Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 211 of 214
Found at i:62362332 original size:21 final size:23
Alignment explanation
Indices: 62362303--62362344 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
62362293 AAATTATTTT
62362303 AAGAAATTT-T-TATTTTTTAGA
1 AAGAAATTTATATATTTTTTAGA
*
62362324 AAGAGATTTATATATTTTTTA
1 AAGAAATTTATATATTTTTTA
62362345 TAATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 1 0.06
23 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (23 bp):
AAGAAATTTATATATTTTTTAGA
Found at i:62376039 original size:10 final size:10
Alignment explanation
Indices: 62376024--62376048 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
62376014 ATACAAGGGC
62376024 ATATATAAAT
1 ATATATAAAT
62376034 ATATATAAAT
1 ATATATAAAT
62376044 ATATA
1 ATATA
62376049 GATTGTAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATATAAAT
Found at i:62380202 original size:25 final size:27
Alignment explanation
Indices: 62380174--62380229 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
62380164 TAAGATTTAT
62380174 TTTTAATAGAAT-TTTT-TTTTTCAAA
1 TTTTAATAGAATGTTTTGTTTTTCAAA
** *
62380199 TTTTTCTAGAATGTTTTGTTTTTCAAT
1 TTTTAATAGAATGTTTTGTTTTTCAAA
62380226 TTTT
1 TTTT
62380230 GAGTTACACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 10 0.38
26 4 0.15
27 12 0.46
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.64
Consensus pattern (27 bp):
TTTTAATAGAATGTTTTGTTTTTCAAA
Found at i:62380203 original size:27 final size:26
Alignment explanation
Indices: 62380172--62380229 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
62380162 TTTAAGATTT
62380172 ATTTTTAATAGAAT-TTTT-TTTTTCAA
1 ATTTTT-ATAGAATGTTTTGTTTTTC-A
*
62380198 ATTTTTCTAGAATGTTTTGTTTTTCA
1 ATTTTTATAGAATGTTTTGTTTTTCA
62380224 ATTTTT
1 ATTTTT
62380230 GAGTTACACT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 6 0.21
26 17 0.59
27 6 0.21
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.64
Consensus pattern (26 bp):
ATTTTTATAGAATGTTTTGTTTTTCA
Found at i:62382468 original size:28 final size:28
Alignment explanation
Indices: 62382428--62382485 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
62382418 GTTGTCGAAA
62382428 ATTCTAGTTTTAGAAATGTAAGCCTGAT
1 ATTCTAGTTTTAGAAATGTAAGCCTGAT
*
62382456 ATTCTAGTTTTAGAAATGTAAGCTTGAT
1 ATTCTAGTTTTAGAAATGTAAGCCTGAT
62382484 AT
1 AT
62382486 CCATTGTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (28 bp):
ATTCTAGTTTTAGAAATGTAAGCCTGAT
Found at i:62391298 original size:6 final size:6
Alignment explanation
Indices: 62391284--62391329 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
62391274 TATACAGCCA
* * *
62391284 GAGCTG GAGCAG GAGCAG GAGCAG GAGCGG GAGCTG GAGCAG GAGC
1 GAGCAG GAGCAG GAGCAG GAGCAG GAGCAG GAGCAG GAGCAG GAGC
62391330 TGGGGCAGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.26, C:0.17, G:0.52, T:0.04
Consensus pattern (6 bp):
GAGCAG
Found at i:62391337 original size:12 final size:12
Alignment explanation
Indices: 62391284--62391337 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 12
62391274 TATACAGCCA
* *
62391284 GAGCTGGAGCAG
1 GAGCAGGAGCTG
*
62391296 GAGCAGGAGCAG
1 GAGCAGGAGCTG
*
62391308 GAGCGGGAGCTG
1 GAGCAGGAGCTG
62391320 GAGCAGGAGCTG
1 GAGCAGGAGCTG
*
62391332 GGGCAG
1 GAGCAG
62391338 TCATCACTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.24, C:0.17, G:0.54, T:0.06
Consensus pattern (12 bp):
GAGCAGGAGCTG
Found at i:62392328 original size:24 final size:24
Alignment explanation
Indices: 62392301--62392346 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
62392291 TGTAACCAGG
*
62392301 ATTCAGGCTAGGGTAAGAGCTGTT
1 ATTCAGACTAGGGTAAGAGCTGTT
62392325 ATTCAGACTAGGGTAAGAGCTG
1 ATTCAGACTAGGGTAAGAGCTG
62392347 CTACTGCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (24 bp):
ATTCAGACTAGGGTAAGAGCTGTT
Found at i:62392435 original size:72 final size:72
Alignment explanation
Indices: 62392315--62392534 Score: 359
Period size: 72 Copynumber: 3.1 Consensus size: 72
62392305 AGGCTAGGGT
* *
62392315 AAGAGCTGTTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCGAAGAGCCCATTACCCAATGTA
1 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCAAAGAGCCCATTACCCAATGTA
*
62392380 GCACCCG
66 GAACCCG
* * * * *
62392387 AAGAGCTGCTATTGAGACTAGGGTGAGACCTGCTACTGCTTCCAAAGAGCCCATTAACCACTGTA
1 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCAAAGAGCCCATTACCCAATGTA
62392452 GAACCCG
66 GAACCCG
*
62392459 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACCGCTTCCAAAGAGCCCATTACCCAATGTA
1 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCAAAGAGCCCATTACCCAATGTA
62392524 GAACCCG
66 GAACCCG
62392531 AAGA
1 AAGA
62392535 ATGAAAGCCA
Statistics
Matches: 134, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 134 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.20
Consensus pattern (72 bp):
AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCAAAGAGCCCATTACCCAATGTA
GAACCCG
Found at i:62392737 original size:6 final size:6
Alignment explanation
Indices: 62392696--62392736 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
62392686 GACGAACTCG
* *
62392696 TTCCAA TTCCAA TTCCAA TTCCAA TTCCAT TTCCAT TTCCA
1 TTCCAA TTCCAA TTCCAA TTCCAA TTCCAA TTCCAA TTCCA
62392737 TATCCCAAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.27, C:0.34, G:0.00, T:0.39
Consensus pattern (6 bp):
TTCCAA
Found at i:62393882 original size:14 final size:13
Alignment explanation
Indices: 62393861--62393900 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
62393851 TAATTTAGAG
62393861 TTTGGGTTCAAGA
1 TTTGGGTTCAAGA
*
62393874 TTCTGGGTTTAAGA
1 TT-TGGGTTCAAGA
62393888 TTTGGGGTTCAAG
1 TTT-GGGTTCAAG
62393901 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 3 0.13
14 20 0.87
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (13 bp):
TTTGGGTTCAAGA
Found at i:62398913 original size:50 final size:50
Alignment explanation
Indices: 62398818--62398917 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 50
62398808 ACCTTATTCT
* * *
62398818 AATCAATGTCAAATAGAAGAAGAGTGGTTATATACGGATTCTACTTGTGC
1 AATCAATGTCAAATAAAAGAAAAGTAGTTATATACGGATTCTACTTGTGC
* *
62398868 AATCAATGTCAAATAAAAGAAAAGTAGTTCTATATGGA-TCTTACTTGTGC
1 AATCAATGTCAAATAAAAGAAAAGTAGTTATATACGGATTC-TACTTGTGC
62398918 TACTTGGTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 2 0.05
50 42 0.95
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (50 bp):
AATCAATGTCAAATAAAAGAAAAGTAGTTATATACGGATTCTACTTGTGC
Found at i:62400146 original size:19 final size:15
Alignment explanation
Indices: 62400104--62400134 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
62400094 CCCACCTTAT
62400104 GGGTGATAATTAATG
1 GGGTGATAATTAATG
62400119 GGGTGATAATTAATG
1 GGGTGATAATTAATG
62400134 G
1 G
62400135 TGTGTTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (15 bp):
GGGTGATAATTAATG
Found at i:62404402 original size:16 final size:16
Alignment explanation
Indices: 62404381--62404416 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
62404371 ATGCTTCTTC
62404381 TTCTTTATTTTTTT-TT
1 TTCTTT-TTTTTTTGTT
62404397 TTCTTTTTTTTTTGTT
1 TTCTTTTTTTTTTGTT
62404413 TTCT
1 TTCT
62404417 CTCACCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.86
Consensus pattern (16 bp):
TTCTTTTTTTTTTGTT
Found at i:62404414 original size:19 final size:19
Alignment explanation
Indices: 62404378--62404414 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
62404368 GATATGCTTC
62404378 TTCTTCTTTATTTTTTTTT
1 TTCTTCTTTATTTTTTTTT
62404397 TTCTT-TTT-TTTTTGTTTT
1 TTCTTCTTTATTTTT-TTTT
62404415 CTCTCACCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
18 7 0.41
19 5 0.29
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.86
Consensus pattern (19 bp):
TTCTTCTTTATTTTTTTTT
Found at i:62405715 original size:2 final size:2
Alignment explanation
Indices: 62405708--62405759 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
62405698 AAATATAGAA
62405708 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
62405750 AG AG AG AG AG
1 AG AG AG AG AG
62405760 TTCGTTTTGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:62414318 original size:23 final size:24
Alignment explanation
Indices: 62414273--62414318 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
62414263 GATTAAAGTT
*
62414273 ATGGATAAAATTTGGTTTTAAATA
1 ATGGATAAAATTTGGTTTGAAATA
**
62414297 ATGGATAAGGTTT-GTTTGAAAT
1 ATGGATAAAATTTGGTTTGAAAT
62414319 TTTTATATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (24 bp):
ATGGATAAAATTTGGTTTGAAATA
Found at i:62415415 original size:16 final size:16
Alignment explanation
Indices: 62415378--62415416 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
62415368 TAATAAAACT
* *
62415378 TTTAAATTTTTTAAAT
1 TTTAATTTTTTTAAAA
62415394 TTTAATTTTTTTAAAA
1 TTTAATTTTTTTAAAA
62415410 TTTAATT
1 TTTAATT
62415417 ACTTTTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTAATTTTTTTAAAA
Found at i:62422960 original size:43 final size:43
Alignment explanation
Indices: 62422899--62422981 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
62422889 CTTGAATAAG
62422899 AATACGCATCAAAGTTCAAAACCATCAACTTTATTACATATAC
1 AATACGCATCAAAGTTCAAAACCATCAACTTTATTACATATAC
62422942 AATACGCATCAAAGTTCAAAACCATCAACTTTATTACATA
1 AATACGCATCAAAGTTCAAAACCATCAACTTTATTACATA
62422982 AACGGTCGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.28
Consensus pattern (43 bp):
AATACGCATCAAAGTTCAAAACCATCAACTTTATTACATATAC
Found at i:62431490 original size:58 final size:57
Alignment explanation
Indices: 62431395--62431565 Score: 230
Period size: 58 Copynumber: 3.1 Consensus size: 57
62431385 TAATCTGATT
* * *
62431395 AGTGGCAAGTGATAAGTGATAACTTCAGCTACACTTATCTGATCAGCGACAAGTGACA
1 AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG-GACAAGTGACA
*
62431453 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT-----C-AGTGACA
1 AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGACAAGTGACA
*
62431504 AGTGGCAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGGGACAAGTGATA
1 AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCA-GGACAAGTGACA
62431561 AGTGG
1 AGTGG
62431566 TTATACACAA
Statistics
Matches: 100, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
50 19 0.19
51 29 0.29
52 1 0.01
56 1 0.01
57 11 0.11
58 39 0.39
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (57 bp):
AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGACAAGTGACA
Found at i:62431501 original size:51 final size:50
Alignment explanation
Indices: 62431446--62431564 Score: 202
Period size: 50 Copynumber: 2.4 Consensus size: 50
62431436 ATCAGCGACA
62431446 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC
*
62431497 AGTGACAAGTGGCAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
* *
62431547 AGGGACAAGTGATAAGTG
1 AGTGACAAGTGACAAGTG
62431565 GTTATACACA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 35 0.55
51 29 0.45
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (50 bp):
AGTGACAAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
Found at i:62432933 original size:18 final size:19
Alignment explanation
Indices: 62432912--62432957 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
62432902 CTTTACCAAG
* *
62432912 ATTTTTAAAAT-TTATTTA
1 ATTTTTAAAATCTAAATTA
62432930 ATTTTT-AAATCTAAATTA
1 ATTTTTAAAATCTAAATTA
62432948 ATTTTTAAAA
1 ATTTTTAAAA
62432958 ATTTTAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 17 0.71
19 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTTAAAATCTAAATTA
Found at i:62436945 original size:43 final size:43
Alignment explanation
Indices: 62436866--62436948 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
62436856 AAAGATAGTT
* *
62436866 ATACTTTAACTGACAACCATTAAAAATATTAAAATAAATAGCA
1 ATACCTTAACTGACAACCATTAAAAAGATTAAAATAAATAGCA
* * *
62436909 ATACCTTAACTGATAACCATTAGAAAGATTATAATAAATA
1 ATACCTTAACTGACAACCATTAAAAAGATTAAAATAAATA
62436949 ATAAATGTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (43 bp):
ATACCTTAACTGACAACCATTAAAAAGATTAAAATAAATAGCA
Found at i:62440403 original size:16 final size:15
Alignment explanation
Indices: 62440384--62440444 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 15
62440374 GAAAAGTGGG
62440384 AGGGAGAAAAAATTTT
1 AGGG-GAAAAAATTTT
62440400 AGGGGAAAATAAAATGTTTT
1 AGGGG--AA-AAAA--TTTT
*
62440420 GAGGGTAAAAAATTTT
1 -AGGGGAAAAAATTTT
62440436 AGGGGAAAA
1 AGGGGAAAA
62440445 TAAAATGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
15 9 0.24
16 8 0.22
17 2 0.05
18 8 0.22
19 2 0.05
20 4 0.11
21 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.25
Consensus pattern (15 bp):
AGGGGAAAAAATTTT
Found at i:62440419 original size:20 final size:20
Alignment explanation
Indices: 62440396--62440460 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
62440386 GGAGAAAAAA
62440396 TTTTAGGGGAAAATAAAATG
1 TTTTAGGGGAAAATAAAATG
*
62440416 TTTT-GAGGG-TAA-AAAA--
1 TTTTAG-GGGAAAATAAAATG
62440432 TTTTAGGGGAAAATAAAATG
1 TTTTAGGGGAAAATAAAATG
62440452 TTTTGAGGG
1 TTTT-AGGG
62440461 TTTTTGGAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
16 7 0.19
17 3 0.08
18 8 0.22
19 3 0.08
20 11 0.31
21 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (20 bp):
TTTTAGGGGAAAATAAAATG
Found at i:62440431 original size:36 final size:36
Alignment explanation
Indices: 62440390--62440461 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
62440380 TGGGAGGGAG
62440390 AAAAAATTTTAGGGGAAAATAAAATGTTTTGAGGGT
1 AAAAAATTTTAGGGGAAAATAAAATGTTTTGAGGGT
62440426 AAAAAATTTTAGGGGAAAATAAAATGTTTTGAGGGT
1 AAAAAATTTTAGGGGAAAATAAAATGTTTTGAGGGT
62440462 TTTTGGAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (36 bp):
AAAAAATTTTAGGGGAAAATAAAATGTTTTGAGGGT
Found at i:62443253 original size:20 final size:20
Alignment explanation
Indices: 62443225--62443262 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
62443215 TATTTTTCAA
*
62443225 TAAATCATTTTATAGAAAAG
1 TAAAACATTTTATAGAAAAG
*
62443245 TAAAACATTTTCTAGAAA
1 TAAAACATTTTATAGAAA
62443263 TTATTTTACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (20 bp):
TAAAACATTTTATAGAAAAG
Found at i:62446520 original size:125 final size:124
Alignment explanation
Indices: 62446273--62446684 Score: 612
Period size: 125 Copynumber: 3.3 Consensus size: 124
62446263 ATTTATTAAG
* * * *
62446273 GAAATCGCTCCCACATGGATGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
62446338 GTTTCTGAGCAAATAGTATAAAAAATGCTTCAAGTAGGATGCTTTAT-AAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAA-AAGAATTT-T
* * *
62446398 GAAATTGCTCTCACATGGACGCGCTTTTGCTATAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* * *
62446463 GTTTCTGTGTAAATAGTAT-AAAAACGATTCAAGTAGGATGCTTTATCAAAAGAAATTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAAAAG-AATTTT
* * *
62446522 GAAATCGCTCCCACGTGGACGCTCTTTTGCTACAGTAGGTCATGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
62446587 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAAAAGAA-TTTT
* *
62446647 GAAATCGCTCCCACGTGGACGCACTTTTGCTACAGTAG
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAG
62446685 CATGTTTGGG
Statistics
Matches: 260, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
124 107 0.41
125 153 0.59
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (124 bp):
GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAAAAGAATTTT
Found at i:62449804 original size:48 final size:48
Alignment explanation
Indices: 62449708--62449829 Score: 217
Period size: 48 Copynumber: 2.5 Consensus size: 48
62449698 GAATATTAAT
62449708 TATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATAAAC
1 TATTTTGTATTTTATTACATC-AATAATATCAAAATATTCAAAATAAAC
*
62449757 TATTTTGTATTTTATTACATCAATAATATCAAAATATTCAAATTAAAC
1 TATTTTGTATTTTATTACATCAATAATATCAAAATATTCAAAATAAAC
*
62449805 TATTTTGTATTTTATTACATTAATA
1 TATTTTGTATTTTATTACATCAATA
62449830 TAAATTATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
48 50 0.70
49 21 0.30
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (48 bp):
TATTTTGTATTTTATTACATCAATAATATCAAAATATTCAAAATAAAC
Found at i:62449981 original size:21 final size:21
Alignment explanation
Indices: 62449943--62449982 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
62449933 ATGTCCAACT
** *
62449943 TCCGGCGGGGGTTGTGGTTAC
1 TCCGGCGGGAATTCTGGTTAC
62449964 TCCGGCGGGAATTCTGGTT
1 TCCGGCGGGAATTCTGGTT
62449983 CATCCGGTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.07, C:0.20, G:0.42, T:0.30
Consensus pattern (21 bp):
TCCGGCGGGAATTCTGGTTAC
Found at i:62452075 original size:21 final size:19
Alignment explanation
Indices: 62452049--62452093 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
62452039 TTTTTACGAT
62452049 TTAAATTTTTTTTAAAAAAAA
1 TTAAA-TTTTTTT-AAAAAAA
*
62452070 TTAAATTTTTTTAAAATAA
1 TTAAATTTTTTTAAAAAAA
62452089 TTAAA
1 TTAAA
62452094 AATAGGGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.48
20 7 0.30
21 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAATTTTTTTAAAAAAA
Found at i:62452131 original size:11 final size:11
Alignment explanation
Indices: 62452117--62452214 Score: 64
Period size: 11 Copynumber: 9.3 Consensus size: 11
62452107 GAGAAATTTA
62452117 AGAGGAAATTG
1 AGAGGAAATTG
*
62452128 AGAGCAAATTG
1 AGAGGAAATTG
**
62452139 AGATTAAA-T-
1 AGAGGAAATTG
* *
62452148 A-TGG-ATTTG
1 AGAGGAAATTG
62452157 AGA-GAAATTTG
1 AGAGGAAA-TTG
62452168 -GAAGGAAATTG
1 AG-AGGAAATTG
* *
62452179 AGAGCAATTTG
1 AGAGGAAATTG
62452190 AGAGGAAATTG
1 AGAGGAAATTG
*
62452201 AGAAGAAATTG
1 AGAGGAAATTG
62452212 AGA
1 AGA
62452215 AAGGATTAAT
Statistics
Matches: 65, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 3 0.05
11 52 0.80
12 5 0.08
ACGTcount: A:0.45, C:0.02, G:0.30, T:0.23
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:62452161 original size:51 final size:51
Alignment explanation
Indices: 62452093--62452192 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
62452083 AAATAATTAA
62452093 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * * *
62452144 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAATTTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
62452193 GGAAATTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:62452179 original size:22 final size:22
Alignment explanation
Indices: 62452154--62452214 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
62452144 AAATATGGAT
62452154 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
*
62452176 TTGAGAGCAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAGAGGAAA
62452198 TTGAGAAGAAA-TTGAGA
1 TTGAG-AGAAATTTGAGA
62452215 AAGGATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 30 0.86
23 5 0.14
ACGTcount: A:0.44, C:0.02, G:0.31, T:0.23
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:62452189 original size:33 final size:33
Alignment explanation
Indices: 62452152--62452214 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
62452142 TTAAATATGG
62452152 ATTTGAGA-GAAATTTG-GAAGGAAATTGAGAGCA
1 ATTTGAGAGGAAA-TTGAGAA-GAAATTGAGAGCA
62452185 ATTTGAGAGGAAATTGAGAAGAAATTGAGA
1 ATTTGAGAGGAAATTGAGAAGAAATTGAGA
62452215 AAGGATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 21 0.75
34 7 0.25
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (33 bp):
ATTTGAGAGGAAATTGAGAAGAAATTGAGAGCA
Found at i:62460016 original size:18 final size:18
Alignment explanation
Indices: 62459993--62460080 Score: 122
Period size: 18 Copynumber: 4.9 Consensus size: 18
62459983 CCCAACTACT
*
62459993 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
62460011 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
**
62460029 GTATACGTGAATAGTATT
1 GTATACGTGAATAGTACC
* *
62460047 GTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACC
62460065 GTATACGTGAATAGTA
1 GTATACGTGAATAGTA
62460081 TGTAAAATTA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:62460051 original size:36 final size:36
Alignment explanation
Indices: 62459993--62460081 Score: 142
Period size: 36 Copynumber: 2.5 Consensus size: 36
62459983 CCCAACTACT
* *
62459993 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTATCGTATACGTGAATAGTGCC
* *
62460029 GTATACGTGAATAGTATTGTATATGTGAATAGTGCC
1 GTATACGTGAATAGTATCGTATACGTGAATAGTGCC
62460065 GTATACGTGAATAGTAT
1 GTATACGTGAATAGTAT
62460082 GTAAAATTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (36 bp):
GTATACGTGAATAGTATCGTATACGTGAATAGTGCC
Found at i:62474004 original size:52 final size:51
Alignment explanation
Indices: 62473933--62474291 Score: 477
Period size: 52 Copynumber: 7.1 Consensus size: 51
62473923 ATCAAGTGAC
* **
62473933 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
62473985 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* **
62474031 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
62474083 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
62474129 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
62474180 AAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
** *
62474232 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
62474285 ATAAGTG
1 A-AAGTG
62474292 GTTACACTTA
Statistics
Matches: 273, Mismatches: 20, Indels: 27
0.85 0.06 0.08
Matches are distributed among these distances:
46 85 0.31
52 178 0.65
53 10 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:62474039 original size:98 final size:98
Alignment explanation
Indices: 62473919--62474280 Score: 598
Period size: 98 Copynumber: 3.6 Consensus size: 98
62473909 TTTGAGTACT
*
62473919 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
62473984 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
62474017 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
62474082 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
62474115 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
62474180 AAAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
62474213 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGA
62474278 CAA
60 CAA
62474281 AGTGATAAGT
Statistics
Matches: 249, Mismatches: 9, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
98 204 0.82
104 45 0.18
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:62474208 original size:150 final size:144
Alignment explanation
Indices: 62473925--62474328 Score: 511
Period size: 150 Copynumber: 2.8 Consensus size: 144
62473915 TACTTCTGAT
*
62473925 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC------AAAGT
* * * *
62473990 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGC
59 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGC
62474055 TACACTTATCTGATCAAGTGA
124 TACACTTATCTGATCAAGTGA
* * ** *
62474076 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
62474141 GATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCT
66 GATAGCTTCGGCTACACTTATCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCT
62474206 ACACTTATCTGATCAAGTGA
125 ACACTTATCTGATCAAGTGA
*
62474226 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
62474291 G---G--T----TACACTTATCTGATCAAGAGACAAAGTGATAAGTG
66 GATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
62474329 GCTACACTTA
Statistics
Matches: 229, Mismatches: 18, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
135 13 0.06
141 21 0.09
144 44 0.19
145 1 0.00
147 1 0.00
150 143 0.62
151 6 0.03
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (144 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
GATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTT
ATCTGATCAAGTGA
Found at i:62474301 original size:37 final size:37
Alignment explanation
Indices: 62474255--62474400 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
62474245 GATAGCTTTA
62474255 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
62474292 GTTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
62474329 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
62474366 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
62474401 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:62476179 original size:23 final size:22
Alignment explanation
Indices: 62476149--62476191 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
62476139 TTTTTTTTCG
*
62476149 AGAATTAAATTATAAAATTTTA
1 AGAATTAAAATATAAAATTTTA
*
62476171 AGAAGTTAAAATATAATATTT
1 AGAA-TTAAAATATAAAATTT
62476192 GATTTCATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (22 bp):
AGAATTAAAATATAAAATTTTA
Found at i:62481531 original size:12 final size:12
Alignment explanation
Indices: 62481516--62481545 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
62481506 TGTTAAAGAT
62481516 GCTGAAACTGAA
1 GCTGAAACTGAA
62481528 GCTGAAACTGAA
1 GCTGAAACTGAA
*
62481540 GTTGAA
1 GCTGAA
62481546 CTTTCATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (12 bp):
GCTGAAACTGAA
Found at i:62482588 original size:21 final size:23
Alignment explanation
Indices: 62482556--62482599 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
62482546 TAATATTCTA
*
62482556 ATTTTAAAAATTC-AATTAAAAT
1 ATTTTAAAAATTCGAAATAAAAT
62482578 ATTTT-AAAATTCGAAATAAAAT
1 ATTTTAAAAATTCGAAATAAAAT
62482600 TTAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTTTAAAAATTCGAAATAAAAT
Found at i:62484321 original size:14 final size:15
Alignment explanation
Indices: 62484302--62484330 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62484292 AAATTTTCTT
62484302 ATAAAAAA-TAAATA
1 ATAAAAAAGTAAATA
62484316 ATAAAAAAGTAAATA
1 ATAAAAAAGTAAATA
62484331 TATGAAAACG
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:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
ATAAAAAAGTAAATA
Found at i:62490465 original size:19 final size:21
Alignment explanation
Indices: 62490441--62490484 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
62490431 AAAAATTGAC
62490441 ATATATTTTT-AT-TTTTATT
1 ATATATTTTTAATATTTTATT
62490460 ATATATTTTTAATATTTTATT
1 ATATATTTTTAATATTTTATT
62490481 ATAT
1 ATAT
62490485 CTTTCACCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.43
20 2 0.09
21 11 0.48
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
ATATATTTTTAATATTTTATT
Found at i:62494120 original size:27 final size:28
Alignment explanation
Indices: 62494088--62494141 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
62494078 TTTTTATATA
*
62494088 TTTAAG-ATTTAGTCTCTCTACTTTTAT
1 TTTAAGAATTTAGTCCCTCTACTTTTAT
*
62494115 TTTAAGAAATTTAGTCCCTTTACTTTT
1 TTTAAG-AATTTAGTCCCTCTACTTTT
62494142 TGGATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
29 17 0.74
ACGTcount: A:0.24, C:0.15, G:0.07, T:0.54
Consensus pattern (28 bp):
TTTAAGAATTTAGTCCCTCTACTTTTAT
Found at i:62494184 original size:29 final size:29
Alignment explanation
Indices: 62494150--62494213 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
62494140 TTTGGATTTA
62494150 AAAATGCAAGTCCAATTATTAATACTATT
1 AAAATGCAAGTCCAATTATTAATACTATT
62494179 AAAATGCAAGTCCAATTATTAATACTATT
1 AAAATGCAAGTCCAATTATTAATACTATT
62494208 AAAATG
1 AAAATG
62494214 TTTCTCTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (29 bp):
AAAATGCAAGTCCAATTATTAATACTATT
Found at i:62495208 original size:15 final size:15
Alignment explanation
Indices: 62495186--62495219 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
62495176 AAAAGAGTAA
62495186 GCCCGGTCCGGTCCG
1 GCCCGGTCCGGTCCG
* *
62495201 GTCCGGTCCGGCCCG
1 GCCCGGTCCGGTCCG
62495216 GCCC
1 GCCC
62495220 AATTTTTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.50, G:0.38, T:0.12
Consensus pattern (15 bp):
GCCCGGTCCGGTCCG
Found at i:62495269 original size:21 final size:22
Alignment explanation
Indices: 62495221--62495272 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
62495211 GCCCGGCCCA
62495221 ATTTTTAATAAACACAAAAAAAT
1 ATTTTTAA-AAACACAAAAAAAT
*
62495244 A-TTTTAAAAATA-AAAAAAAT
1 ATTTTTAAAAACACAAAAAAAT
62495264 ATTTTTAAA
1 ATTTTTAAA
62495273 GTATTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 9 0.33
21 11 0.41
22 6 0.22
23 1 0.04
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
ATTTTTAAAAACACAAAAAAAT
Found at i:62513807 original size:18 final size:18
Alignment explanation
Indices: 62513784--62513876 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
62513774 CCCAACTACT
*
62513784 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
62513802 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
62513820 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* *
62513838 ATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
62513856 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
62513874 GTA
1 GTA
62513877 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:62513836 original size:36 final size:36
Alignment explanation
Indices: 62513784--62513876 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
62513774 CCCAACTACT
*
62513784 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
**
62513820 GTATACGTGAATAGTACTATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
62513856 ATATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
62513877 AACGGTCGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:62517507 original size:89 final size:89
Alignment explanation
Indices: 62517353--62517530 Score: 284
Period size: 89 Copynumber: 2.0 Consensus size: 89
62517343 TCTCAAATCA
* *
62517353 GATTAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGGTTGTGTAT
1 GATTAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGATTGAGTAT
*
62517418 TAGTTCAATTTATATTTTTATTGT
66 TAGTTCAATTTATATTATTATTGT
* * *
62517442 GATTAGTCACTCAAAGTAGCCATATTTTATAAAATTAAAAAATTATGAATATGATGATTGAGTAT
1 GATTAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGATTGAGTAT
**
62517507 TAGTTCGGTTTATATTATTATTGT
66 TAGTTCAATTTATATTATTATTGT
62517531 TGTTACAGTT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 81 1.00
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (89 bp):
GATTAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGATTGAGTAT
TAGTTCAATTTATATTATTATTGT
Found at i:62518304 original size:5 final size:5
Alignment explanation
Indices: 62518294--62518365 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
62518284 TGTTAAAAAA
* *
62518294 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
62518340 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
62518366 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:62518347 original size:19 final size:19
Alignment explanation
Indices: 62518323--62518365 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
62518313 ATTATGTTTT
62518323 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
62518342 TATATTATATTATATTATA
1 TATATTATATTATATTATA
62518361 TATAT
1 TATAT
62518366 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:62518397 original size:17 final size:17
Alignment explanation
Indices: 62518375--62518408 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62518365 TACATAAAAC
*
62518375 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
62518392 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
62518409 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:62518404 original size:9 final size:9
Alignment explanation
Indices: 62518375--62518408 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
62518365 TACATAAAAC
62518375 AAAAGAAAG
1 AAAAGAAAG
*
62518384 AATAGAAA-
1 AAAAGAAAG
62518392 AAAAGAAAG
1 AAAAGAAAG
62518401 AAAAGAAA
1 AAAAGAAA
62518409 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:62519456 original size:44 final size:45
Alignment explanation
Indices: 62519373--62519495 Score: 140
Period size: 44 Copynumber: 2.7 Consensus size: 45
62519363 CAGAAATGAA
* * *
62519373 CCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTGAG
1 CCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAATAAG
* *
62519419 CCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAATAAT
1 CCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATAAG
* * * *
62519463 TCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 CCATGTAAGTCCATATTAAA-ATATGGCATTGG
62519496 CAGGATATTG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.55
45 1 0.02
46 28 0.43
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (45 bp):
CCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATAAG
Found at i:62522094 original size:17 final size:17
Alignment explanation
Indices: 62522057--62522095 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
62522047 CCATATTATT
* *
62522057 TCTTTTGTTTCTTTTCC
1 TCTTTTGTTTCTTCTCA
*
62522074 TCTTTTGTTTCTTCTGA
1 TCTTTTGTTTCTTCTCA
62522091 TCTTT
1 TCTTT
62522096 GGTTCCCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.03, C:0.21, G:0.08, T:0.69
Consensus pattern (17 bp):
TCTTTTGTTTCTTCTCA
Found at i:62522142 original size:17 final size:18
Alignment explanation
Indices: 62522112--62522146 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
62522102 CCTTCTTCTC
62522112 CCCTTTCTCCTTCCCCTT
1 CCCTTTCTCCTTCCCCTT
62522130 CCCTTTC-CCTTCCCCTT
1 CCCTTTCTCCTTCCCCTT
62522147 GGTTTGCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (18 bp):
CCCTTTCTCCTTCCCCTT
Found at i:62525085 original size:17 final size:18
Alignment explanation
Indices: 62525045--62525086 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
62525035 CCATTGCAGT
*
62525045 ATATGTAAAAATAATTTA
1 ATATATAAAAATAATTTA
* *
62525063 AAATATAAAAATTA-TTA
1 ATATATAAAAATAATTTA
62525080 ATATATA
1 ATATATA
62525087 TTAATATATG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
ATATATAAAAATAATTTA
Found at i:62525222 original size:20 final size:20
Alignment explanation
Indices: 62525193--62525231 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62525183 ATATTTTCTG
*
62525193 GTAAATCATTTTACAGAAAA
1 GTAAAACATTTTACAGAAAA
*
62525213 GTAAAACATTTTCCAGAAA
1 GTAAAACATTTTACAGAAA
62525232 TCATTTTACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (20 bp):
GTAAAACATTTTACAGAAAA
Found at i:62525495 original size:19 final size:16
Alignment explanation
Indices: 62525473--62525526 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 16
62525463 CTGTGATTGA
62525473 ATTTTTGTAAATTCAATAT
1 ATTTTT-TAAATT--ATAT
62525492 ATTTTATTAAATTATAT
1 ATTTT-TTAAATTATAT
62525509 ATTTTTATTAAATTATAT
1 A-TTTT-TTAAATTATAT
62525527 TTAATAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.15
18 16 0.48
19 11 0.33
20 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
ATTTTTTAAATTATAT
Found at i:62525514 original size:18 final size:17
Alignment explanation
Indices: 62525488--62525526 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
62525478 TGTAAATTCA
62525488 ATATATTTTATTAAATT
1 ATATATTTTATTAAATT
62525505 ATATATTTTTATTAAATT
1 ATATA-TTTTATTAAATT
62525523 ATAT
1 ATAT
62525527 TTAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATATTTTATTAAATT
Found at i:62525708 original size:21 final size:21
Alignment explanation
Indices: 62525680--62525734 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
62525670 ACTGCTATTT
* *
62525680 CTAATCTCACTGCTACATTATC
1 CTAATCTCACCGCTACAGTA-C
62525702 C-AATCTCACCGCTACAGTAC
1 CTAATCTCACCGCTACAGTAC
62525722 CTAATCTCACCGC
1 CTAATCTCACCGC
62525735 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.27, C:0.38, G:0.07, T:0.27
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAC
Found at i:62525837 original size:13 final size:13
Alignment explanation
Indices: 62525819--62525846 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62525809 TGATCTCTTC
62525819 TGGGTATTCTATA
1 TGGGTATTCTATA
62525832 TGGGTATTCTATA
1 TGGGTATTCTATA
62525845 TG
1 TG
62525847 CTCTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:62527734 original size:5 final size:5
Alignment explanation
Indices: 62527724--62527795 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
62527714 TGTTAAAAAA
* *
62527724 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
62527770 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
62527796 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:62527777 original size:19 final size:19
Alignment explanation
Indices: 62527753--62527795 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
62527743 ATTATGTTTT
62527753 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
62527772 TATATTATATTATATTATA
1 TATATTATATTATATTATA
62527791 TATAT
1 TATAT
62527796 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:62527827 original size:17 final size:17
Alignment explanation
Indices: 62527805--62527838 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62527795 TACATAAAAC
*
62527805 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
62527822 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
62527839 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:62527834 original size:9 final size:9
Alignment explanation
Indices: 62527805--62527838 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
62527795 TACATAAAAC
62527805 AAAAGAAAG
1 AAAAGAAAG
*
62527814 AATAGAAA-
1 AAAAGAAAG
62527822 AAAAGAAAG
1 AAAAGAAAG
62527831 AAAAGAAA
1 AAAAGAAA
62527839 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:62528886 original size:44 final size:45
Alignment explanation
Indices: 62528803--62528925 Score: 140
Period size: 44 Copynumber: 2.7 Consensus size: 45
62528793 CAGAAATGAA
* * *
62528803 CCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTGAG
1 CCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAATAAG
* *
62528849 CCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAATAAT
1 CCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATAAG
* * * *
62528893 TCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 CCATGTAAGTCCATATTAAA-ATATGGCATTGG
62528926 CAGGATATTG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.55
45 1 0.02
46 28 0.43
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (45 bp):
CCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATAAG
Found at i:62535130 original size:18 final size:18
Alignment explanation
Indices: 62535107--62535148 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
62535097 AATAACAAGC
62535107 TAATATAGCATTATAATA
1 TAATATAGCATTATAATA
*
62535125 TAATATATCATTATAATA
1 TAATATAGCATTATAATA
62535143 TAATAT
1 TAATAT
62535149 GAGAATCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (18 bp):
TAATATAGCATTATAATA
Found at i:62537492 original size:19 final size:18
Alignment explanation
Indices: 62537468--62537518 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
62537458 ATAAACTAAA
*
62537468 AAAATTATACAATAGTAAC
1 AAAATTATACAATA-AAAC
*
62537487 AAAATTA-GCAATAAAAC
1 AAAATTATACAATAAAAC
62537504 AATAATTATACAATA
1 AA-AATTATACAATA
62537519 TCTAAACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 5 0.19
18 10 0.37
19 12 0.44
ACGTcount: A:0.61, C:0.10, G:0.04, T:0.25
Consensus pattern (18 bp):
AAAATTATACAATAAAAC
Found at i:62537866 original size:12 final size:10
Alignment explanation
Indices: 62537827--62537875 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
62537817 TCAATTTTTT
62537827 TTTAAATTA-
1 TTTAAATTAG
*
62537836 TATAAATTAG
1 TTTAAATTAG
62537846 TTTAAATTAG
1 TTTAAATTAG
*
62537856 TTATGAAATTAA
1 TT-T-AAATTAG
62537868 TTTAAATT
1 TTTAAATT
62537876 GATTTTGACT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
9 8 0.24
10 16 0.47
11 2 0.06
12 8 0.24
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (10 bp):
TTTAAATTAG
Found at i:62537871 original size:22 final size:19
Alignment explanation
Indices: 62537827--62537875 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 19
62537817 TCAATTTTTT
*
62537827 TTTAAATTATATAAATTAG
1 TTTAAATTATATAAATTAA
62537846 TTTAAATTAGTTATGAAATTAA
1 TTTAAATTA--TAT-AAATTAA
62537868 TTTAAATT
1 TTTAAATT
62537876 GATTTTGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 9 0.35
21 3 0.12
22 14 0.54
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (19 bp):
TTTAAATTATATAAATTAA
Found at i:62538026 original size:20 final size:20
Alignment explanation
Indices: 62537989--62538029 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
62537979 ATATATTTTG
*
62537989 ATTTTATATTTTTAAAATTT
1 ATTTTATATCTTTAAAATTT
* *
62538009 ATTTTTTATCTTTGAAATTT
1 ATTTTATATCTTTAAAATTT
62538029 A
1 A
62538030 AAATTTTTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTTTATATCTTTAAAATTT
Found at i:62539984 original size:4 final size:4
Alignment explanation
Indices: 62539977--62540001 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
62539967 GCATGCATGA
62539977 ATCC ATCC ATCC ATCC ATCC ATCC A
1 ATCC ATCC ATCC ATCC ATCC ATCC A
62540002 AGTGCTATAT
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:0.28, C:0.48, G:0.00, T:0.24
Consensus pattern (4 bp):
ATCC
Found at i:62550033 original size:3 final size:3
Alignment explanation
Indices: 62550025--62550052 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
62550015 GTCCCTTGTC
62550025 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
62550053 TTTCGCAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:62557511 original size:249 final size:249
Alignment explanation
Indices: 62557162--62557650 Score: 942
Period size: 249 Copynumber: 2.0 Consensus size: 249
62557152 TCCCCCATTT
*
62557162 AATAATCTTATCATAAACTCCGAGTCAATTTAATTCAATTCTAAGTCAGCAACTGCAGTATCTAT
1 AATAATCTTATCATAAAATCCGAGTCAATTTAATTCAATTCTAAGTCAGCAACTGCAGTATCTAT
62557227 GCATGTTTTCTTTTTACCATCATGATTCATGCATGAGTCATTTTACATGCAAGGTTCATATAAAA
66 GCATGTTTTCTTTTTACCATCATGATTCATGCATGAGTCATTTTACATGCAAGGTTCATATAAAA
*
62557292 CATCTAGGTTTTTACCTCTGGTTTTGGTTGTTGTCAACTTTTCTTTAGATCAACAACTATGACAC
131 CATCTAGGTTTTTACCTCTGGTTTTGGTTGCTGTCAACTTTTCTTTAGATCAACAACTATGACAC
*
62557357 TGATGTTATCCAAGCTTTTTCGTCCAAGAGCCAACCAAGTAAGCAATTTAATTC
196 TGATGTTATCCAAGCTTTTTCGTCCAAAAGCCAACCAAGTAAGCAATTTAATTC
62557411 AATAATCTTATCATAAAATCCGAGTCAATTTAATTCAATTCTAAGTCAGCAACTGCAGTATCTAT
1 AATAATCTTATCATAAAATCCGAGTCAATTTAATTCAATTCTAAGTCAGCAACTGCAGTATCTAT
62557476 GCATGTTTTCTTTTTACCATCATGATTCATGCATGAGTCATTTTACATGCAAGGTTCATATAAAA
66 GCATGTTTTCTTTTTACCATCATGATTCATGCATGAGTCATTTTACATGCAAGGTTCATATAAAA
62557541 CATCTAGGTTTTTACCTCTGGTTTTGGTTGCTGTCAACTTTTCTTTAGATCAACAACTATGACAC
131 CATCTAGGTTTTTACCTCTGGTTTTGGTTGCTGTCAACTTTTCTTTAGATCAACAACTATGACAC
*
62557606 TGATGTTATCCAAGCTTTTTCGTCCAAAAGCCAACCGAGTAAGCA
196 TGATGTTATCCAAGCTTTTTCGTCCAAAAGCCAACCAAGTAAGCA
62557651 GTGCAGCGGC
Statistics
Matches: 236, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
249 236 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (249 bp):
AATAATCTTATCATAAAATCCGAGTCAATTTAATTCAATTCTAAGTCAGCAACTGCAGTATCTAT
GCATGTTTTCTTTTTACCATCATGATTCATGCATGAGTCATTTTACATGCAAGGTTCATATAAAA
CATCTAGGTTTTTACCTCTGGTTTTGGTTGCTGTCAACTTTTCTTTAGATCAACAACTATGACAC
TGATGTTATCCAAGCTTTTTCGTCCAAAAGCCAACCAAGTAAGCAATTTAATTC
Found at i:62565909 original size:27 final size:27
Alignment explanation
Indices: 62565865--62565919 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
62565855 ATACGTGTTT
*** *
62565865 ATGTTCATTTACTTAATGCTCATGAAC
1 ATGTTCATTTAAACAATGCTCAAGAAC
*
62565892 ATGTTCATTTAAACAATGTTCAAGAAC
1 ATGTTCATTTAAACAATGCTCAAGAAC
62565919 A
1 A
62565920 ATATTCATGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (27 bp):
ATGTTCATTTAAACAATGCTCAAGAAC
Found at i:62579488 original size:18 final size:19
Alignment explanation
Indices: 62579465--62579500 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62579455 AACTCAAATA
62579465 CCAAATT-AAGCATCAAAG
1 CCAAATTCAAGCATCAAAG
*
62579483 CCAAATTCAAGTATCAAA
1 CCAAATTCAAGCATCAAA
62579501 CCCTAGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.50, C:0.22, G:0.08, T:0.19
Consensus pattern (19 bp):
CCAAATTCAAGCATCAAAG
Found at i:62587623 original size:13 final size:14
Alignment explanation
Indices: 62587601--62587634 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
62587591 TTGATCGGAC
*
62587601 TAAATAAAATTAA-
1 TAAATTAAATTAAT
62587614 TAAATTAAATTAAT
1 TAAATTAAATTAAT
62587628 TAAATTA
1 TAAATTA
62587635 GATTCACACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAATTAAATTAAT
Found at i:62588745 original size:21 final size:21
Alignment explanation
Indices: 62588721--62588769 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
62588711 AAAATAACGT
62588721 AAATTTAAAATAAAAAA-TAAA
1 AAATTT-AAATAAAAAACTAAA
62588742 AAATTTAAATAAAAAACTAAA
1 AAATTTAAATAAAAAACTAAA
62588763 ATAATTT
1 A-AATTT
62588770 TTTTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.38
21 11 0.42
22 5 0.19
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATTTAAATAAAAAACTAAA
Found at i:62590564 original size:8 final size:8
Alignment explanation
Indices: 62590551--62590575 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
62590541 CTAACTAGCT
62590551 TCGCTTTA
1 TCGCTTTA
62590559 TCGCTTTA
1 TCGCTTTA
62590567 TCGCTTTA
1 TCGCTTTA
62590575 T
1 T
62590576 TATTATTAAT
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:0.12, C:0.24, G:0.12, T:0.52
Consensus pattern (8 bp):
TCGCTTTA
Found at i:62595824 original size:24 final size:26
Alignment explanation
Indices: 62595797--62595848 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
62595787 TGGTGTTTTT
62595797 TATTTTTATGT-AA-TTTTTAAAAAA
1 TATTTTTATGTAAAGTTTTTAAAAAA
* *
62595821 TATTTTTCTTTAAAGTTTTTAAAAAA
1 TATTTTTATGTAAAGTTTTTAAAAAA
62595847 TA
1 TA
62595849 ATCATACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.38
25 2 0.08
26 13 0.54
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (26 bp):
TATTTTTATGTAAAGTTTTTAAAAAA
Found at i:62599559 original size:15 final size:15
Alignment explanation
Indices: 62599539--62599592 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
62599529 TACTTAATTT
*
62599539 AAAATTTAATTAATC
1 AAAACTTAATTAATC
* *
62599554 AAAA-TTAAGTAATT
1 AAAACTTAATTAATC
*
62599568 AAACCTTAATTAATC
1 AAAACTTAATTAATC
62599583 AAAACTTAAT
1 AAAACTTAAT
62599593 CATACTCAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (15 bp):
AAAACTTAATTAATC
Found at i:62605642 original size:106 final size:106
Alignment explanation
Indices: 62605457--62605670 Score: 428
Period size: 106 Copynumber: 2.0 Consensus size: 106
62605447 GTGACACTTT
62605457 AATATTGTTGTTAGATTTAGATACTAAAGTAAATAATAAAAAAAGTATAGTTATTAAAGTGGATT
1 AATATTGTTGTTAGATTTAGATACTAAAGTAAATAATAAAAAAAGTATAGTTATTAAAGTGGATT
62605522 TAGTTGCAAAGTTGAAGGGTTAAAAATTATATTATGAAAAG
66 TAGTTGCAAAGTTGAAGGGTTAAAAATTATATTATGAAAAG
62605563 AATATTGTTGTTAGATTTAGATACTAAAGTAAATAATAAAAAAAGTATAGTTATTAAAGTGGATT
1 AATATTGTTGTTAGATTTAGATACTAAAGTAAATAATAAAAAAAGTATAGTTATTAAAGTGGATT
62605628 TAGTTGCAAAGTTGAAGGGTTAAAAATTATATTATGAAAAG
66 TAGTTGCAAAGTTGAAGGGTTAAAAATTATATTATGAAAAG
62605669 AA
1 AA
62605671 ATGGTTAATT
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 108 1.00
ACGTcount: A:0.46, C:0.02, G:0.18, T:0.35
Consensus pattern (106 bp):
AATATTGTTGTTAGATTTAGATACTAAAGTAAATAATAAAAAAAGTATAGTTATTAAAGTGGATT
TAGTTGCAAAGTTGAAGGGTTAAAAATTATATTATGAAAAG
Found at i:62614644 original size:3 final size:3
Alignment explanation
Indices: 62614636--62614682 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
62614626 CTTTCTTTCT
62614636 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
62614683 TACCTTCATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:62616627 original size:18 final size:18
Alignment explanation
Indices: 62616606--62616641 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
62616596 TTCATTGTTT
*
62616606 TAAATTAATAAAACTAAA
1 TAAATAAATAAAACTAAA
62616624 TAAATAAATAAAACTAAA
1 TAAATAAATAAAACTAAA
62616642 ATTAATTGAA
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:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAATAAATAAAACTAAA
Found at i:62620682 original size:19 final size:19
Alignment explanation
Indices: 62620646--62620685 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
62620636 TTTAGATCAA
*
62620646 CTTTACACTAGTTATTATG
1 CTTTACACTAGGTATTATG
62620665 CTTTATCACTAGGT-TTATG
1 CTTTA-CACTAGGTATTATG
62620684 CT
1 CT
62620686 AGATGTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.47
Consensus pattern (19 bp):
CTTTACACTAGGTATTATG
Found at i:62629393 original size:14 final size:15
Alignment explanation
Indices: 62629368--62629406 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
62629358 TTAGATATAA
*
62629368 TTATTATTTAAATAT
1 TTATTATATAAATAT
62629383 TT-TTATATAAATAT
1 TTATTATATAAATAT
62629397 TTATTATATA
1 TTATTATATA
62629407 CTGATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATTATATAAATAT
Found at i:62631652 original size:23 final size:23
Alignment explanation
Indices: 62631626--62631672 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
62631616 AAAATTATTA
62631626 AAAATCATAAAAATATATCAAAT
1 AAAATCATAAAAATATATCAAAT
* * *
62631649 AAAATTATAAATATATATTAAAT
1 AAAATCATAAAAATATATCAAAT
62631672 A
1 A
62631673 TTAAAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAATCATAAAAATATATCAAAT
Found at i:62631697 original size:20 final size:19
Alignment explanation
Indices: 62631648--62631882 Score: 68
Period size: 19 Copynumber: 12.6 Consensus size: 19
62631638 ATATATCAAA
*
62631648 TAAAATTATA-AATATATAT
1 TAAAATTATATAA-AAATAT
62631667 T-AAA-TAT-TAAAAATAT
1 TAAAATTATATAAAAATAT
* *
62631683 TAAAATTGATATAAAATTTT
1 TAAAATT-ATATAAAAATAT
62631703 TAAAATTATA-AAAAA-AT
1 TAAAATTATATAAAAATAT
* * *
62631720 AAAAACT-TATAAATAT-T
1 TAAAATTATATAAAAATAT
* *
62631737 ATAAAAATATAT-AATATAT
1 -TAAAATTATATAAAAATAT
* * * *
62631756 AATAAATTCTA-ATAAATTAC
1 TA-AAATTATATA-AAAATAT
* * *
62631776 AAAAAATATATAAAATTAAT
1 TAAAATTATATAAAAAT-AT
* *
62631796 AAAAACTTAT-TTAAAATAT
1 TAAAA-TTATATAAAAATAT
* *
62631815 TTAAATTTTA-AAAACATAT
1 TAAAATTATATAAAA-ATAT
* *
62631834 TAGAATTCT-T-AAAA-AT
1 TAAAATTATATAAAAATAT
*
62631850 TATAAATAATTATAAAAATAT
1 TA-AAATTA-TATAAAAATAT
62631871 TAAAATTGATAT
1 TAAAATT-ATAT
62631883 TAACTTATAA
Statistics
Matches: 158, Mismatches: 33, Indels: 49
0.66 0.14 0.20
Matches are distributed among these distances:
16 12 0.08
17 23 0.15
18 29 0.18
19 43 0.27
20 43 0.27
21 8 0.05
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (19 bp):
TAAAATTATATAAAAATAT
Found at i:62631714 original size:28 final size:27
Alignment explanation
Indices: 62631612--62631877 Score: 87
Period size: 28 Copynumber: 9.7 Consensus size: 27
62631602 ATATTTTTTC
*
62631612 TATA-AAAATTATTAAAAATCATAAAA-A
1 TATATAAAA-TATT-AAAATTATAAAATA
*
62631639 TATAT-CAA-A-TAAAATTAT-AAATA
1 TATATAAAATATTAAAATTATAAAATA
* *
62631662 TATATTAAATATTAAAAATATTAAAAT-
1 TATATAAAATATTAAAATTA-TAAAATA
*
62631689 TGATATAAAATTTTTAAAATTATAAAA-A
1 T-ATATAAAA-TATTAAAATTATAAAATA
*
62631717 AATA-AAAACT-TATAAATATTATAAAA-A
1 TATATAAAA-TAT-TAAA-ATTATAAAATA
* * *
62631744 TATATAATATATAATAAATTCTAATAA-A
1 TATATAAAATATTA-AAATTATAA-AATA
* *
62631772 TTACAAAAAATATATAAAATTAATAAAA-A
1 -TATATAAAATAT-TAAAATT-ATAAAATA
* * *
62631801 CTTATTTAAAATATTTAAATTTTAAAA-A
1 --TATATAAAATATTAAAATTATAAAATA
* * *
62631829 CATATTAGAATTCTTAAAAATTAT-AAATA
1 TATA-TA-AAATATT-AAAATTATAAAATA
62631858 -ATTATAAAAATATTAAAATT
1 TA-TAT-AAAATATTAAAATT
62631878 GATATTAACT
Statistics
Matches: 182, Mismatches: 31, Indels: 52
0.69 0.12 0.20
Matches are distributed among these distances:
22 3 0.02
23 13 0.07
24 3 0.02
25 3 0.02
26 18 0.10
27 40 0.22
28 46 0.25
29 42 0.23
30 14 0.08
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (27 bp):
TATATAAAATATTAAAATTATAAAATA
Found at i:62631716 original size:9 final size:9
Alignment explanation
Indices: 62631612--62631914 Score: 109
Period size: 10 Copynumber: 31.9 Consensus size: 9
62631602 ATATTTTTTC
62631612 TATAAAAAT
1 TATAAAAAT
62631621 TATTAAAAAT
1 TA-TAAAAAT
*
62631631 CATAAAAAT
1 TATAAAAAT
62631640 ATATCAAATAAAAT
1 -TAT---A-AAAAT
*
62631654 TATAAATA-
1 TATAAAAAT
*
62631662 TATATTAAA-
1 TATA-AAAAT
62631671 TATTAAAAA-
1 TA-TAAAAAT
*
62631680 TATTAAAAT
1 TATAAAAAT
62631689 TGATATAAAAT
1 T-ATA-AAAAT
* *
62631700 TTTTAAAAT
1 TATAAAAAT
62631709 TATAAAAA-
1 TATAAAAAT
*
62631717 AATAAAAACT
1 TATAAAAA-T
*
62631727 TATAAATAT
1 TATAAAAAT
62631736 TATAAAAA-
1 TATAAAAAT
*
62631744 TAT-ATAAT
1 TATAAAAAT
62631752 ATATAATAAAT
1 -TATAA-AAAT
*
62631763 TCTAATAAAT
1 TATAA-AAAT
* *
62631773 TACAAAAAA
1 TATAAAAAT
62631782 TATATAAAAT
1 TATA-AAAAT
62631792 TAATAAAAACT
1 T-ATAAAAA-T
*
62631803 TATTTAAAA-
1 TA-TAAAAAT
**
62631812 TATTTAAAT
1 TATAAAAAT
* *
62631821 TTTAAAAACA
1 TATAAAAA-T
* *
62631831 TATTAGAAT
1 TATAAAAAT
*
62631840 TCTTAAAAAT
1 T-ATAAAAAT
62631850 TATAAATAAT
1 TATAAA-AAT
62631860 TATAAAAA-
1 TATAAAAAT
*
62631868 TATTAAAAT
1 TATAAAAAT
* *
62631877 TGATATTAACT
1 T-ATA-AAAAT
*
62631888 TATAAAAGT
1 TATAAAAAT
62631897 TATAAAAAAT
1 TAT-AAAAAT
*
62631907 CATAAAAA
1 TATAAAAA
62631915 CACTTAAATT
Statistics
Matches: 219, Mismatches: 46, Indels: 58
0.68 0.14 0.18
Matches are distributed among these distances:
7 3 0.01
8 31 0.14
9 76 0.35
10 77 0.35
11 23 0.11
13 4 0.02
14 5 0.02
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (9 bp):
TATAAAAAT
Found at i:62631746 original size:11 final size:10
Alignment explanation
Indices: 62631612--62631800 Score: 72
Period size: 9 Copynumber: 19.8 Consensus size: 10
62631602 ATATTTTTTC
62631612 TATAAAAAT-
1 TATAAAAATA
62631621 TATTAAAAAT-
1 TA-TAAAAATA
*
62631631 CATAAAAATA
1 TATAAAAATA
*
62631641 TATCAAATAAAA
1 TAT-AAA-AATA
*
62631653 T-TATAAATA
1 TATAAAAATA
*
62631662 TATATTAAATA
1 TATA-AAAATA
62631673 T-TAAAAATA
1 TATAAAAATA
*
62631682 T-TAAAATTGA
1 TATAAAAAT-A
62631692 TAT-AAAAT-
1 TATAAAAATA
* *
62631700 TTTTAAAAT-
1 TATAAAAATA
62631709 TATAAAAA-A
1 TATAAAAATA
62631718 -ATAAAAACT-
1 TATAAAAA-TA
*
62631727 TATAAATAT-
1 TATAAAAATA
62631736 TATAAAAATA
1 TATAAAAATA
62631746 TAT---AATA
1 TATAAAAATA
62631753 TATAATAAAT-
1 TATAA-AAATA
*
62631763 TCTAATAAAT-
1 TATAA-AAATA
*
62631773 TACAAAAAATA
1 TA-TAAAAATA
*
62631784 TATAAAATTA
1 TATAAAAATA
62631794 -ATAAAAA
1 TATAAAAA
62631801 CTTATTTAAA
Statistics
Matches: 141, Mismatches: 19, Indels: 40
0.70 0.09 0.20
Matches are distributed among these distances:
7 7 0.05
8 9 0.06
9 51 0.36
10 51 0.36
11 19 0.13
12 4 0.03
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (10 bp):
TATAAAAATA
Found at i:62633211 original size:134 final size:134
Alignment explanation
Indices: 62632971--62633230 Score: 403
Period size: 134 Copynumber: 1.9 Consensus size: 134
62632961 AGTATCCAAT
* * * * * *
62632971 ATACAGTATAACTACAAGAAATAAAGAAATTCATGATAATTTTCTAAGAAATCAACTAGGAATCT
1 ATACAGTATAACCACAAGAAATAAAGAAACTCATAATAAATTCCTAAGAAATCAACTAAGAATCT
* * *
62633036 TCAATCTTGACAACAATTTGTTTCATAATCGGCTTCAATGGTGTTTTTTTAGTTGTTTTCTCATT
66 TCAATCTTGACAACAATTTGCTTCACAATCGGCTTCAATGGTGTTTTTTGAGTTGTTTTCTCATT
62633101 CAAG
131 CAAG
* * *
62633105 ATACAGTATAACCACAATAAATAAAGGAACTCATAATAAATTCCTAAGAAATCGACTAAGAATCT
1 ATACAGTATAACCACAAGAAATAAAGAAACTCATAATAAATTCCTAAGAAATCAACTAAGAATCT
*
62633170 TCAATCTTGACAACAATTTGCTTCACAGTCGGCTTCAATGGTGTTTTTTGAGTTGTTTTCT
66 TCAATCTTGACAACAATTTGCTTCACAATCGGCTTCAATGGTGTTTTTTGAGTTGTTTTCT
62633231 TGAATATTCT
Statistics
Matches: 113, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
134 113 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (134 bp):
ATACAGTATAACCACAAGAAATAAAGAAACTCATAATAAATTCCTAAGAAATCAACTAAGAATCT
TCAATCTTGACAACAATTTGCTTCACAATCGGCTTCAATGGTGTTTTTTGAGTTGTTTTCTCATT
CAAG
Found at i:62633758 original size:9 final size:9
Alignment explanation
Indices: 62633744--62633816 Score: 58
Period size: 9 Copynumber: 7.9 Consensus size: 9
62633734 GTACTATTAA
62633744 TTTTATAAT
1 TTTTATAAT
*
62633753 TTTTATAAAA
1 TTTTAT-AAT
* *
62633763 TATTAGAAT
1 TTTTATAAT
* *
62633772 TTATTAGAAA
1 TT-TTATAAT
62633782 TTTTAT-AT
1 TTTTATAAT
62633790 TTTTGATAAT
1 TTTT-ATAAT
*
62633800 GTTTATAAT
1 TTTTATAAT
62633809 TTTTATAA
1 TTTTATAA
62633817 GTTCACATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
8 5 0.10
9 26 0.52
10 19 0.38
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (9 bp):
TTTTATAAT
Found at i:62633804 original size:18 final size:17
Alignment explanation
Indices: 62633783--62633829 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
62633773 TATTAGAAAT
62633783 TTTATATTTTTGATAATG
1 TTTATATTTTTGATAA-G
62633801 TTTATAATTTTT-ATAAG
1 TTTAT-ATTTTTGATAAG
* *
62633818 TTCACATTTTTG
1 TTTATATTTTTG
62633830 TATTTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 6 0.24
17 4 0.16
18 9 0.36
19 6 0.24
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.60
Consensus pattern (17 bp):
TTTATATTTTTGATAAG
Found at i:62633812 original size:19 final size:17
Alignment explanation
Indices: 62633741--62633816 Score: 64
Period size: 19 Copynumber: 4.2 Consensus size: 17
62633731 TATGTACTAT
62633741 TAATTTTATAATTTTTA
1 TAATTTTATAATTTTTA
* *
62633758 TAAAATATTAGAATTTATTA
1 T--AATTTTATAATTT-TTA
*
62633778 GAAATTTTAT-ATTTTTGA
1 -TAATTTTATAATTTTT-A
62633796 TAATGTTTATAATTTTTA
1 TAAT-TTTATAATTTTTA
62633814 TAA
1 TAA
62633817 GTTCACATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
17 6 0.13
18 14 0.30
19 23 0.50
20 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TAATTTTATAATTTTTA
Found at i:62638043 original size:37 final size:37
Alignment explanation
Indices: 62637989--62638079 Score: 155
Period size: 37 Copynumber: 2.5 Consensus size: 37
62637979 AATAATTTGA
* *
62637989 CACCCAGTGTCTTATCGGCTAAACCGAAGTAAATTGG
1 CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGG
*
62638026 CGCCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGG
1 CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGG
62638063 CACCCAGTGCCTCATCG
1 CACCCAGTGCCTCATCG
62638080 AATATATCTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.21
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGG
Found at i:62639078 original size:22 final size:21
Alignment explanation
Indices: 62639046--62639088 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
62639036 TATTATTTTC
62639046 TTTATTTATTACATTTACTTA
1 TTTATTTATTACATTTACTTA
*
62639067 TTTATTTTATTATATTTACTTA
1 TTTA-TTTATTACATTTACTTA
62639089 AATATTAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTATTTATTACATTTACTTA
Found at i:62639094 original size:22 final size:22
Alignment explanation
Indices: 62639050--62639094 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
62639040 ATTTTCTTTA
**
62639050 TTTATTACATTTACTTATTTAT
1 TTTATTACATTTACTTAAATAT
*
62639072 TTTATTATATTTACTTAAATAT
1 TTTATTACATTTACTTAAATAT
62639094 T
1 T
62639095 AAGTGATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTATTACATTTACTTAAATAT
Found at i:62650040 original size:22 final size:21
Alignment explanation
Indices: 62650000--62650041 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
62649990 CAAAATGGAA
62650000 TATTATTATTGTAGAGCTTAT
1 TATTATTATTGTAGAGCTTAT
* *
62650021 TATTATTTATTTTAGGGCTTA
1 TATTA-TTATTGTAGAGCTTA
62650042 ACCACCTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.55
Consensus pattern (21 bp):
TATTATTATTGTAGAGCTTAT
Found at i:62659140 original size:3 final size:3
Alignment explanation
Indices: 62659124--62659158 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
62659114 ATTGGATTGT
62659124 GAA G-A GAA GAAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GA
62659159 GAGGAGATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:62663787 original size:21 final size:21
Alignment explanation
Indices: 62663763--62663812 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
62663753 TTTTGCTTCT
62663763 AAATAACACAAA-TAAAATATA
1 AAATAACACAAACTAAAAT-TA
* *
62663784 AAATAAAAGAAACTAAAATTA
1 AAATAACACAAACTAAAATTA
*
62663805 AACTAACA
1 AAATAACA
62663813 GATTATAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.70, C:0.10, G:0.02, T:0.18
Consensus pattern (21 bp):
AAATAACACAAACTAAAATTA
Found at i:62665025 original size:13 final size:13
Alignment explanation
Indices: 62665007--62665031 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62664997 TAAAGCTACC
62665007 TTGGCAAAAGAAT
1 TTGGCAAAAGAAT
62665020 TTGGCAAAAGAA
1 TTGGCAAAAGAA
62665032 ACTTGTTGTG
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:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (13 bp):
TTGGCAAAAGAAT
Found at i:62666180 original size:29 final size:29
Alignment explanation
Indices: 62666126--62666251 Score: 110
Period size: 30 Copynumber: 4.0 Consensus size: 29
62666116 GGCCCATTTT
*
62666126 TATTTTAAAAATTTTAAAAAATTAAAAAAAA
1 TATTTT-AAAATTTAAAAAAATT-AAAAAAA
*
62666157 TATTTTAAAA-TTAAAAAAATTAAAAAAG
1 TATTTTAAAATTTAAAAAAATTAAAAAAA
62666185 TATTTTAAAAATATTTTAAAATTAAAAAATTAAAAAAA
1 TATTTT--AAA-A-TTT---A--AAAAAATTAAAAAAA
*
62666223 TATTTTAAAATTAAAAAAAAATTAAAAAA
1 TATTTTAAAATT-TAAAAAAATTAAAAAA
62666252 GTATGTAAAA
Statistics
Matches: 80, Mismatches: 4, Indels: 23
0.75 0.04 0.21
Matches are distributed among these distances:
28 12 0.15
29 10 0.12
30 21 0.26
31 7 0.09
32 1 0.01
33 2 0.03
34 2 0.03
35 1 0.01
36 4 0.05
38 20 0.25
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (29 bp):
TATTTTAAAATTTAAAAAAATTAAAAAAA
Found at i:62666181 original size:8 final size:9
Alignment explanation
Indices: 62666163--62666283 Score: 50
Period size: 9 Copynumber: 12.6 Consensus size: 9
62666153 AAAATATTTT
62666163 AAAATTAAA
1 AAAATTAAA
62666172 AAAATTAAA
1 AAAATTAAA
62666181 AAAGTATTTTAAA
1 AAA--A--TTAAA
* **
62666194 AATATT-TT
1 AAAATTAAA
62666202 AAAATT-AA
1 AAAATTAAA
62666210 AAAATTAAA
1 AAAATTAAA
***
62666219 AAAATATTTT
1 AAAAT-TAAA
62666229 AAAATTAAAAA
1 AAAATT--AAA
62666240 AAAATTAAA
1 AAAATTAAA
62666249 AAAGTATGTAAA
1 AAA--AT-TAAA
**
62666261 AAATATT-TT
1 AAA-ATTAAA
62666270 AAAATTAAA
1 AAAATTAAA
62666279 AAAAT
1 AAAAT
62666284 AAATATATTT
Statistics
Matches: 84, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
8 14 0.17
9 36 0.43
10 7 0.08
11 13 0.15
12 7 0.08
13 7 0.08
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAATTAAA
Found at i:62666183 original size:38 final size:36
Alignment explanation
Indices: 62666130--62666223 Score: 116
Period size: 38 Copynumber: 2.5 Consensus size: 36
62666120 CATTTTTATT
* *
62666130 TTAAAAATTTTAAAAAATTAAAAAAAATATTTTAAAA
1 TTAAAAAATTAAAAAAATT-AAAAAAATATTTTAAAA
**
62666167 TTAAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
1 TT-AAAAAATTAAAAAA--ATTAAAAAAATATTTTAAAA
62666206 TTAAAAAATTAAAAAAAT
1 TTAAAAAATTAAAAAAAT
62666224 ATTTTAAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
36 2 0.04
37 2 0.04
38 26 0.52
39 17 0.34
40 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (36 bp):
TTAAAAAATTAAAAAAATTAAAAAAATATTTTAAAA
Found at i:62666195 original size:39 final size:39
Alignment explanation
Indices: 62666152--62666283 Score: 167
Period size: 39 Copynumber: 3.6 Consensus size: 39
62666142 AAAAATTAAA
62666152 AAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATTTT
*
62666191 AAAAATATTTTAAAATT-AAAAAATTAAAAAAATATTTT
1 AAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATTTT
* *
62666229 --AAA-A--TT--AA--AAAAAAATTAAAAAAGTATGTA
1 AAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATTTT
62666259 AAAAATATTTTAAAATTAAAAAAAT
1 AAAAATATTTTAAAATTAAAAAAAT
62666284 AAATATATTT
Statistics
Matches: 79, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
30 18 0.23
31 2 0.03
32 3 0.04
33 3 0.04
35 3 0.04
36 3 0.04
37 2 0.03
38 20 0.25
39 25 0.32
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (39 bp):
AAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATTTT
Found at i:62666227 original size:38 final size:38
Alignment explanation
Indices: 62666152--62666286 Score: 169
Period size: 38 Copynumber: 3.7 Consensus size: 38
62666142 AAAAATTAAA
62666152 AAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATTTT
1 AAAAATATTTTAAAATT-AAAAAATTAAAAAAGTATTTT
*
62666191 AAAAATATTTTAAAATTAAAAAATTAAAAAAATATTTT
1 AAAAATATTTTAAAATTAAAAAATTAAAAAAGTATTTT
* *
62666229 --AAA-A--TT-AAA--AAAAAATTAAAAAAGTATGTA
1 AAAAATATTTTAAAATTAAAAAATTAAAAAAGTATTTT
*
62666259 AAAAATATTTTAAAATTAAAAAAATAAA
1 AAAAATATTTTAAAATTAAAAAATTAAA
62666287 TATATTTATT
Statistics
Matches: 83, Mismatches: 5, Indels: 17
0.79 0.05 0.16
Matches are distributed among these distances:
30 18 0.22
32 6 0.07
33 3 0.04
35 3 0.04
36 6 0.07
38 30 0.36
39 17 0.20
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (38 bp):
AAAAATATTTTAAAATTAAAAAATTAAAAAAGTATTTT
Found at i:62666250 original size:68 final size:66
Alignment explanation
Indices: 62666139--62666286 Score: 242
Period size: 68 Copynumber: 2.2 Consensus size: 66
62666129 TTTAAAAATT
* *
62666139 TTAAAAAATTAAAAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAATATTTTAA
1 TTAAAAAATT-AAAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATGTAAAAAATATTTTAA
62666204 AA
65 AA
62666206 TTAAAAAATTAAAAAAATATTTTAAAATTAAAAAAAAATTAAAAAAGTATGTAAAAAATATTTTA
1 TTAAAAAATTAAAAAAATATTTTAAAATT--AAAAAAATTAAAAAAGTATGTAAAAAATATTTTA
62666271 AAA
64 AAA
*
62666274 TTAAAAAAATAAA
1 TTAAAAAATTAAA
62666287 TATATTTATT
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
66 19 0.25
67 10 0.13
68 47 0.62
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (66 bp):
TTAAAAAATTAAAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATGTAAAAAATATTTTAAA
A
Found at i:62669702 original size:22 final size:22
Alignment explanation
Indices: 62669659--62669702 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
62669649 AGAGATCAAA
*
62669659 GTAAAAGTTTATTATTACTAAT
1 GTAAAAGTTTATAATTACTAAT
*
62669681 GTAAAATTTTATAAATTA-TAAT
1 GTAAAAGTTTAT-AATTACTAAT
62669703 AGGTCTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (22 bp):
GTAAAAGTTTATAATTACTAAT
Found at i:62674025 original size:15 final size:15
Alignment explanation
Indices: 62673985--62674035 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
62673975 TCCATCTCTC
62673985 TTTATTTGTTTTATAATA
1 TTTATTT-TTTT-T-ATA
*
62674003 TTT-GTTTTTTTATA
1 TTTATTTTTTTTATA
62674017 TTTATTTTTTTTATCA
1 TTTATTTTTTTTAT-A
62674033 TTT
1 TTT
62674036 CAAGACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 6 0.21
15 10 0.34
16 8 0.28
17 2 0.07
18 3 0.10
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.75
Consensus pattern (15 bp):
TTTATTTTTTTTATA
Found at i:62677161 original size:45 final size:46
Alignment explanation
Indices: 62677090--62677205 Score: 184
Period size: 46 Copynumber: 2.6 Consensus size: 46
62677080 TATGTATGAT
* *
62677090 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
62677133 CGCTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
62677179 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
62677206 AGTACTCAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
43 9 0.14
44 5 0.08
45 20 0.30
46 32 0.48
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:62678882 original size:3 final size:3
Alignment explanation
Indices: 62678863--62678912 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
62678853 AATTTATTTC
* * *
62678863 ATA AT- ATA ATA ACA ATA ATA TTA ATA ATA ACA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
62678909 ATA A
1 ATA A
62678913 AATGTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:62678891 original size:18 final size:18
Alignment explanation
Indices: 62678863--62678909 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
62678853 AATTTATTTC
62678863 ATAAT-ATAATAACAATA
1 ATAATAATAATAACAATA
*
62678880 ATATTAATAATAACAATA
1 ATAATAATAATAACAATA
62678898 ATAATAA-AATAA
1 ATAATAATAATAA
62678910 TAAAATGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAACAATA
Found at i:62690343 original size:25 final size:26
Alignment explanation
Indices: 62690315--62690379 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
62690305 TCAAATAAAC
*
62690315 AATATATAAAAAAACA-CTTAAAATG
1 AATATATAAAAAAACAGCTTAAAATA
* *
62690340 AATA-ATAACAAAACAGTTTAAAATA
1 AATATATAAAAAAACAGCTTAAAATA
62690365 AATAATATAAAAAAA
1 AAT-ATATAAAAAAA
62690380 TAACATATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 10 0.30
25 14 0.42
26 1 0.03
27 8 0.24
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.23
Consensus pattern (26 bp):
AATATATAAAAAAACAGCTTAAAATA
Found at i:62690530 original size:27 final size:27
Alignment explanation
Indices: 62690406--62690537 Score: 112
Period size: 27 Copynumber: 5.0 Consensus size: 27
62690396 TTTTTAAATA
* *
62690406 ATATAT-AAAAATTTTAAAT-GATAAT
1 ATATATAAAAAATTTAAAATAAATAAT
* * *
62690431 ATATAT-AATAGTTTAAAATAAGTAAT
1 ATATATAAAAAATTTAAAATAAATAAT
* *
62690457 ATA-ATAAAAAATTTTAAAGAAATAAT
1 ATATATAAAAAATTTAAAATAAATAAT
** * *
62690483 AGGTA-AAAATAGTTTAGAATAAATAAT
1 ATATATAAAA-AATTTAAAATAAATAAT
*
62690510 ATATATAAAAAACTTAAAATAAATAAT
1 ATATATAAAAAATTTAAAATAAATAAT
62690537 A
1 A
62690538 ATAAAATAGG
Statistics
Matches: 81, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
25 18 0.22
26 27 0.33
27 32 0.40
28 4 0.05
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (27 bp):
ATATATAAAAAATTTAAAATAAATAAT
Done.