Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 283 of 295
Found at i:96320538 original size:31 final size:31
Alignment explanation
Indices: 96320503--96320561 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
96320493 CAAAATGGAC
*
96320503 ACTGAACTATTCGGAAGTTTTCATTTAATTT
1 ACTGAACTATTCGAAAGTTTTCATTTAATTT
* *
96320534 ACTGAACTATTTGAAAGTTTTTATTTAA
1 ACTGAACTATTCGAAAGTTTTCATTTAA
96320562 ACCATAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (31 bp):
ACTGAACTATTCGAAAGTTTTCATTTAATTT
Found at i:96324128 original size:2 final size:2
Alignment explanation
Indices: 96324121--96324146 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
96324111 AACACAAGAA
96324121 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
96324147 TATGAATGTG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96326313 original size:29 final size:30
Alignment explanation
Indices: 96326281--96326347 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
96326271 ATACCCTTAT
96326281 TTATATT-AACTATTTAATATC-ATTTATCA
1 TTATATTAAACTATTTAA-ATCTATTTATCA
* *
96326310 TTATATTAAATTATTTAAATCTTATTTATTA
1 TTATATTAAACTATTTAAATC-TATTTATCA
96326341 TTATATT
1 TTATATT
96326348 TGATTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 10 0.30
30 9 0.27
31 14 0.42
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (30 bp):
TTATATTAAACTATTTAAATCTATTTATCA
Found at i:96331869 original size:17 final size:19
Alignment explanation
Indices: 96331843--96331887 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
96331833 ATTTATAAAA
96331843 TTTTAATTTC-AATTAT-T
1 TTTTAATTTCAAATTATGT
*
96331860 TTTTATTTTCAAATTATGTT
1 TTTTAATTTCAAATTATG-T
96331880 TTTTAATT
1 TTTTAATT
96331888 AAAAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 9 0.39
18 6 0.26
20 8 0.35
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTAATTTCAAATTATGT
Found at i:96332651 original size:20 final size:18
Alignment explanation
Indices: 96332618--96332654 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
96332608 AGTATTGGTT
96332618 AAAATAATATTTATTAAA
1 AAAATAATATTTATTAAA
96332636 AAAATAATTAATTTATTAA
1 AAAATAA-T-ATTTATTAA
96332655 TGAATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATAATATTTATTAAA
Found at i:96333286 original size:28 final size:27
Alignment explanation
Indices: 96333246--96333300 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 27
96333236 AATATATATA
96333246 ACGAATAAAAAATTAAAATTATTAAAAT
1 ACGAATAAAAAATTAAAATT-TTAAAAT
96333274 ACGAATAAAAAATTAAAATTTTAAAAT
1 ACGAATAAAAAATTAAAATTTTAAAAT
96333301 TCAAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (27 bp):
ACGAATAAAAAATTAAAATTTTAAAAT
Found at i:96334541 original size:13 final size:15
Alignment explanation
Indices: 96334512--96334544 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
96334502 TGTAGAGCAA
96334512 ATAAATATTTAATAT
1 ATAAATATTTAATAT
96334527 ATAAATA-TT-ATAT
1 ATAAATATTTAATAT
96334540 ATAAA
1 ATAAA
96334545 AATAATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 2 0.11
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATATTTAATAT
Found at i:96343240 original size:17 final size:17
Alignment explanation
Indices: 96343218--96343257 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
96343208 ACCAAAATTT
96343218 GGTGGTTCTAACTGTCC
1 GGTGGTTCTAACTGTCC
96343235 GGTGGTTCTAACTGTCC
1 GGTGGTTCTAACTGTCC
*
96343252 AGTGGT
1 GGTGGT
96343258 AATTTCCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.12, C:0.20, G:0.33, T:0.35
Consensus pattern (17 bp):
GGTGGTTCTAACTGTCC
Found at i:96350006 original size:22 final size:22
Alignment explanation
Indices: 96349957--96350017 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
96349947 ATATCCAAAC
* *
96349957 AATAACAACAAAATAGTAGCAA
1 AATAATAACAAAATAATAGCAA
**
96349979 TGTAATAACAAAATAATAGCAA
1 AATAATAACAAAATAATAGCAA
*
96350001 AATAATAATAAAA-AATA
1 AATAATAACAAAATAATA
96350018 ATAACATTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 4 0.12
22 28 0.88
ACGTcount: A:0.66, C:0.08, G:0.07, T:0.20
Consensus pattern (22 bp):
AATAATAACAAAATAATAGCAA
Found at i:96351397 original size:33 final size:33
Alignment explanation
Indices: 96351349--96351424 Score: 116
Period size: 33 Copynumber: 2.3 Consensus size: 33
96351339 CGTATGGGCC
* **
96351349 CACACGGCCTGAATTGGCCTTGGCTGTGTGGAT
1 CACACGGCCTAAATTGGCCTTGGCCATGTGGAT
*
96351382 CACATGGCCTAAATTGGCCTTGGCCATGTGGAT
1 CACACGGCCTAAATTGGCCTTGGCCATGTGGAT
96351415 CACACGGCCT
1 CACACGGCCT
96351425 GGCCCAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.18, C:0.28, G:0.29, T:0.25
Consensus pattern (33 bp):
CACACGGCCTAAATTGGCCTTGGCCATGTGGAT
Found at i:96353012 original size:26 final size:27
Alignment explanation
Indices: 96352993--96353050 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
96352983 ATATACAAAG
96352993 ATTTAAAATAAATCACATATGAAAAAA
1 ATTTAAAATAAATCACATATGAAAAAA
*
96353020 AATTAAAATAAAT-A-ATATGTAAAAATA
1 ATTTAAAATAAATCACATATG-AAAAA-A
96353047 ATTT
1 ATTT
96353051 TGAAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 5 0.19
26 6 0.22
27 16 0.59
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (27 bp):
ATTTAAAATAAATCACATATGAAAAAA
Found at i:96353028 original size:27 final size:26
Alignment explanation
Indices: 96352995--96353070 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 26
96352985 ATACAAAGAT
96352995 TTAAAATAAATCACATATG-AAAAAAAA
1 TTAAAATAAAT-A-ATATGTAAAAAAAA
*
96353022 TTAAAATAAATAATATGTAAAAATAATT
1 TTAAAATAAATAATATGTAAAAA-AA-A
*
96353050 TTGAAAATATATAATATGTAA
1 TT-AAAATAAATAATATGTAA
96353071 GAAGTATGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 5 0.12
26 6 0.14
27 13 0.30
28 2 0.05
29 17 0.40
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (26 bp):
TTAAAATAAATAATATGTAAAAAAAA
Found at i:96353480 original size:3 final size:3
Alignment explanation
Indices: 96353472--96353507 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
96353462 AAATAGTGAC
96353472 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
96353508 GTAACATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:96353755 original size:18 final size:18
Alignment explanation
Indices: 96353742--96353775 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96353732 GTGATAAAAT
96353742 AAGAATGACAGATAATAA
1 AAGAATGACAGATAATAA
*
96353760 AATAATGACA-ATAATA
1 AAGAATGACAGATAATA
96353776 GAAGTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (18 bp):
AAGAATGACAGATAATAA
Found at i:96358647 original size:492 final size:492
Alignment explanation
Indices: 96357723--96358709 Score: 1893
Period size: 492 Copynumber: 2.0 Consensus size: 492
96357713 AAACTGGATA
96357723 GCTAACAAGATCATTGGAAGAATTGTAGCAGGCACTACATATGGGCGTTCCTCCAAGAACATTAA
1 GCTAACAAGATCATTGGAAGAATTGTAGCAGGCACTACATATGGGCGTTCCTCCAAGAACATTAA
*
96357788 GCATCTTGTAGTGGGAATCAACATTACATGTGCGGTAACCATGTAATCCAATCCTATGACAACAT
66 GCATCTTGTAGTGGGAATCAACATTACATGTACGGTAACCATGTAATCCAATCCTATGACAACAT
96357853 CAAAATCATCCATAAGAGAAATTGTGAAGTTCACGCCTCATTCCCATTGCTCCAATTTCATTATC
131 CAAAATCATCCATAAGAGAAATTGTGAAGTTCACGCCTCATTCCCATTGCTCCAATTTCATTATC
96357918 AGATGCTCAGAGCTTCTATAAATCGCTAAATCAAGAGAGTAAACTGCTTTTATTTGCCCAAAGTC
196 AGATGCTCAGAGCTTCTATAAATCGCTAAATCAAGAGAGTAAACTGCTTTTATTTGCCCAAAGTC
*
96357983 TTTGGTGACCTTCAACTTATATCTTTTTTCCTGATCAAACGTAATAAAACTATCGGTTACACCTG
261 TTTGGTGACCTTCAACCTATATCTTTTTTCCTGATCAAACGTAATAAAACTATCGGTTACACCTG
96358048 TATCCACCATGGCTTTTGTTGCTTTACCATTCAATATCATATCTACAAACATGAGGCCCCTGCCT
326 TATCCACCATGGCTTTTGTTGCTTTACCATTCAATATCATATCTACAAACATGAGGCCCCTGCCT
* *
96358113 AGTTTCTTCTTTAACTTCTCCAATTATGAATGCAAGGTATTGAGGAATTGTATCGAGCCCATTCT
391 AGTTCCTTCTTTAACTTCCCCAATTATGAATGCAAGGTATTGAGGAATTGTATCGAGCCCATTCT
96358178 AGTCAACTTAAGCTTATTATCATCATTTGATTGATTT
456 AGTCAACTTAAGCTTATTATCATCATTTGATTGATTT
96358215 GCTAACAAGATCATTGGAAGAATTGTAGCAGGCACTACATATGGGCGTTCCTCCAAGAACATTAA
1 GCTAACAAGATCATTGGAAGAATTGTAGCAGGCACTACATATGGGCGTTCCTCCAAGAACATTAA
*
96358280 GCATCTTGTAGTGGGAATCGACATTACATGTACGGTAACCATGTAATCCAATCCTATGACAACAT
66 GCATCTTGTAGTGGGAATCAACATTACATGTACGGTAACCATGTAATCCAATCCTATGACAACAT
*
96358345 CAAAATCATCCATAAGAGAAATTGTGAAGTTCACGCTTCATTCCCATTGCTCCAATTTCATTATC
131 CAAAATCATCCATAAGAGAAATTGTGAAGTTCACGCCTCATTCCCATTGCTCCAATTTCATTATC
96358410 AGATGCTCAGAGCTTCTATAAATCGCTAAATCAAGAGAGTAAACTGCTTTTATTTGCCCAAAGTC
196 AGATGCTCAGAGCTTCTATAAATCGCTAAATCAAGAGAGTAAACTGCTTTTATTTGCCCAAAGTC
*
96358475 TTTGGTGACCTTCAACCTATATCTTTTTTCCTGATCAAACGTAATAAAACTATCGGTTACACTTG
261 TTTGGTGACCTTCAACCTATATCTTTTTTCCTGATCAAACGTAATAAAACTATCGGTTACACCTG
* *
96358540 TATCCACCATGGCTTTTGTTGCTTTACCATTTAATATCATATCTACAAACATGAGGCCCTTGCCT
326 TATCCACCATGGCTTTTGTTGCTTTACCATTCAATATCATATCTACAAACATGAGGCCCCTGCCT
96358605 AGTTCCTTCTTTAACTTCCCCAATTATGAATGCAAGGTATTGAGGAATTGTATCGAGCCCATTCT
391 AGTTCCTTCTTTAACTTCCCCAATTATGAATGCAAGGTATTGAGGAATTGTATCGAGCCCATTCT
96358670 AGTCAACTTAAGCTTATTATCATCATTTGATTGATTT
456 AGTCAACTTAAGCTTATTATCATCATTTGATTGATTT
96358707 GCT
1 GCT
96358710 TAACTCCTAT
Statistics
Matches: 486, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
492 486 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (492 bp):
GCTAACAAGATCATTGGAAGAATTGTAGCAGGCACTACATATGGGCGTTCCTCCAAGAACATTAA
GCATCTTGTAGTGGGAATCAACATTACATGTACGGTAACCATGTAATCCAATCCTATGACAACAT
CAAAATCATCCATAAGAGAAATTGTGAAGTTCACGCCTCATTCCCATTGCTCCAATTTCATTATC
AGATGCTCAGAGCTTCTATAAATCGCTAAATCAAGAGAGTAAACTGCTTTTATTTGCCCAAAGTC
TTTGGTGACCTTCAACCTATATCTTTTTTCCTGATCAAACGTAATAAAACTATCGGTTACACCTG
TATCCACCATGGCTTTTGTTGCTTTACCATTCAATATCATATCTACAAACATGAGGCCCCTGCCT
AGTTCCTTCTTTAACTTCCCCAATTATGAATGCAAGGTATTGAGGAATTGTATCGAGCCCATTCT
AGTCAACTTAAGCTTATTATCATCATTTGATTGATTT
Found at i:96363133 original size:28 final size:28
Alignment explanation
Indices: 96363102--96363163 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
96363092 TAATTTTTCG
* *
96363102 AAAATTCAATATATTTTCGTAATTTTAA
1 AAAATGCAATATATTTCCGTAATTTTAA
**
96363130 AAAATGGTATATATTTCCGTAATTTTAA
1 AAAATGCAATATATTTCCGTAATTTTAA
96363158 AAAATG
1 AAAATG
96363164 GTTTTATTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (28 bp):
AAAATGCAATATATTTCCGTAATTTTAA
Found at i:96363172 original size:27 final size:28
Alignment explanation
Indices: 96363110--96363165 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
96363100 CGAAAATTCA
*
96363110 ATATATTTTCGTAATTTTAAAAAATGGT
1 ATATATTTCCGTAATTTTAAAAAATGGT
96363138 ATATATTTCCGTAATTTTAAAAAATGGT
1 ATATATTTCCGTAATTTTAAAAAATGGT
96363166 TTTATTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (28 bp):
ATATATTTCCGTAATTTTAAAAAATGGT
Found at i:96363685 original size:15 final size:15
Alignment explanation
Indices: 96363665--96363698 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
96363655 TTGTTTTTCT
96363665 ATTTATTTCAATGGG
1 ATTTATTTCAATGGG
96363680 ATTTATTTCAATGGG
1 ATTTATTTCAATGGG
96363695 ATTT
1 ATTT
96363699 TGTTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.18, T:0.50
Consensus pattern (15 bp):
ATTTATTTCAATGGG
Found at i:96365923 original size:5 final size:5
Alignment explanation
Indices: 96365915--96365939 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
96365905 TTATATTTAG
96365915 TAATT TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT TAATT
96365940 ATTTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:96373869 original size:42 final size:42
Alignment explanation
Indices: 96373810--96373893 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
96373800 TTGTAAAGTA
96373810 GGAGAATTAAATTTTGACAAAATAAAATAGAGGGACTAATTT
1 GGAGAATTAAATTTTGACAAAATAAAATAGAGGGACTAATTT
96373852 GGAGAATTAAATTTTGACAAAATAAAATAGAGGGACTAATTT
1 GGAGAATTAAATTTTGACAAAATAAAATAGAGGGACTAATTT
96373894 CTTAGTTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.29
Consensus pattern (42 bp):
GGAGAATTAAATTTTGACAAAATAAAATAGAGGGACTAATTT
Found at i:96382765 original size:13 final size:13
Alignment explanation
Indices: 96382717--96382767 Score: 54
Period size: 12 Copynumber: 4.1 Consensus size: 13
96382707 ATTTAATTGG
96382717 ATTAAATTATTT-
1 ATTAAATTATTTA
*
96382729 -TTAAAATTTTTTA
1 ATT-AAATTATTTA
*
96382742 A-TAATTTATTTA
1 ATTAAATTATTTA
96382754 ATTAAATTATTTA
1 ATTAAATTATTTA
96382767 A
1 A
96382768 ATCGATGAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
11 2 0.06
12 17 0.55
13 12 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATTAAATTATTTA
Found at i:96385169 original size:17 final size:18
Alignment explanation
Indices: 96385129--96385169 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
96385119 TTTCAATAAA
96385129 TAAA-AAATATATAAAAT
1 TAAATAAATATATAAAAT
*
96385146 T-ATTAAATAT-TAAAAT
1 TAAATAAATATATAAAAT
96385162 TAAATAAA
1 TAAATAAA
96385170 ATAAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAATAAATATATAAAAT
Found at i:96390337 original size:26 final size:26
Alignment explanation
Indices: 96390284--96390337 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
96390274 AATGTTTAAA
*
96390284 TTTTTTATCACTTTAATTTTAATCTT
1 TTTTTTATCACTTTAATATTAATCTT
* *
96390310 TTTTTTATCATTTTAGTCATTAAT-TT
1 TTTTTTATCACTTTAAT-ATTAATCTT
96390336 TT
1 TT
96390338 AAGTTTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTTTATCACTTTAATATTAATCTT
Found at i:96391222 original size:26 final size:27
Alignment explanation
Indices: 96391193--96391248 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
96391183 TTTCCATATG
* *
96391193 ACCAATTCTTGTA-AA-CATTTCATACA
1 ACCAATT-TTGTATAACCAATTCATAAA
96391219 ACC-ATTTTGTATAACCAATTCATAAA
1 ACCAATTTTGTATAACCAATTCATAAA
96391245 ACCA
1 ACCA
96391249 TTCATCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 5 0.20
25 5 0.20
26 15 0.60
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.32
Consensus pattern (27 bp):
ACCAATTTTGTATAACCAATTCATAAA
Found at i:96391409 original size:46 final size:46
Alignment explanation
Indices: 96391334--96391653 Score: 471
Period size: 46 Copynumber: 7.0 Consensus size: 46
96391324 TTATCTTCGA
* * * * *
96391334 CATGATGCCATAGTATCTTTCAACTATGGTCTCACTCACTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGT
* ***
96391380 CATGTTGCCATGGTATCTTTCAATCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* **
96391426 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*
96391472 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
96391518 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
96391564 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
96391610 CATGTTGCCATGGTATTTTTCAACCATGGTCTTACACACTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
96391654 TTCAGAGCGC
Statistics
Matches: 255, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 251 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:96394543 original size:30 final size:30
Alignment explanation
Indices: 96394509--96394573 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
96394499 CAACTTAACA
96394509 AACAAATGCCTCTAAAATAATAAC-AAAATT
1 AACAAATGCCTCTAAAATAAT-ACTAAAATT
*
96394539 AACAAATGCCTTTAAAATAATACTAAAATT
1 AACAAATGCCTCTAAAATAATACTAAAATT
96394569 AACAA
1 AACAA
96394574 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 2 0.06
30 31 0.94
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATACTAAAATT
Found at i:96394780 original size:18 final size:18
Alignment explanation
Indices: 96394759--96394793 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96394749 TGGGCCTTAG
* *
96394759 TTTTTTGTCCAAGCCCTT
1 TTTTTTGCCCAAACCCTT
96394777 TTTTTTGCCCAAACCCT
1 TTTTTTGCCCAAACCCT
96394794 CTTACATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.31, G:0.09, T:0.46
Consensus pattern (18 bp):
TTTTTTGCCCAAACCCTT
Found at i:96396073 original size:17 final size:17
Alignment explanation
Indices: 96396051--96396093 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
96396041 AAATATTTTT
*
96396051 TAAAAAATTTAAAATAA
1 TAAAAAATATAAAATAA
*
96396068 TAAAAAATAT-AAATTA
1 TAAAAAATATAAAATAA
96396084 -AAAAAATATA
1 TAAAAAATATA
96396094 TTTTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 9 0.39
16 5 0.22
17 9 0.39
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAAAATATAAAATAA
Found at i:96396087 original size:30 final size:29
Alignment explanation
Indices: 96396027--96396088 Score: 79
Period size: 31 Copynumber: 2.1 Consensus size: 29
96396017 TCTTAAATTC
***
96396027 AATTTAAATAATAAAAATATTTTTTAAAA
1 AATTTAAATAATAAAAATATAAATTAAAA
96396056 AATTTAAAATAATAAAAAATATAAATTAAAA
1 AATTT-AAATAAT-AAAAATATAAATTAAAA
96396087 AA
1 AA
96396089 ATATATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 5 0.18
30 7 0.25
31 16 0.57
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (29 bp):
AATTTAAATAATAAAAATATAAATTAAAA
Found at i:96399466 original size:15 final size:16
Alignment explanation
Indices: 96399447--96399485 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
96399437 TTTAGGTTTA
96399447 AAAAATTTAATTAATT
1 AAAAATTTAATTAATT
*
96399463 -AAAATTT-TTTAATT
1 AAAAATTTAATTAATT
96399477 AAAAATTTA
1 AAAAATTTA
96399486 TTTTCATCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AAAAATTTAATTAATT
Found at i:96404076 original size:16 final size:18
Alignment explanation
Indices: 96404044--96404078 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
96404034 TAACAAAATT
96404044 TGTATAATAAAATTAAAA
1 TGTATAATAAAATTAAAA
96404062 TGTATAA-AAAA-TAAAA
1 TGTATAATAAAATTAAAA
96404078 T
1 T
96404079 TAAATTGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 4 0.24
18 7 0.41
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
TGTATAATAAAATTAAAA
Found at i:96405787 original size:19 final size:19
Alignment explanation
Indices: 96405763--96405804 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
96405753 ATGGCCTCCC
* *
96405763 TAAATTATGGTTTAAATTT
1 TAAATTAAGGTTTAAACTT
*
96405782 TAAATTAAGTTTTAAACTT
1 TAAATTAAGGTTTAAACTT
96405801 TAAA
1 TAAA
96405805 ATATTAGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (19 bp):
TAAATTAAGGTTTAAACTT
Found at i:96407867 original size:27 final size:27
Alignment explanation
Indices: 96407829--96407882 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
96407819 CTTTTAATAC
*
96407829 TTCGCTACAAAAGCTTTCATTTCATGA
1 TTCGCCACAAAAGCTTTCATTTCATGA
96407856 TTCGCCACAAAAGCTTTCATTTCATGA
1 TTCGCCACAAAAGCTTTCATTTCATGA
96407883 CGTGTTTACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (27 bp):
TTCGCCACAAAAGCTTTCATTTCATGA
Found at i:96413407 original size:18 final size:19
Alignment explanation
Indices: 96413333--96413407 Score: 54
Period size: 17 Copynumber: 4.0 Consensus size: 19
96413323 CAGAAACAAA
96413333 AGAAA-AAA-AAGAGAAAT
1 AGAAAGAAAGAAGAGAAAT
*
96413350 AGTTACAGAGAAGAA-ACGAAAT
1 AG--AAAGA-AAGAAGA-GAAAT
96413372 AGAAAGAAAGAAGA-AAAT
1 AGAAAGAAAGAAGAGAAAT
96413390 A-AAAGAAA-AAGGAGAAAT
1 AGAAAGAAAGAA-GAGAAAT
96413408 TAGGGTTTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
16 2 0.04
17 11 0.23
18 9 0.19
19 7 0.15
20 6 0.13
21 3 0.06
22 9 0.19
ACGTcount: A:0.68, C:0.03, G:0.21, T:0.08
Consensus pattern (19 bp):
AGAAAGAAAGAAGAGAAAT
Found at i:96426057 original size:38 final size:38
Alignment explanation
Indices: 96426015--96426124 Score: 105
Period size: 41 Copynumber: 2.8 Consensus size: 38
96426005 TCGGATAGAT
*
96426015 CGAAGCAAAGTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGCAAAG-TGACACCCAGTGTCTCATCGAACCTAGC
* ** ** * *
96426053 CGAAGTAAAGTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGCAAAGTGACACCCAGTGTCTCATCGAACCTAGC
96426091 CGAAGTACAATAGTGACACCCAGTGTCTCATCGA
1 CGAAG--CAA-AGTGACACCCAGTGTCTCATCGA
96426125 CTCGAGGTCG
Statistics
Matches: 55, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
37 16 0.29
38 18 0.33
40 2 0.04
41 19 0.35
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (38 bp):
CGAAGCAAAGTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:96426121 original size:41 final size:38
Alignment explanation
Indices: 96426015--96426124 Score: 105
Period size: 38 Copynumber: 2.8 Consensus size: 38
96426005 TCGGATAGAT
* *
96426015 CGAAGCAAAGTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGTAAAG-TGACACCCAGTGTCTCATCGAACCTAGC
** ** * *
96426053 CGAAGTAAAGTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAGC
96426091 CGAAGTACAATAGTGACACCCAGTGTCTCATCGA
1 CGAAGT--AA-AGTGACACCCAGTGTCTCATCGA
96426125 CTCGAGGTCG
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
37 16 0.29
38 19 0.34
40 2 0.04
41 19 0.34
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (38 bp):
CGAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:96427231 original size:3 final size:3
Alignment explanation
Indices: 96427223--96427262 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
96427213 ATGTATTAGT
* *
96427223 TAA TAA TAA TAA TAA TACA TTA TAA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
96427263 ATATCTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 30 0.94
4 2 0.06
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:96427800 original size:5 final size:5
Alignment explanation
Indices: 96427792--96427852 Score: 56
Period size: 5 Copynumber: 12.4 Consensus size: 5
96427782 TTTATTTATA
* *
96427792 ATAAT ATAAT ATAAT ATAAT -TAAT ATAATT CAAAAT ATGAT AT-A- ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAA-T -ATAAT ATAAT ATAAT ATAAT
*
96427841 ATAAT TTAAT AT
1 ATAAT ATAAT AT
96427853 TTAACCAACA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
3 2 0.04
4 6 0.13
5 33 0.72
6 2 0.04
7 3 0.07
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:96434409 original size:13 final size:13
Alignment explanation
Indices: 96434391--96434415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96434381 TAATATATTT
96434391 ATTAATTAAAAAC
1 ATTAATTAAAAAC
96434404 ATTAATTAAAAA
1 ATTAATTAAAAA
96434416 TTAAAAAAAA
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:96436333 original size:25 final size:24
Alignment explanation
Indices: 96436286--96436354 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 24
96436276 TTGTTTGAAA
* *
96436286 ATAATAA-AAATATTTTTATTTAAAT
1 ATAATAATAAATATATATA-TT-AAT
*
96436311 TTAATAATAAATATATATATTAAT
1 ATAATAATAAATATATATATTAAT
* *
96436335 ATAA-AATTATTATATATATT
1 ATAATAATAAATATATATATT
96436355 TTTATTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
23 14 0.38
24 6 0.16
25 8 0.22
26 9 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
ATAATAATAAATATATATATTAAT
Found at i:96439591 original size:15 final size:16
Alignment explanation
Indices: 96439566--96439599 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
96439556 AAAATCTAAC
96439566 ATTTTTATTGTAAATA
1 ATTTTTATTGTAAATA
*
96439582 ATTTTT-TTGTCAATA
1 ATTTTTATTGTAAATA
96439597 ATT
1 ATT
96439600 CGTGGTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (16 bp):
ATTTTTATTGTAAATA
Found at i:96452871 original size:63 final size:63
Alignment explanation
Indices: 96452779--96452973 Score: 309
Period size: 63 Copynumber: 3.1 Consensus size: 63
96452769 CGTTGCTCTC
* * * * * * *
96452779 GTTGGTGGTGGTGTCGGTGTAGCTCTGAGAAGCATTGTTTTCGTTCTGACTTGCATTTTCGTT
1 GTTGTTGGTGGTGTCGGTGAAGCTCTGAGATGCATTGTTCTCATCCTGACTTGCATTTTCATT
* *
96452842 GTTGTTGGTGGTGTCGGTGAAGCTTTGAGATGCATTGTTCCCATCCTGACTTGCATTTTCATT
1 GTTGTTGGTGGTGTCGGTGAAGCTCTGAGATGCATTGTTCTCATCCTGACTTGCATTTTCATT
96452905 GTTGTTGGTGGTGTCGGTGAAGCTCTGAGATGCATTGTTCTCATCCTGACTTGCATTTTCATT
1 GTTGTTGGTGGTGTCGGTGAAGCTCTGAGATGCATTGTTCTCATCCTGACTTGCATTTTCATT
96452968 GTTGTT
1 GTTGTT
96452974 ACTGCTCTGA
Statistics
Matches: 121, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 121 1.00
ACGTcount: A:0.13, C:0.16, G:0.29, T:0.43
Consensus pattern (63 bp):
GTTGTTGGTGGTGTCGGTGAAGCTCTGAGATGCATTGTTCTCATCCTGACTTGCATTTTCATT
Found at i:96453006 original size:51 final size:51
Alignment explanation
Indices: 96452926--96453024 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
96452916 TGTCGGTGAA
96452926 GCTCTGAGATGCATTGTTCTCATCCTGACTTGCATTTTCATTGTTGTTACT
1 GCTCTGAGATGCATTGTTCTCATCCTGACTTGCATTTTCATTGTTGTTACT
* ** *
96452977 GCTCTGAGCA-GCATTGTTCTCGTTTTGACTTGCATTTTCGTTGTTGTT
1 GCTCTGAG-ATGCATTGTTCTCATCCTGACTTGCATTTTCATTGTTGTT
96453025 GTTGTTGCTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.46
Consensus pattern (51 bp):
GCTCTGAGATGCATTGTTCTCATCCTGACTTGCATTTTCATTGTTGTTACT
Found at i:96453130 original size:66 final size:70
Alignment explanation
Indices: 96452976--96453161 Score: 229
Period size: 66 Copynumber: 2.7 Consensus size: 70
96452966 TTGTTGTTAC
* * * *
96452976 TGCTCTGAG-CAGCATTGTTCTCGTTTTGACTTGCATTTTCGTTGTTGTTGTTGTTGCTGCTGTT
1 TGCTCTGAGTC-GCATTGTTCTCGTTCTGACCTGCATTTTCATTGTTGTTGTTGTT-CT-CTGTC
96453040 GTCAGTGT
63 GTCAGTGT
* *
96453048 TGCTCTGAGTCACATTGTTCTCATTCTGACCTGCATTTTCATTGTTGTTGTTG-T-T-T-TCGTC
1 TGCTCTGAGTCGCATTGTTCTCGTTCTGACCTGCATTTTCATTGTTGTTGTTGTTCTCTGTCGTC
*
96453109 GGTGT
66 AGTGT
* *
96453114 TGCTCTGAGTCGCATTGTTCTCGTTCTGATCTGCATTCTCATTGTTGT
1 TGCTCTGAGTCGCATTGTTCTCGTTCTGACCTGCATTTTCATTGTTGT
96453162 CGGTGTTACT
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
66 52 0.51
67 1 0.01
69 1 0.01
71 1 0.01
72 46 0.45
73 1 0.01
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (70 bp):
TGCTCTGAGTCGCATTGTTCTCGTTCTGACCTGCATTTTCATTGTTGTTGTTGTTCTCTGTCGTC
AGTGT
Found at i:96453157 original size:27 final size:26
Alignment explanation
Indices: 96453126--96453216 Score: 67
Period size: 27 Copynumber: 3.4 Consensus size: 26
96453116 CTCTGAGTCG
96453126 CATTGTTCTCGTTCTGATCTGCATTCT
1 CATTGTTCTCGTTCTGA-CTGCATTCT
* * * * * * *
96453153 CATTGTTGTCGGTGTTACTCGGA-GCAG
1 CATTGTTCTCGTTCTGACT-GCATTC-T
*
96453180 CATTGTTCTCGTTCTGACCCGCATTCT
1 CATTGTTCTCGTTCTGA-CTGCATTCT
96453207 CATTGTTCTC
1 CATTGTTCTC
96453217 AGTGTTACTT
Statistics
Matches: 45, Mismatches: 15, Indels: 8
0.66 0.22 0.12
Matches are distributed among these distances:
26 3 0.07
27 40 0.89
28 2 0.04
ACGTcount: A:0.12, C:0.26, G:0.20, T:0.42
Consensus pattern (26 bp):
CATTGTTCTCGTTCTGACTGCATTCT
Found at i:96453183 original size:54 final size:54
Alignment explanation
Indices: 96453110--96453483 Score: 457
Period size: 54 Copynumber: 6.9 Consensus size: 54
96453100 GTTTTCGTCG
* * * * *
96453110 GTGTTGCTCTGAGTC-GCATTGTTCTCGTTCTGATCTGCATTCTCATTGTTGTCG
1 GTGTTACTCTGAG-CAGCATTGTTCTCGTTCTGACCCGCATTCTCATTGTTCTCA
*
96453164 GTGTTACTCGGAGCAGCATTGTTCTCGTTCTGACCCGCATTCTCATTGTTCTCA
1 GTGTTACTCTGAGCAGCATTGTTCTCGTTCTGACCCGCATTCTCATTGTTCTCA
* *
96453218 GTGTTACT-TGGAGCGGCATTGTTCTCGTTCTGACCCACATTCTCATTGTTCTCA
1 GTGTTACTCT-GAGCAGCATTGTTCTCGTTCTGACCCGCATTCTCATTGTTCTCA
* *
96453272 GCGTTACT-TGGAGCAGCATTTTTCTCGTTCTGACCCGCATTCTCATTGTTCTCA
1 GTGTTACTCT-GAGCAGCATTGTTCTCGTTCTGACCCGCATTCTCATTGTTCTCA
* ** * * *
96453326 GTGTTGCTCTGAGTTGCATTGCTCTCATTCTGACCCGCATTTTCATTGTTCTCA
1 GTGTTACTCTGAGCAGCATTGTTCTCGTTCTGACCCGCATTCTCATTGTTCTCA
* * * * *
96453380 GTGTTGCTCTGAGCAGCATTGTTCTCATTCTGACCCACATTTTCATTGTTGTCA
1 GTGTTACTCTGAGCAGCATTGTTCTCGTTCTGACCCGCATTCTCATTGTTCTCA
** * * * *
96453434 GTGTTACTCTGAGTGGCATTCTTCCCGTCCTGACCCGCATTTTCATTGTT
1 GTGTTACTCTGAGCAGCATTGTTCTCGTTCTGACCCGCATTCTCATTGTT
96453484 ATTGTTTTCA
Statistics
Matches: 283, Mismatches: 34, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
53 1 0.00
54 281 0.99
55 1 0.00
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (54 bp):
GTGTTACTCTGAGCAGCATTGTTCTCGTTCTGACCCGCATTCTCATTGTTCTCA
Found at i:96453345 original size:27 final size:27
Alignment explanation
Indices: 96453315--96453406 Score: 82
Period size: 27 Copynumber: 3.4 Consensus size: 27
96453305 CCCGCATTCT
96453315 CATTGTTCTCAGTGTTGCTCTGAGTTG
1 CATTGTTCTCAGTGTTGCTCTGAGTTG
* * * *
96453342 CATTGCTCTCA-T-TCTGAC-CCGCATTTT
1 CATTGTTCTCAGTGT-TG-CTCTG-AGTTG
**
96453369 CATTGTTCTCAGTGTTGCTCTGAGCAG
1 CATTGTTCTCAGTGTTGCTCTGAGTTG
96453396 CATTGTTCTCA
1 CATTGTTCTCA
96453407 TTCTGACCCA
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
25 1 0.02
26 5 0.10
27 37 0.76
28 5 0.10
29 1 0.02
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.41
Consensus pattern (27 bp):
CATTGTTCTCAGTGTTGCTCTGAGTTG
Found at i:96457522 original size:20 final size:20
Alignment explanation
Indices: 96457497--96457552 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
96457487 CTAATTCAAT
96457497 TTTTTATAATTTTTATA-CAA
1 TTTTTATAATTTTTATATC-A
*
96457517 TTTTTATAA-GTTTATATCA
1 TTTTTATAATTTTTATATCA
*
96457536 TTTTTAATACTTTTTAT
1 TTTTT-ATAATTTTTAT
96457553 TTTTATGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 12 0.40
20 13 0.43
21 5 0.17
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTATAATTTTTATATCA
Found at i:96459811 original size:16 final size:15
Alignment explanation
Indices: 96459790--96459819 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
96459780 AGAAAGAACA
96459790 AACAAAGAAAACAAAT
1 AACAAAG-AAACAAAT
96459806 AACAAAGAAACAAA
1 AACAAAGAAACAAA
96459820 AAATAGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.77, C:0.13, G:0.07, T:0.03
Consensus pattern (15 bp):
AACAAAGAAACAAAT
Found at i:96460985 original size:26 final size:23
Alignment explanation
Indices: 96460872--96461041 Score: 80
Period size: 26 Copynumber: 7.0 Consensus size: 23
96460862 CTCTTTGATT
*
96460872 TTTAT-TTATTTATTTTAAATT-
1 TTTATATTATTTACTTTAAATTG
** *
96460893 TTATATATTAAACTATTTTAAATTG
1 TT-TATATT-ATTTACTTTAAATTG
* *
96460918 TTT-TAGATATATTA-TCTTAAATTA
1 TTTATA-TTAT-TTACT-TTAAATTG
*
96460942 TTTCATATACTATATACTTTAAATTG
1 TTT-ATAT--TATTTACTTTAAATTG
96460968 CTTTATACATTATTTACTTTAAACTTG
1 -TTTAT--ATTATTTACTTTAAA-TTG
* * *
96460995 TTTTATGTATTATTCATTTTAAATAG
1 -TTTA--TATTATTTACTTTAAATTG
96461021 TTT-TATTATTTACTTTAAATT
1 TTTATATTATTTACTTTAAATT
96461042 TTTTTCATAT
Statistics
Matches: 114, Mismatches: 17, Indels: 35
0.69 0.10 0.21
Matches are distributed among these distances:
21 2 0.02
22 18 0.16
23 6 0.05
24 26 0.23
25 5 0.04
26 27 0.24
27 27 0.24
28 2 0.02
29 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTATATTATTTACTTTAAATTG
Found at i:96461006 original size:27 final size:25
Alignment explanation
Indices: 96460909--96461055 Score: 81
Period size: 26 Copynumber: 5.8 Consensus size: 25
96460899 ATTAAACTAT
*
96460909 TTTAAATTGTTTTA-GA-TATATTA-
1 TTTAAATTGTTTTATTATTAT-TTAC
* * * *
96460932 TCTTAAATTATTTCATATACTATATAC
1 T-TTAAATTGTTTTAT-TATTATTTAC
* *
96460959 TTTAAATTGCTTTATACATTATTTAC
1 TTTAAATTGTTTTAT-TATTATTTAC
* *
96460985 TTTAAACTTGTTTTATGTATTATTCAT
1 TTTAAA-TTGTTTTAT-TATTATTTAC
*
96461012 TTTAAATAG--TT-TTATTATTTAC
1 TTTAAATTGTTTTATTATTATTTAC
*
96461034 TTTAAATTTTTTTCATATATTA
1 TTTAAATTGTTTT-AT-TATTA
96461056 CCAATTTCAA
Statistics
Matches: 93, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
22 15 0.16
23 2 0.02
24 15 0.16
26 31 0.33
27 30 0.32
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.56
Consensus pattern (25 bp):
TTTAAATTGTTTTATTATTATTTAC
Found at i:96461046 original size:22 final size:22
Alignment explanation
Indices: 96460976--96461046 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
96460966 TGCTTTATAC
96460976 ATTATTTACTTTAAACTTGTTTTATGT
1 ATTATTTACTTTAAA--T-TTTT-T-T
* * **
96461003 ATTATTCATTTTAAATAGTTTT
1 ATTATTTACTTTAAATTTTTTT
96461025 ATTATTTACTTTAAATTTTTTT
1 ATTATTTACTTTAAATTTTTTT
96461047 CATATATTAC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
22 19 0.53
23 1 0.03
24 2 0.06
25 1 0.03
27 13 0.36
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (22 bp):
ATTATTTACTTTAAATTTTTTT
Found at i:96461088 original size:26 final size:26
Alignment explanation
Indices: 96461024--96461088 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 26
96461014 TAAATAGTTT
* *
96461024 TATTATTTACTTTAAATTTTTTTCATA
1 TATTATCTA-TTTAAATTTTTATCATA
* * *
96461051 TATTACCAATTTCAAATTTTTAT-ATG
1 TATTATCTATTT-AAATTTTTATCATA
96461077 TATTATCTATTT
1 TATTATCTATTT
96461089 TTTATATACC
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
26 15 0.50
27 15 0.50
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (26 bp):
TATTATCTATTTAAATTTTTATCATA
Found at i:96461220 original size:26 final size:26
Alignment explanation
Indices: 96461144--96461225 Score: 103
Period size: 26 Copynumber: 3.2 Consensus size: 26
96461134 TTACATTTCT
* *
96461144 TTTTACATAATATTTATTTTAAACTCA
1 TTTTACATATTATTTATTTTAAA-TTA
* *
96461171 -TTTATATATTATTTATCTTAAATTA
1 TTTTACATATTATTTATTTTAAATTA
*
96461196 TTTTACATATTATTTATTTTAAATTT
1 TTTTACATATTATTTATTTTAAATTA
96461222 TTTT
1 TTTT
96461226 CCCTCATATA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
25 2 0.04
26 45 0.96
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTACATATTATTTATTTTAAATTA
Found at i:96461421 original size:21 final size:21
Alignment explanation
Indices: 96461396--96461483 Score: 75
Period size: 21 Copynumber: 4.5 Consensus size: 21
96461386 TTTTACATTT
96461396 TATTTATTTTAATTTTCTTTA
1 TATTTATTTTAATTTTCTTTA
* *
96461417 TATTT-TTTTAAATTGT-TATA
1 TATTTATTTT-AATTTTCTTTA
96461437 TATATTA-TTTAA-TTTC--T-
1 TAT-TTATTTTAATTTTCTTTA
96461454 T-TTTATTTTAATTTTCTTTA
1 TATTTATTTTAATTTTCTTTA
*
96461474 AATTTATTTT
1 TATTTATTTT
96461484 TTCACATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
15 3 0.06
16 6 0.11
17 5 0.09
18 1 0.02
19 3 0.06
20 12 0.23
21 23 0.43
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.69
Consensus pattern (21 bp):
TATTTATTTTAATTTTCTTTA
Found at i:96461484 original size:144 final size:148
Alignment explanation
Indices: 96461327--96461758 Score: 676
Period size: 144 Copynumber: 2.8 Consensus size: 148
96461317 ATTGTTGATA
*
96461327 TTAAATTTCTTTTTTCACATTATTTATTTTAAATTCATTTATCATCATTTTAAAATTTGTTTTAC
1 TTAAATTTATTTTTTCACATTATTTATTTTAAATTCATTTATCATCATTTTAAAATTTGTTTTAC
96461392 ATTTTATTTATTTTAATTTTCTTTAT-ATTTTTTTAAATTGTTATATATATTATTTAATT-TC-T
66 ATTTTATTTATTTTAATTTTCTTTATAATTTTTTTAAATTGTTATATATATTATTTAATTATCTT
96461454 -TTTTATTTTAATTTTCT
131 CTTTTATTTTAATTTTCT
96461471 TTAAATTTATTTTTTCACATTATTTATTTTAAATTCATTTATCATCATTTTAAAATTTGTTTTAC
1 TTAAATTTATTTTTTCACATTATTTATTTTAAATTCATTTATCATCATTTTAAAATTTGTTTTAC
96461536 ATTTTATTTATTTTAATTTTCTTTATAATTTTTTTAAAATTGTTATATATATTATTTAATTTCTT
66 ATTTTATTTATTTTAATTTTCTTTATAATTTTTTT-AAATTGTTATATATATTATTTAA------
96461601 TTTTATCTTAATTTTCTTTTATTTTAATTTTCT
124 --TTATC------TTCTTTTATTTTAATTTTCT
96461634 TTAAATTTATTTTTTTCACATTATTTATTTTAAATTCATTTATCATCATTTTAAAATTT-TTTTA
1 TTAAATTTA-TTTTTTCACATTATTTATTTTAAATTCATTTATCATCATTTTAAAATTTGTTTTA
96461698 CATTTTATTTATTTTAATTTTCTTTATAATTTTTTTAAATTGTTATATATATTATTTAATT
65 CATTTTATTTATTTTAATTTTCTTTATAATTTTTTTAAATTGTTATATATATTATTTAATT
96461759 CATTGGTCTT
Statistics
Matches: 267, Mismatches: 1, Indels: 30
0.90 0.00 0.10
Matches are distributed among these distances:
144 90 0.34
145 8 0.03
146 23 0.09
154 4 0.01
155 2 0.01
162 24 0.09
163 67 0.25
164 49 0.18
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.64
Consensus pattern (148 bp):
TTAAATTTATTTTTTCACATTATTTATTTTAAATTCATTTATCATCATTTTAAAATTTGTTTTAC
ATTTTATTTATTTTAATTTTCTTTATAATTTTTTTAAATTGTTATATATATTATTTAATTATCTT
CTTTTATTTTAATTTTCT
Found at i:96461561 original size:49 final size:49
Alignment explanation
Indices: 96461345--96461593 Score: 208
Period size: 49 Copynumber: 5.2 Consensus size: 49
96461335 CTTTTTTCAC
* * *
96461345 ATTATTTATTTTAA-ATTCATTTATCATCATTTTAAAATTTGTTTTACAT
1 ATTATTTATTTTAATTTTC-TTTATAATCTTTTTAAAATTTGTTTTACAT
* * * *
96461394 TTTATTTATTTTAATTTTCTTTAT-AT-TTTTTTAAA-TTGTTATATAT
1 ATTATTTATTTTAATTTTCTTTATAATCTTTTTAAAATTTGTTTTACAT
* ** * * * * *
96461440 ATTATTTAATTTCTTTTTATTT-TAAT-TTTCTTTAAATTTATTTTTTCAC
1 ATTATTTATTTTAATTTTCTTTATAATCTTT-TTAAAATTT-GTTTTACAT
* * *
96461489 ATTATTTATTTTAA-ATTCATTTATCATCATTTTAAAATTTGTTTTACAT
1 ATTATTTATTTTAATTTTC-TTTATAATCTTTTTAAAATTTGTTTTACAT
* * * *
96461538 TTTATTTATTTTAATTTTCTTTATAATTTTTTTAAAA-TTGTTATATAT
1 ATTATTTATTTTAATTTTCTTTATAATCTTTTTAAAATTTGTTTTACAT
96461586 ATTATTTA
1 ATTATTTA
96461594 ATTTCTTTTT
Statistics
Matches: 156, Mismatches: 35, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
45 1 0.01
46 31 0.20
47 13 0.08
48 22 0.14
49 70 0.45
50 17 0.11
51 2 0.01
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (49 bp):
ATTATTTATTTTAATTTTCTTTATAATCTTTTTAAAATTTGTTTTACAT
Found at i:96461613 original size:48 final size:47
Alignment explanation
Indices: 96461374--96461615 Score: 129
Period size: 48 Copynumber: 5.0 Consensus size: 47
96461364 TTTATCATCA
* * * * *
96461374 TTTTAAAATTTGTTTTACATTTTATTT-ATTT-TAATTTTCTTTATATTT
1 TTTTAAAA-TTGTTATATATATTATTTAATTTCT-TTTTTATTTA-ATTT
96461422 TTTT-AAATTGTTATATATATTATTTAATTTC-TTTTTATTTTAATTT
1 TTTTAAAATTGTTATATATATTATTTAATTTCTTTTTTA-TTTAATTT
* * * * * ** * **
96461468 TCTTTAAATTTATTTTTTCACATTATTT-ATTT-TAAATTCATTTATCATCA
1 T-TTTAAAATTGTTATAT-ATATTATTTAATTTCT-TTTTTATTTA--ATTT
* * * * * *
96461518 TTTTAAAATTTGTTTTACATTTTATTTATTTTAATTTTCTT-TATAATTT
1 TTTTAAAA-TTGTTATATATATTATTTAATTT-CTTTT-TTATTTAATTT
96461567 TTTTAAAATTGTTATATATATTATTTAATTTCTTTTTTATCTTAATTT
1 TTTTAAAATTGTTATATATATTATTTAATTTCTTTTTTAT-TTAATTT
96461615 T
1 T
96461616 CTTTTATTTT
Statistics
Matches: 143, Mismatches: 34, Indels: 34
0.68 0.16 0.16
Matches are distributed among these distances:
46 26 0.18
47 19 0.13
48 46 0.32
49 34 0.24
50 12 0.08
51 4 0.03
52 2 0.01
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (47 bp):
TTTTAAAATTGTTATATATATTATTTAATTTCTTTTTTATTTAATTT
Found at i:96461620 original size:16 final size:15
Alignment explanation
Indices: 96461587--96461635 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
96461577 GTTATATATA
*
96461587 TTATTTAATTTCTTTT
1 TTATTTAATTT-TCTT
96461603 TTATCTTAATTTTCTT
1 TTAT-TTAATTTTCTT
96461619 TTATTTTAATTTTCTT
1 TTA-TTTAATTTTCTT
96461635 T
1 T
96461636 AAATTTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 22 0.73
17 8 0.27
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTAATTTTCTT
Found at i:96461623 original size:163 final size:161
Alignment explanation
Indices: 96461441--96461758 Score: 586
Period size: 163 Copynumber: 2.0 Consensus size: 161
96461431 GTTATATATA
96461441 TTATTTAATTTCTTTTTATTTTAATTTTCTTTAAATTTA-TTTTTTCACATTATTTATTTTAAAT
1 TTATTTAATTTCTTTTTATTTTAATTTTCTTTAAATTTATTTTTTTCACATTATTTATTTTAAAT
96461505 TCATTTATCATCATTTTAAAATTTGTTTTACATTTTATTTATTTTAATTTTCTTTATAATTTTTT
66 TCATTTATCATCATTTTAAAATTT-TTTTACATTTTATTTATTTTAATTTTCTTTATAATTTTTT
96461570 TAAAATTGTTATATATATTATTTAATTTCTTTT
130 T-AAATTGTTATATATATTATTTAATTTCTTTT
96461603 TTATCTTAATTT-TCTTTTATTTTAATTTTCTTTAAATTTATTTTTTTCACATTATTTATTTTAA
1 TTAT-TTAATTTCT-TTTTATTTTAATTTTCTTTAAATTTATTTTTTTCACATTATTTATTTTAA
96461667 ATTCATTTATCATCATTTTAAAATTTTTTTACATTTTATTTATTTTAATTTTCTTTATAATTTTT
64 ATTCATTTATCATCATTTTAAAATTTTTTTACATTTTATTTATTTTAATTTTCTTTATAATTTTT
96461732 TTAAATTGTTATATATATTATTTAATT
129 TTAAATTGTTATATATATTATTTAATT
96461759 CATTGGTCTT
Statistics
Matches: 153, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
162 30 0.20
163 74 0.48
164 49 0.32
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (161 bp):
TTATTTAATTTCTTTTTATTTTAATTTTCTTTAAATTTATTTTTTTCACATTATTTATTTTAAAT
TCATTTATCATCATTTTAAAATTTTTTTACATTTTATTTATTTTAATTTTCTTTATAATTTTTTT
AAATTGTTATATATATTATTTAATTTCTTTT
Found at i:96461642 original size:21 final size:20
Alignment explanation
Indices: 96461541--96461646 Score: 59
Period size: 21 Copynumber: 5.5 Consensus size: 20
96461531 TTTACATTTT
96461541 ATTTATTTTAATTTTCTTTATA
1 ATTTATTTTAATTTTC-TT-TA
** *
96461563 ATTT-TTTTAAAATTGTTATA
1 ATTTATTTTAATTTTCTT-TA
96461583 TATATTA-TTTAA-TTTCTTT-
1 -AT-TTATTTTAATTTTCTTTA
*
96461602 -TTTATCTTAATTTTC--T-
1 ATTTATTTTAATTTTCTTTA
96461618 -TTTATTTTAATTTTCTTTAA
1 ATTTATTTTAATTTTCTTT-A
96461638 ATTTATTTT
1 ATTTATTTT
96461647 TTTCACATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
16 18 0.27
17 5 0.07
18 5 0.07
20 6 0.09
21 22 0.33
22 11 0.16
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.68
Consensus pattern (20 bp):
ATTTATTTTAATTTTCTTTA
Found at i:96461647 original size:16 final size:16
Alignment explanation
Indices: 96461608--96461646 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
96461598 CTTTTTTATC
* *
96461608 TTAATTTTCTTTTATT
1 TTAATTTTCTTTAAAT
96461624 TTAATTTTCTTTAAAT
1 TTAATTTTCTTTAAAT
96461640 TT-ATTTT
1 TTAATTTT
96461647 TTTCACATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (16 bp):
TTAATTTTCTTTAAAT
Found at i:96461734 original size:48 final size:47
Alignment explanation
Indices: 96461642--96461736 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 47
96461632 CTTTAAATTT
*
96461642 ATTTTTTTCACATTATTTATTTTAAATTCATTTATCATCATTTTAAA
1 ATTTTTTTCACATTATTTATTTTAAATTCATTTATAATCATTTTAAA
* **
96461689 ATTTTTTT-ACATTTTATTTATTTTAATTTTC-TTTATAATTTTTTTAAA
1 ATTTTTTTCACA--TTATTTATTTTAA-ATTCATTTATAATCATTTTAAA
96461737 TTGTTATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
46 3 0.07
47 8 0.20
48 27 0.66
49 3 0.07
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (47 bp):
ATTTTTTTCACATTATTTATTTTAAATTCATTTATAATCATTTTAAA
Found at i:96463660 original size:53 final size:53
Alignment explanation
Indices: 96463541--96463678 Score: 161
Period size: 53 Copynumber: 2.6 Consensus size: 53
96463531 TTTAATACCG
** * *
96463541 TAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACTCTGTATAAGAACA
1 TAGCTGGGCTATGGCATCGGTATAATGTGATAATATGACTCCGTATAAGAACA
* *
96463594 TAGCTGGGCTATGGCATCGGTATAATGTGATAATATGATTCCGTATAAGACCA
1 TAGCTGGGCTATGGCATCGGTATAATGTGATAATATGACTCCGTATAAGAACA
* * *
96463647 T-GTTTGGGATATGGCTTCGGTATGATATGTGA
1 TAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
96463679 ACCGTGTAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
52 1 0.01
53 65 0.89
54 1 0.01
55 6 0.08
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (53 bp):
TAGCTGGGCTATGGCATCGGTATAATGTGATAATATGACTCCGTATAAGAACA
Found at i:96466021 original size:24 final size:22
Alignment explanation
Indices: 96465994--96466038 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
96465984 ATTTATTCTC
96465994 GTTTGAATCTAGATAATATTTTAG
1 GTTTGAATCTA-AT-ATATTTTAG
* *
96466018 GTTTTAGTCTAATATATTTTA
1 GTTTGAATCTAATATATTTTA
96466039 CATTAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 2 0.11
24 9 0.47
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.51
Consensus pattern (22 bp):
GTTTGAATCTAATATATTTTAG
Found at i:96469145 original size:16 final size:16
Alignment explanation
Indices: 96469124--96469160 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
96469114 TTATACCATC
96469124 AATCCACTTCTGATCA
1 AATCCACTTCTGATCA
96469140 AATCCACTTCTGATCA
1 AATCCACTTCTGATCA
96469156 AATCC
1 AATCC
96469161 CATTCGACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.30
Consensus pattern (16 bp):
AATCCACTTCTGATCA
Found at i:96472313 original size:20 final size:19
Alignment explanation
Indices: 96472290--96472333 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
96472280 TGTCTTTTTC
*
96472290 TTTTACAAAATTTAATCATT
1 TTTTACAAAAGTTAAT-ATT
* *
96472310 TTTTCCATAAGTTAATATT
1 TTTTACAAAAGTTAATATT
96472329 TTTTA
1 TTTTA
96472334 TTTTTGTACA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTACAAAAGTTAATATT
Found at i:96473378 original size:43 final size:43
Alignment explanation
Indices: 96473328--96473433 Score: 149
Period size: 43 Copynumber: 2.5 Consensus size: 43
96473318 AAAATGCTGT
* *
96473328 TAAAAGTCATGGCTTTTAGTGGCGTTTGTGTGGAAAGCGCCGC
1 TAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGGAAAGCGCCGC
* * *
96473371 TAAAAGTCATGGCTTTTAGCGGTGTTTGTGGGGAATGCGCCGT
1 TAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGGAAAGCGCCGC
* *
96473414 TAAAAGTCATAGTTTTTAGC
1 TAAAAGTCATGGCTTTTAGC
96473434 AGCATTTTCT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (43 bp):
TAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGGAAAGCGCCGC
Found at i:96473563 original size:31 final size:31
Alignment explanation
Indices: 96473498--96473580 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
96473488 CTTTCTGCAT
* * **
96473498 TAAAATCCAACCAAATACAACAAATATATTA
1 TAAAATACAACCAAAAACAACAAATATAGCA
* *
96473529 TAAAATGCAACCAAAAACAACAAATTTAGCA
1 TAAAATACAACCAAAAACAACAAATATAGCA
96473560 TAAAAAATACAACCAAAAACA
1 T--AAAATACAACCAAAAACA
96473581 TTAATTCTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
31 27 0.61
33 17 0.39
ACGTcount: A:0.61, C:0.19, G:0.02, T:0.17
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAACAAATATAGCA
Found at i:96473849 original size:21 final size:21
Alignment explanation
Indices: 96473817--96473867 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
96473807 ACCATCGCTG
*
96473817 CTGCCTCTGCCTCCCTCGTTA
1 CTGCCGCTGCCTCCCTCGTTA
* * *
96473838 CTGTCGCTGCCTCTCTCGTTG
1 CTGCCGCTGCCTCCCTCGTTA
96473859 CTGCCGCTG
1 CTGCCGCTG
96473868 TCGCTGCCTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.43, G:0.22, T:0.33
Consensus pattern (21 bp):
CTGCCGCTGCCTCCCTCGTTA
Found at i:96473868 original size:27 final size:27
Alignment explanation
Indices: 96473838--96473890 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
96473828 TCCCTCGTTA
*
96473838 CTGTCGCTGCCTCTCTCGTTGCTGCCG
1 CTGTCGCTGCCTCCCTCGTTGCTGCCG
*
96473865 CTGTCGCTGCCTCCCTCTTTGCTGCC
1 CTGTCGCTGCCTCCCTCGTTGCTGCC
96473891 TCCGCTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.00, C:0.43, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGTCGCTGCCTCCCTCGTTGCTGCCG
Found at i:96474333 original size:13 final size:14
Alignment explanation
Indices: 96474308--96474336 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96474298 TGATGAATTG
96474308 AATTAAACAATTAT
1 AATTAAACAATTAT
96474322 AATTAAAC-ATTAT
1 AATTAAACAATTAT
96474335 AA
1 AA
96474337 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:96479459 original size:9 final size:9
Alignment explanation
Indices: 96479445--96479889 Score: 106
Period size: 9 Copynumber: 51.0 Consensus size: 9
96479435 ATGTATTACT
*
96479445 TAAGTTAAG
1 TAAGTTATG
*
96479454 TAAGTTTTG
1 TAAGTTATG
* *
96479463 TAACTTTTG
1 TAAGTTATG
*
96479472 TAAGTTTTG
1 TAAGTTATG
96479481 TAAGTTATG
1 TAAGTTATG
*
96479490 TAAGTTATAA
1 TAAGTTAT-G
* *
96479500 TATGAATAT-
1 TAAG-TTATG
* *
96479509 AAACTTATG
1 TAAGTTATG
* *
96479518 TAAGGTGTG
1 TAAGTTATG
96479527 TAAGTTATG
1 TAAGTTATG
*
96479536 TAAATTATG
1 TAAGTTATG
* ** *
96479545 ATATGAAATA
1 -TAAGTTATG
*
96479555 T-ATTTAT-
1 TAAGTTATG
* *
96479562 TTA-TTACG
1 TAAGTTATG
96479570 TAAGTTATG
1 TAAGTTATG
*
96479579 TAAGTTATA
1 TAAGTTATG
*
96479588 T-ATTTATG
1 TAAGTTATG
96479596 T-A-TTATG
1 TAAGTTATG
*
96479603 TAAGTTTTG
1 TAAGTTATG
96479612 TAAGTTATG
1 TAAGTTATG
96479621 TAAGTTATG
1 TAAGTTATG
* *
96479630 ATATGATAT-
1 -TAAGTTATG
* *
96479639 AAATTTATG
1 TAAGTTATG
**
96479648 TAAGGAATG
1 TAAGTTATG
96479657 TAAGTTATG
1 TAAGTTATG
*
96479666 TAAATTATG
1 TAAGTTATG
* **
96479675 ATATGAAAT-
1 -TAAGTTATG
* *
96479684 TTATTTAT-
1 TAAGTTATG
* *
96479692 TTA-TTACG
1 TAAGTTATG
96479700 TAAGTTATG
1 TAAGTTATG
* *
96479709 TAAGCTATA
1 TAAGTTATG
* *
96479718 T-ATTTATA
1 TAAGTTATG
96479726 T-A-TTATG
1 TAAGTTATG
* *
96479733 TAAGTTTTA
1 TAAGTTATG
96479742 TAAGTTATG
1 TAAGTTATG
*
96479751 TGAGTTATG
1 TAAGTTATG
* *
96479760 ATATGATAT-
1 -TAAGTTATG
* *
96479769 AAATTTATG
1 TAAGTTATG
**
96479778 TAAGGAATG
1 TAAGTTATG
96479787 TAAGTTATG
1 TAAGTTATG
*
96479796 TAAATTATG
1 TAAGTTATG
* **
96479805 -ATA-TCAAA
1 TA-AGTTATG
*
96479813 TATATTTAT-
1 TA-AGTTATG
* *
96479822 TTA-TTACG
1 TAAGTTATG
96479830 TAAGTTATG
1 TAAGTTATG
*
96479839 TAAGTTATA
1 TAAGTTATG
* *
96479848 T-ATTTATA
1 TAAGTTATG
96479856 T-A-TTATG
1 TAAGTTATG
*
96479863 TAAGTTTTG
1 TAAGTTATG
*
96479872 TAAGTTTTG
1 TAAGTTATG
96479881 TAAGTTATG
1 TAAGTTATG
96479890 ATATGATAAA
Statistics
Matches: 312, Mismatches: 99, Indels: 50
0.68 0.21 0.11
Matches are distributed among these distances:
7 26 0.08
8 55 0.18
9 204 0.65
10 24 0.08
11 3 0.01
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:96479671 original size:130 final size:130
Alignment explanation
Indices: 96479470--96479905 Score: 748
Period size: 130 Copynumber: 3.3 Consensus size: 130
96479460 TTGTAACTTT
* * **
96479470 TGTAAGTTTTGTAAGTTATGTAAGTTATAATATGAATATAAACTTATGTAAGGTGTGTAAGTTAT
1 TGTAAGTTTTGTAAGTTATGTAAGTTATGATATG-ATATAAATTTATGTAAGGAATGTAAGTTAT
*
96479535 GTAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATGTATT
65 GTAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATATATT
96479600 A
130 A
96479601 TGTAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAAATTTATGTAAGGAATGTAAGTTATG
1 TGTAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAAATTTATGTAAGGAATGTAAGTTATG
* *
96479666 TAAATTATGATATGAAATTTATTTATTTATTACGTAAGTTATGTAAGCTATATATTTATATATTA
66 TAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATATATTA
* *
96479731 TGTAAGTTTTATAAGTTATGTGAGTTATGATATGATATAAATTTATGTAAGGAATGTAAGTTATG
1 TGTAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAAATTTATGTAAGGAATGTAAGTTATG
*
96479796 TAAATTATGATATCAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATATATTA
66 TAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATATATTA
*
96479861 TGTAAGTTTTGTAAGTTTTGTAAGTTATGATATGATA-AATATTTA
1 TGTAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAA-ATTTA
96479906 ACATTAAGAT
Statistics
Matches: 289, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
129 2 0.01
130 254 0.88
131 33 0.11
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.46
Consensus pattern (130 bp):
TGTAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAAATTTATGTAAGGAATGTAAGTTATG
TAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATATATTA
Found at i:96481783 original size:19 final size:19
Alignment explanation
Indices: 96481722--96481783 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
96481712 TGTAAAAAAA
*
96481722 AAAAAAGCATAAAAAGTATT
1 AAAAAAGTATAAAAA-TATT
* **
96481742 AAACAA-TATAAATGCTATT
1 AAAAAAGTATAAA-AATATT
96481761 -AAAAAGTATAAAAATATT
1 AAAAAAGTATAAAAATATT
96481779 AAAAA
1 AAAAA
96481784 TCATAAGAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
18 8 0.25
19 19 0.59
20 5 0.16
ACGTcount: A:0.65, C:0.05, G:0.06, T:0.24
Consensus pattern (19 bp):
AAAAAAGTATAAAAATATT
Found at i:96481789 original size:18 final size:17
Alignment explanation
Indices: 96481730--96481794 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 17
96481720 AAAAAAAAGC
96481730 ATAAAAAGTATTAAACAAT
1 ATAAAAA-TATTAAA-AAT
**
96481749 ATAAATGCTATTAAAAAGT
1 ATAAA-AATATTAAAAA-T
96481768 ATAAAAATATTAAAAAT
1 ATAAAAATATTAAAAAT
*
96481785 CATAAGAATA
1 -ATAAAAATA
96481795 ATTTTAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 1 0.03
18 19 0.50
19 18 0.47
ACGTcount: A:0.62, C:0.05, G:0.06, T:0.28
Consensus pattern (17 bp):
ATAAAAATATTAAAAAT
Found at i:96483482 original size:27 final size:28
Alignment explanation
Indices: 96483443--96483498 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
96483433 TGGGAAAGAG
* *
96483443 GAGTGCGAAGGTGACGCAGCAGATGGTC
1 GAGTGCGAAGGTGACACAACAGATGGTC
* *
96483471 GAGT-CGACGGTGATACAACAGATGGTC
1 GAGTGCGAAGGTGACACAACAGATGGTC
96483498 G
1 G
96483499 GGTCCGGCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.27, C:0.18, G:0.39, T:0.16
Consensus pattern (28 bp):
GAGTGCGAAGGTGACACAACAGATGGTC
Found at i:96483573 original size:13 final size:13
Alignment explanation
Indices: 96483555--96483587 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
96483545 TAGGGTTAGG
96483555 GGGAAAATTTTAA
1 GGGAAAATTTTAA
*
96483568 GGGAAAATTTTAG
1 GGGAAAATTTTAA
96483581 GGGAAAA
1 GGGAAAA
96483588 ACACTTAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.24
Consensus pattern (13 bp):
GGGAAAATTTTAA
Found at i:96484133 original size:18 final size:18
Alignment explanation
Indices: 96484098--96484132 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
96484088 TAGATTTATT
*
96484098 TAATATATAATTTAAAAA
1 TAATATATAATTAAAAAA
96484116 TAATATA-AATTAAAAAA
1 TAATATATAATTAAAAAA
96484133 AATCAACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATATATAATTAAAAAA
Found at i:96484272 original size:26 final size:27
Alignment explanation
Indices: 96484243--96484317 Score: 118
Period size: 26 Copynumber: 2.9 Consensus size: 27
96484233 AAGAATTAGA
*
96484243 TAAAATTTGAAATATTGAAAATTATT-
1 TAAAATTTGAAATCTTGAAAATTATTC
96484269 TAAAATTTGAAATCTTGAAAATTATTC
1 TAAAATTTGAAATCTTGAAAATTATTC
*
96484296 T-AAATTTGAAATCTTTAAAATT
1 TAAAATTTGAAATCTTGAAAATT
96484318 TGAATTTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 45 0.98
27 1 0.02
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.43
Consensus pattern (27 bp):
TAAAATTTGAAATCTTGAAAATTATTC
Found at i:96484606 original size:15 final size:16
Alignment explanation
Indices: 96484562--96484608 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
96484552 TATACCATAT
96484562 AAACCCC-AAACCAT-
1 AAACCCCTAAACCATG
96484576 AAACCCCTAAACCATG
1 AAACCCCTAAACCATG
*
96484592 AAA-CCTTAAACCATG
1 AAACCCCTAAACCATG
96484607 AA
1 AA
96484609 TAACCACTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 7 0.23
15 20 0.67
16 3 0.10
ACGTcount: A:0.49, C:0.34, G:0.04, T:0.13
Consensus pattern (16 bp):
AAACCCCTAAACCATG
Found at i:96484788 original size:23 final size:23
Alignment explanation
Indices: 96484733--96484788 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
96484723 TTAATTAAAC
* *
96484733 CCCT-TAACCACT-AACCCGTAT
1 CCCTATAACCATTAAACCCGTAA
*
96484754 CCCTTTAACCATTAAACCCGTAA
1 CCCTATAACCATTAAACCCGTAA
96484777 CCC-ATAATCCAT
1 CCCTATAA-CCAT
96484789 AACCCTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 4 0.14
22 10 0.34
23 15 0.52
ACGTcount: A:0.32, C:0.39, G:0.04, T:0.25
Consensus pattern (23 bp):
CCCTATAACCATTAAACCCGTAA
Found at i:96484817 original size:21 final size:21
Alignment explanation
Indices: 96484776--96484818 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
96484766 TAAACCCGTA
*
96484776 ACCCATAATCCATAACCCTTT
1 ACCCATAATCCATAACACTTT
*
96484797 ACCCACTAATCCCTAA-ACTTT
1 ACCCA-TAATCCATAACACTTT
96484818 A
1 A
96484819 AACCACAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
ACCCATAATCCATAACACTTT
Found at i:96485198 original size:28 final size:29
Alignment explanation
Indices: 96485158--96485212 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
96485148 AATAAATTGT
*
96485158 ATTTTAATCAATATAA-ATATAAATAAACC
1 ATTTAAATCAATA-AATATATAAATAAACC
*
96485187 ATTTAAAT-AATAAATATATACATAAA
1 ATTTAAATCAATAAATATATAAATAAA
96485213 ATACTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (29 bp):
ATTTAAATCAATAAATATATAAATAAACC
Found at i:96485648 original size:15 final size:17
Alignment explanation
Indices: 96485621--96485654 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
96485611 TAATGTATGG
96485621 AAATAATTATTTT-ATA
1 AAATAATTATTTTAATA
96485637 AAATAA-TATTTTAATA
1 AAATAATTATTTTAATA
96485653 AA
1 AA
96485655 TTCAAAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATAATTATTTTAATA
Found at i:96497645 original size:20 final size:20
Alignment explanation
Indices: 96497599--96497639 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
96497589 ATAAATTATT
* *
96497599 AATAATTTTAAAATTTTAAA
1 AATAATTATAAAATTATAAA
96497619 AATAATTATAAAATTATAAA
1 AATAATTATAAAATTATAAA
96497639 A
1 A
96497640 TCAATTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AATAATTATAAAATTATAAA
Found at i:96499985 original size:27 final size:26
Alignment explanation
Indices: 96499937--96499996 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
96499927 ACGAAGCTGC
*
96499937 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
96499964 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
96499990 TAGATAT
1 CAGATAT
96499997 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:96500094 original size:67 final size:67
Alignment explanation
Indices: 96499997--96500172 Score: 307
Period size: 67 Copynumber: 2.6 Consensus size: 67
96499987 GAATAGATAT
* * *
96499997 ATATATGTGGCAAAGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAATCACCAGAAC
96500062 AG
66 AG
* *
96500064 ATATATGTGGCGAGGCCACCAAATTGCAGCGAGGCTGCCAAATATTGTGACGAAATCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAATCACCAGAAC
96500129 AG
66 AG
96500131 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGA
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGA
96500173 ACGCTTCCTC
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 102 1.00
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.18
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAATCACCAGAAC
AG
Found at i:96500769 original size:26 final size:27
Alignment explanation
Indices: 96500740--96500793 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
96500730 TCACACAAGT
96500740 TAGTCATTT-ACACACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* * *
96500766 TAGTCATTTAATACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
96500793 T
1 T
96500794 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:96500824 original size:27 final size:27
Alignment explanation
Indices: 96500794--96500962 Score: 257
Period size: 27 Copynumber: 6.3 Consensus size: 27
96500784 GGGGCAAAAT
* * * *
96500794 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
96500821 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * **
96500848 GATATTTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
96500875 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
96500902 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
96500929 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
96500956 GGTAATT
1 GGTAATT
96500963 ATAAAACTTA
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:96507454 original size:43 final size:43
Alignment explanation
Indices: 96507393--96507477 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
96507383 GGCCCAGTAC
96507393 AGAAATCAGAATGAAACCCATAGGCCCATAGCAGATACAGAAT
1 AGAAATCAGAATGAAACCCATAGGCCCATAGCAGATACAGAAT
96507436 AGAAATCAGAATGAAACCCATAGGCCCATAGCAGATACAGAA
1 AGAAATCAGAATGAAACCCATAGGCCCATAGCAGATACAGAA
96507478 CAAATATATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (43 bp):
AGAAATCAGAATGAAACCCATAGGCCCATAGCAGATACAGAAT
Found at i:96507755 original size:27 final size:26
Alignment explanation
Indices: 96507707--96507758 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96507697 GCGAGGCTGC
*
96507707 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
96507733 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
96507759 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:96508029 original size:8 final size:8
Alignment explanation
Indices: 96508016--96508047 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
96508006 TACCAAAGTG
96508016 GGCCCGTT
1 GGCCCGTT
96508024 GGCCCGTT
1 GGCCCGTT
*
96508032 GGCCCATT
1 GGCCCGTT
96508040 GGCCCGTT
1 GGCCCGTT
96508048 TTCGGCCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.38, G:0.34, T:0.25
Consensus pattern (8 bp):
GGCCCGTT
Found at i:96508451 original size:27 final size:27
Alignment explanation
Indices: 96508421--96508535 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 27
96508411 GGGGCAAAAT
* * *
96508421 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
96508448 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
96508475 GATATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
96508502 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
96508529 GATAATT
1 GGTAATT
96508536 ATACAACTTA
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:96508814 original size:21 final size:21
Alignment explanation
Indices: 96508788--96508827 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
96508778 AAGCCAGCAG
*
96508788 TCCATCTCCTCTTATGTTATC
1 TCCATCTACTCTTATGTTATC
96508809 TCCATCTACTCTTATGTTA
1 TCCATCTACTCTTATGTTA
96508828 GCTTCCCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.30, G:0.05, T:0.47
Consensus pattern (21 bp):
TCCATCTACTCTTATGTTATC
Found at i:96514635 original size:15 final size:17
Alignment explanation
Indices: 96514610--96514641 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
96514600 GGACTACATA
96514610 TTTTTAGTATT-ACTTT
1 TTTTTAGTATTGACTTT
96514626 TTTTTA-TATTGACTTT
1 TTTTTAGTATTGACTTT
96514642 GAGGTCAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTTAGTATTGACTTT
Found at i:96518446 original size:28 final size:30
Alignment explanation
Indices: 96518414--96518471 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
96518404 GACTCTAGTG
96518414 TTTTAGATTTA-ATT-TTTTTCTAGATTTA
1 TTTTAGATTTAGATTATTTTTCTAGATTTA
96518442 TTTTAGATTTAGATTGATTTTTCTAGATTT
1 TTTTAGATTTAGATT-ATTTTTCTAGATTT
96518472 TATAAGAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 11 0.41
29 3 0.11
31 13 0.48
ACGTcount: A:0.24, C:0.03, G:0.10, T:0.62
Consensus pattern (30 bp):
TTTTAGATTTAGATTATTTTTCTAGATTTA
Found at i:96519282 original size:29 final size:29
Alignment explanation
Indices: 96519240--96519297 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
96519230 CTAAAAGCAG
96519240 TCATTTAATAGAGGTAACATATTGTTGGA
1 TCATTTAATAGAGGTAACATATTGTTGGA
96519269 TCATTTAATAGAGGTAACATATTGTTGGA
1 TCATTTAATAGAGGTAACATATTGTTGGA
96519298 ATATGACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (29 bp):
TCATTTAATAGAGGTAACATATTGTTGGA
Found at i:96526153 original size:109 final size:109
Alignment explanation
Indices: 96525955--96526155 Score: 294
Period size: 109 Copynumber: 1.8 Consensus size: 109
96525945 ACTTTGAAGA
*
96525955 TTTAAAAGGATATTTGGCTATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGAGCACGTTT
1 TTTAAAAGGATATTTGGCCATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGAGCACGTTT
** * * *
96526020 TCTCGATTTTTCTAAATACGAAATATTACCTTTATTATTGAAAG
66 TCTCGAACTTTCCAAACACAAAATATTACCTTTATTATTGAAAG
* ** * *
96526064 TTTAAAAGGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCCATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGAGCACGTTT
*
96526129 TCTCGAACTTTCCAAACGCAAAATATT
66 TCTCGAACTTTCCAAACACAAAATATT
96526156 GCTTTTACGA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
109 80 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGCCATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGAGCACGTTT
TCTCGAACTTTCCAAACACAAAATATTACCTTTATTATTGAAAG
Found at i:96526383 original size:15 final size:15
Alignment explanation
Indices: 96526363--96526392 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
96526353 AATAATAATT
96526363 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
96526378 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
96526393 GCTAAGTGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:96526492 original size:15 final size:15
Alignment explanation
Indices: 96526474--96526504 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
96526464 AAAAATATTA
96526474 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
96526489 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
96526504 A
1 A
96526505 GAAAATAATA
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:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:96526858 original size:19 final size:17
Alignment explanation
Indices: 96526823--96526882 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
96526813 AAAAATAGTG
96526823 ATAATATAACAAGAATA
1 ATAATATAACAAGAATA
*
96526840 GTAATATAACAAGAGAATA
1 ATAATATAAC-A-AGAATA
* *
96526859 ATAATAATAATAATAATA
1 ATAAT-ATAACAAGAATA
96526877 ATAATA
1 ATAATA
96526883 ATAATAGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 10 0.28
18 11 0.31
19 11 0.31
20 4 0.11
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (17 bp):
ATAATATAACAAGAATA
Found at i:96526863 original size:3 final size:3
Alignment explanation
Indices: 96526855--96526930 Score: 89
Period size: 3 Copynumber: 24.3 Consensus size: 3
96526845 ATAACAAGAG
*
96526855 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT GGAGAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT --A-AT AAT
* * *
96526903 AAT AAT AAT AAT GAT ACT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
96526931 TAAATAAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
3 58 0.94
4 1 0.02
5 1 0.02
6 2 0.03
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:96527874 original size:20 final size:19
Alignment explanation
Indices: 96527841--96527893 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
96527831 TCGCGAAGAG
* *
96527841 AAAAAAAAATAAAAGAAAAT
1 AAAAAGAAA-AAAACAAAAT
*
96527861 ACAAAAGAAAAAAACTAAAT
1 A-AAAAGAAAAAAACAAAAT
*
96527881 AAAAATAAAAAAA
1 AAAAAGAAAAAAA
96527894 AGAACCAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 11 0.39
20 10 0.36
21 7 0.25
ACGTcount: A:0.83, C:0.04, G:0.04, T:0.09
Consensus pattern (19 bp):
AAAAAGAAAAAAACAAAAT
Found at i:96527879 original size:26 final size:26
Alignment explanation
Indices: 96527842--96527892 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
96527832 CGCGAAGAGA
*
96527842 AAAAAAAATAAA-AGAAAATACAAAAG
1 AAAAAAAATAAATA-AAAATAAAAAAG
*
96527868 AAAAAAACTAAATAAAAATAAAAAA
1 AAAAAAAATAAATAAAAATAAAAAA
96527893 AAGAACCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.82, C:0.04, G:0.04, T:0.10
Consensus pattern (26 bp):
AAAAAAAATAAATAAAAATAAAAAAG
Found at i:96528220 original size:22 final size:22
Alignment explanation
Indices: 96528168--96528220 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
96528158 GGTGTCAGAC
*
96528168 GGTATGGGACTGTTGTAGTGGA
1 GGTATGGGGCTGTTGTAGTGGA
*
96528190 GGTATGGGGCTGTTGTAGTGGG
1 GGTATGGGGCTGTTGTAGTGGA
96528212 GGTATGGGG
1 GGTATGGGG
96528221 TTTGGTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.13, C:0.04, G:0.53, T:0.30
Consensus pattern (22 bp):
GGTATGGGGCTGTTGTAGTGGA
Found at i:96528820 original size:46 final size:46
Alignment explanation
Indices: 96528722--96528823 Score: 123
Period size: 46 Copynumber: 2.2 Consensus size: 46
96528712 CCACTTCCTA
* * * * * * **
96528722 CCAATATAGGGAGGCAGGATCTGCTATCTTCGATCTATTTCGTTGC
1 CCAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
*
96528768 CGAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
1 CCAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
96528814 CCAATACAGG
1 CCAATACAGG
96528824 GAGATAGAGT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (46 bp):
CCAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
Found at i:96528968 original size:229 final size:229
Alignment explanation
Indices: 96528554--96528991 Score: 723
Period size: 229 Copynumber: 1.9 Consensus size: 229
96528544 TTAGGGAGAT
* * *
96528554 AAGACCTGAAATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTCATCGGCTTCAATG
1 AAGACCTGAAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTCATCAGCTTCAACG
* * * * * *
96528619 TACTCCATTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTGTTCCACTGCCAAA
66 TACCCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGACCTGCAATCTATTCCACTGCCAAA
*
96528684 TACAGGGAGATAGAGTCTGTTTTTCAATCCACTTCCTACCAATATAGGGAGGCAGGATCTGCTAT
131 TACAGGGAGATAGAGTCTGTTTTTCAATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTAT
96528749 CTTCGATCTATTTCGTTGCCGAATACAGGAAGGC
196 CTTCGATCTATTTCGTTGCCGAATACAGGAAGGC
* * * *
96528783 AAGATCTGCAATCTTCAATCTATTCCACTGCCCAATACAGGGAGATAGAGTTATCAGCTTCAACG
1 AAGACCTGAAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTCATCAGCTTCAACG
* * *
96528848 TACCCCACTGTAGTCAGGGAGGTAAAGTCTGCCGTCTTCGACCTGCAATCTATTCCACTGCTAAA
66 TACCCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGACCTGCAATCTATTCCACTGCCAAA
96528913 TACAGGGAGATAGAGTCTGTTTTTCAATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTAT
131 TACAGGGAGATAGAGTCTGTTTTTCAATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTAT
96528978 CTTCGATCTATTTC
196 CTTCGATCTATTTC
96528992 ACATCAATAT
Statistics
Matches: 192, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
229 192 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (229 bp):
AAGACCTGAAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTCATCAGCTTCAACG
TACCCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGACCTGCAATCTATTCCACTGCCAAA
TACAGGGAGATAGAGTCTGTTTTTCAATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTAT
CTTCGATCTATTTCGTTGCCGAATACAGGAAGGC
Found at i:96529016 original size:44 final size:44
Alignment explanation
Indices: 96528950--96529429 Score: 317
Period size: 44 Copynumber: 10.9 Consensus size: 44
96528940 TCCACTTCCT
* * * *
96528950 ACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCTATTTCAC
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
96528994 ATCAATATATGAAAATAAGATCTGCTTTCTTCGATCTAATTCGCC
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* ** * *
96529039 ACCAGTATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-C
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* ** * * *
96529081 TACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCAC
1 -ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * *
96529126 GCCAATACATGAAGACAAGATCTGCTTTCTTCGGTCTACTTC-C
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
96529169 TACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTTCAC
1 -ACC-AATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
96529215 ATCAATATATGAAAATAAGATCTGCTTTCTTCGATCTAATTCGCC
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* ** * * *
96529260 ACCAGTATGGGAAGACAAGATCTGC-GTCGTCGATCCACTTC-C
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* ** * * *
96529302 TACCAATATAGGAAGACTGGACCTGTTATCTTTGATCTACTTCAC
1 -ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *
96529347 GCCAATACATGAAGACAAGATCTGCTTTCTTC-AGTCTACTTC-C
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGA-TCTACTTCAC
* * * * *
96529390 TACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTA
1 -ACC-AATATATGAAGACAAGATCTGCTATCTTCGATCTA
96529430 TTCCACTGCC
Statistics
Matches: 330, Mismatches: 91, Indels: 29
0.73 0.20 0.06
Matches are distributed among these distances:
42 2 0.01
43 41 0.12
44 180 0.55
45 105 0.32
46 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (44 bp):
ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
Found at i:96529219 original size:221 final size:221
Alignment explanation
Indices: 96528943--96529431 Score: 899
Period size: 221 Copynumber: 2.2 Consensus size: 221
96528933 TTTTCAATCC
* * * * *
96528943 ACTTCCTACC-AATATAGGAAGGCAGGATCTGCTATCTTCGATCTATTTCACATCAATATATGAA
1 ACTTCCTACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTTCACATCAATATATGAA
96529007 AATAAGATCTGCTTTCTTCGATCTAATTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGA
66 AATAAGATCTGCTTTCTTCGATCTAATTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGA
96529072 TCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATACATG
131 TCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATACATG
*
96529137 AAGACAAGATCTGCTTTCTTCGGTCT
196 AAGACAAGATCTGCTTTCTTCAGTCT
96529163 ACTTCCTACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTTCACATCAATATATGAA
1 ACTTCCTACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTTCACATCAATATATGAA
*
96529228 AATAAGATCTGCTTTCTTCGATCTAATTCGCCACCAGTATGGGAAGACAAGATCTGCGTCGTCGA
66 AATAAGATCTGCTTTCTTCGATCTAATTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGA
*
96529293 TCCACTTCCTACCAATATAGGAAGACTGGACCTGTTATCTTTGATCTACTTCACGCCAATACATG
131 TCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATACATG
96529358 AAGACAAGATCTGCTTTCTTCAGTCT
196 AAGACAAGATCTGCTTTCTTCAGTCT
96529384 ACTTCCTACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATT
1 ACTTCCTACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATT
96529432 CCACTGCCCG
Statistics
Matches: 260, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
220 10 0.04
221 250 0.96
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (221 bp):
ACTTCCTACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTTCACATCAATATATGAA
AATAAGATCTGCTTTCTTCGATCTAATTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGA
TCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATACATG
AAGACAAGATCTGCTTTCTTCAGTCT
Found at i:96529558 original size:46 final size:46
Alignment explanation
Indices: 96529336--96529855 Score: 188
Period size: 46 Copynumber: 11.6 Consensus size: 46
96529326 GTTATCTTTG
* * * * **
96529336 ATCTACTTCAC-GCC-AATACATGAAGACAAGATCTGCTTTCTTCA
1 ATCTGCTTCACTGCCTAATACAGGGAGGCAAGATCTGCAATCTTCA
* * * * *
96529380 GTCTACTTC-CTACCTAATACAAGAAGGCAAGATCTGCAATCTTCA
1 ATCTGCTTCACTGCCTAATACAGGGAGGCAAGATCTGCAATCTTCA
* ** ** * * **
96529425 ATCT-ATTCCACTGCCCGATACAGGGAGATAGAGTTAT-C-GGCTTCA
1 ATCTGCTT-CACTGCCTAATACAGGGAGGCA-AGATCTGCAATCTTCA
* * * * * * *
96529470 ATGTACTCCACTG--TAGTCACAGGGAGGCAAAATCTGCCATCTTCG
1 ATCTGCTTCACTGCCTAAT-ACAGGGAGGCAAGATCTGCAATCTTCA
* *
96529515 ATCTGCTTCGCTGCCTAATACAGGAAGGCAAGATCTGCAATCTTCA
1 ATCTGCTTCACTGCCTAATACAGGGAGGCAAGATCTGCAATCTTCA
* ** * * **
96529561 ATCT-ATTCCACTGCC-AGATACAGGGAGATAGAGTTAT-C-GGCTTCA
1 ATCTGCTT-CACTGCCTA-ATACAGGGAGGCA-AGATCTGCAATCTTCA
* * * * * * * *
96529606 ATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTCG
1 ATCTGCTTCACTGCCTAATACAGGGAGGCAAGATCTGCAATCTTCA
* * *
96529649 ATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCA
1 ATCTGCTTCACTGCCTAATACAGGGAGGCAAGATCTGCAATCTTCA
* ** * * **
96529695 ATCT-ATTCCACTGCC-AGATACAGGGAGATAGAGTTAT-C-GGCTTCA
1 ATCTGCTT-CACTGCCTA-ATACAGGGAGGCA-AGATCTGCAATCTTCA
* * * * * * * *
96529740 ATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTCG
1 ATCTGCTTCACTGCCTAATACAGGGAGGCAAGATCTGCAATCTTCA
* *
96529783 ATCTGCTTCGCTGCCTAATACAGGAAGGCAAGATCTGCAATCTTCA
1 ATCTGCTTCACTGCCTAATACAGGGAGGCAAGATCTGCAATCTTCA
*
96529829 ATCT-ATTCCACTGCC-AGATACAGGGAG
1 ATCTGCTT-CACTGCCTA-ATACAGGGAG
96529856 ATAGAGTTAT
Statistics
Matches: 337, Mismatches: 106, Indels: 64
0.66 0.21 0.13
Matches are distributed among these distances:
41 6 0.02
42 20 0.06
43 33 0.10
44 24 0.07
45 96 0.28
46 143 0.42
47 15 0.04
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (46 bp):
ATCTGCTTCACTGCCTAATACAGGGAGGCAAGATCTGCAATCTTCA
Found at i:96529963 original size:134 final size:134
Alignment explanation
Indices: 96529395--96529953 Score: 1055
Period size: 134 Copynumber: 4.2 Consensus size: 134
96529385 CTTCCTACCT
* *
96529395 AATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCCGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
*
96529460 ATCGGCTTCAATGTACTCCACTGTAGTCACAGGGAGGCAAAATCTGCCATCTTCGATCTGCTTCG
66 ATCGGCTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCG
*
96529525 CTGCCT
129 CTGCCA
96529531 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
96529596 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
66 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
96529661 GCCA
131 GCCA
96529665 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
96529730 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
66 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
*
96529795 GCCT
131 GCCA
96529799 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
96529864 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
66 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
96529929 GCCA
131 GCCA
96529933 AATACAGGAAGGCAAGATCTG
1 AATACAGGAAGGCAAGATCTG
96529954 ATAACTTCAA
Statistics
Matches: 417, Mismatches: 6, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
134 327 0.78
136 90 0.22
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.26
Consensus pattern (134 bp):
AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
GCCA
Found at i:96535825 original size:109 final size:109
Alignment explanation
Indices: 96535627--96535827 Score: 285
Period size: 109 Copynumber: 1.8 Consensus size: 109
96535617 ACTTTGAAGA
* *
96535627 TTTAAGAGGATATTTGGCTATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCCATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
** * *
96535692 TCTCGATTTTTCTAAATACAAAATATTACCTTTATTATTGAAAG
66 TCTCGAACTTTCCAAACACAAAATATTACCTTTATTATTGAAAG
* ** * *
96535736 TTTAAAAGGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCATGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCCATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
* *
96535801 TCTCGAACTTTCCAAACGCGAAATATT
66 TCTCGAACTTTCCAAACACAAAATATT
96535828 GCTTTTACGA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
109 79 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGCCATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
TCTCGAACTTTCCAAACACAAAATATTACCTTTATTATTGAAAG
Found at i:96536055 original size:15 final size:15
Alignment explanation
Indices: 96536035--96536064 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
96536025 AATAATAATT
96536035 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
96536050 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
96536065 GCTAAGTGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:96536164 original size:15 final size:15
Alignment explanation
Indices: 96536146--96536176 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
96536136 AAAAATATTA
96536146 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
96536161 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
96536176 A
1 A
96536177 GAAAATAATA
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:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:96536528 original size:19 final size:17
Alignment explanation
Indices: 96536493--96536567 Score: 71
Period size: 18 Copynumber: 4.4 Consensus size: 17
96536483 AAAAATAGTG
96536493 ATAATATAACAAGAATA
1 ATAATATAACAAGAATA
* *
96536510 GTAATATAACAAG-AGA
1 ATAATATAACAAGAATA
* *
96536526 ATAATAATAATAATAATA
1 ATAAT-ATAACAAGAATA
* *
96536544 ATAATAATAATAATAATA
1 ATAAT-ATAACAAGAATA
96536562 ATAATA
1 ATAATA
96536568 GTAATGGAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
16 6 0.12
17 19 0.38
18 25 0.50
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (17 bp):
ATAATATAACAAGAATA
Found at i:96536533 original size:3 final size:3
Alignment explanation
Indices: 96536525--96536609 Score: 107
Period size: 3 Copynumber: 27.3 Consensus size: 3
96536515 ATAACAAGAG
*
96536525 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
96536573 GGAGAT AAT AAT AAT AAT AAT GAT ACT AAC AAT AAT A
1 --A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
96536610 TAAATAAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
3 67 0.94
4 1 0.01
5 1 0.01
6 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:96537550 original size:20 final size:19
Alignment explanation
Indices: 96537517--96537572 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
96537507 TCGCGAAGAG
*
96537517 AAAAAAAAATAAAAGAAAAT
1 AAAAAGAAA-AAAAGAAAAT
**
96537537 ACAAAAGAAAAAAACTAAAT
1 A-AAAAGAAAAAAAGAAAAT
*
96537557 AAAAATAAAAAAAGAA
1 AAAAAGAAAAAAAGAA
96537573 CCAAGAACAC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 12 0.41
20 10 0.34
21 7 0.24
ACGTcount: A:0.82, C:0.04, G:0.05, T:0.09
Consensus pattern (19 bp):
AAAAAGAAAAAAAGAAAAT
Found at i:96537555 original size:26 final size:26
Alignment explanation
Indices: 96537518--96537568 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
96537508 CGCGAAGAGA
*
96537518 AAAAAAAATAAA-AGAAAATACAAAAG
1 AAAAAAAATAAATA-AAAATAAAAAAG
*
96537544 AAAAAAACTAAATAAAAATAAAAAA
1 AAAAAAAATAAATAAAAATAAAAAA
96537569 AGAACCAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.82, C:0.04, G:0.04, T:0.10
Consensus pattern (26 bp):
AAAAAAAATAAATAAAAATAAAAAAG
Found at i:96537895 original size:22 final size:22
Alignment explanation
Indices: 96537843--96537895 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
96537833 GGTGTCAGAC
*
96537843 GGTATGGGACTGTTGTAGTGGA
1 GGTATGGGGCTGTTGTAGTGGA
*
96537865 GGTATGGGGCTGTTGTAGTGGG
1 GGTATGGGGCTGTTGTAGTGGA
96537887 GGTATGGGG
1 GGTATGGGG
96537896 TTTGGTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.13, C:0.04, G:0.53, T:0.30
Consensus pattern (22 bp):
GGTATGGGGCTGTTGTAGTGGA
Done.