Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 61 of 79
Found at i:20044019 original size:28 final size:26
Alignment explanation
Indices: 20043961--20044027 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
20043951 AAATATAATT
* *
20043961 ATAATTTTTATTATTTATTTATTTTTA
1 ATAATTTTTA-TATTAATTAATTTTTA
*
20043988 ATAATTTTTATATGTAATTAATGTTTTC
1 ATAATTTTTATAT-TAATTAAT-TTTTA
*
20044016 ATAATTTATATA
1 ATAATTTTTATA
20044028 ATAAATTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.09
27 16 0.47
28 15 0.44
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (26 bp):
ATAATTTTTATATTAATTAATTTTTA
Found at i:20044264 original size:27 final size:26
Alignment explanation
Indices: 20044231--20044283 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
20044221 CATTGTCATT
*
20044231 GTTTATTTTTTTATGTATATTAGTTTC
1 GTTTATTTATTTATGTATATTA-TTTC
* *
20044258 GTTTATTTATTTGTTTATATTATTTC
1 GTTTATTTATTTATGTATATTATTTC
20044284 TATGTCATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.68
Consensus pattern (26 bp):
GTTTATTTATTTATGTATATTATTTC
Found at i:20044280 original size:13 final size:14
Alignment explanation
Indices: 20044246--20044283 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
20044236 TTTTTTTATG
20044246 TATATTAGTTTCGTT
1 TATATTA-TTTCGTT
20044261 TAT-TTATTT-GTT
1 TATATTATTTCGTT
20044273 TATATTATTTC
1 TATATTATTTC
20044284 TATGTCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:20051365 original size:49 final size:50
Alignment explanation
Indices: 20051292--20051389 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 50
20051282 ATCTATTTAT
* * *
20051292 AGGTTGAAAAAACCTTATTCTAATAAATGTCAAATAGATGAAGTGTAGTA
1 AGGTTGAAAAAACATTATTCTAATAAATGTAAAATAGATGAAGTATAGTA
20051342 AGGTTG-AAAAACATTATTCTAATAAATGTAAAATAGATGAAGTATAGT
1 AGGTTGAAAAAACATTATTCTAATAAATGTAAAATAGATGAAGTATAGT
20051390 TCTATATTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 39 0.87
50 6 0.13
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (50 bp):
AGGTTGAAAAAACATTATTCTAATAAATGTAAAATAGATGAAGTATAGTA
Found at i:20053367 original size:36 final size:35
Alignment explanation
Indices: 20053327--20053398 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 35
20053317 CATCTCCGGA
20053327 GCTTGGCAAATAAGGAAAGTGATCTTTTGAAGATAT
1 GCTTGGCAAATAAGGAAAGTGATCTTTTG-AGATAT
* *
20053363 GCTTGGCAAATATGGAAGGTGATCTTTTGAGATAT
1 GCTTGGCAAATAAGGAAAGTGATCTTTTGAGATAT
20053398 G
1 G
20053399 TGATTCTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 7 0.21
36 27 0.79
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (35 bp):
GCTTGGCAAATAAGGAAAGTGATCTTTTGAGATAT
Found at i:20058493 original size:36 final size:35
Alignment explanation
Indices: 20058453--20058524 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 35
20058443 CATCTCCGGA
20058453 GCTTGGCAAATAAGGAAAGTAATCTTTTGAAGATAT
1 GCTTGGCAAATAAGGAAAGTAATCTTTTG-AGATAT
* ** *
20058489 GCTTGGCAAATATGGAGGGTGATCTTTTGAGATAT
1 GCTTGGCAAATAAGGAAAGTAATCTTTTGAGATAT
20058524 G
1 G
20058525 TGATCCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 7 0.22
36 25 0.78
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (35 bp):
GCTTGGCAAATAAGGAAAGTAATCTTTTGAGATAT
Found at i:20059288 original size:16 final size:17
Alignment explanation
Indices: 20059257--20059289 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20059247 TTACTTTCAA
20059257 TCCTTTATATTTTATTT
1 TCCTTTATATTTTATTT
*
20059274 TCCTTTGTA-TTTATTT
1 TCCTTTATATTTTATTT
20059290 ATTTATTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.70
Consensus pattern (17 bp):
TCCTTTATATTTTATTT
Found at i:20059387 original size:18 final size:17
Alignment explanation
Indices: 20059364--20059410 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
20059354 CTTACTATCA
20059364 TTATTATTATTATTTTAT
1 TTATTATTATTA-TTTAT
20059382 TTATTATTATCTATTTAT
1 TTATTATTAT-TATTTAT
*
20059400 GTATT-TTATTA
1 TTATTATTATTA
20059411 CAAATTGCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 2 0.07
17 4 0.15
18 19 0.70
19 2 0.07
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (17 bp):
TTATTATTATTATTTAT
Found at i:20065468 original size:17 final size:19
Alignment explanation
Indices: 20065446--20065490 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
20065436 CTAAAATAGT
*
20065446 AACAAAATTA-GCAATAA-
1 AACAAAATTATACAATAAC
20065463 AACAAAAGTTATACAATAAC
1 AACAAAA-TTATACAATAAC
20065483 AACAAAAT
1 AACAAAAT
20065491 GGTAGCAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 3 0.12
19 7 0.29
20 7 0.29
ACGTcount: A:0.64, C:0.13, G:0.04, T:0.18
Consensus pattern (19 bp):
AACAAAATTATACAATAAC
Found at i:20069980 original size:29 final size:29
Alignment explanation
Indices: 20069938--20069996 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
20069928 AATTGGACTC
* *
20069938 GATACGTGAGAGGCCCAAAAACTCCTCAT
1 GATACGGGAAAGGCCCAAAAACTCCTCAT
20069967 GATACGGGAAAGGCCCAAAAACTCCTCAT
1 GATACGGGAAAGGCCCAAAAACTCCTCAT
20069996 G
1 G
20069997 CTAAATACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.27, G:0.22, T:0.15
Consensus pattern (29 bp):
GATACGGGAAAGGCCCAAAAACTCCTCAT
Found at i:20073185 original size:134 final size:134
Alignment explanation
Indices: 20073003--20073274 Score: 499
Period size: 134 Copynumber: 2.0 Consensus size: 134
20072993 AAAATTTCTA
*
20073003 AAATGTCATTGAATTCTAGTATTTTTGCAATTTAGCCTGGTAAGTTCGTGTAACTTGAATTATAT
1 AAATGTCACTGAATTCTAGTATTTTTGCAATTTAGCCTGGTAAGTTCGTGTAACTTGAATTATAT
* *
20073068 TCTTAAATACCTGAAATGTTTGTTATTGATGTGAACATGATTTGAATGTTCATTGTATGAAAATT
66 TCTTAAATACCTGAAATGTTTGTTATTGATGTGAACATGATTTGAATATTCATTATATGAAAATT
20073133 GATG
131 GATG
*
20073137 AAATGTCCCTGAATTCTAGTATTTTTGCAATTTAGCCTGGTAAGTTCGTGTAACTTGAATTATAT
1 AAATGTCACTGAATTCTAGTATTTTTGCAATTTAGCCTGGTAAGTTCGTGTAACTTGAATTATAT
*
20073202 TCTTAAATACCTGAAATGTTTGTTATTGATGTGAATATGATTTGAATATTCATTATATGAAAATT
66 TCTTAAATACCTGAAATGTTTGTTATTGATGTGAACATGATTTGAATATTCATTATATGAAAATT
20073267 GATG
131 GATG
20073271 AAAT
1 AAAT
20073275 ATTGATATAT
Statistics
Matches: 133, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 133 1.00
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (134 bp):
AAATGTCACTGAATTCTAGTATTTTTGCAATTTAGCCTGGTAAGTTCGTGTAACTTGAATTATAT
TCTTAAATACCTGAAATGTTTGTTATTGATGTGAACATGATTTGAATATTCATTATATGAAAATT
GATG
Found at i:20074810 original size:27 final size:27
Alignment explanation
Indices: 20074780--20074841 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
20074770 AGAGGTGTAT
*
20074780 TGGATTAGAGGTGTAATGGAATAGAGG
1 TGGAATAGAGGTGTAATGGAATAGAGG
20074807 TGGAATAGAGGTGTAATGGAATAGAGG
1 TGGAATAGAGGTGTAATGGAATAGAGG
*
20074834 TGTAATAG
1 TGGAATAG
20074842 CAAATCAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.26
Consensus pattern (27 bp):
TGGAATAGAGGTGTAATGGAATAGAGG
Found at i:20074826 original size:16 final size:16
Alignment explanation
Indices: 20074759--20074839 Score: 91
Period size: 16 Copynumber: 5.4 Consensus size: 16
20074749 TTTGGTTCGC
* *
20074759 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
20074775 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
20074791 TGTAATGGAATAGA-G
1 TGTAATGGAATAGAGG
20074806 -G---TGGAATAGAGG
1 TGTAATGGAATAGAGG
20074818 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
20074834 TGTAAT
1 TGTAAT
20074840 AGCAAATCAA
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
11 9 0.16
12 1 0.02
13 1 0.02
14 1 0.02
15 1 0.02
16 45 0.78
ACGTcount: A:0.32, C:0.00, G:0.37, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:20074875 original size:45 final size:44
Alignment explanation
Indices: 20074818--20074927 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
20074808 GGAATAGAGG
20074818 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAAT-GAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
* * ***
20074863 TGTAATGAAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATG-AATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
20074907 TG----GAATAGAGGTGTAATAGCA
1 TGTAATGAATAGAGGTGTAATAGCA
20074928 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
39 15 0.27
40 1 0.02
44 19 0.34
45 21 0.38
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (44 bp):
TGTAATGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
Found at i:20074925 original size:39 final size:40
Alignment explanation
Indices: 20074821--20074927 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 40
20074811 ATAGAGGTGT
20074821 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
1 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
* * ***
20074861 AATGTAATGAAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTG
1 AATG----G-AATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
20074905 AATGGAATAGAGGTGTAATAGCA
1 AATGGAATAGAGGTGTAATAGCA
20074928 TAATGGAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 19 0.35
45 15 0.28
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.31
Consensus pattern (40 bp):
AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
Found at i:20075094 original size:18 final size:17
Alignment explanation
Indices: 20075073--20075107 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20075063 TTATTATTAA
*
20075073 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
20075091 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
20075108 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:20079144 original size:11 final size:11
Alignment explanation
Indices: 20079101--20079159 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
20079091 AATGAAACCC
*
20079101 TAATATAATAT
1 TAATCTAATAT
* *
20079112 TAATCTAACAC
1 TAATCTAATAT
*
20079123 TAACCTCTAATGT
1 TAA--TCTAATAT
20079136 TAATCTAATAT
1 TAATCTAATAT
*
20079147 TTATCTAATAT
1 TAATCTAATAT
20079158 TA
1 TA
20079160 GTGTCGACAT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
11 29 0.78
13 8 0.22
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (11 bp):
TAATCTAATAT
Found at i:20081023 original size:27 final size:29
Alignment explanation
Indices: 20080987--20081062 Score: 93
Period size: 30 Copynumber: 2.7 Consensus size: 29
20080977 GGAAAAAGAT
20080987 AGAGAAAGGGAT-AGG-GAAAGAGAAAGG
1 AGAGAAAGGGATAAGGAGAAAGAGAAAGG
*
20081014 AGAGATAGGGATAAGGAGAAAGAGAAAGAG
1 AGAGAAAGGGATAAGGAGAAAGAGAAAG-G
* * *
20081044 AAAGAGAGAGATAAGGAGA
1 AGAGAAAGGGATAAGGAGA
20081063 GGAGAGAGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 11 0.26
28 3 0.07
29 11 0.26
30 17 0.40
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (29 bp):
AGAGAAAGGGATAAGGAGAAAGAGAAAGG
Found at i:20081069 original size:78 final size:76
Alignment explanation
Indices: 20080987--20081129 Score: 169
Period size: 78 Copynumber: 1.9 Consensus size: 76
20080977 GGAAAAAGAT
* * * * *
20080987 AGAGAAAGGGATAGGGAAAGAGAAAGGAGAGATAGGGATAAGGAGAAAGAGAAAGAGAAAGAGAG
1 AGAGAAAGGGAAAAGGAAAGAGAAAGGAGAGAAAGGCAGAAGGAG-AAG-GAAAGAGAAAGAGAG
20081052 AGATAAGGAGAGG
64 AGATAAGGAGAGG
* * * * * *
20081065 AGAGAGAGGGAAAAGGAGAGAGAGAGGAGGGAAAGGCAGAAGGAGAAGGAAAGGGAGAGAGAGAG
1 AGAGAAAGGGAAAAGGAAAGAGAAAGGAGAGAAAGGCAGAAGGAGAAGGAAAGAGAAAGAGAGAG
20081130 GAGAGAGAGA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
76 15 0.28
77 3 0.06
78 36 0.67
ACGTcount: A:0.50, C:0.01, G:0.46, T:0.03
Consensus pattern (76 bp):
AGAGAAAGGGAAAAGGAAAGAGAAAGGAGAGAAAGGCAGAAGGAGAAGGAAAGAGAAAGAGAGAG
ATAAGGAGAGG
Found at i:20081072 original size:21 final size:20
Alignment explanation
Indices: 20081040--20081135 Score: 74
Period size: 21 Copynumber: 4.8 Consensus size: 20
20081030 AGAAAGAGAA
* *
20081040 AGAGAAAGAGAGAGATAAGG
1 AGAGAGAGAGAGAGAAAAGG
*
20081060 AGAGGAGAGAGAGGGAAAAGG
1 AGA-GAGAGAGAGAGAAAAGG
*
20081081 AGAGAGAGAG-GAGGGAAAGG
1 AGAGAGAGAGAGA-GAAAAGG
*
20081101 CAGA-AG-GAGA-AGGAAAGGG
1 -AGAGAGAGAGAGA-GAAAAGG
20081120 AGAGAGAGAGGAGAGA
1 AGAGAGAGA-GAGAGA
20081136 GAGAAGCAGC
Statistics
Matches: 61, Mismatches: 7, Indels: 15
0.73 0.08 0.18
Matches are distributed among these distances:
18 3 0.05
19 13 0.21
20 20 0.33
21 24 0.39
22 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.49, T:0.01
Consensus pattern (20 bp):
AGAGAGAGAGAGAGAAAAGG
Found at i:20081087 original size:18 final size:18
Alignment explanation
Indices: 20081064--20081130 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
20081054 ATAAGGAGAG
20081064 GAGAGAGAGGGAAAAGGA
1 GAGAGAGAGGGAAAAGGA
*
20081082 GAGAGAGAGGAGGGAAAGGCA
1 GAGAGAGA-G-GGAAAAGG-A
* *
20081103 GA-AGGAGAAGGAAAGGGA
1 GAGA-GAGAGGGAAAAGGA
20081121 GAGAGAGAGG
1 GAGAGAGAGG
20081131 AGAGAGAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 16 0.41
19 8 0.21
20 8 0.21
21 7 0.18
ACGTcount: A:0.46, C:0.01, G:0.52, T:0.00
Consensus pattern (18 bp):
GAGAGAGAGGGAAAAGGA
Found at i:20081107 original size:27 final size:27
Alignment explanation
Indices: 20081059--20081110 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
20081049 GAGAGATAAG
* *
20081059 GAGAGGAGAGAGAGGGAAAAGGAGAGA
1 GAGAGGAGAGAAAGGCAAAAGGAGAGA
* *
20081086 GAGAGGAGGGAAAGGCAGAAGGAGA
1 GAGAGGAGAGAAAGGCAAAAGGAGA
20081111 AGGAAAGGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.52, T:0.00
Consensus pattern (27 bp):
GAGAGGAGAGAAAGGCAAAAGGAGAGA
Found at i:20085046 original size:1 final size:1
Alignment explanation
Indices: 20085040--20085072 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
20085030 TTGTTATCTC
20085040 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
20085073 ATGGCTTGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:20087181 original size:49 final size:49
Alignment explanation
Indices: 20087109--20087306 Score: 387
Period size: 49 Copynumber: 4.0 Consensus size: 49
20087099 GTATCATCTA
20087109 ACAATTTAGATGTAATACCCGTAGCCTGTTTCTGTCGTCAGATTAGGTT
1 ACAATTTAGATGTAATACCCGTAGCCTGTTTCTGTCGTCAGATTAGGTT
20087158 ACAATTTAGATGTAATACCCGTAGCCTGTTTCTGTCGTCAGATTAGGTT
1 ACAATTTAGATGTAATACCCGTAGCCTGTTTCTGTCGTCAGATTAGGTT
20087207 ACAATTTAGATGTAATACCCGTAGCCTGTTTCTGTCGTCAGATTAGGTT
1 ACAATTTAGATGTAATACCCGTAGCCTGTTTCTGTCGTCAGATTAGGTT
*
20087256 ACAATTTAGATGTAATACCCGTAGCCTGTTTCTGTCGTCAGACTAGGTT
1 ACAATTTAGATGTAATACCCGTAGCCTGTTTCTGTCGTCAGATTAGGTT
20087305 AC
1 AC
20087307 TAAATGTTAC
Statistics
Matches: 148, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 148 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (49 bp):
ACAATTTAGATGTAATACCCGTAGCCTGTTTCTGTCGTCAGATTAGGTT
Found at i:20087594 original size:20 final size:21
Alignment explanation
Indices: 20087569--20087615 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
20087559 TAGCCCAAAC
*
20087569 TGTGTGATTA-TCCACACGCT
1 TGTGTGACTACTCCACACGCT
20087589 TGTGTGACTACTCCACACGCT
1 TGTGTGACTACTCCACACGCT
*
20087610 CGTGTG
1 TGTGTG
20087616 CGTAGATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.32
Consensus pattern (21 bp):
TGTGTGACTACTCCACACGCT
Found at i:20088131 original size:61 final size:62
Alignment explanation
Indices: 20088035--20088161 Score: 240
Period size: 61 Copynumber: 2.1 Consensus size: 62
20088025 CCGAAAAAAT
20088035 TAGTAAATACAATTATAATGTATAAATAGGTCCACTATTCACCTAAACCCAATCCAAACCCA
1 TAGTAAATACAATTATAATGTATAAATAGGTCCACTATTCACCTAAACCCAATCCAAACCCA
20088097 TAGTAAATAC-ATTATAATGTATAAATAGGTCCACTATTCACCTAAACCCAATCCAAACCCA
1 TAGTAAATACAATTATAATGTATAAATAGGTCCACTATTCACCTAAACCCAATCCAAACCCA
20088158 -AGTA
1 TAGTA
20088162 TTCAACCCAA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
60 4 0.06
61 51 0.78
62 10 0.15
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (62 bp):
TAGTAAATACAATTATAATGTATAAATAGGTCCACTATTCACCTAAACCCAATCCAAACCCA
Found at i:20088299 original size:9 final size:9
Alignment explanation
Indices: 20088285--20088351 Score: 73
Period size: 9 Copynumber: 7.4 Consensus size: 9
20088275 GTAGTGATTC
20088285 AATTCGGTT
1 AATTCGGTT
*
20088294 AATTCGGGT
1 AATTCGGTT
20088303 AATTCGGTT
1 AATTCGGTT
**
20088312 AATTTAAG-T
1 AA-TTCGGTT
*
20088321 AATTCAGTT
1 AATTCGGTT
20088330 AATTCGGTT
1 AATTCGGTT
*
20088339 AGTTCGGTT
1 AATTCGGTT
20088348 AATT
1 AATT
20088352 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 4 0.08
9 41 0.85
10 3 0.06
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:20088866 original size:19 final size:21
Alignment explanation
Indices: 20088844--20088884 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
20088834 CACACCAATC
20088844 AAACATA-TCAA-CCATATAT
1 AAACATACTCAAGCCATATAT
20088863 AAACATACCTCAAGCCATATAT
1 AAACATA-CTCAAGCCATATAT
20088885 TACAAAGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (21 bp):
AAACATACTCAAGCCATATAT
Found at i:20089950 original size:9 final size:9
Alignment explanation
Indices: 20089936--20090002 Score: 73
Period size: 9 Copynumber: 7.4 Consensus size: 9
20089926 TTAGTGATTC
20089936 AATTCGGTT
1 AATTCGGTT
*
20089945 AATTCGGGT
1 AATTCGGTT
20089954 AATTCGGTT
1 AATTCGGTT
**
20089963 AATTTAAG-T
1 AA-TTCGGTT
*
20089972 AATTCAGTT
1 AATTCGGTT
20089981 AATTCGGTT
1 AATTCGGTT
*
20089990 AGTTCGGTT
1 AATTCGGTT
20089999 AATT
1 AATT
20090003 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 4 0.08
9 41 0.85
10 3 0.06
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:20115275 original size:16 final size:16
Alignment explanation
Indices: 20115256--20115303 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
20115246 CGTTTTTTTT
20115256 TTAAATTTTGAGTTAA
1 TTAAATTTTGAGTTAA
*
20115272 TTAAA--TTGAGTTAT
1 TTAAATTTTGAGTTAA
* *
20115286 TTAATTTTTTAGTTAA
1 TTAAATTTTGAGTTAA
20115302 TT
1 TT
20115304 TAGATAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.46
16 14 0.54
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (16 bp):
TTAAATTTTGAGTTAA
Found at i:20116026 original size:86 final size:87
Alignment explanation
Indices: 20115911--20116089 Score: 342
Period size: 86 Copynumber: 2.1 Consensus size: 87
20115901 CAATTCAACC
20115911 TATAGTATAGAAAATAATTAAATATAACAAAATTCTATTGCTTAGATAAATTGGATTTATTAGGT
1 TATAGTATAG-AAATAATTAAATATAACAAAATTCTATTGCTTAGATAAATTGGATTTATTAGGT
20115976 TTTTCTTTAGAAATAATTTTTTA
65 TTTTCTTTAGAAATAATTTTTTA
20115999 TATAGTATAG-AATAATTAAATATAACAAAATTCTATTGCTTAGATAAATTGGATTTATTAGGTT
1 TATAGTATAGAAATAATTAAATATAACAAAATTCTATTGCTTAGATAAATTGGATTTATTAGGTT
20116063 TTTCTTTAGAAATAATTTTTTA
66 TTTCTTTAGAAATAATTTTTTA
20116085 TATAG
1 TATAG
20116090 AGTTTAAAGT
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
86 81 0.89
88 10 0.11
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (87 bp):
TATAGTATAGAAATAATTAAATATAACAAAATTCTATTGCTTAGATAAATTGGATTTATTAGGTT
TTTCTTTAGAAATAATTTTTTA
Found at i:20120808 original size:19 final size:19
Alignment explanation
Indices: 20120768--20120809 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
20120758 TGTATGTAAT
*
20120768 ATATATTATGTTAACTATA
1 ATATATTATGTTAACTAAA
*
20120787 ATATA-TATGTTATATTAAA
1 ATATATTATGTTA-ACTAAA
20120806 ATAT
1 ATAT
20120810 TATAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (19 bp):
ATATATTATGTTAACTAAA
Found at i:20124757 original size:108 final size:108
Alignment explanation
Indices: 20124601--20124867 Score: 450
Period size: 108 Copynumber: 2.5 Consensus size: 108
20124591 TTCAAGAGGT
* *
20124601 TATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCATG-TTCCTCGAAT
1 TATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGAAT
20124663 TTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAAGGA
66 TTCCAAACGC-AAACATTGCCTTATTTTGAAATTTTTGAAAGGA
* *
20124707 TATTTGGCTCTTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAAT
1 TATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGAAT
*
20124772 TTCCAAACGCAAACATTGCCTTATTTTGAAATTTTTGAAATGA
66 TTCCAAACGCAAACATTGCCTTATTTTGAAATTTTTGAAAGGA
*
20124815 TATTTGGCTATTTGGTTGAACGAAAAAAATCGAAACCCAGCACATTAGGGCAC
1 TATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCAC
20124868 ATTTTATATA
Statistics
Matches: 151, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
106 22 0.15
108 110 0.73
109 19 0.13
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (108 bp):
TATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGAAT
TTCCAAACGCAAACATTGCCTTATTTTGAAATTTTTGAAAGGA
Found at i:20125076 original size:3 final size:3
Alignment explanation
Indices: 20125068--20125138 Score: 56
Period size: 3 Copynumber: 23.3 Consensus size: 3
20125058 AAGCTATTAT
* * *
20125068 ATA ATA ATA AT- ATG ATA AGTA ACA ATA AT- ATAA ACA ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA AT-A ATA ATA AT-A ATA
* *
20125114 ATA GTA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
20125139 AATTACTAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 4 0.07
3 43 0.80
4 7 0.13
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:20125132 original size:18 final size:17
Alignment explanation
Indices: 20125068--20125134 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 17
20125058 AAGCTATTAT
* *
20125068 ATAATAATAATATGATA
1 ATAAAAATAATATAATA
* *
20125085 AGTAACAATAATATAAACA
1 A-TAAAAATAATAT-AATA
20125104 ATAATAAATAATAGTAATA
1 ATAA-AAATAATA-TAATA
20125123 ATAAAAATAATA
1 ATAAAAATAATA
20125135 ATAAAATTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
17 1 0.02
18 22 0.54
19 17 0.41
20 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.28
Consensus pattern (17 bp):
ATAAAAATAATATAATA
Found at i:20126447 original size:41 final size:41
Alignment explanation
Indices: 20126384--20126598 Score: 349
Period size: 41 Copynumber: 5.2 Consensus size: 41
20126374 CTTAATTTAA
* * *
20126384 CAGATTCACCGGCACTTGGCCTGCTAGGCTTATAACTTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
20126426 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
20126467 CAGATCACCGGCACTTAGCCTGATAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
20126508 CAGATCATCGGTACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
20126549 CAGATCATCGACACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
20126590 CAGATCACC
1 CAGATCACC
20126599 AATTTCAAAC
Statistics
Matches: 163, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
41 159 0.98
42 4 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:20127363 original size:20 final size:20
Alignment explanation
Indices: 20127334--20127371 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20127324 ATGTATACAT
20127334 AATTTCATACTTTCAAATCA
1 AATTTCATACTTTCAAATCA
* *
20127354 AATTTTATACTTTTAAAT
1 AATTTCATACTTTCAAAT
20127372 TTTACTCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTTCATACTTTCAAATCA
Found at i:20129617 original size:44 final size:44
Alignment explanation
Indices: 20129569--20129895 Score: 164
Period size: 44 Copynumber: 7.4 Consensus size: 44
20129559 AAAATTCGCC
* *
20129569 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* ** * *
20129613 ATCTTCAATCTATTCCACTGTTGCCCAGGGAGAT-AGA-AT-TA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* * * * * * ****
20129654 CTGGCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCCCC
1 AT--CTTCAATCTACTCCACTACT--GCTCAGGGAGATAAGATCTGTA
* *
20129701 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* * * * * * *
20129745 ATCTTCAATCTATTCCACTGCTGCCCAAGGAGATAAAAT-TTTT
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
** * * * * * * * **
20129788 GGCTTTAATATACTCCACTGTAAC--CACAGTGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCTGTA
* * * *
20129833 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
*
20129877 ATCTTCAATCTATTCCACT
1 ATCTTCAATCTACTCCACT
20129896 GCCAACCAGG
Statistics
Matches: 198, Mismatches: 71, Indels: 28
0.67 0.24 0.09
Matches are distributed among these distances:
41 3 0.02
42 4 0.02
43 34 0.17
44 123 0.62
45 31 0.16
46 2 0.01
47 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
Found at i:20129745 original size:132 final size:132
Alignment explanation
Indices: 20129508--20130108 Score: 892
Period size: 132 Copynumber: 4.6 Consensus size: 132
20129498 CGCAACGTTG
** *
20129508 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATTCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
* * ****
20129573 TCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
20129638 CA
131 CA
* *
20129640 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCCCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
* * ***
20129705 TCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
20129770 CA
131 CA
* * ** * * *
20129772 AGGAGATAAAATTTTTGGCTTTAATATACTCCACTGTAACCACAGTGAGGTAAAATCCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
20129837 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
66 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
20129902 CA
131 CA
* * *
20129904 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTGCTATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
* *
20129969 TCGATCTACT-C-C-A---CTTAGGGAGATAAGATCTGAAATCTTCAATCTATTTCACTGCCAAC
66 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
20130028 CA
131 CA
*
20130030 GGGAGATAG-ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
20130094 TCGATCTGCTCCACT
66 TCGATCTGCTCCACT
20130109 GTCAATGCAG
Statistics
Matches: 429, Mismatches: 37, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
125 62 0.14
126 57 0.13
127 1 0.00
129 1 0.00
130 1 0.00
131 1 0.00
132 306 0.71
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
CA
Found at i:20129907 original size:44 final size:43
Alignment explanation
Indices: 20129859--20130037 Score: 124
Period size: 38 Copynumber: 4.2 Consensus size: 43
20129849 ACTACTGCTT
*
20129859 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTG-CAACC
* * *
20129903 AGGGAGAT-AGAATTACTG---GCTTCAATGTACTCCACTGTAATCAC
1 AGGGAGATAAG-A-T-CTGAAATCTTCAATCTACTCCACTGCAA-C-C
* * ** * *
20129947 AGGGAGGTAAAATCTGCTATCTTCGATCTACTCCACT-----T
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGCAACC
* *
20129985 AGGGAGATAAGATCTGAAATCTTCAATCTATTTCACTGCCAACC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTG-CAACC
20130029 AGGGAGATA
1 AGGGAGATA
20130038 GATTACTGGC
Statistics
Matches: 102, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
38 30 0.29
42 5 0.05
43 20 0.20
44 27 0.26
45 17 0.17
46 3 0.03
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (43 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGCAACC
Found at i:20131587 original size:15 final size:15
Alignment explanation
Indices: 20131546--20131589 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
20131536 CCACTCATTC
20131546 ATTTTTTCTTTTCTTT
1 ATTTTTTCTTTT-TTT
*
20131562 -TTTCTTCTTTTTTT
1 ATTTTTTCTTTTTTT
*
20131576 ATTTTTTGTTTTTT
1 ATTTTTTCTTTTTT
20131590 GAATCTGGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.05, C:0.09, G:0.02, T:0.84
Consensus pattern (15 bp):
ATTTTTTCTTTTTTT
Found at i:20136243 original size:108 final size:108
Alignment explanation
Indices: 20135852--20136537 Score: 1175
Period size: 108 Copynumber: 6.4 Consensus size: 108
20135842 AAAATTCAAG
* * * * * *
20135852 AGGATATTTGGCTATTTGGTTAAACGAG--AAAGCAAAACCTAGCACATTAGGGCACG-TTCCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* *
20135914 GAATTTCTAAACGCAAAACATTGCCTTATTTTGAAA-TTTTTGAA
66 GAATTTCCAAACGCAAAACATTGCCTTA-TTT-AAATTTTTTAAA
* *
20135958 AGGATATTTGGCTATTTGGTTTAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
20136023 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA-TTTTTGAA
66 GAATTTCCAAACGCAAAACATTGCCTTA-TTT-AAATTTTTTAAA
* * *
20136067 AGGATATTTGGCTATTTAGTTGAACGAAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
20136132 GAATTTCCAAACGCAAAACATTGCCTTATTTAAATTTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTAAATTTTTTAAA
20136175 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
20136240 GAATTTCCAAACGCAAAACATTGCCTTATTTAAATTTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTAAATTTTTTAAA
20136283 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
20136348 GAATTTCCAAACGCAAAACATTGCCTTATTTAAATTTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTAAATTTTTTAAA
20136391 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
20136456 GAATTTCCAAACGCAAAACATTGCCTTATTTAAATTTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTAAATTTTTTAAA
20136499 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAA
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAA
20136538 AATAAAAATA
Statistics
Matches: 563, Mismatches: 13, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
106 27 0.05
107 3 0.01
108 395 0.70
109 138 0.25
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (108 bp):
AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTAAATTTTTTAAA
Found at i:20138281 original size:16 final size:16
Alignment explanation
Indices: 20138260--20138295 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
20138250 AAGTTAACCA
20138260 TTTATTAAA-ATATGTT
1 TTTATTAAAGATAT-TT
20138276 TTTATTAAAGATATTT
1 TTTATTAAAGATATTT
20138292 TTTA
1 TTTA
20138296 GAATAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TTTATTAAAGATATTT
Found at i:20138511 original size:14 final size:14
Alignment explanation
Indices: 20138492--20138531 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
20138482 TTGATTGCCA
20138492 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
20138506 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
20138520 GGAAAATGTTTT
1 GTAAAATGTTTT
20138532 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:20138540 original size:20 final size:20
Alignment explanation
Indices: 20138515--20138554 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20138505 CGTAAAATGA
*
20138515 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
20138535 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
20138555 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:20138544 original size:34 final size:35
Alignment explanation
Indices: 20138500--20138566 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
20138490 CAGTAAAATG
* *
20138500 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
20138534 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
20138567 CTGTTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:20142011 original size:6 final size:6
Alignment explanation
Indices: 20142000--20142029 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
20141990 GTTCAGATGC
20142000 AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
20142030 TTATTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:20147113 original size:11 final size:11
Alignment explanation
Indices: 20147097--20147121 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20147087 GGCCCTATAT
20147097 TATAAAGAAAG
1 TATAAAGAAAG
20147108 TATAAAGAAAG
1 TATAAAGAAAG
20147119 TAT
1 TAT
20147122 CAATGCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (11 bp):
TATAAAGAAAG
Found at i:20147781 original size:2 final size:2
Alignment explanation
Indices: 20147774--20147799 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20147764 NNNNNNNNNN
20147774 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
20147800 TGCTTTCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20172846 original size:27 final size:27
Alignment explanation
Indices: 20172768--20172846 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
20172758 TGAAGGGGGT
*
20172768 GTGGTGCTTATCTGATAGGCGGCACCA
1 GTGGTGCCTATCTGATAGGCGGCACCA
*** * * **
20172795 GTGACCCCTATCTCATAGGCAGCACTG
1 GTGGTGCCTATCTGATAGGCGGCACCA
*
20172822 GTGGTGCCTATCTGATAAGCGGCAC
1 GTGGTGCCTATCTGATAGGCGGCAC
20172847 ACCTAGTATA
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (27 bp):
GTGGTGCCTATCTGATAGGCGGCACCA
Found at i:20193241 original size:17 final size:18
Alignment explanation
Indices: 20193202--20193242 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
20193192 CTAAATCTAC
20193202 AATTCTGTTGTAAACAGG
1 AATTCTGTTGTAAACAGG
*
20193220 AATTCTGTTGTGAACA-G
1 AATTCTGTTGTAAACAGG
20193237 AATTCT
1 AATTCT
20193243 TATCTCAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.37
Consensus pattern (18 bp):
AATTCTGTTGTAAACAGG
Found at i:20193419 original size:16 final size:17
Alignment explanation
Indices: 20193387--20193421 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20193377 AACTTAGTCG
20193387 AAGTATAAACGATGTAT
1 AAGTATAAACGATGTAT
*
20193404 AAGTATATAC-ATGTAT
1 AAGTATAAACGATGTAT
20193420 AA
1 AA
20193422 ATTATTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (17 bp):
AAGTATAAACGATGTAT
Found at i:20194129 original size:41 final size:41
Alignment explanation
Indices: 20194072--20194648 Score: 1154
Period size: 41 Copynumber: 14.1 Consensus size: 41
20194062 AAATAAGATG
20194072 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
20194113 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
20194154 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
20194195 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
20194236 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
20194277 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
20194318 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
20194359 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
20194400 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
20194441 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
20194482 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
20194523 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
20194564 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
20194605 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
20194646 TTT
1 TTT
20194649 GAGCCATGCG
Statistics
Matches: 536, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 536 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:20196445 original size:62 final size:62
Alignment explanation
Indices: 20196289--20196456 Score: 255
Period size: 62 Copynumber: 2.7 Consensus size: 62
20196279 CAATGTACCT
* * **
20196289 AATTTATATTACAAATTTTGTTCCAATTTTTAATAATGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATAACAA
* *
20196351 AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATGATAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATAACAA
* * *
20196413 AATTTATATTACAAAGTTTGTTACAAGTTTTAGTGTTTTAATGT
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGT
20196457 TGTAATGTTG
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 97 1.00
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATAACAA
Found at i:20197683 original size:14 final size:14
Alignment explanation
Indices: 20197664--20197691 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20197654 CAAATTACAT
20197664 GTTAGAATAGTATC
1 GTTAGAATAGTATC
20197678 GTTAGAATAGTATC
1 GTTAGAATAGTATC
20197692 ATTAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:20198345 original size:324 final size:324
Alignment explanation
Indices: 20197756--20198403 Score: 1127
Period size: 324 Copynumber: 2.0 Consensus size: 324
20197746 GAAATATGTA
* * *
20197756 TGGTTGGTGCCTAACAGATGCCAAGAATGACATCTGATAAAGAGCCCATGATTGCAGCAATAGAA
1 TGGTTGGTGCCTAACAGATGCCAAGAATGACATCCGATAAAGAGCCCATGACTGCAGCAATACAA
*
20197821 GGCATCCGCCTATGTCTACGGAATCAGGCTTTGTCGTCCGAAAAAGCTCACAATACAACATAGCC
66 GGCATCCACCTATGTCTACGGAATCAGGCTTTGTCGTCCGAAAAAGCTCACAATACAACATAGCC
* * * * *
20197886 AGAACTGTGGAAACCCAACTATACGAGCGAACATTCTGCAAATCAGATAATAGGGGTAAATACAT
131 AAAACTGCGGAAACCCAAATATACAAGCGAACATTCTACAAATCAGATAATAGGGGTAAATACAT
20197951 CAAATGAACCCTGTTGTTGTTTGCATCCAGCATCAGTAAACCCCCTATAATATGCATAATGTACG
196 CAAATGAACCCTGTTGTTGTTTGCATCCAGCATCAGTAAACCCCCTATAATATGCATAATGTACG
20198016 CTTGAGCTGCGCACATTACCTCATGCTCAGTGGCATTAATTGATAAATGTTCAAAATTAGCTTT
261 CTTGAGCTGCGCACATTACCTCATGCTCAGTGGCATTAATTGATAAATGTTCAAAATTAGCTTT
*
20198080 TGGTTGGTGCCTAACCGATGCCAAGAATGACATCCGATAAAGAGCCCATGACTGCAGCAATACAA
1 TGGTTGGTGCCTAACAGATGCCAAGAATGACATCCGATAAAGAGCCCATGACTGCAGCAATACAA
* * ** *
20198145 GGCATCCACCTATGTCTAC-TACATTAGGCTTTGTCGTGTGACAAAGCTCACAATACAACATAGC
66 GGCATCCACCTATGTCTACGGA-ATCAGGCTTTGTCGTCCGAAAAAGCTCACAATACAACATAGC
* *
20198209 CAAAACTGCGGAACCCCAAATATACAAGCGAACATTCTACAAATCAGCTAATAGGGGTAAATACA
130 CAAAACTGCGGAAACCCAAATATACAAGCGAACATTCTACAAATCAGATAATAGGGGTAAATACA
20198274 TCAAATGAACCCTGTTGTTGTTTGCATCCAGCATCAGTAAACCCCCTATAATATGCATAATGTAC
195 TCAAATGAACCCTGTTGTTGTTTGCATCCAGCATCAGTAAACCCCCTATAATATGCATAATGTAC
20198339 GCTTGAGCTGCGCACATTACCTCATGCTCAGTGGCATTAATTGATAAATGTTCAAAATTAGCTTT
260 GCTTGAGCTGCGCACATTACCTCATGCTCAGTGGCATTAATTGATAAATGTTCAAAATTAGCTTT
20198404 CAGCCATGAA
Statistics
Matches: 306, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
323 1 0.00
324 305 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (324 bp):
TGGTTGGTGCCTAACAGATGCCAAGAATGACATCCGATAAAGAGCCCATGACTGCAGCAATACAA
GGCATCCACCTATGTCTACGGAATCAGGCTTTGTCGTCCGAAAAAGCTCACAATACAACATAGCC
AAAACTGCGGAAACCCAAATATACAAGCGAACATTCTACAAATCAGATAATAGGGGTAAATACAT
CAAATGAACCCTGTTGTTGTTTGCATCCAGCATCAGTAAACCCCCTATAATATGCATAATGTACG
CTTGAGCTGCGCACATTACCTCATGCTCAGTGGCATTAATTGATAAATGTTCAAAATTAGCTTT
Found at i:20199659 original size:17 final size:17
Alignment explanation
Indices: 20199637--20199671 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20199627 AAATCTAATC
20199637 AACCTAAAACACACATA
1 AACCTAAAACACACATA
20199654 AACCTAAAACACACATA
1 AACCTAAAACACACATA
20199671 A
1 A
20199672 TAAATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.29, G:0.00, T:0.11
Consensus pattern (17 bp):
AACCTAAAACACACATA
Found at i:20200359 original size:6 final size:6
Alignment explanation
Indices: 20200350--20200385 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
20200340 GTAAAATCGA
*
20200350 TTTTGA TTTTG- TTTTGC TTTTGC TTTTGC TTTTGC T
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC T
20200386 CAAATCTGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.03, C:0.11, G:0.17, T:0.69
Consensus pattern (6 bp):
TTTTGC
Found at i:20200384 original size:18 final size:17
Alignment explanation
Indices: 20200350--20200385 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20200340 GTAAAATCGA
20200350 TTTTGATTTTGTTTTGC
1 TTTTGATTTTGTTTTGC
*
20200367 TTTTGCTTTTGCTTTTGC
1 TTTTGATTTTG-TTTTGC
20200385 T
1 T
20200386 CAAATCTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.03, C:0.11, G:0.17, T:0.69
Consensus pattern (17 bp):
TTTTGATTTTGTTTTGC
Found at i:20201656 original size:23 final size:23
Alignment explanation
Indices: 20201626--20201811 Score: 198
Period size: 23 Copynumber: 7.9 Consensus size: 23
20201616 GTGTTATAAT
*
20201626 GTTCATGTTTTGGTTTCTATTAA
1 GTTCATGTTTTGGTTTCTGTTAA
*
20201649 GTTCATGTTTTAGTTTCTGTTAA
1 GTTCATGTTTTGGTTTCTGTTAA
* *
20201672 GTTCATGTTTTGGTTTATGTGTTA
1 GTTCATGTTTTGGTTTCTGT-TAA
* *
20201696 --TAATGTTCAT-GTTTCTGTTAA
1 GTTCATGTT-TTGGTTTCTGTTAA
*
20201717 GTTCATGTTTTGGTTTTTGTTAA
1 GTTCATGTTTTGGTTTCTGTTAA
20201740 GTTCATGTTTTGGTTTCTGTTAA
1 GTTCATGTTTTGGTTTCTGTTAA
* *
20201763 GTTCATGTTTAGGTTTATGTGTTATAA
1 GTTCATGTTTTGG-TT-TCTG-T-TAA
*
20201790 TGTTCATGTTTTGGTTTATGTT
1 -GTTCATGTTTTGGTTTCTGTT
20201812 TTGGTTTCTG
Statistics
Matches: 136, Mismatches: 17, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
21 2 0.01
22 14 0.10
23 90 0.66
24 5 0.04
25 4 0.03
26 4 0.03
27 5 0.04
28 12 0.09
ACGTcount: A:0.16, C:0.06, G:0.20, T:0.57
Consensus pattern (23 bp):
GTTCATGTTTTGGTTTCTGTTAA
Found at i:20201716 original size:45 final size:45
Alignment explanation
Indices: 20201661--20201800 Score: 196
Period size: 45 Copynumber: 3.1 Consensus size: 45
20201651 TCATGTTTTA
20201661 GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
1 GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
* *
20201706 GTTTCTGTTAAGTTCATGTTTTGGTTT-T-TGTTAAGTTCATGTT-TT
1 GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTT-A--TAATGTTCAT
*
20201751 GGTTTCTGTTAAGTTCATGTTTAGGTTTATGTGTTATAATGTTCAT
1 -GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
20201797 GTTT
1 GTTT
20201801 TGGTTTATGT
Statistics
Matches: 83, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
43 4 0.05
44 2 0.02
45 38 0.46
46 33 0.40
47 2 0.02
48 4 0.05
ACGTcount: A:0.16, C:0.06, G:0.21, T:0.56
Consensus pattern (45 bp):
GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
Found at i:20201781 original size:91 final size:86
Alignment explanation
Indices: 20201626--20201836 Score: 314
Period size: 91 Copynumber: 2.4 Consensus size: 86
20201616 GTGTTATAAT
* *
20201626 GTTCATGTTTTGGTTTCTATTAAGTTCATGTTTTAGTTTCTGTTAAGTTCATGTTTTGGTTTATG
1 GTTCATGTTTTGGTTTCTGTTAAGTTCATGTTTTAGTTTCTGTTAAGTTCATGTTTAGGTTTATG
20201691 TGTTATAATGTTCATGTTTCTG
66 TGTTATAATGTTCATGTTT-TG
* *
20201713 TTAAGTTCATGTTTTGGTTTTTGTTAAGTTCATGTTTTGGTTTCTGTTAAGTTCATGTTTAGGTT
1 ----GTTCATGTTTTGGTTTCTGTTAAGTTCATGTTTTAGTTTCTGTTAAGTTCATGTTTAGGTT
20201778 TATGTGTTATAATGTTCATGTTTTG
62 TATGTGTTATAATGTTCATGTTTTG
* * *
20201803 GTTTATGTTTTGGTTTCTGTTCAGTTGATGTTTT
1 GTTCATGTTTTGGTTTCTGTTAAGTTCATGTTTT
20201837 TCTGTATTAA
Statistics
Matches: 112, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
86 30 0.27
90 2 0.02
91 80 0.71
ACGTcount: A:0.15, C:0.07, G:0.21, T:0.57
Consensus pattern (86 bp):
GTTCATGTTTTGGTTTCTGTTAAGTTCATGTTTTAGTTTCTGTTAAGTTCATGTTTAGGTTTATG
TGTTATAATGTTCATGTTTTG
Found at i:20201840 original size:19 final size:20
Alignment explanation
Indices: 20201816--20201857 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
20201806 TATGTTTTGG
*
20201816 TTTCTG-TTCAGTTGATGTT
1 TTTCTGATTAAGTTGATGTT
20201835 TTTCTGTATTAAGTTGATGTT
1 TTTCTG-ATTAAGTTGATGTT
20201856 TT
1 TT
20201858 CCATTTCTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
21 14 0.70
ACGTcount: A:0.14, C:0.07, G:0.19, T:0.60
Consensus pattern (20 bp):
TTTCTGATTAAGTTGATGTT
Found at i:20201927 original size:19 final size:20
Alignment explanation
Indices: 20201903--20201944 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
20201893 CATGTTTTGG
20201903 TTTCTG-TTAAGTTGATGTT
1 TTTCTGATTAAGTTGATGTT
20201922 TTTCTGTATTAAGTTGATGTT
1 TTTCTG-ATTAAGTTGATGTT
20201943 TT
1 TT
20201945 CCCATACCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
21 15 0.71
ACGTcount: A:0.17, C:0.05, G:0.19, T:0.60
Consensus pattern (20 bp):
TTTCTGATTAAGTTGATGTT
Found at i:20202869 original size:8 final size:9
Alignment explanation
Indices: 20202845--20202871 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
20202835 GCAAAACAGT
20202845 TTATTTTTA
1 TTATTTTTA
20202854 TTATTTTTA
1 TTATTTTTA
20202863 TTATTTTTA
1 TTATTTTTA
20202872 ATTTTAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTATTTTTA
Found at i:20203005 original size:305 final size:296
Alignment explanation
Indices: 20202419--20203019 Score: 1006
Period size: 305 Copynumber: 2.0 Consensus size: 296
20202409 GAGAACATGC
20202419 GCAACTAGTGTTTCGACTAGCTTGTTTGTTTCATTTCTTGTCCGATTATTTGTTTAGTTGACTAA
1 GCAACTAGTGTTTCGACTAGCTTGTTTGTTTCATTTCTTGTCCGATTATTTGTTTAGTTGACTAA
*
20202484 GGTGGTTGTAATAGTTAGTGCAAATCAGTTTTGAGTGACTATTGTAATAGTTAGTGCAAAACAAT
66 GGTGGTTGCAATAGTTAGTGCAAATCAGTTTTGAGTGACTATTGTAATAGTTAGTGCAAAACAAT
*
20202549 TTATTTTTATTTTTTTAATTTTTAACTATTATTTTTCAATTATTATTCAAGTTTTAATTTTATTG
131 TTATTTTTATTTTTTTAATTTTTAACTATTATTTTTCAATTATTATTCAAGTTTTAAGTTTATTG
20202614 TTATGGATTGGTTTTATGCAATTGGTTTTCAATTTACTAAATAATGCATTTGTTTATTTTTGTAA
196 TTATGGATTGGTTTTATGCAATTGGTTTTCAATTTACTAAATAATGCATTTGTTTATTTTTGTAA
* *
20202679 TTCAAGTAAAGTTTGGATATTTTTTATTTTTAATAT
261 CTCAAGTAAAGTTTAGATATTTTTTATTTTTAATAT
*
20202715 GCAACTAGTGTTTCGACTAGCTTGTTTGTTTCATTTCTTGTTCGATTATTTGTTTAGTTGACTAA
1 GCAACTAGTGTTTCGACTAGCTTGTTTGTTTCATTTCTTGTCCGATTATTTGTTTAGTTGACTAA
** *
20202780 GGTGGTTGCAATAGTTAGTGCAAATCAGTTTAT-TTTGACTATTGTAATAGTTAGTGCAAAACAG
66 GGTGGTTGCAATAGTTAGTGCAAATCAGTTT-TGAGTGACTATTGTAATAGTTAGTGCAAAACAA
20202844 TTTATTTTTATTATTTTTATTATTTTTAATTTTAACTATTATTTTTCAATTATTATTCAAGTTTT
130 TTTATTTTTATT-TTTTTA--A----T--TTTTAACTATTATTTTTCAATTATTATTCAAGTTTT
* * *
20202909 AAGTTTATTGTTATGGATTGGTTTTATGTATTTGTTTTTCAATTTACTAAATAATGCATTTGTTT
186 AAGTTTATTGTTATGGATTGGTTTTATGCAATTGGTTTTCAATTTACTAAATAATGCATTTGTTT
20202974 ATTTTTGTAACTCAAGTAAAGTTTAGATATTTTTTATTTTTAATAT
251 ATTTTTGTAACTCAAGTAAAGTTTAGATATTTTTTATTTTTAATAT
20203020 TCCAATTTAT
Statistics
Matches: 284, Mismatches: 11, Indels: 11
0.93 0.04 0.04
Matches are distributed among these distances:
296 134 0.47
297 7 0.02
299 1 0.00
303 1 0.00
305 141 0.50
ACGTcount: A:0.26, C:0.08, G:0.14, T:0.52
Consensus pattern (296 bp):
GCAACTAGTGTTTCGACTAGCTTGTTTGTTTCATTTCTTGTCCGATTATTTGTTTAGTTGACTAA
GGTGGTTGCAATAGTTAGTGCAAATCAGTTTTGAGTGACTATTGTAATAGTTAGTGCAAAACAAT
TTATTTTTATTTTTTTAATTTTTAACTATTATTTTTCAATTATTATTCAAGTTTTAAGTTTATTG
TTATGGATTGGTTTTATGCAATTGGTTTTCAATTTACTAAATAATGCATTTGTTTATTTTTGTAA
CTCAAGTAAAGTTTAGATATTTTTTATTTTTAATAT
Found at i:20203134 original size:15 final size:16
Alignment explanation
Indices: 20203112--20203149 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
20203102 TTAAATTAAA
20203112 TTAA-ATTTTTTATTT
1 TTAATATTTTTTATTT
20203127 TT-ATATTTTTTATTT
1 TTAATATTTTTTATTT
20203142 TTAATATT
1 TTAATATT
20203150 CCAATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 15 0.71
16 5 0.24
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTAATATTTTTTATTT
Found at i:20203143 original size:16 final size:15
Alignment explanation
Indices: 20203112--20203149 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
20203102 TTAAATTAAA
20203112 TTAA-ATTTTTTATT
1 TTAATATTTTTTATT
*
20203126 TTTATATTTTTTATTT
1 TTAATATTTTTTA-TT
20203142 TTAATATT
1 TTAATATT
20203150 CCAATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 3 0.15
15 8 0.40
16 9 0.45
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTAATATTTTTTATT
Found at i:20208361 original size:9 final size:9
Alignment explanation
Indices: 20208349--20208406 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
20208339 CTGCCCTCTC
20208349 CTTCTCTTT
1 CTTCTCTTT
20208358 CTTCTTCTTCT
1 CTTC-TCTT-T
20208369 CTTCT-TTT
1 CTTCTCTTT
20208377 C-T-TC-TT
1 CTTCTCTTT
20208383 CTTCT-TATT
1 CTTCTCT-TT
20208392 CTTCTCTTT
1 CTTCTCTTT
20208401 CTTCTC
1 CTTCTC
20208407 CTTCACTCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
6 4 0.10
7 2 0.05
8 3 0.07
9 21 0.51
10 6 0.15
11 5 0.12
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.66
Consensus pattern (9 bp):
CTTCTCTTT
Found at i:20208364 original size:3 final size:3
Alignment explanation
Indices: 20208356--20208410 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
20208346 CTCCTTCTCT
*
20208356 TTC TTC TTC TTC -TC TTC TT- TTC TTC TTC TTC TTA TTC TTC -TC TTTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC
*
20208402 TTC TCC TTC
1 TTC TTC TTC
20208411 ACTCACCGGC
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 6 0.14
3 36 0.82
4 2 0.05
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:20208379 original size:19 final size:20
Alignment explanation
Indices: 20208349--20208410 Score: 72
Period size: 19 Copynumber: 3.0 Consensus size: 20
20208339 CTGCCCTCTC
20208349 CTTCTCTTTCTTCTTCTTCT
1 CTTCTCTTTCTTCTTCTTCT
20208369 CTTCT-TTTCTTCTTCTTCTTATT
1 CTTCTCTTTCTTCTTCTTC----T
*
20208392 CTTCTCTTTCTTCTCCTTC
1 CTTCTCTTTCTTCTTCTTC
20208411 ACTCACCGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 13 0.36
20 5 0.14
23 6 0.17
24 12 0.33
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.65
Consensus pattern (20 bp):
CTTCTCTTTCTTCTTCTTCT
Found at i:20213867 original size:27 final size:27
Alignment explanation
Indices: 20213832--20213886 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
20213822 TATTATAAAT
20213832 ATATTTATACGTAAATATAAATTTTAA
1 ATATTTATACGTAAATATAAATTTTAA
*
20213859 ATATTTATATGTAAATATAAATTTTAA
1 ATATTTATACGTAAATATAAATTTTAA
20213886 A
1 A
20213887 ATTATTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (27 bp):
ATATTTATACGTAAATATAAATTTTAA
Found at i:20213888 original size:14 final size:13
Alignment explanation
Indices: 20213843--20213886 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
20213833 TATTTATACG
20213843 TAAATATAAATTT
1 TAAATATAAATTT
** *
20213856 TAAATATTTATATG
1 TAAATATAAAT-TT
20213870 TAAATATAAATTT
1 TAAATATAAATTT
20213883 TAAA
1 TAAA
20213887 ATTATTAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
TAAATATAAATTT
Found at i:20214111 original size:17 final size:16
Alignment explanation
Indices: 20214084--20214115 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
20214074 ATAATTTATT
20214084 AAAATTTTAAAAAATA
1 AAAATTTTAAAAAATA
20214100 AAAATATTTAAAAAAT
1 AAAAT-TTTAAAAAAT
20214116 TATAAAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATTTTAAAAAATA
Found at i:20223803 original size:36 final size:36
Alignment explanation
Indices: 20223756--20223901 Score: 292
Period size: 36 Copynumber: 4.1 Consensus size: 36
20223746 TCGCTGAAGT
20223756 AAGAACTCCATTGAAATGGGTATGGAAAGAGATGGC
1 AAGAACTCCATTGAAATGGGTATGGAAAGAGATGGC
20223792 AAGAACTCCATTGAAATGGGTATGGAAAGAGATGGC
1 AAGAACTCCATTGAAATGGGTATGGAAAGAGATGGC
20223828 AAGAACTCCATTGAAATGGGTATGGAAAGAGATGGC
1 AAGAACTCCATTGAAATGGGTATGGAAAGAGATGGC
20223864 AAGAACTCCATTGAAATGGGTATGGAAAGAGATGGC
1 AAGAACTCCATTGAAATGGGTATGGAAAGAGATGGC
20223900 AA
1 AA
20223902 AAAGAGGGTT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 110 1.00
ACGTcount: A:0.40, C:0.11, G:0.30, T:0.19
Consensus pattern (36 bp):
AAGAACTCCATTGAAATGGGTATGGAAAGAGATGGC
Found at i:20233286 original size:44 final size:44
Alignment explanation
Indices: 20233236--20233589 Score: 209
Period size: 44 Copynumber: 8.0 Consensus size: 44
20233226 CTTCAAGATA
20233236 GAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
1 GAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
* *
20233280 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGT-
1 GAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
* *
20233323 G-G-A-A---AAGCTAGTAATCCTATCTCCCTGAGATTACAGTG
1 GAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
* * ** *
20233361 GAGCGGACT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAG
1 GAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TT--A-C--AGT-G
* * *
20233411 ATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCG
1 ---G-AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
* * *
20233459 AAGCAGATGGAAGCTA-ATAATCTTATCTCCCTGAGATTACAGTA
1 GAGCAGATTGAAGCTAGA-AATCTTATCTCCCTGAGATTACAGTG
* ** * * **
20233503 GAGCGGATT-AAAATAAAGAATCTTATCTCTCTGA-AGTTACAGCA
1 GAGCAGATTGAAGCTAGA-AATCTTATCTCCCTGAGA-TTACAGTG
* * * * *
20233547 GAGTAGATCGCATC-AG--GTCTTATCTCCCTGAGATTACAGTG
1 GAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
20233588 GA
1 GA
20233590 ATAGACCGAA
Statistics
Matches: 242, Mismatches: 41, Indels: 57
0.71 0.12 0.17
Matches are distributed among these distances:
37 33 0.14
38 1 0.00
39 1 0.00
40 1 0.00
41 23 0.10
42 3 0.01
43 12 0.05
44 128 0.53
45 1 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 5 0.02
50 1 0.00
51 1 0.00
52 1 0.00
53 1 0.00
54 21 0.09
55 4 0.02
56 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
GAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
Found at i:20233340 original size:37 final size:37
Alignment explanation
Indices: 20233290--20233362 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
20233280 GAGCAGATTG
20233290 AAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAA
1 AAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAA
20233327 AAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGA
1 AAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGA
20233363 GCGGACTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (37 bp):
AAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAA
Found at i:20233388 original size:81 final size:81
Alignment explanation
Indices: 20233246--20233402 Score: 185
Period size: 81 Copynumber: 1.9 Consensus size: 81
20233236 GAGCAGATTG
* * **
20233246 AAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCC
1 AAGCTAGAAATCCTATCTCCCTGAGATTACAGTGGAGCAGACTGAAAATAGTAATCCTATCTCCC
20233311 TG-AGATTACAGTGGAA
66 TGAAG-TTACAGTGGAA
* * * *
20233327 AAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGACT-AAAATAAAG-GATCTTATCTC
1 AAGCTAGAAATCCTATCTCCCTGAGATTACAGTGGAGCAGACTGAAAAT--AGTAATCCTATCTC
*
20233390 TCTGAAGTTACAG
64 CCTGAAGTTACAG
20233403 CAGAGTAGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
80 3 0.05
81 57 0.89
82 4 0.06
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (81 bp):
AAGCTAGAAATCCTATCTCCCTGAGATTACAGTGGAGCAGACTGAAAATAGTAATCCTATCTCCC
TGAAGTTACAGTGGAA
Found at i:20234114 original size:21 final size:22
Alignment explanation
Indices: 20234089--20234140 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
20234079 GTTTCCCCCA
20234089 GCCACG-CACACCTCCGTACGT
1 GCCACGTCACACCTCCGTACGT
* **
20234110 GCCACGTTCGCACCTCCGTACAC
1 GCCACG-TCACACCTCCGTACGT
20234133 GCCACGTC
1 GCCACGTC
20234141 CCTCGCCGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 6 0.23
22 2 0.08
23 18 0.69
ACGTcount: A:0.17, C:0.48, G:0.19, T:0.15
Consensus pattern (22 bp):
GCCACGTCACACCTCCGTACGT
Found at i:20238944 original size:25 final size:28
Alignment explanation
Indices: 20238907--20238961 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
20238897 TTTCTAAACT
*
20238907 TATACATGCA-TT-TTTATATAGTATATA
1 TATACAT-CATTTCTTTATATAATATATA
20238934 TATACAT-ATTTCTTTATATAATATATA
1 TATACATCATTTCTTTATATAATATATA
20238961 T
1 T
20238962 GTGTTCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 1 0.04
26 2 0.08
27 22 0.88
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (28 bp):
TATACATCATTTCTTTATATAATATATA
Found at i:20241195 original size:19 final size:20
Alignment explanation
Indices: 20241151--20241195 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
20241141 AACGTCTCTT
*
20241151 TATGCA-TTCATTTCATGCA
1 TATGCATTTCATTACATGCA
20241170 T-TCGCATTTCATTACAT-CA
1 TAT-GCATTTCATTACATGCA
20241189 TATGCAT
1 TATGCAT
20241196 CAAAGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 1 0.05
19 11 0.50
20 10 0.45
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (20 bp):
TATGCATTTCATTACATGCA
Found at i:20244018 original size:6 final size:6
Alignment explanation
Indices: 20244009--20244033 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20243999 AAAAGAAGTG
20244009 ATGAAA ATGAAA ATGAAA ATGAAA A
1 ATGAAA ATGAAA ATGAAA ATGAAA A
20244034 AGTGTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
ATGAAA
Found at i:20245526 original size:50 final size:50
Alignment explanation
Indices: 20245469--20246108 Score: 447
Period size: 50 Copynumber: 12.8 Consensus size: 50
20245459 GCAGTGGAAC
* * * *
20245469 AGATTGAAGCCACAACGGCGGACCTGATTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACATTGCAATGAAAA
* * * * * *
20245519 AGATTGAAGCCACAACGGCAGATCTTAATT-CCTTAGCAGTGCAGTGAAAC
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCCTGA-CATTGCAATGAAAA
* * * * * *
20245569 AGATTGAAGCCATAACGGCGGACCTGATTTTCCTGATATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACATTGCAATGAAAA
* * * * * * *
20245619 AGATTGAAGCCACAACGGCGGGTCTTACTT-CCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCCTGA-CATTGCAATGAAAA
* * *
20245669 AGATTGAAGCTACGACGGCGGATC-TAGTTTCCCTGATATTGCAA-GAAAAA
1 AGATTGAAGCCACAACGGCGGATCTTA-TTTCCCTGACATTGCAATG-AAAA
* * * * * * * *
20245719 AGAGTGAAGCCACAACGGCGGGTCTTACTT-CCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCCTGA-CATTGCAATGAAAA
* * *
20245769 AGATTGAAGCTACGACGGCGGATC-TAGTTTCCCTGATATTGCAA-GAAAAA
1 AGATTGAAGCCACAACGGCGGATCTTA-TTTCCCTGACATTGCAATG-AAAA
* * * * * * * *
20245819 AGAGTGAAGCCACAACGGCGGGTCTTACTT-CCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCCTGA-CATTGCAATGAAAA
* * * * * *
20245869 AGATTAAAGCTACGACGGCGGATC-TAGTTTCCCTGATATTGTAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTA-TTTCCCTGACATTGCAATGAAAA
* * * * * * *
20245919 AGATTGAAGCCACAATGGCGGATCTTACTT-CCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCCTGA-CATTGCAATGAAAA
* * * * *
20245969 AGATTGAAGCTACGACGGCGGATC-TAGTTTCCCTGATATTACAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTA-TTTCCCTGACATTGCAATGAAAA
* * ** * *
20246019 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAATGCGGTGGAAT
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACATTGCAATGAAAA
* * **
20246069 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATT
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACATT
20246109 TCAGTTGAAC
Statistics
Matches: 436, Mismatches: 132, Indels: 44
0.71 0.22 0.07
Matches are distributed among these distances:
49 30 0.07
50 376 0.86
51 30 0.07
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACATTGCAATGAAAA
Found at i:20246127 original size:100 final size:100
Alignment explanation
Indices: 20245459--20246104 Score: 983
Period size: 100 Copynumber: 6.5 Consensus size: 100
20245449 TCCCTGAGCA
* * *
20245459 GCAGTGGAACAGATTGAAGCCACAACGGCGGACCT-GATTTCCCTGATATTGCAATTAAAAAGAT
1 GCAGTGGAACAGATTGAAGCTACGACGGCGGATCTAG-TTTCCCTGATATTGCAATTAAAAAGAT
* *
20245523 TGAAGCCACAACGGCAGATCTTAATTCCTTAGCAGT
65 TGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGT
* * ** * *
20245559 GCAGTGAAACAGATTGAAGCCATAACGGCGGACCT-GATTTTCCTGATATTGCAATTAAAAAGAT
1 GCAGTGGAACAGATTGAAGCTACGACGGCGGATCTAG-TTTCCCTGATATTGCAATTAAAAAGAT
*
20245623 TGAAGCCACAACGGCGGGTCTTACTTCCTTAGCAGT
65 TGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGT
** *
20245659 GCAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATATTGCAAGAAAAAAGAGT
1 GCAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATATTGCAATTAAAAAGATT
*
20245724 GAAGCCACAACGGCGGGTCTTACTTCCTTAGCAGT
66 GAAGCCACAACGGCGGATCTTACTTCCTTAGCAGT
** *
20245759 GCAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATATTGCAAGAAAAAAGAGT
1 GCAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATATTGCAATTAAAAAGATT
*
20245824 GAAGCCACAACGGCGGGTCTTACTTCCTTAGCAGT
66 GAAGCCACAACGGCGGATCTTACTTCCTTAGCAGT
* *
20245859 GCAGTGGAACAGATTAAAGCTACGACGGCGGATCTAGTTTCCCTGATATTGTAATTAAAAAGATT
1 GCAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATATTGCAATTAAAAAGATT
*
20245924 GAAGCCACAATGGCGGATCTTACTTCCTTAGCAGT
66 GAAGCCACAACGGCGGATCTTACTTCCTTAGCAGT
*
20245959 GCAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATATTACAATTAAAAAGATT
1 GCAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATATTGCAATTAAAAAGATT
* *
20246024 GAAGCCACAACGGCGGATCTTACTTCCCT-GACAAT
66 GAAGCCACAACGGCGGATCTTACTTCCTTAG-CAGT
* * *
20246059 GCGGTGGAATAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA
1 GCAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGA
20246105 CATTTCAGTT
Statistics
Matches: 513, Mismatches: 31, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
99 1 0.00
100 511 1.00
101 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (100 bp):
GCAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATATTGCAATTAAAAAGATT
GAAGCCACAACGGCGGATCTTACTTCCTTAGCAGT
Found at i:20246399 original size:132 final size:132
Alignment explanation
Indices: 20246131--20246408 Score: 335
Period size: 132 Copynumber: 2.1 Consensus size: 132
20246121 ATTGAAGTTT
* * * *
20246131 ACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGG
1 ACAGATCTTATCTCCCTAAACAGTAGTGGAACAGATAGAAGATGGCAGATTTTACCTCCCTGAAG
* * * * *
20246196 TTACAGTGGAGTACATAGAAGCCAGTAATTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAAA
66 TTACAGTGGAGCACATAGAAGCCAATAATCCTATCTCCCTGAGTAGCAATGGAATAGATTGAAAA
**
20246261 TT
131 CC
*
20246263 ACAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATAGAAGATGGCAGATTTTACCTCCCTGAAG
1 ACAGATCTTATCTCCCTAAACAGTAGTGGAACAGATAGAAGATGGCAGATTTTACCTCCCTGAAG
* * * * * * * *
20246328 TTGCATTGGAGCAGATTA-AAGTCAATAATCCTATCTCCTTGAAGTTGCAATGGAGTGGATT-AA
66 TTACAGTGGAGCACA-TAGAAGCCAATAATCCTATCTCCCTG-AGTAGCAATGGAATAGATTGAA
20246391 AACC
129 AACC
*
20246395 ACAGATCTCATCTC
1 ACAGATCTTATCTC
20246409 TTTGAAGTTG
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
132 107 0.87
133 16 0.13
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (132 bp):
ACAGATCTTATCTCCCTAAACAGTAGTGGAACAGATAGAAGATGGCAGATTTTACCTCCCTGAAG
TTACAGTGGAGCACATAGAAGCCAATAATCCTATCTCCCTGAGTAGCAATGGAATAGATTGAAAA
CC
Found at i:20249609 original size:17 final size:18
Alignment explanation
Indices: 20249579--20249612 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20249569 TACTTAAATT
*
20249579 TTGTCTGTTTTAGAGAAG
1 TTGTCTGTTATAGAGAAG
20249597 TTGT-TGTTATAGAGAA
1 TTGTCTGTTATAGAGAA
20249613 ACAACTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.44
Consensus pattern (18 bp):
TTGTCTGTTATAGAGAAG
Found at i:20256619 original size:26 final size:26
Alignment explanation
Indices: 20256590--20256639 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
20256580 GAAAAGCCAT
*
20256590 TAATCAGGAAGCTCACAAAGAGCCTC
1 TAATCAGAAAGCTCACAAAGAGCCTC
* *
20256616 TAATCAGAAATCTCATAAAGAGCC
1 TAATCAGAAAGCTCACAAAGAGCC
20256640 ATATAATGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (26 bp):
TAATCAGAAAGCTCACAAAGAGCCTC
Found at i:20267382 original size:7 final size:7
Alignment explanation
Indices: 20267370--20267514 Score: 290
Period size: 7 Copynumber: 20.7 Consensus size: 7
20267360 TAGTCGATTC
20267370 GTATTTA
1 GTATTTA
20267377 GTATTTA
1 GTATTTA
20267384 GTATTTA
1 GTATTTA
20267391 GTATTTA
1 GTATTTA
20267398 GTATTTA
1 GTATTTA
20267405 GTATTTA
1 GTATTTA
20267412 GTATTTA
1 GTATTTA
20267419 GTATTTA
1 GTATTTA
20267426 GTATTTA
1 GTATTTA
20267433 GTATTTA
1 GTATTTA
20267440 GTATTTA
1 GTATTTA
20267447 GTATTTA
1 GTATTTA
20267454 GTATTTA
1 GTATTTA
20267461 GTATTTA
1 GTATTTA
20267468 GTATTTA
1 GTATTTA
20267475 GTATTTA
1 GTATTTA
20267482 GTATTTA
1 GTATTTA
20267489 GTATTTA
1 GTATTTA
20267496 GTATTTA
1 GTATTTA
20267503 GTATTTA
1 GTATTTA
20267510 GTATT
1 GTATT
20267515 ATGTATATAA
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 138 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:20269718 original size:97 final size:97
Alignment explanation
Indices: 20269547--20269991 Score: 648
Period size: 97 Copynumber: 4.5 Consensus size: 97
20269537 CCAAAACCTC
* *
20269547 AAACCCTAATTTATTTAA-TTTTTCCTT-AAAACCCTAAACCCTAAACTCTAATCTAATTTTTTT
1 AAACCCTAATTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAA--TTTTT
* *
20269610 TTAAAAATTATAATTAATTTACTCAAGTAACCCC
64 TTAAAATTTATAATTAATTTACTCAAGTAACCCT
*
20269644 AAACCCTAATTTATTTAATTTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
1 AAACCCTAATTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
20269709 AAAATTTATAATTAATTTACTCAAGTAACCCT
66 AAAATTTATAATTAATTTACTCAAGTAACCCT
*
20269741 AAACCCTAATTTATTTAATTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTT
1 AAACCCTAATTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
20269806 AAAATTTATAATTAATTTACTCAAGTAACCCT
66 AAAATTTATAATTAATTTACTCAAGTAACCCT
*
20269838 AAACCCTAATTTATTTAATTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAA-TTTTTT
1 AAACCCTAATTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
* * * *
20269902 AAAATTTATAAATAATTTAATTAAGAAACCCT
66 AAAATTTATAATTAATTTACTCAAGTAACCCT
* * *
20269934 AAACTCTAAACCCTTATTTATTTATTTTTCCTT-AAAACCCTAAA-ATCTAAAACCCTAA
1 AAACCCT-AA--TTTATTTA-AT-TTTTTCCTTAAAAACCCTAAACA-CT-AAACCCTAA
20269992 AAACCCTAAA
Statistics
Matches: 324, Mismatches: 15, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
96 40 0.12
97 210 0.65
98 8 0.02
99 35 0.11
100 13 0.04
101 18 0.06
ACGTcount: A:0.40, C:0.19, G:0.01, T:0.40
Consensus pattern (97 bp):
AAACCCTAATTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
AAAATTTATAATTAATTTACTCAAGTAACCCT
Found at i:20269977 original size:8 final size:8
Alignment explanation
Indices: 20269966--20270004 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
20269956 TATTTTTCCT
20269966 TAAAACCC
1 TAAAACCC
*
20269974 TAAAA-TC
1 TAAAACCC
20269981 TAAAACCC
1 TAAAACCC
20269989 TAAAAACCC
1 T-AAAACCC
20269998 TAAAACC
1 TAAAACC
20270005 TTAACCCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 6 0.22
8 13 0.48
9 8 0.30
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (8 bp):
TAAAACCC
Found at i:20270010 original size:23 final size:24
Alignment explanation
Indices: 20269967--20270014 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
20269957 ATTTTTCCTT
*
20269967 AAAACCCTAAAATCTAAAACCCTA
1 AAAACCCTAAAACCTAAAACCCTA
*
20269991 AAAACCCTAAAACCT-TAACCCTA
1 AAAACCCTAAAACCTAAAACCCTA
20270014 A
1 A
20270015 TTATAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17
Consensus pattern (24 bp):
AAAACCCTAAAACCTAAAACCCTA
Found at i:20270998 original size:30 final size:30
Alignment explanation
Indices: 20270962--20271025 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
20270952 ATAGTGGCTA
20270962 AAATGATAAAAATATGTAACGATGATATCT
1 AAATGATAAAAATATGTAACGATGATATCT
20270992 AAATGATAAAAATATGTAACGATGATATCT
1 AAATGATAAAAATATGTAACGATGATATCT
20271022 AAAT
1 AAAT
20271026 TACAAACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (30 bp):
AAATGATAAAAATATGTAACGATGATATCT
Found at i:20275000 original size:22 final size:21
Alignment explanation
Indices: 20274966--20275013 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
20274956 GTTTTTTATA
* *
20274966 TATTTTTAAAAAAATTAGATT
1 TATTTTTTAAAAAATAAGATT
* *
20274987 TATTTTTTATAAAATAAGCTT
1 TATTTTTTAAAAAATAAGATT
20275008 TATTTT
1 TATTTT
20275014 ATGACTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
TATTTTTTAAAAAATAAGATT
Found at i:20275102 original size:22 final size:22
Alignment explanation
Indices: 20275074--20275115 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
20275064 TATGAAAGAT
*
20275074 AGTCAGG-TGTTAGTTAGTTAGC
1 AGTCAGGCGGTTAG-TAGTTAGC
20275096 AGTCAGGCGGTTAGTAGTTA
1 AGTCAGGCGGTTAGTAGTTA
20275116 TTCTGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.24, C:0.10, G:0.33, T:0.33
Consensus pattern (22 bp):
AGTCAGGCGGTTAGTAGTTAGC
Found at i:20278599 original size:22 final size:22
Alignment explanation
Indices: 20278571--20278612 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
20278561 TATGAAAGAT
*
20278571 AGTCAGG-TGTTAGTTAGTTAGC
1 AGTCAGGCGGTTAG-TAGTTAGC
20278593 AGTCAGGCGGTTAGTAGTTA
1 AGTCAGGCGGTTAGTAGTTA
20278613 TTCTGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.24, C:0.10, G:0.33, T:0.33
Consensus pattern (22 bp):
AGTCAGGCGGTTAGTAGTTAGC
Found at i:20279140 original size:19 final size:20
Alignment explanation
Indices: 20279118--20279157 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
20279108 AAATCTGATT
*
20279118 AATTAGTTAATT-AATTTAA
1 AATTAATTAATTAAATTTAA
20279137 AATTAATTAATTAAATTTAA
1 AATTAATTAATTAAATTTAA
20279157 A
1 A
20279158 GTCCTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AATTAATTAATTAAATTTAA
Found at i:20279944 original size:16 final size:17
Alignment explanation
Indices: 20279920--20279957 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
20279910 ATTTAATCTT
* *
20279920 AAATTATTATTAT-AAA
1 AAATGATTAATATGAAA
20279936 AAATGATTAATATGAAA
1 AAATGATTAATATGAAA
20279953 AAATG
1 AAATG
20279958 TCTATCAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (17 bp):
AAATGATTAATATGAAA
Found at i:20280650 original size:184 final size:184
Alignment explanation
Indices: 20280341--20280708 Score: 720
Period size: 184 Copynumber: 2.0 Consensus size: 184
20280331 TCGGGAGTCG
20280341 GTTACGCGCGAGGAAGGTATTAGCACCCTGCGACGCCCAAAAATTGGTATCTTGTTAAGCGCATG
1 GTTACGCGCGAGGAAGGTATTAGCACCCTGCGACGCCCAAAAATTGGTATCTTGTTAAGCGCATG
20280406 TTGTCTTAATTTTCAAAAATACGAGTTCAATTTAATACTTAATCGTGATCCGATTAAAATACAAG
66 TTGTCTTAATTTTCAAAAATACGAGTTCAATTTAATACTTAATCGTGATCCGATTAAAATACAAG
20280471 AACTTTTTTTTAAAATACGATAATTTTGAAACACAATATTTTTGAAGACACGGA
131 AACTTTTTTTTAAAATACGATAATTTTGAAACACAATATTTTTGAAGACACGGA
20280525 GTTACGCGCGAGGAAGGTATTAGCACCCTCGCGACGCCC-AAAATTGGTATCTTGTTAAGCGCAT
1 GTTACGCGCGAGGAAGGTATTAGCACCCT-GCGACGCCCAAAAATTGGTATCTTGTTAAGCGCAT
20280589 GTTGTCTTAATTTTCAAAAATACGAGTTCAATTTAATACTTAATCGTGATCCGATTAAAATACAA
65 GTTGTCTTAATTTTCAAAAATACGAGTTCAATTTAATACTTAATCGTGATCCGATTAAAATACAA
20280654 GAACTTTTTTTTAAAATACGATAATTTTGAAACACAATATTTTTGAAGACACGGA
130 GAACTTTTTTTTAAAATACGATAATTTTGAAACACAATATTTTTGAAGACACGGA
20280709 AATTTTTGAA
Statistics
Matches: 183, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
184 174 0.95
185 9 0.05
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (184 bp):
GTTACGCGCGAGGAAGGTATTAGCACCCTGCGACGCCCAAAAATTGGTATCTTGTTAAGCGCATG
TTGTCTTAATTTTCAAAAATACGAGTTCAATTTAATACTTAATCGTGATCCGATTAAAATACAAG
AACTTTTTTTTAAAATACGATAATTTTGAAACACAATATTTTTGAAGACACGGA
Found at i:20280714 original size:17 final size:17
Alignment explanation
Indices: 20280678--20280785 Score: 121
Period size: 18 Copynumber: 6.2 Consensus size: 17
20280668 AATACGATAA
*
20280678 TTTTGAAACAC-AATAT
1 TTTTGAAACACGAAAAT
*
20280694 TTTTGAAGACACGGAAAT
1 TTTTGAA-ACACGAAAAT
* *
20280712 TTTTGAAACACAGGAATT
1 TTTTGAAACAC-GAAAAT
20280730 TTTTGAAACACGAAAAAT
1 TTTTGAAACACG-AAAAT
20280748 TTTTGAAAACACGAAAA-
1 TTTTG-AAACACGAAAAT
*
20280765 TTTTGAAACACGAGAAT
1 TTTTGAAACACGAAAAT
20280782 TTTT
1 TTTT
20280786 TAAAAGGACG
Statistics
Matches: 80, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
16 17 0.21
17 18 0.22
18 38 0.47
19 7 0.09
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (17 bp):
TTTTGAAACACGAAAAT
Found at i:20280731 original size:35 final size:34
Alignment explanation
Indices: 20280678--20280786 Score: 116
Period size: 35 Copynumber: 3.1 Consensus size: 34
20280668 AATACGATAA
20280678 TTTTGAAACACA-ATATTTTTGAAGACACG-GAAAT
1 TTTTGAAACACAGA-ATTTTTGAA-ACACGAGAAAT
*
20280712 TTTTGAAACACAGGAATTTTTTGAAACACGAAAAAT
1 TTTTGAAACACA-GAA-TTTTTGAAACACGAGAAAT
* *
20280748 TTTTGAAA-ACACGAAAATTTTGAAACACGAGAATT
1 TTTTGAAACACA-G-AATTTTTGAAACACGAGAAAT
20280783 TTTT
1 TTTT
20280787 AAAAGGACGT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
34 12 0.18
35 30 0.46
36 23 0.35
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (34 bp):
TTTTGAAACACAGAATTTTTGAAACACGAGAAAT
Found at i:20281293 original size:9 final size:9
Alignment explanation
Indices: 20281279--20281341 Score: 65
Period size: 9 Copynumber: 6.9 Consensus size: 9
20281269 CTTGGGCCCC
20281279 TTCTTTTTT
1 TTCTTTTTT
20281288 TTCTTTTTCT
1 TTCTTTTT-T
*
20281298 TCCTTTTTT
1 TTCTTTTTT
*
20281307 TTCTTTCTT
1 TTCTTTTTT
**
20281316 TT-TTCCTT
1 TTCTTTTTT
20281324 TTCTTCTTTT
1 TTCTT-TTTT
20281334 TTCTTTTT
1 TTCTTTTT
20281342 CTTTTTTCTG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
8 7 0.16
9 23 0.51
10 15 0.33
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:20281320 original size:30 final size:29
Alignment explanation
Indices: 20281284--20281350 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
20281274 GCCCCTTCTT
20281284 TTTTTTCTTTTTCTTCCTTTTTT-TTCTTTC
1 TTTTTTCTTTTTCTT-CTTTTTTCTT-TTTC
*
20281314 TTTTTTCCTTTTCTTCTTTTTTCTTTTTC
1 TTTTTTCTTTTTCTTCTTTTTTCTTTTTC
20281343 TTTTTTCT
1 TTTTTTCT
20281351 GTTGGGCTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 18 0.53
30 16 0.47
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (29 bp):
TTTTTTCTTTTTCTTCTTTTTTCTTTTTC
Found at i:20281326 original size:13 final size:14
Alignment explanation
Indices: 20281310--20281349 Score: 55
Period size: 13 Copynumber: 2.8 Consensus size: 14
20281300 CTTTTTTTTC
20281310 TTTCTTTTTTCCTTT
1 TTTCTTTTTTCC-TT
20281325 TCTTCTTTTTT-CTT
1 T-TTCTTTTTTCCTT
20281339 TTTCTTTTTTC
1 TTTCTTTTTTC
20281350 TGTTGGGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 9 0.39
14 3 0.13
15 2 0.09
16 9 0.39
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTTTTCCTT
Found at i:20281350 original size:13 final size:13
Alignment explanation
Indices: 20281284--20281350 Score: 62
Period size: 16 Copynumber: 4.6 Consensus size: 13
20281274 GCCCCTTCTT
20281284 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
*
20281297 TTCCTTTTTTTTCTTTC
1 -T--TTTTTCTT-TTTC
20281314 TTTTTTCCTTTTCTTC
1 TTTTTT-C-TTT-TTC
20281330 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
20281343 TTTTTTCT
1 TTTTTTCT
20281351 GTTGGGCTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
13 11 0.24
14 9 0.20
15 2 0.04
16 19 0.42
17 4 0.09
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:20281350 original size:23 final size:21
Alignment explanation
Indices: 20281279--20281347 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 21
20281269 CTTGGGCCCC
20281279 TTCTTTTTTTTCTTTTTCTTCCT
1 TTCTTTTTTTTCTTTTTCTT--T
*
20281302 TT-TTTTTCTTTCTTTTTTCCTT
1 TTCTTTTT-TTTC-TTTTTCTTT
20281324 TTCTTCTTTTTTCTTTTTCTTT
1 TTCTT-TTTTTTCTTTTTCTTT
20281346 TT
1 TT
20281348 TCTGTTGGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 18 0.45
23 12 0.30
24 10 0.25
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (21 bp):
TTCTTTTTTTTCTTTTTCTTT
Found at i:20281804 original size:13 final size:13
Alignment explanation
Indices: 20281788--20281856 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 13
20281778 CTTTTTCTTC
20281788 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
* *
20281801 TTTTCCTTTTTCG
1 TTTTCTTTTTTCT
* * *
20281814 GTTGCTTTTTTAT
1 TTTTCTTTTTTCT
20281827 TATTTCTTTTTCTCT
1 T-TTTCTTTTT-TCT
* *
20281842 TTTGCTTTTTGCT
1 TTTTCTTTTTTCT
20281855 TT
1 TT
20281857 GCTTGTTTGG
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
13 23 0.55
14 16 0.38
15 3 0.07
ACGTcount: A:0.03, C:0.16, G:0.07, T:0.74
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:20282233 original size:30 final size:29
Alignment explanation
Indices: 20282199--20282267 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
20282189 GGGTAAAAGC
20282199 ATAATTTTAGTAAAA-ATATGGGGCCAAAAT
1 ATAATTTTAG-AAAATATA-GGGGCCAAAAT
* * *
20282229 ATAATTTCTAGAAAGTTTAGGGGCCCAAAT
1 ATAATTT-TAGAAAATATAGGGGCCAAAAT
20282259 ATAATTTTA
1 ATAATTTTA
20282268 ATTTTTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 2 0.06
30 27 0.79
31 5 0.15
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (29 bp):
ATAATTTTAGAAAATATAGGGGCCAAAAT
Found at i:20282572 original size:140 final size:141
Alignment explanation
Indices: 20282409--20282691 Score: 541
Period size: 140 Copynumber: 2.0 Consensus size: 141
20282399 CATATGAGGC
20282409 AAGCCCAAAAATCATAATTTTTTAAATATATATAATAAAATAAAATAAAATAAAACACGAAATTT
1 AAGCCCAAAAATCATAATTTTTTAAATATATATAATAAAATAAAATAAAATAAAACACGAAATTT
20282474 AGACCGGACAAAATTCAGTGATTACAACTGCCCCTCTTTGCTCGTAGCTGTGAAACAGGGATAGA
66 AGACCGGACAAAATTCAGTGATTACAACTGCCCCTCTTTGCTCGTAGCTGTGAAACAGGGATAGA
20282539 GC-AAGACTTA
131 GCAAAGACTTA
20282549 AAGCCCAAAAATCATAATTTTTTAAATATATATAATAAAATAAAATAAAATAAAACACGAAATTT
1 AAGCCCAAAAATCATAATTTTTTAAATATATATAATAAAATAAAATAAAATAAAACACGAAATTT
**
20282614 AGACCGGACAAAATTCAGTGATTACATGTGCCCCTCTTTGCTCGTAGCTGTGAAACAGGGATAGA
66 AGACCGGACAAAATTCAGTGATTACAACTGCCCCTCTTTGCTCGTAGCTGTGAAACAGGGATAGA
20282679 GCAAAGACTTA
131 GCAAAGACTTA
20282690 AA
1 AA
20282692 AGCACTGAAT
Statistics
Matches: 140, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
140 130 0.93
141 10 0.07
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.26
Consensus pattern (141 bp):
AAGCCCAAAAATCATAATTTTTTAAATATATATAATAAAATAAAATAAAATAAAACACGAAATTT
AGACCGGACAAAATTCAGTGATTACAACTGCCCCTCTTTGCTCGTAGCTGTGAAACAGGGATAGA
GCAAAGACTTA
Found at i:20283025 original size:75 final size:76
Alignment explanation
Indices: 20282837--20283517 Score: 748
Period size: 75 Copynumber: 8.9 Consensus size: 76
20282827 AAAAAAATAT
* * * *
20282837 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTAGTAATATGAGTTGATTTTTTGAAAAAATAAA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGGAAAAATAGA
*
20282902 AATTGAAAAATAC
65 AATT-AAAGATAC
* * * * * * * *
20282915 CTCGACGTGCGGCCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATATTTGGAAAGA-AGAA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAA
20282979 ATTAAAGATAC
66 ATTAAAGATAC
* * * *
20282990 CTCGGCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTTGAGAAAGAG
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTTGGAAAAATAG
*
20283055 AAATTAAAAAAAATAC
64 AAATT---AAAGATAC
* * * *
20283071 CTCGGCGTGTGACCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTT-GTAAAATAAAA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAA
20283135 ATTTAAAAGAAATAC
66 A-TT-AAAG--ATAC
* * **** *
20283150 CTCGGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGCGTTGATTTAAAAAAAAAAAGAA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAA
*
20283215 ACTGAAA-ATAC
66 A-TTAAAGATAC
* * * * * *
20283226 CTCAGC--GTGACTCGAGGCTCAACTCACCTCTCACATTATGAGTTGATCTTTTTGAAAAACAGA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTGGAAAAATAGA
20283289 AATTAAAGATAC
65 AATTAAAGATAC
* * *
20283301 CTCGGTATGTGACCCGAGGCTCGACTCACCTCTCGCAATATGAGTTTATTTTT-GAAAAATAGAA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAA
20283365 ATTAAAGATAC
66 ATTAAAGATAC
* * * *
20283376 CTTGGTATGTGACCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTT-GAAAAATAAAA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAA
20283440 ATTAAAGATAC
66 ATTAAAGATAC
* * * * * *
20283451 CTCGGTATGTGATCAGGGGCTCAACTCACCTCTTGCAATATGAGTTGATCTTT-GAAAAATAGAA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAA
20283515 ATT
66 ATT
20283518 GAAAAATATA
Statistics
Matches: 511, Mismatches: 78, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
74 40 0.08
75 218 0.43
76 20 0.04
77 56 0.11
78 55 0.11
79 60 0.12
80 10 0.02
81 52 0.10
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (76 bp):
CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAA
ATTAAAGATAC
Found at i:20283238 original size:234 final size:228
Alignment explanation
Indices: 20282825--20283523 Score: 815
Period size: 234 Copynumber: 3.0 Consensus size: 228
20282815 ACACATAAAT
* * *
20282825 TTAAAAAAATATCTCGGCATGTGACCCGAGGCTCAACTCACCTCTAGTAATATGAGTTGATTTTT
1 TTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
* * * * * * *
20282890 TGAAAAAATAAAAATTGAA-AAATACCTCGACGTGCGGCCCAAGGCTCAACTCACCTCTCGCATT
65 TG-AAAAATAAAAATTAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*** *
20282954 ATGAGTTGATATTTGGAAAGAAGAAATTAAAGATACCTCGGCATGTGACTCGAGGCTCAACTCAC
129 ATGAGTTGAT-TTAAAAAAAAAGAAATTAAAGATACCTCGGC--GTGACTCGAGGCTCAACTCAC
* *
20283019 CTCTCGCAATATGAGTTGATTCTTTTTGAGAAAGAGAAA
191 CTCTCGCAATATGAGTTGA-TCTTTTTGAAAAACAGAAA
* *
20283058 TTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTT
1 TT-AAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
20283123 TGTAAAATAAAAATTTAAAAGAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCGCAA
65 TGAAAAATAAAAA-TT-AAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
* * *
20283188 TATGCGTTGATTTAAAAAAAAAAAGAAACTGAAA-ATACCTCAGCGTGACTCGAGGCTCAACTCA
128 TATGAGTTGATTT--AAAAAAAAAGAAA-TTAAAGATACCTCGGCGTGACTCGAGGCTCAACTCA
* *
20283252 CCTCTCACATTATGAGTTGATCTTTTTGAAAAACAGAAA
190 CCTCTCGCAATATGAGTTGATCTTTTTGAAAAACAGAAA
* * * *
20283291 TT--AAAGATACCTCGGTATGTGACCCGAGGCTCGACTCACCTCTCGCAATATGAGTTTATTTTT
1 TTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * *
20283354 GAAAAATAGAAATTAAAG--ATACCTTGGTATGTGACCCGAGGCTCAACTCATCTCTCGCAATAT
66 GAAAAATAAAAATTAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* * * *
20283417 GAGTTGATTTTTGAAAAATAA-AAATTAAAGATACCTCGGTATGTGA-TCAGGGGCTCAACTCAC
131 GAGTTGA--TTTAAAAAAAAAGAAATTAAAGATACCTCGG--CGTGACTC-GAGGCTCAACTCAC
* *
20283480 CTCTTGCAATATGAGTTGATC--TTTGAAAAATAGAAA
191 CTCTCGCAATATGAGTTGATCTTTTTGAAAAACAGAAA
*
20283516 TTGAAAAA
1 TTAAAAAA
20283524 TATAATTCTT
Statistics
Matches: 402, Mismatches: 49, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
224 4 0.01
225 27 0.07
226 56 0.14
227 38 0.09
228 7 0.02
229 2 0.00
230 65 0.16
232 10 0.02
233 29 0.07
234 95 0.24
235 47 0.12
236 18 0.04
237 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (228 bp):
TTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
GAAAAATAAAAATTAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTAAAAAAAAAGAAATTAAAGATACCTCGGCGTGACTCGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATCTTTTTGAAAAACAGAAA
Found at i:20292112 original size:35 final size:35
Alignment explanation
Indices: 20292073--20292170 Score: 105
Period size: 35 Copynumber: 2.8 Consensus size: 35
20292063 TACAAGAATT
*
20292073 TTTTTTTAAAACAC-GATAA-TTTTGAAACACAATA
1 TTTTTTGAAAACACGGA-AATTTTTGAAACACAATA
*
20292107 TTTTTTGAAGACACGGAAATTTTTGAAACACAGGA-A
1 TTTTTTGAAAACACGGAAATTTTTGAAACACA--ATA
*
20292143 TTTTTTG-AAACACGAAAAATTTTTGAAA
1 TTTTTTGAAAACACG-GAAATTTTTGAAA
20292171 ACACGAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
34 14 0.25
35 20 0.36
36 20 0.36
37 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (35 bp):
TTTTTTGAAAACACGGAAATTTTTGAAACACAATA
Found at i:20292130 original size:19 final size:18
Alignment explanation
Indices: 20292074--20292201 Score: 117
Period size: 18 Copynumber: 7.3 Consensus size: 18
20292064 ACAAGAATTT
* *
20292074 TTTTTTAAAACACGATAA
1 TTTTTTGAAACACGAAAA
*
20292092 --TTTTGAAACAC-AATA
1 TTTTTTGAAACACGAAAA
*
20292107 TTTTTTGAAGACACGGAAA
1 TTTTTTGAA-ACACGAAAA
*
20292126 -TTTTTGAAACAC-AGGAA
1 TTTTTTGAAACACGA-AAA
20292143 TTTTTTGAAACACGAAAA
1 TTTTTTGAAACACGAAAA
*
20292161 ATTTTTGAAAACACGAAAA
1 TTTTTTG-AAACACGAAAA
*
20292180 --TTTTGAAACACGAGAA
1 TTTTTTGAAACACGAAAA
20292196 TTTTTT
1 TTTTTT
20292202 TTAAAAGGAC
Statistics
Matches: 90, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
15 2 0.02
16 20 0.22
17 18 0.20
18 36 0.40
19 14 0.16
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.34
Consensus pattern (18 bp):
TTTTTTGAAACACGAAAA
Found at i:20292155 original size:53 final size:53
Alignment explanation
Indices: 20292076--20292201 Score: 152
Period size: 53 Copynumber: 2.4 Consensus size: 53
20292066 AAGAATTTTT
* * * * * *
20292076 TTTTAAAACACGATAA--TTTTGAAACAC-AATATTTTTTGAAGACACGGAAAT
1 TTTTGAAACACGAGAATTTTTTGAAACACGAAAAATTTTTGAAAACAC-GAAAA
20292127 TTTTGAAACAC-AGGAATTTTTTGAAACACGAAAAATTTTTGAAAACACGAAAA
1 TTTTGAAACACGA-GAATTTTTTGAAACACGAAAAATTTTTGAAAACACGAAAA
20292180 TTTTGAAACACGAGAATTTTTT
1 TTTTGAAACACGAGAATTTTTT
20292202 TTAAAAGGAC
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
50 1 0.02
51 12 0.19
53 35 0.55
54 16 0.25
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (53 bp):
TTTTGAAACACGAGAATTTTTTGAAACACGAAAAATTTTTGAAAACACGAAAA
Found at i:20292184 original size:35 final size:36
Alignment explanation
Indices: 20292109--20292201 Score: 118
Period size: 35 Copynumber: 2.6 Consensus size: 36
20292099 ACACAATATT
* **
20292109 TTTTGAAGACACG-GAAATTTTTGAAACACAGGAATT
1 TTTTGAA-ACACGAGAAATTTTTGAAACACACGAAAA
*
20292145 TTTTGAAACACGAAAAATTTTTGAAA-ACACGAAAA
1 TTTTGAAACACGAGAAATTTTTGAAACACACGAAAA
*
20292180 TTTTGAAACACGAGAATTTTTT
1 TTTTGAAACACGAGAAATTTTT
20292202 TTAAAAGGAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
35 31 0.62
36 19 0.38
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (36 bp):
TTTTGAAACACGAGAAATTTTTGAAACACACGAAAA
Found at i:20292721 original size:21 final size:21
Alignment explanation
Indices: 20292696--20292762 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
20292686 GGCCACTTCT
*
20292696 TTTTTTTTC-TT-TTTATTCC
1 TTTTTTTTCTTTCTTTTTTCC
20292715 TTTTTTTTCTTTCTTTTTTCC
1 TTTTTTTTCTTTCTTTTTTCC
*
20292736 TTTTCTTCTTTTTTC-TTTTT-C
1 TTTT-TT-TTCTTTCTTTTTTCC
20292757 TTTTTT
1 TTTTTT
20292763 CTGCTAGGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.21
20 4 0.10
21 16 0.38
22 7 0.17
23 6 0.14
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTTTCTTTCTTTTTTCC
Found at i:20292727 original size:23 final size:21
Alignment explanation
Indices: 20292695--20292762 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
20292685 GGGCCACTTC
20292695 TTTTTTTTTCTTTTTATTCCTT
1 TTTTTTTTTCTTTTT-TTCCTT
20292717 TTTTTTCTTTC-TTTTTTCCTT
1 TTTTTT-TTTCTTTTTTTCCTT
*
20292738 TTCTTCTTTTT-TCTTTTT-CTT
1 TT-TT-TTTTTCTTTTTTTCCTT
20292759 TTTT
1 TTTT
20292763 CTGCTAGGCT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
20 2 0.05
21 13 0.32
22 20 0.49
23 6 0.15
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTTTTCTTTTTTTCCTT
Found at i:20292730 original size:13 final size:13
Alignment explanation
Indices: 20292695--20292764 Score: 53
Period size: 13 Copynumber: 5.6 Consensus size: 13
20292685 GGGCCACTTC
20292695 TTTTTT-TTTCTT
1 TTTTTTCTTTCTT
*
20292707 TTTATTC---CTT
1 TTTTTTCTTTCTT
20292717 TTTTTTCTTTC-T
1 TTTTTTCTTTCTT
*
20292729 TTTTTCCTTTTCTT
1 TTTTTTC-TTTCTT
20292743 CTTTTTTCTTT-TT
1 -TTTTTTCTTTCTT
20292756 CTTTTTTCT
1 -TTTTTTCT
20292765 GCTAGGCTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
10 9 0.19
12 12 0.26
13 16 0.34
14 4 0.09
15 6 0.13
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTCTTTCTT
Found at i:20292746 original size:16 final size:16
Alignment explanation
Indices: 20292719--20292762 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
20292709 TATTCCTTTT
20292719 TTTTCTTTCTTTTTTCC
1 TTTTC-TTCTTTTTTCC
*
20292736 TTTTCTTCTTTTTTCT
1 TTTTCTTCTTTTTTCC
20292752 TTTTCTT-TTTT
1 TTTTCTTCTTTT
20292763 CTGCTAGGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 4 0.15
16 17 0.65
17 5 0.19
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTCTTTTTTCC
Found at i:20293178 original size:13 final size:13
Alignment explanation
Indices: 20293170--20293238 Score: 59
Period size: 13 Copynumber: 5.2 Consensus size: 13
20293160 CTTTTTCTTC
20293170 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
*
20293183 TTTTCTTTTTTCG
1 TTTTCTTTTTTCT
* *
20293196 GTTGCTATTTTT-T
1 TTTTCT-TTTTTCT
20293209 TATTTCTTTTTCTCT
1 T-TTTCTTTTT-TCT
* *
20293224 TTTGCTTTTTGCT
1 TTTTCTTTTTTCT
20293237 TT
1 TT
20293239 GCTTGTTTGG
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
13 24 0.55
14 18 0.41
15 2 0.05
ACGTcount: A:0.03, C:0.14, G:0.07, T:0.75
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:20293182 original size:7 final size:7
Alignment explanation
Indices: 20293161--20293194 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
20293151 TTCCCCTCCC
20293161 TTTTTCT
1 TTTTTCT
20293168 TCTTTTCT
1 T-TTTTCT
20293176 TTTTTC-
1 TTTTTCT
20293182 TTTTTCT
1 TTTTTCT
20293189 TTTTTC
1 TTTTTC
20293195 GGTTGCTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.24
7 12 0.48
8 7 0.28
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Done.