Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 48 of 333
Found at i:13863298 original size:104 final size:104
Alignment explanation
Indices: 13863093--13863644 Score: 504
Period size: 104 Copynumber: 5.3 Consensus size: 104
13863083 ATCTCTCTGA
* *
13863093 GTTACCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTTAACATATTTAAGATCACAACTCCCA
1 GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTTAACATATTTAAGATCGCAACTCCCA
* *** * * * * *
13863158 AACAGCTTGTGAACTTACATTCCCAACTAATGTTTAAAG
66 AATAGCTCACGGACCTACGTTCCCAACTGATATTTAAAG
* * * * * * *
13863197 ATTAGTTGATTTAAAATCGTAACCTAAATTTCTCTGAGTTAACATATTTAATATCGCAACTCCCA
1 GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTTAACATATTTAAGATCGCAACTCCCA
*
13863262 AATAGCTCACGGACCTACGTTCTCAGA-TGATATTTAAAG
66 AATAGCTCACGGACCTACGTTCCCA-ACTGATATTTAAAG
* *** *
13863301 GTTAGCTGATTTAATATCGCAACCTAAATCTCTCTAAGTTAGTTTATTTAAGATCTCAACTCCCA
1 GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTTAACATATTTAAGATCGCAACTCCCA
* * **
13863366 AATAGCTCACGGACCTATGTTACCAGTTGA-AGTTTAAAG
66 AATAGCTCACGGACCTACGTTCCCAACTGATA-TTTAAAG
* * * ** *
13863405 GTTAGCTGATTTAAGATCG-TACCTATATCTCTCTGAGTTAATTTATTTAAGTTCGCAACTCCCA
1 GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTTAACATATTTAAGATCGCAACTCCCA
* ** ** * *
13863469 AAAAAATCGTGGACCTACGTTCCCAATTGATGTTTAAAG
66 AATAGCTCACGGACCTACGTTCCCAACTGATATTTAAAG
** * * * * *
13863508 GTTATTTGATTTAAGA-CTGGAACCTATATCTCTCTAAG-TAGC-TGATTTAAGATTGCATCTCC
1 GTTAGCTGATTTAAGATC-GCAACCTAAATCTCTCTAAGTTAACAT-ATTTAAGATCGCAACTCC
* * ** * * * *
13863570 CAAACAACTTGCAGACCTACATTCCCAATATGATGTTTAAAG
64 CAAATAGCTCACGGACCTACGTTCCCAA-CTGATATTTAAAG
*
13863612 GTTAGCTGATTTAAGATCGCAACCTATATCTCT
1 GTTAGCTGATTTAAGATCGCAACCTAAATCTCT
13863645 TTGAGTTAGC
Statistics
Matches: 370, Mismatches: 69, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
102 2 0.01
103 123 0.33
104 243 0.66
105 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (104 bp):
GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTTAACATATTTAAGATCGCAACTCCCA
AATAGCTCACGGACCTACGTTCCCAACTGATATTTAAAG
Found at i:13863541 original size:207 final size:207
Alignment explanation
Indices: 13863093--13863652 Score: 553
Period size: 207 Copynumber: 2.7 Consensus size: 207
13863083 ATCTCTCTGA
* * **
13863093 GTTACCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTTAACAT-ATTTAAGATCACAACTCCC
1 GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAG-TAGC-TGATTTAAGATTGCAACTCCC
* *** * * * * * *
13863157 AAACAGCT-TGTGAACTTACATTCCCAACTA--ATGTTTAAAGATTAGTTGATTTAAAATCGTAA
64 AAACAACTCACAG-ACCTACATTACCAA-TATGAAGTTTAAAGGTTAGCTGATTTAAGATCGT-A
* * * **
13863219 CCTAAATTTCTCTGAGTTAACATATTTAATATCGCAACTCCCAAATAGCTCACGGACCTACGTTC
126 CCTATATCTCTCTGAGTTAACATATTTAATATCGCAACTCCCAAAAAAATCACGGACCTACGTTC
*
13863284 TCAGATGATATTTAAAG
191 CCAGATGATATTTAAAG
* * *
13863301 GTTAGCTGATTTAATATCGCAACCTAAATCTCTCTAAGTTAGTTTATTTAAGATCT-CAACTCCC
1 GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAG-TAGCTGATTTAAGAT-TGCAACTCCC
* * * ** *
13863365 AAATAGCTCACGGACCTATGTTACCAGT-TGAAGTTTAAAGGTTAGCTGATTTAAGATCGTACCT
64 AAACAACTCACAGACCTACATTACCAATATGAAGTTTAAAGGTTAGCTGATTTAAGATCGTACCT
** **
13863429 ATATCTCTCTGAGTTAATTTATTTAAGT-TCGCAACTCCCAAAAAAATCGTGGACCTACGTTCCC
129 ATATCTCTCTGAGTTAACATATTTAA-TATCGCAACTCCCAAAAAAATCACGGACCTACGTTCCC
*
13863493 A-ATTGATGTTTAAAG
193 AGA-TGATATTTAAAG
** * * *
13863508 GTTATTTGATTTAAGA-CTGGAACCTATATCTCTCTAAGTAGCTGATTTAAGATTGCATCTCCCA
1 GTTAGCTGATTTAAGATC-GCAACCTAAATCTCTCTAAGTAGCTGATTTAAGATTGCAACTCCCA
** * * *
13863572 AACAACTTGCAGACCTACATTCCCAATATGATGTTTAAAGGTTAGCTGATTTAAGATCGCAACCT
65 AACAACTCACAGACCTACATTACCAATATGAAGTTTAAAGGTTAGCTGATTTAAGATCG-TACCT
*
13863637 ATATCTCTTTGAGTTA
129 ATATCTCTCTGAGTTA
13863653 GCAAAGTTAA
Statistics
Matches: 292, Mismatches: 49, Indels: 22
0.80 0.13 0.06
Matches are distributed among these distances:
205 1 0.00
206 41 0.14
207 131 0.45
208 118 0.40
209 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (207 bp):
GTTAGCTGATTTAAGATCGCAACCTAAATCTCTCTAAGTAGCTGATTTAAGATTGCAACTCCCAA
ACAACTCACAGACCTACATTACCAATATGAAGTTTAAAGGTTAGCTGATTTAAGATCGTACCTAT
ATCTCTCTGAGTTAACATATTTAATATCGCAACTCCCAAAAAAATCACGGACCTACGTTCCCAGA
TGATATTTAAAG
Found at i:13865144 original size:46 final size:46
Alignment explanation
Indices: 13865084--13865322 Score: 354
Period size: 46 Copynumber: 5.2 Consensus size: 46
13865074 TTTGACATAA
* * * * *
13865084 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* *
13865130 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
13865176 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
13865222 TGCCATGGTATCTTTCAATCATGGTCTTACTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
13865268 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
13865314 TGCCATGGT
1 TGCCATGGT
13865323 TTCATATCAG
Statistics
Matches: 179, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 175 0.98
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:13867397 original size:11 final size:11
Alignment explanation
Indices: 13867381--13867428 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
13867371 CTTTATATAC
13867381 TAATAAAATAA
1 TAATAAAATAA
13867392 TAATAAAATATA
1 TAATAAAATA-A
* *
13867404 TTATTAAAATAT
1 -TAATAAAATAA
13867416 TAATAAAATAA
1 TAATAAAATAA
13867427 TA
1 TA
13867429 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 21 0.68
12 1 0.03
13 9 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:13867411 original size:24 final size:24
Alignment explanation
Indices: 13867375--13867430 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
13867365 TTCTTTCTTT
*
13867375 ATATACTAATAAAATAATAATAAA
1 ATATATTAATAAAATAATAATAAA
* *
13867399 ATATATTATTAAAATATTAATAAA
1 ATATATTAATAAAATAATAATAAA
13867423 ATAATATT
1 AT-ATATT
13867431 TATCTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATATTAATAAAATAATAATAAA
Found at i:13874537 original size:8 final size:8
Alignment explanation
Indices: 13874524--13874554 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
13874514 ATTAATTCAT
13874524 TTCTTATG
1 TTCTTATG
13874532 TTCTTATG
1 TTCTTATG
13874540 TTCTTATG
1 TTCTTATG
13874548 TTCTTAT
1 TTCTTAT
13874555 TATTAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.65
Consensus pattern (8 bp):
TTCTTATG
Found at i:13879331 original size:42 final size:42
Alignment explanation
Indices: 13879265--13879428 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
13879255 CTTCGTTTTC
** *
13879265 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* * *
13879308 T-GATGTCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
13879349 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
*
13879398 TCGATGGCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
13879429 GAATCACATA
Statistics
Matches: 103, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
41 2 0.02
42 61 0.59
43 1 0.01
45 2 0.02
48 1 0.01
49 36 0.35
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:13879409 original size:49 final size:48
Alignment explanation
Indices: 13879335--13879517 Score: 194
Period size: 49 Copynumber: 3.8 Consensus size: 48
13879325 TATGGTCTTA
*
13879335 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
*
13879385 CACATATCACATATCGATGGCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * * * * *
13879433 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GAAT
* * * *
13879480 CATATATCAC--ACCGATGCCATATCCCAGATATGGTCTT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTT
13879518 GTACGGAAAT
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
46 25 0.21
47 36 0.31
48 13 0.11
49 37 0.32
50 6 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:13879502 original size:47 final size:46
Alignment explanation
Indices: 13879350--13879517 Score: 192
Period size: 47 Copynumber: 3.6 Consensus size: 46
13879340 ATTCATATAT
* *
13879350 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 CGATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCAC--AC
* * * *
13879399 CGATGGCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
* * * * *
13879445 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCACAC
*
13879492 CGATGCCATATCCCAGATATGGTCTT
1 CGATGCCATAGCCCAGATATGGTCTT
13879518 GTACGGAAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
46 26 0.25
47 37 0.36
48 11 0.11
49 30 0.29
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
Found at i:13879530 original size:95 final size:94
Alignment explanation
Indices: 13879309--13879517 Score: 225
Period size: 95 Copynumber: 2.3 Consensus size: 94
13879299 TTCACATAAT
* * * * *
13879309 GATGTCATAGCCCAGCTATGGTCTTACAC-ATAT-TCATATAT--C-GATGCCATAGCCCAGCTA
1 GATGCCATAGCCCAGATATGGTCTTACACGA-ATCACATATCTCACTGATGCCATAGCCCAGATA
* *
13879369 TGGTCTTACACGTAATCACATATCACATATC
65 TGGTCTTACACGTAAGCACATATCACA-ACC
* * *
13879400 GATGGCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGCCATATCCCAGATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
* *
13879465 GGTCTTATACAGT-AGCATATATCAC-ACC
66 GGTCTTACAC-GTAAGCACATATCACAACC
*
13879493 GATGCCATATCCCAGATATGGTCTT
1 GATGCCATAGCCCAGATATGGTCTT
13879518 GTACGGAAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
91 30 0.30
92 7 0.07
93 24 0.24
94 1 0.01
95 36 0.36
96 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (94 bp):
GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
GGTCTTACACGTAAGCACATATCACAACC
Found at i:13879575 original size:31 final size:31
Alignment explanation
Indices: 13879540--13879626 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
13879530 CTTGTCACTT
13879540 GTAGCCGGTA-CTACCACTTGTCACTGATCAG
1 GTAGCCGG-AGCTACCACTTGTCACTGATCAG
* *
13879571 GTAGCCGGAGTTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTGTCACTGATCAG
* * *
13879602 GTAGCTGAAGCTACCACTTATCACT
1 GTAGCCGGAGCTACCACTTGTCACT
13879627 TTCACTTTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
30 1 0.02
31 48 0.98
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTGTCACTGATCAG
Found at i:13879677 original size:50 final size:50
Alignment explanation
Indices: 13879602--13879727 Score: 234
Period size: 50 Copynumber: 2.5 Consensus size: 50
13879592 CACTGATCAG
* *
13879602 GTAGCTGAAGCTACCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
13879652 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
13879702 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
13879728 GTTGCCATGG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
Found at i:13886600 original size:16 final size:17
Alignment explanation
Indices: 13886567--13886601 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13886557 ATCCAGTTCT
*
13886567 TTCTTCTCAATCCTTTC
1 TTCTTCTAAATCCTTTC
13886584 TTCTTCTAAAT-CTTTC
1 TTCTTCTAAATCCTTTC
13886600 TT
1 TT
13886602 TTCAACCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.14, C:0.29, G:0.00, T:0.57
Consensus pattern (17 bp):
TTCTTCTAAATCCTTTC
Found at i:13889533 original size:16 final size:16
Alignment explanation
Indices: 13889512--13889543 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13889502 TAATGTGTTT
13889512 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
13889528 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
13889544 ATGCAGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:13889725 original size:45 final size:45
Alignment explanation
Indices: 13889657--13889875 Score: 330
Period size: 45 Copynumber: 4.9 Consensus size: 45
13889647 AAGAGGTGGA
** * * *
13889657 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
13889702 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
13889747 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
13889792 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
13889837 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
13889876 CCATGGCCGA
Statistics
Matches: 160, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 160 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:13889810 original size:90 final size:90
Alignment explanation
Indices: 13889657--13889875 Score: 375
Period size: 90 Copynumber: 2.4 Consensus size: 90
13889647 AAGAGGTGGA
* *
13889657 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGACCAACATCATGCATAATTCAT
1 CAACATCATGCATAATTTATGGAACAAATTGAGGAAGCATTTGACCAACATCATGCATAATTCAT
*
13889722 GGAAGAATTTGAGGAAGCATTTGGC
66 GGAAGAATTTAAGGAAGCATTTGGC
* * *
13889747 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGACCAACATCATGCATAATTCAT
1 CAACATCATGCATAATTTATGGAACAAATTGAGGAAGCATTTGACCAACATCATGCATAATTCAT
13889812 GGAAGAATTTAAGGAAGCATTTGGC
66 GGAAGAATTTAAGGAAGCATTTGGC
*
13889837 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTTATGGAACAAATTGAGGAAGCA
13889876 CCATGGCCGA
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 119 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (90 bp):
CAACATCATGCATAATTTATGGAACAAATTGAGGAAGCATTTGACCAACATCATGCATAATTCAT
GGAAGAATTTAAGGAAGCATTTGGC
Found at i:13892723 original size:11 final size:11
Alignment explanation
Indices: 13892707--13892732 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13892697 CCAAAAGCTG
13892707 ATACATTGAGT
1 ATACATTGAGT
13892718 ATACATTGAGT
1 ATACATTGAGT
13892729 ATAC
1 ATAC
13892733 GGCTTCTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (11 bp):
ATACATTGAGT
Found at i:13898035 original size:17 final size:18
Alignment explanation
Indices: 13898013--13898047 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13898003 CAGCAGCACC
*
13898013 TGAAACT-GCTGGAACAT
1 TGAAACTGGATGGAACAT
13898030 TGAAACTGGATGGAACAT
1 TGAAACTGGATGGAACAT
13898048 GTTGTGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (18 bp):
TGAAACTGGATGGAACAT
Found at i:13904900 original size:11 final size:11
Alignment explanation
Indices: 13904864--13904902 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
13904854 AAAAAAACTG
13904864 TTTTTTTATTA
1 TTTTTTTATTA
13904875 TTTTCTTTA-TA
1 TTTT-TTTATTA
*
13904886 TTTTTTTATTG
1 TTTTTTTATTA
13904897 TTTTTT
1 TTTTTT
13904903 CACTATTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (11 bp):
TTTTTTTATTA
Found at i:13904909 original size:22 final size:22
Alignment explanation
Indices: 13904864--13904911 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
13904854 AAAAAAACTG
*
13904864 TTTTTTTATTATTTTCTTTATA
1 TTTTTTTATTATTTTCTTCATA
*
13904886 TTTTTTTATTGTTTT-TTCACTA
1 TTTTTTTATTATTTTCTTCA-TA
13904908 TTTT
1 TTTT
13904912 GCTACCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTTTTATTATTTTCTTCATA
Found at i:13905001 original size:18 final size:19
Alignment explanation
Indices: 13904961--13905001 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
13904951 ATTATTTAGA
*
13904961 TATTGTATAATTCTTATTT
1 TATTGTATAATTCTTATTC
13904980 TATTGT-TAATT-TTATTAC
1 TATTGTATAATTCTTATT-C
13904998 TATT
1 TATT
13905002 TTAGAGGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (19 bp):
TATTGTATAATTCTTATTC
Found at i:13909210 original size:5 final size:5
Alignment explanation
Indices: 13909160--13909198 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
13909150 CCAAAATATT
*
13909160 ATTTA TTTTA A-TTA ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
13909199 CTAATTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTTA
Found at i:13912260 original size:23 final size:23
Alignment explanation
Indices: 13912230--13912293 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
13912220 TACACCATAC
13912230 CAGTAGGCACTGAAGTGCTTAAA
1 CAGTAGGCACTGAAGTGCTTAAA
* * *
13912253 CAGTAGGCACTAAAGTGC-TGAT
1 CAGTAGGCACTGAAGTGCTTAAA
* *
13912275 CAGAAGGCACCGAAGTGCT
1 CAGTAGGCACTGAAGTGCT
13912294 GGATAGTAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 17 0.50
23 17 0.50
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (23 bp):
CAGTAGGCACTGAAGTGCTTAAA
Found at i:13916679 original size:5 final size:5
Alignment explanation
Indices: 13916669--13916708 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
13916659 AAAATTTGTG
*
13916669 TTATT TTATT TT-TT TT-CT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
13916709 TTTCACAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 7 0.22
5 25 0.78
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:13921137 original size:5 final size:5
Alignment explanation
Indices: 13921127--13921167 Score: 66
Period size: 5 Copynumber: 8.4 Consensus size: 5
13921117 AAAATTTGTG
*
13921127 TTATT TTATT TTATT TT-CT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
13921168 TTCACAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 3 0.09
5 30 0.91
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:13921148 original size:14 final size:15
Alignment explanation
Indices: 13921131--13921167 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
13921121 TTTGTGTTAT
13921131 TTTATTTTATTTT-C
1 TTTATTTTATTTTAC
*
13921145 TTTATTTTATTTTAT
1 TTTATTTTATTTTAC
13921160 TTTATTTT
1 TTTATTTT
13921168 TTCACAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTTTATTTTAC
Found at i:13921725 original size:45 final size:44
Alignment explanation
Indices: 13921661--13921788 Score: 175
Period size: 44 Copynumber: 2.9 Consensus size: 44
13921651 AACAGAAATG
* * *
13921661 AGTAAAACCATAGCCGAAAGATGCTATGACATCATGATGAAAACA
1 AGTAAAACCATAGCTGAAAGATGTTATGGCATCATGATG-AAACA
* * *
13921706 AGTAAGACCATAGATGAAAGATGTTATGGCAACATGATGAAACA
1 AGTAAAACCATAGCTGAAAGATGTTATGGCATCATGATGAAACA
* *
13921750 AGTAATACCATAGCTGAAAGATGTTATGGCATCAAGATG
1 AGTAAAACCATAGCTGAAAGATGTTATGGCATCATGATG
13921789 GAAGTGAGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 40 0.55
45 33 0.45
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (44 bp):
AGTAAAACCATAGCTGAAAGATGTTATGGCATCATGATGAAACA
Found at i:13924895 original size:22 final size:22
Alignment explanation
Indices: 13924855--13924914 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
13924845 CTTTAGCCAT
*
13924855 TTTTATTTTTATTGCAATT-TAA
1 TTTT-TTTTTATTTCAATTATAA
*
13924877 TTTTGTTTTTATTTTAATTACTAA
1 TTTT-TTTTTATTTCAATTA-TAA
13924901 TTTTTCTTTTATTT
1 TTTTT-TTTTATTT
13924915 ACTTCTGGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 16 0.50
23 1 0.03
24 15 0.47
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (22 bp):
TTTTTTTTTATTTCAATTATAA
Found at i:13934994 original size:30 final size:30
Alignment explanation
Indices: 13934959--13935015 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13934949 TAGGCATTTT
*
13934959 CACACGGGTAA-ACCACACGCTCGTGTGAGA
1 CACACGGG-AAGACCACACGCCCGTGTGAGA
*
13934989 CACACGGGAAGGCCACACGCCCGTGTG
1 CACACGGGAAGACCACACGCCCGTGTG
13935016 GCATGGTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.26, C:0.33, G:0.30, T:0.11
Consensus pattern (30 bp):
CACACGGGAAGACCACACGCCCGTGTGAGA
Found at i:13935089 original size:13 final size:13
Alignment explanation
Indices: 13935071--13935095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13935061 TGAGCACCTT
13935071 CACACGGGCATGG
1 CACACGGGCATGG
13935084 CACACGGGCATG
1 CACACGGGCATG
13935096 TCCCTGTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.32, G:0.36, T:0.08
Consensus pattern (13 bp):
CACACGGGCATGG
Found at i:13936214 original size:52 final size:52
Alignment explanation
Indices: 13936136--13936240 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
13936126 TAAAACAAAG
13936136 TAAACATGTAATATTTAATAAATTCGTATAACATGGTAATTAACTTACCGCT
1 TAAACATGTAATATTTAATAAATTCGTATAACATGGTAATTAACTTACCGCT
* *
13936188 TAAACATTTAATATTTAATAAATTCGTCTAACATGGTAATTAACTTACCGCT
1 TAAACATGTAATATTTAATAAATTCGTATAACATGGTAATTAACTTACCGCT
13936240 T
1 T
13936241 CTTTATATTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (52 bp):
TAAACATGTAATATTTAATAAATTCGTATAACATGGTAATTAACTTACCGCT
Found at i:13936539 original size:27 final size:27
Alignment explanation
Indices: 13936501--13936555 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
13936491 CATTGGAGCT
13936501 TTACTCATCAAATCATTTGAAATACTA
1 TTACTCATCAAATCATTTGAAATACTA
13936528 TTACTCATCAAATCATTTGAAATACTA
1 TTACTCATCAAATCATTTGAAATACTA
13936555 T
1 T
13936556 CTTTATACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (27 bp):
TTACTCATCAAATCATTTGAAATACTA
Found at i:13936893 original size:25 final size:25
Alignment explanation
Indices: 13936865--13936916 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
13936855 TTTGGCTTGA
*
13936865 CATTTACTAAGCAATATCATATATT
1 CATTTACTAAGCAATATCAAATATT
* *
13936890 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
13936915 CA
1 CA
13936917 AATTATTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.38
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:13943740 original size:40 final size:40
Alignment explanation
Indices: 13943696--13943882 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
13943686 TGCGATATAC
13943696 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
13943736 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
13943776 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
* **
13943816 TAAATCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTAC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
* * *
13943855 TAAAACCGGGCTATGTCCCGAAGGCATT
1 TAAATCCGGGTTAAGTCCCGAAGGCATT
13943883 TGAACGAGGA
Statistics
Matches: 141, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 33 0.23
40 108 0.77
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
Found at i:13943903 original size:79 final size:80
Alignment explanation
Indices: 13943673--13943882 Score: 325
Period size: 80 Copynumber: 2.6 Consensus size: 80
13943663 GGACTAAGAT
* *
13943673 CCGAAGGCCTTTGTGCGA-TATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTT
1 CCGAAGGCATTCGTGCGAGT-TACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTT
13943737 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
**
13943753 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
13943818 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
* * * *
13943833 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
13943883 TGAACGAGGA
Statistics
Matches: 119, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
79 33 0.28
80 85 0.71
81 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
AATCCGGGTTAAGTC
Found at i:13946476 original size:46 final size:46
Alignment explanation
Indices: 13946416--13946811 Score: 486
Period size: 46 Copynumber: 9.0 Consensus size: 46
13946406 TTTGACGTGA
* * * * * * *
13946416 TGCCATAGTGTCTTTCAACTATGATCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * * *
13946462 TGCCATGGTATCTTTCAACTATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
13946508 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
13946554 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTT-ATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAT-TTCATATCAGGT
*
13946600 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
13946646 TGCCATAGTATCTGTCAACCATGGTCTT--ACA---C--AT-AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
13946684 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
13946730 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C---GCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
13946768 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
13946812 AGAGCACATT
Statistics
Matches: 311, Mismatches: 20, Indels: 38
0.84 0.05 0.10
Matches are distributed among these distances:
38 63 0.20
39 2 0.01
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 8 0.03
46 221 0.71
47 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:13946695 original size:38 final size:38
Alignment explanation
Indices: 13946642--13946801 Score: 212
Period size: 38 Copynumber: 4.0 Consensus size: 38
13946632 ATTTCATATC
* *
13946642 AGGTTGCCATAGTATCTGTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
13946680 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--AT
**
13946725 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACGC
1 -AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
13946764 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
13946802 TTCATATCAG
Statistics
Matches: 108, Mismatches: 6, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
38 66 0.61
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 2 0.02
46 32 0.30
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
Found at i:13946741 original size:84 final size:84
Alignment explanation
Indices: 13946595--13946811 Score: 389
Period size: 84 Copynumber: 2.6 Consensus size: 84
13946585 CATCTTATAT
*
13946595 CAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTG
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTG
13946660 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
* * *
13946679 TAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTG
*
13946744 TCAACCATGGTCTTACACG
66 TCAACCATGGTCTTACACA
13946763 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
13946812 AGAGCACATT
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 127 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTG
TCAACCATGGTCTTACACA
Found at i:13948941 original size:11 final size:11
Alignment explanation
Indices: 13948925--13948972 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
13948915 CTTTATATAC
13948925 TAATAAAATAA
1 TAATAAAATAA
*
13948936 TAATAAAATATCT
1 TAATAAAATA--A
* *
13948949 TATTAAAATAT
1 TAATAAAATAA
13948960 TAATAAAATAA
1 TAATAAAATAA
13948971 TA
1 TA
13948973 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:13950478 original size:29 final size:29
Alignment explanation
Indices: 13950425--13950507 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
13950415 CACCCTGTTA
**
13950425 TTTTTTTAC-TTTGTTTTTTTCTTTTTAC
1 TTTTTTTACTTTTGTCATTTTCTTTTTAC
13950453 TTTTCTTTACTTTTGTCATTTT-TTTTTAC
1 TTTT-TTTACTTTTGTCATTTTCTTTTTAC
*
13950482 TTTTTTTAAGTTTTGTC-TTTATCTTT
1 TTTTTTT-ACTTTTGTCATTT-TCTTT
13950508 ATTTATTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
28 10 0.21
29 25 0.53
30 12 0.26
ACGTcount: A:0.10, C:0.11, G:0.05, T:0.75
Consensus pattern (29 bp):
TTTTTTTACTTTTGTCATTTTCTTTTTAC
Found at i:13950521 original size:19 final size:19
Alignment explanation
Indices: 13950499--13950540 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13950489 AAGTTTTGTC
*
13950499 TTTATCTTTAT-TTATTTAT
1 TTTAT-TTTATATTATTAAT
*
13950518 TTTATTTTTTATTATTAAT
1 TTTATTTTATATTATTAAT
13950537 TTTA
1 TTTA
13950541 AAAAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATTTTATATTATTAAT
Found at i:13950600 original size:21 final size:23
Alignment explanation
Indices: 13950567--13950613 Score: 80
Period size: 21 Copynumber: 2.1 Consensus size: 23
13950557 CATTTGAAAT
13950567 ATTTTATAATATATATTTTT-AA
1 ATTTTATAATATATATTTTTGAA
13950589 ATTTTA-AATATATATTTTTGAA
1 ATTTTATAATATATATTTTTGAA
13950611 ATT
1 ATT
13950614 ATTTTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTTTATAATATATATTTTTGAA
Found at i:13950605 original size:35 final size:33
Alignment explanation
Indices: 13950565--13950647 Score: 114
Period size: 35 Copynumber: 2.4 Consensus size: 33
13950555 TACATTTGAA
13950565 ATATTTTATAATATATATTTTTAAATTTTAAATAT
1 ATATTTT-TAA-ATATATTTTTAAATTTTAAATAT
*
13950600 ATATTTTTGAAATTATTTTTTTAAATTTTAAATAT
1 ATATTTTT-AAA-TATATTTTTAAATTTTAAATAT
13950635 -TATTTTTAAATAT
1 ATATTTTTAAATAT
13950648 TAAATATATT
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
32 3 0.07
33 3 0.07
34 9 0.20
35 30 0.67
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (33 bp):
ATATTTTTAAATATATTTTTAAATTTTAAATAT
Found at i:13950641 original size:13 final size:13
Alignment explanation
Indices: 13950625--13950649 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13950615 TTTTTTTAAA
13950625 TTTTAAATATTAT
1 TTTTAAATATTAT
13950638 TTTTAAATATTA
1 TTTTAAATATTA
13950650 AATATATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:13950671 original size:20 final size:20
Alignment explanation
Indices: 13950574--13950662 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
13950564 AATATTTTAT
*
13950574 AATATATATTTTTAAATTTTA
1 AATAT-TATTTTTAAATATTA
*
13950595 AATATATATTTTTGAA-A-T-
1 AATAT-TATTTTTAAATATTA
*
13950613 --TATT-TTTTTAAATTTTA
1 AATATTATTTTTAAATATTA
13950630 AATATTATTTTTAAATATTA
1 AATATTATTTTTAAATATTA
13950650 AATA-TATTTTTAA
1 AATATTATTTTTAA
13950663 TAATATAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
14 7 0.12
15 1 0.02
16 4 0.07
19 14 0.25
20 16 0.28
21 15 0.26
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (20 bp):
AATATTATTTTTAAATATTA
Found at i:13950774 original size:33 final size:34
Alignment explanation
Indices: 13950714--13950785 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 34
13950704 TTTATTATTA
*
13950714 GTTTTATAATATTTCAAATGTATA-TTTTAATTT
1 GTTTTATAATATTTCAAATGTATATTTTTAAATT
* **
13950747 GTTTTATAATTTTTTTAAT-TATGATTTTTAAATT
1 GTTTTATAATATTTCAAATGTAT-ATTTTTAAATT
13950781 GTTTT
1 GTTTT
13950786 TAAAGATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 3 0.09
33 17 0.52
34 13 0.39
ACGTcount: A:0.29, C:0.01, G:0.07, T:0.62
Consensus pattern (34 bp):
GTTTTATAATATTTCAAATGTATATTTTTAAATT
Found at i:13950876 original size:12 final size:13
Alignment explanation
Indices: 13950822--13950876 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 13
13950812 AAAGGTTTGA
13950822 ATATCTTTAAAATT
1 ATAT-TTTAAAATT
13950836 A-ATTTTAAAATT
1 ATATTTTAAAATT
13950848 AATAATTTATAAAAATT
1 -AT-ATTT-T-AAAATT
13950865 ATA-TTTAAAATT
1 ATATTTTAAAATT
13950877 TAAAAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
12 15 0.42
13 4 0.11
14 3 0.08
15 5 0.14
16 3 0.08
17 6 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTTTAAAATT
Found at i:13950888 original size:18 final size:20
Alignment explanation
Indices: 13950865--13950903 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
13950855 TATAAAAATT
13950865 ATATTTAAAAT-TTA-AAAA
1 ATATTTAAAATATTATAAAA
13950883 ATATTTAAAATATTATAAAA
1 ATATTTAAAATATTATAAAA
13950903 A
1 A
13950904 AATAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.58
19 3 0.16
20 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATTTAAAATATTATAAAA
Found at i:13950904 original size:22 final size:22
Alignment explanation
Indices: 13950846--13950907 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
13950836 AATTTTAAAA
*
13950846 TTAATAAT-TTATAAAAATTATAT
1 TTAA-AATATTATAAAAA-AATAT
13950869 TT-AAA-ATT-T-AAAAAATAT
1 TTAAAATATTATAAAAAAATAT
13950887 TTAAAATATTATAAAAAAATA
1 TTAAAATATTATAAAAAAATA
13950908 ATAAATTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
18 6 0.18
19 7 0.21
20 4 0.12
21 5 0.15
22 9 0.27
23 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAAAATATTATAAAAAAATAT
Found at i:13950960 original size:24 final size:25
Alignment explanation
Indices: 13950933--13950987 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
13950923 AATATCTTTA
*
13950933 AAAATAATAT-ATTTTAAATAATT-T
1 AAAATAATATAATTTAAAAT-ATTAT
*
13950957 AAAA-ATTATAATTTAAAATATTAT
1 AAAATAATATAATTTAAAATATTAT
13950981 AAAATAA
1 AAAATAA
13950988 ATTGAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 7 0.28
24 17 0.68
25 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AAAATAATATAATTTAAAATATTAT
Found at i:13950967 original size:14 final size:15
Alignment explanation
Indices: 13950950--13950982 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
13950940 TATATTTTAA
13950950 ATAATTTAAAA-ATT
1 ATAATTTAAAATATT
13950964 ATAATTTAAAATATT
1 ATAATTTAAAATATT
13950979 ATAA
1 ATAA
13950983 AATAAATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTTAAAATATT
Found at i:13950995 original size:21 final size:20
Alignment explanation
Indices: 13950969--13951018 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
13950959 AAATTATAAT
*
13950969 TTAAAATATTATAAAATAAA
1 TTAAAATATTATAAAACAAA
*
13950989 TTGAAAAAATTATAAAACAAA
1 TT-AAAATATTATAAAACAAA
13951010 TTAAAATAT
1 TTAAAATAT
13951019 ACATTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
TTAAAATATTATAAAACAAA
Found at i:13951108 original size:21 final size:20
Alignment explanation
Indices: 13951084--13951150 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 20
13951074 ATTTAAATGT
13951084 TTTATATTATTAAAAAATATA
1 TTTA-ATTATTAAAAAATATA
13951105 TTTAA-TATTTAAAAAATACTA
1 TTTAATTA-TTAAAAAATA-TA
13951126 TTTAAAATT-TTAAAAAATA-A
1 TTT--AATTATTAAAAAATATA
13951146 TTTAA
1 TTTAA
13951151 AAATAATATT
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.05
19 2 0.05
20 15 0.37
21 9 0.22
22 10 0.24
23 2 0.05
24 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAATTATTAAAAAATATA
Found at i:13951108 original size:137 final size:136
Alignment explanation
Indices: 13950872--13951179 Score: 333
Period size: 137 Copynumber: 2.3 Consensus size: 136
13950862 ATTATATTTA
* * * *
13950872 AAATTTAAAA-AATATTTAAAATATTATAAAAAAATAATAAATTTGAAAGGTAATATCTTTAAAA
1 AAATTAAAAATAACATTTAAAATATTATAAAATAATAATAAATTTAAAAGGTAATATCTTTAAAA
* *
13950936 ATAATATATTTTAAATAATTTAAAAATTATAATTTAAAATATTATAAAATA-AATTGAAAAAATT
66 ATAATATATTTTAAATAATTTAAAAAATATAATTTAAAAT-TTAAAAAATACAATTGAAAAAATT
*
13951000 ATAAAAC
130 AAAAAAC
*
13951007 AAATT-AAAATATACATTTAAAATATTATAAAACTAATAATAAATTTAAAAGGTCATATCTTTAA
1 AAATTAAAAATA-ACATTTAAAATATTATAAAA-TAATAATAAATTTAAAAGGTAATATCTTTAA
* * * * * *
13951071 AATATTTAA-ATGTTTTATATTA-TTAAAAAATAT-ATTTAATATTTAAAAAATACTATTTAAAA
64 AA-A--TAATATATTTTAAATAATTTAAAAAATATAATTTAAAATTTAAAAAATACAATTGAAAA
** *
13951133 TTTTAAAAAAT
126 AATTAAAAAAC
* *
13951144 AATTTAAAAATAATATTTAAAAT-TTATAAAAATAAT
1 AAATTAAAAATAACATTTAAAATATTAT-AAAATAAT
13951180 TTCAAAAATA
Statistics
Matches: 146, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
134 4 0.03
135 6 0.04
136 36 0.25
137 70 0.48
138 17 0.12
139 10 0.07
140 3 0.02
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (136 bp):
AAATTAAAAATAACATTTAAAATATTATAAAATAATAATAAATTTAAAAGGTAATATCTTTAAAA
ATAATATATTTTAAATAATTTAAAAAATATAATTTAAAATTTAAAAAATACAATTGAAAAAATTA
AAAAAC
Found at i:13951116 original size:20 final size:21
Alignment explanation
Indices: 13951093--13951215 Score: 101
Period size: 22 Copynumber: 5.6 Consensus size: 21
13951083 TTTTATATTA
*
13951093 TTAAAAAATATATTTAATA-T
1 TTAAAAAATATATTTAAAATT
13951113 TTAAAAAATACTATTTAAAATT
1 TTAAAAAATA-TATTTAAAATT
13951135 TTAAAAAATA-ATTTAAAAATAAT
1 TTAAAAAATATATTT-AAAAT--T
* * *
13951158 ATT-TAAAATTTA-TAAAAATAAT
1 -TTAAAAAATATATTTAAAAT--T
13951180 TTCAAAAATATATATTTAAAATT
1 TT-AAAAA-ATATATTTAAAATT
13951203 TTAAAAAATATAT
1 TTAAAAAATATAT
13951216 ATTATAAAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
20 14 0.16
21 21 0.25
22 24 0.28
23 13 0.15
24 7 0.08
25 6 0.07
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAAAAATATATTTAAAATT
Found at i:13951161 original size:33 final size:34
Alignment explanation
Indices: 13951111--13951226 Score: 155
Period size: 33 Copynumber: 3.4 Consensus size: 34
13951101 TATATTTAAT
*
13951111 ATTTAAAAAATACTATTTAAAATTTTAAAAAATA
1 ATTTAAAAAATAATATTTAAAATTTTAAAAAATA
13951145 ATTT-AAAAATAATATTTAAAA-TTTATAAAAATA
1 ATTTAAAAAATAATATTTAAAATTTTA-AAAAATA
*
13951178 ATTTCAAAAATATATATTTAAAATTTTAAAAAATA
1 ATTTAAAAAATA-ATATTTAAAATTTTAAAAAATA
*
13951213 TATATTATAAAATA
1 -AT-TTAAAAAATA
13951227 TTTCAAATAT
Statistics
Matches: 73, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
32 4 0.05
33 27 0.37
34 11 0.15
35 17 0.23
36 6 0.08
37 8 0.11
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (34 bp):
ATTTAAAAAATAATATTTAAAATTTTAAAAAATA
Found at i:13951257 original size:23 final size:23
Alignment explanation
Indices: 13951184--13951257 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
13951174 AATAATTTCA
* **
13951184 AAAATATATATTTAAAATTTTAA
1 AAAATATATATTTTAAATTTTTT
* * *
13951207 AAAATATATATTATAAAATATTT
1 AAAATATATATTTTAAATTTTTT
* *
13951230 CAAATATACATTTTAAATTTTTT
1 AAAATATATATTTTAAATTTTTT
13951253 AAAAT
1 AAAAT
13951258 TAATAATAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (23 bp):
AAAATATATATTTTAAATTTTTT
Found at i:13951271 original size:48 final size:49
Alignment explanation
Indices: 13951172--13951267 Score: 112
Period size: 48 Copynumber: 2.1 Consensus size: 49
13951162 AAAATTTATA
* *
13951172 AAAATAATTTCAAAAATATATATTTAAAATTTTAAAAAATATATATTAT
1 AAAATAATTTCAAAAATACATATTTAAAATTTTAAAAAATATATATAAT
* **
13951221 AAAAT-ATTTCAAATATACAT-TTT-AAATTTTTTAAAAT-TA-ATAAT
1 AAAATAATTTCAAAAATACATATTTAAAATTTTAAAAAATATATATAAT
13951265 AAA
1 AAA
13951268 TAAATAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
44 7 0.17
45 2 0.05
46 12 0.29
47 3 0.07
48 13 0.31
49 5 0.12
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (49 bp):
AAAATAATTTCAAAAATACATATTTAAAATTTTAAAAAATATATATAAT
Found at i:13952505 original size:14 final size:14
Alignment explanation
Indices: 13952488--13952530 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
13952478 TTAAAAATGT
13952488 ATTTTGAAAAATAA
1 ATTTTGAAAAATAA
*
13952502 ATTTTGAGCAAATAA
1 ATTTTGA-AAAATAA
13952517 ATTTT-AACAAATAA
1 ATTTTGAA-AAATAA
13952531 TAAAATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (14 bp):
ATTTTGAAAAATAA
Found at i:13952514 original size:15 final size:14
Alignment explanation
Indices: 13952496--13952530 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
13952486 GTATTTTGAA
*
13952496 AAATAAATTTTGAGC
1 AAATAAATTTT-AAC
13952511 AAATAAATTTTAAC
1 AAATAAATTTTAAC
13952525 AAATAA
1 AAATAA
13952531 TAAAATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (14 bp):
AAATAAATTTTAAC
Found at i:13957764 original size:32 final size:32
Alignment explanation
Indices: 13957728--13957796 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
13957718 ATTAGTTAAC
*
13957728 AAATAACTTTTAACAGATAAAAAATCTTAGAA
1 AAATAACTTTTAACAGATAAAAAATCTTAAAA
** * *
13957760 AAATATTTTTTAACAGATAACAAATTTTAAAA
1 AAATAACTTTTAACAGATAAAAAATCTTAAAA
13957792 AAATA
1 AAATA
13957797 TTTGTCTAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (32 bp):
AAATAACTTTTAACAGATAAAAAATCTTAAAA
Found at i:13957797 original size:32 final size:32
Alignment explanation
Indices: 13957735--13957799 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
13957725 AACAAATAAC
*
13957735 TTTTAACAGATAAAAAATCTTAGAAAAATATT
1 TTTTAACAGATAAAAAATCTTAAAAAAATATT
* *
13957767 TTTTAACAGATAACAAATTTTAAAAAAATATT
1 TTTTAACAGATAAAAAATCTTAAAAAAATATT
13957799 T
1 T
13957800 GTCTAGGTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.37
Consensus pattern (32 bp):
TTTTAACAGATAAAAAATCTTAAAAAAATATT
Found at i:13957866 original size:10 final size:10
Alignment explanation
Indices: 13957819--13957866 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
13957809 TATTGTTTTT
13957819 TAAAATAATTA
1 TAAAA-AATTA
*
13957830 TAAAAAATTG
1 TAAAAAATTA
* *
13957840 TTAAGAATTA
1 TAAAAAATTA
*
13957850 TATAAAATTA
1 TAAAAAATTA
13957860 TAAAAAA
1 TAAAAAA
13957867 ATACAATTTT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
10 24 0.83
11 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:13959772 original size:20 final size:20
Alignment explanation
Indices: 13959747--13959796 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
13959737 ATCAGTATTC
13959747 TTATCCTGAATTTCAGGATT
1 TTATCCTGAATTTCAGGATT
13959767 TTATCCTGAATTTCAGGATT
1 TTATCCTGAATTTCAGGATT
13959787 TTATCCTGAA
1 TTATCCTGAA
13959797 AAAAATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (20 bp):
TTATCCTGAATTTCAGGATT
Found at i:13959837 original size:20 final size:20
Alignment explanation
Indices: 13959814--13959865 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
13959804 AAATCCAAAT
13959814 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
*
13959834 TAAAATCCTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
13959854 TAAGAATACTGA
1 TAA-AATACTGA
13959866 TGTGGCATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:13968931 original size:51 final size:51
Alignment explanation
Indices: 13968860--13968956 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 51
13968850 TTATCCATGG
* * * *
13968860 GATGATAAATCATTAATTTTAATTTGAATAGTGTTTATGATTAATTTGCAA
1 GATGATAAATCATCAATTTTAATTTAAATAGTGCTTATGAATAATTTGCAA
*
13968911 GATGATAAATCATCACTTTTAATTTAAATAGTGCTTATGAATAATT
1 GATGATAAATCATCAATTTTAATTTAAATAGTGCTTATGAATAATT
13968957 AATTTGCAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.43
Consensus pattern (51 bp):
GATGATAAATCATCAATTTTAATTTAAATAGTGCTTATGAATAATTTGCAA
Found at i:13969961 original size:23 final size:23
Alignment explanation
Indices: 13969931--13969974 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
13969921 TAAGATAGTA
13969931 AAAAATCCTACAAATTCCTTTCC
1 AAAAATCCTACAAATTCCTTTCC
**
13969954 AAAAATCCTATGAATTCCTTT
1 AAAAATCCTACAAATTCCTTT
13969975 TAGTACTGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.34
Consensus pattern (23 bp):
AAAAATCCTACAAATTCCTTTCC
Found at i:13970051 original size:104 final size:104
Alignment explanation
Indices: 13969866--13970059 Score: 298
Period size: 104 Copynumber: 1.9 Consensus size: 104
13969856 ATCCAAGTAA
* * * * * * *
13969866 CCTTCTAGTACTGCGTGATAATTACTATAGAGTAATCCTATATTTTTTATTTTCTTAAGATAGTA
1 CCTTCTAGTACTGCGCGATAATTACTATAGAATAATCCCAAATGTTTTATTTTCTTAAGACAGCA
13969931 AAAAATCCTACAAATTCCTTTCCAAAAATCCTATGAATT
66 AAAAATCCTACAAATTCCTTTCCAAAAATCCTATGAATT
* * *
13969970 CCTTTTAGTACTGCGCGATAATTACTATAGAATAATCCCAAATGTTTTGTTTTCTTAAGACAGCC
1 CCTTCTAGTACTGCGCGATAATTACTATAGAATAATCCCAAATGTTTTATTTTCTTAAGACAGCA
13970035 AAAAATCCTACAAATTCCTTTCCAA
66 AAAAATCCTACAAATTCCTTTCCAA
13970060 TGATCGATAC
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
104 80 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (104 bp):
CCTTCTAGTACTGCGCGATAATTACTATAGAATAATCCCAAATGTTTTATTTTCTTAAGACAGCA
AAAAATCCTACAAATTCCTTTCCAAAAATCCTATGAATT
Found at i:13971632 original size:21 final size:22
Alignment explanation
Indices: 13971606--13971662 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
13971596 AAAAGGTATC
*
13971606 TACAAATTAAATC-TCTAAGAT
1 TACAAATCAAATCTTCTAAGAT
*
13971627 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCAAATCTTCTAAGAT
*
13971650 TAC-AATCATATCT
1 TACAAATCAAATCT
13971663 AAGATTGTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 13 0.41
22 8 0.25
23 11 0.34
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.35
Consensus pattern (22 bp):
TACAAATCAAATCTTCTAAGAT
Found at i:13971649 original size:23 final size:21
Alignment explanation
Indices: 13971619--13971662 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 21
13971609 AAATTAAATC
13971619 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC--AATCATATCT
13971642 TCTAAGATTACAATCATATCT
1 TCTAAGATTACAATCATATCT
13971663 AAGATTGTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.48
23 11 0.52
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (21 bp):
TCTAAGATTACAATCATATCT
Found at i:13971711 original size:19 final size:19
Alignment explanation
Indices: 13971642--13971730 Score: 125
Period size: 17 Copynumber: 4.9 Consensus size: 19
13971632 AATCATATCT
*
13971642 TCTAAGATTACA-ATCATA
1 TCTAAGATTGCATATCATA
*
13971660 TCTAAGATTG--TACCATA
1 TCTAAGATTGCATATCATA
13971677 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
13971694 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
13971713 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
13971731 TGAAGATTAT
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
17 31 0.48
18 9 0.14
19 25 0.38
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:13973964 original size:24 final size:24
Alignment explanation
Indices: 13973932--13974039 Score: 92
Period size: 25 Copynumber: 4.4 Consensus size: 24
13973922 CAGCCCGAAA
13973932 GAGCATCCCGTTATTAGCTCTCAT
1 GAGCATCCCGTTATTAGCTCTCAT
* *
13973956 GAGCATCCCGATATTTGGCTCTCAT
1 GAGCATCCCGTTA-TTAGCTCTCAT
* * * **
13973981 GAGCTTCCCGTTATATGGTTCTTGT
1 GAGCATCCCGTTAT-TAGCTCTCAT
* * *
13974006 GAGCTTCCCGTTAATAGCTCTTC-G
1 GAGCATCCCGTTATTAGCTC-TCAT
13974030 GAGCATCCCG
1 GAGCATCCCG
13974040 ATTTGGTTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
24 26 0.38
25 42 0.62
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (24 bp):
GAGCATCCCGTTATTAGCTCTCAT
Found at i:13974272 original size:25 final size:25
Alignment explanation
Indices: 13974237--13974297 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
13974227 GGCTCTTCGA
* * *
13974237 AGCTTCCCGTTACATGACTCACATG
1 AGCTTCTCGTTACATGACTCAAAAG
* *
13974262 AGCTTCTCGTTATATGGCTCAAAAG
1 AGCTTCTCGTTACATGACTCAAAAG
13974287 AGCTTCTCGTT
1 AGCTTCTCGTT
13974298 TATGTGCTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (25 bp):
AGCTTCTCGTTACATGACTCAAAAG
Found at i:13977379 original size:15 final size:15
Alignment explanation
Indices: 13977359--13977391 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
13977349 TTATAAGGAA
13977359 TTGTAATTCATGGAC
1 TTGTAATTCATGGAC
13977374 TTGTAATTCATGGAC
1 TTGTAATTCATGGAC
13977389 TTG
1 TTG
13977392 ATCCATGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.42
Consensus pattern (15 bp):
TTGTAATTCATGGAC
Found at i:13978274 original size:55 final size:55
Alignment explanation
Indices: 13978208--13978314 Score: 169
Period size: 55 Copynumber: 1.9 Consensus size: 55
13978198 GTATTCATTG
* * *
13978208 GATGATAAATCATCACTTTTAATTTAAATAATGCTTATGAATAATTAATTTGCAA
1 GATGATAAATCATCACTTTTAATTTAAATAAGGCTCATAAATAATTAATTTGCAA
* *
13978263 GATGATAAATCATCACTTTTAATTTGAATAGGGCTCATAAATAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTAAATAAGGCTCATAAATAATTAATTTG
13978315 TAATCTATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.39
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTAAATAAGGCTCATAAATAATTAATTTGCAA
Found at i:13978813 original size:20 final size:20
Alignment explanation
Indices: 13978784--13978822 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13978774 GAACGAAATC
*
13978784 AGAAACATTT-GGAACATTTA
1 AGAAAAATTTAGGAA-ATTTA
13978804 AGAAAAATTTAGGAAATTT
1 AGAAAAATTTAGGAAATTT
13978823 GAATTGTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (20 bp):
AGAAAAATTTAGGAAATTTA
Found at i:13979833 original size:38 final size:38
Alignment explanation
Indices: 13979779--13979888 Score: 177
Period size: 38 Copynumber: 2.9 Consensus size: 38
13979769 CAATACACCA
*
13979779 GCAC-AAGCCTGTTAGGCACAGAGCCCGAATAACAATG
1 GCACAAAGCCTGCTAGGCACAGAGCCCGAATAACAATG
* * *
13979816 GCACAAAGCCTGCTAGGCATAGAGCCCAAATAACACTG
1 GCACAAAGCCTGCTAGGCACAGAGCCCGAATAACAATG
13979854 GCACAAAGCCTGCTAGGCACAGAGCCCGAATAACA
1 GCACAAAGCCTGCTAGGCACAGAGCCCGAATAACA
13979889 TTATGCTTCT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
37 4 0.06
38 62 0.94
ACGTcount: A:0.36, C:0.29, G:0.23, T:0.12
Consensus pattern (38 bp):
GCACAAAGCCTGCTAGGCACAGAGCCCGAATAACAATG
Found at i:13984843 original size:28 final size:28
Alignment explanation
Indices: 13984802--13984858 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
13984792 TTGTCTGTGC
13984802 TATTAAATACGAACAGCTTCCAGTTTTA
1 TATTAAATACGAACAGCTTCCAGTTTTA
* *
13984830 TATTAAATATGAACAGCTTCCGGTTTTA
1 TATTAAATACGAACAGCTTCCAGTTTTA
13984858 T
1 T
13984859 GTTACATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (28 bp):
TATTAAATACGAACAGCTTCCAGTTTTA
Found at i:13988347 original size:58 final size:58
Alignment explanation
Indices: 13988257--13988373 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
13988247 TCCCTCACAC
13988257 CAACACTCCACTTAACCACCAGACCACTAGGCCCATTCTGACATTATTTTACAAACAA
1 CAACACTCCACTTAACCACCAGACCACTAGGCCCATTCTGACATTATTTTACAAACAA
13988315 CAACACTCCACTTAACCACCAGACCGA-TAGGCCCATTCTGACATTATTTTACAAACAA
1 CAACACTCCACTTAACCACCAGACC-ACTAGGCCCATTCTGACATTATTTTACAAACAA
13988373 C
1 C
13988374 TCTACTTAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
58 57 0.98
59 1 0.02
ACGTcount: A:0.36, C:0.34, G:0.08, T:0.22
Consensus pattern (58 bp):
CAACACTCCACTTAACCACCAGACCACTAGGCCCATTCTGACATTATTTTACAAACAA
Found at i:13995585 original size:27 final size:27
Alignment explanation
Indices: 13995543--13995647 Score: 160
Period size: 27 Copynumber: 3.9 Consensus size: 27
13995533 GCGAGGCTGC
*
13995543 CAGATATTGTGACAGAGCCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
13995570 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
13995596 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
13995623 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
13995648 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
26 8 0.11
27 63 0.86
28 2 0.03
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:13997273 original size:26 final size:26
Alignment explanation
Indices: 13997243--13997324 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
13997233 TGAAATGCCC
13997243 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13997269 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13997295 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13997321 ATCA
1 ATCA
13997325 ATTTTTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13997685 original size:12 final size:13
Alignment explanation
Indices: 13997668--13997696 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13997658 ATATAGTAGC
13997668 AGTTG-AGTAGTT
1 AGTTGAAGTAGTT
13997680 AGTTGAAGTAGTT
1 AGTTGAAGTAGTT
13997693 AGTT
1 AGTT
13997697 AGTTAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (13 bp):
AGTTGAAGTAGTT
Found at i:14005493 original size:27 final size:26
Alignment explanation
Indices: 14005450--14005564 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 26
14005440 AGCATGGCTG
* *
14005450 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
* *
14005476 CCACATACAGATATTGTGGCAGAACCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
14005503 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
*
14005530 CCAGAAACAGATATTTGTGGCATG-GCGA
1 CCAG-AACAGATA-TTGTGGCA-GAGCCA
14005558 CCAGAAC
1 CCAGAAC
14005565 GCTTCCTCCA
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
26 11 0.14
27 41 0.54
28 24 0.32
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:14008284 original size:38 final size:38
Alignment explanation
Indices: 14008240--14008315 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
14008230 TAAATGACTT
14008240 GTATGCCTATAGGTGAATAATGATATAAATGTTTTTAG
1 GTATGCCTATAGGTGAATAATGATATAAATGTTTTTAG
14008278 GTATGCCTATAGGTGAATAATGATATAAATGTTTTTAG
1 GTATGCCTATAGGTGAATAATGATATAAATGTTTTTAG
14008316 TGCATGTTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.39
Consensus pattern (38 bp):
GTATGCCTATAGGTGAATAATGATATAAATGTTTTTAG
Found at i:14011185 original size:11 final size:11
Alignment explanation
Indices: 14011169--14011195 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
14011159 ATCTACAACA
14011169 TTCAAGAGATT
1 TTCAAGAGATT
14011180 TTCAAGAGATT
1 TTCAAGAGATT
14011191 TTCAA
1 TTCAA
14011196 TTTTGGGGTC
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:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (11 bp):
TTCAAGAGATT
Found at i:14017996 original size:28 final size:26
Alignment explanation
Indices: 14017941--14018034 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 26
14017931 AGCATGGTTG
* *
14017941 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
14017967 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
14017995 CCAGAACAGATATATATGGGCAGAGCCA
1 CCAGAACAGATA-ATGT-GGCAGAGCCA
*
14018023 CCAGATCAGATA
1 CCAGAACAGATA
14018035 TTTATTGGCA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
26 5 0.08
27 17 0.28
28 38 0.63
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:14018035 original size:28 final size:28
Alignment explanation
Indices: 14017959--14018051 Score: 100
Period size: 28 Copynumber: 3.3 Consensus size: 28
14017949 GATAATGTGA
* *
14017959 CAGAGTCACCAGATACAGATA-AT-CGTGG
1 CAGAGCCACCAGAT-CAGATATATATG-GG
*
14017987 CAGAGCCACCAGAACAGATATATATGGG
1 CAGAGCCACCAGATCAGATATATATGGG
* *
14018015 CAGAGCCACCAGATCAGATATTTATTGG
1 CAGAGCCACCAGATCAGATATATATGGG
*
14018043 CATAGCCAC
1 CAGAGCCAC
14018052 TAGAACGCTT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
27 6 0.11
28 49 0.88
29 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (28 bp):
CAGAGCCACCAGATCAGATATATATGGG
Found at i:14018044 original size:56 final size:54
Alignment explanation
Indices: 14017941--14018057 Score: 128
Period size: 56 Copynumber: 2.1 Consensus size: 54
14017931 AGCATGGTTG
* * *
14017941 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATATGACAGAGCCACCAGATACAGATAATAGTGGCAGAGCCA
* * * *
14017995 CCAGAACAGATATATATGGGCAGAGCCACCAGAT-CAGATATTTATTGGCATAGCCA
1 CCAGAACAGATA-ATAT-GACAGAGCCACCAGATACAGATA-ATAGTGGCAGAGCCA
*
14018051 CTAGAAC
1 CCAGAAC
14018058 GCTTCCTCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
54 12 0.23
55 9 0.17
56 31 0.60
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATATGACAGAGCCACCAGATACAGATAATAGTGGCAGAGCCA
Found at i:14019700 original size:26 final size:26
Alignment explanation
Indices: 14019664--14019773 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
14019654 CATGAAATTC
14019664 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14019690 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14019716 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
14019742 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
14019768 TTATCA
1 TTATCA
14019774 ATTTGTTCCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14023748 original size:27 final size:26
Alignment explanation
Indices: 14023711--14023825 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
14023701 CACATGGCTG
* *
14023711 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
14023737 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
14023765 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
14023792 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
14023819 CCAGAAC
1 CCAGAAC
14023826 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:14023775 original size:54 final size:54
Alignment explanation
Indices: 14023711--14023825 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
14023701 CACATGGCTG
*
14023711 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
14023765 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
14023819 CCAGAAC
1 CCAGAAC
14023826 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:14025468 original size:26 final size:26
Alignment explanation
Indices: 14025432--14025541 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
14025422 CATGAAATTC
14025432 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14025458 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14025484 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
14025510 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
14025536 TTATCA
1 TTATCA
14025542 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14030026 original size:40 final size:40
Alignment explanation
Indices: 14029940--14030078 Score: 113
Period size: 40 Copynumber: 3.5 Consensus size: 40
14029930 TCTAAATACT
* * *
14029940 TGAAAAGTTTGAAAAGGAGGTTACCTGAAAGGGATAACACA
1 TGAAAAGTTTGAAAAGGA-GTTACCTAAAAAGGATAACAAA
* * *
14029981 TGAAAATTTTGAAAAGGA-TATATCTAAAAAGGATATCAAA
1 TGAAAAGTTTGAAAAGGAGT-TACCTAAAAAGGATAACAAA
* * * *
14030021 TGAAAAGGTTGAAAAGGACGTTA-TTCGAAAAGGATATC-AA
1 TGAAAAGTTTGAAAAGGA-GTTACCT-AAAAAGGATAACAAA
* *
14030061 TGAAAAGGTCGAAAAGGA
1 TGAAAAGTTTGAAAAGGA
14030079 AATCAATGAA
Statistics
Matches: 83, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
39 1 0.01
40 51 0.61
41 30 0.36
42 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.24, T:0.22
Consensus pattern (40 bp):
TGAAAAGTTTGAAAAGGAGTTACCTAAAAAGGATAACAAA
Found at i:14030075 original size:24 final size:24
Alignment explanation
Indices: 14030045--14030117 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 24
14030035 AGGACGTTAT
14030045 TCGAAAAGGATATCAATGAAAAGG
1 TCGAAAAGGATATCAATGAAAAGG
*
14030069 TCGAAAAGGAAATCAATGAAAAGG
1 TCGAAAAGGATATCAATGAAAAGG
* *
14030093 TCAAAAATGATAGT-AATGAAAAGG
1 TCGAAAAGGATA-TCAATGAAAAGG
14030117 T
1 T
14030118 TGGTATTTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 43 0.98
25 1 0.02
ACGTcount: A:0.52, C:0.07, G:0.23, T:0.18
Consensus pattern (24 bp):
TCGAAAAGGATATCAATGAAAAGG
Found at i:14039278 original size:49 final size:49
Alignment explanation
Indices: 14039204--14039347 Score: 191
Period size: 49 Copynumber: 2.9 Consensus size: 49
14039194 GCCGAAGCTA
14039204 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG-
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAGT
* * * * * *
14039253 TCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGATCACAGTTT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG--T
*
14039304 TCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
14039348 TCACAATAGA
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
48 4 0.05
49 38 0.48
51 37 0.47
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAGT
Found at i:14039329 original size:51 final size:49
Alignment explanation
Indices: 14039207--14039347 Score: 176
Period size: 51 Copynumber: 2.8 Consensus size: 49
14039197 GAAGCTATCT
* *
14039207 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCA
* * * * *
14039256 GGTACACGTAGTAGCCTACACTTAGTACTACACACGTGATC-ACAGTTTTCA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCA
*
14039307 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
14039348 TCACAATAGA
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
48 4 0.05
49 35 0.46
51 37 0.49
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (49 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCA
Found at i:14042446 original size:39 final size:39
Alignment explanation
Indices: 14042403--14042481 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
14042393 AGTTTTCTTG
14042403 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
1 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
14042442 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
1 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
14042481 A
1 A
14042482 CTAACATTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (39 bp):
ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
Found at i:14042609 original size:57 final size:57
Alignment explanation
Indices: 14042545--14042661 Score: 216
Period size: 57 Copynumber: 2.1 Consensus size: 57
14042535 TATAATTATG
* *
14042545 CATGCATCCTATGTTTTCTGGATAGCTTGATTTATCCATTCATCTGCTCGAACAAAT
1 CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
14042602 CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
1 CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
14042659 CAT
1 CAT
14042662 ACTTATGACA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.38
Consensus pattern (57 bp):
CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
Found at i:14044702 original size:49 final size:49
Alignment explanation
Indices: 14044630--14044769 Score: 183
Period size: 49 Copynumber: 2.8 Consensus size: 49
14044620 GCCGAAGCTA
14044630 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG-
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAGT
* * * * * *
14044679 TCTGGTACACGTAGTAGCCTGCACTTAGCACTACACACGTGATCACAGTTT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG--T
*
14044730 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
14044770 ACCTCACAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
48 4 0.05
49 38 0.50
51 34 0.45
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (49 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAGT
Found at i:14047871 original size:39 final size:39
Alignment explanation
Indices: 14047828--14047906 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
14047818 AGTTTTCTTG
14047828 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
1 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
14047867 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
1 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
14047906 A
1 A
14047907 CTAACATTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (39 bp):
ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
Found at i:14048034 original size:57 final size:57
Alignment explanation
Indices: 14047970--14048086 Score: 216
Period size: 57 Copynumber: 2.1 Consensus size: 57
14047960 TATAATTATG
* *
14047970 CATGCATCCTATGTTTTCTGGATAGCTTGATTTATCCATTCATCTGCTCGAACAAAT
1 CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
14048027 CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
1 CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
14048084 CAT
1 CAT
14048087 ACTTATGACA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.38
Consensus pattern (57 bp):
CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
Found at i:14050127 original size:49 final size:49
Alignment explanation
Indices: 14050055--14050194 Score: 183
Period size: 49 Copynumber: 2.8 Consensus size: 49
14050045 GCCGAAGCTA
14050055 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG-
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAGT
* * * * * *
14050104 TCTGGTACACGTAGTAGCCTGCACTTAGGACTACACACGTGATCACAGTTT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG--T
*
14050155 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
14050195 ACCTCACAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
48 4 0.05
49 38 0.50
51 34 0.45
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (49 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAGT
Found at i:14053295 original size:39 final size:39
Alignment explanation
Indices: 14053252--14053330 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
14053242 AGTTTTCTTG
14053252 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
1 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
14053291 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
1 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
14053330 A
1 A
14053331 CTAACATTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (39 bp):
ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
Found at i:14053458 original size:57 final size:57
Alignment explanation
Indices: 14053394--14053510 Score: 216
Period size: 57 Copynumber: 2.1 Consensus size: 57
14053384 TATAATTATG
* *
14053394 CATGCATCCTATGTTTTCTGGATAGCTTGATTTATCCATTCATCTGCTCGAACAAAT
1 CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
14053451 CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
1 CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
14053508 CAT
1 CAT
14053511 ACTTATGACA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.38
Consensus pattern (57 bp):
CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
Found at i:14055536 original size:49 final size:49
Alignment explanation
Indices: 14055464--14055603 Score: 183
Period size: 49 Copynumber: 2.8 Consensus size: 49
14055454 GCCGAAGCTA
14055464 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG-
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAGT
* * * * * *
14055513 TCTGGTACACGTAGTAGCCTGCACTTAGCACTACACACGTGATCACAGTTT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG--T
*
14055564 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
14055604 ACCTCACAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
48 4 0.05
49 38 0.50
51 34 0.45
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (49 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAGT
Found at i:14060778 original size:45 final size:45
Alignment explanation
Indices: 14060724--14060882 Score: 163
Period size: 45 Copynumber: 3.6 Consensus size: 45
14060714 TCGGTACGCA
*
14060724 TAGTAGCCTGCACATAGTACT-ACATGCGACCAATTATCCGTACA-G
1 TAGTAGCCTGCACATAGTACTAACACGCGACCAATTAT--GTACACG
* *
14060769 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATGTACACG
1 TAGTAGCCTGCACATAGTACTA-ACACGCGACCAATTATGTACACG
* *
14060815 TAGTAGCCTGCACTTA-TAC-ACACACG-TACC-A-T-TGTACACG
1 TAGTAGCCTGCACATAGTACTA-ACACGCGACCAATTATGTACACG
*
14060855 TAGTAGCCTGCACTTAGTACTACACACG
1 TAGTAGCCTGCACATAGTACTA-ACACG
14060883 TGATCACAGT
Statistics
Matches: 105, Mismatches: 4, Indels: 13
0.86 0.03 0.11
Matches are distributed among these distances:
40 24 0.23
41 4 0.04
42 8 0.08
43 3 0.03
44 7 0.07
45 28 0.27
46 17 0.16
47 14 0.13
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (45 bp):
TAGTAGCCTGCACATAGTACTAACACGCGACCAATTATGTACACG
Found at i:14060854 original size:40 final size:46
Alignment explanation
Indices: 14060724--14060931 Score: 227
Period size: 51 Copynumber: 4.6 Consensus size: 46
14060714 TCGGTACGCA
* * *
14060724 TAGTAGCCTGCACATAGTACT--ACATGCGACCAATTATCCGTACA-G
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTAT--GTACACG
14060769 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATGTACACG
14060815 TAGTAGCCTGCACTTA-TAC-ACACACGT-ACC-A-T-TGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATGTACACG
* * * *
14060855 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTAT---GTACACG
14060906 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
14060932 TGCGACCTCA
Statistics
Matches: 143, Mismatches: 6, Indels: 22
0.84 0.04 0.13
Matches are distributed among these distances:
40 24 0.17
41 4 0.03
42 9 0.06
43 4 0.03
44 9 0.06
45 29 0.20
46 17 0.12
47 15 0.10
48 1 0.01
51 31 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (46 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATGTACACG
Found at i:14066085 original size:49 final size:49
Alignment explanation
Indices: 14066013--14066152 Score: 183
Period size: 49 Copynumber: 2.8 Consensus size: 49
14066003 GCCGAAGCTA
14066013 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG-
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAGT
* * * * * *
14066062 TCTGGTACACGTAGTAGCCTGCACTTAGCACTACACACGTGATCACAGTTT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG--T
*
14066113 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
14066153 ACCTCACAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
48 4 0.05
49 38 0.50
51 34 0.45
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (49 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAGT
Found at i:14069239 original size:39 final size:39
Alignment explanation
Indices: 14069196--14069274 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
14069186 AGTTTTCTTG
14069196 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
1 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
14069235 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
1 ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
14069274 A
1 A
14069275 CTAACATTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (39 bp):
ATAGCAATCATATCTCAATCATGTTATTCATTTTGAGTA
Found at i:14069402 original size:57 final size:57
Alignment explanation
Indices: 14069338--14069454 Score: 216
Period size: 57 Copynumber: 2.1 Consensus size: 57
14069328 TATAATTATG
* *
14069338 CATGCATCCTATGTTTTCTGGATAGCTTGATTTATCCATTCATCTGCTCGAACAAAT
1 CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
14069395 CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
1 CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
14069452 CAT
1 CAT
14069455 ACTTATGACA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.38
Consensus pattern (57 bp):
CATGCATCCTATGTTTTCTGGATAGCTTGACTTATCCATTCATCTACTCGAACAAAT
Found at i:14071492 original size:49 final size:49
Alignment explanation
Indices: 14071420--14071559 Score: 183
Period size: 49 Copynumber: 2.8 Consensus size: 49
14071410 GCCGAAGCTA
14071420 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG-
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAGT
* * * * * *
14071469 TCTGGTACACGTAGTAGCCTGCACTTAGCACTACACACGTGATCACAGTTT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG--T
*
14071520 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
14071560 ACCTCACAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
48 4 0.05
49 38 0.50
51 34 0.45
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (49 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAGT
Found at i:14074666 original size:19 final size:19
Alignment explanation
Indices: 14074642--14074679 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14074632 TTTGTAGTAA
14074642 ATATA-TATGATAATTTAAT
1 ATATATTAT-ATAATTTAAT
*
14074661 ATATATTATATATTTTAAT
1 ATATATTATATAATTTAAT
14074680 GAATGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
ATATATTATATAATTTAAT
Found at i:14076242 original size:14 final size:14
Alignment explanation
Indices: 14076223--14076250 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14076213 AGACAAAGTA
14076223 TGTTCGTATAATTC
1 TGTTCGTATAATTC
14076237 TGTTCGTATAATTC
1 TGTTCGTATAATTC
14076251 AAATTATGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (14 bp):
TGTTCGTATAATTC
Found at i:14077993 original size:26 final size:26
Alignment explanation
Indices: 14077962--14078023 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
14077952 TTATCCCTAC
* *
14077962 AAAATTTTGATAATTTT-ACCTCTGAT
1 AAAATTTTGACAATTTTGACCT-TAAT
14077988 AAAATTTTGACAATTTTGACCTTAAT
1 AAAATTTTGACAATTTTGACCTTAAT
14078014 AAAATTTTGA
1 AAAATTTTGA
14078024 GAAAATATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 29 0.88
27 4 0.12
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.44
Consensus pattern (26 bp):
AAAATTTTGACAATTTTGACCTTAAT
Found at i:14081004 original size:21 final size:21
Alignment explanation
Indices: 14080978--14081019 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14080968 TCAAATTGAT
*
14080978 GGCAATTTGAATCCATCAAAA
1 GGCAATATGAATCCATCAAAA
* *
14080999 GGCAATATGGATCCGTCAAAA
1 GGCAATATGAATCCATCAAAA
14081020 TTTAAGCGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (21 bp):
GGCAATATGAATCCATCAAAA
Found at i:14084608 original size:17 final size:17
Alignment explanation
Indices: 14084571--14084608 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
14084561 TTGAAATGGG
*
14084571 TAATTAATCAAATTAAC
1 TAATTAATCAAATTAAA
14084588 TAATTAATCGAAA-TAAA
1 TAATTAATC-AAATTAAA
14084605 TAAT
1 TAAT
14084609 ATATGTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (17 bp):
TAATTAATCAAATTAAA
Found at i:14091747 original size:14 final size:14
Alignment explanation
Indices: 14091728--14091761 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14091718 GGAAATGCAG
14091728 AAAACATTATTTGT
1 AAAACATTATTTGT
*
14091742 AAAACATTTTTTGT
1 AAAACATTATTTGT
*
14091756 GAAACA
1 AAAACA
14091762 AATGCACCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (14 bp):
AAAACATTATTTGT
Found at i:14092600 original size:47 final size:47
Alignment explanation
Indices: 14092547--14092640 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
14092537 TATGTTGTAG
*
14092547 GGTTAAAACCAAAAAATATTTGTTGCGTTCTTGATGTTTCCTTACGT
1 GGTTAAAACCAAAAAATATTTGTTGCGTTCTCGATGTTTCCTTACGT
14092594 GGTTAAAACCAAAAAATATTTGTTGCGTTCTCGATGTTTCCTTACGT
1 GGTTAAAACCAAAAAATATTTGTTGCGTTCTCGATGTTTCCTTACGT
14092641 TATTGATAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (47 bp):
GGTTAAAACCAAAAAATATTTGTTGCGTTCTCGATGTTTCCTTACGT
Found at i:14094023 original size:69 final size:69
Alignment explanation
Indices: 14093938--14094079 Score: 257
Period size: 69 Copynumber: 2.1 Consensus size: 69
14093928 TTTGATCTAT
*
14093938 TAGAAATTTGTATATCTTGTTTGGATACATTGGATATATATATAATGAATTAAACACGGATTCTA
1 TAGAAATTTGTATATCTTGTTTGGATACATTGGATATATATATAAGGAATTAAACACGGATTCTA
14094003 TTTC
66 TTTC
*
14094007 TAGAAATTTGTATATCTTGTTTGGATATATTGGATATATATATAAGGAATTAAACACGGATTCTA
1 TAGAAATTTGTATATCTTGTTTGGATACATTGGATATATATATAAGGAATTAAACACGGATTCTA
*
14094072 TTTT
66 TTTC
14094076 TAGA
1 TAGA
14094080 TAATGTCTTA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (69 bp):
TAGAAATTTGTATATCTTGTTTGGATACATTGGATATATATATAAGGAATTAAACACGGATTCTA
TTTC
Found at i:14094092 original size:69 final size:69
Alignment explanation
Indices: 14093938--14094098 Score: 234
Period size: 69 Copynumber: 2.3 Consensus size: 69
14093928 TTTGATCTAT
* * *
14093938 TAGAAATTTGTATATCTTGTTTGGATACATTGGATATATATATAATGAATTAAACACGGATTCTA
1 TAGAAATGTCTATATCTTGTTTGGATACATTGGATATATATATAAGGAATTAAACACGGATTCTA
14094003 TTTC
66 TTTC
* * *
14094007 TAGAAATTTGTATATCTTGTTTGGATATATTGGATATATATATAAGGAATTAAACACGGATTCTA
1 TAGAAATGTCTATATCTTGTTTGGATACATTGGATATATATATAAGGAATTAAACACGGATTCTA
*
14094072 TTTT
66 TTTC
14094076 TAGATAATGTCT-TATCTTAGTTT
1 TAGA-AATGTCTATATCTT-GTTT
14094099 TATTATAATG
Statistics
Matches: 85, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
69 76 0.89
70 9 0.11
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (69 bp):
TAGAAATGTCTATATCTTGTTTGGATACATTGGATATATATATAAGGAATTAAACACGGATTCTA
TTTC
Done.