Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 44 of 250
Found at i:13618066 original size:30 final size:29
Alignment explanation
Indices: 13618032--13618091 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
13618022 TTCCCGAGCC
13618032 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATG-AAAAGTT
* * * *
13618062 TAGGGGTAAAATTGTAATTTTGAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGAAAAGTT
13618091 T
1 T
13618092 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (29 bp):
TAGGGGCAAAAGTGTAAATATGAAAAGTT
Found at i:13620396 original size:40 final size:39
Alignment explanation
Indices: 13620306--13620490 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
13620296 TTGAATGATG
* * * *
13620306 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
13620346 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
13620386 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
13620425 TCCGGGTTAAGTCTCAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTACTA-AA
*
13620466 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
13620491 AATGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 35 0.29
40 75 0.62
41 11 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:13620445 original size:79 final size:81
Alignment explanation
Indices: 13620307--13620490 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
13620297 TGAATGATGT
* *
13620307 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATTT
*
13620371 GTGCGAGATACTA-ATT
66 GTGCGAGATACTATA-A
* * * * **
13620387 TCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCTCAAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATC-CAAAGGCATT
*
13620449 TGTGCGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
13620466 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
13620491 AATGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 2 0.02
79 55 0.62
80 31 0.35
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATTT
GTGCGAGATACTATAA
Found at i:13620512 original size:79 final size:79
Alignment explanation
Indices: 13620362--13620513 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 79
13620352 CTAAGATCCG
** **
13620362 AAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
13620427 CGGGTTAAGTCTCA
66 CGGGTTAAGTCTCA
* * * *
13620441 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGCTAT
1 AAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAA
13620504 ATCC-GGTTAA
63 ATCCGGGTTAA
13620514 ATTCCGAAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 36 0.58
80 24 0.39
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAGTCTCA
Found at i:13622445 original size:12 final size:12
Alignment explanation
Indices: 13622428--13622454 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13622418 AAAGGAATTC
13622428 TATATTCTGAGA
1 TATATTCTGAGA
13622440 TATATTCTGAGA
1 TATATTCTGAGA
13622452 TAT
1 TAT
13622455 TTAAGTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (12 bp):
TATATTCTGAGA
Found at i:13624597 original size:8 final size:8
Alignment explanation
Indices: 13624586--13624610 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13624576 ATACAGACTA
13624586 AATAAAAT
1 AATAAAAT
13624594 AATAAAAT
1 AATAAAAT
13624602 AATAAAAT
1 AATAAAAT
13624610 A
1 A
13624611 TTTTATTAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:13625196 original size:19 final size:19
Alignment explanation
Indices: 13625172--13625217 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
13625162 CTATTTCTAG
13625172 CCATATTTTGAAGTAAGGT
1 CCATATTTTGAAGTAAGGT
13625191 CCATATTTTGAAGTAAGGT
1 CCATATTTTGAAGTAAGGT
*
13625210 TCATATTT
1 CCATATTT
13625218 AAAATTTGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.41
Consensus pattern (19 bp):
CCATATTTTGAAGTAAGGT
Found at i:13634247 original size:19 final size:20
Alignment explanation
Indices: 13634223--13634260 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13634213 GGTACCACCA
13634223 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
13634242 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
13634261 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:13634606 original size:93 final size:93
Alignment explanation
Indices: 13634489--13634659 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
13634479 GCCCATAAGT
* *
13634489 GAACTCGGACTCAACTCAATGAGTTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
13634553 ATGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
13634582 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13634647 CGAGTTCGGATGC
66 CGAGTTCGGATGC
13634660 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:13634654 original size:46 final size:46
Alignment explanation
Indices: 13634481--13634656 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
13634471 TGTAACCCGC
* *
13634481 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
13634527 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
13634577 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
13634620 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13634657 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 63 0.57
47 28 0.25
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:13635113 original size:30 final size:30
Alignment explanation
Indices: 13635079--13635138 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
13635069 ATTTAATACG
*
13635079 AACTTTGGAAAAATTATACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
13635109 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
13635139 GGCTCAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:13637198 original size:16 final size:16
Alignment explanation
Indices: 13637179--13637212 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13637169 TGCTTATAAA
*
13637179 TTTTAGTACTTAATTT
1 TTTTAGCACTTAATTT
*
13637195 TTTTAGCATTTAATTT
1 TTTTAGCACTTAATTT
13637211 TT
1 TT
13637213 CAATTTATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTAGCACTTAATTT
Found at i:13637550 original size:51 final size:51
Alignment explanation
Indices: 13637453--13637551 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 51
13637443 ATGTATTTTT
* * **
13637453 AAAATATATATTAAGGGTGGAGGGAGAGAGATGGGTGGCAGCAGTATTAAA
1 AAAATATATATTAAGAGTGGAGGGAGAGAGATAGGCAGCAGCAGTATTAAA
* * *
13637504 AAAATATTTTTTAAGAGTGGATGGAGAGAGATAGGCAGCA-CTAGTATT
1 AAAATATATATTAAGAGTGGAGGGAGAGAGATAGGCAGCAGC-AGTATT
13637552 TTCTAGTGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 1 0.03
51 39 0.98
ACGTcount: A:0.38, C:0.05, G:0.31, T:0.25
Consensus pattern (51 bp):
AAAATATATATTAAGAGTGGAGGGAGAGAGATAGGCAGCAGCAGTATTAAA
Found at i:13637631 original size:27 final size:27
Alignment explanation
Indices: 13637579--13637631 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
13637569 AATTTAATTG
**
13637579 GTGGAGGGTGAGAGAGAGGCGGCACCA
1 GTGGAGGGTGAGAGAGAGGCAACACCA
13637606 GTGGAGGGTGAGAGAGAGGCAACACC
1 GTGGAGGGTGAGAGAGAGGCAACACC
13637632 CATGTTGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.49, T:0.08
Consensus pattern (27 bp):
GTGGAGGGTGAGAGAGAGGCAACACCA
Found at i:13637820 original size:17 final size:18
Alignment explanation
Indices: 13637786--13637820 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13637776 AAATAAAATA
*
13637786 TTTAGAAATTTAATTATT
1 TTTACAAATTTAATTATT
13637804 TTTACAAATTT-ATTATT
1 TTTACAAATTTAATTATT
13637821 GAAATGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTACAAATTTAATTATT
Found at i:13639062 original size:12 final size:12
Alignment explanation
Indices: 13639032--13639064 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
13639022 ACCCGAAAGC
*
13639032 ATAGATAGCTAA
1 ATAGATGGCTAA
13639044 ATAGATGGCTAA
1 ATAGATGGCTAA
13639056 ATAGATGGC
1 ATAGATGGC
13639065 CATGGAGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (12 bp):
ATAGATGGCTAA
Found at i:13642388 original size:14 final size:14
Alignment explanation
Indices: 13642365--13642394 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13642355 TTGAAAATAT
13642365 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
13642379 GTTGATTTGGATTG
1 GTTGAATTGGATTG
13642393 GT
1 GT
13642395 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:13644872 original size:27 final size:26
Alignment explanation
Indices: 13644855--13644929 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 26
13644845 ATATTAAGTC
13644855 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
13644882 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
* *
13644910 CGCACACTTAGTGCTGTATA
1 CGCACACTCAGTGCTATATA
13644930 ATTTAAACCT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 23 0.51
28 22 0.49
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:13644947 original size:29 final size:28
Alignment explanation
Indices: 13644855--13644952 Score: 137
Period size: 28 Copynumber: 3.5 Consensus size: 28
13644845 ATATTAAGTC
*
13644855 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
13644882 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
13644910 CGCACACTTAGTGCTGTATAATTTAAAC-
1 CGCACACTTAGTGCTATATAA-TCAAACT
13644938 CTGCACACTTAGTGC
1 C-GCACACTTAGTGC
13644953 CAATCTCATG
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
27 22 0.34
28 25 0.38
29 18 0.28
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:13652206 original size:28 final size:28
Alignment explanation
Indices: 13652143--13652240 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
13652133 ATATTAAGTC
*
13652143 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
13652170 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
13652198 CGCACACTTAGTGC-AGTACAATTTAAACC
1 CGCACACTTAGTGCTA-TATAA-TCAAACT
13652227 CGCACACTTAGTGC
1 CGCACACTTAGTGC
13652241 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 23 0.36
28 22 0.34
29 19 0.30
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:13654390 original size:24 final size:24
Alignment explanation
Indices: 13654315--13654399 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
13654305 TTACTTATTC
**
13654315 GCACACATAGTGCCACGTTTTCTT
1 GCACACATAGTGCCACGTAATCTT
* * *
13654339 GAACACATAGTGCCATGTAATCTC
1 GCACACATAGTGCCACGTAATCTT
* **
13654363 GCACACATAGTGCCACATAGCCTT
1 GCACACATAGTGCCACGTAATCTT
13654387 GCACACATAGTGC
1 GCACACATAGTGC
13654400 TGTATTTTCT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (24 bp):
GCACACATAGTGCCACGTAATCTT
Found at i:13657484 original size:16 final size:16
Alignment explanation
Indices: 13657463--13657500 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
13657453 TTACCATTAA
13657463 AATTTAATATGTGACC
1 AATTTAATATGTGACC
13657479 AATTTAATATGTGACC
1 AATTTAATATGTGACC
13657495 AATTTA
1 AATTTA
13657501 GTAGGAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (16 bp):
AATTTAATATGTGACC
Found at i:13657656 original size:10 final size:9
Alignment explanation
Indices: 13657636--13657660 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13657626 AATCATTTTG
13657636 TTTTTTATT
1 TTTTTTATT
13657645 TTTTTTATT
1 TTTTTTATT
13657654 TTTTTTA
1 TTTTTTA
13657661 ATTCTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTATT
Found at i:13666105 original size:24 final size:24
Alignment explanation
Indices: 13666062--13666110 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
13666052 GACACCAATT
* *
13666062 TTGTTTTATGAATCATATATATTG
1 TTGTTTTATGAAGCACATATATTG
*
13666086 TTGTTTTATGAAGGACATATATTG
1 TTGTTTTATGAAGCACATATATTG
13666110 T
1 T
13666111 GATTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (24 bp):
TTGTTTTATGAAGCACATATATTG
Found at i:13666905 original size:16 final size:18
Alignment explanation
Indices: 13666881--13666924 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
13666871 GACATCTATA
*
13666881 TAATCAAATT-TATT-TT
1 TAATTAAATTATATTATT
13666897 TAATTAAATTATATTATT
1 TAATTAAATTATATTATT
13666915 TAATATAAAT
1 TAAT-TAAAT
13666925 AAAAATTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 9 0.38
17 4 0.17
18 6 0.25
19 5 0.21
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATTAAATTATATTATT
Found at i:13673927 original size:112 final size:112
Alignment explanation
Indices: 13673709--13673928 Score: 264
Period size: 113 Copynumber: 2.0 Consensus size: 112
13673699 TTCACTGTTG
* * * *
13673709 ATAGCTTTGTGCTTTAGCTGAGCTATCTATATTTGAAATGCATTTGACCTTAAAGTTGAAAGAGT
1 ATAGCTTTGTGCATTAACTGAGCTATCTATATTTGAAATACATTTGACCTTAAAG-TGAAAAAGT
* * *
13673774 AAAAAGCTATACTGTGAGATCTAAAAGGGTTGTTGAGTGCTGACACTT
65 AAAAAGCTATACTGTGAGATCTAAAAGGATAGTTGAATGCTGACACTT
* * * * **
13673822 ATAGTTTTGTGCATTAACTTAGCTATCTATATTTGAAATACGTTTGTCCTTGTAG-GAAAAAAGT
1 ATAGCTTTGTGCATTAACTGAGCTATCTATATTTGAAATACATTTGACCTTAAAGTG-AAAAAGT
* *
13673886 AGAAAA-CTATATTTTGAGATCTAAAAGGATAGTTGAATGCTGA
65 A-AAAAGCTATACTGTGAGATCTAAAAGGATAGTTGAATGCTGA
13673929 AACCTTTTAG
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
111 1 0.01
112 39 0.43
113 50 0.56
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.35
Consensus pattern (112 bp):
ATAGCTTTGTGCATTAACTGAGCTATCTATATTTGAAATACATTTGACCTTAAAGTGAAAAAGTA
AAAAGCTATACTGTGAGATCTAAAAGGATAGTTGAATGCTGACACTT
Found at i:13694538 original size:23 final size:22
Alignment explanation
Indices: 13694486--13694538 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
13694476 TCCACGTCTT
*
13694486 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
13694508 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
13694531 TTTCTTTT
1 TTTCTTTT
13694539 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:13697201 original size:18 final size:18
Alignment explanation
Indices: 13697174--13697216 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
13697164 TCAAATTCTT
* *
13697174 GTGAGAGTTAAGAGCATG
1 GTGAGTGTTAAAAGCATG
*
13697192 GTGAGTGTTAAAAGCATT
1 GTGAGTGTTAAAAGCATG
13697210 GTGAGTG
1 GTGAGTG
13697217 AAAGAATGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.37, T:0.28
Consensus pattern (18 bp):
GTGAGTGTTAAAAGCATG
Found at i:13697446 original size:32 final size:32
Alignment explanation
Indices: 13697405--13697467 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
13697395 TTGGTTAGTG
13697405 GAAACATTATGATTAAGGGTATTAATAAGACC
1 GAAACATTATGATTAAGGGTATTAATAAGACC
13697437 GAAACATTATGATTAAGGGTATTAATAAGAC
1 GAAACATTATGATTAAGGGTATTAATAAGAC
13697468 TGATTGACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (32 bp):
GAAACATTATGATTAAGGGTATTAATAAGACC
Found at i:13700155 original size:18 final size:19
Alignment explanation
Indices: 13700132--13700176 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
13700122 TATTTGATAT
13700132 AGAAATGGAAAATA-AATG
1 AGAAATGGAAAATAGAATG
* *
13700150 AGAAATAG-AACTAGAATG
1 AGAAATGGAAAATAGAATG
13700168 AGAAATGGA
1 AGAAATGGA
13700177 GTACTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.58, C:0.02, G:0.24, T:0.16
Consensus pattern (19 bp):
AGAAATGGAAAATAGAATG
Found at i:13703653 original size:5 final size:5
Alignment explanation
Indices: 13703645--13703676 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
13703635 AAAAAATAAA
13703645 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
13703677 GGTTGGTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:13715182 original size:23 final size:23
Alignment explanation
Indices: 13715130--13715199 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 23
13715120 TCAACTCGTA
* *
13715130 AGAGCTTACTGTTTTTAGCTCATT
1 AGAGCTTACTG-TTTCAGCTCAAT
* *
13715154 AAAGCTTACCGTTTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
13715177 AGAGCTTACTGTTCATCAGCTCA
1 AGAGCTTACTGTT--TCAGCTCA
13715200 GGAGGAGCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 21 0.55
24 9 0.24
25 8 0.21
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.36
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:13718367 original size:18 final size:19
Alignment explanation
Indices: 13718341--13718380 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
13718331 TGTTCTTTTA
13718341 TTGGACCTTTAGTTTT-GT
1 TTGGACCTTTAGTTTTAGT
* *
13718359 TTGGGCCTTTGGTTTTAGT
1 TTGGACCTTTAGTTTTAGT
13718378 TTG
1 TTG
13718381 CTTTGTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.07, C:0.10, G:0.28, T:0.55
Consensus pattern (19 bp):
TTGGACCTTTAGTTTTAGT
Found at i:13721775 original size:15 final size:16
Alignment explanation
Indices: 13721755--13721784 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13721745 TTTTAAACAA
13721755 AAAATTATAT-TTTTG
1 AAAATTATATATTTTG
13721770 AAAATTATATATTTT
1 AAAATTATATATTTT
13721785 TTAAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
AAAATTATATATTTTG
Found at i:13735855 original size:31 final size:31
Alignment explanation
Indices: 13735817--13735880 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
13735807 AATCCAAATT
13735817 GGCACTTAAAATCTAGTTGGACTACAACGTA
1 GGCACTTAAAATCTAGTTGGACTACAACGTA
* * *
13735848 GGCACTTAAAATTTAGTTGGACTGCCACGTA
1 GGCACTTAAAATCTAGTTGGACTACAACGTA
13735879 GG
1 GG
13735881 ATTACTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (31 bp):
GGCACTTAAAATCTAGTTGGACTACAACGTA
Found at i:13749221 original size:30 final size:29
Alignment explanation
Indices: 13749187--13749250 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
13749177 ATGAATCGGA
*
13749187 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATCT-AACT
13749217 AGCTTTGGCACTAAGTGTGCGATCTAACT
1 AGCTTTGGCACTAAGTGTGCGATCTAACT
13749246 AGCTT
1 AGCTT
13749251 CGGCTACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATCTAACT
Found at i:13751336 original size:49 final size:49
Alignment explanation
Indices: 13751258--13751503 Score: 303
Period size: 49 Copynumber: 5.0 Consensus size: 49
13751248 GTAGCCGAAG
* * *
13751258 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
13751307 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
* * * *
13751357 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* ** * *
13751407 GTTATCAAGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
13751457 CAATTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
13751504 TCACAATAGC
Statistics
Matches: 166, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 80 0.48
50 48 0.29
51 38 0.23
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:13751441 original size:101 final size:98
Alignment explanation
Indices: 13751272--13751503 Score: 338
Period size: 100 Copynumber: 2.3 Consensus size: 98
13751262 CTGGTACGCA
* * ** *
13751272 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAAGTACACATAGTAGCCTGCACTTA
* *
13751337 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACC-AACAATCTGATACACG
*
13751371 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAAGTACACATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAAGTACACATAGTAGCCTGCACT
* * *
13751436 TAGTACTACACATGCGACCAACAATTTGGTACACG
64 TAGTACTACACACGCGACCAACAATCTGATACACG
13751471 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
13751504 TCACAATAGC
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
99 30 0.25
100 47 0.39
101 42 0.35
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAAGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACAATCTGATACACG
Found at i:13756293 original size:39 final size:40
Alignment explanation
Indices: 13756248--13756471 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
13756238 GCTCCTCGTT
* * * *
13756248 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
13756288 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
13756327 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
13756367 CAAAGGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
13756406 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
13756447 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
13756472 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 66 0.42
40 79 0.50
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:13756351 original size:79 final size:78
Alignment explanation
Indices: 13756248--13756471 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 78
13756238 GCTCCTCGTT
* * *
13756248 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
13756313 TTTAATAACTCGCA
66 TTT-ATAACTCGCA
* * * *
13756327 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGG
* *
13756391 AATTTGTATCTCGCA
65 -ATTTATAACTCGCA
* * * * * *
13756406 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCG
13756470 GA
64 GA
13756472 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
78 3 0.02
79 90 0.74
80 28 0.23
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
TTTATAACTCGCA
Found at i:13756480 original size:41 final size:41
Alignment explanation
Indices: 13756403--13756480 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
13756393 TTTGTATCTC
* * *
13756403 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
13756444 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
13756481 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:13757886 original size:22 final size:22
Alignment explanation
Indices: 13757860--13757904 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13757850 TAAATTCACA
*
13757860 TGAAATCAACCAAATTGAAGCT
1 TGAAATCAACCAAATCGAAGCT
* *
13757882 TGAAATTAACTAAATCGAAGCT
1 TGAAATCAACCAAATCGAAGCT
13757904 T
1 T
13757905 AAAACATTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (22 bp):
TGAAATCAACCAAATCGAAGCT
Found at i:13804210 original size:27 final size:25
Alignment explanation
Indices: 13804121--13804295 Score: 181
Period size: 27 Copynumber: 6.6 Consensus size: 25
13804111 TATTGAGTTC
* *
13804121 CGCACACTCAGTGCTATATATCAACT
1 CGCACACTTAGTGCTACATATCAA-T
*
13804147 CGCACACTTAGTGCTACGTAATCAAT
1 CGCACACTTAGTGCTACAT-ATCAAT
13804173 CGCACACTTAGTGCTACATATCAATCT
1 CGCACACTTAGTGCTACATATCAA--T
* *
13804200 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACAT-ATCAA-T
*
13804227 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATA-TCA-AT
*
13804254 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATA-TC-AAT
13804281 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13804296 GTACAATTTA
Statistics
Matches: 128, Mismatches: 12, Indels: 17
0.82 0.08 0.11
Matches are distributed among these distances:
25 5 0.04
26 36 0.28
27 81 0.63
28 6 0.05
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (25 bp):
CGCACACTTAGTGCTACATATCAAT
Found at i:13804257 original size:54 final size:52
Alignment explanation
Indices: 13804121--13804295 Score: 210
Period size: 54 Copynumber: 3.3 Consensus size: 52
13804111 TATTGAGTTC
* * * * *
13804121 CGCACACTCAGTGCT-ATATATCAACTCGCACACTTAGTGCTACGTAATCAAT
1 CGCACACTTAGTGCTCATAT-TCATCTCGCACACTTAGTGCAACATAGTCAAT
* *
13804173 CGCACACTTAGTGCTACATA-TCAATCTCGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCT-CATATTC-ATCTCGCACACTTAGTGCAACATAGTCAA-T
*
13804227 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGC-TCATATTCATCTCGCACACTTAGTGCAACATAGTC-AAT
13804281 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13804296 GTACAATTTA
Statistics
Matches: 107, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
52 16 0.15
53 25 0.23
54 61 0.57
55 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (52 bp):
CGCACACTTAGTGCTCATATTCATCTCGCACACTTAGTGCAACATAGTCAAT
Found at i:13804267 original size:81 final size:80
Alignment explanation
Indices: 13804141--13804294 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 80
13804131 GTGCTATATA
* * *
13804141 TCAACTCGCACACTTAGTGCTACGTAATCAATCGCACACTTAGTGCTACATA-TCAATCTCGCAC
1 TCAACTCGCACACTTAGTGCTACATAATCAATCGCACACTTAGTGCAACATAGTCAA-ATCGCAC
13804205 ACTTAGTGCCACATGG
65 ACTTAGTGCCACATGG
* * *
13804221 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCA-ATCGCACACTTAGTGCAACATAGTCAAATCGCA
13804285 CACTTAGTGC
64 CACTTAGTGC
13804295 TGTACAATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
79 1 0.02
80 25 0.38
81 35 0.54
82 4 0.06
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTACATAATCAATCGCACACTTAGTGCAACATAGTCAAATCGCACA
CTTAGTGCCACATGG
Found at i:13805622 original size:13 final size:14
Alignment explanation
Indices: 13805581--13805626 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 14
13805571 GATGAAGCCT
13805581 TTCTTTT-TTTTTCA
1 TTCTTTTCTTTTT-A
13805595 TTTGCTTTTCTTTTTA
1 -TT-CTTTTCTTTTTA
13805611 TTCTTTTC-TTTTA
1 TTCTTTTCTTTTTA
13805624 TTC
1 TTC
13805627 ATTAAATCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.28
14 6 0.21
15 4 0.14
16 6 0.21
17 5 0.17
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.76
Consensus pattern (14 bp):
TTCTTTTCTTTTTA
Found at i:13815011 original size:40 final size:40
Alignment explanation
Indices: 13814835--13815057 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
13814825 TCCTCGTTCA
* * * * *
13814835 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
13814874 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
13814914 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
13814954 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
13814994 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
13815034 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
13815058 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:13818053 original size:20 final size:18
Alignment explanation
Indices: 13818028--13818064 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
13818018 ATTGCTAAGT
13818028 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
13818048 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
13818065 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:13819882 original size:50 final size:50
Alignment explanation
Indices: 13819824--13819928 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
13819814 TTTTAATGTG
13819824 AGTA-TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
13819873 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
13819923 AGTATT
1 AGTATT
13819929 AGTCATGTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
Found at i:13827280 original size:137 final size:131
Alignment explanation
Indices: 13827047--13827314 Score: 482
Period size: 137 Copynumber: 2.0 Consensus size: 131
13827037 TTATTCCCAC
13827047 AGTTCAAAATAATAGCAATAATTTCACCTACTTAATCACTAAGCTTGATCAGTTCCTTGGATTTT
1 AGTTCAAAATAATAGCAATAATTTCACCTACTTAATCACTAAGCTTGATCAGTTCCTTGGATTTT
13827112 AATAGGTTAAAAGTCTTTTAACAAATCAAACAAGTCAAAATTGCTTGAGACCAAAAAGTACCAAA
66 AATAGGTTAAAAGTCTTTTAACAAATCAAACAAGTCAAAATTGCTTGAGACCAAAAAGTACCAAA
13827177 A
131 A
13827178 AGTTCAAAATAATAGCAATAATTTCACCTACTTAATCACTAAGCTTAACTTGGATCAGTTCCTTG
1 AGTTCAAAATAATAGCAATAATTTCACCTACTTAATCACTAAG-----CTT-GATCAGTTCCTTG
13827243 GATTTTAATAGGTTAAAAGTCTTTTAACAAATCAAACAAGTCAAAATTGCTTGAGACCAAAAAGT
60 GATTTTAATAGGTTAAAAGTCTTTTAACAAATCAAACAAGTCAAAATTGCTTGAGACCAAAAAGT
13827308 ACCAAAA
125 ACCAAAA
13827315 CCTTTTTGGC
Statistics
Matches: 131, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
131 43 0.33
136 3 0.02
137 85 0.65
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.30
Consensus pattern (131 bp):
AGTTCAAAATAATAGCAATAATTTCACCTACTTAATCACTAAGCTTGATCAGTTCCTTGGATTTT
AATAGGTTAAAAGTCTTTTAACAAATCAAACAAGTCAAAATTGCTTGAGACCAAAAAGTACCAAA
A
Found at i:13828773 original size:19 final size:17
Alignment explanation
Indices: 13828749--13828792 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
13828739 TCCCACCCCA
*
13828749 AATTCATATGCAAAGTCAT
1 AATTCATATACAAA-T-AT
13828768 AATTCATATACAAATAT
1 AATTCATATACAAATAT
13828785 -ATTCATAT
1 AATTCATAT
13828793 TAAACATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 8 0.33
17 2 0.08
18 1 0.04
19 13 0.54
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (17 bp):
AATTCATATACAAATAT
Found at i:13834028 original size:14 final size:15
Alignment explanation
Indices: 13834009--13834064 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
13833999 AATCTTCAAT
13834009 GATATG-CAATCTTA
1 GATATGACAATCTTA
13834023 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
13834040 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
13834058 GATATGA
1 GATATGA
13834065 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:13834053 original size:35 final size:37
Alignment explanation
Indices: 13834007--13834085 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
13833997 ATAATCTTCA
13834007 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
13834043 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
13834079 A-GATATG
1 ATGATATG
13834086 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:13834085 original size:17 final size:19
Alignment explanation
Indices: 13834007--13834078 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
13833997 ATAATCTTCA
13834007 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
13834026 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
13834043 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
13834061 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
13834079 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:13834104 original size:22 final size:22
Alignment explanation
Indices: 13834007--13834101 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 22
13833997 ATAATCTTCA
13834007 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
13834026 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
13834043 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
13834061 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
13834083 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
13834102 GATTTAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 15 0.22
22 8 0.12
23 12 0.18
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:13834384 original size:17 final size:17
Alignment explanation
Indices: 13834360--13834394 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13834350 TGTTTCTCAG
*
13834360 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
13834378 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
13834395 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:13838835 original size:75 final size:75
Alignment explanation
Indices: 13838712--13838850 Score: 269
Period size: 75 Copynumber: 1.9 Consensus size: 75
13838702 TCTTGTTACT
*
13838712 CTAGAGCCTAGGAGTAATAGGATTTCATTTGTGAAATGGGTTTACAATCATCTATTATTTTTTAT
1 CTAGAGCCTAGGAGTAATAGGATTTCATTTGTGAAATGGGCTTACAATCATCTATTATTTTTTAT
13838777 TAACAAAAAA
66 TAACAAAAAA
13838787 CTAGAGCCTAGGAGTAATAGGATTTCATTTGTGAAATGGGCTTACAATCATCTATTATTTTTTA
1 CTAGAGCCTAGGAGTAATAGGATTTCATTTGTGAAATGGGCTTACAATCATCTATTATTTTTTA
13838851 ATAAAGCATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (75 bp):
CTAGAGCCTAGGAGTAATAGGATTTCATTTGTGAAATGGGCTTACAATCATCTATTATTTTTTAT
TAACAAAAAA
Found at i:13843781 original size:219 final size:220
Alignment explanation
Indices: 13843393--13843985 Score: 942
Period size: 219 Copynumber: 2.7 Consensus size: 220
13843383 GTAACATGCT
* * * ** * **
13843393 AAAG-CATAGCAGATTTGACCTTT-AGGTGTTTACACTGAAGTGGATCCAAGATGATTTAACATC
1 AAAGACATAGCAGATTTG-GCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATC
*
13843456 TCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTCGACGGAGAGCAGA
65 TCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTCGACGGAGAGCAGA
* *
13843521 TCGAAGACATATCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGC
130 TCAAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGC
*
13843586 ATCCTTGCGTTTACAAGGAGCAGATC
195 ATCCTTGCATTTACAAGGAGCAGATC
*
13843612 AAAGACATAGCAGATTTGGCTTTCACATGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCT
1 AAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCT
* *
13843677 CTGTACTGTCAGAGAACAAATCGAAGAAA-AGATTTGGCATCTCCATATTCGACAGAGAGCAGAT
66 CTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTCGACGGAGAGCAGAT
*
13843741 AAAATG-CATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGC
131 CAAA-GACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGC
*
13843805 ATCCTTGCATTTACAAGGAGCAGATG
195 ATCCTTGCATTTACAAGGAGCAGATC
* * *
13843831 GAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTAAAGCAAATCTAAGATGATTTGGCATCT
1 AAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCT
*
13843896 CTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTCTACGGAGAGCAGAT
66 CTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTCGACGGAGAGCAGAT
*
13843961 CAAAGACATAGCAGATCTGACCTTC
131 CAAAGACATAGCAGATCTAACCTTC
13843986 ATTGAAGCAG
Statistics
Matches: 343, Mismatches: 26, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
219 215 0.63
220 128 0.37
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (220 bp):
AAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCT
CTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTCGACGGAGAGCAGAT
CAAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCA
TCCTTGCATTTACAAGGAGCAGATC
Found at i:13844061 original size:78 final size:78
Alignment explanation
Indices: 13843927--13844448 Score: 697
Period size: 78 Copynumber: 6.5 Consensus size: 78
13843917 CGAAGAAACA
* ** * *
13843927 GATTTGGCATCTCTATATTCTACGGAGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
13843992 GCAGATCCAAGAT
66 GCAGATCCAAGAT
**
13844005 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACGGCAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
13844069 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
** * * *
13844083 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
13844148 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
13844161 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
13844226 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * *
13844239 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGACATAACAGAT-TGGACCTTCATTAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
13844303 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
*
13844317 GATTTGGCATCTCTGTATTAAACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCA-----
13844382 TTACATCGAAGCAGATCCAAGAT
61 -T---T-GAAGCAGATCCAAGAT
*
13844405 GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA
1 ----GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGA
13844449 AGCAGATTTG
Statistics
Matches: 392, Mismatches: 34, Indels: 22
0.88 0.08 0.05
Matches are distributed among these distances:
77 2 0.01
78 333 0.85
79 2 0.01
84 1 0.00
87 1 0.00
88 15 0.04
92 38 0.10
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:13844457 original size:44 final size:45
Alignment explanation
Indices: 13844317--13844541 Score: 217
Period size: 44 Copynumber: 5.0 Consensus size: 45
13844307 GATCCAAGAT
* * *
13844317 GATTTGGCATCTCTGTATTAAACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
13844364 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCGTCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* * *
13844409 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
13844453 GATTTGGCGTCTCTGTATTAGAC-GGGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * *
13844497 GATTTGGCGTCTCTGTATTGGACGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
13844542 AATATCGCCT
Statistics
Matches: 145, Mismatches: 25, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
43 16 0.11
44 53 0.37
45 45 0.31
46 4 0.03
47 22 0.15
48 4 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (45 bp):
GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:13844915 original size:14 final size:15
Alignment explanation
Indices: 13844896--13844951 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
13844886 AATCTTCAAT
13844896 GATATG-CAATCTTA
1 GATATGACAATCTTA
13844910 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
13844927 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
13844945 GATATGA
1 GATATGA
13844952 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:13844940 original size:35 final size:37
Alignment explanation
Indices: 13844894--13844972 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
13844884 ATAATCTTCA
13844894 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
13844930 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
13844966 A-GATATG
1 ATGATATG
13844973 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:13844972 original size:17 final size:19
Alignment explanation
Indices: 13844894--13844965 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
13844884 ATAATCTTCA
13844894 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
13844913 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
13844930 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
13844948 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
13844966 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:13844991 original size:22 final size:22
Alignment explanation
Indices: 13844894--13844988 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 22
13844884 ATAATCTTCA
13844894 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
13844913 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
13844930 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
13844948 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
13844970 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
13844989 GATTTAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 15 0.22
22 8 0.12
23 12 0.18
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:13845279 original size:17 final size:17
Alignment explanation
Indices: 13845255--13845289 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13845245 TGTTTCCCTG
*
13845255 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
13845273 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
13845290 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:13856875 original size:43 final size:43
Alignment explanation
Indices: 13856828--13856945 Score: 145
Period size: 41 Copynumber: 2.8 Consensus size: 43
13856818 AATGCCAACA
*
13856828 TCCCAGACGTGGTCTTACATGTAATCACATATCGATGCC-ACTG
1 TCCCAGACGTGGTCTTACATGTAATCACATATCAATGCCGA-TG
* *
13856871 TCCCAGATAG-GGTCTTACATG-AATCAAATA-CAATGCCGATG
1 TCCCAGA-CGTGGTCTTACATGTAATCACATATCAATGCCGATG
* *
13856912 TCCCAGACATGGTCTTACACGTAATCACATATCA
1 TCCCAGACGTGGTCTTACATGTAATCACATATCA
13856946 TTAATCCTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
41 25 0.40
42 17 0.27
43 20 0.32
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACATGTAATCACATATCAATGCCGATG
Found at i:13856926 original size:41 final size:41
Alignment explanation
Indices: 13856814--13856938 Score: 135
Period size: 41 Copynumber: 3.0 Consensus size: 41
13856804 CACACATTCC
** * *
13856814 ATACAATGCCAACATCCCAGACGTGGTCTTACATGTAATCAC
1 ATACAATGCC-ATGTCCCAGACATGGTCTTACATGTAATCAA
* * *
13856856 ATATCGATGCCACTGTCCCAGATAGGGTCTTACATG-AATCAA
1 ATA-CAATGCCA-TGTCCCAGACATGGTCTTACATGTAATCAA
*
13856898 ATACAATGCCGATGTCCCAGACATGGTCTTACACGTAATCA
1 ATACAATGCC-ATGTCCCAGACATGGTCTTACATGTAATCA
13856939 CATATCATTA
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
41 26 0.38
42 18 0.26
43 24 0.35
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (41 bp):
ATACAATGCCATGTCCCAGACATGGTCTTACATGTAATCAA
Found at i:13862409 original size:20 final size:21
Alignment explanation
Indices: 13862369--13862409 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
13862359 CGGGACTAAA
* *
13862369 TCAATAACTTAGGAAACTTTT
1 TCAATAACTTAGAAAAATTTT
13862390 TCAA-AACTTAGAAAAATTTT
1 TCAATAACTTAGAAAAATTTT
13862410 CCATAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (21 bp):
TCAATAACTTAGAAAAATTTT
Found at i:13864525 original size:21 final size:20
Alignment explanation
Indices: 13864497--13864536 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
13864487 CAAAACTTAT
*
13864497 ATAACTATCATCAAACATTC
1 ATAACTATCACCAAACATTC
*
13864517 ATAATCTATCACCAATCATT
1 ATAA-CTATCACCAAACATT
13864537 AAAGCACACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCACCAAACATTC
Found at i:13868538 original size:46 final size:47
Alignment explanation
Indices: 13868455--13868562 Score: 121
Period size: 46 Copynumber: 2.3 Consensus size: 47
13868445 TTGCACATAG
13868455 TCACATATCACACACTGAAGCCATAGCCCAACCATGGTCTTACACGG-A
1 TCACATAT--CACACTGAAGCCATAGCCCAACCATGGTCTTACACGGAA
* * * *
13868503 TCACATATCACACTGATGCCATATCCCAGA-TATGGTCTTATACGGAA
1 TCACATATCACACTGAAGCCATAGCCCA-ACCATGGTCTTACACGGAA
*
13868550 GCACATAATCACA
1 TCACAT-ATCACA
13868563 TATCTCTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
46 31 0.60
47 7 0.13
48 14 0.27
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.22
Consensus pattern (47 bp):
TCACATATCACACTGAAGCCATAGCCCAACCATGGTCTTACACGGAA
Found at i:13868681 original size:31 final size:31
Alignment explanation
Indices: 13868636--13868720 Score: 136
Period size: 31 Copynumber: 2.7 Consensus size: 31
13868626 AGCCGAAGCT
13868636 ACCACTTTTTACTGATCAGGTAGTCGGAGCA
1 ACCACTTTTTACTGATCAGGTAGTCGGAGCA
*
13868667 ACCA-TTTTTCACTGATCAGGTAGTCGGAGCT
1 ACCACTTTTT-ACTGATCAGGTAGTCGGAGCA
*
13868698 ACCACTTGTTACTGATCAGGTAG
1 ACCACTTTTTACTGATCAGGTAG
13868721 CTGGAACATT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
30 5 0.10
31 41 0.82
32 4 0.08
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (31 bp):
ACCACTTTTTACTGATCAGGTAGTCGGAGCA
Found at i:13879331 original size:20 final size:19
Alignment explanation
Indices: 13879308--13879366 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 19
13879298 AAGTGTAGGC
13879308 AGAGGCACCAATGTGCAATT
1 AGAGGCACCAA-GTGCAATT
*
13879328 AGAGGCACCGAAGTGCAAAT
1 AGAGGCACC-AAGTGCAATT
*
13879348 AGGGGCACCAAAGTGCAAT
1 AGAGGCACC-AAGTGCAAT
13879367 CTTGTACAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 32 0.94
21 2 0.06
ACGTcount: A:0.37, C:0.20, G:0.29, T:0.14
Consensus pattern (19 bp):
AGAGGCACCAAGTGCAATT
Found at i:13885668 original size:35 final size:35
Alignment explanation
Indices: 13885620--13885778 Score: 174
Period size: 35 Copynumber: 4.5 Consensus size: 35
13885610 GTATGTACAT
13885620 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
13885655 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * ** * *
13885690 ATGTGATGTTTTATTGAGCTTGTATATTCAGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * *
13885725 ATATGATGATATATTGTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
13885760 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
13885779 CTTGAGTATT
Statistics
Matches: 98, Mismatches: 26, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 98 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:13888095 original size:30 final size:30
Alignment explanation
Indices: 13888061--13888120 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
13888051 ATTTAATACG
13888061 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
13888091 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
13888121 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:13914338 original size:39 final size:40
Alignment explanation
Indices: 13914241--13914422 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
13914231 AATGATGTCT
* * *
13914241 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCC
* *
13914281 GGACTAA-TATCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGT-CCCGAAGGCATTTGTGCGAGTTACTAATTCC
* * *
13914321 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
13914360 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
13914400 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
13914423 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 17, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
39 36 0.30
40 74 0.62
41 9 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:13914444 original size:79 final size:79
Alignment explanation
Indices: 13914291--13914455 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
13914281 GGACTAATAT
* **
13914291 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
13914356 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* *
13914370 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
13914433 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
13914449 CCGAAGG
1 CCGAAGG
13914456 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.66
80 23 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:13923349 original size:17 final size:16
Alignment explanation
Indices: 13923317--13923409 Score: 68
Period size: 17 Copynumber: 5.9 Consensus size: 16
13923307 CTTCTTCTTC
13923317 TTATTATTATTATTTT
1 TTATTATTATTATTTT
13923333 TTATGTATTA--ATTTT
1 TTAT-TATTATTATTTT
*
13923348 TTA-TATTATTCTTTTT
1 TTATTATTATT-ATTTT
* *
13923364 TTCTTATTTTTATTATT
1 TTATTATTATTATT-TT
* *
13923381 TTATCACTATTA-TTT
1 TTATTATTATTATTTT
* *
13923396 TCATTGTTATTATT
1 TTATTATTATTATT
13923410 GATTCATTCT
Statistics
Matches: 58, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
13 5 0.09
15 18 0.31
16 14 0.24
17 21 0.36
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (16 bp):
TTATTATTATTATTTT
Found at i:13923362 original size:13 final size:13
Alignment explanation
Indices: 13923320--13923380 Score: 63
Period size: 13 Copynumber: 4.6 Consensus size: 13
13923310 CTTCTTCTTA
13923320 TTATTATTATTTT
1 TTATTATTATTTT
13923333 TTATGTATTAATTTT
1 TTAT-TATT-ATTTT
13923348 TTA-TATTATTCTT
1 TTATTATTATT-TT
* *
13923361 TTTTTCTTA-TTT
1 TTATTATTATTTT
13923373 TTATTATT
1 TTATTATT
13923381 TTATCACTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
12 11 0.28
13 13 0.32
14 8 0.20
15 8 0.20
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:13923384 original size:14 final size:15
Alignment explanation
Indices: 13923317--13923409 Score: 55
Period size: 15 Copynumber: 5.9 Consensus size: 15
13923307 CTTCTTCTTC
13923317 TTATTATTATTATTTT
1 TTATTATTATTA-TTT
13923333 TTATGTATTAATT-TTT
1 TTAT-TATT-ATTATTT
*
13923349 TATATTATTCTT-TTT
1 T-TATTATTATTATTT
* *
13923364 TTCTTATTTTTATTATT
1 TTATTATTATTA-T-TT
* *
13923381 TTATCACTATTATTT
1 TTATTATTATTATTT
* *
13923396 TCATTGTTATTATT
1 TTATTATTATTATT
13923410 GATTCATTCT
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
14 8 0.13
15 18 0.30
16 14 0.23
17 17 0.28
18 3 0.05
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (15 bp):
TTATTATTATTATTT
Found at i:13923392 original size:50 final size:50
Alignment explanation
Indices: 13923293--13923396 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
13923283 TTTCTTTTAT
* *
13923293 TTTTTTATTATATTCTTCTTCTTCTTATTATTATTATTTTTTATGTATTAA
1 TTTTTTATTATATTCTTCTTCTTCTTATTATTATTATTTTTCATCTATT-A
* *
13923344 TTTTTTA-TATTATTCTT-TTTTTCTTATTTTTATTATTTTATCA-CTATTA
1 TTTTTTATTA-TATTCTTCTTCTTCTTATTATTATTATTTT-TCATCTATTA
13923393 TTTT
1 TTTT
13923397 CATTGTTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
49 5 0.11
50 26 0.55
51 16 0.34
ACGTcount: A:0.20, C:0.08, G:0.01, T:0.71
Consensus pattern (50 bp):
TTTTTTATTATATTCTTCTTCTTCTTATTATTATTATTTTTCATCTATTA
Found at i:13924982 original size:24 final size:25
Alignment explanation
Indices: 13924953--13925007 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
13924943 TTTTTCTTCT
* *
13924953 ATTTTTATTTTTTTAGACTA-ATTTC
1 ATTTTTATTTTTTGA-ACTATATTTA
13924978 ATTTTTATTTTTTGAACTATATTTA
1 ATTTTTATTTTTTGAACTATATTTA
13925003 ATTTT
1 ATTTT
13925008 ATGGTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.65
Consensus pattern (25 bp):
ATTTTTATTTTTTGAACTATATTTA
Found at i:13935803 original size:46 final size:46
Alignment explanation
Indices: 13935668--13935848 Score: 170
Period size: 46 Copynumber: 3.9 Consensus size: 46
13935658 GTTATTATGA
* * * * * *
13935668 GCTAGCGTAAGACATATTTGGGACATGCATCGGCCAC-AGTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAACGAG-ACGAGT
* * * **
13935714 ACCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAACGAGACGAGT
*
13935762 GCTAGTGTAAGACGTGTCTGGGACATGCATCGGCAACGAGACGTAAGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAACGAGACG--AGT
* *
13935810 --TAGTGTAAGACATGTCTGGGACATGCATTGGCTACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAACGAGA
13935849 TGTGTCAATG
Statistics
Matches: 112, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
46 60 0.54
47 25 0.22
48 25 0.22
49 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAACGAGACGAGT
Found at i:13938738 original size:93 final size:93
Alignment explanation
Indices: 13938625--13938795 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
13938615 GCCCATCAGC
* *
13938625 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13938690 CGAGTTCGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
* *
13938718 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13938783 CGAGTTCGGATGC
66 CGAGTTCGGATGC
13938796 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:13938792 original size:46 final size:46
Alignment explanation
Indices: 13938625--13938792 Score: 209
Period size: 46 Copynumber: 3.6 Consensus size: 46
13938615 GCCCATCAGC
* * * *
13938625 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
* *
13938671 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-T
1 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
13938718 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
13938764 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
13938793 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 56 0.53
47 30 0.29
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):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
Found at i:13938811 original size:46 final size:46
Alignment explanation
Indices: 13938666--13938804 Score: 153
Period size: 47 Copynumber: 3.0 Consensus size: 46
13938656 TTCGCATCCA
13938666 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * *
13938714 TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
13938759 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
13938805 CTAGTGACAT
Statistics
Matches: 77, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 29 0.38
47 31 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:13943041 original size:39 final size:39
Alignment explanation
Indices: 13942917--13943021 Score: 192
Period size: 39 Copynumber: 2.7 Consensus size: 39
13942907 GAGATTGGAA
13942917 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
13942956 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
* *
13942995 ATATCCGGACTTGAGGTCCGCAGGCTA
1 ATATCCGGACATGAGATCCGCAGGCTA
13943022 CGTGCTGGGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (39 bp):
ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
Found at i:13944558 original size:27 final size:27
Alignment explanation
Indices: 13944528--13944676 Score: 167
Period size: 27 Copynumber: 5.6 Consensus size: 27
13944518 ATATTGAGTC
* * *
13944528 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAATT
*
13944555 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAATT
* **
13944581 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAATT
* *
13944608 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAATT
* * *
13944635 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAATT
13944662 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13944677 GTACAATTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 23 0.22
27 81 0.77
28 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAATT
Found at i:13944648 original size:54 final size:53
Alignment explanation
Indices: 13944528--13944676 Score: 174
Period size: 53 Copynumber: 2.8 Consensus size: 53
13944518 ATATTGAGTC
* * * * * *
13944528 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAT
1 CGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTACATAATCAAT
* * * * *
13944581 CGCACACTTAGTGCCACATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTA-CATAATCA-AT
13944635 CGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCT
1 CGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCT
13944677 GTACAATTTA
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
52 1 0.01
53 41 0.51
54 39 0.48
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (53 bp):
CGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTACATAATCAAT
Found at i:13979401 original size:40 final size:40
Alignment explanation
Indices: 13979346--13979556 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
13979336 ATTTGAATGA
*
13979346 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
13979386 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
13979426 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
13979466 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
13979506 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
13979546 TATCC-GGCTAA
1 TATCCGGGCTAA
13979557 ATTCCGAAGA
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.04
40 146 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:13984417 original size:46 final size:47
Alignment explanation
Indices: 13984282--13984452 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 47
13984272 GTTATTATGA
* * * * *
13984282 GCTAGTGTAAGAGATGTCTGGGACATGCATCGGCCAC-ATTA-TGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACTAAGT
* * * *
13984328 GCCAGTTTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACT-AGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACTAAGT
*
13984376 GCTAGTGTAAGACGTGTCTGGGACATGCATCGGCCTCGAGACATAAGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAC-TAAGT
13984424 --TAGTGTAAGACATGTCTGGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
13984453 AGCTATGAGA
Statistics
Matches: 105, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
46 52 0.50
47 27 0.26
48 24 0.23
49 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACTAAGT
Found at i:13991228 original size:18 final size:18
Alignment explanation
Indices: 13991205--13991239 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
13991195 TCAGCAGATT
13991205 ACCCGTCCGGGCTAAATA
1 ACCCGTCCGGGCTAAATA
13991223 ACCCGTCCGGGCTAAAT
1 ACCCGTCCGGGCTAAAT
13991240 CCTTCTCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (18 bp):
ACCCGTCCGGGCTAAATA
Found at i:13994571 original size:17 final size:16
Alignment explanation
Indices: 13994545--13994576 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
13994535 AACAAAACCC
13994545 AAATATAAAATCATTG
1 AAATATAAAATCATTG
13994561 AAATAATAAAATCATT
1 AAAT-ATAAAATCATT
13994577 CGTGATCGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (16 bp):
AAATATAAAATCATTG
Found at i:13994947 original size:14 final size:15
Alignment explanation
Indices: 13994928--13994957 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13994918 GTTTATTATA
13994928 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
13994942 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
13994957 T
1 T
13994958 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:13996705 original size:43 final size:42
Alignment explanation
Indices: 13996617--13996767 Score: 180
Period size: 43 Copynumber: 3.5 Consensus size: 42
13996607 AATGTGATAT
* * *
13996617 TCGGGCCTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTGAAT-A-A-TA
13996660 TCGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTGAGATAATA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTGA-ATAATA
* *
13996703 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATGATA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTG-AATAATA
**
13996746 TCGGGCTTCAAGCCTAGCAGGC
1 TCGGGCTTCGGGCCTAGCAGGC
13996768 GAAATACCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
43 69 0.71
44 17 0.18
45 9 0.09
46 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (42 bp):
TCGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTGAATAATA
Found at i:14013826 original size:28 final size:28
Alignment explanation
Indices: 14013794--14013867 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
14013784 AGTTTGCTAA
14013794 GGACTATCTTATGC-GAAAAGTCCACCAC
1 GGACTATCTTATGCGGAAAA-TCCACCAC
**
14013822 GGACTATCTTATGCGGAAAATCTGCCAC
1 GGACTATCTTATGCGGAAAATCCACCAC
* *
14013850 GAACTATCTTATGTGGAA
1 GGACTATCTTATGCGGAA
14013868 TGTCTGCTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 36 0.88
29 5 0.12
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (28 bp):
GGACTATCTTATGCGGAAAATCCACCAC
Found at i:14015701 original size:93 final size:93
Alignment explanation
Indices: 14015590--14015760 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
14015580 GCCCCTAAGT
* * *
14015590 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
14015655 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
14015683 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
14015748 CGAGTTCGGATGC
66 CGAGTTCGGATGC
14015761 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:14015757 original size:46 final size:45
Alignment explanation
Indices: 14015585--14015757 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 45
14015575 AACCCGCCCC
* * * * *
14015585 TAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-TTAGTATCCA
* * *
14015631 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGT-TACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CTTAGTATCCA
* * *
14015677 TCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGTATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-TTAGTATCCA
14015724 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
14015758 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
45 3 0.03
46 65 0.62
47 34 0.32
48 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACTTAGTATCCA
Found at i:14016214 original size:30 final size:30
Alignment explanation
Indices: 14016180--14016239 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
14016170 ATTTAATACG
14016180 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
14016210 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
14016240 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:14019291 original size:88 final size:88
Alignment explanation
Indices: 14019111--14019293 Score: 253
Period size: 87 Copynumber: 2.1 Consensus size: 88
14019101 CCTGCATCAT
* *
14019111 CTCATTATCTTTTGTCGATCGAATAACAGAAAATGATGCACTGCTGCAAATCTTTTTCTGCATTT
1 CTCATTATCTTTTGTCGATCGAATAACAGAAAAAGATGCACTGCTGCAAATCTTTTTCTACATTT
* * *
14019176 TAACCTCTCACTTAATAAGAGTT
66 AAACCTCCCACTTAATAAGAGTA
* * * *
14019199 CTCATTGTC-TTTGTTGATCGAATAACAGAAAAAGATGCACTGTTGCAAATCTTTTTCTACGTTT
1 CTCATTATCTTTTGTCGATCGAATAACAGAAAAAGATGCACTGCTGCAAATCTTTTTCTACATTT
14019263 GAAACCTCCCACTTAATAAGA-TAA
66 -AAACCTCCCACTTAATAAGAGT-A
14019287 CTCATTA
1 CTCATTA
14019294 CCTCGAAATG
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
87 51 0.61
88 32 0.39
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (88 bp):
CTCATTATCTTTTGTCGATCGAATAACAGAAAAAGATGCACTGCTGCAAATCTTTTTCTACATTT
AAACCTCCCACTTAATAAGAGTA
Found at i:14021747 original size:3 final size:3
Alignment explanation
Indices: 14021741--14021777 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14021731 ATAATAAAAT
14021741 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
14021778 TCGAAACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14030667 original size:39 final size:39
Alignment explanation
Indices: 14030538--14030669 Score: 183
Period size: 39 Copynumber: 3.4 Consensus size: 39
14030528 GCATGATATT
* * * *
14030538 TAGAAACATATCTGGACTTGAGGTCTGTAGGCTATGTGC
1 TAGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
* *
14030577 TGGAAACATATCAGGACTTGAGGTCCGCAGGCTACGTGC
1 TAGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
* *
14030616 TGGAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TAGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
14030655 TAGAAATATATCCGG
1 TAGAAACATATCCGG
14030670 GCCTAAAGAC
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (39 bp):
TAGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
Found at i:14034221 original size:16 final size:16
Alignment explanation
Indices: 14034200--14034234 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
14034190 CAATTTTCTA
*
14034200 AGATAGAAGACTGCTG
1 AGATAGAAGACTACTG
14034216 AGATAGAAGACTACTG
1 AGATAGAAGACTACTG
14034232 AGA
1 AGA
14034235 ATGGAGGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.29, T:0.17
Consensus pattern (16 bp):
AGATAGAAGACTACTG
Found at i:14037532 original size:9 final size:10
Alignment explanation
Indices: 14037511--14037578 Score: 57
Period size: 10 Copynumber: 6.5 Consensus size: 10
14037501 GGATTCAGTT
14037511 TTTTCTTCTTC
1 TTTTC-TCTTC
14037522 TTTTC-CTTC
1 TTTTCTCTTC
*
14037531 TTTTCTTTTC
1 TTTTCTCTTC
*
14037541 TTTTCTTTTC
1 TTTTCTCTTC
* *
14037551 TCTTCATCTAC
1 TTTTC-TCTTC
14037562 TTTCTCTTCTTC
1 TTT-TC-TCTTC
14037574 TTTTC
1 TTTTC
14037579 CTCCATAGTC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
9 9 0.19
10 17 0.36
11 12 0.26
12 9 0.19
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTCTCTTC
Found at i:14037538 original size:5 final size:5
Alignment explanation
Indices: 14037511--14037551 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
14037501 GGATTCAGTT
*
14037511 TTTTC TTCTTC TTTTC -CTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
14037552 CTTCATCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.09
5 24 0.75
6 5 0.16
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:14041105 original size:17 final size:19
Alignment explanation
Indices: 14041063--14041106 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
14041053 ATGAAATTTT
*
14041063 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
14041082 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
14041100 AA-TATTA
1 AATTATTA
14041107 CTCTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:14041221 original size:15 final size:15
Alignment explanation
Indices: 14041201--14041230 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14041191 ATATTTATAA
14041201 AATTATTATCATTAT
1 AATTATTATCATTAT
*
14041216 AATTATTATTATTAT
1 AATTATTATCATTAT
14041231 TAGATAGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
AATTATTATCATTAT
Found at i:14042046 original size:20 final size:20
Alignment explanation
Indices: 14042021--14042092 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
14042011 GGATTCAGTT
14042021 TTTTCTTCTTCTTTTC-CTTC
1 TTTTCTT-TTCTTTTCTCTTC
*
14042041 TTTTCTTTTCTTTTCTTTTC
1 TTTTCTTTTCTTTTCTCTTC
*
14042061 TTTTCTTTTCTTTTCATCTAC
1 TTTTCTTTTCTTTTC-TCTTC
14042082 -TTTCTTTTCTT
1 TTTTCTTTTCTT
14042093 CTTTTCCTGC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
19 8 0.17
20 36 0.77
21 3 0.06
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTCTTTTCTTTTCTCTTC
Found at i:14042092 original size:5 final size:5
Alignment explanation
Indices: 14042021--14042075 Score: 85
Period size: 5 Copynumber: 11.0 Consensus size: 5
14042011 GGATTCAGTT
*
14042021 TTTTC TTCTTC TTTTC -CTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
14042071 TTTTC
1 TTTTC
14042076 ATCTACTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
4 3 0.07
5 38 0.83
6 5 0.11
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:14042853 original size:8 final size:8
Alignment explanation
Indices: 14042840--14042871 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
14042830 CTAGATCGGC
14042840 AAAAGCCG
1 AAAAGCCG
14042848 AAAAGCCG
1 AAAAGCCG
*
14042856 AAATGCCG
1 AAAAGCCG
14042864 AAAAGCCG
1 AAAAGCCG
14042872 GTATTTTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:14044097 original size:11 final size:11
Alignment explanation
Indices: 14044081--14044105 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14044071 TTTAGATAAA
14044081 ACAAGACCTAT
1 ACAAGACCTAT
14044092 ACAAGACCTAT
1 ACAAGACCTAT
14044103 ACA
1 ACA
14044106 GTAATGCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.28, G:0.08, T:0.16
Consensus pattern (11 bp):
ACAAGACCTAT
Found at i:14044865 original size:43 final size:43
Alignment explanation
Indices: 14044760--14044874 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
14044750 ATATCCCGGA
* * * *
14044760 TATGGTCTTACATGTTATCACATATCAATGCTAATAGCCCAGC
1 TATGGTCTTACATGTAATCACATAACGATGCCAATAGCCCAGC
*** *
14044803 TATGGTCTTACAAAAAATCAAATAACGATGCCAAT-GTCCCAGAC
1 TATGGTCTTACATGTAATCACATAACGATGCCAATAG-CCCAG-C
14044847 -ATGGTCTTACATGTAATCACATAACGAT
1 TATGGTCTTACATGTAATCACATAACGAT
14044875 AATCCTAATG
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
42 1 0.02
43 56 0.97
44 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.29
Consensus pattern (43 bp):
TATGGTCTTACATGTAATCACATAACGATGCCAATAGCCCAGC
Found at i:14048571 original size:104 final size:104
Alignment explanation
Indices: 14048449--14048672 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
14048439 AATGGATATC
14048449 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
14048514 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
14048553 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
14048618 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
14048657 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
14048673 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:14050467 original size:60 final size:60
Alignment explanation
Indices: 14050371--14050491 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
14050361 GAGAAACCTT
14050371 TCACAAATAATCTATAATAGCCGGCTAGTCCCAGAAAAATACGGACTTCAGATACATTTC
1 TCACAAATAATCTATAATAGCCGGCTAGTCCCAGAAAAATACGGACTTCAGATACATTTC
* *
14050431 TCACAAATAATCTATAATAGCCGGCTAGTCCTAGAAAAATATGGACTTCAGATACATTTC
1 TCACAAATAATCTATAATAGCCGGCTAGTCCCAGAAAAATACGGACTTCAGATACATTTC
14050491 T
1 T
14050492 TAGAGGCTTC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.27
Consensus pattern (60 bp):
TCACAAATAATCTATAATAGCCGGCTAGTCCCAGAAAAATACGGACTTCAGATACATTTC
Found at i:14051304 original size:35 final size:36
Alignment explanation
Indices: 14051258--14051331 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 36
14051248 TGGATACTCG
14051258 CACACAACTTGTATTGATTCAATCTTTGTTT-CTGT
1 CACACAACTTGTATTGATTCAATCTTTGTTTCCTGT
* * *
14051293 CACACAACTTGTATTGTTTCGATCTTTTTTTCCTGT
1 CACACAACTTGTATTGATTCAATCTTTGTTTCCTGT
14051329 CAC
1 CAC
14051332 TTTCTTATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
35 28 0.80
36 7 0.20
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (36 bp):
CACACAACTTGTATTGATTCAATCTTTGTTTCCTGT
Found at i:14055087 original size:43 final size:43
Alignment explanation
Indices: 14054967--14055108 Score: 119
Period size: 43 Copynumber: 3.3 Consensus size: 43
14054957 AACTCGTACA
* * ****
14054967 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-ATATCG
1 ATGCCAATGTCCCAGATAGGGTCTTACACAAAATCACAATA-CG
* * **
14055009 ATGCCACTGTCCCAGATAGGGTCTTACACAAAATCATAATGTG
1 ATGCCAATGTCCCAGATAGGGTCTTACACAAAATCACAATACG
* ** *
14055052 ATGCCAATGTCCCAGACT-TGGTCTTACACGTAATCACAATACA
1 ATGCCAATGTCCCAGA-TAGGGTCTTACACAAAATCACAATACG
14055095 ATGCCAATGTCCCA
1 ATGCCAATGTCCCA
14055109 TACATGGCCT
Statistics
Matches: 79, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
42 5 0.06
43 71 0.90
44 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGATAGGGTCTTACACAAAATCACAATACG
Found at i:14058137 original size:28 final size:28
Alignment explanation
Indices: 14058095--14058169 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
14058085 TGGCCTCTTT
*
14058095 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
14058123 AGGCCTAATCACATTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
*
14058151 AGGCCCAAGCACATTCATA
1 AGGCCCAATCACATTCATA
14058170 GTCATGCAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:14067012 original size:18 final size:18
Alignment explanation
Indices: 14066972--14067014 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
14066962 CTTTAACATG
*
14066972 TAAATAAAACTAACTTGTA
1 TAAA-AAAACTAACTTGAA
14066991 TAAAAAAACTAACTT-AA
1 TAAAAAAACTAACTTGAA
14067008 CTAAAAA
1 -TAAAAA
14067015 CTATGAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 17 0.77
19 4 0.18
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (18 bp):
TAAAAAAACTAACTTGAA
Found at i:14070351 original size:5 final size:5
Alignment explanation
Indices: 14070333--14070364 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
14070323 CACTTGCTTC
14070333 TGATA TGA-A TGATA TGATA TGATA TGATA TGA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGA
14070365 ACTAATCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (5 bp):
TGATA
Found at i:14078603 original size:65 final size:65
Alignment explanation
Indices: 14078514--14078662 Score: 174
Period size: 65 Copynumber: 2.3 Consensus size: 65
14078504 TTGCGACTAC
* * **
14078514 CGTAGCTCTTTTTGAGCGTACTGTTTAT-TGATCAATTGTGATCCTGCATATGTTGTGGACACAA
1 CGTAGCTCTTTGTGAGCGTACTG-TTATGCGATCAATTGTGATCCTGCATATGTTGCAGACACAA
14078578 A
65 A
* * **
14078579 CGTAGCTCTTTGTGAGTGTCCTGTTATGCGATCGGTTGTGATCCTGCATATGTTGCAGACACAAA
1 CGTAGCTCTTTGTGAGCGTACTGTTATGCGATCAATTGTGATCCTGCATATGTTGCAGACACAAA
** * *
14078644 CACAACTCTTTATGAGCGT
1 CGTAGCTCTTTGTGAGCGT
14078663 CCTAATATGG
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
64 4 0.06
65 66 0.94
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (65 bp):
CGTAGCTCTTTGTGAGCGTACTGTTATGCGATCAATTGTGATCCTGCATATGTTGCAGACACAAA
Found at i:14078781 original size:26 final size:23
Alignment explanation
Indices: 14078722--14078788 Score: 62
Period size: 26 Copynumber: 2.7 Consensus size: 23
14078712 TATTACATGC
*
14078722 CTCTTTGTGAGCATTCCTGATACG
1 CTCTTTGTGAGC-TTCCTGATAAG
*
14078746 CTCTTCGTGAGCTTCCTGATTAAAAG
1 CTCTTTGTGAGCTTCCTGA-T--AAG
* *
14078772 TTCTTTGTGAACTTCCT
1 CTCTTTGTGAGCTTCCT
14078789 ATTTTAAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 7 0.20
24 12 0.34
26 16 0.46
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (23 bp):
CTCTTTGTGAGCTTCCTGATAAG
Done.