Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 135 of 284
Found at i:45000912 original size:80 final size:80
Alignment explanation
Indices: 45000645--45000921 Score: 349
Period size: 80 Copynumber: 3.5 Consensus size: 80
45000635 AAACATATAT
* * * * **
45000645 CACATAGGGGCAAAACAGTCAATTTACCATATAAGGGTGAAACAGTCATTTTACCACATAAGGGC
1 CACATAAGGGCAAAACAGTCATTTTATCA-ATTAGGGCAAAACAGTCATTTTACCACATAAGGGC
45000710 AAAATAGTCATTTTAC
65 AAAATAGTCATTTTAC
* * * * *
45000726 CACATAAGGGCAAAATAGTCATTTTACCATATAAGGGCAAAACAGTCATTTTATCA-ATTAGGGC
1 CACATAAGGGCAAAACAGTCATTTTATCA-ATTAGGGCAAAACAGTCATTTTACCACATAAGGGC
45000790 AAAATAGTCATTTTAC
65 AAAATAGTCATTTTAC
* * * *
45000806 CATATAAAGGCAGAACAGTCATTTTATCAATTAGGGCAAAACAATCATTTTACCACATAAGGGCA
1 CACATAAGGGCAAAACAGTCATTTTATCAATTAGGGCAAAACAGTCATTTTACCACATAAGGGCA
* *
45000871 AAACAATCATTTTAC
66 AAATAGTCATTTTAC
* * *
45000886 CGCATAAGGGCAAAACAATTATTTTATCAATTAGGG
1 CACATAAGGGCAAAACAGTCATTTTATCAATTAGGG
45000922 GTCCAGCACA
Statistics
Matches: 171, Mismatches: 24, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
79 23 0.13
80 98 0.57
81 50 0.29
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (80 bp):
CACATAAGGGCAAAACAGTCATTTTATCAATTAGGGCAAAACAGTCATTTTACCACATAAGGGCA
AAATAGTCATTTTAC
Found at i:45004595 original size:40 final size:40
Alignment explanation
Indices: 45004540--45004764 Score: 310
Period size: 40 Copynumber: 5.6 Consensus size: 40
45004530 TGGATGATAA
* ** *
45004540 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAAAT
*
45004580 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT-AAAT
* *
45004621 -CGGGTTAAGTCCCGAAGGCATTTGTGCTAATTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAAAT
* *
45004660 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAAAT
* *
45004700 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT-AAAT
*
45004740 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
45004765 AGCGAGTAGT
Statistics
Matches: 164, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.02
40 154 0.94
41 6 0.04
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAAAT
Found at i:45006793 original size:11 final size:12
Alignment explanation
Indices: 45006777--45006805 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45006767 ATCATTCATC
45006777 TTTTCTTT-TTT
1 TTTTCTTTCTTT
45006788 TTTTCTTTCTTT
1 TTTTCTTTCTTT
45006800 TTTTCT
1 TTTTCT
45006806 CTCATAGTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTCTTTCTTT
Found at i:45007829 original size:26 final size:27
Alignment explanation
Indices: 45007775--45007836 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
45007765 ATTTACTAAA
*
45007775 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCTAAGTATGAAAATGACCATT
* *
45007802 ATACCCCTAAGTGT-AAAATGACCGTT
1 ATACCCCTAAGTATGAAAATGACCATT
45007828 ATACCCCTA
1 ATACCCCTA
45007837 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGTATGAAAATGACCATT
Found at i:45007986 original size:28 final size:27
Alignment explanation
Indices: 45007941--45008054 Score: 142
Period size: 27 Copynumber: 4.2 Consensus size: 27
45007931 GGAGGAAGCA
*
45007941 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
* *
45007969 TTCTGGTGGCTCTACCACAAATATCT-A
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
45007996 TTCTGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
* * *
45008023 ATCTGGTGACTCTGTCACAATATCTG-
1 TTCTGGTGGCTCTGCCACAATATCTGT
45008049 TTCTGG
1 TTCTGG
45008055 CAGCCACGCA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
26 12 0.16
27 40 0.53
28 24 0.32
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTGT
Found at i:45008042 original size:54 final size:54
Alignment explanation
Indices: 45007940--45008054 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
45007930 TGGAGGAAGC
* *
45007940 ATTCTGGTGGCTATGCCACAAATATCTGTTTCTGGTGGCTCTACCACAAATATCT
1 ATTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGACTCTACCAC-AATATCT
* **
45007995 ATTCTGGTGGCTCTGCCAC-AATATCTGTATCTGGTGACTCTGTCACAATATCT
1 ATTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGACTCTACCACAATATCT
*
45008048 GTTCTGG
1 ATTCTGG
45008055 CAGCCACGCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 13 0.24
54 23 0.43
55 18 0.33
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (54 bp):
ATTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGACTCTACCACAATATCT
Found at i:45011145 original size:6 final size:6
Alignment explanation
Indices: 45011134--45011169 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
45011124 TTCATTCATC
45011134 TTTTCT TTTTCT TTTT-T TTTTC- TTTT-T TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
45011170 GCTCTCATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 13 0.48
6 14 0.52
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (6 bp):
TTTTCT
Found at i:45011159 original size:10 final size:10
Alignment explanation
Indices: 45011132--45011169 Score: 58
Period size: 10 Copynumber: 3.6 Consensus size: 10
45011122 CTTTCATTCA
45011132 TCTTTTCTTTT
1 TCTTTT-TTTT
45011143 TCTTTTTTTTT
1 TC-TTTTTTTT
45011154 TCTTTTTTTT
1 TCTTTTTTTT
45011164 TCTTTT
1 TCTTTT
45011170 GCTCTCATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 14 0.54
11 8 0.31
12 4 0.15
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:45013918 original size:47 final size:47
Alignment explanation
Indices: 45013864--45014242 Score: 589
Period size: 47 Copynumber: 8.1 Consensus size: 47
45013854 TTAGGATTTT
** * * *
45013864 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
45013911 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
45013958 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
45014005 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
45014052 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
45014099 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
45014146 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
45014193 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
45014240 ATG
1 ATG
45014243 CGAAATGTGT
Statistics
Matches: 312, Mismatches: 19, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
47 309 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:45014199 original size:22 final size:22
Alignment explanation
Indices: 45014078--45014199 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
45014068 CATGCATATG
*
45014078 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
* * * *
45014100 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCAGAAT-GGC-CA-A
*
45014125 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
*
45014147 TGTGATGAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
45014172 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
45014194 TGTGAT
1 TGTGAT
45014200 GAACGTGGAA
Statistics
Matches: 75, Mismatches: 11, Indels: 28
0.66 0.10 0.25
Matches are distributed among these distances:
22 25 0.33
23 16 0.21
24 15 0.20
25 19 0.25
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:45014272 original size:46 final size:46
Alignment explanation
Indices: 45014216--45014398 Score: 285
Period size: 46 Copynumber: 4.0 Consensus size: 46
45014206 GGAAGTGTAT
* *
45014216 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
45014262 ATATGAGGTAAAGCCGAATGGATAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
45014308 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * * **
45014354 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
45014399 TGTATATATA
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.35, C:0.09, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:45016334 original size:27 final size:27
Alignment explanation
Indices: 45016304--45016365 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
45016294 ATTTACTAAA
*
45016304 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATGACCATT
* *
45016331 ATACCCCT-AGGTGCAAAATGACCGTT
1 ATACCCCTAAGATGCAAAATGACCATT
45016357 ATACCCCTA
1 ATACCCCTA
45016366 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.67
27 8 0.27
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.26
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATGACCATT
Found at i:45016540 original size:27 final size:26
Alignment explanation
Indices: 45016469--45016583 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 26
45016459 TGGAGGAAGC
* *
45016469 GTTCTGGTGGCTATGCTACAAGTATCT
1 GTTCTGGTGGCTCTGCCACAA-TATCT
*
45016496 GTTTCTGGTGGCTTTGCCACTAATATCT
1 G-TTCTGGTGGCTCTGCCAC-AATATCT
*
45016524 GTTCTGGTGGCTCTGCCACAATATAT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
45016550 GTACCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
*
45016577 ATTCTGG
1 GTTCTGG
45016584 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
26 12 0.16
27 39 0.52
28 22 0.29
29 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:45018624 original size:28 final size:28
Alignment explanation
Indices: 45018592--45018666 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 28
45018582 AATGAGATTG
*
45018592 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
45018620 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
45018648 GCACTAAGTGTGCGGAGTT
1 GCACTAAGTGTGC-GAGTT
45018667 ACTATATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 36 0.84
29 7 0.16
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:45021388 original size:33 final size:33
Alignment explanation
Indices: 45021346--45021411 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
45021336 ACGACACTAC
*
45021346 TAACATGTTGTAAACATTAAAATAATAATAAAA
1 TAACATGTTGTAAACATTAAAATAACAATAAAA
*
45021379 TAACATGTTGTAAACGTTAAAATAACAATAAAA
1 TAACATGTTGTAAACATTAAAATAACAATAAAA
45021412 CAATTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.29
Consensus pattern (33 bp):
TAACATGTTGTAAACATTAAAATAACAATAAAA
Found at i:45027018 original size:42 final size:43
Alignment explanation
Indices: 45026948--45027049 Score: 136
Period size: 42 Copynumber: 2.4 Consensus size: 43
45026938 TATCCTGGAT
* * * *
45026948 ATGGTCTTACATGAAAT-ATCATATCGATGCCATGTCCCTGAC
1 ATGGTCTTATATGAAATCATCATACCGATGCCATATCCCAGAC
*
45026990 ATGGTCTTATATGAAATCA-CATACCGATGCCATATCCCAGAT
1 ATGGTCTTATATGAAATCATCATACCGATGCCATATCCCAGAC
*
45027032 ATGCTCTTATATGAAATC
1 ATGGTCTTATATGAAATC
45027050 TCAGTAGCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 52 0.98
43 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (43 bp):
ATGGTCTTATATGAAATCATCATACCGATGCCATATCCCAGAC
Found at i:45027608 original size:12 final size:12
Alignment explanation
Indices: 45027591--45027615 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45027581 TTTTGCACTT
45027591 TTTACAATTTAG
1 TTTACAATTTAG
45027603 TTTACAATTTAG
1 TTTACAATTTAG
45027615 T
1 T
45027616 CCTTTTGACT
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:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTACAATTTAG
Found at i:45032919 original size:25 final size:25
Alignment explanation
Indices: 45032885--45032934 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
45032875 TGATTTTTAC
*
45032885 GTTTTTGGAGTCCGGGTAACTTGAT
1 GTTTTTGGAGTCCCGGTAACTTGAT
45032910 GTTTTTGGAGTCCCGGTAACTTGAT
1 GTTTTTGGAGTCCCGGTAACTTGAT
45032935 TTAGCTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.16, C:0.14, G:0.30, T:0.40
Consensus pattern (25 bp):
GTTTTTGGAGTCCCGGTAACTTGAT
Found at i:45035307 original size:35 final size:35
Alignment explanation
Indices: 45035261--45035330 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
45035251 TTTTCGTGTA
*
45035261 TGTATATTGTTAAGTCTGGTAATGCCTCGTACTCT
1 TGTATATTGTTAAGTCTAGTAATGCCTCGTACTCT
45035296 TGTATATTGTTAAGTCTAGTAATGCCTCGTACTCT
1 TGTATATTGTTAAGTCTAGTAATGCCTCGTACTCT
45035331 ATTTCGACCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (35 bp):
TGTATATTGTTAAGTCTAGTAATGCCTCGTACTCT
Found at i:45036638 original size:18 final size:18
Alignment explanation
Indices: 45036617--45036653 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
45036607 AGTTGGACAG
45036617 ATTTTAGCAGTTTCTTCT
1 ATTTTAGCAGTTTCTTCT
45036635 ATTTTAGCAGTTTCTTCT
1 ATTTTAGCAGTTTCTTCT
45036653 A
1 A
45036654 AGATGTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.19, C:0.16, G:0.11, T:0.54
Consensus pattern (18 bp):
ATTTTAGCAGTTTCTTCT
Found at i:45037112 original size:30 final size:31
Alignment explanation
Indices: 45037063--45037120 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
45037053 ATCGTATCTT
*
45037063 GGGTTTCTTTATTCTGGATTTATTTATTCTG
1 GGGTTTCTCTATTCTGGATTTATTTATTCTG
* *
45037094 GGGTTT-TCTATTTTGGATTTCTTTATT
1 GGGTTTCTCTATTCTGGATTTATTTATT
45037121 TGGTTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.12, C:0.09, G:0.19, T:0.60
Consensus pattern (31 bp):
GGGTTTCTCTATTCTGGATTTATTTATTCTG
Found at i:45037120 original size:15 final size:15
Alignment explanation
Indices: 45037061--45037130 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
45037051 GTATCGTATC
*
45037061 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
* *
45037076 CTGGATTTATTTATT
1 TTGGATTTCTTTATT
* * *
45037091 CTGGGGTTT-TCTATT
1 -TTGGATTTCTTTATT
45037106 TTGGATTTCTTTA-T
1 TTGGATTTCTTTATT
*
45037120 TTGGTTTTCTT
1 TTGGATTTCTT
45037131 GATATCTTTA
Statistics
Matches: 42, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
14 17 0.40
15 20 0.48
16 5 0.12
ACGTcount: A:0.10, C:0.09, G:0.19, T:0.63
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:45039349 original size:49 final size:50
Alignment explanation
Indices: 45039164--45039362 Score: 175
Period size: 50 Copynumber: 4.0 Consensus size: 50
45039154 ATGATCTATT
* * ** * **
45039164 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAA
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATG
* * * * * * **
45039215 CTGTGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATATATTAGATG
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATG
* *
45039265 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATG
* * ** * *
45039315 GT-TGGTCGCATGTGTAGTACTAAGTGCAAACTACTATGCGTACCAGAT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
45039363 AGCTTCAGCT
Statistics
Matches: 120, Mismatches: 28, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
49 39 0.32
50 45 0.38
51 36 0.30
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (50 bp):
GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATG
Found at i:45044760 original size:24 final size:24
Alignment explanation
Indices: 45044712--45044760 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
45044702 AAACCTAGGC
45044712 TTTAGAGAAAATTTTGGTTTCTTT
1 TTTAGAGAAAATTTTGGTTTCTTT
*
45044736 TTTA-AGAAAATTTTGGTTTCATT
1 TTTAGAGAAAATTTTGGTTTCTTT
45044759 TT
1 TT
45044761 GAATAAACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.27, C:0.04, G:0.14, T:0.55
Consensus pattern (24 bp):
TTTAGAGAAAATTTTGGTTTCTTT
Found at i:45069610 original size:29 final size:28
Alignment explanation
Indices: 45069555--45069669 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 28
45069545 GCGAGCATGA
* * *
45069555 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
45069583 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
*
45069612 ATATACATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * * *
45069641 AAATGAATATGATTGGGCTTAGTGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
45069669 A
1 A
45069670 GATACAGGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
28 26 0.34
29 50 0.66
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:45071884 original size:40 final size:40
Alignment explanation
Indices: 45071829--45071970 Score: 198
Period size: 40 Copynumber: 3.6 Consensus size: 40
45071819 TATTCGAATG
* *
45071829 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
45071869 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
45071909 ATATCCGGGCTGAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
45071949 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
45071971 TACTTGGGTT
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 13 0.14
40 75 0.82
41 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:45089664 original size:42 final size:42
Alignment explanation
Indices: 45089601--45089689 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
45089591 TCTTAATTGG
* *
45089601 GAAAATAGTTCCCTTATTCTAATAAACTACT-AAAGCATAAAA
1 GAAAATAGTTCCCTAACTCTAATAAACTACTAAAAG-ATAAAA
*
45089643 GAAAATAGTTTCCTAACTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTAACTCTAATAAACTACTAAAAGATAAAA
*
45089685 TAAAA
1 GAAAA
45089690 ATATTCCTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 38 0.90
43 4 0.10
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.27
Consensus pattern (42 bp):
GAAAATAGTTCCCTAACTCTAATAAACTACTAAAAGATAAAA
Found at i:45089710 original size:43 final size:41
Alignment explanation
Indices: 45089602--45089711 Score: 98
Period size: 42 Copynumber: 2.6 Consensus size: 41
45089592 CTTAATTGGG
* * * *
45089602 AAAATAGTTCCCTTATTCTAATAAACTACTAAAGCATAAAAG
1 AAAATAGTT-CCTAAATATAATAAACTACTAAAGCATAAAAA
* *
45089644 AAAATAGTTTCCTAACTCTAATAAACTACTAAAAG-ATAAAATA
1 AAAATAG-TTCCTAAATATAATAAACTACT-AAAGCATAAAA-A
45089687 AAAATA-TTCCTAAAATATGAATAAA
1 AAAATAGTTCCT-AAATAT-AATAAA
45089712 ACTTATCTAC
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
41 5 0.09
42 35 0.60
43 18 0.31
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (41 bp):
AAAATAGTTCCTAAATATAATAAACTACTAAAGCATAAAAA
Found at i:45089736 original size:19 final size:18
Alignment explanation
Indices: 45089714--45089753 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
45089704 TGAATAAAAC
45089714 TTATCTACCTAAATAATAT
1 TTATCTACCTAAATAA-AT
45089733 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
45089751 TTA
1 TTA
45089754 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:45094438 original size:42 final size:42
Alignment explanation
Indices: 45094375--45094463 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
45094365 TCCTAATTGG
* *
45094375 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
1 GAAAATAGTTCCCTAACTCTAATAAACTACTAAAACATAAAA
* * *
45094417 GAAAATAGTTTCCTAACTCTAATAAATTACTAAAAGATAAAA
1 GAAAATAGTTCCCTAACTCTAATAAACTACTAAAACATAAAA
*
45094459 TAAAA
1 GAAAA
45094464 ATATGAATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTAACTCTAATAAACTACTAAAACATAAAA
Found at i:45094497 original size:19 final size:18
Alignment explanation
Indices: 45094473--45094516 Score: 79
Period size: 19 Copynumber: 2.4 Consensus size: 18
45094463 AATATGAATA
45094473 AAATTTATCTACCTAAAT
1 AAATTTATCTACCTAAAT
45094491 AATATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
45094510 AAATTTA
1 AAATTTA
45094517 AAATATATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:45104462 original size:23 final size:23
Alignment explanation
Indices: 45104436--45104483 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
45104426 AAGCAATTAG
45104436 TTATGGAATGTGTAATCACTCCT
1 TTATGGAATGTGTAATCACTCCT
*
45104459 TTATGGAATGTGTAATCACTTCT
1 TTATGGAATGTGTAATCACTCCT
45104482 TT
1 TT
45104484 GTCCATTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.44
Consensus pattern (23 bp):
TTATGGAATGTGTAATCACTCCT
Found at i:45104659 original size:20 final size:20
Alignment explanation
Indices: 45104634--45104676 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
45104624 CATTTAACAA
45104634 ACACATTAAACACATTAAAC
1 ACACATTAAACACATTAAAC
45104654 ACACATTAAACACATTAAAC
1 ACACATTAAACACATTAAAC
45104674 ACA
1 ACA
45104677 TGTAACAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.19
Consensus pattern (20 bp):
ACACATTAAACACATTAAAC
Found at i:45104683 original size:9 final size:9
Alignment explanation
Indices: 45104632--45104677 Score: 74
Period size: 9 Copynumber: 4.9 Consensus size: 9
45104622 TTCATTTAAC
45104632 AAACACATT
1 AAACACATT
45104641 AAACACATT
1 AAACACATT
45104650 AAACACACATT
1 -AA-ACACATT
45104661 AAACACATT
1 AAACACATT
45104670 AAACACAT
1 AAACACAT
45104678 GTAACAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
9 24 0.69
10 4 0.11
11 7 0.20
ACGTcount: A:0.57, C:0.24, G:0.00, T:0.20
Consensus pattern (9 bp):
AAACACATT
Found at i:45107234 original size:27 final size:27
Alignment explanation
Indices: 45107204--45107261 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
45107194 CTCAATCTCT
45107204 TTTTG-TTCTCTTTCGAT-CTTATTTTCC
1 TTTTGCTT-TCTTTC-ATCCTTATTTTCC
* *
45107231 TTTTGCTTTCTTTCATCCTTTTTTTTC
1 TTTTGCTTTCTTTCATCCTTATTTTCC
45107258 TTTT
1 TTTT
45107262 TCACATGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 2 0.07
27 23 0.85
28 2 0.07
ACGTcount: A:0.05, C:0.21, G:0.05, T:0.69
Consensus pattern (27 bp):
TTTTGCTTTCTTTCATCCTTATTTTCC
Found at i:45108381 original size:42 final size:42
Alignment explanation
Indices: 45108322--45108407 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
45108312 ATCGTCGATG
45108322 AGAAAGTATCGTTCGTATTGAATCAAGAGATGAATTTGGCTA
1 AGAAAGTATCGTTCGTATTGAATCAAGAGATGAATTTGGCTA
45108364 AGAAAGTATCGTTCGTATTGAATCAAGAGATGAATTTGGCTA
1 AGAAAGTATCGTTCGTATTGAATCAAGAGATGAATTTGGCTA
45108406 AG
1 AG
45108408 TATATTGTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.30
Consensus pattern (42 bp):
AGAAAGTATCGTTCGTATTGAATCAAGAGATGAATTTGGCTA
Found at i:45114112 original size:40 final size:39
Alignment explanation
Indices: 45114047--45114132 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 39
45114037 TTTATATATA
*
45114047 TAGCCGAAGCTATCTCAAATTGCACAAC-AAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAATCGCAC-ACTAAGTGCCA-TTT
* *
45114087 TAGCCGAAGCTATTTCGAATCGCACACTAAGTGCCATTT
1 TAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATTT
45114126 TAGCCGA
1 TAGCCGA
45114133 TAAGTCGTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 12 0.29
40 30 0.71
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATTT
Found at i:45119803 original size:40 final size:40
Alignment explanation
Indices: 45119729--45119910 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
45119719 AACCCAAGTA
* *
45119729 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
45119768 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
45119808 CCTTCGGGACTTAGCTCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
45119848 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
45119888 CCTTCGGGACTTAGCTCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
45119911 CATCCGAATA
Statistics
Matches: 131, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.09
40 118 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:45125055 original size:131 final size:130
Alignment explanation
Indices: 45124764--45125056 Score: 313
Period size: 131 Copynumber: 2.2 Consensus size: 130
45124754 CTTTATTTAA
* ** * * ** *
45124764 CATGAACAATTTTATTTGATTTAGTTGATTTAAGATCGTAACTTCGAACAGCTTGCTGATTTAAG
1 CATGAACAATTTTA-TTGAGTTAGTTGATTTAAGATCACAACTCCGAACAACTCACTAATTTAAG
* * * * ** *
45124829 ATCACGACTGATATTATTAAGTTTCATTATTTTAATATCTCAACCTAAGTTCATTTGATTTTAGA
65 ATCACAAATGATATTATTAAGGTTCATTATTTTAAAATCTCAACCTAAGTTCATTCAATTTAAGA
45124894 T
130 T
* *
45124895 CATGAACAATTCATT-TTGAGTTAGCTGATTTAAGATCACAACTCCGAACAACTCATTAATTTAA
1 CATGAACAATT--TTATTGAGTTAGTTGATTTAAGATCACAACTCCGAACAACTCACTAATTTAA
* * * *
45124959 GATCGCAAATGATATTGTTAAGGTTCATTGA-TTTAAAAT-TGTAGCCTAAGTTCATTCAATTTA
64 GATCACAAATGATATTATTAAGGTTCATT-ATTTTAAAATCT-CAACCTAAGTTCATTCAATTTA
45125022 AGAT
127 AGAT
*
45125026 CATGAACAATTTTATTGGAGTTAATTGATTT
1 CATGAACAATTTTATT-GAGTTAGTTGATTT
45125057 CACAACCTTT
Statistics
Matches: 133, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
129 2 0.02
130 3 0.02
131 125 0.94
132 1 0.01
133 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (130 bp):
CATGAACAATTTTATTGAGTTAGTTGATTTAAGATCACAACTCCGAACAACTCACTAATTTAAGA
TCACAAATGATATTATTAAGGTTCATTATTTTAAAATCTCAACCTAAGTTCATTCAATTTAAGAT
Found at i:45126671 original size:36 final size:36
Alignment explanation
Indices: 45126624--45126694 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
45126614 TGGACAAGGC
45126624 TTTAATTTACAAAAACTATAAAAATAATTTTTAGGG
1 TTTAATTTACAAAAACTATAAAAATAATTTTTAGGG
45126660 TTTAATTTACAAAAACTATAAAAATAATTTTTAGG
1 TTTAATTTACAAAAACTATAAAAATAATTTTTAGG
45126695 TTCTTCTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (36 bp):
TTTAATTTACAAAAACTATAAAAATAATTTTTAGGG
Found at i:45128730 original size:6 final size:6
Alignment explanation
Indices: 45128719--45128760 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
45128709 TATTTTTATA
*
45128719 TTTCTT TTTCTT TTTCTT TTTCTT TTTC-T TATCTT TTT-TT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
45128761 CAGTTATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
5 8 0.24
6 25 0.76
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTCTT
Found at i:45129210 original size:11 final size:11
Alignment explanation
Indices: 45129194--45129218 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45129184 GGAAGAATAA
45129194 AATATCGATTC
1 AATATCGATTC
45129205 AATATCGATTC
1 AATATCGATTC
45129216 AAT
1 AAT
45129219 GGAGAGTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (11 bp):
AATATCGATTC
Found at i:45139815 original size:46 final size:46
Alignment explanation
Indices: 45139765--45139937 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
45139755 TGGTTGAGCA
*
45139765 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45139811 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
45139856 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
45139904 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45139938 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45139921 original size:93 final size:93
Alignment explanation
Indices: 45139762--45139932 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
45139752 GGATGGTTGA
* * *
45139762 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
45139827 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
45139855 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
45139920 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
45139933 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45141420 original size:29 final size:30
Alignment explanation
Indices: 45141369--45141427 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
45141359 GGGAAAAAAT
45141369 TTGTATTCCATTTTTATAAAAAAAAATTAA
1 TTGTATTCCATTTTTATAAAAAAAAATTAA
*
45141399 TTGTATTCCATTTTTAT-CAAAAAAATTAA
1 TTGTATTCCATTTTTATAAAAAAAAATTAA
45141428 CTTTTCCCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (30 bp):
TTGTATTCCATTTTTATAAAAAAAAATTAA
Found at i:45146998 original size:47 final size:48
Alignment explanation
Indices: 45146865--45147003 Score: 199
Period size: 48 Copynumber: 2.9 Consensus size: 48
45146855 TACCACGATT
* *
45146865 ATACATGTAATGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* * *
45146913 ATACATGTAACGTGGTGTTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* * *
45146961 ATTCAT-TAACGTGGTGCTAAGTGGATATACCAAGGTTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
45147004 GTAACGTGGT
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 32 0.40
48 48 0.60
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
Found at i:45147018 original size:38 final size:38
Alignment explanation
Indices: 45146967--45147043 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
45146957 ATTGATTCAT
45146967 TAACGTGGTGCTAAGTGGATATACCAAGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCAAGGTTAAACATG
* * *
45147005 TAACGTGGTGCTAAGTGGATATGCCATGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCAAGGTTAAACATG
45147043 T
1 T
45147044 TAATTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCAAGGTTAAACATG
Found at i:45149812 original size:80 final size:79
Alignment explanation
Indices: 45149728--45149899 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
45149718 GGACTAAGAT
*
45149728 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
45149792 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
45149808 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
45149873 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
45149887 CCGAAGGCATTTG
1 CCGAAGGCATTTG
45149900 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:45149879 original size:39 final size:39
Alignment explanation
Indices: 45149675--45149897 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
45149665 TTGAATGCTG
* * * * *
45149675 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
45149715 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
45149754 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
45149795 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
45149835 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
45149874 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
45149898 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:45149917 original size:79 final size:80
Alignment explanation
Indices: 45149755--45149932 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
45149745 AGATACAAAT
* * * *
45149755 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
45149820 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
45149835 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
45149899 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
45149914 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
45149933 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:45160049 original size:13 final size:13
Alignment explanation
Indices: 45160031--45160058 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45160021 AACGAGGCTC
45160031 CTTCGTTCCTTTG
1 CTTCGTTCCTTTG
45160044 CTTCGTTCCTTTG
1 CTTCGTTCCTTTG
45160057 CT
1 CT
45160059 GATAGCTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.32, G:0.14, T:0.54
Consensus pattern (13 bp):
CTTCGTTCCTTTG
Found at i:45170496 original size:16 final size:16
Alignment explanation
Indices: 45170472--45170505 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
45170462 ATTGAGGAAG
45170472 TTGAGCTGATTTTTGC
1 TTGAGCTGATTTTTGC
*
45170488 TTGATCTGATTTTTGC
1 TTGAGCTGATTTTTGC
45170504 TT
1 TT
45170506 AATTTCTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.56
Consensus pattern (16 bp):
TTGAGCTGATTTTTGC
Found at i:45173150 original size:40 final size:40
Alignment explanation
Indices: 45173104--45173288 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
45173094 CTTGCACAAG
* * *
45173104 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
45173144 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
45173184 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
45173224 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* *
45173265 GCCTTCGGGACTTAACCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
45173289 CATTCGAATA
Statistics
Matches: 122, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 93 0.76
41 28 0.23
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:45182364 original size:22 final size:22
Alignment explanation
Indices: 45182338--45182382 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
45182328 TATATATAAT
45182338 ATATAATA-TATATAATTCTAAA
1 ATATAATATTATA-AATTCTAAA
* *
45182360 ATATATTATTATAAATTTTAAA
1 ATATAATATTATAAATTCTAAA
45182382 A
1 A
45182383 ATTAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATATAATATTATAAATTCTAAA
Found at i:45182392 original size:19 final size:19
Alignment explanation
Indices: 45182370--45182419 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
45182360 ATATATTATT
45182370 ATAAATTTTAAAAATTAAA
1 ATAAATTTTAAAAATTAAA
*
45182389 AT-AA-TATATAAAATTAAA
1 ATAAATTTTA-AAAATTAAA
*
45182407 AAAAATATTTAAA
1 ATAAAT-TTTAAA
45182420 TTTTACTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 7
0.71 0.09 0.21
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
19 4 0.17
20 2 0.08
21 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAATTTTAAAAATTAAA
Found at i:45182421 original size:18 final size:18
Alignment explanation
Indices: 45182380--45182414 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
45182370 ATAAATTTTA
*
45182380 AAAATTAAAATAATATAT
1 AAAATTAAAAAAATATAT
45182398 AAAATTAAAAAAA-ATAT
1 AAAATTAAAAAAATATAT
45182415 TTAAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATTAAAAAAATATAT
Found at i:45187491 original size:58 final size:58
Alignment explanation
Indices: 45187421--45187532 Score: 224
Period size: 58 Copynumber: 1.9 Consensus size: 58
45187411 TACCTTGGCC
45187421 GATTATACAAATATCTATTATCAAAATATCATACACTTTCAAAGTCATATTATCTTTT
1 GATTATACAAATATCTATTATCAAAATATCATACACTTTCAAAGTCATATTATCTTTT
45187479 GATTATACAAATATCTATTATCAAAATATCATACACTTTCAAAGTCATATTATC
1 GATTATACAAATATCTATTATCAAAATATCATACACTTTCAAAGTCATATTATC
45187533 AATATATATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (58 bp):
GATTATACAAATATCTATTATCAAAATATCATACACTTTCAAAGTCATATTATCTTTT
Found at i:45187976 original size:43 final size:42
Alignment explanation
Indices: 45187837--45187989 Score: 159
Period size: 43 Copynumber: 3.6 Consensus size: 42
45187827 ATATCATACA
* * * *
45187837 ATGCCAACGTCCCAGACGTGGTCTTACATGCCATCACATAGCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AATCACATATCG
* * * *
45187880 ATGCC-ACTATCCGAGACAGGGTCTTACACGAATCAAATAT-G
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAATCACATATCG
* *
45187921 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AATCACATATCG
45187964 ATGCCAACGTCCCAGA-AGTGGTCTTA
1 ATGCCAACGTCCCAGACA-TGGTCTTA
45187990 TATGAGAACA
Statistics
Matches: 89, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
41 24 0.27
42 20 0.22
43 45 0.51
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAATCACATATCG
Found at i:45194379 original size:49 final size:50
Alignment explanation
Indices: 45194262--45194438 Score: 161
Period size: 49 Copynumber: 3.6 Consensus size: 50
45194252 TGTAATGCCA
* * ** *
45194262 ATGCCACGTCCCAGACATGGTCTTGCACTGGCTCATC-C--ATCA-AGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAAT-ATCACAAATCAGAGGCG
*
45194309 ATGCCGTGTCCCAGACATGGTCTTACACTGAATATCA-AAAT-AGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAATATCACAAATCAGAGGC-G
* * ** * * *
45194358 ATGCCATGTCCCAGACATGGTCTTACACTTG-CTCTCACATCTCCGTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACAC-TGAATATCACAAATCAGAGGCG
45194408 ATGCCATGTCCCAGACATGGTCTTACACTGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGA
45194439 CACATCTCGT
Statistics
Matches: 107, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
46 3 0.03
47 29 0.27
48 5 0.05
49 34 0.32
50 33 0.31
51 3 0.03
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGAATATCACAAATCAGAGGCG
Found at i:45194429 original size:50 final size:49
Alignment explanation
Indices: 45194257--45194623 Score: 227
Period size: 46 Copynumber: 7.8 Consensus size: 49
45194247 TAAGGTGTAA
* * * * **
45194257 TGCCAATGCCACGTCCCAGACATGGTCTTGCACTGGCTCATC-CATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATCTCG
* * * ** *
45194306 T--CGATGCCGTGTCCCAGACATGGTCTTACACT-GAATATCA-AAATAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCACATCTCG
* * *
45194352 AGGCTGATGCCATGTCCCAGACATGGTCTTACACTTGCTCTCACATCTCCG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCT-CG
* *
45194403 TGTCGATGCCATGTCCCAGACATGGTCTTACACT-G---ACACATCTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCTCG
* * *
45194448 TAGCCGATG-CATGTTCTAGACAT-GTCTTACACTGGCT-T-ACATCTCG
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCTCG
* * *
45194494 AGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT--CGTCTCAA
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCTC-G
* * * * * * * *
45194541 TGTCAATGCAATGTCTCATACATGGTCTTATACTAGCTCTCATAATAT-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATCTCG
*
45194590 -GCCGATG-CATGTCTCAGACAT-GTCTTACACTAGC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
45194624 GCACAAATGA
Statistics
Matches: 251, Mismatches: 47, Indels: 43
0.74 0.14 0.13
Matches are distributed among these distances:
44 10 0.04
45 16 0.06
46 81 0.32
47 52 0.21
48 20 0.08
49 35 0.14
50 34 0.14
51 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCTCG
Found at i:45194430 original size:99 final size:96
Alignment explanation
Indices: 45194262--45194438 Score: 257
Period size: 99 Copynumber: 1.8 Consensus size: 96
45194252 TGTAATGCCA
* *
45194262 ATGCCACGTCCCAGACATGGTCTTGCACTGGCTCATCCATCAAGTCGATGCCGTGTCCCAGACAT
1 ATGCCACGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGACAT
45194327 GGTCTTACACTGAATATCAAAATAGAGGCTG
66 GGTCTTACACTGAATATCAAAATAGAGGCTG
* * **
45194358 ATGCCATGTCCCAGACATGGTCTTACACTTGCTC-TCACATCTCCGTGTCGATGCCATGTCCCAG
1 ATGCCACGTCCCAGACATGGTCTTACACTGGCTCATC-CA--T-CAAGTCGATGCCATGTCCCAG
45194422 ACATGGTCTTACACTGA
62 ACATGGTCTTACACTGA
45194439 CACATCTCGT
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
95 2 0.03
96 33 0.46
98 1 0.01
99 35 0.49
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (96 bp):
ATGCCACGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGACAT
GGTCTTACACTGAATATCAAAATAGAGGCTG
Found at i:45197784 original size:24 final size:24
Alignment explanation
Indices: 45197757--45197804 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
45197747 GAATCATGTG
45197757 ATCAAACACTACCACATACATGCC
1 ATCAAACACTACCACATACATGCC
45197781 ATCAAACACTACCACATACATGCC
1 ATCAAACACTACCACATACATGCC
45197805 TTATATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.38, G:0.04, T:0.17
Consensus pattern (24 bp):
ATCAAACACTACCACATACATGCC
Found at i:45198832 original size:43 final size:43
Alignment explanation
Indices: 45198784--45198932 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 43
45198774 CAATCCCAAC
* *
45198784 GTCCCAGACGTGGTCTTACATGTCATCACTTATCGATGCCACT
1 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACT
* * *
45198827 GTCCCAGACAG-GGTCTTACATG-AATCAAATAT-GATGCTAAT
1 GTCCCAGAC-GTGGTCTTACATGTAATCACATATCGATGCCACT
* * * * *
45198868 GTCCCAAACATTGTCTTACACGTAATCACATACCGATGCCAAC-
1 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCC-ACT
**
45198911 GTCCCAGACGTGCCCTTACATG
1 GTCCCAGACGTGGTCTTACATG
45198933 AAAACATAGA
Statistics
Matches: 82, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
41 24 0.29
42 15 0.18
43 41 0.50
44 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (43 bp):
GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACT
Found at i:45204512 original size:18 final size:19
Alignment explanation
Indices: 45204479--45204535 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
45204469 ATTAAAAAAT
*
45204479 ATTTTAAATGTAAAAATGTG
1 ATTTTAAATAT-AAAATGTG
** *
45204499 ATTTTTTA-ATAAAA-GTT
1 ATTTTAAATATAAAATGTG
45204516 ATTTTAAATATAAAATGTG
1 ATTTTAAATATAAAATGTG
45204535 A
1 A
45204536 AATTGATACC
Statistics
Matches: 28, Mismatches: 7, Indels: 5
0.70 0.17 0.12
Matches are distributed among these distances:
17 8 0.29
18 10 0.36
19 4 0.14
20 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.44
Consensus pattern (19 bp):
ATTTTAAATATAAAATGTG
Found at i:45205642 original size:98 final size:98
Alignment explanation
Indices: 45205524--45205721 Score: 387
Period size: 98 Copynumber: 2.0 Consensus size: 98
45205514 ACTATTTTGG
45205524 TAGTTTACTCTATTTTTAATAATATTATTAATTTTAACTAATTTATGTTCAATTATTGTAATTTT
1 TAGTTTACTCTATTTTTAATAATATTATTAATTTTAACTAATTTATGTTCAATTATTGTAATTTT
*
45205589 TTCTAAATTTTATATAATTACATTTTATATATT
66 TTCTAAATTTTATATAATTACATTTTATAAATT
45205622 TAGTTTACTCTATTTTTAATAATATTATTAATTTTAACTAATTTATGTTCAATTATTGTAATTTT
1 TAGTTTACTCTATTTTTAATAATATTATTAATTTTAACTAATTTATGTTCAATTATTGTAATTTT
45205687 TTCTAAATTTTATATAATTACATTTTATAAATT
66 TTCTAAATTTTATATAATTACATTTTATAAATT
45205720 TA
1 TA
45205722 AAGTATATAT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 99 1.00
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (98 bp):
TAGTTTACTCTATTTTTAATAATATTATTAATTTTAACTAATTTATGTTCAATTATTGTAATTTT
TTCTAAATTTTATATAATTACATTTTATAAATT
Found at i:45220309 original size:6 final size:6
Alignment explanation
Indices: 45220289--45220343 Score: 85
Period size: 6 Copynumber: 9.3 Consensus size: 6
45220279 TTTACAACCT
* *
45220289 ATTAAA A-TAAA ATTGAA ATTGAA ATTAAA ATTAAA ATTAAA ATTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
45220336 ATTAAA AT
1 ATTAAA AT
45220344 AAGGATGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 5 0.11
6 41 0.89
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (6 bp):
ATTAAA
Found at i:45226005 original size:39 final size:40
Alignment explanation
Indices: 45225900--45226107 Score: 226
Period size: 40 Copynumber: 5.2 Consensus size: 40
45225890 TATTCGAATG
* *
45225900 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACT
* * **
45225941 ATATCCAGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACT
*
45225981 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCAAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
45226020 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
45226060 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CT
45226100 ATATCCGG
1 ATATCCGG
45226108 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
39 35 0.25
40 79 0.56
41 26 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:45226046 original size:79 final size:81
Alignment explanation
Indices: 45225900--45226086 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 81
45225890 TATTCGAATG
* * *
45225900 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCAGACTAAGATCCGAAGGC
*
45225965 ATTTGTGTGAGTTACT
66 ATTTGTGCGAGTTACT
* * **
45225981 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAG
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCAGACTAAGAT-CCGAAG
45226042 GCATTTGTGCGAGTTACT
64 GCATTTGTGCGAGTTACT
* *
45226060 ATAACCGGGCTATGTCCCGAAGGCATT
1 ATATCCGGGCTAAGTCCCGAAGGCATT
45226087 TGAGCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 50 0.54
80 29 0.32
81 12 0.13
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCAGACTAAGATCCGAAGGC
ATTTGTGCGAGTTACT
Found at i:45226110 original size:79 final size:79
Alignment explanation
Indices: 45225904--45226121 Score: 230
Period size: 79 Copynumber: 2.7 Consensus size: 79
45225894 CGAATGATAT
* **
45225904 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGT-GACTATATCCAGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTAG-CTATATCCAGGTTAAG-TCCGAAGGCATT
* *
45225968 TGTGTGAGTTACTAATT
63 TGTGCGAGTTACTAATA
* * *
45225985 CCGGGCTAAG-CCCGAAGGCATTGGTGCAAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCCAGGTTAAGT-CCGAAGGCATTT
45226048 GTGCGAGTTACT-ATAA
64 GTGCGAGTTACTAAT-A
* * * *
45226064 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGTAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCAGGTT-AAGTCCGAAGG
45226122 TATGTGATTC
Statistics
Matches: 116, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
78 3 0.03
79 60 0.52
80 43 0.37
81 10 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCAGGTTAAGTCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:45230703 original size:19 final size:19
Alignment explanation
Indices: 45230679--45230717 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
45230669 CATTTTCCTT
45230679 AGCCCAATTATTCTCAAAA
1 AGCCCAATTATTCTCAAAA
45230698 AGCCCAATTATTCTCAAAA
1 AGCCCAATTATTCTCAAAA
45230717 A
1 A
45230718 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.05, T:0.26
Consensus pattern (19 bp):
AGCCCAATTATTCTCAAAA
Found at i:45233363 original size:34 final size:34
Alignment explanation
Indices: 45233316--45233399 Score: 118
Period size: 34 Copynumber: 2.5 Consensus size: 34
45233306 AATTTTTTTT
*
45233316 AAAA-TAATTAAATTAGGTTTTAG-GGGTTTTAA
1 AAAATTAATTAAATTAGGATTTAGAGGGTTTTAA
**
45233348 GAAAATTAATTAAATTAGGATTTAGAGTTTTTTAA
1 -AAAATTAATTAAATTAGGATTTAGAGGGTTTTAA
45233383 AAAATTAATTAAATTAG
1 AAAATTAATTAAATTAG
45233400 AGTTCAGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 4 0.09
34 35 0.76
35 7 0.15
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.40
Consensus pattern (34 bp):
AAAATTAATTAAATTAGGATTTAGAGGGTTTTAA
Found at i:45233425 original size:33 final size:34
Alignment explanation
Indices: 45233316--45233418 Score: 104
Period size: 34 Copynumber: 3.1 Consensus size: 34
45233306 AATTTTTTTT
** ** * *
45233316 AAAA-TAATTAAATTAGGTTTTAGGGGTTTTAAG
1 AAAATTAATTAAATTAGGAGTTACAGTTTTTAAA
* * *
45233349 AAAATTAATTAAATTAGGATTTAGAGTTTTTTAA
1 AAAATTAATTAAATTAGGAGTTACAGTTTTTAAA
45233383 AAAATTAATTAAATTA-GAGTT-CAGTTTTTAAA
1 AAAATTAATTAAATTAGGAGTTACAGTTTTTAAA
45233415 AAAA
1 AAAA
45233419 AATAATTTTG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
32 13 0.21
33 8 0.13
34 40 0.66
ACGTcount: A:0.46, C:0.01, G:0.14, T:0.40
Consensus pattern (34 bp):
AAAATTAATTAAATTAGGAGTTACAGTTTTTAAA
Found at i:45233425 original size:67 final size:66
Alignment explanation
Indices: 45233283--45233425 Score: 148
Period size: 67 Copynumber: 2.2 Consensus size: 66
45233273 TTAAGAATTT
* ** *
45233283 AAAAATAA-AAAATTAAGATTTAGAATTTTTTTTAAAATAATTAAATTAGGTTTTAGGGGTTTTA
1 AAAAATAATTAAATTAAGATTTAGAATTTTTTAAAAAATAATTAAATTAGGTTTCA-GGGTTTTA
*
45233347 AG
65 AA
* * * *
45233349 AAAATTAATTAAATTAGGATTTAGAGTTTTTTAAAAAATTAATTAAATTAGAG-TTCA-GTTTTT
1 AAAAATAATTAAATTAAGATTTAGAATTTTTTAAAAAA-TAATTAAATTAG-GTTTCAGGGTTTT
45233412 AAAA
64 -AAA
45233416 AAAAATAATT
1 AAAAATAATT
45233426 TTGTGTTTAG
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
66 12 0.19
67 35 0.56
68 15 0.24
69 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.11, T:0.41
Consensus pattern (66 bp):
AAAAATAATTAAATTAAGATTTAGAATTTTTTAAAAAATAATTAAATTAGGTTTCAGGGTTTTAA
A
Found at i:45233820 original size:125 final size:126
Alignment explanation
Indices: 45233482--45233875 Score: 553
Period size: 126 Copynumber: 3.1 Consensus size: 126
45233472 ATTTTGTTTT
* * *
45233482 TTTTTCTACAGTAGTTTC-AGAAAAATTAATTTTGAGAAGACGGTTCTGAAAATAA-AATGTCAA
1 TTTTTCTACAGTAGTTCCTA-AAAAAATAATTTTGAGAAGACGGTTCTGAAAA-AATAGTGTCAA
* * * *
45233545 AAACGCTTCAAACAGGATGCATTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGTTC
64 AAACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* * * *
45233608 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAAAAGATGGTTCTGAAAAAATAGCT-TCAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAG-TGTCAAA
* * *
45233672 AACACTTCAAGCAGAATGTACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTAGACGCTC
65 AACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* * * *
45233734 TTTTTCTACAGTAGCTCCTAAAAAAATAA-TTTGAGAAGCCAGTTTTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* *
45233798 ACACTTTAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
45233859 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
45233876 ATGTTTGGCC
Statistics
Matches: 236, Mismatches: 28, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
124 1 0.00
125 102 0.43
126 132 0.56
127 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
ACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
Found at i:45236580 original size:21 final size:21
Alignment explanation
Indices: 45236551--45236594 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
45236541 TTTAGCTTCC
* *
45236551 GGCGGGGGTTGTGGTTGCTCT
1 GGCGAGGGTTGTGATTGCTCT
*
45236572 GGCGAGGGTTGTGATTGTTCT
1 GGCGAGGGTTGTGATTGCTCT
45236593 GG
1 GG
45236595 TTGTGGGTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.11, G:0.50, T:0.34
Consensus pattern (21 bp):
GGCGAGGGTTGTGATTGCTCT
Found at i:45236864 original size:18 final size:18
Alignment explanation
Indices: 45236838--45236880 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
45236828 GACTGGAAAA
*
45236838 AGGAAACATATAA-GAGTT
1 AGGATACATATAAGGA-TT
45236856 AGGATACATATAAGGATT
1 AGGATACATATAAGGATT
45236874 AGGATAC
1 AGGATAC
45236881 GCACCTAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.47, C:0.07, G:0.23, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGATT
Found at i:45238460 original size:25 final size:24
Alignment explanation
Indices: 45238407--45238459 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
45238397 ACTGTTACAA
*
45238407 AAAATTATAAAATAAAAATTAATT
1 AAAATTACAAAATAAAAATTAATT
*
45238431 AAAATTACATAAATGAAAATATAATT
1 AAAATTACA-AAATAAAAAT-TAATT
45238457 AAA
1 AAA
45238460 TAATATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 8 0.32
25 9 0.36
26 8 0.32
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAATTACAAAATAAAAATTAATT
Found at i:45238658 original size:21 final size:21
Alignment explanation
Indices: 45238634--45238679 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
45238624 TAAAAAGAGC
45238634 TTTGAGAGATTTATAGAGAAA
1 TTTGAGAGATTTATAGAGAAA
* *
45238655 TTTGAGAGATTTTTTGAGAAA
1 TTTGAGAGATTTATAGAGAAA
45238676 TTTG
1 TTTG
45238680 GAAGAAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (21 bp):
TTTGAGAGATTTATAGAGAAA
Found at i:45239188 original size:10 final size:10
Alignment explanation
Indices: 45239170--45239204 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
45239160 CTGCTCTGCT
45239170 GCCTTGCCTC
1 GCCTTGCCTC
*
45239180 GCCTCGCCTC
1 GCCTTGCCTC
*
45239190 GCCTTGCCTT
1 GCCTTGCCTC
45239200 GCCTT
1 GCCTT
45239205 TTTACGTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.00, C:0.49, G:0.20, T:0.31
Consensus pattern (10 bp):
GCCTTGCCTC
Found at i:45239449 original size:12 final size:12
Alignment explanation
Indices: 45239432--45239457 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45239422 TTTTCCATTG
45239432 TTTTGTTTTTTC
1 TTTTGTTTTTTC
45239444 TTTTGTTTTTTC
1 TTTTGTTTTTTC
45239456 TT
1 TT
45239458 GGCCTTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTGTTTTTTC
Found at i:45239857 original size:24 final size:24
Alignment explanation
Indices: 45239803--45239857 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
45239793 ATGTGTTTAT
45239803 TTATTT-ATTTTTTATTATTTTCA
1 TTATTTAATTTTTTATTATTTTCA
* *
45239826 TCTCTTTAATTTTTATTTTATTTTC-
1 T-TATTTAATTTTT-TATTATTTTCA
45239851 TTATTTA
1 TTATTTA
45239858 CTTGCTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 1 0.04
24 9 0.35
25 7 0.27
26 9 0.35
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (24 bp):
TTATTTAATTTTTTATTATTTTCA
Found at i:45246486 original size:2 final size:2
Alignment explanation
Indices: 45246481--45246508 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
45246471 ATATATATAT
45246481 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
45246509 TAAGCAGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:45246903 original size:12 final size:12
Alignment explanation
Indices: 45246880--45246912 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
45246870 TATATTAAAT
45246880 AATAAAATATAA
1 AATAAAATATAA
45246892 AATATAAA-ATAA
1 AATA-AAATATAA
45246904 AATAAAATA
1 AATAAAATA
45246913 ATGTTAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.16
12 13 0.68
13 3 0.16
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAAAATATAA
Found at i:45246913 original size:22 final size:22
Alignment explanation
Indices: 45246871--45246913 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
45246861 AACCATACTT
* *
45246871 ATATTAAATAATAAAATATAAA
1 ATATAAAATAATAAAAAATAAA
45246893 ATATAAAATAA-AATAAAATAA
1 ATATAAAATAATAA-AAAATAA
45246914 TGTTAATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
ATATAAAATAATAAAAAATAAA
Found at i:45247102 original size:27 final size:27
Alignment explanation
Indices: 45247055--45247108 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
45247045 CATTCAATTA
*
45247055 TTTATATTTTTCATATTTTTATAGTAT
1 TTTATATTTTTCATATTTTTAAAGTAT
45247082 TTTA-ATTTATTCA-ATATTTTAAAGTAT
1 TTTATATTT-TTCATAT-TTTTAAAGTAT
45247109 AAAATTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (27 bp):
TTTATATTTTTCATATTTTTAAAGTAT
Found at i:45248588 original size:20 final size:20
Alignment explanation
Indices: 45248563--45248616 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
45248553 TGTAAAGTTG
* *
45248563 TGAAATTTGGTTAAAAATTC
1 TGAAATTTGATGAAAAATTC
*
45248583 TGAAATTTTATGAAAAATTC
1 TGAAATTTGATGAAAAATTC
*
45248603 TGAAATTTTATGAA
1 TGAAATTTGATGAA
45248617 TGCATGTGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.41
Consensus pattern (20 bp):
TGAAATTTGATGAAAAATTC
Found at i:45248702 original size:24 final size:24
Alignment explanation
Indices: 45248670--45248716 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
45248660 GAATAAGGAG
45248670 TAAATTGCATAAATTTCATTTTCC
1 TAAATTGCATAAATTTCATTTTCC
45248694 TAAATTGCATAAATTTCATTTTC
1 TAAATTGCATAAATTTCATTTTC
45248717 TAAGCTTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.47
Consensus pattern (24 bp):
TAAATTGCATAAATTTCATTTTCC
Found at i:45250901 original size:23 final size:21
Alignment explanation
Indices: 45250849--45250957 Score: 119
Period size: 21 Copynumber: 5.1 Consensus size: 21
45250839 CCTGATCAAT
* * *
45250849 ATACGACACATAAAGTGCCTA
1 ATACGACACACAAGGTGCCTG
*
45250870 AAACGACACACAAGGTGCCTG
1 ATACGACACACAAGGTGCCTG
* *
45250891 ATACGACACACGAGGTGACTG
1 ATACGACACACAAGGTGCCTG
*
45250912 ATACGACACACGAGGTGCCTG
1 ATACGACACACAAGGTGCCTG
* *
45250933 AAATACGACACATAAAGTGCCTG
1 --ATACGACACACAAGGTGCCTG
45250956 AT
1 AT
45250958 CGATAAAGCC
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
21 57 0.76
23 18 0.24
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.16
Consensus pattern (21 bp):
ATACGACACACAAGGTGCCTG
Found at i:45251353 original size:15 final size:15
Alignment explanation
Indices: 45251328--45251383 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
45251318 TCATATATAT
45251328 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
45251344 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* * *
45251359 AATAATTTGAATCAA
1 TATAAATTCAATCAA
45251374 TATAAATTCA
1 TATAAATTCA
45251384 TCGCATACCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
15 30 0.88
16 4 0.12
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:45257150 original size:21 final size:21
Alignment explanation
Indices: 45257126--45257176 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
45257116 ACCAAAATCA
*
45257126 AATAAATAATTAAGATAAAAT
1 AATAAATAATTAAAATAAAAT
45257147 AATAAATAATTAAAATAAAAT
1 AATAAATAATTAAAATAAAAT
45257168 AATAAATAA
1 AATAAATAA
45257177 AATAAGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AATAAATAATTAAAATAAAAT
Found at i:45257177 original size:17 final size:17
Alignment explanation
Indices: 45257120--45257194 Score: 75
Period size: 17 Copynumber: 4.4 Consensus size: 17
45257110 TTAATAACCA
*
45257120 AAATCAAAT-AAATAATT
1 AAATAAAATAAAATAA-T
*
45257137 AAGATAAAATAATA-AAT
1 AA-ATAAAATAAAATAAT
*
45257154 AATTAAAATAAAATAAT
1 AAATAAAATAAAATAAT
45257171 AAATAAAATAAGAATAA-
1 AAATAAAATAA-AATAAT
45257188 AAATAAA
1 AAATAAA
45257195 GAGAAATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
16 9 0.18
17 25 0.51
18 13 0.27
19 2 0.04
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAAATAAT
Found at i:45257189 original size:11 final size:12
Alignment explanation
Indices: 45257125--45257181 Score: 59
Period size: 12 Copynumber: 4.9 Consensus size: 12
45257115 AACCAAAATC
45257125 AAAT-AAATAATT
1 AAATAAAATAA-T
45257137 AAGATAAAATAAT
1 AA-ATAAAATAAT
*
45257150 AAAT--AATTA-
1 AAATAAAATAAT
45257159 AAATAAAATAAT
1 AAATAAAATAAT
45257171 AAATAAAATAA
1 AAATAAAATAA
45257182 GAATAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 4 0.11
10 4 0.11
11 4 0.11
12 15 0.39
13 5 0.13
14 6 0.16
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (12 bp):
AAATAAAATAAT
Found at i:45257192 original size:21 final size:20
Alignment explanation
Indices: 45257129--45257205 Score: 70
Period size: 21 Copynumber: 3.9 Consensus size: 20
45257119 AAAATCAAAT
* *
45257129 AAATAATTAAGATAAAATAA
1 AAATAAATAAAATAAAATAA
*
45257149 TAAATAATTAAAATAAAAT--
1 -AAATAAATAAAATAAAATAA
45257168 -AATAAATAAAATAAGAATAA
1 AAATAAATAAAATAA-AATAA
*
45257188 AAATAAAGAGAAATAAAA
1 AAATAAATA-AAATAAAA
45257206 ATTGGGTTGC
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
17 13 0.27
18 3 0.06
21 26 0.54
22 6 0.12
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (20 bp):
AAATAAATAAAATAAAATAA
Found at i:45257202 original size:39 final size:39
Alignment explanation
Indices: 45257119--45257205 Score: 97
Period size: 39 Copynumber: 2.2 Consensus size: 39
45257109 ATTAATAACC
* * * **
45257119 AAAATCAAATAAATAATTAAGATAAAATAATAAATAATT
1 AAAATAAAATAAATAAATAAAATAAAATAATAAATAAAG
45257158 AAAATAAAAT-AATAAATAAAATAAGAATAA-AAATAAAG
1 AAAATAAAATAAATAAATAAAATAA-AATAATAAATAAAG
45257196 AGAAATAAAA
1 A-AAATAAAA
45257206 ATTGGGTTGC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 19 0.46
39 22 0.54
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (39 bp):
AAAATAAAATAAATAAATAAAATAAAATAATAAATAAAG
Found at i:45263541 original size:10 final size:10
Alignment explanation
Indices: 45263523--45263571 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
45263513 TAAATTTTAC
45263523 AAGATAAATA
1 AAGATAAATA
45263533 CAA-ATAAATA
1 -AAGATAAATA
*
45263543 AAGATAATTA
1 AAGATAAATA
45263553 AAGATAAATA
1 AAGATAAATA
*
45263563 AAAATAAAT
1 AAGATAAAT
45263572 CCTAAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAGATAAATA
Found at i:45263621 original size:14 final size:13
Alignment explanation
Indices: 45263585--45263622 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
45263575 AAAATTAAAT
45263585 CTAAATAATTATC
1 CTAAATAATTATC
*
45263598 CTTAATAATTATC
1 CTAAATAATTATC
45263611 CTAATATAATTA
1 CTAA-ATAATTA
45263623 AACATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:45267043 original size:32 final size:32
Alignment explanation
Indices: 45267007--45267071 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
45266997 TACATGAGTT
45267007 CTGAATGCATGATTAAAATTATTTGCACCATA
1 CTGAATGCATGATTAAAATTATTTGCACCATA
*
45267039 CTGAATGCATGATTAAAATTGTTTGCACCATA
1 CTGAATGCATGATTAAAATTATTTGCACCATA
45267071 C
1 C
45267072 ACTATACAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (32 bp):
CTGAATGCATGATTAAAATTATTTGCACCATA
Found at i:45267669 original size:69 final size:69
Alignment explanation
Indices: 45267555--45267692 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
45267545 CCCATCTTTG
45267555 ACCTCAGGTACGGTAAATATGGGTACATAAATTGTTATAACGTTGTTTTAAGCACATACAATTTA
1 ACCTCAGGTACGGTAAATATGGGTACATAAATTGTTATAACGTTGTTTTAAGCACATACAATTTA
45267620 TTTA
66 TTTA
*
45267624 ACCTCAGGTACGGTAAATATGGGTACATAAATTGTTATAATGTTGTTTTAAGCACATACAATTTA
1 ACCTCAGGTACGGTAAATATGGGTACATAAATTGTTATAACGTTGTTTTAAGCACATACAATTTA
45267689 TTTA
66 TTTA
45267693 GTTCTCGATA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (69 bp):
ACCTCAGGTACGGTAAATATGGGTACATAAATTGTTATAACGTTGTTTTAAGCACATACAATTTA
TTTA
Found at i:45271091 original size:43 final size:43
Alignment explanation
Indices: 45271025--45271169 Score: 141
Period size: 43 Copynumber: 3.4 Consensus size: 43
45271015 AGCTCATACA
* *
45271025 ATGCCAACGTCCCAG-ACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGAAAG-GGTCTTACATGTAATCAAATATCG
* * * *
45271068 ATGCCATTGTCCCATATAGGGTCTTACATGAAATCAAATAT-G
1 ATGCCAATGTCCCAGAAAGGGTCTTACATGTAATCAAATATCG
* * * * *
45271110 ATGCCAATGTCCCAGAAATGGTCTCACATGTATAGCACAGATCG
1 ATGCCAATGTCCCAGAAAGGGTCTTACATGTA-ATCAAATATCG
**
45271154 ATGCCAACATCCCAGA
1 ATGCCAATGTCCCAGA
45271170 CGTGGTTTTA
Statistics
Matches: 82, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
42 27 0.33
43 39 0.48
44 16 0.20
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGAAAGGGTCTTACATGTAATCAAATATCG
Found at i:45271133 original size:42 final size:43
Alignment explanation
Indices: 45271025--45271139 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
45271015 AGCTCATACA
* ** *
45271025 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGAAATGGTCTTACATGAAATCAAATATCG
* * * *
45271068 ATGCCATTGTCCCATATAGGGTCTTACATGAAATCAAATAT-G
1 ATGCCAATGTCCCAGAAATGGTCTTACATGAAATCAAATATCG
*
45271110 ATGCCAATGTCCCAGAAATGGTCTCACATG
1 ATGCCAATGTCCCAGAAATGGTCTTACATG
45271140 TATAGCACAG
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 26 0.43
43 34 0.57
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGAAATGGTCTTACATGAAATCAAATATCG
Found at i:45276977 original size:50 final size:50
Alignment explanation
Indices: 45276897--45277109 Score: 354
Period size: 50 Copynumber: 4.2 Consensus size: 50
45276887 TAAATGACCA
*
45276897 TGTATATTTGGCCACTATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCA-TATAGGTATGTACATATGTGATGTTATATTTGATCT
*
45276948 TGTATATTCGGCCATAAAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
* *
45276998 TGTATATTCAGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
* *
45277048 TGTATATTCGGCCATATAGTTATGTACATATGTGATGTTATATTTGTTCT
1 TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
*
45277098 TGTGTATTCGGC
1 TGTATATTCGGC
45277110 TAAATGAGTG
Statistics
Matches: 152, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 139 0.91
51 13 0.09
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.44
Consensus pattern (50 bp):
TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
Found at i:45278779 original size:135 final size:137
Alignment explanation
Indices: 45278520--45278786 Score: 335
Period size: 135 Copynumber: 2.0 Consensus size: 137
45278510 GGTGTTACAC
* *
45278520 CTGCTCACACAAGCTGTTGGTCGAAACATAGCTACACAATGATGCTCACACAAGCTGTCGAGTAT
1 CTGCTCACACAAGCTGTAGGTCGAAACATAGCTACACAATGATGCTCACACAAGCTATCGAGTAT
* * * *
45278585 CCGCAATAAATGCTAGAACTCAGCCACTGGTAGGACATTCAGGACCAACACCCAAAACATGGTAA
66 CCGCAATAAATGCTAAAACTAAGCCACCGGTAGGACATTCAAGACCAACACCCAAAACATGGTAA
45278650 CCTGGGT
131 CCTGGGT
* * *** *
45278657 CTGCTTACACAAGCTGTAGGTC-AGAACGTAGCTACATGGTGCTGCTC-CACAAGCTATCGAGTA
1 CTGCTCACACAAGCTGTAGGTCGA-AACATAGCTACACAATGATGCTCACACAAGCTATCGAGTA
* * * * *
45278720 TCCGCAA-AAATG-TCAAAACTAAGCCACCGGTAGGATATTCAAGACTAGCACTCGAAACATGGT
65 TCCGCAATAAATGCT-AAAACTAAGCCACCGGTAGGACATTCAAGACCAACACCCAAAACATGGT
45278783 AACC
129 AACC
45278787 CTAATGATAT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
134 1 0.01
135 49 0.44
136 23 0.21
137 38 0.34
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (137 bp):
CTGCTCACACAAGCTGTAGGTCGAAACATAGCTACACAATGATGCTCACACAAGCTATCGAGTAT
CCGCAATAAATGCTAAAACTAAGCCACCGGTAGGACATTCAAGACCAACACCCAAAACATGGTAA
CCTGGGT
Found at i:45280345 original size:9 final size:9
Alignment explanation
Indices: 45280333--45280384 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
45280323 TATTAAAAAC
45280333 GAGAGACTT
1 GAGAGACTT
45280342 GAGAGACTT
1 GAGAGACTT
**
45280351 GAGAGGGTTT
1 GAGA-GACTT
45280361 GAGAGAAC-T
1 GAGAG-ACTT
*
45280370 GAGAGAGTT
1 GAGAGACTT
45280379 GAGAGA
1 GAGAGA
45280385 AGGATATGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
8 1 0.03
9 27 0.77
10 7 0.20
ACGTcount: A:0.35, C:0.06, G:0.40, T:0.19
Consensus pattern (9 bp):
GAGAGACTT
Found at i:45280364 original size:19 final size:17
Alignment explanation
Indices: 45280333--45280384 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
45280323 TATTAAAAAC
*
45280333 GAGAGACTTGAGAGACTT
1 GAGAGAGTTGAGAGAC-T
*
45280351 GAGAGGGTTTGAGAGAACT
1 GAGAGAG-TTGAGAG-ACT
45280370 GAGAGAGTTGAGAGA
1 GAGAGAGTTGAGAGA
45280385 AGGATATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 1 0.03
18 12 0.41
19 14 0.48
20 2 0.07
ACGTcount: A:0.35, C:0.06, G:0.40, T:0.19
Consensus pattern (17 bp):
GAGAGAGTTGAGAGACT
Found at i:45284141 original size:14 final size:14
Alignment explanation
Indices: 45284124--45284150 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45284114 TGAAGTGATG
45284124 TGTGTGAAATGAGT
1 TGTGTGAAATGAGT
45284138 TGTGTGAAATGAG
1 TGTGTGAAATGAG
45284151 GAAGGGAAGA
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:0.00, G:0.37, T:0.33
Consensus pattern (14 bp):
TGTGTGAAATGAGT
Found at i:45284764 original size:27 final size:28
Alignment explanation
Indices: 45284711--45284764 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
45284701 AAAAATAATT
*
45284711 AAAATTAAATATGTTAATAATTTAAGTG
1 AAAATTAAATATGTTAATAATTAAAGTG
* *
45284739 AAAATTAATTAT-TTTATAATTAAAGT
1 AAAATTAAATATGTTAATAATTAAAGT
45284765 ATGAATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (28 bp):
AAAATTAAATATGTTAATAATTAAAGTG
Found at i:45284975 original size:14 final size:15
Alignment explanation
Indices: 45284956--45284984 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45284946 GCCGAAAGAC
45284956 ATCTTCTAAC-CACA
1 ATCTTCTAACACACA
45284970 ATCTTCTAACACACA
1 ATCTTCTAACACACA
45284985 TACACTCGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (15 bp):
ATCTTCTAACACACA
Found at i:45293559 original size:24 final size:24
Alignment explanation
Indices: 45293523--45293588 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
45293513 GATGAATCGG
*
45293523 TAAGCT-CATACGAGTTGAGAACAA
1 TAAGCTCCA-ACGAGTTGAAAACAA
*
45293547 TAAGCTCCAACGAGCTGAAAACAA
1 TAAGCTCCAACGAGTTGAAAACAA
**
45293571 TAAGCTCTTACGAGTTGA
1 TAAGCTCCAACGAGTTGA
45293589 TATATCAGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
24 34 0.94
25 2 0.06
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (24 bp):
TAAGCTCCAACGAGTTGAAAACAA
Found at i:45302560 original size:11 final size:11
Alignment explanation
Indices: 45302544--45302569 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
45302534 GTAAAAACAA
45302544 AAAATAATCTT
1 AAAATAATCTT
45302555 AAAATAATCTT
1 AAAATAATCTT
45302566 AAAA
1 AAAA
45302570 CCTCAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATAATCTT
Found at i:45306711 original size:51 final size:51
Alignment explanation
Indices: 45306651--45306754 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
45306641 GGCTGATTCT
45306651 GAAGTTAGAGATTTGAGAAAGAGAGTAAAATCCCAAAATTGGGCCTAGTCG
1 GAAGTTAGAGATTTGAGAAAGAGAGTAAAATCCCAAAATTGGGCCTAGTCG
* *
45306702 GAAGTTAGAGATTTGAGAAAGAGTGTAACATCCCAAAATTGGGCCTAGTCG
1 GAAGTTAGAGATTTGAGAAAGAGAGTAAAATCCCAAAATTGGGCCTAGTCG
45306753 GA
1 GA
45306755 CTAGTAGTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (51 bp):
GAAGTTAGAGATTTGAGAAAGAGAGTAAAATCCCAAAATTGGGCCTAGTCG
Found at i:45307697 original size:27 final size:27
Alignment explanation
Indices: 45307667--45307722 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
45307657 TTGAGGAACT
45307667 AATTCCGATGGTCGACCGTGGAAAACA
1 AATTCCGATGGTCGACCGTGGAAAACA
*
45307694 AATTTCGATGGTCGACCGTGGAAAACA
1 AATTCCGATGGTCGACCGTGGAAAACA
45307721 AA
1 AA
45307723 AGGTTTTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
AATTCCGATGGTCGACCGTGGAAAACA
Found at i:45314518 original size:12 final size:12
Alignment explanation
Indices: 45314501--45314533 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
45314491 CGGCCCGCCC
45314501 ATATTAATTTTT
1 ATATTAATTTTT
45314513 ATATT-ATTTTT
1 ATATTAATTTTT
45314524 ATA-TAATTTT
1 ATATTAATTTT
45314534 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:45316273 original size:15 final size:15
Alignment explanation
Indices: 45316232--45316273 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
45316222 TGGCATTGAA
45316232 TTGAGTATTGAAATGG
1 TTGA-TATTGAAATGG
*
45316248 TTGATAATGAAATGG
1 TTGATATTGAAATGG
45316263 TATGA-ATTGAA
1 T-TGATATTGAA
45316274 TATTGGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (15 bp):
TTGATATTGAAATGG
Found at i:45317559 original size:44 final size:44
Alignment explanation
Indices: 45317509--45317595 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
45317499 CTGCGTTATT
* *
45317509 TACGGCCTTTAGTCGTCCTGCCTACGATGTTGAGCCGTCCTGTC
1 TACGGCCTTTAGTCGTCCTGCCTACGACGTTGAGCCATCCTGTC
* *
45317553 TACGGCCTTTAGTCGTCCTGTCTACGGCGTTGAGCCATCCTGT
1 TACGGCCTTTAGTCGTCCTGCCTACGACGTTGAGCCATCCTGT
45317596 TGACTTATTG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.11, C:0.31, G:0.25, T:0.32
Consensus pattern (44 bp):
TACGGCCTTTAGTCGTCCTGCCTACGACGTTGAGCCATCCTGTC
Found at i:45317569 original size:22 final size:22
Alignment explanation
Indices: 45317509--45317580 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 22
45317499 CTGCGTTATT
*
45317509 TACGGCCTTTAGTCGTCCTGCC
1 TACGGCCTTTAGTCGTCCTGTC
*** * *
45317531 TACGATGTTGAGCCGTCCTGTC
1 TACGGCCTTTAGTCGTCCTGTC
45317553 TACGGCCTTTAGTCGTCCTGTC
1 TACGGCCTTTAGTCGTCCTGTC
45317575 TACGGC
1 TACGGC
45317581 GTTGAGCCAT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.11, C:0.32, G:0.25, T:0.32
Consensus pattern (22 bp):
TACGGCCTTTAGTCGTCCTGTC
Found at i:45317593 original size:22 final size:22
Alignment explanation
Indices: 45317522--45317595 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 22
45317512 GGCCTTTAGT
* **
45317522 CGTCCTGCCTACGATGTTGAGC
1 CGTCCTGTCTACGGCGTTGAGC
* * *
45317544 CGTCCTGTCTACGGCCTTTAGT
1 CGTCCTGTCTACGGCGTTGAGC
45317566 CGTCCTGTCTACGGCGTTGAGC
1 CGTCCTGTCTACGGCGTTGAGC
*
45317588 CATCCTGT
1 CGTCCTGT
45317596 TGACTTATTG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.11, C:0.32, G:0.26, T:0.31
Consensus pattern (22 bp):
CGTCCTGTCTACGGCGTTGAGC
Found at i:45319760 original size:49 final size:49
Alignment explanation
Indices: 45319539--45320682 Score: 2114
Period size: 49 Copynumber: 23.6 Consensus size: 49
45319529 CCCTTCGGGA
* * * * *
45319539 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45319586 CCTGTCACATATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45319633 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45319680 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45319727 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45319776 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45319825 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45319874 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45319923 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45319972 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45320021 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45320070 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45320119 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45320168 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45320217 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45320266 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45320315 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45320364 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45320413 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
45320462 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45320511 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45320558 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45320607 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45320656 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
45320683 TATTGAAATA
Statistics
Matches: 1074, Mismatches: 15, Indels: 16
0.97 0.01 0.01
Matches are distributed among these distances:
45 6 0.01
47 189 0.18
48 1 0.00
49 878 0.82
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45339394 original size:19 final size:19
Alignment explanation
Indices: 45339358--45339396 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
45339348 TATGTGTCAT
*
45339358 CATAAATTCATAGGCATAA
1 CATAAATTCATAGACATAA
**
45339377 CATAAATTTGTAGACATAA
1 CATAAATTCATAGACATAA
45339396 C
1 C
45339397 TTACACATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.28
Consensus pattern (19 bp):
CATAAATTCATAGACATAA
Found at i:45341239 original size:20 final size:20
Alignment explanation
Indices: 45341216--45341341 Score: 76
Period size: 20 Copynumber: 6.4 Consensus size: 20
45341206 GCTTGTCCAT
* *
45341216 ATTACTGGTAGCTTGTTTGC
1 ATTACTGGCAGCTTGTCTGC
* * *
45341236 ATTAC--GCAGTTTATTTGC
1 ATTACTGGCAGCTTGTCTGC
*
45341254 ATTACTGGCAGCTTGTCTAC
1 ATTACTGGCAGCTTGTCTGC
* * * * ** *
45341274 ACTGCTAGAATTTTATCTGC
1 ATTACTGGCAGCTTGTCTGC
* *
45341294 ATTACTGGTAGCTTGTCTAC
1 ATTACTGGCAGCTTGTCTGC
* * *
45341314 ATTACTGGCAGTTTATTTGC
1 ATTACTGGCAGCTTGTCTGC
45341334 ATTACTGG
1 ATTACTGG
45341342 TTGCTTGTCC
Statistics
Matches: 76, Mismatches: 28, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
18 15 0.20
20 61 0.80
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (20 bp):
ATTACTGGCAGCTTGTCTGC
Found at i:45341299 original size:40 final size:40
Alignment explanation
Indices: 45341216--45341350 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
45341206 GCTTGTCCAT
* * * *
45341216 ATTACTGGTAGCTTGTTTGCATTAC--GCAGTTTATTTGC
1 ATTACTGGTAGCTTGTCTACACTACTAGAAGTTTATTTGC
* * * *
45341254 ATTACTGGCAGCTTGTCTACACTGCTAGAATTTTATCTGC
1 ATTACTGGTAGCTTGTCTACACTACTAGAAGTTTATTTGC
* * *
45341294 ATTACTGGTAGCTTGTCTACATTACTGGCAGTTTATTTGC
1 ATTACTGGTAGCTTGTCTACACTACTAGAAGTTTATTTGC
*
45341334 ATTACTGGTTGCTTGTC
1 ATTACTGGTAGCTTGTC
45341351 CATAAATTGG
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
38 20 0.25
40 59 0.75
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (40 bp):
ATTACTGGTAGCTTGTCTACACTACTAGAAGTTTATTTGC
Done.