Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 75 of 77
Found at i:15125406 original size:18 final size:18
Alignment explanation
Indices: 15125362--15125397 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15125352 AACTAAGCTT
15125362 ATTAGCATACACCGATGC
1 ATTAGCATACACCGATGC
15125380 ATTAGCATACACCGATGC
1 ATTAGCATACACCGATGC
15125398 GTTTGCATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (18 bp):
ATTAGCATACACCGATGC
Found at i:15137559 original size:20 final size:19
Alignment explanation
Indices: 15137520--15137559 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
15137510 TTTTCGAAAA
15137520 TATATTTTTGAGAAATCAT
1 TATATTTTTGAGAAATCAT
15137539 TATACTTTTT-AGAAATGCAT
1 TATA-TTTTTGAGAAAT-CAT
15137559 T
1 T
15137560 TACAAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (19 bp):
TATATTTTTGAGAAATCAT
Found at i:15140508 original size:22 final size:23
Alignment explanation
Indices: 15140480--15140522 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15140470 CCGTTCTTTC
*
15140480 TTTCTTT-TTTGTTTTGTTTTTT
1 TTTCTTTATTTGTTTTATTTTTT
*
15140502 TTTCTTTATTTTTTTTATTTT
1 TTTCTTTATTTGTTTTATTTT
15140523 AAGCGATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.86
Consensus pattern (23 bp):
TTTCTTTATTTGTTTTATTTTTT
Found at i:15142138 original size:9 final size:9
Alignment explanation
Indices: 15142124--15142156 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
15142114 TGGAACAGGC
15142124 TTTGATGAT
1 TTTGATGAT
15142133 TTTGATGAT
1 TTTGATGAT
15142142 TTTGATGAT
1 TTTGATGAT
*
15142151 ATTGAT
1 TTTGAT
15142157 AGTTACGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (9 bp):
TTTGATGAT
Found at i:15151170 original size:29 final size:28
Alignment explanation
Indices: 15151120--15151176 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
15151110 CAAGCTTTCG
* *
15151120 GTTTAATAACATTTATCTAGCACTATGA
1 GTTTAATAACATTAATCAAGCACTATGA
15151148 GTTTAATAAACATTAATCAAGCACTATGA
1 GTTTAAT-AACATTAATCAAGCACTATGA
15151177 TTCAGGCCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (28 bp):
GTTTAATAACATTAATCAAGCACTATGA
Found at i:15153570 original size:2 final size:2
Alignment explanation
Indices: 15153563--15153589 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15153553 ATCACATGTA
15153563 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15153590 ATTATATTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15156845 original size:20 final size:20
Alignment explanation
Indices: 15156820--15156859 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
15156810 GAAATATGCT
*
15156820 ACCTTAATTATTGCTTTATA
1 ACCTTAACTATTGCTTTATA
15156840 ACCTTAACTATTGCTTTATA
1 ACCTTAACTATTGCTTTATA
15156860 GTGATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.47
Consensus pattern (20 bp):
ACCTTAACTATTGCTTTATA
Found at i:15157639 original size:20 final size:21
Alignment explanation
Indices: 15157606--15157644 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
15157596 GTTGTAATGG
*
15157606 GTAAAAGATCT-AAACAAAAA
1 GTAAAAGATATAAAACAAAAA
*
15157626 GTAAATGATATAAAACAAA
1 GTAAAAGATATAAAACAAA
15157645 CTACAGAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.18
Consensus pattern (21 bp):
GTAAAAGATATAAAACAAAAA
Found at i:15160591 original size:12 final size:12
Alignment explanation
Indices: 15160574--15160598 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15160564 TTTTATGACG
15160574 GTGAAATTTTTA
1 GTGAAATTTTTA
15160586 GTGAAATTTTTA
1 GTGAAATTTTTA
15160598 G
1 G
15160599 ACTTTCATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (12 bp):
GTGAAATTTTTA
Found at i:15167625 original size:1 final size:1
Alignment explanation
Indices: 15167619--15167647 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
15167609 TTTCTGTGTG
15167619 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15167648 ACTTTTGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:15191953 original size:30 final size:30
Alignment explanation
Indices: 15191897--15191953 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15191887 TTTTATATTT
*
15191897 TTTTCATTAAAATGAATCTTACATTTTTTA
1 TTTTCATTAAAATAAATCTTACATTTTTTA
15191927 TTTTCACTT-AAATAAATCATTA-ATTTT
1 TTTTCA-TTAAAATAAATC-TTACATTTT
15191954 AATTTATATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.53
Consensus pattern (30 bp):
TTTTCATTAAAATAAATCTTACATTTTTTA
Found at i:15192000 original size:29 final size:29
Alignment explanation
Indices: 15191935--15192001 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
15191925 TATTTTCACT
*
15191935 TAAATAAATCATTAATTTTAATTTATATC
1 TAAACAAATCATTAATTTTAATTTATATC
* *
15191964 CAACCAAATC-TTAACTTTTAATTTATA-C
1 TAAACAAATCATTAA-TTTTAATTTATATC
15191992 ATAAACAAAT
1 -TAAACAAAT
15192002 TTTTAATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.40
Consensus pattern (29 bp):
TAAACAAATCATTAATTTTAATTTATATC
Found at i:15194553 original size:145 final size:145
Alignment explanation
Indices: 15194290--15194567 Score: 484
Period size: 145 Copynumber: 1.9 Consensus size: 145
15194280 AGGTTTTACT
* *
15194290 TGCAATGGTCGGTCATGGAACATCAGCCAAAACATATAATGTATGATTCTTCTACATCTATTTCA
1 TGCAATGGTCAGTCATGAAACATCAGCCAAAACATATAATGTATGATTCTTCTACATCTATTTCA
* * *
15194355 GATATATGCTCTTATGCTTGCTATCTCCGCACATATTGTGCTTTATGAGGAATTCTGATATGCGC
66 GATATATGCTCTTATACTTGCTATCTCCGCACATATTGTGCTGTATGAGGAATTCTGATATGCAC
15194420 TTACGAGTAAAAACC
131 TTACGAGTAAAAACC
* *
15194435 TGCAATGGTCAGTCATGAAACATCATCCAAAACATATAATGTATGATTCTTTTACATCTATTTCA
1 TGCAATGGTCAGTCATGAAACATCAGCCAAAACATATAATGTATGATTCTTCTACATCTATTTCA
*
15194500 GATATATGCTCTTATACTTGCTATCTCCGCACATATTGTGCTGTATGAGGAATTTTGATATGCAC
66 GATATATGCTCTTATACTTGCTATCTCCGCACATATTGTGCTGTATGAGGAATTCTGATATGCAC
15194565 TTA
131 TTA
15194568 AGAGGATGTT
Statistics
Matches: 125, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
145 125 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (145 bp):
TGCAATGGTCAGTCATGAAACATCAGCCAAAACATATAATGTATGATTCTTCTACATCTATTTCA
GATATATGCTCTTATACTTGCTATCTCCGCACATATTGTGCTGTATGAGGAATTCTGATATGCAC
TTACGAGTAAAAACC
Found at i:15199646 original size:22 final size:22
Alignment explanation
Indices: 15199618--15199659 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15199608 CTTGACCCAT
* *
15199618 TCTTCAGTTAATAAAAGTTGAA
1 TCTTCAGTCAAGAAAAGTTGAA
15199640 TCTTCAGTCAAGAAAAGTTG
1 TCTTCAGTCAAGAAAAGTTG
15199660 GGTTTTGGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (22 bp):
TCTTCAGTCAAGAAAAGTTGAA
Found at i:15201994 original size:22 final size:22
Alignment explanation
Indices: 15201966--15202008 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15201956 AGGAGAAAGT
**
15201966 ACTTGCAACTTTCTTTTCTGTA
1 ACTTGCAACAATCTTTTCTGTA
*
15201988 ACTTGCACCAATCTTTTCTGT
1 ACTTGCAACAATCTTTTCTGT
15202009 CCTCGAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (22 bp):
ACTTGCAACAATCTTTTCTGTA
Found at i:15204387 original size:23 final size:24
Alignment explanation
Indices: 15204351--15204411 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 24
15204341 AGATTCGTAC
* * * *
15204351 TTAATTTATGAAATATTTTTCATT
1 TTAACTTATAAAATATTTATAATT
15204375 TTAACTTA-AAAAT-TTTATAATT
1 TTAACTTATAAAATATTTATAATT
*
15204397 TTATCTTATAAAATA
1 TTAACTTATAAAATA
15204412 CGTATTACAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 14 0.47
23 9 0.30
24 7 0.23
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (24 bp):
TTAACTTATAAAATATTTATAATT
Found at i:15206578 original size:20 final size:20
Alignment explanation
Indices: 15206553--15206593 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
15206543 CGCATGTGAC
15206553 GAGGGATTGGGT-GGGATGGG
1 GAGGGATTGGGTAGGG-TGGG
15206573 GAGGGATTGGGTAGGGTGGG
1 GAGGGATTGGGTAGGGTGGG
15206593 G
1 G
15206594 TGTAGGGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.15, C:0.00, G:0.66, T:0.20
Consensus pattern (20 bp):
GAGGGATTGGGTAGGGTGGG
Found at i:15206922 original size:19 final size:19
Alignment explanation
Indices: 15206900--15206938 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
15206890 TGTATTTGAA
*
15206900 TTTTAATATTTTTTTGTTG
1 TTTTAATATTTTATTGTTG
*
15206919 TTTTGATATTTTATTGTTG
1 TTTTAATATTTTATTGTTG
15206938 T
1 T
15206939 CATTTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.72
Consensus pattern (19 bp):
TTTTAATATTTTATTGTTG
Found at i:15208423 original size:22 final size:23
Alignment explanation
Indices: 15208398--15208445 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
15208388 TATAAATTTT
15208398 TTATTAAT-CTTTTTAATCACAA
1 TTATTAATACTTTTTAATCACAA
* *
15208420 TTA-TAATATTTTTTAATCATAA
1 TTATTAATACTTTTTAATCACAA
15208442 TTAT
1 TTAT
15208446 AATTATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (23 bp):
TTATTAATACTTTTTAATCACAA
Found at i:15208446 original size:22 final size:22
Alignment explanation
Indices: 15208407--15208448 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15208397 TTTATTAATC
15208407 TTTTTAATCACAATTATAATAT
1 TTTTTAATCACAATTATAATAT
*
15208429 TTTTTAATCATAATTATAAT
1 TTTTTAATCACAATTATAAT
15208449 TATAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTTAATCACAATTATAATAT
Found at i:15213163 original size:28 final size:27
Alignment explanation
Indices: 15213107--15213181 Score: 66
Period size: 28 Copynumber: 2.8 Consensus size: 27
15213097 ATAAATAATT
*
15213107 ATTTAATTATAAAATTAATCTAATAAA
1 ATTTAATTATAAAATTAATCAAATAAA
* *
15213134 ATTTAAATT-TAAATATTATTCAAATTAA
1 ATTT-AATTATAAA-ATTAATCAAATAAA
*
15213162 A-TT-ATTAAAAAATTTAATCA
1 ATTTAATTATAAAA-TTAATCA
15213182 TTTTAATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
25 4 0.10
26 9 0.23
27 10 0.26
28 16 0.41
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (27 bp):
ATTTAATTATAAAATTAATCAAATAAA
Found at i:15213577 original size:13 final size:13
Alignment explanation
Indices: 15213543--15213586 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
15213533 ATGGACTCAA
15213543 ATTTTTAAAAAAT
1 ATTTTTAAAAAAT
***
15213556 ATAAATAAAAAAT
1 ATTTTTAAAAAAT
15213569 ATTTTT-AAAAAT
1 ATTTTTAAAAAAT
15213581 ATTTTT
1 ATTTTT
15213587 GTGATTGGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTTTAAAAAAT
Found at i:15214261 original size:16 final size:14
Alignment explanation
Indices: 15214174--15214252 Score: 68
Period size: 14 Copynumber: 5.1 Consensus size: 14
15214164 TCAAAAAGTT
15214174 ATAAATCTTTTCGAAA
1 ATAAAT-TTTT-GAAA
15214190 ATAAATTTTTGAAA
1 ATAAATTTTTGAAA
* *
15214204 ATAGATTTTTAAAGGA
1 ATAAATTTTTGAA--A
15214220 TTATAAATTTTTTTGAAA
1 --ATAAA--TTTTTGAAA
15214238 ATAAATTTTTGAAA
1 ATAAATTTTTGAAA
15214252 A
1 A
15214253 GTTAAATTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
14 25 0.47
15 4 0.08
16 12 0.23
18 5 0.09
20 7 0.13
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.43
Consensus pattern (14 bp):
ATAAATTTTTGAAA
Found at i:15214432 original size:2 final size:2
Alignment explanation
Indices: 15214425--15214456 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15214415 GTTTATCTTT
15214425 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15214457 ATAAATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15219240 original size:20 final size:22
Alignment explanation
Indices: 15219215--15219258 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
15219205 TTTTTTATTT
*
15219215 TATAAAAATT-TTAAAAA-ATA
1 TATAAAAATTAATAAAAACATA
15219235 TATAAAAATTAATAAAAACATA
1 TATAAAAATTAATAAAAACATA
15219257 TA
1 TA
15219259 ATTCAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 6 0.29
22 5 0.24
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
TATAAAAATTAATAAAAACATA
Found at i:15219692 original size:19 final size:20
Alignment explanation
Indices: 15219655--15219696 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
15219645 GGACCAACCA
*
15219655 CTTGTTTTTTGTTTGGTTTT
1 CTTGTTTTATGTTTGGTTTT
15219675 CTTGTTTTATGTTT-GTTTT
1 CTTGTTTTATGTTTGGTTTT
15219694 CTT
1 CTT
15219697 TTTGACATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.02, C:0.07, G:0.17, T:0.74
Consensus pattern (20 bp):
CTTGTTTTATGTTTGGTTTT
Found at i:15223892 original size:96 final size:96
Alignment explanation
Indices: 15223728--15223920 Score: 350
Period size: 96 Copynumber: 2.0 Consensus size: 96
15223718 GATGAGAAGA
* * *
15223728 CCAATTCATCAGAAGATACCAGGTCAAAGAGGATAATAAAGCACCATTTCAGTCGAAGAGCTAAA
1 CCAATACATCAGAAGATAACAGGTCAAAGAGGACAATAAAGCACCATTTCAGTCGAAGAGCTAAA
15223793 TCTAGTCATTCTGTTAGTTTAGTTCCCCAGG
66 TCTAGTCATTCTGTTAGTTTAGTTCCCCAGG
*
15223824 CCAATACATCAGAAGATAACAGGTCAAAGAGGACAATAAAGCACCATTTCATTCGAAGAGCTAAA
1 CCAATACATCAGAAGATAACAGGTCAAAGAGGACAATAAAGCACCATTTCAGTCGAAGAGCTAAA
15223889 TCTAGTCATTCTGTTAGTTTAGTTCCCCAGG
66 TCTAGTCATTCTGTTAGTTTAGTTCCCCAGG
15223920 C
1 C
15223921 AAAACGAAAG
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (96 bp):
CCAATACATCAGAAGATAACAGGTCAAAGAGGACAATAAAGCACCATTTCAGTCGAAGAGCTAAA
TCTAGTCATTCTGTTAGTTTAGTTCCCCAGG
Found at i:15225736 original size:42 final size:38
Alignment explanation
Indices: 15225665--15225769 Score: 93
Period size: 42 Copynumber: 2.6 Consensus size: 38
15225655 ATACATTATA
* * *
15225665 TTAATAAAATTATTATTTAATATTTTAATTTAAGATGTTAAG
1 TTAATAAAAATATTATTT--TATTATAA-TTAAAATG-TAAG
*
15225707 TTAATAAAAATATTATATTTATGTATAATTAAAATGTAAT
1 TTAATAAAAATATTAT-TTTAT-TATAATTAAAATGTAAG
*
15225747 TTATATTAAAAATAATATTTTAT
1 TTA-A-TAAAAATATTATTTTAT
15225770 AAATATTATA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
40 6 0.11
41 16 0.30
42 30 0.56
43 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (38 bp):
TTAATAAAAATATTATTTTATTATAATTAAAATGTAAG
Found at i:15227970 original size:16 final size:15
Alignment explanation
Indices: 15227949--15227978 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15227939 AAATTAAGAG
15227949 TTTAAATATAATTTAA
1 TTTAAATAT-ATTTAA
15227965 TTTAAATATATTTA
1 TTTAAATATATTTA
15227979 TTATTTGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAAATATATTTAA
Found at i:15234193 original size:2 final size:2
Alignment explanation
Indices: 15234188--15234227 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
15234178 CATATGTATG
15234188 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15234228 AACCTGAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15237914 original size:2 final size:2
Alignment explanation
Indices: 15237869--15237904 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
15237859 TGCAAATTAC
* *
15237869 TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15237905 CAAGTATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15242663 original size:37 final size:37
Alignment explanation
Indices: 15242613--15242687 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
15242603 TGGTAAAGTT
*
15242613 AGTAAACTCACTGGGAGATACAGGTCTCACATACATG
1 AGTAAACTCACTGGGACATACAGGTCTCACATACATG
15242650 AGTAAACTCACTGGGACATACAGGTCTCACATACATG
1 AGTAAACTCACTGGGACATACAGGTCTCACATACATG
15242687 A
1 A
15242688 CTTGTATGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (37 bp):
AGTAAACTCACTGGGACATACAGGTCTCACATACATG
Found at i:15248689 original size:22 final size:23
Alignment explanation
Indices: 15248658--15248700 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
15248648 AATTATATAT
15248658 TTTTTAATATTTAAAATTTTTGG
1 TTTTTAATATTTAAAATTTTTGG
* *
15248681 TTTTT-ATATTTTAATTTTTT
1 TTTTTAATATTTAAAATTTTT
15248701 TTTTACTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (23 bp):
TTTTTAATATTTAAAATTTTTGG
Found at i:15252096 original size:26 final size:26
Alignment explanation
Indices: 15252067--15252116 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
15252057 TTTCACTGTT
15252067 TTGGTTGTGTGATTGT-ACCATTTCCC
1 TTGGTT-TGTGATTGTCACCATTTCCC
* *
15252093 TTGGTTTGTTATTTTCACCATTTC
1 TTGGTTTGTGATTGTCACCATTTC
15252117 AAGGGCATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.52
Consensus pattern (26 bp):
TTGGTTTGTGATTGTCACCATTTCCC
Found at i:15257482 original size:24 final size:25
Alignment explanation
Indices: 15257455--15257501 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
15257445 TATTTAGGTA
15257455 ATTTTTT-ATAAAATATATTAATAT
1 ATTTTTTAATAAAATATATTAATAT
15257479 ATTTTTTAATAAAATATATTAAT
1 ATTTTTTAATAAAATATATTAAT
15257502 TTTAATTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTTTTTAATAAAATATATTAATAT
Found at i:15258255 original size:20 final size:20
Alignment explanation
Indices: 15258209--15258261 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
15258199 TATAAACCCA
15258209 AAATAAAATATTATTTTCCT
1 AAATAAAATATTATTTTCCT
*
15258229 AAA-AAAATCATTATTTTTC-
1 AAATAAAAT-ATTATTTTCCT
*
15258248 AAATAAAATGTTAT
1 AAATAAAATATTAT
15258262 CTACTAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (20 bp):
AAATAAAATATTATTTTCCT
Found at i:15276763 original size:14 final size:14
Alignment explanation
Indices: 15276744--15276773 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15276734 GAAAGCTTTT
*
15276744 TTTTTTTTTCTGAA
1 TTTTTTTCTCTGAA
15276758 TTTTTTTCTCTGAA
1 TTTTTTTCTCTGAA
15276772 TT
1 TT
15276774 AAAATTTTAA
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:0.13, C:0.10, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTTTTTCTCTGAA
Found at i:15280386 original size:93 final size:93
Alignment explanation
Indices: 15280227--15280397 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
15280217 GCGGCTCGGA
15280227 GCTAGAGTGTTCGACGCAATGGCGGAAGGCCACGTCACCAAAATGATGTTTTTTCGGTTGGCAAT
1 GCTAGAGTGTTCGACGCAATGGCGGAAGGCCACGTCACCAAAATGATGTTTTTTCGGTTGGCAAT
*
15280292 TTCGGACTACTAACGTTACGGGGTCCGT
66 TTCGGAATACTAACGTTACGGGGTCCGT
* *
15280320 GCTAGAGTGTTCGACGCAATGTCGGAAGGCCACGTCACCAAAATGAT-TCTTTTTGGGTTGGCAA
1 GCTAGAGTGTTCGACGCAATGGCGGAAGGCCACGTCACCAAAATGATGT-TTTTTCGGTTGGCAA
15280384 TTTCGGAATACTAA
65 TTTCGGAATACTAA
15280398 TGTCATGGCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (93 bp):
GCTAGAGTGTTCGACGCAATGGCGGAAGGCCACGTCACCAAAATGATGTTTTTTCGGTTGGCAAT
TTCGGAATACTAACGTTACGGGGTCCGT
Found at i:15285058 original size:2 final size:2
Alignment explanation
Indices: 15285051--15285076 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15285041 ATTATTAAAA
15285051 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
15285077 CTTGAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15285712 original size:11 final size:10
Alignment explanation
Indices: 15285683--15285709 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
15285673 TTAAATGTAT
15285683 AAAATTTGAA
1 AAAATTTGAA
15285693 AAAATTTGAA
1 AAAATTTGAA
15285703 AAAATTT
1 AAAATTT
15285710 TGATATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (10 bp):
AAAATTTGAA
Found at i:15287405 original size:26 final size:25
Alignment explanation
Indices: 15287376--15287427 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
15287366 GTTATTTTAT
* * *
15287376 ATCAAATTTATATAAATATATTAAAA
1 ATCAAATTCAAAT-AATATATAAAAA
*
15287402 ATCATATTCAAATAATATATAAAAA
1 ATCAAATTCAAATAATATATAAAAA
15287427 A
1 A
15287428 ATTTAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (25 bp):
ATCAAATTCAAATAATATATAAAAA
Found at i:15289469 original size:19 final size:19
Alignment explanation
Indices: 15289440--15289484 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
15289430 GTGTCAATCG
* * *
15289440 AAATAAATTGATAATTAAT
1 AAATCAATTGAAAAATAAT
*
15289459 AACTCAATTGAAAAATAAT
1 AAATCAATTGAAAAATAAT
15289478 AAATCAA
1 AAATCAA
15289485 CATCTTTATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (19 bp):
AAATCAATTGAAAAATAAT
Found at i:15290112 original size:15 final size:16
Alignment explanation
Indices: 15290086--15290118 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15290076 TTTTAATTAA
15290086 AAAATAAAAAAATTTT
1 AAAATAAAAAAATTTT
*
15290102 AAAATAAAAAATTTTT
1 AAAATAAAAAAATTTT
15290118 A
1 A
15290119 TTTTAAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATAAAAAAATTTT
Found at i:15297253 original size:18 final size:18
Alignment explanation
Indices: 15297219--15297266 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
15297209 ATATATATAA
15297219 TATATTT-TA-TT-ATTT
1 TATATTTATATTTAATTT
15297234 TATATTTATATTTAATTT
1 TATATTTATATTTAATTT
*
15297252 TATAGTTATATTTAA
1 TATATTTATATTTAA
15297267 AAAATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 7 0.24
16 2 0.07
17 2 0.07
18 18 0.62
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TATATTTATATTTAATTT
Found at i:15297278 original size:18 final size:19
Alignment explanation
Indices: 15297257--15297308 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
15297247 AATTTTATAG
15297257 TTATATTTAAAA-AATATT
1 TTATATTTAAAATAATATT
*
15297275 TTATATTAAAAATAATATT
1 TTATATTTAAAATAATATT
15297294 TTATTAATTTAAAAT
1 TTA-T-ATTTAAAAT
15297309 CCAATCAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 11 0.38
19 9 0.31
20 1 0.03
21 8 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATATTTAAAATAATATT
Found at i:15298148 original size:12 final size:12
Alignment explanation
Indices: 15298133--15298183 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
15298123 GGCAGAAGGA
*
15298133 AAACCAGAAACT
1 AAACCAGAATCT
*
15298145 AAACAAGAATCT
1 AAACCAGAATCT
* * *
15298157 AAGCCAGAAGCC
1 AAACCAGAATCT
15298169 AAACCAGAATCT
1 AAACCAGAATCT
15298181 AAA
1 AAA
15298184 GAAGCAGAAG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.55, C:0.24, G:0.12, T:0.10
Consensus pattern (12 bp):
AAACCAGAATCT
Found at i:15298163 original size:24 final size:24
Alignment explanation
Indices: 15298136--15298182 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
15298126 AGAAGGAAAA
*
15298136 CCAGAAACTAAACAAGAATCTAAG
1 CCAGAAACCAAACAAGAATCTAAG
* *
15298160 CCAGAAGCCAAACCAGAATCTAA
1 CCAGAAACCAAACAAGAATCTAA
15298183 AGAAGCAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.51, C:0.26, G:0.13, T:0.11
Consensus pattern (24 bp):
CCAGAAACCAAACAAGAATCTAAG
Found at i:15301092 original size:14 final size:14
Alignment explanation
Indices: 15301073--15301100 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15301063 ATTCTATTCG
15301073 AATTAAATTTTATT
1 AATTAAATTTTATT
15301087 AATTAAATTTTATT
1 AATTAAATTTTATT
15301101 TGATTCTTTA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTAAATTTTATT
Found at i:15301159 original size:21 final size:22
Alignment explanation
Indices: 15301116--15301175 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
15301106 CTTTAATTTT
*
15301116 TAAATTTTTTATATATTATTTTAA
1 TAAAATTTTTA-ATA-TATTTTAA
*
15301140 TAAAATTTTTAATATATTTAAA
1 TAAAATTTTTAATATATTTTAA
15301162 T-AAATTTTT-ATATA
1 TAAAATTTTTAATATA
15301176 AAATAATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.15
21 8 0.24
22 8 0.24
23 3 0.09
24 10 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TAAAATTTTTAATATATTTTAA
Found at i:15309145 original size:21 final size:21
Alignment explanation
Indices: 15309093--15309145 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
15309083 AAAATTGTAA
* *
15309093 AATTTAATTCAAATTTGAATT
1 AATTTTATTTAAATTTGAATT
15309114 AATATTT-TTTAAATTT-AATT
1 AAT-TTTATTTAAATTTGAATT
15309134 GAATTTTATTTA
1 -AATTTTATTTA
15309146 TTCAGTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 7 0.26
21 18 0.67
22 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (21 bp):
AATTTTATTTAAATTTGAATT
Found at i:15311017 original size:35 final size:33
Alignment explanation
Indices: 15310973--15311042 Score: 79
Period size: 35 Copynumber: 2.1 Consensus size: 33
15310963 TTGATTTTTT
*
15310973 TATTTAATTTAAA-ATAAATTTAAATATTAAATATA
1 TATTAAATTTAAATA-AAATTTAAA-ATTAAA-ATA
* *
15311008 TATTAAATTTGAATAAAATTTCAAATTAAAATA
1 TATTAAATTTAAATAAAATTTAAAATTAAAATA
15311041 TA
1 TA
15311043 AAAAATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
33 5 0.16
34 6 0.19
35 19 0.61
36 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (33 bp):
TATTAAATTTAAATAAAATTTAAAATTAAAATA
Found at i:15311078 original size:23 final size:21
Alignment explanation
Indices: 15311040--15311085 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
15311030 AAATTAAAAT
*
15311040 ATAAAAAATAATTTTTATAAA
1 ATAAAAAATAATTTTTACAAA
15311061 ATAAAAAATAATTATTTTACAAA
1 ATAAAAAATAA-T-TTTTACAAA
15311084 AT
1 AT
15311086 TTATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.50
22 1 0.05
23 10 0.45
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
ATAAAAAATAATTTTTACAAA
Found at i:15315278 original size:15 final size:16
Alignment explanation
Indices: 15315253--15315282 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15315243 ATTAGAAATA
15315253 TATTCATTGTAATATT
1 TATTCATTGTAATATT
15315269 TATT-ATTGTAATAT
1 TATTCATTGTAATAT
15315283 ATGTTTGCTG
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:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (16 bp):
TATTCATTGTAATATT
Found at i:15318542 original size:22 final size:22
Alignment explanation
Indices: 15318532--15318609 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
15318522 TATATTTTTA
15318532 TTTTATTAAATTTATTTATAAT
1 TTTTATTAAATTTATTTATAAT
*
15318554 TTTTATTAAAATTTTAATTATATTAT
1 TTTTATT-AAA-TTT-ATT-TATAAT
** *
15318580 TTTTA-TATTTTTATTTATATT
1 TTTTATTAAATTTATTTATAAT
15318601 ATTTTATTA
1 -TTTTATTA
15318610 TTATAGTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
21 4 0.09
22 15 0.33
23 8 0.18
24 4 0.09
25 4 0.09
26 10 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTATTAAATTTATTTATAAT
Found at i:15318611 original size:23 final size:23
Alignment explanation
Indices: 15318529--15318609 Score: 85
Period size: 23 Copynumber: 3.5 Consensus size: 23
15318519 ATATATATTT
*
15318529 TTATTTTATTAAATTTATTTATA
1 TTATTTTATTAATTTTATTTATA
* *
15318552 AT-TTTTATTAAAATTTTAATTATA
1 TTATTTTATT--AATTTTATTTATA
*
15318576 TTATTTT-TATATTTTTATTTATA
1 TTATTTTAT-TAATTTTATTTATA
15318599 TTATTTTATTA
1 TTATTTTATTA
15318610 TTATAGTATT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
22 7 0.15
23 21 0.45
24 14 0.30
25 5 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTATTTTATTAATTTTATTTATA
Found at i:15321251 original size:35 final size:37
Alignment explanation
Indices: 15321212--15321285 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
15321202 TTTTAAATCA
* *
15321212 TATTTATATT-TTT-TATTGTATCATTATATCATGTT
1 TATTTATATTATTTATATTATATCATTATATCATATT
*
15321247 TATTTATATTATTTATATTATATTATTATATCATATT
1 TATTTATATTATTTATATTATATCATTATATCATATT
15321284 TA
1 TA
15321286 AAATTATCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 10 0.29
36 3 0.09
37 21 0.62
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (37 bp):
TATTTATATTATTTATATTATATCATTATATCATATT
Found at i:15321275 original size:13 final size:14
Alignment explanation
Indices: 15321212--15321283 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 14
15321202 TTTTAAATCA
*
15321212 TATTTATATT-TTT
1 TATTTATATTATAT
15321225 TATTGTATCATTATAT
1 TATT-TAT-ATTATAT
*
15321241 CATGTT-TATTTATAT
1 TAT-TTATA-TTATAT
15321256 TATTTATATTATAT
1 TATTTATATTATAT
*
15321270 TA-TTATATCATAT
1 TATTTATATTATAT
15321283 T
1 T
15321284 TAAAATTATC
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
13 15 0.31
14 14 0.29
15 14 0.29
16 5 0.10
17 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (14 bp):
TATTTATATTATAT
Found at i:15324400 original size:14 final size:14
Alignment explanation
Indices: 15324373--15324410 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
15324363 ACATATTCAA
15324373 AAAATATATATAA-T
1 AAAATAT-TATAATT
15324387 ATAAATATTATAATT
1 A-AAATATTATAATT
15324402 AAAATATTA
1 AAAATATTA
15324411 AATCATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATATTATAATT
Found at i:15339477 original size:20 final size:20
Alignment explanation
Indices: 15339441--15339496 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
15339431 TATCAATTTT
15339441 TAATTAAAATAATAAAAATA
1 TAATTAAAATAATAAAAATA
*
15339461 TATATTAAAAT-ATAAAAATT
1 TA-ATTAAAATAATAAAAATA
*
15339481 TAATTAAACTAATAAA
1 TAATTAAAATAATAAA
15339497 TTATTTGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.22
20 17 0.53
21 8 0.25
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
TAATTAAAATAATAAAAATA
Found at i:15344958 original size:57 final size:56
Alignment explanation
Indices: 15344883--15345063 Score: 221
Period size: 57 Copynumber: 3.2 Consensus size: 56
15344873 CAGAAGGTAC
*
15344883 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAAA
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTT-TAAG
* *
15344940 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAACTTTGA--TT-AG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTT-GAAATTT-ATTTTAAG
*
15344997 GAAAATTGATACTTTCAACTTTT-CCTAAAAA-A-TTTTTTGAAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-AAATTTA-TTTTAAG
15345052 GAAAATTGATAC
1 GAAAATTGATAC
15345064 CCCTTCTAAA
Statistics
Matches: 109, Mismatches: 6, Indels: 20
0.81 0.04 0.15
Matches are distributed among these distances:
51 2 0.02
52 11 0.10
54 2 0.02
55 15 0.14
56 6 0.06
57 57 0.52
58 1 0.01
59 8 0.07
60 6 0.06
61 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (56 bp):
GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTTAAG
Found at i:15347188 original size:16 final size:16
Alignment explanation
Indices: 15347167--15347204 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15347157 TTTTAAATGG
*
15347167 GATATAATGATAATAT
1 GATATAATAATAATAT
*
15347183 GATATAATAATGATAT
1 GATATAATAATAATAT
15347199 GA-ATAA
1 GATATAA
15347205 AAAATATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (16 bp):
GATATAATAATAATAT
Found at i:15347256 original size:23 final size:22
Alignment explanation
Indices: 15347229--15347282 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
15347219 ATATGATTTA
15347229 AAATTTTAATAAAAATTATAAAT
1 AAATTTTAAT-AAAATTATAAAT
*
15347252 AAA-TTTAATAAAATTTTAAAT
1 AAATTTTAATAAAATTATAAAT
15347273 ATATATTTTA
1 A-A-ATTTTA
15347283 TATTTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 12 0.44
22 7 0.26
23 4 0.15
24 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AAATTTTAATAAAATTATAAAT
Found at i:15347266 original size:21 final size:22
Alignment explanation
Indices: 15347233--15347273 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15347223 GATTTAAAAT
15347233 TTTAATAAAAATTATAAATAAA
1 TTTAATAAAAATTATAAATAAA
*
15347255 TTTAAT-AAAATTTTAAATA
1 TTTAATAAAAATTATAAATA
15347274 TATATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTAATAAAAATTATAAATAAA
Found at i:15347303 original size:31 final size:33
Alignment explanation
Indices: 15347255--15347338 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 33
15347245 TATAAATAAA
* *
15347255 TTTA-ATAAAATTTTAAATATAT-AT-TTTATATT
1 TTTATATAAAA-TATAAATATATGATATATA-ATT
* *
15347287 TTTTTAT-AGATATAAAT-TATGATATATAATT
1 TTTATATAAAATATAAATATATGATATATAATT
15347318 TTTATATAAAATATAAATATA
1 TTTATATAAAATATAAATATA
15347339 CATATTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
30 3 0.07
31 17 0.41
32 17 0.41
33 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (33 bp):
TTTATATAAAATATAAATATATGATATATAATT
Found at i:15349789 original size:5 final size:5
Alignment explanation
Indices: 15349779--15349828 Score: 57
Period size: 5 Copynumber: 10.2 Consensus size: 5
15349769 TGATTAATTC
* * * *
15349779 CTTTT CTTTT CTTTT CTTTT CTTTC CTTTT -TTTT TTTTT TTTTT GTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
15349828 C
1 C
15349829 AGATGAGCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
4 4 0.10
5 36 0.90
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (5 bp):
CTTTT
Found at i:15349828 original size:25 final size:25
Alignment explanation
Indices: 15349776--15349822 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
15349766 TTGTGATTAA
15349776 TTCCTTTTCTTTTCTTTTCTTTTCT
1 TTCCTTTTCTTTTCTTTTCTTTTCT
* *
15349801 TTCCTTTT-TTTTTTTTTTTTTT
1 TTCCTTTTCTTTTCTTTTCTTTT
15349823 GTTTTCAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (25 bp):
TTCCTTTTCTTTTCTTTTCTTTTCT
Found at i:15350477 original size:16 final size:16
Alignment explanation
Indices: 15350456--15350490 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15350446 ATTGACAAGC
15350456 TCTTTTAACATTGTTT
1 TCTTTTAACATTGTTT
* *
15350472 TCTTTTACCCTTGTTT
1 TCTTTTAACATTGTTT
15350488 TCT
1 TCT
15350491 CCTCTGGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.20, G:0.06, T:0.63
Consensus pattern (16 bp):
TCTTTTAACATTGTTT
Found at i:15351911 original size:22 final size:22
Alignment explanation
Indices: 15351885--15351928 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15351875 TGTATATTTA
*
15351885 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
15351907 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
15351929 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:15352332 original size:18 final size:18
Alignment explanation
Indices: 15352309--15352343 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15352299 ATGTTCTTTG
*
15352309 GGTAAAGTTTCTAGTTCA
1 GGTAAAGCTTCTAGTTCA
*
15352327 GGTAAAGCTTCTGGTTC
1 GGTAAAGCTTCTAGTTC
15352344 TCATGGATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (18 bp):
GGTAAAGCTTCTAGTTCA
Found at i:15355266 original size:22 final size:22
Alignment explanation
Indices: 15355240--15355283 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15355230 TGTATATTTA
*
15355240 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
15355262 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
15355284 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:15365506 original size:16 final size:16
Alignment explanation
Indices: 15365478--15365522 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
15365468 TTATACGATG
15365478 ATATAATATAAAAATA
1 ATATAATATAAAAATA
*
15365494 ATATGAATAAAAAATATA
1 ATAT-AATATAAAA-ATA
*
15365512 AAATAATATAA
1 ATATAATATAA
15365523 TTTAAAATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 14 0.58
18 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
ATATAATATAAAAATA
Found at i:15366839 original size:32 final size:32
Alignment explanation
Indices: 15366768--15366840 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 32
15366758 ATAGTAATCG
** * *
15366768 AACTGATAGAAAATTTTTAAATAACGGATTAT
1 AACTGATCCAAAATTTTTAAATAACGGATCAC
* **
15366800 AATTGATCCAAAATTTTTAAATAATTGATCAC
1 AACTGATCCAAAATTTTTAAATAACGGATCAC
15366832 AACTGATCC
1 AACTGATCC
15366841 GACCATAACC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (32 bp):
AACTGATCCAAAATTTTTAAATAACGGATCAC
Found at i:15367254 original size:14 final size:15
Alignment explanation
Indices: 15367235--15367263 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15367225 ACTAACAATC
15367235 AAATCAAAA-ATCAA
1 AAATCAAAACATCAA
15367249 AAATCAAAACATCAA
1 AAATCAAAACATCAA
15367264 CCAAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.17, G:0.00, T:0.14
Consensus pattern (15 bp):
AAATCAAAACATCAA
Found at i:15368631 original size:13 final size:14
Alignment explanation
Indices: 15368606--15368638 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
15368596 TTCCGTATCA
15368606 ATATAATTTTTTAT
1 ATATAATTTTTTAT
15368620 ATATAA-TTTTTAT
1 ATATAATTTTTTAT
15368633 ATATAA
1 ATATAA
15368639 ATATAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATAATTTTTTAT
Found at i:15368872 original size:15 final size:18
Alignment explanation
Indices: 15368822--15368887 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 18
15368812 TTTTATATTA
*
15368822 AAATAATAATTGA-TAATT
1 AAATAATAAAT-ATTAATT
* *
15368840 AAATTATAAATTTTAATAT
1 AAATAATAAATATTAAT-T
*
15368859 ATTAAAAATAAATATTAATT
1 A--AATAATAAATATTAATT
15368879 AAATAATAA
1 AAATAATAA
15368888 TTTCAAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 20 0.54
19 2 0.05
20 2 0.05
21 13 0.35
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
AAATAATAAATATTAATT
Found at i:15369038 original size:38 final size:39
Alignment explanation
Indices: 15368985--15369069 Score: 138
Period size: 38 Copynumber: 2.2 Consensus size: 39
15368975 TCAGTGGTAT
*
15368985 TATAAAATGTAAATATACTTTATTTTGTTGTAAAATTTTA
1 TATAAAATGTAAATATACTTTATTTTATTGTAAAA-TTTA
15369025 TATAAAAT-T-AATATACTTTATTTTATTGTAAAATTTA
1 TATAAAATGTAAATATACTTTATTTTATTGTAAAATTTA
15369062 TATAAAAT
1 TATAAAAT
15369070 CTAAGTACGA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
37 12 0.27
38 23 0.52
39 1 0.02
40 8 0.18
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (39 bp):
TATAAAATGTAAATATACTTTATTTTATTGTAAAATTTA
Found at i:15369185 original size:26 final size:26
Alignment explanation
Indices: 15369135--15369185 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
15369125 AAATAAAAAT
* *
15369135 TTAAATTTAATTTAATTATTCTTAAG
1 TTAAATTTAATTTAAGTAATCTTAAG
15369161 TTAAATTTAAATTTAAGTAAT-TTAA
1 TTAAATTT-AATTTAAGTAATCTTAA
15369186 TTTATTGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (26 bp):
TTAAATTTAATTTAAGTAATCTTAAG
Found at i:15370645 original size:160 final size:159
Alignment explanation
Indices: 15370378--15370725 Score: 545
Period size: 160 Copynumber: 2.2 Consensus size: 159
15370368 ATTGTAGTTG
* *
15370378 TAGTTTAGCATTGTAGTTGGGTTGCAAAAAACTTTGGGTAGTGAAATCATGGTGCAAAGCTGCAA
1 TAGTTTAGCATTGTAGTTGGGTTGTAAAAAACTTTGGGTAGTGAAATCATGATGCAAAGCTGCAA
* * **
15370443 TTTTGAATCCGTATAGCATTGTCATTGTGGTCCAGGTTAGAGTTTGACAA-CCTTACTTTGATAC
66 TTTTGAATCAGTATAGCATTGTCATTGTGGTCCAGATTAGAGTTTGACAATCC-TACCGTGATAC
*
15370507 GAAACTCAGCCTTTCTTGATTGGCTTAGGCT
130 G-AACTCAGCCTTTCTTGATCGGCTTAGGCT
* **
15370538 TAGTTTAGCATTGTAGTTGGGTTGTAAAAAACTTTGGGTTGTGAAATCATGATGCAGTGCTGCAA
1 TAGTTTAGCATTGTAGTTGGGTTGTAAAAAACTTTGGGTAGTGAAATCATGATGCAAAGCTGCAA
15370603 TTTTGAATCAGTATAGCATTGTCATTGTGGTCCAGATTAGAGTTTGACAATCCTACCGTGATACG
66 TTTTGAATCAGTATAGCATTGTCATTGTGGTCCAGATTAGAGTTTGACAATCCTACCGTGATACG
15370668 AACTCAGCCTTTCTTGATCGGCTTAGGCT
131 AACTCAGCCTTTCTTGATCGGCTTAGGCT
* ** *
15370697 TAGTGTAATATTTTAGTTGGGTTGTAAAA
1 TAGTTTAGCATTGTAGTTGGGTTGTAAAA
15370726 CTTTGATTTG
Statistics
Matches: 173, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
159 53 0.31
160 118 0.68
161 2 0.01
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (159 bp):
TAGTTTAGCATTGTAGTTGGGTTGTAAAAAACTTTGGGTAGTGAAATCATGATGCAAAGCTGCAA
TTTTGAATCAGTATAGCATTGTCATTGTGGTCCAGATTAGAGTTTGACAATCCTACCGTGATACG
AACTCAGCCTTTCTTGATCGGCTTAGGCT
Found at i:15372906 original size:34 final size:32
Alignment explanation
Indices: 15372878--15372951 Score: 103
Period size: 32 Copynumber: 2.2 Consensus size: 32
15372868 TTTTTTCACG
*
15372878 TAAATTTTCAAAAAATTATAAAATTTTTTGAAAA
1 TAAATTTTCAAAAAATTAT--AATTTTTTTAAAA
* *
15372912 TAAATTTTCAAAAAGTTATAATTTTTTTGAAA
1 TAAATTTTCAAAAAATTATAATTTTTTTAAAA
15372944 TAAATTTT
1 TAAATTTT
15372952 TTTCAGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 19 0.51
34 18 0.49
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (32 bp):
TAAATTTTCAAAAAATTATAATTTTTTTAAAA
Found at i:15372935 original size:32 final size:33
Alignment explanation
Indices: 15372878--15372951 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 33
15372868 TTTTTTCACG
*
15372878 TAAATTTTCAAAAAATTATAAAATTTTTTGAAAA
1 TAAATTTTCAAAAAATTATAAATTTTTTTG-AAA
*
15372912 TAAATTTTCAAAAAGTTAT-AATTTTTTTGAAA
1 TAAATTTTCAAAAAATTATAAATTTTTTTGAAA
15372944 TAAATTTT
1 TAAATTTT
15372952 TTTCAGAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 11 0.29
33 9 0.24
34 18 0.47
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (33 bp):
TAAATTTTCAAAAAATTATAAATTTTTTTGAAA
Found at i:15373140 original size:32 final size:32
Alignment explanation
Indices: 15373012--15373147 Score: 116
Period size: 32 Copynumber: 4.2 Consensus size: 32
15373002 CAGAAAAGGT
* *
15373012 TTATAATTTTTTGAAAATCTATTTTTTAAAAAAAA
1 TTATAATTTTTTGAAAA--T-TTATTTACAAAAAA
* *
15373047 TTATAA-TTTTCGAAAATTTATTT-CTAGAAAA
1 TTATAATTTTTTGAAAATTTATTTAC-AAAAAA
* * * ** *
15373078 TTTTGATTTTCTGAAAATCCATTTATAAAAAA
1 TTATAATTTTTTGAAAATTTATTTACAAAAAA
15373110 TTATAATTTTTTGAAAATTTAATTT-CAAAAAA
1 TTATAATTTTTTGAAAATTT-ATTTACAAAAAA
15373142 TTATAA
1 TTATAA
15373148 AACTCTAAAA
Statistics
Matches: 79, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
31 14 0.18
32 46 0.58
33 4 0.05
34 9 0.11
35 6 0.08
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (32 bp):
TTATAATTTTTTGAAAATTTATTTACAAAAAA
Found at i:15373158 original size:63 final size:63
Alignment explanation
Indices: 15373036--15373158 Score: 142
Period size: 64 Copynumber: 2.0 Consensus size: 63
15373026 AAATCTATTT
* * * ***
15373036 TTTAAAAAAAATTATAATTTTCGAAAATTTATTTCTAGAAAATTTTGATTTTCTGAAAATCCA
1 TTTAAAAAAAATTATAATTTTCGAAAATTTATTTCTAAAAAATTATAAAACTCTGAAAATCCA
* *
15373099 TTTATAAAAAATTATAATTTTTTGAAAATTTAATTTC-AAAAAATTATAAAACTCT-AAAAT
1 TTTAAAAAAAATTATAA-TTTTCGAAAATTT-ATTTCTAAAAAATTATAAAACTCTGAAAAT
15373159 GTTGTCAAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
63 21 0.42
64 24 0.48
65 5 0.10
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (63 bp):
TTTAAAAAAAATTATAATTTTCGAAAATTTATTTCTAAAAAATTATAAAACTCTGAAAATCCA
Found at i:15373234 original size:14 final size:15
Alignment explanation
Indices: 15373205--15373237 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15373195 ACAAAAATTG
*
15373205 AAATGTGAAAAGAAA
1 AAATGAGAAAAGAAA
15373220 AAATGAGAAAA-AAA
1 AAATGAGAAAAGAAA
15373234 AAAT
1 AAAT
15373238 CTATGTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (15 bp):
AAATGAGAAAAGAAA
Found at i:15373936 original size:30 final size:30
Alignment explanation
Indices: 15373902--15373969 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
15373892 TTTTTATCAG
*
15373902 GTTTAATT-GAGTTAAAATAAATATATAAAA
1 GTTTAATTGGA-TGAAAATAAATATATAAAA
* *
15373932 GTTTAATTGGATGAAAGTAAATATTTAAAA
1 GTTTAATTGGATGAAAATAAATATATAAAA
*
15373962 ATTTAATT
1 GTTTAATT
15373970 ACTTTGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.40
Consensus pattern (30 bp):
GTTTAATTGGATGAAAATAAATATATAAAA
Found at i:15380984 original size:74 final size:74
Alignment explanation
Indices: 15380863--15381005 Score: 241
Period size: 74 Copynumber: 1.9 Consensus size: 74
15380853 ACTTAACTAC
15380863 ATTTAAGGAAGACTCAGATTCAACTAGAGCTTGACAGCTGACAAACACTTAGATACGTGTAAAAA
1 ATTTAAGGAAGACTCAGATTCAACTAGAGCTTGACAGCTGACAAACACTTAGATACGTGTAAAAA
15380928 CTCAGCTAT
66 CTCAGCTAT
* * * **
15380937 ATTTAAGGAAGGCTCAGATTCAGCTAGAGCTTGACAGTTGACAAACACTTAGATATTTGTAAAAA
1 ATTTAAGGAAGACTCAGATTCAACTAGAGCTTGACAGCTGACAAACACTTAGATACGTGTAAAAA
15381002 CTCA
66 CTCA
15381006 TGGGATGGTA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (74 bp):
ATTTAAGGAAGACTCAGATTCAACTAGAGCTTGACAGCTGACAAACACTTAGATACGTGTAAAAA
CTCAGCTAT
Found at i:15383878 original size:2 final size:2
Alignment explanation
Indices: 15383871--15383906 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15383861 TTTTTGAATC
15383871 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15383907 ACAATCAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15388094 original size:21 final size:19
Alignment explanation
Indices: 15388068--15388122 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 19
15388058 ATATGAATTA
15388068 TAAATAAAAATAATATATTT
1 TAAATAAAAATAATAT-TTT
**
15388088 TAAAATATTAATAATATTTT
1 T-AAATAAAAATAATATTTT
* *
15388108 TATATAAAATTAATA
1 TAAATAAAAATAATA
15388123 ATAATATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 10 0.36
20 5 0.18
21 13 0.46
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAATAAAAATAATATTTT
Found at i:15388130 original size:25 final size:23
Alignment explanation
Indices: 15388069--15388136 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 23
15388059 TATGAATTAT
* *
15388069 AAATAAAAATAATATATT-T-TA
1 AAATAATAATAATATTTTATATA
*
15388090 AAATATTAATAATATTTTTATATA
1 AAATAATAATAATA-TTTTATATA
15388114 AAATTAATAATAATATTTTATAT
1 AAA-TAATAATAATATTTTATAT
15388137 TTTATATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 12 0.31
22 3 0.08
23 1 0.03
24 13 0.33
25 10 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AAATAATAATAATATTTTATATA
Found at i:15388132 original size:24 final size:23
Alignment explanation
Indices: 15388076--15388136 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
15388066 TATAAATAAA
*
15388076 AATAATATATTTTA-A-AATATT
1 AATAATATATTTTATATAAAATT
15388097 AATAATAT-TTTTATATAAAATT
1 AATAATATATTTTATATAAAATT
15388119 AATAATAATATTTTATAT
1 AATAAT-ATATTTTATAT
15388137 TTTATATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
20 5 0.14
21 9 0.26
22 11 0.31
23 2 0.06
24 8 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATAATATATTTTATATAAAATT
Found at i:15388144 original size:39 final size:39
Alignment explanation
Indices: 15388101--15388182 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
15388091 AATATTAATA
* * *
15388101 ATATTTTTATAT-AAAATTAATAATAATATTTTATATTTT
1 ATATTTTTATATCAAAATAAATAATAATATATAAT-TTTT
* *
15388140 ATATTTTTATATCAATATAAATTATAATATATAATTTTT
1 ATATTTTTATATCAAAATAAATAATAATATATAATTTTT
15388179 ATAT
1 ATAT
15388183 GTAAATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 20 0.54
40 17 0.46
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (39 bp):
ATATTTTTATATCAAAATAAATAATAATATATAATTTTT
Found at i:15388171 original size:14 final size:14
Alignment explanation
Indices: 15388154--15388196 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
15388144 TTTTATATCA
*
15388154 ATATAAATTATAAT
1 ATATAAATTTTAAT
*
15388168 ATAT-AATTTTTAT
1 ATATAAATTTTAAT
*
15388181 ATGTAAATTTTAAT
1 ATATAAATTTTAAT
15388195 AT
1 AT
15388197 TTTATACGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
ATATAAATTTTAAT
Found at i:15388191 original size:45 final size:45
Alignment explanation
Indices: 15388109--15388196 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
15388099 TAATATTTTT
* * *
15388109 ATATAAAATTAATAATAATATTTTATATTTTATATTTTTATATCA
1 ATATAAAATTAATAATAATATTTTATATTGTAAATTTTAATATCA
*
15388154 ATATAAATTATAATATATAAT-TTTTATA-TGTAAATTTTAATAT
1 ATATAAAAT-TAATA-ATAATATTTTATATTGTAAATTTTAATAT
15388197 TTTATACGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
45 20 0.54
46 12 0.32
47 5 0.14
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (45 bp):
ATATAAAATTAATAATAATATTTTATATTGTAAATTTTAATATCA
Found at i:15390499 original size:287 final size:287
Alignment explanation
Indices: 15389983--15390558 Score: 1107
Period size: 287 Copynumber: 2.0 Consensus size: 287
15389973 AATCGTTGCT
15389983 ATCAATTATGCGATCGGTGGTTCCAGGTTAATTATAATTGTTTCTAGTAATTATCTAATATCCTA
1 ATCAATTATGCGATCGGTGGTTCCAGGTTAATTATAATTGTTTCTAGTAATTATCTAATATCCTA
15390048 AACCTGATCGGAGGTCCTACCAATTTCAGTGGAGCATGTCAATGAAATTAACATGATTCCTGAAT
66 AACCTGATCGGAGGTCCTACCAATTTCAGTGGAGCATGTCAATGAAATTAACATGATTCCTGAAT
*
15390113 AACACTCAATGAGTTATATGTATATGATTGACAGATTCATTCAGTAAGAGCTGCTTTCTAATGTA
131 AACACTCAATGAGTTATATGTATATGATTGACAGATTCATTCAGTAAGAGCTGCTTTCTAATGCA
*
15390178 TTTCATTGGACTTCGGATGAGTTTCATTGTTTGAAGGATTTGGAATGGTGGTTCTTTGATGAAAG
196 TTTCATTGGACTTCGGATGAGTTTCACTGTTTGAAGGATTTGGAATGGTGGTTCTTTGATGAAAG
15390243 ATGCAAGGTTTATACATTCGGGGCAAG
261 ATGCAAGGTTTATACATTCGGGGCAAG
*
15390270 ATCAATTATGCTATCGGTGGTTCCAGGTTAATTATAATTGTTTCTAGTAATTATCTAATATCCTA
1 ATCAATTATGCGATCGGTGGTTCCAGGTTAATTATAATTGTTTCTAGTAATTATCTAATATCCTA
15390335 AACCTGATCGGAGGTCCTACCAATTTCAGTGGAGCATGTCAATGAAATTAACATGATTCCTGAAT
66 AACCTGATCGGAGGTCCTACCAATTTCAGTGGAGCATGTCAATGAAATTAACATGATTCCTGAAT
*
15390400 AACACTCAATGAGTTATATGTATATTATTGACAGATTCATTCAGTAAGAGCTGCTTTCTAATGCA
131 AACACTCAATGAGTTATATGTATATGATTGACAGATTCATTCAGTAAGAGCTGCTTTCTAATGCA
15390465 TTTCATTGGACTTCGGATGAGTTTCACTGTTTGAAGGATTTGGAATGGTGGTTCTTTGATGAAAG
196 TTTCATTGGACTTCGGATGAGTTTCACTGTTTGAAGGATTTGGAATGGTGGTTCTTTGATGAAAG
*
15390530 TTGCAAGGTTTATACATTCGGGGCAAG
261 ATGCAAGGTTTATACATTCGGGGCAAG
15390557 AT
1 AT
15390559 GGCCCCTTCT
Statistics
Matches: 284, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
287 284 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (287 bp):
ATCAATTATGCGATCGGTGGTTCCAGGTTAATTATAATTGTTTCTAGTAATTATCTAATATCCTA
AACCTGATCGGAGGTCCTACCAATTTCAGTGGAGCATGTCAATGAAATTAACATGATTCCTGAAT
AACACTCAATGAGTTATATGTATATGATTGACAGATTCATTCAGTAAGAGCTGCTTTCTAATGCA
TTTCATTGGACTTCGGATGAGTTTCACTGTTTGAAGGATTTGGAATGGTGGTTCTTTGATGAAAG
ATGCAAGGTTTATACATTCGGGGCAAG
Found at i:15394693 original size:6 final size:6
Alignment explanation
Indices: 15394682--15394715 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
15394672 TATATTTATT
* *
15394682 AATTTA AATTTA AATTTG AATTCA AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATT
15394716 GAGTTTGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (6 bp):
AATTTA
Found at i:15404797 original size:14 final size:14
Alignment explanation
Indices: 15404771--15404806 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
15404761 TTCGCGCTTG
15404771 AATTGATAATAATCA
1 AATTGA-AATAATCA
*
15404786 AATTGAAATAATTA
1 AATTGAAATAATCA
15404800 AATTGAA
1 AATTGAA
15404807 TTCAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (14 bp):
AATTGAAATAATCA
Found at i:15404886 original size:22 final size:22
Alignment explanation
Indices: 15404860--15404904 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
15404850 TTTAAGGCTA
*
15404860 ATTTATCATTACTGTTGTGATT
1 ATTTATCATTACTATTGTGATT
15404882 ATTTATCATTACTATTGTGATT
1 ATTTATCATTACTATTGTGATT
15404904 A
1 A
15404905 AAAAAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.11, T:0.53
Consensus pattern (22 bp):
ATTTATCATTACTATTGTGATT
Found at i:15407466 original size:60 final size:60
Alignment explanation
Indices: 15407373--15407492 Score: 186
Period size: 60 Copynumber: 2.0 Consensus size: 60
15407363 TTCCTAACAA
* * * *
15407373 GCAAAGCCTAAGAGCTCCATTGTATGTATAAACCATACATTCCTAATTATAGTTCAGCTT
1 GCAAAGCCAAAAAGCTCCATTGCATGTATAAACCATACATTCCTAATCATAGTTCAGCTT
* *
15407433 GCAAAGCCAAAAAGCTCCATTGCATTTATAAACCATTCATTCCTAATCATAGTTCAGCTT
1 GCAAAGCCAAAAAGCTCCATTGCATGTATAAACCATACATTCCTAATCATAGTTCAGCTT
15407493 TGCTCAAAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (60 bp):
GCAAAGCCAAAAAGCTCCATTGCATGTATAAACCATACATTCCTAATCATAGTTCAGCTT
Found at i:15412492 original size:16 final size:16
Alignment explanation
Indices: 15412466--15412505 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
15412456 AGAGAGAGGG
15412466 AGAGAAGAGAAAGAAGA
1 AGAG-AGAGAAAGAAGA
*
15412483 AGAGAGAGAAAGAGGA
1 AGAGAGAGAAAGAAGA
*
15412499 AGGGAGA
1 AGAGAGA
15412506 TCTGAAGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.42, T:0.00
Consensus pattern (16 bp):
AGAGAGAGAAAGAAGA
Found at i:15412769 original size:12 final size:12
Alignment explanation
Indices: 15412752--15412793 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
15412742 CTGTTTCGAT
15412752 TTTTTTTTGGTA
1 TTTTTTTTGGTA
*
15412764 -TTTTTTTGTTTA
1 TTTTTTTTG-GTA
*
15412776 TTTTCTTTGGTA
1 TTTTTTTTGGTA
15412788 TTTTTT
1 TTTTTT
15412794 GTATTTTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 8 0.33
12 9 0.38
13 7 0.29
ACGTcount: A:0.07, C:0.02, G:0.12, T:0.79
Consensus pattern (12 bp):
TTTTTTTTGGTA
Found at i:15413023 original size:117 final size:118
Alignment explanation
Indices: 15412881--15413110 Score: 308
Period size: 117 Copynumber: 2.0 Consensus size: 118
15412871 GAAAAAATAT
*
15412881 AAAATAAAATTTTCAAGAAAAATATTTTTTAAAAAAAGTTAAAAGTATCAATTTTTCTTGAAAAT
1 AAAATAAAATTTTCAAGAAAAATATTTTTGAAAAAAAGTTAAAAGTATCAATTTTTCTTGAAAAT
* **
15412946 A-AAATTGT-TAAAAAATATTTTTGAGAAAAAGTTG-AAAGTATCAATTTTTCTCA
66 ATAAATT-TCT-AAAAATACTTTAAAG-AAAAGTTGAAAAGTATCAATTTTTCTCA
* * * *
15412999 AAAATAAAATTTGT-AA-AAAAATATTTTTGAAGAGAAGTTGAAAGTATTAATTTTTCTTGAAAA
1 AAAATAAAATTT-TCAAGAAAAATATTTTTGAAAAAAAGTTAAAAGTATCAATTTTTCTTGAAAA
*
15413062 TATAAATTTCTAAAAATGCTTTAAAGAAAAGTTGAAAAGTATCAATTTT
65 TATAAATTTCTAAAAATACTTTAAAGAAAAGTTGAAAAGTATCAATTTT
15413111 CCTTGTATAA
Statistics
Matches: 99, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
116 8 0.08
117 70 0.71
118 20 0.20
119 1 0.01
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (118 bp):
AAAATAAAATTTTCAAGAAAAATATTTTTGAAAAAAAGTTAAAAGTATCAATTTTTCTTGAAAAT
ATAAATTTCTAAAAATACTTTAAAGAAAAGTTGAAAAGTATCAATTTTTCTCA
Found at i:15413027 original size:59 final size:59
Alignment explanation
Indices: 15412881--15413115 Score: 257
Period size: 58 Copynumber: 4.0 Consensus size: 59
15412871 GAAAAAATAT
* * *
15412881 AAAATAAAATTT-TCAAGAAAAATATTTTTTAAAAAAAGTTAAAAGTATCAATTTTTCTTG
1 AAAATAAAATTTGT-AA-AAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
* **
15412941 AAAATAAAA-TTGTTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCA
1 AAAATAAAATTTGTAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
* *
15412999 AAAATAAAATTTGTAAAAAAATATTTTTGA-AGAGAAGTTGAAAGTATTAATTTTTCTTG
1 AAAATAAAATTTGTAAAAAAATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTTCTTG
* ** ** *
15413058 AAAATATAAATTTCT--AAAAATGCTTTAAAG-AAAAGTTGAAAAGTATCAATTTTCCTTG
1 AAAATA-AAATTTGTAAAAAAATATTTTTGAGAAAAAGTTG-AAAGTATCAATTTTTCTTG
15413116 TATAAAAGCA
Statistics
Matches: 150, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
57 7 0.05
58 75 0.50
59 51 0.34
60 17 0.11
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (59 bp):
AAAATAAAATTTGTAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
Found at i:15414222 original size:54 final size:55
Alignment explanation
Indices: 15414127--15414232 Score: 126
Period size: 54 Copynumber: 1.9 Consensus size: 55
15414117 TCTAACTTTG
* *
15414127 TGCATCATTTTCATTATCATATGTAACATTGTGCATCTGCATCATT-TCATTCTA
1 TGCATCATTTTCATGATCATATGTAACATTATGCATCTGCATCATTCTCATTCTA
* * * * *
15414181 TGCATCATTTTCGTGATCATGTTTTAACATTAT-CATTTGCATTATTCTCATT
1 TGCATCATTTTCATGATCAT-ATGTAACATTATGCATCTGCATCATTCTCATT
15414233 TCATCCATGA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
54 29 0.67
55 14 0.33
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (55 bp):
TGCATCATTTTCATGATCATATGTAACATTATGCATCTGCATCATTCTCATTCTA
Found at i:15415852 original size:134 final size:133
Alignment explanation
Indices: 15415666--15416001 Score: 347
Period size: 134 Copynumber: 2.5 Consensus size: 133
15415656 GGCATTTTTA
* * * * * *
15415666 TACAAACCTCACCAAAGCAACGGCATTTTTTTCATAAAAATATCACTAAATTAGTGGTATCTCAA
1 TACAAACGTCACCAAAGCAATGACATTTTTCTCATAAAAATATCACTAAATTAGCGGCATCTCAA
* * * * *
15415731 AGATACAAACA-CTGCTAATATAAAAG-CGTTTTCAAATATAAACGCCTCTAAAGTAGCGGCATT
66 AGA-AAAAAAAGCCGCTAATAT-AAAGTCATTTT-AAATATAAACGCCTCTAAAGTAGCGACATT
15415794 TTCAAT
128 TTCAAT
* * * * *
15415800 TACAAACGTCACCAAATCAATGACGTTTTTCTCATTAAAATA-CTACTTAATTAGCGGCGTCTCA
1 TACAAACGTCACCAAAGCAATGACATTTTTCTCATAAAAATATC-ACTAAATTAGCGGCATCTCA
* * * *
15415864 AAGAAAAAAAATGCCGCTAATATAGAGTCATTTTAGATATAAATGCCTCTAAAGTAGTGACATTT
65 AAGAAAAAAAA-GCCGCTAATATAAAGTCATTTTAAATATAAACGCCTCTAAAGTAGCGACATTT
* *
15415929 TTAGT
129 TCAAT
* * * * *
15415934 TACAAACGTCATCAAAGCAATGACATTTTT-TACATAAAAATGTCACTAATTTAACGGCGTCTCA
1 TACAAACGTCACCAAAGCAATGACATTTTTCT-CATAAAAATATCACTAAATTAGCGGCATCTCA
15415998 AAGA
65 AAGA
15416002 TAGAAATGTC
Statistics
Matches: 166, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
133 7 0.04
134 144 0.87
135 15 0.09
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (133 bp):
TACAAACGTCACCAAAGCAATGACATTTTTCTCATAAAAATATCACTAAATTAGCGGCATCTCAA
AGAAAAAAAAGCCGCTAATATAAAGTCATTTTAAATATAAACGCCTCTAAAGTAGCGACATTTTC
AAT
Found at i:15416036 original size:134 final size:135
Alignment explanation
Indices: 15415666--15416049 Score: 343
Period size: 134 Copynumber: 2.9 Consensus size: 135
15415656 GGCATTTTTA
* * * * * ** **
15415666 TACAAACCTCACCAAAGCAACGGCATTTTTTTCATAAAAATA-TCACTAAATTAGTGGTATCTCA
1 TACAAACGTCACCAAAGCAATGACATTTTTCTCATAAAAATACT-ACTTAATTAACGGCGTCTCA
* * * * * * * * *
15415730 AAGATACAAACA--CTGCTAATATAAAAGCGTTTTCAAATATAAACGCCTCTAAAGTAGCGGCAT
65 AAGA-AAAAAAATGCCGCTAAAATAGAGGCATTTTCAGATATAAACGCCTCTAAAGTAGCGACAT
15415793 TTTCAAT
129 TTTCAAT
* * * *
15415800 TACAAACGTCACCAAATCAATGACGTTTTTCTCATTAAAATACTACTTAATTAGCGGCGTCTCAA
1 TACAAACGTCACCAAAGCAATGACATTTTTCTCATAAAAATACTACTTAATTAACGGCGTCTCAA
* * * *
15415865 AGAAAAAAAATGCCGCTAATATAGAGTCATTTT-AGATATAAATGCCTCTAAAGTAGTGACATTT
66 AGAAAAAAAATGCCGCTAAAATAGAGGCATTTTCAGATATAAACGCCTCTAAAGTAGCGACATTT
* *
15415929 TTAGT
131 TCAAT
* *
15415934 TACAAACGTCATCAAAGCAATGACATTTTT-TACATAAAAAT-GTCAC-TAATTTAACGGCGTCT
1 TACAAACGTCACCAAAGCAATGACATTTTTCT-CATAAAAATACT-ACTTAA-TTAACGGCGTCT
* * * * * *
15415996 CAAAG-ATAGAAATGTCGTTAAAATAGTGGCATTTTCAGATATAAACGCCACTAA
63 CAAAGAAAAAAAATGCCGCTAAAATAGAGGCATTTTCAGATATAAACGCCTCTAA
15416050 TATTGAGGTG
Statistics
Matches: 204, Mismatches: 39, Indels: 14
0.79 0.15 0.05
Matches are distributed among these distances:
133 33 0.16
134 154 0.75
135 17 0.08
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (135 bp):
TACAAACGTCACCAAAGCAATGACATTTTTCTCATAAAAATACTACTTAATTAACGGCGTCTCAA
AGAAAAAAAATGCCGCTAAAATAGAGGCATTTTCAGATATAAACGCCTCTAAAGTAGCGACATTT
TCAAT
Found at i:15416479 original size:14 final size:14
Alignment explanation
Indices: 15416448--15416479 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
15416438 TTTAAATCAT
15416448 ATTATTTTTATGTC
1 ATTATTTTTATGTC
15416462 -TTATTTTTATGTC
1 ATTATTTTTATGTC
15416475 ATTAT
1 ATTAT
15416480 GTTATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (14 bp):
ATTATTTTTATGTC
Found at i:15417412 original size:2 final size:2
Alignment explanation
Indices: 15417405--15417439 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15417395 ATTCATTATG
15417405 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15417440 AAAAGACTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15420455 original size:12 final size:12
Alignment explanation
Indices: 15420438--15420464 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15420428 GAAACGTCTT
15420438 CCACTTTGCCTA
1 CCACTTTGCCTA
15420450 CCACTTTGCCTA
1 CCACTTTGCCTA
15420462 CCA
1 CCA
15420465 TTATTGCAGA
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:0.19, C:0.44, G:0.07, T:0.30
Consensus pattern (12 bp):
CCACTTTGCCTA
Found at i:15423009 original size:76 final size:76
Alignment explanation
Indices: 15422880--15423048 Score: 259
Period size: 76 Copynumber: 2.2 Consensus size: 76
15422870 TCATGGAGGG
* * *
15422880 TGATACAGGTTTCATGATGAAATTGACAGCATCGAATTATTCAATTTGAAAGCCTATGATAGAGG
1 TGATACAGATTTTATGATGAAATTGACAGCATCGAATTATTCAATTAGAAAGCCTATGATAGAGG
*
15422945 ATTATCTATAC
66 ATCATCTATAC
* *
15422956 TGATACAGATTTTATGATGAAATTGACAGCATCGAATTATTCAATTAGGAAGCCTATGATGGAGG
1 TGATACAGATTTTATGATGAAATTGACAGCATCGAATTATTCAATTAGAAAGCCTATGATAGAGG
15423021 ATCATCTATAC
66 ATCATCTATAC
*
15423032 TG-TAAAGATTTGTATGA
1 TGATACAGATTT-TATGA
15423049 GCCAATATTG
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
75 8 0.09
76 77 0.91
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (76 bp):
TGATACAGATTTTATGATGAAATTGACAGCATCGAATTATTCAATTAGAAAGCCTATGATAGAGG
ATCATCTATAC
Found at i:15433156 original size:50 final size:45
Alignment explanation
Indices: 15433098--15433217 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 45
15433088 TTTTGTTGAA
*
15433098 ATAT-TTTTTTTAAGTTTTATATTTTTATTCAAAT-CTTTTCAAAT
1 ATATATTTTTTTAAGCTTTATATTTTTATTCAAATCCTTTT-AAAT
* *
15433142 ATCAAATGGATTTTTTTAAGCTTTATAGTTTTATTCGAATCCTTTTAAAT
1 AT---AT--ATTTTTTTAAGCTTTATATTTTTATTCAAATCCTTTTAAAT
15433192 ATATATTTTTTTAAGCTTTATATTTT
1 ATATATTTTTTTAAGCTTTATATTTT
15433218 GATTTTAAAG
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
44 2 0.03
45 21 0.32
47 4 0.06
50 33 0.51
51 5 0.08
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.57
Consensus pattern (45 bp):
ATATATTTTTTTAAGCTTTATATTTTTATTCAAATCCTTTTAAAT
Found at i:15450461 original size:275 final size:275
Alignment explanation
Indices: 15449970--15450490 Score: 1006
Period size: 275 Copynumber: 1.9 Consensus size: 275
15449960 TGATACCAAA
15449970 CATGAAAGCCAGCCACAATTTTGCATCTTCAACTAACTCTACAGCAACAGACTTAACTCTATCAC
1 CATGAAAGCCAGCCACAATTTTGCATCTTCAACTAACTCTACAGCAACAGACTTAACTCTATCAC
**
15450035 TGTTTTTTGACAGTAGCCAATAACTAAAACCTACACTTATTATTAAATTGTTAGTACAAAAATAA
66 CATTTTTTGACAGTAGCCAATAACTAAAACCTACACTTATTATTAAATTGTTAGTACAAAAATAA
15450100 CAATGCTGTAAAAGTGCAATTAAACATGCGAGAAGTACGTGAATCACATTTCTAGCTTGACTTTT
131 CAATGCTGTAAAAGTGCAATTAAACATGCGAGAAGTACGTGAATCACATTTCTAGCTTGACTTTT
15450165 CTCCAATTTCTTACAACCAAAGGCCCCATCAAATCCTTGCTAGGGCCAAACCAGGTGGGTGGTCC
196 CTCCAATTTCTTACAACCAAAGGCCCCATCAAATCCTTGCTAGGGCCAAACCAGGTGGGTGGTCC
15450230 AGCCCTTCGCCCTGG
261 AGCCCTTCGCCCTGG
*
15450245 CATGAAAGCCAGCCACAATTTTGCATCTTCAACTAACTCTAGAGCAACAGACTTAACTCTATCAC
1 CATGAAAGCCAGCCACAATTTTGCATCTTCAACTAACTCTACAGCAACAGACTTAACTCTATCAC
15450310 CATTTTTTGACAGTAGCCAATAACTAAAACCTACACTTATTATTAAATTGTTAGTACAAAAATAA
66 CATTTTTTGACAGTAGCCAATAACTAAAACCTACACTTATTATTAAATTGTTAGTACAAAAATAA
*
15450375 CAATGCTGTAAAAGTGCAATTAGACATGCGAGAAGTACGTGAATCACATTTCTAGCTTGACTTTT
131 CAATGCTGTAAAAGTGCAATTAAACATGCGAGAAGTACGTGAATCACATTTCTAGCTTGACTTTT
15450440 CTCCAATTTCTTACAACCAAAGGCCCCATCAAATCCTTGCTAGGGCCAAAC
196 CTCCAATTTCTTACAACCAAAGGCCCCATCAAATCCTTGCTAGGGCCAAAC
15450491 AAAGCACTCT
Statistics
Matches: 242, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
275 242 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (275 bp):
CATGAAAGCCAGCCACAATTTTGCATCTTCAACTAACTCTACAGCAACAGACTTAACTCTATCAC
CATTTTTTGACAGTAGCCAATAACTAAAACCTACACTTATTATTAAATTGTTAGTACAAAAATAA
CAATGCTGTAAAAGTGCAATTAAACATGCGAGAAGTACGTGAATCACATTTCTAGCTTGACTTTT
CTCCAATTTCTTACAACCAAAGGCCCCATCAAATCCTTGCTAGGGCCAAACCAGGTGGGTGGTCC
AGCCCTTCGCCCTGG
Found at i:15454941 original size:20 final size:20
Alignment explanation
Indices: 15454901--15454941 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
15454891 CTGAACAAAA
*
15454901 TTATATATTTTTATTAGTTT
1 TTATATATTTTTAATAGTTT
15454921 TTATATAATTTTTAATA-TTT
1 TTATAT-ATTTTTAATAGTTT
15454941 T
1 T
15454942 ATAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TTATATATTTTTAATAGTTT
Found at i:15455112 original size:16 final size:19
Alignment explanation
Indices: 15455078--15455115 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
15455068 CAATTTTAAA
15455078 AAAAAAACAACTTGAATTT
1 AAAAAAACAACTTGAATTT
15455097 AAAAAAA-AA-TTG-ATTT
1 AAAAAAACAACTTGAATTT
15455113 AAA
1 AAA
15455116 TTCGAATCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 3 0.16
18 2 0.11
19 7 0.37
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (19 bp):
AAAAAAACAACTTGAATTT
Found at i:15458162 original size:2 final size:2
Alignment explanation
Indices: 15458155--15458179 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15458145 ATGGGATCTC
15458155 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
15458180 AATTACAGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15469456 original size:20 final size:21
Alignment explanation
Indices: 15469428--15469469 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
15469418 TTTTAATATC
15469428 AAAAAATAAAAAAT-AAATTT
1 AAAAAATAAAAAATAAAATTT
* *
15469448 AAAATATAAAAATTAAAATTT
1 AAAAAATAAAAAATAAAATTT
15469469 A
1 A
15469470 TATGTTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAATTT
Found at i:15470527 original size:33 final size:30
Alignment explanation
Indices: 15470490--15470556 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 30
15470480 ATTTTTTTTT
15470490 AATTTTATTAAATTTATATATAATTATTATTAA
1 AATTTTATTAAA---ATATATAATTATTATTAA
15470523 AA--TT-TTAAAATATATAATTATTATTAA
1 AATTTTATTAAAATATATAATTATTATTAA
*
15470550 ATTTTTA
1 AATTTTA
15470557 AATAATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
27 19 0.63
29 2 0.07
30 5 0.17
31 2 0.07
33 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
AATTTTATTAAAATATATAATTATTATTAA
Found at i:15470573 original size:27 final size:27
Alignment explanation
Indices: 15470505--15470558 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
15470495 TATTAAATTT
15470505 ATATATAATTATTATTAAAATTTTAAA
1 ATATATAATTATTATTAAAATTTTAAA
*
15470532 ATATATAATTATTATTAAATTTTTAAA
1 ATATATAATTATTATTAAAATTTTAAA
15470559 TAATATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATATATAATTATTATTAAAATTTTAAA
Found at i:15470778 original size:7 final size:7
Alignment explanation
Indices: 15470768--15470807 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
15470758 GCACAAGGAA
*
15470768 CATGCCG
1 CATGGCG
*
15470775 CATGGCA
1 CATGGCG
15470782 CATGGCG
1 CATGGCG
15470789 CATGGCG
1 CATGGCG
15470796 CATGGC-
1 CATGGCG
15470802 CATGGC
1 CATGGC
15470808 ACAGTGATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.17, C:0.33, G:0.35, T:0.15
Consensus pattern (7 bp):
CATGGCG
Found at i:15470783 original size:21 final size:21
Alignment explanation
Indices: 15470757--15470801 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15470747 ATCTACACAG
15470757 GGCACAAGGAACATGCCGCAT
1 GGCACAAGGAACATGCCGCAT
* ** *
15470778 GGCACATGGCGCATGGCGCAT
1 GGCACAAGGAACATGCCGCAT
15470799 GGC
1 GGC
15470802 CATGGCACAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.29, G:0.36, T:0.11
Consensus pattern (21 bp):
GGCACAAGGAACATGCCGCAT
Found at i:15470790 original size:14 final size:14
Alignment explanation
Indices: 15470767--15470810 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
15470757 GGCACAAGGA
*
15470767 ACATGCCGCATGGC
1 ACATGGCGCATGGC
15470781 ACATGGCGCATGGC
1 ACATGGCGCATGGC
*
15470795 GCATGGC-CATGGC
1 ACATGGCGCATGGC
15470808 ACA
1 ACA
15470811 GTGATGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 8 0.30
14 19 0.70
ACGTcount: A:0.23, C:0.32, G:0.32, T:0.14
Consensus pattern (14 bp):
ACATGGCGCATGGC
Found at i:15476102 original size:34 final size:33
Alignment explanation
Indices: 15476055--15476121 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
15476045 ACTAAAATAA
*
15476055 TTAAAAAACTATATATATA-TATATATATATTTT
1 TTAAAAAACTATATATATATTA-ATATAAATTTT
* *
15476088 TTAAAAAATTTATATTTATATTAATATAAATTTT
1 TTAAAAAA-CTATATATATATTAATATAAATTTT
15476122 AATATAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 8 0.28
34 19 0.66
35 2 0.07
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (33 bp):
TTAAAAAACTATATATATATTAATATAAATTTT
Done.