Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 183 of 255
Found at i:60400091 original size:38 final size:38
Alignment explanation
Indices: 60400035--60400419 Score: 500
Period size: 38 Copynumber: 10.1 Consensus size: 38
60400025 ATATTTGATG
60400035 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
** * * *
60400073 TATATCCGGGTTTTATCCCACAGGCTTCGGGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
* ** * *
60400111 TATATCTGGGTTTTATCCCGCAAGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
*
60400149 TATATCCGGGTTAAATCCCGCAGGCTTAGTCCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
*
60400187 TATACCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
* ** *
60400225 TATATCCAGGTTTTATCTCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
* ** * *
60400263 TATATCCAGGTTTTATCTCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
* ** * *
60400301 TATATCCAGGTTTTATCCCGCAAGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
* **
60400339 TATATCCGAGTTAAATCCCGCAGGCTTAGTATTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
*
60400377 TATATCCGTGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
60400415 TATAT
1 TATAT
60400420 TCAAGCTTAA
Statistics
Matches: 311, Mismatches: 36, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 311 1.00
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
Found at i:60407537 original size:25 final size:25
Alignment explanation
Indices: 60407480--60407540 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
60407470 GGATGCTCCG
*
60407480 AAGAGCTAT-TAACGGGAAGCTCAC
1 AAGAGCCATATAACGGGAAGCTCAC
* *
60407504 AAAAACCATATAACGGGAAGCTCA-
1 AAGAGCCATATAACGGGAAGCTCAC
60407528 AGAGAGCCATATA
1 A-AGAGCCATATA
60407541 TTGGGATGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 7 0.23
25 23 0.77
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (25 bp):
AAGAGCCATATAACGGGAAGCTCAC
Found at i:60410246 original size:41 final size:41
Alignment explanation
Indices: 60410201--60410282 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
60410191 ATTTTTTACT
*
60410201 TTATCTTTTAGGAGTTTATTAGAATAAGCA-AATTATTTTCC
1 TTATCTTTTAGGAGTTGATTAGAATAAG-ATAATTATTTTCC
*
60410242 TTATCTTTTAGTAGTTGATTAGAATAAGATAATTATTTTCC
1 TTATCTTTTAGGAGTTGATTAGAATAAGATAATTATTTTCC
60410283 CAAATAGGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.48
Consensus pattern (41 bp):
TTATCTTTTAGGAGTTGATTAGAATAAGATAATTATTTTCC
Found at i:60411861 original size:118 final size:118
Alignment explanation
Indices: 60411653--60411894 Score: 439
Period size: 118 Copynumber: 2.1 Consensus size: 118
60411643 CTGCTTCTTG
* * * *
60411653 ATTTATTTCCTGTGTGCAAAATATGACCTTTGCATATTGGTAACATTCAAAGGAAATGTAAAATG
1 ATTTATTTCCCGTGTGCAAAATATGACCTGTGCATATTGCTAACATTCAAAGGAAAGGTAAAATG
60411718 GTAAAAAGATACCAAAAACAAAAAAGAATGAACCATGGATTTAACCCCTTGGT
66 GTAAAAAGATACCAAAAACAAAAAAGAATGAACCATGGATTTAACCCCTTGGT
60411771 ATTTATTTCCCGTGTGCAAAATATGACCTGTGCATATTGCTAACATTCAAAGGAAAGGTAAAATG
1 ATTTATTTCCCGTGTGCAAAATATGACCTGTGCATATTGCTAACATTCAAAGGAAAGGTAAAATG
60411836 GTAAAAAGATACCAAAAACAAAAAAGAATGAACCATGGATTTAACCCCTTGGT
66 GTAAAAAGATACCAAAAACAAAAAAGAATGAACCATGGATTTAACCCCTTGGT
*
60411889 TTTTAT
1 ATTTAT
60411895 GGCCACCCTT
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (118 bp):
ATTTATTTCCCGTGTGCAAAATATGACCTGTGCATATTGCTAACATTCAAAGGAAAGGTAAAATG
GTAAAAAGATACCAAAAACAAAAAAGAATGAACCATGGATTTAACCCCTTGGT
Found at i:60417390 original size:19 final size:19
Alignment explanation
Indices: 60417354--60417392 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60417344 ATAATAATAA
*
60417354 ATTTATATTTTATATAAAT
1 ATTTATATTATATATAAAT
60417373 ATTTATATTA-ATATTAAAT
1 ATTTATATTATATA-TAAAT
60417392 A
1 A
60417393 AATATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTATATTATATATAAAT
Found at i:60417403 original size:25 final size:25
Alignment explanation
Indices: 60417367--60417423 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
60417357 TATATTTTAT
60417367 ATAAATAT--TTATATTAATATTAA
1 ATAAATATAATTATATTAATATTAA
60417390 ATAAATATAATTATATTAATATTAA
1 ATAAATATAATTATATTAATATTAA
60417415 ATAAA-ATAA
1 ATAAATATAA
60417424 AAATCCCCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 8 0.25
24 4 0.12
25 20 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATAAATATAATTATATTAATATTAA
Found at i:60420544 original size:44 final size:41
Alignment explanation
Indices: 60420481--60420639 Score: 153
Period size: 44 Copynumber: 3.7 Consensus size: 41
60420471 TATGTGTTTT
60420481 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TT-TGA-TTA
* * * *
60420525 CGTGTAAGACCATGTCTGGGACATTGGCATCGTGTTTAAATT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTT-GATTA
* *
60420567 CGTGTAAGACC-CTGTCTAGGACAG-TGGCATCTATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC--GATTTGATTA
*
60420610 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
60420640 TATACAAGCT
Statistics
Matches: 94, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
42 30 0.32
43 30 0.32
44 34 0.36
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (41 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATTA
Found at i:60426735 original size:80 final size:80
Alignment explanation
Indices: 60426643--60426802 Score: 293
Period size: 80 Copynumber: 2.0 Consensus size: 80
60426633 AAAATGAGTT
60426643 ATTATACATATCCATCTAAAATACAAGAAAATGATGATACATGACAAGTGATATATGAAAGTATG
1 ATTATACATATCCATCTAAAATACAAGAAAATGATGATACATGACAAGTGATATATGAAAGTATG
60426708 AGATAATGATATTTG
66 AGATAATGATATTTG
* *
60426723 ATTATACATATCCATCTGAAGTACAAGAAAATGATGATACATGACAAGTGATATATGAAAGTATG
1 ATTATACATATCCATCTAAAATACAAGAAAATGATGATACATGACAAGTGATATATGAAAGTATG
*
60426788 AGATGATGATATTTG
66 AGATAATGATATTTG
60426803 TATATAGAAA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.30
Consensus pattern (80 bp):
ATTATACATATCCATCTAAAATACAAGAAAATGATGATACATGACAAGTGATATATGAAAGTATG
AGATAATGATATTTG
Found at i:60426785 original size:40 final size:40
Alignment explanation
Indices: 60426664--60426785 Score: 108
Period size: 40 Copynumber: 3.0 Consensus size: 40
60426654 CCATCTAAAA
60426664 TACAAGAAAATGATGATACATGACAAGTGATATATGAAAG
1 TACAAGAAAATGATGATACATGACAAGTGATATATGAAAG
** * ** * * *
60426704 TATGAGATAATGAT-ATTTGATTATACA-T-ATCCATCTG-AAG
1 TACAAGAAAATGATGA-TACATGACA-AGTGAT--ATATGAAAG
60426744 TACAAGAAAATGATGATACATGACAAGTGATATATGAAAG
1 TACAAGAAAATGATGATACATGACAAGTGATATATGAAAG
60426784 TA
1 TA
60426786 TGAGATGATG
Statistics
Matches: 58, Mismatches: 16, Indels: 16
0.64 0.18 0.18
Matches are distributed among these distances:
39 8 0.14
40 42 0.72
41 8 0.14
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (40 bp):
TACAAGAAAATGATGATACATGACAAGTGATATATGAAAG
Found at i:60426797 original size:37 final size:37
Alignment explanation
Indices: 60426673--60426798 Score: 94
Period size: 37 Copynumber: 3.2 Consensus size: 37
60426663 ATACAAGAAA
60426673 ATGATGATACATGACAAGTGATATATGAAAGTATGAG
1 ATGATGATACATGACAAGTGATATATGAAAGTATGAG
* ** * * * * *
60426710 ATAATGATATTTGATTATACAT-ATCCATCTG-AAGTACAAGAAA
1 ATGATGATACATGA-CA-A-GTGAT--ATATGAAAGT--ATG-AG
60426753 ATGATGATACATGACAAGTGATATATGAAAGTATGAG
1 ATGATGATACATGACAAGTGATATATGAAAGTATGAG
60426790 ATGATGATA
1 ATGATGATA
60426799 TTTGTATATA
Statistics
Matches: 63, Mismatches: 16, Indels: 20
0.64 0.16 0.20
Matches are distributed among these distances:
37 21 0.33
38 3 0.05
39 7 0.11
40 10 0.16
41 7 0.11
42 3 0.05
43 12 0.19
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.29
Consensus pattern (37 bp):
ATGATGATACATGACAAGTGATATATGAAAGTATGAG
Found at i:60431609 original size:12 final size:12
Alignment explanation
Indices: 60431592--60431616 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60431582 ATTTTGTTTT
60431592 ATTTTAATTATC
1 ATTTTAATTATC
60431604 ATTTTAATTATC
1 ATTTTAATTATC
60431616 A
1 A
60431617 ATTACCATAT
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTTAATTATC
Found at i:60438211 original size:50 final size:49
Alignment explanation
Indices: 60438143--60438278 Score: 159
Period size: 50 Copynumber: 2.7 Consensus size: 49
60438133 GAGCATCCCG
* *
60438143 ATATATGGCTCTCTTGAGCTTCCTG-TTATTCGGCTCTCACG-AGCTTCCTA
1 ATAT-TGGCTCTCATGAGCTTCCTGATTAAT-GGCTCTC-CGAAGCTTCCTA
* *
60438193 ATAATTGGCTTTCATGAGCTTCCCGATTAATGGCTCTCCGAAGCTTCCTA
1 AT-ATTGGCTCTCATGAGCTTCCTGATTAATGGCTCTCCGAAGCTTCCTA
* * *
60438243 ATATTGGCTCCCATGAGCTTCCTGATTTATAGCTCT
1 ATATTGGCTCTCATGAGCTTCCTGATTAATGGCTCT
60438279 TATGAGCTTC
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
49 31 0.42
50 37 0.50
51 6 0.08
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (49 bp):
ATATTGGCTCTCATGAGCTTCCTGATTAATGGCTCTCCGAAGCTTCCTA
Found at i:60438278 original size:49 final size:50
Alignment explanation
Indices: 60438175--60438289 Score: 144
Period size: 49 Copynumber: 2.3 Consensus size: 50
60438165 CTGTTATTCG
** *
60438175 GCTCTCACGAGCTTCCTAATAATTGGCTTTCATGAGCTTCCCGATTAATG
1 GCTCTCACGAGCTTCCTAATAATTGGCTCCCATGAGCTTCCCGATTAATA
* *
60438225 GCTCTC-CGAAGCTTCCTAAT-ATTGGCTCCCATGAGCTTCCTGATTTATA
1 GCTCTCACG-AGCTTCCTAATAATTGGCTCCCATGAGCTTCCCGATTAATA
* *
60438274 GCTCTTATGAGCTTCC
1 GCTCTCACGAGCTTCC
60438290 CGATACTCAG
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
49 38 0.68
50 18 0.32
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (50 bp):
GCTCTCACGAGCTTCCTAATAATTGGCTCCCATGAGCTTCCCGATTAATA
Found at i:60438352 original size:25 final size:25
Alignment explanation
Indices: 60438125--60438352 Score: 107
Period size: 25 Copynumber: 9.2 Consensus size: 25
60438115 ACTCACCAAA
* * *
60438125 GCTCTTATGAGCATCCCGATATATG
1 GCTCTCATGAGCTTCCCGTTATATG
* *
60438150 GCTCTCTTGAGCTTCCTGTTAT-TCG
1 GCTCTCATGAGCTTCCCGTTATAT-G
* *
60438175 GCTCTCACGAGCTT-CC-TAATAATTG
1 GCTCTCATGAGCTTCCCGTTAT-A-TG
*
60438200 GCTTTCATGAGCTTCCCGATTA-ATG
1 GCTCTCATGAGCTTCCCG-TTATATG
* *
60438225 GCTCTC-CGAAGCTT-CC-TAATATTG
1 GCTCTCATG-AGCTTCCCGTTATA-TG
* * *
60438249 GCTCCCATGAGCTTCCTGATT-TATA
1 GCTCTCATGAGCTTCCCG-TTATATG
* *
60438274 GCTCTTATGAGCTTCCCGATACTCA-G
1 GCTCTCATGAGCTTCCCGTTA-T-ATG
** * * **
60438300 G-TCGAATAAGCTTTCCGTTATACA
1 GCTCTCATGAGCTTCCCGTTATATG
*
60438324 GCTCACATGAGCTTCCCGTTATATG
1 GCTCTCATGAGCTTCCCGTTATATG
60438349 GCTC
1 GCTC
60438353 GAAAAAGGAT
Statistics
Matches: 147, Mismatches: 37, Indels: 38
0.66 0.17 0.17
Matches are distributed among these distances:
22 2 0.01
23 5 0.03
24 20 0.14
25 108 0.73
26 8 0.05
27 2 0.01
28 2 0.01
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.34
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGTTATATG
Found at i:60438377 original size:28 final size:28
Alignment explanation
Indices: 60438344--60438402 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
60438334 GCTTCCCGTT
*
60438344 ATATGGCTCGAAAAAGGATTCCGTTTAC
1 ATATGGCTCGAAAAAGGATCCCGTTTAC
60438372 ATATGGCTCGAAAAAGGATCCCGTTTAC
1 ATATGGCTCGAAAAAGGATCCCGTTTAC
60438400 ATA
1 ATA
60438403 CTCATATGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (28 bp):
ATATGGCTCGAAAAAGGATCCCGTTTAC
Found at i:60441938 original size:23 final size:24
Alignment explanation
Indices: 60441903--60441958 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
60441893 TTGGTTAAAA
* * *
60441903 TTTTCAAACTTTCACTTCA-AATT
1 TTTTAAAACTTTCAATTAATAATT
*
60441926 TTTTAAAATTTTCAATTAATTAATT
1 TTTTAAAACTTTCAATTAA-TAATT
60441951 TTTTAAAA
1 TTTTAAAA
60441959 ATATGTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 15 0.56
25 12 0.44
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTTAAAACTTTCAATTAATAATT
Found at i:60442559 original size:26 final size:26
Alignment explanation
Indices: 60442529--60442579 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
60442519 TATACAAAAT
* *
60442529 ATAAAAATATTCTTATAATAATATTG
1 ATAAAAATACTCTCATAATAATATTG
60442555 ATAAAAATACTCTCATAATAATATT
1 ATAAAAATACTCTCATAATAATATT
60442580 TTTTACTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (26 bp):
ATAAAAATACTCTCATAATAATATTG
Found at i:60444681 original size:28 final size:29
Alignment explanation
Indices: 60444649--60444747 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 29
60444639 ATAATAAGCC
*
60444649 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
*
60444677 CGCACACTTAGTGC-TATATAATC-AACCT
1 CGCACACTTAGTGCTTACATAATCGAA-CT
* * *
60444705 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
60444734 CGCACACTTAGTGC
1 CGCACACTTAGTGC
60444748 CAATCTCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.07
28 35 0.57
29 17 0.28
30 5 0.08
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:60451208 original size:12 final size:12
Alignment explanation
Indices: 60451180--60451208 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
60451170 TATATCTATA
60451180 TGGTAGAATTTT
1 TGGTAGAATTTT
60451192 T-GTAGAATTTT
1 TGGTAGAATTTT
60451203 TGGTAG
1 TGGTAG
60451209 GGCAAATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (12 bp):
TGGTAGAATTTT
Found at i:60452481 original size:28 final size:29
Alignment explanation
Indices: 60452449--60452547 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 29
60452439 ATAATAAGCC
*
60452449 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
*
60452477 CGCACACTTAGTGC-TATATAATC-AACCT
1 CGCACACTTAGTGCTTACATAATCGAA-CT
* * *
60452505 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
60452534 CGCACACTTAGTGC
1 CGCACACTTAGTGC
60452548 CAATCTCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.07
28 35 0.57
29 17 0.28
30 5 0.08
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:60455714 original size:20 final size:21
Alignment explanation
Indices: 60455689--60455730 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
60455679 AATCTACTGT
*
60455689 AAAATGAAA-ATTTTTGATAG
1 AAAATGAAAGATTATTGATAG
60455709 AAAATGAAAGATTATTGATAG
1 AAAATGAAAGATTATTGATAG
60455730 A
1 A
60455731 TAAACCACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (21 bp):
AAAATGAAAGATTATTGATAG
Found at i:60456532 original size:65 final size:66
Alignment explanation
Indices: 60456463--60456595 Score: 155
Period size: 65 Copynumber: 2.0 Consensus size: 66
60456453 GGAAAGGTAT
* *
60456463 ACTTTGTGTATATC-ACTTGAAAAGGAAAGGTACACTGT-ATGTGTA-CACTTGAAAAGGCTATG
1 ACTTTGTGTATA-CAAATTGAAAAGGAAAGGTACACT-TCATGTGTACCACTTGAAAAGGCAATG
60456525 TGC
64 TGC
* ** * * *
60456528 ACTTTGTGTGTACAAATTGAAAAGGGTATGTACACTTCGTGTGTACCACTTGAAAAGGGAATGTG
1 ACTTTGTGTATACAAATTGAAAAGGAAAGGTACACTTCATGTGTACCACTTGAAAAGGCAATGTG
60456593 C
66 C
60456594 AC
1 AC
60456596 CTCAGGTGTA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
64 2 0.04
65 35 0.61
66 20 0.35
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (66 bp):
ACTTTGTGTATACAAATTGAAAAGGAAAGGTACACTTCATGTGTACCACTTGAAAAGGCAATGTG
C
Found at i:60456538 original size:32 final size:33
Alignment explanation
Indices: 60456430--60456591 Score: 148
Period size: 33 Copynumber: 4.9 Consensus size: 33
60456420 GTTTAGGTAT
* * * *
60456430 ACTTTGTGTATACCA-TATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACCACT-TGAAAAGGGAATGTAC
* * * *
60456463 ACTTTGTGTATATCACTTGAAAAGGAAAGGTAC
1 ACTTTGTGTGTACCACTTGAAAAGGGAATGTAC
* * ** *
60456496 ACTGTATGTGTA-CACTTGAAAAGGCTATGTGC
1 ACTTTGTGTGTACCACTTGAAAAGGGAATGTAC
* * *
60456528 ACTTTGTGTGTACAAATTGAAAAGGGTATGTAC
1 ACTTTGTGTGTACCACTTGAAAAGGGAATGTAC
*
60456561 ACTTCGTGTGTACCACTTGAAAAGGGAATGT
1 ACTTTGTGTGTACCACTTGAAAAGGGAATGT
60456592 GCACCTCAGG
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
32 26 0.24
33 81 0.75
34 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (33 bp):
ACTTTGTGTGTACCACTTGAAAAGGGAATGTAC
Found at i:60456551 original size:33 final size:32
Alignment explanation
Indices: 60456502--60456618 Score: 128
Period size: 33 Copynumber: 3.6 Consensus size: 32
60456492 GTACACTGTA
* *
60456502 TGTGTACACTTGAAAAGGCTATGTGCACTTTG
1 TGTGTACACTTGAAAAGGGTATGTGCACTTCG
* *
60456534 TGTGTACAAATTGAAAAGGGTATGTACACTTCG
1 TGTGTAC-ACTTGAAAAGGGTATGTGCACTTCG
* *
60456567 TGTGTACCACTTGAAAAGGGAATGTGCACCTCAG
1 TGTGTA-CACTTGAAAAGGGTATGTGCACTTC-G
*
60456601 -GTGTACAACTAGAAAAGG
1 TGTGTAC-ACTTGAAAAGG
60456619 AAATGTCCAT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
32 8 0.11
33 62 0.86
34 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (32 bp):
TGTGTACACTTGAAAAGGGTATGTGCACTTCG
Found at i:60465522 original size:21 final size:20
Alignment explanation
Indices: 60465483--60465524 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
60465473 AATAGGCTGT
* *
60465483 AAAATGAAATTTTTTGATAG
1 AAAATGAAAATTATTGATAG
60465503 AAAATGAAAGATTATTGATAG
1 AAAATGAAA-ATTATTGATAG
60465524 A
1 A
60465525 TAAACCACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (20 bp):
AAAATGAAAATTATTGATAG
Found at i:60466247 original size:33 final size:33
Alignment explanation
Indices: 60466209--60466315 Score: 128
Period size: 33 Copynumber: 3.3 Consensus size: 33
60466199 ATGGTACAAT
** *
60466209 TTGAAAAGGTTAGGTATACTTTGTGTATTCCA-
1 TTGAAAAGGAAAGGTATACTTTGTGTATACCAC
60466241 TATGAAAAGGAAAGGTATACTTTGTGTATACCAC
1 T-TGAAAAGGAAAGGTATACTTTGTGTATACCAC
* * * *
60466275 TTGAAAAGGAAAGGTACACTATATGTGTA-CAC
1 TTGAAAAGGAAAGGTATACTTTGTGTATACCAC
60466307 TTGAAAAGG
1 TTGAAAAGG
60466316 CTATGTGCAC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
32 13 0.20
33 52 0.79
34 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.31
Consensus pattern (33 bp):
TTGAAAAGGAAAGGTATACTTTGTGTATACCAC
Found at i:60466329 original size:65 final size:66
Alignment explanation
Indices: 60466259--60466420 Score: 175
Period size: 65 Copynumber: 2.5 Consensus size: 66
60466249 GGAAAGGTAT
* * *
60466259 ACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTATATGTGT-ACACTTGAAAA-GGCTATGT
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACTATATGTGTAACACTT-AAAACGGCAATGT
60466322 GC
65 GC
* ** * * * *
60466324 ACTTTGTGTGTACAAATTGAAAAGGGTATGTACACTTTGTGTGTAACACTTAAAACGGGAATGTG
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACTATATGTGTAACACTTAAAACGGCAATGTG
60466389 C
66 C
* * * *
60466390 ACCTCGGGTGTACAACTAGAAAAGGAAAGGT
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGT
60466421 CCATCAGAAA
Statistics
Matches: 77, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
65 40 0.52
66 37 0.48
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (66 bp):
ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACTATATGTGTAACACTTAAAACGGCAATGTG
C
Found at i:60466347 original size:33 final size:32
Alignment explanation
Indices: 60466202--60466368 Score: 118
Period size: 33 Copynumber: 5.1 Consensus size: 32
60466192 TACCCAAATG
* * *
60466202 GTACAATTTGAAAAGGTTAGGTATACTTTGTGT
1 GTACAA-TTGAAAAGGCTATGTACACTTTGTGT
* * * ** * *
60466235 ATTCCATATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAAT-TGAAAAGGCTATGTACACTTTGTGT
* * ** * * *
60466268 ATACCACTTGAAAAGGAAAGGTACACTATATGT
1 GTA-CAATTGAAAAGGCTATGTACACTTTGTGT
* *
60466301 GTACACTTGAAAAGGCTATGTGCACTTTGTGT
1 GTACAATTGAAAAGGCTATGTACACTTTGTGT
*
60466333 GTACAAATTGAAAAGGGTATGTACACTTTGTGT
1 GTAC-AATTGAAAAGGCTATGTACACTTTGTGT
60466366 GTA
1 GTA
60466369 ACACTTAAAA
Statistics
Matches: 110, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
32 28 0.25
33 80 0.73
34 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (32 bp):
GTACAATTGAAAAGGCTATGTACACTTTGTGT
Found at i:60466404 original size:66 final size:65
Alignment explanation
Indices: 60466288--60466414 Score: 148
Period size: 66 Copynumber: 1.9 Consensus size: 65
60466278 AAAAGGAAAG
* * * * *
60466288 GTACACTATATGTGTACACTTGAAAAGGCTATGTGCACTTTGTGTGTACAAATTGAAAAGGGTAT
1 GTACACTATATGTGTACACTTGAAAAGGCAATGTGCACCTCGGGTGTACAAATAGAAAAGGGTAT
* * * *
60466353 GTACACTTTGTGTGTAACACTT-AAAACGGGAATGTGCACCTCGGGTGTACAACTAGAAAAGG
1 GTACACTATATGTGT-ACACTTGAAAA-GGCAATGTGCACCTCGGGTGTACAAATAGAAAAGG
60466415 AAAGGTCCAT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
65 17 0.33
66 34 0.67
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (65 bp):
GTACACTATATGTGTACACTTGAAAAGGCAATGTGCACCTCGGGTGTACAAATAGAAAAGGGTAT
Found at i:60467793 original size:25 final size:24
Alignment explanation
Indices: 60467765--60467850 Score: 66
Period size: 25 Copynumber: 3.5 Consensus size: 24
60467755 CTAAATAAAA
60467765 GGAAGCTCATGAGAGCTAAGTATCG
1 GGAAGCTCATGAGAGCTAA-TATCG
* * *
60467790 GGAAACT-GTTACGAGCTGAATATCG
1 GGAAGCTCATGA-GAGCT-AATATCG
* * * *
60467815 AGAAGCTCTTGTGAGCTAAATATTG
1 GGAAGCTCATGAGAGCT-AATATCG
60467840 GGAAGCTCATG
1 GGAAGCTCATG
60467851 CAAGCTGTGG
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
24 2 0.04
25 41 0.89
26 3 0.07
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.24
Consensus pattern (24 bp):
GGAAGCTCATGAGAGCTAATATCG
Found at i:60468697 original size:6 final size:7
Alignment explanation
Indices: 60468676--60468706 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
60468666 ATGGCTAGGG
*
60468676 TTTCATT
1 TTTCTTT
60468683 TTTCTTT
1 TTTCTTT
60468690 TTTCTTT
1 TTTCTTT
60468697 TTTCTTT
1 TTTCTTT
60468704 TTT
1 TTT
60468707 AATGTTTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTCTTT
Found at i:60470071 original size:30 final size:30
Alignment explanation
Indices: 60470037--60470100 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
60470027 ATCCAACAAT
*
60470037 AATTAA-ATAAACAATTAAAAAGTTCA-TAAA
1 AATTAATATAAA-AATTAAAAAATT-ATTAAA
*
60470067 AATTAATATAAAATTTAAAAAATTATTAAA
1 AATTAATATAAAAATTAAAAAATTATTAAA
60470097 AATT
1 AATT
60470101 TTATAAATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 1 0.03
30 24 0.80
31 5 0.17
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (30 bp):
AATTAATATAAAAATTAAAAAATTATTAAA
Found at i:60470089 original size:20 final size:19
Alignment explanation
Indices: 60470064--60470101 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
60470054 AAAAGTTCAT
60470064 AAAAATTAATATAAAATTTA
1 AAAAATTAATA-AAAATTTA
*
60470084 AAAAATTATTAAAAATTT
1 AAAAATTAATAAAAATTT
60470102 TATAAATCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTAATAAAAATTTA
Found at i:60471551 original size:16 final size:17
Alignment explanation
Indices: 60471531--60471603 Score: 69
Period size: 16 Copynumber: 4.2 Consensus size: 17
60471521 TATTTTTGGT
* *
60471531 ATTTTATGATTTTAGGG
1 ATTTTATAAGTTTAGGG
60471548 -TTTTATAAGTTTAGGG
1 ATTTTATAAGTTTAGGG
*
60471564 ATTTT-TATGGTTTAGGG
1 ATTTTATA-AGTTTAGGG
*
60471581 ATCTTTATAGGGTTTAGGG
1 AT-TTTATA-AGTTTAGGG
60471600 ATTT
1 ATTT
60471604 GAGATAGACA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
16 16 0.33
17 14 0.29
18 5 0.10
19 13 0.27
ACGTcount: A:0.22, C:0.01, G:0.26, T:0.51
Consensus pattern (17 bp):
ATTTTATAAGTTTAGGG
Found at i:60471576 original size:17 final size:18
Alignment explanation
Indices: 60471541--60471603 Score: 78
Period size: 17 Copynumber: 3.6 Consensus size: 18
60471531 ATTTTATGAT
*
60471541 TTTAGGG-TTTTATA-AG
1 TTTAGGGATTTTATAGGG
*
60471557 TTTAGGGATTTT-TATGG
1 TTTAGGGATTTTATAGGG
60471574 TTTAGGGATCTTTATAGGG
1 TTTAGGGAT-TTTATAGGG
60471593 TTTAGGGATTT
1 TTTAGGGATTT
60471604 GAGATAGACA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.22
17 14 0.34
18 5 0.12
19 13 0.32
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.49
Consensus pattern (18 bp):
TTTAGGGATTTTATAGGG
Found at i:60471596 original size:19 final size:17
Alignment explanation
Indices: 60471556--60471603 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 17
60471546 GGTTTTATAA
*
60471556 GTTTAGGGATTTTTATG
1 GTTTAGGGATTTTTAGG
60471573 GTTTAGGGATCTTTATAGG
1 GTTTAGGGAT-TTT-TAGG
60471592 GTTTAGGGATTT
1 GTTTAGGGATTT
60471604 GAGATAGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 10 0.36
18 5 0.18
19 13 0.46
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (17 bp):
GTTTAGGGATTTTTAGG
Found at i:60472866 original size:21 final size:21
Alignment explanation
Indices: 60472842--60472889 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
60472832 GAGTGGGTTC
*
60472842 CATGGCTATGTAGATGGGTCA
1 CATGGCTATGTAGATGAGTCA
* *
60472863 CATGGCTGTGTGGATGAGTCA
1 CATGGCTATGTAGATGAGTCA
60472884 CATGGC
1 CATGGC
60472890 CGTGTAAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.27
Consensus pattern (21 bp):
CATGGCTATGTAGATGAGTCA
Found at i:60472894 original size:21 final size:21
Alignment explanation
Indices: 60472854--60472894 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60472844 TGGCTATGTA
* *
60472854 GATGGGTCACATGGCTGTGTG
1 GATGAGTCACATGGCCGTGTG
60472875 GATGAGTCACATGGCCGTGT
1 GATGAGTCACATGGCCGTGT
60472895 AAGCAAACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.39, T:0.27
Consensus pattern (21 bp):
GATGAGTCACATGGCCGTGTG
Found at i:60482209 original size:30 final size:30
Alignment explanation
Indices: 60482175--60482234 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
60482165 TATGCTTAGT
60482175 AAGTTCGTATAATAG-AAAATAAACTTACCG
1 AAGTTCGTATAA-AGAAAAATAAACTTACCG
* *
60482205 AAGTTTGTATAACGAAAAATAAACTTACCG
1 AAGTTCGTATAAAGAAAAATAAACTTACCG
60482235 GTCATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (30 bp):
AAGTTCGTATAAAGAAAAATAAACTTACCG
Found at i:60498873 original size:91 final size:91
Alignment explanation
Indices: 60498770--60498954 Score: 370
Period size: 91 Copynumber: 2.0 Consensus size: 91
60498760 TTTGAGGTGT
60498770 AAGAATAATGAGATAATTTGAATTGAGTCTAGTGATTTGAATGGACTACCCGCTGTGGTATCTGC
1 AAGAATAATGAGATAATTTGAATTGAGTCTAGTGATTTGAATGGACTACCCGCTGTGGTATCTGC
60498835 AATGAAAATACAGAATTATATGAAGA
66 AATGAAAATACAGAATTATATGAAGA
60498861 AAGAATAATGAGATAATTTGAATTGAGTCTAGTGATTTGAATGGACTACCCGCTGTGGTATCTGC
1 AAGAATAATGAGATAATTTGAATTGAGTCTAGTGATTTGAATGGACTACCCGCTGTGGTATCTGC
60498926 AATGAAAATACAGAATTATATGAAGA
66 AATGAAAATACAGAATTATATGAAGA
60498952 AAG
1 AAG
60498955 TTTGTGAAGC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 94 1.00
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (91 bp):
AAGAATAATGAGATAATTTGAATTGAGTCTAGTGATTTGAATGGACTACCCGCTGTGGTATCTGC
AATGAAAATACAGAATTATATGAAGA
Found at i:60502950 original size:40 final size:40
Alignment explanation
Indices: 60502913--60503137 Score: 303
Period size: 40 Copynumber: 5.6 Consensus size: 40
60502903 GCTACTCGTT
*
60502913 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
60502953 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
60502993 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
60503033 CAAATGCCTTTGGGACTTAACCCGGATT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* ** ** * *
60503073 CAAATGCCTTC-GGATCTTAGTCCGAATACGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
60503114 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
60503138 ACATCATTCG
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 4 0.02
40 147 0.90
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:60507587 original size:11 final size:11
Alignment explanation
Indices: 60507571--60507615 Score: 72
Period size: 11 Copynumber: 4.1 Consensus size: 11
60507561 ATTTGAACAC
60507571 TTACCATTTCA
1 TTACCATTTCA
60507582 TTACCATTTCA
1 TTACCATTTCA
*
60507593 TTTCCATTTCA
1 TTACCATTTCA
*
60507604 TTTCCATTTCA
1 TTACCATTTCA
60507615 T
1 T
60507616 ACCCATTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (11 bp):
TTACCATTTCA
Found at i:60507600 original size:6 final size:6
Alignment explanation
Indices: 60507574--60507613 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
60507564 TGAACACTTA
*
60507574 CCATTT -CATTA CCATTT -CATTT CCATTT -CATTT CCATTT C
1 CCATTT CCATTT CCATTT CCATTT CCATTT CCATTT CCATTT C
60507614 ATACCCATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
5 14 0.48
6 15 0.52
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (6 bp):
CCATTT
Found at i:60507621 original size:11 final size:11
Alignment explanation
Indices: 60507574--60507622 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
60507564 TGAACACTTA
60507574 CCATTTCAT-T
1 CCATTTCATAT
*
60507584 ACCATTTCATTT
1 -CCATTTCATAT
*
60507596 CCATTTCATTT
1 CCATTTCATAT
*
60507607 CCATTTCATAC
1 CCATTTCATAT
60507618 CCATT
1 CCATT
60507623 GAACCATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 34 0.97
12 1 0.03
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (11 bp):
CCATTTCATAT
Found at i:60507621 original size:22 final size:22
Alignment explanation
Indices: 60507574--60507622 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
60507564 TGAACACTTA
**
60507574 CCATTTCATTACCATTTCATTT
1 CCATTTCATTACCATTTCATAC
*
60507596 CCATTTCATTTCCATTTCATAC
1 CCATTTCATTACCATTTCATAC
60507618 CCATT
1 CCATT
60507623 GAACCATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (22 bp):
CCATTTCATTACCATTTCATAC
Found at i:60510519 original size:19 final size:19
Alignment explanation
Indices: 60510491--60510529 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
60510481 AACTTTCCCA
60510491 AGATTCTCAGGTGTAGGAC
1 AGATTCTCAGGTGTAGGAC
*
60510510 AGATTTTCAGGTGTAGGAC
1 AGATTCTCAGGTGTAGGAC
60510529 A
1 A
60510530 AATGGAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (19 bp):
AGATTCTCAGGTGTAGGAC
Found at i:60511840 original size:96 final size:97
Alignment explanation
Indices: 60511675--60511870 Score: 304
Period size: 96 Copynumber: 2.0 Consensus size: 97
60511665 TGGAAACACT
* * * *
60511675 TATACTAGTATGCCATCAACTTAATCTGATTAGCAATCCAATGAAGATTTTAAACTGTAACGTGA
1 TATACTACTATGCCATCAACCTAAACTGATTAGCAATCCAATAAAGATTTTAAACTGTAACGTGA
*
60511740 GGTATA-AAAAACTAATGATTTACTCAATACA
66 GGTATAGAAAAACTAATGAGTTACTCAATACA
* * *
60511771 TATACTACTATGCCATCAACCTAAACTGATTGGCAATCCAATAAAGATTTTAAACTGTAACTTGG
1 TATACTACTATGCCATCAACCTAAACTGATTAGCAATCCAATAAAGATTTTAAACTGTAACGTGA
*
60511836 GGTATAGAAAAACTGATGAGTTACTCAATACA
66 GGTATAGAAAAACTAATGAGTTACTCAATACA
60511868 TAT
1 TAT
60511871 GGAGCTGACG
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 64 0.71
97 26 0.29
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (97 bp):
TATACTACTATGCCATCAACCTAAACTGATTAGCAATCCAATAAAGATTTTAAACTGTAACGTGA
GGTATAGAAAAACTAATGAGTTACTCAATACA
Found at i:60513934 original size:43 final size:42
Alignment explanation
Indices: 60513866--60514027 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 42
60513856 TTTGATATGT
*
60513866 GATTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATTTG
1 GATTACATGTAAGACCACGTCTGGGACGTTGGCATCGATTTG
* * * * * *
60513908 AGATTACGTGTAAGACCATGTCTGGGACATCGACATCTATTTG
1 -GATTACATGTAAGACCACGTCTGGGACGTTGGCATCGATTTG
* *
60513951 G-TTTCATGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTT
1 GATTACATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TTG
* *
60513993 GATTACATGTATGACCACGTCTGGGATGTTGGCAT
1 GATTACATGTAAGACCACGTCTGGGACGTTGGCAT
60514028 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 28 0.29
42 5 0.05
43 61 0.64
44 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (42 bp):
GATTACATGTAAGACCACGTCTGGGACGTTGGCATCGATTTG
Found at i:60535579 original size:6 final size:6
Alignment explanation
Indices: 60535538--60535582 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
60535528 AATTAAAAAA
* *
60535538 ACAAAA ACAAAA ACAAAAT AC-AAT ACAAAT ACAAAT ACAAAT ACA
1 ACAAAT ACAAAT AC-AAAT ACAAAT ACAAAT ACAAAT ACAAAT ACA
60535583 CAGATTATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
5 5 0.14
6 26 0.72
7 5 0.14
ACGTcount: A:0.71, C:0.18, G:0.00, T:0.11
Consensus pattern (6 bp):
ACAAAT
Found at i:60538696 original size:11 final size:11
Alignment explanation
Indices: 60538680--60538741 Score: 88
Period size: 11 Copynumber: 5.5 Consensus size: 11
60538670 CGCCATTAAC
60538680 AAAAAACAAAA
1 AAAAAACAAAA
60538691 AAAAAACAAAA
1 AAAAAACAAAA
*
60538702 ACAAAACAAAA
1 AAAAAACAAAA
*
60538713 ACAAAACAAAA
1 AAAAAACAAAA
*
60538724 ACAAAACAAAA
1 AAAAAACAAAA
60538735 CAAAAAA
1 -AAAAAA
60538742 AACTATGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
11 43 0.90
12 5 0.10
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:60538710 original size:22 final size:22
Alignment explanation
Indices: 60538682--60538741 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
60538672 CCATTAACAA
60538682 AAAACAAAAAAAAAACAAAAAC
1 AAAACAAAAAAAAAACAAAAAC
*
60538704 AAAACAAAAACAAAACAAAAAC
1 AAAACAAAAAAAAAACAAAAAC
60538726 AAAACAAAACAAAAAA
1 AAAACAAAA-AAAAAA
60538742 AACTATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 30 0.86
23 5 0.14
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (22 bp):
AAAACAAAAAAAAAACAAAAAC
Found at i:60539983 original size:35 final size:30
Alignment explanation
Indices: 60539917--60539984 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
60539907 ATCGTTAATT
60539917 GAATCGAAGTTTTTTTCAAATACATTAACC
1 GAATCGAAGTTTTTTTCAAATACATTAACC
60539947 GAATCGAAGTTTTTTTCAAATACATTAACC
1 GAATCGAAGTTTTTTTCAAATACATTAACC
*
60539977 GAACCGAA
1 GAATCGAA
60539985 ATTAATATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (30 bp):
GAATCGAAGTTTTTTTCAAATACATTAACC
Found at i:60540897 original size:27 final size:27
Alignment explanation
Indices: 60540866--60540919 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
60540856 TATTGAGTGA
*
60540866 ATGCCAAGTCCCATAAGCGTCACTTCT
1 ATGCCAACTCCCATAAGCGTCACTTCT
60540893 ATGCCAACTCCCATAAGCGTCACTTCT
1 ATGCCAACTCCCATAAGCGTCACTTCT
60540920 TTTCCTTTTT
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:0.26, C:0.35, G:0.13, T:0.26
Consensus pattern (27 bp):
ATGCCAACTCCCATAAGCGTCACTTCT
Found at i:60541462 original size:35 final size:35
Alignment explanation
Indices: 60541423--60541493 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
60541413 CATCTCCGGA
* **
60541423 GCTTGGTAAATATGGAAAGTTATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGAGATCTTCAAAGATAT
* *
60541458 GCTTGGCAAATATGGAAGGAGATTTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGAGATCTTCAAAGATAT
60541493 G
1 G
60541494 AGATCTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGAGATCTTCAAAGATAT
Found at i:60547101 original size:47 final size:47
Alignment explanation
Indices: 60547047--60547240 Score: 298
Period size: 47 Copynumber: 4.1 Consensus size: 47
60547037 TTAGGATTTT
** * *
60547047 ATGTGATGAATGTGAATTTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
60547094 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
60547141 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
60547188 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
60547235 ATGTGA
1 ATGTGA
60547241 AATATGTATG
Statistics
Matches: 135, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:60547147 original size:22 final size:22
Alignment explanation
Indices: 60547076--60547194 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
60547066 GTATATATGA
60547076 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
60547098 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
60547123 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* *
60547145 GATGAATGTG-AGCAT-G-CATATGTGT
1 GAT-AA-G-GCCGAATGGCCA-A--TGT
60547170 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
60547192 GAT
1 GAT
60547195 GAATATGAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 20 0.28
23 17 0.24
24 17 0.24
25 17 0.24
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:60547275 original size:48 final size:48
Alignment explanation
Indices: 60547210--60547590 Score: 570
Period size: 48 Copynumber: 7.8 Consensus size: 48
60547200 TGAACATGCA
60547210 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
60547258 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
60547308 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
60547356 TATATGTGGTAAAGTCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
* *
60547406 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATAAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
60547454 TATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
60547504 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
60547552 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
60547591 GGCGATGTGC
Statistics
Matches: 304, Mismatches: 17, Indels: 24
0.88 0.05 0.07
Matches are distributed among these distances:
47 3 0.01
48 163 0.54
49 12 0.04
50 123 0.40
51 3 0.01
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:60547606 original size:98 final size:98
Alignment explanation
Indices: 60547210--60547587 Score: 695
Period size: 98 Copynumber: 3.9 Consensus size: 98
60547200 TGAACATGCA
* *
60547210 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
60547275 AATGGTCAATGTGAAATATATATATGAGATATG
66 AATGGTCAATGTGAAATATATATATGAGATATG
*
60547308 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGTCG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
60547373 AATGGTCAATGTGAAATATATATATGAGATATG
66 AATGGTCAATGTGAAATATATATATGAGATATG
*
60547406 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATAAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
60547471 AATGGTCAATGTGAAATATATATATGAGATATG
66 AATGGTCAATGTGAAATATATATATGAGATATG
60547504 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
60547569 AATGG-CTAGTGTGAAATAT
66 AATGGTC-AATGTGAAATAT
60547588 GTAGGCGATG
Statistics
Matches: 272, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
97 1 0.00
98 271 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (98 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
AATGGTCAATGTGAAATATATATATGAGATATG
Found at i:60547845 original size:37 final size:37
Alignment explanation
Indices: 60547737--60547845 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
60547727 GGAAATATAT
*
60547737 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
60547774 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
60547811 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
60547846 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:60551243 original size:28 final size:28
Alignment explanation
Indices: 60551203--60551272 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
60551193 ATGAGATTGA
*
60551203 CACTAAGTGTGCGAGTTTAATT-GTATAG
1 CACTAAGTGTGCGAGTTTAATTATTA-AG
*
60551231 CACTAAGTGTGCGAGTTTGATTATTAAG
1 CACTAAGTGTGCGAGTTTAATTATTAAG
60551259 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
60551273 ACTTACTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTATTAAG
Found at i:60554157 original size:48 final size:48
Alignment explanation
Indices: 60554098--60554369 Score: 307
Period size: 48 Copynumber: 5.7 Consensus size: 48
60554088 TATGTGTGCT
* *
60554098 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* * ** * * * *
60554146 AGTGTAAGACCATGTTTGGAACATGGCATCGGTGATGCTGTGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * * *
60554194 AGTGTCAGACCATGTCTGGGACATGGCATCGG-CATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCC
*
60554242 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCC
* * *
60554290 AGTGTAAGACCATGTCTGGGACATGGCAT-GGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* * *
60554337 AGTGTAAAACCATGTTTGGAACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
60554370 AATTCACCCT
Statistics
Matches: 187, Mismatches: 32, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
47 41 0.22
48 144 0.77
49 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
Found at i:60554266 original size:96 final size:96
Alignment explanation
Indices: 60554098--60554369 Score: 341
Period size: 96 Copynumber: 2.8 Consensus size: 96
60554088 TATGTGTGCT
* * *
60554098 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCA-CGATATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCATCGATATGTGAGCCAGTGTAAGACCATGTT
** ** *
60554162 TGGAACATGGCATCGGTGATGCTGTGAAAGCC
65 TGGAACATGGCATCGGCCACACTATGAAAGCC
* * * * *
60554194 AGTGTCAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCCAGTGTAAGACCATGTTT
* * * *
60554259 GGGACATGGCATTGGCCACATTATGAGAGCC
66 GGAACATGGCATCGGCCACACTATGAAAGCC
* * *
60554290 AGTGTAAGACCATGTCTGGGACATGGCAT-GGCCTCGACATGTGAGCCAGTGTAAAACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCCAGTGTAAGACCATGTTT
60554354 GGAACATGGCATCGGC
66 GGAACATGGCATCGGC
60554370 AATTCACCCT
Statistics
Matches: 148, Mismatches: 27, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
95 45 0.30
96 103 0.70
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCCAGTGTAAGACCATGTTT
GGAACATGGCATCGGCCACACTATGAAAGCC
Found at i:60560006 original size:17 final size:17
Alignment explanation
Indices: 60559984--60560018 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
60559974 TTATGCAAGA
60559984 AGGTAAGGTGATAGCAT
1 AGGTAAGGTGATAGCAT
60560001 AGGTAAGGTGATAGCAT
1 AGGTAAGGTGATAGCAT
60560018 A
1 A
60560019 TTCCTCAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.34, T:0.23
Consensus pattern (17 bp):
AGGTAAGGTGATAGCAT
Found at i:60562438 original size:48 final size:48
Alignment explanation
Indices: 60562376--60562705 Score: 274
Period size: 48 Copynumber: 6.9 Consensus size: 48
60562366 ACGTTTGGGT
* * * *
60562376 GATATGTGTGCCAGTGTAAGACCATATCTGGGACATGGCATTGACCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC
* * * ** *
60562424 GATATGAGATCCAGTGTAAGACCATGTTTGGAACATGGCATCG-TGAT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC
* * * *
60562471 GTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAAT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC
* * * * * *
60562519 GATATGTGTGCTAGTGTAAGACCTTGTCTGGGACATGGCATTGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC
* * * * ** *
60562567 -ATTATGAGAGCCAATGTAAGATCATGTCTAGGACATGGTATCG-GTATT
1 GA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-C
* * * * *
60562615 GAGATGAGAGCTAGTGTAAGACCATGCCTGGGACATGGCAT-TAGCCTC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCAC
* * *
60562663 GACT-TGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 GA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
60562706 GTAATTCACC
Statistics
Matches: 216, Mismatches: 58, Indels: 15
0.75 0.20 0.05
Matches are distributed among these distances:
47 41 0.19
48 174 0.81
49 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC
Found at i:60564497 original size:60 final size:60
Alignment explanation
Indices: 60564399--60564520 Score: 217
Period size: 60 Copynumber: 2.0 Consensus size: 60
60564389 CGGACTGGTC
60564399 CATTGCTTGGAGAAATTGAAAGCCCATCTCTGGAGCTTGGTAAATATGGAAAGTGATCTT
1 CATTGCTTGGAGAAATTGAAAGCCCATCTCTGGAGCTTGGTAAATATGGAAAGTGATCTT
* * *
60564459 CATTGCTTGGAGAGATTGAAAGCCTATCTCTGGCGCTTGGTAAATATGGAAAGTGATCTT
1 CATTGCTTGGAGAAATTGAAAGCCCATCTCTGGAGCTTGGTAAATATGGAAAGTGATCTT
60564519 CA
1 CA
60564521 AAGATATGCT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (60 bp):
CATTGCTTGGAGAAATTGAAAGCCCATCTCTGGAGCTTGGTAAATATGGAAAGTGATCTT
Found at i:60564532 original size:35 final size:35
Alignment explanation
Indices: 60564493--60564563 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
60564483 TATCTCTGGC
* *
60564493 GCTTGGTAAATATGGAAAGT-GATCTTCAAAGATAT
1 GCTTGGCAAATATGG-AAGTGGATCTTCAAAAATAT
60564528 GCTTGGCAAATATGGAAGTGGATCTTCAAAAATAT
1 GCTTGGCAAATATGGAAGTGGATCTTCAAAAATAT
60564563 G
1 G
60564564 TGATCCTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 4 0.12
35 29 0.88
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.30
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAGTGGATCTTCAAAAATAT
Found at i:60565583 original size:4 final size:4
Alignment explanation
Indices: 60565574--60565605 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
60565564 ATCTATGCCC
60565574 CATA CATA CATA CATA CATA CATA C-TA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA C
60565606 TTATTCCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:60573066 original size:24 final size:24
Alignment explanation
Indices: 60573039--60573087 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
60573029 TCTCATACAT
* *
60573039 ATATATATATATATCAA-AATTATA
1 ATATAAATAT-TATAAACAATTATA
60573063 ATATAAATATTATAAACAATTATA
1 ATATAAATATTATAAACAATTATA
60573087 A
1 A
60573088 ATTAGATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATAAATATTATAAACAATTATA
Found at i:60575563 original size:22 final size:22
Alignment explanation
Indices: 60575461--60575564 Score: 109
Period size: 22 Copynumber: 4.7 Consensus size: 22
60575451 ACACCACACT
* *
60575461 AGAGAGCACCATAGTGCTAAAC
1 AGAGAGCACTAAAGTGCTAAAC
* * *
60575483 AGAGAGCACTGAAGTTCTAAAT
1 AGAGAGCACTAAAGTGCTAAAC
* * *
60575505 AAAGAGCACTAAAATGCTAAGC
1 AGAGAGCACTAAAGTGCTAAAC
* *
60575527 AGAGAGCACCAAAGTGCTAGAC
1 AGAGAGCACTAAAGTGCTAAAC
*
60575549 AGAGAGCACTGAAGTG
1 AGAGAGCACTAAAGTG
60575565 TTGAATCTAT
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.14
Consensus pattern (22 bp):
AGAGAGCACTAAAGTGCTAAAC
Found at i:60576550 original size:20 final size:19
Alignment explanation
Indices: 60576517--60576556 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
60576507 ATTTGGCATA
60576517 TTAATTAATTATAATTAAC
1 TTAATTAATTATAATTAAC
60576536 TTAATTAACTTATAATTAAC
1 TTAATTAA-TTATAATTAAC
60576556 T
1 T
60576557 AAACTTAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAATTAATTATAATTAAC
Found at i:60576553 original size:11 final size:11
Alignment explanation
Indices: 60576518--60576556 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
60576508 TTTGGCATAT
60576518 TAATTAA-TTA
1 TAATTAACTTA
60576528 TAATTAAC-T-
1 TAATTAACTTA
60576537 TAATTAACTTA
1 TAATTAACTTA
60576548 TAATTAACT
1 TAATTAACT
60576557 AAACTTAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.31
10 9 0.35
11 9 0.35
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATTAACTTA
Found at i:60586849 original size:35 final size:35
Alignment explanation
Indices: 60586780--60586859 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
60586770 CAGTTTTCCG
**
60586780 AAATCCCTTATTTTTTTCCCCTAAAAATTTTCCCC
1 AAATCCCTTATTTTTTTCCCCTAAAAATAATCCCC
*
60586815 AAATACCTTATTTTTTTCCCC-AAATCAA-AATCCCC
1 AAATCCCTTATTTTTTTCCCCTAAA--AATAATCCCC
60586850 AAATCCCTTA
1 AAATCCCTTA
60586860 GATATTCCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 3 0.08
35 34 0.87
36 2 0.05
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (35 bp):
AAATCCCTTATTTTTTTCCCCTAAAAATAATCCCC
Found at i:60590793 original size:24 final size:24
Alignment explanation
Indices: 60590766--60590817 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
60590756 GAGATTCATG
*
60590766 AAGTAGTTGCAGATATTCTAAAAA
1 AAGTAGATGCAGATATTCTAAAAA
*
60590790 AAGTGGATGCAGATATTCTAAAAA
1 AAGTAGATGCAGATATTCTAAAAA
60590814 AAGT
1 AAGT
60590818 GGACTTCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (24 bp):
AAGTAGATGCAGATATTCTAAAAA
Found at i:60590818 original size:24 final size:24
Alignment explanation
Indices: 60590773--60590820 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
60590763 ATGAAGTAGT
60590773 TGCAGATATTCTAAAAAAAGTGGA
1 TGCAGATATTCTAAAAAAAGTGGA
60590797 TGCAGATATTCTAAAAAAAGTGGA
1 TGCAGATATTCTAAAAAAAGTGGA
60590821 CTTCTACACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (24 bp):
TGCAGATATTCTAAAAAAAGTGGA
Found at i:60596907 original size:20 final size:20
Alignment explanation
Indices: 60596882--60596919 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60596872 CTTTAATTAT
*
60596882 TCCTTAATTAATTAACTTAA
1 TCCTTAACTAATTAACTTAA
*
60596902 TCCTTAACTAATTTACTT
1 TCCTTAACTAATTAACTT
60596920 TAATTATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.47
Consensus pattern (20 bp):
TCCTTAACTAATTAACTTAA
Found at i:60624049 original size:48 final size:48
Alignment explanation
Indices: 60623997--60624164 Score: 228
Period size: 48 Copynumber: 3.5 Consensus size: 48
60623987 ATTGCCAATA
* * **
60623997 CCATGTCCCAGGCATGGTATTACACTGGCTCTCATAAGGTGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATGGCCGATG
* *
60624045 CCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATCGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATGGCCGATG
* * * * *
60624093 CCATGTTCCAAACATGGTCTTACACTAGCTCTGATATCATGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATGGCCGATG
*
60624141 CCATGTCCCAGACATGATCTTACA
1 CCATGTCCCAGACATGGTCTTACA
60624165 TTGCCACACA
Statistics
Matches: 104, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 104 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATGGCCGATG
Found at i:60624178 original size:48 final size:49
Alignment explanation
Indices: 60623949--60624179 Score: 179
Period size: 48 Copynumber: 4.8 Consensus size: 49
60623939 ATGGTCAATA
* * * * * * * *
60623949 CCATGTCCCA-AGCATGATCTTACACTAG-CTCTCGTCTTATTGCCAATA
1 CCATGTCCCAGA-CATGGTCTTACACTAGCCTCACATATCATGGCCGATG
* * * * ***
60623997 CCATGTCCCAGGCATGGTATTACACT-GGCTCTCATAAGGTGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCCTCACATATCATGGCCGATG
* *
60624045 CCATGTCCCAGACATGGTCTTACACTGGCTCTCACA-A-CATCGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGC-CTCACATATCATGGCCGATG
* * **
60624093 CCATGTTCCAAACATGGTCTTACACTAG-CTCTGATATCATGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCCTCACATATCATGGCCGATG
* * *
60624141 CCATGTCCCAGACATGATCTTACA-TTGCCACACATATCA
1 CCATGTCCCAGACATGGTCTTACACTAGCCTCACATATCA
60624180 CCCAAATGTC
Statistics
Matches: 145, Mismatches: 31, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
46 4 0.03
47 4 0.03
48 130 0.90
49 2 0.01
50 5 0.03
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (49 bp):
CCATGTCCCAGACATGGTCTTACACTAGCCTCACATATCATGGCCGATG
Found at i:60629563 original size:46 final size:46
Alignment explanation
Indices: 60629510--60629604 Score: 138
Period size: 46 Copynumber: 2.1 Consensus size: 46
60629500 TTGTCTTTTG
* * *
60629510 ATTTTCTATTGACATTCA-AGATTGTCCCAATAATGTTCTCGCAAAC
1 ATTTTCTATCGACATTCAGA-ATTATCCCAATAATGTTCTCACAAAC
*
60629556 ATTTTCTATCGACATTCAGAATTATCCCAATGATGTTCTCACAAAC
1 ATTTTCTATCGACATTCAGAATTATCCCAATAATGTTCTCACAAAC
60629602 ATT
1 ATT
60629605 CTTTTCAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 43 0.98
47 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (46 bp):
ATTTTCTATCGACATTCAGAATTATCCCAATAATGTTCTCACAAAC
Found at i:60631693 original size:36 final size:34
Alignment explanation
Indices: 60631652--60631737 Score: 136
Period size: 36 Copynumber: 2.5 Consensus size: 34
60631642 ATCCAAAGTT
*
60631652 TTATGTAAGTTATGATATGATATATATTTATGTAA
1 TTATGTAAGTTATGATATGATAAATATTTATGT-A
*
60631687 GTTATGTAACTTATGATATGATAAATATTTATGTA
1 -TTATGTAAGTTATGATATGATAAATATTTATGTA
60631722 TTATGTAAGTTATGAT
1 TTATGTAAGTTATGAT
60631738 CCAAAGTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
34 15 0.32
35 1 0.02
36 31 0.66
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (34 bp):
TTATGTAAGTTATGATATGATAAATATTTATGTA
Found at i:60631705 original size:27 final size:27
Alignment explanation
Indices: 60631651--60631705 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
60631641 GATCCAAAGT
**
60631651 TTTATGTAAGTTATGATATGATATATA
1 TTTATGTAAGTTATGATAACATATATA
*
60631678 TTTATGTAAGTTATG-TAACTTATGATA
1 TTTATGTAAGTTATGATAACATAT-ATA
60631705 T
1 T
60631706 GATAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.49
Consensus pattern (27 bp):
TTTATGTAAGTTATGATAACATATATA
Found at i:60631807 original size:13 final size:13
Alignment explanation
Indices: 60631789--60631813 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60631779 TGATTATCAT
60631789 CTTTAAATTTTAA
1 CTTTAAATTTTAA
60631802 CTTTAAATTTTA
1 CTTTAAATTTTA
60631814 TGCTCTTTTA
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:60643187 original size:27 final size:27
Alignment explanation
Indices: 60643149--60643240 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
60643139 TAACATATTC
*
60643149 AGATACAGTTTAGACCTTAGCCCATTT
1 AGATACAGTTTAGGCCTTAGCCCATTT
*
60643176 AGATACAGTTTAGGCCATAGCCCATTT
1 AGATACAGTTTAGGCCTTAGCCCATTT
* * *
60643203 AGCTACAATTTAGGCCTTAGCCCATTC
1 AGATACAGTTTAGGCCTTAGCCCATTT
*
60643230 AAATACAGTTT
1 AGATACAGTTT
60643241 TAGGTATAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (27 bp):
AGATACAGTTTAGGCCTTAGCCCATTT
Found at i:60645761 original size:18 final size:18
Alignment explanation
Indices: 60645735--60645770 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
60645725 AATGCAATTT
60645735 AAAACATTTTGGTGAAGA
1 AAAACATTTTGGTGAAGA
* *
60645753 AAAATATTTTGTTGAAGA
1 AAAACATTTTGGTGAAGA
60645771 GGGTGATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (18 bp):
AAAACATTTTGGTGAAGA
Found at i:60657181 original size:25 final size:27
Alignment explanation
Indices: 60657153--60657203 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
60657143 ATTGTTGCGG
60657153 CAGAGGAG-T-GTCGACGGTGATGCAA
1 CAGAGGAGATAGTCGACGGTGATGCAA
*
60657178 CAGAGGGGATAGTCGACGGTGATGCA
1 CAGAGGAGATAGTCGACGGTGATGCA
60657204 GCAAATGGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.30
26 1 0.04
27 15 0.65
ACGTcount: A:0.27, C:0.16, G:0.41, T:0.16
Consensus pattern (27 bp):
CAGAGGAGATAGTCGACGGTGATGCAA
Found at i:60657444 original size:41 final size:41
Alignment explanation
Indices: 60657366--60657504 Score: 147
Period size: 41 Copynumber: 3.4 Consensus size: 41
60657356 AAAATGATAC
*
60657366 TTTGCGGTGTTTTTCTCAT-AACGCCACTAATGTTTGACCT
1 TTTGCGGTGTTTTTCTCATAAACGCCACTAATGCTTGACCT
* **
60657406 TTTGTGGTGTTTTTCTCATAAACGCTGCTAATGCTTGACCT
1 TTTGCGGTGTTTTTCTCATAAACGCCACTAATGCTTGACCT
* * * * *
60657447 TTTGCGGCAT-TTTTTCTCATAAGCACCACTATTGCTTTACAT
1 TTTGCGG--TGTTTTTCTCATAAACGCCACTAATGCTTGACCT
* *
60657489 ATTGCGGCGTTTTTCT
1 TTTGCGGTGTTTTTCT
60657505 TTTAGTGCCA
Statistics
Matches: 81, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
40 18 0.22
41 31 0.38
42 31 0.38
43 1 0.01
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (41 bp):
TTTGCGGTGTTTTTCTCATAAACGCCACTAATGCTTGACCT
Found at i:60658362 original size:22 final size:22
Alignment explanation
Indices: 60658327--60658386 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
60658317 CGACATTTAG
* * * *
60658327 CACTTCGGTTCTCTTTGTTCAA
1 CACTTTGGTGCTCTCTGCTCAA
*
60658349 CACTTTGGTGCTCTCTGCTCAG
1 CACTTTGGTGCTCTCTGCTCAA
*
60658371 CACTTTAGTGCTCTCT
1 CACTTTGGTGCTCTCT
60658387 TGGGTGGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.12, C:0.30, G:0.17, T:0.42
Consensus pattern (22 bp):
CACTTTGGTGCTCTCTGCTCAA
Found at i:60659449 original size:19 final size:20
Alignment explanation
Indices: 60659412--60659450 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
60659402 ATGTTAGCAT
*
60659412 AATTTGAGTTTGTATTAGTG
1 AATTTGAGTTTGTACTAGTG
*
60659432 AATTTGA-TTTGTCCTAGTG
1 AATTTGAGTTTGTACTAGTG
60659451 TAAATTTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (20 bp):
AATTTGAGTTTGTACTAGTG
Found at i:60662580 original size:28 final size:28
Alignment explanation
Indices: 60662540--60662760 Score: 327
Period size: 28 Copynumber: 7.9 Consensus size: 28
60662530 AACACATCAG
* *
60662540 GAAAAAATAAGCCTTTGTGGCGAACTAT
1 GAAAGAATAAGCCTTTGTGGTGAACTAT
** * *
60662568 GAAAGAATAAGCCTTTGTGGCAAAGTAC
1 GAAAGAATAAGCCTTTGTGGTGAACTAT
*
60662596 GAAAGAATAAGCCTTTGTGGTAAACTAT
1 GAAAGAATAAGCCTTTGTGGTGAACTAT
60662624 GAAAGAATAAGCCTTTGTGGTGAACTAT
1 GAAAGAATAAGCCTTTGTGGTGAACTAT
*
60662652 GAAAGAATAAGCCTTTGTGGTGAACTAC
1 GAAAGAATAAGCCTTTGTGGTGAACTAT
*
60662680 AAAAGAATAAGCCTTTGTGGTGAACTAT
1 GAAAGAATAAGCCTTTGTGGTGAACTAT
*
60662708 GAAAGAATAAGCTTTTGTGGTGAACTAT
1 GAAAGAATAAGCCTTTGTGGTGAACTAT
* *
60662736 GAAAG-ATTAGCCTTTATGGTGAACT
1 GAAAGAATAAGCCTTTGTGGTGAACT
60662761 CTGTATTAAG
Statistics
Matches: 177, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 17 0.10
28 160 0.90
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (28 bp):
GAAAGAATAAGCCTTTGTGGTGAACTAT
Found at i:60666698 original size:22 final size:23
Alignment explanation
Indices: 60666651--60666699 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
60666641 TTATAAAACC
* *
60666651 TAAAGATGAAATTAAAGTAGTAT
1 TAAAGATGAAATAAAAGTAATAT
60666674 TAAAGA-GAAATAAAAAGTAAT-T
1 TAAAGATGAAAT-AAAAGTAATAT
60666696 TAAA
1 TAAA
60666700 AATCATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (23 bp):
TAAAGATGAAATAAAAGTAATAT
Found at i:60679367 original size:14 final size:15
Alignment explanation
Indices: 60679348--60679377 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
60679338 ATATTTGACT
60679348 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
60679362 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
60679377 T
1 T
60679378 TTTAATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:60681140 original size:46 final size:46
Alignment explanation
Indices: 60681073--60681296 Score: 224
Period size: 46 Copynumber: 4.8 Consensus size: 46
60681063 GATATTTGGG
* *
60681073 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
60681119 CATCCGAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* ** * *
60681165 CGTCCGAACTCGTTGAGTTGAGTCCGAGTT-TGTGAAATGTAACTAG-G-A
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAA
* * *
60681213 -ATCCGAACTCGTTGAGTTGATTCTGAGTTCACTTACGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *
60681258 C-GCCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60681297 GCGTGTTACA
Statistics
Matches: 143, Mismatches: 25, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 2 0.01
45 5 0.03
46 100 0.70
47 29 0.20
48 3 0.02
49 2 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:60693908 original size:28 final size:27
Alignment explanation
Indices: 60693851--60694002 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
60693841 TAAATTGTGC
* *
60693851 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
60693878 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
60693906 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
60693933 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
60693961 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
60693988 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60694003 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:60693916 original size:55 final size:55
Alignment explanation
Indices: 60693851--60694002 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
60693841 TAAATTGTGC
* *
60693851 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
60693906 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
60693961 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
60694003 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:60694074 original size:69 final size:69
Alignment explanation
Indices: 60693954--60694114 Score: 304
Period size: 69 Copynumber: 2.3 Consensus size: 69
60693944 TGCGAGTATG
*
60693954 ATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATGTTCTT
1 ATTATGGA-CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATGTTCTT
60694019 GAATC
65 GAATC
60694024 ATTATGGACACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATGTTCTTG
1 ATTATGGACACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATGTTCTTG
60694089 AATC
66 AATC
60694093 ATTATGGACACTAAGTGTGCGA
1 ATTATGGACACTAAGTGTGCGA
60694115 CACTATTGAG
Statistics
Matches: 90, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
69 83 0.92
70 7 0.08
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (69 bp):
ATTATGGACACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATGTTCTTG
AATC
Found at i:60702148 original size:28 final size:27
Alignment explanation
Indices: 60702091--60702242 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
60702081 TAAATTGTGC
* *
60702091 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
60702118 AGCAATAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
60702146 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
60702173 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
60702201 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
60702228 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60702243 GACTTAATAT
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 65 0.56
28 51 0.44
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:60702155 original size:55 final size:55
Alignment explanation
Indices: 60702091--60702242 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 55
60702081 TAAATTGTGC
* * *
60702091 AGCACTAAGTGTGCGAATTGAATATGTAGCAATAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
60702146 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
60702201 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
60702243 GACTTAATAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:60702314 original size:69 final size:69
Alignment explanation
Indices: 60702194--60702354 Score: 304
Period size: 69 Copynumber: 2.3 Consensus size: 69
60702184 TGCGAGTATG
*
60702194 ATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATGTTCTT
1 ATTATGGA-CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATGTTCTT
60702259 GAATC
65 GAATC
60702264 ATTATGGACACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATGTTCTTG
1 ATTATGGACACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATGTTCTTG
60702329 AATC
66 AATC
60702333 ATTATGGACACTAAGTGTGCGA
1 ATTATGGACACTAAGTGTGCGA
60702355 CACTATTGAG
Statistics
Matches: 90, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
69 83 0.92
70 7 0.08
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (69 bp):
ATTATGGACACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATGTTCTTG
AATC
Found at i:60709236 original size:29 final size:28
Alignment explanation
Indices: 60709144--60709236 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 28
60709134 CACTAGTTGT
*
60709144 CGATGATTACAGTTTCAGGTACTTTGTA
1 CGATGATTACAGTTTCAGGTACTATGTA
* * ** * * *
60709172 TCGGTG-TTATAGCGTCAGGCACTCTATA
1 -CGATGATTACAGTTTCAGGTACTATGTA
*
60709200 CTAGTGATTACAGTTTCAGGTACTATGTA
1 CGA-TGATTACAGTTTCAGGTACTATGTA
60709229 CCGATGAT
1 -CGATGAT
60709237 GGATACCGTA
Statistics
Matches: 45, Mismatches: 16, Indels: 6
0.67 0.24 0.09
Matches are distributed among these distances:
27 1 0.02
28 18 0.40
29 24 0.53
30 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (28 bp):
CGATGATTACAGTTTCAGGTACTATGTA
Found at i:60711750 original size:42 final size:42
Alignment explanation
Indices: 60711688--60711857 Score: 232
Period size: 42 Copynumber: 4.0 Consensus size: 42
60711678 GTTACTTGGG
* * *
60711688 AATCTCGCACACTAAGTGCCAATACGTAGCCGAAGCTAACTC
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
* * *
60711730 AATCACACACACTAAGTGCCAATGCATAGCCGAAGCTATCTT
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
* * *
60711772 GATCTCGCACACTAAGTGCCAATGCATAGTCGAAGCTATCCC
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
* * *
60711814 GATCTTGCACAGTAAGTGCCAATGCATAGCCGAAGCTATCTC
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
60711856 AA
1 AA
60711858 ATATTTCCAT
Statistics
Matches: 111, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 111 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (42 bp):
AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
Found at i:60717318 original size:39 final size:40
Alignment explanation
Indices: 60717254--60717333 Score: 126
Period size: 39 Copynumber: 2.0 Consensus size: 40
60717244 GTCTCGATTC
* *
60717254 AAGGAGTGACACTGAGAATAGCTTTAAAAATATGGCTTTA
1 AAGGAGTGACACTGAGAATAACTTTAAAAATATGACTTTA
*
60717294 AAGG-GTGACACTGAGAATAACTTTAGAAATATGACTTTA
1 AAGGAGTGACACTGAGAATAACTTTAAAAATATGACTTTA
60717333 A
1 A
60717334 TGCATAAGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 33 0.89
40 4 0.11
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (40 bp):
AAGGAGTGACACTGAGAATAACTTTAAAAATATGACTTTA
Found at i:60723768 original size:4 final size:4
Alignment explanation
Indices: 60723759--60723786 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
60723749 AATATAAAAA
60723759 TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT
60723787 AAAAATTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:60730386 original size:12 final size:12
Alignment explanation
Indices: 60730369--60730394 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60730359 CGATTTTACC
60730369 ATAAAAGAATCT
1 ATAAAAGAATCT
60730381 ATAAAAGAATCT
1 ATAAAAGAATCT
60730393 AT
1 AT
60730395 TTAATATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.27
Consensus pattern (12 bp):
ATAAAAGAATCT
Found at i:60732921 original size:11 final size:11
Alignment explanation
Indices: 60732905--60732929 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60732895 ATATCTAGAA
60732905 TTCTCTTCATT
1 TTCTCTTCATT
60732916 TTCTCTTCATT
1 TTCTCTTCATT
60732927 TTC
1 TTC
60732930 ATCAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:60737621 original size:25 final size:25
Alignment explanation
Indices: 60737593--60737641 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
60737583 GTTTTTATCC
60737593 TTATGTGGTATCTTTGGAGTTTAGG
1 TTATGTGGTATCTTTGGAGTTTAGG
60737618 TTATGTGGTATCTTTGGAGTTTAG
1 TTATGTGGTATCTTTGGAGTTTAG
60737642 TGACCTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.16, C:0.04, G:0.31, T:0.49
Consensus pattern (25 bp):
TTATGTGGTATCTTTGGAGTTTAGG
Found at i:60741894 original size:7 final size:8
Alignment explanation
Indices: 60741874--60741901 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
60741864 AACCATGAAT
60741874 ATTTTTCA
1 ATTTTTCA
60741882 ATTTTTCA
1 ATTTTTCA
60741890 ATTTTTCA
1 ATTTTTCA
60741898 ATTT
1 ATTT
60741902 AACCCCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (8 bp):
ATTTTTCA
Found at i:60749489 original size:42 final size:44
Alignment explanation
Indices: 60749427--60749514 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 44
60749417 TACATGTAGA
*
60749427 CAAATATCGATGCCACTGTCCCAAA-TTGGGTCTTACACG-AAAT
1 CAAATATCGATGCCACTGTCCCAAACAT-GGTCTTACACGTAAAT
60749470 CAAATA-CGATGCCGA-TGTCCCAAACATGGTCTTACACGTAAAT
1 CAAATATCGATGCC-ACTGTCCCAAACATGGTCTTACACGTAAAT
60749513 CA
1 CA
60749515 TAAGTTGATG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
42 27 0.66
43 14 0.34
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (44 bp):
CAAATATCGATGCCACTGTCCCAAACATGGTCTTACACGTAAAT
Found at i:60756274 original size:10 final size:10
Alignment explanation
Indices: 60756259--60756301 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
60756249 CAACTCACCA
60756259 ACCAAATCAT
1 ACCAAATCAT
*
60756269 ACCAAATCAAA
1 ACCAAATC-AT
60756280 ACCAAAATCAT
1 ACC-AAATCAT
*
60756291 ACCAAAGCAT
1 ACCAAATCAT
60756301 A
1 A
60756302 TGTTTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.56, C:0.28, G:0.02, T:0.14
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:60762229 original size:27 final size:27
Alignment explanation
Indices: 60762205--60762453 Score: 363
Period size: 27 Copynumber: 9.2 Consensus size: 27
60762195 TTAGTTTACG
* **
60762205 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
60762232 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
60762259 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
60762286 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
60762313 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
60762340 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
60762367 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
60762394 AAATTATCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
60762421 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
60762448 AAATTA
1 AAATTA
60762454 ATGAAATACC
Statistics
Matches: 197, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 197 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:60762460 original size:27 final size:27
Alignment explanation
Indices: 60762213--60762534 Score: 206
Period size: 27 Copynumber: 11.9 Consensus size: 27
60762203 CGAAATTACC
* * ** **
60762213 AAAATACCCTTGGTTTACAAAATTACC
1 AAAATACCCCTGATTTGTAAAATTAAT
* *
60762240 AAAATACCCCTGGTTTGTAAAATTACT
1 AAAATACCCCTGATTTGTAAAATTAAT
* * * * * **
60762267 AGAATACCCTTGGTTTATAAAATCACC
1 AAAATACCCCTGATTTGTAAAATTAAT
* **
60762294 AAAATACCCCTGGTTTGTAAAATTACC
1 AAAATACCCCTGATTTGTAAAATTAAT
*
60762321 AAAATACCCCTGGTTTGTAAAATT-AT
1 AAAATACCCCTGATTTGTAAAATTAAT
**
60762347 CAAAATACCCCT-AGTTTGTAAAATTACC
1 -AAAATACCCCTGA-TTTGTAAAATTAAT
*
60762375 AAAATACCCCTGGTTTGTAAAATT-AT
1 AAAATACCCCTGATTTGTAAAATTAAT
* **
60762401 CAAAATA-CCCTTAGTTTGTAAAATTACC
1 -AAAATACCCCTGA-TTTGTAAAATTAAT
*
60762429 AAAATACCCCTGATTTGTGAAATTAAT
1 AAAATACCCCTGATTTGTAAAATTAAT
* * * *
60762456 GAAATA-CCCTCGACTTGTAAAACTATT
1 AAAATACCCCT-GATTTGTAAAATTAAT
* * **
60762483 GAAATACCCAC-GACTTGTAAAATTACC
1 AAAATACCC-CTGATTTGTAAAATTAAT
* * * *
60762510 AAAGTACCCTTGATTTATAGAATTA
1 AAAATACCCCTGATTTGTAAAATTA
60762535 TCGTTTTACC
Statistics
Matches: 240, Mismatches: 43, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
26 8 0.03
27 224 0.93
28 7 0.03
29 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAAATACCCCTGATTTGTAAAATTAAT
Found at i:60762488 original size:81 final size:80
Alignment explanation
Indices: 60762239--60762534 Score: 256
Period size: 81 Copynumber: 3.6 Consensus size: 80
60762229 ACAAAATTAC
* * * * * * * *
60762239 CAAAATACCCCTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAAATCACCAAAATACCCC
1 CAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTAACAAAATACCCC
** * *
60762304 TGGTTTGTAAAATTAC
65 TGACTTGTAAAACTAT
* * *
60762320 CAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC
1 CAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCCTGA-TTTGTAAAATTAACAAAATACCC
** *
60762384 CTGGTTTGTAAAATTAT
64 CTGACTTGTAAAACTAT
* **
60762401 CAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTAATGAAATA-CCC
1 CAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTAACAAAATACCCC
60762465 TCGACTTGTAAAACTAT
65 T-GACTTGTAAAACTAT
** * * * * *
60762482 TGAAATACCC-ACGACTTGTAAAATTACCAAAGTACCCTTGATTTATAGAATTA
1 CAAAATACCCTA-G-TTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTA
60762535 TCGTTTTACC
Statistics
Matches: 184, Mismatches: 25, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
79 1 0.01
80 8 0.04
81 174 0.95
82 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (80 bp):
CAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTAACAAAATACCCCT
GACTTGTAAAACTAT
Found at i:60762545 original size:81 final size:81
Alignment explanation
Indices: 60762416--60762572 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
60762406 TACCCTTAGT
* **
60762416 TTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTAATGAAATACCCTCGACTTGTAAAACTA
1 TTGTAAAATTACCAAAATACCCCTGATTTATGAAATTAATGAAATACCCTCGACTTACAAAACTA
60762481 TTGAAATACCCACGAC
66 TTGAAATACCCACGAC
* * *** * *
60762497 TTGTAAAATTACCAAAGTACCCTTGATTTAT-AGAATT-ATCGTTTTACCCTCGATTTACAAAAT
1 TTGTAAAATTACCAAAATACCCCTGATTTATGA-AATTAAT-GAAATACCCTCGACTTACAAAAC
60762560 TATTGAAATACCC
64 TATTGAAATACCC
60762573 CTGTAGGGTA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 3 0.05
81 61 0.95
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTGATTTATGAAATTAATGAAATACCCTCGACTTACAAAACTA
TTGAAATACCCACGAC
Found at i:60762571 original size:27 final size:27
Alignment explanation
Indices: 60762448--60762572 Score: 90
Period size: 27 Copynumber: 4.6 Consensus size: 27
60762438 CTGATTTGTG
* *
60762448 AAATTAATGAAATACCCTCGACTTGTA
1 AAATTATTGAAATACCCTCGACTTATA
* * *
60762475 AAACTATTGAAATACCCACGACTTGTA
1 AAATTATTGAAATACCCTCGACTTATA
** * *
60762502 AAATTA-CCAAAGTACCCTTGATTTATA
1 AAATTATTGAAA-TACCCTCGACTTATA
* * *** * *
60762529 GAATTATCGTTTTACCCTCGATTTACA
1 AAATTATTGAAATACCCTCGACTTATA
60762556 AAATTATTGAAATACCC
1 AAATTATTGAAATACCC
60762573 CTGTAGGGTA
Statistics
Matches: 74, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
26 3 0.04
27 70 0.95
28 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTATTGAAATACCCTCGACTTATA
Found at i:60762587 original size:27 final size:27
Alignment explanation
Indices: 60762564--60762995 Score: 585
Period size: 27 Copynumber: 16.0 Consensus size: 27
60762554 CAAAATTATT
60762564 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
60762591 GAAATACCCTTGCAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
60762618 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
60762645 GAAATACCCTTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
60762672 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
60762699 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
60762726 GAAATACCCCTATAGGGTAGAATTAGC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
60762753 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
60762780 GAAATACTCCTGTAGGATAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
60762807 GAAATACCCCTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
60762834 AAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
60762861 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
60762888 GAAATACCCTTGTAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
60762915 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
60762942 GAAATACCCCTGTAAGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
60762969 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
60762996 ATTTTACCCC
Statistics
Matches: 361, Mismatches: 44, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 361 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:60763284 original size:27 final size:26
Alignment explanation
Indices: 60763240--60763291 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
60763230 CTCGCTGCAA
*
60763240 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
60763267 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
60763292 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:60767856 original size:39 final size:39
Alignment explanation
Indices: 60767765--60767885 Score: 156
Period size: 39 Copynumber: 3.1 Consensus size: 39
60767755 GTTACATCGA
* * *
60767765 CACGAAGCCTACTAGGCATC-AAGCTTGATAAAT-ACCAG
1 CACGAAGCCTGCTAGGC-TCAAAGCTTGATAAGTCACCGG
* *
60767803 CACGAAGCATGCTAGGCTCAAAGCTTGATCAGTCACCGG
1 CACGAAGCCTGCTAGGCTCAAAGCTTGATAAGTCACCGG
* *
60767842 CACGAAGCCTGCTAGTCTCAAAGCTTGATAAGTCACCGA
1 CACGAAGCCTGCTAGGCTCAAAGCTTGATAAGTCACCGG
60767881 CACGA
1 CACGA
60767886 GGCTTGATAC
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
37 2 0.03
38 26 0.36
39 44 0.61
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.18
Consensus pattern (39 bp):
CACGAAGCCTGCTAGGCTCAAAGCTTGATAAGTCACCGG
Found at i:60779430 original size:27 final size:27
Alignment explanation
Indices: 60779400--60779522 Score: 140
Period size: 27 Copynumber: 4.6 Consensus size: 27
60779390 ATATTGAGTC
* * *
60779400 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
60779427 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
60779454 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* * *
60779481 TGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
60779508 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60779523 GGACAATTTA
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 78 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:60782048 original size:39 final size:40
Alignment explanation
Indices: 60781937--60782121 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
60781927 TCGAATGATG
* * *
60781937 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
60781976 ATCCGGACTAAGAT-CTGAAGGCATTTGTCCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
60782017 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
60782056 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
60782095 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
60782122 AAGGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 79 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:60782143 original size:79 final size:79
Alignment explanation
Indices: 60781992--60782154 Score: 190
Period size: 79 Copynumber: 2.1 Consensus size: 79
60781982 ACTAAGATCT
* **
60781992 GAAGGCATTTGTCCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 GAAGGCATTTGTCCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGAAGCGAGTTACTAAAT
*
60782057 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
* *
60782071 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAAG-GAG-TAGCT
1 GAAGGCATTTGTCCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCA-TTGAAGCGAGTTA-CT
* *
60782133 ATATCC-GGTTAAATTCC
62 AAATCCGGGTTAAATCCC
60782150 GAAGG
1 GAAGG
60782155 TACGTGATTC
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 20 0.28
81 4 0.06
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTCCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGAAGCGAGTTACTAAAT
CCGGGTTAAATCCC
Found at i:60790198 original size:40 final size:39
Alignment explanation
Indices: 60790114--60790298 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
60790104 TCGAAAGATG
* * * *
60790114 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
60790154 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
60790194 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
60790233 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
60790274 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
60790299 AAGGAGTAGC
Statistics
Matches: 126, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60790250 original size:79 final size:81
Alignment explanation
Indices: 60790114--60790296 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
60790104 TCGAAAGATG
* *
60790114 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
60790178 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
60790193 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
60790255 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
60790273 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
60790297 TGAAGGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Done.