATTCA
14370610 AGTTATTCGA
1 AGTTATTC-A
14370620 A-TTATTCA
1 AGTTATTCA
*
14370628 ACTTATTCGA
1 AGTTATTC-A
14370638 A-TTATTCA
1 AGTTATTCA
14370646 AGT
1 AGT
14370649 CAACTCGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 4 0.11
9 27 0.77
10 4 0.11
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (9 bp):
AGTTATTCA
Found at i:14370624 original size:18 final size:18
Alignment explanation
Indices: 14370598--14370648 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
14370588 GTTAATCGAA
*
14370598 TCGAGTTATTCAAGTTAT
1 TCGAATTATTCAAGTTAT
*
14370616 TCGAATTATTCAACTTAT
1 TCGAATTATTCAAGTTAT
14370634 TCGAATTATTCAAGT
1 TCGAATTATTCAAGT
14370649 CAACTCGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (18 bp):
TCGAATTATTCAAGTTAT
Found at i:14372889 original size:27 final size:30
Alignment explanation
Indices: 14372813--14372889 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 30
14372803 TTTAAAAGTT
* *
14372813 AATTT-TTTTAGATCCCTTAAAAGTTGATA
1 AATTTCTTTTTGACCCCTTAAAAGTTGATA
* *
14372842 AATTTCTTTTTTACCCTTTAAAAGTT-A-A
1 AATTTCTTTTTGACCCCTTAAAAGTTGATA
14372870 AA-TTC-TTTTGAGCCCCTTAA
1 AATTTCTTTTTGA-CCCCTTAA
14372890 CAACTGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
26 5 0.12
27 10 0.25
28 3 0.08
29 6 0.15
30 16 0.40
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (30 bp):
AATTTCTTTTTGACCCCTTAAAAGTTGATA
Found at i:14374788 original size:27 final size:27
Alignment explanation
Indices: 14374730--14374790 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
14374720 CATTTTATTG
* *
14374730 GTTTTTTTAATATAATTTAGTTTTAGAT
1 GTTTTTTAAATATAATTTA-TTTTAAAT
14374758 -TTTTTTAAATATAATTT-TTTTAAATT
1 GTTTTTTAAATATAATTTATTTTAAA-T
14374784 GTTTTTT
1 GTTTTTT
14374791 TTCCTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 6 0.21
26 1 0.03
27 22 0.76
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (27 bp):
GTTTTTTAAATATAATTTATTTTAAAT
Found at i:14379398 original size:46 final size:46
Alignment explanation
Indices: 14379326--14380200 Score: 1662
Period size: 46 Copynumber: 19.0 Consensus size: 46
14379316 AGTGTGCTCT
*
14379326 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14379372 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14379418 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14379464 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14379510 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14379556 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14379602 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14379648 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14379694 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14379740 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14379786 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14379832 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14379878 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14379924 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14379970 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14380016 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
14380062 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
*
14380108 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
* * * **
14380154 ATGACAGGAAAATGAATAAGACCATGGTTGAAAGAT-ACTATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATAAC-ATGGCAAC
14380201 ATGACAGAAA
Statistics
Matches: 819, Mismatches: 8, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
46 786 0.96
47 33 0.04
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
Found at i:14380233 original size:46 final size:47
Alignment explanation
Indices: 14380127--14380249 Score: 167
Period size: 46 Copynumber: 2.6 Consensus size: 47
14380117 AATGTGTAAG
* * * *
14380127 ACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAATGAATAAG
1 ACCATAGTTGAAAGATACTATGGCAACATGACAGGAAAACGAATAAA
* *
14380174 ACCATGGTTGAAAGATACTATGGCAACATGACA-GAAAACGAGTAAA
1 ACCATAGTTGAAAGATACTATGGCAACATGACAGGAAAACGAATAAA
* *
14380220 ACTATAGTTGAAAGATACTATGGCATCATG
1 ACCATAGTTGAAAGATACTATGGCAACATG
14380250 TCGAAGATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
46 37 0.54
47 32 0.46
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (47 bp):
ACCATAGTTGAAAGATACTATGGCAACATGACAGGAAAACGAATAAA
Found at i:14380571 original size:55 final size:55
Alignment explanation
Indices: 14380481--14380589 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 55
14380471 AAATAATTAT
* *
14380481 GAAGATAGATAAACGAAATAAGTATAAGTATATGGAATATAATTTATGTTAAGTA
1 GAAGATAGATAAACGAAATAAGTATAAGCACATGGAATATAATTTATGTTAAGTA
* * * *
14380536 GAAGATAGATAAATGAAATAATTATAGGCACATGGAATTTAATTTATGTTAAGT
1 GAAGATAGATAAACGAAATAAGTATAAGCACATGGAATATAATTTATGTTAAGT
14380590 TTAATACGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.47, C:0.03, G:0.18, T:0.32
Consensus pattern (55 bp):
GAAGATAGATAAACGAAATAAGTATAAGCACATGGAATATAATTTATGTTAAGTA
Found at i:14381591 original size:10 final size:10
Alignment explanation
Indices: 14381572--14381621 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
14381562 TCAAATTCTA
14381572 AAAGATAAAT
1 AAAGATAAAT
14381582 ACAA-ATAAAT
1 A-AAGATAAAT
*
14381592 AAAGATAATT
1 AAAGATAAAT
14381602 AAAGATAAAT
1 AAAGATAAAT
*
14381612 AAATATAAAT
1 AAAGATAAAT
14381622 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:14384013 original size:6 final size:6
Alignment explanation
Indices: 14384002--14384031 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
14383992 TTTCTTCTAG
14384002 CACCTC CACCTC CACCTC CACCTC CACCTC
1 CACCTC CACCTC CACCTC CACCTC CACCTC
14384032 TAGACGCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.67, G:0.00, T:0.17
Consensus pattern (6 bp):
CACCTC
Found at i:14385641 original size:20 final size:20
Alignment explanation
Indices: 14385609--14385646 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14385599 TGTTTCACAT
14385609 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
14385629 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
14385647 ACTTAATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:14390650 original size:33 final size:32
Alignment explanation
Indices: 14390612--14390695 Score: 80
Period size: 33 Copynumber: 2.6 Consensus size: 32
14390602 CCATGTCAAT
* *
14390612 ATTTAAATGTAAGACCATAGCTA-ATCTATGGC
1 ATTTTAATGTAAGACCATAACTAGAT-TATGGC
* *
14390644 ATTTTAATGAAAAGACCATAACTAGGTTATGGC
1 ATTTTAATG-TAAGACCATAACTAGATTATGGC
* *
14390677 ATCTTGAACGTAAGACCAT
1 AT-TTTAATGTAAGACCAT
14390696 GGTTGGACCA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
32 8 0.19
33 28 0.67
34 6 0.14
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (32 bp):
ATTTTAATGTAAGACCATAACTAGATTATGGC
Found at i:14390767 original size:103 final size:101
Alignment explanation
Indices: 14390590--14390800 Score: 255
Period size: 103 Copynumber: 2.1 Consensus size: 101
14390580 GACAGATAAA
* * **
14390590 ACCATGGTTGGACCATGTCAATATTTAAATGTAAGACCATAGCTAATCTATGGCATTTTAATGAA
1 ACCATGGTTGGACCATGTCAATATTTAAATGTAAGACCATAGCTAAGCTATGACATCCTAATGAA
*
14390655 AAGACCATAACTAGGTTATGGCATCT-TGAACGTAAG
66 AAGACCATAACTAGGTTATGGCA-CTACGAACGTAAG
** ** *
14390691 ACCATGGTTGGACCATGGT-AGTATATTTATGTGTAAGACCATAGCTGGGCTATGACATCCTGAT
1 ACCATGGTTGGACCAT-GTCA--ATATTTAAATGTAAGACCATAGCTAAGCTATGACATCCTAAT
** *
14390755 GGTAAGACCATAACTAGGTTATGGCACTACGAATGTAAG
63 GAAAAGACCATAACTAGGTTATGGCACTACGAACGTAAG
14390794 ACCATGG
1 ACCATGG
14390801 AAAGGCCATC
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
101 17 0.18
102 4 0.04
103 72 0.77
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (101 bp):
ACCATGGTTGGACCATGTCAATATTTAAATGTAAGACCATAGCTAAGCTATGACATCCTAATGAA
AAGACCATAACTAGGTTATGGCACTACGAACGTAAG
Found at i:14392228 original size:44 final size:44
Alignment explanation
Indices: 14392165--14392252 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
14392155 TATGTTGAGA
14392165 AAATATAACTGATGAGGACTTGTTAAAGAAAACATTTTCAACCT
1 AAATATAACTGATGAGGACTTGTTAAAGAAAACATTTTCAACCT
14392209 AAATATAACTGATGAGGACTTGTTAAAGAAAACATTTTCAACCT
1 AAATATAACTGATGAGGACTTGTTAAAGAAAACATTTTCAACCT
14392253 TTCATGCTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (44 bp):
AAATATAACTGATGAGGACTTGTTAAAGAAAACATTTTCAACCT
Found at i:14395044 original size:24 final size:25
Alignment explanation
Indices: 14394929--14395046 Score: 87
Period size: 25 Copynumber: 4.7 Consensus size: 25
14394919 TTCATATTCA
* *
14394929 GGAATGCTCATACGA-CCACATAAATG
1 GGAA-GCTCATACGAGCCATAT-AACG
* ** *
14394955 GGAAGCTCTTTTGAGCCATATAATG
1 GGAAGCTCATACGAGCCATATAACG
* ** *
14394980 GGAAACTCATGTGAGCCATGTAACG
1 GGAAGCTCATACGAGCCATATAACG
** *
14395005 GGAAGCTCCGAAGAGCCAT-TAACG
1 GGAAGCTCATACGAGCCATATAACG
14395029 GGAAGCTCATACGAGCCA
1 GGAAGCTCATACGAGCCA
14395047 ATATTGAGAA
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
24 20 0.27
25 45 0.61
26 9 0.12
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (25 bp):
GGAAGCTCATACGAGCCATATAACG
Found at i:14395057 original size:24 final size:24
Alignment explanation
Indices: 14395030--14395084 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
14395020 CCATTAACGG
*
14395030 GAAGCTCATA-CGAGCCAATATTGA
1 GAAGCTCA-AGCGACCCAATATTGA
* *
14395054 GAAGTTCAAGCGACCCAATATTGG
1 GAAGCTCAAGCGACCCAATATTGA
14395078 GAAGCTC
1 GAAGCTC
14395085 CGAAGAGCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (24 bp):
GAAGCTCAAGCGACCCAATATTGA
Found at i:14414385 original size:21 final size:20
Alignment explanation
Indices: 14414351--14414389 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14414341 CTAAGATGTC
*
14414351 AATTGGATTGAATTGAATGCG
1 AATTGGATTAAATT-AATGCG
*
14414372 AATTGTATTAAATTAATG
1 AATTGGATTAAATTAATG
14414390 TTAAATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (20 bp):
AATTGGATTAAATTAATGCG
Found at i:14414778 original size:24 final size:24
Alignment explanation
Indices: 14414751--14414805 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
14414741 TGGTTCTTGC
*
14414751 GAGCTTCCCATTAATAGCTCTTCA
1 GAGCATCCCATTAATAGCTCTTCA
** *
14414775 GAGCATCCTGTTAATAGCTCTTCG
1 GAGCATCCCATTAATAGCTCTTCA
14414799 GAGCATC
1 GAGCATC
14414806 TCGTTTGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (24 bp):
GAGCATCCCATTAATAGCTCTTCA
Found at i:14415052 original size:74 final size:73
Alignment explanation
Indices: 14414974--14415150 Score: 191
Period size: 74 Copynumber: 2.4 Consensus size: 73
14414964 TCTGATATTA
* *
14414974 GCTCATATGAGCTTCCTTTTAATGGTTCTC-TGGAGCTTTCCGTTACATGGCTCACATAAGCTTT
1 GCTCATATGAGCTTCCTTTTAATGGTTCTCAT-GAG-TTTCCATTACATGGCTCACATAAGCTTC
14415038 CCATTACATG
64 CCATTACATG
** * * *
14415048 GCTCATATGAGCTTCCCATTACATGGCTCACATGAGTTTCCATTACATGGCTCACATGAGCTTCC
1 GCTCATATGAGCTTCCTTTTA-ATGGTTCTCATGAGTTTCCATTACATGGCTCACATAAGCTTCC
* *
14415113 CGTTATATG
65 CATTACATG
*
14415122 GCTCGA-AAGAGCTTCCTGTTT-AT-GTTCTC
1 GCTC-ATATGAGCTTCCT-TTTAATGGTTCTC
14415151 GTAAGAGCAT
Statistics
Matches: 85, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
72 4 0.05
73 2 0.02
74 65 0.76
75 13 0.15
76 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (73 bp):
GCTCATATGAGCTTCCTTTTAATGGTTCTCATGAGTTTCCATTACATGGCTCACATAAGCTTCCC
ATTACATG
Found at i:14415095 original size:24 final size:25
Alignment explanation
Indices: 14415006--14415125 Score: 170
Period size: 25 Copynumber: 4.8 Consensus size: 25
14414996 TGGTTCTCTG
*
14415006 GAGCTTTCCGTTACATGGCTCACAT
1 GAGCTTTCCATTACATGGCTCACAT
* *
14415031 AAGCTTTCCATTACATGGCTCATAT
1 GAGCTTTCCATTACATGGCTCACAT
*
14415056 GAGCTTCCCATTACATGGCTCACAT
1 GAGCTTTCCATTACATGGCTCACAT
14415081 GAG-TTTCCATTACATGGCTCACAT
1 GAGCTTTCCATTACATGGCTCACAT
* * *
14415105 GAGCTTCCCGTTATATGGCTC
1 GAGCTTTCCATTACATGGCTC
14415126 GAAAGAGCTT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
24 23 0.27
25 61 0.73
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.33
Consensus pattern (25 bp):
GAGCTTTCCATTACATGGCTCACAT
Found at i:14415107 original size:49 final size:50
Alignment explanation
Indices: 14415006--14415125 Score: 188
Period size: 49 Copynumber: 2.4 Consensus size: 50
14414996 TGGTTCTCTG
* *
14415006 GAGCTTTCCGTTACATGGCTCACATAAGCTTTCCATTACATGGCTCATAT
1 GAGCTTCCCGTTACATGGCTCACATAAGCTTTCCATTACATGGCTCACAT
* *
14415056 GAGCTTCCCATTACATGGCTCACATGAG-TTTCCATTACATGGCTCACAT
1 GAGCTTCCCGTTACATGGCTCACATAAGCTTTCCATTACATGGCTCACAT
*
14415105 GAGCTTCCCGTTATATGGCTC
1 GAGCTTCCCGTTACATGGCTC
14415126 GAAAGAGCTT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
49 39 0.61
50 25 0.39
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.33
Consensus pattern (50 bp):
GAGCTTCCCGTTACATGGCTCACATAAGCTTTCCATTACATGGCTCACAT
Found at i:14415133 original size:25 final size:25
Alignment explanation
Indices: 14415105--14415163 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
14415095 TGGCTCACAT
14415105 GAGCTTCCCGTTATATG-GCTCGAAA
1 GAGCTTCCCGTT-TATGTGCTCGAAA
* * *
14415130 GAGCTTCCTGTTTATGTTCTCGTAA
1 GAGCTTCCCGTTTATGTGCTCGAAA
14415155 GAGCATTCC
1 GAGC-TTCC
14415164 TAAATATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 4 0.14
25 21 0.72
26 4 0.14
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGTTTATGTGCTCGAAA
Found at i:14427755 original size:19 final size:20
Alignment explanation
Indices: 14427731--14427768 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
14427721 GGTACCACCG
14427731 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
14427750 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
14427769 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:14428164 original size:46 final size:47
Alignment explanation
Indices: 14427993--14428165 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 47
14427983 AACCCGCCCC
* * * *
14427993 TAAGTGAACTCAGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
* * *
14428039 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-ATTTGCATCCA
* * *
14428087 TCA-CGAACTAGGACTCAACTCAACGAGTTCGGA-CATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
14428132 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
14428166 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 56 0.53
47 30 0.29
48 3 0.03
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
Found at i:14428184 original size:46 final size:45
Alignment explanation
Indices: 14428043--14428184 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
14428033 CATCCATAAA
14428043 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * * *
14428090 CGAACTAGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
14428136 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
14428182 TGA
1 TGA
14428185 CATGTCACTT
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 32 0.42
47 30 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:14429760 original size:24 final size:25
Alignment explanation
Indices: 14429714--14429763 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
14429704 TCTTATCATG
* *
14429714 TCAATATCCATTTTCATGCATTTCA
1 TCAATAGCCATTTTCATACATTTCA
*
14429739 TCAATAGCCA-TTTCATATATTTCA
1 TCAATAGCCATTTTCATACATTTCA
14429763 T
1 T
14429764 TTCTATATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.44
Consensus pattern (25 bp):
TCAATAGCCATTTTCATACATTTCA
Found at i:14430556 original size:18 final size:17
Alignment explanation
Indices: 14430535--14430610 Score: 82
Period size: 17 Copynumber: 4.4 Consensus size: 17
14430525 ACATTTGAAA
*
14430535 TCACTTTCAATGTCAATT
1 TCACTTTCAAT-TCAAAT
14430553 TCACTTTCAATTCAAAT
1 TCACTTTCAATTCAAAT
**
14430570 TCAAAATTCAATTC-AAT
1 TC-ACTTTCAATTCAAAT
* *
14430587 TCTCATTCAATTCAAAT
1 TCACTTTCAATTCAAAT
14430604 TCACTTT
1 TCACTTT
14430611 TCCACTTTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
16 9 0.18
17 20 0.41
18 20 0.41
ACGTcount: A:0.34, C:0.22, G:0.01, T:0.42
Consensus pattern (17 bp):
TCACTTTCAATTCAAAT
Found at i:14430572 original size:11 final size:11
Alignment explanation
Indices: 14430558--14430606 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
14430548 CAATTTCACT
14430558 TTCAATTCAAA
1 TTCAATTCAAA
14430569 TTCAAAATTC-AA
1 TTC--AATTCAAA
**
14430581 TTCAATTCTCA
1 TTCAATTCAAA
14430592 TTCAATTCAAA
1 TTCAATTCAAA
14430603 TTCA
1 TTCA
14430607 CTTTTCCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 5 0.16
11 17 0.53
12 5 0.16
13 5 0.16
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (11 bp):
TTCAATTCAAA
Found at i:14430930 original size:70 final size:76
Alignment explanation
Indices: 14430775--14430950 Score: 195
Period size: 70 Copynumber: 2.3 Consensus size: 76
14430765 TTTCCAATCA
* * *
14430775 AATTCAAATCACTAATTACTTTTCAATCAATATACATTTCAAATACTCACATATTTTCTTCACTC
1 AATTCAAATCACT-ATTAATTTCCAATCAATATACATTTCAAATACTCACATA---TATTCACTC
14430840 AATTCAATTTGATTC
62 AATTCAATTTGATTC
* * *
14430855 AATTCAAATCACTCTTAGTTTCCAATCAATATAC-TTTCAAATATTCACATA-ATTCA-T-AATT
1 AATTCAAATCACTATTAATTTCCAATCAATATACATTTCAAATACTCACATATATTCACTCAATT
14430916 CAA-TT-ACTT-
66 CAATTTGA-TTC
*
14430925 AATTCAAATCACTTTTAATTTCCAAT
1 AATTCAAATCACTATTAATTTCCAAT
14430951 TTGTTCACGT
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
70 25 0.28
71 4 0.05
72 7 0.08
73 1 0.01
74 4 0.05
78 16 0.18
79 18 0.20
80 13 0.15
ACGTcount: A:0.38, C:0.20, G:0.01, T:0.41
Consensus pattern (76 bp):
AATTCAAATCACTATTAATTTCCAATCAATATACATTTCAAATACTCACATATATTCACTCAATT
CAATTTGATTC
Found at i:14431271 original size:30 final size:30
Alignment explanation
Indices: 14431220--14431278 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
14431210 ATTAATACAA
*
14431220 TATTAATTTTTATCTATTAAATTGAATTTC
1 TATTAATTTTTATCTATTAAATTCAATTTC
14431250 TATTCAATTTTCTA-CT-TTAAATTCAATTT
1 TATT-AATTTT-TATCTATTAAATTCAATTT
14431279 AATCTTAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 16 0.62
31 8 0.31
32 2 0.08
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (30 bp):
TATTAATTTTTATCTATTAAATTCAATTTC
Found at i:14431794 original size:3 final size:3
Alignment explanation
Indices: 14431776--14431827 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
14431766 ATATGTTTGT
* * *
14431776 TAA TAA TAT TAG TAA TAA TAA TACA TTA TAA TAA TAA T-A TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
14431820 TAA TAA TA
1 TAA TAA TA
14431828 TTTAATTCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
2 4 0.10
3 35 0.85
4 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:14431809 original size:16 final size:16
Alignment explanation
Indices: 14431783--14431827 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
14431773 TGTTAATAAT
14431783 ATTAGTAATAATAATAC
1 ATTA-TAATAATAATAC
*
14431800 ATTATAATAATAATAT
1 ATTATAATAATAATAC
*
14431816 AATATAATAATA
1 ATTATAATAATA
14431828 TTTAATTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 22 0.85
17 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (16 bp):
ATTATAATAATAATAC
Found at i:14431891 original size:22 final size:22
Alignment explanation
Indices: 14431863--14431906 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
14431853 AAATTATAAG
14431863 AAAATATTTTATTTTATTACAA
1 AAAATATTTTATTTTATTACAA
14431885 AAAATATTTTATTTTATTACAA
1 AAAATATTTTATTTTATTACAA
14431907 GTGTATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
AAAATATTTTATTTTATTACAA
Found at i:14432361 original size:12 final size:12
Alignment explanation
Indices: 14432303--14432365 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
14432293 TTTTTATTTC
14432303 ATAA-TATAATA
1 ATAATTATAATA
14432314 AT-ATTAATAATA
1 ATAATT-ATAATA
*
14432326 ATATTTA-AATAA
1 ATAATTATAAT-A
* **
14432338 AAAACCATAATA
1 ATAATTATAATA
14432350 ATAATTATAATA
1 ATAATTATAATA
14432362 ATAA
1 ATAA
14432366 ATTGATAACA
Statistics
Matches: 39, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
10 1 0.03
11 6 0.15
12 27 0.69
13 5 0.13
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATTATAATA
Found at i:14432991 original size:2 final size:2
Alignment explanation
Indices: 14432984--14433017 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
14432974 AGACCATTTG
*
14432984 CA CA CA CA CA CA CA CA CA CA CA CA CA CT CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
14433018 GAGACATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.50, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:14435501 original size:14 final size:14
Alignment explanation
Indices: 14435484--14435513 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14435474 TGAGAGCCAG
14435484 TGTAAGACCATGTT
1 TGTAAGACCATGTT
14435498 TGTAAGACCATGTT
1 TGTAAGACCATGTT
14435512 TG
1 TG
14435514 GAACATGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (14 bp):
TGTAAGACCATGTT
Found at i:14435512 original size:62 final size:62
Alignment explanation
Indices: 14435436--14435560 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
14435426 TGTGTGCTAG
*
14435436 TGTAAGACCATGTTTGGAACATGGCATCGGCCATATTATGAGAGCCAGTGTAAGACCATGTT
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
14435498 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
14435560 T
1 T
14435561 TGAACATAGC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (62 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
Found at i:14435573 original size:48 final size:48
Alignment explanation
Indices: 14435498--14435814 Score: 306
Period size: 48 Copynumber: 6.6 Consensus size: 48
14435488 AGACCATGTT
14435498 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAG
* * * *
14435546 TGTAAGACCATGTTTTGAACATAGCATCAGCCACATTATGAGAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAG
* **
14435594 TGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATG-GA-CCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCC-AG
* * * **
14435641 TGTAAGACCATGTTTGCAACATGACATC-GCAATGTTATGAGAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAG
* * * *
14435688 TGTAAGACCATGTCTGGGACATGGCATTGG---CATTGAGGTGAGAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATT-A--TGAGAGCCAG
* * * * * * * *
14435736 TGTAAAACCATGTCTGGGACATAGCGTCGGCCACGA-CATGTGAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCAC-ATTATGAGAGCCAG
* *
14435784 TGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGTAAGACCATGTTTGGAACATGGCATCGGC
14435815 AATTTACCCT
Statistics
Matches: 228, Mismatches: 30, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
45 2 0.01
46 13 0.06
47 57 0.25
48 153 0.67
50 1 0.00
51 1 0.00
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAG
Found at i:14435766 original size:142 final size:143
Alignment explanation
Indices: 14435498--14435816 Score: 349
Period size: 142 Copynumber: 2.2 Consensus size: 143
14435488 AGACCATGTT
* * * * *
14435498 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTTTG
1 TGTAAGACCATGTTTGCAACATGACATCGGCAACATTATGAGAGCCAGTGTAAGACCATGTCTGG
* * * *
14435563 AACATAGCATCAGCCACATTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAAT
66 AACATAGCATCAG-CACATTATGAGAGCTAGTGTAAAACCATGTCTGGAACATAGCATCGGCAAC
**
14435628 GTTATG-GACCTAG
130 GACATGTGACCTAG
**
14435641 TGTAAGACCATGTTTGCAACATGACATC-GCAATGTTATGAGAGCCAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTTTGCAACATGACATCGGCAACATTATGAGAGCCAGTGTAAGACCATGTCTGG
* * * * * * *
14435705 GACATGGCAT-TG-GCATTGAGGTGAGAGCTAGTGTAAAACCATGTCTGGGACATAGCGTCGGCC
66 AACATAGCATCAGCACATT-A--TGAGAGCTAGTGTAAAACCATGTCTGGAACATAGCATCGGCA
*
14435768 ACGACATGTGAGCTAG
128 ACGACATGTGACCTAG
* ** *
14435784 TGTAAGACCATGTCTGGGACATGGCATCGGCAA
1 TGTAAGACCATGTTTGCAACATGACATCGGCAA
14435817 TTTACCCTCT
Statistics
Matches: 146, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
139 4 0.03
140 1 0.01
141 1 0.01
142 80 0.55
143 56 0.38
144 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (143 bp):
TGTAAGACCATGTTTGCAACATGACATCGGCAACATTATGAGAGCCAGTGTAAGACCATGTCTGG
AACATAGCATCAGCACATTATGAGAGCTAGTGTAAAACCATGTCTGGAACATAGCATCGGCAACG
ACATGTGACCTAG
Found at i:14437995 original size:43 final size:41
Alignment explanation
Indices: 14437947--14438101 Score: 170
Period size: 43 Copynumber: 3.7 Consensus size: 41
14437937 TGTTTTCTCA
* *
14437947 TGTAAGACCACATCTGGGATGTTGGCATTCATATGTGATTACG
1 TGTAAGACCACGTCTGGGAAGTTGGCA-TCATATGTGATT-CG
* * * *
14437990 TGTAAGACCATGTCTGGGAAATTGGCATCGTATTTGATTCG
1 TGTAAGACCACGTCTGGGAAGTTGGCATCATATGTGATTCG
*
14438031 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATTGCA
1 TGTAAGACCAC-GTCTGGGA-AGTTGGCATC-ATATGTGATT-CG
*
14438074 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGAAGTTGGCAT
14438102 TGTATGATAT
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 26 0.28
42 20 0.21
43 47 0.50
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGAAGTTGGCATCATATGTGATTCG
Found at i:14441627 original size:33 final size:33
Alignment explanation
Indices: 14441590--14441664 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
14441580 ATCTCAGTAA
* * *
14441590 ACTTACTCTGTTCCATTTTTACTACCCCGACAG
1 ACTTACTCTGTTCCATGTTTACTAACCCAACAG
* *
14441623 ACTTACTCTGTTCCGTGTTTACTAACGCAACAG
1 ACTTACTCTGTTCCATGTTTACTAACCCAACAG
14441656 ACTTACTCT
1 ACTTACTCT
14441665 ATGGATGCCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.36
Consensus pattern (33 bp):
ACTTACTCTGTTCCATGTTTACTAACCCAACAG
Found at i:14443146 original size:19 final size:20
Alignment explanation
Indices: 14443122--14443169 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
14443112 GCAGAAGCTT
*
14443122 AGGAAAACCG-TCACGTTTA
1 AGGAAAACCGTTCACATTTA
* *
14443141 AGGAAAACAGTTCACATTTT
1 AGGAAAACCGTTCACATTTA
14443161 AGGAAAACC
1 AGGAAAACC
14443170 TTGTTTTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (20 bp):
AGGAAAACCGTTCACATTTA
Found at i:14444154 original size:22 final size:22
Alignment explanation
Indices: 14444129--14444177 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
14444119 GCCCGTGGCC
* *
14444129 CACACGGCTACACTCCAGTGGT
1 CACACGGCTACACTCAAGTCGT
14444151 CACACGGCTACACTCAAGTCGT
1 CACACGGCTACACTCAAGTCGT
14444173 CACAC
1 CACAC
14444178 AGCCATGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.39, G:0.18, T:0.16
Consensus pattern (22 bp):
CACACGGCTACACTCAAGTCGT
Found at i:14458497 original size:70 final size:70
Alignment explanation
Indices: 14458384--14458518 Score: 243
Period size: 70 Copynumber: 1.9 Consensus size: 70
14458374 TGAACAATAT
* *
14458384 TTTATAAAGGTATCGATATGAATTGACTTGTTTCCAAAATTTTGAAAATGGCAAAATGTCAAAAC
1 TTTATAAAGGTATCGATATGAATTGACTTGTGTCCAAAATTTTGAAAATGGCAAAATGCCAAAAC
14458449 GATAC
66 GATAC
*
14458454 TTTATAAAGGTATCGATATGAATTGACTTGTGTCCAAAATTTTGAAAATGGCAGAATGCCAAAAC
1 TTTATAAAGGTATCGATATGAATTGACTTGTGTCCAAAATTTTGAAAATGGCAAAATGCCAAAAC
14458519 TATATCGATA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (70 bp):
TTTATAAAGGTATCGATATGAATTGACTTGTGTCCAAAATTTTGAAAATGGCAAAATGCCAAAAC
GATAC
Found at i:14459824 original size:55 final size:55
Alignment explanation
Indices: 14459746--14459931 Score: 255
Period size: 55 Copynumber: 3.4 Consensus size: 55
14459736 CGTGCCCTTA
* * * * * *
14459746 GCCCATGTGCAACACTGACTTTAAAACACGGTCATGGCGTATGCCCGTGTGGCTT
1 GCCCGTGTACAACACTGACTTTAATACACGGCCATGGCGCATGCCCGTGTGGCCT
* * *
14459801 GCCCGTGTACAACACTGAATTTAATACACGGCCATGGTGCACGCCCGTGTGGCCT
1 GCCCGTGTACAACACTGACTTTAATACACGGCCATGGCGCATGCCCGTGTGGCCT
* * *
14459856 GCCCGTGTACAATACTGACTTTAATACAAGGCCATGGCACATGCCCGTGTGGCCT
1 GCCCGTGTACAACACTGACTTTAATACACGGCCATGGCGCATGCCCGTGTGGCCT
*
14459911 GCCCGTGTACAACAATGACTT
1 GCCCGTGTACAACACTGACTT
14459932 AAAATTTGAA
Statistics
Matches: 114, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 114 1.00
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (55 bp):
GCCCGTGTACAACACTGACTTTAATACACGGCCATGGCGCATGCCCGTGTGGCCT
Found at i:14467748 original size:62 final size:62
Alignment explanation
Indices: 14467672--14468556 Score: 1752
Period size: 62 Copynumber: 14.3 Consensus size: 62
14467662 ATATATATCA
14467672 GACATTAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACA-TAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
14467735 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
14467797 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
14467859 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
14467921 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
14467983 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
14468045 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
14468107 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
14468169 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
14468231 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
14468293 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
14468355 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
14468417 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
14468479 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
*
14468541 GACATAAAGCAAAAAG
1 GACATAAAGCATAAAG
14468557 CTCTTTAATT
Statistics
Matches: 821, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
62 817 1.00
63 4 0.00
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (62 bp):
GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
Found at i:14478354 original size:27 final size:27
Alignment explanation
Indices: 14478250--14478663 Score: 501
Period size: 27 Copynumber: 15.7 Consensus size: 27
14478240 TACATCACGT
* * ** *
14478250 AGGGATAAATCAGTCATCTTACCATAAA
1 AGGGA-AAAACAGTCATTTTACCCCATA
* * * ** *
14478278 AGGGCAAAATAGTCATCTTACCATAAA
1 AGGGAAAAACAGTCATTTTACCCCATA
* *
14478305 AGGGCAAAACATTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
14478332 AGGGAAAAACAGTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
* *
14478359 AGGG--CAACAGCCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
*
14478384 AGGG--CAACAGTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
14478409 AGGGAAAAACAGTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
* *
14478436 AGGG--CAACAGCCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
*
14478461 AGGG--CAACAGTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
14478486 AGGGAAAAACAGTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
* *
14478513 AGGGAAAAATAGTCATTTTACCCAATA
1 AGGGAAAAACAGTCATTTTACCCCATA
*
14478540 AGGG--CAACAGTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
14478565 AGGGAAAAACAGTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
*
14478592 AGGGAAAAATAGTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
*
14478619 AGGG--CAACAGTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
* *
14478644 AGGGTAAAATAGTCATTTTA
1 AGGGAAAAACAGTCATTTTA
14478664 TCAATTTGAG
Statistics
Matches: 348, Mismatches: 30, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
25 139 0.40
27 205 0.59
28 4 0.01
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (27 bp):
AGGGAAAAACAGTCATTTTACCCCATA
Found at i:14478420 original size:52 final size:52
Alignment explanation
Indices: 14478250--14478663 Score: 489
Period size: 52 Copynumber: 7.9 Consensus size: 52
14478240 TACATCACGT
* ** * * * ** *
14478250 AGGGATAAATCAGTCATCTTACCATAAAAGGGCAAAATAGTCATCTTACCATAAA
1 AGGGA-AAA-CAGTCATTTTACCCCATAAGGG-AAAACAGTCATTTTACCCCATA
*
14478305 AGGGCAAAACATTCATTTTACCCCATAAGGGAAAAACAGTCATTTTACCCCATA
1 AGGG-AAAACAGTCATTTTACCCCATAAGGG-AAAACAGTCATTTTACCCCATA
* * *
14478359 AGGG-CAACAGCCATTTTACCCCATAAGGG-CAACAGTCATTTTACCCCATA
1 AGGGAAAACAGTCATTTTACCCCATAAGGGAAAACAGTCATTTTACCCCATA
* *
14478409 AGGGAAAAACAGTCATTTTACCCCATAAGGG-CAACAGCCATTTTACCCCATA
1 AGGG-AAAACAGTCATTTTACCCCATAAGGGAAAACAGTCATTTTACCCCATA
*
14478461 AGGG-CAACAGTCATTTTACCCCATAAGGGAAAAACAGTCATTTTACCCCATA
1 AGGGAAAACAGTCATTTTACCCCATAAGGG-AAAACAGTCATTTTACCCCATA
* * *
14478513 AGGGAAAAATAGTCATTTTACCCAATAAGGG-CAACAGTCATTTTACCCCATA
1 AGGG-AAAACAGTCATTTTACCCCATAAGGGAAAACAGTCATTTTACCCCATA
*
14478565 AGGGAAAAACAGTCATTTTACCCCATAAGGGAAAAATAGTCATTTTACCCCATA
1 AGGG-AAAACAGTCATTTTACCCCATAAGGG-AAAACAGTCATTTTACCCCATA
* *
14478619 AGGG-CAACAGTCATTTTACCCCATAAGGGTAAAATAGTCATTTTA
1 AGGGAAAACAGTCATTTTACCCCATAAGGG-AAAACAGTCATTTTA
14478664 TCAATTTGAG
Statistics
Matches: 319, Mismatches: 31, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
50 48 0.15
52 180 0.56
54 83 0.26
55 7 0.02
56 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (52 bp):
AGGGAAAACAGTCATTTTACCCCATAAGGGAAAACAGTCATTTTACCCCATA
Found at i:14478578 original size:79 final size:78
Alignment explanation
Indices: 14478250--14478663 Score: 589
Period size: 79 Copynumber: 5.3 Consensus size: 78
14478240 TACATCACGT
* * ** * * ** *
14478250 AGGGATAAATCAGTCATCTTACCATAAAAGGGCAAAATAGTCATCTTACCATAAAAGGGCAAAAC
1 AGGGA-AAAACAGTCATTTTACCCCATAAGGG-AAAATAGTCATTTTACCCCATAAGGGC--AAC
*
14478315 ATTCATTTTACCCCATA
62 AGTCATTTTACCCCATA
* * *
14478332 AGGGAAAAACAGTCATTTTACCCCATAAGGG-CAACAGCCATTTTACCCCATAAGGGCAACAGTC
1 AGGGAAAAACAGTCATTTTACCCCATAAGGGAAAATAGTCATTTTACCCCATAAGGGCAACAGTC
14478396 ATTTTACCCCATA
66 ATTTTACCCCATA
* * *
14478409 AGGGAAAAACAGTCATTTTACCCCATAAGGG-CAACAGCCATTTTACCCCATAAGGGCAACAGTC
1 AGGGAAAAACAGTCATTTTACCCCATAAGGGAAAATAGTCATTTTACCCCATAAGGGCAACAGTC
14478473 ATTTTACCCCATA
66 ATTTTACCCCATA
*
14478486 AGGGAAAAACAGTCATTTTACCCCATAAGGGAAAAATAGTCATTTTACCCAATAAGGGCAACAGT
1 AGGGAAAAACAGTCATTTTACCCCATAAGGG-AAAATAGTCATTTTACCCCATAAGGGCAACAGT
14478551 CATTTTACCCCATA
65 CATTTTACCCCATA
14478565 AGGGAAAAACAGTCATTTTACCCCATAAGGGAAAAATAGTCATTTTACCCCATAAGGGCAACAGT
1 AGGGAAAAACAGTCATTTTACCCCATAAGGG-AAAATAGTCATTTTACCCCATAAGGGCAACAGT
14478630 CATTTTACCCCATA
65 CATTTTACCCCATA
* *
14478644 AGGGTAAAATAGTCATTTTA
1 AGGGAAAAACAGTCATTTTA
14478664 TCAATTTGAG
Statistics
Matches: 310, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
77 127 0.41
79 157 0.51
81 21 0.07
82 5 0.02
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (78 bp):
AGGGAAAAACAGTCATTTTACCCCATAAGGGAAAATAGTCATTTTACCCCATAAGGGCAACAGTC
ATTTTACCCCATA
Found at i:14481370 original size:17 final size:17
Alignment explanation
Indices: 14481333--14481376 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
14481323 GGAGGATTTG
*
14481333 ATAAAATAAAATTAAAAA
1 ATAAAAT-AAGTTAAAAA
* *
14481351 ATATAATAAGTTAAAGA
1 ATAAAATAAGTTAAAAA
14481368 ATAAAATAA
1 ATAAAATAA
14481377 ACATAAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (17 bp):
ATAAAATAAGTTAAAAA
Found at i:14482300 original size:32 final size:32
Alignment explanation
Indices: 14482264--14482330 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
14482254 TGTATATGAT
14482264 TATGTTAAAAGGTTAAGAAATATATGAATTAC
1 TATGTTAAAAGGTTAAGAAATATATGAATTAC
* *
14482296 TATGTTACAAGGTTAAGAAGTATATGAATTAC
1 TATGTTAAAAGGTTAAGAAATATATGAATTAC
14482328 TAT
1 TAT
14482331 TCGATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.36
Consensus pattern (32 bp):
TATGTTAAAAGGTTAAGAAATATATGAATTAC
Found at i:14483887 original size:17 final size:17
Alignment explanation
Indices: 14483865--14483899 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
14483855 TGAATATTTG
14483865 AAGGATTTATTTATGAT
1 AAGGATTTATTTATGAT
14483882 AAGGATTTATTTATGAT
1 AAGGATTTATTTATGAT
14483899 A
1 A
14483900 TGCTTGATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (17 bp):
AAGGATTTATTTATGAT
Found at i:14486162 original size:18 final size:18
Alignment explanation
Indices: 14486136--14486182 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
14486126 ACTCACATCT
*
14486136 TATTCTCTCAAATCTTTC
1 TATTCTCTCAAATATTTC
*
14486154 TATTTTCTCAAATATTTC
1 TATTCTCTCAAATATTTC
14486172 TATTCTCTCAA
1 TATTCTCTCAA
14486183 CTCTCTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTCTCTCAAATATTTC
Found at i:14498943 original size:19 final size:20
Alignment explanation
Indices: 14498906--14498963 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
14498896 TCCAGATGAT
* * *
14498906 TTTTTATTATTAATTTTATG
1 TTTTTAATATAAATATTATG
14498926 TTTTTAATA-AAATATTATG
1 TTTTTAATATAAATATTATG
* *
14498945 TTTTTTATATAATTATTAT
1 TTTTTAATATAAATATTAT
14498964 TTTAAAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTTAATATAAATATTATG
Found at i:14501146 original size:3 final size:3
Alignment explanation
Indices: 14501140--14501186 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
14501130 GAAGGAAAAA
14501140 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAGG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA-G AAG
14501186 A
1 A
14501187 TTTGTGTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14518617 original size:20 final size:21
Alignment explanation
Indices: 14518582--14518622 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
14518572 TTTGCTTTCC
*
14518582 GTTAAGCTCTTATGAGCTTCA
1 GTTAAGCTCATATGAGCTTCA
*
14518603 GTTAA-CTCATATGAGTTTCA
1 GTTAAGCTCATATGAGCTTCA
14518623 TTTCAACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (21 bp):
GTTAAGCTCATATGAGCTTCA
Found at i:14519197 original size:2 final size:2
Alignment explanation
Indices: 14519190--14519227 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14519180 ATGGCAATTA
14519190 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
14519228 AGTATATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:14528734 original size:21 final size:19
Alignment explanation
Indices: 14528694--14528747 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 19
14528684 AATGTATGAT
14528694 TTAAAATTAATAATATGTAAAA
1 TTAAAA-TAA-AATATGT-AAA
14528716 TTAAAATAAAATAATGTAAA
1 TTAAAATAAAAT-ATGTAAA
14528736 TTATAAATAAAA
1 TTA-AAATAAAA
14528748 AACAGTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.30
21 15 0.50
22 6 0.20
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (19 bp):
TTAAAATAAAATATGTAAA
Found at i:14531040 original size:32 final size:32
Alignment explanation
Indices: 14531004--14531069 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 32
14530994 ATTATTCAAC
*
14531004 TTTAAAAAATTTCTATTTATGTCACTGAACTA
1 TTTAAAAAATTTCTATTTAAGTCACTGAACTA
*** * *
14531036 TTTAAATTTTTTTTATTTAAGTCACTGAGCTA
1 TTTAAAAAATTTCTATTTAAGTCACTGAACTA
14531068 TT
1 TT
14531070 AATTTTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.50
Consensus pattern (32 bp):
TTTAAAAAATTTCTATTTAAGTCACTGAACTA
Found at i:14531078 original size:32 final size:32
Alignment explanation
Indices: 14531017--14531078 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
14531007 AAAAAATTTC
*
14531017 TATTTATGTCACTGAACTATTTAAATTTTTTT
1 TATTTAAGTCACTGAACTATTTAAATTTTTTT
*
14531049 TATTTAAGTCACTGAGCTA-TT-AATTTTTTT
1 TATTTAAGTCACTGAACTATTTAAATTTTTTT
14531079 AAAAAAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 9 0.32
31 2 0.07
32 17 0.61
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.55
Consensus pattern (32 bp):
TATTTAAGTCACTGAACTATTTAAATTTTTTT
Found at i:14534662 original size:53 final size:53
Alignment explanation
Indices: 14534600--14534706 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
14534590 TAGACTCTTA
14534600 AGCTATTTAATCACTCTAGCAACTTTTACACCTATTACAATTTAGTCCTTTTC
1 AGCTATTTAATCACTCTAGCAACTTTTACACCTATTACAATTTAGTCCTTTTC
* *
14534653 AGCTATTTAATCGCTCTAGCAACTTTTACTCCTATTACAATTTAGTCCTTTTC
1 AGCTATTTAATCACTCTAGCAACTTTTACACCTATTACAATTTAGTCCTTTTC
14534706 A
1 A
14534707 TTTAACTGAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (53 bp):
AGCTATTTAATCACTCTAGCAACTTTTACACCTATTACAATTTAGTCCTTTTC
Found at i:14537762 original size:22 final size:22
Alignment explanation
Indices: 14537737--14537784 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
14537727 ACAAAACCCC
*
14537737 TGTCAACAAGCTCTTGCAACTG
1 TGTCAACAAGCTCTTACAACTG
***
14537759 TGTCTTTAAGCTCTTACAACTG
1 TGTCAACAAGCTCTTACAACTG
14537781 TGTC
1 TGTC
14537785 TTTAACTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (22 bp):
TGTCAACAAGCTCTTACAACTG
Found at i:14537785 original size:22 final size:22
Alignment explanation
Indices: 14537744--14537794 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
14537734 CCCTGTCAAC
*
14537744 AAGCTCTTGCAACTGTGTCTTT
1 AAGCTCTTACAACTGTGTCTTT
14537766 AAGCTCTTACAACTGTGTCTTT
1 AAGCTCTTACAACTGTGTCTTT
14537788 AA-CTCTT
1 AAGCTCTT
14537795 TTAATTCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (22 bp):
AAGCTCTTACAACTGTGTCTTT
Found at i:14542630 original size:35 final size:35
Alignment explanation
Indices: 14542579--14542650 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
14542569 TACTAGTTTG
14542579 TACCACAAGACACCTTATGTACACATGCCACAAAC
1 TACCACAAGACACCTTATGTACACATGCCACAAAC
*
14542614 TACCGCAAGACACCTTATGTACACATGCCACAAAC
1 TACCACAAGACACCTTATGTACACATGCCACAAAC
14542649 TA
1 TA
14542651 TGACACTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.33, G:0.10, T:0.18
Consensus pattern (35 bp):
TACCACAAGACACCTTATGTACACATGCCACAAAC
Found at i:14546792 original size:27 final size:27
Alignment explanation
Indices: 14546762--14546826 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 27
14546752 CCTAAAGATG
*
14546762 AAATAAAAATAGTATT-AAAGAGAAATA
1 AAATAAAAATAAT-TTAAAAGAGAAATA
*
14546789 AAATGAAAAATAATTTAAAAAGATAAATA
1 AAAT-AAAAATAATTT-AAAAGAGAAATA
14546818 AAGATAAAA
1 AA-ATAAAA
14546827 GTAAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 6 0.19
28 8 0.25
29 16 0.50
30 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (27 bp):
AAATAAAAATAATTTAAAAGAGAAATA
Found at i:14548180 original size:29 final size:30
Alignment explanation
Indices: 14548148--14548204 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
14548138 GCCATGAATA
* *
14548148 TAATTAAAATAACAA-ATTCAACCAAAAAC
1 TAATGAAAATAACAAGACTCAACCAAAAAC
* *
14548177 TAATGACATTAACAAGACTCAACCAAAA
1 TAATGAAAATAACAAGACTCAACCAAAA
14548205 GTAATCGAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 12 0.52
30 11 0.48
ACGTcount: A:0.58, C:0.19, G:0.04, T:0.19
Consensus pattern (30 bp):
TAATGAAAATAACAAGACTCAACCAAAAAC
Found at i:14557958 original size:16 final size:15
Alignment explanation
Indices: 14557937--14557967 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
14557927 AGAAATGAGT
14557937 ATTAATTTATAATTTA
1 ATTAATTT-TAATTTA
14557953 ATTAATTTTAATTTA
1 ATTAATTTTAATTTA
14557968 TTCCCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTAATTTTAATTTA
Found at i:14564101 original size:18 final size:18
Alignment explanation
Indices: 14564078--14564112 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
14564068 CCTATCCAAT
14564078 ATACCTATCAGAAGTACC
1 ATACCTATCAGAAGTACC
14564096 ATACCTATCAGAAGTAC
1 ATACCTATCAGAAGTAC
14564113 TTCAATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (18 bp):
ATACCTATCAGAAGTACC
Found at i:14564743 original size:35 final size:35
Alignment explanation
Indices: 14564647--14564793 Score: 154
Period size: 35 Copynumber: 4.1 Consensus size: 35
14564637 GTCCAACCAC
* * *
14564647 AACACACCAGATGCTCATATGAGCTTA-TCC-CTCAAA
1 AACACACC-GATGCTCATAAGAGC-TAGTCCAATC-GA
* * * *
14564683 AACACACTGGATACTAATAAGAGCTAGTCTAATCGA
1 AACACAC-CGATGCTCATAAGAGCTAGTCCAATCGA
14564719 AACACACCGATGCTCATAAGAGCTAGTCCAATCGA
1 AACACACCGATGCTCATAAGAGCTAGTCCAATCGA
* * *
14564754 AACACGCCGATGCTCATAAGATCTAGTCCAACCGA
1 AACACACCGATGCTCATAAGAGCTAGTCCAATCGA
14564789 AACAC
1 AACAC
14564794 GCTAAACAGA
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
35 63 0.67
36 29 0.31
37 2 0.02
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.19
Consensus pattern (35 bp):
AACACACCGATGCTCATAAGAGCTAGTCCAATCGA
Found at i:14564794 original size:35 final size:35
Alignment explanation
Indices: 14564699--14564795 Score: 158
Period size: 35 Copynumber: 2.8 Consensus size: 35
14564689 CTGGATACTA
* *
14564699 ATAAGAGCTAGTCTAATCGAAACACACCGATGCTC
1 ATAAGAGCTAGTCCAATCGAAACACGCCGATGCTC
14564734 ATAAGAGCTAGTCCAATCGAAACACGCCGATGCTC
1 ATAAGAGCTAGTCCAATCGAAACACGCCGATGCTC
* *
14564769 ATAAGATCTAGTCCAACCGAAACACGC
1 ATAAGAGCTAGTCCAATCGAAACACGC
14564796 TAAACAGAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.37, C:0.28, G:0.18, T:0.18
Consensus pattern (35 bp):
ATAAGAGCTAGTCCAATCGAAACACGCCGATGCTC
Found at i:14574450 original size:7 final size:7
Alignment explanation
Indices: 14574438--14574479 Score: 66
Period size: 7 Copynumber: 5.7 Consensus size: 7
14574428 GGTATTCTAC
14574438 TTTTTCT
1 TTTTTCT
14574445 TTTTTCT
1 TTTTTCT
14574452 TTTTTCT
1 TTTTTCT
14574459 TTGTTTCTT
1 TT-TTTC-T
14574468 TTTTTCT
1 TTTTTCT
14574475 TTTTT
1 TTTTT
14574480 AGAATCTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 22 0.67
8 8 0.24
9 3 0.09
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:14574455 original size:8 final size:8
Alignment explanation
Indices: 14574438--14574479 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
14574428 GGTATTCTAC
14574438 TTTTTC-T
1 TTTTTCTT
14574445 TTTTTC-T
1 TTTTTCTT
14574452 TTTTTCTT
1 TTTTTCTT
*
14574460 TGTTTCTT
1 TTTTTCTT
14574468 TTTTTCTT
1 TTTTTCTT
14574476 TTTT
1 TTTT
14574480 AGAATCTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 13 0.41
8 19 0.59
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:14577399 original size:59 final size:57
Alignment explanation
Indices: 14577333--14577521 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
14577323 ATTTTATTAA
14577333 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
14577392 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
14577453 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
14577512 ATCATATATT
1 ATCATATATT
14577522 ATTATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:14577430 original size:66 final size:64
Alignment explanation
Indices: 14577360--14577558 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
14577350 AAATATATTT
*
14577360 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
14577425 G
64 G
* * * * **
14577426 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
* *
14577480 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
14577545 G
64 G
*
14577546 AATATTGATTATT
1 AATATTAATTATT
14577559 AAGAATTTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 9 0.09
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:14577452 original size:120 final size:120
Alignment explanation
Indices: 14577322--14577619 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
14577312 AATTATTTTA
* * *
14577322 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
14577386 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
14577442 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
14577507 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
14577562 AATTTTATTAAATTC-TATATTTTAATTATAATATATCTAATAATAATTATGTTTAAAT
1 AATTTTATTAAA-TCATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
14577620 ATGATTAAAT
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
120 157 0.95
121 8 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:14577462 original size:61 final size:61
Alignment explanation
Indices: 14577395--14577582 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
14577385 TTATAGTATC
*
14577395 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * *
14577456 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATTATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
14577514 C
61 T
*
14577515 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
14577576 CTATATT
1 ATATATT
14577583 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 17 0.18
61 24 0.25
62 7 0.07
63 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:14577482 original size:15 final size:15
Alignment explanation
Indices: 14577447--14577498 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
14577437 TTAAGAATTT
*
14577447 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14577461 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14577475 TATTTAATAATAAT-
1 TATTTAATTATAATA
14577489 TATGTTAATT
1 TAT-TTAATT
14577499 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14577857 original size:16 final size:16
Alignment explanation
Indices: 14577833--14577884 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
14577823 GATTTGCTAT
14577833 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
14577849 TACAACTCTAATCCAA
1 TACACCTCTAATCCAA
14577865 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14577881 TACA
1 TACA
14577885 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:14585581 original size:9 final size:9
Alignment explanation
Indices: 14585567--14585595 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
14585557 GTTAGCGTAC
14585567 ATGTTTGAA
1 ATGTTTGAA
14585576 ATGTTTGAA
1 ATGTTTGAA
14585585 ATGTTTGAA
1 ATGTTTGAA
14585594 AT
1 AT
14585596 AGGTGGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
ATGTTTGAA
Done.