Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 112 of 316
Found at i:35273527 original size:12 final size:12
Alignment explanation
Indices: 35273510--35273534 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35273500 GGGATTAGAC
35273510 GTTATTAGTCTT
1 GTTATTAGTCTT
35273522 GTTATTAGTCTT
1 GTTATTAGTCTT
35273534 G
1 G
35273535 AATAGGGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (12 bp):
GTTATTAGTCTT
Found at i:35293679 original size:40 final size:39
Alignment explanation
Indices: 35293585--35293729 Score: 173
Period size: 40 Copynumber: 3.6 Consensus size: 39
35293575 TACTCGAATG
*
35293585 ATATCCGGGCTAAGTCTCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTC-CGAAGGCATTTGTGCT-AGCGACT
* *
35293626 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGCGACT
* * *
35293666 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGCGACT
* *
35293706 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-TCCGAAGGC
35293730 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 27 0.30
42 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGCGACT
Found at i:35301445 original size:25 final size:25
Alignment explanation
Indices: 35301417--35301468 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
35301407 TACAACTACT
35301417 CAAATGTATATATAGTTATGAATAA
1 CAAATGTATATATAGTTATGAATAA
35301442 CAAATGTATATATAGTTATGAATAA
1 CAAATGTATATATAGTTATGAATAA
35301467 CA
1 CA
35301469 GACACTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.35
Consensus pattern (25 bp):
CAAATGTATATATAGTTATGAATAA
Found at i:35302657 original size:66 final size:66
Alignment explanation
Indices: 35302551--35302683 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
35302541 TTCATGTTTG
35302551 TATAGAAGTACACAAGATTTCTGGGTTAAATGTTATTTTATTCAATCTTGCTTCTACTGTTTAAT
1 TATAGAAGTACACAAGATTTCTGGGTTAAATGTTATTTTATTCAATCTTGCTTCTACTGTTTAAT
35302616 C
66 C
35302617 TATAGAAGTACACAAGATTTCTGGGTTAAATGTTATTTTATTCAATCTTGCTTCTACTGTTTAAT
1 TATAGAAGTACACAAGATTTCTGGGTTAAATGTTATTTTATTCAATCTTGCTTCTACTGTTTAAT
35302682 C
66 C
35302683 T
1 T
35302684 TTGGGTTTCA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (66 bp):
TATAGAAGTACACAAGATTTCTGGGTTAAATGTTATTTTATTCAATCTTGCTTCTACTGTTTAAT
C
Found at i:35308632 original size:14 final size:15
Alignment explanation
Indices: 35308583--35308632 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
35308573 GTATCTTGGG
*
35308583 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
35308598 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
35308613 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
35308627 TTTCTT
1 TTTCTT
35308633 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:35320334 original size:22 final size:22
Alignment explanation
Indices: 35320284--35320326 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
35320274 CTGCATCTGT
**
35320284 AATTGATATGTTCTGTATTTGC
1 AATTGATATGTTCTGTATCCGC
35320306 AATTGATATGTTCTGTATCCG
1 AATTGATATGTTCTGTATCCG
35320327 ATTTTGATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.47
Consensus pattern (22 bp):
AATTGATATGTTCTGTATCCGC
Found at i:35325087 original size:42 final size:42
Alignment explanation
Indices: 35325040--35325131 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
35325030 TGGTGGTGAA
*
35325040 GCTTCTGTTCAAGCCCAAAGCCAGGTC-CAACAAGGTCCC-CTT
1 GCTTCTGTTCAAGCCCAAAGCCA-GTCTCAACAAGG-CCCTATT
* **
35325082 GCTTCTGTTGAAGCCCAAATTCAGTCTCAACAAGGCCCTATT
1 GCTTCTGTTCAAGCCCAAAGCCAGTCTCAACAAGGCCCTATT
35325124 GCTTCTGT
1 GCTTCTGT
35325132 CTCATCCCGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
41 6 0.14
42 38 0.86
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (42 bp):
GCTTCTGTTCAAGCCCAAAGCCAGTCTCAACAAGGCCCTATT
Found at i:35339104 original size:11 final size:11
Alignment explanation
Indices: 35339090--35339124 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
35339080 ATTTTTTTGA
35339090 AAAAGAAAAAG
1 AAAAGAAAAAG
35339101 AAAAAGAAAAAG
1 -AAAAGAAAAAG
*
35339113 AAAATAAAAAG
1 AAAAGAAAAAG
35339124 A
1 A
35339125 TACTAATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:35339122 original size:6 final size:6
Alignment explanation
Indices: 35339088--35339116 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
35339078 AAATTTTTTT
35339088 GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
35339117 TAAAAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:35339781 original size:5 final size:5
Alignment explanation
Indices: 35339771--35339801 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
35339761 CAATTTTGAT
35339771 AAATA AAATA AAATA AAATA AAATA TAAATA
1 AAATA AAATA AAATA AAATA AAATA -AAATA
35339802 GTTTATTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:35340500 original size:19 final size:20
Alignment explanation
Indices: 35340462--35340513 Score: 97
Period size: 19 Copynumber: 2.6 Consensus size: 20
35340452 ATATAACATC
35340462 TTTACTTTTCTGGAAAATGA
1 TTTACTTTTCTGGAAAATGA
35340482 TTTACTTTTCTGG-AAATGA
1 TTTACTTTTCTGGAAAATGA
35340501 TTTACTTTTCTGG
1 TTTACTTTTCTGG
35340514 TGTTTGGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTACTTTTCTGGAAAATGA
Found at i:35340975 original size:46 final size:46
Alignment explanation
Indices: 35340902--35341020 Score: 184
Period size: 46 Copynumber: 2.6 Consensus size: 46
35340892 AATAATATTA
* * * *
35340902 TCCAAATGCATAATTAGTAGTACACCACATGATAACAAAAACATTG
1 TCCAAGTGCATAACTAATATTACACCACATGATAACAAAAACATTG
* *
35340948 TCCATGTGCATAACTAATATTACACCACATGATAACAACAACATTG
1 TCCAAGTGCATAACTAATATTACACCACATGATAACAAAAACATTG
35340994 TCCAAGTGCATAACTAATATTACACCA
1 TCCAAGTGCATAACTAATATTACACCA
35341021 TATTAAAACT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.25
Consensus pattern (46 bp):
TCCAAGTGCATAACTAATATTACACCACATGATAACAAAAACATTG
Found at i:35342023 original size:32 final size:32
Alignment explanation
Indices: 35341974--35342034 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
35341964 TGTCAATCAT
35341974 TTCAATATCCAACAAGCTTA-AAACATAATAAA
1 TTCAATATCCAACAAGC-TAGAAACATAATAAA
* *
35342006 TTCAATATCTAATAAGCTAGAAACATAAT
1 TTCAATATCCAACAAGCTAGAAACATAAT
35342035 CAATATCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 2 0.08
32 24 0.92
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTAGAAACATAATAAA
Found at i:35345791 original size:28 final size:28
Alignment explanation
Indices: 35345759--35345828 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
35345749 AATGAGATTG
35345759 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
35345787 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
35345815 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35345829 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:35349997 original size:49 final size:51
Alignment explanation
Indices: 35349919--35350062 Score: 168
Period size: 51 Copynumber: 2.9 Consensus size: 51
35349909 TATTGTGAGG
* * * * *
35349919 TCACGTGTGTAGTACTAAGTGC-GCACTACTACGTGTACCAGATAA-T-TGG
1 TCACATGTGTAGTACTAAGTGCAG-GCTACTATGCGTACCAGATAACTGTGA
* * * *
35349968 TCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAACTGTGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGA
*
35350019 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
35350063 GCTTCGGCTA
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 35 0.45
50 2 0.03
51 41 0.53
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (51 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGA
Found at i:35353073 original size:15 final size:15
Alignment explanation
Indices: 35353053--35353106 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
35353043 TATCGTATCT
35353053 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
35353068 TGGGTTT-TTCTA-TC
1 TGGGTTTCTT-TATTC
*
35353082 TTGGATTTCTTTATTC
1 -TGGGTTTCTTTATTC
*
35353098 -GGTTTTCTT
1 TGGGTTTCTT
35353107 GTTATCTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 12 0.36
15 17 0.52
16 4 0.12
ACGTcount: A:0.07, C:0.13, G:0.19, T:0.61
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:35355630 original size:49 final size:49
Alignment explanation
Indices: 35355573--35355760 Score: 241
Period size: 49 Copynumber: 3.8 Consensus size: 49
35355563 TGAGGTCACG
***
35355573 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
35355622 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
*
35355673 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
35355722 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
35355761 GCTTCGGCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 75 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:35355741 original size:100 final size:100
Alignment explanation
Indices: 35355568--35355755 Score: 340
Period size: 100 Copynumber: 1.9 Consensus size: 100
35355558 TATTGTGAGG
***
35355568 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
35355633 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
*
35355668 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
35355733 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
35355756 AGATAGCTTC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:35359694 original size:17 final size:19
Alignment explanation
Indices: 35359652--35359695 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
35359642 ACGAAATTTT
*
35359652 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
35359671 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
35359689 AA-TATTA
1 AATTATTA
35359696 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:35362095 original size:20 final size:20
Alignment explanation
Indices: 35362052--35362099 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
35362042 GCTGTTTTGT
35362052 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
35362072 -ATGGGTCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
35362091 TAT-GGCCAA
1 TATGGGCCAA
35362100 GGCTCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:35364345 original size:14 final size:13
Alignment explanation
Indices: 35364302--35364352 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
35364292 CATAAAGACT
35364302 AATTAATTTAATTC
1 AATT-ATTTAATTC
*
35364316 CATT-TTTAACTTC
1 AATTATTTAA-TTC
35364329 AATTATTTAATTGC
1 AATTATTTAATT-C
*
35364343 AATTAATTAA
1 AATTATTTAA
35364353 ATAATAATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 5 0.16
13 8 0.26
14 18 0.58
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (13 bp):
AATTATTTAATTC
Found at i:35366869 original size:48 final size:46
Alignment explanation
Indices: 35366788--35366904 Score: 112
Period size: 48 Copynumber: 2.5 Consensus size: 46
35366778 CGATAAGTAC
* * * * * *
35366788 CTATACCATGGCCTGAAGCCATATCAAGGTAACT-TATCTTCGAAGTA
1 CTATATCATGGCCTGAAGCCAAATC-AGGTAACTCAAAC-CCGAAATA
35366835 CTGATATCATGGCCTGAAGCCAAATC-GGTATAACTCAAACCCGAAATA
1 CT-ATATCATGGCCTGAAGCCAAATCAGG--TAACTCAAACCCGAAATA
*
35366883 CTATATAATGGCCTGAAGCCAA
1 CTATATCATGGCCTGAAGCCAA
35366905 CTTAATGTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
46 2 0.03
47 21 0.36
48 34 0.58
49 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (46 bp):
CTATATCATGGCCTGAAGCCAAATCAGGTAACTCAAACCCGAAATA
Found at i:35369512 original size:44 final size:44
Alignment explanation
Indices: 35369449--35369539 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
35369439 CGAGTCACAC
35369449 GCCCGTGTGCTCAACCGTGTGGACGAGAAATAGGCTTGTTTTAT
1 GCCCGTGTGCTCAACCGTGTGGACGAGAAATAGGCTTGTTTTAT
*
35369493 GCCCGTGTGCTCAACCGTGTGGACTAGAAATAGGCTTGTTTTAT
1 GCCCGTGTGCTCAACCGTGTGGACGAGAAATAGGCTTGTTTTAT
35369537 GCC
1 GCC
35369540 ACTTTTCCCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.30
Consensus pattern (44 bp):
GCCCGTGTGCTCAACCGTGTGGACGAGAAATAGGCTTGTTTTAT
Found at i:35370753 original size:20 final size:20
Alignment explanation
Indices: 35370726--35370834 Score: 80
Period size: 20 Copynumber: 5.5 Consensus size: 20
35370716 TGTATAAACT
* *
35370726 GTAATTCATTCATATAACTA
1 GTAATTCATCCATATAACCA
* *
35370746 GTAGTTCATCCGTATAACCA
1 GTAATTCATCCATATAACCA
* *
35370766 GTAATTCATCCGTAATAA-TA
1 GTAATTCATCCAT-ATAACCA
* * *
35370786 GTAATTTATCTATATCAA-AA
1 GTAATTCATCCATAT-AACCA
35370806 GTAATTCATCCATATCAA-CA
1 GTAATTCATCCATAT-AACCA
*
35370826 ATAATTCAT
1 GTAATTCAT
35370835 TCATTTCTAC
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
19 2 0.03
20 67 0.92
21 4 0.05
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
GTAATTCATCCATATAACCA
Found at i:35371049 original size:25 final size:23
Alignment explanation
Indices: 35371021--35371175 Score: 78
Period size: 23 Copynumber: 6.9 Consensus size: 23
35371011 AAGCTCTTGC
35371021 TGAGCTGATAAATAGTAAGCTCTAT
1 TGAGCTG--AAATAGTAAGCTCTAT
*
35371046 TGAGCTGAAATGGTAAGCTCTA-
1 TGAGCTGAAATAGTAAGCTCTAT
* *
35371068 TCAGGCTG-AACAGTAAGCTCTA-
1 TGA-GCTGAAATAGTAAGCTCTAT
35371090 T---CTGAACA-A-TAAGCTCTAT
1 TGAGCTGAA-ATAGTAAGCTCTAT
* * *
35371109 CGAGTTG-AACAGTAAGCTC-AT
1 TGAGCTGAAATAGTAAGCTCTAT
* * * * *
35371130 ACGAGCTGAATTGGTAAGCTCCAA
1 -TGAGCTGAAATAGTAAGCTCTAT
*
35371154 TGAGATGAAAATAGTAAGCTCT
1 TGAGCTG-AAATAGTAAGCTCT
35371176 TACGAGCTGA
Statistics
Matches: 101, Mismatches: 16, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
18 12 0.12
19 2 0.02
20 2 0.02
21 4 0.04
22 30 0.30
23 32 0.32
24 12 0.12
25 7 0.07
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (23 bp):
TGAGCTGAAATAGTAAGCTCTAT
Found at i:35371061 original size:23 final size:25
Alignment explanation
Indices: 35371008--35371094 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 25
35370998 AGCCATGATC
35371008 GGTAAGCTCT-TGCTGAGCTGATAAAT
1 GGTAAGCTCTAT-CTGAGCTGA-AAAT
*
35371034 AGTAAGCTCTAT-TGAGCTG-AAAT
1 GGTAAGCTCTATCTGAGCTGAAAAT
* *
35371057 GGTAAGCTCTATCAG-GCTGAACA-
1 GGTAAGCTCTATCTGAGCTGAAAAT
35371080 -GTAAGCTCTATCTGA
1 GGTAAGCTCTATCTGA
35371095 ACAATAAGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
22 13 0.25
23 19 0.37
24 3 0.06
25 7 0.13
26 9 0.17
27 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (25 bp):
GGTAAGCTCTATCTGAGCTGAAAAT
Found at i:35371086 original size:22 final size:21
Alignment explanation
Indices: 35371034--35371127 Score: 88
Period size: 22 Copynumber: 4.4 Consensus size: 21
35371024 GCTGATAAAT
*
35371034 AGTAAGCTCTATTGAGCTGAA-
1 AGTAAGCTCTATCG-GCTGAAC
35371055 ATGGTAAGCTCTATCAGGCTGAAC
1 A--GTAAGCTCTATC-GGCTGAAC
35371079 AGTAAGCTCTAT---CTGAAC
1 AGTAAGCTCTATCGGCTGAAC
* *
35371097 AATAAGCTCTATCGAGTTGAAC
1 AGTAAGCTCTATCG-GCTGAAC
35371119 AGTAAGCTC
1 AGTAAGCTC
35371128 ATACGAGCTG
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
18 17 0.28
21 1 0.02
22 24 0.39
23 17 0.28
24 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (21 bp):
AGTAAGCTCTATCGGCTGAAC
Found at i:35371096 original size:18 final size:18
Alignment explanation
Indices: 35371073--35371109 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
35371063 CTCTATCAGG
*
35371073 CTGAACAGTAAGCTCTAT
1 CTGAACAATAAGCTCTAT
35371091 CTGAACAATAAGCTCTAT
1 CTGAACAATAAGCTCTAT
35371109 C
1 C
35371110 GAGTTGAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (18 bp):
CTGAACAATAAGCTCTAT
Found at i:35371134 original size:22 final size:22
Alignment explanation
Indices: 35371036--35371139 Score: 78
Period size: 22 Copynumber: 4.9 Consensus size: 22
35371026 TGATAAATAG
* *
35371036 TAAGCTCTATTGAGCTGAA-ATGG
1 TAAGCTCTATCGAGCTGAACA--A
*
35371059 TAAGCTCTATC-AGGCTGAACAG
1 TAAGCTCTATCGA-GCTGAACAA
35371081 TAAGCTCTAT----CTGAACAA
1 TAAGCTCTATCGAGCTGAACAA
* *
35371099 TAAGCTCTATCGAGTTGAACAG
1 TAAGCTCTATCGAGCTGAACAA
35371121 TAAGCTC-ATACGAGCTGAA
1 TAAGCTCTAT-CGAGCTGAA
35371140 TTGGTAAGCT
Statistics
Matches: 69, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
18 17 0.25
21 2 0.03
22 33 0.48
23 16 0.23
24 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (22 bp):
TAAGCTCTATCGAGCTGAACAA
Found at i:35371150 original size:23 final size:23
Alignment explanation
Indices: 35371120--35371203 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 23
35371110 GAGTTGAACA
35371120 GTAAGCTCATACGAGCTGAATTG
1 GTAAGCTCATACGAGCTGAATTG
* * * *
35371143 GTAAGCTCCA-ATGAGATGAAAATA
1 GTAAGCT-CATACGAGCTG-AATTG
*
35371167 GTAAGCTCTTACGAGCTGATATATCG
1 GTAAGCTCATACGAGCTGA-AT-T-G
35371193 GTAAGCTCATA
1 GTAAGCTCATA
35371204 TAAGCAATGG
Statistics
Matches: 45, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
23 15 0.33
24 19 0.42
25 1 0.02
26 10 0.22
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (23 bp):
GTAAGCTCATACGAGCTGAATTG
Found at i:35374542 original size:42 final size:42
Alignment explanation
Indices: 35374483--35374646 Score: 166
Period size: 42 Copynumber: 3.8 Consensus size: 42
35374473 AGGGTATGTG
*
35374483 TGATTTCGTGTAAGACCATATCTGGGATATGGCATTGATATT
1 TGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATT
* * * * **
35374525 TGATTTCGTGTAAGACCATGTCTGGGACATGACATCAATACG
1 TGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATT
* * * *
35374567 AGATATCGTGTAAGACCATAGCTGGGCTATTGGCATCGATATAT
1 TGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATAT-T
** * *
35374611 GTGATCCCATCTAAGACCATATCTGGGATATGGCAT
1 -TGATTTCGTGTAAGACCATATCTGGGATATGGCAT
35374647 TGGCATCTTA
Statistics
Matches: 95, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
42 58 0.61
43 9 0.09
44 6 0.06
45 22 0.23
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATT
Found at i:35378699 original size:19 final size:19
Alignment explanation
Indices: 35378662--35378699 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35378652 CTAATTAAGT
*
35378662 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
35378681 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
35378700 GAAAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:35378896 original size:29 final size:29
Alignment explanation
Indices: 35378857--35378913 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
35378847 ATATATTATT
*
35378857 ATTATTTTATTATATTAT-AAATTAAATTG
1 ATTATATTATTATATTATGAAA-TAAATTG
35378886 ATTATATTATTATATTATGAAATAAATT
1 ATTATATTATTATATTATGAAATAAATT
35378914 AAGAAAAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (29 bp):
ATTATATTATTATATTATGAAATAAATTG
Found at i:35379014 original size:33 final size:32
Alignment explanation
Indices: 35378972--35379043 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 32
35378962 AAATGAGTAC
35378972 ATTTGTATTATTTA-TATATAATTAGTAAAAAGAT
1 ATTT-TATTATTTATTAT-TAATTAGT-AAAAGAT
35379006 ATTTTATTATTTATTATTAATTAGTAAAAGAT
1 ATTTTATTATTTATTATTAATTAGTAAAAGAT
35379038 -TTTTAT
1 ATTTTAT
35379044 ATGATAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.16
32 7 0.19
33 17 0.46
34 7 0.19
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (32 bp):
ATTTTATTATTTATTATTAATTAGTAAAAGAT
Found at i:35379131 original size:23 final size:22
Alignment explanation
Indices: 35379096--35379140 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
35379086 AAAATACAAA
35379096 TGTAAAATATATATGTGTATATT
1 TGTAAAATATATATGTGT-TATT
* * *
35379119 TGTAATATTTATATTTGTTATT
1 TGTAAAATATATATGTGTTATT
35379141 AAATAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (22 bp):
TGTAAAATATATATGTGTTATT
Found at i:35379367 original size:18 final size:18
Alignment explanation
Indices: 35379346--35379380 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35379336 AAACTAAAGT
* *
35379346 AAAAATAAAAGATAAAAC
1 AAAAAAAAAACATAAAAC
35379364 AAAAAAAAAACATAAAA
1 AAAAAAAAAACATAAAA
35379381 AGAAACAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.83, C:0.06, G:0.03, T:0.09
Consensus pattern (18 bp):
AAAAAAAAAACATAAAAC
Found at i:35380047 original size:15 final size:15
Alignment explanation
Indices: 35380027--35380057 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35380017 ATTGTTGTTT
35380027 TTATTATTATATGTG
1 TTATTATTATATGTG
35380042 TTATTATTATATGTG
1 TTATTATTATATGTG
35380057 T
1 T
35380058 ATGGAAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (15 bp):
TTATTATTATATGTG
Found at i:35382704 original size:32 final size:32
Alignment explanation
Indices: 35382667--35382731 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
35382657 AATGCTTACC
35382667 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
35382699 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
35382731 A
1 A
35382732 AATGCATGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:35383087 original size:28 final size:29
Alignment explanation
Indices: 35383056--35383118 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
35383046 TATTAAATTG
* *
35383056 AATGTATA-TGAATATG-TAATTATTGTGA
1 AATGGATATTGAA-ATGATAATTACTGTGA
35383084 AATGGATATTGAAATGATTAATTACTGTG-
1 AATGGATATTGAAATGA-TAATTACTGTGA
35383113 AATGGA
1 AATGGA
35383119 GAAATGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 10 0.33
29 10 0.33
30 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.38
Consensus pattern (29 bp):
AATGGATATTGAAATGATAATTACTGTGA
Found at i:35386165 original size:31 final size:31
Alignment explanation
Indices: 35386112--35386171 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
35386102 GATAAGCACA
* *
35386112 AAATTAAGAATAAGCGTTAAGTTCAGGTATT
1 AAATTAAGAAAAAGCGTCAAGTTCAGGTATT
* * *
35386143 AAATTAGGAAAAAGTGTCAAGTTTAGGTA
1 AAATTAAGAAAAAGCGTCAAGTTCAGGTA
35386172 CCAAATGTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.30
Consensus pattern (31 bp):
AAATTAAGAAAAAGCGTCAAGTTCAGGTATT
Found at i:35389008 original size:20 final size:20
Alignment explanation
Indices: 35388983--35389023 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35388973 CCTAATTTCT
*
35388983 TTTAAATCTATATATATATA
1 TTTAAAACTATATATATATA
* *
35389003 TTTAAAACTTTATGTATATA
1 TTTAAAACTATATATATATA
35389023 T
1 T
35389024 AATATATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTAAAACTATATATATATA
Found at i:35393213 original size:19 final size:19
Alignment explanation
Indices: 35393189--35393229 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
35393179 GATGTCTCCT
*
35393189 TTACATT-CATGCATTTGCA
1 TTACATTACAT-CATCTGCA
35393208 TTACATTACATCATCTGCA
1 TTACATTACATCATCTGCA
35393227 TTA
1 TTA
35393230 AAGGCCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.41
Consensus pattern (19 bp):
TTACATTACATCATCTGCA
Found at i:35396617 original size:18 final size:19
Alignment explanation
Indices: 35396573--35396611 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
35396563 ATTTTATTTG
35396573 AAGTAAATTTTAAAAACATA
1 AAGTAAATTTT-AAAACATA
35396593 AAGTAAATTTT-AAACATA
1 AAGTAAATTTTAAAACATA
35396611 A
1 A
35396612 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
AAGTAAATTTTAAAACATA
Found at i:35396872 original size:27 final size:28
Alignment explanation
Indices: 35396842--35396928 Score: 72
Period size: 27 Copynumber: 3.1 Consensus size: 28
35396832 TTAATAATAT
*
35396842 AAATTAA-AT-AAACAAAATAAAATAAGA
1 AAATTAATATAAAACAAAA-AAAATAAAA
**
35396869 AAA-TAATATAAAACTTAAAAAATAAAA
1 AAATTAATATAAAACAAAAAAAATAAAA
* * *
35396896 AAATTAAGAAAAAGACAAAATTAAATAAAA
1 AAATTAATATAAA-ACAAAA-AAAATAAAA
35396926 AAA
1 AAA
35396929 GTAAAAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.06
27 16 0.34
28 13 0.28
29 4 0.09
30 11 0.23
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (28 bp):
AAATTAATATAAAACAAAAAAAATAAAA
Found at i:35396874 original size:36 final size:35
Alignment explanation
Indices: 35396834--35396934 Score: 102
Period size: 36 Copynumber: 2.8 Consensus size: 35
35396824 TTTTAAAATT
35396834 AATAATATAAATTAAATAAACAAAATAAAATAAGAA
1 AATAATATAAATTAAATAAA-AAAATAAAATAAGAA
*
35396870 AATAATATAAAACTTAAA-AAATAAAA-AAATTAAGAA
1 AATAATAT-AAA-TTAAATAAA-AAAATAAAATAAGAA
*
35396906 AA-AGACA-AAATTAAATAAAAAAAGTAAAA
1 AATA-ATATAAATTAAATAAAAAAA-TAAAA
35396935 AAATTAATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
33 9 0.16
34 6 0.11
35 4 0.07
36 21 0.38
37 10 0.18
38 5 0.09
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (35 bp):
AATAATATAAATTAAATAAAAAAATAAAATAAGAA
Found at i:35396879 original size:18 final size:18
Alignment explanation
Indices: 35396834--35396920 Score: 67
Period size: 18 Copynumber: 4.9 Consensus size: 18
35396824 TTTTAAAATT
35396834 AATAATAT-AAATTAAATA
1 AATAATATAAAATTAAA-A
* *
35396852 AACAAAATAAAA-TAAGAA
1 AATAATATAAAATTAA-AA
35396870 AATAATATAAAACTTAAAA
1 AATAATATAAAA-TTAAAA
*
35396889 AATAA-A-AAAATTAAGA
1 AATAATATAAAATTAAAA
* *
35396905 AA-AAGACAAAATTAAA
1 AATAATATAAAATTAAA
35396921 TAAAAAAAGT
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
15 2 0.04
16 8 0.14
17 12 0.21
18 21 0.37
19 11 0.19
20 3 0.05
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
AATAATATAAAATTAAAA
Found at i:35396892 original size:16 final size:16
Alignment explanation
Indices: 35396842--35396936 Score: 54
Period size: 17 Copynumber: 5.7 Consensus size: 16
35396832 TTAATAATAT
*
35396842 AAATTAAATAAACAAAA
1 AAATTAAA-AAATAAAA
*
35396859 TAAAATAAGAAAATAATATA
1 -AAATTAA-AAAATAA-A-A
35396879 AAACTTAAAAAATAAAA
1 AAA-TTAAAAAATAAAA
*
35396896 AAATTAAGAAAA-AGACA
1 AAATTAA-AAAATA-AAA
35396913 AAATT---AAATAAAA
1 AAATTAAAAAATAAAA
*
35396926 AAAGTAAAAAA
1 AAATTAAAAAA
35396937 ATTAATAAGG
Statistics
Matches: 61, Mismatches: 6, Indels: 22
0.69 0.07 0.25
Matches are distributed among these distances:
13 9 0.15
14 1 0.02
16 8 0.13
17 15 0.25
18 12 0.20
19 12 0.20
20 4 0.07
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (16 bp):
AAATTAAAAAATAAAA
Found at i:35397052 original size:20 final size:20
Alignment explanation
Indices: 35397024--35397070 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
35397014 CCAACTTTTC
35397024 AAAAA-TTAAAAA-AAAGTTA
1 AAAAATTTAAAAAGAAA-TTA
35397043 AAAAATTTAAAAAGAAATTA
1 AAAAATTTAAAAAGAAATTA
35397063 AAGAAATT
1 AA-AAATT
35397071 GTATTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.20
20 12 0.48
21 8 0.32
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.23
Consensus pattern (20 bp):
AAAAATTTAAAAAGAAATTA
Found at i:35397141 original size:14 final size:14
Alignment explanation
Indices: 35397122--35397148 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35397112 AAAACTATGG
35397122 TTAATATTTAAAAA
1 TTAATATTTAAAAA
35397136 TTAATATTTAAAA
1 TTAATATTTAAAA
35397149 TTTTCAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:35397163 original size:37 final size:37
Alignment explanation
Indices: 35397127--35397266 Score: 114
Period size: 37 Copynumber: 3.9 Consensus size: 37
35397117 TATGGTTAAT
* *
35397127 ATTT-AAAAAT-TAATATTTAAAAT-TTTCAAAAATTA
1 ATTTGAAAAATAT-ATATTTAAAATATATAAAAAATTA
*
35397162 ATTTGAAAAATATATTTTTAAAATATATAAAAAATTA
1 ATTTGAAAAATATATATTTAAAATATATAAAAAATTA
* * * *
35397199 ATTTCACAAATATATATCTAAAGT-TA-AAAAAA-TA
1 ATTTGAAAAATATATATTTAAAATATATAAAAAATTA
* * * * *
35397233 TTTTTAAAAATA-ATAATTAAAATTTTTAAAAAAT
1 ATTTGAAAAATATATATTTAAAATATATAAAAAAT
35397267 ATTATAAAAC
Statistics
Matches: 84, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
33 8 0.10
34 12 0.14
35 16 0.19
36 18 0.21
37 30 0.36
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (37 bp):
ATTTGAAAAATATATATTTAAAATATATAAAAAATTA
Found at i:35397263 original size:21 final size:21
Alignment explanation
Indices: 35397232--35397320 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 21
35397222 TTAAAAAAAT
35397232 ATTTTTAAAAATAATAATTAAA
1 ATTTTT-AAAATAATAATTAAA
*
35397254 ATTTTTAAAA-AATATTATAAA
1 ATTTTTAAAATAATAAT-TAAA
*
35397275 ACATTTT-AAAT-ATACATTACAA
1 A-TTTTTAAAATAATA-ATTA-AA
*
35397297 ATTTTTAAAAGTTAATAATAAAA
1 ATTTTTAAAA--TAATAATTAAA
35397320 A
1 A
35397321 ATAAAACTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 17
0.71 0.07 0.23
Matches are distributed among these distances:
20 5 0.09
21 21 0.40
22 17 0.32
23 3 0.06
24 4 0.08
25 3 0.06
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (21 bp):
ATTTTTAAAATAATAATTAAA
Found at i:35397280 original size:23 final size:22
Alignment explanation
Indices: 35397227--35397320 Score: 70
Period size: 22 Copynumber: 4.2 Consensus size: 22
35397217 TAAAGTTAAA
35397227 AAAATATTTTTAAAAATAATAAT
1 AAAA-ATTTTTAAAAATAATAAT
* *
35397250 TAAAATTTTTAAAAA-ATATTAT
1 AAAAATTTTTAAAAATA-ATAAT
*
35397272 AAAACA-TTTTAAATATACAT--T
1 AAAA-ATTTTTAAAAATA-ATAAT
* *
35397293 ACAAATTTTTAAAAGTTAATAAT
1 AAAAATTTTTAAAA-ATAATAAT
35397316 AAAAA
1 AAAAA
35397321 ATAAAACTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
20 1 0.02
21 14 0.25
22 28 0.51
23 12 0.22
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (22 bp):
AAAAATTTTTAAAAATAATAAT
Found at i:35397373 original size:18 final size:17
Alignment explanation
Indices: 35397316--35397381 Score: 62
Period size: 17 Copynumber: 3.7 Consensus size: 17
35397306 AGTTAATAAT
*
35397316 AAAAAATAAAACTAAATAA
1 AAAAAATAAAA--AAGTAA
* *
35397335 ACAAAATGAAATAAG-AA
1 AAAAAAT-AAAAAAGTAA
35397352 AAAAAATCAAAAAAGTAA
1 AAAAAAT-AAAAAAGTAA
35397370 AAAAAATAAAAA
1 AAAAAATAAAAA
35397382 GACAATTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 19 0.49
18 11 0.28
19 6 0.15
20 3 0.08
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAAATAAAAAAGTAA
Found at i:35397446 original size:25 final size:25
Alignment explanation
Indices: 35397418--35397474 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
35397408 AAAGTAAAAT
35397418 AAAAGAAATATGAAAATAAAAGAAA
1 AAAAGAAATATGAAAATAAAAGAAA
35397443 AAAAGAAATATGAAAATAAAAGAAA
1 AAAAGAAATATGAAAATAAAAGAAA
*
35397468 AAGAGAA
1 AAAAGAA
35397475 TGTGTAGGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (25 bp):
AAAAGAAATATGAAAATAAAAGAAA
Found at i:35401278 original size:56 final size:55
Alignment explanation
Indices: 35401198--35401304 Score: 187
Period size: 56 Copynumber: 1.9 Consensus size: 55
35401188 AAATTATAGA
**
35401198 TTACAAATTAATTATTCATGAGCACTATTCAAATTAAAAGTGATGATTTATAATC
1 TTACAAATTAATTATTCACAAGCACTATTCAAATTAAAAGTGATGATTTATAATC
35401253 TTACAAATTTAATTATTCACAAGCACTATTCAAATTAAAAGTGATGATTTAT
1 TTACAAA-TTAATTATTCACAAGCACTATTCAAATTAAAAGTGATGATTTAT
35401305 CTTCCAATGG
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
55 7 0.14
56 42 0.86
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.38
Consensus pattern (55 bp):
TTACAAATTAATTATTCACAAGCACTATTCAAATTAAAAGTGATGATTTATAATC
Found at i:35403904 original size:46 final size:46
Alignment explanation
Indices: 35403714--35403890 Score: 130
Period size: 46 Copynumber: 3.8 Consensus size: 46
35403704 GTTATTGTGG
* * **
35403714 GCTAGTGTAAGACATGTCTGGGACATGCATC--AACCACA-TTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCA-AGACAT-A-A
* * * *
35403760 GCCAGTGTAAGACCATGTCTTGGACATGACATCGACATCGAGACGAGT--
1 GCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCATCAAGAC-A-TAA
* * *
35403808 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCAAGACGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACATAA
* *
35403854 GCTAGTGTGAGACATGTTTGGGACATGGCATCGGCAT
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCAT
35403891 GAGATATGAG
Statistics
Matches: 103, Mismatches: 18, Indels: 19
0.74 0.13 0.14
Matches are distributed among these distances:
44 1 0.01
46 46 0.45
47 36 0.35
48 15 0.15
49 1 0.01
50 2 0.02
51 1 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACATAA
Found at i:35411476 original size:46 final size:47
Alignment explanation
Indices: 35411378--35411552 Score: 200
Period size: 47 Copynumber: 3.7 Consensus size: 47
35411368 TTATGAGAGA
*
35411378 TAGTGTAAGACCATGTCTT-GGACATGGCATCGGCATCGAGACGAGT-GC
1 TAGTGTAAGACCATGT-TTGGGACATGGCATCGGCAT-GAGATGA-TAGC
*
35411426 TAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTATGAGATGATAGT
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGC-ATGAGATGATAGC
* *
35411472 TAGTGTAAGACCATGTCTGGGACATGGCATCGACATGAGAT-ATGAGC
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCATGAGATGAT-AGC
* * *
35411519 TAGTGTAAGACCGTGTCTGGGA-ATGGCATTGGCA
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
35411553 CCTTACCCAC
Statistics
Matches: 113, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
45 1 0.01
46 39 0.35
47 56 0.50
48 17 0.15
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (47 bp):
TAGTGTAAGACCATGTTTGGGACATGGCATCGGCATGAGATGATAGC
Found at i:35416563 original size:28 final size:28
Alignment explanation
Indices: 35416523--35416604 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
35416513 GCAATCAAAT
* * *
35416523 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
35416551 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
35416579 ATGACACTTAGTGTGCAAAATATTGA
1 ATGGCACTTAGTGTGCGAAATATTGA
35416605 ATGATTCAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:35421661 original size:13 final size:13
Alignment explanation
Indices: 35421645--35421670 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35421635 AATAATTTTC
35421645 CTTCCTAAATCAT
1 CTTCCTAAATCAT
35421658 CTTCCTAAATCAT
1 CTTCCTAAATCAT
35421671 ATTATATCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
CTTCCTAAATCAT
Found at i:35421662 original size:17 final size:17
Alignment explanation
Indices: 35421629--35421663 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
35421619 GCACATATGG
*
35421629 TTCCTAAATAATTTTCC
1 TTCCTAAATAATCTTCC
*
35421646 TTCCTAAATCATCTTCC
1 TTCCTAAATAATCTTCC
35421663 T
1 T
35421664 AAATCATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.46
Consensus pattern (17 bp):
TTCCTAAATAATCTTCC
Found at i:35424834 original size:14 final size:14
Alignment explanation
Indices: 35424815--35424841 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35424805 CAAACAATCT
35424815 CATGTTTCATGAAG
1 CATGTTTCATGAAG
35424829 CATGTTTCATGAA
1 CATGTTTCATGAA
35424842 AGAACAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (14 bp):
CATGTTTCATGAAG
Found at i:35425067 original size:31 final size:31
Alignment explanation
Indices: 35425032--35425095 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
35425022 CCAACTTGAG
35425032 GGGAGTATATAAATTATTGATTGTAAATATA
1 GGGAGTATATAAATTATTGATTGTAAATATA
35425063 GGGAGTATATAAATTATTGATTGTAAATATA
1 GGGAGTATATAAATTATTGATTGTAAATATA
35425094 GG
1 GG
35425096 TAGTCAGCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (31 bp):
GGGAGTATATAAATTATTGATTGTAAATATA
Found at i:35426694 original size:40 final size:40
Alignment explanation
Indices: 35426646--35426728 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 40
35426636 GCTAAAAAAA
*
35426646 ATGGCACTTACTGTACGGTTCGAAATAGCTTCGGCTAAAT
1 ATGGCACTTACTGTACGATTCGAAATAGCTTCGGCTAAAT
** * * * *
35426686 ATGGCACTTGGTGTGCGATTGGAGATAGCTTCGGCTAGAT
1 ATGGCACTTACTGTACGATTCGAAATAGCTTCGGCTAAAT
35426726 ATG
1 ATG
35426729 TATATGGCAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (40 bp):
ATGGCACTTACTGTACGATTCGAAATAGCTTCGGCTAAAT
Found at i:35426801 original size:28 final size:27
Alignment explanation
Indices: 35426722--35426810 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 27
35426712 AGCTTCGGCT
35426722 AGATATGT-ATATGGCACTTAGTGTGCA
1 AGATAT-TAATATGGCACTTAGTGTGCA
* * * * *
35426749 AAATATTAATAATGACAATTGGTGTGCG
1 AGATATTAAT-ATGGCACTTAGTGTGCA
* *
35426777 AGATATTGAGTATGGCACTTAGTGTACA
1 AGATATT-AATATGGCACTTAGTGTGCA
35426805 AGATAT
1 AGATAT
35426811 CGAAGATGCA
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
26 1 0.02
27 7 0.15
28 37 0.79
29 2 0.04
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.33
Consensus pattern (27 bp):
AGATATTAATATGGCACTTAGTGTGCA
Found at i:35429645 original size:16 final size:16
Alignment explanation
Indices: 35429608--35429643 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
35429598 AAAGACTTCA
35429608 ATTTTAAATTTGTGTT
1 ATTTTAAATTTGTGTT
*
35429624 AATTTAAATTT-TGTT
1 ATTTTAAATTTGTGTT
35429639 ATTTT
1 ATTTT
35429644 TATTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (16 bp):
ATTTTAAATTTGTGTT
Found at i:35446977 original size:51 final size:50
Alignment explanation
Indices: 35446794--35446982 Score: 173
Period size: 50 Copynumber: 3.7 Consensus size: 50
35446784 ATTGTGAGAA
* * * *** * * *
35446794 CACATGTGTAGTACTATGTGCAGGTTACTATATGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGAT
* * *
35446846 CACGTGCGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGAT
* * * *
35446896 CGCATGTGTAGTACTAACTGTAGGCTACTATGTGTACTC-GATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC-CAGATAG-TTAGAT
* *
35446947 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
35446983 AAAGATAGCT
Statistics
Matches: 113, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
50 43 0.38
51 36 0.32
52 34 0.30
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGAT
Found at i:35446990 original size:51 final size:51
Alignment explanation
Indices: 35446856--35447075 Score: 183
Period size: 51 Copynumber: 4.3 Consensus size: 51
35446846 CACGTGCGTA
* ** * * * * *
35446856 GTACTAAGTGCAGGCTACTATGTGTACCAGATAG-TTAGGTCGCATGTGTA
1 GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGATCACAAGTGTG
* * * *** * *
35446906 GTACTAACTGTAGGCTACTATGTGTACTCGATAGCTTCGATCACATGTGTG
1 GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGATCACAAGTGTG
*
35446957 GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGTCACAAGTGTG
1 GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGATCACAAGTGTG
* * * * * * * *
35447008 ATACCATGTGAAGGCCACTTTGTG-AAGAAGGTAGCTTTGATTACAAGGGTG
1 GTACTAAGTGCAGGCCACTATGTGTAA-AAGATAGCTTTGATCACAAGTGTG
*
35447059 GTACTATGTGCAGGCCA
1 GTACTAAGTGCAGGCCA
35447076 TCAGGCATCC
Statistics
Matches: 139, Mismatches: 29, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 32 0.23
51 107 0.77
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (51 bp):
GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGATCACAAGTGTG
Found at i:35452479 original size:40 final size:40
Alignment explanation
Indices: 35452383--35452597 Score: 190
Period size: 40 Copynumber: 5.4 Consensus size: 40
35452373 GATGATAACT
* * * * * *
35452383 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTC
1 GGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATA-TCC
* * *
35452423 GGCCTAA-GCCCGAAGGCAATT-GTGCGAGTTATTATACCC
1 GGGCTAATTCCCGAAGGC-ATTCGTGCGAGTTATTATATCC
*
35452462 GGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGTCC
1 GGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATATCC
* * * *
35452502 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCT
1 GGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATATCC
* *
35452542 GGGCT-ATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC
1 GGGCTAAT-TCCCGAAGGCATTCGTGCGAGTTA-TTATATCC
* *
35452582 -GGTTAAATCCCGAAGG
1 GGGCTAATTCCCGAAGG
35452598 TACTTGGCTT
Statistics
Matches: 146, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
39 44 0.30
40 102 0.70
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATATCC
Found at i:35452546 original size:80 final size:79
Alignment explanation
Indices: 35452381--35452571 Score: 226
Period size: 80 Copynumber: 2.4 Consensus size: 79
35452371 CGGATGATAA
* * * *
35452381 CTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGCCTAAGCCCGAAGGCAATTGT
1 CTGGGCTAATTCCCGAAGGCATTCGTGCGAGTGACTAATTCCGGCCTAAGCCCGAAGGCAATTGT
*
35452446 GCGAGTTATTATAC
66 GCGAGTTACTATAC
* * * *
35452460 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTA-TTATGTCCGGGCTAAGTCCCGAAGGC-ATT
1 CTGGGCTAATTCCCGAAGGCATTCGTGCGAGTGACTAAT-TCCGGCCTAAG-CCCGAAGGCAATT
*
35452523 GGTGCGAGTTACTATAT
64 -GTGCGAGTTACTATAC
*
35452540 CTGGGCT-ATGTCCCGAAGGCATTCGAGCGAGT
1 CTGGGCTAAT-TCCCGAAGGCATTCGTGCGAGT
35452572 AGCTATATCC
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
78 3 0.03
79 43 0.45
80 50 0.52
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (79 bp):
CTGGGCTAATTCCCGAAGGCATTCGTGCGAGTGACTAATTCCGGCCTAAGCCCGAAGGCAATTGT
GCGAGTTACTATAC
Found at i:35452583 original size:80 final size:80
Alignment explanation
Indices: 35452381--35452597 Score: 223
Period size: 79 Copynumber: 2.7 Consensus size: 80
35452371 CGGATGATAA
* * * * *
35452381 CTGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTTCGGCCTAAG-CCCGAAGGCAAT
1 CTGGGCTATGTCCCGAAGGCATTCGTGCGAGTAG-CTATA-TCCGGGCTAAGTCCCGAAGGCAAT
*
35452443 TGTGCGAGTTATTATAC
64 TGTGCGAGTTACTATAC
* * *
35452460 CCGGGCTAAT-TCCCGAAGGCATTCGTGCGAGTTA-TTATGTCCGGGCTAAGTCCCGAAGGC-AT
1 CTGGGCT-ATGTCCCGAAGGCATTCGTGCGAG-TAGCTATATCCGGGCTAAGTCCCGAAGGCAAT
*
35452522 TGGTGCGAGTTACTATAT
64 T-GTGCGAGTTACTATAC
* * *
35452540 CTGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTATATCC-GGTTAAATCCCGAAGG
1 CTGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGG
35452598 TACTTGGCTT
Statistics
Matches: 114, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
79 57 0.50
80 57 0.50
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CTGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGGCAATTG
TGCGAGTTACTATAC
Found at i:35459046 original size:1 final size:1
Alignment explanation
Indices: 35459042--35459080 Score: 78
Period size: 1 Copynumber: 39.0 Consensus size: 1
35459032 AAAAATTTAG
35459042 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
35459081 TGTGGTTCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:35469640 original size:40 final size:40
Alignment explanation
Indices: 35469509--35469695 Score: 195
Period size: 39 Copynumber: 4.8 Consensus size: 40
35469499 GATGATAACT
* * * * *
35469509 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATA-TCC
* *
35469549 GGCCTAAG-CCCGAAGGCAATT-GTGCGAGTTA-TATACCC
1 GGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTATTATATCC
* *
35469587 GGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGTCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATATCC
* * *
35469627 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATATCC
* *
35469667 GGG-TATGTCCCGAAGGCATTCGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGT
35469696 AGCTATATCC
Statistics
Matches: 125, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
38 12 0.10
39 60 0.48
40 53 0.42
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATATCC
Found at i:35469707 original size:79 final size:78
Alignment explanation
Indices: 35469509--35469707 Score: 201
Period size: 79 Copynumber: 2.5 Consensus size: 78
35469499 GATGATAACT
* * * * * * *
35469509 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCGGCCTAAGCCCGAAGGCAATTGTG
1 GGGCTAATTCCCGAAGGCATTCGAGCGAGTTACTATA-TCCGGGCTAAGCCCGAAGGCAATTGTG
35469573 CGAGTTATATACCC
65 CGAGTTATATACCC
* * *
35469587 GGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGTCCGGGCTAAGTCCCGAAGGC-ATTGGT
1 GGGCTAATTCCCGAAGGCATTCGAGCGAGTTACTATATCCGGGCTAAG-CCCGAAGGCAATT-GT
* *
35469651 GCGAGTTACTATATCT
64 GCGAGTTA-TATACCC
35469667 GGG-T-ATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCCGG
1 GGGCTAAT-TCCCGAAGGCATTCGAGCGAGTTA-CTATATCCGG
35469708 TTAAATCCGA
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
78 46 0.45
79 48 0.47
80 8 0.08
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (78 bp):
GGGCTAATTCCCGAAGGCATTCGAGCGAGTTACTATATCCGGGCTAAGCCCGAAGGCAATTGTGC
GAGTTATATACCC
Found at i:35477675 original size:40 final size:41
Alignment explanation
Indices: 35477577--35477793 Score: 227
Period size: 40 Copynumber: 5.5 Consensus size: 41
35477567 CGGATGATAA
* * *
35477577 CCGGGCTAAGTCCCGAAGGC-ATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCAATTCGTGCGAGTTACTATA-T
* * *
35477617 CCGGCCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATAC
1 CCGGGCTAAGTCCCGAAGGCAATTCGTGCGAGTTACTATAT
* * *
35477656 CCGGGCTAATTCCCGAAGGC-ATTCGTGCGAGTTATTATGT
1 CCGGGCTAAGTCCCGAAGGCAATTCGTGCGAGTTACTATAT
*
35477696 CCGGGCTAAGTCCCGAAGGC-ATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCAATTCGTGCGAGTTACTATAT
* *
35477736 CCGGGCTATGTCCCGAAGGC-ATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCAATTCGTGCGAGTTA-CTATAT
* *
35477776 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35477794 TACTTGGCTT
Statistics
Matches: 153, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 45 0.29
40 108 0.71
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCAATTCGTGCGAGTTACTATAT
Found at i:35477779 original size:80 final size:80
Alignment explanation
Indices: 35477577--35477793 Score: 241
Period size: 79 Copynumber: 2.7 Consensus size: 80
35477567 CGGATGATAA
* * * *
35477577 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGCCTAAG-CCCGAAGGCAAT
1 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAG-CTATA-TCCGGGCTAAGTCCCGAAGGCAAT
*
35477639 TGTGCGAGTTATTATAC
64 TGTGCGAGTTACTATAC
* *
35477656 CCGGGCTAAT-TCCCGAAGGCATTCGTGCGAGTTA-TTATGTCCGGGCTAAGTCCCGAAGGC-AT
1 CCGGGCT-ATGTCCCGAAGGCATTCGTGCGAG-TAGCTATATCCGGGCTAAGTCCCGAAGGCAAT
*
35477718 TGGTGCGAGTTACTATAT
64 T-GTGCGAGTTACTATAC
* * *
35477736 CCGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGG
35477794 TACTTGGCTT
Statistics
Matches: 117, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
79 59 0.50
80 58 0.50
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGGCAATTG
TGCGAGTTACTATAC
Found at i:35477789 original size:119 final size:119
Alignment explanation
Indices: 35477577--35477793 Score: 280
Period size: 119 Copynumber: 1.8 Consensus size: 119
35477567 CGGATGATAA
* * *
35477577 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGCCTAAGCCCGAAGGCAATTGT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGCCTAAGCCCGAAGGCAATTGA
* *
35477642 GCGAGTTATTATACCCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGT
66 GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTATTATGT
* * *
35477696 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATATCCGGGCTATGTCCCGAAGGC-ATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAAT-TCCGGCCTAAG-CCCGAAGGCAATT
* *
35477759 CGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
64 -GAGCGAGTTA-CTATACCCGGGCTAAATCCCGAAGG
35477794 TACTTGGCTT
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
118 2 0.02
119 61 0.73
120 21 0.25
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGCCTAAGCCCGAAGGCAATTGA
GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTATTATGT
Found at i:35488826 original size:11 final size:10
Alignment explanation
Indices: 35488788--35488828 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
35488778 GCCTAATCCC
35488788 AAATAAAT-A
1 AAATAAATAA
35488797 AAATAAAATAA
1 AAAT-AAATAA
35488808 AAATAAATAA
1 AAATAAATAA
35488818 ATAATAAATAA
1 A-AATAAATAA
35488829 TAAAACAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.14
10 11 0.38
11 14 0.48
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (10 bp):
AAATAAATAA
Found at i:35488830 original size:14 final size:14
Alignment explanation
Indices: 35488788--35488841 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
35488778 GCCTAATCCC
*
35488788 AAATAAATA-AAAT
1 AAATAAAAATAAAT
35488801 AAAATAAAAATAAAT
1 -AAATAAAAATAAAT
35488816 AAATAATAAAT-AAT
1 AAATAA-AAATAAAT
35488830 AAA-ACAAAATAA
1 AAATA-AAAATAA
35488842 TTTCTTCTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 5 0.14
14 22 0.63
15 8 0.23
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:35488830 original size:24 final size:24
Alignment explanation
Indices: 35488788--35488841 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
35488778 GCCTAATCCC
35488788 AAATAAATAAAATAAAATAAAA-A
1 AAATAAATAAAATAAAATAAAACA
*
35488811 TAAATAAATAATAA-ATAATAAAACA
1 -AAATAAATAA-AATAAAATAAAACA
35488836 AAATAA
1 AAATAA
35488842 TTTCTTCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (24 bp):
AAATAAATAAAATAAAATAAAACA
Found at i:35495027 original size:30 final size:30
Alignment explanation
Indices: 35494993--35495053 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
35494983 TCCAAACAAC
35494993 AATAATGAGACTTTCCAGCTAAACGTTCTA
1 AATAATGAGACTTTCCAGCTAAACGTTCTA
35495023 AATAATGAGACTTTCCAGCTAAACGTTCTA
1 AATAATGAGACTTTCCAGCTAAACGTTCTA
35495053 A
1 A
35495054 CATCTGGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.30
Consensus pattern (30 bp):
AATAATGAGACTTTCCAGCTAAACGTTCTA
Found at i:35496607 original size:18 final size:18
Alignment explanation
Indices: 35496562--35496607 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
35496552 TCCCTATCTT
35496562 GACTAGTGTCGTGGGCCC
1 GACTAGTGTCGTGGGCCC
*
35496580 GACTAATGTCGT-GGCCGC
1 GACTAGTGTCGTGGGCC-C
*
35496598 GACTTGTGTC
1 GACTAGTGTC
35496608 AGGTACTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.13, C:0.26, G:0.35, T:0.26
Consensus pattern (18 bp):
GACTAGTGTCGTGGGCCC
Found at i:35498874 original size:12 final size:12
Alignment explanation
Indices: 35498857--35498884 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
35498847 TAATAAAATA
35498857 AATAAAAATAAT
1 AATAAAAATAAT
35498869 AATAAAAATAAT
1 AATAAAAATAAT
35498881 AATA
1 AATA
35498885 TCTTCTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:35505422 original size:49 final size:49
Alignment explanation
Indices: 35505314--35505531 Score: 130
Period size: 49 Copynumber: 4.6 Consensus size: 49
35505304 ATCTAAGTCG
* * *
35505314 ATGCCATGTCCCATACAGGTCTTACACTGACTTTCATATATCGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCA
* ** * * * *
35505363 ATACTTTGTCCCAGACAGGTCTTACATTGGCTCTCATCTATCG-GTGTCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GCCA
** * * * * *
35505412 ATGCCATGTCCTGGACAAGTCTTACACTGA----CACATGTC-AAGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCA
* * * * * *
35505456 ATGTCATGTCCCAGATAGGTTTTACA-TTAGCT-TGCATATCTCGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTCT-CATATATCGAGGCCA
*
35505505 ATG-CATGTCCCAGACATGTCTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
35505532 AGCATATATG
Statistics
Matches: 123, Mismatches: 37, Indels: 18
0.69 0.21 0.10
Matches are distributed among these distances:
43 2 0.02
44 22 0.18
45 5 0.04
48 26 0.21
49 68 0.55
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCA
Found at i:35509636 original size:13 final size:13
Alignment explanation
Indices: 35509620--35509645 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35509610 CTGGACACAC
35509620 GCCCGTGTCCTTT
1 GCCCGTGTCCTTT
35509633 GCCCGTGTCCTTT
1 GCCCGTGTCCTTT
35509646 CACACGGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.38, G:0.23, T:0.38
Consensus pattern (13 bp):
GCCCGTGTCCTTT
Found at i:35510723 original size:46 final size:44
Alignment explanation
Indices: 35510631--35510934 Score: 274
Period size: 46 Copynumber: 6.6 Consensus size: 44
35510621 AGGCCAATGC
* *
35510631 CATGTCCCAGACATGGTCTTACACTGAC-ATGTCTCGAAGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTACGTCTC-AAGCTGATG
*
35510676 CATGTACCAGACATGTCTTACACTGGCTTACGTCTCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TACGTCTCAA-GCTGATG
* * *
35510722 CATGTCCTAGACATGTCTTACACTGGC-ACTCATCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTA--CGTCTCAA-GCTGATG
* * *
35510768 CCATGTCCCAGACATGGTCTTACACTGAC-ATGTCTCGTAGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTACGTCTC-AAGCTGATG
* * *
35510814 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TACGTCTCAAGCT-GATG
* *
35510860 CATGTCCCAGAAATGTCTTACACTGGC-ACTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTA--CGTCTCAA-GCTGATG
* * *
35510906 CCATCTCCCAGACCTGGTTTTACACTGGC
1 -CATGTCCCAGACAT-GTCTTACACTGGC
35510935 ACACAAATTA
Statistics
Matches: 215, Mismatches: 28, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
44 26 0.12
45 32 0.15
46 106 0.49
47 26 0.12
48 25 0.12
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGGCTACGTCTCAAGCTGATG
Found at i:35510811 original size:92 final size:89
Alignment explanation
Indices: 35510582--35510935 Score: 311
Period size: 92 Copynumber: 3.8 Consensus size: 89
35510572 TTACCAATGC
* * * **
35510582 CATGTCCCAAATATGGTCTTACACTGGCTATCCTCATCGAGGCCAATGCCATGTCCCAGACATGG
1 CATGTCCCAGACAT-GTCTTACACTGGCTAT-GTC-TCGAGGCTGATG-CATGTCCCAGACAT-G
* * *
35510647 TCTTACACTGACAT-GTCTCGAAGCTGATG
61 TCTTACACTGGCATCATCTC-AAGCCGATG
* * * *
35510676 CATGTACCAGACATGTCTTACACTGGCTTACGTCTCAAGGCTGATGCATGTCCTAGACATGTCTT
1 CATGTCCCAGACATGTCTTACACTGGC-TATGTCTCGAGGCTGATGCATGTCCCAGACATGTCTT
35510741 ACACTGGCACTCATCTCAATGCCGATG
65 ACACTGGCA-TCATCTCAA-GCCGATG
*
35510768 CCATGTCCCAGACATGGTCTTACACTGAC-ATGTCTCGTA-GCTGATGCATGTCCCAGACATGTC
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATGTCTCG-AGGCTGATGCATGTCCCAGACATGTC
* * *
35510831 TTACACTGGCTTACATCTCGAGGTCGATG
63 TTACACTGGCAT-CATCTC-AAGCCGATG
* * * * * *
35510860 CATGTCCCAGAAATGTCTTACACTGGC-ACTCGTCTCAATGCCGATGCCATCTCCCAGACCTGGT
1 CATGTCCCAGACATGTCTTACACTGGCTA-T-GTCTCGAGGCTGATG-CATGTCCCAGACAT-GT
*
35510924 TTTACACTGGCA
62 CTTACACTGGCA
35510936 CACAAATTAC
Statistics
Matches: 218, Mismatches: 28, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
90 26 0.12
91 32 0.15
92 81 0.37
93 42 0.19
94 37 0.17
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (89 bp):
CATGTCCCAGACATGTCTTACACTGGCTATGTCTCGAGGCTGATGCATGTCCCAGACATGTCTTA
CACTGGCATCATCTCAAGCCGATG
Found at i:35510876 original size:138 final size:138
Alignment explanation
Indices: 35510582--35510932 Score: 510
Period size: 138 Copynumber: 2.5 Consensus size: 138
35510572 TTACCAATGC
* * * *
35510582 CATGTCCCA-AATATGGTCTTACACTGGCTA-TCCTCATCGAGGCCAATGCCATGTCCCAGACAT
1 CATGTCCCAGAA-AT-GTCTTACACTGGC-ACTCATC-TCAATGCCGATGCCATGTCCCAGACAT
*
35510645 GGTCTTACACTGACATGTCTCGAAGCTGATGCATGTACCAGACATGTCTTACACTGGCTTACGTC
62 GGTCTTACACTGACATGTCTCGAAGCTGATGCATGTACCAGACATGTCTTACACTGGCTTACATC
35510710 TCAAGGCTGATG
127 TCAAGGCTGATG
* *
35510722 CATGTCCTAGACATGTCTTACACTGGCACTCATCTCAATGCCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGAAATGTCTTACACTGGCACTCATCTCAATGCCGATGCCATGTCCCAGACATGGTC
* * *
35510787 TTACACTGACATGTCTCGTAGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGA
66 TTACACTGACATGTCTCGAAGCTGATGCATGTACCAGACATGTCTTACACTGGCTTACATCTCAA
35510852 GG-TCGATG
131 GGCT-GATG
* * * *
35510860 CATGTCCCAGAAATGTCTTACACTGGCACTCGTCTCAATGCCGATGCCATCTCCCAGACCTGGTT
1 CATGTCCCAGAAATGTCTTACACTGGCACTCATCTCAATGCCGATGCCATGTCCCAGACATGGTC
35510925 TTACACTG
66 TTACACTG
35510933 GCACACAAAT
Statistics
Matches: 192, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
137 1 0.01
138 163 0.85
139 17 0.09
140 10 0.05
141 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (138 bp):
CATGTCCCAGAAATGTCTTACACTGGCACTCATCTCAATGCCGATGCCATGTCCCAGACATGGTC
TTACACTGACATGTCTCGAAGCTGATGCATGTACCAGACATGTCTTACACTGGCTTACATCTCAA
GGCTGATG
Found at i:35511668 original size:12 final size:12
Alignment explanation
Indices: 35511651--35511675 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35511641 CAAAAATGTA
35511651 AAAATCATCAAG
1 AAAATCATCAAG
35511663 AAAATCATCAAG
1 AAAATCATCAAG
35511675 A
1 A
35511676 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:35514192 original size:26 final size:27
Alignment explanation
Indices: 35514159--35514219 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
35514149 ATTCACTAAA
35514159 ATACCCCTAAGAATG-AAAATTACCA-T
1 ATACCCCTAAG-ATGCAAAATTACCATT
*
35514185 ATACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
35514211 ATACCCCTA
1 ATACCCCTA
35514220 GGGTTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 2 0.06
25 12 0.39
26 17 0.55
ACGTcount: A:0.39, C:0.28, G:0.08, T:0.25
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:35514396 original size:28 final size:28
Alignment explanation
Indices: 35514330--35514430 Score: 145
Period size: 27 Copynumber: 3.7 Consensus size: 28
35514320 AGTGTTCTAA
35514330 TGGCTCTGCCACAAATATCTG-ATCTGG
1 TGGCTCTGCCACAAATATCTGTATCTGG
*
35514357 TGGCTCTGCCACAAATATCTGTTTCTGG
1 TGGCTCTGCCACAAATATCTGTATCTGG
*
35514385 TGGCTCTACCAC-AATATCTGTATCTGG
1 TGGCTCTGCCACAAATATCTGTATCTGG
* *
35514412 TGACTCTGTCAC-AATATCT
1 TGGCTCTGCCACAAATATCT
35514431 ATTCTGGCAA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 51 0.76
28 16 0.24
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.34
Consensus pattern (28 bp):
TGGCTCTGCCACAAATATCTGTATCTGG
Found at i:35529272 original size:27 final size:27
Alignment explanation
Indices: 35529242--35529419 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35529232 ATATTGAGTC
* * * *
35529242 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35529269 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35529296 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35529324 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35529351 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35529378 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35529405 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35529420 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35529381 original size:82 final size:81
Alignment explanation
Indices: 35529263--35529418 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35529253 TGCTATATAA
* *
35529263 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35529328 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35529345 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35529409 CACTTAGTGC
65 CACTTAGTGC
35529419 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35539065 original size:27 final size:27
Alignment explanation
Indices: 35539011--35539065 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
35539001 CACAGGGGTA
* * * *
35539011 GACACACGGCGTGTGTCTTGGCCGTGT
1 GACACACGGCCTGTCTCATGGCCATGT
*
35539038 GACACACGGCCTGTCTCATGGGCATGT
1 GACACACGGCCTGTCTCATGGCCATGT
35539065 G
1 G
35539066 GTCCGACCGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.27, G:0.35, T:0.24
Consensus pattern (27 bp):
GACACACGGCCTGTCTCATGGCCATGT
Found at i:35543998 original size:5 final size:5
Alignment explanation
Indices: 35543988--35544019 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
35543978 GAGTCAAAAA
35543988 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
35544020 GGTTGGCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:35545258 original size:57 final size:58
Alignment explanation
Indices: 35545122--35545276 Score: 161
Period size: 57 Copynumber: 2.7 Consensus size: 58
35545112 GAATAATAGT
* * * * *
35545122 GCATATGTTACAGATAGAATTTAGCACGGACGAGTAATTCTAATGTAAGCCCTCTTGA
1 GCATATGTTATAGATAGGATTTAGCACGGACGGGTAATCCAAATGTAAGCCCTCTTGA
* * * * *
35545180 GCTTAGGTTATAAATTA-GATTTAGCCCGGACGGGTAATCCAAAT-TAAGCTCTCTTGA
1 GCATATGTTATAGA-TAGGATTTAGCACGGACGGGTAATCCAAATGTAAGCCCTCTTGA
* ** *
35545237 GCATATGCTATAGATAGGATTTAGCTTGGACTGGTAATCC
1 GCATATGTTATAGATAGGATTTAGCACGGACGGGTAATCC
35545277 TACTGTAAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
56 2 0.03
57 42 0.54
58 32 0.41
59 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (58 bp):
GCATATGTTATAGATAGGATTTAGCACGGACGGGTAATCCAAATGTAAGCCCTCTTGA
Found at i:35549132 original size:50 final size:49
Alignment explanation
Indices: 35549019--35549243 Score: 315
Period size: 49 Copynumber: 4.5 Consensus size: 49
35549009 CTAGTACGCA
*
35549019 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
35549068 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCCGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * *
35549118 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* *
35549169 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
35549218 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
35549244 GGTAACCTCA
Statistics
Matches: 152, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
49 68 0.45
50 47 0.31
51 37 0.24
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:35552221 original size:21 final size:21
Alignment explanation
Indices: 35552195--35552238 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
35552185 CCAATACGTC
35552195 CCTTTCATCTAGAGTATTCCT
1 CCTTTCATCTAGAGTATTCCT
*
35552216 CCTTTCATCTCGAGTATTCCT
1 CCTTTCATCTAGAGTATTCCT
35552237 CC
1 CC
35552239 ATTTGAGTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.34, G:0.09, T:0.41
Consensus pattern (21 bp):
CCTTTCATCTAGAGTATTCCT
Found at i:35557684 original size:21 final size:21
Alignment explanation
Indices: 35557658--35557701 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
35557648 CCAATACGTC
35557658 CCTTTCATCTAGAGTATTCCT
1 CCTTTCATCTAGAGTATTCCT
*
35557679 CCTTTCATCTCGAGTATTCCT
1 CCTTTCATCTAGAGTATTCCT
35557700 CC
1 CC
35557702 ATTTGAGTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.34, G:0.09, T:0.41
Consensus pattern (21 bp):
CCTTTCATCTAGAGTATTCCT
Found at i:35557875 original size:46 final size:46
Alignment explanation
Indices: 35557807--35557982 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
35557797 TGTAACCCGC
* *
35557807 CCATAAGTGAACTCAGATTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * *
35557853 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCGCAT
* *** * * *
35557899 ACATCTCTCGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
35557946 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
35557983 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 71 0.68
47 33 0.32
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:35557926 original size:93 final size:93
Alignment explanation
Indices: 35557815--35557986 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
35557805 GCCCATAAGT
* * * *
35557815 GAACTCAGATTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGCGAACTCGGACTCAACTCAA
35557880 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
35557908 GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGCGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGCGAACTCGGACTCAACTCAA
*
35557973 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
35557987 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGCGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:35562501 original size:14 final size:14
Alignment explanation
Indices: 35562482--35562509 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35562472 TGAACTACAT
35562482 AAACAATATAATGA
1 AAACAATATAATGA
35562496 AAACAATATAATGA
1 AAACAATATAATGA
35562510 TTTTTTCTTT
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:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (14 bp):
AAACAATATAATGA
Found at i:35562747 original size:9 final size:9
Alignment explanation
Indices: 35562735--35562761 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
35562725 ATAACTTGAT
35562735 TAACTCAAA
1 TAACTCAAA
35562744 TAACTCAAA
1 TAACTCAAA
35562753 TAACTCAAA
1 TAACTCAAA
35562762 CTATTTAATT
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:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (9 bp):
TAACTCAAA
Found at i:35566756 original size:20 final size:20
Alignment explanation
Indices: 35566731--35566771 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
35566721 ATAACACATT
35566731 CATGGTGGGCGGCTTACTCC
1 CATGGTGGGCGGCTTACTCC
35566751 CATGGTGGGCGGCTTACTCC
1 CATGGTGGGCGGCTTACTCC
35566771 C
1 C
35566772 CTAAAGGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
CATGGTGGGCGGCTTACTCC
Found at i:35568859 original size:47 final size:47
Alignment explanation
Indices: 35568805--35568899 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
35568795 TTTTTTTTTA
*
35568805 TCATGAGTGTTTTTTAAACGGTAAATGATTAGTTATAAAATGTATTT
1 TCATGAGTGTTTTTTAAACAGTAAATGATTAGTTATAAAATGTATTT
35568852 TCATGAGTGTTTTTTAAACAGTAAATGATTAGTTATAAAATGTATTT
1 TCATGAGTGTTTTTTAAACAGTAAATGATTAGTTATAAAATGTATTT
35568899 T
1 T
35568900 ATTTTTATGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (47 bp):
TCATGAGTGTTTTTTAAACAGTAAATGATTAGTTATAAAATGTATTT
Found at i:35568956 original size:51 final size:51
Alignment explanation
Indices: 35568898--35569000 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
35568888 AAAATGTATT
* * *
35568898 TTATTTTTATGAGTGGGGTTTGAAGTCCTATCCTATAATTAAGAAATAAGG
1 TTATTTTTATGAGTAGGGATCGAAGTCCTATCCTATAATTAAGAAATAAGG
35568949 TTATTTTTATGAGTAGGGATCGAAGTCCTATCCTATAATTAAGAAATAAGG
1 TTATTTTTATGAGTAGGGATCGAAGTCCTATCCTATAATTAAGAAATAAGG
35569000 T
1 T
35569001 AAGTATCACA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (51 bp):
TTATTTTTATGAGTAGGGATCGAAGTCCTATCCTATAATTAAGAAATAAGG
Found at i:35573368 original size:47 final size:47
Alignment explanation
Indices: 35573309--35573438 Score: 170
Period size: 47 Copynumber: 2.8 Consensus size: 47
35573299 AAAAGCTGCT
* **
35573309 AATACGTTGTGGATGAACCACTAGTCGAGCAGATGACCGTTGACTAA
1 AATACGTTGTGGATAAACCACTAGTCGAGCAGATGACCGCCGACTAA
* * * * *
35573356 AATATGTTGTGGATAAACCACTGGTCGAACAGATGACTGCCGACTAG
1 AATACGTTGTGGATAAACCACTAGTCGAGCAGATGACCGCCGACTAA
* *
35573403 AATACGTTGTGGATAAACCATTAGTCGAGTAGATGA
1 AATACGTTGTGGATAAACCACTAGTCGAGCAGATGA
35573439 ATTACCGACT
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (47 bp):
AATACGTTGTGGATAAACCACTAGTCGAGCAGATGACCGCCGACTAA
Found at i:35575890 original size:31 final size:30
Alignment explanation
Indices: 35575826--35575890 Score: 71
Period size: 30 Copynumber: 2.1 Consensus size: 30
35575816 TCATTTTAAA
* *
35575826 ATATTGATTCTAAATATAAAAAAGCTATTT
1 ATATTGATTCTAAATATAAAAAAGATATAT
35575856 ATATTGATTTCTAAA-ATAAATAAA-ATATCAT
1 ATATTGA-TTCTAAATATAAA-AAAGATAT-AT
35575887 ATAT
1 ATAT
35575891 AATGATAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (30 bp):
ATATTGATTCTAAATATAAAAAAGATATAT
Found at i:35578549 original size:24 final size:24
Alignment explanation
Indices: 35578522--35578576 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
35578512 ATGTGAGTAA
*
35578522 GTATGCGAA-ACTTTAGGTAAATAT
1 GTATGCGAACAC-TTAGGTAAATAG
* *
35578546 GTATGCGAACACTTATGTACATAG
1 GTATGCGAACACTTAGGTAAATAG
35578570 GTATGCG
1 GTATGCG
35578577 GATTCTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.31
Consensus pattern (24 bp):
GTATGCGAACACTTAGGTAAATAG
Found at i:35578739 original size:13 final size:13
Alignment explanation
Indices: 35578717--35578800 Score: 78
Period size: 13 Copynumber: 6.5 Consensus size: 13
35578707 ATTTAGTACA
35578717 CAAACCCTATATG
1 CAAACCCTATATG
*
35578730 CAAACTCTATATG
1 CAAACCCTATATG
**
35578743 TGAACCCTATATG
1 CAAACCCTATATG
** *
35578756 TGAACCGTATATG
1 CAAACCCTATATG
* *
35578769 CGAACCCTATGTG
1 CAAACCCTATATG
**
35578782 TGAACCCTATATG
1 CAAACCCTATATG
35578795 CAAACC
1 CAAACC
35578801 TGTTATGTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 59 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (13 bp):
CAAACCCTATATG
Found at i:35578769 original size:39 final size:39
Alignment explanation
Indices: 35578719--35578794 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
35578709 TTAGTACACA
*
35578719 AACCCTATATGCAAACTCTATATGTGAACCCTATATGTG
1 AACCCTATATGCAAACCCTATATGTGAACCCTATATGTG
* * *
35578758 AACCGTATATGCGAACCCTATGTGTGAACCCTATATG
1 AACCCTATATGCAAACCCTATATGTGAACCCTATATG
35578795 CAAACCTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (39 bp):
AACCCTATATGCAAACCCTATATGTGAACCCTATATGTG
Found at i:35578783 original size:26 final size:26
Alignment explanation
Indices: 35578719--35578800 Score: 101
Period size: 26 Copynumber: 3.2 Consensus size: 26
35578709 TTAGTACACA
** * *
35578719 AACCCTATATGCAAACTCTATATGTG
1 AACCCTATATGTGAACCCTATATGCG
*
35578745 AACCCTATATGTGAACCGTATATGCG
1 AACCCTATATGTGAACCCTATATGCG
* *
35578771 AACCCTATGTGTGAACCCTATATGCA
1 AACCCTATATGTGAACCCTATATGCG
35578797 AACC
1 AACC
35578801 TGTTATGTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (26 bp):
AACCCTATATGTGAACCCTATATGCG
Found at i:35583872 original size:47 final size:47
Alignment explanation
Indices: 35583809--35584011 Score: 316
Period size: 47 Copynumber: 4.3 Consensus size: 47
35583799 TGAATGTATA
35583809 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
35583856 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
35583903 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
35583950 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
35583997 TATAAATGTGATAAG
1 TATATATGTGATAAG
35584012 TCCCGAAGGG
Statistics
Matches: 142, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 142 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:35586210 original size:38 final size:38
Alignment explanation
Indices: 35586146--35586220 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
35586136 AATCCGAGTT
*
35586146 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
35586184 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
35586221 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:35586333 original size:40 final size:40
Alignment explanation
Indices: 35586278--35586674 Score: 589
Period size: 40 Copynumber: 9.9 Consensus size: 40
35586268 CTCGACAATG
*
35586278 ATCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
35586318 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
35586358 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
35586398 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
35586438 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * *
35586478 ATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * *
35586518 ATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * *
35586558 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * * * *
35586598 ATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGTGATAT
* * *
35586638 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
35586675 CGTGTATTCG
Statistics
Matches: 331, Mismatches: 24, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
39 1 0.00
40 328 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:35586942 original size:58 final size:57
Alignment explanation
Indices: 35586873--35586981 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
35586863 CGAATGATTA
* *
35586873 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
35586931 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
35586982 ATCAGTGGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 26 0.57
58 20 0.43
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:35590653 original size:47 final size:47
Alignment explanation
Indices: 35590590--35590792 Score: 316
Period size: 47 Copynumber: 4.3 Consensus size: 47
35590580 TGAATGTATA
35590590 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
35590637 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
35590684 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
35590731 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
35590778 TATAAATGTGATAAG
1 TATATATGTGATAAG
35590793 TCCCGAAGGG
Statistics
Matches: 142, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 142 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:35593517 original size:48 final size:48
Alignment explanation
Indices: 35593346--35593633 Score: 317
Period size: 48 Copynumber: 6.0 Consensus size: 48
35593336 CAAAAGGGTA
* * * *
35593346 AGATGCTGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATAT
1 AGATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
* * *
35593394 ATCGGTGCCGATGCCATGTTCCAAACATGGTATTACACTAGC-CACATAT
1 A--GATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
* * * * *
35593443 CGAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
1 AGATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
* * * *
35593491 AAATGCCAATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATAT
1 AGATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
* * * * ** **
35593539 CGAGGCTGATGCCATGTCCTAGTCATGGTCTTACACTAGCTCTTATAT
1 AGATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
* *
35593587 AAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATA
1 AGATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
35593634 ACCTTAGTAT
Statistics
Matches: 193, Mismatches: 44, Indels: 6
0.79 0.18 0.02
Matches are distributed among these distances:
47 33 0.17
48 121 0.63
49 6 0.03
50 33 0.17
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (48 bp):
AGATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
Found at i:35593570 original size:96 final size:96
Alignment explanation
Indices: 35593350--35593633 Score: 408
Period size: 96 Copynumber: 2.9 Consensus size: 96
35593340 AGGGTAAGAT
* * * **
35593350 GCTGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATATATCGGTGCCGATGCCATGTTC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA--AATGCCGATGCCATGTTC
*
35593415 CAAACATGGTATTACACTAG-CCACATATCGAG
64 CAAACATGGTCTTACACTAGCCCACATATCGAG
* * *
35593447 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGTTCCA
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
35593512 AACATGGTCTTACACTAGCCCACATATCGAG
66 AACATGGTCTTACACTAGCCCACATATCGAG
* * * *
35593543 GCTGATGCCATGTCCTAGTCATGGTCTTACACTAGCTCTTATATAAATGCCGATGCCATGTCCCA
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
* *
35593608 GACATGGTCTTACACTAGCTCACATA
66 AACATGGTCTTACACTAGCCCACATA
35593634 ACCTTAGTAT
Statistics
Matches: 168, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
95 34 0.20
96 94 0.56
97 40 0.24
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (96 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
AACATGGTCTTACACTAGCCCACATATCGAG
Found at i:35593623 original size:144 final size:145
Alignment explanation
Indices: 35593354--35593633 Score: 370
Period size: 144 Copynumber: 1.9 Consensus size: 145
35593344 TAAGATGCTG
* * *
35593354 ATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATATATCGGTGCCGATGCCATGTTCCAAA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCGGTGCCGATGCCATGTTCCAAA
**
35593419 CATGGTATTACACTAGCCACATATCGAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCT
66 CATGGTATTACACTAGCCACATATAAAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCT
*
35593484 CTCATATAAATGCCA
131 CACATATAAATGCCA
* *
35593499 ATGCCATGTTCCAAACATGGTCTTACACTAGC-C-CACATATCGAG-GCTGATGCCATG-TCCTA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCG-GTGCCGATGCCATGTTCC-A
** * ** * *
35593560 GTCATGGTCTTACACTAGCTCTTATATAAATGCCGATGCCATGTCCCAGACATGGTCTTACACTA
64 AACATGGTATTACACTAGC-CACATATAAAGGCCGACGCCATGTCCCAGACATGGTCTTACACTA
35593625 GCTCACATA
128 GCTCACATA
35593634 ACCTTAGTAT
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
142 3 0.03
143 36 0.31
144 49 0.42
145 29 0.25
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (145 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCGGTGCCGATGCCATGTTCCAAA
CATGGTATTACACTAGCCACATATAAAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCT
CACATATAAATGCCA
Found at i:35601918 original size:40 final size:40
Alignment explanation
Indices: 35601873--35602014 Score: 196
Period size: 40 Copynumber: 3.5 Consensus size: 40
35601863 AATTTGAATG
* *
35601873 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA-T
* *
35601913 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* *
35601953 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* *
35601993 ATACCCGGGTTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
35602015 ACAATTGTGC
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 90 0.97
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
Done.