Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 11 of 210
Found at i:4130548 original size:37 final size:37
Alignment explanation
Indices: 4130498--4130717 Score: 381
Period size: 37 Copynumber: 6.0 Consensus size: 37
4130488 AATAGCTTTA
*
4130498 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4130535 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4130572 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4130609 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4130646 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
4130683 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4130718 ATCATACGTA
Statistics
Matches: 176, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.06
36 4 0.02
37 161 0.91
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:4135411 original size:66 final size:66
Alignment explanation
Indices: 4135264--4135412 Score: 145
Period size: 66 Copynumber: 2.3 Consensus size: 66
4135254 CTCCTAGCCC
* * * * **
4135264 GTTTTCAAAAATTAGATCGACGAAATGTCGTCTATTATATTTGCGACAACATAAGTCTCTTAATT
1 GTTTTCAAAAATTAGATCGACGAAATGCCGTCTAATATATTTGAGACAACATAAATCTCTTAAGC
*
4135329 T
66 A
* * * * ** * * * *
4135330 GTTTCCGAGATTTAGATCGGTGAAATGCCGTCTAATGTATTTGAGGCAACGTAAATCTCTTAGGC
1 GTTTTCAAAAATTAGATCGACGAAATGCCGTCTAATATATTTGAGACAACATAAATCTCTTAAGC
4135395 A
66 A
4135396 GTTTTCAAAAATTAGAT
1 GTTTTCAAAAATTAGAT
4135413 AGATGGAATA
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (66 bp):
GTTTTCAAAAATTAGATCGACGAAATGCCGTCTAATATATTTGAGACAACATAAATCTCTTAAGC
A
Found at i:4137444 original size:27 final size:27
Alignment explanation
Indices: 4137407--4137467 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
4137397 TTGGTGCAGA
**
4137407 ATCATCATCATTTTCAACAACAGCAAC
1 ATCATCATCATCATCAACAACAGCAAC
**
4137434 ATCATCATCATCATCTGCAACAGCAAC
1 ATCATCATCATCATCAACAACAGCAAC
*
4137461 AACATCA
1 ATCATCA
4137468 ACAGCAGTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.31, G:0.05, T:0.23
Consensus pattern (27 bp):
ATCATCATCATCATCAACAACAGCAAC
Found at i:4139992 original size:44 final size:43
Alignment explanation
Indices: 4139939--4140087 Score: 122
Period size: 44 Copynumber: 3.3 Consensus size: 43
4139929 GAATTTTATG
*
4139939 AAATTATATACCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATA-AATTATTAAATTATATTTAATATTAATTATTTT
* * * **
4139983 AAATTATATAAATTTATATAAGA--AAATTTATTATCAAGAATTTTAT
1 AAATTATATAAA-TTAT-TAA-ATTATATTTAATATTAATTA-TTT-T
* * *
4140029 GAAATTAAATATTATTATTAAATTATATTTAATAATAATTATTTT
1 -AAATTATATA-AATTATTAAATTATATTTAATATTAATTATTTT
*
4140074 AAATTATACAAATT
1 AAATTATATAAATT
4140088 CATATAAGAA
Statistics
Matches: 79, Mismatches: 17, Indels: 19
0.69 0.15 0.17
Matches are distributed among these distances:
43 4 0.05
44 34 0.43
45 8 0.10
46 8 0.10
47 24 0.30
48 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (43 bp):
AAATTATATAAATTATTAAATTATATTTAATATTAATTATTTT
Found at i:4140056 original size:91 final size:92
Alignment explanation
Indices: 4139881--4140106 Score: 366
Period size: 91 Copynumber: 2.5 Consensus size: 92
4139871 NNNNNNNNNN
4139881 AATTATTTTTAAATTATATAAATTCATATAAGAAAATTT-TATATCAAAGAATTTTATGAAATTA
1 AATTA-TTTTAAATTATATAAATTCATATAAGAAAATTTAT-TATCAAAGAATTTTATGAAATTA
* *
4139945 TATACCATTATTAAATTATATTTAATATT
64 AATACCATTATTAAATTATATTTAATAAT
*
4139974 AATTATTTTAAATTATATAAATTTATATAAGAAAATTTATTATC-AAGAATTTTATGAAATTAAA
1 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAAGAATTTTATGAAATTAAA
**
4140038 TATTATTATTAAATTATATTTAATAAT
66 TACCATTATTAAATTATATTTAATAAT
*
4140065 AATTATTTTAAATTATACAAATTCATATAAGAAAATTTATTA
1 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
4140107 GGTATAATTA
Statistics
Matches: 125, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
91 83 0.66
92 36 0.29
93 6 0.05
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (92 bp):
AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAAGAATTTTATGAAATTAAA
TACCATTATTAAATTATATTTAATAAT
Found at i:4140282 original size:15 final size:15
Alignment explanation
Indices: 4140247--4140288 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4140237 TTAAGAATTT
*
4140247 TATTAAATTAT-ATA
1 TATTTAATTATAATA
4140261 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
4140275 TATTTAATAATAAT
1 TATTTAATTATAAT
4140289 TATGCTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:4140384 original size:16 final size:16
Alignment explanation
Indices: 4140363--4140408 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
4140353 TTATTAAATT
4140363 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
4140379 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
4140394 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
4140409 CTATATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:4140491 original size:16 final size:16
Alignment explanation
Indices: 4140470--4140511 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4140460 TTATTAAATT
*
4140470 ATATATTTTAATTATA
1 ATATATTTTAATAATA
4140486 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
4140501 AT-TATGTTTAA
1 ATATAT-TTTAA
4140512 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:4140496 original size:15 final size:15
Alignment explanation
Indices: 4140461--4140502 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4140451 TTAAGAATTT
*
4140461 TATTAAATTAT-ATA
1 TATTTAATTATAATA
4140475 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
4140489 TATTTAATAATAAT
1 TATTTAATTATAAT
4140503 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:4140554 original size:107 final size:107
Alignment explanation
Indices: 4140191--4140513 Score: 601
Period size: 107 Copynumber: 3.0 Consensus size: 107
4140181 TATTTTATAG
* *
4140191 TATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 TATC-TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
4140256 ATATATTTTAATTATAATATATTTAATAATAATTATGCTAAAT
65 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
4140299 TATCTATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 TATCTATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
4140364 TATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
66 TATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
4140406 TATCTATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 TATCTATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
4140471 TATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 TATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
4140514 ATGATTAAAT
Statistics
Matches: 211, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
107 201 0.95
108 10 0.05
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.49
Consensus pattern (107 bp):
TATCTATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
Found at i:4140737 original size:45 final size:44
Alignment explanation
Indices: 4140656--4140746 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
4140646 ACCTTTATTC
*
4140656 CATTCAACCAAACACAGGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAGGATTACTATTACACCTCTATTCCATTA
*** *
4140700 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCCATTA
4140745 CA
1 CA
4140747 CCTCTAATCA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 16 0.39
45 25 0.61
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAGGATTACTATTACACCTCTATTCCATTA
Found at i:4143760 original size:18 final size:16
Alignment explanation
Indices: 4143733--4143766 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 16
4143723 AAGAAGCGAG
4143733 TTTTTTTTTATCTTTTT
1 TTTTTTTTTAT-TTTTT
4143750 TTTTATTTTTATTTTTT
1 TTTT-TTTTTATTTTTT
4143767 GATAATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTATTTTTT
Found at i:4150081 original size:50 final size:50
Alignment explanation
Indices: 4149966--4150261 Score: 466
Period size: 50 Copynumber: 5.8 Consensus size: 50
4149956 GATAATAACA
* **
4149966 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
4150017 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
4150067 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
4150117 TGCCAACGCCATGTCCCAGACATGGTCTTACATGTGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
4150167 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC--GG
* *
4150219 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4150262 TTACCCAAAT
Statistics
Matches: 228, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
50 153 0.67
51 33 0.14
52 2 0.01
53 40 0.18
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:4150635 original size:29 final size:30
Alignment explanation
Indices: 4150597--4150656 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
4150587 GCCCTCGACT
*
4150597 CTAAA-TTTTTCAAAATTACAATTTTGCCC
1 CTAAACTTTTGCAAAATTACAATTTTGCCC
* *
4150626 CTAAACTTTTGCATAATTACATTTTTGCCC
1 CTAAACTTTTGCAAAATTACAATTTTGCCC
4150656 C
1 C
4150657 AAGGCTCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (30 bp):
CTAAACTTTTGCAAAATTACAATTTTGCCC
Found at i:4151965 original size:42 final size:42
Alignment explanation
Indices: 4151897--4152036 Score: 167
Period size: 42 Copynumber: 3.3 Consensus size: 42
4151887 GTGCTAATCA
* **
4151897 GAAACCCATAAGGGTTGAAC-GAAAGCTCGTAAGAGC-ATAACG
1 GAAACCCATAAGGGTTAAACTG-AAGCTCAAAAGAGCTA-AACG
*
4151939 GAAACCCATAAGGGTTCAACTGAAGCTCAAAAGAGCTAAACG
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTAAACG
** * *
4151981 GAAACCCATTGGGGTTAAAGTGAAGCTCAAAAGAGTTAAACG
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTAAACG
4152023 GAAACCCATTAAGG
1 GAAACCCA-TAAGG
4152037 TTATAGTTAG
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
42 80 0.94
43 5 0.06
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTAAACG
Found at i:4152039 original size:21 final size:21
Alignment explanation
Indices: 4151975--4152039 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
4151965 TCAAAAGAGC
**
4151975 TAAACGGAAACCCATTGGGGT
1 TAAACGGAAACCCATTAAGGT
* * *
4151996 TAAA-GTGAAGCTCA-AAAGAGT
1 TAAACG-GAAACCCATTAAG-GT
4152017 TAAACGGAAACCCATTAAGGT
1 TAAACGGAAACCCATTAAGGT
4152038 TA
1 TA
4152040 TAGTTAGCTG
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
20 2 0.06
21 26 0.81
22 4 0.12
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (21 bp):
TAAACGGAAACCCATTAAGGT
Found at i:4152088 original size:32 final size:32
Alignment explanation
Indices: 4152047--4152116 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
4152037 TTATAGTTAG
4152047 CTGAAGCTCATGAGAACTAAACGAAAAGTAAA
1 CTGAAGCTCATGAGAACTAAACGAAAAGTAAA
*
4152079 CTGAAGCTCATGAGAACTAAATGAAAAGTAAA
1 CTGAAGCTCATGAGAACTAAACGAAAAGTAAA
4152111 CATGAA
1 C-TGAA
4152117 AGTTCGCAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 32 0.89
33 4 0.11
ACGTcount: A:0.50, C:0.14, G:0.19, T:0.17
Consensus pattern (32 bp):
CTGAAGCTCATGAGAACTAAACGAAAAGTAAA
Found at i:4154456 original size:11 final size:11
Alignment explanation
Indices: 4154442--4154468 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4154432 TATACTAAAT
4154442 ATAATAATTAA
1 ATAATAATTAA
4154453 ATAATAATTAA
1 ATAATAATTAA
4154464 ATAAT
1 ATAAT
4154469 TAAAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAATAATTAA
Found at i:4156301 original size:23 final size:25
Alignment explanation
Indices: 4156257--4156303 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
4156247 AAATTTTCAG
*
4156257 AAAAAAATTGAAATTATGAAAAAAT
1 AAAAAAATTGAAATTATCAAAAAAT
*
4156282 AAAAAAA-T-AAATTCTCAAAAAA
1 AAAAAAATTGAAATTATCAAAAAA
4156304 ATTGACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 1 0.05
25 7 0.35
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.21
Consensus pattern (25 bp):
AAAAAAATTGAAATTATCAAAAAAT
Found at i:4158356 original size:24 final size:24
Alignment explanation
Indices: 4158322--4158373 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4158312 TTTCTAGAAA
* *
4158322 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
4158346 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
4158370 ATTT
1 ATTT
4158374 GAATTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:4158384 original size:24 final size:24
Alignment explanation
Indices: 4158322--4158385 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
4158312 TTTCTAGAAA
* * *
4158322 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGAATTTATTAGCATAATAT
*
4158346 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGAATTTATTAGCATAATAT
4158370 ATTT-GAATTTGATTAG
1 ATTTAGAATTT-ATTAG
4158386 AATTAGGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 5 0.14
24 30 0.86
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48
Consensus pattern (24 bp):
ATTTAGAATTTATTAGCATAATAT
Found at i:4159856 original size:24 final size:24
Alignment explanation
Indices: 4159822--4159873 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
4159812 TTTCTAGAAG
* **
4159822 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGACCATAATAT
*
4159846 ATTTAGCATTTATTACCATAATAT
1 ATTTAGCATTTATGACCATAATAT
4159870 ATTT
1 ATTT
4159874 GGCTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGACCATAATAT
Found at i:4167150 original size:13 final size:11
Alignment explanation
Indices: 4167114--4167144 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4167104 CCGCCCGTAT
4167114 TAATTTTTATA
1 TAATTTTTATA
*
4167125 TTATTTTTATA
1 TAATTTTTATA
4167136 TAATTTTTA
1 TAATTTTTA
4167145 AATATATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:4167493 original size:24 final size:24
Alignment explanation
Indices: 4167466--4167517 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4167456 TTAGTAAGCC
*
4167466 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
4167490 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
4167514 AAAT
1 AAAT
4167518 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:4167747 original size:30 final size:30
Alignment explanation
Indices: 4167713--4167775 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
4167703 ACTTAACAAG
*
4167713 CAAATACCTCTAAAATAATAACAAAACTAA
1 CAAATACATCTAAAATAATAACAAAACTAA
** * *
4167743 CAAATGTATTTAAAATAATAACAAAATTAA
1 CAAATACATCTAAAATAATAACAAAACTAA
4167773 CAA
1 CAA
4167776 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (30 bp):
CAAATACATCTAAAATAATAACAAAACTAA
Found at i:4172011 original size:31 final size:30
Alignment explanation
Indices: 4171970--4172059 Score: 85
Period size: 36 Copynumber: 2.9 Consensus size: 30
4171960 TTTACTATTA
*
4171970 AATATT-TATAAATTTTAAAATATATTTAT
1 AATATTATATAAATTTTAAAATATATTAAT
*
4171999 TATATTAATATAAATATTTTTCAATAATATATTAAT
1 AATATT-ATAT-AA-A-TTTT-AA-AATATATTAAT
*
4172035 AATATTATATAAAATTTAAAA-ATAT
1 AATATTATATAAATTTTAAAATATAT
4172060 CATTGTTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
29 9 0.18
30 2 0.04
31 5 0.10
32 5 0.10
33 2 0.04
34 6 0.12
35 6 0.12
36 15 0.30
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (30 bp):
AATATTATATAAATTTTAAAATATATTAAT
Found at i:4172081 original size:55 final size:55
Alignment explanation
Indices: 4172022--4172132 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
4172012 ATATTTTTCA
4172022 ATAATATATTAATAATATTATATAAAATTTAAAAATATCATTGTTAAAATGTATT
1 ATAATATATTAATAATATTATATAAAATTTAAAAATATCATTGTTAAAATGTATT
*
4172077 ATAATATATTAATAATATTATATAAAATTTAAAAATATTATTGTTAAAATGTATT
1 ATAATATATTAATAATATTATATAAAATTTAAAAATATCATTGTTAAAATGTATT
4172132 A
1 A
4172133 GTAAAAGAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (55 bp):
ATAATATATTAATAATATTATATAAAATTTAAAAATATCATTGTTAAAATGTATT
Found at i:4172592 original size:19 final size:20
Alignment explanation
Indices: 4172546--4172601 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
4172536 TTATCAAAAA
*
4172546 ATAAAATTATTTTTTATTAC
1 ATAAAATTATTTTTCATTAC
*
4172566 ATATAAATTATTTTTCATT-G
1 ATA-AAATTATTTTTCATTAC
4172586 ATAAAATTATTTTTCA
1 ATAAAATTATTTTTCA
4172602 GGAACACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 13 0.39
20 6 0.18
21 14 0.42
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (20 bp):
ATAAAATTATTTTTCATTAC
Found at i:4172764 original size:18 final size:17
Alignment explanation
Indices: 4172732--4172765 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4172722 GTTGAAGATA
4172732 ATGATAATCTATATTAG
1 ATGATAATCTATATTAG
*
4172749 ATGATGAATGTATATTA
1 ATGAT-AATCTATATTA
4172766 TTTTTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (17 bp):
ATGATAATCTATATTAG
Found at i:4178867 original size:2 final size:2
Alignment explanation
Indices: 4178862--4178891 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4178852 TATACATGTA
4178862 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
4178892 CATATATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:4179619 original size:27 final size:27
Alignment explanation
Indices: 4179558--4179620 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 27
4179548 ATTCTTCTCA
4179558 TATTTAA-AATTTAATCCATAACTTTT
1 TATTTAATAATTTAATCCATAACTTTT
*
4179584 TATTCTAATAATTTAGTCC-T-ACTCTTT
1 TATT-TAATAATTTAATCCATAACT-TTT
4179611 TGATTTAATA
1 T-ATTTAATA
4179621 TCATTTTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 7 0.22
27 13 0.41
28 12 0.38
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (27 bp):
TATTTAATAATTTAATCCATAACTTTT
Found at i:4180651 original size:24 final size:24
Alignment explanation
Indices: 4180580--4180658 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 24
4180570 TTCCTAATTG
*
4180580 TTATAATTTTTATATATTTTTTAAT
1 TTATAATTTTTAT-TATTTTTTAAA
* *
4180605 TTGAAAATTTAACCTATTATTTTTTAAA
1 TT-ATAATTT---TTATTATTTTTTAAA
*
4180633 TTATAATTTTTATTATTTTTAAAA
1 TTATAATTTTTATTATTTTTTAAA
4180657 TT
1 TT
4180659 TTAAAAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
24 15 0.34
25 2 0.05
26 6 0.14
27 6 0.14
28 12 0.27
29 3 0.07
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (24 bp):
TTATAATTTTTATTATTTTTTAAA
Found at i:4180917 original size:34 final size:34
Alignment explanation
Indices: 4180874--4180946 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
4180864 AAAATAAAAA
*
4180874 AAATTTGCTTATATACTTAATATTACAAGCATGG
1 AAATTTGCTTATATAATTAATATTACAAGCATGG
*
4180908 AAATTTGCTTATATAATTAATATTACATGCATGG
1 AAATTTGCTTATATAATTAATATTACAAGCATGG
4180942 AAATT
1 AAATT
4180947 CAGAGAAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.40
Consensus pattern (34 bp):
AAATTTGCTTATATAATTAATATTACAAGCATGG
Found at i:4183458 original size:20 final size:20
Alignment explanation
Indices: 4183428--4183465 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4183418 TTTATTTATT
4183428 TTTTCCAATTATATCATGTGA
1 TTTTCCAATTA-ATCATGTGA
4183449 TTTT-CAATTAATCATGT
1 TTTTCCAATTAATCATGT
4183466 TTAGTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (20 bp):
TTTTCCAATTAATCATGTGA
Found at i:4190756 original size:14 final size:15
Alignment explanation
Indices: 4190739--4190768 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4190729 CTTTATAAAA
4190739 AAATCTATTT-TTAT
1 AAATCTATTTGTTAT
4190753 AAATCTATTTGTTAT
1 AAATCTATTTGTTAT
4190768 A
1 A
4190769 TTTCAGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (15 bp):
AAATCTATTTGTTAT
Found at i:4198683 original size:3 final size:3
Alignment explanation
Indices: 4198668--4198707 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
4198658 ACCTTCCACT
*
4198668 CCA CCA TCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA C
4198708 AACAATCACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.65, G:0.00, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:4201616 original size:2 final size:2
Alignment explanation
Indices: 4201609--4201633 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4201599 TGATAAAACT
4201609 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4201634 TCGTGCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4205006 original size:18 final size:18
Alignment explanation
Indices: 4204983--4205018 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4204973 TTACTGCAGC
4204983 GGACAACTCGACCCGCGT
1 GGACAACTCGACCCGCGT
*
4205001 GGACAACTCGACCTGCGT
1 GGACAACTCGACCCGCGT
4205019 AGGGTAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.36, G:0.28, T:0.14
Consensus pattern (18 bp):
GGACAACTCGACCCGCGT
Found at i:4206224 original size:27 final size:24
Alignment explanation
Indices: 4206165--4206225 Score: 59
Period size: 27 Copynumber: 2.3 Consensus size: 24
4206155 TACAATTATA
4206165 TTAATTGTATAAAAAAATTTTACTT
1 TTAATT-TATAAAAAAATTTTACTT
* *
4206190 TAATATTTATAAATATATATTTTACATT
1 TTA-ATTTATAAA-A-AAATTTTAC-TT
4206218 TTAATTTA
1 TTAATTTA
4206226 ATTTTTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 8 0.28
26 4 0.14
27 13 0.45
28 4 0.14
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (24 bp):
TTAATTTATAAAAAAATTTTACTT
Found at i:4210105 original size:11 final size:11
Alignment explanation
Indices: 4210064--4210099 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
4210054 GAGAAATTTA
* *
4210064 AGAGGAAATTC
1 AGAGCAAATTG
4210075 AGAGCAAATTG
1 AGAGCAAATTG
4210086 AGAGCAAATTG
1 AGAGCAAATTG
4210097 AGA
1 AGA
4210100 TTAAATATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.47, C:0.08, G:0.28, T:0.17
Consensus pattern (11 bp):
AGAGCAAATTG
Found at i:4210195 original size:19 final size:19
Alignment explanation
Indices: 4210171--4210210 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
4210161 GAGAGGATTA
*
4210171 GTTTGTGAAAAAAAAATGT
1 GTTTGTGAAAAAAAAAGGT
4210190 GTTTGTGAAAAAAAAAGGT
1 GTTTGTGAAAAAAAAAGGT
4210209 GT
1 GT
4210211 GGGTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (19 bp):
GTTTGTGAAAAAAAAAGGT
Found at i:4226256 original size:7 final size:7
Alignment explanation
Indices: 4226246--4226274 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
4226236 AAAAAAAAGT
4226246 AAAAGAA
1 AAAAGAA
4226253 AAAAGAA
1 AAAAGAA
4226260 AAAAGAA
1 AAAAGAA
4226267 AAAA-AA
1 AAAAGAA
4226273 AA
1 AA
4226275 GCTCAAATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:4232585 original size:10 final size:9
Alignment explanation
Indices: 4232570--4232666 Score: 50
Period size: 10 Copynumber: 9.7 Consensus size: 9
4232560 ATTAAAGTAC
4232570 ATAAAAAGTT
1 ATAAAAA-TT
4232580 ATAAAAATTT
1 ATAAAAA-TT
*
4232590 AAACAAAATT
1 ATA-AAAATT
*
4232600 ATTAAAAATA
1 A-TAAAAATT
*
4232610 ATAAAAAAGT
1 AT-AAAAATT
*
4232620 ATAAATATT
1 ATAAAAATT
4232629 AGTAAGAAATT
1 A-TAA-AAATT
* *
4232640 CTAAAAATC
1 ATAAAAATT
4232649 ATTAAAACTATT
1 A-TAAAA--ATT
4232661 ATAAAA
1 ATAAAA
4232667 TATTTTAGGA
Statistics
Matches: 66, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
9 11 0.17
10 38 0.58
11 14 0.21
12 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (9 bp):
ATAAAAATT
Found at i:4234138 original size:13 final size:13
Alignment explanation
Indices: 4234098--4234146 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
4234088 ACACTAAAAT
4234098 TTTTCAAAAGTAC
1 TTTTCAAAAGTAC
* ** *
4234111 TTTTCCACCGCAC
1 TTTTCAAAAGTAC
*
4234124 TTTTTAAAAGTAC
1 TTTTCAAAAGTAC
4234137 TTTTCAAAAG
1 TTTTCAAAAG
4234147 CAATGAAGAA
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:4250465 original size:22 final size:23
Alignment explanation
Indices: 4250440--4250495 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
4250430 TATACGAAAG
4250440 TTATAAAATAAAAGTATG-TATA
1 TTATAAAATAAAAGTATGATATA
*
4250462 TTATATAAA-AAATGTATGCATATA
1 TTATA-AAATAAAAGTATG-ATATA
*
4250486 TTTTAAAATA
1 TTATAAAATA
4250496 TGTATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 13 0.46
23 6 0.21
24 9 0.32
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (23 bp):
TTATAAAATAAAAGTATGATATA
Found at i:4251573 original size:27 final size:28
Alignment explanation
Indices: 4251542--4251597 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
4251532 GGTTTTGGGC
4251542 TTGTTGGGTATTTGGGCTT-GGTT-TAAT
1 TTGTTGGGT-TTTGGGCTTGGGTTGTAAT
*
4251569 TTGTTGGGTTTTGGGTTTGGGTTGTAAT
1 TTGTTGGGTTTTGGGCTTGGGTTGTAAT
4251597 T
1 T
4251598 GGGTTTTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.31
27 13 0.50
28 5 0.19
ACGTcount: A:0.09, C:0.02, G:0.36, T:0.54
Consensus pattern (28 bp):
TTGTTGGGTTTTGGGCTTGGGTTGTAAT
Found at i:4252274 original size:86 final size:88
Alignment explanation
Indices: 4252129--4252546 Score: 585
Period size: 88 Copynumber: 4.8 Consensus size: 88
4252119 AGATCTTAAA
* * * * *
4252129 TCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCC-GCTA
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATC-A
4252193 CAACCGAGAGAGGCAAGG-TT-TG
65 CAACCGAGAGAGGCAAGGTTTGTG
* * * *
4252215 TCTTCGATCTACTTCGCTGTCAATGCAGGAAGACAAGATCTTTTATCTTCAACCAGCTCCACCAC
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
4252280 AACCGAGAGAGGCAAGGTTTGTG
66 AACCGAGAGAGGCAAGGTTTGTG
* * * * *
4252303 TCTTCAATCTGCTCCGCTGT-AATACGGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCAC
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
*
4252367 AATCGAGAGAGGCAAGGTTTGTG
66 AACCGAGAGAGGCAAGGTTTGTG
* * * *
4252390 TCTTCGACCT-GTTCCGCTGTCAATTCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCA
1 TCTTCGATCTACTT-CGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCA
*
4252454 CAATCGAGAGAGGCAAGGTTTGTG
65 CAACCGAGAGAGGCAAGGTTTGTG
* *
4252478 TCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
1 TCTTCGATCTACTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
4252543 AACC
66 AACC
4252547 TAATTCAATA
Statistics
Matches: 296, Mismatches: 30, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
86 73 0.25
87 77 0.26
88 144 0.49
89 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (88 bp):
TCTTCGATCTACTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
AACCGAGAGAGGCAAGGTTTGTG
Found at i:4252446 original size:175 final size:173
Alignment explanation
Indices: 4252129--4252546 Score: 606
Period size: 175 Copynumber: 2.4 Consensus size: 173
4252119 AGATCTTAAA
* * * **
4252129 TCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCATC-AC
*
4252194 AACCGAGAGAGGCAAGGTTTGTCTTCGATCTACTTCGCTGTCAATGCAGGAAGACAAGATCTTTT
65 AACCGAGAGAGGCAAGGTTTGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGACAAGATCTTTT
4252259 ATCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTG
130 ATCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTG
* * *
4252303 TCTTCAATCTGCTCCGCTGT-AATACGGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCAC
1 TCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTC-ATCAC
* * * *
4252367 AATCGAGAGAGGCAAGGTTTGTGTCTTCGACCT-GTTCCGCTGTCAATTCAGGAAGGCAAGATCT
65 AACCGAGAGAGGCAAGG-TT-TGTCTTCGACCTACTT-CGCTGTCAATGCAGGAAGACAAGATCT
* *
4252431 TTTATCTTCAACCAGCTCCATCACAATCGAGAGAGGCAAGGTTTGTG
127 TTTATCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTG
* * *
4252478 TCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
1 TCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCT-CATCAC
4252543 AACC
65 AACC
4252547 TAATTCAATA
Statistics
Matches: 216, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
173 53 0.25
174 22 0.10
175 97 0.45
176 43 0.20
177 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (173 bp):
TCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCATCACA
ACCGAGAGAGGCAAGGTTTGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGACAAGATCTTTTA
TCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTG
Found at i:4256816 original size:9 final size:9
Alignment explanation
Indices: 4256804--4256862 Score: 66
Period size: 9 Copynumber: 6.2 Consensus size: 9
4256794 AAATATATTT
4256804 ATTTTTAAA
1 ATTTTTAAA
4256813 A-TTTTAAA
1 ATTTTTAAA
*
4256821 ATTTTAAAA
1 ATTTTTAAA
4256830 TATTTTTAAAA
1 -ATTTTT-AAA
4256841 TACTTTTTAAA
1 -A-TTTTTAAA
4256852 ATTTTTAAA
1 ATTTTTAAA
4256861 AT
1 AT
4256863 AATTTTTTGG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 8 0.18
9 17 0.39
10 6 0.14
11 8 0.18
12 5 0.11
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:4256819 original size:8 final size:8
Alignment explanation
Indices: 4256806--4256830 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4256796 ATATATTTAT
4256806 TTTTAAAA
1 TTTTAAAA
4256814 TTTTAAAA
1 TTTTAAAA
4256822 TTTTAAAA
1 TTTTAAAA
4256830 T
1 T
4256831 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTTAAAA
Found at i:4256849 original size:12 final size:11
Alignment explanation
Indices: 4256822--4256869 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
4256812 AATTTTAAAA
4256822 TTTTAAAATAT
1 TTTTAAAATAT
4256833 TTTTAAAATACT
1 TTTTAAAATA-T
4256845 TTTT-AAA-AT
1 TTTTAAAATAT
4256854 TTTTAAAATAAT
1 TTTTAAAAT-AT
4256866 TTTT
1 TTTT
4256870 TGGTATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
9 5 0.15
10 4 0.12
11 13 0.39
12 11 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:4256857 original size:21 final size:20
Alignment explanation
Indices: 4256803--4256869 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 20
4256793 TAAATATATT
4256803 TATTTTTAAAA-TTTT-AAA
1 TATTTTTAAAATTTTTAAAA
*
4256821 -ATTTTAAAATATTTTTAAAA
1 TATTTTTAAA-ATTTTTAAAA
4256841 TACTTTTTAAAATTTTTAAAA
1 TA-TTTTTAAAATTTTTAAAA
4256862 TAATTTTT
1 T-ATTTTT
4256870 TGGTATTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
17 8 0.20
18 1 0.02
19 4 0.10
20 3 0.07
21 17 0.41
22 8 0.20
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTTTAAAATTTTTAAAA
Found at i:4257255 original size:29 final size:29
Alignment explanation
Indices: 4257156--4257242 Score: 165
Period size: 29 Copynumber: 3.0 Consensus size: 29
4257146 TTAACTTCAT
*
4257156 GATTTATTTATTTATTCTATTATTTTCTG
1 GATTTATTTATTTATTCTATTATTTTCCG
4257185 GATTTATTTATTTATTCTATTATTTTCCG
1 GATTTATTTATTTATTCTATTATTTTCCG
4257214 GATTTATTTATTTATTCTATTATTTTCCG
1 GATTTATTTATTTATTCTATTATTTTCCG
4257243 CATGTAAATA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.21, C:0.09, G:0.07, T:0.63
Consensus pattern (29 bp):
GATTTATTTATTTATTCTATTATTTTCCG
Found at i:4258435 original size:61 final size:60
Alignment explanation
Indices: 4258360--4258473 Score: 156
Period size: 61 Copynumber: 1.9 Consensus size: 60
4258350 AAAAATGATT
* * * * *
4258360 ATTTTTAAAATTTTTAGAGTTAGGAGTAAATTGACAAATTTTGTAAACATTGAGAGATAA
1 ATTTTTAAAATTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGAGATAA
* *
4258420 ATTTATTAAATTTTTTAGAATTAGAACTAAAATGACAAAATTTGTGAACATTGA
1 ATTT-TTAAAATTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGA
4258474 AGGCTAAACT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
60 4 0.09
61 42 0.91
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.39
Consensus pattern (60 bp):
ATTTTTAAAATTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGAGATAA
Found at i:4260831 original size:14 final size:13
Alignment explanation
Indices: 4260803--4260829 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4260793 ACATCAATTC
4260803 TAAAAATTTATTT
1 TAAAAATTTATTT
4260816 TAAAAATTTATTT
1 TAAAAATTTATTT
4260829 T
1 T
4260830 TATATGAGTT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAAAATTTATTT
Found at i:4264444 original size:23 final size:25
Alignment explanation
Indices: 4264416--4264462 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
4264406 ATATAAATAT
4264416 GAAAATATTC-ATT-AAAAATATAG
1 GAAAATATTCGATTAAAAAATATAG
*
4264439 GAAAATATTCGTTTAAAAAATATA
1 GAAAATATTCGATTAAAAAATATA
4264463 TATATATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 2 0.10
25 9 0.43
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.32
Consensus pattern (25 bp):
GAAAATATTCGATTAAAAAATATAG
Found at i:4265179 original size:19 final size:19
Alignment explanation
Indices: 4265155--4265248 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
4265145 AATCATATAT
4265155 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
4265174 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
4265195 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
4265214 TCTAGGATTGCATATTATA
1 TCTAAGATTGCATATCATA
4265233 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
4265249 CTCAAAAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
19 50 0.72
21 19 0.28
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:4265203 original size:40 final size:38
Alignment explanation
Indices: 4265150--4265248 Score: 162
Period size: 40 Copynumber: 2.5 Consensus size: 38
4265140 TACAAAATCA
4265150 TATATTCTAAGATTGCATATCATATCTAAGATTGCATAT
1 TATA-TCTAAGATTGCATATCATATCTAAGATTGCATAT
*
4265189 ATCATATCTAAGATTGCATATCATATCTAGGATTGCATAT
1 -T-ATATCTAAGATTGCATATCATATCTAAGATTGCATAT
4265229 TATATCTAAGATTGCATATC
1 TATATCTAAGATTGCATATC
4265249 CTCAAAAATT
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
38 19 0.33
39 1 0.02
40 34 0.60
41 3 0.05
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.39
Consensus pattern (38 bp):
TATATCTAAGATTGCATATCATATCTAAGATTGCATAT
Found at i:4265613 original size:44 final size:44
Alignment explanation
Indices: 4265565--4265777 Score: 155
Period size: 44 Copynumber: 4.8 Consensus size: 44
4265555 CTGTAACCAC
* *
4265565 AGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTT
1 AGGGAGGTAAAATCCACAATCTTCAATCTACTCCACTACTGCTT
* * *** * * *
4265609 AGGGAGATAAGATCTGGAATCTTCAATCTATTCCACTATTGCCT
1 AGGGAGGTAAAATCCACAATCTTCAATCTACTCCACTACTGCTT
* * * * * * **
4265653 AGGGAAGTAGAAT-TACTAGCTTCAATGTACTCCACTGTAAC--CAC
1 AGGGAGGTAAAATCCACAATCTTCAATCTACTCCAC--T-ACTGCTT
*
4265697 AGGGAGGTAAAATCCGCAATCTTCAATCTACTCCACTACTGCTT
1 AGGGAGGTAAAATCCACAATCTTCAATCTACTCCACTACTGCTT
* * * *
4265741 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACT
1 AGGGAGGTAAAATC-CACAATCTTCAATCTACTCCACT
4265778 GTTGCCCAGG
Statistics
Matches: 125, Mismatches: 37, Indels: 14
0.71 0.21 0.08
Matches are distributed among these distances:
42 2 0.02
43 17 0.14
44 87 0.70
45 18 0.14
46 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (44 bp):
AGGGAGGTAAAATCCACAATCTTCAATCTACTCCACTACTGCTT
Found at i:4265719 original size:132 final size:132
Alignment explanation
Indices: 4265477--4266550 Score: 1532
Period size: 132 Copynumber: 8.1 Consensus size: 132
4265467 CTGCAACTGC
* * * * * *
4265477 AGGGAGATAAGA-CTTACAATCTTCAATCTATTCCACTGCTGACTAGGG-AGATAGGATTACTGA
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGCCCAGGGAAG-TAGAATTACTGG
* * *
4265540 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACT
64 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
4265605 GCTT
129 GCTT
* * * *
4265609 AGGGAGATAAGATCTGGAATCTTCAATCTATTCCACTATTGCCTAGGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* * * *
4265674 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTACTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
4265739 TT
131 TT
* *
4265741 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAGTTATTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
*
4265806 TCAATGTACTCCATTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
4265871 TT
131 TT
* *
4265873 AGGGAGATAAGATATGAAATCTTCAATCTATTCCACTGTTACCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* *
4265938 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTATTTC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
4266003 TT
131 TT
*
4266005 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
** *
4266070 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCTGTTAA
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC-TC-C-ACTAC
4266135 TGC--
128 TGCTT
* ** ** * * * *
4266138 AGGAAGGCAAGATCTGCTATCTTTAATCTATTCCACTGCTGCTCAGGGAAGTAGAATTATTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* * **
4266203 TCAATGTACTCCACTATAACCAC-GGAGAGGTAAAATCCGCCATTTTCGATTTGCTTCGCTGTCA
66 TCAATGTACTCCACTATAACCACAGG-GAGGTAAAATCCGCCATCTTCGATCTGC-TC-CACT-A
*
4266267 ATGC--
127 CTGCTT
* ** ** * **
4266271 AGGAAGGCAAGATCTGCTATCTTTAATCTATTCCACTGTTATCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* * *
4266336 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCCTCAATTTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
4266401 TT
131 TT
*
4266403 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
4266468 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
4266533 TT
131 TT
4266535 AGGGAGATAAGATCTG
1 AGGGAGATAAGATCTG
4266551 TAGCTCTGGG
Statistics
Matches: 863, Mismatches: 69, Indels: 20
0.91 0.07 0.02
Matches are distributed among these distances:
130 4 0.00
131 2 0.00
132 620 0.72
133 230 0.27
134 3 0.00
135 4 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:4266115 original size:88 final size:89
Alignment explanation
Indices: 4265495--4266121 Score: 205
Period size: 88 Copynumber: 7.1 Consensus size: 89
4265485 AAGACTTACA
* * * * * * *
4265495 ATCTTCAATCTATTCCACTGCTGACTAGGG-AGATAGGAT-TACTGACTTCAATGTACTCCACTG
1 ATCTTCAATCTACTCCACTGCTGCCCAGGGAAG-TAGAATCTACTGGCTTCAATCTACTCCACTA
*
4265558 TAACCACAGGGAGGTAAAATCCACC
65 TAACCACAGGGAGGTAAAATCCGCC
* * ** * *
4265583 ATCTTCGATCTACTCCACTACTGCTTAGGG-AGATA-AGATCTGGAAT--CTTCAATCTATTCCA
1 ATCTTCAATCTACTCCACTGCTGCCCAGGGAAG-TAGA-ATCT--ACTGGCTTCAATCTACTCCA
** * * * ** *
4265644 CTATTGCC-TAGGGAAGTAGAAT-TACT
62 CTATAACCACAGGGAGGTAAAATCCGCC
* * * * * ** ***
4265670 AGCTTCAATGTACTCCACTG-TAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTACTCCACT
1 ATCTTCAATCTACTCCACTGCT-GCC-CAGGGAAGTAGAATCTACTGGCTTCAATCTACTCCACT
* ** * * * **
4265734 ACT--GCTTAGGGAGATAAGATCTGAA
64 A-TAACCACAGGGAGGTAAAATCCGCC
* * * * * *
4265759 ATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAGT-TATTGGCTTCAATGTACTCCATTAT
1 ATCTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATCTACTGGCTTCAATCTACTCCACTAT
4265823 AACCACAGGGAGGTAAAATCCGCC
66 AACCACAGGGAGGTAAAATCCGCC
* * * ** ** * *
4265847 ATCTTCGATCTGCTCCACTACTGCTTAGGG-AGATAAGATATGAAAT--CTTCAATCTATTCCAC
1 ATCTTCAATCTACTCCACTGCTGCCCAGGGAAG-T-AGA-ATCTACTGGCTTCAATCTACTCCAC
* * * * ** *
4265909 TGTTACC-CAGGGAAGTAGAAT-TACT
63 TATAACCACAGGGAGGTAAAATCCGCC
** * * * * * ** *** * *
4265934 GGCTTCAATGTACTCCACT-ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
1 ATCTTCAATCTACTCCACTGCT-GCC-CAGGGAAGTAGAATCTACTGGCTTCAATCTACTCCACT
** ** * * * **
4265998 AT-TTCTTAGGGAGATAAGATCTGAA
64 ATAACCACAGGGAGGTAAAATCCGCC
* *
4266023 ATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACTAT
1 ATCTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATCTACTGGCTTCAATCTACTCCACTAT
4266087 AACCACAGGGAGGTAAAATCCGCC
66 AACCACAGGGAGGTAAAATCCGCC
*
4266111 ATCTTCGATCT
1 ATCTTCAATCT
4266122 GCTTCGCTGT
Statistics
Matches: 373, Mismatches: 137, Indels: 58
0.66 0.24 0.10
Matches are distributed among these distances:
86 5 0.01
87 74 0.20
88 205 0.55
89 82 0.22
90 3 0.01
91 4 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (89 bp):
ATCTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATCTACTGGCTTCAATCTACTCCACTAT
AACCACAGGGAGGTAAAATCCGCC
Found at i:4270164 original size:24 final size:24
Alignment explanation
Indices: 4270136--4270181 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4270126 ATCATTTTTT
*
4270136 GCTGCTCATTCATTTACTTTTGAA
1 GCTGCTCATGCATTTACTTTTGAA
* *
4270160 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTACTTTTG
4270182 GGATTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTACTTTTGAA
Found at i:4271800 original size:19 final size:19
Alignment explanation
Indices: 4271776--4271907 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
4271766 AATCATATAT
4271776 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
4271795 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
4271814 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
4271833 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
4271854 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
4271873 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
4271892 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
4271908 CTCAAAAATT
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
19 87 0.83
21 18 0.17
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:4271869 original size:59 final size:59
Alignment explanation
Indices: 4271769--4271906 Score: 212
Period size: 59 Copynumber: 2.4 Consensus size: 59
4271759 ATTACAAAAT
*
4271769 CATAT-AT-TCTAAGATTGC--ATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
* * *
4271824 CATATCATATCTAAGATTGCATATATCATATCTAGGATTGCATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
4271883 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTGCATAT
4271907 CCTCAAAAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 11 0.15
59 57 0.76
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:4272961 original size:5 final size:5
Alignment explanation
Indices: 4272938--4272981 Score: 63
Period size: 5 Copynumber: 9.0 Consensus size: 5
4272928 TAACATTATT
* *
4272938 TAAAA -AAAA TTACA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
4272982 GGAAATTGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 4 0.12
5 30 0.88
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:4272987 original size:15 final size:15
Alignment explanation
Indices: 4272953--4272987 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4272943 AAAATTACAT
*
4272953 AAAATAAAATAAAAT
1 AAAATAAAATAAAAG
4272968 AAAATAAAATAAAAG
1 AAAATAAAATAAAAG
*
4272983 GAAAT
1 AAAAT
4272988 TGAGTCTCTC
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:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAATAAAATAAAAG
Found at i:4287012 original size:7 final size:7
Alignment explanation
Indices: 4287000--4287024 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4286990 GTCTTGTCAA
4287000 GTTTCTT
1 GTTTCTT
4287007 GTTTCTT
1 GTTTCTT
4287014 GTTTCTT
1 GTTTCTT
4287021 GTTT
1 GTTT
4287025 TAGACATGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.16, T:0.72
Consensus pattern (7 bp):
GTTTCTT
Found at i:4287911 original size:11 final size:11
Alignment explanation
Indices: 4287895--4287920 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4287885 ATGATAGTTT
4287895 TTTTATAAATA
1 TTTTATAAATA
4287906 TTTTATAAATA
1 TTTTATAAATA
4287917 TTTT
1 TTTT
4287921 TTATGTTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTATAAATA
Found at i:4287922 original size:13 final size:13
Alignment explanation
Indices: 4287893--4287924 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
4287883 TTATGATAGT
4287893 TTTTTTATAAATA
1 TTTTTTATAAATA
4287906 --TTTTATAAATA
1 TTTTTTATAAATA
4287917 TTTTTTAT
1 TTTTTTAT
4287925 GTTAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.65
13 6 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTTTATAAATA
Found at i:4289807 original size:35 final size:35
Alignment explanation
Indices: 4289761--4289831 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
4289751 TTTGGGTGTA
4289761 ATTATCGGACATGCCTCTCTTGTATAATTATAAAC
1 ATTATCGGACATGCCTCTCTTGTATAATTATAAAC
4289796 ATTATCGGACATGCCTCTCTTGTATAATTATAAAC
1 ATTATCGGACATGCCTCTCTTGTATAATTATAAAC
4289831 A
1 A
4289832 ATCATATCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (35 bp):
ATTATCGGACATGCCTCTCTTGTATAATTATAAAC
Found at i:4290190 original size:23 final size:23
Alignment explanation
Indices: 4290147--4290192 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4290137 AAAAAATTGA
* *
4290147 TTACTGTTTTCTTGGTTTTTTTT
1 TTACTGTTTTCTTGCTATTTTTT
*
4290170 TTACTGTTTTGTTGCTATTTTTT
1 TTACTGTTTTCTTGCTATTTTTT
4290193 AAAATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.07, C:0.09, G:0.13, T:0.72
Consensus pattern (23 bp):
TTACTGTTTTCTTGCTATTTTTT
Found at i:4311232 original size:17 final size:17
Alignment explanation
Indices: 4311179--4311234 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
4311169 AACCCAAGTC
**
4311179 TTTAGTTTTTTATTTCCT
1 TTTA-TTTTTTATTTATT
* *
4311197 TTTATTATTTACTTATT
1 TTTATTTTTTATTTATT
*
4311214 TTTATTTTTTATTTTTT
1 TTTATTTTTTATTTATT
4311231 TTTA
1 TTTA
4311235 GATTGGCGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 27 0.87
18 4 0.13
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTATTTTTTATTTATT
Found at i:4321302 original size:44 final size:44
Alignment explanation
Indices: 4321239--4321328 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
4321229 TAAATGAACA
4321239 AGTGCCTTTTGCACACTCAGGCACAAACTTACAGTCCACAACTT
1 AGTGCCTTTTGCACACTCAGGCACAAACTTACAGTCCACAACTT
4321283 AGTGCCTTTTGCACACTCAGGCACAAACTTACAGTCCACAACTT
1 AGTGCCTTTTGCACACTCAGGCACAAACTTACAGTCCACAACTT
4321327 AG
1 AG
4321329 CTAGCAGGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.24
Consensus pattern (44 bp):
AGTGCCTTTTGCACACTCAGGCACAAACTTACAGTCCACAACTT
Found at i:4323995 original size:16 final size:17
Alignment explanation
Indices: 4323969--4324006 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
4323959 TATATTTTCA
*
4323969 ATATAAATTTTATATTT
1 ATATTAATTTTATATTT
4323986 -TATTAATTTTATATTT
1 ATATTAATTTTATATTT
4324002 ATATT
1 ATATT
4324007 TTCTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTAATTTTATATTT
Found at i:4324005 original size:22 final size:24
Alignment explanation
Indices: 4323977--4324033 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
4323967 CAATATAAAT
4323977 TTTATATTTTATTAA-TTTTAT-A
1 TTTATATTTTATTAATTTTTATAA
* *
4323999 TTTATATTTT-CTAATTTTTCTAA
1 TTTATATTTTATTAATTTTTATAA
4324022 TTT-TATTTTATT
1 TTTATATTTTATT
4324034 TAATAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 3 0.10
22 21 0.72
23 5 0.17
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTATATTTTATTAATTTTTATAA
Found at i:4324266 original size:14 final size:15
Alignment explanation
Indices: 4324241--4324284 Score: 65
Period size: 16 Copynumber: 3.0 Consensus size: 15
4324231 CATTTTATTA
4324241 AATAAA-ATAAAATT
1 AATAAATATAAAATT
4324255 -ATAAATATAAAATT
1 AATAAATATAAAATT
4324269 AATAAAATATAAAATT
1 AAT-AAATATAAAATT
4324285 TATTTTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.19
14 8 0.30
15 2 0.07
16 12 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAAATATAAAATT
Found at i:4324390 original size:3 final size:3
Alignment explanation
Indices: 4324382--4324421 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
4324372 TTAAAATTCA
4324382 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4324422 AAATATCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4324733 original size:15 final size:15
Alignment explanation
Indices: 4324703--4324744 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
4324693 GGAATCTATT
*
4324703 ATATTAATATTATTTA
1 ATATTAA-AATATTTA
4324719 AT-TTATAAATATTTA
1 ATATTA-AAATATTTA
4324734 ATATTAAAATA
1 ATATTAAAATA
4324745 ATACAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTAAAATATTTA
Found at i:4324858 original size:21 final size:22
Alignment explanation
Indices: 4324817--4324861 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
4324807 TACATATCAT
*
4324817 TTAATTTATATATATTGTTAAA
1 TTAATTTATATATAATGTTAAA
*
4324839 TTAATTTAT-TTTAATGTTAAA
1 TTAATTTATATATAATGTTAAA
4324860 TT
1 TT
4324862 GTTAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
TTAATTTATATATAATGTTAAA
Found at i:4348020 original size:130 final size:132
Alignment explanation
Indices: 4347759--4348020 Score: 404
Period size: 132 Copynumber: 2.0 Consensus size: 132
4347749 TGATGTGTAG
* *
4347759 AGTACAATTGTTCGAGGGTGATGATTTGGATGTTGTCAACCTGTGAACTCTTTTGAGATGGGATA
1 AGTACAATTGTTCGAGGGTGATGATTTGGATGTCGTCAACATGTGAACTCTTTTGAGATGGGATA
* * *
4347824 ATTCATATATACGGCAGTCAGAAAAAGTGAGCATTGTCAAGAACCATTCTGAGAATTGTTTTACT
66 ATTCATATAAACGGCAATCAGAAAAAGTGAGCATTGTCAAGAACCATTCTGAGAATGGTTTTACT
4347889 TT
131 TT
* * * *
4347891 AGTACAATTGTTCGAGGTTGATGTTTTGGATGTCGTCAACATGTGTACTCTTTTGAGATGGGATG
1 AGTACAATTGTTCGAGGGTGATGATTTGGATGTCGTCAACATGTGAACTCTTTTGAGATGGGATA
*
4347956 A-T-ATATAAACGGCAATCAGAACAAA-TGAGCATTGTCAAGGACCATTCTGAGAATGGTTTTAC
66 ATTCATATAAACGGCAATCAGAA-AAAGTGAGCATTGTCAAGAACCATTCTGAGAATGGTTTTAC
4348018 TTT
130 TTT
4348021 CACTTTCACC
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
130 55 0.46
131 4 0.03
132 60 0.50
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (132 bp):
AGTACAATTGTTCGAGGGTGATGATTTGGATGTCGTCAACATGTGAACTCTTTTGAGATGGGATA
ATTCATATAAACGGCAATCAGAAAAAGTGAGCATTGTCAAGAACCATTCTGAGAATGGTTTTACT
TT
Found at i:4355679 original size:14 final size:14
Alignment explanation
Indices: 4355660--4355697 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4355650 ATTCAGACAT
* *
4355660 AGACAACAATAAAA
1 AGACAAAAAAAAAA
4355674 AGACAAAAAAAAAA
1 AGACAAAAAAAAAA
4355688 AGA-AAAAAAA
1 AGACAAAAAAA
4355698 GAGAGCATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.82, C:0.08, G:0.08, T:0.03
Consensus pattern (14 bp):
AGACAAAAAAAAAA
Found at i:4363251 original size:4 final size:4
Alignment explanation
Indices: 4363242--4363266 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4363232 TTAAAGTTTC
4363242 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
4363267 TAACAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:4363301 original size:17 final size:17
Alignment explanation
Indices: 4363254--4363302 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
4363244 TTAATTAATT
*
4363254 AATTAATTAATTAT-AAC
1 AATTAATT-ATTATAAAA
4363271 AA-TAATT-TTAATAAAA
1 AATTAATTATT-ATAAAA
4363287 AATTAATTATTATAAA
1 AATTAATTATTATAAA
4363303 TATCTAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
14 2 0.07
15 2 0.07
16 9 0.33
17 12 0.44
18 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTAATTATTATAAAA
Found at i:4364323 original size:18 final size:18
Alignment explanation
Indices: 4364302--4364342 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4364292 AAAAAGAGTT
4364302 ATTAATTTAAAATT-TTTA
1 ATTAA-TTAAAATTATTTA
*
4364320 ATTAATTAAACTTATTTA
1 ATTAATTAAAATTATTTA
4364338 ATTAA
1 ATTAA
4364343 AAATCTGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTAATTAAAATTATTTA
Found at i:4391973 original size:30 final size:30
Alignment explanation
Indices: 4391926--4392004 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 30
4391916 AATGATAAAA
*
4391926 AATAAAAATCAATAAAAATTATTAAATTTT
1 AATAAAAATCAATAAAAATTATTAAAATTT
*
4391956 AATAAATAATCTA-AAAAATTATTAAAATTT
1 AATAAA-AATCAATAAAAATTATTAAAATTT
* *
4391986 AGAAAAAAAT-TATAAAAAT
1 A-ATAAAAATCAATAAAAAT
4392005 CGTAAAAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
29 2 0.05
30 32 0.74
31 9 0.21
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (30 bp):
AATAAAAATCAATAAAAATTATTAAAATTT
Found at i:4392012 original size:21 final size:21
Alignment explanation
Indices: 4391968--4392013 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4391958 TAAATAATCT
* *
4391968 AAAAAATTATTAAAATTTAGA
1 AAAAAATTATAAAAATGTAGA
4391989 AAAAAATTATAAAAATCGTA-A
1 AAAAAATTATAAAAAT-GTAGA
4392010 AAAA
1 AAAA
4392014 GTATAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (21 bp):
AAAAAATTATAAAAATGTAGA
Found at i:4405490 original size:15 final size:14
Alignment explanation
Indices: 4405461--4405510 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
4405451 TATTTTTATT
4405461 TTTTAAATT--ATA
1 TTTTAAATTAAATA
4405473 TTTTGAAATTAAATA
1 TTTT-AAATTAAATA
*
4405488 TTTTATATTAAATTA
1 TTTTAAATTAAA-TA
*
4405503 TTTCAAAT
1 TTTTAAAT
4405511 ATTTTATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 4 0.13
13 5 0.16
14 7 0.23
15 15 0.48
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (14 bp):
TTTTAAATTAAATA
Found at i:4415739 original size:15 final size:14
Alignment explanation
Indices: 4415715--4415752 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
4415705 GTTTGGCACT
4415715 AAAATG-TTTTCTGA
1 AAAATGATTTT-TGA
4415729 AAAATGATTTTTGA
1 AAAATGATTTTTGA
*
4415743 AAAATAATTT
1 AAAATGATTT
4415753 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (14 bp):
AAAATGATTTTTGA
Found at i:4415791 original size:14 final size:15
Alignment explanation
Indices: 4415755--4415791 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
4415745 AATAATTTAC
4415755 TTTTCTGGAAAATAA
1 TTTTCTGGAAAATAA
*
4415770 TTTACTGGAAAAT-A
1 TTTTCTGGAAAATAA
4415784 TTTTCTGG
1 TTTTCTGG
4415792 TGTTTGGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.43
Consensus pattern (15 bp):
TTTTCTGGAAAATAA
Found at i:4415953 original size:72 final size:71
Alignment explanation
Indices: 4415861--4416001 Score: 239
Period size: 72 Copynumber: 2.0 Consensus size: 71
4415851 TTCCAGAAAA
*
4415861 GTTGTGTTTACATATATATATTAATAAATTTTTATATTTTAAATT-GTTTGTGCATATATTGCAA
1 GTTGTGTTTACATATATATATTAATAAATTTTTATATTTTAAATTAGTTT-TACATATATTGCAA
4415925 TGATTTT
65 TGATTTT
*
4415932 GTTGTTTTTACATAATATATATTAATAAATTTTTATATTTTAAATTAGTTTTACATATATTGCAA
1 GTTGTGTTTACAT-ATATATATTAATAAATTTTTATATTTTAAATTAGTTTTACATATATTGCAA
4415997 TGATT
65 TGATT
4416002 ATTTGCTTAT
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
71 12 0.18
72 50 0.76
73 4 0.06
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.53
Consensus pattern (71 bp):
GTTGTGTTTACATATATATATTAATAAATTTTTATATTTTAAATTAGTTTTACATATATTGCAAT
GATTTT
Found at i:4416390 original size:2 final size:2
Alignment explanation
Indices: 4416383--4416412 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4416373 CACAAGCTTC
4416383 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4416413 GAAAAACCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4416853 original size:11 final size:11
Alignment explanation
Indices: 4416837--4416873 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
4416827 CATTTTTTAA
4416837 AAAAATATTTT
1 AAAAATATTTT
4416848 AAAAATATTTT
1 AAAAATATTTT
4416859 AAAAATATTTT
1 AAAAATATTTT
4416870 AAAA
1 AAAA
4416874 TTTAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:4417889 original size:14 final size:14
Alignment explanation
Indices: 4417870--4417909 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4417860 TTGATTGGCT
4417870 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
4417884 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
4417898 GGAAAATGTTTT
1 GTAAAATGTTTT
4417910 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:4417922 original size:34 final size:35
Alignment explanation
Indices: 4417878--4417944 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
4417868 CTGTAAAATG
* *
4417878 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
4417912 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
4417945 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:4417931 original size:20 final size:20
Alignment explanation
Indices: 4417893--4417932 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4417883 CGTAAAATGA
**
4417893 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
4417913 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
4417933 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:4419318 original size:27 final size:27
Alignment explanation
Indices: 4419288--4419357 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
4419278 AATAATCAAT
*
4419288 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* * *
4419315 TCAATATCTAAAAAATTCAAGACATATA
1 TCAATATC-CAACAATTCAAAACATATA
*
4419343 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
4419358 CTAAAATTTC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
27 21 0.62
28 13 0.38
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:4427692 original size:20 final size:20
Alignment explanation
Indices: 4427644--4427693 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
4427634 TTTCTTTTTG
*
4427644 ATAAAAATACATAAAATTTT
1 ATAAAAATACATAAAATGTT
*
4427664 ATAAAAAATACATACGAA-GTT
1 AT-AAAAATACATA-AAATGTT
4427685 ATAAAAATA
1 ATAAAAATA
4427694 TTTCTAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 9 0.35
21 15 0.58
22 2 0.08
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (20 bp):
ATAAAAATACATAAAATGTT
Found at i:4427791 original size:20 final size:20
Alignment explanation
Indices: 4427749--4427797 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
4427739 ATTTATTTAT
* * * *
4427749 TAAAATAATATTTTTATAGA
1 TAAAATAATAATCTTAAAAA
4427769 TAAAATAATAATCTTAAAAA
1 TAAAATAATAATCTTAAAAA
*
4427789 TAAAGTAAT
1 TAAAATAAT
4427798 TTAGGGGAGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (20 bp):
TAAAATAATAATCTTAAAAA
Found at i:4429123 original size:16 final size:17
Alignment explanation
Indices: 4429091--4429123 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4429081 ATTCACATAA
4429091 ACCAAAATCATTTCAAG
1 ACCAAAATCATTTCAAG
4429108 ACCAAAATCA-TTCAAG
1 ACCAAAATCATTTCAAG
4429124 TATAGCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.21
Consensus pattern (17 bp):
ACCAAAATCATTTCAAG
Found at i:4437009 original size:17 final size:18
Alignment explanation
Indices: 4436987--4437020 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4436977 TAATATTTTG
*
4436987 TTAAAAA-AACAATAAAT
1 TTAAAAAGAAAAATAAAT
4437004 TTAAAAAGAAAAATAAA
1 TTAAAAAGAAAAATAAA
4437021 AAATGGGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
TTAAAAAGAAAAATAAAT
Found at i:4444151 original size:7 final size:7
Alignment explanation
Indices: 4444140--4444173 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
4444130 TCCATTCATC
*
4444140 TTCACAC
1 TTCACAA
4444147 TTCACAA
1 TTCACAA
4444154 TTCACAA
1 TTCACAA
4444161 TTCACAA
1 TTCACAA
4444168 TTCACA
1 TTCACA
4444174 TAGTAGTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.29
Consensus pattern (7 bp):
TTCACAA
Found at i:4453285 original size:24 final size:25
Alignment explanation
Indices: 4453233--4453279 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
4453223 TATCCCTCTT
* *
4453233 GAGCTTCCCGTTATATGGTTCTTGC
1 GAGCTTCCCGTTATATAGCTCTTGC
4453258 GAGCTTCCCGTTA-ATAGCTCTT
1 GAGCTTCCCGTTATATAGCTCTT
4453280 CGGAGCATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCTTGC
Found at i:4453398 original size:25 final size:25
Alignment explanation
Indices: 4453364--4453481 Score: 86
Period size: 25 Copynumber: 4.9 Consensus size: 25
4453354 GGCTCTTCGT
*
4453364 GAGCCTCCCGATTAATGGCTCTCCA
1 GAGCTTCCCGATTAATGGCTCTCCA
* **
4453389 GAGCTTCCCGA-T-ATGGCTCGCTT
1 GAGCTTCCCGATTAATGGCTCTCCA
* * * * *
4453412 GAACTTCCC-AATATATAGCTATCTA
1 GAGCTTCCCGATTA-ATGGCTCTCCA
*
4453437 GAGCTTCCCG-TTAATGGCTC-GCA
1 GAGCTTCCCGATTAATGGCTCTCCA
4453460 TGAGCTTCCCGATT-ATGGCTCT
1 -GAGCTTCCCGATTAATGGCTCT
4453482 AATAAGCTTT
Statistics
Matches: 71, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
22 1 0.01
23 18 0.25
24 23 0.32
25 29 0.41
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCTCCA
Found at i:4453489 original size:24 final size:23
Alignment explanation
Indices: 4453438--4453498 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
4453428 AGCTATCTAG
* *
4453438 AGCTTCCCGTTAATGGCTCGCATG
1 AGCTTCCCGTT-ATGGCTCGAATA
*
4453462 AGCTTCCCGATTATGGCTCTAATA
1 AGCTTCCCG-TTATGGCTCGAATA
*
4453486 AGCTTTCCGTTAT
1 AGCTTCCCGTTAT
4453499 ACAGCCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 4 0.12
24 26 0.81
25 2 0.06
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (23 bp):
AGCTTCCCGTTATGGCTCGAATA
Found at i:4453490 original size:48 final size:47
Alignment explanation
Indices: 4453363--4453497 Score: 119
Period size: 48 Copynumber: 2.8 Consensus size: 47
4453353 TGGCTCTTCG
* ** * *
4453363 TGAGCCTCCCGATTAATGGCTCTCCAGAGCTTCCCGAT-ATGGCTCGCT
1 TGAGCTTCCCGATT-ATGGCTCTATA-AGCTTCCCGTTAATGGCTCGCA
* * * * *
4453411 TGAACTTCCCAATATATAGCTATCTAGAGCTTCCCGTTAATGGCTCGCA
1 TGAGCTTCCCGAT-TATGGCTCTATA-AGCTTCCCGTTAATGGCTCGCA
*
4453460 TGAGCTTCCCGATTATGGCTCTAATAAGCTTTCCGTTA
1 TGAGCTTCCCGATTATGGCTCT-ATAAGCTTCCCGTTA
4453498 TACAGCCTAG
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
48 47 0.67
49 23 0.33
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.31
Consensus pattern (47 bp):
TGAGCTTCCCGATTATGGCTCTATAAGCTTCCCGTTAATGGCTCGCA
Found at i:4455130 original size:13 final size:13
Alignment explanation
Indices: 4455112--4455143 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
4455102 AACACATGGG
4455112 CGTGTGCCTTGGC
1 CGTGTGCCTTGGC
4455125 CGTGTGCCTTGGC
1 CGTGTGCCTTGGC
4455138 CGTGTG
1 CGTGTG
4455144 ACCCAAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.28, G:0.41, T:0.31
Consensus pattern (13 bp):
CGTGTGCCTTGGC
Found at i:4457223 original size:51 final size:51
Alignment explanation
Indices: 4457161--4457476 Score: 483
Period size: 51 Copynumber: 6.4 Consensus size: 51
4457151 CGGATCACAT
*
4457161 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
4457212 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCT-AAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
4457262 TTATCACTTG-------TCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
4457306 TTATCACTTGTCACTTATCACTAATCAGATAAGTGTAGCTAAA-CTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
4457356 TTATCACTTGTCACTTATCGCAT-ATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCAC-TGATCAGATAAGTGTAGCTAAAGCTACCAC
*
4457407 TTATCACTTGTCACTTATCACTGATAAGATAAGTGTAGCTAAA-CTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
4457457 TTATCACTTGTCACTGATCA
1 TTATCACTTGTCACTTATCA
4457477 AAAGTACTCA
Statistics
Matches: 247, Mismatches: 7, Indels: 23
0.89 0.03 0.08
Matches are distributed among these distances:
43 22 0.09
44 20 0.08
50 94 0.38
51 111 0.45
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:4457275 original size:94 final size:94
Alignment explanation
Indices: 4457165--4457476 Score: 507
Period size: 94 Copynumber: 3.2 Consensus size: 94
4457155 TCACATTTAT
* *
4457165 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGT
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTAT
* *
4457230 CACCGATCAGATAAGTGTAGCTAAGCTAC
66 CACTGATCAGATAAGTGTAGCTAAACTAC
4457259 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTAT
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTAT
*
4457324 CACTAATCAGATAAGTGTAGCTAAACTAC
66 CACTGATCAGATAAGTGTAGCTAAACTAC
4457353 CACTTATCACTTGTCACTTATCGCATATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
1 CACTTATCACTTGTCAC---T-G---ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
*
4457418 CACTTATCACTGATAAGATAAGTGTAGCTAAACTAC
59 CACTTATCACTGATCAGATAAGTGTAGCTAAACTAC
4457454 CACTTATCACTTGTCACTGATCA
1 CACTTATCACTTGTCACTGATCA
4457477 AAAGTACTCA
Statistics
Matches: 204, Mismatches: 7, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
94 110 0.54
97 2 0.01
98 2 0.01
101 90 0.44
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (94 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTAT
CACTGATCAGATAAGTGTAGCTAAACTAC
Found at i:4457370 original size:101 final size:101
Alignment explanation
Indices: 4457161--4457471 Score: 494
Period size: 101 Copynumber: 3.1 Consensus size: 101
4457151 CGGATCACAT
4457161 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
* * *
4457226 TTGTCACCGATCAGATAAGTGTAGCTAAGCTACCAC
66 TTATCACTGATCAGATAAGTGTAGCTAAACTACCAC
4457262 -T-T-A----TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
*
4457320 TTATCACTAATCAGATAAGTGTAGCTAAACTACCAC
66 TTATCACTGATCAGATAAGTGTAGCTAAACTACCAC
* *
4457356 TTATCACTTGTCACTTATCGCAT-ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCA
1 TTATCACTTGTCACTTGTCAC-TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCA
*
4457420 CTTATCACTGATAAGATAAGTGTAGCTAAACTACCAC
65 CTTATCACTGATCAGATAAGTGTAGCTAAACTACCAC
4457457 TTATCACTTGTCACT
1 TTATCACTTGTCACT
4457472 GATCAAAAGT
Statistics
Matches: 194, Mismatches: 8, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
94 87 0.45
95 1 0.01
96 1 0.01
97 1 0.01
98 1 0.01
99 1 0.01
100 1 0.01
101 100 0.52
102 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (101 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
TTATCACTGATCAGATAAGTGTAGCTAAACTACCAC
Found at i:4457572 original size:17 final size:17
Alignment explanation
Indices: 4457550--4457582 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4457540 TATTCTCAAT
4457550 TCATCA-ACAAATATATC
1 TCATCATAC-AATATATC
4457567 TCATCATACAATATAT
1 TCATCATACAATATAT
4457583 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:4460745 original size:30 final size:32
Alignment explanation
Indices: 4460703--4460786 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 32
4460693 TCAATAATAT
*
4460703 ATAAATAATATTAAATTA-TTATTAAAATAAA
1 ATAAATAATATTAAATAATTTATTAAAATAAA
4460734 ATAAA-AATATTAAATAATTTATTAAAAT--A
1 ATAAATAATATTAAATAATTTATTAAAATAAA
* *
4460763 ATAAATTATATT-AATAAATTATTA
1 ATAAATAATATTAAATAATTTATTA
4460787 TATGATTAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 17 0.35
30 16 0.33
31 15 0.31
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
ATAAATAATATTAAATAATTTATTAAAATAAA
Found at i:4460780 original size:21 final size:20
Alignment explanation
Indices: 4460737--4460780 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4460727 AAATAAAATA
* *
4460737 AAAATATTAAATAATTTATT
1 AAAATAATAAATAATTTAAT
*
4460757 AAAATAATAAATTATATTAAT
1 AAAATAATAAATAAT-TTAAT
4460778 AAA
1 AAA
4460781 TTATTATATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATAATAAATAATTTAAT
Found at i:4461498 original size:9 final size:9
Alignment explanation
Indices: 4461479--4461515 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
4461469 TCAGTTTTCG
4461479 AATTCGAAT
1 AATTCGAAT
4461488 AACTT-GAAT
1 AA-TTCGAAT
4461497 AATTCGAAT
1 AATTCGAAT
4461506 AATTCGAAT
1 AATTCGAAT
4461515 A
1 A
4461516 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:4461592 original size:21 final size:21
Alignment explanation
Indices: 4461551--4461592 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4461541 ACTCCAAACT
* *
4461551 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
4461572 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
4461593 TACTTTCCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:4467503 original size:19 final size:20
Alignment explanation
Indices: 4467466--4467503 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4467456 GATAAAGATT
*
4467466 TTTAAATTTTTTAGGAAATA
1 TTTAAATTTTTTAGAAAATA
*
4467486 TTTAATTTTTTTA-AAAAT
1 TTTAAATTTTTTAGAAAAT
4467504 TAAAGCGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTAAATTTTTTAGAAAATA
Found at i:4475688 original size:84 final size:86
Alignment explanation
Indices: 4475478--4475700 Score: 353
Period size: 86 Copynumber: 2.6 Consensus size: 86
4475468 GACACATATG
* * *
4475478 AAAT-ATTTAGTGTCAATTTACAATATAATATTAAAGATATTGAAGTTAATTACGTAGTTCGGAA
1 AAATAATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTACGTAGTTCGGAA
4475542 AAGCATTCTATAGTTTGAAAA
66 AAGCATTCTATAGTTTGAAAA
* *
4475563 AAATAATTTAGTGTCAATTTATAATATCATATTAAAAACATCGAAGTTAATTACGTAGTTCGGAA
1 AAATAATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTACGTAGTTCGGAA
*
4475628 AAGCATTCTA-CGTTTG-AAA
66 AAGCATTCTATAGTTTGAAAA
* *
4475647 AATTAATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAGTTAC
1 AAATAATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTAC
4475701 TTAGGGTGGG
Statistics
Matches: 127, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
84 53 0.42
85 9 0.07
86 65 0.51
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (86 bp):
AAATAATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTACGTAGTTCGGAA
AAGCATTCTATAGTTTGAAAA
Found at i:4483438 original size:80 final size:79
Alignment explanation
Indices: 4483305--4483454 Score: 237
Period size: 80 Copynumber: 1.9 Consensus size: 79
4483295 CCAAAAATTG
* * *
4483305 ATTTGATCACAGCCTTCTACTACTTGCGTCCCAGTTAGCATTGATATTAGTACAACTTTTTGAGA
1 ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGCACTGATATTAGTACAAC-TTTTGAGA
4483370 TTAAAAGTTGTGTTA
65 TTAAAAGTTGTGTTA
* * *
4483385 ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGTACTGATTTTGGTACAACTTTTGAGAT
1 ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGCACTGATATTAGTACAACTTTTGAGAT
4483450 TAAAA
66 TAAAA
4483455 CAATGCTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
79 14 0.22
80 50 0.78
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.37
Consensus pattern (79 bp):
ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGCACTGATATTAGTACAACTTTTGAGAT
TAAAAGTTGTGTTA
Found at i:4499661 original size:2 final size:2
Alignment explanation
Indices: 4499656--4499694 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4499646 AATATATCAA
4499656 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
4499695 AAGGTAGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4500752 original size:14 final size:15
Alignment explanation
Indices: 4500733--4500761 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4500723 AGGTAGTTCT
4500733 TATATAAA-TAAAAA
1 TATATAAACTAAAAA
4500747 TATATAAACTAAAAA
1 TATATAAACTAAAAA
4500762 AAGAAAGTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TATATAAACTAAAAA
Found at i:4503806 original size:12 final size:12
Alignment explanation
Indices: 4503789--4503824 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
4503779 GTTTTAAGCA
4503789 ATTTAATTTTTT
1 ATTTAATTTTTT
4503801 ATTTAATATTTTT
1 ATTTAAT-TTTTT
4503814 -TTTAATTTTTT
1 ATTTAATTTTTT
4503825 TCATTCTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.22
12 13 0.57
13 5 0.22
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
ATTTAATTTTTT
Done.