Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 124 of 250
Found at i:39822327 original size:34 final size:33
Alignment explanation
Indices: 39822274--39822338 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
39822264 ATGCATTTCT
*
39822274 GATACTATACTGAAATGGGCTAAGGCCCACACC
1 GATACTATACTGAAATGGGCTAAAGCCCACACC
* *
39822307 GATACTATTACTGTATTGGGCTAAAGCCCACA
1 GATACTA-TACTGAAATGGGCTAAAGCCCACA
39822339 TTGATATTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 7 0.25
34 21 0.75
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (33 bp):
GATACTATACTGAAATGGGCTAAAGCCCACACC
Found at i:39838457 original size:40 final size:40
Alignment explanation
Indices: 39838360--39838589 Score: 293
Period size: 40 Copynumber: 5.8 Consensus size: 40
39838350 GGATGAAAAG
* * ** * *
39838360 CGGGCTAAGTTCCGAAGGCATCTGCACTAGTGACT-AATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
* *
39838399 CGGGCTAAGTCCCGAAGGCATCTGTGCGAGTTACTAAACC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
* *
39838439 CGAGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
*
39838479 CGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
* * *
39838519 CAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAATC
* *
39838559 CGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
39838590 AGTTATATCC
Statistics
Matches: 168, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
39 30 0.18
40 136 0.81
41 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:39849057 original size:16 final size:17
Alignment explanation
Indices: 39849030--39849062 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
39849020 TATTTTATAA
39849030 AGTTTATTTTCATTTTC
1 AGTTTATTTTCATTTTC
39849047 AGTTT-TTTTCATTTTC
1 AGTTTATTTTCATTTTC
39849063 CTTTTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.15, C:0.12, G:0.06, T:0.67
Consensus pattern (17 bp):
AGTTTATTTTCATTTTC
Found at i:39850836 original size:22 final size:22
Alignment explanation
Indices: 39850811--39850909 Score: 128
Period size: 22 Copynumber: 4.5 Consensus size: 22
39850801 CACTAAGTTA
*
39850811 ACAGGACGGCTCAACGCCGTAG
1 ACAGGACGACTCAACGCCGTAG
*
39850833 ACAGGACTG-CTCAACGCCATAG
1 ACAGGAC-GACTCAACGCCGTAG
*
39850855 ACAGGACGACTCAACGCTGTAG
1 ACAGGACGACTCAACGCCGTAG
* * *
39850877 ACAGAATGACTCAACACCGTAG
1 ACAGGACGACTCAACGCCGTAG
39850899 ACAGGACGACT
1 ACAGGACGACT
39850910 GAAGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
21 1 0.02
22 64 0.97
23 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.25, T:0.12
Consensus pattern (22 bp):
ACAGGACGACTCAACGCCGTAG
Found at i:39851480 original size:19 final size:19
Alignment explanation
Indices: 39851445--39851482 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
39851435 GTGTGAGGCC
*
39851445 CATGAGCCTATTGGGCCCA
1 CATGAGCCTATTAGGCCCA
39851464 CATG-GCCTATCTAGGCCCA
1 CATGAGCCTAT-TAGGCCCA
39851483 ACGTGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.21, C:0.34, G:0.24, T:0.21
Consensus pattern (19 bp):
CATGAGCCTATTAGGCCCA
Found at i:39853144 original size:54 final size:54
Alignment explanation
Indices: 39853086--39853189 Score: 118
Period size: 54 Copynumber: 1.9 Consensus size: 54
39853076 TGAGTTGGGT
* ** *
39853086 CACACGGCCATGTCGCAAGCTGTGTGCTAGACAGTGTAACTCTCTAACTTGCAA
1 CACACAGCCATGTCGCAAGCCATGTGCTAGACAGTGTAACTCACTAACTTGCAA
** * * * *
39853140 CACACAGCTGTGTCGCAGGCCATGTGTTAGGCTGTGTAACTCACTAACTT
1 CACACAGCCATGTCGCAAGCCATGTGCTAGACAGTGTAACTCACTAACTT
39853190 AATACACTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 40 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (54 bp):
CACACAGCCATGTCGCAAGCCATGTGCTAGACAGTGTAACTCACTAACTTGCAA
Found at i:39864737 original size:43 final size:43
Alignment explanation
Indices: 39864688--39864770 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
39864678 CCAGACGTGG
* *
39864688 TCTTACATGTAA-TTCAGTATCGAAGCCTCTATCCCAGACAGGA
1 TCTTACATGAAATTTCA-AATCGAAGCCTCTATCCCAGACAGGA
* * *
39864731 TCTTACATGAAATTTCAAATCGAGGCCTGTGTCCCAGACA
1 TCTTACATGAAATTTCAAATCGAAGCCTCTATCCCAGACA
39864771 CGGTCTTGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 30 0.88
44 4 0.12
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
TCTTACATGAAATTTCAAATCGAAGCCTCTATCCCAGACAGGA
Found at i:39874277 original size:13 final size:13
Alignment explanation
Indices: 39874259--39874283 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39874249 CCAAGTACAC
39874259 GCCCATGTCCCTG
1 GCCCATGTCCCTG
39874272 GCCCATGTCCCT
1 GCCCATGTCCCT
39874284 CACACGGCCT
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:0.08, C:0.48, G:0.20, T:0.24
Consensus pattern (13 bp):
GCCCATGTCCCTG
Found at i:39876992 original size:15 final size:15
Alignment explanation
Indices: 39876938--39877013 Score: 64
Period size: 15 Copynumber: 5.0 Consensus size: 15
39876928 ATATTATTTG
39876938 AATAACCTTTTCAATC
1 AATAACCTTTTC-ATC
* * *
39876954 GATAATCTTCTT-TTC
1 AATAACCTT-TTCATC
* *
39876969 AACAACCTTTTCTTC
1 AATAACCTTTTCATC
* *
39876984 GATAACCTTTTCATA
1 AATAACCTTTTCATC
39876999 AATAACCTTTTCATC
1 AATAACCTTTTCATC
39877014 CTTTTCATTG
Statistics
Matches: 46, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
14 2 0.04
15 35 0.76
16 7 0.15
17 2 0.04
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.42
Consensus pattern (15 bp):
AATAACCTTTTCATC
Found at i:39879773 original size:24 final size:24
Alignment explanation
Indices: 39879742--39879801 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
39879732 TCATCTCGTA
*
39879742 AGAGCTTACTGTTTTCAACTC-TT
1 AGAGCTTACTGTTTTCAACTCAAT
* *
39879765 CAGAGCTTATTG-TTTCAGCTCAAT
1 -AGAGCTTACTGTTTTCAACTCAAT
39879789 AGAGCTTACTGTT
1 AGAGCTTACTGTT
39879802 CATCAGCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 18 0.60
24 12 0.40
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (24 bp):
AGAGCTTACTGTTTTCAACTCAAT
Found at i:39892342 original size:39 final size:40
Alignment explanation
Indices: 39892297--39892520 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
39892287 GCTCCTCGTT
* * * *
39892297 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
39892337 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
39892376 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
39892416 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * *
39892456 CAAATGCCTTC-GGATCTTAGTCCGGA-TTATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
39892496 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39892521 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.01
39 54 0.34
40 97 0.62
41 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39892400 original size:79 final size:78
Alignment explanation
Indices: 39892297--39892520 Score: 238
Period size: 79 Copynumber: 2.8 Consensus size: 78
39892287 GCTCCTCGTT
* *
39892297 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
*
39892361 ATTT-AATGACTCGCA
65 ATTTGTAT--CTCGCA
* * * * *
39892376 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGG
39892441 AATTTGTATCTCGCA
64 AATTTGTATCTCGCA
* * * * * *
39892456 CAAATGCCTTC-GGATCTTAGTCCGGATTATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTTAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCGG
39892520 A
64 A
39892521 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
79 65 0.54
80 49 0.41
81 4 0.03
82 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGAA
TTTGTATCTCGCA
Found at i:39894427 original size:47 final size:47
Alignment explanation
Indices: 39894321--39894523 Score: 286
Period size: 47 Copynumber: 4.3 Consensus size: 47
39894311 TGCACACTTT
* * * *
39894321 TCACAATTGGTCATTCGACCTTATCACATAT--TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATACACACTTTCACAT-TCA
** **
39894367 TCACATTAACCATTCGGCCTTATCACATATATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
39894414 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
*
39894461 TCACATTGGCCATTCAGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
39894508 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
39894524 ATCTTAAGCT
Statistics
Matches: 142, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
45 22 0.15
46 5 0.04
47 115 0.81
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
Found at i:39894485 original size:22 final size:22
Alignment explanation
Indices: 39894413--39894488 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
39894403 TTTCACATTC
*
39894413 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCAGCCTT
* *
39894435 ATCACATAT-ACACACTTTCA-CATT
1 ATCACAT-TGGC-CA--TTCAGCCTT
39894459 CATCACATTGGCCATTCAGCCTT
1 -ATCACATTGGCCATTCAGCCTT
39894482 ATCACAT
1 ATCACAT
39894489 ATACACACTT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 19 0.45
23 6 0.14
24 6 0.14
25 11 0.26
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:39894510 original size:25 final size:25
Alignment explanation
Indices: 39894435--39894513 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
39894425 ATTCGGCCTT
39894435 ATCACATATACACACTTTCACATTC
1 ATCACATATACACACTTTCACATTC
* *
39894460 ATCACAT-TGGC-CA--TTCAGCCTT-
1 ATCACATAT-ACACACTTTCA-CATTC
39894482 ATCACATATACACACTTTCACATTC
1 ATCACATATACACACTTTCACATTC
39894507 ATCACAT
1 ATCACAT
39894514 TGGCCATTCG
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
22 12 0.28
23 6 0.14
24 6 0.14
25 19 0.44
ACGTcount: A:0.33, C:0.32, G:0.04, T:0.32
Consensus pattern (25 bp):
ATCACATATACACACTTTCACATTC
Found at i:39898149 original size:44 final size:46
Alignment explanation
Indices: 39898038--39898203 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
39898028 TTTGTGCGCT
* * *
39898038 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGTAACG-TAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTG-AA-GATGAGCC
* * *
39898084 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATG-AGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAAGATGAGCC
*
39898128 AGTGTAAGACCATGTCT-GGACATGGCATTGACTTGATAGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGA-AGATGAGCC
39898174 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
39898204 AGCATTATAC
Statistics
Matches: 102, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 20 0.20
45 16 0.16
46 54 0.53
47 11 0.11
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAAGATGAGCC
Found at i:39910221 original size:95 final size:95
Alignment explanation
Indices: 39910058--39910377 Score: 399
Period size: 95 Copynumber: 3.4 Consensus size: 95
39910048 TTTATCTATT
* * * * * ** *
39910058 ATGAACAACTTTATTTGAGTTAGTTGATTTAATATCGCTACTCCAAACGGCTCACTAATTTAAGA
1 ATGAACAATTTTATTTAAGTTAGCTGATTTAATATCACTGCTCCAAACGGCTCGTTGATTTAAGA
* *
39910123 TTGCAACCTAAGTTCATTTGATTTAATATC
66 TTGCAACCTAAGTTCATTCGATTTAACATC
* * *
39910153 ATGAACAATTTTATCTAAGTTAGCTGATTTAATATTACTGCTCCAAATGGCTCGTTGATTTAAGA
1 ATGAACAATTTTATTTAAGTTAGCTGATTTAATATCACTGCTCCAAACGGCTCGTTGATTTAAGA
** * *
39910218 TTGCAATTTGAGTTTATTCGATTTAACATC
66 TTGCAACCTAAGTTCATTCGATTTAACATC
* * * * *
39910248 ATAAACAATTTTATTTGAGTTAGCTGATTTAATATCA-TAGCTCCAAACAGCTTGTTGATTTAAT
1 ATGAACAATTTTATTTAAGTTAGCTGATTTAATATCACT-GCTCCAAACGGCTCGTTGATTTAAG
* *
39910312 ATTGTAGCCTAAGTTCATTCGATTTAACATC
65 ATTGCAACCTAAGTTCATTCGATTTAACATC
*
39910343 ATGAACAATTTTATTTAAGTTAGGTGATTTAATAT
1 ATGAACAATTTTATTTAAGTTAGCTGATTTAATAT
39910378 TGATGATTTA
Statistics
Matches: 190, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
94 1 0.01
95 189 0.99
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (95 bp):
ATGAACAATTTTATTTAAGTTAGCTGATTTAATATCACTGCTCCAAACGGCTCGTTGATTTAAGA
TTGCAACCTAAGTTCATTCGATTTAACATC
Found at i:39910500 original size:173 final size:173
Alignment explanation
Indices: 39910233--39910552 Score: 473
Period size: 173 Copynumber: 1.8 Consensus size: 173
39910223 ATTTGAGTTT
* *
39910233 ATTCGATTTAACATCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCATAGCTCCAAACAG
1 ATTCAATTTAACACCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCATAGCTCCAAACAG
* * * * * *
39910298 CTTGTTGATTTAATATTGTAGCCTAAGTTCATTCGATTTAACATCATGAACAATTTTAT-TTAAG
66 CTTGCTAATTTAAGATCGCAGCCTAAGTTCATTCAATTTAACATCATGAACAATTTTATCTT-AG
***
39910362 TTAGGTGATTTAATATTGATGATTTAAGATCATAGCTTAAATTC
130 TTAGCCAATTTAATATTGATGATTTAAGATCATAGCTTAAATTC
*
39910406 ATTCAATTTAACACCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCACT-GCTCCAAATA
1 ATTCAATTTAACACCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCA-TAGCTCCAAACA
* * *
39910470 GCTTGCTAATTTAAGATCGCAGCTTAAGTTCATTCAATTTAACATCATTAATAATTTTATCTTAG
65 GCTTGCTAATTTAAGATCGCAGCCTAAGTTCATTCAATTTAACATCATGAACAATTTTATCTTAG
39910535 TTAGCCAATTTAATATTG
130 TTAGCCAATTTAATATTG
39910553 TTGCTCTAAA
Statistics
Matches: 130, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
173 127 0.98
174 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (173 bp):
ATTCAATTTAACACCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCATAGCTCCAAACAG
CTTGCTAATTTAAGATCGCAGCCTAAGTTCATTCAATTTAACATCATGAACAATTTTATCTTAGT
TAGCCAATTTAATATTGATGATTTAAGATCATAGCTTAAATTC
Found at i:39910604 original size:268 final size:268
Alignment explanation
Indices: 39910156--39910641 Score: 659
Period size: 268 Copynumber: 1.8 Consensus size: 268
39910146 TAATATCATG
* * * * *
39910156 AACAATTTTATCTAAGTTAGCTGATTTAATATTACTGCTCCAAATGGCTCGTTGATTTAAGATTG
1 AACAATTTTATCTAAGTTAGCTGATTTAATATCACTGCTCCAAATAGCTCGCTAATTTAAGATCG
* * * * **
39910221 CAATTTGAGTTTATTCGATTTAACATCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCAT
66 CAACTTAAGTTCATTCAATTTAACATCATAAACAATTTTATTTGAGTTAGCCAATTTAATATCAT
* ** * * * * * *
39910286 AGCTCCAAACAGCTTGTTGATTTAATATTGTAGCCTAAGTTCATTCGATTTAACATCATGAACAA
131 AGCTCCAAACAACTTACTAATTTAATATCGCAACCTAAGTACAATCGATTTAACATCATGAACAA
*
39910351 TTTTATTTAAGTTAGGTGATTTAATATTGATGATTTAAGATCATAGCTTAAATTCATTCAATTTA
196 TTTTATTTAAGTTAGCTGATTTAATATTGATGATTTAAGATCATAGCTTAAATTCATTCAATTTA
39910416 ACACCATA
261 ACACCATA
* * *
39910424 AACAATTTTATTTGAGTTAGCTGATTTAATATCACTGCTCCAAATAGCTTGCTAATTTAAGATCG
1 AACAATTTTATCTAAGTTAGCTGATTTAATATCACTGCTCCAAATAGCTCGCTAATTTAAGATCG
* * * **
39910489 CAGCTTAAGTTCATTCAATTTAACATCATTAATAATTTTATCTT-AGTTAGCCAATTTAATATTG
66 CAACTTAAGTTCATTCAATTTAACATCATAAACAATTTTAT-TTGAGTTAGCCAATTTAATATCA
* * *
39910553 TTGCTCTAAACAACTTACTAATTTAATATCGCAATCTAAGTACAATCGATTTAACATCATGAACA
130 TAGCTCCAAACAACTTACTAATTTAATATCGCAACCTAAGTACAATCGATTTAACATCATGAACA
*
39910618 ATTTTATTTGAGTTAGCTGATTTA
195 ATTTTATTTAAGTTAGCTGATTTA
39910642 CTATCAGTAC
Statistics
Matches: 184, Mismatches: 33, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
268 182 0.99
269 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (268 bp):
AACAATTTTATCTAAGTTAGCTGATTTAATATCACTGCTCCAAATAGCTCGCTAATTTAAGATCG
CAACTTAAGTTCATTCAATTTAACATCATAAACAATTTTATTTGAGTTAGCCAATTTAATATCAT
AGCTCCAAACAACTTACTAATTTAATATCGCAACCTAAGTACAATCGATTTAACATCATGAACAA
TTTTATTTAAGTTAGCTGATTTAATATTGATGATTTAAGATCATAGCTTAAATTCATTCAATTTA
ACACCATA
Found at i:39910655 original size:95 final size:95
Alignment explanation
Indices: 39910408--39910677 Score: 303
Period size: 95 Copynumber: 2.8 Consensus size: 95
39910398 TTAAATTCAT
* * * *
39910408 TCAATTTAACACCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCACTGCTCCAAATAGCT
1 TCAATTTAACATCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCAGTGCTCTAAACAGCT
* * *
39910473 TGCTAATTTAAGATCGCAGCTTAAGTTCAT
66 TGCTAATTTAATATCGCAGCTTAAGTACAA
* * ** * *
39910503 TCAATTTAACATCATTAATAATTTTATCTT-AGTTAGCCAATTTAATAT-TGTTGCTCTAAACAA
1 TCAATTTAACATCATAAACAATTTTAT-TTGAGTTAGCTGATTTAATATCAG-TGCTCTAAACAG
* *
39910566 CTTACTAATTTAATATCGCA-ATCTAAGTACAA
64 CTTGCTAATTTAATATCGCAGCT-TAAGTACAA
* * * *
39910598 TCGATTTAACATCATGAACAATTTTATTTGAGTTAGCTGATTTACTATCAGTACTCTAAACAGCT
1 TCAATTTAACATCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCAGTGCTCTAAACAGCT
* *
39910663 CGTTAATTTAATATC
66 TGCTAATTTAATATC
39910678 ATAACTAATA
Statistics
Matches: 143, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
94 3 0.02
95 137 0.96
96 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (95 bp):
TCAATTTAACATCATAAACAATTTTATTTGAGTTAGCTGATTTAATATCAGTGCTCTAAACAGCT
TGCTAATTTAATATCGCAGCTTAAGTACAA
Found at i:39910821 original size:132 final size:131
Alignment explanation
Indices: 39910569--39910883 Score: 351
Period size: 132 Copynumber: 2.4 Consensus size: 131
39910559 TAAACAACTT
* * * * *
39910569 ACTAATTTAATATCGCAATCTAAGTACAATCGATTTAACATCATGAACAATTTTATTTGAGTTAG
1 ACTAATTTAAGATCGCAACCTAAGTTCATTCGA-TTAATATCATGAACAATTTTATTTGAGTTAG
** * * * * * *
39910634 CTGATTTACTATCAGTACTCTAAACAGCTCGTTAATTTAATATCATAACTAATATCATTAACGGC
65 CCAATTTACTATCACTAATCTAAACAGCTCATTAATTTAAGATCACAACTAATATCATTAACGAC
39910699 TC
130 TC
** *
39910701 ACTAATTTAAGATCGCGGCCTAAGTTCATTCGATTCAATATCATGAATAATTTTATTTGAGTTAG
1 ACTAATTTAAGATCGCAACCTAAGTTCATTCGATT-AATATCATGAACAATTTTATTTGAGTTAG
* ** * * * * *
39910766 CCAATTTACTGTCACTAATCTAAATTGCTCATTGATTTAAGATCGCAGCTGATATCATTAATGAC
65 CCAATTTACTATCACTAATCTAAACAGCTCATTAATTTAAGATCACAACTAATATCATTAACGAC
39910831 TC
130 TC
* * * *
39910833 ACTAATATAAGATTGCAACCTAAGTTCATTTGAATTAATGTCATGAACAAT
1 ACTAATTTAAGATCGCAACCTAAGTTCATTCG-ATTAATATCATGAACAAT
39910884 CTCATCTGTG
Statistics
Matches: 150, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
131 2 0.01
132 145 0.97
133 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (131 bp):
ACTAATTTAAGATCGCAACCTAAGTTCATTCGATTAATATCATGAACAATTTTATTTGAGTTAGC
CAATTTACTATCACTAATCTAAACAGCTCATTAATTTAAGATCACAACTAATATCATTAACGACT
C
Found at i:39912182 original size:46 final size:46
Alignment explanation
Indices: 39912129--39912304 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
39912119 TGGTTGAGCA
39912129 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * * *
39912175 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--TG
* *
39912222 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
39912268 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39912305 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 62 0.58
47 29 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:39912287 original size:93 final size:93
Alignment explanation
Indices: 39912128--39912296 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 93
39912118 ATGGTTGAGC
* * *
39912128 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
39912193 AGTCCGAGTTCGTGAAATGTAACTAGGT
66 AGTCCGAGTTCGTGAAATGTAACTAGGT
* * *
39912221 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
39912286 AGTCCGAGTTC
66 AGTCCGAGTTC
39912297 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
AGTCCGAGTTCGTGAAATGTAACTAGGT
Found at i:39915257 original size:15 final size:15
Alignment explanation
Indices: 39915218--39915296 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
39915208 CGTATCTTGG
*
39915218 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
39915233 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
39915248 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
39915262 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
39915277 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
39915291 TTTCTT
1 TTTCTT
39915297 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:39915281 original size:29 final size:29
Alignment explanation
Indices: 39915210--39915295 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
39915200 CATAGTATCG
* * *
39915210 TATCTTGG-TTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
39915239 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
39915268 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
39915296 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 1 0.02
29 37 0.76
30 11 0.22
ACGTcount: A:0.10, C:0.17, G:0.15, T:0.57
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:39921073 original size:6 final size:6
Alignment explanation
Indices: 39921062--39921094 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
39921052 GGATTGCAAG
*
39921062 TTTCCA TTTCCA TTTCCA TTTTCA TTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTT
39921095 TTGGAAACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (6 bp):
TTTCCA
Found at i:39933343 original size:53 final size:53
Alignment explanation
Indices: 39933240--39933344 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 53
39933230 TTTCTTTTTA
* * * * *
39933240 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATCGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
39933293 AACTCACCATCGCCATGCCTTGGCATGGTTTTACATGGGATCTTTTCCTTAT
1 AACTCACCATCGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAT
39933345 AGTAGTTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (53 bp):
AACTCACCATCGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:39936117 original size:40 final size:40
Alignment explanation
Indices: 39936081--39936350 Score: 402
Period size: 40 Copynumber: 6.8 Consensus size: 40
39936071 GGATATAGCT
*
39936081 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGT-
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTC
* * *
39936120 AGTTCGCACAAATGCCTTCAGGACTTAGCCCGG-ATATAGTA
1 A-CTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTC
*
39936161 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
*
39936201 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
* *
39936241 ACTAGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
*
39936281 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
*
39936321 ACTAGCACAAATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
39936351 CGTTATCATC
Statistics
Matches: 219, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 1 0.00
40 215 0.98
41 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
Found at i:39942930 original size:32 final size:32
Alignment explanation
Indices: 39942893--39942957 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
39942883 CTTAGAACTG
* *
39942893 TGTAATATCTTCTATATTTCTTAATGAATCAA
1 TGTAATATATTCCATATTTCTTAATGAATCAA
39942925 TGTAATATATTCCATATTTCTTAATGAATCAA
1 TGTAATATATTCCATATTTCTTAATGAATCAA
39942957 T
1 T
39942958 CCTTTATCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.46
Consensus pattern (32 bp):
TGTAATATATTCCATATTTCTTAATGAATCAA
Found at i:39943985 original size:13 final size:13
Alignment explanation
Indices: 39943967--39944017 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
39943957 AGTTTAACAT
*
39943967 TGCTTTTGAAAAC
1 TGCTTTTGAAAAG
*
39943980 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
39943993 TG-TTGTGAAAAAG
1 TGCTTTTG-AAAAG
39944006 TGCTTTTGAAAA
1 TGCTTTTGAAAA
39944018 ATACTTTCGA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 3 0.10
13 24 0.77
14 4 0.13
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:39944919 original size:27 final size:27
Alignment explanation
Indices: 39944889--39944961 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
39944879 ATCAGGGTAT
39944889 GCCACAAAGG-TAGTTCTTTTAGAGTTC
1 GCCACAAAGGCTA-TTCTTTTAGAGTTC
*
39944916 GCCACAAAGGCTATTCTTTTAGAGTTT
1 GCCACAAAGGCTATTCTTTTAGAGTTC
** *
39944943 GCCTTAAAGGCTTTTCTTT
1 GCCACAAAGGCTATTCTTT
39944962 CAGATTTTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 39 0.95
28 2 0.05
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
GCCACAAAGGCTATTCTTTTAGAGTTC
Found at i:39944977 original size:27 final size:27
Alignment explanation
Indices: 39944888--39944981 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 27
39944878 AATCAGGGTA
* *
39944888 TGCCACAAAGG-TAGTTCTTTTAGAGTT
1 TGCCATAAAGGCTA-TTCTTTCAGAGTT
* * *
39944915 CGCCACAAAGGCTATTCTTTTAGAGTT
1 TGCCATAAAGGCTATTCTTTCAGAGTT
* * *
39944942 TGCCTTAAAGGCTTTTCTTTCAGATTT
1 TGCCATAAAGGCTATTCTTTCAGAGTT
*
39944969 TTCCATAAAGGCT
1 TGCCATAAAGGCT
39944982 CACAAAATGC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 55 0.96
28 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
TGCCATAAAGGCTATTCTTTCAGAGTT
Found at i:39951682 original size:42 final size:42
Alignment explanation
Indices: 39951616--39951703 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
39951606 GGCTATTACA
* *
39951616 ACACGGCCTAAGACACGAGCGTGTCTCTTGGTCATGTGAGTC
1 ACACAGCCTAAGACACGAGCGTGTCTCTTGGCCATGTGAGTC
*
39951658 ACACAGCCTAAGACACGAGTGTGTCTCTTGGCCATGTGAGTC
1 ACACAGCCTAAGACACGAGCGTGTCTCTTGGCCATGTGAGTC
39951700 ACAC
1 ACAC
39951704 GGCTTGTCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.23
Consensus pattern (42 bp):
ACACAGCCTAAGACACGAGCGTGTCTCTTGGCCATGTGAGTC
Found at i:39955008 original size:27 final size:28
Alignment explanation
Indices: 39954956--39955013 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
39954946 CATCACATAG
39954956 GGGCAAAACAATCATCTTACCATATA-A
1 GGGCAAAACAATCATCTTACCATATATA
* * * *
39954983 GGGCAAAATAATCATTTTATCTTATATA
1 GGGCAAAACAATCATCTTACCATATATA
39955011 GGG
1 GGG
39955014 GGTCTAGGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (28 bp):
GGGCAAAACAATCATCTTACCATATATA
Found at i:39958479 original size:46 final size:46
Alignment explanation
Indices: 39958436--39958702 Score: 356
Period size: 46 Copynumber: 5.8 Consensus size: 46
39958426 CCCTGATAGA
* *
39958436 AAATGTGTAAGAGCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* *
39958482 AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
*
39958528 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* * **
39958574 ATATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGACCGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-CATG
** * *
39958621 AAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* * * *
39958666 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
39958703 TCATGTTGAA
Statistics
Matches: 199, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 159 0.80
47 39 0.20
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
Found at i:39958688 original size:139 final size:138
Alignment explanation
Indices: 39958438--39958707 Score: 371
Period size: 139 Copynumber: 1.9 Consensus size: 138
39958428 CTGATAGAAA
* * * **
39958438 ATGTGTAAGAGCATGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGGAAACGAATAAGACCATGGTTG
* * * * *
39958503 AAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAT
66 AAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACAT
39958568 GACATGAT
131 GACATGAT
* * *
39958576 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGACCGGGAAATGAATAAGACCATGGTT
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-CAGGAAACGAATAAGACCATGGTT
* * *
39958641 GAATGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATC
65 GAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
39958705 ATG
129 ATG
39958708 TTGAAGATAA
Statistics
Matches: 114, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
138 39 0.34
139 75 0.66
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (138 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGGAAACGAATAAGACCATGGTTG
AAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACAT
GACATGAT
Found at i:39968715 original size:16 final size:15
Alignment explanation
Indices: 39968688--39968721 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
39968678 ATAACTAGTA
*
39968688 TATAATTATATTTAT
1 TATAATTATATTAAT
39968703 TATAATATATATTAAT
1 TATAAT-TATATTAAT
39968719 TAT
1 TAT
39968722 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:39975868 original size:31 final size:31
Alignment explanation
Indices: 39975784--39975868 Score: 145
Period size: 31 Copynumber: 2.8 Consensus size: 31
39975774 TCAATCTCAA
*
39975784 CATAT-ACTGGGCCGAAGCCTTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
*
39975814 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
39975845 CATATCACTGGGCCGAAGCCTTTT
1 CATATCACTGGGCCGAAGCCTTTT
39975869 ACTGTAAACG
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 4 0.08
31 47 0.92
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATTATT
Found at i:39976103 original size:25 final size:25
Alignment explanation
Indices: 39976075--39976134 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
39976065 CTGGAGGCCT
*
39976075 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTAGGGCAAA
* *
39976100 AGCCCTTTTTGATAAATTAGGGCAAA
1 AGCCC-TTTTAATAAACTAGGGCAAA
39976126 AGCCCTTTT
1 AGCCCTTTT
39976135 CGGTAAACTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 14 0.47
26 15 0.50
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTAGGGCAAA
Found at i:39976141 original size:26 final size:26
Alignment explanation
Indices: 39976088--39976183 Score: 90
Period size: 26 Copynumber: 3.8 Consensus size: 26
39976078 CTCTTTTAAT
* * *
39976088 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTAGGGCAAAAGCCCTTTTCGGTA
*
39976114 AATTAGGGCAAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAAGCCCTTTTCGGTA
* * *
39976140 AACTGGGGC-GAAGTCCTTTTCGGT-
1 AACTAGGGCAAAAGCCCTTTTCGGTA
* *
39976164 AACTGGGGC-ATAGCCCTTTT
1 AACTAGGGCAAAAGCCCTTTT
39976184 GCACTTCCTC
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 17 0.29
25 13 0.22
26 29 0.49
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (26 bp):
AACTAGGGCAAAAGCCCTTTTCGGTA
Found at i:39993648 original size:33 final size:33
Alignment explanation
Indices: 39993579--39993676 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
39993569 CTATACCCAT
* * *
39993579 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
39993616 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
39993649 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
39993677 ACATATCTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:39993936 original size:41 final size:41
Alignment explanation
Indices: 39993891--39994046 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
39993881 ACCGGCTCTT
*
39993891 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
39993932 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
39993973 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
39994014 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
39994047 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:39994551 original size:21 final size:22
Alignment explanation
Indices: 39994527--39994579 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
39994517 ATAATATATA
39994527 TATTTCAC-TCATACTTTTAAT
1 TATTTCACATCATACTTTTAAT
*
39994548 TATTTCAACTATCATATTTTTAAT
1 TATTTC-AC-ATCATACTTTTAAT
39994572 TATATTCA
1 TAT-TTCA
39994580 TCCAAAGACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 6 0.22
22 2 0.07
24 16 0.59
25 3 0.11
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTTCACATCATACTTTTAAT
Found at i:39999372 original size:147 final size:147
Alignment explanation
Indices: 39999113--39999399 Score: 488
Period size: 147 Copynumber: 2.0 Consensus size: 147
39999103 GCTCCGACCA
*
39999113 ACTTCCAACCTTTGCGAGCTTTGAGCACTATAAAACAGGGAAAAATAAATGGAGTAAGCATTTTA
1 ACTTCCAACCTTCGCGAGCTTTGAGCACTATAAAACAGGGAAAAATAAATGGAGTAAGCATTTTA
*
39999178 TGCTTAGTAAGTTCAGATAACGGAAAATAAACTTACTGGCCTTATTTATTAACACAAGCACAGAT
66 TGCTTAGTAAGTTCAGATAACGGAAAATAAACTTACTGGCCTTATTTATTAACACAAGCACACAT
39999243 ACATACATATCCGACTG
131 ACATACATATCCGACTG
* *
39999260 ACTTCCAACCTTCGTGAGCTTTGAGCATTATAAAACAGGGAAAAATAAATGGAGTAAGCATTTTA
1 ACTTCCAACCTTCGCGAGCTTTGAGCACTATAAAACAGGGAAAAATAAATGGAGTAAGCATTTTA
* *
39999325 TGCTTAGTAAGTTC-GTATAATGGAAAATAAACTTA-TCGGTCTTATTTATTAACACAAGCACAC
66 TGCTTAGTAAGTTCAG-ATAACGGAAAATAAACTTACT-GGCCTTATTTATTAACACAAGCACAC
39999388 ATACATACATAT
129 ATACATACATAT
39999400 TCCATCAATT
Statistics
Matches: 132, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
146 2 0.02
147 130 0.98
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (147 bp):
ACTTCCAACCTTCGCGAGCTTTGAGCACTATAAAACAGGGAAAAATAAATGGAGTAAGCATTTTA
TGCTTAGTAAGTTCAGATAACGGAAAATAAACTTACTGGCCTTATTTATTAACACAAGCACACAT
ACATACATATCCGACTG
Found at i:40004777 original size:25 final size:25
Alignment explanation
Indices: 40004743--40004816 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
40004733 ATGAGTTTTC
40004743 TCAAAATTTTATTGGGGTAAAATCA
1 TCAAAATTTTATTGGGGTAAAATCA
** * **
40004768 TCAAAATTTTATCAAGGATAAAATTG
1 TCAAAATTTTAT-TGGGGTAAAATCA
* *
40004794 TCAAAATTTTGTTGGTGTAAAAT
1 TCAAAATTTTATTGGGGTAAAAT
40004817 TGGGATTAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 19 0.50
26 19 0.50
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.38
Consensus pattern (25 bp):
TCAAAATTTTATTGGGGTAAAATCA
Found at i:40006852 original size:22 final size:22
Alignment explanation
Indices: 40006827--40006870 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
40006817 AATTATTAAC
*
40006827 ATAATTAATTTTAAATAATTTT
1 ATAATAAATTTTAAATAATTTT
* *
40006849 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTAAATAATTTT
40006871 GATCATTTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATAATAAATTTTAAATAATTTT
Found at i:40011091 original size:5 final size:5
Alignment explanation
Indices: 40011081--40011124 Score: 61
Period size: 5 Copynumber: 8.4 Consensus size: 5
40011071 AAATGCTCAT
*
40011081 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAAA GAACAA AAAAA GA
1 GAAAA GAAAA GAAAA GAAAA GAAAA G-AAAA GAA-AA GAAAA GA
40011125 GCATATGTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 26 0.74
6 9 0.26
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:40011387 original size:33 final size:33
Alignment explanation
Indices: 40011345--40011412 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
40011335 AGTGGAGAGA
40011345 AATTACTATATTCAACATATGAAGGAATAAGTT
1 AATTACTATATTCAACATATGAAGGAATAAGTT
* *
40011378 AATTGCTATATTCAACATATGAAGGCATAAGTT
1 AATTACTATATTCAACATATGAAGGAATAAGTT
40011411 AA
1 AA
40011413 ACTTAATGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.32
Consensus pattern (33 bp):
AATTACTATATTCAACATATGAAGGAATAAGTT
Found at i:40011857 original size:22 final size:22
Alignment explanation
Indices: 40011826--40011869 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
40011816 AATTATTAAC
*
40011826 ATAATGAATTTTAAATAATTTT
1 ATAATAAATTTTAAATAATTTT
* *
40011848 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTAAATAATTTT
40011870 GATCATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATAATAAATTTTAAATAATTTT
Found at i:40013414 original size:48 final size:48
Alignment explanation
Indices: 40013343--40013521 Score: 181
Period size: 48 Copynumber: 3.8 Consensus size: 48
40013333 GTTATGTACG
* *
40013343 ATCCCATGTAAAACCATGTCTGGGACATGGCTTTGGCATCGATATGTA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
** * * *
40013391 ATTTCGTGTAAGACCATAG-CTGGG-C-T---ATTAGCATCGATATGTG
1 ATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGTA
* * *
40013434 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTATATTTG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
* * * *
40013482 GTCCCATGTAAGACCATATCCGGGATATGGCATTGGCATC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
40013522 CTACCATGTG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
42 1 0.01
43 33 0.31
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 68 0.64
49 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
Found at i:40016308 original size:4 final size:5
Alignment explanation
Indices: 40016284--40016317 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
40016274 GCATTAGAAC
*
40016284 TTTAT TTTAT TTTAT TTTA- TTTAT TTTGT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
40016318 AGTTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:40016308 original size:14 final size:14
Alignment explanation
Indices: 40016284--40016317 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
40016274 GCATTAGAAC
40016284 TTTATTTTATTTTAT
1 TTTA-TTTATTTTAT
*
40016299 TTTATTTATTTTGT
1 TTTATTTATTTTAT
40016313 TTTAT
1 TTTAT
40016318 AGTTTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTATTTATTTTAT
Found at i:40019375 original size:21 final size:19
Alignment explanation
Indices: 40019339--40019379 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
40019329 GCGAACCCAC
*
40019339 TTATGATAACTTTTGGTGA
1 TTATAATAACTTTTGGTGA
40019358 TTATAATAGACTTGTTGGTGA
1 TTATAATA-ACTT-TTGGTGA
40019379 T
1 T
40019380 GAAGGAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (19 bp):
TTATAATAACTTTTGGTGA
Found at i:40024548 original size:57 final size:58
Alignment explanation
Indices: 40024427--40024549 Score: 133
Period size: 57 Copynumber: 2.1 Consensus size: 58
40024417 CATTACAGAA
* * * * * *
40024427 AGGATTTAGCCTAGACTAGTAATCCTGATTTAAACCCTCTTGAGCATATGTTATAGAT
1 AGGATTTAGCCCAGACGAGTAATCCTGAATTAAACCCTCTTGAGCATATGTTAGAAAC
* * * *
40024485 AGGATTTAGCCCAGACGGGTAATCCT-AATTAAGCTCT-TATGAGCATATGTTGGAAAC
1 AGGATTTAGCCCAGACGAGTAATCCTGAATTAAACCCTCT-TGAGCATATGTTAGAAAC
40024542 AGGATTTA
1 AGGATTTA
40024550 ACTTGGACAA
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
56 1 0.02
57 30 0.56
58 23 0.43
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (58 bp):
AGGATTTAGCCCAGACGAGTAATCCTGAATTAAACCCTCTTGAGCATATGTTAGAAAC
Found at i:40027173 original size:27 final size:26
Alignment explanation
Indices: 40027138--40027249 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
40027128 AGCATGGCTG
* *
40027138 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
40027164 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
40027192 CCAGAGCAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
40027219 CCA-AATCGGATAATTGTGGCATAGCCA
1 CCAGAA-CAGATAA-TGTGGCAGAGCCA
40027246 CCAG
1 CCAG
40027250 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
26 7 0.09
27 50 0.68
28 17 0.23
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:40027202 original size:54 final size:54
Alignment explanation
Indices: 40027138--40027249 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
40027128 AGCATGGCTG
* *
40027138 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAT-CAGATAATCGTGGCAGAGCCA
* * * * *
40027192 CCAGAGCAGATATATGTGGCAGAGCCACCAAATCGGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
40027246 CCAG
1 CCAG
40027250 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
Found at i:40032106 original size:40 final size:40
Alignment explanation
Indices: 40032022--40032246 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
40032012 TTGAATGATG
* * * *
40032022 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
40032062 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
40032102 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
40032141 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
40032181 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
40032222 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40032247 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40032268 original size:119 final size:119
Alignment explanation
Indices: 40032029--40032279 Score: 269
Period size: 119 Copynumber: 2.1 Consensus size: 119
40032019 ATGTCCGGGC
*
40032029 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
* ** * *
40032094 ATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCTGGGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAATCTCGGT
* * * **
40032148 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * * *
40032211 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATC-CGGT
64 AGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAATCTCGGT
* *
40032267 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
40032280 TACGTGATTT
Statistics
Matches: 110, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 77 0.70
120 30 0.27
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAATCTCGGT
Found at i:40041408 original size:40 final size:39
Alignment explanation
Indices: 40041202--40041410 Score: 180
Period size: 40 Copynumber: 5.2 Consensus size: 39
40041192 TATTCGGATG
* *
40041202 ATATCC-GGCAAAGTCCCGAAGGCATTTGGTGCAAGTTACT
1 ATATCCGGGCTAAG-CCCGAAGGCATTT-GTGCAAGTTGCT
*
40041242 ATAT-CGGGCTAAGTCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGCCCGAAGGCATTTGTGC-A--AGTTGCT
* *
40041283 ATAACCCGGGCT-AGTCTCGAAGGCATTTGTGCTAAG-TGACT
1 AT-ATCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTG-CT
* *
40041324 ATATCCGGGCTAAGTCCGAA-GCATTCAT-TGCTAG-TGACT
1 ATATCCGGGCTAAGCCCGAAGGCATT--TGTGCAAGTTG-CT
*
40041363 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTGCT
40041403 ATATCCGG
1 ATATCCGG
40041411 TAAATCCCCA
Statistics
Matches: 141, Mismatches: 13, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
38 4 0.03
39 41 0.29
40 47 0.33
41 24 0.17
42 3 0.02
43 22 0.16
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTGCT
Found at i:40043888 original size:8 final size:8
Alignment explanation
Indices: 40043875--40043905 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
40043865 ACTATCTCTC
40043875 TCTTTTTT
1 TCTTTTTT
40043883 TCTTTTTT
1 TCTTTTTT
40043891 TCTTTTTT
1 TCTTTTTT
40043899 T-TTTTTT
1 TCTTTTTT
40043906 ACTATTACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TCTTTTTT
Found at i:40050435 original size:56 final size:56
Alignment explanation
Indices: 40050344--40050466 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
40050334 GAGATTGGCG
* * *
40050344 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
40050401 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
40050456 CTGAGTGTGCG
1 CTAAGTGTGCG
40050467 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:40050453 original size:27 final size:28
Alignment explanation
Indices: 40050344--40050466 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
40050334 GAGATTGGCG
* * * *
40050344 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
40050373 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
40050401 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
40050429 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
40050456 CTGAGTGTGCG
1 CTAAGTGTGCG
40050467 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:40050477 original size:27 final size:27
Alignment explanation
Indices: 40050369--40050479 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
40050359 TAAATTGTAC
* * *
40050369 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
40050397 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
40050425 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
40050452 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
40050479 A
1 A
40050480 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:40054462 original size:40 final size:40
Alignment explanation
Indices: 40054407--40054630 Score: 297
Period size: 40 Copynumber: 5.5 Consensus size: 40
40054397 TATTCGGATG
40054407 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
40054447 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
40054490 ATACCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
40054530 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
40054570 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
40054610 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
40054631 ATACTTGGGT
Statistics
Matches: 163, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
39 13 0.08
40 113 0.69
41 1 0.01
43 36 0.22
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:40054550 original size:83 final size:80
Alignment explanation
Indices: 40054411--40054630 Score: 293
Period size: 83 Copynumber: 2.7 Consensus size: 80
40054401 CGGATGATAT
* **
40054411 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
40054476 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
* *
40054494 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
40054559 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
40054574 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
40054631 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
79 16 0.13
80 44 0.35
81 2 0.02
83 63 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:40057108 original size:8 final size:8
Alignment explanation
Indices: 40057095--40057124 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
40057085 ACTATCTCTC
40057095 TCTTTTTT
1 TCTTTTTT
40057103 TCTTTTTT
1 TCTTTTTT
40057111 TCTTTTTT
1 TCTTTTTT
40057119 T-TTTTT
1 TCTTTTT
40057125 ACTATTTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.23
8 17 0.77
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TCTTTTTT
Found at i:40069418 original size:25 final size:25
Alignment explanation
Indices: 40069390--40069437 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
40069380 TTATTCAACA
40069390 TGGTATATCATTTCATGCATACATG
1 TGGTATATCATTTCATGCATACATG
40069415 TGGTATATCATTTCATGCATACA
1 TGGTATATCATTTCATGCATACA
40069438 AGTCTATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.40
Consensus pattern (25 bp):
TGGTATATCATTTCATGCATACATG
Found at i:40073093 original size:9 final size:9
Alignment explanation
Indices: 40073079--40073103 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
40073069 TGCTTGCTGT
40073079 AGAGAAATA
1 AGAGAAATA
40073088 AGAGAAATA
1 AGAGAAATA
40073097 AGAGAAA
1 AGAGAAA
40073104 ATGATGCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (9 bp):
AGAGAAATA
Found at i:40073505 original size:21 final size:21
Alignment explanation
Indices: 40073464--40073505 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
40073454 TGAGTCTATT
**
40073464 TTCAAGAGAAACAAATGGAAA
1 TTCAAGAGAAACAAACAGAAA
*
40073485 TTCAAGATAAACAAACAGAAA
1 TTCAAGAGAAACAAACAGAAA
40073506 CATCATCCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.14, T:0.14
Consensus pattern (21 bp):
TTCAAGAGAAACAAACAGAAA
Found at i:40074276 original size:23 final size:24
Alignment explanation
Indices: 40074250--40074294 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
40074240 ATATCCCAAC
*
40074250 ATGGAGTGTAG-GGTTGGATGGAA
1 ATGGAGTGTAGAGGCTGGATGGAA
*
40074273 ATGGCGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
40074295 GTAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.22, C:0.04, G:0.49, T:0.24
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAA
Found at i:40074621 original size:7 final size:7
Alignment explanation
Indices: 40074609--40074635 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
40074599 TCATGGTTTT
40074609 CAATTTA
1 CAATTTA
40074616 CAATTTA
1 CAATTTA
40074623 CAATTTA
1 CAATTTA
40074630 CAATTT
1 CAATTT
40074636 GATTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (7 bp):
CAATTTA
Found at i:40090545 original size:19 final size:18
Alignment explanation
Indices: 40090521--40090563 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
40090511 GCCCAATAAT
* *
40090521 CCCACACTCTCTTGTGGGG
1 CCCACAC-CACTTGTAGGG
40090540 CCCACA-CACTTGTAGGG
1 CCCACACCACTTGTAGGG
40090557 CCCACAC
1 CCCACAC
40090564 GATTCAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 15 0.71
19 6 0.29
ACGTcount: A:0.19, C:0.42, G:0.21, T:0.19
Consensus pattern (18 bp):
CCCACACCACTTGTAGGG
Found at i:40090557 original size:17 final size:17
Alignment explanation
Indices: 40090531--40090563 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
40090521 CCCACACTCT
*
40090531 CTTGTGGGGCCCACACA
1 CTTGTAGGGCCCACACA
40090548 CTTGTAGGGCCCACAC
1 CTTGTAGGGCCCACAC
40090564 GATTCAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.36, G:0.27, T:0.18
Consensus pattern (17 bp):
CTTGTAGGGCCCACACA
Found at i:40092750 original size:48 final size:48
Alignment explanation
Indices: 40092679--40092770 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 48
40092669 AGAACAAGAA
40092679 TGATTCTGGAAAATGAAAATTGGTATGATTTTTTGGTTAATTTTTATT
1 TGATTCTGGAAAATGAAAATTGGTATGATTTTTTGGTTAATTTTTATT
*
40092727 TGATTTTGGAAAATGAAAATTGGTATGATTTTTTGGTTAATTTT
1 TGATTCTGGAAAATGAAAATTGGTATGATTTTTTGGTTAATTTT
40092771 GAGTTATATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.29, C:0.01, G:0.20, T:0.50
Consensus pattern (48 bp):
TGATTCTGGAAAATGAAAATTGGTATGATTTTTTGGTTAATTTTTATT
Found at i:40092783 original size:48 final size:48
Alignment explanation
Indices: 40092679--40092784 Score: 169
Period size: 48 Copynumber: 2.2 Consensus size: 48
40092669 AGAACAAGAA
* * *
40092679 TGATTCTGGAAAATGAAAATTGGTATGATTTTTTGGTTAATTTTTATT
1 TGATTTTGGAAAATGAAAATTGGTATGATTTTTTGGTTAATTTTGAGT
40092727 TGATTTTGGAAAATGAAAATTGGTATGATTTTTTGGTTAATTTTGAGT
1 TGATTTTGGAAAATGAAAATTGGTATGATTTTTTGGTTAATTTTGAGT
40092775 T-ATATTTGGA
1 TGAT-TTTGGA
40092785 TTAAATTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
47 2 0.04
48 52 0.96
ACGTcount: A:0.29, C:0.01, G:0.21, T:0.49
Consensus pattern (48 bp):
TGATTTTGGAAAATGAAAATTGGTATGATTTTTTGGTTAATTTTGAGT
Found at i:40094627 original size:52 final size:51
Alignment explanation
Indices: 40094567--40094674 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 51
40094557 AAATGAATAG
*
40094567 AAATGGAGAA-ATGAAAAACATTCAAAAATGATTATGGTTTTCTCCAAAATGA
1 AAATGGAGAACATG-AAAACATTCAAAAATGAATATGGTTTTCT-CAAAATGA
* ** * * *
40094619 AAATGGAGAACATGAAATCATTTGAACATGAATGTGGTTTTCTCAAAATGG
1 AAATGGAGAACATGAAAACATTCAAAAATGAATATGGTTTTCTCAAAATGA
40094670 AAATG
1 AAATG
40094675 AAAACTGAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 12 0.25
52 33 0.69
53 3 0.06
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (51 bp):
AAATGGAGAACATGAAAACATTCAAAAATGAATATGGTTTTCTCAAAATGA
Found at i:40094688 original size:13 final size:13
Alignment explanation
Indices: 40094663--40094696 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
40094653 TGGTTTTCTC
*
40094663 AAAATGGAAATGA
1 AAAATGAAAATGA
*
40094676 AAACTGAAAATGA
1 AAAATGAAAATGA
40094689 AAAATGAA
1 AAAATGAA
40094697 TTCATTTTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.18, T:0.15
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:40095706 original size:46 final size:46
Alignment explanation
Indices: 40095656--40095756 Score: 184
Period size: 46 Copynumber: 2.2 Consensus size: 46
40095646 AATTAGTGGT
40095656 ACACCACATGATGACTACAATATTGTCCAAGTGCATTACTAGTACA
1 ACACCACATGATGACTACAATATTGTCCAAGTGCATTACTAGTACA
* *
40095702 ACACCACATGATGACTACAATATTGTCCTAGTGCATTACTAGTACT
1 ACACCACATGATGACTACAATATTGTCCAAGTGCATTACTAGTACA
40095748 ACACCACAT
1 ACACCACAT
40095757 TAAAACATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.27
Consensus pattern (46 bp):
ACACCACATGATGACTACAATATTGTCCAAGTGCATTACTAGTACA
Found at i:40095769 original size:46 final size:46
Alignment explanation
Indices: 40095656--40095771 Score: 153
Period size: 46 Copynumber: 2.5 Consensus size: 46
40095646 AATTAGTGGT
**
40095656 ACACCACATGATGACTACAATATTGTCCAAGTGCATTACTAGTACA
1 ACACCACATGAAAACTACAATATTGTCCAAGTGCATTACTAGTACA
** * *
40095702 ACACCACATGATGACTACAATATTGTCCTAGTGCATTACTAGTACT
1 ACACCACATGAAAACTACAATATTGTCCAAGTGCATTACTAGTACA
*
40095748 ACACCACATTAAAAC-ATCAATATT
1 ACACCACATGAAAACTA-CAATATT
40095772 TTTAGTCTTG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 1 0.02
46 63 0.98
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (46 bp):
ACACCACATGAAAACTACAATATTGTCCAAGTGCATTACTAGTACA
Found at i:40098997 original size:37 final size:38
Alignment explanation
Indices: 40098947--40099027 Score: 148
Period size: 37 Copynumber: 2.2 Consensus size: 38
40098937 ACTTTAATGG
40098947 GAATTC-ATCCAAAGGAATTAAATGGGCTTATTGGGCT
1 GAATTCTATCCAAAGGAATTAAATGGGCTTATTGGGCT
40098984 GAATTCTA-CCAAAGGAATTAAATGGGCTTATTGGGCT
1 GAATTCTATCCAAAGGAATTAAATGGGCTTATTGGGCT
40099021 GAATTCT
1 GAATTCT
40099028 TACATGATGA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
37 42 0.98
38 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (38 bp):
GAATTCTATCCAAAGGAATTAAATGGGCTTATTGGGCT
Found at i:40100253 original size:17 final size:17
Alignment explanation
Indices: 40100228--40100260 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
40100218 TCAAGAAAAG
40100228 AAAGAATGATGAATGAT
1 AAAGAATGATGAATGAT
*
40100245 AAAGGATGATGAATGA
1 AAAGAATGATGAATGA
40100261 GGGAATGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.27, T:0.21
Consensus pattern (17 bp):
AAAGAATGATGAATGAT
Found at i:40100681 original size:229 final size:229
Alignment explanation
Indices: 40100280--40100737 Score: 898
Period size: 229 Copynumber: 2.0 Consensus size: 229
40100270 GGGGTCATAT
40100280 TTATAGGTGAAGAGAGGTGGGTAGTTTGCTAAAAATAGCTAGGTTTAGTCTCTTCAAATCTCTTC
1 TTATAGGTGAAGAGAGGTGGGTAGTTTGCTAAAAATAGCTAGGTTTAGTCTCTTCAAATCTCTTC
40100345 CTTAGAGCGACCACAATTAGTGGAATTTGAGCTGATTTTTGCTTGATTTTTAAGCAAATTAAATG
66 CTTAGAGCGACCACAATTAGTGGAATTTGAGCTGATTTTTGCTTGATTTTTAAGCAAATTAAATG
40100410 CCATAATAACTTAGGACTTAGACTCGGTCAATCGTAAATCTTCTACCAAATCTCTAATTTCTTCA
131 CCATAATAACTTAGGACTTAGACTCGGTCAATCGTAAATCTTCTACCAAATCTCTAATTTCTTCA
40100475 ACAATGAAAGGACCTTGTGTAATTAAACCAAAAA
196 ACAATGAAAGGACCTTGTGTAATTAAACCAAAAA
40100509 TTATAGGTGAAGAGAGGTGGGTAGTTTGCTAAAAATAGCTAGGTTTAGTCTCTTCAAATCTCTTC
1 TTATAGGTGAAGAGAGGTGGGTAGTTTGCTAAAAATAGCTAGGTTTAGTCTCTTCAAATCTCTTC
40100574 CTTAGAGCGACCACAATTAGTGGAATTTGAGCTGATTTTTGCTTGATTTTTAAGCAAATTAAATG
66 CTTAGAGCGACCACAATTAGTGGAATTTGAGCTGATTTTTGCTTGATTTTTAAGCAAATTAAATG
*
40100639 CCATAATAACTTAGGACTTAGACTCGGTCAATCGTAAATCTTCTGCCAAATCTCTAATTTCTTCA
131 CCATAATAACTTAGGACTTAGACTCGGTCAATCGTAAATCTTCTACCAAATCTCTAATTTCTTCA
*
40100704 ACAATGAGAGGACCTTGTGTAATTAAACCAAAAA
196 ACAATGAAAGGACCTTGTGTAATTAAACCAAAAA
40100738 GTGGCTTAAA
Statistics
Matches: 227, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
229 227 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (229 bp):
TTATAGGTGAAGAGAGGTGGGTAGTTTGCTAAAAATAGCTAGGTTTAGTCTCTTCAAATCTCTTC
CTTAGAGCGACCACAATTAGTGGAATTTGAGCTGATTTTTGCTTGATTTTTAAGCAAATTAAATG
CCATAATAACTTAGGACTTAGACTCGGTCAATCGTAAATCTTCTACCAAATCTCTAATTTCTTCA
ACAATGAAAGGACCTTGTGTAATTAAACCAAAAA
Found at i:40107008 original size:47 final size:47
Alignment explanation
Indices: 40106931--40107200 Score: 170
Period size: 49 Copynumber: 5.6 Consensus size: 47
40106921 GATAAGATGC
* * * *
40106931 CGATGCCATGTTCTAGACATGGTCTTACACTGGCTAACACATCAAAGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCACACATCGAAGT
* * * * * *
40106979 CGATGCCATGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGC--TCACACATCGAAGT
* * * **
40107028 CGATGCCGTGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCACA-C-ATCGAAGT
* * * * *
40107077 CGATGCCATGTCCCAGATAGGTCTTACACTAGCTTGCATATC-TCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGC-T-CACA-CATCGAAGT
* * * * * ** *
40107126 CAATG-CATGTCCCAAACATGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCACA-CATCGAAGT
*
40107172 CGATG-CATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
40107201 AGCACACATA
Statistics
Matches: 177, Mismatches: 38, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
46 34 0.19
47 18 0.10
48 39 0.22
49 81 0.46
50 1 0.01
51 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCACACATCGAAGT
Found at i:40107040 original size:49 final size:49
Alignment explanation
Indices: 40106979--40107200 Score: 233
Period size: 49 Copynumber: 4.6 Consensus size: 49
40106969 ACATCAAAGT
* *
40106979 CGATGCCATGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGC
* * * * *
40107028 CGATGCCGTGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCG-GTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GC
* *
40107077 CGATGCCATGTCCCAGATAGGTCTTACACT-AGCT-TGCATATCTCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTCT-CATATATCGAGGC
* * * * *
40107126 CAATG-CATGTCCCAAACATGTCTTACACTGGCTCTCATA-AT-GTGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGC
*
40107172 CGATG-CATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
40107201 AGCACACATA
Statistics
Matches: 146, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
46 31 0.21
47 1 0.01
48 29 0.20
49 84 0.58
50 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGC
Found at i:40107089 original size:98 final size:95
Alignment explanation
Indices: 40106977--40107203 Score: 280
Period size: 98 Copynumber: 2.4 Consensus size: 95
40106967 ACACATCAAA
* * * *
40106977 GTCGATGCCATGTCCCAAACAGGTCTTACACT-GACTTTCATATATCGAGGCCGATGCCGTGTCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTAG-CTTGCATATATCGAGGCCAATG-CATGTCC
* * *
40107041 CAGATAGGTCTTACACTGGCTCTCATCTATCG-G
64 CAAACAGGTCTTACACTGGCTCTCAT-AAT-GTG
* *
40107074 TGTCGATGCCATGTCCCAGATAGGTCTTACACTAGCTTGCATATCTCGAGGCCAATGCATGTCCC
1 -GTCGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATATCGAGGCCAATGCATGTCCC
*
40107139 AAACATGTCTTACACTGGCTCTCATAATGTG
65 AAACAGGTCTTACACTGGCTCTCATAATGTG
* *
40107170 GCCGATG-CATGTCCCAGACATGTCTTACACTAGC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTAGC
40107204 ACACATATCA
Statistics
Matches: 114, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
94 25 0.22
95 7 0.06
96 3 0.03
97 29 0.25
98 49 0.43
99 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (95 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATATCGAGGCCAATGCATGTCCCA
AACAGGTCTTACACTGGCTCTCATAATGTG
Found at i:40130703 original size:17 final size:17
Alignment explanation
Indices: 40130660--40130714 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
40130650 GTAAATAATA
*
40130660 ATTCAACACTATATTGTAT
1 ATTCAACACTA-ATAG-AT
*
40130679 ATTTAACACTAATAGAT
1 ATTCAACACTAATAGAT
*
40130696 ATTCAACACTAATAAAT
1 ATTCAACACTAATAGAT
40130713 AT
1 AT
40130715 AAACTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 19 0.59
18 3 0.09
19 10 0.31
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (17 bp):
ATTCAACACTAATAGAT
Found at i:40138288 original size:61 final size:60
Alignment explanation
Indices: 40138218--40138395 Score: 161
Period size: 61 Copynumber: 3.0 Consensus size: 60
40138208 TTGTTAAATT
*
40138218 ATATTTAATAATAATAATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
1 ATATTTAATAATAATAATTTTATA-TATTATATATTATGATTTTAATAAATTCATATAAGA
* * * * * *
40138279 ATATTTAATACTAAGAATTTTATTAAATTATATATT-T--TTGTTAAATTATATTTA-ATAATA
1 ATATTTAATAATAATAATTTTA-TATATTATATATTATGATT-TT-AA-TAAATTCATATAAGA
* * *
40138339 ATTATTTTA-AATTAT-ATTTTATAATATTATATATTATAATTTTAATAAATTCATATA
1 A-TATTTAATAATAATAATTTTAT-ATATTATATATTATGATTTTAATAAATTCATATA
40138396 TTTTATCAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
58 3 0.03
59 25 0.27
60 17 0.18
61 44 0.47
62 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (60 bp):
ATATTTAATAATAATAATTTTATATATTATATATTATGATTTTAATAAATTCATATAAGA
Found at i:40138348 original size:26 final size:25
Alignment explanation
Indices: 40138310--40138368 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
40138300 ATTAAATTAT
*
40138310 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
40138336 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
40138362 ATATTAT
1 ATATTAT
40138369 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:40138367 original size:15 final size:15
Alignment explanation
Indices: 40138323--40138378 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
40138313 TTTTTGTTAA
*
40138323 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
40138338 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
40138349 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
40138364 ATTATATATTATAAT
1 ATTATATTTTATAAT
40138379 TTTAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:40138394 original size:24 final size:22
Alignment explanation
Indices: 40138349--40138417 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
40138339 ATTATTTTAA
40138349 ATTATATTTTATAATATTATAT
1 ATTATATTTTATAATATTATAT
* *
40138371 ATTATAATTT-TAATA-AAT-T
1 ATTATATTTTATAATATTATAT
40138390 CA-TATATTTTATCAA-ATTATAT
1 -ATTATATTTTAT-AATATTATAT
40138412 ATTATA
1 ATTATA
40138418 AAAAAATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
19 8 0.22
20 5 0.14
21 10 0.27
22 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATATTTTATAATATTATAT
Found at i:40138413 original size:17 final size:17
Alignment explanation
Indices: 40138295--40138435 Score: 61
Period size: 17 Copynumber: 8.6 Consensus size: 17
40138285 AATACTAAGA
*
40138295 ATTTTATTAAATTATAT
1 ATTTTAATAAATTATAT
**
40138312 ATTTTTGTTAAA-T-TAT
1 A-TTTTAATAAATTATAT
*
40138328 A-TTTAAT-AATAAT-T
1 ATTTTAATAAATTATAT
* *
40138342 ATTTTAAATTATATTTTAT
1 ATTTT-AA-TAAATTATAT
* *
40138361 AATATT-ATATATTATA-
1 -ATTTTAATAAATTATAT
40138377 ATTTTAATAAATTCATAT
1 ATTTTAATAAATT-ATAT
40138395 ATTTT-ATCAAATTATAT
1 ATTTTAAT-AAATTATAT
* *
40138412 ATTATAA-AAA-AATAT
1 ATTTTAATAAATTATAT
40138427 A-TTTAATAA
1 ATTTTAATAA
40138436 TAATTATGTT
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
13 2 0.02
14 10 0.11
15 15 0.16
16 15 0.16
17 24 0.25
18 24 0.25
19 1 0.01
20 4 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (17 bp):
ATTTTAATAAATTATAT
Found at i:40138688 original size:16 final size:16
Alignment explanation
Indices: 40138663--40138730 Score: 91
Period size: 16 Copynumber: 4.2 Consensus size: 16
40138653 GATTTGCTAT
40138663 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* * *
40138679 TACACTTCTATTCCAT
1 TACACCTCTAATCCAA
*
40138695 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
*
40138711 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
40138727 TACA
1 TACA
40138731 GCGAACCAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:40141146 original size:36 final size:35
Alignment explanation
Indices: 40141090--40141158 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 35
40141080 ATCCTTGCTG
**
40141090 TTTACTTATTTGAATTGTGTCAAGAATCTTTATGA
1 TTTACTTATTTGAAGGGTGTCAAGAATCTTTATGA
40141125 TTTACTTTATTTGAAGGGTGTCAAGAATCTTTAT
1 TTTAC-TTATTTGAAGGGTGTCAAGAATCTTTAT
40141159 TGTATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 5 0.16
36 26 0.84
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.48
Consensus pattern (35 bp):
TTTACTTATTTGAAGGGTGTCAAGAATCTTTATGA
Found at i:40146115 original size:63 final size:63
Alignment explanation
Indices: 40146013--40146132 Score: 213
Period size: 63 Copynumber: 1.9 Consensus size: 63
40146003 CTAAGCCAGT
* *
40146013 AGATTATCCATCAGATCCATTCAGTAAAAAGCCATAAGAAAGAGATTAACCAGGCAAGCTAGC
1 AGATTATCCATCAGATCCATTCAGTAAAAAGCCAAAAGAAAGAGATTAACAAGGCAAGCTAGC
*
40146076 AGATTATCCATCAGATCCATTCAGTAAAAAGCCAAAAGAAAGAGATTTACAAGGCAA
1 AGATTATCCATCAGATCCATTCAGTAAAAAGCCAAAAGAAAGAGATTAACAAGGCAA
40146133 TTTATAGAGA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (63 bp):
AGATTATCCATCAGATCCATTCAGTAAAAAGCCAAAAGAAAGAGATTAACAAGGCAAGCTAGC
Found at i:40147541 original size:25 final size:25
Alignment explanation
Indices: 40147509--40147558 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
40147499 TCACTTTCCT
40147509 TTCCTTAGCTTTTCCCTCAAATTGG
1 TTCCTTAGCTTTTCCCTCAAATTGG
40147534 TTCCTTAGCTTTTCCCTCAAATTGG
1 TTCCTTAGCTTTTCCCTCAAATTGG
40147559 GGTAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (25 bp):
TTCCTTAGCTTTTCCCTCAAATTGG
Found at i:40151852 original size:18 final size:18
Alignment explanation
Indices: 40151829--40151863 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
40151819 ACCAAGGCTT
40151829 GACTCGTTTAGAAAATGA
1 GACTCGTTTAGAAAATGA
40151847 GACTCGTTTAGAAAATG
1 GACTCGTTTAGAAAATG
40151864 GGTCTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (18 bp):
GACTCGTTTAGAAAATGA
Found at i:40152383 original size:28 final size:29
Alignment explanation
Indices: 40152331--40152386 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
40152321 TTAATATTAT
* *
40152331 TTAATTTATTTTAATATTAAAAAAATAAA
1 TTAATCTATTTTAATAATAAAAAAATAAA
*
40152360 TTAATCTA-TTTAATAATAATAAAATAA
1 TTAATCTATTTTAATAATAAAAAAATAA
40152387 TTTAGTTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
TTAATCTATTTTAATAATAAAAAAATAAA
Found at i:40152963 original size:24 final size:25
Alignment explanation
Indices: 40152907--40152963 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
40152897 CTTATGAAAT
*
40152907 AATTAAAGAATATAAAAAATTGATT
1 AATTAAAGAATATAAAAAATTGATC
*
40152932 AA-AAAAGAATATAAAAAATT-ATC
1 AATTAAAGAATATAAAAAATTGATC
*
40152955 AATTTAAGA
1 AATTAAAGA
40152964 TTTAGTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 4 0.15
24 21 0.78
25 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (25 bp):
AATTAAAGAATATAAAAAATTGATC
Found at i:40153044 original size:32 final size:32
Alignment explanation
Indices: 40153008--40153072 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
40152998 TTAATAATGT
40153008 TAAAAATAATTATAACTAATCTATTTAAGACG
1 TAAAAATAATTATAACTAATCTATTTAAGACG
40153040 TAAAAATAATTATAACTAATCTATTTAAGACG
1 TAAAAATAATTATAACTAATCTATTTAAGACG
40153072 T
1 T
40153073 CATTCTTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.35
Consensus pattern (32 bp):
TAAAAATAATTATAACTAATCTATTTAAGACG
Found at i:40156403 original size:22 final size:22
Alignment explanation
Indices: 40156378--40156430 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
40156368 GCCTAGCAGG
40156378 CTTAGTGCCGGTGTTATTCAAA
1 CTTAGTGCCGGTGTTATTCAAA
* ** **
40156400 CTTATTTTCGGTGTTATTCAGG
1 CTTAGTGCCGGTGTTATTCAAA
40156422 CTTAGTGCC
1 CTTAGTGCC
40156431 TAGCAAGCTT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.42
Consensus pattern (22 bp):
CTTAGTGCCGGTGTTATTCAAA
Found at i:40156465 original size:38 final size:38
Alignment explanation
Indices: 40156410--40156539 Score: 179
Period size: 38 Copynumber: 3.4 Consensus size: 38
40156400 CTTATTTTCG
*
40156410 GTGTTATTCAGGCTTAGTGCCTAGCAAGCTTAGTGCCA
1 GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCA
* *
40156448 GTGTTATTCAGGATTAGTGCCTAGTAGGCTTAGTGCCA
1 GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCA
* * * *
40156486 ATGTTATTTAGGCTTAGTGCCTAGCAGGCTTAGTACCG
1 GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCA
* *
40156524 GTGTTTTTCAGACTTA
1 GTGTTATTCAGGCTTA
40156540 TTACCGGTGT
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 79 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (38 bp):
GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCA
Found at i:40157890 original size:42 final size:43
Alignment explanation
Indices: 40157772--40157938 Score: 130
Period size: 43 Copynumber: 3.9 Consensus size: 43
40157762 TAAACGTTGT
* * *
40157772 CATCGAT-CTGAGA-TATCATGTAAGACCGTGTCTGGGACACAGG
1 CATCGATACTGA-ATTA-CATGTAAGACCCTGTCTGGGACAGAGA
* * * * * **
40157815 CCTTGAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATCGA
1 CATCGATACTGA-A-TTACATGTAAGACCCTGTCTGGGACAGAGA
* *
40157859 CATCG-TATCTGAATT-CATGTAAGACCCTGTCTGGAACAGAGG
1 CATCGATA-CTGAATTACATGTAAGACCCTGTCTGGGACAGAGA
40157901 CATCGATACTGAATTACATGTAAGACCAC-GTCTGGGAC
1 CATCGATACTGAATTACATGTAAGACC-CTGTCTGGGAC
40157939 GTAGGTATTG
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
42 33 0.33
43 34 0.34
44 27 0.27
45 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (43 bp):
CATCGATACTGAATTACATGTAAGACCCTGTCTGGGACAGAGA
Found at i:40157934 original size:43 final size:43
Alignment explanation
Indices: 40157829--40157935 Score: 121
Period size: 42 Copynumber: 2.5 Consensus size: 43
40157819 GATTTGAGAT
* * * **
40157829 TTACGTGTAAGACCATGTCTGGGACATCGACATCGTATCTGAA
1 TTACATGTAAGACCACGTCTGGAACAGAGACATCGTATCTGAA
*
40157872 TT-CATGTAAGACC-CTGTCTGGAACAGAGGCATCG-ATACTGAA
1 TTACATGTAAGACCAC-GTCTGGAACAGAGACATCGTAT-CTGAA
40157914 TTACATGTAAGACCACGTCTGG
1 TTACATGTAAGACCACGTCTGG
40157936 GACGTAGGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
41 2 0.04
42 32 0.59
43 19 0.35
44 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
TTACATGTAAGACCACGTCTGGAACAGAGACATCGTATCTGAA
Found at i:40158221 original size:32 final size:32
Alignment explanation
Indices: 40158184--40158250 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
40158174 TGAACTATTC
40158184 TGTGAAATGACTATGAATTCTTGCTGTTGATT
1 TGTGAAATGACTATGAATTCTTGCTGTTGATT
*
40158216 TGTGAAATGGCTATGAATTCTTGCTGTTGATT
1 TGTGAAATGACTATGAATTCTTGCTGTTGATT
40158248 TGT
1 TGT
40158251 ACTTTATATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.45
Consensus pattern (32 bp):
TGTGAAATGACTATGAATTCTTGCTGTTGATT
Found at i:40160190 original size:12 final size:12
Alignment explanation
Indices: 40160156--40160194 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
40160146 TCAGAGAGTT
*
40160156 ACATGGCCTAAC
1 ACATGGCCTAGC
* *
40160168 ACACGGTCTAGC
1 ACATGGCCTAGC
40160180 ACATGGCCTAGC
1 ACATGGCCTAGC
40160192 ACA
1 ACA
40160195 CAAGCATGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.33, G:0.21, T:0.15
Consensus pattern (12 bp):
ACATGGCCTAGC
Found at i:40164843 original size:23 final size:24
Alignment explanation
Indices: 40164820--40164866 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
40164810 CAGATCCATT
* *
40164820 TTCATAGCTTGTGTGAGCATATTTA
1 TTCACAGCTTGTATGAGCATA-TTA
*
40164845 TTCACAGTTTGTATGAGCATAT
1 TTCACAGCTTGTATGAGCATAT
40164867 ATGTACATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 1 0.05
25 18 0.95
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.43
Consensus pattern (24 bp):
TTCACAGCTTGTATGAGCATATTA
Found at i:40166026 original size:15 final size:16
Alignment explanation
Indices: 40166006--40166035 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40165996 TGGTGCCTTG
40166006 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
40166021 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
40166036 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:40170920 original size:21 final size:22
Alignment explanation
Indices: 40170878--40170920 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
40170868 ATTGAAATGA
* *
40170878 TAATTTTATTTTTTTATGATAT
1 TAATTTTATTATTTAATGATAT
40170900 TAATTTTATTATTTAAT-ATAT
1 TAATTTTATTATTTAATGATAT
40170921 AAGCTAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TAATTTTATTATTTAATGATAT
Found at i:40174600 original size:16 final size:17
Alignment explanation
Indices: 40174579--40174616 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
40174569 TTTAAAAAAA
40174579 AAAACAAA-ACAAGCCC
1 AAAACAAATACAAGCCC
*
40174595 AAAACAAATTACAATCCC
1 AAAACAAA-TACAAGCCC
40174613 AAAA
1 AAAA
40174617 GTCCAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.63, C:0.26, G:0.03, T:0.08
Consensus pattern (17 bp):
AAAACAAATACAAGCCC
Found at i:40176784 original size:38 final size:38
Alignment explanation
Indices: 40176738--40176839 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
40176728 ACCAAAATCC
* *
40176738 TTATTATAATTATTGTAATTATAATTTAC-GATAGAATA
1 TTATTATAATTATTGTAATTATAATTTACAG-TAAAACA
* * *
40176776 TTATTATAATTATTGTGATTGTAATTTTCAGTAAAACA
1 TTATTATAATTATTGTAATTATAATTTACAGTAAAACA
40176814 TTATTATAATTA-TGATAATTATAATT
1 TTATTATAATTATTG-TAATTATAATT
40176840 ATTTTTTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
37 2 0.04
38 52 0.95
39 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (38 bp):
TTATTATAATTATTGTAATTATAATTTACAGTAAAACA
Found at i:40180557 original size:25 final size:25
Alignment explanation
Indices: 40180528--40180588 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
40180518 CCTTAGCATG
* *
40180528 CTCTCTGATTAATAGCATGTTAGTC
1 CTCTCTGATTAATAGCACGTCAGTC
* *
40180553 CTCTCTGATTATTAGCACGTCAGTG
1 CTCTCTGATTAATAGCACGTCAGTC
*
40180578 CTCTCCGATTA
1 CTCTCTGATTA
40180589 GTACATTTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (25 bp):
CTCTCTGATTAATAGCACGTCAGTC
Found at i:40189407 original size:28 final size:28
Alignment explanation
Indices: 40189340--40189408 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
40189330 TGGCAGCAGA
40189340 TAACACACATTGAA-AACATGTATTAAAC
1 TAACACACATT-AATAACATGTATTAAAC
*
40189368 TACCACACATTAATAACATGTATTAAAC
1 TAACACACATTAATAACATGTATTAAAC
* *
40189396 TAAGACATATTAA
1 TAACACACATTAA
40189409 ACACTTTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 2 0.06
28 34 0.94
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.28
Consensus pattern (28 bp):
TAACACACATTAATAACATGTATTAAAC
Found at i:40194720 original size:29 final size:31
Alignment explanation
Indices: 40194674--40194732 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
40194664 TTTCTTTCTT
*
40194674 TTCTTTTTTTGTTTTTTTATA-ATTTCGAAC
1 TTCTTTTTTTGATTTTTTATATATTTCGAAC
40194704 TTCTTTTTTT-ATTTTTTATATATTTCGAA
1 TTCTTTTTTTGATTTTTTATATATTTCGAA
40194733 TTTTGTACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.19, C:0.08, G:0.05, T:0.68
Consensus pattern (31 bp):
TTCTTTTTTTGATTTTTTATATATTTCGAAC
Found at i:40198995 original size:79 final size:80
Alignment explanation
Indices: 40198899--40199070 Score: 242
Period size: 79 Copynumber: 2.2 Consensus size: 80
40198889 GGATTAAGAT
40198899 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACT
*
40198963 A-ATTCCGGGCTAAG-C
65 ATA-ACCGGGCTAAGCC
* * ** *
40198978 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTA
*
40199043 TAACCGGGCTATGCC
66 TAACCGGGCTAAGCC
40199058 CCGAAGGCATTTG
1 CCGAAGGCATTTG
40199071 AACGAGTAGC
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
78 1 0.01
79 67 0.81
80 15 0.18
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTA
TAACCGGGCTAAGCC
Found at i:40199062 original size:119 final size:120
Alignment explanation
Indices: 40198848--40199070 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
40198838 GAATGATATT
*
40198848 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGATTAAGATCCGAAGGCATTTGT
*
40198913 GCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTC
66 GCGAGATACTAAATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAATTC
* * * * *
40198968 CGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCTGGGTTAAG-TCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGATTAAGAT-CCGAAGGCATTT
* * * *
40199030 GTGCGAGTTACTATAA-CCGGGCTATGCCCCGAAGGCATTTG
64 GTGCGAGATACTA-AATCCGGACTAAGACCCGAAGGCATTTG
40199071 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 1 0.01
119 70 0.79
120 18 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGATTAAGATCCGAAGGCATTTGT
GCGAGATACTAAATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAATTC
Found at i:40199077 original size:40 final size:39
Alignment explanation
Indices: 40198848--40199070 Score: 234
Period size: 40 Copynumber: 5.6 Consensus size: 39
40198838 GAATGATATT
* * * *
40198848 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATC
** * *
40198888 CGGATTAAGATCCGAAGGCATTTGTGCGAGATACTAAATC
1 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATC
* * * *
40198928 CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATC
40198968 CGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
* *
40199007 TGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
1 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATC
*
40199047 CGGGCTATGCCCCGAAGGCATTTG
1 CGGGCTAAG-CCCGAAGGCATTTG
40199071 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
39 34 0.21
40 116 0.73
41 9 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:40199092 original size:79 final size:79
Alignment explanation
Indices: 40198899--40199093 Score: 200
Period size: 79 Copynumber: 2.5 Consensus size: 79
40198889 GGATTAAGAT
** * * * **
40198899 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAGTTACCAAATCTGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACT
*
40198963 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** * *
40198978 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACCAAATCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
*
40199042 ATAACCGGGCTATGCC
66 AT-ACCGGGCTAAG-C
*
40199058 CCGAAGGCATTTGAACGAG-TAGCCATATCT-GGTTAA
1 CCGAAGGCATTTGAACGAGTTA-CCAAATCTGGGTTAA
40199094 ATTTCGAAGG
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 74 0.73
80 24 0.24
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACCAAATCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:40204612 original size:48 final size:48
Alignment explanation
Indices: 40204444--40204697 Score: 222
Period size: 48 Copynumber: 5.3 Consensus size: 48
40204434 CATAATGGTA
* * * * * *
40204444 CCGATGCCATGTCCTAGACATGGTGTTATATGGGACCTCATATCGATG
1 CCGATGCCATATCCCAGATATGGTCTTATACGGGATCTCATATCGATG
* * * * * *
40204492 CCAATGACATATCCCAGATATGGTCTTACATGAGATCACATA-CTGATG
1 CCGATGCCATATCCCAGATATGGTCTTATACGGGATCTCATATC-GATG
* * * * ** * *
40204540 TCGATGTCATGTCCCAAACGTGGTCTTATACGGGATCTCTTATCAATG
1 CCGATGCCATATCCCAGATATGGTCTTATACGGGATCTCATATCGATG
* * * *
40204588 CCAATGCCATATCCCAGATATGGTCTTACACAGGATCTCATCTCGATG
1 CCGATGCCATATCCCAGATATGGTCTTATACGGGATCTCATATCGATG
* * * * *
40204636 CTGATGCCATATCCCAAATATGGTCTTATACGGAATCTCTTATAGATG
1 CCGATGCCATATCCCAGATATGGTCTTATACGGGATCTCATATCGATG
*
40204684 CTGATGCCATATCC
1 CCGATGCCATATCC
40204698 TATATGTAAC
Statistics
Matches: 160, Mismatches: 44, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
47 1 0.01
48 158 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (48 bp):
CCGATGCCATATCCCAGATATGGTCTTATACGGGATCTCATATCGATG
Found at i:40204651 original size:96 final size:96
Alignment explanation
Indices: 40204445--40204697 Score: 289
Period size: 96 Copynumber: 2.6 Consensus size: 96
40204435 ATAATGGTAC
* * * * * * * *
40204445 CGATGCCATGTCCTAGACATGGTGTTATATGGGACCTCATATCGATGCCAATGACATATCCCAGA
1 CGATGCCATGTCCCAAACATGGTCTTATACGGGATCTCTTATCAATGCCAATGCCATATCCCAGA
*
40204510 TATGGTCTTACATGAGATCACATACTGATGT
66 TATGGTCTTACAAGAGATCACATACTGATGT
* *
40204541 CGATGTCATGTCCCAAACGTGGTCTTATACGGGATCTCTTATCAATGCCAATGCCATATCCCAGA
1 CGATGCCATGTCCCAAACATGGTCTTATACGGGATCTCTTATCAATGCCAATGCCATATCCCAGA
*
40204606 TATGGTCTTACACAG-GATCTCAT-CTCGATG-
66 TATGGTCTTACA-AGAGATCACATACT-GATGT
* * * **
40204636 CTGATGCCATATCCCAAATATGGTCTTATACGGAATCTCTTAT-AGATGCTGATGCCATATCC
1 C-GATGCCATGTCCCAAACATGGTCTTATACGGGATCTCTTATCA-ATGCCAATGCCATATCC
40204698 TATATGTAAC
Statistics
Matches: 134, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
95 4 0.03
96 129 0.96
97 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (96 bp):
CGATGCCATGTCCCAAACATGGTCTTATACGGGATCTCTTATCAATGCCAATGCCATATCCCAGA
TATGGTCTTACAAGAGATCACATACTGATGT
Found at i:40207822 original size:13 final size:14
Alignment explanation
Indices: 40207787--40207825 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
40207777 GAAGATATTT
40207787 ATATATTATATATAA
1 ATATATTAT-TATAA
*
40207802 ATAAATTATTAT-A
1 ATATATTATTATAA
40207815 ATATATTATTA
1 ATATATTATTA
40207826 GTAACTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATATTATTATAA
Done.