Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 193 of 216
Found at i:60206607 original size:18 final size:18
Alignment explanation
Indices: 60206556--60206608 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
60206546 ATAAAAACTA
* *
60206556 TTTT-AAAAAATAAAATT
1 TTTTAAAAAAATTAATTT
* *
60206573 TGTTAAAAAAGTATAATTT
1 TTTTAAAAAAAT-TAATTT
60206592 TTTTAAAAAAATTAATT
1 TTTTAAAAAAATTAATT
60206609 AATTGCTAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 3 0.11
18 11 0.39
19 14 0.50
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (18 bp):
TTTTAAAAAAATTAATTT
Found at i:60207446 original size:5 final size:5
Alignment explanation
Indices: 60207436--60207461 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
60207426 ATGCACTTGC
60207436 AGGTG AGGTG AGGTG AGGTG AGGTG A
1 AGGTG AGGTG AGGTG AGGTG AGGTG A
60207462 CCATATAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.58, T:0.19
Consensus pattern (5 bp):
AGGTG
Found at i:60210505 original size:37 final size:38
Alignment explanation
Indices: 60210441--60210516 Score: 113
Period size: 37 Copynumber: 2.0 Consensus size: 38
60210431 GAATATATAA
60210441 TAAATATATTTTTTATTTTTTTATTTTAAAAT-ATTTT
1 TAAATATATTTTTTATTTTTTTATTTTAAAATAATTTT
60210478 TAAA-ATACTTTTTTA-TTTTTTATTTTTAAAATAATTTT
1 TAAATATA-TTTTTTATTTTTTTA-TTTTAAAATAATTTT
60210516 T
1 T
60210517 TGGTGTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
36 10 0.28
37 20 0.56
38 6 0.17
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (38 bp):
TAAATATATTTTTTATTTTTTTATTTTAAAATAATTTT
Found at i:60210525 original size:26 final size:26
Alignment explanation
Indices: 60210472--60210527 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
60210462 TATTTTAAAA
* * *
60210472 TATTTTTAAAATACTTTTTTATTTTT
1 TATTTTTAAAATAATTTTTTAGTGTT
*
60210498 TATTTTTAAAATAATTTTTTGGTGTT
1 TATTTTTAAAATAATTTTTTAGTGTT
60210524 TATT
1 TATT
60210528 AAAAAATGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (26 bp):
TATTTTTAAAATAATTTTTTAGTGTT
Found at i:60215669 original size:27 final size:28
Alignment explanation
Indices: 60215611--60215679 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
60215601 AAATTTTAGA
*
60215611 TTGTTGGATATTGATATATGTCTTGAAT
1 TTGTTGGATATTGATATATGTCTTGAAC
* *
60215639 TTGTTAGATATTGAT-TATGT-TTTAACC
1 TTGTTGGATATTGATATATGTCTTGAA-C
60215666 TTGTTGGATATTGA
1 TTGTTGGATATTGA
60215680 ATTGATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 4 0.11
27 18 0.50
28 14 0.39
ACGTcount: A:0.25, C:0.04, G:0.20, T:0.51
Consensus pattern (28 bp):
TTGTTGGATATTGATATATGTCTTGAAC
Found at i:60217092 original size:14 final size:14
Alignment explanation
Indices: 60217069--60217108 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
60217059 ACAAAAAAGT
*
60217069 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
60217083 AAATCATTTTACGG
1 AAAACATTTTACAG
60217097 AAAACATTTTAC
1 AAAACATTTTAC
60217109 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:60221401 original size:20 final size:19
Alignment explanation
Indices: 60221363--60221401 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
60221353 GGTGAACACC
*
60221363 AGAACACTCGATACAAAGA
1 AGAACACCCGATACAAAGA
*
60221382 AGAACACCCAGATTCAAAGA
1 AGAACACCC-GATACAAAGA
60221402 TGCCCAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.51, C:0.23, G:0.15, T:0.10
Consensus pattern (19 bp):
AGAACACCCGATACAAAGA
Found at i:60229785 original size:14 final size:14
Alignment explanation
Indices: 60229766--60229793 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
60229756 GGCTTGAGAA
60229766 CTTAAATGGAAATT
1 CTTAAATGGAAATT
60229780 CTTAAATGGAAATT
1 CTTAAATGGAAATT
60229794 AACCAAAGGT
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:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
CTTAAATGGAAATT
Found at i:60233248 original size:20 final size:20
Alignment explanation
Indices: 60233223--60233263 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
60233213 GTAGAAATTA
* *
60233223 TTATTCTCAGAAAATAGAAT
1 TTATTCTAAGAAAATAAAAT
60233243 TTATTCTAAGAAAATAAAAT
1 TTATTCTAAGAAAATAAAAT
60233263 T
1 T
60233264 CCTCTACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (20 bp):
TTATTCTAAGAAAATAAAAT
Found at i:60233613 original size:24 final size:23
Alignment explanation
Indices: 60233577--60233622 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
60233567 GACCCCAATT
*
60233577 TTTTTATTTTATTACTAGTATATG
1 TTTTTATTGTATTA-TAGTATATG
*
60233601 TTTTTATTGTATTATATTATAT
1 TTTTTATTGTATTATAGTATAT
60233623 TTTATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (23 bp):
TTTTTATTGTATTATAGTATATG
Found at i:60233900 original size:13 final size:13
Alignment explanation
Indices: 60233878--60233913 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
60233868 AATAAATATT
60233878 ATTTAATTAATTA
1 ATTTAATTAATTA
*
60233891 ATTTAGTTAATTA
1 ATTTAATTAATTA
*
60233904 AATTAATTAA
1 ATTTAATTAA
60233914 ACTAATTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
ATTTAATTAATTA
Found at i:60233937 original size:16 final size:17
Alignment explanation
Indices: 60233907--60233940 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
60233897 TTAATTAAAT
60233907 TAATTAAACTAATTTTC
1 TAATTAAACTAATTTTC
60233924 TAATTAAA-TAATTTTC
1 TAATTAAACTAATTTTC
60233940 T
1 T
60233941 TAACTCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTAAACTAATTTTC
Found at i:60236672 original size:31 final size:31
Alignment explanation
Indices: 60236623--60237206 Score: 358
Period size: 31 Copynumber: 18.8 Consensus size: 31
60236613 TTTGATTGTT
* * *
60236623 TTATATATTGCCG-AATTAATTTGTATATAA
1 TTATACATTGCTGAAATTAATTTGTATATGA
* *
60236653 CTATACATTGCTGAAATTAATTTGTATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
* *
60236684 TTATACAATGGTGAAATTGAA-TTGTATATGGATA
1 TTATACATTGCTGAAATT-AATTTGTATAT-G--A
* * *
60236718 TATATGGTTGTACATTGCTAAAATTTATTTGTATATGG
1 T-TA------TACATTGCTGAAATTAATTTGTATATGA
* *
60236756 TTATACATT-ATCGAAATTGATTTGTATATGA
1 TTATACATTGCT-GAAATTAATTTGTATATGA
** * *
60236787 AGATA-AGTTGCCG-AATTAATTCGTATATGA
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
* * *
60236817 ATATACTTTGCTGAAATTAATTTGTATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
*
60236848 TTATACATTGTTGAAATTGAA-TTGTATATGGA
1 TTATACATTGCTGAAATT-AATTTGTATAT-GA
* *
60236880 -TATA-AGTTGCTG-AATTAATTCGTATATGG
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
* * * * *
60236909 TTGTACATTGCTAAAATTTATTTGTATCTGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
* *
60236940 TTATACATT-ATAGAAATTGATTTGTATATGA
1 TTATACATTGCT-GAAATTAATTTGTATATGA
** * * *
60236971 AGATA-AGTTGCCG-AATTAATTCGTATATAA
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
*
60237001 TTATACATTGCTGAAATTAATTTGTATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
* *
60237032 TTATACATT-TTGAAATTAAATTGTATATGGA
1 TTATACATTGCTGAAATTAATTTGTATAT-GA
* *
60237063 -TATA-AGTTGCCG-AATTAATTCGTATATGA
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
* * ** *
60237092 TTATACATTGCTGAACTTGATTCATATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
* ** *
60237123 TTATAGATT-CCCAAATTGATTTGTATATGA
1 TTATACATTGCTGAAATTAATTTGTATATGA
* * * *
60237153 TTATACATTACCGAATTTGATTTGTATATGA
1 TTATACATTGCTGAAATTAATTTGTATATGA
* * * *
60237184 ATATATATTGTTG-AATTGATTTG
1 TTATACATTGCTGAAATTAATTTG
60237207 AGCATTGGAT
Statistics
Matches: 429, Mismatches: 88, Indels: 74
0.73 0.15 0.13
Matches are distributed among these distances:
29 6 0.01
30 157 0.37
31 232 0.54
32 6 0.01
34 1 0.00
35 2 0.00
37 2 0.00
38 1 0.00
40 2 0.00
41 20 0.05
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (31 bp):
TTATACATTGCTGAAATTAATTTGTATATGA
Found at i:60236688 original size:61 final size:62
Alignment explanation
Indices: 60236623--60237182 Score: 381
Period size: 61 Copynumber: 9.0 Consensus size: 62
60236613 TTTGATTGTT
* * *
60236623 TTATATATTGCCG-AATTAATTTGTATATAACTATACATTGCTGAAATTAATTTGTATATGG
1 TTATACATTGCCGAAATTAATTTGTATATGATTATACATTGCTGAAATTAATTTGTATATGG
* ** * *
60236684 TTATACAATGGTGAAATTGAA-TTGTATATGGATATATATGGTTGTACATTGCTAAAATTTATTT
1 TTATACATTGCCGAAATT-AATTTGTATAT-G--AT-TA------TACATTGCTGAAATTAATTT
60236748 GTATATGG
55 GTATATGG
** * ** * * *
60236756 TTATACATTATCGAAATTGATTTGTATATGAAGATA-AGTTGCCG-AATTAATTCGTATATGA
1 TTATACATTGCCGAAATTAATTTGTATATGATTATACA-TTGCTGAAATTAATTTGTATATGG
* * * * *
60236817 ATATACTTTGCTGAAATTAATTTGTATATGGTTATACATTGTTGAAATTGAA-TTGTATATGG
1 TTATACATTGCCGAAATTAATTTGTATATGATTATACATTGCTGAAATT-AATTTGTATATGG
* * * * * * * *
60236879 ATATA-AGTTGCTG-AATTAATTCGTATATGGTTGTACATTGCTAAAATTTATTTGTATCTGG
1 TTATACA-TTGCCGAAATTAATTTGTATATGATTATACATTGCTGAAATTAATTTGTATATGG
*** * ** * * **
60236940 TTATACATTATAGAAATTGATTTGTATATGAAGATA-AGTTGCCG-AATTAATTCGTATATAA
1 TTATACATTGCCGAAATTAATTTGTATATGATTATACA-TTGCTGAAATTAATTTGTATATGG
* * * *
60237001 TTATACATTGCTGAAATTAATTTGTATATGGTTATACATT-TTGAAATTAAATTGTATATGG
1 TTATACATTGCCGAAATTAATTTGTATATGATTATACATTGCTGAAATTAATTTGTATATGG
* * * * **
60237062 ATATA-AGTTGCCG-AATTAATTCGTATATGATTATACATTGCTGAACTTGATTCATATATGG
1 TTATACA-TTGCCGAAATTAATTTGTATATGATTATACATTGCTGAAATTAATTTGTATATGG
* * * * * * *
60237123 TTATAGATT-CCCAAATTGATTTGTATATGATTATACATTACCGAATTTGATTTGTATATG
1 TTATACATTGCCGAAATTAATTTGTATATGATTATACATTGCTGAAATTAATTTGTATATG
60237183 AATATATATT
Statistics
Matches: 382, Mismatches: 89, Indels: 56
0.72 0.17 0.11
Matches are distributed among these distances:
60 29 0.08
61 229 0.60
62 65 0.17
63 4 0.01
65 1 0.00
66 2 0.01
68 1 0.00
69 1 0.00
71 2 0.01
72 48 0.13
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (62 bp):
TTATACATTGCCGAAATTAATTTGTATATGATTATACATTGCTGAAATTAATTTGTATATGG
Found at i:60236742 original size:41 final size:41
Alignment explanation
Indices: 60236677--60236760 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
60236667 AATTAATTTG
* *
60236677 TATATGGTTATACAATGGTGAAATTGAATTGTATATGGATA
1 TATATGGTTATACAATGCTAAAATTGAATTGTATATGGATA
* * * * *
60236718 TATATGGTTGTACATTGCTAAAATTTATTTGTATATGGTTA
1 TATATGGTTATACAATGCTAAAATTGAATTGTATATGGATA
60236759 TA
1 TA
60236761 CATTATCGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (41 bp):
TATATGGTTATACAATGCTAAAATTGAATTGTATATGGATA
Found at i:60236875 original size:92 final size:91
Alignment explanation
Indices: 60236728--60237206 Score: 568
Period size: 92 Copynumber: 5.2 Consensus size: 91
60236718 TATATGGTTG
* * *
60236728 TACATTGCTAAAATTTATTTGTATATGGTTATACATTATCGAAATTGATTTGTATATGAAGATAA
1 TACATTGCTGAAATTAATTTGTATATGGTTATACATT-TCGAAATTGATTTGTATATGAATATAA
60236793 GTTGCCGAATTAATTCGTATATGAATA
65 GTTGCCGAATTAATTCGTATATGAATA
* * * *
60236820 TACTTTGCTGAAATTAATTTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAA
1 TACATTGCTGAAATTAATTTGTATATGGTTATACATT-TCGAAATTGATTTGTATATGAATATAA
* ** *
60236885 GTTGCTGAATTAATTCGTATATGGTTG
65 GTTGCCGAATTAATTCGTATATGAATA
* * * * *
60236912 TACATTGCTAAAATTTATTTGTATCTGGTTATACATTATAGAAATTGATTTGTATATGAAGATAA
1 TACATTGCTGAAATTAATTTGTATATGGTTATACATT-TCGAAATTGATTTGTATATGAATATAA
60236977 GTTGCCGAATTAATTCGTATAT-AATTA
65 GTTGCCGAATTAATTCGTATATGAA-TA
* * * *
60237004 TACATTGCTGAAATTAATTTGTATATGGTTATACATTTTGAAATTAAATTGTATATGGATATAAG
1 TACATTGCTGAAATTAATTTGTATATGGTTATACATTTCGAAATTGATTTGTATATGAATATAAG
*
60237069 TTGCCGAATTAATTCGTATATGATTA
66 TTGCCGAATTAATTCGTATATGAATA
* * ** * * * *
60237095 TACATTGCTGAACTTGATTCATATATGGTTATAGATTCCCAAATTGATTTGTATATGATTATACA
1 TACATTGCTGAAATTAATTTGTATATGGTTATACATTTCGAAATTGATTTGTATATGAATATA-A
* * *
60237160 -TTACCGAATTTGATTTGTATATGAATA
65 GTTGCCGAA-TTAATTCGTATATGAATA
* * *
60237187 TATATTGTTG-AATTGATTTG
1 TACATTGCTGAAATTAATTTG
60237207 AGCATTGGAT
Statistics
Matches: 328, Mismatches: 55, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
91 111 0.34
92 217 0.66
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (91 bp):
TACATTGCTGAAATTAATTTGTATATGGTTATACATTTCGAAATTGATTTGTATATGAATATAAG
TTGCCGAATTAATTCGTATATGAATA
Found at i:60240018 original size:25 final size:24
Alignment explanation
Indices: 60239990--60240037 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
60239980 ATCTAGGCAA
60239990 TATAACGGGAAGCTCACAAAGAGCC
1 TATAACGGGAAGCTC-CAAAGAGCC
* *
60240015 TATAATGGGTAGCTCCAAAGAGC
1 TATAACGGGAAGCTCCAAAGAGC
60240038 AATTAACGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.17
Consensus pattern (24 bp):
TATAACGGGAAGCTCCAAAGAGCC
Found at i:60240048 original size:24 final size:25
Alignment explanation
Indices: 60239986--60240075 Score: 96
Period size: 24 Copynumber: 3.7 Consensus size: 25
60239976 GCTTATCTAG
*
60239986 GCAATATAACGGGAAGCTCACAAAGA
1 GCAATATAACGGGTAGCTC-CAAAGA
* *
60240012 GC-CTATAATGGGTAGCTCCAAAGA
1 GCAATATAACGGGTAGCTCCAAAGA
* *
60240036 GCAAT-TAACGGGTAGTTCCGAAGA
1 GCAATATAACGGGTAGCTCCAAAGA
*
60240060 GCAAT-TAAAGGGTAGC
1 GCAATATAACGGGTAGC
60240076 ATCGGGTAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
24 38 0.70
25 14 0.26
26 2 0.04
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.18
Consensus pattern (25 bp):
GCAATATAACGGGTAGCTCCAAAGA
Found at i:60240299 original size:24 final size:24
Alignment explanation
Indices: 60240245--60240300 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
60240235 AAAGAGCATT
*
60240245 TAACGGAAAGCTTGAAAGGGCTTG
1 TAACGGGAAGCTTGAAAGGGCTTG
60240269 TAACGGGAAGCTTGAAAGGGCTTG
1 TAACGGGAAGCTTGAAAGGGCTTG
60240293 TAACGGGA
1 TAACGGGA
60240301 CGCTCTTTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.32, C:0.12, G:0.36, T:0.20
Consensus pattern (24 bp):
TAACGGGAAGCTTGAAAGGGCTTG
Found at i:60247389 original size:46 final size:45
Alignment explanation
Indices: 60247322--60247601 Score: 330
Period size: 46 Copynumber: 6.6 Consensus size: 45
60247312 TTTGAGTACT
* *
60247322 TCTGATGAGGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
60247368 TCTGATCAAGTGACAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
60247404 TCTGATCAAGAGACAAAGTGATAAATGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
60247450 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACAATTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
60247496 TCTGATCAAGTGACAAAGTGAT-A-----AG-TT--CTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
60247532 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
60247577 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
60247602 ATTATATGTA
Statistics
Matches: 207, Mismatches: 8, Indels: 41
0.81 0.03 0.16
Matches are distributed among these distances:
36 61 0.29
37 3 0.01
38 2 0.01
40 4 0.02
42 4 0.02
43 14 0.07
44 5 0.02
45 19 0.09
46 95 0.46
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:60247399 original size:36 final size:36
Alignment explanation
Indices: 60247358--60247558 Score: 195
Period size: 36 Copynumber: 5.0 Consensus size: 36
60247348 GGTAGCTTTA
60247358 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
60247394 GCTACACTTATCTGATCAAGAGACAAAGTGATAAATGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGACAAAGTGAT--A----AG---T
*
60247439 AGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
1 -GCTACACTTATCTGATCAAGTGACAAAGTGATAA---GT
60247479 AGCTTTAGCTACAATTATCTGATCAAGTGACAAAGTGATAAGT
1 -GC--TA-C-AC--TTATCTGATCAAGTGACAAAGTGATAAGT
*
60247522 TCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
60247558 G
1 G
60247559 GTAGCTTAGC
Statistics
Matches: 142, Mismatches: 4, Indels: 38
0.77 0.02 0.21
Matches are distributed among these distances:
36 60 0.42
38 3 0.02
39 1 0.01
40 7 0.05
42 5 0.04
43 4 0.03
44 3 0.02
45 1 0.01
46 58 0.41
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:60247527 original size:82 final size:79
Alignment explanation
Indices: 60247441--60247600 Score: 266
Period size: 82 Copynumber: 2.0 Consensus size: 79
60247431 GTAGCTTTAG
60247441 CTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAG
1 CTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGC-TTAGCTACAATTATCTGATC-AG
*
60247506 TGACAAAGTGATAAGTT
64 GGAC-AAGTGATAAGTT
* *
60247523 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGGG
1 CTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTAGCTACAATTATCTGATCAGGG
60247588 ACAAGTGATAAGT
66 ACAAGTGATAAGT
60247601 GATTATATGT
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
79 11 0.15
80 5 0.07
81 19 0.25
82 40 0.53
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (79 bp):
CTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTAGCTACAATTATCTGATCAGGG
ACAAGTGATAAGTT
Found at i:60247550 original size:128 final size:126
Alignment explanation
Indices: 60247333--60247601 Score: 468
Period size: 128 Copynumber: 2.1 Consensus size: 126
60247323 CTGATGAGGT
*
60247333 GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGCTA
1 GACAAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAGTGACAAAGTGATAAGTGCTA
60247398 CACTTATCTGATCAAGAGACAAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAAGA
66 CACTTATCTGATCAAGAGACAAAGTGATAAATGGTAGC-TTAGCTACACTTATCTGATC-AGA
*
60247461 GACAAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAGTGACAAAGTGATAAGTTCTA
1 GACAAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAGTGACAAAGTGATAAGTGCTA
* * *
60247526 CACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGG
66 CACTTATCTGATCAAGAGACAAAGTGATAAATGGTAGCTTAGCTACACTTATCTGATCAGA
60247587 GAC-AAGTGATAAGTG
1 GACAAAGTGATAAGTG
60247602 ATTATATGTA
Statistics
Matches: 136, Mismatches: 5, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
125 12 0.09
126 5 0.04
127 20 0.15
128 99 0.73
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (126 bp):
GACAAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAGTGACAAAGTGATAAGTGCTA
CACTTATCTGATCAAGAGACAAAGTGATAAATGGTAGCTTAGCTACACTTATCTGATCAGA
Found at i:60247857 original size:20 final size:20
Alignment explanation
Indices: 60247829--60247869 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
60247819 AAATGTTTGG
*
60247829 TAAGGTTTCTATGAA-CTTAC
1 TAAGCTTTCTAT-AAGCTTAC
60247849 TAAGCTTTCTATAAGCTTAC
1 TAAGCTTTCTATAAGCTTAC
60247869 T
1 T
60247870 TGTGTGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (20 bp):
TAAGCTTTCTATAAGCTTAC
Found at i:60248258 original size:8 final size:8
Alignment explanation
Indices: 60248205--60248249 Score: 76
Period size: 8 Copynumber: 5.9 Consensus size: 8
60248195 TTAAAAAAAT
60248205 ATTATTAA
1 ATTATTAA
60248213 ATTATT--
1 ATTATTAA
60248219 ATTATTAA
1 ATTATTAA
60248227 ATTATTAA
1 ATTATTAA
60248235 ATTATTAA
1 ATTATTAA
60248243 ATTATTA
1 ATTATTA
60248250 TTATATTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.17
8 29 0.83
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
ATTATTAA
Found at i:60248397 original size:16 final size:17
Alignment explanation
Indices: 60248376--60248407 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
60248366 TATTGTATTA
60248376 TATTATA-TTATTAAAG
1 TATTATATTTATTAAAG
60248392 TATTATATTTATTAAA
1 TATTATATTTATTAAA
60248408 TAATAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTATATTTATTAAAG
Found at i:60248444 original size:18 final size:17
Alignment explanation
Indices: 60248423--60248462 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
60248413 AACAAAACAT
*
60248423 AAACTAAAAGAATAAAAG
1 AAAC-AAAAGAAGAAAAG
*
60248441 AAACAAAAGGAGAAAAG
1 AAACAAAAGAAGAAAAG
60248458 AAACA
1 AAACA
60248463 GAATAGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.72, C:0.07, G:0.15, T:0.05
Consensus pattern (17 bp):
AAACAAAAGAAGAAAAG
Found at i:60249438 original size:39 final size:40
Alignment explanation
Indices: 60249387--60249474 Score: 108
Period size: 39 Copynumber: 2.2 Consensus size: 40
60249377 CGAATTATAG
* * *
60249387 AATACTGGATATTGTTTTG-ATTATTG-AGTGAATTGTGAA
1 AATACTGAATATTGTTATGTA-TAATGCAGTGAATTGTGAA
*
60249426 AATACTGAATATTGTTATGTATAATGCATTGAATTGTGAA
1 AATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAA
*
60249466 ATTACTGAA
1 AATACTGAA
60249475 GTAAAGAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 21 0.50
40 21 0.50
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.41
Consensus pattern (40 bp):
AATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAA
Found at i:60249701 original size:38 final size:39
Alignment explanation
Indices: 60249649--60249731 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 39
60249639 ATTTGCCGAC
*
60249649 TTACTGATCAGGCAC-TTATGTGCCGACTACTATTACTG
1 TTACTGATCAGGCACTTTATGTGCCGAATACTATTACTG
* * *
60249687 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGA-TCAGGCACTTTATGTGCCGAATACTATTACTG
60249726 TTACTG
1 TTACTG
60249732 TTACCGACTC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
38 12 0.31
39 27 0.69
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (39 bp):
TTACTGATCAGGCACTTTATGTGCCGAATACTATTACTG
Found at i:60249745 original size:45 final size:45
Alignment explanation
Indices: 60249676--60249826 Score: 212
Period size: 45 Copynumber: 3.3 Consensus size: 45
60249666 ATGTGCCGAC
* *
60249676 TACTATTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* * *
60249721 TACTGTTACTGTTACCGACTCGGCACGTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* * * *
60249766 TACCGTTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
60249811 TACTGTTACTGATTAC
1 TACTGTTACTG-TTAC
60249827 TGTATACTGG
Statistics
Matches: 93, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
45 89 0.96
46 4 0.04
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:60249764 original size:39 final size:39
Alignment explanation
Indices: 60249649--60249822 Score: 136
Period size: 45 Copynumber: 4.2 Consensus size: 39
60249639 ATTTGCCGAC
* * * *
60249649 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTATTACTG
1 TTACTGACTC-GGCACTTTGTGTGTCGAATACTGTTACTG
*
60249687 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGACTCGGCACTTTGTGTGTCGAATACTGTTACTG
* *
60249726 TTACTGTTACCGACTCGGCACGTTGTGTGTCGAATACTGTTACCG
1 TTAC---T---GACTCGGCACTTTGTGTGTCGAATACTGTTACTG
* *
60249771 TTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGTTACTG
1 TTACTG--AC----TCGGCACTTTGTGTGTCGAATACTGTTACTG
60249816 TTACTGA
1 TTACTGA
60249823 TTACTGTATA
Statistics
Matches: 111, Mismatches: 11, Indels: 23
0.77 0.08 0.16
Matches are distributed among these distances:
38 12 0.11
39 26 0.23
41 2 0.02
42 2 0.02
43 1 0.01
45 68 0.61
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (39 bp):
TTACTGACTCGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:60252732 original size:58 final size:58
Alignment explanation
Indices: 60252610--60252733 Score: 160
Period size: 57 Copynumber: 2.1 Consensus size: 58
60252600 ATTTCCAGGT
* * * *
60252610 CATTTTCATTTTTCTTTTTGGAGAAAACCACATTCATTTCCAAATGATTTCATTTCTC
1 CATTTTCATTTTTCATTTAGGAGAAAACCACAATCATTTCCAAATGATTTCATATCTC
* * *
60252668 CATTTTCA-TTTTCATTTAGGAGAAAACCATAATCATTTCCAAATGTTTCTCATATCTT
1 CATTTTCATTTTTCATTTAGGAGAAAACCACAATCATTTCCAAATGATT-TCATATCTC
*
60252726 TATTTTCA
1 CATTTTCA
60252734 CTATTTATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 35 0.61
58 22 0.39
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.46
Consensus pattern (58 bp):
CATTTTCATTTTTCATTTAGGAGAAAACCACAATCATTTCCAAATGATTTCATATCTC
Found at i:60260004 original size:21 final size:20
Alignment explanation
Indices: 60259975--60260013 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
60259965 TCATTATCAC
*
60259975 AAATTTTTATGATGTAAAAAA
1 AAATATTTAT-ATGTAAAAAA
*
60259996 AAATATTTATATTTAAAA
1 AAATATTTATATGTAAAA
60260014 TTGTAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
AAATATTTATATGTAAAAAA
Found at i:60261444 original size:12 final size:12
Alignment explanation
Indices: 60261427--60261451 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60261417 TTTAAAAACC
60261427 AAATTTAAACTA
1 AAATTTAAACTA
60261439 AAATTTAAACTA
1 AAATTTAAACTA
60261451 A
1 A
60261452 TTACAGAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATTTAAACTA
Found at i:60264599 original size:50 final size:51
Alignment explanation
Indices: 60264483--60264615 Score: 169
Period size: 50 Copynumber: 2.6 Consensus size: 51
60264473 CCATGACAGC
* * *
60264483 GGTATATGGCGTAAAACCATAGATGAAAGAGGTTATGCCAATCTGGTATAA
1 GGTATATGGCGTAAGACCATAGACGAAAGAGGTTATGACAATCTGGTATAA
* * * * *
60264534 GGTATATGGCATAAGACTATAGACGAACGAGG-TATGACAGTCTGGTTTAA
1 GGTATATGGCGTAAGACCATAGACGAAAGAGGTTATGACAATCTGGTATAA
* *
60264584 GGTATATGGCGTAAGATCATAGATGAAAGAGG
1 GGTATATGGCGTAAGACCATAGACGAAAGAGG
60264616 CTATTTGTAA
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 42 0.61
51 27 0.39
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.25
Consensus pattern (51 bp):
GGTATATGGCGTAAGACCATAGACGAAAGAGGTTATGACAATCTGGTATAA
Found at i:60267758 original size:20 final size:22
Alignment explanation
Indices: 60267728--60267771 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
60267718 AGAAAAAGAG
60267728 AAATACAAAAA-AGAATAG-ATC
1 AAATACAAAAAGA-AATAGAATC
60267749 AAAT-CAAAAAGAAATAGAATC
1 AAATACAAAAAGAAATAGAATC
60267770 AA
1 AA
60267772 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.68, C:0.09, G:0.09, T:0.14
Consensus pattern (22 bp):
AAATACAAAAAGAAATAGAATC
Found at i:60270139 original size:32 final size:33
Alignment explanation
Indices: 60270080--60270253 Score: 199
Period size: 35 Copynumber: 5.2 Consensus size: 33
60270070 CAGGTCCAAA
* *
60270080 AAGAAATAATACATGAACAGGAGAGATTCCCTGC
1 AAGAAATAAT-CGTGAACAGGAAAGATTCCCTGC
* * *
60270114 AAGAAATGAT-GTAAACAGTAAAGATTCCCTGC
1 AAGAAATAATCGTGAACAGGAAAGATTCCCTGC
* *
60270146 AACAAAATAATGCGTGAACAGGAGAGATTCCCTGC
1 AA-GAAATAAT-CGTGAACAGGAAAGATTCCCTGC
*
60270181 AAGAAATGAT-GTGAACAGGAAAGATTCCCTGC
1 AAGAAATAATCGTGAACAGGAAAGATTCCCTGC
* *
60270213 AACAGAATAATGCGTGAACAGGAAATATTCCCTGC
1 AAGA-AATAAT-CGTGAACAGGAAAGATTCCCTGC
60270248 AAGAAA
1 AAGAAA
60270254 AGACAAGTGA
Statistics
Matches: 117, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
32 44 0.38
33 11 0.09
34 17 0.15
35 45 0.38
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.18
Consensus pattern (33 bp):
AAGAAATAATCGTGAACAGGAAAGATTCCCTGC
Found at i:60270191 original size:67 final size:67
Alignment explanation
Indices: 60270083--60270253 Score: 279
Period size: 67 Copynumber: 2.6 Consensus size: 67
60270073 GTCCAAAAAG
* * *
60270083 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTAAACAGTAAAGATTCCCTGCAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTAAACAGGAAAGATTCCCTGCAA
60270148 CA
66 CA
*
60270150 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTAAACAGGAAAGATTCCCTGCAA
60270215 CA
66 CA
* * *
60270217 GAATAATGCGTGAACAGGAAATATTCCCTGCAAGAAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAA
60270254 AGACAAGTGA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 97 1.00
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.19
Consensus pattern (67 bp):
AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTAAACAGGAAAGATTCCCTGCAA
CA
Found at i:60270541 original size:14 final size:13
Alignment explanation
Indices: 60270516--60270549 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
60270506 TGAAAATTTG
*
60270516 AAATTAATTTTTC
1 AAATTAAGTTTTC
60270529 AAACTTAAGTTTTC
1 AAA-TTAAGTTTTC
60270543 AAATTAA
1 AAATTAA
60270550 AAATATCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (13 bp):
AAATTAAGTTTTC
Found at i:60271631 original size:21 final size:22
Alignment explanation
Indices: 60271601--60271645 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
60271591 GAGCAAATTG
60271601 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
60271623 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
60271644 TT
1 TT
60271646 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:60276208 original size:17 final size:17
Alignment explanation
Indices: 60276187--60276223 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
60276177 AAAATGAAAC
60276187 AAAAAGAAAAAGAAAGA
1 AAAAAGAAAAAGAAAGA
*
60276204 AAAAAGAAGAAGAAAGA
1 AAAAAGAAAAAGAAAGA
60276221 AAA
1 AAA
60276224 TGGAGAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAGAAAGA
Found at i:60279011 original size:28 final size:27
Alignment explanation
Indices: 60278959--60279012 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
60278949 ACCGAGACAA
** *
60278959 TAAACAAGGGTAAGTTTGTTGGGATAG
1 TAAACAAGGGTAAGTCCGTTAGGATAG
60278986 TAAACATAGGGTAAGTCCGTTAGGATA
1 TAAACA-AGGGTAAGTCCGTTAGGATA
60279013 AGGGAAATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (27 bp):
TAAACAAGGGTAAGTCCGTTAGGATAG
Found at i:60282231 original size:23 final size:23
Alignment explanation
Indices: 60282188--60282231 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
60282178 ACACATAAAG
* *
60282188 GAACAAAAAGCATGCAGTGAAAA
1 GAACAAAAAACAAGCAGTGAAAA
60282211 GAACAAAAAACACAGCA-TGAA
1 GAACAAAAAACA-AGCAGTGAA
60282232 GGCCTAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.59, C:0.16, G:0.18, T:0.07
Consensus pattern (23 bp):
GAACAAAAAACAAGCAGTGAAAA
Found at i:60285398 original size:15 final size:15
Alignment explanation
Indices: 60285378--60285411 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
60285368 CCATCATATA
60285378 TGTATACTTTTTTGC
1 TGTATACTTTTTTGC
60285393 TGTATACTTTTTTGC
1 TGTATACTTTTTTGC
60285408 TGTA
1 TGTA
60285412 ACTATCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.59
Consensus pattern (15 bp):
TGTATACTTTTTTGC
Found at i:60290128 original size:96 final size:96
Alignment explanation
Indices: 60289964--60290309 Score: 451
Period size: 96 Copynumber: 3.6 Consensus size: 96
60289954 TTGGAGTCTG
* * * * * * **
60289964 GGGCTAACTCTAGTATTTGGTGTCTTTCTTGAATCGGGTACATTCTGTATCTTCTCAATGTTTGA
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAATGTTTGA
* *
60290029 GTTATCACCATTTGGTAGAGTTTGAAACCTT
66 GTTATCACCATTTGGTAGATTTTGGAACCTT
* * * *
60290060 GGGCTAACTCTAGTATTTAACGTCTTTCTTGAGTCAGTTGGATCCCATGTCTTCTCAATGTTTGA
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAATGTTTGA
* *
60290125 GTTATCAACATTTGGTACATTTTGGAACCTT
66 GTTATCACCATTTGGTAGATTTTGGAACCTT
* ** * * *
60290156 GGGCTAACTCTAGTATTTGATGTCTTTATTGAGAGAGTTGCATCCCTTAAT-TTCTCAGTGTTGG
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCAT-ATCTTCTCAATGTTTG
*
60290220 AGTTATCACCATTAGGTAGATTTTGGAACCTT
65 AGTTATCACCATTTGGTAGATTTTGGAACCTT
* *
60290252 GGGCTAACTCTAGTATTTGATGTCTTTCTTGGGTCGGTTGCATCCCATATCTTCTCAA
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAA
60290310 ATTTTGGTAG
Statistics
Matches: 212, Mismatches: 36, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
95 2 0.01
96 209 0.99
97 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (96 bp):
GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAATGTTTGA
GTTATCACCATTTGGTAGATTTTGGAACCTT
Found at i:60290373 original size:81 final size:80
Alignment explanation
Indices: 60290234--60290389 Score: 251
Period size: 81 Copynumber: 1.9 Consensus size: 80
60290224 ATCACCATTA
60290234 GGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTCTTGGGTCGGTTGCATCCCA
1 GGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTCTTGGG-CGGTTGCATCCCA
60290299 TATCTTCTCAAATTTT
65 TATCTTCTCAAATTTT
*
60290315 GGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGG-GAGTTGCATCCC
1 GGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTCTTG-GGCG-GTTGCATCCC
* *
60290379 TTTTCTTCTCA
64 ATATCTTCTCA
60290390 TTGTTGGAGT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
80 1 0.01
81 67 0.96
82 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (80 bp):
GGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTCTTGGGCGGTTGCATCCCAT
ATCTTCTCAAATTTT
Found at i:60290438 original size:177 final size:177
Alignment explanation
Indices: 60290135--60290714 Score: 932
Period size: 177 Copynumber: 3.3 Consensus size: 177
60290125 GTTATCAACA
* *
60290135 TTTGGTACATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTATTGAGAGAGTTGCATC
1 TTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATC
* * * *
60290200 CCTTAAT-TTCTCAGTGTTGGAGTTATCACCATTAGGTAGATTTTGGAACCTTGGGCTAACTCTA
66 CCTT-TTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTA
*
60290264 GTATTTGATGTCTTTCTTGGGTCGGTTGCATCCCATATCTTCTCAAAT
130 GTATTTGATGTCTTTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
*
60290312 TTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGGGAGTTGCATC
1 TTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATC
*
60290377 CCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGACTAACTCTAG
66 CCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAG
60290442 TATTTGATGT-TGTTCTTGAGTCGGTTGCATCCCATATCTTCTC-AAT
131 TATTTGATGTCT-TTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
* *
60290488 ATTTGGTGGATTTTGGAACCTTGGGCTAGCTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCAT
1 -TTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCAT
*
60290553 CCCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAAGCTTGGGCTAACTCTA
65 CCCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTA
* * * ** *
60290618 GTATTTGATTTCTTTCTTGTGTCAGTTGCATCCCGCATCTTCACAAAT
130 GTATTTGATGTCTTTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
* *
60290666 TTTGGTAGATTTTGGAACCTCGGGCTAACTCTAGTATTTGATATCTTTG
1 TTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTG
60290715 CCGAGTCAGT
Statistics
Matches: 374, Mismatches: 24, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
176 5 0.01
177 365 0.98
178 4 0.01
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.41
Consensus pattern (177 bp):
TTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATC
CCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAG
TATTTGATGTCTTTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
Found at i:60290550 original size:81 final size:81
Alignment explanation
Indices: 60290415--60290566 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 81
60290405 CCATTAGGTA
*
60290415 GATTTTGAAACCTTGGACTAACTCTAGTATTTGATGTTGTTCTTGAGTCGGTTGCATCCCATATC
1 GATTTTGAAACCTTGGACTAACTCTAGTATTTGATGTTGTTCTTGAGTAGGTTGCATCCCATATC
60290480 TTCTCAATATTTGGTG
66 TTCTCAATATTTGGTG
* * * * * *
60290496 GATTTTGGAACCTTGGGCTAGCTCTAGTATTTGATGTCT-TTGTTGAG-AGAGTTGCATCCCTTT
1 GATTTTGAAACCTTGGACTAACTCTAGTATTTGATGT-TGTTCTTGAGTAG-GTTGCATCCCATA
60290559 TCTTCTCA
64 TCTTCTCA
60290567 TTGTTGGAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 1 0.02
81 60 0.97
82 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (81 bp):
GATTTTGAAACCTTGGACTAACTCTAGTATTTGATGTTGTTCTTGAGTAGGTTGCATCCCATATC
TTCTCAATATTTGGTG
Found at i:60290723 original size:81 final size:82
Alignment explanation
Indices: 60290588--60290749 Score: 220
Period size: 81 Copynumber: 2.0 Consensus size: 82
60290578 ACCACCATTA
* * * * *
60290588 GGTAGATTTTGAAAGCTTGGGCTAACTCTAGTATTTGATTTCTTTCTTGTGTCAGTTGCATCCCG
1 GGTAGATTTTGAAACCTCGGGCTAACTCTAGTATTTGATATCTTTCTCGAGTCAGTTGCATCCCG
60290653 CATCTTCACAA-ATTTT
66 CATCTTCACAATATTTT
* * *
60290669 GGTAGATTTTGGAACCTCGGGCTAACTCTAGTATTTGATATCTTTGC-CGAGTCAGTTTCATTCC
1 GGTAGATTTTGAAACCTCGGGCTAACTCTAGTATTTGATATCTTT-CTCGAGTCAGTTGCATCCC
*
60290733 GTATCTTCACAATATTT
65 GCATCTTCACAATATTT
60290750 GAGTTAGGGC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
81 65 0.93
82 5 0.07
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (82 bp):
GGTAGATTTTGAAACCTCGGGCTAACTCTAGTATTTGATATCTTTCTCGAGTCAGTTGCATCCCG
CATCTTCACAATATTTT
Found at i:60290800 original size:69 final size:69
Alignment explanation
Indices: 60290687--60290823 Score: 195
Period size: 69 Copynumber: 2.0 Consensus size: 69
60290677 TTGGAACCTC
**
60290687 GGGCTAACTCTAGTATTTGATATCTTTGCCGAGTCAGTTTCATTCCGTATCTTCACAATATTTGA
1 GGGCTAACTCTAGTATTTGATATCTTTGCCGAGTCAGTCGCATTCCGTATCTTCACAATATTTGA
60290752 GTTA
66 GTTA
* * * * *
60290756 GGGCTAGCTCTAGTATTTGATTTCTTT-CCTGAGTCAGTCGCATTCCTTATCTTCTCAATGTTTG
1 GGGCTAACTCTAGTATTTGATATCTTTGCC-GAGTCAGTCGCATTCCGTATCTTCACAATATTTG
60290820 AGTT
65 AGTT
60290824 CCCAACATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 2 0.03
69 58 0.97
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (69 bp):
GGGCTAACTCTAGTATTTGATATCTTTGCCGAGTCAGTCGCATTCCGTATCTTCACAATATTTGA
GTTA
Found at i:60290895 original size:96 final size:96
Alignment explanation
Indices: 60290756--60290958 Score: 264
Period size: 96 Copynumber: 2.1 Consensus size: 96
60290746 ATTTGAGTTA
* * * *
60290756 GGGCTAGCTCTAGTATTTGATTTCTTTCCTGAGTCAGTCGCATTCCTTATCTTCTCAATGTTTGA
1 GGGCTAACTCTAGTATTTAATTTCTTTCCTGAGTCAGTCGCATTCCATATCTTCTCAATGTTCGA
*
60290821 GTTCCCAACATTTAGTAGATTTTGAAACCTT
66 GTTACCAACATTTAGTAGATTTTGAAACCTT
* * * * *
60290852 GGGCTACCTCTAGTATTTAATGTT-TTTCTTGATTTAGTTGCATTCCATATCTTCTCAATGTTCG
1 GGGCTAACTCTAGTATTTAAT-TTCTTTCCTGAGTCAGTCGCATTCCATATCTTCTCAATGTTCG
* * *
60290916 AGTTACCACCGTTTGGTAGATTTTGAAACCTT
65 AGTTACCAACATTTAGTAGATTTTGAAACCTT
*
60290948 GGACTAACTCT
1 GGGCTAACTCT
60290959 TCGCTGTATT
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
96 90 0.98
97 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (96 bp):
GGGCTAACTCTAGTATTTAATTTCTTTCCTGAGTCAGTCGCATTCCATATCTTCTCAATGTTCGA
GTTACCAACATTTAGTAGATTTTGAAACCTT
Found at i:60301330 original size:24 final size:24
Alignment explanation
Indices: 60301277--60301322 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
60301267 TCTTTCTAGA
* *
60301277 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGCATTTATTAGCATAAT
60301301 ATATTTAGCATTTATTAGCATA
1 ATATTTAGCATTTATTAGCATA
60301323 GTTTATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (24 bp):
ATATTTAGCATTTATTAGCATAAT
Found at i:60303798 original size:159 final size:158
Alignment explanation
Indices: 60303534--60303829 Score: 423
Period size: 159 Copynumber: 1.9 Consensus size: 158
60303524 TAGCGGCGTT
** *
60303534 CCGCCATAGGTCGACCATTAGCGGTGCTTTTTAAAAAATGCCGCAAAAAAATTAAGCACAACACC
1 CCGCCATAGGTCGACCATTAGCGGCACTTTTTAAAAAACGCCGCAAAAAAATTAAGCACAACACC
* * * *
60303599 GTCGTTTTATGTTGAGCTTTAGTGGCACTAGAGACCCTTTTTGAAAAATGCCGCTATAGATCGAG
66 ATCATTTTATGTTGAGCTTTAGTGGCACTAGAGACCCTTTTTAAAAAACGCCGCTATAGATCGAG
60303664 CTTTAGCAGCTCTTTTAAAAAAAAAACG
131 CTTTAGCAGCTCTTTTAAAAAAAAAACG
* * **
60303692 CCGCTATAGGTCGACCATTAGCGGCACTTTTTGAAAAACGCCGCAAAAAAAATTAAGCACAATGC
1 CCGCCATAGGTCGACCATTAGCGGCACTTTTTAAAAAACGCCGC-AAAAAAATTAAGCACAACAC
* * * *
60303757 CATCATTTTATGTTGAGCTTTAGTGGCATTA-ACGGCGCTTTTTAAAAAACGTCGCTATAGATCG
65 CATCATTTTATGTTGAGCTTTAGTGGCACTAGA-GACCCTTTTTAAAAAACGCCGCTATAGATCG
*
60303821 AGTTTTAGC
129 AGCTTTAGC
60303830 GGCGCTTTAT
Statistics
Matches: 120, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
158 40 0.33
159 80 0.67
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (158 bp):
CCGCCATAGGTCGACCATTAGCGGCACTTTTTAAAAAACGCCGCAAAAAAATTAAGCACAACACC
ATCATTTTATGTTGAGCTTTAGTGGCACTAGAGACCCTTTTTAAAAAACGCCGCTATAGATCGAG
CTTTAGCAGCTCTTTTAAAAAAAAAACG
Found at i:60308802 original size:14 final size:13
Alignment explanation
Indices: 60308780--60308926 Score: 81
Period size: 13 Copynumber: 11.2 Consensus size: 13
60308770 AAGTGTTTTC
*
60308780 TTTCTTCAAGTGTT
1 TTTCATCAAGT-TT
60308794 TTTCATCAAGTTT
1 TTTCATCAAGTTT
* *
60308807 TTTTATCAAATTT
1 TTTCATCAAGTTT
*
60308820 TTAATTATCAAGGTTT
1 TT--TCATCAA-GTTT
*
60308836 TTTCTATTAAG-TT
1 TTTC-ATCAAGTTT
*
60308849 TTGCATCAAGTTCT
1 TTTCATCAAGTT-T
60308863 TTT--T-AAG-TT
1 TTTCATCAAGTTT
*
60308872 TTTCATCAAGTCT
1 TTTCATCAAGTTT
**
60308885 TTTCAT-AAAATT
1 TTTCATCAAGTTT
*
60308897 TTCCATCAAGTTT
1 TTTCATCAAGTTT
*
60308910 TTAATCATTAAGTTT
1 TT--TCATCAAGTTT
60308925 TT
1 TT
60308927 CAATTAAGCT
Statistics
Matches: 102, Mismatches: 18, Indels: 25
0.70 0.12 0.17
Matches are distributed among these distances:
9 4 0.04
10 1 0.01
11 4 0.04
12 17 0.17
13 34 0.33
14 15 0.15
15 22 0.22
16 5 0.05
ACGTcount: A:0.26, C:0.12, G:0.08, T:0.54
Consensus pattern (13 bp):
TTTCATCAAGTTT
Found at i:60308808 original size:12 final size:12
Alignment explanation
Indices: 60308791--60308916 Score: 67
Period size: 12 Copynumber: 9.9 Consensus size: 12
60308781 TTCTTCAAGT
60308791 GTTTTTCATCAA
1 GTTTTTCATCAA
*
60308803 GTTTTTTTATCAAA
1 G-TTTTTCATC-AA
* *
60308817 TTTTTAATTATCAA
1 GTTTT--TCATCAA
*
60308831 GGTTTTTTCTATTAA
1 -G-TTTTTC-ATCAA
*
60308846 GTTTTGCATCAA
1 GTTTTTCATCAA
*
60308858 GTTCTTT--TTAA
1 GTT-TTTCATCAA
60308869 GTTTTTCATCAA
1 GTTTTTCATCAA
*
60308881 GTCTTTTCATAAA
1 GT-TTTTCATCAA
* *
60308894 ATTTTCCATCAA
1 GTTTTTCATCAA
*
60308906 GTTTTTAATCA
1 GTTTTTCATCA
60308917 TTAAGTTTTT
Statistics
Matches: 86, Mismatches: 17, Indels: 22
0.69 0.14 0.18
Matches are distributed among these distances:
10 3 0.03
11 6 0.07
12 29 0.34
13 29 0.34
14 6 0.07
15 9 0.10
16 4 0.05
ACGTcount: A:0.27, C:0.13, G:0.08, T:0.52
Consensus pattern (12 bp):
GTTTTTCATCAA
Found at i:60308868 original size:23 final size:22
Alignment explanation
Indices: 60308842--60308887 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
60308832 GTTTTTTCTA
60308842 TTAAGTTTTGCATCAAGTTCTTT
1 TTAAGTTTTGCATCAAG-TCTTT
*
60308865 TTAAGTTTTTCATCAAGTCTTT
1 TTAAGTTTTGCATCAAGTCTTT
60308887 T
1 T
60308888 CATAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.22, C:0.13, G:0.11, T:0.54
Consensus pattern (22 bp):
TTAAGTTTTGCATCAAGTCTTT
Found at i:60311044 original size:24 final size:24
Alignment explanation
Indices: 60311016--60311069 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
60311006 TTTCTAGAAG
* *
60311016 ATTTAGTATTTATTAGTATAATAT
1 ATTTAATATTTATTAATATAATAT
* *
60311040 ATTTAATATTTATTAATATAGTTT
1 ATTTAATATTTATTAATATAATAT
60311064 ATTTAA
1 ATTTAA
60311070 CTTACTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (24 bp):
ATTTAATATTTATTAATATAATAT
Found at i:60311537 original size:19 final size:19
Alignment explanation
Indices: 60311513--60311552 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
60311503 AGAGCATTTT
60311513 CTTTACTGATGCACAAACC
1 CTTTACTGATGCACAAACC
60311532 CTTTACTGATGCACAAACC
1 CTTTACTGATGCACAAACC
60311551 CT
1 CT
60311553 CAGAGCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.10, T:0.28
Consensus pattern (19 bp):
CTTTACTGATGCACAAACC
Found at i:60311761 original size:24 final size:24
Alignment explanation
Indices: 60311734--60311784 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
60311724 TAAATTACGA
*
60311734 ACAAA-ATTATACATAAAAATATAT
1 ACAAATATTATAAATAAAAA-ATAT
*
60311758 ACAAATTTTATAAATAAAAAATAT
1 ACAAATATTATAAATAAAAAATAT
60311782 ACA
1 ACA
60311785 TAAAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ACAAATATTATAAATAAAAAATAT
Found at i:60312881 original size:114 final size:114
Alignment explanation
Indices: 60312725--60313205 Score: 703
Period size: 114 Copynumber: 4.2 Consensus size: 114
60312715 GTTTCCCAGA
* * * * * *
60312725 AAGCGCTGATAATGTTCA-GGCTTTAGCGGCGTTTTTGAGAAAGCACCACAAAAAAACCTAAGCC
1 AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCC
*
60312789 CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAAT
66 CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGT
* * *
60312838 ATGCGCCGCTAATGCTCAGGGCTTTAGCGGTGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCC
1 AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCC
* *
60312903 CAACGACGCCGTTTTGTGAGCTTTTGGGGATTTAGTGGCGTTTTTAAGT
66 CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGT
* * *
60312952 AAGTGCCGCTAATGCTCAGGGCTTTATCGGCGTTTTTGAGAAGGCGCCGCAAAAATACCTAAGCC
1 AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCC
* *
60313017 CAACGACGCCGTTTACTGAGCTTTCGGGGATTTAGTGGCGTTTTTATGT
66 CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGT
* * * *
60313066 AAGCACTGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACTTAAGCC
1 AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCC
* * * * *
60313131 CAACGACGCCGTTTTTTGAGCTTTTGGGGATTTAGTGACGTTTGTATGT
66 CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGT
* *
60313180 AAGCGCCGCTAATACTCAGGGATTTA
1 AAGCGCCGCTAATGCTCAGGGCTTTA
60313206 AAATAATTTA
Statistics
Matches: 329, Mismatches: 38, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
113 14 0.04
114 315 0.96
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (114 bp):
AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCC
CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGT
Found at i:60313780 original size:14 final size:15
Alignment explanation
Indices: 60313753--60313786 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
60313743 TAAGTTTTAT
60313753 AGATTATGGAATTAG
1 AGATTATGGAATTAG
60313768 AGATTAT-GAATTAG
1 AGATTATGGAATTAG
*
60313782 GGATT
1 AGATT
60313787 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:60313828 original size:14 final size:14
Alignment explanation
Indices: 60313809--60313848 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
60313799 TTAATGTGAT
* *
60313809 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
60313823 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
60313837 TTAGGGGTTAGG
1 TTAAGGGTTAGG
60313849 TTAGGGGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.45, T:0.35
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:60313859 original size:7 final size:7
Alignment explanation
Indices: 60313820--60313859 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
60313810 TAAGGTTTAT
*
60313820 GGGTTAA
1 GGGTTAG
60313827 GGGTTAG
1 GGGTTAG
60313834 GGGTTAG
1 GGGTTAG
60313841 GGGTTA-
1 GGGTTAG
60313847 -GGTTAG
1 GGGTTAG
60313853 GGGTTAG
1 GGGTTAG
60313860 ATGTTAAGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 5 0.17
7 25 0.83
ACGTcount: A:0.17, C:0.00, G:0.53, T:0.30
Consensus pattern (7 bp):
GGGTTAG
Found at i:60313865 original size:14 final size:12
Alignment explanation
Indices: 60313821--60313859 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
60313811 AAGGTTTATG
*
60313821 GGTTAAGGGTTA
1 GGTTAGGGGTTA
60313833 GGGGTTAGGGGTTA
1 --GGTTAGGGGTTA
60313847 GGTTAGGGGTTA
1 GGTTAGGGGTTA
60313859 G
1 G
60313860 ATGTTAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 13 0.54
14 11 0.46
ACGTcount: A:0.18, C:0.00, G:0.51, T:0.31
Consensus pattern (12 bp):
GGTTAGGGGTTA
Found at i:60313865 original size:19 final size:19
Alignment explanation
Indices: 60313828--60313865 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
60313818 ATGGGTTAAG
*
60313828 GGTTAGGGGTTAGGGGTTA
1 GGTTAGGGGTTAGAGGTTA
*
60313847 GGTTAGGGGTTAGATGTTA
1 GGTTAGGGGTTAGAGGTTA
60313866 AGAGCTAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.34
Consensus pattern (19 bp):
GGTTAGGGGTTAGAGGTTA
Found at i:60314073 original size:82 final size:84
Alignment explanation
Indices: 60313972--60314139 Score: 198
Period size: 89 Copynumber: 2.0 Consensus size: 84
60313962 GGGTTAGGGA
* * **
60313972 TTAGGGGCTAGGGGCTAGGGA-TCGGGTTATGGTTTAGGGTTT-A-GATTAATTAGTGTTTTTTA
1 TTAGGGGCTAGGGGCTAGGGATTCGGGGT-TGGGTTAGGGTTTAATGATTAATTAGTACTTTTTA
60314034 ATTTATATATTAAATAAAGT
65 ATTTATATATTAAATAAAGT
* * *
60314054 TTAGGGGTTAGGGGTTAGGGATTTGGGGTTGGGTTAGGGTTTAAGATTTGGATTAATTAGTACTT
1 TTAGGGGCTAGGGGCTAGGGATTCGGGGTTGGGTTAGGGTTT-A-A--T-GATTAATTAGTACTT
60314119 TTTAATTTATATATTAAATAA
61 TTTAATTTATATATTAAATAA
60314140 GTTCTTTATA
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
82 31 0.44
83 5 0.07
85 1 0.01
89 34 0.48
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.42
Consensus pattern (84 bp):
TTAGGGGCTAGGGGCTAGGGATTCGGGGTTGGGTTAGGGTTTAATGATTAATTAGTACTTTTTAA
TTTATATATTAAATAAAGT
Found at i:60314241 original size:21 final size:21
Alignment explanation
Indices: 60314188--60314241 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
60314178 TAAAGATTAT
60314188 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
60314209 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
60314230 TAATTTAAAATT
1 TAATTTAAAATT
60314242 GTAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:60314250 original size:9 final size:9
Alignment explanation
Indices: 60314236--60314279 Score: 54
Period size: 9 Copynumber: 4.7 Consensus size: 9
60314226 ATAATAATTT
60314236 AAAATTGTA
1 AAAATTGTA
60314245 AAAATTGT-
1 AAAATTGTA
60314253 AAAATTGTAAAA
1 AAAATTGT---A
60314265 AAAATTGTA
1 AAAATTGTA
60314274 AAAATT
1 AAAATT
60314280 ACAAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 8 0.26
9 15 0.48
12 8 0.26
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (9 bp):
AAAATTGTA
Found at i:60314257 original size:17 final size:16
Alignment explanation
Indices: 60314231--60314265 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
60314221 TGAATATAAT
60314231 AATTTAAAATTGTAAA
1 AATTTAAAATTGTAAA
60314247 AATTGTAAAATTGTAAA
1 AATT-TAAAATTGTAAA
60314264 AA
1 AA
60314266 AAATTGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (16 bp):
AATTTAAAATTGTAAA
Found at i:60314276 original size:8 final size:8
Alignment explanation
Indices: 60314231--60314264 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
60314221 TGAATATAAT
60314231 AATT-TAA
1 AATTGTAA
60314238 AATTGTAAA
1 AATTGT-AA
60314247 AATTGTAA
1 AATTGTAA
60314255 AATTGTAA
1 AATTGTAA
60314263 AA
1 AA
60314265 AAAATTGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 4 0.16
8 13 0.52
9 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (8 bp):
AATTGTAA
Found at i:60314276 original size:11 final size:12
Alignment explanation
Indices: 60314253--60314277 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60314243 TAAAAATTGT
60314253 AAAATTGTAAAA
1 AAAATTGTAAAA
60314265 AAAATTGTAAAA
1 AAAATTGTAAAA
60314277 A
1 A
60314278 TTACAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAATTGTAAAA
Found at i:60314285 original size:20 final size:20
Alignment explanation
Indices: 60314244--60314288 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
60314234 TTAAAATTGT
*
60314244 AAAAATTGTAAAATTGTAAA
1 AAAAATTGTAAAAATGTAAA
*
60314264 AAAAATTGTAAAAAT-TACA
1 AAAAATTGTAAAAATGTAAA
60314283 AAAAAT
1 AAAAAT
60314289 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (20 bp):
AAAAATTGTAAAAATGTAAA
Found at i:60314303 original size:18 final size:19
Alignment explanation
Indices: 60314282--60314331 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
60314272 TAAAAATTAC
60314282 AAAAAATAAAATTA-AAAT
1 AAAAAATAAAATTAGAAAT
60314300 AAAAAATAAAA--AGAAAT
1 AAAAAATAAAATTAGAAAT
60314317 AAAAACACTAAAATT
1 AAAAA-A-TAAAATT
60314332 TTTATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.04
17 9 0.33
18 12 0.44
19 5 0.19
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (19 bp):
AAAAAATAAAATTAGAAAT
Found at i:60314378 original size:47 final size:48
Alignment explanation
Indices: 60314316--60314414 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 48
60314306 TAAAAAGAAA
** * *
60314316 TAAAAACACTAAAATTTTTATTTTTACCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACC
* * *
60314364 TAAAAA-ACTGAAATTGATAATTTTATCTAATTTTTTTAAATATTACC
1 TAAAAACACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACC
60314411 TAAA
1 TAAA
60314415 TTAACAAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 38 0.86
48 6 0.14
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45
Consensus pattern (48 bp):
TAAAAACACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACC
Found at i:60315716 original size:6 final size:6
Alignment explanation
Indices: 60315705--60315793 Score: 178
Period size: 6 Copynumber: 14.8 Consensus size: 6
60315695 AAAATTTATA
60315705 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
60315753 TATATG TATATG TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATATG TATAT
60315794 ACAGAATTGA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 83 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:60316643 original size:18 final size:19
Alignment explanation
Indices: 60316620--60316663 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
60316610 CATAATTTTC
*
60316620 TGTTTCTCTAGCA-TGTTA
1 TGTTTCTCTACCATTGTTA
* *
60316638 TGTTTCTGTACCATTTTTA
1 TGTTTCTCTACCATTGTTA
60316657 TGTTTCT
1 TGTTTCT
60316664 TTATTTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.57
Consensus pattern (19 bp):
TGTTTCTCTACCATTGTTA
Found at i:60316679 original size:7 final size:7
Alignment explanation
Indices: 60316667--60316715 Score: 71
Period size: 7 Copynumber: 6.9 Consensus size: 7
60316657 TGTTTCTTTA
60316667 TTTTCTG
1 TTTTCTG
60316674 TTTTCTG
1 TTTTCTG
*
60316681 TTTTCTA
1 TTTTCTG
60316688 TTTTCTG
1 TTTTCTG
60316695 TTTTCTG
1 TTTTCTG
*
60316702 TTTTGCTA
1 TTTT-CTG
60316710 TTTTCT
1 TTTTCT
60316716 ATTGAATGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.04, C:0.14, G:0.10, T:0.71
Consensus pattern (7 bp):
TTTTCTG
Found at i:60316691 original size:21 final size:22
Alignment explanation
Indices: 60316665--60316715 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 22
60316655 TATGTTTCTT
60316665 TATTTTCTGTTTTCTGTTTT-C
1 TATTTTCTGTTTTCTGTTTTGC
60316686 TATTTTCTGTTTTCTGTTTTGC
1 TATTTTCTGTTTTCTGTTTTGC
60316708 TATTTTCT
1 TATTTTCT
60316716 ATTGAATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.06, C:0.14, G:0.10, T:0.71
Consensus pattern (22 bp):
TATTTTCTGTTTTCTGTTTTGC
Found at i:60317255 original size:13 final size:13
Alignment explanation
Indices: 60317237--60317278 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
60317227 TATATATATG
*
60317237 TTAAATTTATTAC
1 TTAAATATATTAC
*
60317250 TTAAATATGTTAC
1 TTAAATATATTAC
*
60317263 TTAAATACATTAC
1 TTAAATATATTAC
60317276 TTA
1 TTA
60317279 CTAAAATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (13 bp):
TTAAATATATTAC
Found at i:60317433 original size:9 final size:9
Alignment explanation
Indices: 60317419--60317738 Score: 202
Period size: 9 Copynumber: 35.8 Consensus size: 9
60317409 TATGTACAAG
60317419 AACTTACAT
1 AACTTACAT
*
60317428 AACTTA-TT
1 AACTTACAT
*
60317436 AATATTTACAT
1 -A-ACTTACAT
60317447 AAACTTACAT
1 -AACTTACAT
60317457 AACTATCACAT
1 AACT-T-ACAT
*
60317468 AAACTTATATGT
1 -AACTTACA--T
60317480 AAACTTACAT
1 -AACTTACAT
60317490 AA--TACAT
1 AACTTACAT
* *
60317497 AATTTACAC
1 AACTTACAT
60317506 AACTTACAT
1 AACTTACAT
*
60317515 AACCTACAT
1 AACTTACAT
60317524 AACTTACAT
1 AACTTACAT
60317533 AA--TACA-
1 AACTTACAT
60317539 AAGCTTACAT
1 AA-CTTACAT
* *
60317549 AACTGAAAT
1 AACTTACAT
* *
60317558 AGCTTACAC
1 AACTTACAT
*
60317567 AACATACAT
1 AACTTACAT
60317576 AACTTACAT
1 AACTTACAT
*
60317585 AACTTACAC
1 AACTTACAT
60317594 AACTTACAT
1 AACTTACAT
*
60317603 AATACATA-AT
1 -A-ACTTACAT
60317613 AACTTAC--
1 AACTTACAT
60317620 AACTTACAT
1 AACTTACAT
*
60317629 AACATACAT
1 AACTTACAT
* **
60317638 TACTTTGAT
1 AACTTACAT
60317647 AACTTACAT
1 AACTTACAT
*
60317656 AAGTTACAT
1 AACTTACAT
*
60317665 AA--TACAC
1 AACTTACAT
60317672 AACTTACAT
1 AACTTACAT
** *
60317681 AGTTTACTT
1 AACTTACAT
60317690 AA--TACAT
1 AACTTACAT
60317697 AACTTACAT
1 AACTTACAT
60317706 AACTT--AT
1 AACTTACAT
*
60317713 ACACGTACAT
1 A-ACTTACAT
60317723 AACTTACAT
1 AACTTACAT
*
60317732 AATTTAC
1 AACTTAC
60317739 TTAATACATA
Statistics
Matches: 241, Mismatches: 44, Indels: 52
0.72 0.13 0.15
Matches are distributed among these distances:
6 2 0.01
7 33 0.14
8 8 0.03
9 150 0.62
10 23 0.10
11 12 0.05
12 13 0.05
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:60317524 original size:34 final size:33
Alignment explanation
Indices: 60317485--60317608 Score: 85
Period size: 34 Copynumber: 3.6 Consensus size: 33
60317475 TATGTAAACT
60317485 TACATAA-TACATAATTTACACAA-CTTACATAACC
1 TACATAACTACATAA--TACA-AAGCTTACATAACC
60317519 TACATAACTTACATAATACAAAGCTTACATAA-C
1 TACATAAC-TACATAATACAAAGCTTACATAACC
* * * *
60317552 TGAAATAGCTTACACAACATACATAA-CTTACATAACT
1 T-ACATAAC-TACA-TA-ATACA-AAGCTTACATAACC
*
60317589 TACACAACTTACATAATACA
1 TACATAAC-TACATAATACA
60317609 TAATAACTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
33 4 0.05
34 35 0.47
35 2 0.03
36 30 0.41
37 3 0.04
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (33 bp):
TACATAACTACATAATACAAAGCTTACATAACC
Found at i:60317637 original size:53 final size:51
Alignment explanation
Indices: 60317562--60317681 Score: 143
Period size: 53 Copynumber: 2.3 Consensus size: 51
60317552 TGAAATAGCT
* *
60317562 TACACAACATACATAACTTACATAACTTACACAACTTACATAA-TACATAA
1 TACACAACTTACATAACATACATAACTTACACAACTTACATAAGTACATAA
* ** *
60317612 TAACTTACAACTTACATAACATACATTACTTTGATAACTTACATAAGTTACATAA
1 T-AC--ACAACTTACATAACATACATAACTTACACAACTTACATAAG-TACATAA
60317667 TACACAACTTACATA
1 TACACAACTTACATA
60317682 GTTTACTTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
50 1 0.02
51 2 0.03
52 12 0.20
53 34 0.58
54 2 0.03
55 8 0.14
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.30
Consensus pattern (51 bp):
TACACAACTTACATAACATACATAACTTACACAACTTACATAAGTACATAA
Found at i:60317687 original size:25 final size:26
Alignment explanation
Indices: 60317645--60317749 Score: 119
Period size: 25 Copynumber: 4.2 Consensus size: 26
60317635 CATTACTTTG
60317645 ATAACTTACATAAG-TTACATAATAC
1 ATAACTTACATAAGTTTACATAATAC
* *
60317670 ACAACTTACAT-AGTTTACTTAATAC
1 ATAACTTACATAAGTTTACATAATAC
* **
60317695 ATAACTTACATAACTTATACA-CGTAC
1 ATAACTTACATAAGTT-TACATAATAC
*
60317721 ATAACTTACATAA-TTTACTTAATAC
1 ATAACTTACATAAGTTTACATAATAC
60317746 ATAA
1 ATAA
60317750 ATATATATCA
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
24 5 0.08
25 39 0.59
26 19 0.29
27 3 0.05
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.34
Consensus pattern (26 bp):
ATAACTTACATAAGTTTACATAATAC
Found at i:60317738 original size:51 final size:50
Alignment explanation
Indices: 60317485--60317749 Score: 153
Period size: 52 Copynumber: 5.1 Consensus size: 50
60317475 TATGTAAACT
* * * * *
60317485 TACATAA--TACATAATTTACACAACTTACATAACCTACATAACTTACATAA
1 TACATAACTTACATAACTTACACAA--TACACAACTTACATAATTTACTTAA
* * * * * * *
60317535 TACA-AAGCTTACATAACTGAAATAGCTTACACAACATACATAACTTACATAA
1 TACATAA-CTTACATAACTTACACA--ATACACAACTTACATAATTTACTTAA
* * ** *
60317587 CTTACACAACTTACATAA--TACATAATAACTTACAACTTACATAACATACATTACT
1 --TACATAACTTACATAACTTACACAAT-AC--ACAACTTACATAATTTAC-TTA-A
** * * *
60317642 TTGATAACTTACATAAGTTACATAATACACAACTTACATAGTTTACTTAA
1 TACATAACTTACATAACTTACACAATACACAACTTACATAATTTACTTAA
* * *
60317692 TACATAACTTACATAACTTATACACGTACATAACTTACATAATTTACTTAA
1 TACATAACTTACATAACTTACACA-ATACACAACTTACATAATTTACTTAA
60317743 TACATAA
1 TACATAA
60317750 ATATATATCA
Statistics
Matches: 170, Mismatches: 29, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
49 2 0.01
50 24 0.14
51 35 0.21
52 53 0.31
53 29 0.17
54 17 0.10
55 10 0.06
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (50 bp):
TACATAACTTACATAACTTACACAATACACAACTTACATAATTTACTTAA
Found at i:60320845 original size:21 final size:21
Alignment explanation
Indices: 60320821--60320889 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
60320811 GTACAACTTA
*
60320821 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* *
60320842 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAACGAGAG
** * *
60320863 AAGCAGAGGTTGCAGCGCGAG
1 AAGCAGAGGCGGCAACGAGAG
60320884 AAGCAG
1 AAGCAG
60320890 CGAGAGAAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:60321469 original size:41 final size:41
Alignment explanation
Indices: 60321274--60321499 Score: 281
Period size: 42 Copynumber: 5.4 Consensus size: 41
60321264 AATCCCAAAA
* * *
60321274 TTAGTGGCGTTTTTTATAAAAGCGCTGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTTT-T-TAAGCGCCGCTAAAGAACATGATCT
* ** * *
60321317 ATAGCGGCGTTTTTTACCAAGCACCGCTAAAGAACATTATCT
1 TTAGCGGCGTTTTTT-TTAAGCGCCGCTAAAGAACATGATCT
* *
60321359 TTAGCGGCGTTTTTCTTTAAGCGCCGCTAAAGAATATTATCT
1 TTAGCGGCGTTTTT-TTTAAGCGCCGCTAAAGAACATGATCT
*
60321401 TTAGCGGCGATTTTTTTGTAACCGCCGCTAAAGAACATGATCT
1 TTAGCGGCG-TTTTTTT-TAAGCGCCGCTAAAGAACATGATCT
* *
60321444 TTAGCGGCGTTTTTTTTAAGTGCCGCTAAAAAACATGATCT
1 TTAGCGGCGTTTTTTTTAAGCGCCGCTAAAGAACATGATCT
60321485 TTAGCGGCGTTTTTT
1 TTAGCGGCGTTTTTT
60321500 CTATAAACGC
Statistics
Matches: 162, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
41 37 0.23
42 74 0.46
43 51 0.31
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (41 bp):
TTAGCGGCGTTTTTTTTAAGCGCCGCTAAAGAACATGATCT
Found at i:60325636 original size:30 final size:30
Alignment explanation
Indices: 60325595--60325652 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
60325585 GTATGTATAA
60325595 ATAATTATATATATGTTAATATTGGATAGC
1 ATAATTATATATATGTTAATATTGGATAGC
* *
60325625 ATAATTCTATATATGTTAATATTTGATA
1 ATAATTATATATATGTTAATATTGGATA
60325653 TTAGTGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (30 bp):
ATAATTATATATATGTTAATATTGGATAGC
Found at i:60326089 original size:16 final size:17
Alignment explanation
Indices: 60326068--60326105 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
60326058 ATATTTCTAA
60326068 AAAATAAA-ATAATTTT
1 AAAATAAACATAATTTT
60326084 AAAATAAACATAATTTT
1 AAAATAAACATAATTTT
60326101 AAAAT
1 AAAAT
60326106 TTTAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATAAACATAATTTT
Found at i:60331043 original size:16 final size:16
Alignment explanation
Indices: 60331022--60331090 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
60331012 TTTGGTTCGC
60331022 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
60331038 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
60331054 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
60331071 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
60331087 TGTA
1 TGTA
60331091 ATAACTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:60331068 original size:33 final size:32
Alignment explanation
Indices: 60331022--60331090 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
60331012 TTTGGTTCGC
60331022 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
60331054 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
60331087 TGTA
1 TGTA
60331091 ATAACTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:60331344 original size:18 final size:17
Alignment explanation
Indices: 60331323--60331357 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60331313 TTATTATTAA
*
60331323 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60331341 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60331358 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60331404 original size:61 final size:61
Alignment explanation
Indices: 60331338--60331525 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
60331328 TTTTAATTAA
60331338 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
60331399 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
60331458 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
60331519 AATATAT
1 AATATAT
60331526 GATACTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 23 0.24
61 37 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:60331455 original size:120 final size:121
Alignment explanation
Indices: 60331306--60331598 Score: 518
Period size: 120 Copynumber: 2.4 Consensus size: 121
60331296 ATCATATTTA
60331306 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
60331371 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
60331426 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
60331491 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
60331547 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
60331599 TAAAATAATT
Statistics
Matches: 165, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 163 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:60331471 original size:14 final size:15
Alignment explanation
Indices: 60331422--60331473 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
60331412 ATAAAATATA
60331422 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
60331437 TATTAAATATATTAT
1 AATTAAATATATTAT
60331452 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
60331465 AATTTAATA
1 AATTAAATA
60331474 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:60331645 original size:101 final size:93
Alignment explanation
Indices: 60331539--60331821 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
60331529 ACTATAAAAG
* * * *
60331539 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
60331603 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
60331640 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
60331703 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
60331731 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
60331794 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
60331822 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:60331668 original size:26 final size:28
Alignment explanation
Indices: 60331639--60331699 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
60331629 TATGAATTTG
*
60331639 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
60331665 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
60331693 TAAAATT
1 TATAATT
60331700 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:60331697 original size:47 final size:46
Alignment explanation
Indices: 60331646--60331789 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
60331636 TTGTATAATT
60331646 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
60331693 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
60331737 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
60331784 TAAAAT
1 TAAAAT
60331790 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:60331709 original size:91 final size:90
Alignment explanation
Indices: 60331614--60331821 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
60331604 TAATTATAAC
* * * *
60331614 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
60331679 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
60331705 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
60331770 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
60331796 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
60331822 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:60331781 original size:44 final size:43
Alignment explanation
Indices: 60331639--60331781 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
60331629 TATGAATTTG
* *
60331639 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
60331683 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
60331730 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
60331774 TATAATTT
1 TATAATTT
60331782 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:60331796 original size:47 final size:47
Alignment explanation
Indices: 60331664--60331802 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
60331654 TTATTATTAC
* *
60331664 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
60331711 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
60331755 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
60331802 A
1 A
60331803 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:60336463 original size:27 final size:27
Alignment explanation
Indices: 60336433--60336488 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
60336423 CGATTACACC
60336433 CGTATTACCAATACTTTAAACCAAACA
1 CGTATTACCAATACTTTAAACCAAACA
60336460 CGTATTACCAATACTTTAAACCAAACA
1 CGTATTACCAATACTTTAAACCAAACA
60336487 CG
1 CG
60336489 GGAATAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.27, G:0.05, T:0.25
Consensus pattern (27 bp):
CGTATTACCAATACTTTAAACCAAACA
Found at i:60339859 original size:3 final size:3
Alignment explanation
Indices: 60339851--60339887 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
60339841 AAGAAGGAAC
60339851 AAT AAT AAT AAT GAA- AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT A
60339888 GGATTAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.88
4 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:60341764 original size:132 final size:132
Alignment explanation
Indices: 60341527--60342459 Score: 1330
Period size: 132 Copynumber: 7.1 Consensus size: 132
60341517 AACTTCAGAA
* * * * *
60341527 AGATAAGACCTG-TAATTTTCAACCTACTCCAG-TGCTGCTCAGGGAGATAAGGTTCAGTGGCTT
1 AGATAAGATCTGCT-ATCTTCAACCTACTCC-GCTGCTGCTCAGGGAGACAAGGCTCGGTGGCTT
* * * *
60341590 AAATCTGCTTCCCATTATCTTGGAAAGATAATATTTGTCGTCTTCGATCTGCTCCACTACTGTTT
64 AAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTT
60341655 AGGG
129 AGGG
* * * *
60341659 AGATAATATCTGTTATCTTCAACCTACTCCGCTGCTACTCAGGGAGACAAGGCTTGGTGGCTTAA
1 AGATAAGATCTGCTATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTCGGTGGCTTAA
* * * *
60341724 ATTTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTACTCCACTACTACTTAG
66 ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAG
60341789 GG
131 GG
* *
60341791 AGATAATATCTGCTATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAAGCTCGGTGGCTTAA
1 AGATAAGATCTGCTATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTCGGTGGCTTAA
* * *
60341856 ATTTGCTTCCCACTATCTTGGAAAGATAAGATTTACTGTCTTCGATCTGCTCCACTACTGCTTAG
66 ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAG
*
60341921 TG
131 GG
* *
60341923 AGATAATATCTGCTATCTTCAACCTACTCCGCTGCTGCTCACGGAGACAAGGCTCGGTGGCTTAA
1 AGATAAGATCTGCTATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTCGGTGGCTTAA
* *
60341988 ATTTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTTCTCCACTACTGCTTAG
66 ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAG
60342053 GG
131 GG
* ** * *
60342055 AGATAAGATATGCTATCTTCAACCTACTCTACTGTTCCTCAGGGAGACAAGGCTCGGTGGCTTAA
1 AGATAAGATCTGCTATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTCGGTGGCTTAA
* * * * *
60342120 ATCTGCTTCCTACTATCTTGGAAAGATAAGATTTGTCATATTTGATCTGCTCCACTACTGCTTAG
66 ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAG
60342185 GG
131 GG
* * * * *
60342187 AGATAAGATCTACAATCTTCAACCTGCTCTGCTGCTGCTCAAGGAGACAAGGCTCGGTGGCTTAA
1 AGATAAGATCTGCTATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTCGGTGGCTTAA
* * * ** *
60342252 ATCTGCTTCCCAATATCTTGAAAATATAAGATTTTTCGTTTTCGATCTGCTCCACTACTGCTTAG
66 ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAG
60342317 GG
131 GG
* ** *
60342319 AGATAAGATCTGCTATCTTCAACCTGCTCTTCTGCTGCTCAGGGAGATAAGGCTCGGTGGCTTAA
1 AGATAAGATCTGCTATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTCGGTGGCTTAA
* * * *
60342384 ATCTGCATCCCACTATCTTGGAAAAATAAGATTTGCCGTCTTTGATCTACTCCACTACTGCTTAG
66 ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAG
60342449 GG
131 GG
60342451 AGATAAGAT
1 AGATAAGAT
60342460 TTGTAATATT
Statistics
Matches: 725, Mismatches: 74, Indels: 4
0.90 0.09 0.00
Matches are distributed among these distances:
131 1 0.00
132 723 1.00
133 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (132 bp):
AGATAAGATCTGCTATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTCGGTGGCTTAA
ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAG
GG
Found at i:60344563 original size:14 final size:15
Alignment explanation
Indices: 60344544--60344572 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60344534 TGGCCTTTCC
60344544 TTTTC-TTTTTCCTT
1 TTTTCTTTTTTCCTT
60344558 TTTTCTTTTTTCCTT
1 TTTTCTTTTTTCCTT
60344573 ATCTATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTCTTTTTTCCTT
Found at i:60344640 original size:11 final size:11
Alignment explanation
Indices: 60344626--60344664 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
60344616 TTTTTCTTCC
60344626 TTTTTTTGTTT
1 TTTTTTTGTTT
60344637 TTTTTTTGTTT
1 TTTTTTTGTTT
* *
60344648 TTGATTTTGATT
1 TT-TTTTTGTTT
60344660 TTTTT
1 TTTTT
60344665 GGATTGGATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.05, C:0.00, G:0.10, T:0.85
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:60350187 original size:43 final size:43
Alignment explanation
Indices: 60350137--60350274 Score: 113
Period size: 43 Copynumber: 3.3 Consensus size: 43
60350127 ATGTGTCTGA
60350137 TTATTTGCATTGTTTTATCACCGTCTTTTGCTTCTTTCTTGTT
1 TTATTTGCATTGTTTTATCACCGTCTTTTGCTTCTTTCTTGTT
**** ** * * * * * * *
60350180 TTATTTGCATTTGAAGGAAAAAC-TATGTT-CAATGTGTC-TG-A
1 TTATTTGCA-TTGTTTTATCACCGTCTTTTGC-TTCTTTCTTGTT
60350221 TTATTTGCATTGTTTTATCACCGTCTTTTGCTTCTTTCTTGTT
1 TTATTTGCATTGTTTTATCACCGTCTTTTGCTTCTTTCTTGTT
60350264 TTATTTGCATT
1 TTATTTGCATT
60350275 TGAAGGAAAA
Statistics
Matches: 63, Mismatches: 26, Indels: 12
0.62 0.26 0.12
Matches are distributed among these distances:
40 6 0.10
41 17 0.27
42 6 0.10
43 28 0.44
44 6 0.10
ACGTcount: A:0.17, C:0.15, G:0.14, T:0.54
Consensus pattern (43 bp):
TTATTTGCATTGTTTTATCACCGTCTTTTGCTTCTTTCTTGTT
Found at i:60350240 original size:84 final size:84
Alignment explanation
Indices: 60350099--60350303 Score: 392
Period size: 84 Copynumber: 2.4 Consensus size: 84
60350089 TGTTTTGTTC
60350099 TTTGCATTTGAAGGAAAAACTATGTTCAATGTGTCTGATTATTTGCATTGTTTTATCACCGTCTT
1 TTTGCATTTGAAGGAAAAACTATGTTCAATGTGTCTGATTATTTGCATTGTTTTATCACCGTCTT
60350164 TTGCTTCTTTCTTGTTTTA
66 TTGCTTCTTTCTTGTTTTA
60350183 TTTGCATTTGAAGGAAAAACTATGTTCAATGTGTCTGATTATTTGCATTGTTTTATCACCGTCTT
1 TTTGCATTTGAAGGAAAAACTATGTTCAATGTGTCTGATTATTTGCATTGTTTTATCACCGTCTT
60350248 TTGCTTCTTTCTTGTTTTA
66 TTGCTTCTTTCTTGTTTTA
*
60350267 TTTGCATTTGAAGGAAAAAACTATGTTCTATGTGTCT
1 TTTGCATTTGAAGG-AAAAACTATGTTCAATGTGTCT
60350304 ACTTTAACTT
Statistics
Matches: 119, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 98 0.82
85 21 0.18
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.48
Consensus pattern (84 bp):
TTTGCATTTGAAGGAAAAACTATGTTCAATGTGTCTGATTATTTGCATTGTTTTATCACCGTCTT
TTGCTTCTTTCTTGTTTTA
Found at i:60352267 original size:3 final size:3
Alignment explanation
Indices: 60352261--60352288 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
60352251 AAGAAGACTT
60352261 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
60352289 ATAAAAGTAG
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:60358898 original size:22 final size:22
Alignment explanation
Indices: 60358851--60358898 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
60358841 AGGTACTTAA
*
60358851 TCTTCATTTTTTAGCTTTAGTC
1 TCTTCATTTTTTAGCTTTAATC
* * *
60358873 TCTTCGTTTTTTATCTTTAATT
1 TCTTCATTTTTTAGCTTTAATC
60358895 TCTT
1 TCTT
60358899 GGGTTCCTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.12, C:0.17, G:0.06, T:0.65
Consensus pattern (22 bp):
TCTTCATTTTTTAGCTTTAATC
Found at i:60365268 original size:20 final size:20
Alignment explanation
Indices: 60365245--60365333 Score: 61
Period size: 20 Copynumber: 4.2 Consensus size: 20
60365235 AGAACAAAGG
*
60365245 AAAACAGAATAGAGCAGAAC
1 AAAACTGAATAGAGCAGAAC
*
60365265 AAAACTGAATGGTACAGAGCAGAGC
1 AAAACTGAA---T--AGAGCAGAAC
* * *
60365290 AGAACTGAACAGAACAGAAC
1 AAAACTGAATAGAGCAGAAC
* * *
60365310 AGAACGGAGTAGAGCAGAAC
1 AAAACTGAATAGAGCAGAAC
60365330 AAAA
1 AAAA
60365334 TATAGCAAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
20 35 0.66
23 1 0.02
25 17 0.32
ACGTcount: A:0.53, C:0.16, G:0.25, T:0.07
Consensus pattern (20 bp):
AAAACTGAATAGAGCAGAAC
Found at i:60365306 original size:25 final size:25
Alignment explanation
Indices: 60365247--60365314 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
60365237 AACAAAGGAA
*
60365247 AACAGAATAGAGCAGAACAAAACTG
1 AACAGAACAGAGCAGAACAAAACTG
** * * *
60365272 AATGGTACAGAGCAGAGCAGAACTG
1 AACAGAACAGAGCAGAACAAAACTG
*
60365297 AACAGAACAGAACAGAAC
1 AACAGAACAGAGCAGAAC
60365315 GGAGTAGAGC
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.51, C:0.18, G:0.24, T:0.07
Consensus pattern (25 bp):
AACAGAACAGAGCAGAACAAAACTG
Found at i:60374933 original size:9 final size:9
Alignment explanation
Indices: 60374913--60374947 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
60374903 ACCTAAAACA
60374913 TTATTT-AT
1 TTATTTAAT
60374921 TTATTTAAT
1 TTATTTAAT
60374930 TTATTTAATT
1 TTATTTAA-T
60374940 TTATTTAA
1 TTATTTAA
60374948 ATTAATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 6 0.24
9 10 0.40
10 9 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTATTTAAT
Found at i:60374960 original size:23 final size:23
Alignment explanation
Indices: 60374916--60374962 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
60374906 TAAAACATTA
* *
60374916 TTTATTTATTTAATTTATTTAAT
1 TTTATTTAATTAATTTACTTAAT
60374939 TTTATTTAAATTAATTT-CTTAAT
1 TTTATTT-AATTAATTTACTTAAT
60374962 T
1 T
60374963 AAATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTATTTAATTAATTTACTTAAT
Found at i:60374966 original size:17 final size:17
Alignment explanation
Indices: 60374944--60374977 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
60374934 TTAATTTTAT
60374944 TTAAATTAATTTCTTAA
1 TTAAATTAATTTCTTAA
*
60374961 TTAAATTATTTTCTTAA
1 TTAAATTAATTTCTTAA
60374978 CCTAATTCTA
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:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAATTAATTTCTTAA
Found at i:60377593 original size:15 final size:15
Alignment explanation
Indices: 60377557--60377593 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
60377547 CTGGCAGTGT
*
60377557 GACACACACGGCTGA
1 GACACATACGGCTGA
60377572 GACACATACGGCTGA
1 GACACATACGGCTGA
60377587 GACACAT
1 GACACAT
60377594 GCCCGTGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.35, C:0.30, G:0.24, T:0.11
Consensus pattern (15 bp):
GACACATACGGCTGA
Found at i:60378462 original size:21 final size:21
Alignment explanation
Indices: 60378433--60378486 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
60378423 GAAGCTTGAA
*
60378433 AGCTAAACAGAAGCTCATAAG
1 AGCTGAACAGAAGCTCATAAG
* *
60378454 AGCTGAACAGGAGCTCGTAAG
1 AGCTGAACAGAAGCTCATAAG
60378475 AGCTGAACAGAA
1 AGCTGAACAGAA
60378487 AGCAAAACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.13
Consensus pattern (21 bp):
AGCTGAACAGAAGCTCATAAG
Found at i:60400142 original size:21 final size:21
Alignment explanation
Indices: 60400110--60400290 Score: 121
Period size: 21 Copynumber: 8.6 Consensus size: 21
60400100 GAAGCTCGAA
* *
60400110 AGCTGAACAGAAACTCATGAG
1 AGCTAAACAGAAACTCATAAG
* *
60400131 AGCTAAATAGAAGCTCATAAG
1 AGCTAAACAGAAACTCATAAG
60400152 AGCTAAACAGAAAC-CTATAAG
1 AGCTAAACAGAAACTC-ATAAG
* * * * *
60400173 GGTTGAACAGAAGCTCGTAAG
1 AGCTAAACAGAAACTCATAAG
*
60400194 AGCTTAACAGAAACTCATAAG
1 AGCTAAACAGAAACTCATAAG
* * * * *
60400215 AGTTGAATAGAAGCTCGTAAG
1 AGCTAAACAGAAACTCATAAG
* * * * *
60400236 GGTTGAACAGAAACTCGTATG
1 AGCTAAACAGAAACTCATAAG
* * * *
60400257 AGTTAAATAGAAGCTCGTAAG
1 AGCTAAACAGAAACTCATAAG
*
60400278 AGCTGAACAGAAA
1 AGCTAAACAGAAA
60400291 GTAAAACACG
Statistics
Matches: 124, Mismatches: 34, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
20 1 0.01
21 122 0.98
22 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (21 bp):
AGCTAAACAGAAACTCATAAG
Found at i:60400164 original size:42 final size:42
Alignment explanation
Indices: 60400099--60400290 Score: 237
Period size: 42 Copynumber: 4.6 Consensus size: 42
60400089 ACATCGTTTC
* *
60400099 AGAAGCTCG-AA-AGCTGAACAGAAACTCATGAGAGCTAAAT
1 AGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTAAAT
* * * * *
60400139 AGAAGCTCATAAGAGCTAAACAGAAAC-CTATAAGGGTTGAAC
1 AGAAGCTCGTAAGAGCTGAACAGAAACTC-ATAAGAGTTAAAT
* *
60400181 AGAAGCTCGTAAGAGCTTAACAGAAACTCATAAGAGTTGAAT
1 AGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTAAAT
* * * *
60400223 AGAAGCTCGTAAGGGTTGAACAGAAACTCGTATGAGTTAAAT
1 AGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTAAAT
60400265 AGAAGCTCGTAAGAGCTGAACAGAAA
1 AGAAGCTCGTAAGAGCTGAACAGAAA
60400291 GTAAAACACG
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 8 0.06
41 3 0.02
42 117 0.91
43 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (42 bp):
AGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTAAAT
Found at i:60400184 original size:63 final size:63
Alignment explanation
Indices: 60400113--60400290 Score: 207
Period size: 63 Copynumber: 2.8 Consensus size: 63
60400103 GCTCGAAAGC
* *
60400113 TGAACAGAAACTCATGAGAGCTAAATAGAAGCTCATAAGAGCTAAACAGAAACCT-ATAAGGGT
1 TGAACAGAAACTCGT-AGAGCTAAATAGAAGCTCATAAGAGCTGAACAGAAACCTCATAAGGGT
* * * * * * * *
60400176 TGAACAGAAGCTCGTAAGAGCTTAACAGAAACTCATAAGAGTTGAATAG-AAGCTCGTAAGGGT
1 TGAACAGAAACTCGT-AGAGCTAAATAGAAGCTCATAAGAGCTGAACAGAAACCTCATAAGGGT
* *
60400239 TGAACAGAAACTCGTATGAGTTAAATAGAAGCTCGTAAGAGCTGAACAGAAA
1 TGAACAGAAACTCGTA-GAGCTAAATAGAAGCTCATAAGAGCTGAACAGAAA
60400291 GTAAAACACG
Statistics
Matches: 93, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
62 5 0.05
63 86 0.92
64 2 0.02
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (63 bp):
TGAACAGAAACTCGTAGAGCTAAATAGAAGCTCATAAGAGCTGAACAGAAACCTCATAAGGGT
Found at i:60402288 original size:15 final size:17
Alignment explanation
Indices: 60402246--60402290 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 17
60402236 GAAATAATAA
60402246 CTAATTAATTCAATTAAGT
1 CTAA-TAATT-AATTAAGT
60402265 CTAAT-ATTAATTAA-T
1 CTAATAATTAATTAAGT
60402280 -TAATAATTAAT
1 CTAATAATTAAT
60402291 ATGCTTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.16
15 7 0.28
16 6 0.24
17 3 0.12
18 1 0.04
19 4 0.16
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (17 bp):
CTAATAATTAATTAAGT
Done.