Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 13 of 290
Found at i:4592718 original size:3 final size:3
Alignment explanation
Indices: 4592710--4592765 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
4592700 AATAAATAGG
4592710 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4592758 TAA TAA TA
1 TAA TAA TA
4592766 GGACTAATTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4593564 original size:11 final size:11
Alignment explanation
Indices: 4593538--4593570 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
4593528 AAACGATTGC
4593538 AGAAAAAT-AA
1 AGAAAAATAAA
*
4593548 ACAAAAATAAA
1 AGAAAAATAAA
4593559 AGAAAAATAAA
1 AGAAAAATAAA
4593570 A
1 A
4593571 TGAATAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (11 bp):
AGAAAAATAAA
Found at i:4605227 original size:39 final size:36
Alignment explanation
Indices: 4605184--4605347 Score: 105
Period size: 41 Copynumber: 4.2 Consensus size: 36
4605174 TAAAAAACAT
4605184 TAAAAAAATATAAAAATTTATAAATATCATAATAACTTA
1 TAAAAAAATATAAAAATTTATAAA-AT-ATAATAA-TTA
* * * * * * *
4605223 TAAAATAATTCTAAAAA-TCATAAAGATTTTATATTTT
1 TAAAA-AAATATAAAAATTTATAAA-ATATAATAATTA
* * *
4605260 TAAAAAATTATAAAAACTTATAAAAAAACTAATAAATTA
1 TAAAAAAATATAAAAATTTAT-AAAATA-TAAT-AATTA
*
4605299 TAAAAAAATGTATAAAAATGTATAAAAATATATATGAATTA
1 TAAAAAAA--TATAAAAATTTAT-AAAATATA-AT-AATTA
4605340 TAAAAAAA
1 TAAAAAAA
4605348 AATCATTTAT
Statistics
Matches: 97, Mismatches: 20, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
36 10 0.10
37 11 0.11
38 10 0.10
39 23 0.24
40 11 0.11
41 32 0.33
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (36 bp):
TAAAAAAATATAAAAATTTATAAAATATAATAATTA
Found at i:4605284 original size:9 final size:10
Alignment explanation
Indices: 4605260--4605326 Score: 59
Period size: 10 Copynumber: 6.6 Consensus size: 10
4605250 TTTATATTTT
4605260 TAAAAAATTA
1 TAAAAAATTA
*
4605270 TAAAAACTTA
1 TAAAAAATTA
4605280 TAAAAAA--A
1 TAAAAAATTA
*
4605288 CTAATAAATTA
1 -TAAAAAATTA
4605299 TAAAAAAATGTA
1 T-AAAAAAT-TA
4605311 T-AAAAATGTA
1 TAAAAAAT-TA
4605321 TAAAAA
1 TAAAAA
4605327 TATATATGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
8 1 0.02
9 6 0.13
10 26 0.55
11 11 0.23
12 3 0.06
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:4605299 original size:19 final size:19
Alignment explanation
Indices: 4605260--4605347 Score: 79
Period size: 19 Copynumber: 4.4 Consensus size: 19
4605250 TTTATATTTT
* *
4605260 TAAAAAATTATAAAAACTTA
1 TAAAAAAATATATAAA-TTA
4605280 TAAAAAAACTA-ATAAATTA
1 TAAAAAAA-TATATAAATTA
*
4605299 TAAAAAAATGTATAAAAATGTA
1 TAAAAAAA--TATATAAAT-TA
* *
4605321 TAAAAATATATATGAATTA
1 TAAAAAAATATATAAATTA
4605340 TAAAAAAA
1 TAAAAAAA
4605348 AATCATTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
19 20 0.36
20 20 0.36
21 7 0.12
22 9 0.16
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.28
Consensus pattern (19 bp):
TAAAAAAATATATAAATTA
Found at i:4605313 original size:41 final size:40
Alignment explanation
Indices: 4605261--4605347 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 40
4605251 TTATATTTTT
4605261 AAAAAATTATAAAAACT-TATAAAAAAACTA-ATAAATTATA
1 AAAAAATTATAAAAA-TGTATAAAAAAA-TATATAAATTATA
* *
4605301 AAAAAATGTATAAAAATGTATAAAAATATATATGAATTATA
1 AAAAAAT-TATAAAAATGTATAAAAAAATATATAAATTATA
4605342 AAAAAA
1 AAAAAA
4605348 AATCATTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
40 10 0.24
41 32 0.76
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (40 bp):
AAAAAATTATAAAAATGTATAAAAAAATATATAAATTATA
Found at i:4621482 original size:152 final size:152
Alignment explanation
Indices: 4621300--4621603 Score: 563
Period size: 152 Copynumber: 2.0 Consensus size: 152
4621290 TTACCACTAA
*
4621300 ACCAGCAGATACATTCTTATTAACAATTAAGCAAAAATATAATATAACCCTTACGAACCAAGTCA
1 ACCAGCAGACACATTCTTATTAACAATTAAGCAAAAATATAATATAACCCTTACGAACCAAGTCA
* *
4621365 GATATAATTTCAAAATTAATAGAAATATTCCATATGCAAAAAAAACGAACACAAGTCCTAAAACA
66 GATATAATTTCAAAATTAATAGAAATATTCCATATACAAAAAAAAAGAACACAAGTCCTAAAACA
4621430 CACAACCAGAACACCTAACCAC
131 CACAACCAGAACACCTAACCAC
4621452 ACCAGCAGACACATTCTTATTAACAATTAAGCAAAAATATAATATAACCCTTACGAACCAAGTCA
1 ACCAGCAGACACATTCTTATTAACAATTAAGCAAAAATATAATATAACCCTTACGAACCAAGTCA
* *
4621517 GATATAATTTCAAAATTAATGGAAATATTCCATATACAAAAAAAAAGAACACAAGTCCTCAAACA
66 GATATAATTTCAAAATTAATAGAAATATTCCATATACAAAAAAAAAGAACACAAGTCCTAAAACA
4621582 CACAACCAGAACACCTAACCAC
131 CACAACCAGAACACCTAACCAC
4621604 TGAACCAGAT
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
152 147 1.00
ACGTcount: A:0.49, C:0.23, G:0.07, T:0.21
Consensus pattern (152 bp):
ACCAGCAGACACATTCTTATTAACAATTAAGCAAAAATATAATATAACCCTTACGAACCAAGTCA
GATATAATTTCAAAATTAATAGAAATATTCCATATACAAAAAAAAAGAACACAAGTCCTAAAACA
CACAACCAGAACACCTAACCAC
Found at i:4628020 original size:36 final size:35
Alignment explanation
Indices: 4627966--4628034 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
4627956 AAATAGTATT
* * *
4627966 ATTATTTTTATGTATTAAACCAATAATTTATATTTA
1 ATTATTATTATATATTAAA-CAATAATTCATATTTA
* *
4628002 ATTATTATTATATTTTAAACTATAATTCATATT
1 ATTATTATTATATATTAAACAATAATTCATATT
4628035 AAAAGTATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 12 0.43
36 16 0.57
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (35 bp):
ATTATTATTATATATTAAACAATAATTCATATTTA
Found at i:4634209 original size:38 final size:39
Alignment explanation
Indices: 4634125--4634259 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
4634115 ACCAATATGG
*
4634125 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
4634164 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
4634202 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
4634243 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
4634260 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:4635841 original size:5 final size:5
Alignment explanation
Indices: 4635823--4635873 Score: 93
Period size: 5 Copynumber: 10.0 Consensus size: 5
4635813 TTTCTTTTAT
4635823 ATATA ATAATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
4635874 CTTAATTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 40 0.89
6 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:4636706 original size:24 final size:24
Alignment explanation
Indices: 4636670--4636721 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
4636660 GAGTTTAAGC
*
4636670 GAGCCATGTCAGGAAGCTCAT-AA
1 GAGCCATATCAGGAAGCTCATAAA
*
4636693 GAGCCTATATCAGGATGCTCATAAA
1 GAGCC-ATATCAGGAAGCTCATAAA
4636718 GAGC
1 GAGC
4636722 TGCGTTTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 14 0.56
25 6 0.24
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCTCATAAA
Found at i:4638398 original size:13 final size:13
Alignment explanation
Indices: 4638380--4638404 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4638370 AATAATAATC
4638380 TCATGTATCCATG
1 TCATGTATCCATG
4638393 TCATGTATCCAT
1 TCATGTATCCAT
4638405 TATCCAACAT
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:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (13 bp):
TCATGTATCCATG
Found at i:4641671 original size:38 final size:39
Alignment explanation
Indices: 4641624--4641699 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
4641614 AAATCAAAAT
4641624 TTATTTTAATATAATA-TTATAGTATTATGCATACTTTA
1 TTATTTTAATATAATATTTATAGTATTATGCATACTTTA
*
4641662 TTATTTTAATATAATATTTATAGTATTATGCGTACTTT
1 TTATTTTAATATAATATTTATAGTATTATGCATACTTT
4641700 TATTTGGTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 16 0.44
39 20 0.56
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (39 bp):
TTATTTTAATATAATATTTATAGTATTATGCATACTTTA
Found at i:4644212 original size:3 final size:3
Alignment explanation
Indices: 4644204--4644241 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4644194 TATGTATACG
4644204 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
4644242 TTTTGTGCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:4647164 original size:23 final size:23
Alignment explanation
Indices: 4647119--4647164 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4647109 ATATTTTTCA
* *
4647119 TTTAATAATTTTAAAATAGTTAT
1 TTTAATAATATTAAAATAATTAT
4647142 TTTAATAA-ATTAAATATAATTAT
1 TTTAATAATATTAAA-ATAATTAT
4647165 GAAAATGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTAATAATATTAAAATAATTAT
Found at i:4647907 original size:20 final size:19
Alignment explanation
Indices: 4647884--4647921 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
4647874 GAAATTTTTT
*
4647884 TAAAAAAATTCATTAAAATC
1 TAAAAAAA-TAATTAAAATC
4647904 TAAAAAAATAATTAAAAT
1 TAAAAAAATAATTAAAAT
4647922 ATGAAAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAAAAAATAATTAAAATC
Found at i:4647928 original size:20 final size:20
Alignment explanation
Indices: 4647884--4647928 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
4647874 GAAATTTTTT
* *
4647884 TAAAAAAATTCATTAAAATC
1 TAAAAAAATTAATTAAAATA
4647904 TAAAAAAA-TAATTAAAATA
1 TAAAAAAATTAATTAAAATA
*
4647923 TGAAAA
1 TAAAAA
4647929 CCCAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAAAAAATTAATTAAAATA
Found at i:4654130 original size:34 final size:35
Alignment explanation
Indices: 4654092--4654158 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
4654082 TAGTAAAATG
4654092 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
4654126 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
4654159 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:4656981 original size:25 final size:26
Alignment explanation
Indices: 4656953--4657013 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
4656943 GAATATGCTG
4656953 AGAAGAGAAG-ATGAAGAACAGAAGA
1 AGAAGAGAAGAATGAAGAACAGAAGA
**
4656978 AGAA-A-AAGGAATGAAGAATGGAAGA
1 AGAAGAGAA-GAATGAAGAACAGAAGA
4657003 AGAAGAAGAAG
1 AGAAG-AGAAG
4657014 GAGCCTTACC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 2 0.07
24 2 0.07
25 21 0.72
27 2 0.07
28 2 0.07
ACGTcount: A:0.61, C:0.02, G:0.33, T:0.05
Consensus pattern (26 bp):
AGAAGAGAAGAATGAAGAACAGAAGA
Found at i:4657098 original size:18 final size:17
Alignment explanation
Indices: 4657075--4657108 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
4657065 TTTGCAACAC
4657075 AAGGGGAAGGGAGAAGGG
1 AAGGGGAAGGGA-AAGGG
4657093 AAGGGGAAGGGAAAGG
1 AAGGGGAAGGGAAAGG
4657109 TTAAAGGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (17 bp):
AAGGGGAAGGGAAAGGG
Found at i:4657728 original size:21 final size:21
Alignment explanation
Indices: 4657694--4657744 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4657684 CGTTATTTTT
* * *
4657694 AATCTAACCGCTACAGTATCC
1 AATCTCACCACTACAGTAACC
*
4657715 AATCTCACCACTACAGTAACT
1 AATCTCACCACTACAGTAACC
4657736 AATCTCACC
1 AATCTCACC
4657745 GCCACCGCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.35, G:0.06, T:0.24
Consensus pattern (21 bp):
AATCTCACCACTACAGTAACC
Found at i:4663265 original size:44 final size:44
Alignment explanation
Indices: 4663202--4663290 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
4663192 TTACACTAAG
4663202 TTTTAACCCTTACTGAATTTGAATCATTATTTCTTTTTGTTATT
1 TTTTAACCCTTACTGAATTTGAATCATTATTTCTTTTTGTTATT
*
4663246 TTTTAACCCTTATTGAATTTGAATCATTATTTCTTTTTGTTATT
1 TTTTAACCCTTACTGAATTTGAATCATTATTTCTTTTTGTTATT
4663290 T
1 T
4663291 CTTCGAATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.22, C:0.12, G:0.07, T:0.58
Consensus pattern (44 bp):
TTTTAACCCTTACTGAATTTGAATCATTATTTCTTTTTGTTATT
Found at i:4666099 original size:16 final size:18
Alignment explanation
Indices: 4666078--4666115 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
4666068 ATTATTACTA
4666078 TTTTAAAGT-TTA-ATAT
1 TTTTAAAGTATTATATAT
*
4666094 TTTTAATGTATTATATAT
1 TTTTAAAGTATTATATAT
4666112 TTTT
1 TTTT
4666116 TTAAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 3 0.16
18 8 0.42
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTTAAAGTATTATATAT
Found at i:4666456 original size:6 final size:7
Alignment explanation
Indices: 4666439--4666467 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
4666429 ACCCAAATAA
4666439 TTTTTTC
1 TTTTTTC
4666446 TTTTTTC
1 TTTTTTC
4666453 TTTTTTC
1 TTTTTTC
4666460 TTTTTTC
1 TTTTTTC
4666467 T
1 T
4666468 GTGTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:4673521 original size:51 final size:51
Alignment explanation
Indices: 4673445--4673561 Score: 207
Period size: 51 Copynumber: 2.3 Consensus size: 51
4673435 TGGATCACAT
*
4673445 TTATCACTTGTCACTTGTCACTGATCAAATAAGTGTAGCTGAGGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAAATAAGTATAGCTGAGGCTACCAC
* *
4673496 TTATCACTTGTCACTTGTCACTGATCAGATAAGTATAGCTGAGGCTACGAC
1 TTATCACTTGTCACTTGTCACTGATCAAATAAGTATAGCTGAGGCTACCAC
4673547 TTATCACTTGTCACT
1 TTATCACTTGTCACT
4673562 GATCAGAAGT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAAATAAGTATAGCTGAGGCTACCAC
Found at i:4676335 original size:24 final size:24
Alignment explanation
Indices: 4676307--4676358 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4676297 TTAATAGGTC
*
4676307 AAATAAACTATGCTAATAAATACT
1 AAATAAACTATACTAATAAATACT
* *
4676331 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
4676355 AAAT
1 AAAT
4676359 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:4677447 original size:4 final size:4
Alignment explanation
Indices: 4677438--4677491 Score: 108
Period size: 4 Copynumber: 13.5 Consensus size: 4
4677428 ATCTACTTCA
4677438 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
4677486 TATG TA
1 TATG TA
4677492 ATCTAGCTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:4690029 original size:20 final size:20
Alignment explanation
Indices: 4690004--4690050 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
4689994 AAGTGCAATA
4690004 AAATTAAGTGATCTTAACAT
1 AAATTAAGTGATCTTAACAT
4690024 AAATTAAGTGATCTTAACAT
1 AAATTAAGTGATCTTAACAT
4690044 AAATTAA
1 AAATTAA
4690051 TTGGCTGAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (20 bp):
AAATTAAGTGATCTTAACAT
Found at i:4707874 original size:12 final size:12
Alignment explanation
Indices: 4707859--4707883 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4707849 TGATATATTC
4707859 TTTGAAATAATT
1 TTTGAAATAATT
4707871 TTTGAAATAATT
1 TTTGAAATAATT
4707883 T
1 T
4707884 AAGTGTTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTGAAATAATT
Found at i:4708225 original size:13 final size:14
Alignment explanation
Indices: 4708209--4708242 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
4708199 CGAAATTTTT
4708209 TAAATTAAAAAA-A
1 TAAATTAAAAAATA
*
4708222 TAAAATAAAAAATA
1 TAAATTAAAAAATA
4708236 TAAATTA
1 TAAATTA
4708243 TTTGAAAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATTAAAAAATA
Found at i:4709142 original size:16 final size:16
Alignment explanation
Indices: 4709121--4709172 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
4709111 TTTGGTTCGC
4709121 TGTATTAGATTAGAGG
1 TGTATTAGATTAGAGG
* * *
4709137 TGTATTGGATTAAAAG
1 TGTATTAGATTAGAGG
4709153 TGTATTAGATTAGAGG
1 TGTATTAGATTAGAGG
4709169 TGTA
1 TGTA
4709173 ATAGCAAATC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.29, T:0.38
Consensus pattern (16 bp):
TGTATTAGATTAGAGG
Found at i:4709428 original size:18 final size:17
Alignment explanation
Indices: 4709407--4709441 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4709397 TTATTATTAA
*
4709407 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4709425 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4709442 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4713467 original size:27 final size:27
Alignment explanation
Indices: 4713429--4713481 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
4713419 TAAAATGATG
*
4713429 TAAATGTTGTTACTAGTTAACCATAGT
1 TAAATGTTGTTACTAATTAACCATAGT
4713456 TAAATGTTGTTACTAATTAACCATAG
1 TAAATGTTGTTACTAATTAACCATAG
4713482 AATCAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (27 bp):
TAAATGTTGTTACTAATTAACCATAGT
Found at i:4713500 original size:15 final size:16
Alignment explanation
Indices: 4713470--4713502 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4713460 TGTTGTTACT
4713470 AATTAACCATAGAATC
1 AATTAACCATAGAATC
*
4713486 AATTAATCA-AGAATC
1 AATTAACCATAGAATC
4713501 AA
1 AA
4713503 AACTCAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.55, C:0.15, G:0.06, T:0.24
Consensus pattern (16 bp):
AATTAACCATAGAATC
Found at i:4713843 original size:12 final size:12
Alignment explanation
Indices: 4713817--4713855 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
4713807 AGTGCCGCCC
* *
4713817 TCTCCTTCTCCT
1 TCTCCTTTTCTT
4713829 TCTCCTTTTCTT
1 TCTCCTTTTCTT
*
4713841 TCTCTTTTTCTT
1 TCTCCTTTTCTT
4713853 TCT
1 TCT
4713856 TTTTCTCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (12 bp):
TCTCCTTTTCTT
Found at i:4713864 original size:12 final size:12
Alignment explanation
Indices: 4713828--4713869 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
4713818 CTCCTTCTCC
*
4713828 TTCTCCTTTTCT
1 TTCTCTTTTTCT
4713840 TTCTCTTTTTCT
1 TTCTCTTTTTCT
4713852 TTCT-TTTTCTCT
1 TTCTCTTTT-TCT
*
4713864 TCCTCT
1 TTCTCT
4713870 CCTTGCTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 4 0.15
12 21 0.81
13 1 0.04
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (12 bp):
TTCTCTTTTTCT
Found at i:4719355 original size:14 final size:14
Alignment explanation
Indices: 4719336--4719362 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4719326 GATAATTATT
4719336 ATAAATATTATAGG
1 ATAAATATTATAGG
4719350 ATAAATATTATAG
1 ATAAATATTATAG
4719363 AACTTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
ATAAATATTATAGG
Found at i:4728587 original size:22 final size:22
Alignment explanation
Indices: 4728552--4728594 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4728542 ATTTTACTGC
4728552 TTTATGCTGCTGTTTTACTATT
1 TTTATGCTGCTGTTTTACTATT
* * *
4728574 TTTATGTTGTTGTTTTGCTAT
1 TTTATGCTGCTGTTTTACTAT
4728595 AATTTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.09, G:0.16, T:0.63
Consensus pattern (22 bp):
TTTATGCTGCTGTTTTACTATT
Found at i:4728717 original size:16 final size:16
Alignment explanation
Indices: 4728696--4728747 Score: 104
Period size: 16 Copynumber: 3.2 Consensus size: 16
4728686 TTTGGTTCGC
4728696 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4728712 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4728728 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4728744 TGTA
1 TGTA
4728748 ATAGCAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.37, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:4729015 original size:17 final size:17
Alignment explanation
Indices: 4728975--4729114 Score: 61
Period size: 17 Copynumber: 8.6 Consensus size: 17
4728965 AACATAATTA
4728975 TTATT-AAATATAT--T
1 TTATTAAAATATATAAT
*
4728989 TT-TTATAATATATAAT
1 TTATTAAAATATATAAT
4729005 TTGA-TAAAATATATGAAT
1 TT-ATTAAAATATAT-AAT
4729023 TTATTAAAAT-TATAAT
1 TTATTAAAATATATAAT
* * *
4729039 ATA-TAATATTATAAAAT
1 TTATTAA-AATATATAAT
* *
4729056 ATAATTTAAAATA-ATTA-
1 -TTA-TTAAAATATATAAT
4729073 TTATT--AA-ATATAAT
1 TTATTAAAATATATAAT
**
4729087 TTAACAAAAATATATAAT
1 TT-ATTAAAATATATAAT
*
4729105 TTAATAAAAT
1 TTATTAAAAT
4729115 TCTTAGTATT
Statistics
Matches: 92, Mismatches: 16, Indels: 33
0.65 0.11 0.23
Matches are distributed among these distances:
12 1 0.01
13 7 0.08
14 11 0.12
15 6 0.07
16 12 0.13
17 26 0.28
18 23 0.25
19 3 0.03
20 3 0.03
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (17 bp):
TTATTAAAATATATAAT
Found at i:4729042 original size:24 final size:22
Alignment explanation
Indices: 4729012--4729060 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 22
4729002 AATTTGATAA
4729012 AATATATGAAT-TTATTAAAATTAT
1 AATATAT-AATATTA-TAAAA-TAT
4729036 AATATATAATATTATAAAATAT
1 AATATATAATATTATAAAATAT
4729058 AAT
1 AAT
4729061 TTAAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 8 0.33
24 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATAATATTATAAAATAT
Found at i:4729051 original size:15 final size:15
Alignment explanation
Indices: 4729031--4729086 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
4729021 ATTTATTAAA
*
4729031 ATTATAATATATAAT
1 ATTATAAAATATAAT
4729046 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
4729059 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
4729072 ATTATTAAATATAAT
1 ATTATAAAATATAAT
4729087 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:4729081 original size:26 final size:25
Alignment explanation
Indices: 4729041--4729103 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
4729031 ATTATAATAT
4729041 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
4729066 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
4729093 AAAATA-TATAA
1 ATAATATTATAA
4729104 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 21 0.64
27 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:4729100 original size:98 final size:102
Alignment explanation
Indices: 4728962--4729224 Score: 279
Period size: 108 Copynumber: 2.6 Consensus size: 102
4728952 TTAATCATAT
* *** * * *
4728962 TTTAACATAATTATTATTAAATAT-ATTT-TTTATAATATATAATTTGATAAAATATATGAATTT
1 TTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAAT-TAT-AA-GT
* *
4729025 ATTAAA-A-T-TAT-AATATA-TAATATTATAAAATATAA
63 ATTAAATATTATATGAATATACTAAAATCATAAAATATAA
* *
4729060 TTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
1 TTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTATAAGTATT
* *
4729125 AAATATTCTTATATGAATTTACTAAAATCATAATATATAA
66 AAATA---TTATATGAATATACTAAAATCATAAAATATAA
4729165 TACTATAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTA
1 T--T-TAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTA
4729225 AATATTCTTA
Statistics
Matches: 138, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
97 7 0.05
98 25 0.18
99 6 0.04
100 20 0.14
102 1 0.01
103 3 0.02
104 5 0.04
105 16 0.12
107 1 0.01
108 54 0.39
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (102 bp):
TTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTATAAGTATT
AAATATTATATGAATATACTAAAATCATAAAATATAA
Found at i:4737542 original size:71 final size:71
Alignment explanation
Indices: 4737464--4737606 Score: 241
Period size: 71 Copynumber: 2.0 Consensus size: 71
4737454 GGGATTAGAA
* *
4737464 AGGTTTCTAGTTAAGCTTTTGTAAAGGCTAGATGGTTTTAGTTAAGCCATAAGAACTAGGAGGTA
1 AGGTTTCTAGTTAAGCCTTTGTAAAGGCTAGATGGTTTTAGTTAAGCCATAAAAACTAGGAGGTA
4737529 GGTTCT
66 GGTTCT
* * *
4737535 AGGTTTCTATTTAAGCCTTTGTAAAGGCTAGATGGTTTTAGTTAAGTCATAAAAACTAGGAGTTA
1 AGGTTTCTAGTTAAGCCTTTGTAAAGGCTAGATGGTTTTAGTTAAGCCATAAAAACTAGGAGGTA
4737600 GGTTCT
66 GGTTCT
4737606 A
1 A
4737607 TCTTAACCTT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.36
Consensus pattern (71 bp):
AGGTTTCTAGTTAAGCCTTTGTAAAGGCTAGATGGTTTTAGTTAAGCCATAAAAACTAGGAGGTA
GGTTCT
Found at i:4738443 original size:18 final size:17
Alignment explanation
Indices: 4738400--4738444 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
4738390 TAAATACATT
4738400 TAAAAACATAAAAACAAA
1 TAAAAA-ATAAAAACAAA
*
4738418 TATTAAAATAAGAAACAAA
1 TA-AAAAATAA-AAACAAA
4738437 TAAAAAAT
1 TAAAAAAT
4738445 GAGACTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (17 bp):
TAAAAAATAAAAACAAA
Found at i:4740974 original size:26 final size:28
Alignment explanation
Indices: 4740945--4740996 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
4740935 TATTGTCATC
*
4740945 TCATTTTATTTTAT-T-TTATTTTATTT
1 TCATTTCATTTTATGTGTTATTTTATTT
4740971 TCATTTCATTTTATGTGTTATTTTAT
1 TCATTTCATTTTATGTGTTATTTTAT
4740997 GGTTCCCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 13 0.57
27 1 0.04
28 9 0.39
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.71
Consensus pattern (28 bp):
TCATTTCATTTTATGTGTTATTTTATTT
Found at i:4740980 original size:31 final size:33
Alignment explanation
Indices: 4740929--4740996 Score: 95
Period size: 31 Copynumber: 2.1 Consensus size: 33
4740919 TTTGTACATA
4740929 TTATTATATTGTCATCTCATTTTAT-T-TTATT
1 TTATTATATTGTCATCTCATTTTATGTGTTATT
* * *
4740960 TTATTTTATTTTCATTTCATTTTATGTGTTATT
1 TTATTATATTGTCATCTCATTTTATGTGTTATT
4740993 TTAT
1 TTAT
4740997 GGTTCCCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 22 0.69
32 1 0.03
33 9 0.28
ACGTcount: A:0.21, C:0.07, G:0.04, T:0.68
Consensus pattern (33 bp):
TTATTATATTGTCATCTCATTTTATGTGTTATT
Found at i:4741012 original size:5 final size:5
Alignment explanation
Indices: 4740947--4740996 Score: 64
Period size: 5 Copynumber: 9.4 Consensus size: 5
4740937 TTGTCATCTC
*
4740947 ATTTT ATTTT ATTTT ATTTT ATTTT CATTTC ATTTT ATGTGTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT -ATTTT ATTTT AT-T-TT ATTTT
4740995 AT
1 AT
4740997 GGTTCCCTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
5 30 0.75
6 6 0.15
7 4 0.10
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (5 bp):
ATTTT
Found at i:4742355 original size:16 final size:15
Alignment explanation
Indices: 4742334--4742398 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 15
4742324 CCATGCTCTC
4742334 TTTTATTTTTTGAATT
1 TTTTATTTTTT-AATT
*
4742350 TTTTATTTTTTAAAAT
1 TTTTATTTTTT-AATT
*
4742366 TTTAATTTGCTTT-ATT
1 TTTTATTT--TTTAATT
4742382 TTTTATTTTTATAATT
1 TTTTATTTTT-TAATT
4742398 T
1 T
4742399 AAAAATTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
14 2 0.05
15 1 0.03
16 34 0.85
18 3 0.08
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (15 bp):
TTTTATTTTTTAATT
Found at i:4744761 original size:20 final size:21
Alignment explanation
Indices: 4744732--4744782 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
4744722 AATTTAGTCT
4744732 TTAACATTTA-TATTTATTTT-G
1 TTAA-ATTTATTA-TTATTTTAG
*
4744753 TTAATTTTATTATTATTTTAG
1 TTAAATTTATTATTATTTTAG
4744774 TTAAATTTA
1 TTAAATTTA
4744783 ACTAATAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (21 bp):
TTAAATTTATTATTATTTTAG
Found at i:4754135 original size:36 final size:36
Alignment explanation
Indices: 4754067--4754135 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
4754057 GTACTAAAAT
* * *
4754067 TAACAATAAAATAAGAGTTATAAAATATCAAAACAA
1 TAACAACAAAATAAGAGTAATAAAATAGCAAAACAA
*
4754103 TAACAACAAAAT-AGTAGTAATATAATAGCAAAA
1 TAACAACAAAATAAG-AGTAATAAAATAGCAAAA
4754136 TGTCATCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 2 0.07
36 26 0.93
ACGTcount: A:0.62, C:0.09, G:0.07, T:0.22
Consensus pattern (36 bp):
TAACAACAAAATAAGAGTAATAAAATAGCAAAACAA
Found at i:4766047 original size:15 final size:14
Alignment explanation
Indices: 4766022--4766056 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
4766012 TACTATTTAA
*
4766022 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
4766036 GAGTTTAGGGATTAT
1 G-GTTTAGGGATTAT
4766051 GGTTTA
1 GGTTTA
4766057 TGGTTTAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:4766050 original size:22 final size:21
Alignment explanation
Indices: 4766025--4766066 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
4766015 TATTTAAGGT
4766025 TTATGGATTATGAGTTTAGGGA
1 TTATGGATTATG-GTTTAGGGA
*
4766047 TTATGGTTTATGGTTTAGGG
1 TTATGGATTATGGTTTAGGG
4766067 GTTGGGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (21 bp):
TTATGGATTATGGTTTAGGGA
Found at i:4766064 original size:21 final size:21
Alignment explanation
Indices: 4766025--4766087 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
4766015 TATTTAAGGT
*
4766025 TTATGGATTATGAGTTTAGGGA
1 TTATGGTTTATG-GTTTAGGGA
*
4766047 TTATGGTTTATGGTTTAGGGG
1 TTATGGTTTATGGTTTAGGGA
** *
4766068 TTGGGGTTTAAGGTTTAGGG
1 TTATGGTTTATGGTTTAGGG
4766088 GTTAGGGGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 25 0.69
22 11 0.31
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.43
Consensus pattern (21 bp):
TTATGGTTTATGGTTTAGGGA
Found at i:4766088 original size:21 final size:22
Alignment explanation
Indices: 4766038--4766097 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
4766028 TGGATTATGA
* * *
4766038 GTTTAGGGATTA-TGGTTTATG
1 GTTTAGGGGTTAGGGGTTTAAG
4766059 GTTTAGGGGTT-GGGGTTTAAG
1 GTTTAGGGGTTAGGGGTTTAAG
4766080 GTTTAGGGGTTAGGGGTT
1 GTTTAGGGGTTAGGGGTT
4766098 CAATGTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 28 0.82
22 6 0.18
ACGTcount: A:0.15, C:0.00, G:0.43, T:0.42
Consensus pattern (22 bp):
GTTTAGGGGTTAGGGGTTTAAG
Found at i:4766143 original size:8 final size:7
Alignment explanation
Indices: 4766038--4766150 Score: 55
Period size: 7 Copynumber: 15.9 Consensus size: 7
4766028 TGGATTATGA
4766038 GTTTAGG
1 GTTTAGG
* *
4766045 GATTATG
1 GTTTAGG
*
4766052 GTTTATG
1 GTTTAGG
4766059 GTTTAGG
1 GTTTAGG
* *
4766066 GGTTGGG
1 GTTTAGG
*
4766073 GTTTAAG
1 GTTTAGG
4766080 GTTTAGG
1 GTTTAGG
*
4766087 GGTTAGGG
1 GTTTA-GG
* **
4766095 GTTCAAT
1 GTTTAGG
* *
4766102 GTTAATG
1 GTTTAGG
*
4766109 GTTTATG
1 GTTTAGG
* *
4766116 TTTTAAG
1 GTTTAGG
*
4766123 ATTTAGG
1 GTTTAGG
4766130 GTTTAGG
1 GTTTAGG
4766137 AGTTTAGG
1 -GTTTAGG
*
4766145 GATTAG
1 GTTTAG
4766151 ATTAATTTGT
Statistics
Matches: 79, Mismatches: 25, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
7 67 0.85
8 12 0.15
ACGTcount: A:0.20, C:0.01, G:0.36, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:4770414 original size:22 final size:23
Alignment explanation
Indices: 4770363--4770415 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
4770353 AGAAAACCAT
4770363 TTTAT-GTGTTAAATGCTGAAAA
1 TTTATGGTGTTAAATGCTGAAAA
* *
4770385 TTTA-GGTGTTAAATGTTG-CAA
1 TTTATGGTGTTAAATGCTGAAAA
4770406 TTTATGGTGT
1 TTTATGGTGT
4770416 CTGAAAGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.28, C:0.04, G:0.23, T:0.45
Consensus pattern (23 bp):
TTTATGGTGTTAAATGCTGAAAA
Found at i:4771456 original size:43 final size:43
Alignment explanation
Indices: 4771395--4771532 Score: 161
Period size: 43 Copynumber: 3.2 Consensus size: 43
4771385 CACGACTTGT
* * * * *
4771395 TTTAGCGACGTTTTTGGGAGAAGCGCCGTTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGGGAAAAGCGACGTTAAAGGTCATGACC
*
4771438 TTTAGCGGC-TCTTGTGGGAAAAGCGACGTTAAAAGTCATGACC
1 TTTAGCGGCGT-TTGTGGGAAAAGCGACGTTAAAGGTCATGACC
* * * * *
4771481 TTTAACGGCGTTTGTGGAAAAAGTGTCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGACGTTAAAGGTCATGACC
4771524 TTTAGCGGC
1 TTTAGCGGC
4771533 ATTTTTTAGA
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 78 0.98
44 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGACGTTAAAGGTCATGACC
Found at i:4773078 original size:13 final size:14
Alignment explanation
Indices: 4773052--4773080 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4773042 ACTAACGACG
4773052 AATTAAACCATTAT
1 AATTAAACCATTAT
4773066 AATTAAA-CATTAT
1 AATTAAACCATTAT
4773079 AA
1 AA
4773081 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:4778094 original size:9 final size:9
Alignment explanation
Indices: 4778080--4778223 Score: 82
Period size: 9 Copynumber: 16.0 Consensus size: 9
4778070 TAAGTATAAT
4778080 TAAGTTATG
1 TAAGTTATG
4778089 TAAGTTATG
1 TAAGTTATG
* * *
4778098 ATATGATATA
1 -TAAGTTATG
*
4778108 T-ATTTATG
1 TAAGTTATG
4778116 T-A-TTATG
1 TAAGTTATG
4778123 TAAGTTATG
1 TAAGTTATG
*
4778132 TAAATTATG
1 TAAGTTATG
* *
4778141 TAAGTTGTT
1 TAAGTTATG
**
4778150 TATCTTATG
1 TAAGTTATG
*
4778159 TAAATTATG
1 TAAGTTATG
*
4778168 TAAGATATGATA
1 TAAG-T-T-ATG
*
4778180 TATATTTATG
1 TA-AGTTATG
4778190 T-A-TTATG
1 TAAGTTATG
4778197 TAAGTTATG
1 TAAGTTATG
*
4778206 TAAATTATG
1 TAAGTTATG
*
4778215 TAAGATATG
1 TAAGTTATG
4778224 ATACATATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
7 12 0.12
8 8 0.08
9 64 0.63
10 10 0.10
11 2 0.02
12 5 0.05
13 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:4778140 original size:18 final size:18
Alignment explanation
Indices: 4778117--4778223 Score: 92
Period size: 18 Copynumber: 5.8 Consensus size: 18
4778107 ATATTTATGT
4778117 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
* * *
4778135 ATTATGTAAGTTGTTTAT
1 ATTATGTAAGTTATGTAA
* *
4778153 CTTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
* *
4778171 GATATGATATATATTTATGT--
1 -AT-T-ATGTA-AGTTATGTAA
4778191 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
*
4778209 ATTATGTAAGATATG
1 ATTATGTAAGTTATG
4778224 ATACATATTT
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
16 7 0.10
17 4 0.06
18 43 0.62
19 3 0.04
20 1 0.01
21 4 0.06
22 7 0.10
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:4778569 original size:5 final size:5
Alignment explanation
Indices: 4778559--4778583 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4778549 TTTTCTTGAT
4778559 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
4778584 CTTTAAATAC
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:4782224 original size:14 final size:14
Alignment explanation
Indices: 4782197--4782243 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
4782187 GACTAAACCT
* *
4782197 TAAACCTAAAACCC
1 TAAACCCAATACCC
*
4782211 TAAGCCCAATACCC
1 TAAACCCAATACCC
*
4782225 TAAACCCAATGCCC
1 TAAACCCAATACCC
4782239 TAAAC
1 TAAAC
4782244 ATTAAACCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.43, C:0.38, G:0.04, T:0.15
Consensus pattern (14 bp):
TAAACCCAATACCC
Found at i:4782291 original size:34 final size:34
Alignment explanation
Indices: 4782253--4782323 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
4782243 CATTAAACCT
4782253 TAAACCTATAAA-CTAAATCCTAAACCAAAAACAC
1 TAAACCT-TAAATCTAAATCCTAAACCAAAAACAC
* * *
4782287 TAAACCTTAAATCTAAATTCTAAACCATAAACCC
1 TAAACCTTAAATCTAAATCCTAAACCAAAAACAC
4782321 TAA
1 TAA
4782324 TTCCATACAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 4 0.12
34 29 0.88
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (34 bp):
TAAACCTTAAATCTAAATCCTAAACCAAAAACAC
Found at i:4782310 original size:41 final size:41
Alignment explanation
Indices: 4782240--4782319 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
4782230 CCAATGCCCT
*
4782240 AAACATTAAACCTTAAACCTATAAACTAAATCC-TAAACCAA
1 AAACACTAAACCTTAAACCTATAAACTAAA-CCATAAACCAA
* *
4782281 AAACACTAAACCTTAAATCTA-AATTCTAAACCATAAACC
1 AAACACTAAACCTTAAACCTATAA-ACTAAACCATAAACC
4782320 CTAATTCCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 4 0.12
41 30 0.88
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.23
Consensus pattern (41 bp):
AAACACTAAACCTTAAACCTATAAACTAAACCATAAACCAA
Found at i:4786377 original size:41 final size:40
Alignment explanation
Indices: 4786292--4786389 Score: 121
Period size: 40 Copynumber: 2.4 Consensus size: 40
4786282 GCTGCTCAAC
*
4786292 TTTTTGTGGCATTTGT-AACAAAAACGCCGCTATTGCTCAG
1 TTTTTGTGGCGTTT-TCAACAAAAACGCCGCTATTGCTCAG
*
4786332 TTTTTAGTGGCGTTTTCAACAAAAATGCCG-TATTGCTCAG
1 TTTTT-GTGGCGTTTTCAACAAAAACGCCGCTATTGCTCAG
4786372 TTTTT-TGCTGCGTTTTCA
1 TTTTTGTG--GCGTTTTCA
4786390 CTAATGCATA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
38 2 0.04
40 30 0.58
41 20 0.38
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (40 bp):
TTTTTGTGGCGTTTTCAACAAAAACGCCGCTATTGCTCAG
Found at i:4791923 original size:21 final size:21
Alignment explanation
Indices: 4791897--4791937 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4791887 ATCTGCTCAA
* *
4791897 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
4791918 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
4791938 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:4794827 original size:25 final size:25
Alignment explanation
Indices: 4794793--4794844 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
4794783 CAACATGAAC
4794793 AATGGCGCAGAAAGGCGGGAGGCTA
1 AATGGCGCAGAAAGGCGGGAGGCTA
* *
4794818 AATGGTGCAGAAAGGTGGGAGGCTA
1 AATGGCGCAGAAAGGCGGGAGGCTA
4794843 AA
1 AA
4794845 ATAATACACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.42, T:0.12
Consensus pattern (25 bp):
AATGGCGCAGAAAGGCGGGAGGCTA
Found at i:4797801 original size:11 final size:11
Alignment explanation
Indices: 4797785--4797810 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4797775 CAATAGGCCA
4797785 ACTAAATACCC
1 ACTAAATACCC
4797796 ACTAAATACCC
1 ACTAAATACCC
4797807 ACTA
1 ACTA
4797811 CACCCTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (11 bp):
ACTAAATACCC
Found at i:4798938 original size:14 final size:13
Alignment explanation
Indices: 4798900--4798939 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 13
4798890 CATGCATATC
4798900 ATATATATTATGTAA
1 ATATATA-T-TGTAA
4798915 ATATATATTGTAA
1 ATATATATTGTAA
4798928 ATATCATATTGT
1 ATAT-ATATTGT
4798940 TTGTACATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.38
14 8 0.33
15 7 0.29
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (13 bp):
ATATATATTGTAA
Found at i:4802971 original size:14 final size:14
Alignment explanation
Indices: 4802936--4802972 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
4802926 CAACGCTTTT
4802936 TTGCATTCATCGCA
1 TTGCATTCATCGCA
4802950 TT-CATTCATCAGCA
1 TTGCATTCATC-GCA
4802964 TTGC-TTCAT
1 TTGCATTCAT
4802973 ACGTACTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 8 0.38
14 12 0.57
15 1 0.05
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.41
Consensus pattern (14 bp):
TTGCATTCATCGCA
Found at i:4813157 original size:27 final size:27
Alignment explanation
Indices: 4813105--4813173 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 27
4813095 ATGCCTTATT
**
4813105 GGTGTGTTTGGGAGGATATATTATATC
1 GGTGTGTTTGGGAGGATATACAATATC
*
4813132 GGTGTGTTAT-GGAGGATTTACAATATTCCC
1 GGTGTGTT-TGGGAGGATATACAATA-T--C
4813162 GGTGTGTTTGGG
1 GGTGTGTTTGGG
4813174 TTGGATATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 20 0.59
28 2 0.06
29 1 0.03
30 11 0.32
ACGTcount: A:0.19, C:0.07, G:0.35, T:0.39
Consensus pattern (27 bp):
GGTGTGTTTGGGAGGATATACAATATC
Found at i:4813181 original size:24 final size:23
Alignment explanation
Indices: 4813154--4813199 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4813144 AGGATTTACA
4813154 ATATTCCCGGTGTGTTTGGGTTGG
1 ATATT-CCGGTGTGTTTGGGTTGG
*
4813178 ATATTCTGGTGTGTTTGGGTTG
1 ATATTCCGGTGTGTTTGGGTTG
4813200 AAATCCGCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.09, C:0.09, G:0.37, T:0.46
Consensus pattern (23 bp):
ATATTCCGGTGTGTTTGGGTTGG
Found at i:4813282 original size:48 final size:48
Alignment explanation
Indices: 4813228--4813347 Score: 231
Period size: 48 Copynumber: 2.5 Consensus size: 48
4813218 TAGTCTGAGC
4813228 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTCAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTCAAAATGAGATTA
*
4813276 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTCAAAATGAGATTA
4813324 TTTGTTAATAGGGTAAATAATTGA
1 TTTGTTAATAGGGTAAATAATTGA
4813348 TGTTTGTAAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.42, C:0.01, G:0.18, T:0.38
Consensus pattern (48 bp):
TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTCAAAATGAGATTA
Found at i:4821282 original size:43 final size:44
Alignment explanation
Indices: 4821221--4821305 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 44
4821211 ATTCACCAAG
*
4821221 CCTTAAACCCCTAAGCAGTAGGGTAACAGG-TTAAATTTACAAA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAATTTACAAA
* *
4821264 CCTTAACCCCCTAAGCAGTAGGGTAATAGGCTGAAATTTACA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAATTTACA
4821306 GATTTTGTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 28 0.74
44 10 0.26
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (44 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAATTTACAAA
Found at i:4822875 original size:16 final size:17
Alignment explanation
Indices: 4822846--4822877 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4822836 TATACATATT
4822846 ATAGATATATATATAAC
1 ATAGATATATATATAAC
4822863 ATAGATA-ATATATAA
1 ATAGATATATATATAA
4822878 AAAAAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (17 bp):
ATAGATATATATATAAC
Found at i:4825885 original size:104 final size:104
Alignment explanation
Indices: 4825766--4825989 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
4825756 AATGGATATC
4825766 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
4825831 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
4825870 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
4825935 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
4825974 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
4825990 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:4827506 original size:16 final size:16
Alignment explanation
Indices: 4827470--4827514 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
4827460 ATGTGGGTAA
4827470 ATAAAAATAT-TTTAT
1 ATAAAAATATATTTAT
4827485 ATTAAAAATATATATT-T
1 A-TAAAAATATAT-TTAT
4827502 ATAAAAATATATT
1 ATAAAAATATATT
4827515 AATAAATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 2 0.07
16 20 0.74
17 3 0.11
18 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:4831802 original size:3 final size:3
Alignment explanation
Indices: 4831796--4831830 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4831786 ACAACACAGT
4831796 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
4831831 GTAGGCATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4834625 original size:20 final size:20
Alignment explanation
Indices: 4834602--4834643 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4834592 TTTTATATAC
* *
4834602 TTTTTAATAATTTTAATTTT
1 TTTTTAAAAATTATAATTTT
4834622 TTTTTAAAAATTATAATTTT
1 TTTTTAAAAATTATAATTTT
4834642 TT
1 TT
4834644 AAACTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTAAAAATTATAATTTT
Found at i:4836756 original size:15 final size:16
Alignment explanation
Indices: 4836730--4836759 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4836720 TTTTGCCCGG
4836730 CTAAAAAGCTCAACAT
1 CTAAAAAGCTCAACAT
4836746 CTAAAAA-CTCAACA
1 CTAAAAAGCTCAACA
4836760 GCCCAAAACC
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:0.53, C:0.27, G:0.03, T:0.17
Consensus pattern (16 bp):
CTAAAAAGCTCAACAT
Found at i:4836874 original size:13 final size:13
Alignment explanation
Indices: 4836856--4836923 Score: 64
Period size: 13 Copynumber: 4.8 Consensus size: 13
4836846 TTTTCACTCC
4836856 AACCACCCCACTA
1 AACCACCCCACTA
*
4836869 AACCACCCCATTAA
1 AACCACCCCACT-A
4836883 ACCATCCCAACCCCACTA
1 A--A--CC-ACCCCACTA
4836901 AACCACCCCACTA
1 AACCACCCCACTA
*
4836914 AACCATCCCA
1 AACCACCCCA
4836924 ACCACCACTA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
13 29 0.63
14 4 0.09
16 2 0.04
18 4 0.09
19 7 0.15
ACGTcount: A:0.38, C:0.51, G:0.00, T:0.10
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:4836898 original size:32 final size:32
Alignment explanation
Indices: 4836860--4836943 Score: 141
Period size: 32 Copynumber: 2.6 Consensus size: 32
4836850 CACTCCAACC
*
4836860 ACCCCACTAAACCACCCCATTAAACCATCCCA
1 ACCCCACTAAACCACCCCACTAAACCATCCCA
4836892 ACCCCACTAAACCACCCCACTAAACCATCCCA
1 ACCCCACTAAACCACCCCACTAAACCATCCCA
*
4836924 ACCACCACTAAACCATCCCA
1 ACC-CCACTAAACCACCCCA
4836944 ACCACTTCAC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 34 0.69
33 15 0.31
ACGTcount: A:0.38, C:0.51, G:0.00, T:0.11
Consensus pattern (32 bp):
ACCCCACTAAACCACCCCACTAAACCATCCCA
Found at i:4836933 original size:20 final size:20
Alignment explanation
Indices: 4836908--4836948 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4836898 CTAAACCACC
4836908 CCACTAAACCATCCCAACCA
1 CCACTAAACCATCCCAACCA
4836928 CCACTAAACCATCCCAACCA
1 CCACTAAACCATCCCAACCA
4836948 C
1 C
4836949 TTCACTTGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.51, G:0.00, T:0.10
Consensus pattern (20 bp):
CCACTAAACCATCCCAACCA
Found at i:4837354 original size:19 final size:18
Alignment explanation
Indices: 4837318--4837358 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
4837308 GGGAGAGTGC
*
4837318 TATTTTTAATATTGTTAT
1 TATTTTTAATATTATTAT
*
4837336 TATTTTCTATTATTATTAT
1 TATTTT-TAATATTATTAT
4837355 TATT
1 TATT
4837359 ACTAATACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (18 bp):
TATTTTTAATATTATTAT
Found at i:4837538 original size:17 final size:17
Alignment explanation
Indices: 4837513--4837550 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4837503 AATTTAATAA
4837513 ATATATATTTT-TTTAGC
1 ATATATATTTTATTTA-C
*
4837530 ATATTTATTTTATTTAC
1 ATATATATTTTATTTAC
4837547 ATAT
1 ATAT
4837551 CATTACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (17 bp):
ATATATATTTTATTTAC
Found at i:4838400 original size:23 final size:23
Alignment explanation
Indices: 4838374--4838444 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
4838364 AAAAAAAAGG
4838374 AAAATATAATAATTATAATAGTA
1 AAAATATAATAATTATAATAGTA
* * * *
4838397 AAAACACAATAGTTATAATAATGA
1 AAAATATAATAATTATAATAGT-A
* *
4838421 AAAGGTATTATAA-TATAATAGTA
1 AAA-ATATAATAATTATAATAGTA
4838444 A
1 A
4838445 TAATGATGAT
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
23 20 0.56
24 12 0.33
25 4 0.11
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (23 bp):
AAAATATAATAATTATAATAGTA
Found at i:4838903 original size:22 final size:23
Alignment explanation
Indices: 4838872--4838933 Score: 94
Period size: 22 Copynumber: 2.8 Consensus size: 23
4838862 TTTGTAGGCA
*
4838872 AGTGGAGTGGTTGGGA-TGGTTT
1 AGTGGGGTGGTTGGGAGTGGTTT
4838894 AGTGGGGTGGTT-GGAGTGGTTT
1 AGTGGGGTGGTTGGGAGTGGTTT
4838916 AGTGGGGTGGTT-GGAGTG
1 AGTGGGGTGGTTGGGAGTG
4838934 AAGATATTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
21 3 0.08
22 35 0.92
ACGTcount: A:0.11, C:0.00, G:0.55, T:0.34
Consensus pattern (23 bp):
AGTGGGGTGGTTGGGAGTGGTTT
Found at i:4839045 original size:16 final size:15
Alignment explanation
Indices: 4839004--4839048 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
4838994 CTTTGGAGGT
** *
4839004 TGTTGGGTTTTGGGC
1 TGTTGGGTTTTTAGA
4839019 TGTTGGGTTTTTAGA
1 TGTTGGGTTTTTAGA
4839034 TGTTGGGCTTTTTAG
1 TGTTGGG-TTTTTAG
4839049 CCCGGGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.07, C:0.04, G:0.38, T:0.51
Consensus pattern (15 bp):
TGTTGGGTTTTTAGA
Found at i:4842073 original size:28 final size:28
Alignment explanation
Indices: 4842040--4842097 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
4842030 GAAAAGAGGA
4842040 TAAACTACCTTGTTAGTCATTCTAAAAT
1 TAAACTACCTTGTTAGTCATTCTAAAAT
4842068 TAAACTACCTTGTTAGTCATTCTAAAAT
1 TAAACTACCTTGTTAGTCATTCTAAAAT
4842096 TA
1 TA
4842098 GGTTGTCCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (28 bp):
TAAACTACCTTGTTAGTCATTCTAAAAT
Found at i:4842583 original size:22 final size:22
Alignment explanation
Indices: 4842552--4842593 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4842542 TTTGATGATC
4842552 ACAACAGTGAT-AGTGAGAAGCG
1 ACAACAGTGATAAG-GAGAAGCG
*
4842574 ACAACTGTGATAAGGAGAAG
1 ACAACAGTGATAAGGAGAAG
4842594 AAAGGAGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.43, C:0.12, G:0.31, T:0.14
Consensus pattern (22 bp):
ACAACAGTGATAAGGAGAAGCG
Found at i:4846558 original size:18 final size:17
Alignment explanation
Indices: 4846522--4846560 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4846512 ATATATTAAA
*
4846522 TTTTTTATTTATAATAT
1 TTTTTTATTTATAAAAT
*
4846539 TTTTTTATTTTTGAAAAT
1 TTTTTTATTTAT-AAAAT
4846557 TTTT
1 TTTT
4846561 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTTTATTTATAAAAT
Found at i:4851859 original size:16 final size:16
Alignment explanation
Indices: 4851838--4851886 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 16
4851828 AAGTAATGAA
4851838 GAAAATATGTTTTATT
1 GAAAATATGTTTTATT
* *
4851854 G-AAA-AT-TTTGA-A
1 GAAAATATGTTTTATT
4851866 GAAAATATGTTTTATT
1 GAAAATATGTTTTATT
4851882 GAAAA
1 GAAAA
4851887 ATTTTAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
12 1 0.04
13 7 0.28
14 4 0.16
15 7 0.28
16 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (16 bp):
GAAAATATGTTTTATT
Found at i:4851865 original size:28 final size:29
Alignment explanation
Indices: 4851834--4851891 Score: 109
Period size: 28 Copynumber: 2.0 Consensus size: 29
4851824 ATGAAAGTAA
4851834 TGAAGAAAATATGTTTTATTG-AAAATTT
1 TGAAGAAAATATGTTTTATTGAAAAATTT
4851862 TGAAGAAAATATGTTTTATTGAAAAATTT
1 TGAAGAAAATATGTTTTATTGAAAAATTT
4851891 T
1 T
4851892 AAAAATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (29 bp):
TGAAGAAAATATGTTTTATTGAAAAATTT
Found at i:4855052 original size:20 final size:19
Alignment explanation
Indices: 4855029--4855075 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
4855019 AAAAAATATA
4855029 TTTATTTTTATGTTTAAGTT
1 TTTATTTTTA-GTTTAAGTT
*
4855049 TTTACTTTTTAGTTTTAGTT
1 TTTA-TTTTTAGTTTAAGTT
*
4855069 TTCATTT
1 TTTATTT
4855076 CCCAATCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 15 0.62
21 6 0.25
ACGTcount: A:0.17, C:0.04, G:0.09, T:0.70
Consensus pattern (19 bp):
TTTATTTTTAGTTTAAGTT
Found at i:4856938 original size:18 final size:17
Alignment explanation
Indices: 4856902--4856964 Score: 81
Period size: 17 Copynumber: 3.5 Consensus size: 17
4856892 TTCGGTCCTC
4856902 ATAGATTTTTTACTGTA
1 ATAGATTTTTTACTGTA
*
4856919 ATAGATTTTTTATTGCTA
1 ATAGATTTTTTACTG-TA
4856937 ATAGATTTTTATTCACTGTA
1 ATAGA-TTTT-TT-ACTGTA
4856957 ATAGATTT
1 ATAGATTT
4856965 CATTAATTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
17 14 0.35
18 7 0.17
19 7 0.17
20 9 0.22
21 3 0.08
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.52
Consensus pattern (17 bp):
ATAGATTTTTTACTGTA
Found at i:4857724 original size:98 final size:92
Alignment explanation
Indices: 4857348--4857740 Score: 642
Period size: 92 Copynumber: 4.2 Consensus size: 92
4857338 TACAATTTTT
* *
4857348 AACCTATTTGTATATTTAATAAAATATGAACCTATTTGTATCAAAGTATGCATATAAGCTACAAT
1 AACCTATTTTTATATTTAATAAAATATAAACCTATTTGTATCAAAGTATGCATATAAGCTACAAT
* *
4857413 TTAGACAACAAGTATGCATTTTGTTTG
66 TTAAACAGCAAGTATGCATTTTGTTTG
*
4857440 AACCTGTTTTTATATTTAATAAAATATAAACCTATTTGTATCAAAGTATGCATATAAGCTACAAT
1 AACCTATTTTTATATTTAATAAAATATAAACCTATTTGTATCAAAGTATGCATATAAGCTACAAT
*
4857505 TTAAACAGCAATTATGCATTTTGTTTG
66 TTAAACAGCAAGTATGCATTTTGTTTG
*
4857532 AACCTATTTTTATATTTAATAAAATATAAACCTATTTGTATCAAAGTATGCATGTAAGCTACAAT
1 AACCTATTTTTATATTTAATAAAATATAAACCTATTTGTATCAAAGTATGCATATAAGCTACAAT
4857597 TTAAACAGCAAGTATGCATTTTGTTTG
66 TTAAACAGCAAGTATGCATTTTGTTTG
* *
4857624 AACCTATTTGTATATTTAATAAAATATGAACCTATTTGTATCAAAATCAAAGTATGCATATAAGC
1 AACCTATTTTTATATTTAATAAAATATAAACCTATTTG--T----ATCAAAGTATGCATATAAGC
4857689 TACAATTTAAACAGCAAGTATGCATTTTGTTTG
60 TACAATTTAAACAGCAAGTATGCATTTTGTTTG
*
4857722 AACATATTTTTATATTTAA
1 AACCTATTTTTATATTTAA
4857741 ACAGCAAGTA
Statistics
Matches: 281, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
92 211 0.75
94 1 0.00
98 69 0.25
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (92 bp):
AACCTATTTTTATATTTAATAAAATATAAACCTATTTGTATCAAAGTATGCATATAAGCTACAAT
TTAAACAGCAAGTATGCATTTTGTTTG
Found at i:4859814 original size:9 final size:9
Alignment explanation
Indices: 4859800--4859837 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
4859790 CAAAAATGAT
4859800 GATGACGAC
1 GATGACGAC
4859809 GATGACGAC
1 GATGACGAC
*
4859818 GATGACGAT
1 GATGACGAC
4859827 GATGACGAC
1 GATGACGAC
4859836 GA
1 GA
4859838 GGTTTCTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.34, C:0.18, G:0.34, T:0.13
Consensus pattern (9 bp):
GATGACGAC
Found at i:4860920 original size:9 final size:9
Alignment explanation
Indices: 4860906--4860931 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4860896 TTTTGTTACA
4860906 ACAATTAAT
1 ACAATTAAT
4860915 ACAATTAAT
1 ACAATTAAT
4860924 ACAATTAA
1 ACAATTAA
4860932 CAATTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.31
Consensus pattern (9 bp):
ACAATTAAT
Found at i:4860957 original size:68 final size:66
Alignment explanation
Indices: 4860876--4861017 Score: 221
Period size: 68 Copynumber: 2.1 Consensus size: 66
4860866 TCAAGTTTAT
* *
4860876 TTTACTAAGCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAACAATTTGAT
1 TTTACTAAGCAAATGTTAGATTTTATTACAACAATTAACACAATT-A-ACAATTAACAATTTGAT
4860941 AAA
64 AAA
* *
4860944 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAACACAATTAACAATTAATAATTTGATAA
1 TTTACTAAGCAAATGTTAGATTTTATTACAACAATTAACACAATTAACAATTAACAATTTGATAA
*
4861009 T
66 A
4861010 TTTACTAA
1 TTTACTAA
4861018 CAATTAATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
66 26 0.38
67 1 0.01
68 42 0.61
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.39
Consensus pattern (66 bp):
TTTACTAAGCAAATGTTAGATTTTATTACAACAATTAACACAATTAACAATTAACAATTTGATAA
A
Found at i:4861027 original size:16 final size:16
Alignment explanation
Indices: 4861006--4861047 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
4860996 AATAATTTGA
*
4861006 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
4861022 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
4861038 TAGTTTTAAT
1 TAATTTTAAT
4861048 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:4862126 original size:21 final size:21
Alignment explanation
Indices: 4862088--4862127 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4862078 CAAGCATGTT
*
4862088 AATTATAATTTTTTAAATAAA
1 AATTATAATTTTTAAAATAAA
4862109 AATTAT-ATTTATTAAAATA
1 AATTATAATTT-TTAAAATA
4862128 TTATTTGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTATAATTTTTAAAATAAA
Found at i:4865769 original size:21 final size:22
Alignment explanation
Indices: 4865744--4865790 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
4865734 TTTAGTAAAG
4865744 GGAAAAAT-TAGAG-TTTTACAT
1 GGAAAAATATA-AGTTTTTACAT
4865765 GGAAAAATATAAGTTTTTACAT
1 GGAAAAATATAAGTTTTTACAT
4865787 GGAA
1 GGAA
4865791 TTGAGTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (22 bp):
GGAAAAATATAAGTTTTTACAT
Found at i:4871125 original size:7 final size:7
Alignment explanation
Indices: 4871113--4871140 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
4871103 TCTTTTATTT
4871113 TGTTTTA
1 TGTTTTA
4871120 TGTTTTA
1 TGTTTTA
4871127 TGTTTTA
1 TGTTTTA
4871134 TGTTTTA
1 TGTTTTA
4871141 ATTTAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (7 bp):
TGTTTTA
Found at i:4874159 original size:13 final size:13
Alignment explanation
Indices: 4874141--4874193 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
4874131 TATTATGTAT
4874141 ATTTAATCAATTA
1 ATTTAATCAATTA
* *
4874154 ATTTAATTAATTG
1 ATTTAATCAATTA
*
4874167 ATTTAACTAAATTA
1 ATTTAA-TCAATTA
*
4874181 ATTT-CTCAATTA
1 ATTTAATCAATTA
4874193 A
1 A
4874194 AATATTTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
12 7 0.21
13 17 0.52
14 9 0.27
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (13 bp):
ATTTAATCAATTA
Found at i:4875428 original size:22 final size:22
Alignment explanation
Indices: 4875399--4875466 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
4875389 TGCACAAATG
4875399 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* *
4875421 TACAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
* *
4875443 AATAGAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
4875466 A
1 A
4875467 TAATAGTACA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 28 0.74
23 8 0.21
24 1 0.03
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:4876626 original size:19 final size:19
Alignment explanation
Indices: 4876590--4876632 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4876580 CGATTCTGTT
* *
4876590 TGTTTCTTTTTTTCTCTTC
1 TGTTTCTTTCTTTCTCTTA
4876609 TGTTTCTTTACTTT-TCTTA
1 TGTTTCTTT-CTTTCTCTTA
4876628 TGTTT
1 TGTTT
4876633 TATATATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.05, C:0.16, G:0.07, T:0.72
Consensus pattern (19 bp):
TGTTTCTTTCTTTCTCTTA
Found at i:4876644 original size:7 final size:7
Alignment explanation
Indices: 4876634--4876728 Score: 65
Period size: 7 Copynumber: 13.0 Consensus size: 7
4876624 CTTATGTTTT
4876634 ATATATA
1 ATATATA
4876641 ATATAT-
1 ATATATA
4876647 A-ATATA
1 ATATATA
4876653 ATATA-A
1 ATATATA
4876659 TATAATATA
1 -AT-ATATA
4876668 ATAATATA
1 AT-ATATA
*
4876676 ATATATT
1 ATATATA
4876683 ATATATTA
1 ATATA-TA
4876691 ATACT-TA
1 ATA-TATA
4876698 A-ATATTA
1 ATATA-TA
4876705 AGTTAATATA
1 A--T-ATATA
4876715 ATATATA
1 ATATATA
4876722 ATATATA
1 ATATATA
4876729 TTTTTATATA
Statistics
Matches: 73, Mismatches: 2, Indels: 26
0.72 0.02 0.26
Matches are distributed among these distances:
5 5 0.07
6 4 0.05
7 38 0.52
8 18 0.25
9 2 0.03
10 3 0.04
11 3 0.04
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (7 bp):
ATATATA
Found at i:4876651 original size:5 final size:5
Alignment explanation
Indices: 4876643--4876685 Score: 63
Period size: 5 Copynumber: 9.0 Consensus size: 5
4876633 TATATATAAT
*
4876643 ATATA ATATA ATATA ATATA ATAT- A-ATA ATATA ATATA TTATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
4876686 TATTAATACT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 31 0.89
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:4876663 original size:15 final size:15
Alignment explanation
Indices: 4876643--4876685 Score: 63
Period size: 13 Copynumber: 3.0 Consensus size: 15
4876633 TATATATAAT
4876643 ATATAATATAATATA
1 ATATAATATAATATA
4876658 ATATAATAT-A-ATA
1 ATATAATATAATATA
*
4876671 ATATAATATATTATA
1 ATATAATATAATATA
4876686 TATTAATACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 12 0.48
14 1 0.04
15 12 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATAATATAATATA
Found at i:4876692 original size:15 final size:14
Alignment explanation
Indices: 4876641--4876729 Score: 82
Period size: 15 Copynumber: 6.4 Consensus size: 14
4876631 TTTATATATA
4876641 ATATATAATATAAT
1 ATATATAATATAAT
4876655 ATAATATAATATAAT
1 AT-ATATAATATAAT
*
4876670 A-ATATAATATATT
1 ATATATAATATAAT
4876683 ATATATTAATACTTAA-
1 ATATA-TAATA--TAAT
4876699 ATAT-TAAGT-TAAT
1 ATATATAA-TATAAT
4876712 ATA-AT-ATATAAT
1 ATATATAATATAAT
4876724 ATATAT
1 ATATAT
4876730 TTTTATATAA
Statistics
Matches: 63, Mismatches: 2, Indels: 21
0.73 0.02 0.24
Matches are distributed among these distances:
11 1 0.02
12 11 0.17
13 18 0.29
14 8 0.13
15 19 0.30
16 4 0.06
17 2 0.03
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (14 bp):
ATATATAATATAAT
Found at i:4879201 original size:22 final size:23
Alignment explanation
Indices: 4879174--4879224 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
4879164 TAATCAATAT
*
4879174 ATACATAACTACAATTAGAATCA
1 ATACATAACTACAACTAGAATCA
* *
4879197 A-ACATAAGTACAACTATAATCA
1 ATACATAACTACAACTAGAATCA
4879219 ATACAT
1 ATACAT
4879225 CCGTTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.53, C:0.18, G:0.04, T:0.25
Consensus pattern (23 bp):
ATACATAACTACAACTAGAATCA
Found at i:4883074 original size:28 final size:30
Alignment explanation
Indices: 4883043--4883103 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 30
4883033 TTGATTGCTC
*
4883043 TTATTAAAAATTAA-AAAAAT-TAGAAAAA
1 TTATTAAAAATTAATAAAAATATAAAAAAA
**
4883071 TTATTAAATTTTAATAAAAATATAAAAAAA
1 TTATTAAAAATTAATAAAAATATAAAAAAA
4883101 TTA
1 TTA
4883104 GAATTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 12 0.43
29 6 0.21
30 10 0.36
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (30 bp):
TTATTAAAAATTAATAAAAATATAAAAAAA
Found at i:4883128 original size:18 final size:17
Alignment explanation
Indices: 4883096--4883153 Score: 98
Period size: 17 Copynumber: 3.4 Consensus size: 17
4883086 AAAAATATAA
4883096 AAAAATTAGAATTTTTT
1 AAAAATTAGAATTTTTT
4883113 AAAAATTAGAATTTTTT
1 AAAAATTAGAATTTTTT
*
4883130 AAAAATTATAATTTTTTT
1 AAAAATTAGAA-TTTTTT
4883148 AAAAAT
1 AAAAAT
4883154 CATAAAAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
17 27 0.69
18 12 0.31
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
AAAAATTAGAATTTTTT
Found at i:4883179 original size:36 final size:35
Alignment explanation
Indices: 4883130--4883197 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
4883120 AGAATTTTTT
* *
4883130 AAAAATTATAATTTTTTTAAAAATCA-TAAAAATAA
1 AAAAATTA-AAATTTTATAAAAATCATTAAAAATAA
4883165 AAAAATTTAAAATTTTATAAAAATCATTAAAAA
1 AAAAA-TTAAAATTTTATAAAAATCATTAAAAA
4883198 AATTAACGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 20 0.69
36 9 0.31
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (35 bp):
AAAAATTAAAATTTTATAAAAATCATTAAAAATAA
Found at i:4883433 original size:19 final size:17
Alignment explanation
Indices: 4883409--4883497 Score: 65
Period size: 19 Copynumber: 4.9 Consensus size: 17
4883399 TTTCTATATA
4883409 TTTTATAATTTTTTAAGGT
1 TTTTATAATTTTTTAA--T
**
4883428 TTTTATAAAATTTTACAAT
1 TTTTAT--AATTTTTTAAT
4883447 TTTTATATATTTTTCTAAT
1 TTTTATA-ATTTTT-TAAT
4883466 TTTTAATAA-TTTTTAAT
1 TTTT-ATAATTTTTTAAT
* *
4883483 ATTT-GAATTTTTTAA
1 TTTTATAATTTTTTAA
4883498 ATAATATTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
15 2 0.03
16 7 0.12
17 8 0.14
18 9 0.16
19 21 0.36
20 3 0.05
21 8 0.14
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTATAATTTTTTAAT
Found at i:4883483 original size:10 final size:9
Alignment explanation
Indices: 4883384--4883480 Score: 74
Period size: 9 Copynumber: 10.4 Consensus size: 9
4883374 TTCTTACGAC
*
4883384 TTTATAAAT
1 TTTATAATT
4883393 TTTAT-ATT
1 TTTATAATT
*
4883401 TCTAT-ATAT
1 TTTATAAT-T
4883410 TTTATAATT
1 TTTATAATT
4883419 TTT-TAAGGTT
1 TTTATAA--TT
*
4883429 TTTATAAAAT
1 TTTAT-AATT
*
4883439 TTTACAATT
1 TTTATAATT
4883448 TTTATATATT
1 TTTATA-ATT
*
4883458 TTTCTAATT
1 TTTATAATT
4883467 TTTAATAATT
1 TTT-ATAATT
4883477 TTTA
1 TTTA
4883481 ATATTTGAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
8 11 0.15
9 29 0.41
10 28 0.39
11 1 0.01
12 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:4883545 original size:37 final size:36
Alignment explanation
Indices: 4883447--4883546 Score: 101
Period size: 37 Copynumber: 2.7 Consensus size: 36
4883437 ATTTTACAAT
* *
4883447 TTTTATATATTTTTCTAATTTTTAATAATTTTTAATA
1 TTTTA-ATTTTTTTCTAATTTTTAATAATATTTAATA
* ** * * *
4883484 TTTGAATTTTTTAAATAATATTTAATACTATTTATTGA
1 TTTTAATTTTTT-TCTAATTTTTAATAATATTTAAT-A
4883522 TTTTAATTTTTTTCTAATTTTTAAT
1 TTTTAATTTTTTTCTAATTTTTAAT
4883547 GAAAGTAGGG
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
36 6 0.12
37 31 0.63
38 12 0.24
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (36 bp):
TTTTAATTTTTTTCTAATTTTTAATAATATTTAATA
Found at i:4883641 original size:89 final size:88
Alignment explanation
Indices: 4883548--4883769 Score: 326
Period size: 88 Copynumber: 2.5 Consensus size: 88
4883538 ATTTTTAATG
* * *
4883548 AAAGTAGGGGCATAATTGTTTTTTTTGAAAAAGTTTTAGGGTCTTTTTGATGCATTTTGAAAGTT
1 AAAGTAGGGGCTTAATTGTTTTTTTTGAAAAAGTTTGAGGG-CTTTTTGATGCATTTTGAAAATT
* *
4883613 CAAGTACCTAATTGAGTGCAAAAA
65 CAAGTACCCAAATGAGTGCAAAAA
* *
4883637 AAAGTAGGGGCTTAATTGTTTTTTTT-AAAAGGTTTGAGGGCCATTTTGATGCATTTTGAAAATT
1 AAAGTAGGGGCTTAATTGTTTTTTTTGAAAAAGTTTGAGGG-CTTTTTGATGCATTTTGAAAATT
4883701 CAAGTACCCAAATGAGTGCAAAAA
65 CAAGTACCCAAATGAGTGCAAAAA
*
4883725 AAA--A-GGGTTTAATTGTTTTTTTTGAAAAAGTTTGAGGGCTTTTTG
1 AAAGTAGGGGCTTAATTGTTTTTTTTGAAAAAGTTTGAGGGCTTTTTG
4883770 CACCCTTAAG
Statistics
Matches: 121, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
85 24 0.20
86 14 0.12
88 58 0.48
89 25 0.21
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (88 bp):
AAAGTAGGGGCTTAATTGTTTTTTTTGAAAAAGTTTGAGGGCTTTTTGATGCATTTTGAAAATTC
AAGTACCCAAATGAGTGCAAAAA
Done.