Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 26 of 106
Found at i:4757319 original size:6 final size:6
Alignment explanation
Indices: 4757304--4757349 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
4757294 ATATGTCAAA
* *
4757304 AAAAAG -AAAAG AAAAA- AAAGAG AAAGAG AAAAA- AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
4757349 A
1 A
4757350 CAAATAGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 14 0.40
6 21 0.60
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4757333 original size:17 final size:15
Alignment explanation
Indices: 4757301--4757346 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 15
4757291 GGGATATGTC
4757301 AAAAAAAAGAAAAGA
1 AAAAAAAAGAAAAGA
4757316 AAAAAAAGAGAAAGAGAA
1 AAAAAAA-AGAAA-AG-A
4757334 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
4757347 AGACAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.25
16 6 0.21
17 7 0.25
18 8 0.29
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAGA
Found at i:4757457 original size:21 final size:23
Alignment explanation
Indices: 4757432--4757473 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4757422 TGGTAAAAAA
4757432 AAAGG-AAAAA-CCAAAAGTCCT
1 AAAGGAAAAAAGCCAAAAGTCCT
4757453 AAAGGAAAAAAGCCAAAAGTC
1 AAAGGAAAAAAGCCAAAAGTC
4757474 AAGAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 5 0.26
23 9 0.47
ACGTcount: A:0.60, C:0.17, G:0.17, T:0.07
Consensus pattern (23 bp):
AAAGGAAAAAAGCCAAAAGTCCT
Found at i:4757484 original size:5 final size:5
Alignment explanation
Indices: 4757474--4757500 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4757464 GCCAAAAGTC
4757474 AAGAA AAGAA AAGAA AAGAA AAGAA AA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AA
4757501 ACACTTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:4759363 original size:32 final size:32
Alignment explanation
Indices: 4759298--4759367 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
4759288 TTATAAAAAG
*
4759298 ATTTAAGCTCAGCTCAGTTAGCATCTAAAGAA
1 ATTTAAGCTCAGCTCAGCTAGCATCTAAAGAA
* * *
4759330 ATTTAAGCTCAGCTTAGCTATCA-CGTAATGAA
1 ATTTAAGCTCAGCTCAGCTAGCATC-TAAAGAA
4759362 ATTTAA
1 ATTTAA
4759368 ACCTAGTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 1 0.03
32 32 0.97
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (32 bp):
ATTTAAGCTCAGCTCAGCTAGCATCTAAAGAA
Found at i:4759465 original size:65 final size:65
Alignment explanation
Indices: 4759330--4759483 Score: 158
Period size: 65 Copynumber: 2.4 Consensus size: 65
4759320 ATCTAAAGAA
*
4759330 ATTTAAGCTCAGCTT-AGCTATCACGT-AATGAAATTTAAACCTAGTTTAGCTAGCACCCAATGA
1 ATTTAAGCTCAG-TTCAGCTAGCAC-TCAATGAAATTTAAACCTAGTTTAGCTAGCACCCAATGA
4759393 AG
64 AG
* * * * *
4759395 TTTTAAG-TCCAG-TCTAGCTAGCACTCAATGAAAATTTAAACTTAGTTTAGTTGGCA-CTAA-G
1 ATTTAAGCT-CAGTTC-AGCTAGCACTCAATG-AAATTTAAACCTAGTTTAGCTAGCACCCAATG
4759456 AATG
63 AA-G
4759460 ATTTAAGCTCAGTTCAGCTAGCAC
1 ATTTAAGCTCAGTTCAGCTAGCAC
4759484 CTAGGTTTTA
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
63 1 0.01
64 5 0.07
65 43 0.58
66 25 0.34
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (65 bp):
ATTTAAGCTCAGTTCAGCTAGCACTCAATGAAATTTAAACCTAGTTTAGCTAGCACCCAATGAAG
Found at i:4760242 original size:19 final size:18
Alignment explanation
Indices: 4760215--4760256 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
4760205 TTAAAAATTA
*
4760215 ATAAATAATAATATAATAT
1 ATAAATAATAATA-AAAAT
*
4760234 ATAATTAATAATAAAAAT
1 ATAAATAATAATAAAAAT
4760252 ATAAA
1 ATAAA
4760257 AATCAAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAAATAATAATAAAAAT
Found at i:4760243 original size:22 final size:20
Alignment explanation
Indices: 4760213--4760254 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
4760203 AATTAAAAAT
4760213 TAATAAATAATAATATAATATA
1 TAATAAATAATAA-A-AATATA
*
4760235 TAATTAATAATAAAAATATA
1 TAATAAATAATAAAAATATA
4760255 AAAATCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
22 12 0.63
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATAAATAATAAAAATATA
Found at i:4760331 original size:3 final size:3
Alignment explanation
Indices: 4760323--4760347 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4760313 AATAAAACCC
4760323 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
4760348 TGAAACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4761227 original size:13 final size:13
Alignment explanation
Indices: 4761209--4761252 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
4761199 AGCCAAATAA
4761209 AAAAGAGAACTAG
1 AAAAGAGAACTAG
*
4761222 AAAAGA-AA-TCAA
1 AAAAGAGAACT-AG
4761234 AAAAGAGAACTAG
1 AAAAGAGAACTAG
4761247 AAAAGA
1 AAAAGA
4761253 AATCAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 1 0.04
12 9 0.35
13 15 0.58
14 1 0.04
ACGTcount: A:0.68, C:0.07, G:0.18, T:0.07
Consensus pattern (13 bp):
AAAAGAGAACTAG
Found at i:4761235 original size:25 final size:25
Alignment explanation
Indices: 4761203--4761264 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
4761193 GGCAGTAGCC
4761203 AAAT-AAAAAAGAGAACTAGAAAAG
1 AAATCAAAAAAGAGAACTAGAAAAG
4761227 AAATCAAAAAAGAGAACTAGAAAAG
1 AAATCAAAAAAGAGAACTAGAAAAG
4761252 AAATCAAAAAAGA
1 AAATCAAAAAAGA
4761265 AAAGGACACT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.11
25 33 0.89
ACGTcount: A:0.71, C:0.06, G:0.15, T:0.08
Consensus pattern (25 bp):
AAATCAAAAAAGAGAACTAGAAAAG
Found at i:4761239 original size:12 final size:12
Alignment explanation
Indices: 4761222--4761266 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
4761212 AGAGAACTAG
4761222 AAAAGAAATCAA
1 AAAAGAAATCAA
*
4761234 AAAAGAGAA-CTAG
1 AAAAGA-AATC-AA
4761247 AAAAGAAATCAA
1 AAAAGAAATCAA
4761259 AAAAGAAA
1 AAAAGAAA
4761267 AGGACACTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.73, C:0.07, G:0.13, T:0.07
Consensus pattern (12 bp):
AAAAGAAATCAA
Found at i:4767421 original size:3 final size:3
Alignment explanation
Indices: 4767413--4767439 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4767403 GCCTTTTTGC
4767413 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
4767440 GCGTGTATTT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4768996 original size:35 final size:37
Alignment explanation
Indices: 4768928--4769020 Score: 102
Period size: 35 Copynumber: 2.5 Consensus size: 37
4768918 TTATGACACC
*
4768928 ATCTATTAACATGTGCATGAAATGGAATGCATGTACT
1 ATCTATTAACATGTGCATGAAATGCAATGCATGTACT
* * *
4768965 ATCTATTAATATG-G-ATGAGATGCAATGCATGTATT
1 ATCTATTAACATGTGCATGAAATGCAATGCATGTACT
*
4769000 ATCCTATTGTA-ATGTGCATGA
1 AT-CTATT-AACATGTGCATGA
4769021 GATGGGATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
35 20 0.43
36 9 0.19
37 14 0.30
38 4 0.09
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (37 bp):
ATCTATTAACATGTGCATGAAATGCAATGCATGTACT
Found at i:4769034 original size:38 final size:37
Alignment explanation
Indices: 4768938--4769045 Score: 121
Period size: 38 Copynumber: 2.9 Consensus size: 37
4768928 ATCTATTAAC
* *
4768938 ATGTGCATGAAATGGAATGCATGTACTAT-CTA-TTA
1 ATGTGCATGAGATGGAATGCATGTATTATCCTATTTA
* * *
4768973 ATATGGATGAGATGCAATGCATGTATTATCCTATTGTA
1 ATGTGCATGAGATGGAATGCATGTATTATCCTATT-TA
* * *
4769011 ATGTGCATGAGATGGGATACATGTATTATCTTATT
1 ATGTGCATGAGATGGAATGCATGTATTATCCTATT
4769046 ATTTCCAATC
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
35 24 0.41
36 3 0.05
37 1 0.02
38 31 0.53
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.37
Consensus pattern (37 bp):
ATGTGCATGAGATGGAATGCATGTATTATCCTATTTA
Found at i:4769489 original size:20 final size:19
Alignment explanation
Indices: 4769444--4769486 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
4769434 TGGAAGTATA
4769444 TTTTTT-ATCTTTCATCTT
1 TTTTTTCATCTTTCATCTT
*
4769462 TTTTTTCATTTTTCATCTT
1 TTTTTTCATCTTTCATCTT
4769481 TTTTTT
1 TTTTTT
4769487 TCAAACACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTCATCTTTCATCTT
Found at i:4770156 original size:18 final size:18
Alignment explanation
Indices: 4770115--4770155 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
4770105 ATTAAAACAC
4770115 TTTTTTCATTTTTTCAAT
1 TTTTTTCATTTTTTCAAT
*
4770133 TTTTTTGATTTTTT-AAT
1 TTTTTTCATTTTTTCAAT
4770150 TTTTTT
1 TTTTTT
4770156 TTTAAACAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTTTCATTTTTTCAAT
Found at i:4771204 original size:26 final size:26
Alignment explanation
Indices: 4771175--4771224 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
4771165 GGTTTGAGGA
*
4771175 TTGGTTTTGGGGTTT-GGGTTTAGGGT
1 TTGG-TTTGGGATTTAGGGTTTAGGGT
4771201 TTGGTTTGGGATTTAGGGTTTAGG
1 TTGGTTTGGGATTTAGGGTTTAGG
4771225 TAGGGTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.08, C:0.00, G:0.44, T:0.48
Consensus pattern (26 bp):
TTGGTTTGGGATTTAGGGTTTAGGGT
Found at i:4771208 original size:18 final size:19
Alignment explanation
Indices: 4771185--4771221 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4771175 TTGGTTTTGG
4771185 GGTTTGGG-TTTAGGGTTT
1 GGTTTGGGATTTAGGGTTT
4771203 GGTTTGGGATTTAGGGTTT
1 GGTTTGGGATTTAGGGTTT
4771222 AGGTAGGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.08, C:0.00, G:0.43, T:0.49
Consensus pattern (19 bp):
GGTTTGGGATTTAGGGTTT
Found at i:4771224 original size:7 final size:7
Alignment explanation
Indices: 4771184--4771330 Score: 79
Period size: 7 Copynumber: 22.7 Consensus size: 7
4771174 ATTGGTTTTG
4771184 GGGTTT-
1 GGGTTTA
4771190 GGGTTTA
1 GGGTTTA
4771197 GGGTTT-
1 GGGTTTA
4771203 -GGTTT-
1 GGGTTTA
4771208 GGGATTTA
1 GGG-TTTA
4771216 GGGTTTA
1 GGGTTTA
4771223 -GG--TA
1 GGGTTTA
*
4771227 GGGTTCA
1 GGGTTTA
*
4771234 AGG-TTA
1 GGGTTTA
4771240 GGGTTTA
1 GGGTTTA
*
4771247 CGG-TTA
1 GGGTTTA
4771253 GGGATTTA
1 GGG-TTTA
* *
4771261 -AGATTA
1 GGGTTTA
*
4771267 GGTTTTA
1 GGGTTTA
*
4771274 GGATTTA
1 GGGTTTA
*
4771281 AGGTTT-
1 GGGTTTA
4771287 -GGTTTA
1 GGGTTTA
4771293 GGGTTT-
1 GGGTTTA
4771299 -GGTTTA
1 GGGTTTA
* * *
4771305 AGGATTG
1 GGGTTTA
4771312 GGGTTTA
1 GGGTTTA
4771319 GGGTTTA
1 GGGTTTA
4771326 GGGTT
1 GGGTT
4771331 GGTATATAGG
Statistics
Matches: 107, Mismatches: 19, Indels: 29
0.69 0.12 0.19
Matches are distributed among these distances:
4 2 0.02
5 17 0.16
6 22 0.21
7 60 0.56
8 6 0.06
ACGTcount: A:0.17, C:0.01, G:0.39, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:4771231 original size:25 final size:25
Alignment explanation
Indices: 4771180--4771231 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
4771170 GAGGATTGGT
* **
4771180 TTTGGGGTTTGGGTTTAGGGTTTGG
1 TTTGGGATTTGGGTTTAGGGTAGGG
4771205 TTTGGGATTTAGGGTTTA-GGTAGGG
1 TTTGGGATTT-GGGTTTAGGGTAGGG
4771230 TT
1 TT
4771232 CAAGGTTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (25 bp):
TTTGGGATTTGGGTTTAGGGTAGGG
Found at i:4771293 original size:26 final size:27
Alignment explanation
Indices: 4771264--4771327 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
4771254 GGATTTAAGA
* *
4771264 TTAGGTTTTAGGATTTAAGG-TT-TGGT
1 TTAGGGTTTAGG-TTTAAGGATTGGGGT
4771290 TTAGGGTTT-GGTTTAAGGATTGGGGT
1 TTAGGGTTTAGGTTTAAGGATTGGGGT
4771316 TTAGGGTTTAGG
1 TTAGGGTTTAGG
4771328 GTTGGTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 7 0.21
25 4 0.12
26 20 0.61
27 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (27 bp):
TTAGGGTTTAGGTTTAAGGATTGGGGT
Found at i:4771297 original size:12 final size:12
Alignment explanation
Indices: 4771277--4771324 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
4771267 GGTTTTAGGA
*
4771277 TTTAAGGTTTGG
1 TTTAGGGTTTGG
4771289 TTTAGGGTTTGG
1 TTTAGGGTTTGG
* *
4771301 TTTAAGGATTGGGG
1 TTT-AGGGTT-TGG
4771315 TTTAGGGTTT
1 TTTAGGGTTT
4771325 AGGGTTGGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 14 0.48
13 10 0.34
14 5 0.17
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.48
Consensus pattern (12 bp):
TTTAGGGTTTGG
Found at i:4772409 original size:13 final size:12
Alignment explanation
Indices: 4772367--4772400 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
4772357 CTGCAAAGAG
4772367 TTTTTTTTCTTT
1 TTTTTTTTCTTT
4772379 TTTTTCTTTCTCTT
1 TTTTT-TTTCT-TT
4772393 TTTTTTTT
1 TTTTTTTT
4772401 GTCTTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 8 0.40
14 7 0.35
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:4772616 original size:29 final size:29
Alignment explanation
Indices: 4772584--4772643 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
4772574 TTTCAAGGAG
*
4772584 CAAATTTTAGCTA-TTGGATCAAGATTCCT
1 CAAACTTTAGC-AGTTGGATCAAGATTCCT
4772613 CAAACTTTAGCAGTTGGATCAAGATTCCT
1 CAAACTTTAGCAGTTGGATCAAGATTCCT
4772642 CA
1 CA
4772644 GGTGATCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.97
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (29 bp):
CAAACTTTAGCAGTTGGATCAAGATTCCT
Found at i:4773483 original size:20 final size:20
Alignment explanation
Indices: 4773460--4773505 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
4773450 TTTTGACCAA
4773460 GTTTGACTAAT-TTTGACTTT
1 GTTTGAC-AATGTTTGACTTT
*
4773480 GTTTGACATTGTTTGACTTT
1 GTTTGACAATGTTTGACTTT
4773500 GTTTGA
1 GTTTGA
4773506 TCAAGTTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.17, C:0.09, G:0.20, T:0.54
Consensus pattern (20 bp):
GTTTGACAATGTTTGACTTT
Found at i:4773484 original size:10 final size:10
Alignment explanation
Indices: 4773471--4773505 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
4773461 TTTGACTAAT
4773471 TTTGACTTTG
1 TTTGACTTTG
*
4773481 TTTGACATTG
1 TTTGACTTTG
4773491 TTTGACTTTG
1 TTTGACTTTG
4773501 TTTGA
1 TTTGA
4773506 TCAAGTTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.14, C:0.09, G:0.20, T:0.57
Consensus pattern (10 bp):
TTTGACTTTG
Found at i:4776842 original size:33 final size:33
Alignment explanation
Indices: 4776800--4776867 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
4776790 CAAGTTATCT
4776800 ACCTAATTTACTTATCATGACTTGTTAAGACAA
1 ACCTAATTTACTTATCATGACTTGTTAAGACAA
*
4776833 ACCTAATTTACTTATCATGACTTGTTGAGACAA
1 ACCTAATTTACTTATCATGACTTGTTAAGACAA
4776866 AC
1 AC
4776868 ATTAAGGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (33 bp):
ACCTAATTTACTTATCATGACTTGTTAAGACAA
Found at i:4780653 original size:75 final size:74
Alignment explanation
Indices: 4780498--4780653 Score: 165
Period size: 75 Copynumber: 2.1 Consensus size: 74
4780488 AAATGCCATT
* * * * *
4780498 ATTTGTTCTCAGAAACACCGCTAAATGCTTAATTTAGTAGCATTTTTATCATAAAATGCTATTAA
1 ATTTGTTCTCAGAAACACCGCTAAATGCTAAATTTAGCAACATTTATATCAGAAAATGCTATTAA
*
4780563 ATTTAGCGG
66 ATTTAGCGC
** *
4780572 AGTTTGTTC-CTAGAAACATTGCTAAATGCTAAATTTAGCAACGTTTATAGT-AGAAAATG-TCA
1 A-TTTGTTCTC-AGAAACACCGCTAAATGCTAAATTTAGCAACATTTATA-TCAGAAAATGCT-A
4780634 TTAAATTTAGCAGC
62 TTAAATTTAGC-GC
4780648 ATTTGT
1 ATTTGT
4780654 AGTAGAAAGC
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
74 3 0.04
75 62 0.91
76 3 0.04
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (74 bp):
ATTTGTTCTCAGAAACACCGCTAAATGCTAAATTTAGCAACATTTATATCAGAAAATGCTATTAA
ATTTAGCGC
Found at i:4781200 original size:21 final size:21
Alignment explanation
Indices: 4781175--4781240 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
4781165 ATCTTCCACA
* *
4781175 CTCTTGGTCCATTTTAACACG
1 CTCTTGTTCAATTTTAACACG
* * *
4781196 TTCTTCTTCAATTTTAGCACG
1 CTCTTGTTCAATTTTAACACG
4781217 CTCTTGTTCAATTTTAACACG
1 CTCTTGTTCAATTTTAACACG
4781238 CTC
1 CTC
4781241 ATATTCTCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.20, C:0.27, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTTGTTCAATTTTAACACG
Found at i:4782128 original size:160 final size:160
Alignment explanation
Indices: 4781833--4783408 Score: 1432
Period size: 160 Copynumber: 9.9 Consensus size: 160
4781823 ATTTAATATC
* * * * *
4781833 ATCCAAACTATTAAAACAGAACAATAATAGCAAATTTACATTTTTAACTTTTAAT-GACACAAAA
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCATTTTTACCTTTTAATAG-CAC-AAA
* * * *
4781897 AATCTTAAACAAAGC-TAAACAACAACTTTTTCACACATATCAATTGTGGAAACCAAGTTCAATC
64 AGTCTTAAACAAA-CATAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATC
* *
4781961 ATTCGAACAAATTTAATATCGTGTATTGAAGCT
128 ATTCGAACAAGTTTAATATCATGTATTGAAGCT
* * * * *
4781994 ATCCAAACTGTTAAAATAGCACAATAACAACAATTTTACATTTTTGCCTTTTAATAGCACAAAAG
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCATTTTTACCTTTTAATAGCACAAAAG
* * * * * * *
4782059 TCTTAAACAGACATAAACAATAACTTTTTCGCATATTTCAACTATGAAAATCAAGTTCAATCCTT
66 TCTTAAACAAACATAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATCATT
* * *
4782124 CGAACAAGTTTAATAACATGTATTTAAGCC
131 CGAACAAGTTTAATATCATGTATTGAAGCT
* * * * * * * *
4782154 ATCCAAATTGTTAAAACAGAACAATGATAGCAAATTTACATTTTTGCCTATCAATGACGCA-AAA
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCATTTTTACCTTTTAAT-A-GCACAAA
** * * ** * *
4782218 AAACTTAAATAGAGGTAAACAACAACTTTTTC-CAACATATCAACTGTGGAAACCAAGTTCAATC
64 AGTCTTAAACAAACATAAACAATAACTTTTTCAC-ACATATCAACTGTGAAAACCAAGTTCAATC
* *
4782282 A----AACAAGTTTAATATCGTGTATTGAAACT
128 ATTCGAACAAGTTTAATATCATGTATTGAAGCT
* * * * *
4782311 ATCCAAACTGTTAAAATAGCACAATAATAGCATTTTTGTATTTTGACCTTTTAA-CGACACAAAA
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCATTTTTACCTTTTAATAG-CAC-AAA
* * * * *
4782375 AGTCTTAAACAAACATAAACAATAACTTGTTCACAAATTTTAACTGTGAAAACCAAGTTTAATCA
64 AGTCTTAAACAAACATAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATCA
* *
4782440 TTCAAATAAGTTTAATA-C-----------C-
129 TTCGAACAAGTTTAATATCATGTATTGAAGCT
* * * *
4782459 ATCCAAACTATTAAAATAGAACAATAACAGCAATTTTGCATTTTTACTTTTTGAT-GACACAAAA
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCATTTTTACCTTTTAATAG-CAC--AA
* * ** *
4782523 AAATCTTAAACAGAGGTAAACAATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATC
63 AAGTCTTAAACAAACATAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATC
*
4782588 ATTCGAACAAGTTTAATATTATGTATTGAAGCT
128 ATTCGAACAAGTTTAATATCATGTATTGAAGCT
* * * *
4782621 ATCCAAA-TGTTAAAATAGCACAATAATAGCATTTTTGCATTTTTACCTTTTAACAACACAAAAA
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCATTTTTACCTTTTAATAGCAC-AAAA
* ** * *
4782685 GTCTTAAACAAACGTAAATGATAACTTTTTCATACATATCAACTGTGGAAACCAAGTTCAATCAT
65 GTCTTAAACAAACATAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATCAT
* *
4782750 TTGAACAAGTTTAATATCATGTATTGAAACT
130 TCGAACAAGTTTAATATCATGTATTGAAGCT
* * * * * * * * * *
4782781 ATCAAAACTATTCAAACAGAACAACAATAGTAATTTTGCATTTTTTTCCTTTTAACAACATAAAA
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCA-TTTTTACCTTTTAATAGCACAAAA
* * * *
4782846 GGTCCTAAACAAACATAAACAATAGCGTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCA
65 -GTCTTAAACAAACATAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATCA
*
4782911 TTCAAACAAGTTTAATATCATGTATTGAAGCT
129 TTCGAACAAGTTTAATATCATGTATTGAAGCT
* * ** * * *
4782943 ATCCAAACTGTTAAAATAGCACAATAACAGCAATTTCACATTTTTTGCCTTTTAATGGCATAAAA
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCA-TTTTTACCTTTTAATAGCA-CAAA
* * * ** * * ** * * *
4783008 AGTCTTAAATAGACGTAAACAATAGTTTTTTCATACATATTAACTACGGATACAAAGTTCAATCA
64 AGTCTTAAACAAACATAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATCA
* *
4783073 TTCAAACAAGTTTAATATAATGTATTGAAGCT
129 TTCGAACAAGTTTAATATCATGTATTGAAGCT
* * * * * * * *
4783105 ATCCAAATTGCTAAAATAGAACAACAACAACAAATTTGCATTTTTACCTTTTAACAGCATAAAAA
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCATTTTTACCTTTTAATAGCA-CAAAA
* *** *
4783170 GTCCTAAACAAACATAAAC---AACTTTTTCACACATATCAA-TCAAAGAAACCAAGTTCAATTA
65 GTCTTAAACAAACATAAACAATAACTTTTTCACACATATCAACTGTGA-AAACCAAGTTCAATCA
* * *
4783231 TTC-AGACAAGTTTAATATCATATATTAAAACT
129 TTCGA-ACAAGTTTAATATCATGTATTGAAGCT
* * * * * * * *
4783263 ATCAAAATTGTTAAAATAGAACAATAATGGTAAATTTGCATTTTT-TCTTTTAACAGCATAAAAA
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCATTTTTACCTTTTAATAGCA-CAAAA
* * *** * * *
4783327 GTCTTAAATAGACATAAATTGTAACTTTTTCACACATACCAA-TAATGAAAATCAAGTTCAATCA
65 GTCTTAAACAAACATAAACAATAACTTTTTCACACATATCAACT-GTGAAAACCAAGTTCAATCA
*
4783391 TTCGAATAAGTTTAATAT
129 TTCGAACAAGTTTAATAT
4783409 TATAAACTTA
Statistics
Matches: 1157, Mismatches: 218, Indels: 81
0.79 0.15 0.06
Matches are distributed among these distances:
148 51 0.04
149 75 0.06
154 1 0.00
155 2 0.00
157 153 0.13
158 94 0.08
159 1 0.00
160 275 0.24
161 229 0.20
162 272 0.24
163 4 0.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (160 bp):
ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCATTTTTACCTTTTAATAGCACAAAAG
TCTTAAACAAACATAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATCATT
CGAACAAGTTTAATATCATGTATTGAAGCT
Found at i:4782574 original size:149 final size:149
Alignment explanation
Indices: 4782150--4783089 Score: 565
Period size: 162 Copynumber: 6.0 Consensus size: 149
4782140 CATGTATTTA
* * * * ** * * * * * *
4782150 AGCCATCCAAATTGTTAAAACAGAACAATGATAGCAAATTTACATTTTTGCCTATCAATGACGCA
1 AGCCATCCAAACTGTTAAAATAGCACAATAATAGCATTTTTGCATTTTTACCTTTTAACGACACA
** * * * * *
4782215 AAAAAACTTAAATAGAGGTAAACAACAACTTTTTC-CAACATATCAACTGTGGAAACCAAGTTCA
66 AAAAGTCTTAAACAAACGTAAACAATAACTTTTTCAC-ACATATCAACTGTGAAAACCAAGTTCA
** * * *
4782279 ATCAAACAAGTTTAATATCGTGTATT
130 ATCATTC-A----AATA-AGTTTAAT
* * * *
4782305 GAAACTATCCAAACTGTTAAAATAGCACAATAATAGCATTTTTGTATTTTGACCTTTTAACGACA
1 --AGCCATCCAAACTGTTAAAATAGCACAATAATAGCATTTTTGCATTTTTACCTTTTAACGACA
* * * * * *
4782370 CAAAAAGTCTTAAACAAACATAAACAATAACTTGTTCACAAATTTTAACTGTGAAAACCAAGTTT
64 CAAAAAGTCTTAAACAAACGTAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTC
4782435 AATCATTCAAATAAGTTTAAT
129 AATCATTCAAATAAGTTTAAT
* * * * * * *
4782456 A-CCATCCAAACTATTAAAATAGAACAATAACAGCAATTTTGCATTTTTACTTTTTGATGACACA
1 AGCCATCCAAACTGTTAAAATAGCACAATAATAGCATTTTTGCATTTTTACCTTTTAACGACAC-
* * * *
4782520 AAAAAATCTTAAACAGAGGTAAACAATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCA
65 AAAAAGTCTTAAACAAACGTAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCA
4782585 ATCATTCGAACAAGTTTAA-TATTATGTATT
130 ATCATTC--A-AA---TAAGT-TTA---A-T
* *
4782615 GAAGCTATCCAAA-TGTTAAAATAGCACAATAATAGCATTTTTGCATTTTTACCTTTTAACAACA
1 --AGCCATCCAAACTGTTAAAATAGCACAATAATAGCATTTTTGCATTTTTACCTTTTAACGACA
** * *
4782679 CAAAAAGTCTTAAACAAACGTAAATGATAACTTTTTCATACATATCAACTGTGGAAACCAAGTTC
64 CAAAAAGTCTTAAACAAACGTAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTC
** *
4782744 AATCATTTGAACAAGTTTAATATCATGT
129 AATCATTCAAATAAG-TT--TA--A--T
* * * * * * * * * *
4782772 ATTGAAACTATCAAAACTATTCAAACAGAACAACAATAGTAATTTTGCATTTTTTTCCTTTTAAC
1 A--G---CCATCCAAACTGTTAAAATAGCACAATAATAGCATTTTTGCA-TTTTTACCTTTTAAC
* * * * * * * *
4782837 AACATAAAAGGTCCTAAACAAACATAAACAATAGCGTTTTCACACATATCAATTGTGAAAACCAA
60 GACACAAAAAGTCTTAAACAAACGTAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAA
*
4782902 GTTCAATCATTCAAACAAGTTTAATATCATGTATT
125 GTTCAATCATTCAAATAAG--T--T-T-A---A-T
* * * ** * * *
4782937 GAAGCTATCCAAACTGTTAAAATAGCACAATAACAGCAATTTCACATTTTTTGCCTTTTAATGGC
1 --AGCCATCCAAACTGTTAAAATAGCACAATAATAGCATTTTTGCA-TTTTTACCTTTTAACGAC
* * * ** * * ** * * *
4783002 ATAAAAAGTCTTAAATAGACGTAAACAATAGTTTTTTCATACATATTAACTACGGATACAAAGTT
63 ACAAAAAGTCTTAAACAAACGTAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTT
*
4783067 CAATCATTCAAACAAGTTTAAT
128 CAATCATTCAAATAAGTTTAAT
4783089 A
1 A
4783090 TAATGTATTG
Statistics
Matches: 617, Mismatches: 131, Indels: 77
0.75 0.16 0.09
Matches are distributed among these distances:
148 52 0.08
149 63 0.10
150 1 0.00
151 6 0.01
152 7 0.01
153 1 0.00
154 3 0.00
155 8 0.01
156 4 0.01
157 110 0.18
158 3 0.00
159 1 0.00
160 72 0.12
161 70 0.11
162 206 0.33
163 2 0.00
164 2 0.00
165 4 0.01
166 1 0.00
167 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (149 bp):
AGCCATCCAAACTGTTAAAATAGCACAATAATAGCATTTTTGCATTTTTACCTTTTAACGACACA
AAAAGTCTTAAACAAACGTAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAA
TCATTCAAATAAGTTTAAT
Found at i:4782933 original size:162 final size:161
Alignment explanation
Indices: 4782459--4783408 Score: 1007
Period size: 162 Copynumber: 5.9 Consensus size: 161
4782449 GTTTAATACC
* * *
4782459 ATCCAAACTATTAAAATAGAACAATAACAGCAATTTTGCATTTTTACTTTTTGATGACA-CA-AA
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCATTTTTACCTTTT-A--ACAGCATAA
* * **
4782522 AAAATCTTAAACAGAGGTAAACAATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAAT
63 AAAGTCTTAAACAAACATAAACAATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAAT
* *
4782587 CATTCGAACAAGTTTAATATTATGTATTGAAGCT
128 CATTCAAACAAGTTTAATATCATGTATTGAAGCT
* * * *
4782621 ATCCAAA-TGTTAAAATAGCACAATAATAGCATTTTTGCATTTTTACCTTTTAACAACACAAAAA
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCATTTTTACCTTTTAACAGCATAAAAA
* ** * * *
4782685 GTCTTAAACAAACGTAAATGATAACTTTTTCATACATATCAACTGTGGAAACCAAGTTCAATCAT
66 GTCTTAAACAAACATAAACAATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCAT
** *
4782750 TTGAACAAGTTTAATATCATGTATTGAAACT
131 TCAAACAAGTTTAATATCATGTATTGAAGCT
* * * * * * * *
4782781 ATCAAAACTATTCAAACAGAACAACAATAGTAATTTTGCATTTTTTTCCTTTTAACAACATAAAA
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCA-TTTTTACCTTTTAACAGCATAAAA
* * * *
4782846 GGTCCTAAACAAACATAAACAATAGCGTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCA
65 AGTCTTAAACAAACATAAACAATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCA
4782911 TTCAAACAAGTTTAATATCATGTATTGAAGCT
130 TTCAAACAAGTTTAATATCATGTATTGAAGCT
* * ** * **
4782943 ATCCAAACTGTTAAAATAGCACAATAACAGCAATTTCACATTTTTTGCCTTTTAATGGCATAAAA
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCA-TTTTTACCTTTTAACAGCATAAAA
* * * ** * * * ** * * *
4783008 AGTCTTAAATAGACGTAAACAATAGTTTTTTCATACATATTAACTACGGATACAAAGTTCAATCA
65 AGTCTTAAACAAACATAAACAATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCA
*
4783073 TTCAAACAAGTTTAATATAATGTATTGAAGCT
130 TTCAAACAAGTTTAATATCATGTATTGAAGCT
* * * * * *
4783105 ATCCAAATTGCTAAAATAGAACAACAACAACAAATTTGCATTTTTACCTTTTAACAGCATAAAAA
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCATTTTTACCTTTTAACAGCATAAAAA
* *** *
4783170 GTCCTAAACAAACATAAAC---AACTTTTTCACACATATCAA-TCAAAGAAACCAAGTTCAATTA
66 GTCTTAAACAAACATAAACAATAACTTTTTCACACATATCAATTGTGA-AAACCAAGTTCAATCA
* * * *
4783231 TTCAGACAAGTTTAATATCATATATTAAAACT
130 TTCAAACAAGTTTAATATCATGTATTGAAGCT
* * * * * *
4783263 ATCAAAATTGTTAAAATAGAACAATAATGGTAAATTTGCATTTTT-TCTTTTAACAGCATAAAAA
1 ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCATTTTTACCTTTTAACAGCATAAAAA
* * *** * ** *
4783327 GTCTTAAATAGACATAAATTGTAACTTTTTCACACATACCAATAATGAAAATCAAGTTCAATCAT
66 GTCTTAAACAAACATAAACAATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCAT
* *
4783392 TCGAATAAGTTTAATAT
131 TCAAACAAGTTTAATAT
4783409 TATAAACTTA
Statistics
Matches: 657, Mismatches: 122, Indels: 20
0.82 0.15 0.03
Matches are distributed among these distances:
157 34 0.05
158 97 0.15
159 2 0.00
160 145 0.22
161 102 0.16
162 277 0.42
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (161 bp):
ATCCAAACTGTTAAAATAGAACAATAATAGCAATTTTGCATTTTTACCTTTTAACAGCATAAAAA
GTCTTAAACAAACATAAACAATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCAT
TCAAACAAGTTTAATATCATGTATTGAAGCT
Found at i:4783147 original size:324 final size:319
Alignment explanation
Indices: 4781837--4783408 Score: 1289
Period size: 318 Copynumber: 4.9 Consensus size: 319
4781827 AATATCATCC
* * * * * * ** * * *
4781837 AAACTATTAAAACAGAACAATAATAGCAAATTTACATTTTTAACTTTTAATGACACAAAAAATCT
1 AAACTACTAAAACAGAACAACAACAACAAATTTGCATTTTTACCTTTTAACAACATAAAAAGTCC
* * *
4781902 TAAACAAAGC-TAAACAACAACTTTTTCACACATATCAATTGTGGAAACCAAGTTCAATCATTCG
66 TAAACAAA-CATAAACAA-TACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCA
* * * *
4781966 AACAAATTTAATATCGTGTATTGAAGCTATCCAAACTGTTAAAATAGCACAATAACAACAATTTT
129 AACAAGTTTAATATCATGTATTGAAGCTATCCAAA-TGTTAAAATAGCACAATAATAGCAA-TTT
* * * * * * ** *
4782031 ACATTTTTGCCTTTTAATAGCA-CAAAAGTCTTAAACAGACATAAACAATAACTTTTTCGCATAT
192 GCATTTTTTCCTTTTAACAGCATAAAAAGTCTTAAATAGACGTAAACAATAACTTTTTCATACAT
* * * * * * * * *
4782095 TTCAACTATGAAAATC-AAGTTCAATCCTTCGAACAAGTTTAATA-ACATGTATTTAAGCCATCC
257 ATCAACTACGGAAA-CAAAGTTCAATCATTCAAACAAGTTTAATATA-ATGTATTGAAACTATCA
* ** ** * * * * * * ** ** ** *
4782158 AAATTGTTAAAACAGAACAATGATAGCAAATTTACATTTTTGCCTATCAATGACGCAAAAAAACT
1 AAACTACTAAAACAGAACAACAACAACAAATTTGCATTTTTACCTTTTAACAACATAAAAAGTCC
* * ** * * *
4782223 TAAATAGAGGTAAACAACAACTTTTTC-CAACATATCAACTGTGGAAACCAAGTTC-A--A-TCA
66 TAAACAAACATAAACAA-TACTTTTTCAC-ACATATCAATTGTGAAAACCAAGTTCAATCATTCA
* * *
4782283 AACAAGTTTAATATCGTGTATTGAAACTATCCAAACTGTTAAAATAGCACAATAATAGCATTTTT
129 AACAAGTTTAATATCATGTATTGAAGCTATCCAAA-TGTTAAAATAGCACAATAATAGCA-ATTT
* ** * * * * * * *
4782348 GTATTTTGACCTTTTAAC-GACACAAAAAGTCTTAAACAAACATAAACAATAACTTGTTCACAAA
192 GCATTTTTTCCTTTTAACAG-CATAAAAAGTCTTAAATAGACGTAAACAATAACTTTTTCATACA
* * ** * * * * * *
4782412 TTTTAACTGTGAAAACCAAGTTTAATCATTCAAATAAG--T--T-T-A---A-T---ACCATCC
256 TATCAACTACGGAAACAAAGTTCAATCATTCAAACAAGTTTAATATAATGTATTGAAACTATCA
* * * * * * *
4782463 AAACTATTAAAATAGAACAATAACAGCAATTTTGCATTTTTACTTTTTGATGAC-ACA-AAAAAA
1 AAACTACTAAAACAGAACAACAACAACAAATTTGCATTTTTACCTTTT-A--ACAACATAAAAAG
* * **
4782526 TCTTAAACAGAGGTAAACAATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATT
63 TCCTAAACAAACATAAACAAT-ACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATT
* * *
4782591 CGAACAAGTTTAATATTATGTATTGAAGCTATCCAAATGTTAAAATAGCACAATAATAGCATTTT
127 CAAACAAGTTTAATATCATGTATTGAAGCTATCCAAATGTTAAAATAGCACAATAATAGCA-ATT
* * * * * **
4782656 TGCATTTTTACCTTTTAACAACACAAAAAGTCTTAAACAAACGTAAATGATAACTTTTTCATACA
191 TGCATTTTTTCCTTTTAACAGCATAAAAAGTCTTAAATAGACGTAAACAATAACTTTTTCATACA
** * ** *
4782721 TATCAACTGTGGAAACCAAGTTCAATCATTTGAACAAGTTTAATATCATGTATTGAAACTATCA
256 TATCAACTACGGAAACAAAGTTCAATCATTCAAACAAGTTTAATATAATGTATTGAAACTATCA
* * * ** * * *
4782785 AAACTATTCAAACAGAACAACAATAGTAATTTTGCATTTTTTTCCTTTTAACAACATAAAAGGTC
1 AAACTACTAAAACAGAACAACAACAACAAATTTGCA-TTTTTACCTTTTAACAACATAAAAAGTC
*
4782850 CTAAACAAACATAAACAATAGCGTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCA
65 CTAAACAAACATAAACAATA-CTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCA
*
4782915 AACAAGTTTAATATCATGTATTGAAGCTATCCAAACTGTTAAAATAGCACAATAACAGCAATTTC
129 AACAAGTTTAATATCATGTATTGAAGCTATCCAAA-TGTTAAAATAGCACAATAATAGCAATTT-
* ** **
4782980 ACATTTTTTGCCTTTTAATGGCATAAAAAGTCTTAAATAGACGTAAACAATAGTTTTTTCATACA
192 GCATTTTTT-CCTTTTAACAGCATAAAAAGTCTTAAATAGACGTAAACAATAACTTTTTCATACA
* * * *
4783045 TATTAACTACGGATACAAAGTTCAATCATTCAAACAAGTTTAATATAATGTATTGAAGCTATCC
256 TATCAACTACGGAAACAAAGTTCAATCATTCAAACAAGTTTAATATAATGTATTGAAACTATCA
* * * *
4783109 AAATTGCTAAAATAGAACAACAACAACAAATTTGCATTTTTACCTTTTAACAGCATAAAAAGTCC
1 AAACTACTAAAACAGAACAACAACAACAAATTTGCATTTTTACCTTTTAACAACATAAAAAGTCC
*** * *
4783174 TAAACAAACATAAAC-A-ACTTTTTCACACATATCAA-TCAAAGAAACCAAGTTCAATTATTCAG
66 TAAACAAACATAAACAATACTTTTTCACACATATCAATTGTGA-AAACCAAGTTCAATCATTCAA
* * * * * * *
4783236 ACAAGTTTAATATCATATATTAAAACTATCAAAATTGTTAAAATAGAACAATAATGGTAAATTTG
130 ACAAGTTTAATATCATGTATTGAAGCTATCCAAA-TGTTAAAATAGCACAATAATAG-CAATTTG
* *** *
4783301 CATTTTTT-CTTTTAACAGCATAAAAAGTCTTAAATAGACATAAATTGTAACTTTTTCACACATA
193 CATTTTTTCCTTTTAACAGCATAAAAAGTCTTAAATAGACGTAAACAATAACTTTTTCATACATA
* ** * *
4783365 CCAA-TAATGAAA-ATCAAGTTCAATCATTCGAATAAGTTTAATAT
258 TCAACTACGGAAACA--AAGTTCAATCATTCAAACAAGTTTAATAT
4783409 TATAAACTTA
Statistics
Matches: 1050, Mismatches: 160, Indels: 85
0.81 0.12 0.07
Matches are distributed among these distances:
305 43 0.04
306 57 0.05
307 4 0.00
308 2 0.00
309 116 0.11
310 34 0.03
311 1 0.00
312 1 0.00
313 1 0.00
314 2 0.00
315 1 0.00
316 3 0.00
317 82 0.08
318 144 0.14
319 3 0.00
320 97 0.09
321 114 0.11
322 138 0.13
323 81 0.08
324 126 0.12
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (319 bp):
AAACTACTAAAACAGAACAACAACAACAAATTTGCATTTTTACCTTTTAACAACATAAAAAGTCC
TAAACAAACATAAACAATACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCAAA
CAAGTTTAATATCATGTATTGAAGCTATCCAAATGTTAAAATAGCACAATAATAGCAATTTGCAT
TTTTTCCTTTTAACAGCATAAAAAGTCTTAAATAGACGTAAACAATAACTTTTTCATACATATCA
ACTACGGAAACAAAGTTCAATCATTCAAACAAGTTTAATATAATGTATTGAAACTATCA
Found at i:4784476 original size:13 final size:13
Alignment explanation
Indices: 4784455--4784491 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
4784445 ATAAAAGCGA
*
4784455 ATATATAAATAAC
1 ATATATAAAGAAC
*
4784468 ATATTTAAAGAAC
1 ATATATAAAGAAC
4784481 ATATATAAAGA
1 ATATATAAAGA
4784492 CATTGAGAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (13 bp):
ATATATAAAGAAC
Found at i:4796278 original size:6 final size:6
Alignment explanation
Indices: 4796269--4796295 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4796259 CAAAATCAAG
4796269 AAAATT AAAATT AAAATT AAAATT AAA
1 AAAATT AAAATT AAAATT AAAATT AAA
4796296 TACCAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:4798134 original size:7 final size:7
Alignment explanation
Indices: 4798122--4798146 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4798112 CTTGAAATAA
4798122 TTTTATT
1 TTTTATT
4798129 TTTTATT
1 TTTTATT
4798136 TTTTATT
1 TTTTATT
4798143 TTTT
1 TTTT
4798147 GGGTAGGCTA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:4801630 original size:2 final size:2
Alignment explanation
Indices: 4801623--4801651 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4801613 AGCCTTGAAA
4801623 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4801652 TCTTTTCGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4802643 original size:8 final size:8
Alignment explanation
Indices: 4802630--4802659 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
4802620 ATGTTAGTGA
4802630 GAGAGAGG
1 GAGAGAGG
4802638 GAGAGAGG
1 GAGAGAGG
*
4802646 GAGAGAGA
1 GAGAGAGG
4802654 GAGAGA
1 GAGAGA
4802660 AACCTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (8 bp):
GAGAGAGG
Found at i:4804337 original size:2 final size:2
Alignment explanation
Indices: 4804330--4804359 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4804320 AGATACAGAA
4804330 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
4804360 TAAAAAAAAA
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:4806240 original size:13 final size:13
Alignment explanation
Indices: 4806222--4806246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4806212 ATTAAAAGGC
4806222 ATTTGAAATATTA
1 ATTTGAAATATTA
4806235 ATTTGAAATATT
1 ATTTGAAATATT
4806247 TTTATTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
ATTTGAAATATTA
Found at i:4806653 original size:20 final size:20
Alignment explanation
Indices: 4806630--4806669 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4806620 CGATTATGTT
4806630 AATAAAAATAATATTTTAAA
1 AATAAAAATAATATTTTAAA
** *
4806650 AATAGTAATACTATTTTAAA
1 AATAAAAATAATATTTTAAA
4806670 TATTTAAAAA
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:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AATAAAAATAATATTTTAAA
Found at i:4806746 original size:26 final size:27
Alignment explanation
Indices: 4806711--4806771 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
4806701 ATAATTTTAC
* *
4806711 TTTAAGTATTTAATATT-TAT-ATGATAT
1 TTTAA-TATTAAATATTATATAATTAT-T
4806738 TTTAATATTAAATATTATATAATTATT
1 TTTAATATTAAATATTATATAATTATT
4806765 TTTAATA
1 TTTAATA
4806772 AAAAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.33
27 16 0.53
28 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (27 bp):
TTTAATATTAAATATTATATAATTATT
Found at i:4806789 original size:16 final size:17
Alignment explanation
Indices: 4806768--4806800 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4806758 AATTATTTTT
4806768 AATAAA-AAATTTAATA
1 AATAAATAAATTTAATA
*
4806784 AATAAATAATTTTAATA
1 AATAAATAAATTTAATA
4806801 TATTTTAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AATAAATAAATTTAATA
Found at i:4806813 original size:26 final size:25
Alignment explanation
Indices: 4806784--4806832 Score: 89
Period size: 26 Copynumber: 1.9 Consensus size: 25
4806774 AAATTTAATA
4806784 AATAAATAATTTTAATATATTTTAGT
1 AATAAATAATTTTAA-ATATTTTAGT
4806810 AATAAATAATTTTAAATATTTTA
1 AATAAATAATTTTAAATATTTTA
4806833 ATATTTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
AATAAATAATTTTAAATATTTTAGT
Found at i:4818145 original size:54 final size:53
Alignment explanation
Indices: 4818063--4818199 Score: 168
Period size: 54 Copynumber: 2.6 Consensus size: 53
4818053 ATCTAGATAG
* *
4818063 TTTCACTTAAACCTAA-ACACTTTTGAATTTAAAAATCTAATCTTCTTGGATTC
1 TTTCACTT-AACTTAAGACTCTTTTGAATTTAAAAATCTAATCTTCTTGGATTC
* * * *
4818116 TTTCACTTAACTTAAAGACTCTTTTGAATTTAAATATGTGATCTTCTTGGATTT
1 TTTCACTTAACTT-AAGACTCTTTTGAATTTAAAAATCTAATCTTCTTGGATTC
** *
4818170 TTTCACTTGGCTTAAGATTCTTTTGAATTT
1 TTTCACTTAACTTAAGACTCTTTTGAATTT
4818200 GAAATAGTCC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
52 4 0.05
53 26 0.36
54 43 0.59
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.47
Consensus pattern (53 bp):
TTTCACTTAACTTAAGACTCTTTTGAATTTAAAAATCTAATCTTCTTGGATTC
Found at i:4818205 original size:54 final size:54
Alignment explanation
Indices: 4818082--4818205 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 54
4818072 AACCTAAACA
*
4818082 CTTTTGAATTTAAAAATCTAATCTTCTTGGATTCTTTCACTTAACTTAAAGACT
1 CTTTTGAATTTAAATATCTAATCTTCTTGGATTCTTTCACTTAACTTAAAGACT
* * * ** *
4818136 CTTTTGAATTTAAATATGTGATCTTCTTGGATTTTTTCACTTGGCTT-AAGATT
1 CTTTTGAATTTAAATATCTAATCTTCTTGGATTCTTTCACTTAACTTAAAGACT
4818189 CTTTTGAATTTGAAATA
1 CTTTTGAATTT-AAATA
4818206 GTCCTTAAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 16 0.26
54 46 0.74
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (54 bp):
CTTTTGAATTTAAATATCTAATCTTCTTGGATTCTTTCACTTAACTTAAAGACT
Found at i:4819143 original size:33 final size:31
Alignment explanation
Indices: 4819101--4819169 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 31
4819091 TTAGTTTTGA
4819101 TTTTTTTTTTCATATAGCCATTTTCGACTTTTT
1 TTTTTTTTTTC-TATAGCCATTTT-GACTTTTT
*
4819134 CTTTTTTTTTTCTTTAGCCATTTTGACTTTTT
1 -TTTTTTTTTTCTATAGCCATTTTGACTTTTT
4819166 TTTT
1 TTTT
4819170 GTCTTCCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 4 0.12
32 8 0.24
33 11 0.32
34 11 0.32
ACGTcount: A:0.12, C:0.14, G:0.06, T:0.68
Consensus pattern (31 bp):
TTTTTTTTTTCTATAGCCATTTTGACTTTTT
Found at i:4822695 original size:24 final size:24
Alignment explanation
Indices: 4822667--4822715 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
4822657 AAAGGGTTAC
* *
4822667 ATAGCTCTCTTAATCCATAAACAT
1 ATAGCTATCCTAATCCATAAACAT
*
4822691 ATAGCTATCCTAATCCATAAGCAT
1 ATAGCTATCCTAATCCATAAACAT
4822715 A
1 A
4822716 GCCAAGTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (24 bp):
ATAGCTATCCTAATCCATAAACAT
Found at i:4833476 original size:299 final size:299
Alignment explanation
Indices: 4832938--4833540 Score: 1197
Period size: 299 Copynumber: 2.0 Consensus size: 299
4832928 AAGCAAAATA
4832938 GTTTTGGCACAACAAGTAAACACTTATAGCCAAAACCCATATATATTTACATGTGTTGTATGTTT
1 GTTTTGGCACAACAAGTAAACACTTATAGCCAAAACCCATATATATTTACATGTGTTGTATGTTT
4833003 GTATGATCTTCTAAATTGATCTTAGTTTTAAAGAATTAAAATTTTTAAAATTCTATTGCTTTAAC
66 GTATGATCTTCTAAATTGATCTTAGTTTTAAAGAATTAAAATTTTTAAAATTCTATTGCTTTAAC
4833068 TCTATATATTGATGCATAATTCCCTTCATATTTGCTATATTAAAGTGTAGACCTAGAATTTAATA
131 TCTATATATTGATGCATAATTCCCTTCATATTTGCTATATTAAAGTGTAGACCTAGAATTTAATA
4833133 TTTGCAAATTTGAATTTATGTTTTTTTGTTTACTTGTGGTTTATTGTGTTCTTTAATTTTCTTGC
196 TTTGCAAATTTGAATTTATGTTTTTTTGTTTACTTGTGGTTTATTGTGTTCTTTAATTTTCTTGC
4833198 ATTCCTTTCATGAATTTTTATTGTTTACATGTTAGATTT
261 ATTCCTTTCATGAATTTTTATTGTTTACATGTTAGATTT
4833237 GTTTTGGCACAACAAGTAAACACTTATAGCCAAAACCCATATATATTTACATGTGTTGTATGTTT
1 GTTTTGGCACAACAAGTAAACACTTATAGCCAAAACCCATATATATTTACATGTGTTGTATGTTT
4833302 GTATGATCTTCTAAATTGATCTTAGTTTTAAAGAATTAAAATTTTTAAAATTCTATTGCTTTAAC
66 GTATGATCTTCTAAATTGATCTTAGTTTTAAAGAATTAAAATTTTTAAAATTCTATTGCTTTAAC
4833367 TCTATATATTGATGCATAATTCCCTTCATATTTGCTATATTAAAGTGTAGACCTAGAATTTAATA
131 TCTATATATTGATGCATAATTCCCTTCATATTTGCTATATTAAAGTGTAGACCTAGAATTTAATA
*
4833432 TTTGCAATTTTGAATTTATGTTTTTTTGTTTACTTGTGGTTTATTGTGTTCTTTAATTTTCTTGC
196 TTTGCAAATTTGAATTTATGTTTTTTTGTTTACTTGTGGTTTATTGTGTTCTTTAATTTTCTTGC
4833497 ATTCCTTTCATGAATTTTTATTGTTTACATGTTAGATTT
261 ATTCCTTTCATGAATTTTTATTGTTTACATGTTAGATTT
4833536 GTTTT
1 GTTTT
4833541 ACATTCAAGA
Statistics
Matches: 303, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
299 303 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (299 bp):
GTTTTGGCACAACAAGTAAACACTTATAGCCAAAACCCATATATATTTACATGTGTTGTATGTTT
GTATGATCTTCTAAATTGATCTTAGTTTTAAAGAATTAAAATTTTTAAAATTCTATTGCTTTAAC
TCTATATATTGATGCATAATTCCCTTCATATTTGCTATATTAAAGTGTAGACCTAGAATTTAATA
TTTGCAAATTTGAATTTATGTTTTTTTGTTTACTTGTGGTTTATTGTGTTCTTTAATTTTCTTGC
ATTCCTTTCATGAATTTTTATTGTTTACATGTTAGATTT
Found at i:4838902 original size:28 final size:26
Alignment explanation
Indices: 4838871--4838926 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 26
4838861 TAAAAATTTA
*
4838871 ATAATCATTTAATG-TTTAATATTTTATT
1 ATAATCAATTAA-GCTTTAA-ATTTT-TT
4838899 ATAATCAATTAAGCTTTAAATTTTTT
1 ATAATCAATTAAGCTTTAAATTTTTT
4838925 AT
1 AT
4838927 TTCAGATCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 6 0.23
28 16 0.62
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.54
Consensus pattern (26 bp):
ATAATCAATTAAGCTTTAAATTTTTT
Found at i:4839559 original size:8 final size:8
Alignment explanation
Indices: 4839540--4839586 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
4839530 ATTAATTTTT
4839540 TATTTATA
1 TATTTATA
4839548 TATACTTATA
1 TAT--TTATA
*
4839558 TAATTATA
1 TATTTATA
*
4839566 TATTTAAA
1 TATTTATA
4839574 TATTTATA
1 TATTTATA
4839582 T-TTTA
1 TATTTA
4839587 AAAAATAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
7 4 0.12
8 22 0.67
10 7 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (8 bp):
TATTTATA
Found at i:4839601 original size:22 final size:21
Alignment explanation
Indices: 4839572--4839623 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
4839562 TATATATTTA
4839572 AATA-TTTATATTTTAAAAAAT
1 AATATTTTATA-TTTAAAAAAT
4839593 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
4839614 AATATTTTAT
1 AATATTTTAT
4839624 TAATTTCAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 24 0.80
22 6 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:4842208 original size:24 final size:23
Alignment explanation
Indices: 4842160--4842211 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
4842150 ACTTTTTCCT
*
4842160 TAAAATAATAACAATAAACTAAAA
1 TAAAATAATAAAAATAAAC-AAAA
4842184 TAAAATAATAATAAATAAGAC-AAA
1 TAAAATAATAA-AAATAA-ACAAAA
4842208 TAAA
1 TAAA
4842212 TAAGAAAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 18 0.72
25 5 0.20
26 2 0.08
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (23 bp):
TAAAATAATAAAAATAAACAAAA
Found at i:4842606 original size:33 final size:33
Alignment explanation
Indices: 4842555--4842620 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
4842545 AACTAAGTAA
*
4842555 ATATAATAAGAAAATAATATAATGGTTTGTTAC
1 ATATAATAAGAAAATAATATAATGGTTTATTAC
4842588 ATATAAT-AGAAAATTAATATAATGGTTTATTAC
1 ATATAATAAGAAAA-TAATATAATGGTTTATTAC
4842621 GCAACAACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 6 0.19
33 25 0.81
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (33 bp):
ATATAATAAGAAAATAATATAATGGTTTATTAC
Found at i:4846220 original size:32 final size:30
Alignment explanation
Indices: 4846184--4846246 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 30
4846174 CTTATTTTCG
4846184 TCTTTCCCTAACC-TTCTTTCTTCTATTTCCCC
1 TCTTT-CCTAACCTTTCTTTCTTC--TTTCCCC
**
4846216 TCTTTCCTTCCCTTTCTTTCTTCTTTCCCC
1 TCTTTCCTAACCTTTCTTTCTTCTTTCCCC
4846246 T
1 T
4846247 TGTGTGTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 8 0.29
31 5 0.18
32 15 0.54
ACGTcount: A:0.05, C:0.41, G:0.00, T:0.54
Consensus pattern (30 bp):
TCTTTCCTAACCTTTCTTTCTTCTTTCCCC
Found at i:4850323 original size:26 final size:25
Alignment explanation
Indices: 4850266--4850327 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 25
4850256 ACTCTGATCT
*
4850266 TTTTCTTTTTGGGGATCATAAATTA
1 TTTTCTTTTTAGGGATCATAAATTA
*
4850291 TTATTCTTCTTTAGGGATCATAGATT-
1 TT-TTCTT-TTTAGGGATCATAAATTA
4850317 TCTTTCTTTTT
1 T-TTTCTTTTT
4850328 TTGTAAGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 5 0.16
26 11 0.34
27 16 0.50
ACGTcount: A:0.19, C:0.11, G:0.13, T:0.56
Consensus pattern (25 bp):
TTTTCTTTTTAGGGATCATAAATTA
Found at i:4852725 original size:18 final size:17
Alignment explanation
Indices: 4852698--4852741 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
4852688 AGAAATAGTA
4852698 TCAAATCAAATTCAATC
1 TCAAATCAAATTCAATC
*
4852715 TCAATATCAAATTCAGTC
1 TCAA-ATCAAATTCAATC
4852733 TCAAA-CAAA
1 TCAAATCAAA
4852742 AAGTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 4 0.16
17 5 0.20
18 16 0.64
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (17 bp):
TCAAATCAAATTCAATC
Found at i:4852725 original size:59 final size:59
Alignment explanation
Indices: 4852650--4852765 Score: 187
Period size: 59 Copynumber: 2.0 Consensus size: 59
4852640 AAAAGACAAC
* * *
4852650 TCAATCTCAGTCTCAAATTCAATCTCAAACAAAAAGTCAGAAATAGTATCAAATCAAAT
1 TCAATCTCAATATCAAATTCAATCTCAAACAAAAAGTCAAAAATAGTATCAAATCAAAT
* *
4852709 TCAATCTCAATATCAAATTCAGTCTCAAACAAAAAGTTAAAAATAGTATCAAATCAA
1 TCAATCTCAATATCAAATTCAATCTCAAACAAAAAGTCAAAAATAGTATCAAATCAA
4852766 TTATCAAACA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (59 bp):
TCAATCTCAATATCAAATTCAATCTCAAACAAAAAGTCAAAAATAGTATCAAATCAAAT
Found at i:4853331 original size:16 final size:17
Alignment explanation
Indices: 4853310--4853356 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
4853300 ACTAAAGCTC
*
4853310 ACTAAATATAGAAA-TT
1 ACTAAAAATAGAAAGTT
*
4853326 ACTAAAAATTGAAAGTT
1 ACTAAAAATAGAAAGTT
*
4853343 GCTAAAAATAGAAA
1 ACTAAAAATAGAAA
4853357 ATTAAACAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (17 bp):
ACTAAAAATAGAAAGTT
Found at i:4854610 original size:18 final size:19
Alignment explanation
Indices: 4854578--4854616 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4854568 TAGACTAAGC
4854578 AAAGGAAAAAAAAAAA-AA
1 AAAGGAAAAAAAAAAACAA
**
4854596 AAAGGAAAAGGAAAAACAA
1 AAAGGAAAAAAAAAAACAA
4854615 AA
1 AA
4854617 CTTCCTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAGGAAAAAAAAAAACAA
Found at i:4860522 original size:16 final size:17
Alignment explanation
Indices: 4860498--4860530 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4860488 GAATTAAAAA
*
4860498 TTATTATATT-TTAAAT
1 TTATAATATTATTAAAT
4860514 TTATAATATTATTAAAT
1 TTATAATATTATTAAAT
4860531 ATAGATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATAATATTATTAAAT
Found at i:4862589 original size:25 final size:24
Alignment explanation
Indices: 4862553--4862599 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
4862543 AAATATTTAA
4862553 TTAGGATTATTTTATTATTTTATT
1 TTAGGATTATTTTATTATTTTATT
4862577 TTAGGACTTATTTTATTATTTTA
1 TTAGGA-TTATTTTATTATTTTA
4862600 GAATATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.64
Consensus pattern (24 bp):
TTAGGATTATTTTATTATTTTATT
Found at i:4864066 original size:20 final size:20
Alignment explanation
Indices: 4864037--4864076 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4864027 TCGGAGTTAG
*
4864037 AGTAGGGAGCCAAGTAGAGA
1 AGTAGAGAGCCAAGTAGAGA
**
4864057 AGTAGAGAGCTTAGTAGAGA
1 AGTAGAGAGCCAAGTAGAGA
4864077 TTAGAGTTTA
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:0.40, C:0.07, G:0.38, T:0.15
Consensus pattern (20 bp):
AGTAGAGAGCCAAGTAGAGA
Found at i:4867582 original size:5 final size:5
Alignment explanation
Indices: 4867572--4867599 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4867562 GGGAGTAGGT
4867572 ACAGA ACAGA ACAGA ACAGA ACAGA ACA
1 ACAGA ACAGA ACAGA ACAGA ACAGA ACA
4867600 TAGGGGAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.21, G:0.18, T:0.00
Consensus pattern (5 bp):
ACAGA
Found at i:4868286 original size:14 final size:13
Alignment explanation
Indices: 4868260--4868298 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
4868250 TCGACTTGAA
4868260 TAAAATATATAAT
1 TAAAATATATAAT
4868273 TAAAATATTATAAT
1 TAAAATA-TATAAT
*
4868287 TATATATATATA
1 TA-AAATATATA
4868299 TAAATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.30
14 12 0.52
15 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAATATATAAT
Found at i:4869156 original size:24 final size:24
Alignment explanation
Indices: 4869129--4869188 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
4869119 AAATCATTTT
* *
4869129 TATTTTTATATTTTAATATATTAA
1 TATTTTTATATTTCAAAATATTAA
** * *
4869153 TATTAATATAGTTCAAAATATTTA
1 TATTTTTATATTTCAAAATATTAA
4869177 TATTTATTATAT
1 TATTT-TTATAT
4869189 AGTTTGACAC
Statistics
Matches: 26, Mismatches: 9, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TATTTTTATATTTCAAAATATTAA
Found at i:4873260 original size:15 final size:15
Alignment explanation
Indices: 4873240--4873273 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4873230 TCTAAGGAGT
*
4873240 TAATTATACAAAAAA
1 TAATTACACAAAAAA
*
4873255 TAATTACACAAAATA
1 TAATTACACAAAAAA
4873270 TAAT
1 TAAT
4873274 AGATCTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (15 bp):
TAATTACACAAAAAA
Found at i:4873649 original size:3 final size:3
Alignment explanation
Indices: 4873641--4873688 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
4873631 AGATACTTTC
4873641 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4873689 CATTTCCTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4885863 original size:25 final size:26
Alignment explanation
Indices: 4885811--4885872 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
4885801 GTTGTAGACA
* *
4885811 CCCATTTTGATTCAGGCCTAATTGGG
1 CCCATTTTGATTCAGACCCAATTGGG
* *
4885837 CCCATTTTG-TTCAGACCCATTTTGG
1 CCCATTTTGATTCAGACCCAATTGGG
*
4885862 CCTATTTTGAT
1 CCCATTTTGAT
4885873 CCAAGTAGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 20 0.67
26 10 0.33
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (26 bp):
CCCATTTTGATTCAGACCCAATTGGG
Found at i:4885903 original size:9 final size:9
Alignment explanation
Indices: 4885889--4885960 Score: 58
Period size: 9 Copynumber: 8.0 Consensus size: 9
4885879 AGACGTTTTC
*
4885889 ATTATTGTT
1 ATTATTATT
4885898 ATTATTATT
1 ATTATTATT
* *
4885907 ACTATTTTT
1 ATTATTATT
4885916 ATT-TTATT
1 ATTATTATT
*
4885924 TTTATTATT
1 ATTATTATT
4885933 ATTATCT-TT
1 ATTAT-TATT
*
4885942 ATTTTTATTT
1 ATTATTA-TT
*
4885952 ATTTTTATT
1 ATTATTATT
4885961 TTTTTTTGCT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
8 7 0.14
9 34 0.67
10 10 0.20
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (9 bp):
ATTATTATT
Found at i:4885905 original size:6 final size:6
Alignment explanation
Indices: 4885889--4885960 Score: 58
Period size: 6 Copynumber: 12.0 Consensus size: 6
4885879 AGACGTTTTC
* * * *
4885889 ATTATT GTTATT ATTATT ACTATT TTTATT -TTATT TTTATT ATTATT
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* *
4885936 ATCT-TT ATTTTT ATTTATT TTTATT
1 AT-TATT ATTATT A-TTATT ATTATT
4885961 TTTTTTTGCT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
5 6 0.11
6 43 0.80
7 5 0.09
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (6 bp):
ATTATT
Found at i:4885937 original size:32 final size:31
Alignment explanation
Indices: 4885896--4885960 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 31
4885886 TTCATTATTG
4885896 TTATTATTAT-TACTATTTTTATTTTATTTTTA
1 TTATTATTATCT-CTATTTTTA-TTTATTTTTA
*
4885928 TTATTATTATCTTTATTTTTATTTATTTTTA
1 TTATTATTATCTCTATTTTTATTTATTTTTA
4885959 TT
1 TT
4885961 TTTTTTTGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 12 0.39
32 18 0.58
33 1 0.03
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (31 bp):
TTATTATTATCTCTATTTTTATTTATTTTTA
Found at i:4885942 original size:26 final size:25
Alignment explanation
Indices: 4885890--4885960 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
4885880 GACGTTTTCA
* * *
4885890 TTATTGTTA-TTATTATTACTATTT
1 TTATTTTTATTTATTATTATTATCT
*
4885914 TTATTTTATTTTTATTATTATTATCT
1 TTATTTT-TATTTATTATTATTATCT
*
4885940 TTATTTTTATTTATTTTTATT
1 TTATTTTTATTTATTATTATT
4885961 TTTTTTTGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
24 6 0.15
25 13 0.33
26 20 0.51
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (25 bp):
TTATTTTTATTTATTATTATTATCT
Found at i:4885944 original size:38 final size:37
Alignment explanation
Indices: 4885884--4885963 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 37
4885874 CAAGTAGACG
* * *
4885884 TTTTCATTATTGTTATTATTATTACTATTTTTATTTTA
1 TTTTTATTATTATTATTATTATTACTATTTAT-TTTTA
**
4885922 TTTTTATTATTATTATCT-TTATTTTTATTTATTTTTA
1 TTTTTATTATTATTAT-TATTATTACTATTTATTTTTA
4885959 TTTTT
1 TTTTT
4885964 TTTTGCTTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
37 10 0.28
38 25 0.69
39 1 0.03
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (37 bp):
TTTTTATTATTATTATTATTATTACTATTTATTTTTA
Found at i:4885962 original size:15 final size:15
Alignment explanation
Indices: 4885912--4885962 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
4885902 TTATTACTAT
4885912 TTTTATTTTATTTTTA
1 TTTTA-TTTATTTTTA
*
4885928 TTATTA-TTATCTTTA
1 TT-TTATTTATTTTTA
4885943 TTTTTATTTATTTTTA
1 -TTTTATTTATTTTTA
4885959 TTTT
1 TTTT
4885963 TTTTTGCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 15 0.50
16 12 0.40
17 3 0.10
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATTTATTTTTA
Found at i:4885978 original size:31 final size:32
Alignment explanation
Indices: 4885890--4885960 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 32
4885880 GACGTTTTCA
*
4885890 TTATTGTTATTATTATTA-C--TATTTTTATT
1 TTATTTTTATTATTATTATCTTTATTTTTATT
4885919 TTATTTTTATTATTATTATCTTTATTTTTA-T
1 TTATTTTTATTATTATTATCTTTATTTTTATT
4885950 TTATTTTTATT
1 TTATTTTTATT
4885961 TTTTTTTGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
29 17 0.45
30 1 0.03
31 12 0.32
32 8 0.21
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (32 bp):
TTATTTTTATTATTATTATCTTTATTTTTATT
Found at i:4886800 original size:5 final size:5
Alignment explanation
Indices: 4886792--4886848 Score: 69
Period size: 5 Copynumber: 11.0 Consensus size: 5
4886782 GATCATAGGT
* * *
4886792 TTTTC TTTTA TTTTA TTTTA TTTTA TTTTA TTTTT TGATTTA TTTTA ATTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T--TTTA TTTTA TTTTA
4886844 TTTTA
1 TTTTA
4886849 ACCTTTTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
5 41 0.91
7 4 0.09
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:4889191 original size:13 final size:13
Alignment explanation
Indices: 4889169--4889226 Score: 54
Period size: 12 Copynumber: 4.7 Consensus size: 13
4889159 GCAATCAATG
*
4889169 CTTTTCTTCTCTT
1 CTTTTTTTCTCTT
4889182 C-TTTTTT-TCTT
1 CTTTTTTTCTCTT
4889193 -TTTTTTTC-C-T
1 CTTTTTTTCTCTT
4889203 CATTTTTTTCTCTTT
1 C-TTTTTTTCTC-TT
4889218 CTTTTTTTC
1 CTTTTTTTC
4889227 CAACATCGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
10 1 0.03
11 11 0.30
12 13 0.35
13 2 0.05
14 8 0.22
15 2 0.05
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (13 bp):
CTTTTTTTCTCTT
Found at i:4890772 original size:14 final size:14
Alignment explanation
Indices: 4890749--4890779 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4890739 ATTTTTTAAT
4890749 AATAAGAAAAATAA
1 AATAAGAAAAATAA
*
4890763 AATAATAAAAATAA
1 AATAAGAAAAATAA
4890777 AAT
1 AAT
4890780 TGGGCTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (14 bp):
AATAAGAAAAATAA
Found at i:4894656 original size:665 final size:665
Alignment explanation
Indices: 4893386--4894715 Score: 2651
Period size: 665 Copynumber: 2.0 Consensus size: 665
4893376 ATGGTTAGAA
4893386 AATTGAGGCCTAACATGTTCCCGGCAAACACAAAATTCAAACGCGCGAAGGAAACTTGAAACGTT
1 AATTGAGGCCTAACATGTTCCCGGCAAACACAAAATTCAAACGCGCGAAGGAAACTTGAAACGTT
4893451 GCGGTACTCGTACTAAAGCAGCAAAACAAACAGAAGCATGATATTTTCTAGTCAATATATAACAG
66 GCGGTACTCGTACTAAAGCAGCAAAACAAACAGAAGCATGATATTTTCTAGTCAATATATAACAG
4893516 AAAGGAAGAAGAATTGCACCATTCAAGAGCAGTTCATGTAAGACTTTGGTTGAAAAGTTAGGCGA
131 AAAGGAAGAAGAATTGCACCATTCAAGAGCAGTTCATGTAAGACTTTGGTTGAAAAGTTAGGCGA
4893581 CAAATGAAAAACCTGTTTCCAGGGAATTGTCCAGTCTACAAAGCAGTCGCTTGGACATGAACAAG
196 CAAATGAAAAACCTGTTTCCAGGGAATTGTCCAGTCTACAAAGCAGTCGCTTGGACATGAACAAG
4893646 CTAGCATGTTTTACTTGACTGAAGACTCTATCCCCACCTCCAACGAGTTGCACCATGATTTGACT
261 CTAGCATGTTTTACTTGACTGAAGACTCTATCCCCACCTCCAACGAGTTGCACCATGATTTGACT
4893711 GAGATCCTCTGCTCCTAGGTGTCCACTTATAGAGGCTAGAAAGTTTTATCACAGCTCAGAAATAG
326 GAGATCCTCTGCTCCTAGGTGTCCACTTATAGAGGCTAGAAAGTTTTATCACAGCTCAGAAATAG
4893776 GAAGAAAAGTACCGAAGTCTGGAACAACTTTCGGTTCTAGACCTTCTGTACCTTGTTAATTTCGA
391 GAAGAAAAGTACCGAAGTCTGGAACAACTTTCGGTTCTAGACCTTCTGTACCTTGTTAATTTCGA
4893841 GTCAAGAGGGTGATGTCTGAAGACTTTAAGATGATTCCCACTGAAAAGAGCGCTAATACAATGGA
456 GTCAAGAGGGTGATGTCTGAAGACTTTAAGATGATTCCCACTGAAAAGAGCGCTAATACAATGGA
4893906 CATGATGAAACAAAAATCAAAAGCTGCACCAATTAGCAATTATAAAAAGCATTCCCTGATTTTCA
521 CATGATGAAACAAAAATCAAAAGCTGCACCAATTAGCAATTATAAAAAGCATTCCCTGATTTTCA
4893971 ATAAAATACATGAAAATTTTGACAGCTTTTAAGATAATTGATAAACAAATCAGCCCATCTAGCAA
586 ATAAAATACATGAAAATTTTGACAGCTTTTAAGATAATTGATAAACAAATCAGCCCATCTAGCAA
4894036 TAGAAACTTCCTGAT
651 TAGAAACTTCCTGAT
4894051 AATTGAGGCCTAACATGTTCCCGGCAAACACAAAATTCAAACGCGCGAAGGAAACTTGAAACGTT
1 AATTGAGGCCTAACATGTTCCCGGCAAACACAAAATTCAAACGCGCGAAGGAAACTTGAAACGTT
4894116 GCGGTACTCGTACTAAAGCAGCAAAACAAACAGAAGCATGATATTTTCTAGTCAATATATAACAG
66 GCGGTACTCGTACTAAAGCAGCAAAACAAACAGAAGCATGATATTTTCTAGTCAATATATAACAG
4894181 AAAGGAAGAAGAATTGCACCATTCAAGAGCAGTTCATGTAAGACTTTGGTTGAAAAGTTAGGCGA
131 AAAGGAAGAAGAATTGCACCATTCAAGAGCAGTTCATGTAAGACTTTGGTTGAAAAGTTAGGCGA
4894246 CAAATGAAAAACCTGTTTCCAGGGAATTGTCCAGTCTACAAAGCAGTCGCTTGGACATGAACAAG
196 CAAATGAAAAACCTGTTTCCAGGGAATTGTCCAGTCTACAAAGCAGTCGCTTGGACATGAACAAG
4894311 CTAGCATGTTTTACTTGACTGAAGACTCTATCCCCACCTCCAACGAGTTGCACCATGATTTGACT
261 CTAGCATGTTTTACTTGACTGAAGACTCTATCCCCACCTCCAACGAGTTGCACCATGATTTGACT
4894376 GAGATCCTCTGCTCCTAGGTGTCCACTTATAGAGGCTAGAAAGTTTTATCACAGCTCAGAAATAG
326 GAGATCCTCTGCTCCTAGGTGTCCACTTATAGAGGCTAGAAAGTTTTATCACAGCTCAGAAATAG
4894441 GAAGAAAAGTACCGAAGTCTGGAACAACTTTCGGTTCTAGACCTTCTGTACCTTGTTAATTTCGA
391 GAAGAAAAGTACCGAAGTCTGGAACAACTTTCGGTTCTAGACCTTCTGTACCTTGTTAATTTCGA
4894506 GTCAAGAGGGTGATGTCTGAAGACTTTAAGATGATTCCCACTGAAAAGAGCGCTAATACAATGGA
456 GTCAAGAGGGTGATGTCTGAAGACTTTAAGATGATTCCCACTGAAAAGAGCGCTAATACAATGGA
4894571 CATGATGAAACAAAAATCAAAAGCTGCACCAATTAGCAATTATAAAAAGCATTCCCTGATTTTCA
521 CATGATGAAACAAAAATCAAAAGCTGCACCAATTAGCAATTATAAAAAGCATTCCCTGATTTTCA
4894636 ATAAAATACATGAAAATTTTGACAGCTTTTAAGATAATTGATAAACAAATCAGCCCATCTAGCAA
586 ATAAAATACATGAAAATTTTGACAGCTTTTAAGATAATTGATAAACAAATCAGCCCATCTAGCAA
*
4894701 TAGAAACTTCTTGAT
651 TAGAAACTTCCTGAT
4894716 TGCTACTAAG
Statistics
Matches: 664, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
665 664 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (665 bp):
AATTGAGGCCTAACATGTTCCCGGCAAACACAAAATTCAAACGCGCGAAGGAAACTTGAAACGTT
GCGGTACTCGTACTAAAGCAGCAAAACAAACAGAAGCATGATATTTTCTAGTCAATATATAACAG
AAAGGAAGAAGAATTGCACCATTCAAGAGCAGTTCATGTAAGACTTTGGTTGAAAAGTTAGGCGA
CAAATGAAAAACCTGTTTCCAGGGAATTGTCCAGTCTACAAAGCAGTCGCTTGGACATGAACAAG
CTAGCATGTTTTACTTGACTGAAGACTCTATCCCCACCTCCAACGAGTTGCACCATGATTTGACT
GAGATCCTCTGCTCCTAGGTGTCCACTTATAGAGGCTAGAAAGTTTTATCACAGCTCAGAAATAG
GAAGAAAAGTACCGAAGTCTGGAACAACTTTCGGTTCTAGACCTTCTGTACCTTGTTAATTTCGA
GTCAAGAGGGTGATGTCTGAAGACTTTAAGATGATTCCCACTGAAAAGAGCGCTAATACAATGGA
CATGATGAAACAAAAATCAAAAGCTGCACCAATTAGCAATTATAAAAAGCATTCCCTGATTTTCA
ATAAAATACATGAAAATTTTGACAGCTTTTAAGATAATTGATAAACAAATCAGCCCATCTAGCAA
TAGAAACTTCCTGAT
Found at i:4898052 original size:22 final size:22
Alignment explanation
Indices: 4898027--4898070 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4898017 ATTTTTGTCC
*
4898027 TTAATTCTAGGGATACAAATAT
1 TTAATTCTAGAGATACAAATAT
*
4898049 TTAATTCTATAGATACAAATAT
1 TTAATTCTAGAGATACAAATAT
4898071 AAATATATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATAT
Found at i:4901863 original size:22 final size:22
Alignment explanation
Indices: 4901838--4901881 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4901828 AATTTTTGTC
*
4901838 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
*
4901860 CTTAATTTTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
4901882 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:4918550 original size:16 final size:16
Alignment explanation
Indices: 4918531--4918612 Score: 55
Period size: 16 Copynumber: 5.2 Consensus size: 16
4918521 TATTAACTTA
4918531 TTTATCAAGAATCTTT
1 TTTATCAAGAATCTTT
4918547 TTTATCTTAA-AAT-TTT
1 TTTATC--AAGAATCTTT
4918563 TTTAAT-AAGAATCTTT
1 TTT-ATCAAGAATCTTT
* ** *
4918579 TTTTTTTATAAT-TTT
1 TTTATCAAGAATCTTT
* *
4918594 TTTATTAAAAATCTTT
1 TTTATCAAGAATCTTT
4918610 TTT
1 TTT
4918613 TTTTAATTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
14 2 0.04
15 16 0.30
16 28 0.53
17 5 0.09
18 2 0.04
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTATCAAGAATCTTT
Found at i:4918592 original size:31 final size:31
Alignment explanation
Indices: 4918537--4918618 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
4918527 CTTATTTATC
*
4918537 AAGAATCTTTTTTATCTTAAAATTTTTTTAAT
1 AAGAATCTTTTTT-TTTTAAAATTTTTTTAAT
* *
4918569 AAGAATCTTTTTTTTTTATAATTTTTTTATT
1 AAGAATCTTTTTTTTTTAAAATTTTTTTAAT
*
4918600 AAAAATCTTTTTTTTTTAA
1 AAGAATCTTTTTTTTTTAA
4918619 TTCTTCTTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 32 0.71
32 13 0.29
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (31 bp):
AAGAATCTTTTTTTTTTAAAATTTTTTTAAT
Found at i:4919260 original size:13 final size:12
Alignment explanation
Indices: 4919227--4919263 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
4919217 TTGAATTATA
4919227 AATAATATTTTT
1 AATAATATTTTT
4919239 AATAATATTTTT
1 AATAATATTTTT
*
4919251 -AT-ATATTATT
1 AATAATATTTTT
4919261 AAT
1 AAT
4919264 TTTTATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
10 7 0.30
11 4 0.17
12 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATAATATTTTT
Found at i:4919288 original size:34 final size:34
Alignment explanation
Indices: 4919234--4919316 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
4919224 ATAAATAATA
* * *
4919234 TTTTTAATAATATTTTT-ATATAT-TA-TTA-AT
1 TTTTTATTAAAATTTTTAATATATCAATTTATAT
*
4919264 TTTTATATTAAATTTTTTAATATATCAATTTATAT
1 TTTT-TATTAAAATTTTTAATATATCAATTTATAT
4919299 TTTTTATTAAAATTTTTA
1 TTTTTATTAAAATTTTTA
4919317 TTAAATTGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
30 4 0.09
31 10 0.23
32 6 0.14
33 1 0.02
34 16 0.37
35 6 0.14
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (34 bp):
TTTTTATTAAAATTTTTAATATATCAATTTATAT
Found at i:4925489 original size:5 final size:5
Alignment explanation
Indices: 4925481--4925510 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
4925471 ATGAAAAATA
4925481 CAAAC CAAAC CAAAC CAAAC CAAAC ACAAA
1 CAAAC CAAAC CAAAC CAAAC CAAAC -CAAA
4925511 GTGATTTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.63, C:0.37, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAC
Found at i:4934835 original size:122 final size:123
Alignment explanation
Indices: 4934609--4934835 Score: 275
Period size: 122 Copynumber: 1.9 Consensus size: 123
4934599 ATCTCTTACG
* * *
4934609 AAAAATTTAATGAAAGCTATTAAAGCGTTTTTAGTAAAAAACGCTTTTAATAATCTCCTTATAAA
1 AAAAATTTAATGAAAGCTATTAAAGCGTTTTTAGTAAAAAACGCTTTCAATAATCCCCTCATAAA
*
4934674 TTTTTATAAAGTGATTATTCAATGTATTTTTAGATAAAATATCTTGAATAATCCAAAA
66 TTTTTATAAAGTGATTATTCAATGTATTTTTAGAAAAAATATCTTGAATAATCCAAAA
** * * *
4934732 AAAAATTTAAT-AGGGCTATTGAAGGCGTTTTTGGCTAAAACAC-C-TTCAATAATCCCCTCATA
1 AAAAATTTAATGAAAGCTATT-AAAGCGTTTTTAG-TAAAAAACGCTTTCAATAATCCCCTCATA
* * *
4934794 AA-TTTTAT-AAGATGATTATTTAATGTGTTTTTGGTAAAAAAT
64 AATTTTTATAAAG-TGATTATTCAATGTATTTTTAG-AAAAAAT
4934836 GTAAGGGATT
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
120 3 0.03
121 25 0.28
122 30 0.34
123 23 0.26
124 7 0.08
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.38
Consensus pattern (123 bp):
AAAAATTTAATGAAAGCTATTAAAGCGTTTTTAGTAAAAAACGCTTTCAATAATCCCCTCATAAA
TTTTTATAAAGTGATTATTCAATGTATTTTTAGAAAAAATATCTTGAATAATCCAAAA
Found at i:4940863 original size:8 final size:8
Alignment explanation
Indices: 4940852--4940897 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
4940842 TATTTTTTAA
*
4940852 TTATTTAT
1 TTATATAT
4940860 TTATATAT
1 TTATATAT
*
4940868 TTATATAA
1 TTATATAT
4940876 TTATATAT
1 TTATATAT
*
4940884 TTAAATAT
1 TTATATAT
4940892 TTATAT
1 TTATAT
4940898 TTAAAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATATAT
Found at i:4940877 original size:24 final size:24
Alignment explanation
Indices: 4940849--4940897 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
4940839 AATTATTTTT
* *
4940849 TAATTATTTATTTATATATTTATA
1 TAATTATATATTTAAATATTTATA
4940873 TAATTATATATTTAAATATTTATA
1 TAATTATATATTTAAATATTTATA
4940897 T
1 T
4940898 TTAAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TAATTATATATTTAAATATTTATA
Found at i:4940896 original size:14 final size:16
Alignment explanation
Indices: 4940860--4940902 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
4940850 AATTATTTAT
*
4940860 TTATATATTTATATAA
1 TTATATATTTAAATAA
4940876 TTATATATTTAAAT-A
1 TTATATATTTAAATAA
4940891 TT-TATATTTAAA
1 TTATATATTTAAA
4940903 AAATATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 10 0.38
15 3 0.12
16 13 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATATATTTAAATAA
Found at i:4964846 original size:8 final size:8
Alignment explanation
Indices: 4964835--4964875 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
4964825 TAATTATTTA
4964835 TATATATT
1 TATATATT
*
4964843 TATATAAT
1 TATATATT
4964851 TATATATT
1 TATATATT
*
4964859 TAAATATT
1 TATATATT
4964867 TATAT-TT
1 TATATATT
4964874 TA
1 TA
4964876 AAAAATAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 4 0.14
8 25 0.86
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATATATT
Found at i:4964910 original size:21 final size:22
Alignment explanation
Indices: 4964860--4964912 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
4964850 TTATATATTT
4964860 AAATATTTATATTTTAAAAAATA
1 AAAT-TTTATATTTTAAAAAATA
**
4964883 ATGTTTTATATTTT-AAAAATA
1 AAATTTTATATTTTAAAAAATA
4964904 AAATTTTAT
1 AAATTTTAT
4964913 TAATTTTGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 14 0.54
22 10 0.38
23 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AAATTTTATATTTTAAAAAATA
Found at i:4968086 original size:14 final size:14
Alignment explanation
Indices: 4968063--4968094 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4968053 TTGTAATATG
4968063 AATC-ATTGATTAT
1 AATCTATTGATTAT
4968076 AATCTATTGATTAT
1 AATCTATTGATTAT
4968090 AATCT
1 AATCT
4968095 GTATATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (14 bp):
AATCTATTGATTAT
Found at i:4968131 original size:22 final size:22
Alignment explanation
Indices: 4968101--4968143 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4968091 ATCTGTATAT
*
4968101 ATTTATATCTTTAAAATTAAAA
1 ATTTATATCTCTAAAATTAAAA
* *
4968123 ATTTGTATCTCTAGAATTAAA
1 ATTTATATCTCTAAAATTAAA
4968144 GATAAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (22 bp):
ATTTATATCTCTAAAATTAAAA
Found at i:4968436 original size:25 final size:25
Alignment explanation
Indices: 4968406--4968463 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
4968396 TCTATTTTTT
* *
4968406 ACCTTTATTGTCGAACCCTGTTGAG
1 ACCTTTATTGTCGAACCCTATTAAG
* *
4968431 GCCTTTATTGTTGAACCCTATTAAG
1 ACCTTTATTGTCGAACCCTATTAAG
4968456 ACCTTTAT
1 ACCTTTAT
4968464 AGCCATTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (25 bp):
ACCTTTATTGTCGAACCCTATTAAG
Found at i:4982552 original size:19 final size:19
Alignment explanation
Indices: 4982502--4982552 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
4982492 TATATATTTA
4982502 AATATTTATATTTAAAAAT
1 AATATTTATATTTAAAAAT
*
4982521 AATGTTTTATATTTAAAAAAT
1 AAT-ATTTATATTT-AAAAAT
4982542 AATATTT-TATT
1 AATATTTATATT
4982553 AATTTTATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 7 0.25
20 12 0.43
21 9 0.32
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
AATATTTATATTTAAAAAT
Found at i:4982559 original size:24 final size:21
Alignment explanation
Indices: 4982502--4982551 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
4982492 TATATATTTA
4982502 AATA-TTTATATTT-AAAAAT
1 AATATTTTATATTTAAAAAAT
*
4982521 AATGTTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
4982542 AATATTTTAT
1 AATATTTTAT
4982552 TAATTTTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 9 0.33
21 15 0.56
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:4985618 original size:14 final size:14
Alignment explanation
Indices: 4985599--4985626 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4985589 AATCTATGTA
4985599 ATTGATTGTAATCT
1 ATTGATTGTAATCT
4985613 ATTGATTGTAATCT
1 ATTGATTGTAATCT
4985627 GTATATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
ATTGATTGTAATCT
Found at i:4990815 original size:63 final size:63
Alignment explanation
Indices: 4990567--4990817 Score: 180
Period size: 63 Copynumber: 4.0 Consensus size: 63
4990557 GAATGGTCTT
* *
4990567 TTCATAAATTTTTAT--GTGATTATTTAAGGCATTTTTGGACAAAAATTGAAGCCTTCAATAATC
1 TTCATAAATTTTTATAGGTGATTATTAAAGGCATTTTTGGCCAAAAA-T--A-CCTTCAATAATC
4990630 TCC
62 -CC
* * * * *
4990633 -TCATAAATTTTTATAAGATGATTATTTAAAGTG-TTTTTTTGCCAAAAAT-TCTTGAATAAT-C
1 TTCATAAATTTTTAT-AGGTGATTA-TTAAAG-GCATTTTTGGCCAAAAATACCTTCAATAATCC
4990694 C
63 C
*** * * * * *
4990695 AAAAAAAATTTTTA-ATGG-G-TTATTGAAGGCGTTTTTGGCCATAAACACCTTCAATAATCCC
1 TTCATAAATTTTTATA-GGTGATTATTAAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCC
* * *
4990756 TTCATAAATTTTTATGAGGTGATTACTCAAGGCATTTTT-GCCAAAAATACCTTGAATAATCC
1 TTCATAAATTTTTAT-AGGTGATTATTAAAGGCATTTTTGGCCAAAAATACCTTCAATAATCC
4990818 TTTCCATTTT
Statistics
Matches: 143, Mismatches: 28, Indels: 31
0.71 0.14 0.15
Matches are distributed among these distances:
58 1 0.01
59 17 0.12
60 12 0.08
61 14 0.10
62 5 0.03
63 32 0.22
64 23 0.16
65 14 0.10
68 7 0.05
69 17 0.12
70 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (63 bp):
TTCATAAATTTTTATAGGTGATTATTAAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCC
Found at i:4998009 original size:116 final size:116
Alignment explanation
Indices: 4997805--4998029 Score: 432
Period size: 116 Copynumber: 1.9 Consensus size: 116
4997795 GCAGGGATTC
* *
4997805 AAATAACGGTTTGATAACGGAATAGTGGCCGTAAAATTGCGGTAGCACTACCCTCCGCCACCGTT
1 AAATAACAGTTTGATAACGGAATAGTGACCGTAAAATTGCGGTAGCACTACCCTCCGCCACCGTT
4997870 AATAGATAAAAAACGGTTGAGAAATTCATTCATAGCAAAAACGGTTGAGAA
66 AATAGATAAAAAACGGTTGAGAAATTCATTCATAGCAAAAACGGTTGAGAA
4997921 AAATAACAGTTTGATAACGGAATAGTGACCGTAAAATTGCGGTAGCACTACCCTCCGCCACCGTT
1 AAATAACAGTTTGATAACGGAATAGTGACCGTAAAATTGCGGTAGCACTACCCTCCGCCACCGTT
4997986 AATAGATAAAAAACGGTTGAGAAATTCATTCATAGCAAAAACGG
66 AATAGATAAAAAACGGTTGAGAAATTCATTCATAGCAAAAACGG
4998030 AGAGTAACGG
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 107 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (116 bp):
AAATAACAGTTTGATAACGGAATAGTGACCGTAAAATTGCGGTAGCACTACCCTCCGCCACCGTT
AATAGATAAAAAACGGTTGAGAAATTCATTCATAGCAAAAACGGTTGAGAA
Found at i:4998985 original size:19 final size:20
Alignment explanation
Indices: 4998949--4998988 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4998939 GATTGTGTTA
*
4998949 TATATTAATTTATAATTTTG
1 TATATGAATTTATAATTTTG
4998969 TATATGAATTT-TAATTTTG
1 TATATGAATTTATAATTTTG
4998988 T
1 T
4998989 TTGTTGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TATATGAATTTATAATTTTG
Found at i:4999240 original size:26 final size:26
Alignment explanation
Indices: 4999212--4999260 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
4999202 TAAAAAATAA
*
4999212 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
4999237 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
4999261 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:5003067 original size:18 final size:18
Alignment explanation
Indices: 5003044--5003168 Score: 105
Period size: 18 Copynumber: 6.9 Consensus size: 18
5003034 ATGGTTATTA
5003044 TCCACCTCAAATGTATCC
1 TCCACCTCAAATGTATCC
*
5003062 TCCACCTCCTCAAATATATCC
1 TCCA---CCTCAAATGTATCC
*
5003083 TCCACCTCAAATGTATCAG
1 TCCACCTCAAATGTATC-C
* * *
5003102 T-TACCGCAAATGTACCC
1 TCCACCTCAAATGTATCC
* * *
5003119 TTCACCACAAATGTATCA
1 TCCACCTCAAATGTATCC
*
5003137 T---CCTCAAATATATCC
1 TCCACCTCAAATGTATCC
5003152 TCCACCTCAAATGTATC
1 TCCACCTCAAATGTATC
5003169 AAGAACAAAG
Statistics
Matches: 84, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
15 12 0.14
17 1 0.01
18 53 0.63
19 1 0.01
21 17 0.20
ACGTcount: A:0.31, C:0.35, G:0.06, T:0.28
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:5003074 original size:21 final size:21
Alignment explanation
Indices: 5003048--5003090 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
5003038 TTATTATCCA
*
5003048 CCTCAAATGTATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
5003069 CCTCAAATATATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
5003090 C
1 C
5003091 AAATGTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.44, G:0.02, T:0.28
Consensus pattern (21 bp):
CCTCAAATATATCCTCCACCT
Found at i:5013593 original size:16 final size:15
Alignment explanation
Indices: 5013569--5013606 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
5013559 GATGTATATC
5013569 TTTTTTTCT-TTGTTT
1 TTTTTTTCTCTT-TTT
5013584 TTTTTGTTCTCTTTTT
1 TTTTT-TTCTCTTTTT
5013600 TTTTTTT
1 TTTTTTT
5013607 TTTTGCGCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 12 0.57
17 2 0.10
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.87
Consensus pattern (15 bp):
TTTTTTTCTCTTTTT
Found at i:5018021 original size:14 final size:12
Alignment explanation
Indices: 5018002--5018071 Score: 54
Period size: 12 Copynumber: 5.7 Consensus size: 12
5017992 TAAGAAAACC
5018002 TCTTTTTGTTTGTT
1 TCTTTTT-TTT-TT
5018016 TCTTTTTTTTTT
1 TCTTTTTTTTTT
* *
5018028 T-TTTTTAATTTG
1 TCTTTTT-TTTTT
*
5018040 TCTTTTGCTTTTT
1 TCTTTT-TTTTTT
5018053 T-TTTTTTTTTT
1 TCTTTTTTTTTT
*
5018064 GCTTTTTT
1 TCTTTTTT
5018072 GCTTTTTTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
11 10 0.22
12 17 0.38
13 11 0.24
14 7 0.16
ACGTcount: A:0.03, C:0.07, G:0.07, T:0.83
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:5018039 original size:26 final size:27
Alignment explanation
Indices: 5018010--5018080 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 27
5018000 CCTCTTTTTG
5018010 TTTGTTT-CTTTTTTTTTTTTTTTTAA
1 TTTGTTTGCTTTTTTTTTTTTTTTTAA
**
5018036 TTTGTCTTTTGCTTTTTTTTTTTTTTTTGC
1 TTTG---TTTGCTTTTTTTTTTTTTTTTAA
5018066 TTT-TTTGCTTTTTTT
1 TTTGTTTGCTTTTTTT
5018081 GTAAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 16 0.41
29 3 0.08
30 20 0.51
ACGTcount: A:0.03, C:0.07, G:0.07, T:0.83
Consensus pattern (27 bp):
TTTGTTTGCTTTTTTTTTTTTTTTTAA
Found at i:5018043 original size:24 final size:23
Alignment explanation
Indices: 5018016--5018080 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 23
5018006 TTTGTTTGTT
5018016 TCTTTTTTTTTTTTTTTTAATTTG
1 TCTTTTTTTTTTTTTTTT-ATTTG
*
5018040 TCTTTTGCTTTTTTTTTTTTTTTTG
1 TCTTTT--TTTTTTTTTTTTATTTG
**
5018065 -CTTTTTTGCTTTTTTT
1 TCTTTTTTTTTTTTTTT
5018081 GTAAAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 9 0.25
24 11 0.31
25 4 0.11
26 12 0.33
ACGTcount: A:0.03, C:0.08, G:0.06, T:0.83
Consensus pattern (23 bp):
TCTTTTTTTTTTTTTTTTATTTG
Found at i:5018051 original size:25 final size:26
Alignment explanation
Indices: 5018023--5018080 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
5018013 GTTTCTTTTT
5018023 TTTTTTTTTTTAATTTG-TCTTTTGC
1 TTTTTTTTTTTAATTTGCTCTTTTGC
** *
5018048 TTTTTTTTTTTTTTTTGCTTTTTTGC
1 TTTTTTTTTTTAATTTGCTCTTTTGC
5018074 TTTTTTT
1 TTTTTTT
5018081 GTAAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 15 0.52
26 14 0.48
ACGTcount: A:0.03, C:0.07, G:0.07, T:0.83
Consensus pattern (26 bp):
TTTTTTTTTTTAATTTGCTCTTTTGC
Found at i:5018077 original size:18 final size:18
Alignment explanation
Indices: 5018042--5018080 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
5018032 TTAATTTGTC
**
5018042 TTTTGCTTTTTTTTTTTT
1 TTTTGCTTTTTTGCTTTT
5018060 TTTTGCTTTTTTGCTTTT
1 TTTTGCTTTTTTGCTTTT
5018078 TTT
1 TTT
5018081 GTAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (18 bp):
TTTTGCTTTTTTGCTTTT
Found at i:5019546 original size:264 final size:264
Alignment explanation
Indices: 5019067--5019591 Score: 924
Period size: 264 Copynumber: 2.0 Consensus size: 264
5019057 CTGATACCAT
*
5019067 TTGTCACGGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTTCGGGACCCGGGCATTCACCCTTCC
1 TTGTCACGGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTTCGGGACCCGAGCATTCACCCTTCC
* *
5019132 GGCGTCCTAGATCAGCCTAACCGCCATGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCC
66 GGCGTCCCAGATCAGCCTAACCGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCC
* *
5019197 CCTGGCCTCACGGTTTTGTCCTACAAAAGGCGTCTCACAAGGCGAAGATGGTGTGAACCCTTTTA
131 CCTGGCCTCACGGTTTTATCCTACAAAAGGCGTCTCACAAGGCGAAGATGGTGTGAACCCTTATA
* *
5019262 TACCCCAGTGACCTTCCTATTATGTTCGATGTGGGATTCAGGACGCCCCCTTAGGTCCGTGACAT
196 TACCCCAGGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACGCCCCCTTAGGTCCGTGACAT
5019327 TCAC
261 TCAC
5019331 TTGTCACGGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTTCGGGACCCGAGCATTCACCCTTCC
1 TTGTCACGGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTTCGGGACCCGAGCATTCACCCTTCC
*
5019396 GGCGTCCCAGATCAGCCTGACCGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCC
66 GGCGTCCCAGATCAGCCTAACCGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCC
* * *
5019461 CCTGGCTTCACGGTTTTATCCTACAAAAGGCGTCTCACAAGGCGGAGGTGGTGTGAACCCTTATA
131 CCTGGCCTCACGGTTTTATCCTACAAAAGGCGTCTCACAAGGCGAAGATGGTGTGAACCCTTATA
* **
5019526 TACCCCAGGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACTCTTCCTTAGGTCCGTGACAT
196 TACCCCAGGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACGCCCCCTTAGGTCCGTGACAT
5019591 T
261 T
5019592 GGACAATACC
Statistics
Matches: 247, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
264 247 1.00
ACGTcount: A:0.18, C:0.32, G:0.25, T:0.25
Consensus pattern (264 bp):
TTGTCACGGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTTCGGGACCCGAGCATTCACCCTTCC
GGCGTCCCAGATCAGCCTAACCGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCC
CCTGGCCTCACGGTTTTATCCTACAAAAGGCGTCTCACAAGGCGAAGATGGTGTGAACCCTTATA
TACCCCAGGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACGCCCCCTTAGGTCCGTGACAT
TCAC
Found at i:5022142 original size:17 final size:17
Alignment explanation
Indices: 5022122--5022164 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
5022112 AGTTGGACAG
*
5022122 GGCTTGGAGTGGACAAA
1 GGCTTGGAATGGACAAA
*
5022139 GGCTTGGAATGGACAAG
1 GGCTTGGAATGGACAAA
5022156 GGCTTGGAA
1 GGCTTGGAA
5022165 CAGACAAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.28, C:0.12, G:0.42, T:0.19
Consensus pattern (17 bp):
GGCTTGGAATGGACAAA
Found at i:5022170 original size:17 final size:17
Alignment explanation
Indices: 5022133--5022173 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
5022123 GCTTGGAGTG
* **
5022133 GACAAAGGCTTGGAATG
1 GACAAGGGCTTGGAACA
5022150 GACAAGGGCTTGGAACA
1 GACAAGGGCTTGGAACA
5022167 GACAAGG
1 GACAAGG
5022174 TTGAATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.37, T:0.12
Consensus pattern (17 bp):
GACAAGGGCTTGGAACA
Found at i:5022621 original size:19 final size:18
Alignment explanation
Indices: 5022590--5022626 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
5022580 CTTTTTTTTA
5022590 TTCCTTTGTTCTTTTTCT
1 TTCCTTTGTTCTTTTTCT
*
5022608 TTCCTTTTTCTCTTTTTCT
1 TTCCTTTGT-TCTTTTTCT
5022627 CATTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.73
Consensus pattern (18 bp):
TTCCTTTGTTCTTTTTCT
Found at i:5026296 original size:25 final size:25
Alignment explanation
Indices: 5026247--5026312 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
5026237 ATACTAGAAG
*
5026247 CTTTTA-TTTTATTT-TTTATCGTT
1 CTTTTATTTTTTTTTATTTATCGTT
* *
5026270 CTTTTATTTTTTTTTATTTTTCTTT
1 CTTTTATTTTTTTTTATTTATCGTT
*
5026295 CTTTT-TTCTTTTCTTATT
1 CTTTTATT-TTTTTTTATT
5026313 CATGTCTCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 6 0.17
24 9 0.25
25 21 0.58
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.79
Consensus pattern (25 bp):
CTTTTATTTTTTTTTATTTATCGTT
Found at i:5026300 original size:21 final size:20
Alignment explanation
Indices: 5026253--5026306 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
5026243 GAAGCTTTTA
*
5026253 TTTTATTTTTTATCGTTCTT
1 TTTTTTTTTTTATCGTTCTT
**
5026273 TTATTTTTTTTTATTTTTCTT
1 TT-TTTTTTTTTATCGTTCTT
5026294 TCTTTTTTCTTTT
1 T-TTTTTT-TTTT
5026307 CTTATTCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.07
21 21 0.75
22 5 0.18
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTTTTTTTTATCGTTCTT
Found at i:5028244 original size:16 final size:16
Alignment explanation
Indices: 5028223--5028253 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5028213 TAAATTACAT
*
5028223 GAATCTAATTATTCAC
1 GAATCTAACTATTCAC
5028239 GAATCTAACTATTCA
1 GAATCTAACTATTCA
5028254 TGAACTTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.35
Consensus pattern (16 bp):
GAATCTAACTATTCAC
Found at i:5030309 original size:3 final size:3
Alignment explanation
Indices: 5030288--5030325 Score: 51
Period size: 3 Copynumber: 12.3 Consensus size: 3
5030278 AAAATCACTA
5030288 TAT TATT TAT ATAT T-T TAT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT T
5030326 TACAAAAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 2 0.06
3 24 0.75
4 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Done.