Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 187 of 279
Found at i:61241944 original size:23 final size:23
Alignment explanation
Indices: 61241889--61241951 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
61241879 TTTCTCTGAC
61241889 ATTTTTT-TTATTT-TTTTCTTT
1 ATTTTTTATTATTTATTTTCTTT
*
61241910 A-TCTTTATTTATTTATTTAT-TTT
1 ATTTTTTA-TTATTTATTT-TCTTT
*
61241933 ATTTTTTATTATTAATTTT
1 ATTTTTTATTATTTATTTT
61241952 AAAAAACTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
20 4 0.12
21 1 0.03
22 7 0.21
23 16 0.47
24 6 0.18
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (23 bp):
ATTTTTTATTATTTATTTTCTTT
Found at i:61242027 original size:24 final size:24
Alignment explanation
Indices: 61241962--61242028 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
61241952 AAAAAACTTG
* ** *
61241962 AAATGTATATTTGAAATGTTTTATA
1 AAATATATATTTGAAAT-TTAAAAA
* * *
61241987 ATATATATTTTTTAAATTTAAAAA
1 AAATATATATTTGAAATTTAAAAA
61242011 AAATATATATTTGAAATT
1 AAATATATATTTGAAATT
61242029 ATTTTTCTAA
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
24 19 0.59
25 13 0.41
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (24 bp):
AAATATATATTTGAAATTTAAAAA
Found at i:61242204 original size:17 final size:17
Alignment explanation
Indices: 61242184--61242219 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
61242174 GACAAAAGAT
*
61242184 AATAAAAAATTAAAAAA
1 AATAAAAAAGTAAAAAA
*
61242201 AATAAATAAGTAAAAAA
1 AATAAAAAAGTAAAAAA
61242218 AA
1 AA
61242220 GTGAAAGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (17 bp):
AATAAAAAAGTAAAAAA
Found at i:61242461 original size:14 final size:15
Alignment explanation
Indices: 61242442--61242474 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
61242432 ATCTTTAAAA
61242442 ATAATTTAAAA-ATT
1 ATAATTTAAAATATT
61242456 ATAATTTAAAATATT
1 ATAATTTAAAATATT
61242471 ATAA
1 ATAA
61242475 AACAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTTAAAATATT
Found at i:61242559 original size:22 final size:22
Alignment explanation
Indices: 61242532--61242586 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
61242522 GAAAGTTTAA
61242532 AATATTT-AAATATTAAAAAAAT
1 AATATTTAAAAT-TTAAAAAAAT
*
61242554 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAAT
*
61242576 AAT-TTCAAAAT
1 AATATTTAAAAT
61242587 ATATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 7 0.23
22 19 0.63
23 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAAT
Found at i:61242633 original size:23 final size:24
Alignment explanation
Indices: 61242577--61242633 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
61242567 TAAAAAAGTA
*
61242577 ATTTCAAAATATATATTAATAAAAT
1 ATTT-AAAATACATATTAATAAAAT
* *
61242602 ATTTCAAATACATATT-TTAAAAT
1 ATTTAAAATACATATTAATAAAAT
*
61242625 TTTTAAAAT
1 ATTTAAAAT
61242634 TAATAATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 13 0.48
24 10 0.37
25 4 0.15
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTTAAAATACATATTAATAAAAT
Found at i:61242666 original size:17 final size:18
Alignment explanation
Indices: 61242630--61242667 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
61242620 AAAATTTTTA
* *
61242630 AAATTAATAATAATAGAT
1 AAATAAATAATAATAAAT
61242648 AAATAAATAA-AATAAAT
1 AAATAAATAATAATAAAT
61242665 AAA
1 AAA
61242668 GAGAAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AAATAAATAATAATAAAT
Found at i:61242701 original size:7 final size:8
Alignment explanation
Indices: 61242685--61242711 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
61242675 AGACAAAAGT
61242685 AAAGTAAA
1 AAAGTAAA
61242693 AAAGTAAA
1 AAAGTAAA
61242701 AAAGTAAA
1 AAAGTAAA
61242709 AAA
1 AAA
61242712 AAAAGACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAGTAAA
Found at i:61244372 original size:29 final size:29
Alignment explanation
Indices: 61244339--61244406 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
61244329 GAACTCGAAC
61244339 AATTTAGTGATTAAATCAGAAAAATTAAT
1 AATTTAGTGATTAAATCAGAAAAATTAAT
61244368 AATTTAGTGATTAAATCAGAAAAATTAAT
1 AATTTAGTGATTAAATCAGAAAAATTAAT
61244397 AATTTAGTGA
1 AATTTAGTGA
61244407 CATTTTTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (29 bp):
AATTTAGTGATTAAATCAGAAAAATTAAT
Found at i:61245723 original size:54 final size:54
Alignment explanation
Indices: 61245550--61245787 Score: 264
Period size: 54 Copynumber: 4.3 Consensus size: 54
61245540 AAAAAATTTG
* * * *
61245550 GTGCTGGCCTTCTAATGACCGACACCTGTACAAAAATATCAGGAAATTTTTTTTT
1 GTGCTGGCCTTCTAATGGCCGGCACCAGTACAAAAATATTAGGAAA-TTTTTTTT
* * * **
61245605 GGTGCTGACCTTCTAATGGCCGGCACCACTGTAGTAAAAAAAAATTCA--AAATTTTTTGA
1 -GTGCTGGCCTTCTAATGGCCGGCA-C-C---AGTACAAAAATATT-AGGAAATTTTTTTT
** *
61245664 GTGCTGGTTTTCTAATGGCCGGCACCAGTACAAAAATATTAGGAATTTTTTTTT
1 GTGCTGGCCTTCTAATGGCCGGCACCAGTACAAAAATATTAGGAAATTTTTTTT
*
61245718 GTGCTGGCCTTCTAATGGTCGGCACCAGTACAAAAATATTAGGAAATTTTTTTT
1 GTGCTGGCCTTCTAATGGCCGGCACCAGTACAAAAATATTAGGAAATTTTTTTT
*
61245772 GTGCTGGTCTTCTAAT
1 GTGCTGGCCTTCTAAT
61245788 AGTTGGCACC
Statistics
Matches: 152, Mismatches: 22, Indels: 18
0.79 0.11 0.09
Matches are distributed among these distances:
52 1 0.01
53 12 0.08
54 73 0.48
56 22 0.14
57 2 0.01
58 22 0.14
59 6 0.04
60 3 0.02
61 10 0.07
62 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (54 bp):
GTGCTGGCCTTCTAATGGCCGGCACCAGTACAAAAATATTAGGAAATTTTTTTT
Found at i:61245824 original size:166 final size:164
Alignment explanation
Indices: 61245546--61245909 Score: 437
Period size: 166 Copynumber: 2.2 Consensus size: 164
61245536 GAAAAAAAAA
* * *
61245546 TTTGGTGCTGGCCTTCTAATGACCGACACCTGTACAAAAATATCAGGAAATTTTTTTTTGGTGCT
1 TTTGGTGCTGGCCTTCTAATG-GCGGCACCAGTACAAAAATATCAGGAAATTTTTTTTTGGTGCT
* ** * *
61245611 GACCTTCTAATGGCCGGCACCACTGTAGTAAAAAAAAATTCAAAATTTTTTGAGTGCTGGTTTTC
65 GACCTTCTAATAGCCGGCACCACACTAGTAAAAAAAAATTCAAAATTTTTTGAGTGCTAGTCTTC
*
61245676 TAATGGCCGGCACCAGTACAAAAATATTAGG-AATTTTT
130 -AA---CCGGCACCAGTACAAAAATATCAGGAAATTTTT
* *
61245714 TTTTGTGCTGGCCTTCTAATGGTCGGCACCAGTACAAAAATATTAGGAAA-TTTTTTTT-GTGCT
1 TTTGGTGCTGGCCTTCTAATGG-CGGCACCAGTACAAAAATATCAGGAAATTTTTTTTTGGTGCT
** ** * * *
61245777 GGTCTTCTAATAGTTGGCACCACACTCGTAAAAAAAATTTCAAAATTTTTTGGGTGCTAGTCTTC
65 GACCTTCTAATAGCCGGCACCACACTAGTAAAAAAAAATTCAAAATTTTTTGAGTGCTAGTCTTC
* * * *
61245842 AACCGGCTCTAGTGCAAAAGTATCAGGAAAATTTTT
130 AACCGGCACCAGTACAAAAATATCAGG-AAATTTTT
61245878 TTTGGTGCTGGCCTTCTAATGGCTGGCACCAG
1 TTTGGTGCTGGCCTTCTAATGGC-GGCACCAG
61245910 ACTAGTAAAA
Statistics
Matches: 169, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
162 20 0.12
163 1 0.01
164 36 0.21
165 2 0.01
166 58 0.34
167 8 0.05
168 44 0.26
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (164 bp):
TTTGGTGCTGGCCTTCTAATGGCGGCACCAGTACAAAAATATCAGGAAATTTTTTTTTGGTGCTG
ACCTTCTAATAGCCGGCACCACACTAGTAAAAAAAAATTCAAAATTTTTTGAGTGCTAGTCTTCA
ACCGGCACCAGTACAAAAATATCAGGAAATTTTT
Found at i:61254338 original size:13 final size:13
Alignment explanation
Indices: 61254322--61254346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61254312 ATTCAAATAA
61254322 TCAATATATATAT
1 TCAATATATATAT
61254335 TCAATATATATA
1 TCAATATATATA
61254347 CCAATTCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TCAATATATATAT
Found at i:61255109 original size:6 final size:6
Alignment explanation
Indices: 61255082--61255130 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
61255072 TTCTTTCCTA
* *
61255082 TTTCCT TTTCTT TCTT-TC TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
1 TTTCTT TTTCTT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
61255130 T
1 T
61255131 CTGTTTGGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 2 0.05
6 34 0.89
7 2 0.05
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:61258311 original size:34 final size:34
Alignment explanation
Indices: 61258225--61258342 Score: 139
Period size: 34 Copynumber: 3.5 Consensus size: 34
61258215 ATACTCTTTG
* *
61258225 TTTGGTGTGTTGGTTGGATTAGCTCTGATGAGTA
1 TTTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
61258259 -TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
* ** * ** *
61258292 TTTAGTGTGTTGGAGGGATTGGCTAGTGTGAGCA
1 TTTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
*
61258326 TCTGGTGTGTTGGTTGG
1 TTTGGTGTGTTGGTTGG
61258343 CATGACGATG
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
33 31 0.44
34 39 0.56
ACGTcount: A:0.14, C:0.07, G:0.38, T:0.42
Consensus pattern (34 bp):
TTTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
Found at i:61259452 original size:24 final size:24
Alignment explanation
Indices: 61259425--61259472 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
61259415 TTAGTATGGT
61259425 TAAATTGATGCATGTTTGGAATGA
1 TAAATTGATGCATGTTTGGAATGA
61259449 TAAATTGATGCATGTTTGGAATGA
1 TAAATTGATGCATGTTTGGAATGA
61259473 CCATATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (24 bp):
TAAATTGATGCATGTTTGGAATGA
Found at i:61260880 original size:42 final size:42
Alignment explanation
Indices: 61260833--61260918 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
61260823 TAGGGACTGA
61260833 AAGTGTAAATAAACCTAAGCTACAATGATAAATAACTTAACT
1 AAGTGTAAATAAACCTAAGCTACAATGATAAATAACTTAACT
61260875 AAGTGTAAATAAACCTAAGCTACAATGATAAATAACTTAACT
1 AAGTGTAAATAAACCTAAGCTACAATGATAAATAACTTAACT
61260917 AA
1 AA
61260919 CATTAAGAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (42 bp):
AAGTGTAAATAAACCTAAGCTACAATGATAAATAACTTAACT
Found at i:61260906 original size:23 final size:23
Alignment explanation
Indices: 61260838--61260909 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 23
61260828 ACTGAAAGTG
61260838 TAAATAAACCTAAGCTACAATGA
1 TAAATAAACCTAAGCTACAATGA
* *
61260861 TAAAT-AACTTAA-CTA-AGTG-
1 TAAATAAACCTAAGCTACAATGA
61260880 TAAATAAACCTAAGCTACAATGA
1 TAAATAAACCTAAGCTACAATGA
61260903 TAAATAA
1 TAAATAA
61260910 CTTAACTAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 5 0.12
20 9 0.22
21 6 0.15
22 9 0.22
23 12 0.29
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (23 bp):
TAAATAAACCTAAGCTACAATGA
Found at i:61267964 original size:17 final size:17
Alignment explanation
Indices: 61267942--61267976 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
61267932 TCAAGAAGAA
61267942 CATCACTAATGCAAATT
1 CATCACTAATGCAAATT
61267959 CATCACTAATGCAAATT
1 CATCACTAATGCAAATT
61267976 C
1 C
61267977 TATGTGATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.29
Consensus pattern (17 bp):
CATCACTAATGCAAATT
Found at i:61268627 original size:21 final size:21
Alignment explanation
Indices: 61268601--61268642 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
61268591 CAGTCAATTA
61268601 CAAAAAGTATCAACACCTTTT
1 CAAAAAGTATCAACACCTTTT
*
61268622 CAAAAAGTATCAATACCTTTT
1 CAAAAAGTATCAACACCTTTT
61268643 ACCAGGTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CAAAAAGTATCAACACCTTTT
Found at i:61273109 original size:6 final size:6
Alignment explanation
Indices: 61273098--61273143 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
61273088 AGGTTTCCAA
* *
61273098 AAATGG AAATGG AAATGA AAATGG AAATGA AAATGG AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
61273144 TTGCAATCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:61273325 original size:26 final size:26
Alignment explanation
Indices: 61273281--61273358 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
61273271 GAATATATTT
* *
61273281 TCTC-AAAATTTTACCAGGGGCAAAA
1 TCTCTAAAATTTTACTAGGGGTAAAA
61273306 TCGTCT-AAATTTTACTAGGGGTAAAA
1 TC-TCTAAAATTTTACTAGGGGTAAAA
* *
61273332 TCTTTAAAATTTTACTGGGGGTAAAA
1 TCTCTAAAATTTTACTAGGGGTAAAA
61273358 T
1 T
61273359 AGGGATAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
25 4 0.09
26 42 0.91
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (26 bp):
TCTCTAAAATTTTACTAGGGGTAAAA
Found at i:61276983 original size:25 final size:25
Alignment explanation
Indices: 61276933--61276984 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
61276923 AACTGATAGG
* * *
61276933 TTTTTTCTTAAAAATAGACTAAGTT
1 TTTTTTCCTAAAAATAAACAAAGTT
61276958 TTTTTTCCT-AAAATAAACAAATGTT
1 TTTTTTCCTAAAAATAAACAAA-GTT
61276983 TT
1 TT
61276985 AAAATGACTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.48
Consensus pattern (25 bp):
TTTTTTCCTAAAAATAAACAAAGTT
Found at i:61279322 original size:3 final size:3
Alignment explanation
Indices: 61279316--61279340 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
61279306 CTCCTCCAAG
61279316 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
61279341 ACAAGATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:61281082 original size:48 final size:48
Alignment explanation
Indices: 61281013--61281110 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
61281003 AAGTAAACTT
61281013 AAAAAAATTCTTTACCATGTAACTCACTGTCCAAAAACGCCAAAAATA
1 AAAAAAATTCTTTACCATGTAACTCACTGTCCAAAAACGCCAAAAATA
*
61281061 AAAAAAATTCTTTACCATGTAACTCACTGTCCAAAAATGCCAAAAATA
1 AAAAAAATTCTTTACCATGTAACTCACTGTCCAAAAACGCCAAAAATA
61281109 AA
1 AA
61281111 GAGCAGATGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.49, C:0.21, G:0.06, T:0.23
Consensus pattern (48 bp):
AAAAAAATTCTTTACCATGTAACTCACTGTCCAAAAACGCCAAAAATA
Found at i:61282733 original size:19 final size:19
Alignment explanation
Indices: 61282697--61282734 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
61282687 CTAAATGTTC
61282697 TTTATAAAAATTCAAAAAT
1 TTTATAAAAATTCAAAAAT
*
61282716 TTTATTAAAAATTTAAAAA
1 TTTA-TAAAAATTCAAAAA
61282735 GTATAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
TTTATAAAAATTCAAAAAT
Found at i:61284274 original size:24 final size:24
Alignment explanation
Indices: 61284242--61284289 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
61284232 TGAAGTTATG
61284242 AAACATGCAACATGCTAGTACAAT
1 AAACATGCAACATGCTAGTACAAT
61284266 AAACATGCAACATGCTAGTACAAT
1 AAACATGCAACATGCTAGTACAAT
61284290 CTAACTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.21, G:0.12, T:0.21
Consensus pattern (24 bp):
AAACATGCAACATGCTAGTACAAT
Found at i:61296383 original size:12 final size:12
Alignment explanation
Indices: 61296366--61296395 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
61296356 ATATATTTTT
61296366 AAAATTTCTAAA
1 AAAATTTCTAAA
61296378 AAAA-TTCTAAA
1 AAAATTTCTAAA
61296389 AAAATTT
1 AAAATTT
61296396 AAAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTTCTAAA
Found at i:61296398 original size:10 final size:11
Alignment explanation
Indices: 61296366--61296399 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
61296356 ATATATTTTT
*
61296366 AAAATTTCTAA
1 AAAAATTCTAA
61296377 AAAAATTCTAA
1 AAAAATTCTAA
61296388 AAAAATT-TAA
1 AAAAATTCTAA
61296398 AA
1 AA
61296400 TAATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAAATTCTAA
Found at i:61305344 original size:10 final size:10
Alignment explanation
Indices: 61305325--61305382 Score: 73
Period size: 10 Copynumber: 5.8 Consensus size: 10
61305315 ATTTTAGCTC
61305325 TTATCTTTAT
1 TTATCTTTAT
*
61305335 TTATCCTTAT
1 TTATCTTTAT
*
61305345 TTATCTTTAA
1 TTATCTTTAT
*
61305355 TTATCTTTAA
1 TTATCTTTAT
61305365 TTAT-TTGTAT
1 TTATCTT-TAT
61305375 TTATCTTT
1 TTATCTTT
61305383 TAGAATTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 38 0.90
11 2 0.05
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATCTTTAT
Found at i:61305361 original size:30 final size:30
Alignment explanation
Indices: 61305325--61305382 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
61305315 ATTTTAGCTC
*
61305325 TTATCTTTATTTATCCT-TATTTATCTTTAA
1 TTATCTTTAATTAT-CTGTATTTATCTTTAA
*
61305355 TTATCTTTAATTATTTGTATTTATCTTT
1 TTATCTTTAATTATCTGTATTTATCTTT
61305383 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (30 bp):
TTATCTTTAATTATCTGTATTTATCTTTAA
Found at i:61306015 original size:14 final size:14
Alignment explanation
Indices: 61305996--61306025 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
61305986 ATCCAAGGCA
61305996 GATCGAGGCAACCG
1 GATCGAGGCAACCG
61306010 GATCGAGGCAACCG
1 GATCGAGGCAACCG
61306024 GA
1 GA
61306026 GGCTGGAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.37, T:0.07
Consensus pattern (14 bp):
GATCGAGGCAACCG
Found at i:61311163 original size:8 final size:8
Alignment explanation
Indices: 61311148--61311449 Score: 143
Period size: 8 Copynumber: 39.6 Consensus size: 8
61311138 TTATGTTTAG
61311148 TATATTAT
1 TATATTAT
*
61311156 TCTATTAT
1 TATATTAT
61311164 TATATTAT
1 TATATTAT
*
61311172 TATATAATAAA
1 TATAT--T-AT
*
61311183 GATATT-T
1 TATATTAT
*
61311190 TATGTT-T
1 TATATTAT
61311197 TA-ATTA-
1 TATATTAT
61311203 TAT-TATAT
1 TATAT-TAT
61311211 TATATTA-
1 TATATTAT
61311218 TAT-TATAT
1 TATAT-TAT
61311226 TATATTA-
1 TATATTAT
61311233 TAT-TATAT
1 TATAT-TAT
61311241 TATATTA-
1 TATATTAT
61311248 TAT-TATAT
1 TATAT-TAT
61311256 TATATTA-
1 TATATTAT
61311263 TAT-TATAT
1 TATAT-TAT
61311271 TATATTA-
1 TATATTAT
61311278 TAT-TATAT
1 TATAT-TAT
61311286 TATATTA-
1 TATATTAT
61311293 TAT-TATAT
1 TATAT-TAT
61311301 TATATTA-
1 TATATTAT
61311308 TAT-TATAT
1 TATAT-TAT
61311316 TATATTA-
1 TATATTAT
61311323 TAT-TATAT
1 TATAT-TAT
61311331 TATATTA-
1 TATATTAT
61311338 TAT-TATAT
1 TATAT-TAT
61311346 TATATTA-
1 TATATTAT
61311353 TAT-TATAT
1 TATAT-TAT
61311361 TATATTA-
1 TATATTAT
61311368 TAT-TATAT
1 TATAT-TAT
61311376 TATATTA-
1 TATATTAT
61311383 TAT-TATAT
1 TATAT-TAT
61311391 TATATTA-
1 TATATTAT
61311398 TAT-TATAT
1 TATAT-TAT
61311406 TATATTA-
1 TATATTAT
61311413 TAT-TATAT
1 TATAT-TAT
61311421 TATATTA-
1 TATATTAT
61311428 TAT-TATAT
1 TATAT-TAT
61311436 TATATTAT
1 TATATTAT
61311444 ATATAT
1 -TATAT
61311450 AAACTAAAGA
Statistics
Matches: 232, Mismatches: 8, Indels: 107
0.67 0.02 0.31
Matches are distributed among these distances:
6 20 0.09
7 84 0.36
8 100 0.43
9 22 0.09
10 1 0.00
11 5 0.02
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (8 bp):
TATATTAT
Found at i:61311209 original size:5 final size:5
Alignment explanation
Indices: 61311199--61311449 Score: 495
Period size: 5 Copynumber: 50.4 Consensus size: 5
61311189 TTATGTTTTA
61311199 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
61311249 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
61311299 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
61311349 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
61311399 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
61311448 AT
1 AT
61311450 AAACTAAAGA
Statistics
Matches: 245, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.02
5 241 0.98
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:61315941 original size:5 final size:5
Alignment explanation
Indices: 61315931--61315966 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
61315921 TTATGTTTTA
61315931 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
61315967 AAACTAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:61317257 original size:15 final size:15
Alignment explanation
Indices: 61317237--61317293 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
61317227 CGATGAATTT
61317237 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
61317252 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
61317267 ATTGAATTTATATTG
1 ATTGAATTTATATTG
61317282 ATTGAA-TTATAT
1 ATTGAATTTATAT
61317294 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:61317695 original size:23 final size:23
Alignment explanation
Indices: 61317665--61317774 Score: 113
Period size: 23 Copynumber: 5.0 Consensus size: 23
61317655 GCTTTATCGA
*
61317665 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
*
61317688 TCAGGCACCACT-TGTGTCGTATT
1 TCAGGCACC-TTATGTGTCGTATT
**
61317711 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTTATGTGTCGTATT
**
61317732 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTTATGTGTCGTATT
*
61317754 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTTATGTGTCGTAT
61317775 ACTGATCAGG
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
21 35 0.47
22 2 0.03
23 37 0.49
24 1 0.01
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:61317735 original size:21 final size:21
Alignment explanation
Indices: 61317677--61317774 Score: 97
Period size: 21 Copynumber: 4.5 Consensus size: 21
61317667 AGGCACTTTA
* *
61317677 TGTGTCGTATTTCAGGCACCACT
1 TGTGTCGTA--TCAGGCACCTCG
61317700 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
61317723 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
61317744 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
61317765 TGTGTCGTAT
1 TGTGTCGTAT
61317775 ACTGATCAGG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
21 37 0.55
23 30 0.45
ACGTcount: A:0.14, C:0.22, G:0.26, T:0.38
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:61317751 original size:44 final size:42
Alignment explanation
Indices: 61317667--61317774 Score: 117
Period size: 44 Copynumber: 2.5 Consensus size: 42
61317657 TTTATCGATC
* * *
61317667 AGGCACTTTATGTGTCGTATTTCAGGCACCACTTGTGTCGTATTT
1 AGGCACCTCATGTGTCGTA--TCAGGCACCACGTGTGTCGT-TTT
* *
61317712 CAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGTTTT
1 -AGGCACCTCATGTGTCGTATCAGGCACCACGTGTGTCGTTTT
* *
61317755 AGGCACTTTATGTGTCGTAT
1 AGGCACCTCATGTGTCGTAT
61317775 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 17 0.31
43 3 0.06
44 18 0.33
46 16 0.30
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (42 bp):
AGGCACCTCATGTGTCGTATCAGGCACCACGTGTGTCGTTTT
Found at i:61321879 original size:12 final size:12
Alignment explanation
Indices: 61321862--61321922 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 12
61321852 AGGCAACCCA
61321862 ATTTTTATTTTT
1 ATTTTTATTTTT
61321874 ATTTTTA--TTT
1 ATTTTTATTTTT
61321884 ATTTTTA-TTTT
1 ATTTTTATTTTT
61321895 ATTATTTTATTATTT
1 A-T-TTTTATT-TTT
61321910 ATTACTTTATTTT
1 ATT--TTTATTTT
61321923 GTTTGGATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
10 10 0.24
11 4 0.10
12 8 0.19
13 6 0.14
14 4 0.10
15 10 0.24
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:61321886 original size:16 final size:16
Alignment explanation
Indices: 61321865--61321912 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
61321855 CAACCCAATT
61321865 TTTATTTTTATTTTTA
1 TTTATTTTTATTTTTA
61321881 TTTATTTTTA-TTTTA
1 TTTATTTTTATTTTTA
61321896 -TTA-TTTTATTATTTA
1 TTTATTTTTATT-TTTA
61321911 TT
1 TT
61321913 ACTTTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.17
14 4 0.14
15 9 0.31
16 11 0.38
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:61321894 original size:15 final size:15
Alignment explanation
Indices: 61321865--61321922 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
61321855 CAACCCAATT
61321865 TTTATTTTTATTTTTA
1 TTTATTTTTA-TTTTA
61321881 TTTATTTTTATTTTA
1 TTTATTTTTATTTTA
61321896 -TTA-TTTTA--TTA
1 TTTATTTTTATTTTA
61321907 TTTATTACTTTATTTT
1 TTTATT--TTTATTTT
61321923 GTTTGGATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.08
12 3 0.08
13 6 0.17
14 3 0.08
15 9 0.25
16 10 0.28
17 2 0.06
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTTTTATTTTA
Found at i:61321901 original size:8 final size:8
Alignment explanation
Indices: 61321876--61321920 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
61321866 TTATTTTTAT
61321876 TTTTATT-
1 TTTTATTA
61321883 TATTT-TTA
1 T-TTTATTA
61321891 TTTTATTA
1 TTTTATTA
61321899 TTTTATTA
1 TTTTATTA
61321907 -TTTATTA
1 TTTTATTA
*
61321914 CTTTATT
1 TTTTATT
61321921 TTGTTTGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
7 13 0.38
8 21 0.62
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTATTA
Found at i:61321902 original size:23 final size:22
Alignment explanation
Indices: 61321862--61321920 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
61321852 AGGCAACCCA
61321862 ATTTTTATTT-TTATTTTTATTT
1 ATTTTTATTTATTATTTTTA-TT
61321884 ATTTTTATTTTATTA-TTTTATT
1 ATTTTTA-TTTATTATTTTTATT
61321906 ATTTATTACTTTATT
1 ATTT-TTA-TTTATT
61321921 TTGTTTGGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
22 13 0.39
23 17 0.52
24 3 0.09
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (22 bp):
ATTTTTATTTATTATTTTTATT
Found at i:61324003 original size:44 final size:44
Alignment explanation
Indices: 61323940--61324031 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
61323930 TATTCAGGGA
*
61323940 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCGTACTAT
* * **
61323984 TACTTCGACTTTGAGTCGATGAGGCACTTTGTGTGTCGTACTAT
1 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCGTACTAT
61324028 TACT
1 TACT
61324032 GTTGCTTCGG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.36
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCGTACTAT
Found at i:61324206 original size:18 final size:18
Alignment explanation
Indices: 61324183--61324286 Score: 64
Period size: 18 Copynumber: 5.4 Consensus size: 18
61324173 TCAACTACTG
61324183 TACTGAATAATTGATAGT
1 TACTGAATAATTGATAGT
** *
61324201 TACTGAATAACTAAATTACT
1 TACTGAATAA-TTGA-TAGT
*
61324221 GTATTGAATAATTGATAGT
1 -TACTGAATAATTGATAGT
* ** *
61324240 TATTGAATAACTAAACTACT
1 TACTGAATAA-TTGA-TAGT
* *
61324260 ACACTGAATATTTGATAGT
1 -TACTGAATAATTGATAGT
61324279 TACTGAAT
1 TACTGAAT
61324287 GACTAAATTA
Statistics
Matches: 63, Mismatches: 17, Indels: 12
0.68 0.18 0.13
Matches are distributed among these distances:
18 27 0.43
19 10 0.16
20 10 0.16
21 16 0.25
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (18 bp):
TACTGAATAATTGATAGT
Found at i:61324221 original size:39 final size:39
Alignment explanation
Indices: 61324178--61324309 Score: 201
Period size: 39 Copynumber: 3.4 Consensus size: 39
61324168 TAGGGTCAAC
61324178 TACTGTACTGAATAATTGATAGTTACTGAATAACTAAAT
1 TACTGTACTGAATAATTGATAGTTACTGAATAACTAAAT
* * *
61324217 TACTGTATTGAATAATTGATAGTTATTGAATAACTAAAC
1 TACTGTACTGAATAATTGATAGTTACTGAATAACTAAAT
** * *
61324256 TACTACACTGAATATTTGATAGTTACTGAATGACTAAAT
1 TACTGTACTGAATAATTGATAGTTACTGAATAACTAAAT
61324295 TACTGTACTGAATAA
1 TACTGTACTGAATAA
61324310 CAGATTATTA
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (39 bp):
TACTGTACTGAATAATTGATAGTTACTGAATAACTAAAT
Found at i:61324321 original size:78 final size:78
Alignment explanation
Indices: 61324175--61324323 Score: 219
Period size: 78 Copynumber: 1.9 Consensus size: 78
61324165 TAATAGGGTC
** * **
61324175 AACTACTGTACTGAATAATTGATAGTTACTGAATAACTAAATTACTGTATTGAATAATTGATAGT
1 AACTACTACACTGAATAATTGATAGTTACTGAATAACTAAATTACTGTACTGAATAACAGATAGT
61324240 TATTGAATAACTA
66 TATTGAATAACTA
* *
61324253 AACTACTACACTGAATATTTGATAGTTACTGAATGACTAAATTACTGTACTGAATAACAGATTA-
1 AACTACTACACTGAATAATTGATAGTTACTGAATAACTAAATTACTGTACTGAATAACAGA-TAG
61324317 TTATTGA
65 TTATTGA
61324324 TTGTTTGATA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
78 61 0.97
79 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (78 bp):
AACTACTACACTGAATAATTGATAGTTACTGAATAACTAAATTACTGTACTGAATAACAGATAGT
TATTGAATAACTA
Found at i:61326801 original size:22 final size:24
Alignment explanation
Indices: 61326758--61326815 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 24
61326748 TAAAGAAATG
*
61326758 AAATAAATAATATAAAGTAATT-T
1 AAATAAATAATATAAAGCAATTCT
*
61326781 AAAATAAATAATA-AGA-CAATTCT
1 -AAATAAATAATATAAAGCAATTCT
*
61326804 AAACAAATAATA
1 AAATAAATAATA
61326816 CATAAAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 15 0.50
23 3 0.10
24 12 0.40
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (24 bp):
AAATAAATAATATAAAGCAATTCT
Found at i:61326917 original size:27 final size:26
Alignment explanation
Indices: 61326880--61327239 Score: 175
Period size: 26 Copynumber: 13.5 Consensus size: 26
61326870 ATAAAAAATT
*
61326880 TAATATGTAAAACAATTTAAAATAAAA
1 TAATATATAAAACAATTTAAAAT-AAA
*
61326907 TAATATATAAAACAATTTAAAATAAC
1 TAATATATAAAACAATTTAAAATAAA
*
61326933 TAATTTATAAAACAATTTAAAATGACATA
1 TAATATATAAAACAATTTAAAAT-A-A-A
* * * *
61326962 TAAAAGTTTAAACTAAATAATATGTAAAAAAAA
1 T--AA-TATATA--AAACAAT-T-TAAAATAAA
* * *
61326995 TAA-ATTTAAAATACA--TAACATAAA
1 TAATATATAAAACA-ATTTAAAATAAA
* *
61327019 -AAAATATAAAACAGTTTTAAAA-ATAA
1 TAATATATAAAACA-ATTTAAAATA-AA
* *
61327045 TAATGTA-AAAGA-AATTTAAAGTAAA
1 TAATATATAAA-ACAATTTAAAATAAA
* * * *** *
61327070 CAACATATAAAATAATTTAAACCGAG
1 TAATATATAAAACAATTTAAAATAAA
*
61327096 TAATATATATAAA-ACTTTAAAATAAA
1 TAATATATA-AAACAATTTAAAATAAA
* *
61327122 TAATATACACAAA-GATTTAAAATAAA
1 TAATATATA-AAACAATTTAAAATAAA
61327148 TAATATATGGGAAAA-AATTTAAAATAAA
1 TAATATAT---AAAACAATTTAAAATAAA
* *
61327176 TAATATGTAAAAATAATTTAAAATAAA
1 TAATATAT-AAAACAATTTAAAATAAA
* * **
61327203 TAATACATAAAA-ATTTTAAAGCAAA
1 TAATATATAAAACAATTTAAAATAAA
*
61327228 TGATATATAAAA
1 TAATATATAAAA
61327240 AGAGTTTAAA
Statistics
Matches: 258, Mismatches: 50, Indels: 52
0.72 0.14 0.14
Matches are distributed among these distances:
23 2 0.01
24 15 0.06
25 34 0.13
26 99 0.38
27 55 0.21
28 24 0.09
29 4 0.02
31 4 0.02
32 5 0.02
33 2 0.01
34 7 0.03
35 2 0.01
36 5 0.02
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (26 bp):
TAATATATAAAACAATTTAAAATAAA
Found at i:61327221 original size:106 final size:107
Alignment explanation
Indices: 61327039--61327251 Score: 234
Period size: 106 Copynumber: 2.0 Consensus size: 107
61327029 ACAGTTTTAA
* * * * * *
61327039 AAATAATAATGTAAAAGAAATTTAAAGTAAACAACATATAAAATAATTTAAACCGAGTAATATAT
1 AAATAATAATGGAAAAGAAATTTAAAATAAACAACATATAAAATAATTTAAAACAAATAATACAT
* *
61327104 ATAAAACTTTAAAATAAATAATATACACAAAGA-TTTAAAAT
66 ATAAAACTTTAAAACAAATAATATACAAAAAGAGTTTAAAAT
* * * * *
61327145 AAATAATATATGGGAAA-AAATTTAAAATAAATAATATGTAAAAATAATTTAAAATAAATAATAC
1 AAATAATA-ATGGAAAAGAAATTTAAAATAAACAACATAT-AAAATAATTTAAAACAAATAATAC
* * * *
61327209 ATA-AAAATTTTAAAGCAAATGATATATAAAAAGAGTTTAAAAT
64 ATATAAAACTTTAAAACAAATAATATACAAAAAGAGTTTAAAAT
61327252 GAACATTGTG
Statistics
Matches: 87, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
106 51 0.59
107 36 0.41
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (107 bp):
AAATAATAATGGAAAAGAAATTTAAAATAAACAACATATAAAATAATTTAAAACAAATAATACAT
ATAAAACTTTAAAACAAATAATATACAAAAAGAGTTTAAAAT
Found at i:61329716 original size:39 final size:39
Alignment explanation
Indices: 61329672--61329838 Score: 235
Period size: 39 Copynumber: 4.3 Consensus size: 39
61329662 TATGAGATTG
* *
61329672 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
*
61329711 AAAATATCCGGACATGAGATCTGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
*
61329750 AATATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
* * * * ** *
61329789 AATATATCCGGACTTGAGGTCCGTAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
61329828 AAAATATCCGG
1 AAAATATCCGG
61329839 GTTAAAAACC
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 116 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (39 bp):
AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
Found at i:61329852 original size:78 final size:78
Alignment explanation
Indices: 61329672--61329864 Score: 183
Period size: 78 Copynumber: 2.5 Consensus size: 78
61329662 TATGAGATTG
* *** * *
61329672 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCTGCAG
1 AAAATATCCGGACATAAAACCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCAG
*
61329737 GCTATATGCTAGA
66 GCTACATGCTAGA
* * * * * * * *
61329750 AATATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAATATATCCGGACTTGAGGTCCGTAG
1 AAAATATCCGGACATAAAACCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCAG
* *
61329815 GCTACGTGCTGGA
66 GCTACATGCTAGA
** *
61329828 AAAATATCCGG-GTTAAAAACCCGCAGGCT-TACGCTAG
1 AAAATATCCGGACAT-AAAACCCGCAGGCTATATGCTAG
61329865 TAATGTATTC
Statistics
Matches: 96, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
77 8 0.08
78 88 0.92
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (78 bp):
AAAATATCCGGACATAAAACCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCAG
GCTACATGCTAGA
Found at i:61330081 original size:2 final size:2
Alignment explanation
Indices: 61330076--61330101 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
61330066 TATATATATA
61330076 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
61330102 CGAATGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:61331096 original size:26 final size:27
Alignment explanation
Indices: 61331038--61331096 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
61331028 AAATTAACAG
* *
61331038 TAAAAAAATAATAATAAAGCAAACAAT
1 TAAAATAATAATAATAAAACAAACAAT
* **
61331065 TTAAATAATAA-AATAAAACAAAGGAT
1 TAAAATAATAATAATAAAACAAACAAT
61331091 TAAAAT
1 TAAAAT
61331097 CAAATGCGCA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (27 bp):
TAAAATAATAATAATAAAACAAACAAT
Found at i:61332490 original size:14 final size:13
Alignment explanation
Indices: 61332452--61332501 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
61332442 AAGAATAAGA
61332452 AGAAAAAAAAAAG
1 AGAAAAAAAAAAG
* *
61332465 AGGAGAAAAAAAG
1 AGAAAAAAAAAAG
*
61332478 AGAAAAAAGAAAAA
1 AGAAAAAA-AAAAG
61332492 AGAAAAAAAA
1 AGAAAAAAAA
61332502 TGATGTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 19 0.61
14 12 0.39
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAAG
Found at i:61332491 original size:8 final size:8
Alignment explanation
Indices: 61332468--61332500 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
61332458 AAAAAAGAGG
61332468 AGAAAAAA
1 AGAAAAAA
61332476 AGAGAAAAA
1 AGA-AAAAA
61332485 AG-AAAAA
1 AGAAAAAA
61332492 AGAAAAAA
1 AGAAAAAA
61332500 A
1 A
61332501 ATGATGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.30
8 9 0.39
9 7 0.30
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:61333138 original size:10 final size:10
Alignment explanation
Indices: 61333123--61333202 Score: 90
Period size: 10 Copynumber: 7.8 Consensus size: 10
61333113 ATTTTAGCTC
61333123 TTATCTTTAT
1 TTATCTTTAT
*
61333133 TTATCTTAGTTT
1 TTATCTT--TAT
61333145 TTATCTTTAT
1 TTATCTTTAT
*
61333155 TTATCCTTAT
1 TTATCTTTAT
*
61333165 TTATCTTTAA
1 TTATCTTTAT
*
61333175 TTATTTTTAT
1 TTATCTTTAT
61333185 TTAT-TTGTAT
1 TTATCTT-TAT
61333195 TTATCTTT
1 TTATCTTT
61333203 TAGAATTTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 2 0.03
10 46 0.78
11 2 0.03
12 9 0.15
ACGTcount: A:0.20, C:0.09, G:0.03, T:0.69
Consensus pattern (10 bp):
TTATCTTTAT
Found at i:61336380 original size:44 final size:46
Alignment explanation
Indices: 61336311--61336403 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 46
61336301 TATAACATCT
61336311 ATTCCATTCAACCAAACACAAGAATT-CT-ATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACACAAGAATTACTAATTACAGCTCTATTCC
* * * *
61336355 ATTCCATTCAACCAAACA-ATTGAATTACTAATTATAGTTCTATTTC
1 ATTCCATTCAACCAAACACA-AGAATTACTAATTACAGCTCTATTCC
61336401 ATT
1 ATT
61336404 ACAACTCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.55
45 2 0.05
46 16 0.38
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (46 bp):
ATTCCATTCAACCAAACACAAGAATTACTAATTACAGCTCTATTCC
Found at i:61355104 original size:29 final size:29
Alignment explanation
Indices: 61354980--61355104 Score: 78
Period size: 29 Copynumber: 4.2 Consensus size: 29
61354970 AAAAAATTAA
*
61354980 AATTATATAT-TAATTTT-ATTTTAATATAT
1 AATTATATATAAAATTTTAATTTTAAT-T-T
* * *
61355009 AATT-TGATATATGAATTTCAA-TTTAATGT
1 AATTAT-ATATA-AAATTTTAATTTTAATTT
* * * * *
61355038 AATTATACATATAAAATTCTAACTGTAGTTC
1 AATTAT--ATATAAAATTTTAATTTTAATTT
*
61355069 AAATATATATAAAATTTTAATTTTAATTT
1 AATTATATATAAAATTTTAATTTTAATTT
61355098 AATTATA
1 AATTATA
61355105 CACATTTAAA
Statistics
Matches: 71, Mismatches: 18, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
28 1 0.01
29 37 0.52
30 7 0.10
31 25 0.35
32 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (29 bp):
AATTATATATAAAATTTTAATTTTAATTT
Found at i:61355170 original size:25 final size:25
Alignment explanation
Indices: 61355109--61355176 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 25
61355099 ATTATACACA
* *
61355109 TTTAAATA-AATATATAAAATTATT
1 TTTATATACAATAAATAAAATTATT
** *
61355133 TTTATATTTAATAAATATAATTATT
1 TTTATATACAATAAATAAAATTATT
* *
61355158 TTTGTATACAATATATAAA
1 TTTATATACAATAAATAAA
61355177 CATAAATGAC
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
24 6 0.18
25 28 0.82
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (25 bp):
TTTATATACAATAAATAAAATTATT
Found at i:61358577 original size:24 final size:24
Alignment explanation
Indices: 61358550--61358716 Score: 214
Period size: 24 Copynumber: 7.0 Consensus size: 24
61358540 TGGTACTCCA
*
61358550 CCATCATCTGGAGGTGGTAGTCCC
1 CCATCATCTGGAGGTGGCAGTCCC
* * *
61358574 CCATCGTATGGAGGAGGCAGTCCC
1 CCATCATCTGGAGGTGGCAGTCCC
* * *
61358598 CCATCGTATGGAGGAGGCAGTCCC
1 CCATCATCTGGAGGTGGCAGTCCC
61358622 CCATCATAC-GGAGGTGGCAGTCCC
1 CCATCAT-CTGGAGGTGGCAGTCCC
61358646 CCATCATAC-GGAGGTGGCAGTCCC
1 CCATCAT-CTGGAGGTGGCAGTCCC
61358670 CCATCATAC-GGAGGTGGCAGTCCC
1 CCATCAT-CTGGAGGTGGCAGTCCC
*
61358694 CCATCATATGGAGGTGGCAGTCC
1 CCATCATCTGGAGGTGGCAGTCC
61358717 AACTACTCCT
Statistics
Matches: 133, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
24 133 1.00
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.19
Consensus pattern (24 bp):
CCATCATCTGGAGGTGGCAGTCCC
Found at i:61358621 original size:48 final size:48
Alignment explanation
Indices: 61358550--61358716 Score: 262
Period size: 48 Copynumber: 3.5 Consensus size: 48
61358540 TGGTACTCCA
* * * * *
61358550 CCATCATCTGGAGGTGGTAGTCCCCCATCGTATGGAGGAGGCAGTCCC
1 CCATCATATGGAGGTGGCAGTCCCCCATCATACGGAGGTGGCAGTCCC
* *
61358598 CCATCGTATGGAGGAGGCAGTCCCCCATCATACGGAGGTGGCAGTCCC
1 CCATCATATGGAGGTGGCAGTCCCCCATCATACGGAGGTGGCAGTCCC
*
61358646 CCATCATACGGAGGTGGCAGTCCCCCATCATACGGAGGTGGCAGTCCC
1 CCATCATATGGAGGTGGCAGTCCCCCATCATACGGAGGTGGCAGTCCC
61358694 CCATCATATGGAGGTGGCAGTCC
1 CCATCATATGGAGGTGGCAGTCC
61358717 AACTACTCCT
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 108 1.00
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.19
Consensus pattern (48 bp):
CCATCATATGGAGGTGGCAGTCCCCCATCATACGGAGGTGGCAGTCCC
Found at i:61358667 original size:72 final size:72
Alignment explanation
Indices: 61358550--61358716 Score: 246
Period size: 72 Copynumber: 2.3 Consensus size: 72
61358540 TGGTACTCCA
* * * * *
61358550 CCATCAT-CTGGAGGTGGTAGTCCCCCATCGTATGGAGGAGGCAGTCCCCCATCGTATGGAGGAG
1 CCATCATAC-GGAGGTGGCAGTCCCCCATCATACGGAGGAGGCAGTCCCCCATCATACGGAGGAG
61358614 GCAGTCCC
65 GCAGTCCC
* *
61358622 CCATCATACGGAGGTGGCAGTCCCCCATCATACGGAGGTGGCAGTCCCCCATCATACGGAGGTGG
1 CCATCATACGGAGGTGGCAGTCCCCCATCATACGGAGGAGGCAGTCCCCCATCATACGGAGGAGG
61358687 CAGTCCC
66 CAGTCCC
*
61358694 CCATCATATGGAGGTGGCAGTCC
1 CCATCATACGGAGGTGGCAGTCC
61358717 AACTACTCCT
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
72 85 0.99
73 1 0.01
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.19
Consensus pattern (72 bp):
CCATCATACGGAGGTGGCAGTCCCCCATCATACGGAGGAGGCAGTCCCCCATCATACGGAGGAGG
CAGTCCC
Found at i:61366774 original size:20 final size:18
Alignment explanation
Indices: 61366751--61366807 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 18
61366741 TTTAGTCATA
61366751 TAATAAATTATTAATATAAT
1 TAATAAATTATTAATAT--T
*
61366771 TAATATATTTATT-AT-TT
1 TAATA-AATTATTAATATT
61366788 TAATAAATTATTTAATATT
1 TAATAAATTA-TTAATATT
61366807 T
1 T
61366808 TATTTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 4 0.13
17 8 0.26
18 2 0.06
19 4 0.13
20 7 0.23
21 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATAAATTATTAATATT
Found at i:61366783 original size:21 final size:20
Alignment explanation
Indices: 61366758--61366801 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
61366748 ATATAATAAA
*
61366758 TTATTAATATAATTAATATAT
1 TTATTAATATAATAAAT-TAT
* *
61366779 TTATTATTTTAATAAATTAT
1 TTATTAATATAATAAATTAT
61366799 TTA
1 TTA
61366802 ATATTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATTAATATAATAAATTAT
Found at i:61366808 original size:20 final size:20
Alignment explanation
Indices: 61366751--61366809 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
61366741 TTTAGTCATA
61366751 TAATAAATTA-TTAATA---
1 TAATAAATTATTTAATATTT
* *
61366767 TAATTAATATATTTATTATTT
1 TAATAAAT-TATTTAATATTT
61366788 TAATAAATTATTTAATATTT
1 TAATAAATTATTTAATATTT
61366808 TA
1 TA
61366810 TTTTTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 7 0.21
17 2 0.06
18 5 0.15
20 13 0.38
21 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TAATAAATTATTTAATATTT
Found at i:61366856 original size:16 final size:17
Alignment explanation
Indices: 61366820--61366856 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
61366810 TTTTTATTTT
61366820 TAATAATAATTTTTAAA
1 TAATAATAATTTTTAAA
61366837 -AATAATAA-TTTTAAA
1 TAATAATAATTTTTAAA
61366852 TAATA
1 TAATA
61366857 TTCTTTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATAATAATTTTTAAA
Found at i:61367921 original size:20 final size:20
Alignment explanation
Indices: 61367891--61367928 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
61367881 ATAATAAATG
61367891 AATAAACAAATGAACAAATAA
1 AATAAACAAATGAA-AAATAA
61367912 AATAAA-AAATGAAAAAT
1 AATAAACAAATGAAAAAT
61367929 GCCATGCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (20 bp):
AATAAACAAATGAAAAATAA
Found at i:61369122 original size:25 final size:27
Alignment explanation
Indices: 61369085--61369137 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
61369075 TCAAACATGC
61369085 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
61369111 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
61369137 A
1 A
61369138 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:61375615 original size:26 final size:26
Alignment explanation
Indices: 61375579--61375662 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
61375569 CATGAAATTC
61375579 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
61375605 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
61375631 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
61375657 TTATCA
1 TTATCA
61375663 ATTTGTACCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:61376020 original size:19 final size:19
Alignment explanation
Indices: 61375982--61376020 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
61375972 ATTGGGGCGT
*
61375982 TATAGTAAAAACACCAATA
1 TATAGTAAAAACAACAATA
* *
61376001 TATAGTAATAACAACGATA
1 TATAGTAAAAACAACAATA
61376020 T
1 T
61376021 TGCGTCATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.13, G:0.08, T:0.26
Consensus pattern (19 bp):
TATAGTAAAAACAACAATA
Found at i:61376071 original size:3 final size:3
Alignment explanation
Indices: 61376063--61376091 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
61376053 AAATGATAGA
61376063 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
61376092 AAGGGATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:61380848 original size:23 final size:23
Alignment explanation
Indices: 61380818--61380904 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
61380808 GCTTTACTGA
* *
61380818 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
61380841 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
61380862 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
61380884 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
61380905 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:61382778 original size:11 final size:11
Alignment explanation
Indices: 61382762--61382786 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
61382752 TAAACCAATA
61382762 ATCACAAGGTC
1 ATCACAAGGTC
61382773 ATCACAAGGTC
1 ATCACAAGGTC
61382784 ATC
1 ATC
61382787 CCCATAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (11 bp):
ATCACAAGGTC
Found at i:61383078 original size:42 final size:42
Alignment explanation
Indices: 61382964--61383092 Score: 204
Period size: 42 Copynumber: 3.0 Consensus size: 42
61382954 CACATAGTAC
**
61382964 CATACCAATGCCATATCCCAGATATGGTCTTACATGGGATCT
1 CATACCAATGCCATATCCCAGATATGGTCTTACATGAAATCT
* *
61383006 CATATCAATGCCAATATCCCAGCTATGGTCTTACATGAAATCT
1 CATACCAATGCC-ATATCCCAGATATGGTCTTACATGAAATCT
*
61383049 CATACCGATGCCATATCCCAGATATGGTCTTACATGAAATCT
1 CATACCAATGCCATATCCCAGATATGGTCTTACATGAAATCT
61383091 CA
1 CA
61383093 ACTAACCCTA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 42 0.53
43 37 0.47
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (42 bp):
CATACCAATGCCATATCCCAGATATGGTCTTACATGAAATCT
Found at i:61384588 original size:20 final size:20
Alignment explanation
Indices: 61384551--61384588 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
61384541 TGATGGGGAG
*
61384551 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
61384571 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
61384589 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:61386283 original size:20 final size:20
Alignment explanation
Indices: 61386258--61386295 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
61386248 TGATATAGCC
61386258 CTCCCGAAGAATACGTGTCT
1 CTCCCGAAGAATACGTGTCT
61386278 CTCCCGAAGAATACGTGT
1 CTCCCGAAGAATACGTGT
61386296 AAAATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (20 bp):
CTCCCGAAGAATACGTGTCT
Found at i:61386506 original size:46 final size:46
Alignment explanation
Indices: 61386454--61386575 Score: 174
Period size: 46 Copynumber: 2.7 Consensus size: 46
61386444 AGTGTGCTCT
*
61386454 CTGATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
61386500 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * * *
61386546 ATGACA-GAAAATGAGTAAGACCATAGTTGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGA
61386576 TGTCAAAGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 68 0.99
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
Found at i:61389622 original size:28 final size:27
Alignment explanation
Indices: 61389581--61389641 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
61389571 TTTGTAATAA
61389581 TTAATATAATATAATAC-AATATATAAAC
1 TTAATATAATATAATACTAAT-TA-AAAC
61389609 TTAATAATAA-ATAATACTTAATTAAAAC
1 TTAAT-ATAATATAATAC-TAATTAAAAC
61389637 TTAAT
1 TTAAT
61389642 TTAAATTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
28 21 0.70
29 6 0.20
30 3 0.10
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (27 bp):
TTAATATAATATAATACTAATTAAAAC
Found at i:61389856 original size:15 final size:14
Alignment explanation
Indices: 61389800--61389857 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
61389790 TATAAATTGT
61389800 AATAAATATTTATT-
1 AATAAATA-TTATTC
*
61389814 ATTAAAATATTATT-
1 AAT-AAATATTATTC
*
61389828 -ATAAATATTTTTC
1 AATAAATATTATTC
61389841 AATAATATATTATTC
1 AATAA-ATATTATTC
61389856 AA
1 AA
61389858 AATTCAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 9 0.25
13 1 0.03
14 11 0.31
15 15 0.42
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
AATAAATATTATTC
Found at i:61389860 original size:27 final size:27
Alignment explanation
Indices: 61389801--61389854 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
61389791 ATAAATTGTA
*
61389801 ATAAATATTTATTATTAAAATATTATT
1 ATAAATATTTATTAATAAAATATTATT
*
61389828 ATAAATATTT-TTCAATAATATATTATT
1 ATAAATATTTATT-AATAAAATATTATT
61389855 CAAAATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
ATAAATATTTATTAATAAAATATTATT
Found at i:61389954 original size:21 final size:21
Alignment explanation
Indices: 61389903--61389967 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
61389893 ATAAAGTTGT
* *
61389903 AATATTAAATA-ATTTATTAA
1 AATAATAAATATATTAATTAA
*
61389923 AATAATAAAATATATTAATTAT
1 AATAAT-AAATATATTAATTAA
* *
61389945 ATTAATAAATATAAATAATTAA
1 AATAATAAATAT-ATTAATTAA
61389967 A
1 A
61389968 TATGCATGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 5 0.14
21 11 0.31
22 20 0.56
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAATAAATATATTAATTAA
Found at i:61397397 original size:44 final size:43
Alignment explanation
Indices: 61397349--61397465 Score: 112
Period size: 43 Copynumber: 2.7 Consensus size: 43
61397339 AAATATATAA
* * * *
61397349 AAATTTA-CAATATATAATATATAAATAAAAAAGTTAAAATTTAT
1 AAATTTATCAAAATAT-ATAAATAAAT-AAAAACTAAAAATTTAT
* *
61397393 AAATTTATGAAAATATATAAATATATAAAAACTAAAAATTTAT
1 AAATTTATCAAAATATATAAATAAATAAAAACTAAAAATTTAT
* * *
61397436 AAATTT-TGTAAAAAATATAAATATATAAAA
1 AAATTTAT-CAAAATATATAAATAAATAAAA
61397466 GAACAAAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
42 1 0.02
43 41 0.65
44 15 0.24
45 6 0.10
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (43 bp):
AAATTTATCAAAATATATAAATAAATAAAAACTAAAAATTTAT
Found at i:61397435 original size:43 final size:43
Alignment explanation
Indices: 61397364--61397465 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 43
61397354 TACAATATAT
* *
61397364 AATATAT-AA-ATA-AAAAAGTTAAAATTTATAAATTTATG-AA
1 AATATATAAATATATAAAAACTAAAAATTTATAAATTT-TGTAA
61397404 AATATATAAATATATAAAAACTAAAAATTTATAAATTTTGTAA
1 AATATATAAATATATAAAAACTAAAAATTTATAAATTTTGTAA
*
61397447 AAAATATAAATATATAAAA
1 AATATATAAATATATAAAA
61397466 GAACAAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
40 7 0.13
41 2 0.04
42 5 0.09
43 41 0.75
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (43 bp):
AATATATAAATATATAAAAACTAAAAATTTATAAATTTTGTAA
Found at i:61397463 original size:8 final size:8
Alignment explanation
Indices: 61397339--61397464 Score: 62
Period size: 8 Copynumber: 15.4 Consensus size: 8
61397329 TAATTTGAAA
61397339 AAATATAT
1 AAATATAT
* *
61397347 AAAAATTT
1 AAATATAT
61397355 ACAATATAT
1 A-AATATAT
61397364 -AATATAT
1 AAATATAT
*
61397371 AAATA-AA
1 AAATATAT
61397378 AAAGT-TA-
1 AAA-TATAT
*
61397385 AAATTTAT
1 AAATATAT
*
61397393 AAATTTAT
1 AAATATAT
61397401 GAAAATATAT
1 --AAATATAT
61397411 AAATATAT
1 AAATATAT
* *
61397419 AAAAACTAA
1 AAATA-TAT
*
61397428 AAATTTAT
1 AAATATAT
* *
61397436 AAATTTTGT
1 AAA-TATAT
*
61397445 AAAAAATAT
1 -AAATATAT
61397454 AAATATAT
1 AAATATAT
61397462 AAA
1 AAA
61397465 AGAACAAAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
6 1 0.01
7 16 0.18
8 48 0.53
9 16 0.18
10 10 0.11
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (8 bp):
AAATATAT
Found at i:61399985 original size:43 final size:43
Alignment explanation
Indices: 61399889--61400035 Score: 133
Period size: 43 Copynumber: 3.4 Consensus size: 43
61399879 ACGAGATCTG
* * *
61399889 ATTATGTGTAAGACCATGTTTGGGACATTGGCATCATTATGTG
1 ATTATATGTAAGACCATGTCTGGGACATTGGCATCATTATGTA
* *
61399932 ATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-TA
1 ATTATATGTAAGACCATGTCTGGGACATTGGCATCATT-ATGTA
* *
61399975 ATT-TCATGTAAGACCATAG-CT-GGACTATTGACATCGA-TATGTG
1 ATTAT-ATGTAAGACCAT-GTCTGGGAC-ATTGGCATC-ATTATGTA
* *
61400018 ATAACATGTAAGACCATG
1 ATTATATGTAAGACCATG
61400036 CTTGGGATAT
Statistics
Matches: 88, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
42 8 0.09
43 77 0.88
44 3 0.03
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (43 bp):
ATTATATGTAAGACCATGTCTGGGACATTGGCATCATTATGTA
Found at i:61402558 original size:23 final size:23
Alignment explanation
Indices: 61402476--61402562 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
61402466 CCTGATCAGT
*
61402476 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
61402498 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
61402518 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
61402541 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
61402563 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:61404033 original size:16 final size:17
Alignment explanation
Indices: 61403998--61404033 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
61403988 CCTAATTCTC
61403998 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
61404014 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
61404029 CCTTC
1 CCTTC
61404034 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:61410409 original size:23 final size:23
Alignment explanation
Indices: 61410327--61410413 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
61410317 CCTGATCAGT
*
61410327 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
61410349 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
61410369 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
61410392 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
61410414 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:61426692 original size:15 final size:15
Alignment explanation
Indices: 61426672--61426702 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
61426662 TTGGACTGTG
61426672 TATGGGCTCATAATA
1 TATGGGCTCATAATA
61426687 TATGGGCTCATAATA
1 TATGGGCTCATAATA
61426702 T
1 T
61426703 GTGATAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (15 bp):
TATGGGCTCATAATA
Found at i:61435711 original size:26 final size:26
Alignment explanation
Indices: 61435633--61435721 Score: 89
Period size: 26 Copynumber: 3.5 Consensus size: 26
61435623 TATATTTTTG
61435633 AAAATATAT-TTTTAATGAATTTATA
1 AAAATATATATTTTAATGAATTTATA
* ** *
61435658 AAAATATA-ACTTATAAAAAAATT-T-
1 AAAATATATA-TTTTAATGAATTTATA
61435682 AAAATATATATTTTAATGAATTTATA
1 AAAATATATATTTTAATGAATTTATA
61435708 AAAA-ATTATATTTT
1 AAAATA-TATATTTT
61435722 TATAATGTGG
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
24 17 0.34
25 12 0.24
26 21 0.42
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (26 bp):
AAAATATATATTTTAATGAATTTATA
Found at i:61439819 original size:45 final size:45
Alignment explanation
Indices: 61439721--61439836 Score: 142
Period size: 45 Copynumber: 2.6 Consensus size: 45
61439711 TATACACCGC
* * * * * *
61439721 ATTGTGGATAAACCACCAATAATTTGCAGATAAATTCCCAGTAAAA
1 ATTGTGGGTAAACCACC-ATTATTTTCAGACAAACTACCAGTAAAA
*
61439767 ATTGTGGGTAAACCACCATTATTTTCAGACAAACTACTAGTAAAA
1 ATTGTGGGTAAACCACCATTATTTTCAGACAAACTACCAGTAAAA
* *
61439812 ATTGTGGGTAAATCATCATTATTTT
1 ATTGTGGGTAAACCACCATTATTTT
61439837 TAGATAAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 45 0.74
46 16 0.26
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (45 bp):
ATTGTGGGTAAACCACCATTATTTTCAGACAAACTACCAGTAAAA
Found at i:61443402 original size:3 final size:3
Alignment explanation
Indices: 61443394--61443422 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
61443384 GGGAAAAATG
61443394 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
61443423 TAAATTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:61443710 original size:3 final size:3
Alignment explanation
Indices: 61443702--61443730 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
61443692 TAGTATATAG
61443702 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
61443731 CACTCTCCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:61444136 original size:13 final size:13
Alignment explanation
Indices: 61444118--61444143 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61444108 AGTGATGGAG
61444118 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
61444131 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
61444144 ATTTGGGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.54, T:0.38
Consensus pattern (13 bp):
TTAGTGGGGTGGT
Found at i:61445143 original size:24 final size:24
Alignment explanation
Indices: 61445116--61445172 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
61445106 TGTTTGTAAT
**
61445116 TGTATCTGAATCAGTGTTTGCATC
1 TGTATCTGAATCAGTGTCAGCATC
* * **
61445140 TGTATCCGCATTTGTGTCAGCATC
1 TGTATCTGAATCAGTGTCAGCATC
61445164 TGTATCTGA
1 TGTATCTGA
61445173 GTTTGTATCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (24 bp):
TGTATCTGAATCAGTGTCAGCATC
Found at i:61445177 original size:24 final size:25
Alignment explanation
Indices: 61445135--61445191 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
61445125 ATCAGTGTTT
*
61445135 GCATCTGTATCCGCATTTGTGTC-A
1 GCATCTGTATCCGCATTTGTATCTA
*
61445159 GCATCTGTATCTG-AGTTTGTATCTA
1 GCATCTGTATCCGCA-TTTGTATCTA
61445184 -CATCTGTA
1 GCATCTGTA
61445192 ACTAAATCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 1 0.03
24 27 0.93
25 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (25 bp):
GCATCTGTATCCGCATTTGTATCTA
Found at i:61445191 original size:12 final size:12
Alignment explanation
Indices: 61445176--61445218 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
61445166 TATCTGAGTT
61445176 TGTATCTACATC
1 TGTATCTACATC
* *
61445188 TGTAACTAAATC
1 TGTATCTACATC
*
61445200 TGTATCTACATT
1 TGTATCTACATC
61445212 TGTATCT
1 TGTATCT
61445219 GCCTTTGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (12 bp):
TGTATCTACATC
Found at i:61445214 original size:36 final size:36
Alignment explanation
Indices: 61445161--61445255 Score: 95
Period size: 36 Copynumber: 2.6 Consensus size: 36
61445151 TTGTGTCAGC
* *
61445161 ATCTGTATCTGA-GTTTGTATCTACATCTGTAACTAA
1 ATCTGTATCT-ACATTTGTATCTACATCTGGAACTAA
* * *
61445197 ATCTGTATCTACATTTGTATCTGCCTTTGGAACTAA
1 ATCTGTATCTACATTTGTATCTACATCTGGAACTAA
* *
61445233 ATCTATA-CTTGCATTTGTATCTA
1 ATCTGTATC-TACATTTGTATCTA
61445256 TTTTGTTTGT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
35 2 0.04
36 47 0.96
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (36 bp):
ATCTGTATCTACATTTGTATCTACATCTGGAACTAA
Found at i:61449456 original size:25 final size:25
Alignment explanation
Indices: 61449410--61449457 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
61449400 TTTATGGAAT
* *
61449410 TTATTTTGAATGAGAAATTGTATTC
1 TTATTATGAATGAGAAAGTGTATTC
61449435 TTATTATGAATTGA-AAAGTGTAT
1 TTATTATGAA-TGAGAAAGTGTAT
61449458 GTATAGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (25 bp):
TTATTATGAATGAGAAAGTGTATTC
Found at i:61463138 original size:8 final size:8
Alignment explanation
Indices: 61463125--61463151 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
61463115 TGCATTGGCA
61463125 ATTTTATT
1 ATTTTATT
61463133 ATTTTATT
1 ATTTTATT
61463141 ATTTTATT
1 ATTTTATT
61463149 ATT
1 ATT
61463152 AGTTCAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTATT
Found at i:61465775 original size:21 final size:20
Alignment explanation
Indices: 61465749--61465833 Score: 88
Period size: 21 Copynumber: 4.3 Consensus size: 20
61465739 ATATTATTAT
61465749 TTTAATAGATTTAATATTAAA
1 TTTAATA-ATTTAATATTAAA
61465770 -TT--TAATTTAATATTAAA
1 TTTAATAATTTAATATTAAA
* * *
61465787 -GTGATTATCTTAATATTAAA
1 TTTAATAAT-TTAATATTAAA
61465807 TTTAATTAATTTAATATTAAA
1 TTTAA-TAATTTAATATTAAA
61465828 TTTAAT
1 TTTAAT
61465834 CTAATATTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
17 14 0.26
18 2 0.04
19 3 0.06
20 14 0.26
21 18 0.33
22 3 0.06
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTAATAATTTAATATTAAA
Found at i:61465777 original size:17 final size:19
Alignment explanation
Indices: 61465757--61465841 Score: 81
Period size: 17 Copynumber: 4.5 Consensus size: 19
61465747 ATTTTAATAG
61465757 ATTTAATATTAAA-T-TTA
1 ATTTAATATTAAATTATTA
*
61465774 ATTTAATATTAAAGTGATT-
1 ATTTAATATTAAA-TTATTA
61465793 ATCTTAATATTAAATTTAATTA
1 AT-TTAATATTAAA-TT-ATTA
61465815 ATTTAATATTAAA-T-TTA
1 ATTTAATATTAAATTATTA
*
61465832 ATCTAATATT
1 ATTTAATATT
61465842 TATCTTGATA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
17 25 0.43
19 3 0.05
20 14 0.24
21 14 0.24
22 2 0.03
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTAATATTAAATTATTA
Found at i:61467261 original size:30 final size:31
Alignment explanation
Indices: 61467210--61467267 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
61467200 AACAGCTTAA
61467210 TGACTTAAATAAAACATTTTGAATAGTTTGG
1 TGACTTAAATAAAACATTTTGAATAGTTTGG
61467241 TGACTTAAATAAAA-ATTTTGAATAGTT
1 TGACTTAAATAAAACATTTTGAATAGTT
61467268 CGGTTACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.40
Consensus pattern (31 bp):
TGACTTAAATAAAACATTTTGAATAGTTTGG
Found at i:61473520 original size:29 final size:31
Alignment explanation
Indices: 61473477--61473540 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
61473467 TAATAATAAT
*
61473477 AAAATTTTATATTAACTCTTTAAAAA-TATA
1 AAAATTTGATATTAACTCTTTAAAAATTATA
*
61473507 AAAATTTGAT-TTAACTTTTTAAAAATTATA
1 AAAATTTGATATTAACTCTTTAAAAATTATA
61473537 AAAA
1 AAAA
61473541 CATAAACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 14 0.45
30 17 0.55
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (31 bp):
AAAATTTGATATTAACTCTTTAAAAATTATA
Found at i:61476044 original size:17 final size:16
Alignment explanation
Indices: 61476017--61476050 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
61476007 TTCTTTAAGC
61476017 TTAATGCATTAATTGT
1 TTAATGCATTAATTGT
61476033 TTAATAGCATTAATTGT
1 TTAAT-GCATTAATTGT
61476050 T
1 T
61476051 ATAGAGAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (16 bp):
TTAATGCATTAATTGT
Found at i:61490313 original size:21 final size:21
Alignment explanation
Indices: 61490287--61490329 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
61490277 TATAGTTGAA
61490287 ATTCATTAGGCAGAGAGGCTT
1 ATTCATTAGGCAGAGAGGCTT
61490308 ATTCATTAGGCAGAGAGGCTT
1 ATTCATTAGGCAGAGAGGCTT
61490329 A
1 A
61490330 CTTTTGCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (21 bp):
ATTCATTAGGCAGAGAGGCTT
Found at i:61493855 original size:15 final size:15
Alignment explanation
Indices: 61493837--61493897 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
61493827 AAAATATAAT
61493837 AATAAATTATATTTA
1 AATAAATTATATTTA
* *
61493852 AATAATTTA-ATGTAA
1 AATAAATTATAT-TTA
*
61493867 CAATACATTATATTTA
1 -AATAAATTATATTTA
*
61493883 AATAATTTAATATTT
1 AATAAATT-ATATTT
61493898 GTTGGAACTC
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
14 2 0.06
15 16 0.46
16 15 0.43
17 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (15 bp):
AATAAATTATATTTA
Found at i:61499522 original size:2 final size:2
Alignment explanation
Indices: 61499515--61499545 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
61499505 TTAGTAGAAA
*
61499515 TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
61499546 AAAGCAAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:61502436 original size:16 final size:16
Alignment explanation
Indices: 61502405--61502438 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
61502395 ATGTGAATAA
61502405 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
61502421 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
61502437 TA
1 TA
61502439 CTAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:61502493 original size:22 final size:22
Alignment explanation
Indices: 61502449--61502508 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
61502439 CTAAAATAAA
*
61502449 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
61502469 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
* * *
61502491 ATTATATTAATAATTTAT
1 ATTAAAATAATAAATTAT
61502509 TATATGAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.38
21 2 0.06
22 19 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:61502508 original size:16 final size:16
Alignment explanation
Indices: 61502487--61502519 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
61502477 AATAAATTAT
*
61502487 ATTTATTATATTAATA
1 ATTTATTATATGAATA
61502503 ATTTATTATATGAATA
1 ATTTATTATATGAATA
61502519 A
1 A
61502520 ATATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
ATTTATTATATGAATA
Found at i:61505154 original size:15 final size:15
Alignment explanation
Indices: 61505116--61505213 Score: 55
Period size: 15 Copynumber: 6.5 Consensus size: 15
61505106 ATTTAGCTAC
61505116 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
*
61505133 TTATATTTTTATTTA
1 TTATATTTCTATTTA
*
61505148 TTGTATTTCTATTCCTA
1 TTATATTTCTATT--TA
*
61505165 TT-TATTTACTA-ATA
1 TTATATTT-CTATTTA
61505179 TTAT-TTTC-A-TTA
1 TTATATTTCTATTTA
* *
61505191 TTATTTTTCT-TATA
1 TTATATTTCTATTTA
61505205 TATATATTT
1 T-TATATTT
61505214 TTACTCTTGT
Statistics
Matches: 66, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
12 7 0.11
13 5 0.08
14 10 0.15
15 21 0.32
16 6 0.09
17 17 0.26
ACGTcount: A:0.27, C:0.08, G:0.01, T:0.64
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:61506124 original size:19 final size:19
Alignment explanation
Indices: 61506102--61506174 Score: 51
Period size: 19 Copynumber: 3.6 Consensus size: 19
61506092 TAATAATAAT
61506102 ATAAAATAATAATATGTAC
1 ATAAAATAATAATATGTAC
*
61506121 ATAAAAATACATATATATATGTGC
1 AT-AAAAT--A-ATA-ATATGTAC
*
61506145 ATATAATAA-AAGTATGTA-
1 ATAAAATAATAA-TATGTAC
61506163 ATAATAATAATA
1 ATAA-AATAATA
61506175 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 4, Indels: 15
0.69 0.07 0.25
Matches are distributed among these distances:
18 4 0.10
19 13 0.31
20 7 0.17
21 1 0.02
22 1 0.02
23 7 0.17
24 9 0.21
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (19 bp):
ATAAAATAATAATATGTAC
Found at i:61506468 original size:18 final size:18
Alignment explanation
Indices: 61506445--61506498 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
61506435 ACAAGTGGTG
61506445 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
61506463 GTGGAG-TAG-GT-G---
1 GTGGAGCAAGTGTGGCTA
61506475 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
61506493 GTGGAG
1 GTGGAG
61506499 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:61506477 original size:30 final size:30
Alignment explanation
Indices: 61506441--61506508 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
61506431 AGGTACAAGT
61506441 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
61506471 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
61506501 GGTGGTGG
1 GGTGGTGG
61506509 CAAAGGCAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.16, C:0.06, G:0.53, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:61507248 original size:88 final size:87
Alignment explanation
Indices: 61507144--61507613 Score: 261
Period size: 87 Copynumber: 5.2 Consensus size: 87
61507134 TCCTGAGATT
* *
61507144 AACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAAACA-TT-AAAAACAGAAATTGAAAA
1 AACTCACTTCTCGCAATATGAATT-AATCTTTAAAAC-AAA-ATTTGAAAAACAGAAATTGAAAA
* *
61507207 TAGCTCAGCACGTGAGCCAAGGCTC
63 TACCTCAGCACGTGACCCAAGGCTC
* * * **
61507232 AACTCACTTCTCGCAATATGAGTTAATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
1 AACTCACTTCTCGCAATATGAATTAATCTTTAAAACAAAATTTGAAAAACAGAAATTGAAAATAC
* * *
61507297 CTCAGTATGTGACCCGAGGCTC
66 CTCAGCACGTGACCCAAGGCTC
* * * * * * *
61507319 AACTCACCTCTCGTAATAT-AAGTTGATTTTTGCAAAGCATAAA-TTGAAAAAAAAAATCAATTG
1 AACTCACTTCTCGCAATATGAA-TTAATCTTT--AAAACA-AAATTTG-AAAAACAGA--AATTG
* *** * **
61507382 AAAATACCTCGGTGTGTGATCTGAGGCTC
59 AAAATACCTCAGCACGTGACCCAAGGCTC
* * * * * * *
61507411 AACTTACCTCTCGCAACATGAGTTGATTTTTTTGACAAACATAAA-TTGAAAAAAAAAGAAATTG
1 AACTCACTTCTCGCAATATGAATT-A-ATCTTT-A-AAACA-AAATTTG--AAAAACAGAAATTG
* * *** *
61507475 AAAATATCTCAG--CGTGTCTTGAGGCTG
59 AAAATACCTCAGCACGTGACCCAAGGCTC
* * * *
61507502 AACTCACCTCTCGCAATATGAGTTAATTTTTTGGAAAAACAAAATTTGAAAAACAGAATTTGAAA
1 AACTCACTTCTCGCAATATGAATTAA-TCTTT---AAAACAAAATTTGAAAAACAGAAATTGAAA
** **
61507567 ATACCTCAGCGTGTGAGTCAAGGCTC
62 ATACCTCAGCACGTGACCCAAGGCTC
**
61507593 AACTCACCACTCGCAATATGA
1 AACTCACTTCTCGCAATATGA
61507614 GCTGATTTTT
Statistics
Matches: 306, Mismatches: 56, Indels: 37
0.77 0.14 0.09
Matches are distributed among these distances:
85 1 0.00
86 6 0.02
87 70 0.23
88 22 0.07
89 31 0.10
90 18 0.06
91 69 0.23
92 47 0.15
93 17 0.06
94 16 0.05
95 9 0.03
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (87 bp):
AACTCACTTCTCGCAATATGAATTAATCTTTAAAACAAAATTTGAAAAACAGAAATTGAAAATAC
CTCAGCACGTGACCCAAGGCTC
Found at i:61507412 original size:92 final size:91
Alignment explanation
Indices: 61507198--61507712 Score: 384
Period size: 91 Copynumber: 5.7 Consensus size: 91
61507188 TAAAAACAGA
* ** * ** * *
61507198 AATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTT-AATTTT
1 AATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * *
61507262 T-AAAACA-AAATTTG-TAAAACAGAT
66 TGCAAACATAAA-TTGAAAAAAAAAAT
* ** * * * *
61507286 -TTTGAAAATACCTCAGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATAAGTTGA-TTTT
1 AATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
61507349 TGCAAAGCATAAATTGAAAAAAAAAAT
66 TGCAAA-CATAAATTGAAAAAAAAAAT
* * * *
61507376 CAATTGAAAATACCTCGGTGTGTGATCTGAGGCTCAACTTACCTCTCGCAACATGAGTTGATTTT
1 -AATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
61507441 TTTGACAAACATAAATTGAAAAAAAAAGA-
64 TTTG-CAAACATAAATTGAAAAAAAAA-AT
* * * *
61507470 AATTGAAAATATCTCAGCGTGT-CT-TGAGGCTGAACTCACCTCTCGCAATATGAGTTAATTTTT
1 AATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
61507533 TGGAAAAACA-AAATTTGAAAAACAGAAT
66 T-G-CAAACATAAA-TTGAAAAAAAAAAT
* * *
61507561 --TTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGATTTT
1 AATTGAAAATACCTCAGCGTGTGA-TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
** * * * *
61507623 TTTTAAAAAACAGAAATTG-AAGAACAGA-
63 TTTT-GCAAACATAAATTGAAAAAAAAAAT
* * * * *
61507651 AATGGAAAACACCTCAGC--GT-CT-TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
61507712 T
66 T
61507713 TTGAAAGACA
Statistics
Matches: 351, Mismatches: 53, Indels: 48
0.78 0.12 0.11
Matches are distributed among these distances:
86 6 0.02
87 53 0.15
88 35 0.10
89 24 0.07
90 22 0.06
91 80 0.23
92 74 0.21
93 28 0.08
94 24 0.07
95 5 0.01
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (91 bp):
AATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TGCAAACATAAATTGAAAAAAAAAAT
Found at i:61507517 original size:91 final size:92
Alignment explanation
Indices: 61507189--61507733 Score: 437
Period size: 92 Copynumber: 6.0 Consensus size: 92
61507179 ACTAAACATT
* * * ** *
61507189 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGC-CAAGGCTCAACTCACTTCTCGCAATATGA
1 AAAAAAAGAAATTGAAAATACCTCAG--CGTGTGCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
61507253 GTT-A-ATTTTT--AAAACA-AAATTTG--
64 GTTGATTTTTTTGAAAAACAGAAA-TTGAA
* * ** ** ** * *
61507276 TAAAACAGATTTTGAAAATACCTCAGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATAAG
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTG-CTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
61507341 TTGA--TTTTTGCAAAGCATAAATTGAA
65 TTGATTTTTTTGAAAAACAGAAATTGAA
* * * * *
61507367 AAAAAAA-ATCAATTGAAAATACCTCGGTGTGTGATCTGAGGCTCAACTTACCTCTCGCAACATG
1 AAAAAAAGA--AATTGAAAATACCTCAGCGTGTGCT-TGAGGCTCAACTCACCTCTCGCAATATG
* *
61507431 AGTTGATTTTTTTGACAAACATAAATTGAA
63 AGTTGATTTTTTTGAAAAACAGAAATTGAA
* *
61507461 AAAAAAAGAAATTGAAAATATCTCAGCGTGT-CTTGAGGCTGAACTCACCTCTCGCAATATGAGT
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
61507525 TAATTTTTTGGAAAAACA-AAATTTG--
66 TGATTTTTTTGAAAAACAGAAA-TTGAA
* * * ** *
61507550 AAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTG-CTTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
61507615 CTGATTTTTTTTAAAAAACAGAAATTG--
65 TTGA-TTTTTTTGAAAAACAGAAATTGAA
* * * * * *
61507642 AAGAACAGAAATGGAAAACACCTCAGC--GT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGC
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
61507704 TGATTTTTTTTGAAAGACAGAAATTGAA
66 TGA-TTTTTTTGAAAAACAGAAATTGAA
61507732 AA
1 AA
61507734 TACCTCAACG
Statistics
Matches: 376, Mismatches: 61, Indels: 39
0.79 0.13 0.08
Matches are distributed among these distances:
85 3 0.01
86 1 0.00
87 55 0.15
88 53 0.14
89 36 0.10
90 11 0.03
91 80 0.21
92 88 0.23
93 22 0.06
94 26 0.07
95 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (92 bp):
AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGAAAAACAGAAATTGAA
Found at i:61507567 original size:13 final size:14
Alignment explanation
Indices: 61507535--61507567 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
61507525 TAATTTTTTG
61507535 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
61507549 GAAAAACAGAATTT
1 GAAAAACAAAATTT
61507563 GAAAA
1 GAAAA
61507568 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Done.