Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 341 of 438
Found at i:106598497 original size:27 final size:27
Alignment explanation
Indices: 106598465--106598516 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
106598455 ATCACATTAT
*
106598465 TTGTTATTCAACAGTTTTACTACATTG
1 TTGTTATTCAACAGTTTTACCACATTG
**
106598492 TTGTTATTCAATGGTTTTACCACAT
1 TTGTTATTCAACAGTTTTACCACAT
106598517 CAAGCTATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (27 bp):
TTGTTATTCAACAGTTTTACCACATTG
Found at i:106603531 original size:80 final size:80
Alignment explanation
Indices: 106603447--106603595 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
106603437 TATGGTAACC
* * * *
106603447 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
106603511 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
106603527 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
106603592 CCGG
66 CCGG
106603596 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:106603537 original size:40 final size:38
Alignment explanation
Indices: 106603488--106603595 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
106603478 ATCACGATTT
*
106603488 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
106603528 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
106603568 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
106603596 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:106611652 original size:80 final size:80
Alignment explanation
Indices: 106611568--106611716 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
106611558 TATGGTAACC
* * * *
106611568 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
106611632 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
106611648 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
106611713 CCGG
66 CCGG
106611717 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:106611658 original size:40 final size:38
Alignment explanation
Indices: 106611609--106611716 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
106611599 ATCACGATTT
*
106611609 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
106611649 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
106611689 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
106611717 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:106621079 original size:17 final size:18
Alignment explanation
Indices: 106621057--106621091 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
106621047 CAATTTGGGT
106621057 CATGTGGG-CCACACGGG
1 CATGTGGGCCCACACGGG
106621074 CATGTGGGCCCACACGGG
1 CATGTGGGCCCACACGGG
106621092 TAGGCCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.31, G:0.40, T:0.11
Consensus pattern (18 bp):
CATGTGGGCCCACACGGG
Found at i:106625769 original size:34 final size:34
Alignment explanation
Indices: 106625731--106625795 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
106625721 TTTACAATAT
**
106625731 ATCAATACGATCGCAATTAATATGCTTATAACGG
1 ATCAATACGATAACAATTAATATGCTTATAACGG
* *
106625765 ATCAATACGGTAACAATTAATATGTTTATAA
1 ATCAATACGATAACAATTAATATGCTTATAA
106625796 TAAATCAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (34 bp):
ATCAATACGATAACAATTAATATGCTTATAACGG
Found at i:106625803 original size:34 final size:34
Alignment explanation
Indices: 106625721--106625806 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 34
106625711 ATATGAAATC
* * **
106625721 TTTACAATATATCAATACGATCGCAATTAATATG
1 TTTATAATAAATCAATACGATAACAATTAATATG
* *** *
106625755 CTTATAACGGATCAATACGGTAACAATTAATATG
1 TTTATAATAAATCAATACGATAACAATTAATATG
106625789 TTTATAATAAATCAATAC
1 TTTATAATAAATCAATAC
106625807 ATTAGCAAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (34 bp):
TTTATAATAAATCAATACGATAACAATTAATATG
Found at i:106630503 original size:40 final size:39
Alignment explanation
Indices: 106630376--106630505 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
106630366 ATGCTGGAAA
* *
106630376 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
106630416 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
106630456 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
106630496 TTATATCCGG
1 TTATATCCGG
106630506 TTGTATTCGA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:106635364 original size:26 final size:26
Alignment explanation
Indices: 106635335--106635444 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
106635325 TGATACAAAT
106635335 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
106635361 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
106635387 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
106635413 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
106635439 TGATAA
1 TGATAA
106635445 GAAATTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:106637469 original size:136 final size:136
Alignment explanation
Indices: 106637225--106637509 Score: 525
Period size: 136 Copynumber: 2.1 Consensus size: 136
106637215 GAGTAGTCTC
106637225 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
106637290 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
106637355 CTGTTA
131 CTGTTA
*
106637361 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
106637426 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
106637491 CTGTTA
131 CTGTTA
**
106637497 CCTGAATGGGCTT
1 CCCAAATGGGCTT
106637510 AGCCCAATAG
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 144 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:106640524 original size:25 final size:26
Alignment explanation
Indices: 106640430--106640538 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
106640420 TGATACAAAT
106640430 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
106640456 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
106640482 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
106640508 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
106640533 TGATAA
1 TGATAA
106640539 GAATTCATGT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:106642558 original size:135 final size:137
Alignment explanation
Indices: 106642315--106642599 Score: 520
Period size: 135 Copynumber: 2.1 Consensus size: 137
106642305 GAGTAGTCTC
106642315 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
106642380 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCT-TGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
106642444 ACTGTTA
131 ACTGTTA
*
106642451 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
106642515 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
106642580 ACTGTTA
131 ACTGTTA
**
106642587 CCTGAATGGGCTT
1 CCCAAATGGGCTT
106642600 AGACCCAATA
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
135 95 0.66
136 49 0.34
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:106646454 original size:25 final size:26
Alignment explanation
Indices: 106646360--106646468 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
106646350 TGATACAAAT
106646360 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
106646386 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
106646412 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
106646438 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
106646463 TGATAA
1 TGATAA
106646469 GAATTCATGT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:106648491 original size:136 final size:137
Alignment explanation
Indices: 106648246--106648531 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
106648236 GAGTAGTCTC
106648246 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
106648311 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
106648376 ACTGTTA
131 ACTGTTA
*
106648383 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
106648447 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
106648512 ACTGTTA
131 ACTGTTA
**
106648519 CCTGAATGGGCTT
1 CCCAAATGGGCTT
106648532 AGCCCAATAG
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 124 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:106652816 original size:40 final size:39
Alignment explanation
Indices: 106652689--106652818 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
106652679 ATGCTGGAAA
* *
106652689 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
106652729 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
106652769 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
106652809 TTATATCCGG
1 TTATATCCGG
106652819 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:106657615 original size:17 final size:17
Alignment explanation
Indices: 106657593--106657625 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
106657583 ACTTTTTCAT
106657593 AAATATCGATACCCTTA
1 AAATATCGATACCCTTA
106657610 AAATATCGATACCCTT
1 AAATATCGATACCCTT
106657626 GTTTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (17 bp):
AAATATCGATACCCTTA
Found at i:106658968 original size:10 final size:10
Alignment explanation
Indices: 106658910--106658959 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
106658900 TTAAATTCTA
106658910 AAAGATAAAT
1 AAAGATAAAT
*
106658920 ACAGATAAAT
1 AAAGATAAAT
* **
106658930 AAAAATATTT
1 AAAGATAAAT
106658940 AAAGATAAAT
1 AAAGATAAAT
106658950 AAAGATAAAT
1 AAAGATAAAT
106658960 GGAGATAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:106661491 original size:21 final size:21
Alignment explanation
Indices: 106661434--106661476 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
106661424 GAAGTAAGTT
106661434 TGTGCAACTTGAATTGAATTA
1 TGTGCAACTTGAATTGAATTA
106661455 TGTGCAACTTGAATTGAATTA
1 TGTGCAACTTGAATTGAATTA
106661476 T
1 T
106661477 TGAATGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (21 bp):
TGTGCAACTTGAATTGAATTA
Found at i:106662069 original size:96 final size:97
Alignment explanation
Indices: 106661893--106662074 Score: 276
Period size: 96 Copynumber: 1.9 Consensus size: 97
106661883 TATTTATTTA
* * * * * *
106661893 TTTATTTTTACTTAAGAATATGTTAAACCTTTTGACGTAAAGAGAGATGACAGCTAGGCACCTCA
1 TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGTAAAGAGAGATGACAACCAAGCACCTCA
*
106661958 CCCCGGTTACTCAGCCCAACATACTCCTAATT
66 CCCCGGTTACCCAGCCCAACATACTCCTAATT
* *
106661990 TTTATTTTT-CTTAAGAACATATCGAACCTTTTGACGTGAAGAGAGATGACAACCAAGCACCTCA
1 TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGTAAAGAGAGATGACAACCAAGCACCTCA
106662054 CCCCGGTTACCCAGCCCAACA
66 CCCCGGTTACCCAGCCCAACA
106662075 CATTCTTAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
96 67 0.88
97 9 0.12
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGTAAAGAGAGATGACAACCAAGCACCTCA
CCCCGGTTACCCAGCCCAACATACTCCTAATT
Found at i:106663876 original size:5 final size:6
Alignment explanation
Indices: 106663856--106663899 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
106663846 CAATGTAATC
*
106663856 AAAATA AAAACA AAAATA AAAATA AAAATGGAA AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAAT---A AAAATA AAAAT
106663900 TAGGTTACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 27 0.82
9 6 0.18
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:106670272 original size:10 final size:10
Alignment explanation
Indices: 106670214--106670263 Score: 73
Period size: 10 Copynumber: 5.0 Consensus size: 10
106670204 TTAAATTCTA
106670214 AAAGATAAAT
1 AAAGATAAAT
*
106670224 ACAGATAAAT
1 AAAGATAAAT
**
106670234 AAAGATATTT
1 AAAGATAAAT
106670244 AAAGATAAAT
1 AAAGATAAAT
106670254 AAAGATAAAT
1 AAAGATAAAT
106670264 GGAGATAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:106671241 original size:9 final size:9
Alignment explanation
Indices: 106671224--106671260 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
106671214 TGAGTTTTCG
106671224 AATTCGAAT
1 AATTCGAAT
*
106671233 AACTCGAAT
1 AATTCGAAT
106671242 AATTCGAAT
1 AATTCGAAT
106671251 AATTCGAAT
1 AATTCGAAT
106671260 A
1 A
106671261 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:106672206 original size:5 final size:5
Alignment explanation
Indices: 106672196--106672222 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
106672186 GAATTTTTTC
106672196 ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG AT
106672223 CGAACGCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:106673814 original size:33 final size:33
Alignment explanation
Indices: 106673775--106673844 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
106673765 ACAAACATAC
*
106673775 AAAGTAATAATTAAATAATGCATGATATACAAA
1 AAAGTAATAATTAAATAATGCATGACATACAAA
106673808 AAAGTAATAATTAAATAATGCATGACATACAAA
1 AAAGTAATAATTAAATAATGCATGACATACAAA
106673841 AAAG
1 AAAG
106673845 AGTAATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (33 bp):
AAAGTAATAATTAAATAATGCATGACATACAAA
Found at i:106676840 original size:26 final size:26
Alignment explanation
Indices: 106676809--106676916 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
106676799 TGAAATGCCC
* *
106676809 ATCATGGGACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
106676835 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
106676861 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
106676887 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
106676913 ATCA
1 ATCA
106676917 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:106677330 original size:8 final size:8
Alignment explanation
Indices: 106677317--106677341 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
106677307 AATATAATTT
106677317 AATTTTAA
1 AATTTTAA
106677325 AATTTTAA
1 AATTTTAA
106677333 AATTTTAA
1 AATTTTAA
106677341 A
1 A
106677342 TAATATAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AATTTTAA
Found at i:106677614 original size:22 final size:21
Alignment explanation
Indices: 106677584--106677639 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
106677574 TAATAATAAT
*
106677584 ATAAAAATAATGATG-GAAAATA
1 ATAATAATAAT-ATGTGAAAA-A
*
106677606 ATAATAATAATTTGTGAAAAA
1 ATAATAATAATATGTGAAAAA
106677627 ATAATATATAATA
1 ATAATA-ATAATA
106677640 AATAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 9 0.31
22 20 0.69
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
ATAATAATAATATGTGAAAAA
Found at i:106677648 original size:17 final size:17
Alignment explanation
Indices: 106677448--106677653 Score: 61
Period size: 19 Copynumber: 11.4 Consensus size: 17
106677438 CAATAAATGT
106677448 TATATAATAAAATAATTTAAA
1 TATATAAT-AAATAA--T-AA
** *
106677469 TATATAGGAAATAAGAA
1 TATATAATAAATAATAA
*
106677486 -ATATAATAGAT-ATAA
1 TATATAATAAATAATAA
106677501 TATA-AAT-AATGAA-AA
1 TATATAATAAAT-AATAA
* *
106677516 AATATATGTAAGACTAAT-A
1 TATATA-ATAA-A-TAATAA
*
106677535 TATATAAATAATTAATAAA
1 TATAT-AATAAATAAT-AA
106677554 TATATAATGCAAATAA-AA
1 TATATAAT--AAATAATAA
*
106677572 TATAATAATAATATAAAAA
1 TAT-ATAATAA-ATAATAA
*
106677591 TA-ATGATGGAAAATAATAA
1 TATATAAT---AAATAATAA
*
106677610 TA-ATAATTTGTGAAAAAATAA
1 TATATAA----T-AAATAATAA
106677631 TATATAATAAATAATAA
1 TATATAATAAATAATAA
106677648 TATATA
1 TATATA
106677654 TAATAAAATA
Statistics
Matches: 140, Mismatches: 20, Indels: 54
0.65 0.09 0.25
Matches are distributed among these distances:
14 2 0.01
15 11 0.08
16 13 0.09
17 27 0.19
18 14 0.10
19 37 0.26
20 15 0.11
21 16 0.11
22 4 0.03
23 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (17 bp):
TATATAATAAATAATAA
Found at i:106677663 original size:17 final size:17
Alignment explanation
Indices: 106677448--106677665 Score: 63
Period size: 17 Copynumber: 11.9 Consensus size: 17
106677438 CAATAAATGT
*
106677448 TATATAATAAAATAATT
1 TATATAATAAAATAATA
* *
106677465 TAAATATATAGGAAATAAGA
1 TATATA-ATA--AAATAATA
* *
106677485 AATATAATAGATATAATA
1 TATATAATA-AAATAATA
*
106677503 TAAATAATGAAAA-AATA
1 TATATAAT-AAAATAATA
* * *
106677520 TATGT-A-AGACTAATA
1 TATATAATAAAATAATA
106677535 TATATAAATAATTAATAA-A
1 TATAT-AATAA--AATAATA
*
106677554 TATATAATGCAAATAAAATA
1 TATATAAT--AAA-ATAATA
106677574 TAATAATAATATAAA-AATAA
1 T-AT-ATAATA-AAATAAT-A
*
106677594 TGATGGAAAATAATAATAATAA
1 T-AT--ATAATAA-AATAAT-A
* *
106677616 TTTGTGAA-AAAATAATA
1 TATAT-AATAAAATAATA
*
106677633 TATAATAA-ATAATAATA
1 TAT-ATAATAAAATAATA
106677650 TATATAATAAAATAAT
1 TATATAATAAAATAAT
106677666 CTTATAATGT
Statistics
Matches: 149, Mismatches: 28, Indels: 48
0.66 0.12 0.21
Matches are distributed among these distances:
14 2 0.01
15 8 0.05
16 5 0.03
17 36 0.24
18 30 0.20
19 18 0.12
20 27 0.18
21 12 0.08
22 11 0.07
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (17 bp):
TATATAATAAAATAATA
Found at i:106679817 original size:205 final size:206
Alignment explanation
Indices: 106679282--106679786 Score: 816
Period size: 205 Copynumber: 2.5 Consensus size: 206
106679272 GAATCTGCTT
*
106679282 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
106679347 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
106679412 GGATCTTGCTTCAATCTAATCGTCTGAAAGTCAGATCTACTGTGTATCTGCTCTCCATTGAAGTG
131 GGATCTTGCTTCAAGCTAAACATCTGAAAGTCAGATCTACTGTGTATCTGCTCTCCATTGAAGTG
106679477 GAGATGCCAGA
196 GAGATGCCAGA
* * * * *
106679488 CTTCGATTTGCTCTCTGCCGATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
106679553 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * * *
106679618 GGATC-TGCTTC-AGCATAAACATCTGAAGGTGAGATCTGCTGTGTATCTGTTCTCTATTGAAGT
131 GGATCTTGCTTCAAGC-TAAACATCTGAAAGTCAGATCTACTGTGTATCTGCTCTCCATTGAAGT
106679681 GGAGATGCCAGA
195 GGAGATGCCAGA
* *
106679693 CTTCAATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTTATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
106679758 GTGAAAGCCAAATTAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
106679787 CTGCTCTTCG
Statistics
Matches: 274, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
204 2 0.01
205 145 0.53
206 127 0.46
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAAGCTAAACATCTGAAAGTCAGATCTACTGTGTATCTGCTCTCCATTGAAGTG
GAGATGCCAGA
Found at i:106679869 original size:44 final size:44
Alignment explanation
Indices: 106679779--106679870 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
106679769 ATTAGCTATG
* * *
106679779 TCTTCGATCTGCTCTTCGCCAATACAGAGATGCCAAACCTGGTA
1 TCTTAGATCTGCTCTTCGACAATACAGAGATGCCAAACCTGCTA
* * *
106679823 TCTTAGATCTGCTC-TCTGACAATACAGAGATGTCGAATCTGCTA
1 TCTTAGATCTGCTCTTC-GACAATACAGAGATGCCAAACCTGCTA
106679867 TCTT
1 TCTT
106679871 CAACTTGTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (44 bp):
TCTTAGATCTGCTCTTCGACAATACAGAGATGCCAAACCTGCTA
Found at i:106679998 original size:45 final size:45
Alignment explanation
Indices: 106679909--106680002 Score: 102
Period size: 44 Copynumber: 2.1 Consensus size: 45
106679899 CCATGCTGAA
* * * *
106679909 ATCTTCGATCTGCTTCACTGTAAGCACAAGAATGTCAGATTTGTT
1 ATCTTCAATCTGCTTCACTATAAGCACAAGAATGCCAAATTTGTT
* * *
106679954 ATCTTCAATCTG-TTCCCTATAATCACAAGGATGCCAAATCTTGTT
1 ATCTTCAATCTGCTTCACTATAAGCACAAGAATGCCAAAT-TTGTT
106679999 -TCTT
1 ATCTT
106680003 TGATCTACAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
44 25 0.61
45 16 0.39
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (45 bp):
ATCTTCAATCTGCTTCACTATAAGCACAAGAATGCCAAATTTGTT
Found at i:106680877 original size:5 final size:5
Alignment explanation
Indices: 106680867--106680891 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
106680857 ACCTCTCCAA
106680867 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
106680892 TAAAATCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:106689060 original size:16 final size:16
Alignment explanation
Indices: 106689039--106689074 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
106689029 ACTAACCTTT
106689039 CTCTTGTAATCGACTC
1 CTCTTGTAATCGACTC
106689055 CTCTTGTAATCGACTC
1 CTCTTGTAATCGACTC
106689071 CTCT
1 CTCT
106689075 GTATACGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.17, C:0.33, G:0.11, T:0.39
Consensus pattern (16 bp):
CTCTTGTAATCGACTC
Found at i:106691608 original size:33 final size:33
Alignment explanation
Indices: 106691569--106691638 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
106691559 ACAAACATAC
*
106691569 AAAGTAATAATTAAATAATGCATGATATACAAA
1 AAAGTAATAATTAAATAATGCATGACATACAAA
106691602 AAAGTAATAATTAAATAATGCATGACATACAAA
1 AAAGTAATAATTAAATAATGCATGACATACAAA
106691635 AAAG
1 AAAG
106691639 AGTAATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (33 bp):
AAAGTAATAATTAAATAATGCATGACATACAAA
Found at i:106692065 original size:12 final size:12
Alignment explanation
Indices: 106692048--106692095 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
106692038 TAAAATTTTA
106692048 AATAATATAATG
1 AATAATATAATG
106692060 AATAATATAAACATG
1 AATAATAT--A-ATG
106692075 AATAATATAAT-
1 AATAATATAATG
106692086 AGATAATATA
1 A-ATAATATA
106692096 TGATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 1 0.03
12 18 0.56
13 1 0.03
14 1 0.03
15 11 0.34
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.31
Consensus pattern (12 bp):
AATAATATAATG
Found at i:106692230 original size:23 final size:24
Alignment explanation
Indices: 106692204--106692265 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 24
106692194 AATATAATAG
106692204 ATATAATATAA-AATAATGAAAAT
1 ATATAATATAAGAATAATGAAAAT
* *
106692227 ATAT-ATGTAAGAATAATGCAAAT
1 ATATAATATAAGAATAATGAAAAT
*
106692250 A-A-AATATAATAATAAT
1 ATATAATATAAGAATAAT
106692266 ATAAAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
22 17 0.52
23 16 0.48
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (24 bp):
ATATAATATAAGAATAATGAAAAT
Found at i:106692263 original size:3 final size:3
Alignment explanation
Indices: 106692247--106692349 Score: 53
Period size: 3 Copynumber: 36.0 Consensus size: 3
106692237 GAATAATGCA
* * *
106692247 AAT AA- AAT -AT AAT AAT AAT -AT AAA AAT AAT GAT -GT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
106692290 AAT AAT AATT TGT GAA- AA- AAT AAT ATAT AAT AAAT AAT AAT AAT -AT
1 AAT AAT AA-T AAT -AAT AAT AAT AAT A-AT AAT -AAT AAT AAT AAT AAT
*
106692336 TAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT
106692350 CTTATAATGT
Statistics
Matches: 78, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
2 17 0.22
3 54 0.69
4 7 0.09
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:106692296 original size:22 final size:21
Alignment explanation
Indices: 106692266--106692321 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
106692256 TAATAATAAT
*
106692266 ATAAAAATAATGATGT-AAAATA
1 ATAATAATAAT-ATGTGAAAA-A
*
106692288 ATAATAATAATTTGTGAAAAA
1 ATAATAATAATATGTGAAAAA
106692309 ATAATATATAATA
1 ATAATA-ATAATA
106692322 AATAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (21 bp):
ATAATAATAATATGTGAAAAA
Found at i:106692340 original size:14 final size:13
Alignment explanation
Indices: 106692247--106692348 Score: 54
Period size: 13 Copynumber: 7.8 Consensus size: 13
106692237 GAATAATGCA
106692247 AATAA-AATATAAT
1 AATAATAATA-AAT
106692260 AATAAT-ATAAA-
1 AATAATAATAAAT
* *
106692271 AATAATGATGTAA-
1 AATAATAAT-AAAT
106692284 AATAATAAT-AAT
1 AATAATAATAAAT
** *
106692296 AATTTGTGAAAAAAT
1 AA-TAAT-AATAAAT
106692311 AATATATAATAAAT
1 AATA-ATAATAAAT
*
106692325 AATAATAATATTAT
1 AATAATAATA-AAT
106692339 AATAA-AATAA
1 AATAATAATAA
106692349 TCTTATAATG
Statistics
Matches: 70, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
11 8 0.11
12 6 0.09
13 30 0.43
14 20 0.29
15 6 0.09
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:106692365 original size:37 final size:35
Alignment explanation
Indices: 106692268--106692349 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
106692258 ATAATAATAT
* * *
106692268 AAAAATAATGATGTAAAATAATAATAATAATTTGTGA
1 AAAAATAAT-ATATAATA-AATAATAATAATTTATGA
106692305 AAAAATAATATATAATAAATAATAATAATATTAT-A
1 AAAAATAATATATAATAAATAATAATAAT-TTATGA
106692340 ATAAAATAAT
1 A-AAAATAAT
106692350 CTTATAATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
35 14 0.35
36 17 0.43
37 9 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (35 bp):
AAAAATAATATATAATAAATAATAATAATTTATGA
Found at i:106695472 original size:15 final size:17
Alignment explanation
Indices: 106695445--106695478 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
106695435 AAAAATAATT
106695445 AAAATTTGAAATTT-TA
1 AAAATTTGAAATTTCTA
106695461 AAAATTTG-AATTTCTA
1 AAAATTTGAAATTTCTA
106695477 AA
1 AA
106695479 CTTAATTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (17 bp):
AAAATTTGAAATTTCTA
Found at i:106696945 original size:3 final size:3
Alignment explanation
Indices: 106696937--106696968 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
106696927 TAGTAACATG
106696937 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
106696969 CAAAAAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:106703995 original size:42 final size:43
Alignment explanation
Indices: 106703890--106704032 Score: 143
Period size: 43 Copynumber: 3.3 Consensus size: 43
106703880 TCTGAGATGT
* *
106703890 CATGTAAGACCGTGTCTGGGACACAGGC--CT-TGATTGAGATTTA
1 CATGTAAGACCATGTCTGGGACAGAGGCATCTAT-ATTGA-A-TTA
* * ** *
106703933 CGTATAAGACCATGTCTGGGACATTGGCATCGTAT-TTG-ATTT
1 CATGTAAGACCATGTCTGGGACAGAGGCATC-TATATTGAATTA
*
106703975 CATGTAAGACCTTGTCTGGGACAGAGGCATCTATATTGAATTA
1 CATGTAAGACCATGTCTGGGACAGAGGCATCTATATTGAATTA
106704018 CATGTAAGACCATGT
1 CATGTAAGACCATGT
106704033 TCGGGACGTC
Statistics
Matches: 81, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
41 3 0.04
42 31 0.38
43 41 0.51
45 4 0.05
46 1 0.01
47 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACAGAGGCATCTATATTGAATTA
Found at i:106712159 original size:40 final size:38
Alignment explanation
Indices: 106712115--106712256 Score: 126
Period size: 40 Copynumber: 3.6 Consensus size: 38
106712105 TCGCACGAAT
* *
106712115 GCCTTCGGGA-CTTAACCCGGATTTAGTAGCTTGCTCAAAA
1 GCCTTC-GGATCTTAGCCCGGATTTAGTA-CTTGCAC-AAA
* * * *
106712155 GCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACGTAT
1 GCCTTCGGATCTTAGCCCGGATTTAGT-ACTTGCAC-AAA
* *
106712195 GCCGTCGGATCTTAGTCCGGATTTAGTCACTTAGCACAAA
1 GCCTTCGGATCTTAGCCCGGATTTAGT-ACTT-GCACAAA
106712235 GCCTTCGGGA-CTTAGCCCGGAT
1 GCCTTC-GGATCTTAGCCCGGAT
106712257 ATCATTCGAA
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
39 3 0.04
40 73 0.87
41 8 0.10
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (38 bp):
GCCTTCGGATCTTAGCCCGGATTTAGTACTTGCACAAA
Found at i:106712183 original size:80 final size:80
Alignment explanation
Indices: 106712070--106712256 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
106712060 GCTACACATT
* * *
106712070 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTC-GGATCTTAACCC
*
106712133 GGATTTAGT-AGCTT-GCT
63 GGATTTAGTCA-CTTAGCA
* * **
106712150 CAAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGTCCG
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGATCTTAACCCG
106712214 GATTTAGTCACTTAGCA
64 GATTTAGTCACTTAGCA
106712231 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
106712257 ATCATTCGAA
Statistics
Matches: 91, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
79 6 0.07
80 73 0.80
81 12 0.13
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGATCTTAACCCGGA
TTTAGTCACTTAGCA
Found at i:106720225 original size:39 final size:40
Alignment explanation
Indices: 106720142--106720228 Score: 97
Period size: 39 Copynumber: 2.2 Consensus size: 40
106720132 ACATTCAAAT
* *
106720142 GCCTTCGGGACATAGCCCGGTTACAGTAACTCGCACGAAT
1 GCCTTCGGGACATAACCCGGTTACAGTAACTCGCACGAAA
* * * *
106720182 GCCTTCGGGAC-TAACCCGGATT-TAGTAGCTTGCTCGAAA
1 GCCTTCGGGACATAACCCGG-TTACAGTAACTCGCACGAAA
106720221 GCCTTCGG
1 GCCTTCGG
106720229 ATCTTAGTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 27 0.68
40 13 0.32
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (40 bp):
GCCTTCGGGACATAACCCGGTTACAGTAACTCGCACGAAA
Found at i:106720244 original size:40 final size:39
Alignment explanation
Indices: 106720197--106720322 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
106720187 CGGGACTAAC
*
106720197 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
106720237 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
106720277 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
106720317 CCGGAT
1 CCGGAT
106720323 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:106720307 original size:80 final size:79
Alignment explanation
Indices: 106720142--106720322 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 79
106720132 ACATTCAAAT
* * *
106720142 GCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTAACCCGGATTTA
1 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTAACCCGGATTTA
*
106720206 GTAGCTTGCTCGAAA
65 GTAGCTTGCACGAAA
* * **
106720221 GCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCCGGATT
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-C-TAACCCGGATT
106720284 TAGTCA-CTTAGCAC-AAA
63 TAGT-AGCTT-GCACGAAA
106720301 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
106720323 ATCATTCGAA
Statistics
Matches: 86, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
78 6 0.07
79 35 0.41
80 38 0.44
81 7 0.08
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (79 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTAACCCGGATTTAG
TAGCTTGCACGAAA
Found at i:106724632 original size:3 final size:3
Alignment explanation
Indices: 106724624--106724732 Score: 152
Period size: 3 Copynumber: 36.7 Consensus size: 3
106724614 TAGTAACATG
106724624 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
106724672 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAC AA- AA- AGAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
*
106724715 AAGT GAT AAT AAT AAT AA
1 AA-T AAT AAT AAT AAT AA
106724733 AATCTAGATT
Statistics
Matches: 97, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
2 5 0.05
3 90 0.93
4 2 0.02
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:106726568 original size:21 final size:21
Alignment explanation
Indices: 106726526--106726569 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
106726516 GATTTTGAAT
106726526 TAATTCAAATTTATTGTTTGGA
1 TAATTCAAATTTA-TGTTTGGA
106726548 TAATTCAAATTTA-GATTTGGA
1 TAATTCAAATTTATG-TTTGGA
106726569 T
1 T
106726570 TTCAACTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 1 0.05
21 7 0.33
22 13 0.62
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (21 bp):
TAATTCAAATTTATGTTTGGA
Found at i:106734263 original size:16 final size:16
Alignment explanation
Indices: 106734242--106734295 Score: 99
Period size: 16 Copynumber: 3.4 Consensus size: 16
106734232 AAGAAATTAA
106734242 GCCACCAGCTAGTGCT
1 GCCACCAGCTAGTGCT
106734258 GCCACCAGCTAGTGCT
1 GCCACCAGCTAGTGCT
*
106734274 GCCACCAGCCAGTGCT
1 GCCACCAGCTAGTGCT
106734290 GCCACC
1 GCCACC
106734296 TCCGAATCCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.19, C:0.43, G:0.24, T:0.15
Consensus pattern (16 bp):
GCCACCAGCTAGTGCT
Found at i:106736887 original size:3 final size:3
Alignment explanation
Indices: 106736822--106736869 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
106736812 ACAACTTAAG
106736822 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
106736870 GGTGACAGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:106736944 original size:21 final size:18
Alignment explanation
Indices: 106736918--106736962 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
106736908 TTTTAAAATT
106736918 ATAAAAGGATATAAATGAATA
1 ATAAAAGGATA-AAAT-AA-A
*
106736939 ATAAAATGATAAAATAAA
1 ATAAAAGGATAAAATAAA
106736957 ATAAAA
1 ATAAAA
106736963 TAAATATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 7 0.30
19 2 0.09
20 4 0.17
21 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (18 bp):
ATAAAAGGATAAAATAAA
Found at i:106738805 original size:44 final size:43
Alignment explanation
Indices: 106738694--106739112 Score: 188
Period size: 44 Copynumber: 9.6 Consensus size: 43
106738684 AGGTTTCTGG
* * * * *
106738694 CTTCAATCTGCTCCACTGCAACTTCATGGAGATAAGATTTGTCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAA-AATTAT-AA
* * * * * *
106738739 TTTCAGTCCGCTCTACTGTAACTTCAGGGATATAAAACTTATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAAA-TTATAA
* * * * * *
106738783 CTTCAACCTGCTCCATTGTAACTTCAGGGAAATAAGATTCGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAAATT-ATAA
* * * * *
106738827 TTTCAATCTGCTCCACTGCAACTTTAAGGAGATAATATTTATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAA-AATTATAA
* * ** * * *
106738871 CTTTAATCTGCTCCACTGCAACTTCAGAGAGGTAAGATTTGTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAA-AATT-ATAA
* * * * *
106738916 CTTCGATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAAAT-TATAA
* * * ** * *
106738960 CTTCAATCTGTTCTAC-G--A--T-A-AGATTTGTAATTTATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAAT-AAAATTATAA
* * * * *
106738997 CTTTAATCTG-TCTTACTGCAACTTCAGGGAAATAAGATTTGTTAT
1 CTTCAATCTGCTC-CACTGCAACTTCAGGGAAATAA-AATT-ATAA
* * * *
106739042 CTTCGATCTACTCCACTGCAACTTCAGGGAGATAAGATCTATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAAAT-TATAA
* * *
106739086 CTTCAATATGCACCACTGCAATTTCAG
1 CTTCAATCTGCTCCACTGCAACTTCAG
106739113 TGAGATAAGA
Statistics
Matches: 278, Mismatches: 78, Indels: 37
0.71 0.20 0.09
Matches are distributed among these distances:
36 2 0.01
37 21 0.08
38 4 0.01
39 1 0.00
40 1 0.00
41 1 0.00
42 1 0.00
43 5 0.02
44 143 0.51
45 97 0.35
46 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (43 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAAATTATAA
Found at i:106738940 original size:133 final size:134
Alignment explanation
Indices: 106738694--106739528 Score: 650
Period size: 133 Copynumber: 6.3 Consensus size: 134
106738684 AGGTTTCTGG
* * * * * * * * * *
106738694 CTTCAATCTGCTCCACTGCAACTTCATGGAGATAA-GATTTGTCATTTTCAGTCCGCTCTACTGT
1 CTTCAATCTGCTCCACTGCAACTTTAAGGAGATAATAATTTATAACTTT-AATCTGCTCCACTGC
* * * * * * * * * * * *
106738758 AACTTCAGGGATATAAAACTT-ATAACTTCAACCTGCTCCATTGTAACTTCAGGGAAATAAGAT-
65 AACTTCAGGGAAATAAGATTTGTTATCTTCGATCTACTCCACTGCAACTTCAAGGAGATAAGATC
* *
106738821 TCGTAG
130 T-ATAA
*
106738827 TTTCAATCTGCTCCACTGCAACTTTAAGGAGATAAT-ATTTATAACTTTAATCTGCTCCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTTAAGGAGATAATAATTTATAACTTTAATCTGCTCCACTGCA
* **
106738891 ACTTCAGAGAGGTAAGATTTGTTATCTTCGATCTACTCCACTGCAACTTC-AGAGAGATAAGATC
66 ACTTCAGGGAAATAAGATTTGTTATCTTCGATCTACTCCACTGCAACTTCAAG-GAGATAAGATC
106738955 TATAA
130 TATAA
* * * ** *
106738960 CTTCAATCTGTTCTAC-G--A---TAA-GA-TTTGTAATTTATAACTTTAATCTG-TCTTACTGC
1 CTTCAATCTGCTCCACTGCAACTTTAAGGAGATAATAATTTATAACTTTAATCTGCTC-CACTGC
*
106739016 AACTTCAGGGAAATAAGATTTGTTATCTTCGATCTACTCCACTGCAACTTCAGGGAGATAAGATC
65 AACTTCAGGGAAATAAGATTTGTTATCTTCGATCTACTCCACTGCAACTTCAAGGAGATAAGATC
106739081 TATAA
130 TATAA
* * * * * *
106739086 CTTCAATATGCACCACTGCAA-TTTCAGTGAGATAAGATTTGTAATTTATAGCTTTAATTTGTTC
1 CTTCAATCTGCTCCACTGCAACTTTAAG-GAGAT-A-A----TAATTTATAACTTTAATCTGCTC
* * *
106739150 CACTGC-A----AGGGAAATAAGATTTGTTATCTTTGATCTACTCCACTGTAACTTCAAGTAGAT
59 CACTGCAACTTCAGGGAAATAAGATTTGTTATCTTCGATCTACTCCACTGCAACTTCAAGGAGAT
106739210 AAGATCTATAA
124 AAGATCTATAA
* * * * ** *
106739221 CTTCAATCTGTTCCACTGTAACTTTAGGGATATAAGATTTGTAATTTATAGTTTTAATCTGTTCC
1 CTTCAATCTGCTCCACTGCAACTTTAAGGAGAT-A-A----TAATTTATAACTTTAATCTGCTCC
* * ***
106739286 ACTGTAACTTCAGGGAAATAGGATTCACTATCTTCGATCTACTCCACTGCAACTTCAAGGAGATA
60 ACTGCAACTTCAGGGAAATAAGATTTGTTATCTTCGATCTACTCCACTGCAACTTCAAGGAGATA
*
106739351 AGATTTATAA
125 AGATCTATAA
* * * * * ** *
106739361 CTTCAATCTACTCCACTACAACTTTAAGAAGATAA-GATTTGTAGTTTTAATCTGCTCTACTGCA
1 CTTCAATCTGCTCCACTGCAACTTTAAGGAGATAATAATTTATAACTTTAATCTGCTCCACTGCA
* * * * * * * * * *
106739425 ACTTTAGAGAGATAGGATTTGCTATCTTCGACCTTCTCCACTGCAAATTCAAGGAGATAAGGTTT
66 ACTTCAGGGAAATAAGATTTGTTATCTTCGATCTACTCCACTGCAACTTCAAGGAGATAAGATCT
* *
106739490 GTAG
131 ATAA
* * *
106739494 CTTTAATCTACTCCACTGCAACTTCAAGGAGATAA
1 CTTCAATCTGCTCCACTGCAACTTTAAGGAGATAA
106739529 GATTCACCAT
Statistics
Matches: 577, Mismatches: 97, Indels: 56
0.79 0.13 0.08
Matches are distributed among these distances:
125 4 0.01
126 101 0.18
127 5 0.01
129 1 0.00
130 1 0.00
131 2 0.00
132 29 0.05
133 202 0.35
134 2 0.00
135 115 0.20
136 5 0.01
138 1 0.00
139 2 0.00
140 105 0.18
141 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (134 bp):
CTTCAATCTGCTCCACTGCAACTTTAAGGAGATAATAATTTATAACTTTAATCTGCTCCACTGCA
ACTTCAGGGAAATAAGATTTGTTATCTTCGATCTACTCCACTGCAACTTCAAGGAGATAAGATCT
ATAA
Found at i:106738961 original size:89 final size:89
Alignment explanation
Indices: 106738694--106739532 Score: 425
Period size: 89 Copynumber: 9.4 Consensus size: 89
106738684 AGGTTTCTGG
* * * * * *
106738694 CTTCAATCTGCTCCACTGCAACTTCATG-GAGATAAGATTTGTCATTTTCAGTCCGCTCTACTGT
1 CTTCAATCTGCTCCACTGCAACTTCA-GAGAGATAAGATTTGTTATCTTCAATCTGCTCCACTGC
* * * *
106738758 AACTTCAGGGATATAAAACTTATAA
65 AACTTCAGAGAGATAAGATTTATAA
* * * * * *
106738783 CTTCAACCTGCTCCATTGTAACTTCAGGGAAATAAGATTCG-TAGT-TTCAATCTGCTCCACTGC
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTA-TCTTCAATCTGCTCCACTGC
* *
106738846 AACTTTA-AGGAGATAATATTTATAA
65 AACTTCAGA-GAGATAAGATTTATAA
* * * *
106738871 CTTTAATCTGCTCCACTGCAACTTCAGAGAGGTAAGATTTGTTATCTTCGATCTACTCCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTGCTCCACTGCA
*
106738936 ACTTCAGAGAGATAAGATCTATAA
66 ACTTCAGAGAGATAAGATTTATAA
* * ** * * * * *
106738960 CTTCAATCTGTTCTAC-G--A--T-A-AGATTTGTA-ATTT-ATAACTTTAATCTG-TCTTACTG
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGAT-AAGATTTGTTATCTTCAATCTGCTC-CACTG
* * * *
106739015 CAACTTCAGGGAAATAAGATTTGTTAT
64 CAACTTCAGAGAGATAAGATTT-ATAA
* * * * * * * *
106739042 CTTCGATCTACTCCACTGCAACTTCAGGGAGATAAGATCT-ATAACTTCAATATGCACCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTGCTCCACTGCA
* *
106739106 ATTTCAGTGAGATAAGATTTGTAATTTATA
66 ACTTCAGAGAGATAAGA-TT-T-A--TA-A
* * * * * ** * *
106739136 GCTTTAATTTGTTCCACTGC-A----AGGGAAATAAGATTTGTTATCTTTGATCTACTCCACTGT
1 -CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTGCTCCACTGC
*
106739196 AACTTCA-AGTAGATAAGATCTATAA
65 AACTTCAGAG-AGATAAGATTTATAA
* * * * * * * *
106739221 CTTCAATCTGTTCCACTGTAACTTTAGGGATATAAGATTTGTAATTTATAGTTTTAATCTGTTCC
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG----TTAT--CTTCAATCTGCTCC
* * * * * *
106739286 ACTGTAACTTCAGGGAAATAGGATTCACTAT
60 ACTGCAACTTCAGAGAGATAAGATTTA-TAA
* * * * * *
106739317 CTTCGATCTACTCCACTGCAACTTCA-AGGAGATAAGATTT-ATAACTTCAATCTACTCCACTAC
1 CTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTGTTATCTTCAATCTGCTCCACTGC
* * *
106739380 AACTTTA-AGAAGATAAGATTTGTAG
65 AACTTCAGAG-AGATAAGATTTATAA
* * * * * * * * *
106739405 TTTTAATCTGCTCTACTGCAACTTTAGAGAGATAGGATTTGCTATCTTCGACCTTCTCCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTGCTCCACTGCA
* * * *
106739470 AATTCA-AGGAGATAAGGTTTGTAG
66 ACTTCAGA-GAGATAAGATTTATAA
* *
106739494 CTTTAATCTACTCCACTGCAACTTCA-AGGAGATAAGATT
1 CTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATT
106739533 CACCATAATA
Statistics
Matches: 566, Mismatches: 139, Indels: 90
0.71 0.17 0.11
Matches are distributed among these distances:
80 2 0.00
81 32 0.06
82 22 0.04
83 3 0.01
84 17 0.03
85 3 0.01
86 3 0.01
87 1 0.00
88 108 0.19
89 237 0.42
90 20 0.04
91 32 0.06
93 6 0.01
94 1 0.00
95 44 0.08
96 35 0.06
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (89 bp):
CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTGCTCCACTGCA
ACTTCAGAGAGATAAGATTTATAA
Found at i:106739033 original size:126 final size:128
Alignment explanation
Indices: 106738863--106739369 Score: 507
Period size: 140 Copynumber: 3.8 Consensus size: 128
106738853 AGGAGATAAT
* **
106738863 ATTTATAACTTTAATCTG-CTCCACTGCAACTTCAGAGAGGTAAGATTTGTTATCTTCGATCTAC
1 ATTTATAACTTTAATCTGTCTCCACTGCAACTTCAGGGAAATAAGATTTGTTATCTTCGATCTAC
106738927 TCCACTGCAACTTCAGAGAGATAAGATCTATAACTTCAATCTGTTC-T-ACGATAAGATTTGTA
66 TCCACTGCAACTTCA-AGAGATAAGATCTATAACTTCAATCTGTTCGTAACGATAAGATTTGTA
*
106738989 ATTTATAACTTTAATCTGTCT-TACTGCAACTTCAGGGAAATAAGATTTGTTATCTTCGATCTAC
1 ATTTATAACTTTAATCTGTCTCCACTGCAACTTCAGGGAAATAAGATTTGTTATCTTCGATCTAC
* *
106739053 TCCACTGCAACTTCAGGGAGATAAGATCTATAACTTCAATATGCACCACTGCAATTTCAGTGA-G
66 TCCACTGCAACTTCA-AGAGATAAGATCTATAACTTC-A-AT------CTG----TTC-GTAACG
106739117 ATAAGATTTGTA
117 ATAAGATTTGTA
* * *
106739129 ATTTATAGCTTTAATTTGT-TCCACTGC-A----AGGGAAATAAGATTTGTTATCTTTGATCTAC
1 ATTTATAACTTTAATCTGTCTCCACTGCAACTTCAGGGAAATAAGATTTGTTATCTTCGATCTAC
*
106739188 TCCACTGTAACTTCAAGTAGATAAGATCTATAACTTCAATCTGTTCCACTGTAACTTTAGGGATA
66 TCCACTGCAACTTCAAG-AGATAAGATCTATAACTTCAATCTGTT---C-GTAAC------G--A
106739253 TAAGATTTGTA
118 TAAGATTTGTA
** * * ***
106739264 ATTTATAGTTTTAATCTGT-TCCACTGTAACTTCAGGGAAATAGGATTCACTATCTTCGATCTAC
1 ATTTATAACTTTAATCTGTCTCCACTGCAACTTCAGGGAAATAAGATTTGTTATCTTCGATCTAC
*
106739328 TCCACTGCAACTTCAAGGAGATAAGATTTATAACTTCAATCT
66 TCCACTGCAACTTCAA-GAGATAAGATCTATAACTTCAATCT
106739370 ACTCCACTAC
Statistics
Matches: 322, Mismatches: 23, Indels: 58
0.80 0.06 0.14
Matches are distributed among these distances:
123 2 0.01
126 97 0.30
127 6 0.02
128 2 0.01
133 3 0.01
134 5 0.02
135 99 0.31
136 1 0.00
138 3 0.01
139 2 0.01
140 100 0.31
141 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.36
Consensus pattern (128 bp):
ATTTATAACTTTAATCTGTCTCCACTGCAACTTCAGGGAAATAAGATTTGTTATCTTCGATCTAC
TCCACTGCAACTTCAAGAGATAAGATCTATAACTTCAATCTGTTCGTAACGATAAGATTTGTA
Found at i:106739223 original size:135 final size:135
Alignment explanation
Indices: 106738976--106739532 Score: 520
Period size: 140 Copynumber: 4.1 Consensus size: 135
106738966 TCTGTTCTAC
* * *
106738976 GATAAGATTTGTAATTTATAACTTTAATCTG-TCTTACTGCAACTTCAGGGAAATAAGATTTGTT
1 GATAAGATTTGTAATTTATAGCTTTAATCTGTTC-CACTG---C-TAAGGGAAATAAGATTTGTT
* * *
106739040 ATCTTCGATCTACTCCACTGCAACTTCAGGGAGATAAGATCTATAACTTCAATATGCACCACTGC
61 ATCTTCGATCTACTCCACTGCAACTTCAAGGAGATAAGATCTATAACTTCAATCTGCTCCACTGC
106739105 AA-TTTCAGTGA
126 AACTTT-AG-GA
*
106739116 GATAAGATTTGTAATTTATAGCTTTAATTTGTTCCACTGC-AAGGGAAATAAGATTTGTTATCTT
1 GATAAGATTTGTAATTTATAGCTTTAATCTGTTCCACTGCTAAGGGAAATAAGATTTGTTATCTT
* * * * *
106739180 TGATCTACTCCACTGTAACTTCAAGTAGATAAGATCTATAACTTCAATCTGTTCCACTGTAACTT
66 CGATCTACTCCACTGCAACTTCAAGGAGATAAGATCTATAACTTCAATCTGCTCCACTGCAACTT
106739245 TAGGGA
131 TA-GGA
* * * * ***
106739251 TATAAGATTTGTAATTTATAGTTTTAATCTGTTCCACTGTAACTTCAGGGAAATAGGATTCACTA
1 GATAAGATTTGTAATTTATAGCTTTAATCTGTTCCACTG---C-TAAGGGAAATAAGATTTGTTA
* * *
106739316 TCTTCGATCTACTCCACTGCAACTTCAAGGAGATAAGATTTATAACTTCAATCTACTCCACTACA
62 TCTTCGATCTACTCCACTGCAACTTCAAGGAGATAAGATCTATAACTTCAATCTGCTCCACTGCA
*
106739381 ACTTTAAGAA
127 ACTTT-AGGA
* * * * * * * * *
106739391 GATAAGATTTGTAGTTTTAATCTGCTCT-A-CTG--CAACT--TTAGAGAGATAGGATTTGCTAT
1 GATAAGATTTGTA-ATTT-AT-AGCTTTAATCTGTTCCACTGCTAAGGGAAATAAGATTTGTTAT
* * * * * * * * *
106739450 CTTCGACCTTCTCCACTGCAAATTCAAGGAGATAAGGTTTGTAGCTTTAATCTACTCCACTGCAA
63 CTTCGATCTACTCCACTGCAACTTCAAGGAGATAAGATCTATAACTTCAATCTGCTCCACTGCAA
*
106739515 CTTCAAGGA
128 CTT-TAGGA
106739524 GATAAGATT
1 GATAAGATT
106739533 CACCATAATA
Statistics
Matches: 354, Mismatches: 50, Indels: 33
0.81 0.11 0.08
Matches are distributed among these distances:
133 89 0.25
135 116 0.33
136 4 0.01
137 1 0.00
138 1 0.00
139 4 0.01
140 124 0.35
141 9 0.03
142 3 0.01
143 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (135 bp):
GATAAGATTTGTAATTTATAGCTTTAATCTGTTCCACTGCTAAGGGAAATAAGATTTGTTATCTT
CGATCTACTCCACTGCAACTTCAAGGAGATAAGATCTATAACTTCAATCTGCTCCACTGCAACTT
TAGGA
Found at i:106739394 original size:44 final size:44
Alignment explanation
Indices: 106739011--106739532 Score: 262
Period size: 44 Copynumber: 11.6 Consensus size: 44
106739001 AATCTGTCTT
* * * *
106739011 ACTGCAACTTCAGGGAAATAAGATTTGTTATCTTCGATCTACTCC
1 ACTGCAACTTCAAGGAGATAAGATTTG-TAGCTTCAATCTACTCC
* * * * * * *
106739056 ACTGCAACTTCAGGGAGATAAGATCTATAACTTCAATATGCACC
1 ACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTACTCC
* * * * **
106739100 ACTGCAATTTC-AGTGAGATAAGATTTGTA-ATTTATAGCT--TTA
1 ACTGCAACTTCAAG-GAGATAAGATTTGTAGCTTCA-ATCTACTCC
* * * * * **
106739142 ATTTGTTCCACTGCAAGGGAAATAAGATTTGTTATCTTTGATCTACTCC
1 A-CTG--CAACTTCAA-GGAGATAAGATTTG-TAGCTTCAATCTACTCC
* * * * * **
106739191 ACTGTAACTTCAAGTAGATAAGATCTATAACTTCAATCTGTTCC
1 ACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTACTCC
* * * * * * **
106739235 ACTGTAACTTTAGGGATATAAGATTTGTAATTTATAGTTTTAATCTGTTCC
1 ACTGCAACTTCAAGGAGATAAGATTTG-------TAGCTTCAATCTACTCC
* * * * ** * *
106739286 ACTGTAACTTCAGGGAAATAGGATTCACTATCTTCGATCTACTCC
1 ACTGCAACTTCAAGGAGATAAGATT-TGTAGCTTCAATCTACTCC
* *
106739331 ACTGCAACTTCAAGGAGATAAGATTTATAACTTCAATCTACTCC
1 ACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTACTCC
* * * * * * *
106739375 ACTACAACTTTAAGAAGATAAGATTTGTAGTTTTAATCTGCTCT
1 ACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTACTCC
* * * * * *
106739419 ACTGCAACTT-TAGAGAGATAGGATTTGCTATCTTCGACCTTCTCC
1 ACTGCAACTTCAAG-GAGATAAGATTTG-TAGCTTCAATCTACTCC
* * *
106739464 ACTGCAAATTCAAGGAGATAAGGTTTGTAGCTTTAATCTACTCC
1 ACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTACTCC
106739508 ACTGCAACTTCAAGGAGATAAGATT
1 ACTGCAACTTCAAGGAGATAAGATT
106739533 CACCATAATA
Statistics
Matches: 354, Mismatches: 101, Indels: 45
0.71 0.20 0.09
Matches are distributed among these distances:
42 1 0.00
43 8 0.02
44 175 0.49
45 100 0.28
46 21 0.06
47 6 0.02
48 5 0.01
49 2 0.01
51 36 0.10
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Consensus pattern (44 bp):
ACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTACTCC
Found at i:106739529 original size:133 final size:133
Alignment explanation
Indices: 106738989--106739532 Score: 371
Period size: 135 Copynumber: 4.0 Consensus size: 133
106738979 AAGATTTGTA
** * * * *** *
106738989 ATTTATAACTTTAATCTG-TCTTACTGCAACTTCAGGGAAATAAGATTTGTTATCTTCGATCTAC
1 ATTTATAGTTTTAATCTGCTC-CACTGCAACTTCAGAGAAATAGGATTCACTATCTTCGACCTAC
* * * * * * * *
106739053 TCCACTGCAACTTCAGGGAGATAAGATCTATAACTTCAATATGCACCACTGCAATTTCAGTGAGA
65 TCCACTGCAAATTCAAGGAGATAAGATTTATAACTTCAATCTACTCCACTACAACTTCA---AG-
**
106739118 TAAGATTTG
126 -AAGATAAG
* * * * * *** * *
106739127 TAATTTATAGCTTTAATTTGTTCCACTGC-A----AGGGAAATAAGATTTGTTATCTTTGATCTA
1 --ATTTATAGTTTTAATCTGCTCCACTGCAACTTCAGAGAAATAGGATTCACTATCTTCGACCTA
* * * * ** ** *
106739187 CTCCACTGTAACTTCAAGTAGATAAGATCTATAACTTCAATCTGTTCCACTGTAACTTTAGGGAT
64 CTCCACTGCAAATTCAAGGAGATAAGATTTATAACTTCAATCTACTCCACTACAAC-TT---CA-
* **
106739252 ATAAGATTTG
124 AGAAGATAAG
* * * *
106739262 TAATTTATAGTTTTAATCTGTTCCACTGTAACTTCAGGGAAATAGGATTCACTATCTTCGATCTA
1 --ATTTATAGTTTTAATCTGCTCCACTGCAACTTCAGAGAAATAGGATTCACTATCTTCGACCTA
* *
106739327 CTCCACTGCAACTTCAAGGAGATAAGATTTATAACTTCAATCTACTCCACTACAACTTTAAGAAG
64 CTCCACTGCAAATTCAAGGAGATAAGATTTATAACTTCAATCTACTCCACTACAACTTCAAGAAG
106739392 ATAAG
129 ATAAG
* * * * ** *
106739397 ATTTGTAGTTTTAATCTGCTCTACTGCAACTTTAGAGAGATAGGATTTGCTATCTTCGACCTTCT
1 ATTTATAGTTTTAATCTGCTCCACTGCAACTTCAGAGAAATAGGATTCACTATCTTCGACCTACT
* * * * * *
106739462 CCACTGCAAATTCAAGGAGATAAGGTTTGTAGCTTTAATCTACTCCACTGCAACTTCAAGGAGAT
66 CCACTGCAAATTCAAGGAGATAAGATTTATAACTTCAATCTACTCCACTACAACTTCAAGAAGAT
106739527 AAG
131 AAG
106739530 ATT
1 ATT
106739533 CACCATAATA
Statistics
Matches: 341, Mismatches: 53, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
133 117 0.34
135 118 0.35
136 4 0.01
137 1 0.00
139 4 0.01
140 95 0.28
141 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (133 bp):
ATTTATAGTTTTAATCTGCTCCACTGCAACTTCAGAGAAATAGGATTCACTATCTTCGACCTACT
CCACTGCAAATTCAAGGAGATAAGATTTATAACTTCAATCTACTCCACTACAACTTCAAGAAGAT
AAG
Found at i:106744361 original size:17 final size:17
Alignment explanation
Indices: 106744339--106744373 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
106744329 TTAATCGTGC
**
106744339 TCTTCTCCTTTTCTTTT
1 TCTTCTCCAATTCTTTT
106744356 TCTTCTCCAATTCTTTT
1 TCTTCTCCAATTCTTTT
106744373 T
1 T
106744374 TCTTTTACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.66
Consensus pattern (17 bp):
TCTTCTCCAATTCTTTT
Found at i:106751443 original size:21 final size:18
Alignment explanation
Indices: 106751417--106751461 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
106751407 TTTTAAAATT
106751417 ATAAAAGGATATAAATGAATA
1 ATAAAAGGATA-AAAT-AA-A
*
106751438 ATAAAATGATAAAATAAA
1 ATAAAAGGATAAAATAAA
106751456 ATAAAA
1 ATAAAA
106751462 TAAATATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 7 0.30
19 2 0.09
20 4 0.17
21 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (18 bp):
ATAAAAGGATAAAATAAA
Found at i:106754045 original size:98 final size:98
Alignment explanation
Indices: 106753897--106754124 Score: 237
Period size: 98 Copynumber: 2.3 Consensus size: 98
106753887 CATCTAAGTG
* * ** * *
106753897 GATGCCATGTCCTAGATAGGTCTTACACT-GACTTCCATA-CATCGAGGCCGATGCCATGTCCCA
1 GATGCCATGTCCCAGACAGGTCTTACACTAG-CTTGTATATC-TTGAAGCCGATGCCATGTCCCA
* * * * *
106753960 AATAGGTCTTACACTGGCTTTCA-CTTATCTGTATA
64 AACAAGTCTTACACTGGCTCTCATC-TATCGGTACA
* * * *
106753995 GATGCCATGTTCCAGACAGGTCTTACACTAGCTTGTATATCTTGAAGCCGATGTCGTGTCCCAGA
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTTGAAGCCGATGCCATGTCCCAAA
* *
106754060 CAAGTCTTACACTGGCTCTCATCTATCGGTGCC
66 CAAGTCTTACACTGGCTCTCATCTATCGGTACA
**
106754093 GATGCTGTGTCCCAGACAGGTCTTACACTAGC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGC
106754125 ACACACATCA
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
98 104 0.97
99 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (98 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTTGAAGCCGATGCCATGTCCCAAA
CAAGTCTTACACTGGCTCTCATCTATCGGTACA
Found at i:106754059 original size:49 final size:49
Alignment explanation
Indices: 106754006--106754124 Score: 136
Period size: 49 Copynumber: 2.4 Consensus size: 49
106753996 ATGCCATGTT
* *
106754006 CCAGACAGGTCTTACACTAGCT-T-GTATATCTTGAAGCCGATG-TCGTGTC
1 CCAGACAGGTCTTACACTAGCTCTCATCTATC--GAAGCCGATGCT-GTGTC
* * **
106754055 CCAGACAAGTCTTACACTGGCTCTCATCTATCGGTGCCGATGCTGTGTC
1 CCAGACAGGTCTTACACTAGCTCTCATCTATCGAAGCCGATGCTGTGTC
106754104 CCAGACAGGTCTTACACTAGC
1 CCAGACAGGTCTTACACTAGC
106754125 ACACACATCA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
49 52 0.88
50 2 0.03
51 5 0.08
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (49 bp):
CCAGACAGGTCTTACACTAGCTCTCATCTATCGAAGCCGATGCTGTGTC
Found at i:106754711 original size:21 final size:21
Alignment explanation
Indices: 106754687--106754729 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
106754677 AAGCTGTTTA
106754687 TTTAACAACCAAGATTCCTTT
1 TTTAACAACCAAGATTCCTTT
106754708 TTTAACAACCAAGATTCCTTT
1 TTTAACAACCAAGATTCCTTT
106754729 T
1 T
106754730 CTTCCATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTAACAACCAAGATTCCTTT
Found at i:106758711 original size:19 final size:19
Alignment explanation
Indices: 106758687--106758727 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
106758677 ACAGGTATAT
106758687 CATGGATGGAAAAGGTACC
1 CATGGATGGAAAAGGTACC
106758706 CATGGATGGAAAAGGTACC
1 CATGGATGGAAAAGGTACC
106758725 CAT
1 CAT
106758728 AATCACATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (19 bp):
CATGGATGGAAAAGGTACC
Found at i:106762762 original size:93 final size:93
Alignment explanation
Indices: 106762650--106762821 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
106762640 CGCCCATAAG
* *
106762650 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
106762715 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
106762743 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
106762808 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
106762822 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:106762818 original size:46 final size:46
Alignment explanation
Indices: 106762643--106762818 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
106762633 TGTAACCCGC
* * *
106762643 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
106762689 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
106762739 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
106762782 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
106762819 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:106770342 original size:93 final size:93
Alignment explanation
Indices: 106770230--106770401 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
106770220 CGCCCATAAG
* *
106770230 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
106770295 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
106770323 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
106770388 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
106770402 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:106770398 original size:46 final size:46
Alignment explanation
Indices: 106770223--106770398 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
106770213 TGTAACCCGC
* * *
106770223 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
106770269 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
106770319 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
106770362 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
106770399 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:106784530 original size:46 final size:46
Alignment explanation
Indices: 106784475--106784646 Score: 163
Period size: 47 Copynumber: 3.7 Consensus size: 46
106784465 GACGAGTGCT
*
106784475 AGTGTAAGACATGTCTGGGACATGTATCGGCCTT-GAGA-CATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTTCGAGATCAT-AGCC
* *
106784521 AGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGATCATAGCC
* *** *
106784567 AGTGTAAGACCATGTTTGGGACATGGCATTAACTT-GAGAT-ATGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTTCGAGATCAT-AGCC
* *
106784614 AGTGTAAGACCATGCCTGGGATATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
106784647 ACTTTACCCC
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
45 3 0.03
46 47 0.44
47 49 0.46
48 7 0.07
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGATCATAGCC
Found at i:106789063 original size:24 final size:25
Alignment explanation
Indices: 106789020--106789070 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
106789010 ATGTAAATAA
*
106789020 TACTAGAAAAAAATATAGTTTAATT
1 TACTAGAAAAAAATAAAGTTTAATT
106789045 TACTAG-AAAAAATAAAGTTTAATT
1 TACTAGAAAAAAATAAAGTTTAATT
106789069 TA
1 TA
106789071 ATTAAACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (25 bp):
TACTAGAAAAAAATAAAGTTTAATT
Found at i:106790236 original size:64 final size:64
Alignment explanation
Indices: 106790135--106790265 Score: 262
Period size: 64 Copynumber: 2.0 Consensus size: 64
106790125 ATCATGAGAC
106790135 TAGAACGTTAGTCTCATAAACCGTGTGGTCTTAGGCGATCTCTTTGCTCCAAATCTACCTAAGT
1 TAGAACGTTAGTCTCATAAACCGTGTGGTCTTAGGCGATCTCTTTGCTCCAAATCTACCTAAGT
106790199 TAGAACGTTAGTCTCATAAACCGTGTGGTCTTAGGCGATCTCTTTGCTCCAAATCTACCTAAGT
1 TAGAACGTTAGTCTCATAAACCGTGTGGTCTTAGGCGATCTCTTTGCTCCAAATCTACCTAAGT
106790263 TAG
1 TAG
106790266 CCTAACTTTC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (64 bp):
TAGAACGTTAGTCTCATAAACCGTGTGGTCTTAGGCGATCTCTTTGCTCCAAATCTACCTAAGT
Found at i:106791760 original size:40 final size:40
Alignment explanation
Indices: 106791716--106791842 Score: 175
Period size: 40 Copynumber: 3.2 Consensus size: 40
106791706 GGCCATGTAA
**
106791716 GTGCATTTAGGGGTAATGAAGTACAAACAAGGGCACGTAT
1 GTGCATTTAGGGGTACCGAAGTACAAACAAGGGCACGTAT
* *
106791756 GTGCATTTAGGGGTACCGAAGTACAAACATGGGCACGTTT
1 GTGCATTTAGGGGTACCGAAGTACAAACAAGGGCACGTAT
* * *
106791796 GTGCATTCAGGGGTACCGAAGTACAAA-TAGGAGCACATAT
1 GTGCATTTAGGGGTACCGAAGTACAAACAAGG-GCACGTAT
106791836 GTGCATT
1 GTGCATT
106791843 CACTCAATAG
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.03
40 75 0.97
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (40 bp):
GTGCATTTAGGGGTACCGAAGTACAAACAAGGGCACGTAT
Found at i:106792055 original size:18 final size:20
Alignment explanation
Indices: 106792028--106792065 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
106792018 GTTTTGATCT
106792028 ATATAATAAT-T-ATACACA
1 ATATAATAATCTCATACACA
*
106792046 ATATATTAATCTCATACACA
1 ATATAATAATCTCATACACA
106792066 TCTCACATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (20 bp):
ATATAATAATCTCATACACA
Found at i:106794721 original size:15 final size:14
Alignment explanation
Indices: 106794676--106794728 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
106794666 CTTCCTTTCC
*
106794676 TTTTATTTTT-TAT
1 TTTTGTTTTTATAT
*
106794689 TTTTGTTTTTCT-T
1 TTTTGTTTTTATAT
106794702 CTTTTCGTTTTTATAT
1 -TTTT-GTTTTTATAT
106794718 TTTTGTTTTTA
1 TTTTGTTTTTA
106794729 ACTGGAAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 10 0.29
14 12 0.35
15 11 0.32
16 1 0.03
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (14 bp):
TTTTGTTTTTATAT
Found at i:106797281 original size:101 final size:101
Alignment explanation
Indices: 106797102--106797315 Score: 304
Period size: 101 Copynumber: 2.1 Consensus size: 101
106797092 AAGTGCATTG
** * * *
106797102 CCATGGTCTTATGTTCTTAGTGCCATAACCCGATTATGGTCTTACCATCAGAATGCCATATCCCA
1 CCATGGTCTTACATTCATAGTGCCATAACCAGATTATGGTCTTACCATCAGAATGCCATAGCCCA
* *
106797167 ACTATGGTCTTATATATATACACTGTCATGGTCCAA
66 ACTATGGTATTATATATATACACTGCCATGGTCCAA
* * *
106797203 CCATGGTCTTACATTCATAGTGCCATAATCCAG-TTATGGTCTTACCATTAGAATGTCATAGCCT
1 CCATGGTCTTACATTCATAGTGCCATAA-CCAGATTATGGTCTTACCATCAGAATGCCATAGCCC
* *
106797267 AGCTATGGTATTATATATATACATTGCCATGGTCCAA
65 AACTATGGTATTATATATATACACTGCCATGGTCCAA
106797304 CCATGGTCTTAC
1 CCATGGTCTTAC
106797316 GTCTGAATAG
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
101 97 0.97
102 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (101 bp):
CCATGGTCTTACATTCATAGTGCCATAACCAGATTATGGTCTTACCATCAGAATGCCATAGCCCA
ACTATGGTATTATATATATACACTGCCATGGTCCAA
Found at i:106799407 original size:26 final size:26
Alignment explanation
Indices: 106799374--106799483 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
106799364 TGATACAATT
106799374 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
106799400 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
106799426 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
106799452 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
106799478 TGATAA
1 TGATAA
106799484 GAATTCATGT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:106799900 original size:17 final size:17
Alignment explanation
Indices: 106799878--106799910 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
106799868 CTTAGATGCT
106799878 AAAGGGAAAAATCGGCA
1 AAAGGGAAAAATCGGCA
106799895 AAAGGGAAAAATCGGC
1 AAAGGGAAAAATCGGC
106799911 TAACATGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.12, G:0.30, T:0.06
Consensus pattern (17 bp):
AAAGGGAAAAATCGGCA
Found at i:106801015 original size:26 final size:26
Alignment explanation
Indices: 106800986--106801038 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
106800976 TTTACAGTTT
106800986 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
106801012 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
106801038 T
1 T
106801039 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:106801610 original size:137 final size:135
Alignment explanation
Indices: 106801286--106801560 Score: 435
Period size: 137 Copynumber: 2.0 Consensus size: 135
106801276 GAGTAGTCTC
* * * *
106801286 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATAGGTTGACTGATCTTG-A-GTACTTTGAAATGGGCCTATGGGCCATAC
106801351 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
64 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
106801416 ACTGTTA
129 ACTGTTA
* * * *
106801423 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATAGGTTGACTGATCTTG-A-GTACTTTGAAATGGGCCTATGGGCCATAC
106801488 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCT-AAAAGGGCTCTGGCCCAGTACC
64 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
106801552 ACTGTTA
129 ACTGTTA
106801559 CC
1 CC
106801561 TGAATGGGTT
Statistics
Matches: 138, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
136 31 0.22
137 107 0.78
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (135 bp):
CCCAAATGGGCTTGCATAGGTTGACTGATCTTGAGTACTTTGAAATGGGCCTATGGGCCATACTG
TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
TGTTA
Found at i:106802287 original size:347 final size:347
Alignment explanation
Indices: 106801652--106802335 Score: 1368
Period size: 347 Copynumber: 2.0 Consensus size: 347
106801642 ACCCCTTTTA
106801652 TTTTCATCCACGCAGGAAATCCCCAACCATAGTGGGTTTGGAGCTGTGAGGGAATTCGGAGTGGC
1 TTTTCATCCACGCAGGAAATCCCCAACCATAGTGGGTTTGGAGCTGTGAGGGAATTCGGAGTGGC
106801717 CACCCGTTCTGAAAGTTTGATTTTCTTCTGGTGAACTGGACATCCTTTTATTTACGTTTGAAGTT
66 CACCCGTTCTGAAAGTTTGATTTTCTTCTGGTGAACTGGACATCCTTTTATTTACGTTTGAAGTT
106801782 TTGGGTTTTTAAATGTAATAAGGCCGCTTAATTATTTTTGATGGTTTTAATATGTATTACTAAGA
131 TTGGGTTTTTAAATGTAATAAGGCCGCTTAATTATTTTTGATGGTTTTAATATGTATTACTAAGA
106801847 TAGGTATTACTTATTTTAACTGTTAAAATTGGATAGCTTTAGGGCGCGTTTTCAAAAACAACAAT
196 TAGGTATTACTTATTTTAACTGTTAAAATTGGATAGCTTTAGGGCGCGTTTTCAAAAACAACAAT
106801912 TGATTTCAAAATAACACGACAACAAGCAAAGCTTCCGCAATGAAAGTATTTTCCAAAATTAATAA
261 TGATTTCAAAATAACACGACAACAAGCAAAGCTTCCGCAATGAAAGTATTTTCCAAAATTAATAA
106801977 CTTTTCCTAAAATCAATTGTTG
326 CTTTTCCTAAAATCAATTGTTG
106801999 TTTTCATCCACGCAGGAAATCCCCAACCATAGTGGGTTTGGAGCTGTGAGGGAATTCGGAGTGGC
1 TTTTCATCCACGCAGGAAATCCCCAACCATAGTGGGTTTGGAGCTGTGAGGGAATTCGGAGTGGC
106802064 CACCCGTTCTGAAAGTTTGATTTTCTTCTGGTGAACTGGACATCCTTTTATTTACGTTTGAAGTT
66 CACCCGTTCTGAAAGTTTGATTTTCTTCTGGTGAACTGGACATCCTTTTATTTACGTTTGAAGTT
106802129 TTGGGTTTTTAAATGTAATAAGGCCGCTTAATTATTTTTGATGGTTTTAATATGTATTACTAAGA
131 TTGGGTTTTTAAATGTAATAAGGCCGCTTAATTATTTTTGATGGTTTTAATATGTATTACTAAGA
106802194 TAGGTATTACTTATTTTAACTGTTAAAATTGGATAGCTTTAGGGCGCGTTTTCAAAAACAACAAT
196 TAGGTATTACTTATTTTAACTGTTAAAATTGGATAGCTTTAGGGCGCGTTTTCAAAAACAACAAT
106802259 TGATTTCAAAATAACACGACAACAAGCAAAGCTTCCGCAATGAAAGTATTTTCCAAAATTAATAA
261 TGATTTCAAAATAACACGACAACAAGCAAAGCTTCCGCAATGAAAGTATTTTCCAAAATTAATAA
106802324 CTTTTCCTAAAA
326 CTTTTCCTAAAA
106802336 ATGACTTAAT
Statistics
Matches: 337, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
347 337 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (347 bp):
TTTTCATCCACGCAGGAAATCCCCAACCATAGTGGGTTTGGAGCTGTGAGGGAATTCGGAGTGGC
CACCCGTTCTGAAAGTTTGATTTTCTTCTGGTGAACTGGACATCCTTTTATTTACGTTTGAAGTT
TTGGGTTTTTAAATGTAATAAGGCCGCTTAATTATTTTTGATGGTTTTAATATGTATTACTAAGA
TAGGTATTACTTATTTTAACTGTTAAAATTGGATAGCTTTAGGGCGCGTTTTCAAAAACAACAAT
TGATTTCAAAATAACACGACAACAAGCAAAGCTTCCGCAATGAAAGTATTTTCCAAAATTAATAA
CTTTTCCTAAAATCAATTGTTG
Found at i:106803229 original size:2 final size:2
Alignment explanation
Indices: 106803222--106803250 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
106803212 CTAGTAATAG
106803222 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
106803251 GGTTGATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:106803749 original size:13 final size:13
Alignment explanation
Indices: 106803733--106803758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106803723 CCCTTTATGT
106803733 TTCTCCTTAAATA
1 TTCTCCTTAAATA
106803746 TTCTCCTTAAATA
1 TTCTCCTTAAATA
106803759 ACAAATGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
TTCTCCTTAAATA
Found at i:106805588 original size:13 final size:13
Alignment explanation
Indices: 106805556--106805580 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106805546 AGATATCAAA
106805556 CTTACCATTCATT
1 CTTACCATTCATT
106805569 CTTACCATTCAT
1 CTTACCATTCAT
106805581 ATTTACCACA
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:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (13 bp):
CTTACCATTCATT
Found at i:106806132 original size:45 final size:45
Alignment explanation
Indices: 106806083--106806288 Score: 120
Period size: 45 Copynumber: 4.6 Consensus size: 45
106806073 ATGTCATGTC
* * ** *
106806083 ATCTTTCAACCATGGTCTTATTCATTTTCAAAGT-AGTTTCATAGT
1 ATCTTTCAACTATGGTCTTATTCATTATCAAAGTGA-TGCCATAAT
* * *
106806128 ATCTTTCAATTATGGTCTTGA-TCATTATCGATGTGATGCCATAAT
1 ATCTTTCAACTATGGTCTT-ATTCATTATCAAAGTGATGCCATAAT
* * * *
106806173 ATCTTTCAACTATGGTCTTATT--TGTAT-AGGATTCAATGTCATAAT
1 ATCTTTCAACTATGGTCTTATTCAT-TATCA-AAGT-GATGCCATAAT
* * * * ** *
106806218 ATCTTTCAACTATAGTCTTATAT-AGTT-TCCAATTTATTTTCATAGT
1 ATCTTTCAACTATGGTCTTAT-TCA-TTATCAAAGTGA-TGCCATAAT
106806264 ATCTTTCAACTATGGTCTTATTCAT
1 ATCTTTCAACTATGGTCTTATTCAT
106806289 CCCAGTTTGA
Statistics
Matches: 127, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
43 1 0.01
44 5 0.04
45 84 0.66
46 35 0.28
47 1 0.01
48 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (45 bp):
ATCTTTCAACTATGGTCTTATTCATTATCAAAGTGATGCCATAAT
Found at i:106815970 original size:10 final size:11
Alignment explanation
Indices: 106815911--106815982 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
106815901 TTTAGAGGAA
106815911 TTAATTTTATT
1 TTAATTTTATT
* *
106815922 TGAATTTTGTTT
1 TTAATTTT-ATT
*
106815934 TTAAGTTTTA-A
1 TTAA-TTTTATT
*
106815945 TT-A-TTTAAT
1 TTAATTTTATT
*
106815954 TAAATTTTATT
1 TTAATTTTATT
106815965 TT-ATTTTATT
1 TTAATTTTATT
106815975 TTAATTTT
1 TTAATTTT
106815983 TTATCCTAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
8 4 0.09
9 1 0.02
10 12 0.26
11 20 0.43
12 5 0.11
13 4 0.09
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (11 bp):
TTAATTTTATT
Found at i:106828486 original size:10 final size:10
Alignment explanation
Indices: 106828471--106828531 Score: 52
Period size: 10 Copynumber: 5.7 Consensus size: 10
106828461 TAGATTGGTA
106828471 AAATAAAAAT
1 AAATAAAAAT
106828481 AAATAATGTAAA-
1 AAATAA---AAAT
106828493 AAATAATAAAT
1 AAATAA-AAAT
106828504 AAATAAAAAT
1 AAATAAAAAT
* *
106828514 AAATTAAATT
1 AAATAAAAAT
106828524 AAAGTAAA
1 AAA-TAAA
106828532 GAAAAGGGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
10 25 0.58
11 9 0.21
12 6 0.14
13 3 0.07
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:106828500 original size:19 final size:20
Alignment explanation
Indices: 106828446--106828505 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 20
106828436 ATAAGAATAA
106828446 TAAAAT-AAAATAAAATAGATTGG
1 TAAAATAAAAAT-AAATA-A-T-G
106828469 TAAAATAAAAATAAATAATG
1 TAAAATAAAAATAAATAATG
*
106828489 TAAAA-AATAATAAATAA
1 TAAAATAAAAATAAATAA
106828506 ATAAAAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 11 0.31
20 6 0.17
21 1 0.03
22 1 0.03
23 11 0.31
24 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (20 bp):
TAAAATAAAAATAAATAATG
Found at i:106830204 original size:49 final size:49
Alignment explanation
Indices: 106830123--106830366 Score: 258
Period size: 49 Copynumber: 5.0 Consensus size: 49
106830113 TCTATTGTGA
* * *
106830123 GGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * ** *
106830172 GGTCGCATGTGTAGTACTAAGTGCAGGTTACTATGCATACCCGATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA--TT
* * * * *** **
106830223 GATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTGTTAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* *
106830272 AGGTCACGTGTGTAGTAC--AGTGCAGGCTACTACGTGTACCAGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* *
106830320 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA
106830367 CCTTGTCTAC
Statistics
Matches: 158, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
47 15 0.09
48 24 0.15
49 68 0.43
50 16 0.10
51 35 0.22
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:106830306 original size:26 final size:26
Alignment explanation
Indices: 106830227--106830308 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 26
106830217 AACTTTGATC
*
106830227 ACGTGTGTAGTACTAAGTGCAAGCTACT
1 ACGTGTGTAGTAC--AGTGCAGGCTACT
** *
106830255 ACGTGTGTTAG-ATGGT-TAGG-T-C-
1 ACGTGTG-TAGTACAGTGCAGGCTACT
106830277 ACGTGTGTAGTACAGTGCAGGCTACT
1 ACGTGTGTAGTACAGTGCAGGCTACT
106830303 ACGTGT
1 ACGTGT
106830309 ACCAGATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
21 3 0.07
22 10 0.24
23 4 0.10
24 2 0.05
25 3 0.07
26 8 0.20
28 8 0.20
29 3 0.07
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (26 bp):
ACGTGTGTAGTACAGTGCAGGCTACT
Found at i:106834053 original size:40 final size:40
Alignment explanation
Indices: 106834008--106834174 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
106833998 CGGAATATAA
106834008 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
106834048 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
106834088 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
106834128 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
106834167 CCGGATAT
1 CCGGATAT
106834175 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:106842058 original size:40 final size:40
Alignment explanation
Indices: 106842013--106842180 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
106842003 CGGAATATAA
106842013 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
106842053 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
106842093 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
106842133 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
106842173 CCGGATAT
1 CCGGATAT
106842181 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:106842163 original size:80 final size:80
Alignment explanation
Indices: 106842029--106842178 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
106842019 ATAACCACGT
* *
106842029 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
106842094 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
106842109 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
106842172 CCCGGAT
64 CCCGGAT
106842179 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:106844102 original size:50 final size:50
Alignment explanation
Indices: 106844043--106844137 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
106844033 TGAATCATAT
*
106844043 AAAAGGACACGATCCCCAACTATGAATTGTTTGGGCTACTTCAAACAAGC
1 AAAAGGACACGATCCCCAACTACGAATTGTTTGGGCTACTTCAAACAAGC
* *
106844093 AAAAGGACACGATCCCCAACTGCGAATTGTTTGGGCTGCTTCAAA
1 AAAAGGACACGATCCCCAACTACGAATTGTTTGGGCTACTTCAAA
106844138 TGAGCATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (50 bp):
AAAAGGACACGATCCCCAACTACGAATTGTTTGGGCTACTTCAAACAAGC
Found at i:106854431 original size:14 final size:14
Alignment explanation
Indices: 106854412--106854444 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
106854402 TGATTTCTCC
106854412 TTTTCCCTCTTCCT
1 TTTTCCCTCTTCCT
*
106854426 TTTTCCCTTTTCCT
1 TTTTCCCTCTTCCT
106854440 TTTTC
1 TTTTC
106854445 TCTTCGTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCCCTCTTCCT
Found at i:106854869 original size:19 final size:19
Alignment explanation
Indices: 106854845--106854884 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
106854835 GTTTATTTTC
106854845 ATTCTTTCTTTATTTGATT
1 ATTCTTTCTTTATTTGATT
* * *
106854864 ATTCTTTTTTTTTTTGCTT
1 ATTCTTTCTTTATTTGATT
106854883 AT
1 AT
106854885 GGTATTGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.12, C:0.10, G:0.05, T:0.72
Consensus pattern (19 bp):
ATTCTTTCTTTATTTGATT
Found at i:106869190 original size:25 final size:25
Alignment explanation
Indices: 106869155--106869208 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
106869145 TCTTTAGGGT
*
106869155 ATTTTTGGGTTT-TTTA-TGTTTAAG
1 ATTTTTGGGTTTGGTTAGT-TTTAAG
106869179 ATTTTTGTGGTTTGGTTAGTTTTAAG
1 ATTTTTG-GGTTTGGTTAGTTTTAAG
106869205 ATTT
1 ATTT
106869209 AAGGTTTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.27
25 5 0.19
26 13 0.50
27 1 0.04
ACGTcount: A:0.17, C:0.00, G:0.22, T:0.61
Consensus pattern (25 bp):
ATTTTTGGGTTTGGTTAGTTTTAAG
Found at i:106873126 original size:30 final size:30
Alignment explanation
Indices: 106873092--106873167 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
106873082 TGGTTAACCC
* * *
106873092 ATCCCTTTTCATAATTCGATAATCGAAGTT
1 ATCCCTTTTCATAATTCAACAATCGAAGCT
* *
106873122 ATCCCTTTTCATAGTTCAACAGTCGAAGCT
1 ATCCCTTTTCATAATTCAACAATCGAAGCT
*
106873152 ATCCATTTTCATAATT
1 ATCCCTTTTCATAATT
106873168 TGATGGTTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCAACAATCGAAGCT
Found at i:106873191 original size:30 final size:30
Alignment explanation
Indices: 106873152--106873346 Score: 112
Period size: 30 Copynumber: 6.5 Consensus size: 30
106873142 AGTCGAAGCT
* ** *
106873152 ATCCATTTTCATAATTTGATGGTTGTCATC
1 ATCCCTTTTCATAATTTGATGGTCATCACC
**
106873182 ATCCCTTTTCATTGTTTGATGGTCATCACC
1 ATCCCTTTTCATAATTTGATGGTCATCACC
* * *
106873212 AT-CCTTTCTCATAATTTGATAG-C-TGAAGCT
1 ATCCCTTT-TCATAATTTGATGGTCAT-CA-CC
* * * * **
106873242 ATCCCTTTTCATAAATCGATTAGCCAAAACC
1 ATCCCTTTTCATAATTTGA-TGGTCATCACC
* * * *
106873273 ATCCCTCTTCAAAATTTGATTGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCATCACC
** *
106873303 ATCTATTTTCAT--TGTTGATGGTCGTCACC
1 ATCCCTTTTCATAAT-TTGATGGTCATCACC
106873332 ATCCCTTTTCATAAT
1 ATCCCTTTTCATAAT
106873347 AGACAACTGA
Statistics
Matches: 124, Mismatches: 31, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
28 2 0.02
29 31 0.25
30 63 0.51
31 25 0.20
32 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCATCACC
Found at i:106873326 original size:29 final size:29
Alignment explanation
Indices: 106873288--106873343 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
106873278 TCTTCAAAAT
* *
106873288 TTGATTGTCGTCACCATCTATTTTCATTG
1 TTGATGGTCGTCACCATCCATTTTCATTG
*
106873317 TTGATGGTCGTCACCATCCCTTTTCAT
1 TTGATGGTCGTCACCATCCATTTTCAT
106873344 AATAGACAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.16, C:0.25, G:0.14, T:0.45
Consensus pattern (29 bp):
TTGATGGTCGTCACCATCCATTTTCATTG
Found at i:106874965 original size:26 final size:26
Alignment explanation
Indices: 106874936--106875043 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
106874926 TGGTACAAAT
106874936 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
106874962 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
106874988 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
106875014 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
106875040 TGAT
1 TGAT
106875044 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:106876579 original size:26 final size:26
Alignment explanation
Indices: 106876527--106876579 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
106876517 TTTATAGTTT
*
106876527 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
106876553 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
106876579 T
1 T
106876580 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:106878291 original size:37 final size:37
Alignment explanation
Indices: 106878241--106878312 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
106878231 TTTAGCTCGA
*
106878241 ATAATCCCCACACGTAGTCATCGGGTCTTACCCGGGC
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
*
106878278 ATAATCTCCACACGTAGCCATCGGGTCTTACCCGG
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGG
106878313 AATATATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (37 bp):
ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
Found at i:106878506 original size:48 final size:48
Alignment explanation
Indices: 106878446--106878551 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
106878436 CAGCCACAAT
* *
106878446 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
106878494 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
106878542 ACATATATAT
1 ATATACATAT
106878552 ATTTATCTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:106894048 original size:6 final size:6
Alignment explanation
Indices: 106894037--106894065 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
106894027 TGATTATAAT
106894037 ATATTA ATATTA ATATTA ATATTA ATATT
1 ATATTA ATATTA ATATTA ATATTA ATATT
106894066 CAAGCCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATATTA
Found at i:106894471 original size:12 final size:12
Alignment explanation
Indices: 106894456--106894480 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
106894446 GTGAAAAAAT
106894456 AAAATAAAATAA
1 AAAATAAAATAA
106894468 AAAATAAAATAA
1 AAAATAAAATAA
106894480 A
1 A
106894481 GAACACACAG
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:106898915 original size:12 final size:12
Alignment explanation
Indices: 106898900--106898924 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
106898890 GTGAAAAAAT
106898900 AAAATAAAATAA
1 AAAATAAAATAA
106898912 AAAATAAAATAA
1 AAAATAAAATAA
106898924 A
1 A
106898925 GAACACACAG
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:106904571 original size:22 final size:22
Alignment explanation
Indices: 106904509--106904572 Score: 60
Period size: 25 Copynumber: 2.9 Consensus size: 22
106904499 TAATCCTGTA
*
106904509 AGTA-TTTCTGAAACT-TAAAT
1 AGTATTTTCTGATACTGTAAAT
* *
106904529 AGTATATTCTGAAAATACTGTAGAT
1 AGTATTTTCTG---ATACTGTAAAT
106904554 AGTATTTTCTGATACTGTA
1 AGTATTTTCTGATACTGTA
106904573 CAGAAATAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.11
21 5 0.14
22 8 0.23
24 4 0.11
25 14 0.40
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (22 bp):
AGTATTTTCTGATACTGTAAAT
Found at i:106906718 original size:40 final size:41
Alignment explanation
Indices: 106906653--106906748 Score: 131
Period size: 40 Copynumber: 2.3 Consensus size: 41
106906643 AAAAAGATAG
* * *
106906653 TACCATAAAGATATACATCGATTATCGGCAACTGAATAAAT
1 TACCATGAGGATATACATCGATTATCGACAACTGAATAAAT
106906694 TACCATGAGGATAT-CATCGATTATCGACAACTGAATAAAT
1 TACCATGAGGATATACATCGATTATCGACAACTGAATAAAT
*
106906734 TGACTATGAAGGATA
1 T-ACCATG-AGGATA
106906749 AGTATCCACT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 26 0.53
41 17 0.35
42 6 0.12
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (41 bp):
TACCATGAGGATATACATCGATTATCGACAACTGAATAAAT
Found at i:106910952 original size:32 final size:31
Alignment explanation
Indices: 106910916--106910987 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 31
106910906 TTGTGCTGAA
106910916 TTCTATTCTTCCTCTACCTCATTTTTGACTTT
1 TTCTATTCTTCCTCTACCTCATTTTTGAC-TT
106910948 TTCTATTCTTCCTCTACCTCATTTTTGACTT
1 TTCTATTCTTCCTCTACCTCATTTTTGACTT
106910979 TTCT-TTCTT
1 TTCTATTCTT
106910988 TTTCCTTGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 5 0.12
31 6 0.15
32 29 0.73
ACGTcount: A:0.11, C:0.28, G:0.03, T:0.58
Consensus pattern (31 bp):
TTCTATTCTTCCTCTACCTCATTTTTGACTT
Found at i:106911805 original size:29 final size:28
Alignment explanation
Indices: 106911772--106911868 Score: 108
Period size: 29 Copynumber: 3.4 Consensus size: 28
106911762 TAATATGATA
106911772 TGGGCCATATGAATGAGAATTGGGCCTAG
1 TGGGCCATATGAAT-AGAATTGGGCCTAG
* *
106911801 TGGGCCATAAGAATATGAACTGGGCC-AG
1 TGGGCCATATGAATA-GAATTGGGCCTAG
* *
106911829 ATGGGTCATTTGAATA-AGATTGGGCCTAG
1 -TGGGCCATATGAATAGA-ATTGGGCCTAG
106911858 TGGGCCATATG
1 TGGGCCATATG
106911869 CATGTATGCA
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
27 1 0.02
28 19 0.34
29 36 0.64
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (28 bp):
TGGGCCATATGAATAGAATTGGGCCTAG
Found at i:106915088 original size:2 final size:2
Alignment explanation
Indices: 106915081--106915111 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
106915071 TTTTTCCTTT
106915081 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
106915112 TCAATGGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:106929896 original size:19 final size:19
Alignment explanation
Indices: 106929872--106929911 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
106929862 TTGAAAAAAC
106929872 TCCATTCTTCTTACTTCAT
1 TCCATTCTTCTTACTTCAT
106929891 TCCATTCTTCTTACTTCAT
1 TCCATTCTTCTTACTTCAT
106929910 TC
1 TC
106929912 TTAGGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.53
Consensus pattern (19 bp):
TCCATTCTTCTTACTTCAT
Found at i:106932454 original size:16 final size:16
Alignment explanation
Indices: 106932412--106932457 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
106932402 TTTAAAATTT
*
106932412 TGTAATGTTTTATATTA
1 TGTAAT-TTATATATTA
106932429 TGCTATATTTATATATTA
1 TG-TA-ATTTATATATTA
106932447 TGTAATTTATA
1 TGTAATTTATA
106932458 ACACATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 7 0.27
17 4 0.15
18 13 0.50
19 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.57
Consensus pattern (16 bp):
TGTAATTTATATATTA
Found at i:106933463 original size:18 final size:15
Alignment explanation
Indices: 106933442--106933489 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 15
106933432 AAATTAATTC
106933442 TTTTTTTCTTTTACATTA
1 TTTTTTTCTTTT---TTA
*
106933460 TTTTTCTCTTTTTTA
1 TTTTTTTCTTTTTTA
106933475 TTTTTTCTCTTTTTT
1 TTTTTT-TCTTTTTT
106933490 CTTTCTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 8 0.30
16 8 0.30
18 11 0.41
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTTCTTTTTTA
Found at i:106933498 original size:16 final size:16
Alignment explanation
Indices: 106933457--106933498 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
106933447 TTCTTTTACA
106933457 TTATTT-TTCTCTTTT
1 TTATTTCTTCTCTTTT
*
106933472 TTATTTTTTCTCTTTT
1 TTATTTCTTCTCTTTT
*
106933488 TTCTTTCTTCT
1 TTATTTCTTCT
106933499 TCATTTAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTCTTCTCTTTT
Found at i:106934687 original size:20 final size:18
Alignment explanation
Indices: 106934642--106934696 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
106934632 TTAGAAATGA
106934642 TTAATATATATATAAAAC
1 TTAATATATATATAAAAC
* *
106934660 ATACTATATGATATAATAAC
1 TTAATATAT-ATATAA-AAC
*
106934680 TTAATATATTTATAAAA
1 TTAATATATATATAAAA
106934697 ATAATAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 11 0.37
20 10 0.33
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (18 bp):
TTAATATATATATAAAAC
Done.