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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 29 of 91
Found at i:9962841 original size:2 final size:2
Alignment explanation
Indices: 9962834--9962886 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
9962824 GGCCAAGAAA
9962834 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9962875 AT AT AT AT AT AT
1 AT AT AT AT AT AT
9962887 TTGGATAAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:9969850 original size:26 final size:26
Alignment explanation
Indices: 9969819--9969871 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
9969809 CATTAATCCA
9969819 TAGTAGTTGTTCGAATCCCATACTCT
1 TAGTAGTTGTTCGAATCCCATACTCT
9969845 TAGTAGTTGTTCGAATCCCATACTCT
1 TAGTAGTTGTTCGAATCCCATACTCT
9969871 T
1 T
9969872 GCAGCTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (26 bp):
TAGTAGTTGTTCGAATCCCATACTCT
Found at i:9971146 original size:24 final size:24
Alignment explanation
Indices: 9971092--9971146 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
9971082 GAATTATAGA
*
9971092 ATAA-AATAAGAGTTTCAGTTTAT
1 ATAAGAATAAGAATTTCAGTTTAT
* *
9971115 TTAGGAATAAGACATTT-AGTTTAT
1 ATAAGAATAAGA-ATTTCAGTTTAT
9971139 ATAAGAAT
1 ATAAGAAT
9971147 TGTAGGATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.08
24 20 0.80
25 3 0.12
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.38
Consensus pattern (24 bp):
ATAAGAATAAGAATTTCAGTTTAT
Found at i:9980984 original size:26 final size:26
Alignment explanation
Indices: 9980928--9980986 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
9980918 GGCCGGCCAT
* *
9980928 AAGGAAAGAACAAGAGAGAAAATAGA
1 AAGGAAAGAACAAAAGAGAAAATACA
* *
9980954 GAGGAAAGGAAGAAAAGAGAAAA-ACA
1 AAGGAAA-GAACAAAAGAGAAAATACA
9980980 AAGGAAA
1 AAGGAAA
9980987 ACTAGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.66, C:0.03, G:0.29, T:0.02
Consensus pattern (26 bp):
AAGGAAAGAACAAAAGAGAAAATACA
Found at i:9981187 original size:14 final size:16
Alignment explanation
Indices: 9981158--9981189 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
9981148 TCTAGGGGAG
9981158 AGGTTTTGGAATTTTT
1 AGGTTTTGGAATTTTT
9981174 AGGTTTT-G-ATTTTT
1 AGGTTTTGGAATTTTT
9981188 AG
1 AG
9981190 TTAAATTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (16 bp):
AGGTTTTGGAATTTTT
Found at i:9982868 original size:22 final size:22
Alignment explanation
Indices: 9982827--9982873 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
9982817 ACGTATTTCT
*
9982827 ATATTTTAATCTTATATTTTGTA
1 ATATTTTAATCTAATATTTTG-A
9982850 ATATTTTAATC-AATATTTTGA
1 ATATTTTAATCTAATATTTTGA
9982871 ATA
1 ATA
9982874 GTAATATCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.17
22 8 0.35
23 11 0.48
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (22 bp):
ATATTTTAATCTAATATTTTGA
Found at i:9984588 original size:39 final size:40
Alignment explanation
Indices: 9984545--9984639 Score: 142
Period size: 39 Copynumber: 2.4 Consensus size: 40
9984535 GTGAAATTCA
9984545 TTCTCACTGCAGTGAGATT-CAGG-AGACAAAACAGAAAGT
1 TTCTCACTGCAGTGAGATTACAGGTAG-CAAAACAGAAAGT
*
9984584 TTCTCACTGTAGTGAG-TTACAGGTAGCAAAACAGAAAGT
1 TTCTCACTGCAGTGAGATTACAGGTAGCAAAACAGAAAGT
*
9984623 TTCTCGCTGCAGTGAGA
1 TTCTCACTGCAGTGAGA
9984640 AGTAGGGCAT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.04
39 46 0.92
40 2 0.04
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (40 bp):
TTCTCACTGCAGTGAGATTACAGGTAGCAAAACAGAAAGT
Found at i:9989049 original size:27 final size:27
Alignment explanation
Indices: 9989011--9989075 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
9989001 TCCAACATTC
9989011 CCATTTTGCCCTCAGGTGGCAAAATGA
1 CCATTTTGCCCTCAGGTGGCAAAATGA
9989038 CCATTTTGCCCTCAGGTGGCAAAATGA
1 CCATTTTGCCCTCAGGTGGCAAAATGA
9989065 CCATTTTGCCC
1 CCATTTTGCCC
9989076 CTACGTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (27 bp):
CCATTTTGCCCTCAGGTGGCAAAATGA
Found at i:9990709 original size:35 final size:35
Alignment explanation
Indices: 9990639--9990718 Score: 90
Period size: 36 Copynumber: 2.3 Consensus size: 35
9990629 CCCTAGAGTC
9990639 CTGGTTCCTCCACCTTAACATTTTTTTAATTATTTT
1 CTGGTTCCTCCACCTTAACATTTTTTT-ATTATTTT
** *
9990675 CTGGTTCCTTTACCTTAATATTTTTTT-TTAATTTT
1 CTGGTTCCTCCACCTTAACATTTTTTTATT-ATTTT
* *
9990710 TTGATTCCT
1 CTGGTTCCT
9990719 GCTTCTTACT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
34 2 0.05
35 12 0.32
36 24 0.63
ACGTcount: A:0.17, C:0.19, G:0.06, T:0.57
Consensus pattern (35 bp):
CTGGTTCCTCCACCTTAACATTTTTTTATTATTTT
Found at i:9992650 original size:2 final size:2
Alignment explanation
Indices: 9992645--9992679 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9992635 TCCATAGATG
9992645 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9992680 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9992710 original size:2 final size:2
Alignment explanation
Indices: 9992703--9992743 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9992693 NNNCTACTAC
9992703 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9992744 CCATCATCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9992885 original size:42 final size:42
Alignment explanation
Indices: 9992807--9992886 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
9992797 CATATGGCTA
* * *
9992807 GGTCAGCATCGGCTTATGCGCACTCCCACTCGCACATAACCG
1 GGTCAGCATCAGCTTATGCACACTCCCACTCACACATAACCG
* * *
9992849 GGTCCGCATCAGCTTATGCACACTCCTACTTACACATA
1 GGTCAGCATCAGCTTATGCACACTCCCACTCACACATA
9992887 GCTTGGTCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23
Consensus pattern (42 bp):
GGTCAGCATCAGCTTATGCACACTCCCACTCACACATAACCG
Found at i:10000050 original size:13 final size:13
Alignment explanation
Indices: 10000032--10000056 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10000022 TGAAAGATTG
10000032 ATTTATTAATTTC
1 ATTTATTAATTTC
10000045 ATTTATTAATTT
1 ATTTATTAATTT
10000057 TCCTACAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTATTAATTTC
Found at i:10000881 original size:7 final size:7
Alignment explanation
Indices: 10000871--10000912 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
10000861 TTCTGATTCT
10000871 TGCTTCC
1 TGCTTCC
10000878 TGCTTCCC
1 TGCTT-CC
10000886 TGCTTCC
1 TGCTTCC
* *
10000893 TGATTCT
1 TGCTTCC
10000900 TGCTTCC
1 TGCTTCC
10000907 T-CTTCC
1 TGCTTCC
10000913 CTACTTCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 5 0.17
7 18 0.60
8 7 0.23
ACGTcount: A:0.02, C:0.40, G:0.12, T:0.45
Consensus pattern (7 bp):
TGCTTCC
Found at i:10000891 original size:15 final size:15
Alignment explanation
Indices: 10000871--10000919 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
10000861 TTCTGATTCT
10000871 TGCTTCCTGCTTCCC
1 TGCTTCCTGCTTCCC
* *
10000886 TGCTTCCTGATT-CT
1 TGCTTCCTGCTTCCC
10000900 TGCTTCCT-CTTCCC
1 TGCTTCCTGCTTCCC
*
10000914 TACTTC
1 TGCTTC
10000920 TTATTCTACT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 2 0.07
14 15 0.54
15 11 0.39
ACGTcount: A:0.04, C:0.41, G:0.10, T:0.45
Consensus pattern (15 bp):
TGCTTCCTGCTTCCC
Found at i:10000905 original size:29 final size:28
Alignment explanation
Indices: 10000863--10000919 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
10000853 TTTGAATTTT
*
10000863 CTGATTCTTGCTTCCTGCTTCCCTGCTTC
1 CTGATTCTTGCTTCCT-CTTCCCTACTTC
10000892 CTGATTCTTGCTTCCTCTTCCCTACTTC
1 CTGATTCTTGCTTCCTCTTCCCTACTTC
10000920 TTATTCTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.05, C:0.39, G:0.11, T:0.46
Consensus pattern (28 bp):
CTGATTCTTGCTTCCTCTTCCCTACTTC
Found at i:10010666 original size:22 final size:22
Alignment explanation
Indices: 10010636--10010688 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
10010626 AACAGAATGT
*
10010636 TTCTTGCTGCAGCGAGAATGAA
1 TTCTAGCTGCAGCGAGAATGAA
*
10010658 TTCTAGCTGCAGTGAGAATGAA
1 TTCTAGCTGCAGCGAGAATGAA
10010680 TTCTAGCTG
1 TTCTAGCTG
10010689 TAGTAAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (22 bp):
TTCTAGCTGCAGCGAGAATGAA
Found at i:10011158 original size:2 final size:2
Alignment explanation
Indices: 10011151--10011181 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10011141 TATGACATAG
*
10011151 TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10011182 CAACATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10015027 original size:42 final size:42
Alignment explanation
Indices: 10014968--10015091 Score: 212
Period size: 42 Copynumber: 3.0 Consensus size: 42
10014958 TGTTGATTTG
10014968 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
10015010 GACCCGACTATGTGCGAGTAGGAGTGCATATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
10015052 GACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
10015092 TTGCCCCCAT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.23
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:10015362 original size:26 final size:26
Alignment explanation
Indices: 10015326--10015387 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
10015316 TTGCATATGA
10015326 GATGATGATGATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
10015352 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
10015378 GTTGATGATG
1 GATGATGATG
10015388 GGTATATGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.40, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:10016333 original size:38 final size:37
Alignment explanation
Indices: 10016282--10016374 Score: 134
Period size: 38 Copynumber: 2.5 Consensus size: 37
10016272 TAGCCGGAGT
*
10016282 CATCGTGTGCATCCCTCCACATCTTGCACAGTTAATGC
1 CATCGTGTACATCCC-CCACATCTTGCACAGTTAATGC
*
10016320 CATCGTGTACATCCCCCAACAT-TGTGTACAGTTAATGC
1 CATCGTGTACATCCCCC-ACATCT-TGCACAGTTAATGC
10016358 CATCGTGTACATCCCCC
1 CATCGTGTACATCCCCC
10016375 CAGATCGTGC
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
37 3 0.06
38 48 0.94
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (37 bp):
CATCGTGTACATCCCCCACATCTTGCACAGTTAATGC
Found at i:10020011 original size:20 final size:21
Alignment explanation
Indices: 10019988--10020026 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
10019978 AGCAAGTTAT
*
10019988 TTTAATTTTA-TGTTATTTCC
1 TTTAATTTGATTGTTATTTCC
10020008 TTTAATTTGATTGTTATTT
1 TTTAATTTGATTGTTATTT
10020027 ATTAGTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTAATTTGATTGTTATTTCC
Found at i:10023726 original size:13 final size:13
Alignment explanation
Indices: 10023708--10023762 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
10023698 TATTAAAGTC
*
10023708 TAAGTAAGTAAAA
1 TAAGTAAATAAAA
10023721 TAAGTAAAT-AAA
1 TAAGTAAATAAAA
*
10023733 TAA-TATATAACAA
1 TAAGTAAATAA-AA
*
10023746 TAAAATAAATAAAA
1 T-AAGTAAATAAAA
10023760 TAA
1 TAA
10023763 AAATAATTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
11 4 0.11
12 7 0.20
13 13 0.37
14 5 0.14
15 6 0.17
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.25
Consensus pattern (13 bp):
TAAGTAAATAAAA
Found at i:10023765 original size:15 final size:15
Alignment explanation
Indices: 10023717--10023768 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
10023707 CTAAGTAAGT
*
10023717 AAAATAAGT-AAATA
1 AAAATAAATAAAATA
*
10023731 AATAATATATAACAAT-
1 AA-AATAAATAA-AATA
10023747 AAAATAAATAAAATA
1 AAAATAAATAAAATA
10023762 AAAATAA
1 AAAATAA
10023769 TTTCCATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 5 0.16
15 20 0.65
16 3 0.10
17 3 0.10
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (15 bp):
AAAATAAATAAAATA
Found at i:10025147 original size:36 final size:35
Alignment explanation
Indices: 10025068--10025154 Score: 129
Period size: 36 Copynumber: 2.5 Consensus size: 35
10025058 GTGATGTGGC
* * *
10025068 GTGGGAGTGCACATGATGATATTGCTGTGTGTGGT
1 GTGGGAGTGCACATGATGACATTGCTATGTGCGGT
*
10025103 GTGGGAGTGCATATGATGACATTAGCTATGTGCGGT
1 GTGGGAGTGCACATGATGACATT-GCTATGTGCGGT
10025139 GTGGGAGTGCACATGA
1 GTGGGAGTGCACATGA
10025155 GTTGGATTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 21 0.46
36 25 0.54
ACGTcount: A:0.21, C:0.10, G:0.39, T:0.30
Consensus pattern (35 bp):
GTGGGAGTGCACATGATGACATTGCTATGTGCGGT
Found at i:10025260 original size:2 final size:2
Alignment explanation
Indices: 10025248--10025373 Score: 166
Period size: 2 Copynumber: 62.5 Consensus size: 2
10025238 TTATCTATGG
* *
10025248 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GA- AGT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT
*
10025291 AT AT AT AT AT AT AT NT 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 AT AT AT AT AT AT AT AT
* *
10025333 AT AT AT AG A- AGT AG AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10025374 CATAAATTAT
Statistics
Matches: 110, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
1 2 0.02
2 105 0.95
3 3 0.03
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:10029224 original size:15 final size:15
Alignment explanation
Indices: 10029191--10029230 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
10029181 AGATTTTCAA
* *
10029191 TTTCTTTT-TCTCGT
1 TTTCTTTTCTTTCCT
10029205 TTTCTTTTCTTTCCT
1 TTTCTTTTCTTTCCT
10029220 TTTCTTTTCTT
1 TTTCTTTTCTT
10029231 ACTCCTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.75
Consensus pattern (15 bp):
TTTCTTTTCTTTCCT
Found at i:10033363 original size:35 final size:35
Alignment explanation
Indices: 10033317--10033593 Score: 245
Period size: 35 Copynumber: 7.9 Consensus size: 35
10033307 TCCTTTAGAA
***
10033317 GCCCAATTAACTTAATTGTTTAATTTAATCAATTAG
1 GCCCAA-TAACTTAATTAAATAATTTAATCAATTAG
* * *
10033353 GCCCAATAACTTAATTAAACAATTTAATTAATTAA
1 GCCCAATAACTTAATTAAATAATTTAATCAATTAG
* * * * *
10033388 GCCCAACAATTTAATTAAACAATTTTAATCAACTAA
1 GCCCAATAACTTAATTAAATAA-TTTAATCAATTAG
* * *
10033424 GCCCAATGACTAAATTAAACAAATTTAATCAATTAG
1 GCCCAATAACTTAATTAAA-TAATTTAATCAATTAG
**** *
10033460 GCCCAATAACTTAATCGTTTAATTTAATTAATTAG
1 GCCCAATAACTTAATTAAATAATTTAATCAATTAG
* *
10033495 GCCCAATGACTTAATTAAATAATTTAATTAATTAG
1 GCCCAATAACTTAATTAAATAATTTAATCAATTAG
* * * ** *
10033530 GCCCAATGATTTAATTAAACAATTTTGTTAATTAG
1 GCCCAATAACTTAATTAAATAATTTAATCAATTAG
*
10033565 G--C-ATAACTTAATTAAACAATTTTAATCAA
1 GCCCAATAACTTAATTAAATAA-TTTAATCAA
10033594 GTGCTTGAGA
Statistics
Matches: 199, Mismatches: 39, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
32 15 0.08
33 7 0.04
35 119 0.60
36 56 0.28
37 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (35 bp):
GCCCAATAACTTAATTAAATAATTTAATCAATTAG
Found at i:10033430 original size:107 final size:107
Alignment explanation
Indices: 10033338--10033586 Score: 258
Period size: 107 Copynumber: 2.4 Consensus size: 107
10033328 TTAATTGTTT
* *
10033338 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAACAATTTAAT
1 AATTTAATCAATTAGGCCCAATAACTTAATCAAACAATTTAATTAATTAAGCCCAACAACTTAAT
*
10033403 TAAACAATTTTAATCAACTAAGCCCAA-TGACTAAATTAAACA
66 TAAACAA-TTTAATCAACTAAGCCCAATTAACTAAATTAAACA
**** * **
10033445 AATTTAATCAATTAGGCCCAATAACTTAATCGTTTAATTTAATTAATTAGGCCCAATGACTTAAT
1 AATTTAATCAATTAGGCCCAATAACTTAATCAAACAATTTAATTAATTAAGCCCAACAACTTAAT
* * * * * * *
10033510 TAAATAATTTAATTAATTAGGCCCAA-TGATTTAATTAAAC-
66 TAAACAATTTAATCAACTAAGCCCAATTAACTAAATTAAACA
** * *
10033550 AATTTTGTTAATTAGG--C-ATAACTTAATTAAACAATTT
1 AATTTAATCAATTAGGCCCAATAACTTAATCAAACAATTT
10033587 TAATCAAGTG
Statistics
Matches: 119, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
102 15 0.13
103 1 0.01
105 13 0.11
106 28 0.24
107 62 0.52
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (107 bp):
AATTTAATCAATTAGGCCCAATAACTTAATCAAACAATTTAATTAATTAAGCCCAACAACTTAAT
TAAACAATTTAATCAACTAAGCCCAATTAACTAAATTAAACA
Found at i:10035488 original size:42 final size:42
Alignment explanation
Indices: 10035423--10035503 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
10035413 GTTGATTTTA
10035423 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* *
10035465 ACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
10035504 TTGCCCCCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.21, C:0.22, G:0.35, T:0.22
Consensus pattern (42 bp):
ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
Found at i:10035774 original size:26 final size:26
Alignment explanation
Indices: 10035738--10035799 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
10035728 TTGCATATGA
10035738 GATGATGATGATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
10035764 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
10035790 GTTGATGATG
1 GATGATGATG
10035800 GGTATATGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.40, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:10039613 original size:20 final size:21
Alignment explanation
Indices: 10039570--10039614 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
10039560 ATGTCTAAAC
* *
10039570 TAATTATTTGAAATGAAATTA
1 TAATTATTTGAAATAAAATAA
*
10039591 TAATTGTTTG-AATAAAATAA
1 TAATTATTTGAAATAAAATAA
10039611 TAAT
1 TAAT
10039615 ATTCAATAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (21 bp):
TAATTATTTGAAATAAAATAA
Found at i:10042983 original size:37 final size:37
Alignment explanation
Indices: 10042876--10042985 Score: 96
Period size: 37 Copynumber: 3.0 Consensus size: 37
10042866 CCTCAGCTCT
* ** * * *
10042876 TGTGCACTCCCTACACGCACAAGGT-AATACCACCATA
1 TGTGCACTCCCTACTCGCAC-ACCTCAATATCATCATG
** *
10042913 TGTGCACTCCCTACTCGCACATTTCAATGTCATCATG
1 TGTGCACTCCCTACTCGCACACCTCAATATCATCATG
* * *
10042950 TGTGCACTCCCTACTTGCATACCTCATTATCATCAT
1 TGTGCACTCCCTACTCGCACACCTCAATATCATCAT
10042986 ACAACATTAT
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
36 2 0.03
37 57 0.97
ACGTcount: A:0.25, C:0.34, G:0.12, T:0.29
Consensus pattern (37 bp):
TGTGCACTCCCTACTCGCACACCTCAATATCATCATG
Found at i:10059660 original size:27 final size:27
Alignment explanation
Indices: 10059628--10059708 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
10059618 CTATGTGCGG
10059628 TGTGGGAGTGCATATGAGCTGATGAC-
1 TGTGGGAGTGCATATGAGCTGATGACA
* *
10059654 TGATGGGTGATG-ATTTGAGCT-ATGTACA
1 TG-TGGGAG-TGCATATGAGCTGATG-ACA
* *
10059682 GTGTGGGAGTGCACATGAGTTGATGAC
1 -TGTGGGAGTGCATATGAGCTGATGAC
10059709 CGGAGGATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
26 5 0.12
27 17 0.40
28 15 0.36
29 5 0.12
ACGTcount: A:0.23, C:0.10, G:0.37, T:0.30
Consensus pattern (27 bp):
TGTGGGAGTGCATATGAGCTGATGACA
Found at i:10059686 original size:55 final size:55
Alignment explanation
Indices: 10059609--10059819 Score: 289
Period size: 55 Copynumber: 3.8 Consensus size: 55
10059599 TGATGATGGG
* * * *
10059609 TGATTCTAGCTATGTGCGGTGTGGGAGTGCATATGAGCTGATGA-CTGATGGGTGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGA-GGATGA
** * * *
10059664 TGATTTGAGCTATGTACAGTGTGGGAGTGCACATGAGTTGATGACCGGAGGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGAGGATGA
* *
10059719 TGATTCCAGCTATGTGTGGTGTGGGAGTGCACATGAGCTGATGATCGGAGGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGAGGATGA
* *
10059774 TGATTCCAGCTATGTGTGGTGTGGGAGTGCACATGAGCTAATGACC
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACC
10059820 TGTGGTTGCA
Statistics
Matches: 138, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
55 135 0.98
56 3 0.02
ACGTcount: A:0.22, C:0.13, G:0.36, T:0.28
Consensus pattern (55 bp):
TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGAGGATGA
Found at i:10064811 original size:35 final size:36
Alignment explanation
Indices: 10064764--10064850 Score: 131
Period size: 36 Copynumber: 2.4 Consensus size: 36
10064754 GTGATGTGGC
* * *
10064764 ATGGGAGTGCACATGATGATATT-GCTGTGTGCGGT
1 ATGGGAGTGCACATGATGACATTAGCTATGTGCGAT
*
10064799 GTGGGAGTGCACATGATGACATTAGCTATGTGCGAT
1 ATGGGAGTGCACATGATGACATTAGCTATGTGCGAT
10064835 ATGGGAGTGCACATGA
1 ATGGGAGTGCACATGA
10064851 GTTGGATTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 21 0.46
36 25 0.54
ACGTcount: A:0.24, C:0.13, G:0.36, T:0.28
Consensus pattern (36 bp):
ATGGGAGTGCACATGATGACATTAGCTATGTGCGAT
Found at i:10065184 original size:62 final size:62
Alignment explanation
Indices: 10065087--10065227 Score: 173
Period size: 62 Copynumber: 2.3 Consensus size: 62
10065077 TTTTCACCAC
*
10065087 AGCCAAATTGATTCTCTTTGCAGCGAGAAACTTTTTGT-CTTAAAAGTCATTGTTCTCG-CTAT
1 AGCCAAATTGATTCTCTTTGCAGCGAGAAACTTTTT-TCCTTAAAAGTCACTGTTCTCGTC-AT
* * *
10065149 AGCCAAATTGACTT-T-TGTTGCAGCGAGAAACTTTTTTCCTTGAGAGTCACTGTTCTCGTCGT
1 AGCCAAATTGA-TTCTCT-TTGCAGCGAGAAACTTTTTTCCTTAAAAGTCACTGTTCTCGTCAT
10065211 AGCCAAATTTGATTCTC
1 AGCCAAA-TTGATTCTC
10065228 GCCGCTGTGA
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
61 2 0.03
62 58 0.85
63 8 0.12
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.38
Consensus pattern (62 bp):
AGCCAAATTGATTCTCTTTGCAGCGAGAAACTTTTTTCCTTAAAAGTCACTGTTCTCGTCAT
Found at i:10066407 original size:37 final size:36
Alignment explanation
Indices: 10066361--10066473 Score: 90
Period size: 36 Copynumber: 3.1 Consensus size: 36
10066351 GCACATGGCA
*
10066361 TATATCATCAGTGTGTGCACTCACACAGCACACCAC
1 TATACCATCAGTGTGTGCACTCACACAGCACACCAC
* * * *
10066397 TATCGCCATCA---TGTACACTCCCACATCGCACATGGCA-
1 TAT-ACCATCAGTGTGTGCACTCACACA--GCACA--CCAC
* *
10066434 TATATCATCAGTGTGTGCACTCACATAGCACACCAC
1 TATACCATCAGTGTGTGCACTCACACAGCACACCAC
10066470 TATA
1 TATA
10066474 ATCCGCTCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 18
0.66 0.13 0.21
Matches are distributed among these distances:
34 12 0.21
35 2 0.04
36 17 0.30
37 13 0.23
38 2 0.04
39 11 0.19
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.24
Consensus pattern (36 bp):
TATACCATCAGTGTGTGCACTCACACAGCACACCAC
Found at i:10066528 original size:43 final size:42
Alignment explanation
Indices: 10066478--10066602 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 42
10066468 ACTATAATCC
10066478 GCTCATGTGCACTCCTACAGCGCACATAGCTAGGTCATCATCA
1 GCTCATGTGCACTCCTACA-CGCACATAGCTAGGTCATCATCA
* * * * *
10066521 GCTCATGTGCACTCCTACACCACACATCGTTGGGTCATTATCA
1 GCTCATGTGCACTCCTACA-CGCACATAGCTAGGTCATCATCA
*
10066564 GCTCATGTGCACAT-CTACACTGCACATAACTAGGTCATC
1 GCTCATGTGCAC-TCCTACAC-GCACATAGCTAGGTCATC
10066603 TTTATCACAC
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.01
43 66 0.97
44 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (42 bp):
GCTCATGTGCACTCCTACACGCACATAGCTAGGTCATCATCA
Found at i:10088505 original size:58 final size:57
Alignment explanation
Indices: 10088409--10088609 Score: 214
Period size: 58 Copynumber: 3.5 Consensus size: 57
10088399 GGAGAAAGAA
* * * * *
10088409 AAGAAA-AAGAAAAAG-ATAAGAAGAAAAAGGAGAGAGGGAGCATGGCGACGAGGGAG
1 AAGAAAGAAGAGAAAGAAAAAGAATAAGAAGGAGAAAGGGAGCA-GGCGACGAGGGAG
*
10088465 AAGAAAGAAGAGAAAGAAAAAGAATGAGAAGGAGAAAGGGAGCACGGCGACGAGGGAG
1 AAGAAAGAAGAGAAAGAAAAAGAATAAGAAGGAGAAAGGGAGCA-GGCGACGAGGGAG
* * * *
10088523 AAGAAATAAGAGAAAGAAAAAGAATAAGAAGGAG-AGGAGGAGCA-ACGATGAGGGAG
1 AAGAAAGAAGAGAAAGAAAAAGAATAAGAAGGAGAAAG-GGAGCAGGCGACGAGGGAG
* *
10088579 AAG-AAGAAGAGGGAAGAAAGAAGAAAAAGAA
1 AAGAAAGAAGA-GAAAGAAA-AAGAATAAGAA
10088610 AAAGAAGAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
55 6 0.05
56 26 0.21
57 20 0.16
58 73 0.58
ACGTcount: A:0.56, C:0.04, G:0.37, T:0.03
Consensus pattern (57 bp):
AAGAAAGAAGAGAAAGAAAAAGAATAAGAAGGAGAAAGGGAGCAGGCGACGAGGGAG
Found at i:10088772 original size:2 final size:2
Alignment explanation
Indices: 10088760--10088799 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
10088750 TTTATGTCCT
*
10088760 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10088800 GACATGTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:10089393 original size:60 final size:59
Alignment explanation
Indices: 10089293--10089532 Score: 322
Period size: 60 Copynumber: 4.0 Consensus size: 59
10089283 TTTGTTTGTA
*
10089293 AAAGCGGGACTTGAAGCCCCGATTTATAATTGGTGGCGTGGGTAGTTCCCACGAGTAGGT
1 AAAG-GGGACTTGAAGCCCCGATTTATATTTGGTGGCGTGGGTAGTTCCCACGAGTAGGT
* * *
10089353 CAAGGGAGACTTGAAGCCCCGATTTATATTTAGTGGCGTGGGTAGTTCCTACGAGTAGGT
1 AAAGGG-GACTTGAAGCCCCGATTTATATTTGGTGGCGTGGGTAGTTCCCACGAGTAGGT
* * *
10089413 AAAGGGGAACCTGAAGCCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACAAGTAGGT
1 AAAGGGG-ACTTGAAGCCCCGATTTATATTTGGTGGCGTGGGTAGTTCCCACGAGTAGGT
* * *
10089473 AAAAAGGGGGACTTGAAGCACCGA-TT-CATTTGGTGGCGTGGGCAGTTCCCACGAGTAGGT
1 --AAA-GGGGACTTGAAGCCCCGATTTATATTTGGTGGCGTGGGTAGTTCCCACGAGTAGGT
10089533 GATGATGTAT
Statistics
Matches: 159, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
59 3 0.02
60 135 0.85
61 2 0.01
62 15 0.09
63 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.25
Consensus pattern (59 bp):
AAAGGGGACTTGAAGCCCCGATTTATATTTGGTGGCGTGGGTAGTTCCCACGAGTAGGT
Found at i:10094323 original size:21 final size:21
Alignment explanation
Indices: 10094299--10094362 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
10094289 AACATTCAAC
10094299 TATCGATAAATGAAGAACATT
1 TATCGATAAATGAAGAACATT
*
10094320 TATCGATAAATGAAGAACATC
1 TATCGATAAATGAAGAACATT
* * * *
10094341 TATTGATAGATTAATAACATT
1 TATCGATAAATGAAGAACATT
10094362 T
1 T
10094363 TTCAAATTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (21 bp):
TATCGATAAATGAAGAACATT
Found at i:10096095 original size:3 final size:3
Alignment explanation
Indices: 10096087--10096120 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
10096077 TACACAAATA
*
10096087 ATG ATG ATG ATC ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
10096121 CTATATGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:10106928 original size:38 final size:40
Alignment explanation
Indices: 10106886--10106986 Score: 116
Period size: 38 Copynumber: 2.6 Consensus size: 40
10106876 ATAGTGCCCG
*
10106886 TGTGCATGATGTGGGGGGATGTAAACGATGGCACT-GAT-
1 TGTGCACGATGTGGGGGGATGTAAACGATGGCACTGGATA
* ** * * *
10106924 TGTGCACGTTGTGGGGGGATCCACACGATGGCGCTGGCTA
1 TGTGCACGATGTGGGGGGATGTAAACGATGGCACTGGATA
*
10106964 TGTGCACAATGTGGGGGGATGTA
1 TGTGCACGATGTGGGGGGATGTA
10106987 CATGAGCCAG
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
38 29 0.58
39 2 0.04
40 19 0.38
ACGTcount: A:0.20, C:0.15, G:0.41, T:0.25
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTAAACGATGGCACTGGATA
Found at i:10110681 original size:20 final size:20
Alignment explanation
Indices: 10110620--10110682 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
10110610 TATATACCCA
10110620 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAAC
* * *
10110639 CCATTATCATCATCACCAGC
1 TCATCATCATCATCACCAAC
10110659 TCATCATCATCATCACCAAC
1 TCATCATCATCATCACCAAC
10110679 TCAT
1 TCAT
10110683 GCGCACTCCC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 9 0.24
20 28 0.76
ACGTcount: A:0.32, C:0.40, G:0.02, T:0.27
Consensus pattern (20 bp):
TCATCATCATCATCACCAAC
Found at i:10110733 original size:43 final size:43
Alignment explanation
Indices: 10110681--10110790 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
10110671 TCACCAACTC
** *
10110681 ATGCGCACTCCCTACTCGCACATGGCTGAGTCATCATCGAG-TT
1 ATGCGCACTCCCTACTCGCACATAACCGAGTCATCATCG-GCTT
* * *
10110724 ATGCACACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGAGTCATCATCGGCTT
*
10110767 ATGCGCATTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
10110791 GTCAATCAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 57 0.98
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGAGTCATCATCGGCTT
Found at i:10116105 original size:42 final size:42
Alignment explanation
Indices: 10116052--10116219 Score: 185
Period size: 42 Copynumber: 4.0 Consensus size: 42
10116042 TGTTGATGTG
* * *
10116052 GACCCGGCTATGTGCGAGTAGGAGTGCTCATACGCCGATGAT
1 GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCGATGAT
* *
10116094 GA-CCTGACTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
1 GACCCAG-CTATGTGCGAGTAGGAGTGCACATAAGCCGATGAT
* * *
10116136 GACCCAGCTATGTGTGAGTAAGAGTGCACATAAGCCGATGCT
1 GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCGATGAT
* * * * * *
10116178 GACCCAGCCATGTGCTAGTGGGGAGTGTACATGAGCTGATGA
1 GACCCAGCTATGTGCGAGT-AGGAGTGCACATAAGCCGATGA
10116220 CGATGGGAGA
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
41 3 0.03
42 84 0.79
43 19 0.18
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (42 bp):
GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCGATGAT
Found at i:10116253 original size:2 final size:2
Alignment explanation
Indices: 10116246--10116282 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
10116236 ATGATGATGG
*
10116246 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10116283 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:10125833 original size:77 final size:77
Alignment explanation
Indices: 10125751--10125915 Score: 269
Period size: 77 Copynumber: 2.1 Consensus size: 77
10125741 TGAAATTTTC
* *
10125751 AAATTAAAATAATATCCTTAATTTTAGGAATTTCTTTTAAAGTAGGAAACAATTTTTTATTCTT-
1 AAATTAAAATAATATCCTTAATTTTAGGAATTGCTTTTAAAGTAGGAAACAATTTCTTATT-TTA
10125815 TATGAATCACCCA
65 TATGAATCACCCA
** *
10125828 AAATTAAAATTCTATCCTTAATTTTAGGAATTGCTTTTAAAGTAGTAAACAATTTCTTATTTTAT
1 AAATTAAAATAATATCCTTAATTTTAGGAATTGCTTTTAAAGTAGGAAACAATTTCTTATTTTAT
10125893 ATGAATCACCCA
66 ATGAATCACCCA
10125905 AAATTAAAATA
1 AAATTAAAATA
10125916 GAAGATTTTA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
76 2 0.02
77 79 0.98
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.41
Consensus pattern (77 bp):
AAATTAAAATAATATCCTTAATTTTAGGAATTGCTTTTAAAGTAGGAAACAATTTCTTATTTTAT
ATGAATCACCCA
Found at i:10131581 original size:43 final size:44
Alignment explanation
Indices: 10131490--10131590 Score: 143
Period size: 43 Copynumber: 2.3 Consensus size: 44
10131480 ATGTGCGTGT
* *
10131490 GGGAGTGCACATGAGCTGATGATGACCCAAATATATGTGGTGTA
1 GGGAGTGCACATGAGCTGATGATGACCCAAACATATGTGGAGTA
* * *
10131534 -GGAGTGCACATGAGCTGATGATGACCCGACCATGTG-GGAGTA
1 GGGAGTGCACATGAGCTGATGATGACCCAAACATATGTGGAGTA
10131576 GGGAGTGCACATGAG
1 GGGAGTGCACATGAG
10131591 TGAGTATGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
42 5 0.10
43 46 0.90
ACGTcount: A:0.28, C:0.16, G:0.36, T:0.21
Consensus pattern (44 bp):
GGGAGTGCACATGAGCTGATGATGACCCAAACATATGTGGAGTA
Found at i:10151548 original size:9 final size:9
Alignment explanation
Indices: 10151534--10151561 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10151524 GGCTGTGTTT
10151534 TATGAATTG
1 TATGAATTG
10151543 TATGAATTG
1 TATGAATTG
10151552 TATGAATTG
1 TATGAATTG
10151561 T
1 T
10151562 TTTATTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
TATGAATTG
Found at i:10156430 original size:12 final size:12
Alignment explanation
Indices: 10156404--10156453 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
10156394 AACCGAGAGG
10156404 AAGAAGAGAAAAA
1 AAGAAGAG-AAAA
10156417 AAGAAGAGAAAA
1 AAGAAGAGAAAA
*
10156429 AAAAAGAGAGAAA
1 AAGAAGAGA-AAA
*
10156442 GAGAAAGAGAAA
1 AAG-AAGAGAAA
10156454 GGAAACAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 12 0.38
13 14 0.44
14 6 0.19
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AAGAAGAGAAAA
Found at i:10156487 original size:29 final size:29
Alignment explanation
Indices: 10156415--10156487 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
10156405 AGAAGAGAAA
10156415 AAAAGAAGAGAAAAAAAAAGAGAGAAAGAG
1 AAAAGAA-AGAAAAAAAAAGAGAGAAAGAG
* *
10156445 AAAGAGAAAGGAAACAAAGAGAGGAGAAAG-G
1 AAA-AGAAA-GAAAAAAAAAGA-GAGAAAGAG
*
10156476 AGAAGAAAGAAA
1 AAAAGAAAGAAA
10156488 TGAGAGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
29 4 0.11
30 9 0.24
31 17 0.46
32 7 0.19
ACGTcount: A:0.68, C:0.01, G:0.30, T:0.00
Consensus pattern (29 bp):
AAAAGAAAGAAAAAAAAAGAGAGAAAGAG
Found at i:10156492 original size:21 final size:20
Alignment explanation
Indices: 10156407--10156492 Score: 61
Period size: 21 Copynumber: 4.3 Consensus size: 20
10156397 CGAGAGGAAG
*
10156407 AAGAGAAA-AAAAGAAGAGAA
1 AAGAGAAAGGAAAGAA-AGAA
* *
10156427 AA-A-AAAAGAGAGAAAGAGA
1 AAGAGAAAGGAAAGAAAGA-A
* *
10156446 AAGAGAAAGGAAACAAAGAG
1 AAGAGAAAGGAAAGAAAGAA
*
10156466 AGGAGAAAGGAGAAGAAAGAA
1 AAGAGAAAGGA-AAGAAAGAA
*
10156487 ATGAGA
1 AAGAGA
10156493 GAAAACCTTG
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
18 6 0.12
19 9 0.18
20 13 0.25
21 23 0.45
ACGTcount: A:0.67, C:0.01, G:0.30, T:0.01
Consensus pattern (20 bp):
AAGAGAAAGGAAAGAAAGAA
Found at i:10157596 original size:43 final size:42
Alignment explanation
Indices: 10157510--10157638 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 42
10157500 TTGTGTGATA
* * *
10157510 ATGATGACCCAGCTATGTGCATATGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGTGTAGGAGTGCACATGAGCTG
*
10157552 ATGATGACCCAGCTATGTGCGGTGTAGGAGTCCACATGAGCTG
1 ATGATGACCCAGCTATGTGC-GTGTAGGAGTGCACATGAGCTG
* * *
10157595 ATGATGACCC-GACCATGTGTGAGTAGGGAGTGCACATGAGCTG
1 ATGATGACCCAG-CTATGTGCGTGTA-GGAGTGCACATGAGCTG
10157638 A
1 A
10157639 GTATGGAGGA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 25 0.33
43 51 0.67
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (42 bp):
ATGATGACCCAGCTATGTGCGTGTAGGAGTGCACATGAGCTG
Found at i:10171346 original size:21 final size:22
Alignment explanation
Indices: 10171306--10171346 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10171296 CCATTGGTCC
*
10171306 GTTTTTAAAATTTCATCCATTT
1 GTTTCTAAAATTTCATCCATTT
*
10171328 GTTTCTAAATTTTCA-CCAT
1 GTTTCTAAAATTTCATCCAT
10171347 ACACTTGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (22 bp):
GTTTCTAAAATTTCATCCATTT
Found at i:10173716 original size:74 final size:71
Alignment explanation
Indices: 10173435--10173717 Score: 216
Period size: 73 Copynumber: 3.9 Consensus size: 71
10173425 CGGTCCAAAA
* * * * * * * *
10173435 ATAGAAAAGACTTAGTCGACCAATAAGCATGGTTAGTCGACTAAGTG-TTCATTGCCAAAAACT-
1 ATAGAAACGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGCCTC-TT--CAAAAATTG
*
10173498 GAATTCAGAG
63 GGA-TCAGAG
* * * * * *
10173508 ACA-AAGACGACCTAATCAACTAAGAAGCATTGTTAGTCGACTAAGAGCTTATTCACAGAAAGTG
1 ATAGAA-ACGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGCCTCTTCA-A-AAATTG
*
10173572 GGTTCAGAG
63 GGATCAGAG
* * *
10173581 ATAGAGACGACTTAATCGACTAAGAAGCATTGTTAGTTGACTAAGA-CCTTACTACCAAAAATTG
1 ATAGAAACGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGCC-T-CT-TCAAAAATTG
10173645 GGATCAGAAG
63 GGATCAG-AG
* *
10173655 ATAGAAATGACTTAATCGACTAAGAAGTA-TGTTAGTCGACTAAGAGCACTCTGTCAGAAAATT
1 ATAGAAACGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGC-CTCT-TCA-AAAATT
10173718 TGAATATAAA
Statistics
Matches: 168, Mismatches: 29, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
71 2 0.01
72 4 0.02
73 117 0.70
74 42 0.25
75 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (71 bp):
ATAGAAACGACTTAATCGACTAAGAAGCATTGTTAGTCGACTAAGAGCCTCTTCAAAAATTGGGA
TCAGAG
Found at i:10174986 original size:43 final size:44
Alignment explanation
Indices: 10174938--10175096 Score: 191
Period size: 43 Copynumber: 3.7 Consensus size: 44
10174928 TTCCCAGCTC
* * *
10174938 ATGCGCACTCCCTACTCGCACAT-GCCTAGGTCATTACCGGGTG
1 ATGCGCACTCCCTACTCGCACATAGCCTAGGTCATCACCAGGTT
* *
10174981 ATGCGCACTCCCTACTCGCACATA--ATCGGCTCATCACCAGGTT
1 ATGCGCACTCCCTACTCGCACATAGCCTAGG-TCATCACCAGGTT
* * * * *
10175024 ATACGCACTCCCTACTCGCACATAACCGA-GTCATCATCAGCTT
1 ATGCGCACTCCCTACTCGCACATAGCCTAGGTCATCACCAGGTT
10175067 ATGCGCACTCCCTACTCGCACATAGCCTAG
1 ATGCGCACTCCCTACTCGCACATAGCCTAG
10175097 TCAATATCAT
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
42 3 0.03
43 93 0.96
44 1 0.01
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.23
Consensus pattern (44 bp):
ATGCGCACTCCCTACTCGCACATAGCCTAGGTCATCACCAGGTT
Found at i:10175940 original size:49 final size:48
Alignment explanation
Indices: 10175861--10175958 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 48
10175851 TGTTTTCATG
10175861 CTACACATCATTAATCACCTAAAAACACTAACATACCTAAAAATCAAA
1 CTACACATCATTAATCACCTAAAAACACTAACATACCTAAAAATCAAA
10175909 CNTACACATCATTAATCACCT-AAAACAACTAACATACCTAAAAATCAAA
1 C-TACACATCATTAATCACCTAAAAAC-ACTAACATACCTAAAAATCAAA
10175958 C
1 C
10175959 CAATCCAAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
48 6 0.12
49 42 0.88
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.20
Consensus pattern (48 bp):
CTACACATCATTAATCACCTAAAAACACTAACATACCTAAAAATCAAA
Found at i:10178411 original size:42 final size:42
Alignment explanation
Indices: 10178335--10178424 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 42
10178325 TTATGTGATA
*
10178335 ATGATGACCCAGCTAGGTGTGTGTAGGAGTGCACATAAGCTG
1 ATGATGACCCAGCTAGGTGTGTGTAGGAGGGCACATAAGCTG
* * *
10178377 ATGATGACCCAGCTATGTGCT-TGTGGGAGGGCACATGAGCTG
1 ATGATGACCCAGCTAGGTG-TGTGTAGGAGGGCACATAAGCTG
10178419 ATGATG
1 ATGATG
10178425 GTGGGATGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.24
Consensus pattern (42 bp):
ATGATGACCCAGCTAGGTGTGTGTAGGAGGGCACATAAGCTG
Found at i:10179535 original size:13 final size:13
Alignment explanation
Indices: 10179517--10179549 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
10179507 TGGTTTTAGA
10179517 AATGATGGTTGGG
1 AATGATGGTTGGG
*
10179530 AATGATAGTTGGG
1 AATGATGGTTGGG
10179543 AATGATG
1 AATGATG
10179550 ATCGGGTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.39, T:0.30
Consensus pattern (13 bp):
AATGATGGTTGGG
Found at i:10181212 original size:43 final size:42
Alignment explanation
Indices: 10181097--10181213 Score: 153
Period size: 42 Copynumber: 2.8 Consensus size: 42
10181087 GGACCTGGCT
* * * *
10181097 ATGTGCGAGTAGGAGTGTACATAAGCTAATGATGACCCAACT
1 ATGTGCGAGTGGGAGTGCACATAAGCTGATGATGACCCAACC
*
10181139 ATGTGCGAGTGGGAGTGCACATAAGCTGATGATGACCTAACC
1 ATGTGCGAGTGGGAGTGCACATAAGCTGATGATGACCCAACC
* * *
10181181 ATGTGCTAGTGGAGAGTGCACATGAGTTGATGA
1 ATGTGCGAGTGG-GAGTGCACATAAGCTGATGA
10181214 CAATGGGAGA
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 48 0.73
43 18 0.27
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (42 bp):
ATGTGCGAGTGGGAGTGCACATAAGCTGATGATGACCCAACC
Found at i:10184779 original size:298 final size:297
Alignment explanation
Indices: 10184243--10184836 Score: 1125
Period size: 298 Copynumber: 2.0 Consensus size: 297
10184233 ATCAAGCCTT
* *
10184243 AACCAATCCCAATTGATTGCAAGGCTTATCCCAACATCTCCCACTAGCACAAAGCCAATTGCTAC
1 AACCAATCCCAATTGACTGCAAGGCTCATCCCAACATCTCCCACTAGCACAAAGCCAATTGCTAC
10184308 CTCACCGTATGTGGATTCAATCCATCTAGTAATCATGTCTACATGTAGACTCGCTTGTGCCCTTC
66 CTCACCGTATGTGGATTCAATCCATCTAGTAATCATGTCTACATGTAGACTCGCTTGTGCCCTTC
10184373 AATGTGGTTAATTACTTTTATCTATCTTTGTGATGTCCATGCATCACATCATGTCATATTACTAT
131 AATGTGGTTAATTACTTTTATCTATCTTTGTGATGTCCATGCATCACATCATGTCATATTACTAT
10184438 ATCTAGATCCAATAAGACCCAGCATTTGATTGTATGGCTCCATTGTTACATTAACAATGTTCAAA
196 ATCTAGATCCAATAAGACCCAGCATTTGATTGTATGGCTCCATTGTTACATTAACAATGTTCAAA
10184503 ACCTTTTATTAGTTCTAAGGAATAATGATCTAAGTANA
261 ACCTTTTATTAGTTCTAAGGAATAATGATCTAAGTA-A
* * *
10184541 AACCAATCCCAATTGGCTGCAGGGCTCATTCCAACATCTCCCACTAGCACAAAGCCAATTGCTAC
1 AACCAATCCCAATTGACTGCAAGGCTCATCCCAACATCTCCCACTAGCACAAAGCCAATTGCTAC
*
10184606 CTCACCGTATGTGGATTCAATCCATCTAGTAATCATGTCTACATGTAGACTCGCTTGTGCCTTTC
66 CTCACCGTATGTGGATTCAATCCATCTAGTAATCATGTCTACATGTAGACTCGCTTGTGCCCTTC
10184671 AATGTGGTTAATTACTTTTATCTATCTTTGTGATGTCCATGCATCACATCATGTCATATTACTAT
131 AATGTGGTTAATTACTTTTATCTATCTTTGTGATGTCCATGCATCACATCATGTCATATTACTAT
10184736 ATCTAGATCCAATAAGACCCAGCATTTGATTGTATGGCTCCATTGTTACATTAACAATGTTCAAA
196 ATCTAGATCCAATAAGACCCAGCATTTGATTGTATGGCTCCATTGTTACATTAACAATGTTCAAA
10184801 ACCTTTTATTAGTTCTAAGGAATAATGATCTAAGTA
261 ACCTTTTATTAGTTCTAAGGAATAATGATCTAAGTA
10184837 TCTTCCTATT
Statistics
Matches: 290, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
298 290 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (297 bp):
AACCAATCCCAATTGACTGCAAGGCTCATCCCAACATCTCCCACTAGCACAAAGCCAATTGCTAC
CTCACCGTATGTGGATTCAATCCATCTAGTAATCATGTCTACATGTAGACTCGCTTGTGCCCTTC
AATGTGGTTAATTACTTTTATCTATCTTTGTGATGTCCATGCATCACATCATGTCATATTACTAT
ATCTAGATCCAATAAGACCCAGCATTTGATTGTATGGCTCCATTGTTACATTAACAATGTTCAAA
ACCTTTTATTAGTTCTAAGGAATAATGATCTAAGTAA
Found at i:10190950 original size:2 final size:2
Alignment explanation
Indices: 10190943--10190973 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10190933 NNNNNNNNNG
10190943 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10190974 GAATAATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10216011 original size:34 final size:35
Alignment explanation
Indices: 10215946--10216019 Score: 98
Period size: 34 Copynumber: 2.1 Consensus size: 35
10215936 TTGTTTTTGT
* *
10215946 TGGATTGTGAATGGCAAATGTTTTTAGAATGAATA
1 TGGATTGTGAATGGCAAATGTTTTTAAAATGAACA
*
10215981 TGGATTGTGAATGG-TAAT-TATTTTAAAATGAACA
1 TGGATTGTGAATGGCAAATGT-TTTTAAAATGAACA
10216015 TGGAT
1 TGGAT
10216020 GTTGATTATG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
33 1 0.03
34 20 0.57
35 14 0.40
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (35 bp):
TGGATTGTGAATGGCAAATGTTTTTAAAATGAACA
Found at i:10216793 original size:73 final size:73
Alignment explanation
Indices: 10216584--10216842 Score: 268
Period size: 73 Copynumber: 3.5 Consensus size: 73
10216574 AAACAGAAAA
* * * * * *
10216584 GACTTAGTCGACCAAGAAGCATGGTTAGTTGATTAAGTGCTTACTACCAGAAACTGGGTTCAAAG
1 GACTTAATCGACTAAGAAGCATTGTTAGTTGACTAAGAGCTTACTACCAGAAACTGGGTTCAGAG
* * *
10216649 ACAAAGAT
66 ATAGAGAC
* * * * * *
10216657 GACCTAATCAACTAAGAAGCATTGTTAGTCGACTAAGAGTTTACTGCCATAAACTGGGTTCAGAG
1 GACTTAATCGACTAAGAAGCATTGTTAGTTGACTAAGAGCTTACTACCAGAAACTGGGTTCAGAG
10216722 ATAGAGAC
66 ATAGAGAC
* * * * *
10216730 GACTTAATCGACTAAGATGCATTGTTAGTTGACTAAGACCTTACTACTAGAAACTAGGATCAGAA
1 GACTTAATCGACTAAGAAGCATTGTTAGTTGACTAAGAGCTTACTACCAGAAACTGGGTTCAG-A
*
10216795 GATAGAAAC
65 GATAGAGAC
* * * **
10216804 AACTTCATCGACTAAGAAGTA-TGTTAGTAAACTAAGAGC
1 GACTTAATCGACTAAGAAGCATTGTTAGTTGACTAAGAGC
10216843 ACTTTGTCAT
Statistics
Matches: 151, Mismatches: 34, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
73 125 0.83
74 26 0.17
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (73 bp):
GACTTAATCGACTAAGAAGCATTGTTAGTTGACTAAGAGCTTACTACCAGAAACTGGGTTCAGAG
ATAGAGAC
Found at i:10218225 original size:2 final size:2
Alignment explanation
Indices: 10218218--10218248 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10218208 ACAATATCTA
10218218 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10218249 AGTGAGAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10225048 original size:42 final size:43
Alignment explanation
Indices: 10224959--10225048 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 43
10224949 TCTCCATCGT
* * * *
10224959 CATCAGCTCATGTGCACTCCCCACTAGCACATGGCTGGGTCAG
1 CATCAGCTCATGCGCACTCCCCACTAGCACATAGCCGGGTCAC
* * * *
10225002 CATCAGCTTATGCGCACT-CCTACTCGCACATAGCCGGGTCCC
1 CATCAGCTCATGCGCACTCCCCACTAGCACATAGCCGGGTCAC
10225044 CATCA
1 CATCA
10225049 ACATACGAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 23 0.59
43 16 0.41
ACGTcount: A:0.21, C:0.38, G:0.20, T:0.21
Consensus pattern (43 bp):
CATCAGCTCATGCGCACTCCCCACTAGCACATAGCCGGGTCAC
Found at i:10228516 original size:51 final size:51
Alignment explanation
Indices: 10228408--10228514 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 51
10228398 AATAGGTTGT
* *
10228408 GTAAAATGTTTAGGAGCACTAATTAACAATGTTTTAATTTGTAATTTGTAA
1 GTAAAATGTTTAGGAGCACAAATTAAAAATGTTTTAATTTGTAATTTGTAA
10228459 GTAAAATGTTTAGGAGCACAAATTAAAAATGTTTTAATTTGTAATTTGTAA
1 GTAAAATGTTTAGGAGCACAAATTAAAAATGTTTTAATTTGTAATTTGTAA
10228510 -TAAAA
1 GTAAAA
10228515 ATATAATTCT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
50 5 0.09
51 49 0.91
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (51 bp):
GTAAAATGTTTAGGAGCACAAATTAAAAATGTTTTAATTTGTAATTTGTAA
Found at i:10229157 original size:58 final size:57
Alignment explanation
Indices: 10229062--10229181 Score: 177
Period size: 58 Copynumber: 2.1 Consensus size: 57
10229052 CGTAATCATC
* * * *
10229062 CAAAGTAGTTTACATGTGATAGATTTGTTTTATGCAATTTAATAAATGCGATGCAATG
1 CAAAGTAGTATACATGTGATAAATTTATTTTAGGCAATTTAATAAATGCGATGC-ATG
* *
10229120 CAAAGTAGTATGCATGTGATAAATTTATTTTAGGCAATTTAATAAATGCTATGCATG
1 CAAAGTAGTATACATGTGATAAATTTATTTTAGGCAATTTAATAAATGCGATGCATG
10229177 CAAAG
1 CAAAG
10229182 ATGAGACCCT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
57 8 0.14
58 48 0.86
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (57 bp):
CAAAGTAGTATACATGTGATAAATTTATTTTAGGCAATTTAATAAATGCGATGCATG
Found at i:10232026 original size:35 final size:33
Alignment explanation
Indices: 10231987--10232095 Score: 114
Period size: 35 Copynumber: 3.2 Consensus size: 33
10231977 CCCAAAGTAA
* *
10231987 TTTTTCAAAGGCTTAACCACAACCTTTAACAATGG
1 TTTTTCAAAGGCTCAACCACAA-CTTCAA-AATGG
* * *
10232022 TTTTTC-ACGAGCTCAACCAAAAC-TCAAAGTGG
1 TTTTTCAAAG-GCTCAACCACAACTTCAAAATGG
10232054 TTTTTCAAAGGCTCAACCACAACTTACAATAATGG
1 TTTTTCAAAGGCTCAACCACAACTT-CAA-AATGG
10232089 TTTTTCA
1 TTTTTCA
10232096 CGGGATCAAC
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
32 22 0.36
33 6 0.10
34 6 0.10
35 27 0.44
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (33 bp):
TTTTTCAAAGGCTCAACCACAACTTCAAAATGG
Found at i:10232038 original size:67 final size:67
Alignment explanation
Indices: 10231930--10232115 Score: 223
Period size: 67 Copynumber: 2.8 Consensus size: 67
10231920 CTTTTACTAA
* * * *
10231930 GCTTAGCCAAAACTTTTCACAATGGTTTTT-ACCGGGATCAACCAAAACCCAAAGTAATTTTTCA
1 GCTTAACCACAACCTTTAACAATGGTTTTTCA-CGGGATCAACCAAAACCCAAAGTAATTTTTCA
10231994 AAG
65 AAG
* * * **
10231997 GCTTAACCACAACCTTTAACAATGGTTTTTCACGAGCTCAACCAAAACTCAAAGTGGTTTTTCAA
1 GCTTAACCACAACCTTTAACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTAATTTTTCAA
10232062 AG
66 AG
* * * *
10232064 GCTCAACCACAA-CTTACAATAATGGTTTTTCACGGGATCAACCAGAACCCAA
1 GCTTAACCACAACCTT-TAACAATGGTTTTTCACGGGATCAACCAAAACCCAA
10232116 CAACTAACTT
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
66 3 0.03
67 97 0.96
68 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.26
Consensus pattern (67 bp):
GCTTAACCACAACCTTTAACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTAATTTTTCAA
AG
Found at i:10232105 original size:35 final size:32
Alignment explanation
Indices: 10231950--10232107 Score: 102
Period size: 32 Copynumber: 4.8 Consensus size: 32
10231940 AACTTTTCAC
* *
10231950 AATGGTTTTT-ACCGGGATCAACCAAAACCCAA
1 AATGGTTTTTCA-CGGGCTCAACCAAAACTCAA
* ** ** * * *
10231982 AGTAATTTTTCAAAGGCTTAACCACAACCTTTAA
1 AATGGTTTTTCACGGGCTCAACCA-AAAC-TCAA
*
10232016 CAATGGTTTTTCACGAGCTCAACCAAAACTCAA
1 -AATGGTTTTTCACGGGCTCAACCAAAACTCAA
* ** *
10232049 AGTGGTTTTTCAAAGGCTCAACCACAACTTACAA
1 AATGGTTTTTCACGGGCTCAACCAAAAC-T-CAA
*
10232083 TAATGGTTTTTCACGGGATCAACCA
1 -AATGGTTTTTCACGGGCTCAACCA
10232108 GAACCCAACA
Statistics
Matches: 91, Mismatches: 28, Indels: 11
0.70 0.22 0.08
Matches are distributed among these distances:
32 38 0.42
33 8 0.09
34 8 0.09
35 37 0.41
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.27
Consensus pattern (32 bp):
AATGGTTTTTCACGGGCTCAACCAAAACTCAA
Found at i:10241765 original size:20 final size:20
Alignment explanation
Indices: 10241720--10241757 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
10241710 GTTTGGCCCC
10241720 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
10241740 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
10241758 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:10243010 original size:13 final size:13
Alignment explanation
Indices: 10242992--10243016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10242982 GGAAAAATTG
10242992 TGATTTTATAAAA
1 TGATTTTATAAAA
10243005 TGATTTTATAAA
1 TGATTTTATAAA
10243017 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:10247905 original size:25 final size:25
Alignment explanation
Indices: 10247850--10247905 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
10247840 AGTAGAAAAT
10247850 AAAAATGGGCATGACCCAATAGGAG
1 AAAAATGGGCATGACCCAATAGGAG
* *
10247875 ATAAATGGGC-TTAGCCCAAATAGGA-
1 AAAAATGGGCATGA-CCC-AATAGGAG
10247900 AAAAAT
1 AAAAAT
10247906 TGGAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 2 0.08
25 17 0.65
26 7 0.27
ACGTcount: A:0.46, C:0.14, G:0.23, T:0.16
Consensus pattern (25 bp):
AAAAATGGGCATGACCCAATAGGAG
Found at i:10248674 original size:66 final size:66
Alignment explanation
Indices: 10248593--10248727 Score: 270
Period size: 66 Copynumber: 2.0 Consensus size: 66
10248583 TGGGTGAGAT
10248593 TTTGCAATCCCAATGAGTAAACAGACATTATCATAAATATCTAAAGGCGAGTAACATGGAGGCAA
1 TTTGCAATCCCAATGAGTAAACAGACATTATCATAAATATCTAAAGGCGAGTAACATGGAGGCAA
10248658 G
66 G
10248659 TTTGCAATCCCAATGAGTAAACAGACATTATCATAAATATCTAAAGGCGAGTAACATGGAGGCAA
1 TTTGCAATCCCAATGAGTAAACAGACATTATCATAAATATCTAAAGGCGAGTAACATGGAGGCAA
10248724 G
66 G
10248725 TTT
1 TTT
10248728 AAACAACAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.24
Consensus pattern (66 bp):
TTTGCAATCCCAATGAGTAAACAGACATTATCATAAATATCTAAAGGCGAGTAACATGGAGGCAA
G
Found at i:10253846 original size:22 final size:22
Alignment explanation
Indices: 10253812--10253855 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10253802 GGAAAGGAAA
*
10253812 AGAGGAAGCCACGGTGGTGAAG
1 AGAGCAAGCCACGGTGGTGAAG
*
10253834 AGAGCAAGTCACGGTGGTGAAG
1 AGAGCAAGCCACGGTGGTGAAG
10253856 GGAGTGATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.14, G:0.43, T:0.11
Consensus pattern (22 bp):
AGAGCAAGCCACGGTGGTGAAG
Found at i:10253936 original size:27 final size:28
Alignment explanation
Indices: 10253873--10253925 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
10253863 TGGGTTGGAA
*
10253873 AGAAAA-AAAAAAGGGCATGGCCCAAGT
1 AGAAAATAAAAAAGGGCATGACCCAAGT
*
10253900 AGAAAATAAAAATGGGCATGACCCAA
1 AGAAAATAAAAAAGGGCATGACCCAA
10253926 TAGGAGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.53, C:0.15, G:0.23, T:0.09
Consensus pattern (28 bp):
AGAAAATAAAAAAGGGCATGACCCAAGT
Found at i:10253962 original size:25 final size:25
Alignment explanation
Indices: 10253907--10253962 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
10253897 AGTAGAAAAT
10253907 AAAAATGGGCATGACCCAATAGGAG
1 AAAAATGGGCATGACCCAATAGGAG
* *
10253932 ATAAATGGGC-TTAGCCCAAATAGGA-
1 AAAAATGGGCATGA-CCC-AATAGGAG
10253957 AAAAAT
1 AAAAAT
10253963 TGGAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 2 0.08
25 17 0.65
26 7 0.27
ACGTcount: A:0.46, C:0.14, G:0.23, T:0.16
Consensus pattern (25 bp):
AAAAATGGGCATGACCCAATAGGAG
Found at i:10259235 original size:37 final size:37
Alignment explanation
Indices: 10259128--10259237 Score: 103
Period size: 37 Copynumber: 3.0 Consensus size: 37
10259118 CCTCAGGTCT
* *** * * *
10259128 TGTGCACTCCCTACACGCACAAGGCAATACCACCATA
1 TGTGCACTCCCTACTCGCACACCTCAATATCATCATG
** *
10259165 TGTGCACTCCCTACTCGCACATTTCAATGTCATCATG
1 TGTGCACTCCCTACTCGCACACCTCAATATCATCATG
* * *
10259202 TGTGCACTCCTTACTCTCACACCTCATTATCATCAT
1 TGTGCACTCCCTACTCGCACACCTCAATATCATCAT
10259238 ACAACATTAT
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.35, G:0.11, T:0.28
Consensus pattern (37 bp):
TGTGCACTCCCTACTCGCACACCTCAATATCATCATG
Found at i:10264613 original size:39 final size:39
Alignment explanation
Indices: 10264559--10264639 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
10264549 GGAGATTGAA
* *
10264559 TCTCGCTGCAGCGAAATTGCAAGCCAGAAACAGAATGTT
1 TCTCGCTGCAGCGAAATTGCAACCCAGAAACAGAAAGTT
*
10264598 TCTCGCTGCAGCGAAATTGTAACCCAGAAACAGAAAGTT
1 TCTCGCTGCAGCGAAATTGCAACCCAGAAACAGAAAGTT
10264637 TCT
1 TCT
10264640 AGTTGCAGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (39 bp):
TCTCGCTGCAGCGAAATTGCAACCCAGAAACAGAAAGTT
Found at i:10265107 original size:43 final size:43
Alignment explanation
Indices: 10265019--10265128 Score: 139
Period size: 43 Copynumber: 2.6 Consensus size: 43
10265009 TCACTAGCTC
* ** **
10265019 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCATCGGGTT
1 ATGCGCACTCCCTACTCACACATAACTGGGTCATCATCGACTT
* *
10265062 ATGCGCACTCCCTACTCACACATAACTGGGTCATCCTTGACTT
1 ATGCGCACTCCCTACTCACACATAACTGGGTCATCATCGACTT
* *
10265105 ATGCGCAATCCTTACTCACACATA
1 ATGCGCACTCCCTACTCACACATA
10265129 GTCGAGTCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCACACATAACTGGGTCATCATCGACTT
Found at i:10272218 original size:17 final size:17
Alignment explanation
Indices: 10272178--10272218 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
10272168 GAGAATGTTT
*
10272178 CTTGCTACAGCAAGAAA
1 CTTGCTGCAGCAAGAAA
10272195 CTTGCTGCAGCAAGAAA
1 CTTGCTGCAGCAAGAAA
10272212 CTTGCTG
1 CTTGCTG
10272219 TCATGTTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (17 bp):
CTTGCTGCAGCAAGAAA
Found at i:10277830 original size:39 final size:38
Alignment explanation
Indices: 10277786--10277927 Score: 93
Period size: 39 Copynumber: 3.8 Consensus size: 38
10277776 AGCACACCAC
*
10277786 TATCATTATCATGTGCACTCCCACACCGCACATGGCATA
1 TATCATTATCATGTGCACTCCCACACAGCACA-GGCATA
* * * *
10277825 TATCATCAGT-GTGTGCACT--CACATAGCACA-CCAT-
1 TATCATTA-TCATGTGCACTCCCACACAGCACAGGCATA
* * * *
10277859 TATCACTGTCATGTGCAGTCCCACACTGCACAAGGCATA
1 TATCATTATCATGTGCACTCCCACACAGCAC-AGGCATA
* *
10277898 TATCATCAAT-GTGTGCACT--CACACAGCACA
1 TATCAT-TATCATGTGCACTCCCACACAGCACA
10277928 CCACTATCAC
Statistics
Matches: 76, Mismatches: 19, Indels: 19
0.67 0.17 0.17
Matches are distributed among these distances:
33 1 0.01
34 12 0.16
35 3 0.04
36 9 0.12
37 19 0.25
38 3 0.04
39 27 0.36
40 2 0.03
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.25
Consensus pattern (38 bp):
TATCATTATCATGTGCACTCCCACACAGCACAGGCATA
Found at i:10277843 original size:73 final size:73
Alignment explanation
Indices: 10277723--10277963 Score: 347
Period size: 73 Copynumber: 3.3 Consensus size: 73
10277713 AGAATCATCC
** * *
10277723 TGTGCACTCCCACACCGCACAAGATAATATATCATCGGTGTGTGCACTGACACAGCACACCACTA
1 TGTGCACTCCCACACCGCACAAG-GCATATATCATCAGTGTGTGCACTCACACAGCACACCACTA
* *
10277788 TCATTATCA
65 TCACTGTCA
* * *
10277797 TGTGCACTCCCACACCGCACATGGCATATATCATCAGTGTGTGCACTCACATAGCACACCATTAT
1 TGTGCACTCCCACACCGCACAAGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTAT
10277862 CACTGTCA
66 CACTGTCA
* * *
10277870 TGTGCAGTCCCACACTGCACAAGGCATATATCATCAATGTGTGCACTCACACAGCACACCACTAT
1 TGTGCACTCCCACACCGCACAAGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTAT
*
10277935 CACCGTCA
66 CACTGTCA
*
10277943 TGTGCACTTCCACACCGCACA
1 TGTGCACTCCCACACCGCACA
10277964 CGCACGGTCA
Statistics
Matches: 148, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 126 0.85
74 22 0.15
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.22
Consensus pattern (73 bp):
TGTGCACTCCCACACCGCACAAGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTAT
CACTGTCA
Found at i:10277863 original size:34 final size:34
Alignment explanation
Indices: 10277752--10277936 Score: 113
Period size: 34 Copynumber: 5.1 Consensus size: 34
10277742 CAAGATAATA
* * *
10277752 TATCATCGGTGTGTGCACTGACACAGCACACCAC
1 TATCATCAGTGTGTGCACTCACACAGCACACCAT
* * * *
10277786 TATCATTA-TCATGTGCACTCCCACACCGCACATGGCAT
1 TATCATCAGT-GTGTGCACT--CACACAGCACA--CCAT
*
10277824 ATATCATCAGTGTGTGCACTCACATAGCACACCAT
1 -TATCATCAGTGTGTGCACTCACACAGCACACCAT
* * * * *
10277859 TATCA-CTGTCATGTGCAGTCCCACACTGCACAAGGCAT
1 TATCATCAGT-GTGTGCA--CTCACACAGCAC-A-CCAT
* *
10277897 ATATCATCAATGTGTGCACTCACACAGCACACCAC
1 -TATCATCAGTGTGTGCACTCACACAGCACACCAT
10277932 TATCA
1 TATCA
10277937 CCGTCATGTG
Statistics
Matches: 112, Mismatches: 25, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
33 4 0.04
34 30 0.27
35 5 0.04
36 19 0.17
37 20 0.18
38 5 0.04
39 26 0.23
40 3 0.03
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (34 bp):
TATCATCAGTGTGTGCACTCACACAGCACACCAT
Found at i:10277947 original size:34 final size:34
Alignment explanation
Indices: 10277763--10277964 Score: 86
Period size: 36 Copynumber: 5.6 Consensus size: 34
10277753 ATCATCGGTG
* ***
10277763 TGTGCACTGACACAGCACACCACTATCATTATCA
1 TGTGCACTCACACAGCACACCACTATCACCGTCA
* * * * *
10277797 TGTGCACTCCCACACCGCACATGGCATATATCATCAGT-G
1 TGTGCACT--CACACAGCACA--CCA-CTATCA-CCGTCA
* * *
10277836 TGTGCACTCACATAGCACACCATTATCACTGTCA
1 TGTGCACTCACACAGCACACCACTATCACCGTCA
* * * * *
10277870 TGTGCAGTCCCACACTGCACAAGGCA-TAT-ATCATCAA
1 TGTGCA--CTCACACAGCAC-A-CCACTATCACCGTC-A
10277907 TGTGTGCACTCACACAGCACACCACTATCACCGTCA
1 --TGTGCACTCACACAGCACACCACTATCACCGTCA
*
10277943 TGTGCACTTCCACACCGCACAC
1 TGTGCAC-T-CACACAGCACAC
10277965 GCACGGTCAT
Statistics
Matches: 123, Mismatches: 27, Indels: 34
0.67 0.15 0.18
Matches are distributed among these distances:
33 3 0.02
34 26 0.21
35 5 0.04
36 37 0.30
37 28 0.23
38 4 0.03
39 19 0.15
40 1 0.01
ACGTcount: A:0.29, C:0.35, G:0.14, T:0.22
Consensus pattern (34 bp):
TGTGCACTCACACAGCACACCACTATCACCGTCA
Found at i:10280852 original size:20 final size:20
Alignment explanation
Indices: 10280815--10280852 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10280805 GGGGGGGGGG
*
10280815 TTTGTTTGTTTTTACTTATC
1 TTTGTTTGTTTATACTTATC
*
10280835 TTTGTTTGTTTATCCTTA
1 TTTGTTTGTTTATACTTA
10280853 ATATTTTACA
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:0.11, C:0.11, G:0.11, T:0.68
Consensus pattern (20 bp):
TTTGTTTGTTTATACTTATC
Found at i:10281228 original size:226 final size:227
Alignment explanation
Indices: 10280833--10281285 Score: 730
Period size: 226 Copynumber: 2.0 Consensus size: 227
10280823 TTTTTACTTA
*
10280833 TCTTTGTTTGTTTATCCTTAATATTTTACATGTTTAGGTAGTCTTTATTTCTAGCTTTAAAAAAA
1 TCTTTGTTTGTTTATCCTTAATATTTTACATGTTTAGCTAGTCTTTATTTCTAGCTTTAAAAAAA
* * * *
10280898 AACTGAGATAGTTTGTACCGTTTCCATGATTTTTCCAATCTTGGGATGATAATTTGAATATCTTG
66 AACTGAGATAGTTTGAACCGTTTCAATGATTTTTCCAATCCTAGGATGATAATTTGAATATCTTG
* *
10280963 TGATTTTTAGCTTTTGGGAAACATACGTTTATGATTTAATTTTATGTGATATTCTTGTGTTAGCT
131 TGATTTTTAGCTTTAGGGAAACATACGGTTATGATTTAATTTTATGTGATATTCTTGTGTTAGCT
10281028 TTATTTTAAAATGTGACTTCCAATAATTTGAG
196 TTATTTTAAAATGTGACTTCCAATAATTTGAG
* * * *
10281060 TCTTTGTTTGTTTATCTTTATTATTTTACATGTTTAGCTAGTTTTTATTTTTAGC-TTAAAAAAA
1 TCTTTGTTTGTTTATCCTTAATATTTTACATGTTTAGCTAGTCTTTATTTCTAGCTTTAAAAAAA
** * *
10281124 ATTTGAGATAGTTTGAATC-TTATCAATGATTTTTCCAATCCTAGGATGATAATTTGATTATCTT
66 AACTGAGATAGTTTGAACCGTT-TCAATGATTTTTCCAATCCTAGGATGATAATTTGAATATCTT
*
10281188 GTGATTTTTAGCTTTAGGGAAACATATGGTTATGATTTAATTTTATGTGATATTCTTGTGTTAGC
130 GTGATTTTTAGCTTTAGGGAAACATACGGTTATGATTTAATTTTATGTGATATTCTTGTGTTAGC
*
10281253 TTTATTTTAGAATGTGACTTCCAATAATTTGAG
195 TTTATTTTAAAATGTGACTTCCAATAATTTGAG
10281286 CACCATATAT
Statistics
Matches: 208, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
225 2 0.01
226 156 0.75
227 50 0.24
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.49
Consensus pattern (227 bp):
TCTTTGTTTGTTTATCCTTAATATTTTACATGTTTAGCTAGTCTTTATTTCTAGCTTTAAAAAAA
AACTGAGATAGTTTGAACCGTTTCAATGATTTTTCCAATCCTAGGATGATAATTTGAATATCTTG
TGATTTTTAGCTTTAGGGAAACATACGGTTATGATTTAATTTTATGTGATATTCTTGTGTTAGCT
TTATTTTAAAATGTGACTTCCAATAATTTGAG
Found at i:10282695 original size:25 final size:25
Alignment explanation
Indices: 10282662--10282721 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
10282652 ATGGTTGCAA
* * *
10282662 CCACATATATCAACTCATCGCCTAG
1 CCACGTATAACAACCCATCGCCTAG
* * *
10282687 CCACGTATAACAACCCATGGCTTTG
1 CCACGTATAACAACCCATCGCCTAG
10282712 CCACGTATAA
1 CCACGTATAA
10282722 TCACAAACCG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.32, C:0.33, G:0.12, T:0.23
Consensus pattern (25 bp):
CCACGTATAACAACCCATCGCCTAG
Found at i:10282742 original size:28 final size:25
Alignment explanation
Indices: 10282681--10282742 Score: 61
Period size: 28 Copynumber: 2.4 Consensus size: 25
10282671 TCAACTCATC
*
10282681 GCCTAGCCACGTATAACAACCCATG
1 GCCTAGCCACGTATAACAAACCATG
* * *
10282706 GCTTTGCCACGTATAATCACAAACCGTG
1 GCCTAGCCACGTAT-A--ACAAACCATG
10282734 GCCTAGCCA
1 GCCTAGCCA
10282743 TATCTAATAG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 12 0.43
26 1 0.04
28 15 0.54
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (25 bp):
GCCTAGCCACGTATAACAAACCATG
Found at i:10285698 original size:35 final size:35
Alignment explanation
Indices: 10285652--10285816 Score: 168
Period size: 35 Copynumber: 4.7 Consensus size: 35
10285642 AAGTTGTGCT
* *
10285652 TAATTAATTAAATTGTTTAATTAAATCATTGAGCG
1 TAATTAATTAAATTGTTTAATTAAATCATTGGGCC
*
10285687 TAATTAATTAAATTGTTTAATTAAGTCATTGGGCC
1 TAATTAATTAAATTGTTTAATTAAATCATTGGGCC
* **** * *
10285722 TAATTAATTAAAATAAACAATTAAGTTATTGGGCC
1 TAATTAATTAAATTGTTTAATTAAATCATTGGGCC
* * ** * *
10285757 TAATTGACTAAAATTGTTTAATTAAATTGTTGCGCT
1 TAATT-AATTAAATTGTTTAATTAAATCATTGGGCC
*
10285793 TAATTAGTTAAATTGTTTAATTAA
1 TAATTAATTAAATTGTTTAATTAA
10285817 GTTATTAGAC
Statistics
Matches: 107, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
35 83 0.78
36 24 0.22
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (35 bp):
TAATTAATTAAATTGTTTAATTAAATCATTGGGCC
Found at i:10285797 original size:106 final size:107
Alignment explanation
Indices: 10285661--10285862 Score: 298
Period size: 106 Copynumber: 1.9 Consensus size: 107
10285651 TTAATTAATT
* *
10285661 AAATTGTTTAATTAAATCATTGAGCGTAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAAT
1 AAATTGTTTAATTAAATCATTGAGCGTAATTAATTAAATTGTTTAATTAAGTCATTAGACCTAAT
*
10285726 TAATTAAAATAAACAATTAAGTT-ATTGGGCCTAATTGACTA
66 CAATTAAAATAAACAATTAAGTTAATTGGGCCTAATTGACTA
** * * * *
10285767 AAATTGTTTAATTAAATTGTTGCGCTTAATTAGTTAAATTGTTTAATTAAGTTATTAGACCTAAT
1 AAATTGTTTAATTAAATCATTGAGCGTAATTAATTAAATTGTTTAATTAAGTCATTAGACCTAAT
* *
10285832 CGATTAAATTAAACAATTAAGTTAATTGGGC
66 CAATTAAAATAAACAATTAAGTTAATTGGGC
10285863 TTCTTAAGGA
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
106 77 0.92
107 7 0.08
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (107 bp):
AAATTGTTTAATTAAATCATTGAGCGTAATTAATTAAATTGTTTAATTAAGTCATTAGACCTAAT
CAATTAAAATAAACAATTAAGTTAATTGGGCCTAATTGACTA
Found at i:10285815 original size:71 final size:70
Alignment explanation
Indices: 10285622--10285831 Score: 201
Period size: 71 Copynumber: 3.0 Consensus size: 70
10285612 TTTCAAGCAC
* * * * *
10285622 TTGATTAAAATTGTTTAATT-AA-GTTGTGCTTAATTAATTAAATTGTTTAATTAAATCATTGAG
1 TTGAATAAAATTGTTTAATTAAATGTTGCGCTTAATTAATTAAATTGTTTAATTAAGTTATTGGG
*
10285685 CGTAA
66 CCTAA
* * * * * * ****
10285690 TT-AATTAAATTGTTTAATTAAGTCATTGGGCCTAATTAATTAAAATAAACAATTAAGTTATTGG
1 TTGAATAAAATTGTTTAATTAAAT-GTTGCGCTTAATTAATTAAATTGTTTAATTAAGTTATTGG
10285754 GCCTAA
65 GCCTAA
* * *
10285760 TTGACTAAAATTGTTTAATTAAATTGTTGCGCTTAATTAGTTAAATTGTTTAATTAAGTTATTAG
1 TTGAATAAAATTGTTTAATTAAA-TGTTGCGCTTAATTAATTAAATTGTTTAATTAAGTTATTGG
*
10285825 ACCTAA
65 GCCTAA
10285831 T
1 T
10285832 CGATTAAATT
Statistics
Matches: 108, Mismatches: 29, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
67 15 0.14
68 3 0.03
70 36 0.33
71 53 0.49
72 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (70 bp):
TTGAATAAAATTGTTTAATTAAATGTTGCGCTTAATTAATTAAATTGTTTAATTAAGTTATTGGG
CCTAA
Found at i:10285839 original size:35 final size:33
Alignment explanation
Indices: 10285629--10285841 Score: 158
Period size: 35 Copynumber: 6.2 Consensus size: 33
10285619 CACTTGATTA
* *
10285629 AAATTGTTTAATTAAGTT-GTGCTTAATTAATT
1 AAATTGTTTAATTAAGTTATTGCCTAATTAATT
* * *
10285661 AAATTGTTTAATTAAATCATTGAGCGTAATTAATT
1 AAATTGTTTAATTAAGTTATT--GCCTAATTAATT
*
10285696 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTTATT--GCCTAATTAATT
* **** * *
10285731 AAAATAAACAATTAAGTTATTGGGCCTAATTGACTA
1 AAATTGTTTAATTAAGTTATT--GCCTAATT-AATT
* * *
10285767 AAATTGTTTAATTAAATTGTTGCGCTTAATTAGTT
1 AAATTGTTTAATTAAGTTATTGC-C-TAATTAATT
**
10285802 AAATTGTTTAATTAAGTTATTAGACCTAATCGATT
1 AAATTGTTTAATTAAGTTATT-G-CCTAATTAATT
10285837 AAATT
1 AAATT
10285842 AAACAATTAA
Statistics
Matches: 144, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
32 16 0.11
33 1 0.01
34 2 0.01
35 101 0.70
36 23 0.16
37 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.43
Consensus pattern (33 bp):
AAATTGTTTAATTAAGTTATTGCCTAATTAATT
Found at i:10293010 original size:37 final size:37
Alignment explanation
Indices: 10292958--10293068 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
10292948 CATATACATA
*
10292958 CATCGTCATCATGTGTGCACTCCCTACTCGCACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
*
10292995 TATCATCATCATGTGTGCACTCCCTACTCGCACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
*
10293032 CATCATCATCATGTGTCCACTCCCTACTCGCACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
10293069 AACAACATCA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.21, C:0.41, G:0.11, T:0.28
Consensus pattern (37 bp):
CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
Found at i:10294755 original size:35 final size:35
Alignment explanation
Indices: 10294686--10294874 Score: 188
Period size: 35 Copynumber: 5.4 Consensus size: 35
10294676 CACTTGATTA
* *
10294686 AAATTGTTTAATT-AA--GTTGTGCCTAATTAATT
1 AAATTGTTTAATTAAATCATTGGGCCTAATTAATT
* *
10294718 AAATTGTTTAATTAAATCATTTGGCTTAATTAATT
1 AAATTGTTTAATTAAATCATTGGGCCTAATTAATT
*
10294753 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAATCATTGGGCCTAATTAATT
*** * * * *
10294788 AAA-TGAAACAATTAAGTTATTGGGCCTAATTGACTA
1 AAATTG-TTTAATTAAATCATTGGGCCTAATT-AATT
** *
10294824 AAATTGTTTAATTAAAATTGTTGGGCTTAATTAATT
1 AAATTGTTTAATT-AAATCATTGGGCCTAATTAATT
10294860 AAATTGTTTAATTAA
1 AAATTGTTTAATTAA
10294875 GTTATTAGAC
Statistics
Matches: 129, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
32 13 0.10
33 2 0.02
34 2 0.02
35 71 0.55
36 24 0.19
37 17 0.13
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (35 bp):
AAATTGTTTAATTAAATCATTGGGCCTAATTAATT
Found at i:10294862 original size:107 final size:107
Alignment explanation
Indices: 10294693--10294919 Score: 298
Period size: 107 Copynumber: 2.1 Consensus size: 107
10294683 TTAAAATTGT
* * * *
10294693 TTAA-TTAAGTTGTGCCTAATT-AATTAAATTGTTTAATTAAATCATTTGGCTTAATTAATTAAA
1 TTAAGTTAA-TTGGGCCTAATTGACTAAAATTGTTTAATTAAATCATTGGGCTTAATTAATTAAA
* * *
10294756 TTGTTTAATTAAGTCATTGGGCCTAATTAATTAAATGAAACAA
65 TTGTTTAATTAAGTCATTAGACCTAATCAATTAAATGAAACAA
**
10294799 TTAAGTT-ATTGGGCCTAATTGACTAAAATTGTTTAATTAAAATTGTTGGGCTTAATTAATTAAA
1 TTAAGTTAATTGGGCCTAATTGACTAAAATTGTTTAATT-AAATCATTGGGCTTAATTAATTAAA
* * * *
10294863 TTGTTTAATTAAGTTATTAGACTTAATCGATTAAATTAAACAA
65 TTGTTTAATTAAGTCATTAGACCTAATCAATTAAATGAAACAA
10294906 TTAAGTTAATTGGG
1 TTAAGTTAATTGGG
10294920 GCTTCTTAAG
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
105 11 0.11
106 20 0.19
107 67 0.64
108 6 0.06
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (107 bp):
TTAAGTTAATTGGGCCTAATTGACTAAAATTGTTTAATTAAATCATTGGGCTTAATTAATTAAAT
TGTTTAATTAAGTCATTAGACCTAATCAATTAAATGAAACAA
Found at i:10297103 original size:42 final size:42
Alignment explanation
Indices: 10297054--10297183 Score: 154
Period size: 42 Copynumber: 3.1 Consensus size: 42
10297044 ATATGGCTAG
* * *
10297054 GTCAGCATTGGCTTATGCACACTCCTACTCGCACATAGTCGG
1 GTCAGCATCGGCTTATGCACACTCCTACTCGCACATAGCCGA
* * * **
10297096 GTTAGCATCGAG-TTATACGCACTCCCCCTCGCACATAGCCGA
1 GTCAGCATCG-GCTTATGCACACTCCTACTCGCACATAGCCGA
* *
10297138 GTCAGCATCGACTTATGCACACTCCTACTCACACATAGCCGA
1 GTCAGCATCGGCTTATGCACACTCCTACTCGCACATAGCCGA
10297180 GTCA
1 GTCA
10297184 ATATCATTAC
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
42 70 0.99
43 1 0.01
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (42 bp):
GTCAGCATCGGCTTATGCACACTCCTACTCGCACATAGCCGA
Found at i:10312210 original size:2 final size:2
Alignment explanation
Indices: 10312203--10312251 Score: 80
Period size: 2 Copynumber: 24.0 Consensus size: 2
10312193 TGTTATGTTG
*
10312203 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10312245 AT GAT AT
1 AT -AT AT
10312252 GCATTGATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 42 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10312554 original size:21 final size:20
Alignment explanation
Indices: 10312500--10312557 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
10312490 ATATATATAT
*
10312500 ATATATATGCTATAGAGATG
1 ATATATATGCTATAGACATG
* *
10312520 ATCATGTATACTATA-ACACTG
1 AT-ATATATGCTATAGACA-TG
10312541 AATATATATGCTATAGA
1 -ATATATATGCTATAGA
10312558 AAGGATAAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 4 0.14
21 22 0.76
22 3 0.10
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (20 bp):
ATATATATGCTATAGACATG
Found at i:10314376 original size:42 final size:42
Alignment explanation
Indices: 10314321--10314446 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 42
10314311 TGTTGATGTG
* * *
10314321 GACCCGGCTATGTGCGAGTAGGAGTGTACATAAGCCGATGAT
1 GACCTGGCTATGTGCGAGTGGGAGTGCACATAAGCCGATGAT
*
10314363 GACCTGGCTATGTGTGAGTGGGAGTGCACATAAGCCGATGAT
1 GACCTGGCTATGTGCGAGTGGGAGTGCACATAAGCCGATGAT
* * * * * *
10314405 GACCTAGCCATGTGCTAGTGGGGAGTGGACATGAGCTGATGA
1 GACCTGGCTATGTGCGAGT-GGGAGTGCACATAAGCCGATGA
10314447 CGATGGGAGA
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 53 0.74
43 19 0.26
ACGTcount: A:0.25, C:0.17, G:0.36, T:0.22
Consensus pattern (42 bp):
GACCTGGCTATGTGCGAGTGGGAGTGCACATAAGCCGATGAT
Found at i:10318558 original size:34 final size:34
Alignment explanation
Indices: 10318519--10318707 Score: 123
Period size: 34 Copynumber: 5.2 Consensus size: 34
10318509 GCGATGTGGA
10318519 AGTGCACATGACAGTGATAGTGGTGTGCTGTGTG
1 AGTGCACATGACAGTGATAGTGGTGTGCTGTGTG
* * * *
10318553 AGTGCAAACACTGA-TGAT-ATATTGCCTTGTGTGGTGTGGG
1 AGTGC--ACA-TGACAG-TGATA--G--TGGTGTGCTGTGTG
*
10318593 AGTGCACATGACGGTGATAGTGGTGTGCTGTGTG
1 AGTGCACATGACAGTGATAGTGGTGTGCTGTGTG
* * ** *
10318627 AGTGCACA-CACTAATGATATATGTCATGTGCATTGTGGG
1 AGTGCACATGAC-AGTG--ATA-GTGGTGTGC--TGTGTG
* *
10318666 AGTGCACATGACGGTGATAGTGGTGTGTTGTGTG
1 AGTGCACATGACAGTGATAGTGGTGTGCTGTGTG
10318700 AGTGCACA
1 AGTGCACA
10318708 CACTAATGAT
Statistics
Matches: 117, Mismatches: 21, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
33 2 0.02
34 39 0.33
36 17 0.15
37 18 0.15
38 8 0.07
39 15 0.13
40 18 0.15
ACGTcount: A:0.22, C:0.13, G:0.35, T:0.30
Consensus pattern (34 bp):
AGTGCACATGACAGTGATAGTGGTGTGCTGTGTG
Found at i:10318624 original size:74 final size:74
Alignment explanation
Indices: 10318506--10318745 Score: 365
Period size: 74 Copynumber: 3.3 Consensus size: 74
10318496 TGACCTTGTG
* * * * *
10318506 TGTGCGATGTGGAAGTGCACATGACAGTGATAGTGGTGTGCTGTGTGAGTGCAAACACTGATGAT
1 TGTGCGGTGTGGGAGTGCACATGACGGTGATAGTGGTGTGCTGTGTGAGTGCACACACTAATGAT
10318571 ATATTGCCT
66 ATATTGCCT
*
10318580 TGTGTGGTGTGGGAGTGCACATGACGGTGATAGTGGTGTGCTGTGTGAGTGCACACACTAATGAT
1 TGTGCGGTGTGGGAGTGCACATGACGGTGATAGTGGTGTGCTGTGTGAGTGCACACACTAATGAT
* *
10318645 ATA-TGTCA
66 ATATTGCCT
** *
10318653 TGTGCATTGTGGGAGTGCACATGACGGTGATAGTGGTGTGTTGTGTGAGTGCACACACTAATGAT
1 TGTGCGGTGTGGGAGTGCACATGACGGTGATAGTGGTGTGCTGTGTGAGTGCACACACTAATGAT
10318718 ATATTGCCT
66 ATATTGCCT
*
10318727 TGTGCGGTGTGGTAGTGCA
1 TGTGCGGTGTGGGAGTGCA
10318746 TAGGATGATT
Statistics
Matches: 148, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
73 67 0.45
74 81 0.55
ACGTcount: A:0.22, C:0.13, G:0.35, T:0.31
Consensus pattern (74 bp):
TGTGCGGTGTGGGAGTGCACATGACGGTGATAGTGGTGTGCTGTGTGAGTGCACACACTAATGAT
ATATTGCCT
Found at i:10318773 original size:147 final size:148
Alignment explanation
Indices: 10318513--10318783 Score: 375
Period size: 147 Copynumber: 1.8 Consensus size: 148
10318503 GTGTGTGCGA
*
10318513 TGTGGAAGTGCACATGACAGTGATAGTGGTGTGCTGTGTGAGTGCAAACACTGATGATATATTGC
1 TGTGGAAGTGCACATGACAGTGATAGTGGTGTGCTGTGTGAGTGCAAACACTAATGATATATTGC
* * * * *
10318578 CTTGTGTGGTGTGGGAGTGCACATGACGGTGATAGTGGTGTGCTGTGT-GAGTGCACACACTAAT
66 CTTGTGCGGTGTGGGAGTGCACAGGACGATGATAGTGATGTGCAGTGTGGAGTGCACACACTAAT
10318642 GATATATGTCATGTGCAT
131 GATATATGTCATGTGCAT
* * * *
10318660 TGTGGGAGTGCACATGACGGTGATAGTGGTGTGTTGTGTGAGTGCACACACTAATGATATATTGC
1 TGTGGAAGTGCACATGACAGTGATAGTGGTGTGCTGTGTGAGTGCAAACACTAATGATATATTGC
* * * **
10318725 CTTGTGCGGTGTGGTAGTGCATAGGATGATTCTAGCT-ATGTGCAGTGTGGGAGTGCACA
66 CTTGTGCGGTGTGGGAGTGCACAGGACGATGATAG-TGATGTGCAGTGT-GGAGTGCACA
10318784 TGAGCTTGCG
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
147 96 0.91
148 1 0.01
149 9 0.08
ACGTcount: A:0.22, C:0.13, G:0.34, T:0.31
Consensus pattern (148 bp):
TGTGGAAGTGCACATGACAGTGATAGTGGTGTGCTGTGTGAGTGCAAACACTAATGATATATTGC
CTTGTGCGGTGTGGGAGTGCACAGGACGATGATAGTGATGTGCAGTGTGGAGTGCACACACTAAT
GATATATGTCATGTGCAT
Found at i:10322280 original size:39 final size:39
Alignment explanation
Indices: 10322226--10322304 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
10322216 AAACATGGTC
10322226 ATTTATCATATGACTGTTTTAAGAAAAGAAAAGTGTAAA
1 ATTTATCATATGACTGTTTTAAGAAAAGAAAAGTGTAAA
10322265 ATTTATCATATGACTGTTTTAAGAAAAGAAAAGTGTAAA
1 ATTTATCATATGACTGTTTTAAGAAAAGAAAAGTGTAAA
10322304 A
1 A
10322305 AGTTAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (39 bp):
ATTTATCATATGACTGTTTTAAGAAAAGAAAAGTGTAAA
Found at i:10326063 original size:21 final size:22
Alignment explanation
Indices: 10326037--10326077 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10326027 CCTAGGTGAA
*
10326037 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
10326058 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
10326078 ATAAAAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:10326083 original size:22 final size:21
Alignment explanation
Indices: 10326032--10326083 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
10326022 AAAACCCTAG
* *
10326032 GTGAAAAAATTCAAGGGAAAA
1 GTGATAAAATTCAAGGAAAAA
10326053 GTG-TGAAAATTCAAGGAAACAA
1 GTGAT-AAAATTCAAGGAAA-AA
10326075 GTGATAAAA
1 GTGATAAAA
10326084 GGTTAGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 16 0.62
22 9 0.35
23 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.23, T:0.17
Consensus pattern (21 bp):
GTGATAAAATTCAAGGAAAAA
Found at i:10333054 original size:21 final size:21
Alignment explanation
Indices: 10333030--10333069 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10333020 TGAGGCTGAA
*
10333030 ATTTATGATATTTCATGATAT
1 ATTTATGATATTTAATGATAT
* *
10333051 ATTTGTGGTATTTAATGAT
1 ATTTATGATATTTAATGAT
10333070 TGGTGAGGCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.53
Consensus pattern (21 bp):
ATTTATGATATTTAATGATAT
Found at i:10338886 original size:21 final size:21
Alignment explanation
Indices: 10338862--10338901 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10338852 TGAGGCTAAA
* *
10338862 ATTGATGATATTTCATGATAT
1 ATTGACGATATTTAATGATAT
*
10338883 ATTGGCGATATTTAATGAT
1 ATTGACGATATTTAATGAT
10338902 GGATGAGGCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (21 bp):
ATTGACGATATTTAATGATAT
Found at i:10344445 original size:40 final size:40
Alignment explanation
Indices: 10344401--10344482 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
10344391 CCTTAGGAAA
* *
10344401 AGATTTCCCAATTGCCTAATTAATAAAAAAGATACTCTAT
1 AGATTTCCCAAATGCCCAATTAATAAAAAAGATACTCTAT
* * *
10344441 AGATTTCCTAAATGCCCAATTAGTTAAAAAGATACTCTAT
1 AGATTTCCCAAATGCCCAATTAATAAAAAAGATACTCTAT
10344481 AG
1 AG
10344483 TCATTCCAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (40 bp):
AGATTTCCCAAATGCCCAATTAATAAAAAAGATACTCTAT
Found at i:10350075 original size:16 final size:15
Alignment explanation
Indices: 10350041--10350078 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10350031 ATTTTTCGTG
10350041 TTTTCTTTTCATTTC
1 TTTTCTTTTCATTTC
10350056 TTTTCTTTTC-TTACTC
1 TTTTCTTTTCATT--TC
10350072 TTTTCTT
1 TTTTCTT
10350079 CTCCAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.10
15 10 0.48
16 9 0.43
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTCTTTTCATTTC
Found at i:10353606 original size:2 final size:2
Alignment explanation
Indices: 10353599--10353629 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10353589 TGTTGGTATG
*
10353599 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10353630 GTTGTGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:10353809 original size:81 final size:81
Alignment explanation
Indices: 10353724--10354033 Score: 467
Period size: 81 Copynumber: 3.8 Consensus size: 81
10353714 GAGATTGCTT
* * * * * *
10353724 ATGTGCGCGATGTGGGGGGAGCTCATGATGGCATTAGTTGTGTGCGATGTGAGGGTGCACACGAT
1 ATGTGCACGATGTGGGGGGAGCACATGATGCCATTAGTTGTGCGTGATGTGGGGGTGCACACGAT
10353789 GATGATGATATATGCC
66 GATGATGATATATGCC
**** *
10353805 ATGTGTGTAATATGGGGGGAGCACATGATGCCATTAGTTGTGCGTGATGTGGGGGTGCACACGAT
1 ATGTGCACGATGTGGGGGGAGCACATGATGCCATTAGTTGTGCGTGATGTGGGGGTGCACACGAT
*
10353870 GAAGATGATATATGCC
66 GATGATGATATATGCC
*
10353886 ATGTGCACGATGTGGGGGGAGCAAATGATGCCATTAGTTGTGCGTGATGTGGGGGTGCACACGAT
1 ATGTGCACGATGTGGGGGGAGCACATGATGCCATTAGTTGTGCGTGATGTGGGGGTGCACACGAT
*
10353951 GATGATGATATAAGCC
66 GATGATGATATATGCC
* * *
10353967 ATGTGCACGATGTGGGGGGAGCACATGATGGCATTAATTATGCGTGATGTGGGGGTGCACACGAT
1 ATGTGCACGATGTGGGGGGAGCACATGATGCCATTAGTTGTGCGTGATGTGGGGGTGCACACGAT
10354032 GA
66 GA
10354034 CTCTGGCTAT
Statistics
Matches: 207, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 207 1.00
ACGTcount: A:0.24, C:0.13, G:0.37, T:0.26
Consensus pattern (81 bp):
ATGTGCACGATGTGGGGGGAGCACATGATGCCATTAGTTGTGCGTGATGTGGGGGTGCACACGAT
GATGATGATATATGCC
Found at i:10353859 original size:36 final size:36
Alignment explanation
Indices: 10353819--10354032 Score: 95
Period size: 36 Copynumber: 5.4 Consensus size: 36
10353809 GTGTAATATG
10353819 GGGGGAGCACATGATGCCATTAGTTGTGCGTGATGT
1 GGGGGAGCACATGATGCCATTAGTTGTGCGTGATGT
* * ** * **
10353855 GGGGGTGCACACGATGAAGATGATATATGCCATGTGCACGATGT
1 GGGGGAG--CAC-ATGATG-CCAT-TA-G--TTGTGCGTGATGT
*
10353899 GGGGGGAGCAAATGATGCCATTAGTTGTGCGTGATGT
1 -GGGGGAGCACATGATGCCATTAGTTGTGCGTGATGT
* ** * **
10353936 GGGGGTGCACACGATGATGATGATATAAGCCATGTGCACGATGT
1 GGGGGAG--CAC-ATGATG-CCAT-T-AG--TTGTGCGTGATGT
* * *
10353980 GGGGGGAGCACATGATGGCATTAATTATGCGTGATGT
1 -GGGGGAGCACATGATGCCATTAGTTGTGCGTGATGT
* *
10354017 GGGGGTGCACACGATG
1 GGGGGAGCACATGATG
10354033 ACTCTGGCTA
Statistics
Matches: 128, Mismatches: 32, Indels: 36
0.65 0.16 0.18
Matches are distributed among these distances:
36 26 0.20
37 19 0.15
38 5 0.04
39 13 0.10
40 7 0.05
41 7 0.05
42 14 0.11
43 5 0.04
44 20 0.16
45 12 0.09
ACGTcount: A:0.24, C:0.14, G:0.38, T:0.24
Consensus pattern (36 bp):
GGGGGAGCACATGATGCCATTAGTTGTGCGTGATGT
Found at i:10353891 original size:44 final size:43
Alignment explanation
Indices: 10353850--10353984 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 43
10353840 AGTTGTGCGT
*
10353850 GATGTGGGGGTGCACACGATGAAGATGATATATGCCATGTGCAC
1 GATGTGGGGGTGCACACGATGATGATGATATA-GCCATGTGCAC
* ** * **
10353894 GATGTGGGGG-G-AGCA-AATGATG-CCAT-TAG--TTGTGCGT
1 GATGTGGGGGTGCA-CACGATGATGATGATATAGCCATGTGCAC
10353931 GATGTGGGGGTGCACACGATGATGATGATATAAGCCATGTGCAC
1 GATGTGGGGGTGCACACGATGATGATGATAT-AGCCATGTGCAC
10353975 GATGTGGGGG
1 GATGTGGGGG
10353985 GAGCACATGA
Statistics
Matches: 69, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
37 15 0.22
38 3 0.04
39 8 0.12
40 4 0.06
41 3 0.04
42 8 0.12
43 3 0.04
44 25 0.36
ACGTcount: A:0.24, C:0.13, G:0.39, T:0.24
Consensus pattern (43 bp):
GATGTGGGGGTGCACACGATGATGATGATATAGCCATGTGCAC
Found at i:10353985 original size:45 final size:44
Alignment explanation
Indices: 10353850--10353996 Score: 130
Period size: 45 Copynumber: 3.5 Consensus size: 44
10353840 AGTTGTGCGT
* * *
10353850 GATGTGGGGGTGCACACGATGAAGATGATATATGCCATGTGCAC
1 GATGTGGGGGAGCACACGATGATGATGATATAAGCCATGTGCAC
** * **
10353894 GATGTGGGGGGAGCA-A--ATGATG-CCAT-T-AG--TTGTGCGT
1 GATGT-GGGGGAGCACACGATGATGATGATATAAGCCATGTGCAC
*
10353931 GATGTGGGGGTGCACACGATGATGATGATATAAGCCATGTGCAC
1 GATGTGGGGGAGCACACGATGATGATGATATAAGCCATGTGCAC
*
10353975 GATGTGGGGGGAGCACATGATG
1 GATGT-GGGGGAGCACACGATG
10353997 GCATTAATTA
Statistics
Matches: 77, Mismatches: 16, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
36 8 0.10
37 11 0.14
39 7 0.09
40 3 0.04
41 3 0.04
42 7 0.09
44 16 0.21
45 22 0.29
ACGTcount: A:0.25, C:0.14, G:0.38, T:0.23
Consensus pattern (44 bp):
GATGTGGGGGAGCACACGATGATGATGATATAAGCCATGTGCAC
Found at i:10355341 original size:55 final size:55
Alignment explanation
Indices: 10355272--10355420 Score: 228
Period size: 55 Copynumber: 2.7 Consensus size: 55
10355262 TGATGACGGG
* *
10355272 TGATTCCAGCTATGT-CTAGTGTGGGAGTGCACATGAGCTGATAACCGGTGGATGA
1 TGATTCTAGCTATGTAC-GGTGTGGGAGTGCACATGAGCTGATAACCGGTGGATGA
* * *
10355327 TTATTCTAGCTATGTACGGTGTGGGAGTACACATGAGCTGATGACCGGTGGATGA
1 TGATTCTAGCTATGTACGGTGTGGGAGTGCACATGAGCTGATAACCGGTGGATGA
*
10355382 TGATTCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCT
1 TGATTCTAGCTATGTACGGTGTGGGAGTGCACATGAGCT
10355421 AATGAGCCGG
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
55 84 0.99
56 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.34, T:0.29
Consensus pattern (55 bp):
TGATTCTAGCTATGTACGGTGTGGGAGTGCACATGAGCTGATAACCGGTGGATGA
Done.