Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 112 of 203
Found at i:35451567 original size:11 final size:10
Alignment explanation
Indices: 35451546--35451602 Score: 52
Period size: 9 Copynumber: 6.1 Consensus size: 10
35451536 AATAGAAGTT
35451546 TTTAAAATTA
1 TTTAAAATTA
35451556 TTTAACAATTA
1 TTTAA-AATTA
35451567 --TAAAATTA
1 TTTAAAATTA
*
35451575 -AT-AAATTA
1 TTTAAAATTA
*
35451583 TTAAAAATTA
1 TTTAAAATTA
35451593 -TTAAAATTA
1 TTTAAAATTA
35451602 T
1 T
35451603 ATTTATTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
8 11 0.28
9 12 0.31
10 11 0.28
11 5 0.13
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (10 bp):
TTTAAAATTA
Found at i:35451572 original size:19 final size:17
Alignment explanation
Indices: 35451548--35451603 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 17
35451538 TAGAAGTTTT
35451548 TAAAATTATTTAACAATTA
1 TAAAATTA-TTAA-AATTA
*
35451567 TAAAATTAAT-AAATTA
1 TAAAATTATTAAAATTA
35451583 TTAAAAATTATTAAAATTA
1 -T-AAAATTATTAAAATTA
35451602 TA
1 TA
35451604 TTTATTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 5 0.16
17 3 0.09
18 10 0.31
19 14 0.44
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATTATTAAAATTA
Found at i:35451583 original size:27 final size:27
Alignment explanation
Indices: 35451550--35451601 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
35451540 GAAGTTTTTA
*
35451550 AAATTATTTAACAATTA-TAAAATTAAT
1 AAATTA-TTAAAAATTATTAAAATTAAT
35451577 AAATTATTAAAAATTATTAAAATTA
1 AAATTATTAAAAATTATTAAAATTA
35451602 TATTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATTATTAAAAATTATTAAAATTAAT
Found at i:35451598 original size:9 final size:9
Alignment explanation
Indices: 35451547--35451602 Score: 62
Period size: 8 Copynumber: 6.1 Consensus size: 9
35451537 ATAGAAGTTT
35451547 TTAAAATTA
1 TTAAAATTA
35451556 TTTAACAATTA
1 -TTAA-AATTA
35451567 -TAAAATTA
1 TTAAAATTA
*
35451575 AT-AAATTA
1 TTAAAATTA
35451583 TTAAAAATTA
1 TT-AAAATTA
35451593 TTAAAATTA
1 TTAAAATTA
35451602 T
1 T
35451603 ATTTATTTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
8 12 0.29
9 12 0.29
10 12 0.29
11 5 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (9 bp):
TTAAAATTA
Found at i:35468091 original size:14 final size:13
Alignment explanation
Indices: 35468064--35468103 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
35468054 CCCTCCTTTC
*
35468064 TTTCTTTCTTTTT
1 TTTCTTTGTTTTT
*
35468077 TTTTTTTGGTTTTT
1 TTTCTTT-GTTTTT
35468091 TTTCTTTGTTTTT
1 TTTCTTTGTTTTT
35468104 GTTGCAGCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (13 bp):
TTTCTTTGTTTTT
Found at i:35469087 original size:14 final size:15
Alignment explanation
Indices: 35469068--35469099 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
35469058 ATATTAAAAG
35469068 ATAATAATATT-ATT
1 ATAATAATATTAATT
35469082 ATAATAATATTAATT
1 ATAATAATATTAATT
35469097 ATA
1 ATA
35469100 TTTTAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATAATATTAATT
Found at i:35472839 original size:29 final size:28
Alignment explanation
Indices: 35472806--35472903 Score: 92
Period size: 28 Copynumber: 3.4 Consensus size: 28
35472796 TTACATTTTG
*
35472806 TATAATTTTCTTACGACTTTATAAAATTT
1 TATAATTTTTTTACGA-TTTATAAAATTT
* * *
35472835 TATAATTTTTTTA-TATTTCTATATATTT
1 TATAATTTTTTTACGATTTATA-AAATTT
*
35472863 TATAATTTTTTTACGATTTTTATACAATTT
1 TATAATTTTTTTACGA--TTTATAAAATTT
35472893 T-TATATTTTTT
1 TATA-ATTTTTT
35472904 ACAAATTTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
27 5 0.09
28 19 0.34
29 15 0.27
30 12 0.21
31 5 0.09
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (28 bp):
TATAATTTTTTTACGATTTATAAAATTT
Found at i:35472931 original size:19 final size:18
Alignment explanation
Indices: 35472878--35472931 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
35472868 TTTTTTTACG
35472878 ATTTTTATACAATTTTTAT
1 ATTTTT-TACAATTTTTAT
*
35472897 ATTTTTTACAAATTTTAT
1 ATTTTTTACAATTTTTAT
*
35472915 ATTTTTTTCTAATTTTT
1 ATTTTTTAC-AATTTTT
35472932 TTCTAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 19 0.61
19 12 0.39
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTTACAATTTTTAT
Found at i:35473113 original size:89 final size:89
Alignment explanation
Indices: 35473020--35473244 Score: 251
Period size: 88 Copynumber: 2.5 Consensus size: 89
35473010 AATTTTTAAT
** * *
35473020 AAAAGTAGGGGTTTAATTGCTTTTTTTAAAAAAGTTTGAGGG-TCTTTTTGATGCATTTTGAAAG
1 AAAAGTAGGGAATTAATT-CTTTTTTTAAAAAAGTTTGAGGGCT-TTTTTGATACATTTTAAAAG
*
35473084 TTCAAGTACCCAATTGAGTAC-AAAA
64 TTCAAGTACCCAAATGAGTACGAAAA
* * * * *
35473109 AAAAGTAGGGAATTAATTTTTTTTTTGAAAAGGTTTGAGGGCTTTTTTTATATATTTTAAAAGTT
1 AAAAGTAGGGAATTAATTCTTTTTTTAAAAAAGTTTGAGGGCTTTTTTGATACATTTTAAAAGTT
*
35473174 CAAGTACCCAAATGAGTGCGAAAA
66 CAAGTACCCAAATGAGTACGAAAA
* * * *
35473198 AAAAGTA-AGAACTTAATTAC-TTTTTAAAAAAAATTTGAGGACTTTTT
1 AAAAGTAGGGAA-TTAATT-CTTTTTTTAAAAAAGTTTGAGGGCTTTTT
35473245 ACCCAATTAA
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
88 58 0.51
89 56 0.49
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.38
Consensus pattern (89 bp):
AAAAGTAGGGAATTAATTCTTTTTTTAAAAAAGTTTGAGGGCTTTTTTGATACATTTTAAAAGTT
CAAGTACCCAAATGAGTACGAAAA
Found at i:35476686 original size:41 final size:40
Alignment explanation
Indices: 35476634--35476713 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 40
35476624 CATTTTAACG
*
35476634 CATATCGATGCCACTGTCCAAGACAAGGTCTTATACGAAT
1 CATATCGATGCCAATGTCCAAGACAAGGTCTTATACGAAT
* *
35476674 CATATACGATGCCAATGTCCCAGACATGGTCTTATACGAA
1 CATAT-CGATGCCAATGTCCAAGACAAGGTCTTATACGAA
35476714 ATCACACCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 5 0.14
41 31 0.86
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
CATATCGATGCCAATGTCCAAGACAAGGTCTTATACGAAT
Found at i:35476903 original size:30 final size:30
Alignment explanation
Indices: 35476863--35477145 Score: 316
Period size: 30 Copynumber: 9.3 Consensus size: 30
35476853 ATATATGTAA
* *
35476863 ACATATACAAATCATTTCGGCAATATATAT
1 ACATATACAAATCAATTCGGCAATGTATAT
* * *
35476893 ACATGTACAAATCAATTCGGCAACGTATCT
1 ACATATACAAATCAATTCGGCAATGTATAT
* *
35476923 CCATATAAAAATCAATTCGGCAATGTATAT
1 ACATATACAAATCAATTCGGCAATGTATAT
**
35476953 ACATATACAAATCAATTCGATAATGTATAT
1 ACATATACAAATCAATTCGGCAATGTATAT
* *
35476983 CCATATACAAATCAATTCGGCTATGTATAT
1 ACATATACAAATCAATTCGGCAATGTATAT
* *
35477013 CCATATACAAATCAATTCGGCAATATATAT
1 ACATATACAAATCAATTCGGCAATGTATAT
* * *
35477043 ATCCATATACAAATCAATTCGACAATATATGTAA
1 A--CATATACAAATCAATTCGGCAATGTA--TAT
* * **
35477077 ACATATACAAATC-ATTTGACAATACATAT
1 ACATATACAAATCAATTCGGCAATGTATAT
* *
35477106 ACATGTACAAATCAATTCGGCAATGTATAAA
1 ACATATACAAATCAATTCGGCAATGTAT-AT
35477137 ACATATACA
1 ACATATACA
35477146 TTTGAATTCA
Statistics
Matches: 214, Mismatches: 33, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
29 14 0.07
30 140 0.65
31 20 0.09
32 37 0.17
34 3 0.01
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (30 bp):
ACATATACAAATCAATTCGGCAATGTATAT
Found at i:35480913 original size:14 final size:14
Alignment explanation
Indices: 35480894--35480927 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
35480884 AACCTTCTGT
35480894 TTTGCCACCCACAC
1 TTTGCCACCCACAC
35480908 TTTGCCACCCACAC
1 TTTGCCACCCACAC
35480922 TATTGC
1 T-TTGC
35480928 TACGTATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.21, C:0.44, G:0.09, T:0.26
Consensus pattern (14 bp):
TTTGCCACCCACAC
Found at i:35484247 original size:21 final size:21
Alignment explanation
Indices: 35484207--35484252 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
35484197 CCCTCCATGT
* *
35484207 GGGCGTGTGTGGCCTTCACAC
1 GGGCGTGTGTGGCATGCACAC
* *
35484228 GGGCGTTTGTGGCATGCACAT
1 GGGCGTGTGTGGCATGCACAC
35484249 GGGC
1 GGGC
35484253 TTGTAGACCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.11, C:0.24, G:0.41, T:0.24
Consensus pattern (21 bp):
GGGCGTGTGTGGCATGCACAC
Found at i:35498176 original size:16 final size:16
Alignment explanation
Indices: 35498155--35498185 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35498145 ATTAATCAAA
35498155 TTTTATTTTTATCTTT
1 TTTTATTTTTATCTTT
*
35498171 TTTTATTTTTTTCTT
1 TTTTATTTTTATCTT
35498186 CCCAAATACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTATTTTTATCTTT
Found at i:35500497 original size:53 final size:53
Alignment explanation
Indices: 35500437--35500539 Score: 145
Period size: 53 Copynumber: 1.9 Consensus size: 53
35500427 ATAATATTCT
* *
35500437 TTTGGAAAAAATATAATAAAAC-TTTCTTTATGTTCTCTAATGGAATATTTTCG
1 TTTGGAAAAAATATAATAAAACTTTTC-ATATGTTCTCTAATGAAATATTTTCG
* * *
35500490 TTTGGAAAGAATATAATAGAACTTTTCATATGTTCTTTAATGAAATATTT
1 TTTGGAAAAAATATAATAAAACTTTTCATATGTTCTCTAATGAAATATTT
35500540 CCATTTTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 40 0.91
54 4 0.09
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.44
Consensus pattern (53 bp):
TTTGGAAAAAATATAATAAAACTTTTCATATGTTCTCTAATGAAATATTTTCG
Found at i:35502550 original size:77 final size:76
Alignment explanation
Indices: 35502423--35502577 Score: 283
Period size: 77 Copynumber: 2.0 Consensus size: 76
35502413 TCGCCCCCTA
*
35502423 TATGTATTATGAGGGGTTTTGGGCCTCTCCTAAGGGTGAGCAAAATTCGATTCGATTTGAAAAAT
1 TATGTATTATGAGGGGTTTTGGGCCTCTCATAAGGGTGAGCAAAATTCGATTCGATTTGAAAAAT
35502488 CGAAAAAAAATT
66 CG-AAAAAAATT
*
35502500 TATGTATTATGAGGGGTTTTGGGCCTCTCATAAGGGTGAGTAAAATTCGATTCGATTTGAAAAAT
1 TATGTATTATGAGGGGTTTTGGGCCTCTCATAAGGGTGAGCAAAATTCGATTCGATTTGAAAAAT
35502565 CGAAAAAAATT
66 CGAAAAAAATT
35502576 TA
1 TA
35502578 AATTCGAGTT
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
76 11 0.14
77 65 0.86
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.32
Consensus pattern (76 bp):
TATGTATTATGAGGGGTTTTGGGCCTCTCATAAGGGTGAGCAAAATTCGATTCGATTTGAAAAAT
CGAAAAAAATT
Found at i:35502607 original size:23 final size:23
Alignment explanation
Indices: 35502578--35502621 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
35502568 AAAAAATTTA
*
35502578 AATTCGAGTTAATCGAATCAAGT
1 AATTCGAATTAATCGAATCAAGT
* *
35502601 AATTCGAATTATTCGAGTCAA
1 AATTCGAATTAATCGAATCAA
35502622 CTCGAATAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (23 bp):
AATTCGAATTAATCGAATCAAGT
Found at i:35502687 original size:9 final size:9
Alignment explanation
Indices: 35502675--35502700 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
35502665 TTTTTACAAT
35502675 TCAAATAAC
1 TCAAATAAC
35502684 TCAAATAAC
1 TCAAATAAC
35502693 TCAAATAA
1 TCAAATAA
35502701 TAGATTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (9 bp):
TCAAATAAC
Found at i:35502831 original size:19 final size:20
Alignment explanation
Indices: 35502807--35502849 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
35502797 TAAAATTTTG
*
35502807 AAAATAATTTTTA-AAATTC-
1 AAAAT-ATTTATAGAAATTCT
35502826 AAAATATTTATAGAAATTCT
1 AAAATATTTATAGAAATTCT
35502846 AAAA
1 AAAA
35502850 CTTATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATATTTATAGAAATTCT
Found at i:35503224 original size:21 final size:21
Alignment explanation
Indices: 35503200--35503239 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
35503190 ACCTTTTCTA
35503200 AAGTTAAAA-GTCAAAACTATC
1 AAGTTAAAAGGT-AAAACTATC
35503221 AAGTTAAAAGGTAAAACTA
1 AAGTTAAAAGGTAAAACTA
35503240 CGTTGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACTATC
Found at i:35504104 original size:13 final size:13
Alignment explanation
Indices: 35504088--35504129 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
35504078 AAATTTCAAA
35504088 AATTAAATATAAT
1 AATTAAATATAAT
35504101 AATT-AATAATAA-
1 AATTAAAT-ATAAT
*
35504113 AATTAAATACAAT
1 AATTAAATATAAT
35504126 AATT
1 AATT
35504130 TTTTATCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAAATATAAT
Found at i:35504277 original size:23 final size:23
Alignment explanation
Indices: 35504247--35504292 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
35504237 TAGAATCATC
*
35504247 GAAAATCCTGATTTTATGTTTAT
1 GAAAATCCTAATTTTATGTTTAT
*
35504270 GAAAATCCTAATTTTGTGTTTAT
1 GAAAATCCTAATTTTATGTTTAT
35504293 CTCCTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (23 bp):
GAAAATCCTAATTTTATGTTTAT
Found at i:35511391 original size:17 final size:18
Alignment explanation
Indices: 35511366--35511469 Score: 58
Period size: 18 Copynumber: 5.6 Consensus size: 18
35511356 ATACGAGAAC
35511366 TTTAGAAACACGGAAA-TT
1 TTTAGAAACAC-GAAACTT
35511384 TTTA-AAACACGAAACTTT
1 TTTAGAAACACGAAAC-TT
35511402 TTTATTTTGAAAACACGAAA-TT
1 TTTA----G-AAACACGAAACTT
* *
35511424 TTTTGAAACACGAGAAATT
1 TTTAGAAACACGA-AACTT
*
35511443 TTT-GAAATACGAGAA--T
1 TTTAGAAACACGA-AACTT
35511459 TTTAGAAACAC
1 TTTAGAAACAC
35511470 AAATTTTGTT
Statistics
Matches: 72, Mismatches: 3, Indels: 23
0.73 0.03 0.23
Matches are distributed among these distances:
16 8 0.11
17 20 0.28
18 24 0.33
19 5 0.07
22 5 0.07
24 10 0.14
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (18 bp):
TTTAGAAACACGAAACTT
Found at i:35511413 original size:93 final size:95
Alignment explanation
Indices: 35511312--35511500 Score: 246
Period size: 93 Copynumber: 2.0 Consensus size: 95
35511302 AAACACGAGA
* *
35511312 ATTTTG-AAACACAATAATTTTTTTTAAATAC-AGAAAATTTTGAAATACGAGAACTTTAGAAAC
1 ATTTTGAAAACACAA-AA-TTTTTTGAAACACGAGAAAATTTTGAAATACGAGAACTTTAGAAAC
*
35511375 ACGGAAA-TTT-TT-AAAACAC-GAAACTTTTTT
64 AC--AAATTTTGTTGAAAACACGGAAAATTTTTT
* * *
35511405 ATTTTGAAAACACGAAATTTTTTGAAACACGAGAAATTTTTGAAATACGAGAATTTTAGAAACAC
1 ATTTTGAAAACACAAAATTTTTTGAAACACGAGAAAATTTTGAAATACGAGAACTTTAGAAACAC
35511470 AAATTTTGTTGAAAACACGGAAAATTTTTT
66 AAATTTTGTTGAAAACACGGAAAATTTTTT
35511500 A
1 A
35511501 ACACAAAAAT
Statistics
Matches: 84, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
91 3 0.04
92 14 0.17
93 42 0.50
94 14 0.17
95 11 0.13
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (95 bp):
ATTTTGAAAACACAAAATTTTTTGAAACACGAGAAAATTTTGAAATACGAGAACTTTAGAAACAC
AAATTTTGTTGAAAACACGGAAAATTTTTT
Found at i:35511425 original size:23 final size:24
Alignment explanation
Indices: 35511381--35511427 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
35511371 AAACACGGAA
*
35511381 ATTTTTAAAACACGAAACTTTTTT
1 ATTTTGAAAACACGAAACTTTTTT
35511405 ATTTTGAAAACACGAAA-TTTTTT
1 ATTTTGAAAACACGAAACTTTTTT
35511428 GAAACACGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (24 bp):
ATTTTGAAAACACGAAACTTTTTT
Found at i:35511429 original size:18 final size:17
Alignment explanation
Indices: 35511406--35511597 Score: 114
Period size: 17 Copynumber: 11.2 Consensus size: 17
35511396 AACTTTTTTA
35511406 TTTTGAAAACACGAAATT
1 TTTTG-AAACACGAAATT
*
35511424 TTTTGAAACACGAGAAAT
1 TTTTGAAACACGA-AATT
*
35511442 TTTTGAAATACGAGAA-T
1 TTTTGAAACACGA-AATT
*
35511459 TTTAGAAACAC-AAATT
1 TTTTGAAACACGAAATT
35511475 TTGTTGAAAACACGGAAAATT
1 TT-TTG-AAACAC-G-AAATT
* *
35511496 TTTT--AACACAAAAAT
1 TTTTGAAACACGAAATT
* * *
35511511 TTATGAAATAC-AAGAAT
1 TTTTGAAACACGAA-ATT
* *
35511528 TTTTG-GACATGAAA-T
1 TTTTGAAACACGAAATT
35511543 TTTTGAAAACACG-AATT
1 TTTTG-AAACACGAAATT
** *
35511560 TTTTTCAACATGGAAATT
1 TTTTGAAACA-CGAAATT
35511578 TTTTGAAACACG-AATT
1 TTTTGAAACACGAAATT
35511594 TTTT
1 TTTT
35511598 TATTTTTAAA
Statistics
Matches: 137, Mismatches: 21, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
15 15 0.11
16 23 0.17
17 49 0.36
18 41 0.30
20 2 0.01
21 7 0.05
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (17 bp):
TTTTGAAACACGAAATT
Found at i:35511444 original size:35 final size:33
Alignment explanation
Indices: 35511405--35511598 Score: 105
Period size: 35 Copynumber: 5.7 Consensus size: 33
35511395 AAACTTTTTT
35511405 ATTTTGAAAACACGAAATTTTTTGAAACACGAGAA
1 ATTTTGAAAACACGAAATTTTTTG-AACACGA-AA
* *
35511440 ATTTTTG-AAATACGAGAA-TTTTAGAAACAC-AAA
1 A-TTTTGAAAACACGA-AATTTTTTG-AACACGAAA
* *
35511473 TTTTGTTGAAAACACGGAAAATTTTTT-AACACAAAA
1 -ATT-TTGAAAACAC-G-AAATTTTTTGAACACGAAA
* * *
35511509 ATTTATGAAATACAAG-AA-TTTTTGGACATGAAA
1 ATTT-TGAAA-ACACGAAATTTTTTGAACACGAAA
* * * *
35511542 TTTTTGAAAACACGAATTTTTTTCAACATGGAAA
1 ATTTTGAAAACACGAAATTTTTTGAACA-CGAAA
* *
35511576 TTTTTTG-AAACACGAATTTTTTT
1 -ATTTTGAAAACACGAAATTTTTT
35511599 ATTTTTAAAA
Statistics
Matches: 127, Mismatches: 16, Indels: 33
0.72 0.09 0.19
Matches are distributed among these distances:
31 4 0.03
32 11 0.09
33 23 0.18
34 25 0.20
35 43 0.34
36 16 0.13
37 5 0.04
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTTTGAAAACACGAAATTTTTTGAACACGAAA
Found at i:35511483 original size:17 final size:18
Alignment explanation
Indices: 35511302--35511590 Score: 96
Period size: 17 Copynumber: 16.4 Consensus size: 18
35511292 TTTTTAAAAA
35511302 AAACACGAGAA--TTTTG
1 AAACACGAGAATTTTTTG
* * *
35511318 AAACACAATAATTTTTTTT
1 AAACACGAGAA-TTTTTTG
* **
35511337 AAATAC-AGAAAATTTTG
1 AAACACGAGAATTTTTTG
* * *
35511354 AAATACGAGAA-CTTTAG
1 AAACACGAGAATTTTTTG
* *
35511371 AAACACG-GAAATTTTTA
1 AAACACGAGAATTTTTTG
35511388 AAACACGA-AACTTTTTTATTTTG
1 AAACACGAGAA-----TT-TTTTG
35511411 AAAACACGA-AATTTTTTG
1 -AAACACGAGAATTTTTTG
*
35511429 AAACACGAGAAATTTTTG
1 AAACACGAGAATTTTTTG
* *
35511447 AAATACGAGAA-TTTTAG
1 AAACACGAGAATTTTTTG
35511464 AAACAC-A-AATTTTGTTG
1 AAACACGAGAATTTT-TTG
*
35511481 AAAACACGGAAAATTTTTT-
1 -AAACAC-GAGAATTTTTTG
* * *
35511500 -AACAC-AAAAATTTATG
1 AAACACGAGAATTTTTTG
* *
35511516 AAATACAAGAA-TTTTTG
1 AAACACGAGAATTTTTTG
* *
35511533 -GACATGA-AA-TTTTTG
1 AAACACGAGAATTTTTTG
*
35511548 AAA-AC-ACGAATTTTTTT
1 AAACACGA-GAATTTTTTG
* *
35511565 CAACATG-GAAATTTTTTG
1 AAACACGAG-AATTTTTTG
35511583 AAACACGA
1 AAACACGA
35511591 ATTTTTTTAT
Statistics
Matches: 204, Mismatches: 38, Indels: 59
0.68 0.13 0.20
Matches are distributed among these distances:
14 1 0.00
15 19 0.09
16 22 0.11
17 74 0.36
18 53 0.26
19 11 0.05
20 3 0.01
21 6 0.03
22 1 0.00
23 4 0.02
24 10 0.05
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (18 bp):
AAACACGAGAATTTTTTG
Found at i:35511512 original size:52 final size:52
Alignment explanation
Indices: 35511412--35511512 Score: 118
Period size: 52 Copynumber: 1.9 Consensus size: 52
35511402 TTTATTTTGA
* * *
35511412 AAACACGAAATTTTTTGAAACACGAGAAATTTTTGAAATACGAGAATTTTAG
1 AAACACGAAATTTTTTGAAACACGAGAAATTTTTGAAACACAAAAATTTTAG
*
35511464 AAACAC-AAATTTTGTTGAAAACACG-GAAAATTTTT-TAACACAAAAATTT
1 AAACACGAAATTTT-TTG-AAACACGAG-AAATTTTTGAAACACAAAAATTT
35511513 ATGAAATACA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
51 7 0.17
52 20 0.48
53 15 0.36
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.31
Consensus pattern (52 bp):
AAACACGAAATTTTTTGAAACACGAGAAATTTTTGAAACACAAAAATTTTAG
Found at i:35511742 original size:20 final size:20
Alignment explanation
Indices: 35511717--35511755 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
35511707 CATGATTCTA
*
35511717 TTAAAACACGAGAATTTTTT
1 TTAAAACACGAAAATTTTTT
35511737 TTAAAACACGAAAATTTTT
1 TTAAAACACGAAAATTTTT
35511756 GAATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (20 bp):
TTAAAACACGAAAATTTTTT
Found at i:35512108 original size:16 final size:16
Alignment explanation
Indices: 35512079--35512115 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
35512069 CTTGGGCCCC
*
35512079 TTTTTCTTTCTTCTTT
1 TTTTTATTTCTTCTTT
*
35512095 TTTTTATTTTTTCTTT
1 TTTTTATTTCTTCTTT
35512111 TTTTT
1 TTTTT
35512116 TCCTCTTCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTATTTCTTCTTT
Found at i:35512159 original size:13 final size:13
Alignment explanation
Indices: 35512101--35512174 Score: 60
Period size: 13 Copynumber: 5.4 Consensus size: 13
35512091 CTTTTTTTTA
35512101 TTTTTTCTT-TTT
1 TTTTTTCTTCTTT
*
35512113 TTTTCCTCTTCGTTT
1 TTTT-TTCTTC-TTT
* *
35512128 TCTTTTTGGTTGCTAT
1 T-TTTTT-CTT-CTTT
35512144 TTTTTTCTTCTTT
1 TTTTTTCTTCTTT
*
35512157 TTTTCTCTTCTTT
1 TTTTTTCTTCTTT
35512170 TTTTT
1 TTTTT
35512175 GGCCTGCTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
12 4 0.08
13 23 0.48
14 2 0.04
15 10 0.21
16 8 0.17
17 1 0.02
ACGTcount: A:0.01, C:0.16, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTTTTCTTCTTT
Found at i:35512512 original size:15 final size:15
Alignment explanation
Indices: 35512492--35512552 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 15
35512482 GTCAACTGAC
35512492 TTTTCTATTTCTTTT
1 TTTTCTATTTCTTTT
35512507 TTTTCTATTT-TTTCT
1 TTTTCTATTTCTTT-T
*
35512522 TTCTCTCA-TTCTTTT
1 TTTTCT-ATTTCTTTT
*
35512537 TCTTC--TTTCTTTT
1 TTTTCTATTTCTTTT
35512550 TTT
1 TTT
35512553 CTTCTTTGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
13 9 0.24
14 3 0.08
15 22 0.58
16 4 0.11
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTCTATTTCTTTT
Found at i:35512553 original size:15 final size:15
Alignment explanation
Indices: 35512508--35512559 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 15
35512498 ATTTCTTTTT
35512508 TTTCTATTTTTTCTTTC
1 TTTCT-TTTTTTC-TTC
*
35512525 TCTCATTCTTTTTCTTC
1 TTTC-TT-TTTTTCTTC
35512542 TTTCTTTTTTTCTTC
1 TTTCTTTTTTTCTTC
35512557 TTT
1 TTT
35512560 GGGCAGAGCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 12 0.39
16 2 0.06
17 10 0.32
18 7 0.23
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTCTTTTTTTCTTC
Found at i:35512554 original size:21 final size:20
Alignment explanation
Indices: 35512499--35512555 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
35512489 GACTTTTCTA
35512499 TTTCTTTTTTTTCTATTTTTTC
1 TTTC-TTTTTTTCT-TTTTTTC
* **
35512521 TTTCTCTCATTCTTTTTCTTC
1 TTTCTTTTTTTCTTTTT-TTC
35512542 TTTCTTTTTTTCTT
1 TTTCTTTTTTTCTT
35512556 CTTTGGGCAG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 4 0.14
21 20 0.71
22 4 0.14
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTCTTTTTTTCTTTTTTTC
Found at i:35513236 original size:29 final size:29
Alignment explanation
Indices: 35513203--35513326 Score: 101
Period size: 30 Copynumber: 4.2 Consensus size: 29
35513193 GTAAAAGTGC
*
35513203 AATTTTAGGAAAATAT-GTGGCCAAAATGT
1 AATTTTA-GAAAATATAGAGGCCAAAATGT
* * * *
35513232 AATTTCTAGAAAGTTTAGGGGCCCAAATGT
1 AATTT-TAGAAAATATAGAGGCCAAAATGT
35513262 AA-TTTA-AAAATTATTAGAGGCCAAAATGT
1 AATTTTAGAAAA-TA-TAGAGGCCAAAATGT
* * * *
35513291 AATTTTTGAAAAGTTTAGGGGCTAAAATGT
1 AATTTTAGAAAA-TATAGAGGCCAAAATGT
35513321 AATTTT
1 AATTTT
35513327 TAAAAAGTTT
Statistics
Matches: 76, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
27 3 0.04
28 3 0.04
29 28 0.37
30 37 0.49
31 5 0.07
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (29 bp):
AATTTTAGAAAATATAGAGGCCAAAATGT
Found at i:35513262 original size:30 final size:29
Alignment explanation
Indices: 35513221--35513355 Score: 155
Period size: 30 Copynumber: 4.6 Consensus size: 29
35513211 GAAAATATGT
*
35513221 GGCCAAAATGTAATTTCTAGAAAGTTTAGG
1 GGCCAAAATGTAATTT-TAAAAAGTTTAGG
* * *
35513251 GGCCCAAATGTAA-TTTAAAAATTATTAGA
1 GGCCAAAATGTAATTTTAAAAAGT-TTAGG
*
35513280 GGCCAAAATGTAATTTTTGAAAAGTTTAGG
1 GGCCAAAATGTAA-TTTTAAAAAGTTTAGG
*
35513310 GGCTAAAATGTAATTTTTAAAAAGTTTAGG
1 GGCCAAAATGTAA-TTTTAAAAAGTTTAGG
* *
35513340 GGCTAAAATATAATTT
1 GGCCAAAATGTAATTT
35513356 GTATTTTTTG
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
28 6 0.07
29 21 0.23
30 56 0.62
31 8 0.09
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (29 bp):
GGCCAAAATGTAATTTTAAAAAGTTTAGG
Found at i:35513831 original size:75 final size:74
Alignment explanation
Indices: 35513743--35514329 Score: 585
Period size: 75 Copynumber: 7.8 Consensus size: 74
35513733 ATAGGACCTA
* * * *
35513743 AGGCTCAACTCACCTCTGGCAATATAAGTTGATTTTTGAAAAACAGAAATTAAAAATTCCTCGGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGC
* * *
35513808 GCATAACTCA
66 G-ATGACCCG
* * ** * ** *
35513818 AGGCTCAACTCACCTCTCGCATTATGAATTGATTTTTTTAAAA-AGAAATTAAAAATACATTGGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGC
*
35513882 G-TGCAGCCTG
66 GATG-A-CCCG
35513892 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAATATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAA-ATACCTCA
*
35513957 GC-ATGTGACCTG
64 GCGA--TGACCCG
* * *
35513969 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAATACCTCA
*
35514034 GTG-TGACCCG
64 GCGATGACCCG
* *
35514044 AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTGAAAAGCAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG--ATTTTTGAAAAACAGAAATTAAAAATACCTCA
*
35514109 GCG-TGGCCCG
64 GCGATGACCCG
* * * * *
35514119 AGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTAAAAAATAGAAATTGAAAATACCTCAG-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGC
35514183 GATGTGACCCG
66 GA--TGACCCG
* * * * *
35514194 AGGCTCAACCCACCTCTCGCATTATGAGTTAATTTTTTTGAAAAACAGAAATTGAGAAATACCTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAATACCTC
* * **
35514259 GGC-ATGTGCCTA
63 AGCGATG-ACCCG
* * **
35514271 AGGCTCAACTCACCTCTTGCATTATGAGTTGATTTTAAAAAAACAGAAATTGAAAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAAATA
35514330 TTTCTTGAGA
Statistics
Matches: 436, Mismatches: 56, Indels: 40
0.82 0.11 0.08
Matches are distributed among these distances:
72 2 0.00
73 31 0.07
74 49 0.11
75 207 0.47
76 13 0.03
77 99 0.23
78 33 0.08
79 2 0.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (74 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGC
GATGACCCG
Found at i:35514050 original size:226 final size:223
Alignment explanation
Indices: 35513702--35514329 Score: 730
Period size: 226 Copynumber: 2.8 Consensus size: 223
35513692 GAGTTGACAA
* * *
35513702 TTGAAAAATAGAAATTGAAAAACACCTC-GACATAG-GACCTAAGGCTCAACTCACCTCTGGCAA
1 TTGAAAAATAGAAATT-AAAAATACCTCAG-CAT-GTGACCTGAGGCTCAACTCACCTCTCGCAA
* * * * * * *
35513765 TATAAGTTGA--TTTTTGAAAAACAGAAATTAAAAATTCCTCGGCGCATAACTCAAGGCTCAACT
63 TATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGTG--TGACCCAAGGCTCAACT
* * ** * *
35513828 CACCTCTCGCATTATGAATTGATTTTTTTAAAA-AGAAATTAAAAATACATTGGTGTGCAGCCTG
126 CACCTCTCGCATTATGAGTTGATTTTTTAAAAACAGAAATTAAAAATACATCAGCGTG--GCCCG
35513892 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
189 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
* *
35513928 TTGAAAAACAGAAATTAAAATATACCTCAGCATGTGACCTGAGGCTCAACTCACTTCTCGCAATA
1 TTGAAAAATAGAAATTAAAA-ATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATA
* *
35513993 TGAGTTGATTTTTTTGAAAAACATAAATTGAAAATACCTCAGTGTGACCCGAGGCTCAACTCACC
65 TGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGTGTGACCCAAGGCTCAACTCACC
* * * *
35514058 TCTCGCAATATGAGTTGATATTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGGCCCGAGGC
130 TCTCGCATTATGAGTTGAT-TTTTT-AAAAACAGAAATTAAAAATACATCAGCGTGGCCCGAGGC
* *
35514123 TCAACTCACTTCTCGCATTATGAGTTGATTT
193 TCAACTCACCTCTCGCAATATGAGTTGATTT
* * * * * *
35514154 TTAAAAAATAGAAATTGAAAATACCTCAGGATGTGACCCGAGGCTCAACCCACCTCTCGCATTAT
1 TTGAAAAATAGAAATTAAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* *
35514219 GAGTTAATTTTTTTGAAAAACAGAAATTGAGAAATACCTTGGCA-TGTG-CCTAAGGCTCAACTC
66 GAGTTGATTTTTTTGAAAAACAGAAATTGA-AAATACC-T--CAGTGTGACCCAAGGCTCAACTC
* **
35514282 ACCTCTTGCATTATGAGTTGATTTTAAAAAAACAGAAATTGAAAAATA
127 ACCTCTCGCATTATGAGTTGATTTTTTAAAAACAGAAATT-AAAAATA
35514330 TTTCTTGAGA
Statistics
Matches: 345, Mismatches: 44, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
225 85 0.25
226 129 0.37
227 74 0.21
228 36 0.10
229 21 0.06
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (223 bp):
TTGAAAAATAGAAATTAAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGTGTGACCCAAGGCTCAACTCACCT
CTCGCATTATGAGTTGATTTTTTAAAAACAGAAATTAAAAATACATCAGCGTGGCCCGAGGCTCA
ACTCACCTCTCGCAATATGAGTTGATTT
Found at i:35514191 original size:150 final size:149
Alignment explanation
Indices: 35513743--35514326 Score: 687
Period size: 150 Copynumber: 3.9 Consensus size: 149
35513733 ATAGGACCTA
* * * *
35513743 AGGCTCAACTCACCTCTGGCAATATAAGTTG--ATTTTTGAAAAACAGAAATTAAAAATTCCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTGAAAAACAGAAATTAAAAATACCTCA
* * * * ** *
35513806 GCGCATAACTCAAGGCTCAACTCACCTCTCGCATTATGAATTGATTTTTTTAAAA-AGAAATTAA
66 GCG--TGACCCAAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTAAAAAACAGAAATTGA
* * *
35513870 AAATACAT-TGGTGTGCAGCCTG
129 AAATACCTCAGGTGTG-A-CCCG
35513892 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTTGAAAAACAGAAATTAAAATATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTGAAAAACAGAAATTAAAA-ATACCTC
** * * *
35513956 AGCATGTGACCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAAT
65 AGC--GTGACCCAAGGCTCAACTCACTTCTCGCATTATGAGTTGA--TTTTTAAAAAACAGAAAT
35514021 TGAAAATACCTCA-GTGTGACCCG
126 TGAAAATACCTCAGGTGTGACCCG
* *
35514044 AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTGAAAAGCAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTGAAAAACAGAAATTAAAAATACCTCA
* * *
35514109 GCGTGGCCCGAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTAAAAAATAGAAATTGAAA
66 GCGTGACCCAAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTAAAAAACAGAAATTGAAA
35514174 ATACCTCAGGATGTGACCCG
131 ATACCTCAGG-TGTGACCCG
* * * * * *
35514194 AGGCTCAACCCACCTCTCGCATTATGAGTTAATTTTTTTGAAAAACAGAAATTGAGAAATACCTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTGAAAAACAGAAATT-AAAAATACCTC
* * * * *
35514259 GGCATGTG-CCTAAGGCTCAACTCACCTCTTGCATTATGAGTTGATTTTAAAAAAACAGAAATTG
65 AGC--GTGACCCAAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTAAAAAACAGAAATTG
35514323 AAAA
128 AAAA
35514327 ATATTTCTTG
Statistics
Matches: 379, Mismatches: 41, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
148 28 0.07
149 30 0.08
150 117 0.31
151 50 0.13
152 100 0.26
153 35 0.09
154 19 0.05
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (149 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTGAAAAACAGAAATTAAAAATACCTCA
GCGTGACCCAAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTAAAAAACAGAAATTGAAA
ATACCTCAGGTGTGACCCG
Found at i:35526335 original size:17 final size:17
Alignment explanation
Indices: 35526218--35526500 Score: 144
Period size: 17 Copynumber: 16.4 Consensus size: 17
35526208 AGCACGAGAA
*
35526218 TTTTGAAACACAATAATT
1 TTTTGAAACACGA-AATT
* * *
35526236 TTTTAAAATACAGAAA-A
1 TTTTGAAACAC-GAAATT
* *
35526253 TTTTGAAATACGAGAA-C
1 TTTTGAAACACGA-AATT
* *
35526270 TTTAGAAACACGAAAAT
1 TTTTGAAACACGAAATT
*
35526287 TTTTAAAACACGAAACATTTTT
1 TTTTGAAACACG-AA-A---TT
35526309 TTTTGAAAACACGAAATT
1 TTTTG-AAACACGAAATT
35526327 TTTTGAAACACGGGAAA-T
1 TTTTGAAACAC--GAAATT
*
35526345 TTTTGAAATACGAGAA-T
1 TTTTGAAACACGA-AATT
* *
35526362 TTTAGAAAC-CCAAATT
1 TTTTGAAACACGAAATT
35526378 TTGTTGGAAACACGGAAAATT
1 TT-TT-GAAACAC-G-AAATT
*
35526399 TTTT--AACACGAAAAT
1 TTTTGAAACACGAAATT
* *
35526414 TTATGAAATACGAGAA-T
1 TTTTGAAACACGA-AATT
* *
35526431 TTTTG-GACATGAAA-T
1 TTTTGAAACACGAAATT
35526446 TTTTGAAAACACG-AATT
1 TTTTG-AAACACGAAATT
35526463 TTTT--AACACGGAAATT
1 TTTTGAAACAC-GAAATT
35526479 TTTTGAAACACG-AATT
1 TTTTGAAACACGAAATT
35526495 TTTTGA
1 TTTTGA
35526501 TTTTTTTAAA
Statistics
Matches: 209, Mismatches: 28, Indels: 58
0.71 0.09 0.20
Matches are distributed among these distances:
14 5 0.02
15 18 0.09
16 36 0.17
17 76 0.36
18 43 0.21
19 7 0.03
20 2 0.01
21 8 0.04
22 7 0.03
23 7 0.03
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (17 bp):
TTTTGAAACACGAAATT
Found at i:35526401 original size:92 final size:91
Alignment explanation
Indices: 35526218--35526402 Score: 223
Period size: 92 Copynumber: 2.0 Consensus size: 91
35526208 AGCACGAGAA
* *
35526218 TTTTGAAACACAATAATTTTTTAAAATACAGAAAATTTTGAAATACGAGAACTTTAGAAACACGA
1 TTTTGAAACACAATAATTTTTTAAAACACAGAAAATTTTGAAATACGAGAACTTTAGAAACACCA
35526283 AAATTTTTAAAACACGAAACATTTTT
66 AAATTTTTAAAACACGAAACATTTTT
* * * * *
35526309 TTTTGAAAACACGA-AATTTTTTGAAACACGGGAAATTTTTGAAATACGAGAATTTTAGAAAC-C
1 TTTTG-AAACACAATAATTTTTTAAAACAC-AGAAAATTTTGAAATACGAGAACTTTAGAAACAC
* *
35526372 CAAATTTTGTTGGAAACACGGAAA-ATTTTT
64 CAAAATTT-TT-AAAACAC-GAAACATTTTT
35526402 T
1 T
35526403 AACACGAAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
91 25 0.31
92 38 0.47
93 13 0.16
94 4 0.05
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (91 bp):
TTTTGAAACACAATAATTTTTTAAAACACAGAAAATTTTGAAATACGAGAACTTTAGAAACACCA
AAATTTTTAAAACACGAAACATTTTT
Found at i:35526466 original size:32 final size:33
Alignment explanation
Indices: 35526307--35526500 Score: 132
Period size: 32 Copynumber: 5.7 Consensus size: 33
35526297 CGAAACATTT
35526307 TTTTTTGAAAACACGAAATTTTTTGAAACACGGGAAA
1 TTTTTTG-AAACACG-AATTTTTTG-AACAC-GGAAA
* * * **
35526344 -TTTTTGAAATACGAGAATTTTAGAA-ACCCAAA
1 TTTTTTGAAACACGA-ATTTTTTGAACACGGAAA
35526376 TTTTGTTGGAAACACGGAAAATTTTTT-AACAC-GAAA
1 TTTT-TT-GAAACAC-G--AATTTTTTGAACACGGAAA
* * * * * *
35526412 ATTTATGAAATACGAGAATTTTTGGACA-TGAAA
1 TTTTTTGAAACACGA-ATTTTTTGAACACGGAAA
35526445 -TTTTTGAAAACACGAATTTTTT-AACACGGAAA
1 TTTTTTG-AAACACGAATTTTTTGAACACGGAAA
35526477 TTTTTTGAAACACGAATTTTTTGA
1 TTTTTTGAAACACGAATTTTTTGA
35526501 TTTTTTTAAA
Statistics
Matches: 123, Mismatches: 19, Indels: 34
0.70 0.11 0.19
Matches are distributed among these distances:
31 4 0.03
32 39 0.32
33 27 0.22
34 11 0.09
35 19 0.15
36 15 0.12
37 7 0.06
38 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (33 bp):
TTTTTTGAAACACGAATTTTTTGAACACGGAAA
Found at i:35526645 original size:20 final size:19
Alignment explanation
Indices: 35526620--35526658 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
35526610 CGTGATTCTA
*
35526620 TTAAAACGCGAGAATTTTTT
1 TTAAAACACGA-AATTTTTT
35526640 TTAAAACACGAAATTTTTT
1 TTAAAACACGAAATTTTTT
35526659 GAATATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (19 bp):
TTAAAACACGAAATTTTTT
Found at i:35527018 original size:16 final size:15
Alignment explanation
Indices: 35526986--35527037 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
35526976 ACTTGGGCCC
35526986 CTTTTTCTTTCTTTTT
1 CTTTTT-TTTCTTTTT
35527002 -TTCTTTTTTCTTTTT
1 CTT-TTTTTTCTTTTT
*
35527017 -TTTCTTCTTCTTTTT
1 CTTT-TTTTTCTTTTT
35527032 CTTTTT
1 CTTTTT
35527038 GGTTGCTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
14 1 0.03
15 25 0.78
16 6 0.19
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTTTTTTCTTTTT
Found at i:35527030 original size:30 final size:31
Alignment explanation
Indices: 35526987--35527064 Score: 85
Period size: 33 Copynumber: 2.6 Consensus size: 31
35526977 CTTGGGCCCC
*
35526987 TTTTTC-T-TTCTTTTTTTCTTT-TTTCT-TT
1 TTTTTCTTCTTCTTTTTTT-TTTGTTGCTATT
35527015 TTTTTCTTCTTCTTTTTCTTTTTGGTTGCTATT
1 TTTTTCTTCTTCTTTTT-TTTTT-GTTGCTATT
35527048 TTTTTCTTCTT-TTTTTT
1 TTTTTCTTCTTCTTTTTT
35527065 GGCCTGTTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
28 6 0.14
29 1 0.02
30 11 0.26
31 3 0.07
32 9 0.21
33 13 0.30
ACGTcount: A:0.01, C:0.14, G:0.04, T:0.81
Consensus pattern (31 bp):
TTTTTCTTCTTCTTTTTTTTTTGTTGCTATT
Found at i:35527036 original size:19 final size:17
Alignment explanation
Indices: 35526986--35527037 Score: 61
Period size: 16 Copynumber: 3.0 Consensus size: 17
35526976 ACTTGGGCCC
35526986 CTTTTTCTTTCTTTTTTT
1 CTTTTTCTTT-TTTTTTT
*
35527004 CTTTTT-TCTTTTTTTT
1 CTTTTTCTTTTTTTTTT
*
35527020 CTTCTTCTTTTTCTTTTT
1 CTTTTTCTTTTT-TTTTT
35527038 GGTTGCTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 12 0.41
17 6 0.21
18 11 0.38
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
CTTTTTCTTTTTTTTTT
Found at i:35527061 original size:12 final size:12
Alignment explanation
Indices: 35526986--35527064 Score: 58
Period size: 12 Copynumber: 6.8 Consensus size: 12
35526976 ACTTGGGCCC
35526986 CTTTTTCTTTCTT
1 CTTTTT-TTTCTT
*
35526999 -TTTTTCTTTTTT
1 CTTTTT-TTTCTT
35527011 CTTTTTTTTCTT
1 CTTTTTTTTCTT
*
35527023 CTTCTTTTTCTT
1 CTTTTTTTTCTT
** *
35527035 -TTTGGTTGC-T
1 CTTTTTTTTCTT
*
35527045 -ATTTTTTTCTT
1 CTTTTTTTTCTT
35527056 CTTTTTTTT
1 CTTTTTTTT
35527065 GGCCTGTTGC
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
10 6 0.12
11 6 0.12
12 34 0.67
13 5 0.10
ACGTcount: A:0.01, C:0.15, G:0.04, T:0.80
Consensus pattern (12 bp):
CTTTTTTTTCTT
Found at i:35527475 original size:12 final size:12
Alignment explanation
Indices: 35527393--35527482 Score: 60
Period size: 12 Copynumber: 7.2 Consensus size: 12
35527383 GATCAACTAA
*
35527393 CTTTTTTAT-TT
1 CTTTTTTTTCTT
35527404 CTTTTTTTTTCTAT
1 C-TTTTTTTTCT-T
*
35527418 -TTTTTCTTTC-C
1 CTTTTT-TTTCTT
35527429 CTTTCTTCTTTCTT
1 CTTT-TT-TTTCTT
* *
35527443 CTTTCTTTCTCTC
1 CTTT-TTTTTCTT
*
35527456 CTTCTTTTTCTT
1 CTTTTTTTTCTT
35527468 CTTTTTTTTCTT
1 CTTTTTTTTCTT
35527480 CTT
1 CTT
35527483 CGGGCCGAGC
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
11 1 0.02
12 35 0.56
13 19 0.30
14 8 0.13
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (12 bp):
CTTTTTTTTCTT
Found at i:35527620 original size:19 final size:18
Alignment explanation
Indices: 35527598--35527654 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
35527588 TCTCCCTCCC
* *
35527598 TTTTCTTTTTGGTTGTTG
1 TTTTTTTTTTGCTTGTTG
*
35527616 TTTTTTTCTTTGCTTGCTG
1 TTTTTTT-TTTGCTTGTTG
35527635 TTTTTATATTTTGCTTGTTG
1 TTTTT-T-TTTTGCTTGTTG
35527655 CTTTGCTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.19
19 14 0.44
20 11 0.34
21 1 0.03
ACGTcount: A:0.04, C:0.09, G:0.18, T:0.70
Consensus pattern (18 bp):
TTTTTTTTTTGCTTGTTG
Found at i:35528191 original size:29 final size:30
Alignment explanation
Indices: 35528158--35528251 Score: 88
Period size: 29 Copynumber: 3.2 Consensus size: 30
35528148 GTAAAAGTGC
*
35528158 AATTTTAAGAAAATAT-GCGGCCAAAATGT
1 AATTTTAAGAAAATATAGGGGCCAAAATGT
* * *
35528187 AATTTCT-AGAAAGTTTAGGGGCCCAAATGT
1 AATTT-TAAGAAAATATAGGGGCCAAAATGT
* *
35528217 AA-TTTAA-AAATTATTAGGGGTCAAAATGT
1 AATTTTAAGAAAATA-TAGGGGCCAAAATGT
35528246 AATTTT
1 AATTTT
35528252 TGAAAAGTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
28 5 0.10
29 30 0.58
30 17 0.33
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (30 bp):
AATTTTAAGAAAATATAGGGGCCAAAATGT
Found at i:35529487 original size:14 final size:14
Alignment explanation
Indices: 35529468--35529497 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35529458 TATTTAGATA
35529468 ATTTGTGGACTTGG
1 ATTTGTGGACTTGG
*
35529482 ATTTGTGGATTTGG
1 ATTTGTGGACTTGG
35529496 AT
1 AT
35529498 AATCCGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.03, G:0.33, T:0.47
Consensus pattern (14 bp):
ATTTGTGGACTTGG
Found at i:35532911 original size:20 final size:20
Alignment explanation
Indices: 35532888--35532952 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
35532878 TGTGCCTCCT
35532888 CTCACAAGGGCGTGTGTTTC
1 CTCACAAGGGCGTGTGTTTC
* * * **
35532908 CTCACACGAGCGTGTCTCCCC
1 CTCACAAGGGCGTGTGT-TTC
35532929 CTCACATA-GGCGTGTGTTTC
1 CTCACA-AGGGCGTGTGTTTC
35532949 CTCA
1 CTCA
35532953 TACGGGCATG
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.15, C:0.34, G:0.23, T:0.28
Consensus pattern (20 bp):
CTCACAAGGGCGTGTGTTTC
Found at i:35532941 original size:41 final size:42
Alignment explanation
Indices: 35532888--35532976 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 42
35532878 TGTGCCTCCT
*
35532888 CTCACA-AGGGCGTGTGTTTCCTCACACGAGCGTGTCTCCCC
1 CTCACATAGGGCGTGTGTTTCCTCACACGAGCATGTCTCCCC
* *
35532929 CTCACATA-GGCGTGTGTTTCCTCATACGGGCATGTCTCCCC
1 CTCACATAGGGCGTGTGTTTCCTCACACGAGCATGTCTCCCC
35532970 CTCACAT
1 CTCACAT
35532977 GGTCATGTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 43 0.98
42 1 0.02
ACGTcount: A:0.16, C:0.36, G:0.21, T:0.27
Consensus pattern (42 bp):
CTCACATAGGGCGTGTGTTTCCTCACACGAGCATGTCTCCCC
Found at i:35535484 original size:15 final size:15
Alignment explanation
Indices: 35535442--35535486 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
35535432 TTTTCACCAG
*
35535442 ATTATATCTTATCAT
1 ATTATATCATATCAT
* * *
35535457 AATATACCGTATCAT
1 ATTATATCATATCAT
35535472 ATTATATCATATCAT
1 ATTATATCATATCAT
35535487 GTCCTACCCC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTATATCATATCAT
Found at i:35542698 original size:6 final size:6
Alignment explanation
Indices: 35542687--35542712 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
35542677 AGTTGTAAAG
35542687 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
35542713 ATTTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:35558260 original size:20 final size:20
Alignment explanation
Indices: 35558219--35558261 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
35558209 ATATAATAAC
*
35558219 ATATTTTAATTTTAAGATAT
1 ATATTTTAATTTTAAGAAAT
*
35558239 ATATTTTATTTTTTAA-AAAT
1 ATATTTTA-ATTTTAAGAAAT
35558259 ATA
1 ATA
35558262 ATTATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATATTTTAATTTTAAGAAAT
Found at i:35560441 original size:19 final size:19
Alignment explanation
Indices: 35560417--35560455 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
35560407 TATACTCTAT
35560417 AATGTTTATACATGATACC
1 AATGTTTATACATGATACC
*
35560436 AATGTTTGTACATGATACC
1 AATGTTTATACATGATACC
35560455 A
1 A
35560456 TGGCATGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (19 bp):
AATGTTTATACATGATACC
Found at i:35568413 original size:18 final size:18
Alignment explanation
Indices: 35568390--35568431 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
35568380 AAGGTTACCT
*
35568390 GAAAGTAATAAACAAACA
1 GAAAGTAACAAACAAACA
35568408 GAAAGTAACAAACAAACA
1 GAAAGTAACAAACAAACA
35568426 GAAAGT
1 GAAAGT
35568432 GAATTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.64, C:0.12, G:0.14, T:0.10
Consensus pattern (18 bp):
GAAAGTAACAAACAAACA
Found at i:35570501 original size:32 final size:33
Alignment explanation
Indices: 35570465--35570531 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 33
35570455 TCAAAAATTT
* * *
35570465 TGGCCTACAAG-CCCAAAATAGCCTTGCCCGTG
1 TGGCCCACAAGACCCAAAATAGCCTAGACCGTG
* *
35570497 TGGCCCACATGACCCAAAATGGCCTAGACCGTG
1 TGGCCCACAAGACCCAAAATAGCCTAGACCGTG
35570530 TG
1 TG
35570532 TCACACATGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 9 0.31
33 20 0.69
ACGTcount: A:0.25, C:0.33, G:0.24, T:0.18
Consensus pattern (33 bp):
TGGCCCACAAGACCCAAAATAGCCTAGACCGTG
Found at i:35570513 original size:33 final size:33
Alignment explanation
Indices: 35570476--35570540 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
35570466 GGCCTACAAG
* * *
35570476 CCCAAAATAGCCTTGCCCGTGTGGCCCACATGA
1 CCCAAAATAGCCTAGACCGTGTGGCACACATGA
* *
35570509 CCCAAAATGGCCTAGACCGTGTGTCACACATG
1 CCCAAAATAGCCTAGACCGTGTGGCACACATG
35570541 GCCTCGCACA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.26, C:0.34, G:0.22, T:0.18
Consensus pattern (33 bp):
CCCAAAATAGCCTAGACCGTGTGGCACACATGA
Found at i:35573008 original size:18 final size:18
Alignment explanation
Indices: 35572960--35573014 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
35572950 TTTGAAGGTG
35572960 TTCTTTT-TG-TTTTTCT
1 TTCTTTTCTGTTTTTTCT
* * *
35572976 TTCTCTACGTATTTTTTCT
1 TTCTTTTC-TGTTTTTTCT
35572995 TTCTTTTCTGTTTTTTCT
1 TTCTTTTCTGTTTTTTCT
35573013 TT
1 TT
35573015 GTTATTAATC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
16 5 0.17
18 12 0.40
19 13 0.43
ACGTcount: A:0.04, C:0.16, G:0.05, T:0.75
Consensus pattern (18 bp):
TTCTTTTCTGTTTTTTCT
Found at i:35577490 original size:23 final size:23
Alignment explanation
Indices: 35577460--35577545 Score: 97
Period size: 23 Copynumber: 3.7 Consensus size: 23
35577450 TTATCAGCTT
35577460 TATTTGTGCCTGTATAAGTCTTC
1 TATTTGTGCCTGTATAAGTCTTC
35577483 TATTTGTGCCTGTATAAGTCTT-
1 TATTTGTGCCTGTATAAGTCTTC
* *
35577505 T-TCTGT-CCTTTTAGTTAAGTCTTC
1 TATTTGTGCC-TGTA--TAAGTCTTC
*
35577529 TATTTCTGCCTGTATAA
1 TATTTGTGCCTGTATAA
35577546 ACTTTTGATT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
20 2 0.04
21 7 0.13
22 1 0.02
23 33 0.63
24 1 0.02
25 6 0.12
26 2 0.04
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (23 bp):
TATTTGTGCCTGTATAAGTCTTC
Found at i:35583410 original size:91 final size:91
Alignment explanation
Indices: 35583263--35583470 Score: 317
Period size: 91 Copynumber: 2.3 Consensus size: 91
35583253 TTGATTTTAG
* *
35583263 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
35583328 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
35583355 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
35583420 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* * * *
35583446 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
35583471 GTTATAATTA
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
91 90 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:35583439 original size:26 final size:28
Alignment explanation
Indices: 35583385--35583445 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
35583375 TATTATCAAG
* *
35583385 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
35583413 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
35583439 AATTATA
1 AATTATA
35583446 CAAATTCATA
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:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:35583445 original size:44 final size:43
Alignment explanation
Indices: 35583303--35583445 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
35583293 GAATTTTATG
* *
35583303 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
35583347 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
35583394 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
35583438 AAATTATA
1 AAATTATA
35583446 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:35583563 original size:59 final size:57
Alignment explanation
Indices: 35583497--35583805 Score: 184
Period size: 66 Copynumber: 5.2 Consensus size: 57
35583487 ATTTTATTAA
35583497 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
35583556 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
35583617 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
* * ** * *
35583676 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
35583737 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
35583796 ATCATATATT
1 ATCATATATT
35583806 ATGATTTGAG
Statistics
Matches: 185, Mismatches: 37, Indels: 56
0.67 0.13 0.20
Matches are distributed among these distances:
54 28 0.15
55 14 0.08
56 10 0.05
57 6 0.03
59 30 0.16
60 16 0.09
61 20 0.11
63 7 0.04
64 10 0.05
65 13 0.07
66 31 0.17
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:35583610 original size:120 final size:120
Alignment explanation
Indices: 35583486--35583898 Score: 756
Period size: 120 Copynumber: 3.4 Consensus size: 120
35583476 AATTATTTTA
* * * * *
35583486 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
35583550 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
35583606 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
35583671 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
35583726 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
35583791 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
35583846 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
35583899 TAAATATGAT
Statistics
Matches: 286, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
120 284 0.99
121 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:35583646 original size:15 final size:15
Alignment explanation
Indices: 35583611--35583662 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
35583601 TTAAGAATTT
*
35583611 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35583625 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35583639 TATTTAATAATAAT-
1 TATTTAATTATAATA
35583653 TATGTTAATT
1 TAT-TTAATT
35583663 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35583766 original size:15 final size:15
Alignment explanation
Indices: 35583731--35583782 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
35583721 TTAAGAATTT
*
35583731 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35583745 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35583759 TATTTAATAATAAT-
1 TATTTAATTATAATA
35583773 TATGTTAATT
1 TAT-TTAATT
35583783 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35583881 original size:16 final size:16
Alignment explanation
Indices: 35583860--35583901 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
35583850 TTATTAAATT
*
35583860 ATATATTTTAATTATA
1 ATATATTTTAATAATA
35583876 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
35583891 AT-TATGTTTAA
1 ATATAT-TTTAA
35583902 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:35583886 original size:15 final size:15
Alignment explanation
Indices: 35583851--35583892 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
35583841 TTAAGAATTT
*
35583851 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35583865 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35583879 TATTTAATAATAAT
1 TATTTAATTATAAT
35583893 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35589861 original size:3 final size:3
Alignment explanation
Indices: 35589849--35589908 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
35589839 CATGTATGTT
35589849 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
35589896 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
35589909 GAGAATAGTA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:35591540 original size:44 final size:43
Alignment explanation
Indices: 35591492--35592060 Score: 149
Period size: 44 Copynumber: 12.9 Consensus size: 43
35591482 ACTACTGCTT
* *
35591492 AGGGAGATAATATCTGTAATCTTCAATATATTCCACTGTTGCCC
1 AGGGAGATAA-ATCTGTAATCTTCAATCTACTCCACTGTTGCCC
* * **
35591536 AGGGAGATAGAATTACTG---GCTTCAATGTACTCCACTGTAACCTC
1 AGGGAGATA-AA-T-CTGTAATCTTCAATCTACTCCACTGTTGCC-C
* **** ** * ** **
35591580 AGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGAT-AAATCTGTAATCTTCAATCTACTCCACTGTTGCCC
* *
35591624 AGGGAGATAATATCTGTAATCTTCAATATATTCCACTGTTGCCC
1 AGGGAGATAA-ATCTGTAATCTTCAATCTACTCCACTGTTGCCC
* * **
35591668 AGGGAGATAGAATTACTG---GCTTCAATGTACTCCACTGTAACCTC
1 AGGGAGATA-AA-T-CTGTAATCTTCAATCTACTCCACTGTTGCC-C
* * ** * * **
35591712 AGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTATTGCTT
1 AGGGAGAT-AAATCTGTAATCTTCAATCTACTCCACTGTTGCCC
* *
35591756 AGGGAGAGAAGATCTGTAATCTTCAATCTATTCCACTGCTT-CCC
1 AGGGAGATAA-ATCTGTAATCTTCAATCTACTCCACTG-TTGCCC
* * * **
35591800 AAGGAGATAGAATTACTG---GCTTCAATGTACTCCACTGTAACCAC
1 AGGGAGATA-AA-T-CTGTAATCTTCAATCTACTCCACTGTTGCC-C
* ** ** * ** **
35591844 AGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGAT-AAATCTGTAATCTTCAATCTACTCCACTGTTGCCC
* ** * * *
35591888 AGGGAGACAAGATCTAAAATCTTCAATCTATTCCGCTGCTGCCC
1 AGGGAGATAA-ATCTGTAATCTTCAATCTACTCCACTGTTGCCC
* * * * * **
35591932 AAGAAAATAGAATTACTG---GCTTCAATGTACTCCACTGTAACCAC
1 AGGGAGATA-AA-T-CTGTAATCTTCAATCTACTCCACTGTTGCC-C
* * * * * * **
35591976 ATGGAGGTAAAATCCGTCATCTTCGATCCACTCCACTAG-TGCTT
1 AGGGAGAT-AAATCTGTAATCTTCAATCTACTCCACT-GTTGCCC
* *
35592020 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
1 AGGGAGATAA-ATCTGTAATCTTCAATCTACTCCACTGTTG
35592061 TCCAAGGAAG
Statistics
Matches: 362, Mismatches: 123, Indels: 80
0.64 0.22 0.14
Matches are distributed among these distances:
42 9 0.02
43 86 0.24
44 181 0.50
45 74 0.20
46 12 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
AGGGAGATAAATCTGTAATCTTCAATCTACTCCACTGTTGCCC
Found at i:35591600 original size:132 final size:132
Alignment explanation
Indices: 35591417--35592934 Score: 2109
Period size: 132 Copynumber: 11.5 Consensus size: 132
35591407 GATATAGGAA
* *
35591417 TACTGGCTTCAATGGACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
* * * * *
35591482 ACTACTGCTTAGGGAGATAATATCTGTAATCTTCAATATATTCCACTGTTGCCCAGGGAGATAGA
66 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGA
35591547 AT
131 AT
*
35591549 TACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
* * * * *
35591614 ACTACTGCTTAGGGAGATAATATCTGTAATCTTCAATATATTCCACTGTTGCCCAGGGAGATAGA
66 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGA
35591679 AT
131 AT
* * * *
35591681 TACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
* * * * *
35591746 ACTATTGCTTAGGGAGAGAAGATCTGTAATCTTCAATCTATTCCACTGCTTCCCAAGGAGATAGA
66 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGA
35591811 AT
131 AT
**
35591813 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
* * * * *
35591878 ACTACTGCTTAGGGAGACAAGATCTAAAATCTTCAATCTATTCCGCTGCTGCCCAAGAAAATAGA
66 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGA
35591943 AT
131 AT
* ** * **
35591945 TACTGGCTTCAATGTACTCCACTGTAACCACATGGAGGTAAAATCCGTCATCTTCGATCCACTCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
* * * * *
35592010 ACTAGTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAAGGA-AGTAG
66 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-TAG
35592074 AAT
130 AAT
**
35592077 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTTACCATCTTTGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
* *
35592142 ACTACTGCTT-GAGGAGACAAGATCTAAAATCTTCAATCTATTCCACTACTGCCCAGGGA-AGTA
66 ACTACTGCTTAG-GGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-TA
35592205 GAAT
129 GAAT
**
35592209 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTTACCATCTTTGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
* * *
35592274 ACTACTGCTTGGGGAGACAAAATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGA-AGTAG
66 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-TAG
35592338 AAT
130 AAT
* * * *
35592341 TTCTGGCTTCAATGTACTCTACTGTAATCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
* * * *
35592406 ACTACTGCTTGGGGAGACAAAATCTGAAATCTTCAATCTATTCCGCTGCTGCCGAGGGAGATAGA
66 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGA
35592471 AT
131 AT
* * * *
35592473 TACTGGCTTCAATGTACTCCATTATAACCACAGGGAGGTAAAATTCACCATCTTTGATCTACTCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
* * * *
35592538 ACTACTGCTTGGGGAGACAAGATCTAAAATCCTCAATCTATTCCACTGTTGCCCAGGGAGATAGA
66 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGA
35592603 AT
131 AT
* * * *
35592605 TACTGGCTTCAATGTACTCCATTATAACCACAGGGAGGTAAAATTCACCATCTTTGATCTACTCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
* * * *
35592670 ACTACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGTCCAGGGAAATAGA
66 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGA
35592735 AT
131 AT
* *
35592737 TACTGGCTTCAATGTACTCCACTGTAACCAC-GAGGAGGTAAAATCCGCCATCTTCGATCTGCTT
1 TACTGGCTTCAATGTACTCCACTGTAACCACAG-GGAGGTAAAATCCACCATCTTTGATCTGC-T
* * ** * * *
35592801 CGCTGTCTA-TGC--AGGAAGGTAAGATCTGTAATCTTTAATCTATTCCACTGCTGCCCAGAGA-
64 C-C--ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAG
35592862 AGTAGAAT
126 A-TAGAAT
* * * *
35592870 TACTGGCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATTCGCCATCTTTGATCTACTCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
35592935 GCTGTCTATA
Statistics
Matches: 1275, Mismatches: 100, Indels: 23
0.91 0.07 0.02
Matches are distributed among these distances:
131 4 0.00
132 1157 0.91
133 106 0.08
134 2 0.00
135 3 0.00
136 3 0.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGA
AT
Found at i:35594203 original size:42 final size:42
Alignment explanation
Indices: 35594138--35594249 Score: 190
Period size: 42 Copynumber: 2.7 Consensus size: 42
35594128 AAGACCACTG
*
35594138 CATGCCCCACTT-TGATCAGTATTTGAGCTGCTCCGATAATCT
1 CATGCCCCA-TTCTGATCAATATTTGAGCTGCTCCGATAATCT
*
35594180 CATGCCCCATTCTAATCAATATTTGAGCTGCTCCGATAATCT
1 CATGCCCCATTCTGATCAATATTTGAGCTGCTCCGATAATCT
35594222 CATGCCCCATTCTGATCAATATTTGAGC
1 CATGCCCCATTCTGATCAATATTTGAGC
35594250 CGCCCTTTTT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 2 0.03
42 64 0.97
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (42 bp):
CATGCCCCATTCTGATCAATATTTGAGCTGCTCCGATAATCT
Found at i:35597441 original size:301 final size:301
Alignment explanation
Indices: 35596897--35597499 Score: 1125
Period size: 301 Copynumber: 2.0 Consensus size: 301
35596887 CAGTAGATTT
*
35596897 GCGCGGGTATTCAGCTTGGGCTCGCATATGTGGAGGGGTGAAACCTGGAGGGTAAAGAATTTCAT
1 GCGCGGGTATTCAGCTTGGGCTCGCATATGTGGAGGGGTGAAACCTGGAGCGTAAAGAATTTCAT
*
35596962 CATTATTTCCCTCATCGACATTTGCCATGGGGCCCTTTCCTTTATCACTTCCCTTAGTTATCAGT
66 CATCATTTCCCTCATCGACATTTGCCATGGGGCCCTTTCCTTTATCACTTCCCTTAGTTATCAGT
35597027 TGGGTTAACTTTGCCACTATATCTTCTTGGGATTCTCGCATCTTCTCAGACATCTCTTATTTCAT
131 TGGGTTAACTTTGCCACTATATCTTCTTGGGATTCTCGCATCTTCTCAGACATCTCTTATTTCAT
* * * *
35597092 CTTGTCTAACCGCTCCTGTATTTGTAGCTGAAGCCGGTCTTGCATCTCCTTCTGGTACTGTTTGA
196 CTTGTCTAACCGCTCCTGCATTTGTAGCTGAAGCCGATCTTACATCTCCTTCTGGTACTGTTCGA
*
35597157 GCTTTTCTAATCTCTGATCCATATCTTTTGTCTTTGCTCGA
261 GCTTCTCTAATCTCTGATCCATATCTTTTGTCTTTGCTCGA
35597198 GCGCGGGTATTCAGCTTGGGCTCGCATATGTGGAGGGGTGAAACCTGGAGCGTAAAGAATTTCAT
1 GCGCGGGTATTCAGCTTGGGCTCGCATATGTGGAGGGGTGAAACCTGGAGCGTAAAGAATTTCAT
* *
35597263 CATCATTTCCCTCATCGACATTTGCCATGGGGCCCTTTCCTTTATCCCTTCCCTTAGTTATTAGT
66 CATCATTTCCCTCATCGACATTTGCCATGGGGCCCTTTCCTTTATCACTTCCCTTAGTTATCAGT
35597328 TGGGTTAACTTTGCCACTATATCTTCTTGGGATTCTCGCATCTTCTCAGACATCTCTTATTTCAT
131 TGGGTTAACTTTGCCACTATATCTTCTTGGGATTCTCGCATCTTCTCAGACATCTCTTATTTCAT
35597393 CTTGTCTAACCGCTCCTGCATTTGTAGCTGAAGCCGATCTTACATCTCCTTCTGGTACTGTTCGA
196 CTTGTCTAACCGCTCCTGCATTTGTAGCTGAAGCCGATCTTACATCTCCTTCTGGTACTGTTCGA
35597458 GCTTCTCTAATCTCTGATCCATATCTTTTGTCTTTGCTCGA
261 GCTTCTCTAATCTCTGATCCATATCTTTTGTCTTTGCTCGA
35597499 G
1 G
35597500 TGTCGTATCG
Statistics
Matches: 293, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
301 293 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.38
Consensus pattern (301 bp):
GCGCGGGTATTCAGCTTGGGCTCGCATATGTGGAGGGGTGAAACCTGGAGCGTAAAGAATTTCAT
CATCATTTCCCTCATCGACATTTGCCATGGGGCCCTTTCCTTTATCACTTCCCTTAGTTATCAGT
TGGGTTAACTTTGCCACTATATCTTCTTGGGATTCTCGCATCTTCTCAGACATCTCTTATTTCAT
CTTGTCTAACCGCTCCTGCATTTGTAGCTGAAGCCGATCTTACATCTCCTTCTGGTACTGTTCGA
GCTTCTCTAATCTCTGATCCATATCTTTTGTCTTTGCTCGA
Found at i:35598198 original size:404 final size:407
Alignment explanation
Indices: 35597442--35598256 Score: 1342
Period size: 404 Copynumber: 2.0 Consensus size: 407
35597432 TTACATCTCC
*
35597442 TTCTGGTACTGTTCGAGCTTCTCTAATCTCTGATCCATATCTTTTGTCTTTGCTCGAGTGTCGTA
1 TTCTGGTACTGTTCGAGCTTCTCTAATCTCTGATCCATATCTTTTGTCTTTGCTCGAGTGCCGTA
* * *
35597507 TCGGTGTTGGGTTGGTTGGTTGGATTCCAGGTTAACTGAGCAATGATTTTAGTTAATTAGGATCT
66 TCGGTGTTGGGTTGGTTGGTTGGATTCCAGGTTAACTGAGCAATAATTTTAATTAATTAGGATCA
*
35597572 TTGAATAATCTTTGATGCATATGATGTAATGAAATGCGAATGCATGAAATGAATGCATAAAGAGA
131 TTGAATAAGCTTT-AT-CATATGA-GTAATG-AATGCGAATGCATGAAATGAATGCATAAAGAGA
*
35597637 CGTTGATTCTAATTCAATTCCATTTAGAAAACCTTACTAGAGGACAAATTTCTTTACATAAAGCG
192 CGTTAATTCTAATTCAATTCCATTTAGAAAACCTTACTAGAGGACAAATTTCTTTACATAAAGCG
35597702 GATATATATACGGCTTTGCCCTCATACTCCAAGCAAAGACATCTTCTCCTTCTTCATCCGGATGT
257 GATATATATACGGCTTTGCCCTCATACTCCAAGCAAAGACATCTTCTCCTTCTTCATCCGGATGT
35597767 TAAGATAAACCTCGCGAACTTCCAAAGGATGTCACTGCTAGCTCCTTCTGCTTGATTCAGGTCGC
322 TAAGATAAACCTCGCGAACTTCCAAAGGATGTCACTGCTAGCTCCTTCTGCTTGATTCAGGTCGC
35597832 AATCCGTTGTCTGCCTATCAT
387 AATCCGTTGTCTGCCTATCAT
* * *
35597853 TTCTGGTACTGTTTGAGCTTTTCTAATCTCTGATCCATATCTTTTGTCTTTGCTTGAGTGCCGTA
1 TTCTGGTACTGTTCGAGCTTCTCTAATCTCTGATCCATATCTTTTGTCTTTGCTCGAGTGCCGTA
* *
35597918 TCGGTGTCGGGTTGGTTGGTTGGTTGGTTTCCAGGTTAACTGAGCAATAATTTTAATTAATTAGG
66 TCGGTGT----TGGGTTGGTTGGTTGGATTCCAGGTTAACTGAGCAATAATTTTAATTAATTAGG
* *
35597983 ATCAATT-AA-AGGCTTT-T-A-ATGCA-T-ATG-ATGCG-ATGCATGAGATGAATGCATAAAGA
127 ATC-ATTGAATAAGCTTTATCATATG-AGTAATGAATGCGAATGCATGAAATGAATGCATAAAGA
* *
35598039 GACGTTAATTCTGATTCAATTCCATTTAGAAAACTTTACTAGAGGACAAATTTCTTTACATAAAG
190 GACGTTAATTCTAATTCAATTCCATTTAGAAAACCTTACTAGAGGACAAATTTCTTTACATAAAG
35598104 CGGATATATATACGGCTTTGCCCTCATACTCCAAGCAAAGACATCTTCTCCTTCTTCATCCGGAT
255 CGGATATATATACGGCTTTGCCCTCATACTCCAAGCAAAGACATCTTCTCCTTCTTCATCCGGAT
35598169 GTTAAGATAAACCTCGCGAACTTCCAAAGGATGTCACTGCTAGCTCCTTCTGCTTGATTCAGGTC
320 GTTAAGATAAACCTCGCGAACTTCCAAAGGATGTCACTGCTAGCTCCTTCTGCTTGATTCAGGTC
35598234 GCAATCCGTTGTCTGCCTATCAT
385 GCAATCCGTTGTCTGCCTATCAT
35598257 CGCAATGCTC
Statistics
Matches: 383, Mismatches: 15, Indels: 19
0.92 0.04 0.05
Matches are distributed among these distances:
404 238 0.62
405 5 0.01
407 3 0.01
408 1 0.00
409 3 0.01
410 2 0.01
411 68 0.18
412 1 0.00
414 5 0.01
415 55 0.14
416 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (407 bp):
TTCTGGTACTGTTCGAGCTTCTCTAATCTCTGATCCATATCTTTTGTCTTTGCTCGAGTGCCGTA
TCGGTGTTGGGTTGGTTGGTTGGATTCCAGGTTAACTGAGCAATAATTTTAATTAATTAGGATCA
TTGAATAAGCTTTATCATATGAGTAATGAATGCGAATGCATGAAATGAATGCATAAAGAGACGTT
AATTCTAATTCAATTCCATTTAGAAAACCTTACTAGAGGACAAATTTCTTTACATAAAGCGGATA
TATATACGGCTTTGCCCTCATACTCCAAGCAAAGACATCTTCTCCTTCTTCATCCGGATGTTAAG
ATAAACCTCGCGAACTTCCAAAGGATGTCACTGCTAGCTCCTTCTGCTTGATTCAGGTCGCAATC
CGTTGTCTGCCTATCAT
Found at i:35610678 original size:10 final size:10
Alignment explanation
Indices: 35610631--35610669 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
35610621 GACAGTGGAG
35610631 GTAAAAAAAA
1 GTAAAAAAAA
*
35610641 GTAAAAAAAT
1 GTAAAAAAAA
*
35610651 GTAAAAAACA
1 GTAAAAAAAA
35610661 -TAAAAAAAA
1 GTAAAAAAAA
35610670 AGCAAAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.13
Consensus pattern (10 bp):
GTAAAAAAAA
Found at i:35610704 original size:28 final size:28
Alignment explanation
Indices: 35610633--35610706 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
35610623 CAGTGGAGGT
* *
35610633 AAAAAAAAGTAAAAAAATGTAAAAAACAT
1 AAAAAAAA-TAAAAAAATGCAAAAAACAG
*
35610662 AAAAAAAA-AGCAAAAAA-GCAAAAGACGAG
1 AAAAAAAATA--AAAAAATGCAAAAAAC-AG
35610691 AAAAAAAATAAAAAAA
1 AAAAAAAATAAAAAAA
35610707 ACCTCTACCG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
27 1 0.03
28 13 0.34
29 23 0.61
30 1 0.03
ACGTcount: A:0.78, C:0.05, G:0.09, T:0.07
Consensus pattern (28 bp):
AAAAAAAATAAAAAAATGCAAAAAACAG
Found at i:35611155 original size:13 final size:13
Alignment explanation
Indices: 35611139--35611189 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
35611129 AAAAAAAAAG
35611139 AGAAAA-AATGAAA
1 AGAAAAGAA-GAAA
35611152 AGAAAAGAAGAAA
1 AGAAAAGAAGAAA
35611165 AGAAAAGAAG-AA
1 AGAAAAGAAGAAA
*
35611177 CGAAAA-AAGAAA
1 AGAAAAGAAGAAA
35611189 A
1 A
35611190 ATGAGAGGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 3 0.09
12 9 0.26
13 20 0.59
14 2 0.06
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (13 bp):
AGAAAAGAAGAAA
Found at i:35612311 original size:100 final size:100
Alignment explanation
Indices: 35612169--35612688 Score: 690
Period size: 100 Copynumber: 5.2 Consensus size: 100
35612159 TCATACCCAC
* * *
35612169 CATTACAATTAAAAAGATTGAAGCCGCAATGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACA
1 CATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAGCA
35612234 GATTAAAGCTACGATGTCGAATCTTGCTTCCCCGA
66 GATTAAAGCTACGATGTCGAATCTTGCTTCCCCGA
* * *
35612269 CATTGCAATTTAAAAGATTAAAGCCGCAACGGCGAATCTTACTTTTCTGGCGGTGCAGTGGAGCA
1 CATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAGCA
*
35612334 GATTAAAGCTACGATAG-CGAATCTTGCTTCTCCGA
66 GATTAAAGCTACGAT-GTCGAATCTTGCTTCCCCGA
*
35612369 CATTGCAATTAAAAAGATTGAAGCCGCAATGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAGCA
1 CATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAGCA
* *
35612434 AATTAAAGCTACGATGGCGAATCTTGCTTCCCCGA
66 GATTAAAGCTACGATGTCGAATCTTGCTTCCCCGA
* ** * *
35612469 CATTGTAATTTCAAAGATTGAAGCCGCAACGGCGAATCTTACTTTTCTGGTGGTGCAGTGGAGCA
1 CATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAGCA
*
35612534 GATTAAAGCTACGACGGT-GAATCTTGCTTCCTTCCCCGA
66 GATTAAAGCTACGA-TGTCGAATCTTG----CTTCCCCGA
* * * * *
35612573 CATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTAC-TTCCTTAGTGGTGTAGTGGAAC
1 CATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCC-TGGCGGTGCAGTGGAGC
* * * * *
35612637 TGATTGAAGCTACAACGGT-GAATCGTGC-TCCCCGA
65 AGATTAAAGCTACGA-TGTCGAATCTTGCTTCCCCGA
*
35612672 CATTACAATTAAAAAGA
1 CATTGCAATTAAAAAGA
35612689 AAAAAATCAA
Statistics
Matches: 377, Mismatches: 35, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
99 24 0.06
100 264 0.70
101 2 0.01
103 3 0.01
104 84 0.22
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (100 bp):
CATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAGCA
GATTAAAGCTACGATGTCGAATCTTGCTTCCCCGA
Found at i:35612517 original size:200 final size:203
Alignment explanation
Indices: 35612169--35612688 Score: 762
Period size: 200 Copynumber: 2.6 Consensus size: 203
35612159 TCATACCCAC
*
35612169 CATTACAATTAAAAAGATTGAAGCCGCAATGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACA
1 CATTGCAATTAAAAAGATTGAAGCCGCAATGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACA
* *
35612234 GATTAAAGCTACGATGTCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTAAAGCCGCAAC
66 AATTAAAGCTACGATGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTAAAGCCGCAAC
*
35612299 GGCGAATCTTACTTTTCTGGCGGTGCAGTGGAGCAGATTAAAGCTACGATAGCGAATCTTGCTT-
131 GGCGAATCTTACTTTTCTGGCGGTGCAGTGGAGCAGATTAAAGCTACGACAGCGAATCTTGCTTC
35612363 C-T-CCGA
196 CTTCCCGA
*
35612369 CATTGCAATTAAAAAGATTGAAGCCGCAATGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAGCA
1 CATTGCAATTAAAAAGATTGAAGCCGCAATGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACA
* * *
35612434 AATTAAAGCTACGATGGCGAATCTTGCTTCCCCGACATTGTAATTTCAAAGATTGAAGCCGCAAC
66 AATTAAAGCTACGATGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTAAAGCCGCAAC
* * *
35612499 GGCGAATCTTACTTTTCTGGTGGTGCAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTC
131 GGCGAATCTTACTTTTCTGGCGGTGCAGTGGAGCAGATTAAAGCTACGACAGCGAATCTTGCTTC
35612564 CTTCCCCGA
196 CTT-CCCGA
* * * * *
35612573 CATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTAC-TTCCTTAGTGGTGTAGTGGAAC
1 CATTGCAATTAAAAAGATTGAAGCCGCAATGGCGAATCTTACTTTCC-TGGCGGTGCAGTGGAAC
** * * * * * * *
35612637 TGATTGAAGCTACAACGGTGAATCGTGC-TCCCCGACATTACAATTAAAAAGA
65 AAATTAAAGCTACGATGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGA
35612689 AAAAAATCAA
Statistics
Matches: 287, Mismatches: 28, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
200 183 0.64
201 1 0.00
202 1 0.00
203 24 0.08
204 78 0.27
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (203 bp):
CATTGCAATTAAAAAGATTGAAGCCGCAATGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACA
AATTAAAGCTACGATGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTAAAGCCGCAAC
GGCGAATCTTACTTTTCTGGCGGTGCAGTGGAGCAGATTAAAGCTACGACAGCGAATCTTGCTTC
CTTCCCGA
Found at i:35612537 original size:50 final size:50
Alignment explanation
Indices: 35612183--35612542 Score: 200
Period size: 50 Copynumber: 7.2 Consensus size: 50
35612173 ACAATTAAAA
* * *
35612183 AGATTGAAGCCGCAATGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAAC
1 AGATTAAAGCCGCAATGGCGAATCTTACTTTTCTGGCGGTGCAGTGGAGC
** * * * ** * * ** * ** **
35612233 AGATTAAAGCTACGATGTCGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTAAAGCCGCAATGGCGAATCTTACTTTTCTGGCGGTGCAGTGGAGC
*
35612283 AGATTAAAGCCGCAACGGCGAATCTTACTTTTCTGGCGGTGCAGTGGAGC
1 AGATTAAAGCCGCAATGGCGAATCTTACTTTTCTGGCGGTGCAGTGGAGC
** * * * * * * ** * ** **
35612333 AGATTAAAGCTACGATAGCGAATCTTGCTTCTCCGACATTGCAATTAAAA
1 AGATTAAAGCCGCAATGGCGAATCTTACTTTTCTGGCGGTGCAGTGGAGC
* *
35612383 AGATTGAAGCCGCAATGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAGC
1 AGATTAAAGCCGCAATGGCGAATCTTACTTTTCTGGCGGTGCAGTGGAGC
* ** * * ** * * ** * * ** *
35612433 AAATTAAAGCTACGATGGCGAATCTTGCTTCCCCGACATTGTAATTTCA-A
1 AGATTAAAGCCGCAATGGCGAATCTTACTTTTCTGGCGGTG-CAGTGGAGC
* * *
35612483 AGATTGAAGCCGCAACGGCGAATCTTACTTTTCTGGTGGTGCAGTGGAGC
1 AGATTAAAGCCGCAATGGCGAATCTTACTTTTCTGGCGGTGCAGTGGAGC
35612533 AGATTAAAGC
1 AGATTAAAGC
35612543 TACGACGGTG
Statistics
Matches: 207, Mismatches: 101, Indels: 4
0.66 0.32 0.01
Matches are distributed among these distances:
49 3 0.01
50 201 0.97
51 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (50 bp):
AGATTAAAGCCGCAATGGCGAATCTTACTTTTCTGGCGGTGCAGTGGAGC
Found at i:35612802 original size:40 final size:40
Alignment explanation
Indices: 35612702--35613193 Score: 247
Period size: 40 Copynumber: 11.7 Consensus size: 40
35612692 AAATCAATTC
** * *
35612702 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCACAGATCT
1 TATCTCCCT-AAGCAGTAGTGGAGCAGA-TCAAATC-CAG-TCT
* * *
35612746 TATCTTCCTAACCAGTAGTGGAGCAGATCACATCCAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCCAGTCT
* * *
35612786 TATCTCTCTAAGCAGTAGTGGAGCAGA-CAGAAGAAAT-CAATCA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-----AAATCCAGTCT
** * ** * * *
35612829 TATCTCCCTGAAGTTGCAGTGTTGCGGATTAAAACCACTGATCT
1 TATCTCCCT-AAGCAGTAGTGGAGCAGATCAAATCCA--G-TCT
* **
35612873 TATCTCCTTAAGCAGTAGTGGAGCAGATCGCATCCAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCCAGTCT
* * *
35612913 TATCTCTCTAAGCAGTAGTGGAGCAGA-CAGAAGAAAT-CAATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-----AAATCCAGTCT
** * * * *
35612956 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCT-AAGCAGTAGTGGAGCAGA-TCAAATC-CAG-TCT
* **
35613000 TATCTCCCTAAGCAGCAGTGGAGCAGATCGCATCCAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCCAGTCT
* * * * *
35613040 TATCTCCCTAAGCATTAGTGGAACAGATAGAAGAAAT-CAATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGAT----CAAATCCAGTCT
** * ** * *
35613083 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCT
1 TATCTCCCT-AAGCAGTAGTGGAGCAGA-TCAAATC-CAG-TCT
*
35613127 TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCCAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCCAGTCT
**
35613167 TATCTCTTTAAGCAGTAGTGGAGCAGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGA
35613194 CAGAAGAGAC
Statistics
Matches: 331, Mismatches: 86, Indels: 66
0.69 0.18 0.14
Matches are distributed among these distances:
39 2 0.01
40 114 0.34
41 18 0.05
42 11 0.03
43 101 0.31
44 84 0.25
45 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (40 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCCAGTCT
Found at i:35612918 original size:127 final size:127
Alignment explanation
Indices: 35612692--35613246 Score: 903
Period size: 127 Copynumber: 4.4 Consensus size: 127
35612682 AAAAAGAAAA
* * * *
35612692 AAATCAATTCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCACAGATCTTATCTTCCTAA
1 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAA
*
35612757 CCAGTAGTGGAGCAGATCACATCCAGTCTTATCTCTCTAAGCAGTAGTGGAGCAGACAGAAG
66 GCAGTAGTGGAGCAGATCACATCCAGTCTTATCTCTCTAAGCAGTAGTGGAGCAGACAGAAG
* ** * *
35612819 AAATCAATCATATCTCCCTGAAGTTGCAGTGTTGCGGATTAAAACCACTGATCTTATCTCCTTAA
1 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAA
*
35612884 GCAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCTCTAAGCAGTAGTGGAGCAGACAGAAG
66 GCAGTAGTGGAGCAGATCACATCCAGTCTTATCTCTCTAAGCAGTAGTGGAGCAGACAGAAG
35612946 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAA
1 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAA
* * * * * *
35613011 GCAGCAGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCATTAGTGGAACAGATAGAAG
66 GCAGTAGTGGAGCAGATCACATCCAGTCTTATCTCTCTAAGCAGTAGTGGAGCAGACAGAAG
*
35613073 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCCCTAA
1 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAA
*
35613138 GCAGTAGTGGAGCAGATCACATCCAGTCTTATCTCTTTAAGCAGTAGTGGAGCAGACAGAAG
66 GCAGTAGTGGAGCAGATCACATCCAGTCTTATCTCTCTAAGCAGTAGTGGAGCAGACAGAAG
* * * *
35613200 AGACCAATCCTATCTCCCTTAAGTTTCAGTGGAGCGGATTAAAACCA
1 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA
35613247 TAAATCCTAT
Statistics
Matches: 394, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
127 394 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (127 bp):
AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCACATCCAGTCTTATCTCTCTAAGCAGTAGTGGAGCAGACAGAAG
Found at i:35613004 original size:44 final size:43
Alignment explanation
Indices: 35612702--35613347 Score: 178
Period size: 44 Copynumber: 15.0 Consensus size: 43
35612692 AAATCAATTC
*
35612702 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCT
* *** * * * *
35612746 TATCTTCCT-AACCAGTAGTGGAGCAGATCACATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCT
* ** * * * *
35612786 TATCTCTCT-AAGCAGTAGTGGAGCAGACAGAAGA-AATCA-ATCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATA-AA-ACCA-CAGATCT
** * *
35612829 TATCTCCCTGAAGTTGCAGTGTTGCGGATTAAAACCACTGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCT
* ** * *** *
35612873 TATCT-CCTTAAGCAGTAGTGGAGCAGATCGCATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCT
* ** * * * *
35612913 TATCTCTCT-AAGCAGTAGTGGAGCAGACAGAAGA-AATCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATA-AA-ACCA-CAGATCT
*
35612956 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCT
** *** *
35613000 TATCTCCCT-AAGCAGCAGTGGAGCAGATCGCATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCT
* * *
35613040 TATCTCCCT-AAGCATT--AGTGGAACAGATAGAAGA-AATCA-ATCC
1 TATCTCCCTGAAG--TTGCAGTGGAGCAGATA-AA-ACCA-CAGATCT
**
35613083 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCT
** * * * *
35613127 TATCTCCCT-AAGCAGTAGTGGAGCAGATCACATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCT
* * ** * * * *
35613167 TATCT-CTTTAAGCAGTAGTGGAGCAGACAGAAGA-GACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATA-AA-ACCA-CAGATCT
* * * * * *
35613210 TATCTCCCTTAAGTTTCAGTGGAGCGGATTAAAACCATAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCT
* * * * *
35613254 TATAC-CTCTGAAGTTGCAGTAGG-TCGGATTAAATTTACCATAAAAAGTCT
1 TAT-CTCCCTGAAGTTGCAGT-GGAGCAGA-TAAA---ACC--ACAGA-TCT
*
35613304 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACCACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCT
35613348 CATCCCCATA
Statistics
Matches: 443, Mismatches: 107, Indels: 104
0.68 0.16 0.16
Matches are distributed among these distances:
39 2 0.00
40 105 0.24
41 15 0.03
42 20 0.05
43 114 0.26
44 136 0.31
45 12 0.03
47 6 0.01
49 7 0.02
50 26 0.06
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCT
Found at i:35617916 original size:25 final size:25
Alignment explanation
Indices: 35617887--35617935 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
35617877 TCATTTTTGG
*
35617887 CTTAATTTACATATTATAAAAAATA
1 CTTAATTTACATATCATAAAAAATA
* *
35617912 CTTAATTTGCGTATCATAAAAAAT
1 CTTAATTTACATATCATAAAAAAT
35617936 GGTTATAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.39
Consensus pattern (25 bp):
CTTAATTTACATATCATAAAAAATA
Found at i:35622636 original size:128 final size:128
Alignment explanation
Indices: 35622472--35623000 Score: 792
Period size: 128 Copynumber: 4.1 Consensus size: 128
35622462 ACTACAACTT
* * * * * *
35622472 CAGGGAGATAGGA-TTATCGGCTTCAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATTTT
1 CAGGGACATAGGACTTGT-GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTT
* *
35622536 CGATCTGCTCCGCTACTGCTTAGGGAGACGAGATCTGTAATTTCCAACCTACTCCACTGCTAAC
65 CGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
35622600 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTC
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTC
* **
35622665 GATCTGCTCCGCTACTACTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGGT
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* * * *
35622728 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTGCACTTGAAGAAAAGATTCGCCGTCTTT
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTC
* * * * * *
35622793 GATTTGCTCCACTACTGCTTAAGGAGACAAGATCTGTAATTTTCAACATATTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
*
35622856 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTC
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTC
* * *
35622921 AATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTGC-ACCCACTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA-TTTCCAACCTACTCCACTGCTGAC
*
35622984 CAGGGAGATAGGACTTG
1 CAGGGACATAGGACTTG
35623001 CAATCTTCAA
Statistics
Matches: 361, Mismatches: 38, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
128 354 0.98
129 7 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (128 bp):
CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTC
GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
Found at i:35623071 original size:44 final size:44
Alignment explanation
Indices: 35622972--35623083 Score: 170
Period size: 44 Copynumber: 2.5 Consensus size: 44
35622962 TTGCACCCAC
** **
35622972 TCCACTGCTGACCAGGGAGATAGGACTTGCAATCTTCAACCTAT
1 TCCACTGCTGGTCAGGGATCTAGGACTTGCAATCTTCAACCTAT
*
35623016 TCCACTACTGGTCAGGGATCTAGGACTTGCAATCTTCAACCTAT
1 TCCACTGCTGGTCAGGGATCTAGGACTTGCAATCTTCAACCTAT
*
35623060 TCCACTGCTGGTCAAGGATCTAGG
1 TCCACTGCTGGTCAGGGATCTAGG
35623084 TTTGTTATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (44 bp):
TCCACTGCTGGTCAGGGATCTAGGACTTGCAATCTTCAACCTAT
Found at i:35633945 original size:58 final size:58
Alignment explanation
Indices: 35633853--35633965 Score: 183
Period size: 58 Copynumber: 1.9 Consensus size: 58
35633843 TTTAAAAAGG
*
35633853 AAAGTATAAAAAACATATATTAAATACTTTATTTTATTTATTTTTAAAACAAAACCAA
1 AAAGTATAAAAAACATATATTAAATACTTGATTTTATTTATTTTTAAAACAAAACCAA
* *
35633911 AAAG-ATAAAACATCATATATTAATTACTTGATTTTATTTATTTTTAAAACAAAAC
1 AAAGTATAAAA-AACATATATTAAATACTTGATTTTATTTATTTTTAAAACAAAAC
35633966 TCATTTAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
57 6 0.12
58 45 0.88
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.39
Consensus pattern (58 bp):
AAAGTATAAAAAACATATATTAAATACTTGATTTTATTTATTTTTAAAACAAAACCAA
Found at i:35635165 original size:38 final size:38
Alignment explanation
Indices: 35635123--35635284 Score: 297
Period size: 38 Copynumber: 4.3 Consensus size: 38
35635113 CTCCATCCAA
*
35635123 CCCTACACTCCATGTGAGGATATAATCAACCCACCCAT
1 CCCTACACTCAATGTGAGGATATAATCAACCCACCCAT
35635161 CCCTACACTCAATGTGAGGATATAATCAACCCACCCAT
1 CCCTACACTCAATGTGAGGATATAATCAACCCACCCAT
*
35635199 CCCTACACTCAATGTGGGGATATAATCAACCCACCCAT
1 CCCTACACTCAATGTGAGGATATAATCAACCCACCCAT
*
35635237 CCCTACACTCAATGTGGGGATATAATCAACCCACCCAT
1 CCCTACACTCAATGTGAGGATATAATCAACCCACCCAT
35635275 CCCTACACTC
1 CCCTACACTC
35635285 CAAATAGTAC
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 122 1.00
ACGTcount: A:0.31, C:0.36, G:0.11, T:0.21
Consensus pattern (38 bp):
CCCTACACTCAATGTGAGGATATAATCAACCCACCCAT
Found at i:35643971 original size:22 final size:23
Alignment explanation
Indices: 35643944--35643986 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
35643934 CTTCTTTTTA
*
35643944 TAAATTGA-TTGGGGATTTTCAG
1 TAAATTAATTTGGGGATTTTCAG
35643966 TAAATTAATTTGGGGATTTTC
1 TAAATTAATTTGGGGATTTTC
35643987 TGCTTGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (23 bp):
TAAATTAATTTGGGGATTTTCAG
Found at i:35644076 original size:13 final size:13
Alignment explanation
Indices: 35644058--35644082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35644048 CTTGTCTTGG
35644058 GCAGACTTTCTTC
1 GCAGACTTTCTTC
35644071 GCAGACTTTCTT
1 GCAGACTTTCTT
35644083 TAGAAAGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.28, G:0.16, T:0.40
Consensus pattern (13 bp):
GCAGACTTTCTTC
Found at i:35646326 original size:34 final size:32
Alignment explanation
Indices: 35646288--35646350 Score: 108
Period size: 34 Copynumber: 1.9 Consensus size: 32
35646278 TTTTTATTGT
35646288 TTTTAACACAATTACAAATAATTGAGTATTATTA
1 TTTTAACACAATTACAAAT-ATTGA-TATTATTA
35646322 TTTTAACACAATTACAAATATTGATATTA
1 TTTTAACACAATTACAAATATTGATATTA
35646351 GTTGTTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 5 0.17
33 5 0.17
34 19 0.66
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (32 bp):
TTTTAACACAATTACAAATATTGATATTATTA
Found at i:35646511 original size:72 final size:71
Alignment explanation
Indices: 35646423--35646565 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 71
35646413 ATTTGATTAT
35646423 AAAATCATTGCAATATATGTAAAAACAATTTAAAATATAAAAAATTATTAATATATATTATGTAA
1 AAAATCATTGCAATATATGTAAAAACAATTTAAAATATAAAAAATTATTAATATATA-TATGTAA
35646488 AAACAAC
65 AAACAAC
35646495 AAAATCATTGCAATATATGTAAAAACAATTTAAAATATAAAAAATTATTAATATATATATGTAAA
1 AAAATCATTGCAATATATGTAAAAACAATTTAAAATATAAAAAATTATTAATATATATATGTAAA
35646560 AACAAC
66 AACAAC
35646566 TTTTTCGGAA
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 14 0.20
72 57 0.80
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (71 bp):
AAAATCATTGCAATATATGTAAAAACAATTTAAAATATAAAAAATTATTAATATATATATGTAAA
AACAAC
Found at i:35646676 original size:20 final size:20
Alignment explanation
Indices: 35646651--35646690 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
35646641 AATATTTTCC
*
35646651 AGTAAATCATTTTCCAGAAA
1 AGTAAAACATTTTCCAGAAA
35646671 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTCCAGAAA
35646691 TCATTTTCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTCCAGAAA
Found at i:35646696 original size:34 final size:35
Alignment explanation
Indices: 35646639--35646705 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
35646629 CAAACACCAA
*
35646639 AAAATATTTTCCAGTAAATCATTTTCCAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTCCAGAAAAGT
*
35646674 AAAACATTTTCCAG-AAATCATTTTCCGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTCCAGAAAA
35646706 CATTTTATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTCCAGAAAAGT
Found at i:35659783 original size:18 final size:19
Alignment explanation
Indices: 35659748--35659784 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35659738 ATTATTAAGA
35659748 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
35659767 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
35659785 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:35660014 original size:44 final size:45
Alignment explanation
Indices: 35659949--35660039 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
35659939 ACCTCTATTC
* * *
35659949 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
35659993 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
35660038 CA
1 CA
35660040 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:35660041 original size:16 final size:16
Alignment explanation
Indices: 35660020--35660088 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
35660010 GATTAGCTAT
35660020 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35660036 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
35660053 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35660069 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35660085 TACA
1 TACA
35660089 GCGAACCAAA
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:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:35660062 original size:33 final size:32
Alignment explanation
Indices: 35660020--35660088 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
35660010 GATTAGCTAT
35660020 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
35660053 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
35660085 TACA
1 TACA
35660089 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:35660989 original size:20 final size:20
Alignment explanation
Indices: 35660966--35661003 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35660956 TAATTTTATC
35660966 TATTTATT-TTTAATAATATT
1 TATTTATTATTTAA-AATATT
35660986 TATTTATTATTTAAAATA
1 TATTTATTATTTAAAATA
35661004 AATATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTTATTATTTAAAATATT
Found at i:35661003 original size:23 final size:23
Alignment explanation
Indices: 35660952--35661014 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
35660942 TGTTAACAAG
*
35660952 AAAATAAT-TTTATCTATTTATTT
1 AAAATAATATTTATTTA-TTATTT
**
35660975 TTAATAATATTTATTTATTATTT
1 AAAATAATATTTATTTATTATTT
*
35660998 AAAATAA-ATATATTTAT
1 AAAATAATATTTATTTAT
35661015 ATCATCAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 9 0.27
23 17 0.52
24 7 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
AAAATAATATTTATTTATTATTT
Found at i:35662985 original size:11 final size:10
Alignment explanation
Indices: 35662968--35663011 Score: 61
Period size: 11 Copynumber: 4.2 Consensus size: 10
35662958 ATAGTGGGAT
35662968 TTTTATTTTGA
1 TTTTATTTT-A
*
35662979 GTTTATTTTA
1 TTTTATTTTA
35662989 TTTTTATTTTA
1 -TTTTATTTTA
35663000 TTTTATTTTA
1 TTTTATTTTA
35663010 TT
1 TT
35663012 CCCAAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 13 0.43
11 17 0.57
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:35662988 original size:5 final size:5
Alignment explanation
Indices: 35662968--35663011 Score: 61
Period size: 5 Copynumber: 8.4 Consensus size: 5
35662958 ATAGTGGGAT
*
35662968 TTTTA TTTTGA GTTTA TTTTA TTTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTT-A TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TT
35663012 CCCAAAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 26 0.74
6 9 0.26
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:35662989 original size:16 final size:16
Alignment explanation
Indices: 35662968--35663008 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
35662958 ATAGTGGGAT
35662968 TTTTATTTTGAGTTTA
1 TTTTATTTTGAGTTTA
* *
35662984 TTTTATTTTTATTTTA
1 TTTTATTTTGAGTTTA
35663000 TTTTATTTT
1 TTTTATTTT
35663009 ATTCCCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (16 bp):
TTTTATTTTGAGTTTA
Found at i:35663127 original size:13 final size:15
Alignment explanation
Indices: 35663109--35663141 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
35663099 TCGGTAAACA
35663109 AATTTGTTG-G-TGC
1 AATTTGTTGTGTTGC
35663122 AATTTGTTGTGTTGC
1 AATTTGTTGTGTTGC
35663137 AATTT
1 AATTT
35663142 TGGTATCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 1 0.06
15 8 0.44
ACGTcount: A:0.18, C:0.06, G:0.24, T:0.52
Consensus pattern (15 bp):
AATTTGTTGTGTTGC
Found at i:35664968 original size:2 final size:2
Alignment explanation
Indices: 35664961--35664989 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
35664951 TGCCATGATA
35664961 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
35664990 TCCATGAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:35670651 original size:87 final size:87
Alignment explanation
Indices: 35670425--35670690 Score: 358
Period size: 86 Copynumber: 3.1 Consensus size: 87
35670415 GTTTAATATG
* * *
35670425 CAAATAATGTGGTTCGATTATTAACCAAGTAGCAGTTTGTTTAATTTACAAATATGTTATGCACT
1 CAAATAATGTGGTTCGATTATGAACCAAGTAGCAGTTTGTTTAATCTACAAATATGTTGTGCACT
35670490 CACAACAAGTGGCAGTAA-TTA
66 CACAACAAGTGGCAGTAACTTA
* * * * * * *
35670511 CAAACAATGTGGTTAGATTATGAACCAAGCAACAGTTTATTTAATCTGCAAATATTTTGTGCACT
1 CAAATAATGTGGTTCGATTATGAACCAAGTAGCAGTTTGTTTAATCTACAAATATGTTGTGCACT
35670576 CACAACAAGTGGCAGTAACTTA
66 CACAACAAGTGGCAGTAACTTA
* * *
35670598 -AAATATATGTTGTTCGATCATGAACCAAGTGGCAGTTTGTTTAATCTACAAATATGTTGTGCAC
1 CAAATA-ATGTGGTTCGATTATGAACCAAGTAGCAGTTTGTTTAATCTACAAATATGTTGTGCAC
* * *
35670662 CCACAACAAGTGGCAATAAC-TG
65 TCACAACAAGTGGCAGTAACTTA
35670684 CAAATAA
1 CAAATAA
35670691 GCAGTGGTTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
86 79 0.51
87 75 0.49
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (87 bp):
CAAATAATGTGGTTCGATTATGAACCAAGTAGCAGTTTGTTTAATCTACAAATATGTTGTGCACT
CACAACAAGTGGCAGTAACTTA
Found at i:35678518 original size:5 final size:5
Alignment explanation
Indices: 35678508--35678537 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
35678498 ATTAACTTAT
35678508 TTTTA TTTTA TTTTA TTTTA TTTATA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTT-TA TTTT
35678538 TGTTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:35678520 original size:11 final size:11
Alignment explanation
Indices: 35678504--35678537 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
35678494 TTGAATTAAC
35678504 TTATTTTTATT
1 TTATTTTTATT
35678515 TTA-TTTTATT
1 TTATTTTTATT
*
35678525 TTATTTATATT
1 TTATTTTTATT
35678536 TT
1 TT
35678538 TGTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:35681601 original size:54 final size:54
Alignment explanation
Indices: 35681520--35681626 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
35681510 CTTTTAATTA
35681520 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAATGATAACAAT
1 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAATGATAACAAT
* *
35681574 AATTGTGGTGCATCAATTAAATTGCATGGGTAATTACAATAAAGTGATAACAA
1 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAATGATAACAA
35681627 GAATAGACTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (54 bp):
AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAATGATAACAAT
Found at i:35681777 original size:135 final size:135
Alignment explanation
Indices: 35681520--35681825 Score: 447
Period size: 135 Copynumber: 2.3 Consensus size: 135
35681510 CTTTTAATTA
*
35681520 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAATGATAACAATAATTGTGGTGC
1 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAATGATAACAATAATTATGGTGC
** * *
35681585 ATCAATTAAATTGCATGGGTAATTACAATAAAGTGATAACAAGAATAGACTTGTTTTTAAAATTA
66 ATCAATTAAATTGCACAGGTAATTACAATAAAATGATAACAAGAATAGACGTGTTTTTAAAATTA
*
35681650 A-AAGT
131 ACAA-C
* * * * *
35681655 AATTGTGATCCATCGATTAAATTGCATGAGTAATTACAATAAAATGGTAATAATAATTATGGTGC
1 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAATGATAACAATAATTATGGTGC
*
35681720 ATCAATTAAATTGCACAGGTAATTACAATAAAATGATAAC-AGCAATTGATCGT-TTTTTAAAAT
66 ATCAATTAAATTGCACAGGTAATTACAATAAAATGATAACAAG-AATAGA-CGTGTTTTTAAAAT
35681783 TAACAAC
129 TAACAAC
*
35681790 AATTGTGGTGCATCAATTAAATTGCATGATTAATTA
1 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTA
35681826 TCACAAAAAT
Statistics
Matches: 152, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
134 2 0.01
135 146 0.96
136 4 0.03
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.33
Consensus pattern (135 bp):
AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAATGATAACAATAATTATGGTGC
ATCAATTAAATTGCACAGGTAATTACAATAAAATGATAACAAGAATAGACGTGTTTTTAAAATTA
ACAAC
Found at i:35684520 original size:17 final size:19
Alignment explanation
Indices: 35684495--35684534 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
35684485 CTTGATGAAT
35684495 TTAACTTTT-TTG-TTGGA
1 TTAACTTTTCTTGATTGGA
*
35684512 TTAAGTTTTCTTGATTGGA
1 TTAACTTTTCTTGATTGGA
35684531 TTAA
1 TTAA
35684535 TGTATGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 9 0.45
ACGTcount: A:0.23, C:0.05, G:0.17, T:0.55
Consensus pattern (19 bp):
TTAACTTTTCTTGATTGGA
Found at i:35699379 original size:39 final size:39
Alignment explanation
Indices: 35699320--35699395 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
35699310 TTTGAATGGT
*
35699320 GTATTTTTTTTTCCTATAATGTATTGGTTGTTATGAATG
1 GTATATTTTTTTCCTATAATGTATTGGTTGTTATGAATG
* *
35699359 GTATATTTTTTTCTTATAATGTGTTGGTTGTTATGAA
1 GTATATTTTTTTCCTATAATGTATTGGTTGTTATGAA
35699396 AGAACCGGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.21, C:0.04, G:0.18, T:0.57
Consensus pattern (39 bp):
GTATATTTTTTTCCTATAATGTATTGGTTGTTATGAATG
Found at i:35700291 original size:14 final size:15
Alignment explanation
Indices: 35700272--35700304 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
35700262 GGTTGATTTT
35700272 TTTTCG-TTTTGTTA
1 TTTTCGTTTTTGTTA
35700286 TTTTCGTTTTTGTTA
1 TTTTCGTTTTTGTTA
35700301 TTTT
1 TTTT
35700305 TTAAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.06, C:0.06, G:0.12, T:0.76
Consensus pattern (15 bp):
TTTTCGTTTTTGTTA
Found at i:35701227 original size:31 final size:31
Alignment explanation
Indices: 35701192--35701270 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 31
35701182 TTAAAAAACA
35701192 AATATTTTTATATGTATGT-ATATTTATTTTT
1 AATATTTTTATATGTATGTAATATTT-TTTTT
* * *
35701223 AATATTGTAATTAT-TATTTAATATTTTTTTT
1 AATATTTTTA-TATGTATGTAATATTTTTTTT
35701254 ATATATTTTT-TATGTAT
1 A-ATATTTTTATATGTAT
35701271 CCATTTATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
30 3 0.08
31 21 0.54
32 15 0.38
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (31 bp):
AATATTTTTATATGTATGTAATATTTTTTTT
Found at i:35701255 original size:19 final size:19
Alignment explanation
Indices: 35701212--35701261 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
35701202 TATGTATGTA
35701212 TATTTATT-TTTAATATTG
1 TATTTATTATTTAATATTG
* *
35701230 TAATTATTATTTAATATTT
1 TATTTATTATTTAATATTG
*
35701249 TTTTTATATATTT
1 TATTTAT-TATTT
35701262 TTTATGTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 7 0.27
19 14 0.54
20 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
TATTTATTATTTAATATTG
Found at i:35701738 original size:15 final size:15
Alignment explanation
Indices: 35701718--35701752 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
35701708 TATTTCTATG
35701718 TTATTGATGTATTTA
1 TTATTGATGTATTTA
*
35701733 TTATTGTTGTATTTA
1 TTATTGATGTATTTA
35701748 TTATT
1 TTATT
35701753 ATGGCATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
TTATTGATGTATTTA
Done.