Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 56 of 444
Found at i:13599685 original size:2 final size:2
Alignment explanation
Indices: 13599678--13599716 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13599668 AGATAAATGT
13599678 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13599717 GCTGGTATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13602379 original size:3 final size:3
Alignment explanation
Indices: 13602366--13602417 Score: 95
Period size: 3 Copynumber: 17.0 Consensus size: 3
13602356 CGATAATTAT
13602366 CAA CGAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA C-AA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
13602412 CAA CAA
1 CAA CAA
13602418 TAATAATAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.33, G:0.02, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:13602422 original size:3 final size:3
Alignment explanation
Indices: 13602416--13602747 Score: 143
Period size: 3 Copynumber: 112.0 Consensus size: 3
13602406 CAACAACAAC
** *
13602416 AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT GTT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * *
13602462 AAT AA- AA- AAT AGAA AAT AAT AAT -AT ACT AAT AAG AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** * * * *
13602505 AGGTT AAT AAT AAT GGT AA- AA- AAT AAT AGT AGT AGT AAT AGT AAT
1 A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
13602550 AA- AAC AAT AGT TAT AAT AAT ACT AGT AGT AAC AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
13602597 AAT AAT AAT -AT ATT GAT GAT AAAT AAT AAA AAG AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
13602642 AGT AAT AAT AAG GAC ATT AGT AAT AGT AAT AAT -AT AAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
** * *
13602687 -AT ATAT GTCT AA- AA- AAT AAT AGT AA- AAA AAT AAT AAT AGA- AGA-
1 AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT
13602730 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
13602748 GTAATAAAAC
Statistics
Matches: 250, Mismatches: 60, Indels: 38
0.72 0.17 0.11
Matches are distributed among these distances:
2 25 0.10
3 211 0.84
4 12 0.05
5 2 0.01
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:13602513 original size:14 final size:14
Alignment explanation
Indices: 13602496--13602533 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
13602486 TACTAATAAG
*
13602496 AATAATAATAGGTT
1 AATAATAATAGGTA
13602510 AATAATAAT-GGTA
1 AATAATAATAGGTA
*
13602523 AAAAATAATAG
1 AATAATAATAG
13602534 TAGTAGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (14 bp):
AATAATAATAGGTA
Found at i:13602716 original size:14 final size:15
Alignment explanation
Indices: 13602697--13602739 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
13602687 ATATATGTCT
*
13602697 AAAAAATAATAGTA-
1 AAAAAATAATAATAG
13602711 AAAAAATAATAATAG
1 AAAAAATAATAATAG
*
13602726 AAGAAATAATAATA
1 AAAAAATAATAATA
13602740 ATAATAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (15 bp):
AAAAAATAATAATAG
Found at i:13605503 original size:93 final size:93
Alignment explanation
Indices: 13605391--13605562 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13605381 GCCCATAAGT
* *
13605391 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13605456 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
13605484 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13605549 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
13605563 CAAATATCCA
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):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13605558 original size:46 final size:46
Alignment explanation
Indices: 13605383--13605558 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
13605373 TGTAACCCGC
* * *
13605383 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
13605429 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
13605479 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
13605522 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13605559 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 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 64 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:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:13607890 original size:30 final size:30
Alignment explanation
Indices: 13607846--13607934 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
13607836 CAAAGATAAC
13607846 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
13607875 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
13607905 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
13607935 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:13607894 original size:15 final size:15
Alignment explanation
Indices: 13607846--13607925 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
13607836 CAAAGATAAC
*
13607846 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
13607860 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
13607875 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
13607890 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
13607905 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
13607920 AAGAAA
1 AAGAAA
13607926 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:13607934 original size:15 final size:15
Alignment explanation
Indices: 13607857--13607934 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
13607847 AGAAAACCGA
13607857 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
13607872 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
13607886 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
13607901 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
13607917 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
13607932 ATA
1 ATA
13607935 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:13610908 original size:46 final size:46
Alignment explanation
Indices: 13610841--13611013 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
13610831 TGTAACCCGC
*
13610841 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
13610887 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
13610937 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
13610980 CCATAAGTGAACTCGGACTCAA-TCAACGA-TTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
13611014 ATGCCCAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 7 0.06
45 9 0.08
46 49 0.45
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:13613439 original size:30 final size:30
Alignment explanation
Indices: 13613395--13613483 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
13613385 CAAAGATAAC
13613395 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
13613424 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
13613454 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
13613484 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:13613443 original size:15 final size:15
Alignment explanation
Indices: 13613395--13613474 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
13613385 CAAAGATAAC
*
13613395 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
13613409 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
13613424 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
13613439 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
13613454 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
13613469 AAGAAA
1 AAGAAA
13613475 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:13613483 original size:15 final size:15
Alignment explanation
Indices: 13613406--13613483 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
13613396 AGAAAACCGA
13613406 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
13613421 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
13613435 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
13613450 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
13613466 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
13613481 ATA
1 ATA
13613484 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:13616535 original size:93 final size:93
Alignment explanation
Indices: 13616423--13616594 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13616413 GCCCATAAGT
* *
13616423 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13616488 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
13616516 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13616581 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
13616595 CAAATATCCA
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13616590 original size:46 final size:46
Alignment explanation
Indices: 13616415--13616590 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
13616405 TGTAACCCGC
* * *
13616415 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
13616461 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
13616511 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
13616554 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13616591 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:13618142 original size:304 final size:306
Alignment explanation
Indices: 13617571--13618180 Score: 1206
Period size: 304 Copynumber: 2.0 Consensus size: 306
13617561 TAAACTTTCC
13617571 AAAAATTCCATCCATGTCCAATTTTTGTCCATAGACTTAGAAATTGGTAAAATTACTCTTTAAGG
1 AAAAATTCCATCCATGTCCAATTTTTGTCCATAGACTTAGAAATTGGTAAAATTACTCTTTAAGG
13617636 ACCTCTAATTAATAATCTAATTCAATTTTATGCAAAATACTTCTAGAACACAAGTTTTGCAATTT
66 ACCTCTAATTAATAATCTAATTCAATTTTATGCAAAATACTTCTAGAACACAAGTTTTGCAATTT
13617701 ATTCAATTTAGTCCCAAATTTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCA
131 ATTCAATTTAGTCCCAAATTTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCA
13617766 CACAATCATGCAATCATATCATAGACCTTAAAATAATCATAAAATAATTATTTATATCTCGGATT
196 CACAATCATGCAATCATATCATAGACCTTAAAATAATCATAAAATAATTATTTATATCTCGGATT
13617831 TTGTGGTCACGAAACCACTATTCCGACTAGGCCCAAAATCAGGATA
261 TTGTGGTCACGAAACCACTATTCCGACTAGGCCCAAAATCAGGATA
13617877 AAAAATT-CATCCATGTCCAA-TTTTGTCCATAGACTTAGAAATTGGTAAAATTACTCTTTAAGG
1 AAAAATTCCATCCATGTCCAATTTTTGTCCATAGACTTAGAAATTGGTAAAATTACTCTTTAAGG
13617940 ACCTCTAATTAATAATCTAATTCAATTTTATGCAAAATACTTCTAGAACACAAGTTTTGCAATTT
66 ACCTCTAATTAATAATCTAATTCAATTTTATGCAAAATACTTCTAGAACACAAGTTTTGCAATTT
13618005 ATTCAATTTAGTCCCAAATTTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCA
131 ATTCAATTTAGTCCCAAATTTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCA
13618070 CACAATCATGCAATCATATCATAGACCTTAAAATAATCATAAAATAATTATTTATATCTCGGATT
196 CACAATCATGCAATCATATCATAGACCTTAAAATAATCATAAAATAATTATTTATATCTCGGATT
13618135 TTGTGGTCACGAAACCACTATTCCGACTAGGCCCAAAATCAGGATA
261 TTGTGGTCACGAAACCACTATTCCGACTAGGCCCAAAATCAGGATA
13618181 TTACAACTCT
Statistics
Matches: 304, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
304 284 0.93
305 13 0.04
306 7 0.02
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.34
Consensus pattern (306 bp):
AAAAATTCCATCCATGTCCAATTTTTGTCCATAGACTTAGAAATTGGTAAAATTACTCTTTAAGG
ACCTCTAATTAATAATCTAATTCAATTTTATGCAAAATACTTCTAGAACACAAGTTTTGCAATTT
ATTCAATTTAGTCCCAAATTTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCA
CACAATCATGCAATCATATCATAGACCTTAAAATAATCATAAAATAATTATTTATATCTCGGATT
TTGTGGTCACGAAACCACTATTCCGACTAGGCCCAAAATCAGGATA
Found at i:13619235 original size:30 final size:30
Alignment explanation
Indices: 13619191--13619279 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
13619181 CAAAGATAAC
13619191 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
13619220 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
13619250 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
13619280 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:13619239 original size:15 final size:15
Alignment explanation
Indices: 13619191--13619270 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
13619181 CAAAGATAAC
*
13619191 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
13619205 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
13619220 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
13619235 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
13619250 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
13619265 AAGAAA
1 AAGAAA
13619271 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:13619279 original size:15 final size:15
Alignment explanation
Indices: 13619202--13619279 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
13619192 AGAAAACCGA
13619202 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
13619217 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
13619231 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
13619246 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
13619262 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
13619277 ATA
1 ATA
13619280 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:13622337 original size:93 final size:93
Alignment explanation
Indices: 13622225--13622396 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13622215 GCCCATAAGT
* *
13622225 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13622290 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
13622318 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13622383 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
13622397 CAAATATCCA
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):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13622392 original size:46 final size:46
Alignment explanation
Indices: 13622217--13622392 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
13622207 TGTAACCCGC
* * *
13622217 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
13622263 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
13622313 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
13622356 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13622393 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 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 64 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:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:13624912 original size:3 final size:3
Alignment explanation
Indices: 13624904--13624944 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
13624894 AACCTAAACC
13624904 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
13624945 TCATCATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13627456 original size:2 final size:2
Alignment explanation
Indices: 13627449--13627487 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13627439 GATGGGAGTC
13627449 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13627488 GGATTATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13627684 original size:20 final size:18
Alignment explanation
Indices: 13627644--13627680 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13627634 AAGAAAAATT
13627644 ATTTTTTTTTGTATATTA
1 ATTTTTTTTTGTATATTA
13627662 ATTTTTTTTT-TCATATTA
1 ATTTTTTTTTGT-ATATTA
13627680 A
1 A
13627681 AATTCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (18 bp):
ATTTTTTTTTGTATATTA
Found at i:13629515 original size:26 final size:26
Alignment explanation
Indices: 13629486--13629539 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
13629476 ATTATTATTT
13629486 TATAATGTGATTAAAATATGATGATG
1 TATAATGTGATTAAAATATGATGATG
13629512 TATAATGTGATTAAAATATGATGATG
1 TATAATGTGATTAAAATATGATGATG
13629538 TA
1 TA
13629540 ATATTGACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.39
Consensus pattern (26 bp):
TATAATGTGATTAAAATATGATGATG
Found at i:13631093 original size:13 final size:14
Alignment explanation
Indices: 13631075--13631104 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
13631065 TAGAACCCAG
13631075 AACTTTGAA-CTTA
1 AACTTTGAACCTTA
13631088 AACTTTGAACCTTA
1 AACTTTGAACCTTA
13631102 AAC
1 AAC
13631105 CCTGAATCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (14 bp):
AACTTTGAACCTTA
Found at i:13631169 original size:6 final size:6
Alignment explanation
Indices: 13631158--13631191 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
13631148 CAGGGTTCGA
*
13631158 GTTTGG GTTTGG ATTTGG GTTTGG GTTTTGG GTT
1 GTTTGG GTTTGG GTTTGG GTTTGG G-TTTGG GTT
13631192 CAGGGTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.03, C:0.00, G:0.44, T:0.53
Consensus pattern (6 bp):
GTTTGG
Found at i:13631174 original size:12 final size:13
Alignment explanation
Indices: 13631159--13631191 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13631149 AGGGTTCGAG
13631159 TTTGGGTTT-GGA
1 TTTGGGTTTGGGA
*
13631171 TTTGGGTTTGGGT
1 TTTGGGTTTGGGA
13631184 TTTGGGTT
1 TTTGGGTT
13631192 CAGGGTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.03, C:0.00, G:0.42, T:0.55
Consensus pattern (13 bp):
TTTGGGTTTGGGA
Found at i:13631260 original size:13 final size:14
Alignment explanation
Indices: 13631235--13631271 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
13631225 TATGGGTTTG
13631235 AGGTTCAAGGTTCA
1 AGGTTCAAGGTTCA
13631249 AGGTTC-AGGTTCA
1 AGGTTCAAGGTTCA
*
13631262 AGGGTCAAGG
1 AGGTTCAAGG
13631272 GTTTGGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (14 bp):
AGGTTCAAGGTTCA
Found at i:13631273 original size:7 final size:7
Alignment explanation
Indices: 13631235--13631271 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
13631225 TATGGGTTTG
13631235 AGGTTCA
1 AGGTTCA
13631242 AGGTTCA
1 AGGTTCA
13631249 AGGTTC-
1 AGGTTCA
13631255 AGGTTCA
1 AGGTTCA
*
13631262 AGGGTCA
1 AGGTTCA
13631269 AGG
1 AGG
13631272 GTTTGGGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (7 bp):
AGGTTCA
Found at i:13632327 original size:12 final size:12
Alignment explanation
Indices: 13632310--13632339 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13632300 GAACGATATT
*
13632310 AATATATTCCTA
1 AATATATGCCTA
13632322 AATATATGCCTA
1 AATATATGCCTA
13632334 AATATA
1 AATATA
13632340 CATATGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (12 bp):
AATATATGCCTA
Found at i:13635441 original size:26 final size:26
Alignment explanation
Indices: 13635395--13635447 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
13635385 TCAAACATGC
*
13635395 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
13635421 ATTTTGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
13635447 A
1 A
13635448 AAACTGTAAA
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:0.25, C:0.13, G:0.21, T:0.42
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:13636964 original size:26 final size:26
Alignment explanation
Indices: 13636933--13637040 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
13636923 TGAAATTCCC
*
13636933 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
13636959 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13636985 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
13637011 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
13637037 ATCA
1 ATCA
13637041 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13641429 original size:118 final size:121
Alignment explanation
Indices: 13641260--13641504 Score: 379
Period size: 118 Copynumber: 2.0 Consensus size: 121
13641250 TTTGTGTAGG
*
13641260 CACTGTGTTCGTCGGCACCAATATGTATTTTTTTTCAAATACACTTTAAAAATACTAGTATTTTA
1 CACTGTGTTCGTCAGCACCAATATGTATTTTTTTTCAAATACACTTTAAAAATACTAGTATTTTA
* * *
13641325 GGATTTTAAAT-AAAA-AAATAATATTTTAATAGGTGTCGACATTCACAATGTCGA
66 GGATTTTAAATAAAAAGAAAAAATATTTTAATAGATGTCGACATTCACAATGCCGA
* *
13641379 CACTGTGTTTGTCAGCACTAATATGTA-TTTTTTTCAAATACACTTTAAAAATACTAGTATTTTA
1 CACTGTGTTCGTCAGCACCAATATGTATTTTTTTTCAAATACACTTTAAAAATACTAGTATTTTA
* *
13641443 GGATTTTAAATAAAAAAGTAAAAAATATTTTAGTAGATGTCGGCATTCACAATGCCGA
66 GGATTTTAAAT-AAAAAG-AAAAAATATTTTAATAGATGTCGACATTCACAATGCCGA
13641501 CACT
1 CACT
13641505 AGTTCAAATT
Statistics
Matches: 114, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
118 48 0.42
119 24 0.21
120 4 0.04
122 38 0.33
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (121 bp):
CACTGTGTTCGTCAGCACCAATATGTATTTTTTTTCAAATACACTTTAAAAATACTAGTATTTTA
GGATTTTAAATAAAAAGAAAAAATATTTTAATAGATGTCGACATTCACAATGCCGA
Found at i:13642936 original size:17 final size:19
Alignment explanation
Indices: 13642898--13642944 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
13642888 AAATATATTT
13642898 ATATATTAATAAAGATACA
1 ATATATTAATAAAGATACA
*
13642917 ATATATTAA-AAATATA-A
1 ATATATTAATAAAGATACA
13642934 ATATAATTAAT
1 ATAT-ATTAAT
13642945 TATATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 5 0.20
18 11 0.44
19 9 0.36
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATATATTAATAAAGATACA
Found at i:13643701 original size:21 final size:22
Alignment explanation
Indices: 13643655--13643703 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
13643645 GATTGTTCAA
*
13643655 AAAAAT-TTTAATAAAAAAATC
1 AAAAATATTAAATAAAAAAATC
* *
13643676 TAAAATATTAAATATAAAAAT-
1 AAAAATATTAAATAAAAAAATC
13643697 AAAAATA
1 AAAAATA
13643704 ATATATTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAATATTAAATAAAAAAATC
Found at i:13646799 original size:62 final size:64
Alignment explanation
Indices: 13646688--13646810 Score: 178
Period size: 62 Copynumber: 2.0 Consensus size: 64
13646678 CATCAATATT
* *
13646688 TTTAAATTTTTTTCACATATATATTTAAGTCTAATTTTTAGTTTATTAATCAATTATATATACA
1 TTTAAATATTTTTCACATATATATTTAAGTCTAATTTTTAGTTTATTAATAAATTATATATACA
* * * *
13646752 TTTAAATATTTTT-ACTTGTATATTTAA-TTTAATTTTTAGTTTCTTAATAAATTATATAT
1 TTTAAATATTTTTCACATATATATTTAAGTCTAATTTTTAGTTTATTAATAAATTATATAT
13646811 TTTTTAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 29 0.55
63 12 0.23
64 12 0.23
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (64 bp):
TTTAAATATTTTTCACATATATATTTAAGTCTAATTTTTAGTTTATTAATAAATTATATATACA
Found at i:13646836 original size:62 final size:63
Alignment explanation
Indices: 13646705--13646836 Score: 153
Period size: 62 Copynumber: 2.1 Consensus size: 63
13646695 TTTTTTCACA
* * *
13646705 TATATATTTAAGTCTAATTTTTAGTTTATTAATCAATTATATATACATTTAAATATTTTTACT
1 TATATATTTAAGTCTAATTTTTAGTTTATTAATAAATTATATATACATTTAAAAATTTATACT
* * * **
13646768 TGTATATTTAA-TTTAATTTTTAGTTTCTTAATAAATTATATAT-TTTTTAAAAAATTATATA-T
1 TATATATTTAAGTCTAATTTTTAGTTTATTAATAAATTATATATACATTT-AAAAATT-TATACT
13646830 TATATAT
1 TATATAT
13646837 ACATGCAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
61 3 0.05
62 42 0.72
63 13 0.22
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55
Consensus pattern (63 bp):
TATATATTTAAGTCTAATTTTTAGTTTATTAATAAATTATATATACATTTAAAAATTTATACT
Found at i:13649093 original size:2 final size:2
Alignment explanation
Indices: 13649086--13649129 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
13649076 ATAATAATAC
* *
13649086 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13649128 TA
1 TA
13649130 ATAGAAATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13649514 original size:3 final size:3
Alignment explanation
Indices: 13649501--13649591 Score: 75
Period size: 3 Copynumber: 30.3 Consensus size: 3
13649491 GAGGGTATAT
13649501 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* * *
13649545 ATA ATA ATA ATA GTA ATA ATA GTA ATA ATA ATA A-A A-A ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13649591 A
1 A
13649592 AACAAAGCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
2 9 0.12
3 55 0.75
4 7 0.10
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:13649545 original size:21 final size:18
Alignment explanation
Indices: 13649506--13649574 Score: 84
Period size: 18 Copynumber: 3.7 Consensus size: 18
13649496 TATATATAAT
*
13649506 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
13649524 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
13649545 ATAATAATAATAGTAATA
1 ATAATAATAATAGAAATA
*
13649563 ATAGTAATAATA
1 ATAATAATAATA
13649575 ATAAAAAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
18 23 0.51
19 5 0.11
20 5 0.11
21 12 0.27
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:13650119 original size:30 final size:30
Alignment explanation
Indices: 13650085--13650170 Score: 145
Period size: 30 Copynumber: 2.9 Consensus size: 30
13650075 ATTTGATGGT
*
13650085 GTAGGTGCAAGTAGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
*
13650115 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
*
13650145 GTAGGTGCAAGTGGGAGTCAAGGTGG
1 GTAGGTGCAAGTGGGAGACAAGGTGG
13650171 CTAGGGTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.26, C:0.07, G:0.50, T:0.17
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
Found at i:13650168 original size:18 final size:18
Alignment explanation
Indices: 13650117--13650169 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
13650107 GTGGTGGAGT
*
13650117 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGTCA
13650135 AGGTG---GT-GGAGT--
1 AGGTGCAAGTGGGAGTCA
13650147 AGGTGCAAGTGGGAGTCA
1 AGGTGCAAGTGGGAGTCA
13650165 AGGTG
1 AGGTG
13650170 GCTAGGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 12
0.68 0.02 0.29
Matches are distributed among these distances:
12 5 0.18
14 4 0.14
15 4 0.14
16 5 0.18
18 10 0.36
ACGTcount: A:0.25, C:0.08, G:0.51, T:0.17
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGTCA
Found at i:13650794 original size:43 final size:43
Alignment explanation
Indices: 13650732--13651461 Score: 351
Period size: 43 Copynumber: 16.9 Consensus size: 43
13650722 CGTCTTCGAT
* *
13650732 CTGTTTCCCTACTGCTTAGGGTGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
* * * * *
13650775 CTGTTACCCTACTGTTTA-GGGGTTAAG-GCTTGTCACA-TTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATC-TGT-AAATTTAG-C
* * *
13650818 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
* ** ** * * *
13650861 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCAT-CATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAAT-TTAG-C
* *
13650905 CTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
* * ** **** * *
13650948 CTGCTACCCTACTGCTTAGGGGGTTAAG-GCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG-C
* * * * * *
13650991 CTGCT-CCACTACTGCTCAGGGAGTTAAGATCTGCAAATTCAAC
1 CTGTTACC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
* ** ** * * *
13651034 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCAT-CATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAAT-TTAG-C
* *
13651078 CTGTTTCCCTACTGCTTA-GGGGTTAATATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
* * ** *** * *
13651120 CTGCTACCCTACTGCTTAGGGGGTTAAG-GCCATCGCTTTCGGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTT-AGC
* * *
13651163 CTGCT-CCACTACTGCTTAAGGGGATAAGATCTGTAAATTTAGC
1 CTGTTACC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
* * ** * *
13651206 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-T-CGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTGTAAAT-TTAG-C
* * * * * * *
13651250 CTGCT-CCACTACTACTTAGGGAGATAAGATCTG-CAATTTGGT
1 CTGTTACC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
* * * ** * *
13651292 ATGTTACCCTACTGCTTAGGGGTTTAAGACCCT-T-CGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTGTAAAT-TTAG-C
* * * *
13651336 CTGTTTCTCTACTGCTTAGGGGGTTAAGATCTGGAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
* ** ** * *
13651379 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCGCA-TTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTTAG-C
*
13651423 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATT
13651462 CAGTCTGCTC
Statistics
Matches: 487, Mismatches: 163, Indels: 73
0.67 0.23 0.10
Matches are distributed among these distances:
41 1 0.00
42 71 0.15
43 254 0.52
44 157 0.32
45 4 0.01
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
Found at i:13650991 original size:173 final size:173
Alignment explanation
Indices: 13650692--13651470 Score: 1057
Period size: 173 Copynumber: 4.5 Consensus size: 173
13650682 TTCAGCTTGG
* *
13650692 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* * ** * *
13650757 AAGATCTGTAAATTTAGCCTGTTACCCTACTGTTTA-GGGGTTAAGGCTTGTCACATTCGATCTG
66 AAGATCTGTAAATTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAGGC-CATCGCCTTCGATCTG
*
13650821 TTTCC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
130 -CTCCACTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
*
13650865 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTACTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
13650930 AAGATCTGTAAATTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAGGCCATCGCCTTCGATCTGC
66 AAGATCTGTAAATTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAGGCCATCGCCTTCGATCTGC
* * *
13650995 TCCACTACTGCTCAGGGAGTTAAGATCTGCAAATTCAACCTGT
131 TCCACTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
13651038 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTA-GGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* * *
13651102 AATATCTGTAAATTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAGGCCATCGCTTTCGGTCTGC
66 AAGATCTGTAAATTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAGGCCATCGCCTTCGATCTGC
* * * *
13651167 TCCACTACTGCTTAAGGGGATAAGATCTGTAAATTTAGCCTGT
131 TCCACTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
* * * * * * *
13651210 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTG-CTCCACTACTACTTAGGGAGA
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCC-CTACTGCTTAGGGGGT
* * ** * * * * *
13651274 TAAGATCTG-CAATTTGGTATGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCT
65 TAAGATCTGTAAATTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAG-GCCATCGCCTTCGATCT
* * * * *
13651338 GTTTCTCTACTGCTTAGGGGGTTAAGATCTGGAAATTCAGCCTGT
129 GCTCCACTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
* * *
13651383 TACCCTACTGCTTAGGGGGTTAAGGTCCATC-GCATTCGATCTGTTTCCCTACTGCTTAGGGGGT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATC-TTCGATCTGTTTCCCTACTGCTTAGGGGGT
* *
13651447 TAAGATCTGTAAATTCAGTCTGCT
65 TAAGATCTGTAAATTTAGCCTGCT
13651471 CCAATGCAAC
Statistics
Matches: 534, Mismatches: 64, Indels: 15
0.87 0.10 0.02
Matches are distributed among these distances:
171 3 0.01
172 188 0.35
173 320 0.60
174 23 0.04
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (173 bp):
TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
AAGATCTGTAAATTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAGGCCATCGCCTTCGATCTGC
TCCACTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
Found at i:13651268 original size:44 final size:43
Alignment explanation
Indices: 13651206--13651451 Score: 157
Period size: 44 Copynumber: 5.7 Consensus size: 43
13651196 TAAATTTAGC
13651206 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTT-CCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGAT
* * * * * * *
13651250 CTGCTCCACTACTACTTAGGGAG-ATAAGA-TCTGCAAT-TT-GGT
1 CTGTTCC-CTACTGCTTAGGG-GTTTAAGACCCTTC-GTCTTCGAT
*
13651292 ATGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTT-CCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGAT
* * * * ** *
13651336 CTGTTTCTCTACTGCTTAGGGGGTTAAGA-TC-TGGAAATTC-AGC
1 CTG-TTCCCTACTGCTTAGGGGTTTAAGACCCTTCG-TCTTCGA-T
* ** *
13651379 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCG-CATTCGAT
1 CTGTT-CCCTACTGCTTAGGGGTTTAAGACCCTTCGTC-TTCGAT
*
13651423 CTGTTTCCCTACTGCTTAGGGGGTTAAGA
1 CTG-TTCCCTACTGCTTAGGGGTTTAAGA
13651452 TCTGTAAATT
Statistics
Matches: 155, Mismatches: 30, Indels: 34
0.71 0.14 0.16
Matches are distributed among these distances:
41 1 0.01
42 28 0.18
43 42 0.27
44 76 0.49
45 8 0.05
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (43 bp):
CTGTTCCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGAT
Found at i:13651462 original size:87 final size:86
Alignment explanation
Indices: 13650682--13651464 Score: 979
Period size: 86 Copynumber: 9.1 Consensus size: 86
13650672 AGTTGTAATT
* *
13650682 TTCAGCTTGGTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCG-CTTCGATCTGTTTCCCTACTGC
*
13650747 TTAGGGTGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * *** *
13650769 TTTAGCCTGTTACCCTACTGTTTAGGGG-TTAAGGCTTGTCACATTCGATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGC-TTCGATCTGTTTCCCTACTGC
13650833 TTAGGGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * *
13650855 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTAC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATC-GCTTCGATCTGTTTCCCTACTGC
13650920 TTAGGGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * * *
13650942 TTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAGG-CCATCGCCTTCGATCTG-CTCCACTACTG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCG-CTTCGATCTGTTTCC-CTACTG
* * *
13651005 CTCAGGGAGTTAAGATCTGCAAA
64 CTTAGGGGGTTAAGATCTGTAAA
* *
13651028 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATC-GCTTCGATCTGTTTCCCTACTGC
*
13651093 TTA-GGGGTTAATATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * * * *
13651114 TTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAGG-CCATCGCTTTCGGTCTG-CTCCACTACTG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGC-TTCGATCTGTTTCC-CTACTG
* *
13651177 CTTAAGGGGATAAGATCTGTAAA
64 CTTAGGGGGTTAAGATCTGTAAA
* * * * *
13651200 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTG-CTCCACTACTA
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCG-CTTCGATCTGTTTCC-CTACTG
* * *
13651264 CTTAGGGAGATAAGATCTG-CAA
64 CTTAGGGGGTTAAGATCTGTAAA
** ** * * *
13651286 TTTGGTATGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCTCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCG-CTTCGATCTGTTTCCCTACTGC
*
13651351 TTAGGGGGTTAAGATCTGGAAA
65 TTAGGGGGTTAAGATCTGTAAA
* *
13651373 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCGCATTCGATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGC-TTCGATCTGTTTCCCTACTGC
13651438 TTAGGGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
13651460 TTCAG
1 TTCAG
13651465 TCTGCTCCAA
Statistics
Matches: 606, Mismatches: 74, Indels: 32
0.85 0.10 0.04
Matches are distributed among these distances:
84 4 0.01
85 27 0.04
86 316 0.52
87 254 0.42
88 5 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.34
Consensus pattern (86 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCTTCGATCTGTTTCCCTACTGCT
TAGGGGGTTAAGATCTGTAAA
Found at i:13657223 original size:19 final size:19
Alignment explanation
Indices: 13657199--13657242 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
13657189 AGAGATATCG
13657199 TTAGCAACATAAGTTTTAT
1 TTAGCAACATAAGTTTTAT
13657218 TTAGCAACATAAGTTTTAT
1 TTAGCAACATAAGTTTTAT
13657237 TTAGCA
1 TTAGCA
13657243 CCTTCATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (19 bp):
TTAGCAACATAAGTTTTAT
Found at i:13659646 original size:9 final size:10
Alignment explanation
Indices: 13659633--13659678 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
13659623 GGAAAAGCCT
13659633 AATGCAAAT-
1 AATGCAAATG
13659642 AATGC-AATG
1 AATGCAAATG
13659651 CAATGCAAATG
1 -AATGCAAATG
*
13659662 CATG-AAATG
1 AATGCAAATG
13659671 AATGCAAA
1 AATGCAAA
13659679 AGAAAGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 11 0.35
11 4 0.13
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (10 bp):
AATGCAAATG
Found at i:13659657 original size:19 final size:19
Alignment explanation
Indices: 13659633--13659678 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
13659623 GGAAAAGCCT
*
13659633 AATGCAAAT-AATGCAATG
1 AATGCAAATGAATGAAATG
*
13659651 CAATGCAAATGCATGAAATG
1 -AATGCAAATGAATGAAATG
13659671 AATGCAAA
1 AATGCAAA
13659679 AGAAAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (19 bp):
AATGCAAATGAATGAAATG
Found at i:13661755 original size:3 final size:3
Alignment explanation
Indices: 13661741--13661916 Score: 133
Period size: 3 Copynumber: 56.7 Consensus size: 3
13661731 AAATATACAC
13661741 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
13661787 TAA TAA TAA TAA TAA T-A TGAG TAA TAT TAA TAA TATA TTA GAA TACA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TA-A
* * * * *** *
13661834 AAA GTAA -AG TAA TAA CAA TAG GGG TGA TAA TAA TAA TAA TAA TAA
1 TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
13661879 TAA TAA TACA -AA CAA TAA TACA TATA TATA TAA TAA TA
1 TAA TAA TA-A TAA TAA TAA TA-A TA-A TA-A TAA TAA TA
13661917 TTAGTCAGAA
Statistics
Matches: 141, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
2 4 0.03
3 116 0.82
4 21 0.15
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:13662004 original size:3 final size:3
Alignment explanation
Indices: 13661991--13662071 Score: 62
Period size: 3 Copynumber: 26.3 Consensus size: 3
13661981 GAGGGTATAT
13661991 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
13662035 ATA ATA ATA AT- ATAA ATA ATA GTA ATA ATA AAA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
13662072 AAAAAATAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
2 7 0.11
3 46 0.72
4 9 0.14
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:13662017 original size:18 final size:18
Alignment explanation
Indices: 13661987--13662071 Score: 100
Period size: 18 Copynumber: 4.6 Consensus size: 18
13661977 TGGAGAGGGT
13661987 ATATATAAT-ATAATAATA
1 ATATA-AATAATAATAATA
13662005 ATATAAATAATAATATATA
1 ATATAAATAATAATA-ATA
*
13662024 CATGAGAAATAATAATAATA
1 -AT-ATAAATAATAATAATA
*
13662044 ATATAAATAATAGTAATA
1 ATATAAATAATAATAATA
*
13662062 ATAAAAATAA
1 ATATAAATAA
13662072 AAAAAATAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
17 3 0.05
18 34 0.58
19 5 0.08
20 5 0.08
21 12 0.20
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (18 bp):
ATATAAATAATAATAATA
Found at i:13662620 original size:18 final size:18
Alignment explanation
Indices: 13662569--13662621 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
13662559 TTGATGGTGT
*
13662569 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGTA
13662587 AGGTG---GT-GGA-GT-
1 AGGTGCAAGTGGGAGGTA
13662599 AGGTGCAAGTGGGAGGTA
1 AGGTGCAAGTGGGAGGTA
13662617 AGGTG
1 AGGTG
13662622 GCTAGGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 12
0.68 0.02 0.29
Matches are distributed among these distances:
12 5 0.18
13 1 0.04
14 3 0.11
15 4 0.14
16 3 0.11
17 2 0.07
18 10 0.36
ACGTcount: A:0.25, C:0.06, G:0.53, T:0.17
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGGTA
Found at i:13663069 original size:38 final size:38
Alignment explanation
Indices: 13663027--13663106 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
13663017 ATTTCGTATC
13663027 AAGTATGGAAATTTAGGATTGAATTATTAAGTGATACT
1 AAGTATGGAAATTTAGGATTGAATTATTAAGTGATACT
*
13663065 AAGTATGGAAATTTAGGATTGAATTATTTAGTGATACT
1 AAGTATGGAAATTTAGGATTGAATTATTAAGTGATACT
13663103 AAGT
1 AAGT
13663107 TAAAATGGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.38
Consensus pattern (38 bp):
AAGTATGGAAATTTAGGATTGAATTATTAAGTGATACT
Found at i:13664906 original size:20 final size:19
Alignment explanation
Indices: 13664870--13664908 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
13664860 CTTTAGGATT
*
13664870 TATTTTTTTTTCCTTCTTC
1 TATTTTTTATTCCTTCTTC
13664889 TATTTTTTATT-CTT-TTC
1 TATTTTTTATTCCTTCTTC
13664906 TAT
1 TAT
13664909 CCTTCTCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 10 0.53
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (19 bp):
TATTTTTTATTCCTTCTTC
Found at i:13666250 original size:20 final size:20
Alignment explanation
Indices: 13666207--13666252 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
13666197 ACTGTTTTAT
*
13666207 TATGGG-CCAACTGTATTAA
1 TATGGGCCCAACTGTATCAA
* *
13666226 AATGGGCCCAACTGTGTCAA
1 TATGGGCCCAACTGTATCAA
13666246 TATGGGC
1 TATGGGC
13666253 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (20 bp):
TATGGGCCCAACTGTATCAA
Found at i:13668244 original size:26 final size:26
Alignment explanation
Indices: 13668213--13668266 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
13668203 TCCGTCCTTG
13668213 AATTTTATTTCTGCTAATAGGGATTA
1 AATTTTATTTCTGCTAATAGGGATTA
13668239 AATTTTATTTCTGCTAATAGGGATTA
1 AATTTTATTTCTGCTAATAGGGATTA
13668265 AA
1 AA
13668267 ATGTAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (26 bp):
AATTTTATTTCTGCTAATAGGGATTA
Found at i:13671080 original size:19 final size:19
Alignment explanation
Indices: 13671058--13671094 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13671048 TTAGATAGTA
13671058 AGTAATAAAAAATAATAAC
1 AGTAATAAAAAATAATAAC
*
13671077 AGTAATAAAAAATGATAA
1 AGTAATAAAAAATAATAA
13671095 TAGTGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.22
Consensus pattern (19 bp):
AGTAATAAAAAATAATAAC
Found at i:13671209 original size:3 final size:3
Alignment explanation
Indices: 13671201--13671475 Score: 95
Period size: 3 Copynumber: 91.0 Consensus size: 3
13671191 GTAAATATTG
* * *
13671201 ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA GTA ATA AAA AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * * * *
13671250 GAGCA ACAA ATA ATA ATA ATA CGTTA ATA AAA ATA ATA AGA AT- ATG
1 -A-TA A-TA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
13671296 TTA GTA ATA ATA A-A TTA ATGGA CTA ATA ATA A-A ATGA ATAA ATAA
1 ATA ATA ATA ATA ATA ATA AT--A ATA ATA ATA ATA AT-A AT-A AT-A
* * * ** * *
13671341 ATA A-A CATA AAA ATA A-A GT- ATA ATT ATA ATA GCA ATA TTA ACA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
13671384 A-A A-A AGA ATC ATA ATA ATA ATA ACA ATA ATG ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
13671430 ATA AT- ATA TTG ATA ATA AGTA ATA ATA AAA AGA ATA A-A A-A ATA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
13671473 ATA
1 ATA
13671476 GTGATAACAA
Statistics
Matches: 200, Mismatches: 54, Indels: 36
0.69 0.19 0.12
Matches are distributed among these distances:
2 18 0.09
3 157 0.79
4 18 0.09
5 7 0.04
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:13672639 original size:3 final size:3
Alignment explanation
Indices: 13672610--13672942 Score: 167
Period size: 3 Copynumber: 108.7 Consensus size: 3
13672600 TTACTTTTAA
* * * *
13672610 TAT TCT TAT TCT TAT TAT TTT TA- TAT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * **
13672657 TAT TAT TCTT TAT TGT CAT TGT TAT TAT TTT TAT TTT TAT TGC TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
13672703 TAT TTT TAT TAT TAA TAT TAC TAT TGT TA- TAT TCAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
* * * * *
13672748 TAC TGT TA- TAT TTT TAT TAA TAGGT TAT TAT TAT AAT TAT TAT TAACT
1 TAT TAT TAT TAT TAT TAT TAT TA--T TAT TAT TAT TAT TAT TAT T-A-T
* * * *
13672796 TAT T-T TAT TAC TAT TAT CAT ACAT ATAT TAT TAT T-T ATAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT
* * * * * * *
13672842 TAT TAT TAC TAT TAT TAAA TAT TCT TAT TAGC TAT TAT TTT TGT TCCT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TAT T-AT
* * *
13672890 T-T TAT TAT TGT CTAT TAT CAA TAT TAT TACT T-T TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
13672935 TAT TAT TA
1 TAT TAT TA
13672943 CTTGTCAGTA
Statistics
Matches: 243, Mismatches: 67, Indels: 40
0.69 0.19 0.11
Matches are distributed among these distances:
2 13 0.05
3 203 0.84
4 23 0.09
5 4 0.02
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:13676695 original size:25 final size:27
Alignment explanation
Indices: 13676658--13676711 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
13676648 TCAAACATGC
13676658 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
13676684 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
13676710 AT
1 AT
13676712 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:13676719 original size:26 final size:27
Alignment explanation
Indices: 13676675--13676750 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
13676665 TCAATTTAAC
* * *
13676675 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
13676701 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
13676729 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
13676751 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:13678230 original size:26 final size:26
Alignment explanation
Indices: 13678196--13678331 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
13678186 CATGATATTC
13678196 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
13678222 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
13678248 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
13678274 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
13678300 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
13678326 TTATCA
1 TTATCA
13678332 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:13678274 original size:52 final size:52
Alignment explanation
Indices: 13678196--13678331 Score: 263
Period size: 52 Copynumber: 2.6 Consensus size: 52
13678186 CATGATATTC
*
13678196 TTATCATGAAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
13678248 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
13678300 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
13678332 ATTTGTATCA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 83 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:13683356 original size:68 final size:66
Alignment explanation
Indices: 13683284--13683455 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
13683274 CATCATGTGT
* * * *
13683284 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
13683347 TGTAG
62 TGTAG
** * *
13683352 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
13683417 AG
65 AG
* * * *
13683419 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
13683456 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:13683389 original size:64 final size:64
Alignment explanation
Indices: 13683308--13683491 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
13683298 AGACATTATG
* * *
13683308 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
13683372 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
13683437 AA
63 AA
* * *
13683439 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
13683492 CGAACTCTAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:13686179 original size:33 final size:31
Alignment explanation
Indices: 13686141--13686230 Score: 81
Period size: 33 Copynumber: 2.7 Consensus size: 31
13686131 GTAGCAGTCA
*
13686141 CACCCTCCTCATCGCCTTCTACCCCTTCAACAT
1 CACCCTCC-CATCG-CTTCTACCCCATCAACAT
** * *
13686174 CACCCTTCCCAATAACTTGTACCCCATCTACAT
1 CACCC-TCCC-ATCGCTTCTACCCCATCAACAT
13686207 CACCCTCCCCATCAGCTTCTACCC
1 CACCCT-CCCATC-GCTTCTACCC
13686231 TTCCGATCAG
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
32 3 0.07
33 37 0.82
34 5 0.11
ACGTcount: A:0.21, C:0.50, G:0.03, T:0.26
Consensus pattern (31 bp):
CACCCTCCCATCGCTTCTACCCCATCAACAT
Found at i:13686273 original size:33 final size:33
Alignment explanation
Indices: 13686236--13686529 Score: 206
Period size: 33 Copynumber: 8.9 Consensus size: 33
13686226 TACCCTTCCG
*
13686236 ATCAGCTTGTACCCCTTCTATATCACCCTCCAC
1 ATCAGCTTGTACCCCTTCTACATCACCCTCCAC
* * *
13686269 ATCAGCTTCTACTCCTTCAACATCACCCTCC-C
1 ATCAGCTTGTACCCCTTCTACATCACCCTCCAC
* *
13686301 TGTCAGCTTGTACCTCTTCTACATCACCCT-CATC
1 -ATCAGCTTGTACCCCTTCTACATCACCCTCCA-C
** * * *
13686335 ATCAATTTCTACTCCTT-TAACATCACACT-CAC
1 ATCAGCTTGTACCCCTTCT-ACATCACCCTCCAC
*
13686367 TATCAACTTGTACCCCTTCTACATCACCCT-CATC
1 -ATCAGCTTGTACCCCTTCTACATCACCCTCCA-C
* * * *
13686401 ATCA-ATTCTACTCCTT-TAACATCACCCTCCCC
1 ATCAGCTTGTACCCCTTCT-ACATCACCCTCCAC
* * * *
13686433 ATCAACTTGTACCCCTTCAACATTACCCTCCCC
1 ATCAGCTTGTACCCCTTCTACATCACCCTCCAC
* * * * *
13686466 ATTAGCTTGTACCCCTACAACATCACTCTCCCC
1 ATCAGCTTGTACCCCTTCTACATCACCCTCCAC
* * * * * *
13686499 ATTAGTTTCTACTCCTTCAACATCACTCTCC
1 ATCAGCTTGTACCCCTTCTACATCACCCTCC
13686530 CTAGCAGTCA
Statistics
Matches: 212, Mismatches: 38, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
31 1 0.00
32 28 0.13
33 180 0.85
34 3 0.01
ACGTcount: A:0.23, C:0.41, G:0.04, T:0.32
Consensus pattern (33 bp):
ATCAGCTTGTACCCCTTCTACATCACCCTCCAC
Found at i:13686313 original size:66 final size:66
Alignment explanation
Indices: 13686227--13686497 Score: 303
Period size: 66 Copynumber: 4.1 Consensus size: 66
13686217 ATCAGCTTCT
* * * *
13686227 ACCCTTCCGATCAGCTTGTACCCCTTCTATATCACCCTCCA-CATCAGCTTCTACTCCTTCAACA
1 ACCCTCCCTATCAACTTGTACCCCTTCTACATCACCCT-CATCATCAGCTTCTACTCCTTCAACA
13686291 TC
65 TC
* * * ** *
13686293 ACCCTCCCTGTCAGCTTGTACCTCTTCTACATCACCCTCATCATCAATTTCTACTCCTTTAACAT
1 ACCCTCCCTATCAACTTGTACCCCTTCTACATCACCCTCATCATCAGCTTCTACTCCTTCAACAT
13686358 C
66 C
* * * *
13686359 ACACTCACTATCAACTTGTACCCCTTCTACATCACCCTCATCATCA-ATTCTACTCCTTTAACAT
1 ACCCTCCCTATCAACTTGTACCCCTTCTACATCACCCTCATCATCAGCTTCTACTCCTTCAACAT
13686423 C
66 C
* * * ** * * * *
13686424 ACCCTCCCCATCAACTTGTACCCCTTCAACATTACCCTCCCCATTAGCTTGTACCCCTACAACAT
1 ACCCTCCCTATCAACTTGTACCCCTTCTACATCACCCTCATCATCAGCTTCTACTCCTTCAACAT
13686489 C
66 C
*
13686490 ACTCTCCC
1 ACCCTCCC
13686498 CATTAGTTTC
Statistics
Matches: 175, Mismatches: 28, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
65 58 0.33
66 117 0.67
ACGTcount: A:0.23, C:0.42, G:0.04, T:0.31
Consensus pattern (66 bp):
ACCCTCCCTATCAACTTGTACCCCTTCTACATCACCCTCATCATCAGCTTCTACTCCTTCAACAT
C
Found at i:13686455 original size:98 final size:99
Alignment explanation
Indices: 13686227--13686530 Score: 229
Period size: 99 Copynumber: 3.1 Consensus size: 99
13686217 ATCAGCTTCT
* * * * * * * * * * *
13686227 ACCCTTCCGATCAGCTTGTACCCCTTCTATATCACCCTC-CACATCAGCTTCTACTCCTTCAACA
1 ACCCTCCCCATCAACTTCTACCCCTTCAACATCACACTCAC-CATCAACTTGTACCCCTACAACA
* * * *
13686291 TCACCCTC-CCTGTCAGCTTGTAC-CTCTTCTACATC
65 TCACCCTCACC-ATCAGATTCTACTC-CTTCAACATC
** * * * * * *
13686326 ACCCTCATCATCAATTTCTACTCCTTTAACATCACACTCACTATCAACTTGTACCCCTTCTACAT
1 ACCCTCCCCATCAACTTCTACCCCTTCAACATCACACTCACCATCAACTTGTACCCCTACAACAT
* *
13686391 CACCCTCATCATCA-ATTCTACTCCTTTAACATC
66 CACCCTCACCATCAGATTCTACTCCTTCAACATC
* * * * * *
13686424 ACCCTCCCCATCAACTTGTACCCCTTCAACATTACCCTCCCCATTAGCTTGTACCCCTACAACAT
1 ACCCTCCCCATCAACTTCTACCCCTTCAACATCACACTCACCATCAACTTGTACCCCTACAACAT
* * * *
13686489 CACTCTCCCCATTAGTTTCTACTCCTTCAACATC
66 CACCCTCACCATCAGATTCTACTCCTTCAACATC
*
13686523 ACTCTCCC
1 ACCCTCCC
13686531 TAGCAGTCAT
Statistics
Matches: 157, Mismatches: 44, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
98 74 0.47
99 81 0.52
100 2 0.01
ACGTcount: A:0.23, C:0.42, G:0.04, T:0.31
Consensus pattern (99 bp):
ACCCTCCCCATCAACTTCTACCCCTTCAACATCACACTCACCATCAACTTGTACCCCTACAACAT
CACCCTCACCATCAGATTCTACTCCTTCAACATC
Found at i:13686488 original size:131 final size:132
Alignment explanation
Indices: 13686236--13686491 Score: 318
Period size: 131 Copynumber: 1.9 Consensus size: 132
13686226 TACCCTTCCG
* * *
13686236 ATCAGCTTGTACCCCTTCTATATCACCCTCCACATCAGCTTCTACTCCTTCAACATCACCCTCCC
1 ATCAACTTGTACCCCTTCTACATCACCCTCCACATCAGATTCTACTCCTTCAACATCACCCTCCC
** * * * * * * **
13686301 TGTCAGCTTGTACCTCTTCTACATCACCCTCATCATCAATTTCTACTCCTTTAACATCACACTCA
66 CATCAACTTGTACCCCTTCAACATCACCCTCACCATCAACTTCTACCCCTACAACATCACACTCA
13686366 CT
131 CT
*
13686368 ATCAACTTGTACCCCTTCTACATCACCCT-CATCATCA-ATTCTACTCCTTTAACATCACCCTCC
1 ATCAACTTGTACCCCTTCTACATCACCCTCCA-CATCAGATTCTACTCCTTCAACATCACCCTCC
* * * * *
13686431 CCATCAACTTGTACCCCTTCAACATTACCCTCCCCATTAGCTTGTACCCCTACAACATCAC
65 CCATCAACTTGTACCCCTTCAACATCACCCTCACCATCAACTTCTACCCCTACAACATCAC
13686492 TCTCCCCATT
Statistics
Matches: 104, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
131 72 0.69
132 32 0.31
ACGTcount: A:0.24, C:0.41, G:0.04, T:0.31
Consensus pattern (132 bp):
ATCAACTTGTACCCCTTCTACATCACCCTCCACATCAGATTCTACTCCTTCAACATCACCCTCCC
CATCAACTTGTACCCCTTCAACATCACCCTCACCATCAACTTCTACCCCTACAACATCACACTCA
CT
Found at i:13687517 original size:31 final size:31
Alignment explanation
Indices: 13687457--13687525 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
13687447 TTATCATAAG
* *
13687457 AGTTTTAGGGATTCCATGATTTAAGAATTAT
1 AGTTTTAGAGATTCCATGATTTAAGAATTAC
* *
13687488 AGTTTTAGAGATTTCATGATTT-GGAAATTAC
1 AGTTTTAGAGATTCCATGATTTAAG-AATTAC
13687519 AGTTTTA
1 AGTTTTA
13687526 TGTTACAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 32 0.97
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (31 bp):
AGTTTTAGAGATTCCATGATTTAAGAATTAC
Found at i:13687928 original size:6 final size:6
Alignment explanation
Indices: 13687917--13687944 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
13687907 AAAATTTAAA
13687917 ATTTGG ATTTGG ATTTGG ATTTGG ATTT
1 ATTTGG ATTTGG ATTTGG ATTTGG ATTT
13687945 ATATTTAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.54
Consensus pattern (6 bp):
ATTTGG
Found at i:13687950 original size:18 final size:18
Alignment explanation
Indices: 13687917--13687956 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13687907 AAAATTTAAA
* *
13687917 ATTTGGATTTGGATTTGG
1 ATTTGGATTTAGATTTAG
*
13687935 ATTTGGATTTATATTTAG
1 ATTTGGATTTAGATTTAG
13687953 ATTT
1 ATTT
13687957 TAAAATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (18 bp):
ATTTGGATTTAGATTTAG
Found at i:13694565 original size:28 final size:28
Alignment explanation
Indices: 13694522--13694630 Score: 148
Period size: 28 Copynumber: 3.9 Consensus size: 28
13694512 GGAGGAAGCG
*
13694522 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
13694550 TTCTGGTGGCTCTGCCACAAATATCTGA
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
13694578 TTCTGGTGGCACTGCTACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
13694606 ATCTGGTGACTCTGTCAC-AATATCT
1 TTCTGGTGGCTCTGCCACAAATATCT
13694631 ATTCTGGCAG
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
27 7 0.10
28 64 0.90
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:13703444 original size:29 final size:29
Alignment explanation
Indices: 13703411--13703468 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
13703401 CACACTCTTA
13703411 GTGGAACCTTCAATTTCCAAATTCTATCG
1 GTGGAACCTTCAATTTCCAAATTCTATCG
13703440 GTGGAACCTTCAATTTCCAAATTCTATCG
1 GTGGAACCTTCAATTTCCAAATTCTATCG
13703469 AACGGAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (29 bp):
GTGGAACCTTCAATTTCCAAATTCTATCG
Found at i:13703481 original size:29 final size:29
Alignment explanation
Indices: 13703420--13703482 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
13703410 AGTGGAACCT
** **
13703420 TCAATTTCCAAATTCTATCGGTGGAACCT
1 TCAATTTCCAAATTCTATCGACGGAACAA
13703449 TCAATTTCCAAATTCTATCGAACGGAA-AA
1 TCAATTTCCAAATTCTATCG-ACGGAACAA
13703478 TCAAT
1 TCAAT
13703483 AGCACTCGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (29 bp):
TCAATTTCCAAATTCTATCGACGGAACAA
Found at i:13706704 original size:21 final size:23
Alignment explanation
Indices: 13706680--13706730 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
13706670 TTTTTATTTA
*
13706680 AATTTTGGG-CATT-TTCAATTC
1 AATTTTGGGTCATTCTACAATTC
*
13706701 AATTCTTGGGTGATTCTACAATTC
1 AATT-TTGGGTCATTCTACAATTC
13706725 AATTTT
1 AATTTT
13706731 TATTCTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 4 0.16
22 5 0.20
23 5 0.20
24 11 0.44
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (23 bp):
AATTTTGGGTCATTCTACAATTC
Found at i:13710212 original size:43 final size:43
Alignment explanation
Indices: 13710128--13710212 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
13710118 AAGATATATC
* *
13710128 CTATAGTCACGCAATATAATTAAACTATTGTCGCTATCCTTGA
1 CTATAGTCACGCAATATAATTAAACTATTGTCGCCACCCTTGA
* * *
13710171 CTATGGTCACTCAATATAATTAAACTATTGTTGCCACCCTTG
1 CTATAGTCACGCAATATAATTAAACTATTGTCGCCACCCTTG
13710213 GCTTGGATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (43 bp):
CTATAGTCACGCAATATAATTAAACTATTGTCGCCACCCTTGA
Found at i:13719801 original size:20 final size:19
Alignment explanation
Indices: 13719776--13719813 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
13719766 TTGACTACAG
13719776 AACACGAGCATGGAGAGTAT
1 AACACGAGCATGG-GAGTAT
*
13719796 AACACGGGCATGGGAGTA
1 AACACGAGCATGGGAGTA
13719814 GTGAACCAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.37, C:0.16, G:0.34, T:0.13
Consensus pattern (19 bp):
AACACGAGCATGGGAGTAT
Found at i:13725526 original size:8 final size:8
Alignment explanation
Indices: 13725513--13725543 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
13725503 TTTTTTTCAA
13725513 AATGGAAG
1 AATGGAAG
13725521 AATGGAAG
1 AATGGAAG
*
13725529 GATGGAAG
1 AATGGAAG
13725537 AATGGAA
1 AATGGAA
13725544 TCATTTGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.39, T:0.13
Consensus pattern (8 bp):
AATGGAAG
Found at i:13728092 original size:2 final size:2
Alignment explanation
Indices: 13728087--13728116 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13728077 ATGCAATTGA
13728087 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13728117 TGAGGTGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13740098 original size:24 final size:24
Alignment explanation
Indices: 13740071--13740118 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
13740061 CGAGATAGTT
*
13740071 TTCCAAAAGAAAAAGCCTGGAGAG
1 TTCCAAAAGAAAAAGCCTGAAGAG
13740095 TTCCAAAAGAAAAAGCCTGAAGAG
1 TTCCAAAAGAAAAAGCCTGAAGAG
13740119 CCTCAAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.23, T:0.12
Consensus pattern (24 bp):
TTCCAAAAGAAAAAGCCTGAAGAG
Found at i:13744248 original size:26 final size:26
Alignment explanation
Indices: 13744212--13744295 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
13744202 CATGAAATTC
13744212 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
13744238 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13744264 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
13744290 TTATCA
1 TTATCA
13744296 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:13746756 original size:21 final size:21
Alignment explanation
Indices: 13746700--13746758 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
13746690 ATTAAATTTT
*
13746700 TTTAATTTGGTTAAATAAGGA
1 TTTAATTTAGTTAAATAAGGA
* *
13746721 -TTAATGTA-TTCAAATAATGA
1 TTTAATTTAGTT-AAATAAGGA
13746741 TTTAATTTAGTTAAATAA
1 TTTAATTTAGTTAAATAA
13746759 AAGCAGTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 2 0.06
20 14 0.45
21 13 0.42
22 2 0.06
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (21 bp):
TTTAATTTAGTTAAATAAGGA
Found at i:13747288 original size:16 final size:17
Alignment explanation
Indices: 13747250--13747282 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13747240 TTTTTATAGA
13747250 TTAATTTTTAGTTAAAAC
1 TTAATTTTTA-TTAAAAC
13747268 TTAATTTTT-TTAAAA
1 TTAATTTTTATTAAAA
13747283 TATAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (17 bp):
TTAATTTTTATTAAAAC
Found at i:13748153 original size:57 final size:54
Alignment explanation
Indices: 13748091--13748210 Score: 156
Period size: 57 Copynumber: 2.2 Consensus size: 54
13748081 ATCGGTAAAA
*
13748091 ATAAAATTATACTTT-AGTCCT-TCTTAAAATGATAAAAAAAAATTAATTTAATCTTTT
1 ATAAAATTATACTTTGA-TCCTCT-TTAAAATGAT---AAAAAATTAATTTAATATTTT
*
13748148 ATAAAATTATACTTTGATCCTCTTTAAAATGATAAAAATTTAATTTAATATTTT
1 ATAAAATTATACTTTGATCCTCTTTAAAATGATAAAAAATTAATTTAATATTTT
13748202 A-AAAATTAT
1 ATAAAATTAT
13748211 GAATATATAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
53 8 0.14
54 20 0.34
57 29 0.49
58 2 0.03
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (54 bp):
ATAAAATTATACTTTGATCCTCTTTAAAATGATAAAAAATTAATTTAATATTTT
Found at i:13758444 original size:21 final size:22
Alignment explanation
Indices: 13758420--13758470 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
13758410 TGTAAATGTT
13758420 TATTTATTTT-TTA-ATTGTAAA
1 TATTTATTTTGTTACATT-TAAA
*
13758441 TATTAATTTTGTTACATTTAAA
1 TATTTATTTTGTTACATTTAAA
13758463 T-TTTATTT
1 TATTTATTT
13758471 AATTTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 15 0.58
22 8 0.31
23 3 0.12
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (22 bp):
TATTTATTTTGTTACATTTAAA
Found at i:13760075 original size:27 final size:27
Alignment explanation
Indices: 13760016--13760075 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
13760006 AGCTTAATGT
* *
13760016 ATTTTCATATATTTTTTTAAAAGAATT
1 ATTTTTATATATTTTTTTAAAAGAATA
* * **
13760043 ACTTTTATATATTTTTTTGAAATTATA
1 ATTTTTATATATTTTTTTAAAAGAATA
13760070 ATTTTT
1 ATTTTT
13760076 GATGATTTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (27 bp):
ATTTTTATATATTTTTTTAAAAGAATA
Found at i:13760083 original size:27 final size:28
Alignment explanation
Indices: 13760053--13760109 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
13760043 ACTTTTATAT
*
13760053 ATTTTTTTGAAATTAT-AATT-TTTGATG
1 ATTTTTAT-AAATTATGAATTATTTGATG
*
13760080 ATTTTTATAAATTTTGAATTATTTGATG
1 ATTTTTATAAATTATGAATTATTTGATG
13760108 AT
1 AT
13760110 GGCTAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.23
27 11 0.42
28 9 0.35
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (28 bp):
ATTTTTATAAATTATGAATTATTTGATG
Found at i:13769221 original size:26 final size:26
Alignment explanation
Indices: 13769183--13769292 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
13769173 CATGAAATTC
13769183 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13769209 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
13769235 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13769261 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
13769287 TTATCA
1 TTATCA
13769293 ATTTGTATCA
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:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:13769261 original size:52 final size:52
Alignment explanation
Indices: 13769183--13769292 Score: 220
Period size: 52 Copynumber: 2.1 Consensus size: 52
13769173 CATGAAATTC
13769183 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
13769235 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
13769287 TTATCA
1 TTATCA
13769293 ATTTGTATCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
Found at i:13772587 original size:27 final size:27
Alignment explanation
Indices: 13772524--13772578 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
13772514 AGTTCTAAAT
*
13772524 AATAGAATAAGTGCTAAGATTCTCCAC
1 AATAGAATAAGTGCTAAGATTATCCAC
13772551 AATAGAATAAGTGCTAAGATTATCCAC
1 AATAGAATAAGTGCTAAGATTATCCAC
13772578 A
1 A
13772579 CTCTTATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (27 bp):
AATAGAATAAGTGCTAAGATTATCCAC
Found at i:13781808 original size:45 final size:45
Alignment explanation
Indices: 13781757--13781872 Score: 123
Period size: 45 Copynumber: 2.6 Consensus size: 45
13781747 CCTAAGCTGA
** * *
13781757 TGAATAGTAAGCTCTATTGAA-TTGAAATGGTAAGCT-CTATCGAGC
1 TGAATAGTAAGCTCTATACAAGCTGAAA-GGTAAGCTCCAAT-GAGC
13781802 TGAATAGTAAGCTC-ATACAAGCTGAAAGGTAAGCTCCAATGAGC
1 TGAATAGTAAGCTCTATACAAGCTGAAAGGTAAGCTCCAATGAGC
*
13781846 TGAAAATAGTAAGCTCT-TACGAGCTGA
1 TG--AATAGTAAGCTCTATACAAGCTGA
13781873 TATATCGGTA
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
44 18 0.30
45 22 0.36
46 21 0.34
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (45 bp):
TGAATAGTAAGCTCTATACAAGCTGAAAGGTAAGCTCCAATGAGC
Found at i:13781814 original size:22 final size:22
Alignment explanation
Indices: 13781757--13781872 Score: 87
Period size: 22 Copynumber: 5.1 Consensus size: 22
13781747 CCTAAGCTGA
* **
13781757 TGAATAGTAAGCTCTATTGAAT
1 TGAATAGTAAGCTCTATCGAGC
*
13781779 TGAAATGGTAAGCTCTATCGAGC
1 TG-AATAGTAAGCTCTATCGAGC
*
13781802 TGAATAGTAAGCTC-ATACAAGC
1 TGAATAGTAAGCTCTAT-CGAGC
*
13781824 TGAA-AGGTAAGCTCCAAT-GAGC
1 TGAATA-GTAAGCT-CTATCGAGC
13781846 TGAAAATAGTAAGCTCT-TACGAGC
1 TG--AATAGTAAGCTCTAT-CGAGC
13781870 TGA
1 TGA
13781873 TATATCGGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
21 3 0.04
22 35 0.46
23 20 0.26
24 17 0.22
25 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (22 bp):
TGAATAGTAAGCTCTATCGAGC
Found at i:13785854 original size:17 final size:17
Alignment explanation
Indices: 13785825--13785868 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
13785815 TTCATTTTCT
13785825 AATTTATAATATATATG-A
1 AATTTA-AATATA-ATGTA
13785843 AATTTAAATATAATGTA
1 AATTTAAATATAATGTA
13785860 AATATTAAA
1 AAT-TTAAA
13785869 AAATATGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.12
17 10 0.42
18 11 0.46
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
AATTTAAATATAATGTA
Found at i:13786798 original size:11 final size:11
Alignment explanation
Indices: 13786782--13786808 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13786772 CTTTGCTACC
13786782 ATTTTACTATT
1 ATTTTACTATT
13786793 ATTTTACTATT
1 ATTTTACTATT
13786804 ATTTT
1 ATTTT
13786809 GTTGTTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTTTACTATT
Found at i:13786880 original size:30 final size:30
Alignment explanation
Indices: 13786846--13786908 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
13786836 ATTTATTTTA
13786846 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
13786876 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
13786906 TTG
1 TTG
13786909 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:13788270 original size:2 final size:2
Alignment explanation
Indices: 13788263--13788313 Score: 68
Period size: 2 Copynumber: 25.5 Consensus size: 2
13788253 TATAGTGTAT
* *
13788263 TA TA TA TA TA -A TT TT TA TA TA TCA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
13788305 TA TA TA TA T
1 TA TA TA TA T
13788314 GTGTGTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 42 0.93
3 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:13788725 original size:2 final size:2
Alignment explanation
Indices: 13788709--13788760 Score: 70
Period size: 2 Copynumber: 26.5 Consensus size: 2
13788699 TGTCAAATAC
*
13788709 TA TA -A TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
13788750 TG CA TA TA TA T
1 TA TA TA TA TA T
13788761 TCTTTTTCTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13789794 original size:20 final size:22
Alignment explanation
Indices: 13789754--13789798 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
13789744 GTTGGTAAAA
13789754 TATTTTTCAATATAAAATTAAT
1 TATTTTTCAATATAAAATTAAT
*
13789776 TATTTTT-AA-ATAAATTTAAT
1 TATTTTTCAATATAAAATTAAT
13789796 TAT
1 TAT
13789799 GGTGTTAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 2 0.09
22 7 0.32
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTTTTCAATATAAAATTAAT
Found at i:13790299 original size:2 final size:2
Alignment explanation
Indices: 13790292--13790332 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
13790282 AGTAAATCAA
*
13790292 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13790333 GGAGAGGTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:13792565 original size:6 final size:6
Alignment explanation
Indices: 13792550--13792583 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
13792540 AGAAGTAGTT
*
13792550 CCAACC CCAACA CCAACC CCAACC CCAACC CCAA
1 CCAACC CCAACC CCAACC CCAACC CCAACC CCAA
13792584 TTGTTACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.38, C:0.62, G:0.00, T:0.00
Consensus pattern (6 bp):
CCAACC
Found at i:13793134 original size:21 final size:21
Alignment explanation
Indices: 13793108--13793149 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13793098 GTTACCGTAT
13793108 TTGTTCTTCAAAGTTTGCTTC
1 TTGTTCTTCAAAGTTTGCTTC
13793129 TTGTTCTTCAAAGTTTGCTTC
1 TTGTTCTTCAAAGTTTGCTTC
13793150 AATCTTCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.52
Consensus pattern (21 bp):
TTGTTCTTCAAAGTTTGCTTC
Found at i:13793163 original size:25 final size:21
Alignment explanation
Indices: 13793111--13793159 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
13793101 ACCGTATTTG
*
13793111 TTCTTCAAAGTTTGCTTCTTG
1 TTCTTCAAAGTTTGCTTCTTC
*
13793132 TTCTTCAAAGTTTGCTTCAATC
1 TTCTTCAAAGTTTGCTTC-TTC
13793154 TTCTTC
1 TTCTTC
13793160 TTCATATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.16, C:0.22, G:0.10, T:0.51
Consensus pattern (21 bp):
TTCTTCAAAGTTTGCTTCTTC
Found at i:13800704 original size:82 final size:82
Alignment explanation
Indices: 13800583--13800747 Score: 249
Period size: 82 Copynumber: 2.0 Consensus size: 82
13800573 ACCATTATCC
** * **
13800583 ATTATCTTTATAATTTCTCTCTTATTACTCACTACAAGTAACATGAACGTGATTTCATTCATGCT
1 ATTATCTTTATAATTTCTCTCCCATTACTCACTACAAGTAACATGAACATGATTTCATTCACACT
13800648 CATTACCCATAATTCAA
66 CATTACCCATAATTCAA
* * * *
13800665 ATTATCTTTATAATTTCTCTCCCATTACTTACTATAAGTATCATGAACATGATTTCATTTACACT
1 ATTATCTTTATAATTTCTCTCCCATTACTCACTACAAGTAACATGAACATGATTTCATTCACACT
13800730 CATTACCCATAATTCAA
66 CATTACCCATAATTCAA
13800747 A
1 A
13800748 ACACTTTCTC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 74 1.00
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.41
Consensus pattern (82 bp):
ATTATCTTTATAATTTCTCTCCCATTACTCACTACAAGTAACATGAACATGATTTCATTCACACT
CATTACCCATAATTCAA
Found at i:13801608 original size:16 final size:16
Alignment explanation
Indices: 13801581--13801624 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
13801571 TATTTGTATA
*
13801581 ATATTTTATTTACATTT
1 ATATTTT-TTTAAATTT
13801598 ATATTTTTTTAAATTT
1 ATATTTTTTTAAATTT
*
13801614 AAATTATTTTT
1 ATATT-TTTTT
13801625 TGAAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
ATATTTTTTTAAATTT
Found at i:13802726 original size:25 final size:25
Alignment explanation
Indices: 13802698--13802747 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
13802688 AATTTTTATT
*
13802698 TTTAGAATAATTTAATCTTTTTTAA
1 TTTAGAATAATTTAATCCTTTTTAA
13802723 TTTAGAATAATTTAATCCTTTTTAA
1 TTTAGAATAATTTAATCCTTTTTAA
13802748 CTTTCAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTAGAATAATTTAATCCTTTTTAA
Found at i:13807719 original size:25 final size:26
Alignment explanation
Indices: 13807668--13807719 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
13807658 ACTTGGAATT
* *
13807668 AGTATTCAAATGAATATCAATTAATA
1 AGTATTCAAATAAACATCAATTAATA
*
13807694 AGTATTC-AATAAACATCAATTCATA
1 AGTATTCAAATAAACATCAATTAATA
13807719 A
1 A
13807720 ACCACAGTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.33
Consensus pattern (26 bp):
AGTATTCAAATAAACATCAATTAATA
Found at i:13815590 original size:2 final size:2
Alignment explanation
Indices: 13815585--13815609 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13815575 TGTGTGTGTT
13815585 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 T
13815610 TAAGGGCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13816362 original size:2 final size:2
Alignment explanation
Indices: 13816357--13816393 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13816347 AAAAAAGTTT
13816357 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13816394 GTAGCGTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13825415 original size:28 final size:29
Alignment explanation
Indices: 13825369--13825439 Score: 92
Period size: 28 Copynumber: 2.4 Consensus size: 29
13825359 ATTTTAATAC
* *
13825369 TTTAAGATATTAAAAATCACTC-TTTAAGTT
1 TTTAA-AT-TTAAAAATCACTCACTCAAGTT
13825399 TTTAAATTTAAAAATCACTCACTCAAGTT
1 TTTAAATTTAAAAATCACTCACTCAAGTT
13825428 TTT-AATTTAAAA
1 TTTAAATTTAAAA
13825440 TTTTTGAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 22 0.58
29 11 0.29
30 5 0.13
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.42
Consensus pattern (29 bp):
TTTAAATTTAAAAATCACTCACTCAAGTT
Found at i:13828734 original size:25 final size:24
Alignment explanation
Indices: 13828685--13828735 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 24
13828675 AATATTAATT
*
13828685 AGTATTTTATAATAGCTTGTTTTTA
1 AGTATTTTATAATA-CTTGTATTTA
13828710 AGTATTTATATAATA-TTGATATTTA
1 AGTATTT-TATAATACTTG-TATTTA
13828735 A
1 A
13828736 AACAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 3 0.13
25 13 0.57
26 7 0.30
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.53
Consensus pattern (24 bp):
AGTATTTTATAATACTTGTATTTA
Found at i:13828837 original size:23 final size:21
Alignment explanation
Indices: 13828795--13828834 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13828785 TAAAGAAACT
13828795 ATTTTTTAAAAAATATATAGC
1 ATTTTTTAAAAAATATATAGC
*
13828816 ATTTTTTAAATAATATATA
1 ATTTTTTAAAAAATATATA
13828835 TAGAAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (21 bp):
ATTTTTTAAAAAATATATAGC
Found at i:13828848 original size:50 final size:52
Alignment explanation
Indices: 13828764--13828872 Score: 170
Period size: 50 Copynumber: 2.1 Consensus size: 52
13828754 TAAAAAATAT
*
13828764 TTTTATTAAATAATTTATATATAAAGAAACTATTTTTTAAAAAATATATAGCA
1 TTTTATTAAATAA-TTATATATAAAGAAACTATTTTTTAAAAAATATAGAGCA
13828817 TTTT-TTAAATAA-TATATATAGAA-AAACTATTTTTTAAAAAATATAGAGCA
1 TTTTATTAAATAATTATATATA-AAGAAACTATTTTTTAAAAAATATAGAGCA
13828867 TTTTAT
1 TTTTAT
13828873 ATATAAATAT
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
50 38 0.72
51 3 0.06
52 8 0.15
53 4 0.08
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.44
Consensus pattern (52 bp):
TTTTATTAAATAATTATATATAAAGAAACTATTTTTTAAAAAATATAGAGCA
Found at i:13830217 original size:15 final size:14
Alignment explanation
Indices: 13830197--13830235 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
13830187 TAGTGTTACC
13830197 TTTTAGTTATGTATT
1 TTTTAGTT-TGTATT
*
13830212 TTTTAGTTTTTATT
1 TTTTAGTTTGTATT
13830226 TATTTAGTTT
1 T-TTTAGTTT
13830236 ATAATTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (14 bp):
TTTTAGTTTGTATT
Found at i:13834474 original size:19 final size:19
Alignment explanation
Indices: 13834425--13834475 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
13834415 TGGTGCTATG
*
13834425 TTCATCTTCTTTTGAAAAA
1 TTCATTTTCTTTTGAAAAA
* * *
13834444 TTCATTTCCTTTTGTAAAT
1 TTCATTTTCTTTTGAAAAA
*
13834463 TTCGTTTTCTTTT
1 TTCATTTTCTTTT
13834476 TGCAATAATG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.20, C:0.16, G:0.06, T:0.59
Consensus pattern (19 bp):
TTCATTTTCTTTTGAAAAA
Found at i:13835530 original size:55 final size:55
Alignment explanation
Indices: 13835422--13835531 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 55
13835412 TGCATGCCTT
* **
13835422 AGTTTCATATTTTCTTTTGCAAACATGACTGCTGTCATGTTCTAGAATGGGTAGC
1 AGTTTCATATTTTCTTTTGCAAACAGGACTGCTGTCATGTTCTAGAACAGGTAGC
*
13835477 AGTTTCATATTTTCTTTTGCAGACAGGACTGCTGTCATGTTCTAGAACAGGTAGC
1 AGTTTCATATTTTCTTTTGCAAACAGGACTGCTGTCATGTTCTAGAACAGGTAGC
13835532 CCAGCATTGC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (55 bp):
AGTTTCATATTTTCTTTTGCAAACAGGACTGCTGTCATGTTCTAGAACAGGTAGC
Done.