Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold126
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: 2080828
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 191490 characters in sequence are not A, C, G, or T
File 10 of 13
Found at i:1583535 original size:16 final size:15
Alignment explanation
Indices: 1583509--1583549 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 15
1583499 AGATAAAAGA
1583509 ATTTTTTATTATTTT
1 ATTTTTTATTATTTT
1583524 ATTTTGTTATTATTTTTT
1 ATTTT-TTATTA--TTTT
1583542 ATTTTTTA
1 ATTTTTTA
1583550 ATTTTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.22
16 6 0.26
17 3 0.13
18 9 0.39
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (15 bp):
ATTTTTTATTATTTT
Found at i:1584677 original size:51 final size:51
Alignment explanation
Indices: 1584630--1585187 Score: 976
Period size: 51 Copynumber: 11.1 Consensus size: 51
1584620 TTTTTTTTCT
* * *
1584630 TTATTT-ATTCCATCATGCTCCCTTTTATTATTCACGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1584680 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
1584731 TTATATTTCATTTCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 -T-TATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
1584784 TTATTTCATTCCATCATGCTACATTTTGTTATTCATG----TT-TTTTTT-
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1584829 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1584880 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1584931 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC-TTTTT-
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1584980 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1585031 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1585082 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC-TTTTT-
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1585131 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1585182 TTATTT
1 TTATTT
1585188 TTTTGATTGA
Statistics
Matches: 488, Mismatches: 7, Indels: 25
0.94 0.01 0.05
Matches are distributed among these distances:
45 36 0.07
46 6 0.01
47 2 0.00
49 90 0.18
50 32 0.07
51 271 0.56
52 2 0.00
53 49 0.10
ACGTcount: A:0.19, C:0.18, G:0.04, T:0.59
Consensus pattern (51 bp):
TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
Found at i:1584717 original size:19 final size:19
Alignment explanation
Indices: 1584693--1584771 Score: 53
Period size: 19 Copynumber: 4.4 Consensus size: 19
1584683 TTTCATTCCA
1584693 TCATGCTACATTTTATTAT
1 TCATGCTACATTTTATTAT
* *
1584712 TCATGCT---TTTTCTTTT
1 TCATGCTACATTTTATTAT
* * *
1584728 TTAT--TATATTTCATT-T
1 TCATGCTACATTTTATTAT
1584744 CATCATGCTACATTTTATTAT
1 --TCATGCTACATTTTATTAT
1584765 TCATGCT
1 TCATGCT
1584772 TTTTCTTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 16
0.65 0.12 0.24
Matches are distributed among these distances:
14 1 0.02
16 11 0.25
17 5 0.11
18 3 0.07
19 14 0.32
20 9 0.20
21 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.05, T:0.57
Consensus pattern (19 bp):
TCATGCTACATTTTATTAT
Found at i:1585012 original size:100 final size:102
Alignment explanation
Indices: 1584630--1585187 Score: 976
Period size: 100 Copynumber: 5.6 Consensus size: 102
1584620 TTTTTTTTCT
* * *
1584630 TTATTT-ATTCCATCATGCTCCCTTTTATTATTCACGCTTTTTCTTTTTTATTATTTCATTCCAT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
1584694 CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
66 CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
1584731 TTATATTTCATTTCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCC
1 -T-TATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCC
*
1584796 ATCATGCTACATTTTGTTATTCATG----TT-TTTTTT-
64 ATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1584829 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
1584894 CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
66 CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1584931 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC-TTTTT-TTATTTCATTCCAT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
1584994 CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
66 CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1585031 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
1585096 CATGCTACATTTTATTATTCATGCTTTTTC-TTTTT-
66 CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1585131 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTT
1585188 TTTTGATTGA
Statistics
Matches: 439, Mismatches: 7, Indels: 22
0.94 0.01 0.05
Matches are distributed among these distances:
96 85 0.19
97 1 0.00
99 6 0.01
100 156 0.36
101 21 0.05
102 89 0.20
103 5 0.01
104 76 0.17
ACGTcount: A:0.19, C:0.18, G:0.04, T:0.59
Consensus pattern (102 bp):
TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
Found at i:1585055 original size:151 final size:151
Alignment explanation
Indices: 1584630--1585187 Score: 1000
Period size: 151 Copynumber: 3.7 Consensus size: 151
1584620 TTTTTTTTCT
* * *
1584630 TTATTT-ATTCCATCATGCTCCCTTTTATTATTCACGCTTTTTCTTTTTTATTATTTCATTCCAT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC-TTTTT-TTATTTCATTCCAT
*
1584694 CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATATTTCATTTCATCATGCTACATTT
64 CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA-T-TATTTCATTCCATCATGCTACATTT
1584759 TATTATTCATGCTTTTTCTTTTTTA
127 TATTATTCATGCTTTTTCTTTTTTA
*
1584784 TTATTTCATTCCATCATGCTACATTTTGTTATTCATG---TTT-TTTTTTTATTTCATTCCATCA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTTATTTCATTCCATCA
1584845 TGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTATT
66 TGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTATT
1584910 ATTCATGCTTTTTCTTTTTTA
131 ATTCATGCTTTTTCTTTTTTA
1584931 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTTATTTCATTCCATCA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTTATTTCATTCCATCA
1584996 TGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTATT
66 TGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTATT
1585061 ATTCATGCTTTTTCTTTTTTA
131 ATTCATGCTTTTTCTTTTTTA
1585082 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTTATTTCATTCCATCA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTTATTTCATTCCATCA
1585147 TGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTT
66 TGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTT
1585188 TTTTGATTGA
Statistics
Matches: 393, Mismatches: 6, Indels: 13
0.95 0.01 0.03
Matches are distributed among these distances:
147 85 0.22
148 1 0.00
149 51 0.13
150 8 0.02
151 213 0.54
152 3 0.01
154 6 0.02
155 26 0.07
ACGTcount: A:0.19, C:0.18, G:0.04, T:0.59
Consensus pattern (151 bp):
TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTTATTTCATTCCATCA
TGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTATT
ATTCATGCTTTTTCTTTTTTA
Found at i:1585242 original size:27 final size:28
Alignment explanation
Indices: 1585193--1585257 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
1585183 TATTTTTTTG
*
1585193 ATTGATTTTTTTTGAATTTTTGAAT-TT
1 ATTGATTTTTATTGAATTTTTGAATATT
* *
1585220 CTTGATTTTTATT-ATTTTATTGAATATT
1 ATTGATTTTTATTGAATTT-TTGAATATT
1585248 ATT-ATTTTTA
1 ATTGATTTTTA
1585258 ATTTTTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 4 0.12
27 24 0.75
28 4 0.12
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.66
Consensus pattern (28 bp):
ATTGATTTTTATTGAATTTTTGAATATT
Found at i:1585771 original size:42 final size:41
Alignment explanation
Indices: 1585712--1586573 Score: 534
Period size: 42 Copynumber: 20.7 Consensus size: 41
1585702 TATTCTCCCC
* * * *
1585712 GGTCAAAACCAACAGGCAAACTTAGGGAAAGAAAAATCTCCAG
1 GGTC-AAACCGACAGGCAGACTAAGGG-AAGAAAAGTCTCCAG
* * * *
1585755 GGTGAAACCGATAGGCAGACTAAGGGATGAAAAGTCTCCAA
1 GGTCAAACCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
1585796 GGTCAAAACCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
1 GGTC-AAACCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * * * *
1585838 GGTCAAAACTGACAAGCAGACTAAGGGACAAAAAAGTTTTCAG
1 GGTC-AAACCGACAGGCAGACTAAGGGA-AGAAAAGTCTCCAG
* * * ** *
1585881 GGTTAAACCGATAGGCAGACTGAGGGTTGAAAAGTCTCTAG
1 GGTCAAACCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * *
1585922 GGTCAAAGCCGACAGGCAAACTGAGGGAAGAAAAGTTTCCAG
1 GGTCAAA-CCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * *
1585964 GGTCAAAGTCAACAGGCAGACTAAGGGAAGAAAAATCTCCAG
1 GGTCAAA-CCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
*
1586006 GGTCAAAGCCGACAGGCAGACTAAGGGAAAAAAAGTCTCCA-
1 GGTCAAA-CCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * * *
1586047 --T-----GGACAGGCAAACTAAGGGTAGGAAAGTCTCCAG
1 GGTCAAACCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * * *
1586081 GGTTAAAGTCGACACGCAGACTAAGGGAAGAAAAGTCTCCGG
1 GGTCAAA-CCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* ** ** *
1586123 GGTCAAAGCCGATAGGCAGACTTTAAATG-AG-GCAGTCTCTAG
1 GGTCAAA-CCGACAGGCAGAC--TAAGGGAAGAAAAGTCTCCAG
* * * * * * *
1586165 GGACGAAGCCAACAGGTAGACTGAAGGGTAGGAAAGTCTCCAA
1 GGTC-AAACCGACAGGCAGACT-AAGGGAAGAAAAGTCTCCAG
* * * * * *
1586208 GGTCAAAGCCAACAGGCAGACTTTA--GATGAAGGAGTCTACAA
1 GGTCAAA-CCGACAGGCAGAC-TAAGGGAAGAA-AAGTCTCCAG
* * * *
1586250 GGTCAAAGCTGACAGGCAGACTAAGGGAAAAAAAGTCTCTAA
1 GGTCAAA-CCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* *
1586292 GGTCAAAATCGACAGGCAGACTAAAGGATAGAAAAGTCTCCAG
1 GGTC-AAACCGACAGGCAGACTAAGGGA-AGAAAAGTCTCCAG
* ** ** *
1586335 GGTCAAAGCCAACAGGCAGACTTTAAATG-AG-GTAGTCTCTAG
1 GGTCAAA-CCGACAGGCAGAC--TAAGGGAAGAAAAGTCTCCAG
* * *
1586377 GGTCAAAGCCGACAGGCAGACTGAGGGAAAGGAAAGTCTCTAG
1 GGTCAAA-CCGACAGGCAGACTAAGGG-AAGAAAAGTCTCCAG
* * ** ** *
1586420 GGTTAAACTGACAGGCAGACTTTAA-ATAAG-GTAGTCTCTAG
1 GGTCAAACCGACAGGCAGAC--TAAGGGAAGAAAAGTCTCCAG
* * * * *
1586461 AGTCAAAGCCGACAAGCAGACTGAGGGAAAGGAAAGTCTCTAG
1 GGTCAAA-CCGACAGGCAGACTAAGGG-AAGAAAAGTCTCCAG
* * *
1586504 GATCAAAACTGACAGGCAGACTAAGGGAA-AGAAAGTCTCCAT
1 GGTC-AAACCGACAGGCAGACTAAGGGAAGA-AAAGTCTCCAG
* * * * *
1586546 GGTTAAACTGATAGGTAGACTGAGGGAA
1 GGTCAAACCGACAGGCAGACTAAGGGAA
1586574 AACAGAAAAG
Statistics
Matches: 639, Mismatches: 141, Indels: 80
0.74 0.16 0.09
Matches are distributed among these distances:
33 27 0.04
36 1 0.00
39 1 0.00
40 6 0.01
41 73 0.11
42 395 0.62
43 121 0.19
44 10 0.02
45 5 0.01
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.15
Consensus pattern (41 bp):
GGTCAAACCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
Found at i:1586062 original size:33 final size:33
Alignment explanation
Indices: 1586016--1586079 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
1586006 GGTCAAAGCC
*
1586016 GACAGGCAGACTAAGGGAAAAAAAGTCTCCATG
1 GACAGGCAAACTAAGGGAAAAAAAGTCTCCATG
* **
1586049 GACAGGCAAACTAAGGGTAGGAAAGTCTCCA
1 GACAGGCAAACTAAGGGAAAAAAAGTCTCCA
1586080 GGGTTAAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.12
Consensus pattern (33 bp):
GACAGGCAAACTAAGGGAAAAAAAGTCTCCATG
Found at i:1586100 original size:75 final size:75
Alignment explanation
Indices: 1585975--1586120 Score: 220
Period size: 75 Copynumber: 1.9 Consensus size: 75
1585965 GTCAAAGTCA
* *
1585975 ACAGGCAGACTAAGGGAAGAAAAATCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAAAAAA
1 ACAGGCAAACTAAGGGAAGAAAAATCTCCAGGGTCAAAGCCGACACGCAGACTAAGGGAAAAAAA
1586040 GTCTCCATGG
66 GTCTCCATGG
* * * * * *
1586050 ACAGGCAAACTAAGGGTAGGAAAGTCTCCAGGGTTAAAGTCGACACGCAGACTAAGGGAAGAAAA
1 ACAGGCAAACTAAGGGAAGAAAAATCTCCAGGGTCAAAGCCGACACGCAGACTAAGGGAAAAAAA
1586115 GTCTCC
66 GTCTCC
1586121 GGGGTCAAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.40, C:0.20, G:0.28, T:0.12
Consensus pattern (75 bp):
ACAGGCAAACTAAGGGAAGAAAAATCTCCAGGGTCAAAGCCGACACGCAGACTAAGGGAAAAAAA
GTCTCCATGG
Found at i:1586140 original size:117 final size:117
Alignment explanation
Indices: 1585932--1586144 Score: 336
Period size: 117 Copynumber: 1.8 Consensus size: 117
1585922 GGTCAAAGCC
* * *
1585932 GACAGGCAAACTGAGGGAAGAAAAGTTTCCAGGGTCAAAGTCAACAGGCAGACTAAGGGAAGAAA
1 GACAGGCAAACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGTCAACACGCAGACTAAGGGAAGAAA
1585997 AATCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAAAAAAGTCTCCATG
66 AATCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAAAAAAGTCTCCATG
* * * *
1586049 GACAGGCAAACTAAGGGTAGGAAAGTCTCCAGGGTTAAAGTCGACACGCAGACTAAGGGAAGAAA
1 GACAGGCAAACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGTCAACACGCAGACTAAGGGAAGAAA
* * *
1586114 AGTCTCCGGGGTCAAAGCCGATAGGCAGACT
66 AATCTCCAGGGTCAAAGCCGACAGGCAGACT
1586145 TTAAATGAGG
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
117 86 1.00
ACGTcount: A:0.38, C:0.19, G:0.30, T:0.13
Consensus pattern (117 bp):
GACAGGCAAACTAAGGGAAGAAAAGTCTCCAGGGTCAAAGTCAACACGCAGACTAAGGGAAGAAA
AATCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAAAAAAGTCTCCATG
Found at i:1586265 original size:85 final size:84
Alignment explanation
Indices: 1586096--1586313 Score: 242
Period size: 85 Copynumber: 2.6 Consensus size: 84
1586086 AAGTCGACAC
** *
1586096 GCAGACTAAGGGAAGAAAAGTCTCCGGGGTCAAAGCCGATAGGCAGACTTTAAATGAGGCAGTCT
1 GCAGACTAAGGGAAGAAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAAATGAGGCAGTCT
* *
1586161 CTAGGGACGAAGCCAACAG
66 CTAAGGACAAAGCCAACAG
* * * * *
1586180 GTAGACTGAAGGGTAGGAAAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAGATGAAGG-AGT
1 GCAGACT-AAGGGAAGAAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAAATG-AGGCAGT
* **
1586244 CTAC-AAGGTCAAAGCTGACAG
64 CT-CTAAGGACAAAGCCAACAG
* * **
1586265 GCAGACTAAGGGAAAAAAAGTCTCTAAGGTCAAAATCGACAGGCAGACT
1 GCAGACTAAGGGAAGAAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACT
1586314 AAAGGATAGA
Statistics
Matches: 110, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
84 41 0.37
85 65 0.59
86 4 0.04
ACGTcount: A:0.37, C:0.19, G:0.29, T:0.15
Consensus pattern (84 bp):
GCAGACTAAGGGAAGAAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAAATGAGGCAGTCT
CTAAGGACAAAGCCAACAG
Found at i:1586433 original size:127 final size:127
Alignment explanation
Indices: 1586176--1586440 Score: 365
Period size: 127 Copynumber: 2.1 Consensus size: 127
1586166 GACGAAGCCA
* * * * *
1586176 ACAGGTAGACTGAAGGGTAGGAAAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAGATGAAGG
1 ACAGGCAGACTAAAGGATAGAAAAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAAATGAAGG
*
1586241 AGTCTACAAGGTCAAAGCTGACAGGCAGACTAAGGGAAAAAAAGTCTCTAAGGTCAAAATCG
66 AGTCTACAAGGTCAAAGCCGACAGGCAGACTAAGGGAAAAAAAGTCTCTAAGGTCAAAATCG
*
1586303 ACAGGCAGACTAAAGGATAGAAAAGTCTCCAGGGTCAAAGCCAACAGGCAGACTTTAAATG-AGG
1 ACAGGCAGACTAAAGGATAGAAAAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAAATGAAGG
* * * * * *
1586367 TAGTCT-CTAGGGTCAAAGCCGACAGGCAGACTGAGGGAAAGGAAAGTCTCTAGGGTTAAACT-G
66 -AGTCTAC-AAGGTCAAAGCCGACAGGCAGACTAAGGGAAA-AAAAGTCTCTAAGGTCAAAATCG
1586430 ACAGGCAGACT
1 ACAGGCAGACT
1586441 TTAAATAAGG
Statistics
Matches: 122, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
126 4 0.03
127 101 0.83
128 17 0.14
ACGTcount: A:0.38, C:0.18, G:0.28, T:0.16
Consensus pattern (127 bp):
ACAGGCAGACTAAAGGATAGAAAAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAAATGAAGG
AGTCTACAAGGTCAAAGCCGACAGGCAGACTAAGGGAAAAAAAGTCTCTAAGGTCAAAATCG
Found at i:1595347 original size:19 final size:19
Alignment explanation
Indices: 1595323--1595364 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
1595313 TGGGCCATCC
1595323 TGCATTGCTCTCTTTCTAA
1 TGCATTGCTCTCTTTCTAA
1595342 TGCATTGCTCTCTTTCTAA
1 TGCATTGCTCTCTTTCTAA
1595361 TGCA
1 TGCA
1595365 ATTCAGAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.17, C:0.26, G:0.12, T:0.45
Consensus pattern (19 bp):
TGCATTGCTCTCTTTCTAA
Found at i:1599268 original size:16 final size:15
Alignment explanation
Indices: 1599242--1599282 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 15
1599232 AGATAAAAGA
1599242 ATTTTTTATTATTTT
1 ATTTTTTATTATTTT
1599257 ATTTTGTTATTATTTTTT
1 ATTTT-TTATTA--TTTT
1599275 ATTTTTTA
1 ATTTTTTA
1599283 ATTTTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.22
16 6 0.26
17 3 0.13
18 9 0.39
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (15 bp):
ATTTTTTATTATTTT
Found at i:1600437 original size:51 final size:51
Alignment explanation
Indices: 1600360--1600819 Score: 736
Period size: 51 Copynumber: 9.1 Consensus size: 51
1600350 CTTTTTTTCT
* *
1600360 TTATTT-ATTCCATCATGCTCCTTTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
1600410 TTATTTCATTCCATCATACTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1600461 TTATATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 -T-TATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
* * *
1600514 TTATTTCATTCCATTATGCTAAATTTTATTATTCATAC--TTT-TTTTTT-
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
* *
1600561 GTATTTCATTCCATCATGCTATATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
* *
1600612 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTCCTTTTTTG
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
1600663 TTATTTCATTTCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
* *
1600714 TTATTTCATTCCATCATGCTATATTTTATTATTCATGATTTTTC-TTTTT-
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1600763 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1600814 TTATTT
1 TTATTT
1600820 TTTTGATTGA
Statistics
Matches: 378, Mismatches: 23, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
47 34 0.09
48 6 0.02
49 48 0.13
50 22 0.06
51 217 0.57
52 2 0.01
53 49 0.13
ACGTcount: A:0.20, C:0.16, G:0.04, T:0.60
Consensus pattern (51 bp):
TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
Found at i:1600591 original size:151 final size:153
Alignment explanation
Indices: 1600360--1600819 Score: 729
Period size: 151 Copynumber: 3.0 Consensus size: 153
1600350 CTTTTTTTCT
* *
1600360 TTATTT-ATTCCATCATGCTCCTTTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGC-TTTTCTTTTTTATTATTTCATTCCAT
* *
1600424 CATACTACATTTTATTATTCATGCTTTTTCTTTTTTATTATATTTCATTCCATCATGCTACATTT
65 CATGCTATATTTTATTATTCATGCTTTTTCTTTTTTATT-TATTTCATTCCATCATGCTACATTT
1600489 TATTATTCATGCTTTTTCTTTTTTA
129 TATTATTCATGCTTTTTCTTTTTTA
* * * *
1600514 TTATTTCATTCCATTATGCTAAATTTTATTATTCATAC-TTT-TTTTTT-GTATTTCATTCCATC
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTCTTTTTTATTATTTCATTCCATC
1600576 ATGCTATATTTTATTATTCATGCTTTTTCTTTTTTA-TTATTTCATTCCATCATGCTACATTTTA
66 ATGCTATATTTTATTATTCATGCTTTTTCTTTTTTATTTATTTCATTCCATCATGCTACATTTTA
* *
1600640 TTATTCATGCTTTTCCTTTTTTG
131 TTATTCATGCTTTTTCTTTTTTA
*
1600663 TTATTTCATTTCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGC-TTTTCTTTTTTATTATTTCATTCCAT
*
1600728 CATGCTATATTTTATTATTCATGATTTTTC--TTTT-TTTATTTCATTCCATCATGCTACATTTT
65 CATGCTATATTTTATTATTCATGCTTTTTCTTTTTTATTTATTTCATTCCATCATGCTACATTTT
1600790 ATTATTCATGCTTTTTCTTTTTTA
130 ATTATTCATGCTTTTTCTTTTTTA
1600814 TTATTT
1 TTATTT
1600820 TTTTGATTGA
Statistics
Matches: 282, Mismatches: 18, Indels: 15
0.90 0.06 0.05
Matches are distributed among these distances:
149 82 0.29
150 1 0.00
151 110 0.39
152 12 0.04
153 45 0.16
154 6 0.02
155 26 0.09
ACGTcount: A:0.20, C:0.16, G:0.04, T:0.60
Consensus pattern (153 bp):
TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTCTTTTTTATTATTTCATTCCATC
ATGCTATATTTTATTATTCATGCTTTTTCTTTTTTATTTATTTCATTCCATCATGCTACATTTTA
TTATTCATGCTTTTTCTTTTTTA
Found at i:1600770 original size:202 final size:202
Alignment explanation
Indices: 1600350--1600819 Score: 786
Period size: 202 Copynumber: 2.3 Consensus size: 202
1600340 TTATCATCTT
* *
1600350 CTTTTTTTCTTTATTT-ATTCCATCATGCTCCT-TTTTATTATTCATGCTTTTTCTTTTTTATTA
1 CTTTTTTTTTTTATTTCATTCCATCATGCT-ATATTTTATTATTCATGCTTTTTCTTTTTTATTA
* *
1600413 TTTCATTCCATCATACTACATTTTATTATTCATGCTTTTTCTTTTTTATTATATTTCATTCCATC
65 TTTCATTCCATCATACTACATTTTATTATTCATGCTTTTCCTTTTTTAGTATATTTCATTCCATC
*
1600478 ATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATTATGCTAAATTTTAT
130 ATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTAAATTTTAT
1600543 TATTCATA
195 TATTCATA
*
1600551 CTTTTTTTTTGTATTTCATTCCATCATGCTATATTTTATTATTCATGCTTTTTCTTTTTTATTAT
1 CTTTTTTTTTTTATTTCATTCCATCATGCTATATTTTATTATTCATGCTTTTTCTTTTTTATTAT
* *
1600616 TTCATTCCATCATGCTACATTTTATTATTCATGCTTTTCCTTTTTT-GT-TATTTCATTTCATCA
66 TTCATTCCATCATACTACATTTTATTATTCATGCTTTTCCTTTTTTAGTATATTTCATTCCATCA
*
1600679 TGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTATATTTTATT
131 TGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTAAATTTTATT
1600744 ATTCATGA
196 ATTCAT-A
* *
1600752 TTTTTCTTTTTTTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTA
1 CTTTT-TTTTTTTATTTCATTCCATCATGCTATATTTTATTATTCATGCTTTTTCTTTTTTATTA
1600817 TTT
65 TTT
1600820 TTTTGATTGA
Statistics
Matches: 253, Mismatches: 12, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
200 83 0.33
201 21 0.08
202 149 0.59
ACGTcount: A:0.19, C:0.16, G:0.04, T:0.60
Consensus pattern (202 bp):
CTTTTTTTTTTTATTTCATTCCATCATGCTATATTTTATTATTCATGCTTTTTCTTTTTTATTAT
TTCATTCCATCATACTACATTTTATTATTCATGCTTTTCCTTTTTTAGTATATTTCATTCCATCA
TGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTAAATTTTATT
ATTCATA
Found at i:1601862 original size:22 final size:23
Alignment explanation
Indices: 1601820--1601862 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1601810 CAATAAAAAT
1601820 AATAAAATAACAATGAAAGTAAA
1 AATAAAATAACAATGAAAGTAAA
* *
1601843 AATAACATAA-AATGAGAGTA
1 AATAAAATAACAATGAAAGTA
1601863 TAATCCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.19
Consensus pattern (23 bp):
AATAAAATAACAATGAAAGTAAA
Found at i:1602144 original size:109 final size:109
Alignment explanation
Indices: 1602001--1602206 Score: 340
Period size: 109 Copynumber: 1.9 Consensus size: 109
1601991 TAATGTAAAA
* * *
1602001 AAAAAAAAAAAAAAAAAGTTGCAAGAATATAAAAAAAATGAAGTAGAAATAAGTAACTTAGATGA
1 AAAAAAAAAAAAAAAAAGTTACAAGAATAAAAAAAAAATGAAGTAGAAATAAGTAACTTAAATGA
*
1602066 GAAAGATGAATGAGATAGAGATAAATGTTAAGGGGAAAAAAAGT
66 GAAAGATAAATGAGATAGAGATAAATGTTAAGGGGAAAAAAAGT
* * * *
1602110 AAAAAGAAAATAAATAAGTTACAAGAATAAAAAAAAGATGAAGTAGAAATAAGTAACTTAAATGA
1 AAAAAAAAAAAAAAAAAGTTACAAGAATAAAAAAAAAATGAAGTAGAAATAAGTAACTTAAATGA
1602175 GAAAGATAAATGAGATAGAGATAAATGTTAAG
66 GAAAGATAAATGAGATAGAGATAAATGTTAAG
1602207 AAAAGGAAAA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
109 89 1.00
ACGTcount: A:0.61, C:0.02, G:0.19, T:0.18
Consensus pattern (109 bp):
AAAAAAAAAAAAAAAAAGTTACAAGAATAAAAAAAAAATGAAGTAGAAATAAGTAACTTAAATGA
GAAAGATAAATGAGATAGAGATAAATGTTAAGGGGAAAAAAAGT
Found at i:1602184 original size:13 final size:15
Alignment explanation
Indices: 1602168--1602201 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
1602158 ATAAGTAACT
1602168 TAAATGAGA-A-AGA
1 TAAATGAGATAGAGA
1602181 TAAATGAGATAGAGA
1 TAAATGAGATAGAGA
1602196 TAAATG
1 TAAATG
1602202 TTAAGAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 1 0.05
15 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.24, T:0.21
Consensus pattern (15 bp):
TAAATGAGATAGAGA
Found at i:1602223 original size:109 final size:105
Alignment explanation
Indices: 1601997--1602227 Score: 338
Period size: 109 Copynumber: 2.1 Consensus size: 105
1601987 CTTATAATGT
* *
1601997 AAAAAAAAAAAAAAAAAAAAAGTTGCAAGAATATAAAAAAAATGAAGTAGAAATAAGTAACTTAG
1 AAAAAAAAAAAAAAAAAAAAAGTTACAAGAATATAAAAAAAATGAAGTAGAAATAAGTAACTTAA
* *
1602062 ATGAGAAAGATGAATGAGATAGAGATAAATGTTAAGGGGA
66 ATGAGAAAGATAAATGAGATAGAGATAAATGTTAAGAGGA
*
1602102 AAAAAAGTAAAAAGAAAATAAATAAGTTACAAGAATA-AAAAAAAGATGAAGTAGAAATAAGTAA
1 AAAAAA--AAAAA-AAAA-AAAAAAGTTACAAGAATATAAAAAAA-ATGAAGTAGAAATAAGTAA
1602166 CTTAAATGAGAAAGATAAATGAGATAGAGATAAATGTTAAGAAAAGGA
61 CTTAAATGAGAAAGATAAATGAGATAGAGATAAATGTTAAG---AGGA
1602214 AAAAAAAAAAAAAA
1 AAAAAAAAAAAAAA
1602228 GAATGTAGTA
Statistics
Matches: 113, Mismatches: 5, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
105 6 0.05
107 5 0.04
108 11 0.10
109 77 0.68
110 5 0.04
112 9 0.08
ACGTcount: A:0.64, C:0.02, G:0.18, T:0.16
Consensus pattern (105 bp):
AAAAAAAAAAAAAAAAAAAAAGTTACAAGAATATAAAAAAAATGAAGTAGAAATAAGTAACTTAA
ATGAGAAAGATAAATGAGATAGAGATAAATGTTAAGAGGA
Found at i:1602990 original size:14 final size:13
Alignment explanation
Indices: 1602947--1602990 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
1602937 TTTACATGTG
1602947 AAAGTTTAATTAA
1 AAAGTTTAATTAA
1602960 AAA-TTATATATTTAA
1 AAAGTT-TA-A-TTAA
1602975 AAAGTTTAATTAA
1 AAAGTTTAATTAA
1602988 AAA
1 AAA
1602991 TTTTGCATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 2 0.07
13 12 0.44
14 2 0.07
15 9 0.33
16 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (13 bp):
AAAGTTTAATTAA
Found at i:1603003 original size:28 final size:28
Alignment explanation
Indices: 1602833--1603003 Score: 127
Period size: 27 Copynumber: 6.2 Consensus size: 28
1602823 AAAAACTCAT
*
1602833 ATGTAAAAAG-TTAATTAAAAATTTGAC
1 ATGTAAAAAGTTTAATTAAAAATTTTAC
* * *
1602860 TTGT-AAAAGTTTAACTAAAAATTTTAT
1 ATGTAAAAAGTTTAATTAAAAATTTTAC
** ** ** *
1602887 ACAT-AAAACCTTAATTGCAAATTTTAT
1 ATGTAAAAAGTTTAATTAAAAATTTTAC
* * *
1602914 ACGTAAAAAGATTAA-CAGAAAATTTTAC
1 ATGTAAAAAGTTTAATTA-AAAATTTTAC
* * *
1602942 ATGT-GAAAGTTTAATTAAAAATTATAT
1 ATGTAAAAAGTTTAATTAAAAATTTTAC
* *
1602969 ATTTAAAAAGTTTAATTAAAAATTTTGC
1 ATGTAAAAAGTTTAATTAAAAATTTTAC
1602997 ATGTAAA
1 ATGTAAA
1603004 TGTGCAATTA
Statistics
Matches: 108, Mismatches: 31, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
26 5 0.05
27 58 0.54
28 45 0.42
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (28 bp):
ATGTAAAAAGTTTAATTAAAAATTTTAC
Found at i:1603071 original size:28 final size:28
Alignment explanation
Indices: 1603038--1603104 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
1603028 AAAAACATAA
* *
1603038 TAAAAATT-TTTTTGTATTAAAAGTTTGAT
1 TAAAAATTCTTTTTGTA--AAAAATTTAAT
1603067 TAAAAATTCTTTTTGTAAAAAATTTAAT
1 TAAAAATTCTTTTTGTAAAAAATTTAAT
1603095 TAAAAATTCT
1 TAAAAATTCT
1603105 ATGGGTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 19 0.54
29 8 0.23
30 8 0.23
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (28 bp):
TAAAAATTCTTTTTGTAAAAAATTTAAT
Found at i:1603112 original size:28 final size:28
Alignment explanation
Indices: 1603056--1603114 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
1603046 TTTTTGTATT
* * * **
1603056 AAAAGTTTGATTAAAAATTCTTTTTGTA
1 AAAAATTTAATTAAAAATTCTATGGGTA
1603084 AAAAATTTAATTAAAAATTCTATGGGTA
1 AAAAATTTAATTAAAAATTCTATGGGTA
1603112 AAA
1 AAA
1603115 TCCTCATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.39
Consensus pattern (28 bp):
AAAAATTTAATTAAAAATTCTATGGGTA
Found at i:1604143 original size:71 final size:72
Alignment explanation
Indices: 1604011--1604143 Score: 169
Period size: 71 Copynumber: 1.9 Consensus size: 72
1604001 AACGTGCTCA
* * * ** *
1604011 AGTAGTATACGTGCTCGTTTTAGTCTATGGGAAGTTTGGGTTGTTTTAAATTGTTTTATCTTGGT
1 AGTAGTATACGTGCTCGTTTTAGTATATGGGAAGTTTGGGCTGTGTTAAATCATTTGATCTTGGT
1604076 GCTATTT
66 GCTATTT
* * **
1604083 AGTAGTATACGTGTTCG-TTTAGTATGTGGGAAGTTTGGGCTGTGTTGGATCATTTGATCTT
1 AGTAGTATACGTGCTCGTTTTAGTATATGGGAAGTTTGGGCTGTGTTAAATCATTTGATCTT
1604144 AGGATTTCTT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
71 35 0.69
72 16 0.31
ACGTcount: A:0.18, C:0.08, G:0.28, T:0.46
Consensus pattern (72 bp):
AGTAGTATACGTGCTCGTTTTAGTATATGGGAAGTTTGGGCTGTGTTAAATCATTTGATCTTGGT
GCTATTT
Found at i:1604356 original size:15 final size:15
Alignment explanation
Indices: 1604336--1604384 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
1604326 AAAAGGTTTA
*
1604336 ATAAAAATTTTATGT
1 ATAAAAATTTTATAT
*
1604351 ATAAAAATTATA-AT
1 ATAAAAATTTTATAT
1604365 -TAAAAATTTTATAT
1 ATAAAAATTTTATAT
*
1604379 GTAAAA
1 ATAAAA
1604385 TTCTAATTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 10 0.34
14 3 0.10
15 16 0.55
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (15 bp):
ATAAAAATTTTATAT
Found at i:1604370 original size:55 final size:54
Alignment explanation
Indices: 1604241--1604422 Score: 156
Period size: 55 Copynumber: 3.4 Consensus size: 54
1604231 AAATTTTTTT
* * *
1604241 TATAAAAGTTCAATTAAAAATTATATATTTAAAGGTCTAATGAAAAATTTTAGA
1 TATAAAAATTTAATTAAAAATTAAATATTTAAAGGTCTAATGAAAAATTTTAGA
* * ** *
1604295 TGTCAAGGTTTAATTAAAAAATTAAATATTTAAAAGGTTTAAT-AAAAATTTTATG-
1 TATAAAAATTTAATT-AAAAATTAAATATTT-AAAGGTCTAATGAAAAATTTTA-GA
** * ** *
1604350 TATAAAAATTATAATTAAAAATTTTATATGTAAAATTCTAATTG--AAATTTTAAA
1 TATAAAAATT-TAATTAAAAATTAAATATTTAAAGGTCTAA-TGAAAAATTTTAGA
*
1604404 TATATAAATTTAATTAAAA
1 TATAAAAATTTAATTAAAA
1604423 TTTCCTATCT
Statistics
Matches: 103, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
53 9 0.09
54 35 0.34
55 43 0.42
56 16 0.16
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (54 bp):
TATAAAAATTTAATTAAAAATTAAATATTTAAAGGTCTAATGAAAAATTTTAGA
Found at i:1604383 original size:28 final size:27
Alignment explanation
Indices: 1604225--1604555 Score: 153
Period size: 27 Copynumber: 12.4 Consensus size: 27
1604215 CTTAAAAGTC
* * *
1604225 TAATT-AAAATTTTTTTTATAAAAGTT
1 TAATTAAAAATTTTATATATAAAAATT
* * * ** *
1604251 CAATTAAAAATTATATATTTAAAGGTC
1 TAATTAAAAATTTTATATATAAAAATT
* * * * **
1604278 TAATGAAAAATTTTAGATGTCAAGGTT
1 TAATTAAAAATTTTATATATAAAAATT
** * *
1604305 TAATTAAAAAATTAAATATTTAAAAGGTT
1 TAATT-AAAAATTTTATATATAAAA-ATT
*
1604334 TAA-TAAAAATTTTATGTATAAAAATT
1 TAATTAAAAATTTTATATATAAAAATT
*
1604360 ATAATTAAAAATTTTATATGT-AAAATT
1 -TAATTAAAAATTTTATATATAAAAATT
* * *
1604387 CTAATT-GAAATTTTAAATATATAAATT
1 -TAATTAAAAATTTTATATATAAAAATT
* * *
1604414 TAATT-AAAATTTCCTATCTATGAAAAGTC
1 TAATTAAAAATTT--TATATAT-AAAAATT
* * * *
1604443 TAATAAAAAATTTTACATTTAAAAA-G
1 TAATTAAAAATTTTATATATAAAAATT
* ** * *
1604469 T--TTAGAAATCCTATATATAAGGAGTT
1 TAATTAAAAATTTTATATATAA-AAATT
* * *
1604495 TAATTAAAAATTCTATATATAGAAGTT
1 TAATTAAAAATTTTATATATAAAAATT
1604522 TAATTAAAAA-TTT-TATA-AAAAATT
1 TAATTAAAAATTTTATATATAAAAATT
*
1604546 CAATTAAAAA
1 TAATTAAAAA
1604556 GTTTGATGTT
Statistics
Matches: 229, Mismatches: 62, Indels: 30
0.71 0.19 0.09
Matches are distributed among these distances:
24 27 0.12
25 5 0.02
26 32 0.14
27 91 0.40
28 53 0.23
29 14 0.06
30 7 0.03
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (27 bp):
TAATTAAAAATTTTATATATAAAAATT
Found at i:1604417 original size:26 final size:26
Alignment explanation
Indices: 1604334--1604425 Score: 96
Period size: 26 Copynumber: 3.5 Consensus size: 26
1604324 TTAAAAGGTT
* *
1604334 TAATAAAAATTTTATGTATAAAAATTA
1 TAATTAAAATTTTATATAT-AAAATTA
* *
1604361 TAATTAAAAATTTTATATGTAAAATTC
1 TAATT-AAAATTTTATATATAAAATTA
* *
1604388 TAATTGAAATTTTAAATATATAAATT-
1 TAATTAAAATTTTATATATA-AAATTA
1604414 TAATTAAAATTT
1 TAATTAAAATTT
1604426 CCTATCTATG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
26 23 0.42
27 20 0.36
28 12 0.22
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (26 bp):
TAATTAAAATTTTATATATAAAATTA
Found at i:1605496 original size:75 final size:77
Alignment explanation
Indices: 1605371--1605523 Score: 265
Period size: 75 Copynumber: 2.0 Consensus size: 77
1605361 CAGTAGATTA
* *
1605371 TAGTTACACTTATAACAGCCTCTCTCTCTCAATTCTTTCTGAACTCGTCTTCTTTATTCTACTCT
1 TAGTTACACTCATAACAGCCTCTCTCGCTCAATTCTTTCTGAACTCGTCTTCTTTATTCTACTCT
1605436 CTTTTGAAATTC
66 CTTTTGAAATTC
*
1605448 TAGTTACACTCATAACAG-C-CTCTCGCTCAATTCTTTCTTAACTCGTCTTCTTTATTCTACTCT
1 TAGTTACACTCATAACAGCCTCTCTCGCTCAATTCTTTCTGAACTCGTCTTCTTTATTCTACTCT
1605511 CTTTTGAAATTC
66 CTTTTGAAATTC
1605523 T
1 T
1605524 TCGTTTCTTT
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
75 55 0.75
76 1 0.01
77 17 0.23
ACGTcount: A:0.21, C:0.27, G:0.07, T:0.45
Consensus pattern (77 bp):
TAGTTACACTCATAACAGCCTCTCTCGCTCAATTCTTTCTGAACTCGTCTTCTTTATTCTACTCT
CTTTTGAAATTC
Found at i:1607352 original size:34 final size:34
Alignment explanation
Indices: 1607309--1607378 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
1607299 AGATGAAAGG
1607309 TAGAGATCATCCTACCAAGCAAGCTAGAAACTTT
1 TAGAGATCATCCTACCAAGCAAGCTAGAAACTTT
*
1607343 TAGAGATCATCCTACTAAGCAAGCTAGAAACTTT
1 TAGAGATCATCCTACCAAGCAAGCTAGAAACTTT
1607377 TA
1 TA
1607379 CACACAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (34 bp):
TAGAGATCATCCTACCAAGCAAGCTAGAAACTTT
Found at i:1611101 original size:21 final size:21
Alignment explanation
Indices: 1611075--1611137 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
1611065 TAATAGCCCA
*
1611075 TTTCATGCATTTTATGCTATG
1 TTTCATGCATTTTGTGCTATG
1611096 TTTCATGCATTTTGTGCTATG
1 TTTCATGCATTTTGTGCTATG
1611117 TTTCATGCATTTTGTG-TATG
1 TTTCATGCATTTTGTGCTATG
1611137 T
1 T
1611138 CCAACATCTC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
20 5 0.12
21 36 0.88
ACGTcount: A:0.16, C:0.13, G:0.17, T:0.54
Consensus pattern (21 bp):
TTTCATGCATTTTGTGCTATG
Found at i:1613943 original size:76 final size:76
Alignment explanation
Indices: 1613812--1613962 Score: 171
Period size: 76 Copynumber: 2.0 Consensus size: 76
1613802 TAAGAATCGG
* * * * **
1613812 TTTCGAACCGTGCTACCCATTAAGAATAGTAGTTTTTGTTTTAAATCTTGTCACT-GATTAAGAA
1 TTTCGAACCATGCTACCAATTAAGAATAGTAGTTTTTGTTTTAAACCATACCACTGGATTAA-AA
1613876 TAATAGTTTTTA
65 TAATAGTTTTTA
* * * *
1613888 TTTCGATCCATGCTACTAATTAAGAATAGT-GTTTTTTGTTTTGAACCATACCACTGGTTTAAAA
1 TTTCGAACCATGCTACCAATTAAGAATAGTAG-TTTTTGTTTTAAACCATACCACTGGATTAAAA
*
1613952 TAGTAGTTTTT
65 TAATAGTTTTT
1613963 GTTCATAGCT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
75 1 0.02
76 56 0.90
77 5 0.08
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (76 bp):
TTTCGAACCATGCTACCAATTAAGAATAGTAGTTTTTGTTTTAAACCATACCACTGGATTAAAAT
AATAGTTTTTA
Found at i:1614141 original size:17 final size:17
Alignment explanation
Indices: 1614111--1614144 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1614101 TAATATAGTT
*
1614111 TAAATTGTTATTTTAGC
1 TAAATAGTTATTTTAGC
*
1614128 TAAATAGTTTTTTTAGC
1 TAAATAGTTATTTTAGC
1614145 ATGTTTAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (17 bp):
TAAATAGTTATTTTAGC
Found at i:1625529 original size:165 final size:163
Alignment explanation
Indices: 1625176--1625748 Score: 475
Period size: 165 Copynumber: 3.5 Consensus size: 163
1625166 TGTTTTATGA
* * * * * * * *
1625176 AAAAAATGCAAAACTCAT-AAAATAAATTGAA-TTTTGAAAAACTAATTTAATTTAAATTTAATG
1 AAAAAATGAAAAACTCATGAAAATAAA-AGAATTTTTCAAAAA-TGATTTACTATGAATTAAATG
* * * * ***
1625239 ATAATA-TTAGATGAAT-TTAAAAAATTTTAAACTGAGAAAAATTCTCCCGAAAATATTTATGGA
64 ATAATATTTA-ATGAATATT-AAAAATTTTAAACCGAG-AAAA-TCCCCCAAAAACA-TTACAAA
* ** * * ** *
1625302 ATAGAAAACTTGATTTTTC-GAGAATAAGAAAATTTTAAGG
124 ATAGCAAACTCCATATTTCAGA-AACAAGAGGATTTCAAGG
*
1625342 AACAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAAATGATTTACTATGAATTAAATGA
1 AA-AAAATGAAAAACTCATGAAAATAAAAGAATTTTTCAAAAATGATTTACTATGAATTAAATGA
* * ** *
1625407 TAATATTTTATGAATATATTAAAAATTTTGAACTTAG-GAA-CCCTCCAAAAACATTTACAAAAT
65 TAATATTTAATG-A-ATATTAAAAATTTTAAACCGAGAAAATCCC-CCAAAAACA-TTACAAAAT
*
1625470 AGCAAATTCCATATTTCA-AAA-ATAGAGAGATTTCAAGG
126 AGCAAACTCCATATTTCAGAAACA-AGAG-GATTTCAAGG
* *
1625508 AAAAAATGAAAAACTCATGAAAATAAAAGAATTTTTCAAAATTTATTTACTATGAATTAAATGAT
1 AAAAAATGAAAAACTCATGAAAATAAAAGAATTTTTCAAAAATGATTTACTATGAATTAAATGAT
* * * ** *
1625573 GATATTTAATGAATATTAAAAATTTTAAACCGAGAAAATTCCCCCCAAAATATTACGGAGTAGCA
66 AATATTTAATGAATATTAAAAATTTTAAACCGAGAAAA-TCCCCCAAAAACATTACAAAATAGCA
**
1625638 AACTCTGTATTTCAGAAACAAGAGGATTTCAAGG
130 AACTCCATATTTCAGAAACAAGAGGATTTCAAGG
* * * *
1625672 AAAAAATAAAAAAAACTCATG-AAATAAAAAGAA-TTTTAAAAAACTGATTTAATAGTTAATTAA
1 AAAAAAT--GAAAAACTCATGAAAAT-AAAAGAATTTTTCAAAAA-TGATTTACTA-TGAATTAA
*
1625735 ATAATAATATTTAA
61 ATGATAATATTTAA
1625749 AAAATTTTGA
Statistics
Matches: 336, Mismatches: 50, Indels: 41
0.79 0.12 0.10
Matches are distributed among these distances:
163 19 0.06
164 42 0.12
165 102 0.30
166 69 0.21
167 65 0.19
168 20 0.06
169 17 0.05
170 2 0.01
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (163 bp):
AAAAAATGAAAAACTCATGAAAATAAAAGAATTTTTCAAAAATGATTTACTATGAATTAAATGAT
AATATTTAATGAATATTAAAAATTTTAAACCGAGAAAATCCCCCAAAAACATTACAAAATAGCAA
ACTCCATATTTCAGAAACAAGAGGATTTCAAGG
Found at i:1630630 original size:18 final size:17
Alignment explanation
Indices: 1630593--1630627 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1630583 ATAAATATAT
1630593 ATTTAATATATTTAAAA
1 ATTTAATATATTTAAAA
* *
1630610 ATTTTATATTTTTAAAA
1 ATTTAATATATTTAAAA
1630627 A
1 A
1630628 ATTATATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAATATATTTAAAA
Found at i:1630632 original size:16 final size:17
Alignment explanation
Indices: 1630598--1630636 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1630588 TATATATTTA
* *
1630598 ATATATTTAAAAATTTT
1 ATATTTTTAAAAATATT
1630615 ATATTTTTAAAAA-ATT
1 ATATTTTTAAAAATATT
1630631 ATATTT
1 ATATTT
1630637 ATATTTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATTTTTAAAAATATT
Found at i:1635912 original size:22 final size:23
Alignment explanation
Indices: 1635877--1635919 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1635867 TTTTGATTTA
*
1635877 TCACTTTATCTTATATTTAAAAG
1 TCACTTTATCTTATAATTAAAAG
*
1635900 TCAC-TTATTTTATAATTAAA
1 TCACTTTATCTTATAATTAAA
1635920 TAAATAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (23 bp):
TCACTTTATCTTATAATTAAAAG
Found at i:1637673 original size:13 final size:13
Alignment explanation
Indices: 1637655--1637689 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1637645 AATTTGATAC
1637655 TTAATTTAATTAA
1 TTAATTTAATTAA
*
1637668 TTAATTTATTTAA
1 TTAATTTAATTAA
*
1637681 TAAATTTAA
1 TTAATTTAA
1637690 ATTTTAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAATTTAATTAA
Found at i:1638576 original size:20 final size:20
Alignment explanation
Indices: 1638527--1638576 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1638517 ATAATAAATT
* *
1638527 TAAAATATTTATTTATTTTA
1 TAAAATATATATTTATTATA
1638547 T-AAATAATATATTTATTATA
1 TAAAAT-ATATATTTATTATA
1638567 TAAAATATAT
1 TAAAATATAT
1638577 CACTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
20 18 0.69
21 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TAAAATATATATTTATTATA
Found at i:1646417 original size:20 final size:19
Alignment explanation
Indices: 1646385--1646473 Score: 75
Period size: 17 Copynumber: 5.0 Consensus size: 19
1646375 TAATTTTTTT
*
1646385 TATTTAT-ATTAAAAATTA
1 TATTTATAATTAAATATTA
1646403 TATTATATAATTAAATA-TA
1 TATT-TATAATTAAATATTA
*
1646422 TATTT-TTATTAAATATT-
1 TATTTATAATTAAATATTA
*
1646439 TA-TTAT-ATTTAATATT-
1 TATTTATAATTAAATATTA
* *
1646455 TATTTACAATTAAAAATTA
1 TATTTATAATTAAATATTA
1646474 CGTTTTAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
16 13 0.22
17 15 0.26
18 14 0.24
19 9 0.16
20 7 0.12
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTTATAATTAAATATTA
Found at i:1646450 original size:17 final size:17
Alignment explanation
Indices: 1646383--1646460 Score: 86
Period size: 17 Copynumber: 4.5 Consensus size: 17
1646373 TTTAATTTTT
*
1646383 TTTATTTATATTAAAAA
1 TTTATTTATATTAAATA
1646400 TTATATTATATAATTAAATA
1 TT-TATT-TAT-ATTAAATA
* *
1646420 TATATTTTTATTAAATA
1 TTTATTTATATTAAATA
*
1646437 TTTA-TTATATTTAATA
1 TTTATTTATATTAAATA
1646453 TTTATTTA
1 TTTATTTA
1646461 CAATTAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
16 14 0.27
17 16 0.31
18 6 0.12
19 7 0.14
20 8 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTATTTATATTAAATA
Found at i:1646452 original size:16 final size:16
Alignment explanation
Indices: 1646383--1646458 Score: 62
Period size: 16 Copynumber: 4.4 Consensus size: 16
1646373 TTTAATTTTT
*
1646383 TTTATTTATATTAAAAA
1 TTTA-TTATATTAAATA
1646400 TTATATTATATAATTAAATA
1 TT-TA-T-TAT-ATTAAATA
* *
1646420 TATATTTTTATTAAATA
1 TTTA-TTATATTAAATA
*
1646437 TTTATTATATTTAATA
1 TTTATTATATTAAATA
1646453 TTTATT
1 TTTATT
1646459 TACAATTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
16 16 0.32
17 13 0.26
18 6 0.12
19 7 0.14
20 8 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTATTATATTAAATA
Found at i:1646459 original size:33 final size:36
Alignment explanation
Indices: 1646383--1646473 Score: 107
Period size: 37 Copynumber: 2.6 Consensus size: 36
1646373 TTTAATTTTT
1646383 TTTATTTATATTAAAAATTATATTATATAATTAAATA
1 TTTATTTATATTAAAAATTATATTATAT-ATTAAATA
* * *
1646420 TATATTTTTATTAAATATT-TATTATAT-TT-AATA
1 TTTATTTATATTAAAAATTATATTATATATTAAATA
*
1646453 TTTATTTACAATTAAAAATTA
1 TTTATTTA-TATTAAAAATTA
1646474 CGTTTTAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
33 10 0.22
34 11 0.24
36 8 0.18
37 16 0.36
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (36 bp):
TTTATTTATATTAAAAATTATATTATATATTAAATA
Found at i:1646582 original size:14 final size:14
Alignment explanation
Indices: 1646535--1646573 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
1646525 TCAATTTGAT
*
1646535 TTTTAAAT-TAAAA
1 TTTTAAATATTAAA
1646548 TTTTAAATATTAAA
1 TTTTAAATATTAAA
*
1646562 TATTAAATATTA
1 TTTTAAATATTA
1646574 TTTTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTTAAATATTAAA
Found at i:1646881 original size:16 final size:15
Alignment explanation
Indices: 1646860--1647038 Score: 73
Period size: 16 Copynumber: 11.5 Consensus size: 15
1646850 TATCACTTGG
1646860 ATTAATTTCAAATTAA
1 ATTAATTT-AAATTAA
1646876 ATTAATTTAAATTAA
1 ATTAATTTAAATTAA
* *
1646891 A--ATTTTAAATTAT
1 ATTAATTTAAATTAA
* *
1646904 TTTAAATTTAGATT-A
1 ATT-AATTTAAATTAA
1646919 ATTGAATTAATTAAATTTAA
1 ATT-AA-T--TTAAA-TTAA
* *
1646939 ATT-ATTTTAATTTA
1 ATTAATTTAAATTAA
* *
1646953 ATT-ATTTGAATCAA
1 ATTAATTTAAATTAA
*
1646967 TTTAAATTTAAATTTAA
1 ATT-AATTTAAA-TTAA
* *
1646984 ATT-ATATAGATATAA
1 ATTAATTTAAAT-TAA
*
1646999 ATTATTTTAAATTTAA
1 ATTAATTTAAA-TTAA
* *
1647015 AATATTTTTAAATTTAA
1 ATTA-ATTTAAA-TTAA
1647032 ATTAATT
1 ATTAATT
1647039 AATTTTAAAA
Statistics
Matches: 122, Mismatches: 26, Indels: 30
0.69 0.15 0.17
Matches are distributed among these distances:
13 10 0.08
14 17 0.14
15 27 0.22
16 35 0.29
17 22 0.18
18 5 0.04
19 2 0.02
20 4 0.03
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTAATTTAAATTAA
Found at i:1646934 original size:24 final size:25
Alignment explanation
Indices: 1646905--1646956 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
1646895 TTAAATTATT
*
1646905 TTAAATTTAGATTAATTGAA-TTAA
1 TTAAATTTAAATTAATTGAATTTAA
* *
1646929 TTAAATTTAAATTATTTTAATTTAA
1 TTAAATTTAAATTAATTGAATTTAA
1646954 TTA
1 TTA
1646957 TTTGAATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
TTAAATTTAAATTAATTGAATTTAA
Found at i:1646957 original size:14 final size:14
Alignment explanation
Indices: 1646916--1646959 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
1646906 TAAATTTAGA
* *
1646916 TTAATTGAATTAAT
1 TTAATTTAATTATT
*
1646930 TAAATTTAAATTATT
1 TTAATTT-AATTATT
1646945 TTAATTTAATTATT
1 TTAATTTAATTATT
1646959 T
1 T
1646960 GAATCAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTAATTTAATTATT
Found at i:1647008 original size:31 final size:29
Alignment explanation
Indices: 1646936--1647020 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 29
1646926 TAATTAAATT
*
1646936 TAAATTATTTT-AATTT-AATTATTTGAA
1 TAAATTATTTTAAATTTAAATTATTAGAA
* *
1646963 TCAATTTAAATTTAAATTTAAATTATATAGATA
1 T-AAATT-ATTTTAAATTTAAATTAT-TAGA-A
*
1646996 TAAATTATTTTAAATTTAAAATATT
1 TAAATTATTTTAAATTTAAATTATT
1647021 TTTAAATTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
27 1 0.02
28 4 0.09
29 4 0.09
30 6 0.13
31 22 0.48
32 7 0.15
33 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (29 bp):
TAAATTATTTTAAATTTAAATTATTAGAA
Found at i:1647056 original size:37 final size:38
Alignment explanation
Indices: 1647015--1647094 Score: 103
Period size: 37 Copynumber: 2.1 Consensus size: 38
1647005 TTAAATTTAA
*
1647015 AATATT-TTTAAATTTAAATT-AATTAATTTTAAA-AATT
1 AATATTGTTT-AA-TTAAATTAAATTAAATTTAAAGAATT
1647052 AATATTGTTTAATTAAATTAAATTAAATTTAAATGAATT
1 AATATTGTTTAATTAAATTAAATTAAATTTAAA-GAATT
1647091 AATA
1 AATA
1647095 AGATTTTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
36 7 0.18
37 20 0.53
38 3 0.08
39 8 0.21
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (38 bp):
AATATTGTTTAATTAAATTAAATTAAATTTAAAGAATT
Found at i:1647373 original size:27 final size:27
Alignment explanation
Indices: 1647333--1647385 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
1647323 ATATATATTA
1647333 TTATATTATAATAATATTTTAA-ATATC
1 TTATATTATAATAA-ATTTTAATATATC
1647360 TTAT-TTATATATAAATTTTAATATAT
1 TTATATTATA-ATAAATTTTAATATAT
1647386 TAATAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
TTATATTATAATAAATTTTAATATATC
Found at i:1647373 original size:30 final size:31
Alignment explanation
Indices: 1647315--1647387 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 31
1647305 TATCAATTTT
*
1647315 ATATATTTATATATATTATTATATTATAATA
1 ATATATTTAAATATATTATTATATTATAATA
*
1647346 ATAT-TTTAAATATCTTATT-TA-TAT-ATA
1 ATATATTTAAATATATTATTATATTATAATA
1647373 A-AT-TTT-AATATATTA
1 ATATATTTAAATATATTA
1647388 ATAATTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
25 8 0.21
26 5 0.13
27 4 0.10
28 3 0.08
29 2 0.05
30 13 0.33
31 4 0.10
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (31 bp):
ATATATTTAAATATATTATTATATTATAATA
Found at i:1647434 original size:34 final size:32
Alignment explanation
Indices: 1647367--1647437 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
1647357 ATCTTATTTA
* *
1647367 TATATAAATTTTAATATATTAATAATTTTTAT
1 TATATAAATTTTAAAATATTAATAATTTATAT
*
1647399 TATATAAATTTTAAAATATTAATTTATATTATAT
1 TATATAAATTTTAAAATATTAA-TAAT-TTATAT
1647433 TATAT
1 TATAT
1647438 TTTAATTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 21 0.62
33 3 0.09
34 10 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
TATATAAATTTTAAAATATTAATAATTTATAT
Found at i:1648057 original size:17 final size:17
Alignment explanation
Indices: 1648027--1648060 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1648017 AAATTTTAAA
1648027 TTTATAAAATATTATAT
1 TTTATAAAATATTATAT
1648044 TTTA-AAAATAATTATAT
1 TTTATAAAAT-ATTATAT
1648061 AAAATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTATAAAATATTATAT
Found at i:1648671 original size:14 final size:14
Alignment explanation
Indices: 1648652--1648695 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 14
1648642 TATAATTTAA
1648652 ATTTTAAATTTTTT
1 ATTTTAAATTTTTT
1648666 ATTTTAAATTAATTTT
1 ATTTTAAATT--TTTT
1648682 ATTTATAAATTTTT
1 ATTT-TAAATTTTT
1648696 GACTGTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.37
15 3 0.11
16 8 0.30
17 6 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTTAAATTTTTT
Found at i:1648811 original size:5 final size:5
Alignment explanation
Indices: 1648801--1648855 Score: 65
Period size: 5 Copynumber: 10.6 Consensus size: 5
1648791 AAATAATAAT
* * *
1648801 TTAAA TTAAA TTAAA TTAGA TAAAA TAAAA TTTTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA --TTAAA TTAAA TTAAA TTAAA
1648853 TTA
1 TTA
1648856 TTTAACTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
5 40 0.91
7 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:1648836 original size:22 final size:22
Alignment explanation
Indices: 1648811--1648854 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1648801 TTAAATTAAA
*
1648811 TTAAATTAGATAAAATAAAATT
1 TTAAATTAAATAAAATAAAATT
* *
1648833 TTAAATTAAATTAAATTAAATT
1 TTAAATTAAATAAAATAAAATT
1648855 ATTTAACTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
TTAAATTAAATAAAATAAAATT
Found at i:1648877 original size:17 final size:17
Alignment explanation
Indices: 1648855--1648887 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1648845 AAATTAAATT
1648855 ATTTAACTTT-TAAATAA
1 ATTTAA-TTTATAAATAA
1648872 ATTTAATTTATAAATA
1 ATTTAATTTATAAATA
1648888 TATATATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTAATTTATAAATAA
Found at i:1648984 original size:17 final size:18
Alignment explanation
Indices: 1648942--1648991 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
1648932 ATTTATATAA
*
1648942 AAATTTAAATATATAAATTT
1 AAATTTAAATA-AT-TATTT
*
1648962 ATATTT-AATAATTATTT
1 AAATTTAAATAATTATTT
1648979 AAATTTAAATAAT
1 AAATTTAAATAAT
1648992 ATAGAAGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 9 0.35
18 8 0.31
19 4 0.15
20 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AAATTTAAATAATTATTT
Found at i:1649500 original size:26 final size:26
Alignment explanation
Indices: 1649464--1649518 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
1649454 TGGATCATGC
1649464 AGACCCTGTTTTCCTAGTAGTTCTTA
1 AGACCCTGTTTTCCTAGTAGTTCTTA
1649490 AGACCCTGTTTTCCTAGTAGTTCTTA
1 AGACCCTGTTTTCCTAGTAGTTCTTA
1649516 AGA
1 AGA
1649519 AAATGGAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (26 bp):
AGACCCTGTTTTCCTAGTAGTTCTTA
Found at i:1654205 original size:30 final size:30
Alignment explanation
Indices: 1654174--1654232 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
1654164 TTATTCGTAT
*
1654174 AAATATAAAAATATAAATTTAATTACATATAA
1 AAAT-TAAAAAT-TAAATATAATTACATATAA
*
1654206 AAATTAAAAATTAAATATATTTACATA
1 AAATTAAAAATTAAATATAATTACATA
1654233 AATATATTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 14 0.56
31 7 0.28
32 4 0.16
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATTAAAAATTAAATATAATTACATATAA
Found at i:1655623 original size:21 final size:22
Alignment explanation
Indices: 1655565--1655628 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 22
1655555 TAAAATCAGT
1655565 AATATATCAAAATTTATATATTATAA
1 AATATAT-AAAA--TATA-ATTATAA
*
1655591 AATATATTAAATATAATTATAA
1 AATATATAAAATATAATTATAA
*
1655613 CATA-ATAAAATATAAT
1 AATATATAAAATATAAT
1655629 AAATATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 11 0.31
22 10 0.29
23 4 0.11
25 3 0.09
26 7 0.20
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (22 bp):
AATATATAAAATATAATTATAA
Found at i:1656550 original size:23 final size:22
Alignment explanation
Indices: 1656504--1656558 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 22
1656494 ATAAAGTAAG
1656504 AATTATAAATTTATTAAAATTTAA
1 AATT-TAAATTTATTAAAATTT-A
1656528 AATTTAAATTTATT-AAATATTA
1 AATTTAAATTTATTAAAAT-TTA
*
1656550 ATTTTAAAT
1 AATTTAAAT
1656559 ATAATTACTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 13 0.45
23 12 0.41
24 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTTAAATTTATTAAAATTTA
Found at i:1661691 original size:33 final size:33
Alignment explanation
Indices: 1661654--1661716 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
1661644 ACGATTTGTA
1661654 TCGATACATAAAATGTTGTATCGATACAATGTT
1 TCGATACATAAAATGTTGTATCGATACAATGTT
*** *
1661687 TCGATACATATTTTTTTGTATCGATACAAT
1 TCGATACATAAAATGTTGTATCGATACAAT
1661717 TTAAGCTACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (33 bp):
TCGATACATAAAATGTTGTATCGATACAATGTT
Found at i:1661777 original size:13 final size:13
Alignment explanation
Indices: 1661759--1661783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1661749 ATTACTCAAA
1661759 TGTATCGATACAT
1 TGTATCGATACAT
1661772 TGTATCGATACA
1 TGTATCGATACA
1661784 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1661833 original size:51 final size:53
Alignment explanation
Indices: 1661772--1661915 Score: 179
Period size: 52 Copynumber: 2.8 Consensus size: 53
1661762 ATCGATACAT
***
1661772 TGTATCGATACACTGAT-CTTTGTATCAATACATGCAGGC-AATTTGCCCAGA
1 TGTATCGATACACTGATAAAATGTATCAATACATGCAGGCAAATTTGCCCAGA
** *
1661823 TGTATCGATACA-TTTTAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATAAAATGTATCAATACATGCAGGCAAATTTGCCCAGA
* * *
1661875 TGTATCGATACACT-ATTAAATGTATCGATACATGCAAGCAA
1 TGTATCGATACACTGATAAAATGTATCAATACATGCAGGCAA
1661916 CTTTTCATAT
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
50 2 0.02
51 30 0.37
52 48 0.59
53 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (53 bp):
TGTATCGATACACTGATAAAATGTATCAATACATGCAGGCAAATTTGCCCAGA
Found at i:1661885 original size:52 final size:52
Alignment explanation
Indices: 1661792--1661915 Score: 198
Period size: 52 Copynumber: 2.4 Consensus size: 52
1661782 CACTGATCTT
* *
1661792 TGTATCAATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
1661843 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
1661895 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1661916 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 18 0.26
52 47 0.69
53 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:1667120 original size:13 final size:13
Alignment explanation
Indices: 1667102--1667126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1667092 CAAAGATCAG
1667102 TGTATCGATACAA
1 TGTATCGATACAA
1667115 TGTATCGATACA
1 TGTATCGATACA
1667127 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1667192 original size:19 final size:18
Alignment explanation
Indices: 1667168--1667234 Score: 81
Period size: 19 Copynumber: 3.9 Consensus size: 18
1667158 AGTAGCTTCA
1667168 TATGTATCGATACAATACT
1 TATGTATCGATACAA-ACT
1667187 TATGTATCGATAC--A--
1 TATGTATCGATACAAACT
1667201 T-TGTATCGATACAACACT
1 TATGTATCGATACAA-ACT
1667219 TATGTATCGATACAAA
1 TATGTATCGATACAAA
1667235 TCGTTGAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 2 0.05
19 26 0.62
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (18 bp):
TATGTATCGATACAAACT
Found at i:1667207 original size:13 final size:13
Alignment explanation
Indices: 1667189--1667213 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1667179 ACAATACTTA
1667189 TGTATCGATACAT
1 TGTATCGATACAT
1667202 TGTATCGATACA
1 TGTATCGATACA
1667214 ACACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1667211 original size:32 final size:32
Alignment explanation
Indices: 1667170--1667232 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1667160 TAGCTTCATA
*
1667170 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
1667202 TGTATCGATACAACACTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
1667233 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:1668973 original size:22 final size:22
Alignment explanation
Indices: 1668947--1668991 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1668937 GTATAACAAG
* *
1668947 AATAAT-TATTTTTATTTTAAAA
1 AATAATATATATTT-TTTGAAAA
1668969 AATAATATATATTTTTTGAAAA
1 AATAATATATATTTTTTGAAAA
1668991 A
1 A
1668992 TAAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AATAATATATATTTTTTGAAAA
Found at i:1673512 original size:20 final size:20
Alignment explanation
Indices: 1673487--1673552 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
1673477 TGTCTACACA
1673487 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAATTCTTC
1673507 ATGTATCGATAC-A----TC
1 ATGTATCGATACAATTCTTC
*
1673522 --GTATCGATATAATTCTTC
1 ATGTATCGATACAATTCTTC
1673540 ATGTATCGATACA
1 ATGTATCGATACA
1673553 TCGTATCGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
15 2 0.05
18 2 0.05
19 1 0.03
20 22 0.59
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATTCTTC
Found at i:1673526 original size:33 final size:33
Alignment explanation
Indices: 1673489--1673566 Score: 147
Period size: 33 Copynumber: 2.4 Consensus size: 33
1673479 TCTACACAAT
1673489 GTATCGATACAATTCTTCATGTATCGATACATC
1 GTATCGATACAATTCTTCATGTATCGATACATC
*
1673522 GTATCGATATAATTCTTCATGTATCGATACATC
1 GTATCGATACAATTCTTCATGTATCGATACATC
1673555 GTATCGATACAA
1 GTATCGATACAA
1673567 ACAGTGGTAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (33 bp):
GTATCGATACAATTCTTCATGTATCGATACATC
Found at i:1673640 original size:19 final size:19
Alignment explanation
Indices: 1673594--1673650 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
1673584 ATTGCCAGTT
*
1673594 TCATGTATCGATACAATTA
1 TCATGTATCGATACAATGA
*
1673613 TGTATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
1673633 TCATGTATCGATACAATG
1 TCATGTATCGATACAATG
1673651 TATCGATACA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:1673653 original size:13 final size:13
Alignment explanation
Indices: 1673635--1673661 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1673625 TACAATGATC
1673635 ATGTATCGATACA
1 ATGTATCGATACA
1673648 ATGTATCGATACA
1 ATGTATCGATACA
1673661 A
1 A
1673662 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1673677 original size:33 final size:32
Alignment explanation
Indices: 1673616--1673680 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1673606 ACAATTATGT
* *
1673616 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTATCGATACA
1673648 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAG-ATAATGTATCGATACA
1673681 TCTGGATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCGATACA
Found at i:1676239 original size:13 final size:13
Alignment explanation
Indices: 1676216--1676240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1676206 CGATACATTG
1676216 TATCAATACAATA
1 TATCAATACAATA
1676229 TATCAATACAAT
1 TATCAATACAAT
1676241 GAATATTGTA
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
TATCAATACAATA
Found at i:1679115 original size:92 final size:92
Alignment explanation
Indices: 1678959--1679134 Score: 327
Period size: 92 Copynumber: 1.9 Consensus size: 92
1678949 TTTTGAACAG
*
1678959 TTTTACAAAAAGTGATGAATTTTTCTAAAGTTTCATCTTTAGTGCTTAAGAATAAAACCTAAGTA
1 TTTTACAAAAAGTGATGAATTTTTCTAAAGGTTCATCTTTAGTGCTTAAGAATAAAACCTAAGTA
1679024 TATCTAGAATAATCATCCAATGAACTA
66 TATCTAGAATAATCATCCAATGAACTA
1679051 TTTTACAAAAAGTGATGAATTTTTCTAAAGGTTCATCTTTAGTGCTTAAGAATAAAA-CTCAAGT
1 TTTTACAAAAAGTGATGAATTTTTCTAAAGGTTCATCTTTAGTGCTTAAGAATAAAACCT-AAGT
1679115 ATATCTAGAATAATCATCCA
65 ATATCTAGAATAATCATCCA
1679135 CAATAACAAA
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
91 2 0.02
92 80 0.98
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (92 bp):
TTTTACAAAAAGTGATGAATTTTTCTAAAGGTTCATCTTTAGTGCTTAAGAATAAAACCTAAGTA
TATCTAGAATAATCATCCAATGAACTA
Found at i:1682519 original size:19 final size:19
Alignment explanation
Indices: 1682474--1682529 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1682464 ACTGCCAGTT
**
1682474 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATAA
1682493 TGCATGTATCGATACAATAA
1 T-CATGTATCGATACAATAA
1682513 TCATGTATCGATACAAT
1 TCATGTATCGATACAAT
1682530 GTATCGATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (19 bp):
TCATGTATCGATACAATAA
Found at i:1682533 original size:13 final size:13
Alignment explanation
Indices: 1682515--1682541 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1682505 TACAATAATC
1682515 ATGTATCGATACA
1 ATGTATCGATACA
1682528 ATGTATCGATACA
1 ATGTATCGATACA
1682541 A
1 A
1682542 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1682557 original size:33 final size:32
Alignment explanation
Indices: 1682496--1682560 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
1682486 ACAATTGTGC
*
1682496 ATGTATCGATACAATAATCATGTATCGATACA
1 ATGTATCGATACAATAATAATGTATCGATACA
1682528 ATGTATCGATACAA-AGCATAATGTATCGATACA
1 ATGTATCGATACAATA--ATAATGTATCGATACA
1682561 TCTAGATGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 14 0.47
33 15 0.50
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAATAATAATGTATCGATACA
Found at i:1683428 original size:19 final size:19
Alignment explanation
Indices: 1683385--1683456 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
1683375 TGCCAGTTTA
* **
1683385 ATGTATCAATACAATTGTGC
1 ATGTATCGATACAATAAT-C
1683405 ATGTATCGATACAATAATC
1 ATGTATCGATACAATAATC
*
1683424 ATGTATCGATACAA-AGCATA
1 ATGTATCGATACAATA--ATC
1683444 ATGTATCGATACA
1 ATGTATCGATACA
1683457 TCTGGATGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
18 1 0.02
19 15 0.33
20 30 0.65
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATAATC
Found at i:1683747 original size:896 final size:899
Alignment explanation
Indices: 1681954--1683768 Score: 3244
Period size: 896 Copynumber: 2.0 Consensus size: 899
1681944 TATGAATTGT
1681954 TTTACCTTTTCGAAAGGTATAACCTTTACAAACACTTTATCTTTATAGCTAGATAAAAACCTCAC
1 TTTACCTTTTCGAAAGGTATAACCTTTACAAACACTTTATCTTTATAGCTAGATAAAAACCTCAC
1682019 AATCTCTCCAAGAATTATACCCCAAATCTTGAGAAATCGTTTAATTCAAGGGTAAATACAACCGT
66 AATCTCTCCAAGAATTATACCCCAAATCTTGAGAAATCG-TTAATTCAAGGGTAAATACAACCGT
1682084 TATAAAATTCAAGAAATGTACAAATAAAACTTGCCTCTAAATAAGCTTGATGTTTGTGGAAAATA
130 TATAAAATTCAAGAAATGTACAAATAAAACTTGCCTCTAAATAAGCTTGATGTTTGTGGAAAATA
* *
1682149 AATAGAAATCACATACAAAGATCTTCAAAGAATAACAATAATGATTTGTAAAAGCTCTGATGAAA
195 AATAGAAATCAAATACAAAGATCTTCAAAGAATAACAATAATGATATGTAAAAGCTCT-ATGAAA
1682214 ATGAGAAAAAAATTAAACTTTGAATGCTTGATCACTGGGTGGTTCTTGATGGATTCTCTTGATAT
259 ATGAGAAAAAAATTAAACTTTGAATGCTTGATCACTGGGTGGTTCTTGATGGATTCTCTTGATAT
1682279 TCAGCTGTTGGAGACTCAAATTTATAGGCTTGAATGTTGACAAACTCGTTTTAGGTTGAATGATG
324 TCAGCTGTTGGAGACTCAAATTTATAGGCTTGAATGTTGACAAACTCGTTTTAGGTTGAATGATG
1682344 TATCGATACATGCATTTAAAAATATAGCCGTTTATAGCCGTTTGAGACAATGTATCAATACAATT
389 TATCGATACATGCATTTAAAAATATAGCCGTTTATAGCCGTTTGAGACAATGTATCAATACAATT
1682409 CTTCTTGTATCGATACAATGTGCCATGTATCGATACAAACAGTGGTAGAGTAGCTACTGCCAGTT
454 CTTCTTGTATCGATACAATGTGCCATGTATCGATACAAACAGTGGTAGAGTAGCTACTGCCAGTT
* *
1682474 TCATGTATCGATACAATTGTGCATGTATCGATACAATAATCATGTATCGATACAATGTATCGATA
519 TAATGTATCAATACAATTGTGCATGTATCGATAC---AA-CA-GTA-C-ATACAATGTATCGATA
1682539 CAAAGCATAATGTATCGATACATCTAGATGTGTATCGATACATACAAGGGTTTTGACCTTTGTAG
577 CAAAGCATAATGTATCGATACATCTAGATGTGTATCGATACATACAAGGGTTTTGACCTTTGTAG
1682604 CCTTAGTCAACCTTAATGTATCGATACAAATACCTATATATCGATACTTTGGTTTATTCATACTT
642 CCTTAGTCAACCTTAATGTATCGATACAAATACCTATATATCGATACTTTGGTTTATTCATACTT
1682669 GAAAACATTCGATTTAAGGCTTGAAAACATTTATATGAAACTCTAAAACATTATTAATATTGAAA
707 GAAAACATTCGATTTAAGGCTTGAAAACATTTATATGAAACTCTAAAACATTATTAATATTGAAA
1682734 ATCACTTAGAACAAGGTTTTTAGAGTATTTTTGAATGAATAAAACTTATTACAGTTTTTCAAAGT
772 ATCACTTAGAACAAGGTTTTTAGAGTATTTTTGAATGAATAAAACTTATTACAGTTTTTCAAAGT
1682799 ATTTTTCGATTTTATTCAATCTTTGTTATATCAAAACCAAGATCCTAACAATTCTTTTCTGGC
837 ATTTTTCGATTTTATTCAATCTTTGTTATATCAAAACCAAGATCCTAACAATTCTTTTCTGGC
*
1682862 TTTACCTTTTCGAAAAGGTATAACC-TTAC-AACACTTTATCTTTTCTAGGCTAAGATAAAAACC
1 TTTACCTTTTCG-AAAGGTATAACCTTTACAAACACTTTATC-TTTATA-GCT-AGATAAAAACC
* *
1682925 TCACAATCTCTCCAAGAATTATACCCCAAATTCTTGAGAAATCG-TAATTCAAGGTTGAATACAA
62 TCACAATCTCTCCAAGAATTATACCCCAAA-TCTTGAGAAATCGTTAATTCAAGGGTAAATACAA
1682989 CCG-TATAAAATTCAAGAAAATTGTACAAATGAAAA-TTGCCTCTAAATAAGC-TGATGTTTGTG
126 CCGTTATAAAATTCAAG-AAA-TGTACAAAT-AAAACTTGCCTCTAAATAAGCTTGATGTTTGTG
1683051 GAATAATAAATAGAAATCAAATACAAAGATCTTTCAAAGAATAACAATAATGA-ATGTAAAAGCT
188 GAA-AATAAATAGAAATCAAATACAAAGATC-TTCAAAGAATAACAATAATGATATGTAAAAGCT
* *
1683115 CT-TGAAAATGAGAAAAAAATTAAACTTTGAATGCTTTGATCACTTGGTGTTTCTTGATGGATTC
251 CTATGAAAATGAGAAAAAAATTAAACTTTGAATGC-TTGATCACTGGGTGGTTCTTGATGGATTC
1683179 TCTTGATATTCAGCTGTTGGAGACTCAAATTTATAGGCTTGAATGTTGACAAACTCGTTTTAGGT
315 TCTTGATATTCAGCTGTTGGAGACTCAAATTTATAGGCTTGAATGTTGACAAACTCGTTTTAGGT
1683244 TGAATGATGTATCGATACATGCATTTAAAAATATAGCCGTTTATAGCCGTTTGAGACAATGTATC
380 TGAATGATGTATCGATACATGCATTTAAAAATATAGCCGTTTATAGCCGTTTGAGACAATGTATC
1683309 AATACAATTCTTCTTGTATCGATACAATGTGCCATGTATCGATACAAACAGTGGTAGAGTAGCTA
445 AATACAATTCTTCTTGTATCGATACAATGTGCCATGTATCGATACAAACAGTGGTAGAGTAGCTA
1683374 CTGCCAGTTTAATGTATCAATACAATTGTGCATGTATCGATAC-A-A-TA-AT-C-ATGTATCGA
510 CTGCCAGTTTAATGTATCAATACAATTGTGCATGTATCGATACAACAGTACATACAATGTATCGA
*
1683433 TACAAAGCATAATGTATCGATACATCTGGATGTGTATCGATACATACAAGGGTTTTGACCTTTGT
575 TACAAAGCATAATGTATCGATACATCTAGATGTGTATCGATACATACAAGGGTTTTGACCTTTGT
1683498 AGCCTTAGTCAACCTTAATGTATCGATACAAATACCTATATATCGATACTTTGGTTTATTCATAC
640 AGCCTTAGTCAACCTTAATGTATCGATACAAATACCTATATATCGATACTTTGGTTTATTCATAC
1683563 TTGAAAACATTCGATTTAAGGCTTGAAAACATTTATATGAAACTCTAAAACATTATTAATATTGA
705 TTGAAAACATTCGATTTAAGGCTTGAAAACATTTATATGAAACTCTAAAACATTATTAATATTGA
*
1683628 AAATCACTTAGAACAAGGTTTTTGGAGTATTTTTGAATGAATAAAACTTATTACAGTTTTTCAAA
770 AAATCACTTAGAACAAGGTTTTTAGAGTATTTTTGAATGAATAAAACTTATTACAGTTTTTCAAA
1683693 GTATTTTTCGATTTTATTCAATCTTTGTTATATCAAAACCAAGATCCTAACAATTCTTTTCTGGC
835 GTATTTTTCGATTTTATTCAATCTTTGTTATATCAAAACCAAGATCCTAACAATTCTTTTCTGGC
*
1683758 TTTCCCTTTTC
1 TTTACCTTTTC
1683769 TTCCAATTTT
Statistics
Matches: 884, Mismatches: 12, Indels: 34
0.95 0.01 0.04
Matches are distributed among these distances:
896 342 0.39
897 1 0.00
898 2 0.00
901 2 0.00
903 1 0.00
905 1 0.00
907 11 0.01
908 66 0.07
909 316 0.36
910 104 0.12
911 38 0.04
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (899 bp):
TTTACCTTTTCGAAAGGTATAACCTTTACAAACACTTTATCTTTATAGCTAGATAAAAACCTCAC
AATCTCTCCAAGAATTATACCCCAAATCTTGAGAAATCGTTAATTCAAGGGTAAATACAACCGTT
ATAAAATTCAAGAAATGTACAAATAAAACTTGCCTCTAAATAAGCTTGATGTTTGTGGAAAATAA
ATAGAAATCAAATACAAAGATCTTCAAAGAATAACAATAATGATATGTAAAAGCTCTATGAAAAT
GAGAAAAAAATTAAACTTTGAATGCTTGATCACTGGGTGGTTCTTGATGGATTCTCTTGATATTC
AGCTGTTGGAGACTCAAATTTATAGGCTTGAATGTTGACAAACTCGTTTTAGGTTGAATGATGTA
TCGATACATGCATTTAAAAATATAGCCGTTTATAGCCGTTTGAGACAATGTATCAATACAATTCT
TCTTGTATCGATACAATGTGCCATGTATCGATACAAACAGTGGTAGAGTAGCTACTGCCAGTTTA
ATGTATCAATACAATTGTGCATGTATCGATACAACAGTACATACAATGTATCGATACAAAGCATA
ATGTATCGATACATCTAGATGTGTATCGATACATACAAGGGTTTTGACCTTTGTAGCCTTAGTCA
ACCTTAATGTATCGATACAAATACCTATATATCGATACTTTGGTTTATTCATACTTGAAAACATT
CGATTTAAGGCTTGAAAACATTTATATGAAACTCTAAAACATTATTAATATTGAAAATCACTTAG
AACAAGGTTTTTAGAGTATTTTTGAATGAATAAAACTTATTACAGTTTTTCAAAGTATTTTTCGA
TTTTATTCAATCTTTGTTATATCAAAACCAAGATCCTAACAATTCTTTTCTGGC
Found at i:1687126 original size:20 final size:20
Alignment explanation
Indices: 1687099--1687173 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
1687089 AAAAAGACAG
1687099 AATGTATCGATACATT-AAA
1 AATGTATCGATACATTCAAA
* *
1687118 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCAAA
* *
1687139 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
1687159 AATGTATCGATACAT
1 AATGTATCGATACAT
1687174 CTGGGTACTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 45 0.96
21 2 0.04
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1688178 original size:28 final size:28
Alignment explanation
Indices: 1688074--1688759 Score: 753
Period size: 28 Copynumber: 23.9 Consensus size: 28
1688064 TAAAAAAAAT
* *
1688074 GGTGCTACTAACTTGTGCGAGCTTTGAAAAG
1 GGTGCCACTGACTTGTG-G-GCTTTG-AAAG
*
1688105 GGTTGCCACCGACTCGTGTGGGCTTTGAAAAG
1 GG-TGCCACTGACT--TGTGGGCTTTG-AAAG
* *
1688137 AGTGCCATTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1688165 GGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
1688193 GATACCACTGACTTGTGTGCTTTAAAAAG
1 GGTGCCACTGACTTGTGGGCTTT-GAAAG
** *
1688222 AATGCCACTGACTTGTGAGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1688250 GATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
1688278 GGTGCCACTGACTTATGGGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
1688306 GATGCCACTGACTTGTGGGTTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * **
1688335 AGTTGCCAAC-AACTCATGGGCTTTGAAAG
1 -GGTGCC-ACTGACTTGTGGGCTTTGAAAG
* * *
1688364 GATGCCACTGACTTGTGGGCCTTGAAAATA
1 GGTGCCACTGACTTGTGGGCTTTG-AAA-G
* * *
1688394 GTTGCCACTAACTTGTGTGGGTTTGAAAAG
1 GGTGCCACTGACTTGTG-GGCTTTG-AAAG
*
1688424 AGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
1688452 AGTGCCATTGACTTGTGGTCTTTTAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
1688480 GATGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1688508 GGTGCCAATGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1688536 GATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
1688564 GATGCCATTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1688592 GATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
1688620 GGTGCTACTGACTTATGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
1688648 GATGCCACTGACTTGTGGGTTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* ** *
1688677 AGTTGCCACCAACTCGTGGGCTTTGAAAG
1 -GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
1688706 TGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1688734 GGTGCCACTGACTTATGGGCTTTGAA
1 GGTGCCACTGACTTGTGGGCTTTGAA
1688760 GAGAAGAATG
Statistics
Matches: 560, Mismatches: 82, Indels: 29
0.83 0.12 0.04
Matches are distributed among these distances:
27 2 0.00
28 388 0.69
29 59 0.11
30 64 0.11
31 22 0.04
32 20 0.04
33 1 0.00
34 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:1690005 original size:11 final size:11
Alignment explanation
Indices: 1689991--1690048 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
1689981 CCCCATTCTG
1689991 TTTTTTTGTTA
1 TTTTTTTGTTA
** *
1690002 TTTTTTCCTTGG
1 TTTTTTTGTT-A
1690014 TTTTTTTG---
1 TTTTTTTGTTA
1690022 TTTTTTT-TTA
1 TTTTTTTGTTA
1690032 TTTTTTTGTTA
1 TTTTTTTGTTA
1690043 TTTTTT
1 TTTTTT
1690049 ATATTTTTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
8 7 0.19
10 7 0.19
11 17 0.46
12 6 0.16
ACGTcount: A:0.05, C:0.03, G:0.09, T:0.83
Consensus pattern (11 bp):
TTTTTTTGTTA
Found at i:1690035 original size:18 final size:18
Alignment explanation
Indices: 1690014--1690058 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
1690004 TTTTCCTTGG
*
1690014 TTTTTTTGTTTTTTTTTA
1 TTTTTTTGTTATTTTTTA
1690032 TTTTTTTGTTATTTTTTA
1 TTTTTTTGTTATTTTTTA
1690050 TATTTTTTG
1 T-TTTTTTG
1690059 GGTATGAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.84
Consensus pattern (18 bp):
TTTTTTTGTTATTTTTTA
Found at i:1690057 original size:11 final size:10
Alignment explanation
Indices: 1690014--1690057 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
1690004 TTTTCCTTGG
*
1690014 TTTTTTTGTT
1 TTTTTTTATT
1690024 TTTTTTTATT
1 TTTTTTTATT
1690034 TTTTTGTTA-T
1 TTTTT-TTATT
*
1690044 TTTTTATATT
1 TTTTTTTATT
1690054 TTTT
1 TTTT
1690058 GGGTATGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.07
10 25 0.83
11 3 0.10
ACGTcount: A:0.09, C:0.00, G:0.05, T:0.86
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:1695114 original size:13 final size:13
Alignment explanation
Indices: 1695096--1695121 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1695086 ACAAAGATCC
1695096 ATGTATCGATACA
1 ATGTATCGATACA
1695109 ATGTATCGATACA
1 ATGTATCGATACA
1695122 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1695117 original size:33 final size:33
Alignment explanation
Indices: 1695075--1695141 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1695065 AAAATTTCCA
***
1695075 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1695108 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1695141 A
1 A
1695142 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1695185 original size:19 final size:18
Alignment explanation
Indices: 1695161--1695228 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
1695151 CAGTAGCTAA
1695161 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
*
1695180 TTATGTATTGATAC--A-
1 TTATGTATCGATACAAAC
1695195 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1695212 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1695229 TTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.59
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1695205 original size:32 final size:32
Alignment explanation
Indices: 1695164--1695226 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1695154 TAGCTAATTA
* *
1695164 TGTATCGATACAATACTTATGTATTGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1695196 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1695227 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1695307 original size:21 final size:21
Alignment explanation
Indices: 1695283--1695340 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
1695273 ACTTTTGTAG
1695283 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
*
1695304 AATGTATCGATACATTCTACA
1 AATGTATCGATACATTCCACA
1695325 AATGTATCGATACATT
1 AATGTATCGATACATT
1695341 TGGATAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATTCCACA
Found at i:1707077 original size:20 final size:20
Alignment explanation
Indices: 1707052--1707093 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1707042 TGTGTGGACA
1707052 TTAATTGTTTAAAATTTAAT
1 TTAATTGTTTAAAATTTAAT
* * *
1707072 TTAATTTTTTATAGTTTAAT
1 TTAATTGTTTAAAATTTAAT
1707092 TT
1 TT
1707094 TTTTACAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TTAATTGTTTAAAATTTAAT
Found at i:1708307 original size:87 final size:87
Alignment explanation
Indices: 1708188--1708355 Score: 293
Period size: 87 Copynumber: 1.9 Consensus size: 87
1708178 ATCTTCTTCC
* *
1708188 TAAAAGAATAGCAAAGTCACCCTAAACCATTGATAAGGATATTTCATCTAATTCAATATCCATTA
1 TAAAAGAATAGCAAAGTCACCCTAAACAATTGATAAGAATATTTCATCTAATTCAATATCCATTA
*
1708253 TTGCATTCAAAATTAATATTTT
66 TTGCATTAAAAATTAATATTTT
1708275 TAAAAGAATAGCAAAG-CTACCCTAAACAATTGATAAGAATATTTCATCTAATTCAATATCCATT
1 TAAAAGAATAGCAAAGTC-ACCCTAAACAATTGATAAGAATATTTCATCTAATTCAATATCCATT
1708339 ATTGCATTAAAAATTAA
65 ATTGCATTAAAAATTAA
1708356 CATCATAATT
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
86 1 0.01
87 76 0.99
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (87 bp):
TAAAAGAATAGCAAAGTCACCCTAAACAATTGATAAGAATATTTCATCTAATTCAATATCCATTA
TTGCATTAAAAATTAATATTTT
Found at i:1710687 original size:26 final size:27
Alignment explanation
Indices: 1710650--1710711 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
1710640 TTTAAAAATT
*
1710650 TAATAAAATAAAAAAATATATAATATA
1 TAATAAATTAAAAAAATATATAATATA
* *
1710677 -AATAAATTAAACACATATATAATATA
1 TAATAAATTAAAAAAATATATAATATA
1710703 TAATAAATT
1 TAATAAATT
1710712 TTTTTAGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 23 0.74
27 8 0.26
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (27 bp):
TAATAAATTAAAAAAATATATAATATA
Found at i:1711839 original size:15 final size:13
Alignment explanation
Indices: 1711807--1711849 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1711797 TAAATCTTGG
1711807 TAATATTTTTTTA
1 TAATATTTTTTTA
*
1711820 AAATATTTTTTTA
1 TAATATTTTTTTA
*
1711833 CCTAATATTTTGTTA
1 --TAATATTTTTTTA
1711848 TA
1 TA
1711850 CATCAAGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 14 0.56
15 11 0.44
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (13 bp):
TAATATTTTTTTA
Found at i:1712192 original size:33 final size:33
Alignment explanation
Indices: 1712130--1712202 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
1712120 CTTAAAAAAT
* * *
1712130 TTTAAATTTTTTATTTTATTAGTTTTAATT-TA
1 TTTAAATTTATCATTTTATTAGTTTTAATTAAA
1712162 TTTAAATTTATCATATTTATTA-TTTATAATTAAA
1 TTTAAATTTATCAT-TTTATTAGTTT-TAATTAAA
1712196 TTTAAAT
1 TTTAAAT
1712203 AAAATATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 15 0.43
33 12 0.34
34 8 0.23
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (33 bp):
TTTAAATTTATCATTTTATTAGTTTTAATTAAA
Found at i:1712240 original size:10 final size:10
Alignment explanation
Indices: 1712214--1712260 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
1712204 AAATATTTTT
1712214 AATT-ATTTA
1 AATTAATTTA
*
1712223 ATAATAATTTA
1 A-ATTAATTTA
*
1712234 AATTAATCTA
1 AATTAATTTA
1712244 AATTAATTTA
1 AATTAATTTA
1712254 AATTAAT
1 AATTAAT
1712261 AAAAGATGCG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 1 0.03
10 25 0.78
11 6 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (10 bp):
AATTAATTTA
Found at i:1712489 original size:12 final size:12
Alignment explanation
Indices: 1712445--1712499 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
1712435 AAGGACATAA
*
1712445 ATAATTATATAAT
1 ATAA-TATAAAAT
1712458 AT-ATA-AAAAT
1 ATAATATAAAAT
1712468 ATTAA-A-AAAAT
1 A-TAATATAAAAT
1712479 ATAATATAAAAT
1 ATAATATAAAAT
1712491 ATAATATAA
1 ATAATATAA
1712500 TATTTTAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
10 8 0.22
11 11 0.30
12 16 0.43
13 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:1712533 original size:12 final size:13
Alignment explanation
Indices: 1712496--1712551 Score: 57
Period size: 12 Copynumber: 4.6 Consensus size: 13
1712486 AAAATATAAT
1712496 ATAATAT-TTTAA
1 ATAATATATTTAA
**
1712508 ATAATATAAATAA
1 ATAATATATTTAA
1712521 ATAA-ATATTTAA
1 ATAATATATTTAA
*
1712533 A-AATTTATTTAA
1 ATAATATATTTAA
1712545 AT-ATATA
1 ATAATATA
1712552 AATTATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
11 2 0.06
12 26 0.74
13 7 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATAATATATTTAA
Found at i:1712551 original size:36 final size:36
Alignment explanation
Indices: 1712503--1712585 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
1712493 AATATAATAT
*
1712503 TTTAAATAATATAAATAAAT-AAATATTTAAAAATTTA
1 TTTAAAT-ATATAAATAAATAAAAAATTT-AAAATTTA
* * *
1712540 TTTAAATATATAAATTATTAAAAAATTTTAAATTTA
1 TTTAAATATATAAATAAATAAAAAATTTAAAATTTA
*
1712576 TATAAATATA
1 TTTAAATATA
1712586 AATATTTTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
36 26 0.65
37 14 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (36 bp):
TTTAAATATATAAATAAATAAAAAATTTAAAATTTA
Found at i:1712636 original size:11 final size:10
Alignment explanation
Indices: 1712441--1712654 Score: 70
Period size: 9 Copynumber: 22.6 Consensus size: 10
1712431 GACAAAGGAC
1712441 ATAAATA-ATT
1 ATAAATATA-T
1712451 ATATAATATAT
1 ATA-AATATAT
* *
1712462 AAAAATATTAA
1 ATAAATA-TAT
*
1712473 AAAAATATAAT
1 ATAAATAT-AT
1712484 ATAAA-ATAT
1 ATAAATATAT
1712493 AATATAATAT-T
1 -ATA-AATATAT
*
1712504 TTAAATA-AT
1 ATAAATATAT
1712513 ATAAATA-A-
1 ATAAATATAT
*
1712521 ATAAATATTT
1 ATAAATATAT
* *
1712531 AAAAATTTAT
1 ATAAATATAT
*
1712541 TTAAATATAT
1 ATAAATATAT
*
1712551 A-AATTAT-T
1 ATAAATATAT
*
1712559 A-AAAAAT-T
1 ATAAATATAT
* *
1712567 TTAAATTTAT
1 ATAAATATAT
*
1712577 ATAAATATAA
1 ATAAATATAT
* * *
1712587 AT-ATTTTAC
1 ATAAATATAT
*
1712596 AT-ATTAT-T
1 ATAAATATAT
*
1712604 ATTAATAT-T
1 ATAAATATAT
1712613 ATAAA-ATAT
1 ATAAATATAT
1712622 ATAAATATAAT
1 ATAAATAT-AT
1712633 ATAAAT-TAT
1 ATAAATATAT
1712642 -TAAAT-TAT
1 ATAAATATAT
1712650 -TAAAT
1 ATAAAT
1712655 TTACATCAAA
Statistics
Matches: 158, Mismatches: 30, Indels: 34
0.71 0.14 0.15
Matches are distributed among these distances:
8 31 0.20
9 50 0.32
10 42 0.27
11 32 0.20
12 3 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATAAATATAT
Found at i:1712839 original size:8 final size:8
Alignment explanation
Indices: 1712826--1713003 Score: 91
Period size: 9 Copynumber: 21.1 Consensus size: 8
1712816 ATTCAATTAA
1712826 ATTTATAT
1 ATTTATAT
1712834 ATTTATAT
1 ATTTATAT
1712842 ATTTATAT
1 ATTTATAT
1712850 ATTTATATT
1 ATTTATA-T
1712859 ATATTATAT
1 AT-TTATAT
1712868 ATTTTATTAT
1 A-TTTA-TAT
1712878 ATTATAATTAT
1 ATT-T-A-TAT
*
1712889 ATTTAAAAT
1 ATTT-ATAT
1712898 ATTT-TAT
1 ATTTATAT
1712905 ATTTATATT
1 ATTTATA-T
1712914 AATTT-TA-
1 -ATTTATAT
1712921 ATTTATTAAT
1 ATTTA-T-AT
1712931 AATTTATAT
1 -ATTTATAT
* *
1712940 -TATATAA
1 ATTTATAT
* *
1712947 ATTTTAAAA
1 A-TTTATAT
* *
1712956 ATATATTT
1 ATTTATAT
1712964 ATATTATAT
1 AT-TTATAT
*
1712973 -TTTTTA-
1 ATTTATAT
1712979 ATTT-TAT
1 ATTTATAT
1712986 ATTTATTAT
1 ATTTA-TAT
1712995 ATTTATAT
1 ATTTATAT
1713003 A
1 A
1713004 ATCATATTAA
Statistics
Matches: 136, Mismatches: 13, Indels: 42
0.71 0.07 0.22
Matches are distributed among these distances:
6 6 0.04
7 22 0.16
8 36 0.26
9 40 0.29
10 19 0.14
11 13 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTTATAT
Found at i:1712937 original size:33 final size:33
Alignment explanation
Indices: 1712831--1713002 Score: 96
Period size: 32 Copynumber: 5.2 Consensus size: 33
1712821 ATTAAATTTA
*
1712831 TATATTTATA-T-ATTTATATATTTA-TATTATATT
1 TATATTTATATTAATTT-TA-ATTTATTAATA-ATT
* *
1712864 ATATATTT-TATTATATTATAATTATATTTAAAATATTT
1 -TATATTTATATTA-ATTTTAATT-TA-TT--AATAATT
1712902 TATATTTATATTAATTTTAATTTATTAATAATT
1 TATATTTATATTAATTTTAATTTATTAATAATT
* * *
1712935 TATA-TTATATAAATTTTAAAAATATATTTAT-A-T
1 TATATTTATATTAATTTT---AATTTATTAATAATT
1712968 TATATTT-T-TTAATTTTATATTTATT-AT-ATT
1 TATATTTATATTAATTTTA-ATTTATTAATAATT
1712998 TATAT
1 TATAT
1713003 AATCATATTA
Statistics
Matches: 113, Mismatches: 10, Indels: 34
0.72 0.06 0.22
Matches are distributed among these distances:
29 4 0.04
30 12 0.11
32 19 0.17
33 18 0.16
34 14 0.12
35 15 0.13
36 5 0.04
37 16 0.14
38 7 0.06
39 3 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (33 bp):
TATATTTATATTAATTTTAATTTATTAATAATT
Found at i:1712987 original size:15 final size:15
Alignment explanation
Indices: 1712962--1713002 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
1712952 AAAAATATAT
*
1712962 TTATA-TTATATTTT
1 TTATATTTATATTTA
1712976 TTA-ATTTTATATTTA
1 TTATA-TTTATATTTA
1712991 TTATATTTATAT
1 TTATATTTATAT
1713003 AATCATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 1 0.04
14 3 0.13
15 18 0.78
16 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATATTTATATTTA
Found at i:1713011 original size:19 final size:19
Alignment explanation
Indices: 1712989--1713032 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1712979 ATTTTATATT
1712989 TATTATAT-TTATATAATCA
1 TATTATATATTATATAAT-A
* *
1713008 TATTAAATATTATATGATA
1 TATTATATATTATATAATA
1713027 TATTAT
1 TATTAT
1713033 TAAATAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TATTATATATTATATAATA
Found at i:1719265 original size:32 final size:32
Alignment explanation
Indices: 1719224--1719285 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
1719214 CTTCAAGATG
1719224 GTGGTTTCGAAAATAATGATTAATTAAAATTA
1 GTGGTTTCGAAAATAATGATTAATTAAAATTA
*
1719256 GTGGTTTCGAAAATAGTGATTAATTAAAAT
1 GTGGTTTCGAAAATAATGATTAATTAAAAT
1719286 CAAGGTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (32 bp):
GTGGTTTCGAAAATAATGATTAATTAAAATTA
Found at i:1720946 original size:29 final size:30
Alignment explanation
Indices: 1720866--1720950 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 30
1720856 GAAATTGTAT
* * *
1720866 AATAGTCCTTAAAACATAAAAAATGACTTA
1 AATAATCCTTAAAACATAAAAAATTACATA
** *
1720896 AATAATCCTTAAATGA-ATAAAATTACATA
1 AATAATCCTTAAAACATAAAAAATTACATA
1720925 AA-AATCCTTAAAACATAAAAAATTAC
1 AATAATCCTTAAAACATAAAAAATTAC
1720951 TAGAATGACC
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
28 11 0.24
29 21 0.47
30 13 0.29
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.27
Consensus pattern (30 bp):
AATAATCCTTAAAACATAAAAAATTACATA
Found at i:1720968 original size:58 final size:58
Alignment explanation
Indices: 1720871--1720984 Score: 149
Period size: 58 Copynumber: 2.0 Consensus size: 58
1720861 TGTATAATAG
* * *
1720871 TCCTTAAAACATAAAAAATGACTTAAATAATCCTTAAATGAATAAAATTACATAAAAA
1 TCCTTAAAACATAAAAAATGACTTAAATAACCCTAAAATGAATAAAATGACATAAAAA
* * * *
1720929 TCCTTAAAACATAAAAAATTAC-TAGAATGACCCTAAAATGCATGAAATGACATAAA
1 TCCTTAAAACATAAAAAATGACTTA-AATAACCCTAAAATGAATAAAATGACATAAA
1720985 GGTCCTAGGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
57 2 0.04
58 46 0.96
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.25
Consensus pattern (58 bp):
TCCTTAAAACATAAAAAATGACTTAAATAACCCTAAAATGAATAAAATGACATAAAAA
Found at i:1721063 original size:115 final size:114
Alignment explanation
Indices: 1720885--1721099 Score: 251
Period size: 115 Copynumber: 1.9 Consensus size: 114
1720875 TAAAACATAA
* *
1720885 AAAATGACTTAAATAATCCTTAAATGAATAAAATTACATAAAAATCCTTAAAACATAAAAAATTA
1 AAAATGACTAAAATAATCCTTAAATGAATAAAATTACATAAAAATCCTTAAAACATAAAAATTTA
1720950 CTAG-AATGACCCTAAAA-TGCATGAAATGACATAAAGGTCCTAGGTCATGT
66 -TAGTAAT--CCCTAAAAGTGCATGAAATGACATAAAGGTCCTAGGTCATGT
* * * * *
1721000 AAAATGACTAAAATAATGC-TAGAATGCATAAAATTACATAATAATGCC-TAAGATGCAT-GAAA
1 AAAATGACTAAAATAATCCTTA-AATGAATAAAATTACATAAAAAT-CCTTAA-A-ACATAAAAA
* *
1721062 TTTATAGTAATCTCTAAAAGTGCATGGAATGACATAAA
62 TTTATAGTAATCCCTAAAAGTGCATGAAATGACATAAA
1721100 AATCCTTAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
114 9 0.11
115 61 0.72
116 12 0.14
117 3 0.04
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.27
Consensus pattern (114 bp):
AAAATGACTAAAATAATCCTTAAATGAATAAAATTACATAAAAATCCTTAAAACATAAAAATTTA
TAGTAATCCCTAAAAGTGCATGAAATGACATAAAGGTCCTAGGTCATGT
Found at i:1721904 original size:11 final size:11
Alignment explanation
Indices: 1721890--1721930 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
1721880 TTTTTTTTTG
1721890 TTTTTTCTCTC
1 TTTTTTCTCTC
*
1721901 TTTTTTCTTTC
1 TTTTTTCTCTC
*
1721912 -TCTTT-TCTC
1 TTTTTTCTCTC
1721921 TTTTTTCTCT
1 TTTTTTCTCT
1721931 TTCTTATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
9 3 0.12
10 8 0.33
11 13 0.54
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTCTCTC
Found at i:1721917 original size:22 final size:22
Alignment explanation
Indices: 1721878--1721934 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
1721868 AAGAAACCTT
* *
1721878 TCTTTTTT-TTTGTTTTTTCTC
1 TCTTTTTTCTTTCTCTTTTCTC
1721899 TCTTTTTTCTTTCTCTTTTCTC
1 TCTTTTTTCTTTCTCTTTTCTC
1721921 T-TTTTTCTCTTTCT
1 TCTTTTT-TCTTTCT
1721935 TATTTTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 13 0.41
22 19 0.59
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (22 bp):
TCTTTTTTCTTTCTCTTTTCTC
Found at i:1725660 original size:28 final size:28
Alignment explanation
Indices: 1725530--1726737 Score: 715
Period size: 28 Copynumber: 43.5 Consensus size: 28
1725520 CACTAACTTG
* * *
1725530 TGTGGGCTTTGAAAATGGTTGCCACTGATTT
1 TGTGGACTTTG-AAA-GGATGCCACTGA-CT
* *
1725561 TTTGG-CTTTGAAAAGGATGCCATTGACT
1 TGTGGACTTTG-AAAGGATGCCACTGACT
* * *
1725589 TGTGGGCTTTTGAAAAGATGCCACTAACT
1 TGTGGAC-TTTGAAAGGATGCCACTGACT
*
1725618 TGTGGGCTTTTGAAAGGATGCCACTGACT
1 TGTGGAC-TTTGAAAGGATGCCACTGACT
* * *
1725647 TGTGGGCTCTGAAAAGATGCCACTGACT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * *
1725675 TAT-GAGCTTTGAAAAGG-TGCCACTAATT
1 TGTGGA-CTTTG-AAAGGATGCCACTGACT
* * *
1725703 TGTGGACTTGGAAA--AAGCACCACTGATT
1 TGTGGACTTTGAAAGGATG--CCACTGACT
*
1725731 TGTGGACTTTGAAAGGATGCCACTAACT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * * *
1725759 TATGGGCTTTGAAAGGGTGCCCCTGACT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* *
1725787 TATAGG-CTTTGAAAGGGTGCCACTGACT
1 TGT-GGACTTTGAAAGGATGCCACTGACT
* *
1725815 TGTGGGCTTTCGAAAAGG-TGCCACTGATT
1 TGTGGACTTT-G-AAAGGATGCCACTGACT
** *
1725844 TGTGGACTTTGAAATAATGCCATTGACT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* *
1725872 TATGGACTTTGAAAGGGTGCCACTGACT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * *
1725900 TGT-GAGCTTTGGAAGGGTGTCACTGACT
1 TGTGGA-CTTTGAAAGGATGCCACTGACT
* * * * *
1725928 TATGGGC-TTAAAAGGATGCCACGGAGT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * * * *
1725955 TGTGGAC-TTAAAAGAATGCTACGGAGT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * * * *
1725982 TGTGGAC-TTAAAAAGATGCTACAGAGT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * *
1726009 TGTGGGCTTTCAAAAAGG-TGCCACTGATT
1 TGTGGACTTT--GAAAGGATGCCACTGACT
*
1726038 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * **
1726066 TATGGGCTTTGAAA-GAGTGCCACACACT
1 TGTGGACTTTGAAAGGA-TGCCACTGACT
* *
1726094 TGTGGGCTTTCGAAAAGG-TGCCACTGATT
1 TGTGGACTTT-G-AAAGGATGCCACTGACT
*
1726123 TGTGGACTTTGAAAGGATGCCATTGACT
1 TGTGGACTTTGAAAGGATGCCACTGACT
*
1726151 TGTGGACTTTGAAAGGGTGCCACTGACT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * * * *
1726179 TGTGGGCTTTGGAAGGGTGTCACTAACT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * * *
1726207 TGTGG-GTTTAAAAGGATGCTA-TGGAGT
1 TGTGGACTTTGAAAGGATGCCACT-GACT
* * * *
1726234 TGTGGAC-TTAAAAGGATGTCACGGAAT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * * *
1726261 TGTGGAC-TTAAAAGGATGTCACGGAGT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * * *
1726288 TGTGGAC-TTAAAAGGATGTCACGGAGT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * *
1726315 TGTGGAC-TT-AAAGGATGTCACAGAGT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * *
1726341 TGTGGAC-TTAAAAGGATGCCACAGAGT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * * *
1726368 TGTGGATTTTAAAAGGATGCCACAGAGT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * * *
1726396 TATGGAC-TTAAAAGGATACCA-TGGAGT
1 TGTGGACTTTGAAAGGATGCCACT-GACT
* * * *
1726423 TGTGGAC-TTAAAAGGATACCACGGAGT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * * *
1726450 TGTGGACTTTAAAAAGATGCCACGGAGT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * * *
1726478 TGTGGAC-TTAAAAGGATACCACAGAGT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* *
1726505 TGTGGAC-TTAAAAGGATGCCAC-GAAGT
1 TGTGGACTTTGAAAGGATGCCACTG-ACT
* * *
1726532 TGTGGACTTTAAAAGGATGCCACCGAGT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* *
1726560 TGTGGAC-TTAAAAGGATGCCA-TGGAGT
1 TGTGGACTTTGAAAGGATGCCACT-GACT
* * * *
1726587 TAT-GAC-TTAAAAGGATGCCACGGAGT
1 TGTGGACTTTGAAAGGATGCCACTGACT
* * *
1726613 TGTGAACTTTAAAAGGATGCCA-TGGAGT
1 TGTGGACTTTGAAAGGATGCCACT-GACT
* ** *
1726641 TGTGGAC-TTAAAAGGATGTTA-TGAAGT
1 TGTGGACTTTGAAAGGATGCCACTG-ACT
* * *
1726668 TATGGACTTTAAAAGGATGCCA-TGGAGT
1 TGTGGACTTTGAAAGGATGCCACT-GACT
* ** * *
1726696 TGTGGACTTTAAAAGGATGCTGCCGAGT
1 TGTGGACTTTGAAAGGATGCCACTGACT
1726724 TGTGGACTTTGAAA
1 TGTGGACTTTGAAA
1726738 AGAAATGCCA
Statistics
Matches: 1000, Mismatches: 131, Indels: 95
0.82 0.11 0.08
Matches are distributed among these distances:
26 52 0.05
27 346 0.35
28 443 0.44
29 126 0.13
30 28 0.03
31 5 0.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.28
Consensus pattern (28 bp):
TGTGGACTTTGAAAGGATGCCACTGACT
Found at i:1725964 original size:27 final size:27
Alignment explanation
Indices: 1725934--1726732 Score: 753
Period size: 27 Copynumber: 29.1 Consensus size: 27
1725924 GACTTATGGG
1725934 CTTAAAAGGATGCCACGGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
* *
1725961 CTTAAAAGAATGCTACGGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
* * * *
1725988 CTTAAAAAGATGCTACAGAGTTGTGGG
1 CTTAAAAGGATGCCACGGAGTTGTGGA
* * *
1726015 CTTTCAAAAAGG-TGCCACTGATTTGTGGG
1 C-TT--AAAAGGATGCCACGGAGTTGTGGA
* * * * *
1726044 CTTTGAAAGGATGCCACTGACTTATGGG
1 C-TTAAAAGGATGCCACGGAGTTGTGGA
* ** * *
1726072 CTTTGAAA-GAGTGCCACACACTTGTGGG
1 C-TTAAAAGGA-TGCCACGGAGTTGTGGA
* *
1726100 CTTTCGAAAAGG-TGCCACTGATTTGTGGA
1 C-TT--AAAAGGATGCCACGGAGTTGTGGA
* ** *
1726129 CTTTGAAAGGATGCCATTGACTTGTGGA
1 C-TTAAAAGGATGCCACGGAGTTGTGGA
* * * * *
1726157 CTTTGAAAGGGTGCCACTGACTTGTGGG
1 C-TTAAAAGGATGCCACGGAGTTGTGGA
** * * ** * *
1726185 CTTTGGAAGGGTGTCACTAACTTGTGGG
1 C-TTAAAAGGATGCCACGGAGTTGTGGA
* * *
1726213 TTTAAAAGGATGCTATGGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
* *
1726240 CTTAAAAGGATGTCACGGAATTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
*
1726267 CTTAAAAGGATGTCACGGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
*
1726294 CTTAAAAGGATGTCACGGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
* *
1726321 CTT-AAAGGATGTCACAGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
*
1726347 CTTAAAAGGATGCCACAGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
* * *
1726374 TTTTAAAAGGATGCCACAGAGTTATGGA
1 -CTTAAAAGGATGCCACGGAGTTGTGGA
* *
1726402 CTTAAAAGGATACCATGGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
*
1726429 CTTAAAAGGATACCACGGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
*
1726456 CTTTAAAAAGATGCCACGGAGTTGTGGA
1 C-TTAAAAGGATGCCACGGAGTTGTGGA
* *
1726484 CTTAAAAGGATACCACAGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
*
1726511 CTTAAAAGGATGCCACGAAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
*
1726538 CTTTAAAAGGATGCCACCGAGTTGTGGA
1 C-TTAAAAGGATGCCACGGAGTTGTGGA
* *
1726566 CTTAAAAGGATGCCATGGAGTTAT-GA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
*
1726592 CTTAAAAGGATGCCACGGAGTTGTGAA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
*
1726619 CTTTAAAAGGATGCCATGGAGTTGTGGA
1 C-TTAAAAGGATGCCACGGAGTTGTGGA
** * * *
1726647 CTTAAAAGGATGTTATGAAGTTATGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
*
1726674 CTTTAAAAGGATGCCATGGAGTTGTGGA
1 C-TTAAAAGGATGCCACGGAGTTGTGGA
** *
1726702 CTTTAAAAGGATGCTGCCGAGTTGTGGA
1 C-TTAAAAGGATGCCACGGAGTTGTGGA
1726730 CTT
1 CTT
1726733 TGAAAAGAAA
Statistics
Matches: 669, Mismatches: 87, Indels: 32
0.85 0.11 0.04
Matches are distributed among these distances:
26 49 0.07
27 321 0.48
28 255 0.38
29 35 0.05
30 8 0.01
31 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (27 bp):
CTTAAAAGGATGCCACGGAGTTGTGGA
Found at i:1725996 original size:55 final size:55
Alignment explanation
Indices: 1725934--1726748 Score: 772
Period size: 55 Copynumber: 14.8 Consensus size: 55
1725924 GACTTATGGG
* *
1725934 CTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGAATGCTACGGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGA
* * * * * * *
1725988 CTTAAAAAGATGCTACAGAGTTGTGGGCTTTCAAAAAGG-TGCCACTGATTTGTGGG
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTT--AAAAGGATGCCACGGAGTTGTGGA
* * * * * * ** * *
1726044 CTTTGAAAGGATGCCACTGACTTATGGGCTTTGAAA-GAGTGCCACACACTTGTGGG
1 C-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGA-TGCCACGGAGTTGTGGA
* * * ** *
1726100 CTTTCGAAAAGG-TGCCACTGATTTGTGGACTTTGAAAGGATGCCATTGACTTGTGGA
1 C-TT--AAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGA
* * * * * ** * * ** * *
1726157 CTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGGTGTCACTAACTTGTGGG
1 C-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGA
* * * * *
1726213 TTTAAAAGGATGCTATGGAGTTGTGGAC-TTAAAAGGATGTCACGGAATTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGA
* *
1726267 CTTAAAAGGATGTCACGGAGTTGTGGAC-TTAAAAGGATGTCACGGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGA
* * *
1726321 CTT-AAAGGATGTCACAGAGTTGTGGAC-TTAAAAGGATGCCACAGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGA
* * * * *
1726374 TTTTAAAAGGATGCCACAGAGTTATGGAC-TTAAAAGGATACCATGGAGTTGTGGA
1 -CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGA
* *
1726429 CTTAAAAGGATACCACGGAGTTGTGGACTTTAAAAAGATGCCACGGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGA
* * *
1726484 CTTAAAAGGATACCACAGAGTTGTGGAC-TTAAAAGGATGCCACGAAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGA
* * *
1726538 CTTTAAAAGGATGCCACCGAGTTGTGGAC-TTAAAAGGATGCCATGGAGTTAT-GA
1 C-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGA
* *
1726592 CTTAAAAGGATGCCACGGAGTTGTGAACTTTAAAAGGATGCCATGGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGA
** * * * *
1726647 CTTAAAAGGATGTTATGAAGTTATGGACTTTAAAAGGATGCCATGGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGA
** * *
1726702 CTTTAAAAGGATGCTGCCGAGTTGTGGACTTTGAAAAGAAATGCCAC
1 C-TTAAAAGGATGCCACGGAGTTGTGGACTTT-AAAAG-GATGCCAC
1726749 TTAGTGCTGC
Statistics
Matches: 645, Mismatches: 97, Indels: 34
0.83 0.12 0.04
Matches are distributed among these distances:
53 72 0.11
54 172 0.27
55 222 0.34
56 93 0.14
57 73 0.11
58 13 0.02
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (55 bp):
CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGA
Found at i:1726046 original size:279 final size:276
Alignment explanation
Indices: 1725513--1726580 Score: 942
Period size: 279 Copynumber: 3.8 Consensus size: 276
1725503 GGTTTTAACT
*
1725513 AGGGTGCCACTAACTTGTGTGGGCTTT-GAAAATGGTTGCCACTGATTTTTTGG-CTTTGAAAAG
1 AGGGTGCCACTAAC-T-TGTGGGCTTTCGAAAA-GG-TGCCACTGA-TTTGTGGACTTTGAAAA-
* * * * * * *
1725576 GATGCCATTGACTTGTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTGAAAGGATGCCA
60 -ATGCCATTGACTTGTGGAC-TTTGAAAGGGTGCCACTGACTTGTGGGC-TTTGGAAGGGTGTCA
* * * * * *
1725641 CTGACTTGTGGGCTCTGAAAA-GATGCCACTGACTTAT-GAGCTTTGAAAAGGTGCCAC-TAATT
122 CTGACTTGTGGGCT-T-AAAAGGATGCCACGGAGTTGTGGA-C-TT-AAAAGATGCTACGGAA-T
* * * *
1725703 TGTGGACTTGGAAAAAGCA--CCACTGATTTGTGGACTTTGAAAGGATGCCACTAACTTATGGGC
181 TGTGGACTT--AAAAAG-ATGCTACAGAGTTGTGGACTTTAAAAGGATGCCACTAACTTATGGGC
* *
1725766 TTTGAAAGGGTGCCCCTGACTTATAGGCTTTGAA
243 TTTGAAAGGATGCCACTGACTTATAGGCTTTGAA
*
1725800 AGGGTGCCACTGACTTGTGGGCTTTCGAAAAGGTGCCACTGATTTGTGGACTTTGAAATAATGCC
1 AGGGTGCCACTAACTTGTGGGCTTTCGAAAAGGTGCCACTGATTTGTGGACTTTGAAA-AATGCC
* * *
1725865 ATTGACTTATGGACTTTGAAAGGGTGCCACTGACTTGTGAGCTTTGGAAGGGTGTCACTGACTTA
65 ATTGACTTGTGGACTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGGTGTCACTGACTTG
*
1725930 TGGGCTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGAATGCTACGGAGTTGTGGACTTAAAA
130 TGGGCTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAG-ATGCTACGGAATTGTGGACTTAAAA
* * * *
1725995 AGATGCTACAGAGTTGTGGGCTTTCAAAAAGG-TGCCACTGATTTGTGGGCTTTGAAAGGATGCC
194 AGATGCTACAGAGTTGTGGACTTT--AAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATGCC
*
1726059 ACTGACTTATGGGCTTTGAA
257 ACTGACTTATAGGCTTTGAA
* *
1726079 AGAGTGCCAC-ACACTTGTGGGCTTTCGAAAAGGTGCCACTGATTTGTGGACTTTGAAAGGATGC
1 AGGGTGCCACTA-ACTTGTGGGCTTTCGAAAAGGTGCCACTGATTTGTGGACTTTGAAA-AATGC
*
1726143 CATTGACTTGTGGACTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGGTGTCACTAACTT
64 CATTGACTTGTGGACTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGGTGTCACTGACTT
* * *
1726208 GTGGGTTTAAAAGGATGCTATGGAGTTGTGGACTTAAAAGGATG-TCACGGAATTGTGGACTTAA
129 GTGGGCTTAAAAGGATGCCACGGAGTTGTGGACTTAAAA-GATGCT-ACGGAATTGTGGACTTAA
* * * ** * * * *
1726272 AAGGATG-TCACGGAGTTGTGGAC-TTAAAAGGATGTCACGGAGTTGTGGAC-TT-AAAGGATGT
192 AAAGATGCT-ACAGAGTTGTGGACTTTAAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATGC
* * * *
1726333 CACAGAGTTGT-GGAC-TTAAA
256 CACTGACTTATAGG-CTTTGAA
* * * * * * *
1726353 AGGATGCCAC-AGAGTTGT-GGATTT-TAAAAGGATGCCACAGAGTTATGGAC-TT-AAAAGGAT
1 AGGGTGCCACTA-ACTTGTGGGCTTTCGAAAAGG-TGCCACTGATTTGTGGACTTTGAAAA--AT
* * * * * * * * * ** * * * * *
1726413 ACCATGGAGTTGTGGAC-TTAAAAGGATACCACGGAGTTGTGGACTTTAAAAAGATGCCACGGAG
62 GCCATTGACTTGTGGACTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGGTGTCACTGAC
* * * *
1726477 TTGTGGACTTAAAAGGATACCACAGAGTTGTGGACTTAAAAGGATGCCAC-GAAGTTGTGGACTT
127 TTGTGGGCTTAAAAGGATGCCACGGAGTTGTGGACTTAAAA-GATGCTACGGAA-TTGTGGAC-T
* * *
1726541 TAAAAGGATGCCACCGAGTTGTGGAC-TTAAAAGGATGCCA
189 TAAAAAGATGCTACAGAGTTGTGGACTTTAAAAGGATGCCA
1726581 TGGAGTTATG
Statistics
Matches: 666, Mismatches: 91, Indels: 63
0.81 0.11 0.08
Matches are distributed among these distances:
270 3 0.00
271 86 0.13
272 61 0.09
273 20 0.03
274 20 0.03
275 17 0.03
276 9 0.01
277 20 0.03
278 24 0.04
279 261 0.39
280 22 0.03
281 27 0.04
282 24 0.04
283 23 0.03
284 17 0.03
285 13 0.02
286 6 0.01
287 13 0.02
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (276 bp):
AGGGTGCCACTAACTTGTGGGCTTTCGAAAAGGTGCCACTGATTTGTGGACTTTGAAAAATGCCA
TTGACTTGTGGACTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGGTGTCACTGACTTGT
GGGCTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGATGCTACGGAATTGTGGACTTAAAAAG
ATGCTACAGAGTTGTGGACTTTAAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATGCCACTG
ACTTATAGGCTTTGAA
Found at i:1726438 original size:82 final size:82
Alignment explanation
Indices: 1725934--1726732 Score: 804
Period size: 82 Copynumber: 9.7 Consensus size: 82
1725924 GACTTATGGG
* * *
1725934 CTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGAATGCTACGGAGTTGTGGACTTAAAAAGA
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA
* * *
1725998 TGCTACAGAGTTGTGGG
66 TGCCACGGAGTTGTGGA
* * * * * * * * *
1726015 CTTTCAAAAAGG-TGCCACTGATTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTGAA
1 C-TT--AAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAA
** * *
1726079 A-GAGTGCCACACACTTGTGGG
62 AGGA-TGCCACGGAGTTGTGGA
* * * ** * *
1726100 CTTTCGAAAAGG-TGCCACTGATTTGTGGACTTTGAAAGGATGCCATTGACTTGTGGACTTTGAA
1 C-TT--AAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAA
* * * *
1726164 AGGGTGCCACTGACTTGTGGG
62 AGGATGCCACGGAGTTGTGGA
** * * ** * * * *
1726185 CTTTGGAAGGGTGTCACTAACTTGTGG-GTTTAAAAGGATGCTATGGAGTTGTGGACTTAAAAGG
1 C-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGG
* *
1726249 ATGTCACGGAATTGTGGA
65 ATGCCACGGAGTTGTGGA
* *
1726267 CTTAAAAGGATGTCACGGAGTTGTGGAC-TTAAAAGGATGTCACGGAGTTGTGGACTT-AAAGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA
* *
1726330 TGTCACAGAGTTGTGGA
66 TGCCACGGAGTTGTGGA
* * * *
1726347 CTTAAAAGGATGCCACAGAGTTGTGGATTTTAAAAGGATGCCACAGAGTTATGGACTTAAAAGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA
* *
1726412 TACCATGGAGTTGTGGA
66 TGCCACGGAGTTGTGGA
* *
1726429 CTTAAAAGGATACCACGGAGTTGTGGACTTTAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA
* *
1726494 TACCACAGAGTTGTGGA
66 TGCCACGGAGTTGTGGA
* *
1726511 CTTAAAAGGATGCCACGAAGTTGTGGACTTTAAAAGGATGCCACCGAGTTGTGGACTTAAAAGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA
* *
1726576 TGCCATGGAGTTAT-GA
66 TGCCACGGAGTTGTGGA
* *
1726592 CTTAAAAGGATGCCACGGAGTTGTGAACTTTAAAAGGATGCCATGGAGTTGTGGACTTAAAAGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA
** * * *
1726657 TGTTATGAAGTTATGGA
66 TGCCACGGAGTTGTGGA
* ** *
1726674 CTTTAAAAGGATGCCATGGAGTTGTGGACTTTAAAAGGATGCTGCCGAGTTGTGGACTT
1 C-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT
1726733 TGAAAAGAAA
Statistics
Matches: 616, Mismatches: 89, Indels: 24
0.84 0.12 0.03
Matches are distributed among these distances:
80 46 0.07
81 146 0.24
82 190 0.31
83 94 0.15
84 41 0.07
85 98 0.16
86 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (82 bp):
CTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA
TGCCACGGAGTTGTGGA
Done.