Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 199 of 316
Found at i:64502673 original size:21 final size:23
Alignment explanation
Indices: 64502625--64502674 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
64502615 TTTTATATAA
64502625 ATATTTGTTTATATTAAGTTTTT
1 ATATTTGTTTATATTAAGTTTTT
*
64502648 TTATTTG-TT-TATTAA-TTATTT
1 ATATTTGTTTATATTAAGTT-TTT
64502669 ATATTT
1 ATATTT
64502675 ATATTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.08
21 14 0.58
22 2 0.08
23 6 0.25
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (23 bp):
ATATTTGTTTATATTAAGTTTTT
Found at i:64502693 original size:16 final size:16
Alignment explanation
Indices: 64502648--64502708 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
64502638 TTAAGTTTTT
*
64502648 TTATTTGTTTAT-TAA
1 TTATTTATTTATATAA
*
64502663 TTATTTATATT-TATAT
1 TTATTTAT-TTATATAA
*
64502679 TTATTTGTTTATATAA
1 TTATTTATTTATATAA
*
64502695 ATATTTATTTATAT
1 TTATTTATTTATAT
64502709 TAAGGTCACG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
15 10 0.27
16 27 0.73
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TTATTTATTTATATAA
Found at i:64503789 original size:17 final size:17
Alignment explanation
Indices: 64503747--64503789 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
64503737 AAAAAAATAT
*
64503747 TTTTAAAAAATATAAAA
1 TTTTAAAAAATAAAAAA
* *
64503764 TTATGAAAAATAAAAAAA
1 TTTTAAAAAAT-AAAAAA
64503782 TTTTAAAA
1 TTTTAAAA
64503790 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
TTTTAAAAAATAAAAAA
Found at i:64503811 original size:20 final size:21
Alignment explanation
Indices: 64503788--64503826 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
64503778 AAAATTTTAA
64503788 AATTTTTAA-AAATAAAAATT
1 AATTTTTAATAAATAAAAATT
*
64503808 AATTTTTAATATATAAAAA
1 AATTTTTAATAAATAAAAA
64503827 ATTTCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTTTAATAAATAAAAATT
Found at i:64503824 original size:27 final size:26
Alignment explanation
Indices: 64503751--64503826 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 26
64503741 AAATATTTTT
*
64503751 AAAAAA-TATAAAAT-TATGAAAAATA
1 AAAAAATTTTAAAATATAT-AAAAATA
* *
64503776 AAAAAATTTTAAAATTTTTAAAAATA
1 AAAAAATTTTAAAATATATAAAAATA
*
64503802 AAAATTAATTTT-TAATATATAAAAA
1 AAAA--AATTTTAAAATATATAAAAA
64503827 ATTTCAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
25 6 0.14
26 18 0.43
27 12 0.29
28 6 0.14
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (26 bp):
AAAAAATTTTAAAATATATAAAAATA
Found at i:64508833 original size:46 final size:46
Alignment explanation
Indices: 64508764--64508870 Score: 121
Period size: 46 Copynumber: 2.3 Consensus size: 46
64508754 GACCGGTGCT
64508764 AGTGTAAGACATGTCCAAGACATGCATCTGCCT-CGAGATG-TAAGTC
1 AGTGTAAGACATGTCCAAGACATGCATC-GCCTACGAGATGAT-AGTC
** * *
64508810 AGTGTAAGACATGT-CTGGAACATGCATCGGCTACGATATGATAGTC
1 AGTGTAAGACATGTCCAAG-ACATGCATCGCCTACGAGATGATAGTC
64508856 AGTGTAAGACCATGT
1 AGTGTAAGA-CATGT
64508871 TTGGGATATG
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
45 5 0.09
46 42 0.79
47 6 0.11
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCCAAGACATGCATCGCCTACGAGATGATAGTC
Found at i:64519309 original size:17 final size:17
Alignment explanation
Indices: 64519274--64519308 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
64519264 AGGAGTTTTA
*
64519274 TTATTTTTTTCATAATT
1 TTATATTTTTCATAATT
64519291 TTATATTTTTC-TAATT
1 TTATATTTTTCATAATT
64519307 TT
1 TT
64519309 TTTTTTACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATATTTTTCATAATT
Found at i:64520014 original size:16 final size:17
Alignment explanation
Indices: 64519993--64520032 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
64519983 CTCTTAAATT
64519993 TTTTTA-CTAAATTCTA
1 TTTTTATCTAAATTCTA
*
64520009 TTTTTATTTAAATTCTA
1 TTTTTATCTAAATTCTA
64520026 TTTTTAT
1 TTTTTAT
64520033 TTTTTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTATCTAAATTCTA
Found at i:64520020 original size:17 final size:17
Alignment explanation
Indices: 64520000--64520034 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
64519990 ATTTTTTTAC
64520000 TAAATTCTATTTTTATT
1 TAAATTCTATTTTTATT
64520017 TAAATTCTATTTTTATT
1 TAAATTCTATTTTTATT
64520034 T
1 T
64520035 TTTATTAATA
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:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (17 bp):
TAAATTCTATTTTTATT
Found at i:64525136 original size:47 final size:47
Alignment explanation
Indices: 64525081--64525272 Score: 267
Period size: 47 Copynumber: 4.1 Consensus size: 47
64525071 TTAGGATTTT
* * *
64525081 AATGTGATGAATGTGAATATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
64525128 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
64525175 AATGCGATGAATGTGAACATGCATATATGAGATAAGGCCGAAGGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * *
64525222 GATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
64525269 AATG
1 AATG
64525273 CGAAATGTGT
Statistics
Matches: 130, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.25
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:64525382 original size:46 final size:46
Alignment explanation
Indices: 64525246--64525382 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
64525236 GAACATGTAT
* *
64525246 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
64525292 ATATGAGATAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
64525338 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
64525383 TGTATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:64527643 original size:41 final size:40
Alignment explanation
Indices: 64527543--64527651 Score: 125
Period size: 37 Copynumber: 2.8 Consensus size: 40
64527533 TGGATAATTT
* * * **
64527543 GAAGTAATAATTTGACACCTAATGTCTTATCGGCTAAATC
1 GAAGTAATAAATTGACACCCAATGTCTCATCGAATAAATC
* *
64527583 GAAG---TAAACTGGCACCCAATGTCTCATCGAATAAATCC
1 GAAGTAATAAATTGACACCCAATGTCTCATCGAATAAAT-C
64527621 GAAGTAATAAATTGACACCCAATGTCTCATC
1 GAAGTAATAAATTGACACCCAATGTCTCATC
64527652 AACTCAAAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
37 25 0.45
38 5 0.09
40 4 0.07
41 22 0.39
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.27
Consensus pattern (40 bp):
GAAGTAATAAATTGACACCCAATGTCTCATCGAATAAATC
Found at i:64528507 original size:4 final size:4
Alignment explanation
Indices: 64528498--64528583 Score: 69
Period size: 4 Copynumber: 22.0 Consensus size: 4
64528488 TGTCTTTCTC
64528498 CTTT CTTT CTTT CCTTT -TTT C-TT -TTT CTTT CTTT CCTTT -TTT C-TT
1 CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT
*
64528543 -TTT CTTT CTTT C-TT CTTT CTGTTT CGTTT CTAT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT C--TTT C-TTT CTTT CTTT CTTT
64528584 TTATTACTTA
Statistics
Matches: 69, Mismatches: 2, Indels: 22
0.74 0.02 0.24
Matches are distributed among these distances:
3 17 0.25
4 35 0.51
5 13 0.19
6 4 0.06
ACGTcount: A:0.01, C:0.23, G:0.02, T:0.73
Consensus pattern (4 bp):
CTTT
Found at i:64528527 original size:22 final size:22
Alignment explanation
Indices: 64528499--64528573 Score: 116
Period size: 22 Copynumber: 3.4 Consensus size: 22
64528489 GTCTTTCTCC
64528499 TTTCTTTCTTTCCTTTTTTCTT
1 TTTCTTTCTTTCCTTTTTTCTT
64528521 TTTCTTTCTTTCCTTTTTTCTT
1 TTTCTTTCTTTCCTTTTTTCTT
* *
64528543 TTTCTTTCTTT-CTTCTTTCTG
1 TTTCTTTCTTTCCTTTTTTCTT
64528564 TTTCGTTTCT
1 TTTC-TTTCT
64528574 ATCTTTCTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
21 12 0.24
22 38 0.76
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.75
Consensus pattern (22 bp):
TTTCTTTCTTTCCTTTTTTCTT
Found at i:64528572 original size:11 final size:10
Alignment explanation
Indices: 64528499--64528583 Score: 71
Period size: 10 Copynumber: 7.7 Consensus size: 10
64528489 GTCTTTCTCC
64528499 TTTCTTTCTT
1 TTTCTTTCTT
*
64528509 TCCTTTTTTCTT
1 T--TTCTTTCTT
64528521 TTTCTTTCTT
1 TTTCTTTCTT
*
64528531 TCCTTTTTTCTT
1 T--TTCTTTCTT
64528543 TTTCTTTCTT
1 TTTCTTTCTT
*
64528553 TCTTCTTTCTG
1 T-TTCTTTCTT
64528564 TTTCGTTTCTAT
1 TTTC-TTTCT-T
64528576 CTTTCTTT
1 -TTTCTTT
64528584 TTATTACTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
10 22 0.36
11 14 0.23
12 21 0.34
13 4 0.07
ACGTcount: A:0.01, C:0.22, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:64528578 original size:22 final size:21
Alignment explanation
Indices: 64528490--64528583 Score: 98
Period size: 22 Copynumber: 4.2 Consensus size: 21
64528480 CCTAGCCCTG
*
64528490 TCTTTCTCCTTTCTTTCTTTCCT
1 TCTTTCT-TTTTCTTTCTTT-CT
*
64528513 TTTTTCTTTTTCTTTCTTTCCT
1 TCTTTCTTTTTCTTTCTTT-CT
*
64528535 TTTTTCTTTTTCTTTCTTTCT
1 TCTTTCTTTTTCTTTCTTTCT
* *
64528556 TCTTTCTGTTTCGTTTCTATCTT
1 TCTTTCTTTTTC-TTTCTTTC-T
64528579 TCTTT
1 TCTTT
64528584 TTATTACTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
21 12 0.19
22 40 0.62
23 12 0.19
ACGTcount: A:0.01, C:0.24, G:0.02, T:0.72
Consensus pattern (21 bp):
TCTTTCTTTTTCTTTCTTTCT
Found at i:64528768 original size:18 final size:19
Alignment explanation
Indices: 64528731--64528768 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
64528721 ACATAATTGC
*
64528731 TTCTTTAATCCCTTTAATTT
1 TTCTTTAAT-CCTATAATTT
64528751 TTCTTTAAT-CTATAATTT
1 TTCTTTAATCCTATAATTT
64528769 AACTTTCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.61
Consensus pattern (19 bp):
TTCTTTAATCCTATAATTT
Found at i:64531110 original size:29 final size:29
Alignment explanation
Indices: 64531078--64531151 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
64531068 ATTCCCGAGA
* * *
64531078 TATTTTCTCAGAACTCATCTCGTCAAAAT
1 TATTTTTTCAGAACCCATCTAGTCAAAAT
*
64531107 TATTTTTTCAAAACCCATCTAGTCAAAAT
1 TATTTTTTCAGAACCCATCTAGTCAAAAT
64531136 TATTTTTTCAGAACCC
1 TATTTTTTCAGAACCC
64531152 TTGAACACTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.39
Consensus pattern (29 bp):
TATTTTTTCAGAACCCATCTAGTCAAAAT
Found at i:64531317 original size:41 final size:41
Alignment explanation
Indices: 64531245--64531349 Score: 110
Period size: 41 Copynumber: 2.6 Consensus size: 41
64531235 ACCTTAATTA
* *
64531245 ATAAAC-ACTAAACCCTAATTGAAACCATAAACACTAAT-TT
1 ATAAACTA-TAAACCCTAATTAAAACCATAAACACTAATATG
* *
64531285 ATTAAACCT-TAAACCCTAATTAAAATGC-TAAACCCTAATATG
1 A-TAAA-CTATAAACCCTAATTAAAA-CCATAAACACTAATATG
64531327 ATAAACTATAAACCCTAATTAAA
1 ATAAACTATAAACCCTAATTAAA
64531350 TAATTAAAAC
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
40 3 0.05
41 48 0.87
42 4 0.07
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.27
Consensus pattern (41 bp):
ATAAACTATAAACCCTAATTAAAACCATAAACACTAATATG
Found at i:64531352 original size:22 final size:22
Alignment explanation
Indices: 64531233--64531364 Score: 63
Period size: 22 Copynumber: 6.4 Consensus size: 22
64531223 TTTTTTCCCA
*
64531233 AAACCTTAATT-AATAAAC-ACT
1 AAACCCTAATTAAATAAACTA-T
* *
64531254 AAACCCTAATT---GAAACCAT
1 AAACCCTAATTAAATAAACTAT
* * *
64531273 AAACACTAATTTATTAAACCT-T
1 AAACCCTAATTAAATAAA-CTAT
**
64531295 AAACCCTAATTAAA-ATGC--T
1 AAACCCTAATTAAATAAACTAT
*
64531314 AAACCCTAA-TATGATAAACTAT
1 AAACCCTAATTA-AATAAACTAT
*
64531336 AAACCCTAATTAAAT-AATTA-
1 AAACCCTAATTAAATAAACTAT
64531356 AAACCCTAA
1 AAACCCTAA
64531365 AAAAAGGGAA
Statistics
Matches: 86, Mismatches: 15, Indels: 21
0.70 0.12 0.17
Matches are distributed among these distances:
18 2 0.02
19 26 0.30
20 13 0.15
21 15 0.17
22 27 0.31
23 3 0.03
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.27
Consensus pattern (22 bp):
AAACCCTAATTAAATAAACTAT
Found at i:64543191 original size:26 final size:25
Alignment explanation
Indices: 64543162--64543213 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
64543152 ATTTTTGTTA
64543162 AGGGACT-TTTGATGAAAATGTGAAAT
1 AGGGACTATTTG-TG-AAATGTGAAAT
64543188 AGGGACTAGTTTGTGAAATGTGAAAT
1 AGGGACTA-TTTGTGAAATGTGAAAT
64543214 TTATGAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 18 0.75
27 2 0.08
28 4 0.17
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.31
Consensus pattern (25 bp):
AGGGACTATTTGTGAAATGTGAAAT
Found at i:64543799 original size:42 final size:42
Alignment explanation
Indices: 64543716--64543814 Score: 101
Period size: 42 Copynumber: 2.4 Consensus size: 42
64543706 TCGAGATTCT
* * *
64543716 GTATAAGACCATATCTAGGATATGGAATCGGTATATGATTTC
1 GTATAAGACCATATCAAGGACATGGAATCGATATATGATTTC
* **
64543758 GTATAAGACCATGTCAAGGACATGGCGTCGATATGAT-ATTTC
1 GTATAAGACCATATCAAGGACATGGAATCGATAT-ATGATTTC
* * *
64543800 ATGTAAAACCATATC
1 GTATAAGACCATATC
64543815 CGGGATATGG
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
42 44 0.96
43 2 0.04
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (42 bp):
GTATAAGACCATATCAAGGACATGGAATCGATATATGATTTC
Found at i:64548608 original size:55 final size:55
Alignment explanation
Indices: 64548547--64548723 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
64548537 ATATTAAGTC
* * *
64548547 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
64548602 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
64548657 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
64548713 CGCACACTTAG
1 CGCACACTTAG
64548724 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:64548611 original size:28 final size:27
Alignment explanation
Indices: 64548547--64548698 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
64548537 ATATTAAGTC
* *
64548547 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
64548574 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
64548602 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
64548629 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
64548657 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
64548684 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64548699 GCACAATTTA
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:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:64551099 original size:40 final size:40
Alignment explanation
Indices: 64551019--64551127 Score: 132
Period size: 40 Copynumber: 2.7 Consensus size: 40
64551009 TTTCAATAAA
* * *
64551019 CCGAAGCTATCTCGATATTGCACACTTAGTGCCTTATGTAG
1 CCGAAGCTATTTCCA-ATCGCACACTTAGTGCCTTATGTAG
*
64551060 CCGAAGCTA-TTCCAACTCGCACAATTAGTGCCATT-TGTAG
1 CCGAAGCTATTTCCAA-TCGCACACTTAGTGCC-TTATGTAG
*
64551100 CCGAAGCTATTTCGAATCGCACACTTAG
1 CCGAAGCTATTTCCAATCGCACACTTAG
64551128 CGCCGAACTT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.02
40 42 0.71
41 16 0.27
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (40 bp):
CCGAAGCTATTTCCAATCGCACACTTAGTGCCTTATGTAG
Found at i:64551937 original size:19 final size:20
Alignment explanation
Indices: 64551893--64551938 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
64551883 AAGATGACAC
64551893 CAAATTAACTTTTTATTTTA
1 CAAATTAACTTTTTATTTTA
**
64551913 TTAATTAAC-TTTTATTTTA
1 CAAATTAACTTTTTATTTTA
64551932 CAAATTA
1 CAAATTA
64551939 CCTTAATAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (20 bp):
CAAATTAACTTTTTATTTTA
Found at i:64561223 original size:35 final size:35
Alignment explanation
Indices: 64561177--64561247 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
64561167 GCCTATTACT
64561177 GGCAACTCTGTGGCAAATACTGCTTAAGTGCCGTA
1 GGCAACTCTGTGGCAAATACTGCTTAAGTGCCGTA
64561212 GGCAACTCTGTGGCAAATACTGCTTAAGTGCCGTA
1 GGCAACTCTGTGGCAAATACTGCTTAAGTGCCGTA
64561247 G
1 G
64561248 CCGGTACTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (35 bp):
GGCAACTCTGTGGCAAATACTGCTTAAGTGCCGTA
Found at i:64562677 original size:53 final size:53
Alignment explanation
Indices: 64562610--64562816 Score: 153
Period size: 53 Copynumber: 3.8 Consensus size: 53
64562600 TTCCTTTTTA
* ** ** *
64562610 AACTTACCATTGCCATGTTTTGACATGGTCTTATGTGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
*
64562663 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-G
** * ** * * * * *** * *
64562717 TAGTTTATAAATGTCATGTCTTGACATGATCTTACATGATTTCCTTGCCTTGTAA
1 -AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-G
* * * * *
64562772 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTT
64562817 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 33, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 45 0.38
54 35 0.29
55 39 0.33
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:64571994 original size:34 final size:34
Alignment explanation
Indices: 64571917--64571994 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
64571907 ATGTTAAGCG
* * * *
64571917 GGCTTAGGCCCAGACTGCTACTGTTATTGGAACG
1 GGCTTAGGCCCAGACTGCTACTATTACTGAAACA
*
64571951 GGCTTAGGCCCAGACTGCTACTATTACTGAAATA
1 GGCTTAGGCCCAGACTGCTACTATTACTGAAACA
*
64571985 GGCTAAGGCC
1 GGCTTAGGCC
64571995 ATTGCATGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (34 bp):
GGCTTAGGCCCAGACTGCTACTATTACTGAAACA
Found at i:64578004 original size:19 final size:20
Alignment explanation
Indices: 64577980--64578017 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
64577970 GGTACCACCA
64577980 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
64577999 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
64578018 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:64578357 original size:93 final size:93
Alignment explanation
Indices: 64578247--64578417 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
64578237 GCCCCTAAAT
* *
64578247 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
64578312 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
64578340 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
64578405 CGAGTTCGGATGC
66 CGAGTTCGGATGC
64578418 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:64578414 original size:46 final size:45
Alignment explanation
Indices: 64578244--64578414 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 45
64578234 CCCGCCCCTA
* * * *
64578244 AATGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AATGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
* *
64578289 AAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T
1 -AATGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCAT
* *
64578337 CACGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
1 AATGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
64578382 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AA-TGAACTCGGACTCAACTCAACGAGTTCGGA
64578415 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 30 0.28
48 1 0.01
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AATGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
Found at i:64578871 original size:30 final size:30
Alignment explanation
Indices: 64578837--64578896 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
64578827 ATTTAATACG
64578837 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
64578867 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
64578897 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:64582319 original size:37 final size:37
Alignment explanation
Indices: 64582264--64582334 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
64582254 ACCAGGATAA
*
64582264 AATCTCCACACGTGGTCATCGGGTCTTACCCGGACAG
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAG
64582301 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
64582335 ATATATTTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAG
Found at i:64582608 original size:48 final size:48
Alignment explanation
Indices: 64582460--64582618 Score: 194
Period size: 48 Copynumber: 3.3 Consensus size: 48
64582450 GATCATTCGG
* * * *
64582460 CCACAATATACACATCTCCTACGTAT-TGCACATTAGCCATTCGGCTTTA
1 CCAC-ATATACATATCTCATACATATCT-CATATTAGCCATTCGGCTTTA
* * * *
64582509 CCAAATATACATCTCTCATACATATTTCATATTAGCCATTTGGCTTTA
1 CCACATATACATATCTCATACATATCTCATATTAGCCATTCGGCTTTA
*
64582557 CCACATATACATATCTCATACATGTCTCATATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATCTCATATTAGCCATTCGGCTTTA
* *
64582605 CCACACATATATAT
1 CCACATATACATAT
64582619 ATTTACCTTG
Statistics
Matches: 95, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
48 91 0.96
49 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (48 bp):
CCACATATACATATCTCATACATATCTCATATTAGCCATTCGGCTTTA
Found at i:64588692 original size:92 final size:92
Alignment explanation
Indices: 64588524--64588692 Score: 227
Period size: 92 Copynumber: 1.8 Consensus size: 92
64588514 ACTTGTGTGA
* * *
64588524 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGCCAGTGTAAGACCACGTTTG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATAAGCCAGTGTAAGACCACGTCTG
64588589 GGACATGGCATCCGCATTGAGACGAGT
66 GGACATGGCATCCGCATTGAGACGAGT
* * * *
64588616 GCTAGTGTAAGACATGTCTGGGACATGCTTCGGCCTCGA-GACGTAAGCCGGTGTAAGA-CATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGA--TAAGCCAGTGTAAGACCACGT
64588679 CTGGGACAT-GCATC
63 CTGGGACATGGCATC
64588693 GGCTACGAGA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
92 41 0.61
93 13 0.19
94 13 0.19
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATAAGCCAGTGTAAGACCACGTCTG
GGACATGGCATCCGCATTGAGACGAGT
Found at i:64588702 original size:46 final size:46
Alignment explanation
Indices: 64588527--64588702 Score: 157
Period size: 46 Copynumber: 3.8 Consensus size: 46
64588517 TGTGTGAGCT
* * *
64588527 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTA--TGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GACGTAAGCC
* * * * * *
64588571 AGTGTAAGACCACGTTTGGGACATGGCATCCGC-ATTGAGACG-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGACGTA-AGCC
*
64588619 AGTGTAAGACATGTCTGGGACATGCTTCGGCCT-CGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGACGTAAGCC
*
64588665 GGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
64588703 TGTGTCATGT
Statistics
Matches: 104, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
44 9 0.09
45 15 0.14
46 54 0.52
47 15 0.14
48 11 0.11
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTAAGCC
Found at i:64602628 original size:40 final size:43
Alignment explanation
Indices: 64602533--64602689 Score: 139
Period size: 44 Copynumber: 3.7 Consensus size: 43
64602523 AACTGGTACA
* * * *
64602533 ATGCC-ATATCCCAGATATGGTCTTACATG--ATCTCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATATC-AATA-CG
* * * *
64602575 ATGACACTGTCCCAGATAGGGTCTTACAC-AAA-ATC-ATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATATCAATACG
* *
64602615 ATGCCAATGTCCCAAACATGGTCTTACACGTAAATCTCAAATA-G
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATATC-AATACG
64602659 ATGCCAATGTCCCAGACATGGTCTTACACGA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA
64602690 TATCACATCT
Statistics
Matches: 94, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
40 26 0.28
41 3 0.03
42 7 0.07
43 24 0.26
44 31 0.33
45 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATATCAATACG
Found at i:64610370 original size:43 final size:42
Alignment explanation
Indices: 64610323--64610417 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 42
64610313 AGATGTGGTC
*
64610323 TTACATGTAATCAAATATTGATG-CCACTATCCCAGACAGGGTT
1 TTACACGTAATCAAATA-TGATGTCCA-TATCCCAGACAGGGTT
* * * *
64610366 TTACACGAAATCAAATATGATGTCGATGTCCCAGACATGGTT
1 TTACACGTAATCAAATATGATGTCCATATCCCAGACAGGGTT
64610408 TTACACGTAA
1 TTACACGTAA
64610418 ATCTTAAGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 28 0.62
43 17 0.38
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (42 bp):
TTACACGTAATCAAATATGATGTCCATATCCCAGACAGGGTT
Found at i:64610420 original size:43 final size:44
Alignment explanation
Indices: 64610300--64610420 Score: 126
Period size: 43 Copynumber: 2.8 Consensus size: 44
64610290 AGATAGTACA
** * *
64610300 ATGCCAAC-GTCCCAGATGTGGTCTTACATGT-AATCAAATATTG
1 ATGCC-ACTGTCCCAGACATGGTTTTACACGTAAATCAAATATTG
* *
64610343 ATGCCACTATCCCAGACAGGGTTTTACACG-AAATCAAATA-TG
1 ATGCCACTGTCCCAGACATGGTTTTACACGTAAATCAAATATTG
*
64610385 ATGTCGA-TGTCCCAGACATGGTTTTACACGTAAATC
1 ATG-CCACTGTCCCAGACATGGTTTTACACGTAAATC
64610421 TTAAGTAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
42 28 0.43
43 37 0.57
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACATGGTTTTACACGTAAATCAAATATTG
Found at i:64619195 original size:29 final size:29
Alignment explanation
Indices: 64619142--64619198 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
64619132 AAAAGAGAAA
*
64619142 AACTTCCAAATGTTTTTACCGTACCTTTT
1 AACTTCCAAATGTTTTTACCATACCTTTT
**
64619171 AACTTCCAAATGTTTTTATTATACCTTT
1 AACTTCCAAATGTTTTTACCATACCTTT
64619199 ATAATGGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.47
Consensus pattern (29 bp):
AACTTCCAAATGTTTTTACCATACCTTTT
Found at i:64621873 original size:32 final size:34
Alignment explanation
Indices: 64621805--64621882 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 34
64621795 GTTAGGTTAC
* *
64621805 TTTTAAAATTCAGTTTTTAAATTAAATCTTTGAT
1 TTTTAAATTTAAGTTTTTAAATTAAATCTTTGAT
* * *
64621839 TTTTAAATTTAAG-TTTT-AATTAGATTTTTTAT
1 TTTTAAATTTAAGTTTTTAAATTAAATCTTTGAT
*
64621871 TTTAAAATTTAA
1 TTTTAAATTTAA
64621883 TTCTTATGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 23 0.61
33 4 0.11
34 11 0.29
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (34 bp):
TTTTAAATTTAAGTTTTTAAATTAAATCTTTGAT
Found at i:64621874 original size:25 final size:25
Alignment explanation
Indices: 64621836--64621884 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
64621826 TTAAATCTTT
**
64621836 GATTTTTAAATTTAAGTTTTAATTA
1 GATTTTTAAATTTAAAATTTAATTA
* *
64621861 GATTTTTTATTTTAAAATTTAATT
1 GATTTTTAAATTTAAAATTTAATT
64621885 CTTATGTTCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (25 bp):
GATTTTTAAATTTAAAATTTAATTA
Found at i:64627019 original size:42 final size:41
Alignment explanation
Indices: 64626960--64627071 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 41
64626950 AGGTGCAGGA
* *
64626960 TTCACACGGCCAAGACACACGC-CTGTGTCTTGGGCCT-TGTGT
1 TTCACAC-GCTAAGACACACGCTC-GTGTCTTGGG-ATGTGTGT
64627002 TTCACACTGCTAAGACACACGCTCGTGTCTTGGGATGTGTGT
1 TTCACAC-GCTAAGACACACGCTCGTGTCTTGGGATGTGTGT
*
64627044 TTCACACGTCTAAGACACATGCTCGTGT
1 TTCACACG-CTAAGACACACGCTCGTGT
64627072 AACCAATTCT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
41 2 0.03
42 60 0.95
43 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.29
Consensus pattern (41 bp):
TTCACACGCTAAGACACACGCTCGTGTCTTGGGATGTGTGT
Found at i:64633990 original size:14 final size:16
Alignment explanation
Indices: 64633961--64633998 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
64633951 TTTCCATATA
64633961 TCATGTATCAACA-TT
1 TCATGTATCAACATTT
64633976 TCATGTATC-ACATTT
1 TCATGTATCAACATTT
64633991 TCATGTAT
1 TCATGTAT
64633999 TTCAGGCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (16 bp):
TCATGTATCAACATTT
Found at i:64640736 original size:40 final size:40
Alignment explanation
Indices: 64640642--64640786 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
64640632 TACTCGAATG
*
64640642 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
64640683 ACATCCGGACTAAGAT-CCGAAGGCATCTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
64640723 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
64640763 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
64640787 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:64661942 original size:42 final size:41
Alignment explanation
Indices: 64661883--64661994 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 41
64661873 AGAATTGGTT
*
64661883 ACACGAGCATGTGTCTTAGACGTGTGAAACACACA-GCCCAAG
1 ACACGAGCGTGTGTCTTAG-CGTGTGAAACACA-AGGCCCAAG
64661925 ACACGAGCGTGTGTCTTAGCAGTGTGAAACACAAGGCCCAAG
1 ACACGAGCGTGTGTCTTAGC-GTGTGAAACACAAGGCCCAAG
*
64661967 ACAC-AGGCGTGTGTCTTGGCCGTGTGAA
1 ACACGA-GCGTGTGTCTTAG-CGTGTGAA
64661995 TCCTGCACCT
Statistics
Matches: 64, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
41 3 0.05
42 60 0.94
43 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.19
Consensus pattern (41 bp):
ACACGAGCGTGTGTCTTAGCGTGTGAAACACAAGGCCCAAG
Found at i:64667116 original size:25 final size:25
Alignment explanation
Indices: 64667079--64667127 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
64667069 TGAACATAAG
**
64667079 AATTAAATTTTAAAATAAAAAATCT
1 AATTAAAACTTAAAATAAAAAATCT
* *
64667104 AATTAAAACTTAAATTTAAAAATC
1 AATTAAAACTTAAAATAAAAAATC
64667128 AAAGATTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (25 bp):
AATTAAAACTTAAAATAAAAAATCT
Found at i:64667118 original size:32 final size:34
Alignment explanation
Indices: 64667081--64667158 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 34
64667071 AACATAAGAA
64667081 TTAAATTTTAAAATAAAAAATCTAA-TT-AAAAC
1 TTAAATTTTAAAATAAAAAATCTAATTTAAAAAC
* * * *
64667113 TTAAATTTAAAAATCAAAGATTTAATTTAAAAAC
1 TTAAATTTTAAAATAAAAAATCTAATTTAAAAAC
*
64667147 -TGAATTTTAAAA
1 TTAAATTTTAAAA
64667159 GTAACCTAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 21 0.55
33 12 0.32
34 5 0.13
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (34 bp):
TTAAATTTTAAAATAAAAAATCTAATTTAAAAAC
Found at i:64669790 original size:29 final size:29
Alignment explanation
Indices: 64669758--64669814 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
64669748 TAACCATTAT
*
64669758 AAAGGTATAATAAAAACATTTGGAAGTTA
1 AAAGGTACAATAAAAACATTTGGAAGTTA
**
64669787 AAAGGTACGGTAAAAACATTTGGAAGTT
1 AAAGGTACAATAAAAACATTTGGAAGTT
64669815 TTTCTCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.26
Consensus pattern (29 bp):
AAAGGTACAATAAAAACATTTGGAAGTTA
Found at i:64674256 original size:16 final size:16
Alignment explanation
Indices: 64674232--64674262 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64674222 GTGACCTTAA
64674232 TAAACCTCATTTCATG
1 TAAACCTCATTTCATG
*
64674248 TAAATCTCATTTCAT
1 TAAACCTCATTTCAT
64674263 CGTTTTACGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (16 bp):
TAAACCTCATTTCATG
Found at i:64678630 original size:43 final size:42
Alignment explanation
Indices: 64678473--64678631 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 42
64678463 TATGTGTTTT
* * *
64678473 CGTGTAAGACCACGTTTGGGACGTTGGCAT-TTACTTAAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCATA-TT-TGA-TTA
* * * * * *
64678517 CGTGTAAGACCATGTCTGGGACATCGACATCGTATTTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTA
* * *
64678559 CGTGTAAAACC-CTATCTGGGATAG-TGGCATCAATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-CGTTGGCATC-ATATTTGATTA
*
64678602 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
64678632 TGTACTATCT
Statistics
Matches: 88, Mismatches: 21, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
42 25 0.28
43 33 0.38
44 28 0.32
45 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTA
Found at i:64684049 original size:13 final size:13
Alignment explanation
Indices: 64684031--64684056 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64684021 TTAATTTTGT
64684031 AATTAATAATATA
1 AATTAATAATATA
64684044 AATTAATAATATA
1 AATTAATAATATA
64684057 TAAAGCATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTAATAATATA
Found at i:64708505 original size:40 final size:40
Alignment explanation
Indices: 64708411--64708555 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
64708401 TACTCGAATG
*
64708411 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
64708452 ATATCCGGACTAAGAT-CCGAAGGCATCTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
64708492 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
64708532 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
64708556 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:64718625 original size:13 final size:13
Alignment explanation
Indices: 64718607--64718632 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64718597 ATATGCTTTA
64718607 TATATTATTAATT
1 TATATTATTAATT
64718620 TATATTATTAATT
1 TATATTATTAATT
64718633 ACAAAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATATTATTAATT
Found at i:64724158 original size:42 final size:43
Alignment explanation
Indices: 64724046--64724159 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
64724036 AGATAGTACA
* * *
64724046 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCAAATATTG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
64724089 ATGCCACTATCCCAGACAGGGTTTTACACGAAATCAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
*
64724131 ATGTCGA-TGTCCCAGACATGGTCTTACAC
1 ATG-CCACTGTCCCAGACATGGTCTTACAC
64724160 ATAAATCTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:64727025 original size:40 final size:40
Alignment explanation
Indices: 64726942--64727127 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
64726932 TTGAATGATG
* * * *
64726942 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
64726982 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64727022 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64727062 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
64727103 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64727128 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64727134 original size:80 final size:79
Alignment explanation
Indices: 64726995--64727160 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 79
64726985 GGACTAAGAT
* **
64726995 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
64727059 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* *
64727075 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
64727139 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
64727154 CCGAAGG
1 CCGAAGG
64727161 TATGTGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.21
80 58 0.76
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:64736417 original size:29 final size:29
Alignment explanation
Indices: 64736364--64736420 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
64736354 AAAAGAGAAA
*
64736364 AACTTCCAAATGTTTTTACCGTACCTTTT
1 AACTTCCAAATGTTTTTACCATACCTTTT
**
64736393 AACTTCCAAATGTTTTTATTATACCTTT
1 AACTTCCAAATGTTTTTACCATACCTTT
64736421 ATAATGGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.47
Consensus pattern (29 bp):
AACTTCCAAATGTTTTTACCATACCTTTT
Found at i:64739096 original size:32 final size:33
Alignment explanation
Indices: 64739028--64739107 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 33
64739018 GTTAGGTTAC
* *
64739028 TTTTAAAATTCAGTTTTTAAATTAAATCTTTGA
1 TTTTAAAATTTAATTTTTAAATTAAATCTTTGA
* * * *
64739061 TTTTTAAATTTAATTTTT-AATTAGATTTTTTA
1 TTTTAAAATTTAATTTTTAAATTAAATCTTTGA
64739093 TTTTAAAATTTAATT
1 TTTTAAAATTTAATT
64739108 CTTATGTTCC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 25 0.62
33 15 0.38
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.59
Consensus pattern (33 bp):
TTTTAAAATTTAATTTTTAAATTAAATCTTTGA
Found at i:64739097 original size:25 final size:25
Alignment explanation
Indices: 64739059--64739107 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
64739049 TTAAATCTTT
**
64739059 GATTTTTAAATTTAATTTTTAATTA
1 GATTTTTAAATTTAAAATTTAATTA
* *
64739084 GATTTTTTATTTTAAAATTTAATT
1 GATTTTTAAATTTAAAATTTAATT
64739108 CTTATGTTCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (25 bp):
GATTTTTAAATTTAAAATTTAATTA
Found at i:64744248 original size:42 final size:42
Alignment explanation
Indices: 64744200--64744300 Score: 152
Period size: 42 Copynumber: 2.4 Consensus size: 42
64744190 TCACATGGCC
*
64744200 AAGACACACGCCCGTGTCTTGGGCCT-TGTGTTTCACAC-TGCT
1 AAGACACACGCTCGTGTCTTGGG-CTGTGTGTTTCACACGT-CT
64744242 AAGACACACGCTCGTGTCTTGGGCTGTGTGTTTCACACGTCT
1 AAGACACACGCTCGTGTCTTGGGCTGTGTGTTTCACACGTCT
*
64744284 AAGACACATGCTCGTGT
1 AAGACACACGCTCGTGT
64744301 AACCAATTCT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
41 2 0.04
42 52 0.95
43 1 0.02
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.29
Consensus pattern (42 bp):
AAGACACACGCTCGTGTCTTGGGCTGTGTGTTTCACACGTCT
Found at i:64751327 original size:29 final size:28
Alignment explanation
Indices: 64751285--64751440 Score: 141
Period size: 29 Copynumber: 5.5 Consensus size: 28
64751275 CATGAGATTG
* *
64751285 GCACTAAGTGTGCAGGTTTAAATTGCATA
1 GCACTAAGTGTGCAAGTTT-AATTACATA
* *
64751314 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTTAATTACATA
* * **
64751342 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCAAGTTTAATTACAT-A
* * **
64751371 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCAAGTTTAATTACAT-A
* * *
64751400 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTTAATTACATA
*
64751428 ACACTAAGTGTGC
1 GCACTAAGTGTGC
64751441 GGACTTACTA
Statistics
Matches: 118, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
28 44 0.37
29 74 0.63
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTTAATTACATA
Found at i:64751441 original size:57 final size:57
Alignment explanation
Indices: 64751313--64751441 Score: 215
Period size: 57 Copynumber: 2.3 Consensus size: 57
64751303 TAAATTGCAT
* *
64751313 AGCACTAAGTGTGCAAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTA
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
*
64751370 AGCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCGAGTTTGATTATATA
1 AGCACTAAGTGTGCGAGTTTGATTATAT-AGCACTAAGTGTGCGAGTTTGATTATATA
64751428 A-CACTAAGTGTGCG
1 AGCACTAAGTGTGCG
64751442 GACTTACTAT
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
57 39 0.57
58 29 0.43
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
Found at i:64754524 original size:16 final size:16
Alignment explanation
Indices: 64754503--64754542 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
64754493 TTTCCATATA
64754503 TCATGTATCAACATTT
1 TCATGTATCAACATTT
64754519 TCATGTATCAACATTT
1 TCATGTATCAACATTT
64754535 TCATGTAT
1 TCATGTAT
64754543 TTCAGGCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.45
Consensus pattern (16 bp):
TCATGTATCAACATTT
Found at i:64764197 original size:90 final size:90
Alignment explanation
Indices: 64764037--64764204 Score: 219
Period size: 90 Copynumber: 1.9 Consensus size: 90
64764027 CCAAATAGGA
* * * * * * *
64764037 TGCCAAAGCTATGTCCCAGACATGGTCTTACATGGAACTTCACATCGATGCCATATCCCAGATAT
1 TGCCAAAGCCATGTCCCAGACAGGGTCTTACACGGAACTACACATCAATGCCATATCCCAAACAT
*
64764102 GGTCTTATACAAAGTCTCGAATCGG
66 AGTCTTATACAAAGTCTCGAATCGG
* * * * *
64764127 TGCCAATGCCATGTCCCAGACAGGGTCTTATACGGGACTACATATCAATGCCATATCCTAAACAT
1 TGCCAAAGCCATGTCCCAGACAGGGTCTTACACGGAACTACACATCAATGCCATATCCCAAACAT
64764192 AGTCTTATACAAA
66 AGTCTTATACAAA
64764205 ATCACTTAAC
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
90 65 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (90 bp):
TGCCAAAGCCATGTCCCAGACAGGGTCTTACACGGAACTACACATCAATGCCATATCCCAAACAT
AGTCTTATACAAAGTCTCGAATCGG
Found at i:64764886 original size:12 final size:12
Alignment explanation
Indices: 64764869--64764893 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64764859 CACATATTCC
64764869 TTCATTAAACAT
1 TTCATTAAACAT
64764881 TTCATTAAACAT
1 TTCATTAAACAT
64764893 T
1 T
64764894 AAAGAACATG
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TTCATTAAACAT
Found at i:64765640 original size:26 final size:25
Alignment explanation
Indices: 64765601--64765659 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
64765591 GCCATAATTA
* * *
64765601 AGAAGTTCACAAAGAACTTTTAATC
1 AGAAGCTCATAAAGAACCTTTAATC
* *
64765626 AGCAAGCTCATAAAGAGCCTTTAATT
1 AG-AAGCTCATAAAGAACCTTTAATC
64765652 AGAAGCTC
1 AGAAGCTC
64765660 CAAATAGCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (25 bp):
AGAAGCTCATAAAGAACCTTTAATC
Found at i:64767768 original size:25 final size:25
Alignment explanation
Indices: 64767739--64767791 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
64767729 ATTAAAAGAG
64767739 TATGATTGGTAAGTTTAATTCCTAT
1 TATGATTGGTAAGTTTAATTCCTAT
*
64767764 TATGATTGGTAAGTTTAATTCCTGT
1 TATGATTGGTAAGTTTAATTCCTAT
64767789 TAT
1 TAT
64767792 ACGAACTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.08, G:0.17, T:0.49
Consensus pattern (25 bp):
TATGATTGGTAAGTTTAATTCCTAT
Found at i:64771498 original size:30 final size:31
Alignment explanation
Indices: 64771450--64771507 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
64771440 TTTGCTATCC
64771450 TAAGGGCAAAATCATAATTCTG-CAAAGGTT
1 TAAGGGCAAAATCATAATTCTGCCAAAGGTT
* ** *
64771480 TAAGGGTAAAATTGTAATTTTGCCAAAG
1 TAAGGGCAAAATCATAATTCTGCCAAAG
64771508 TTTGAGTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (31 bp):
TAAGGGCAAAATCATAATTCTGCCAAAGGTT
Found at i:64772328 original size:47 final size:47
Alignment explanation
Indices: 64772270--64772391 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
64772260 GTATTGGTAC
* *
64772270 TAAGACAAGGATACCATGTTAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
* *
64772317 TAAGACAAGGATACCATGTAAGACTACGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
* *
64772364 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
64772392 CCAAGGCATG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
Found at i:64772499 original size:55 final size:54
Alignment explanation
Indices: 64772370--64772566 Score: 247
Period size: 55 Copynumber: 3.6 Consensus size: 54
64772360 TTGGTAAGAT
* * *
64772370 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATCTCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
** *
64772424 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATCTCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* *
64772479 AAAGG-TCTCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATCTCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
64772532 AAGGATAC-CACGTAAAACCATGTCAAGACATGGCA
1 AAGGAT-CTCATGTAAGACCATGCCAAGACATGGCA
64772567 ATGGTAAGTT
Statistics
Matches: 126, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
52 4 0.03
53 31 0.25
54 43 0.34
55 44 0.35
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATCTCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:64775915 original size:30 final size:30
Alignment explanation
Indices: 64775846--64775906 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
64775836 TTTACATGAA
64775846 GCTCATAATAGTAACATGTCTATTCATCCT
1 GCTCATAATAGTAACATGTCTATTCATCCT
64775876 GCTCATAATAGTAACATGTCTATTCATCCT
1 GCTCATAATAGTAACATGTCTATTCATCCT
64775906 G
1 G
64775907 GTAGTAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (30 bp):
GCTCATAATAGTAACATGTCTATTCATCCT
Found at i:64777792 original size:42 final size:43
Alignment explanation
Indices: 64777733--64777829 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
64777723 TGAGTTTACG
* **
64777733 TGTAAGACCATATCTGGGATA-TGGAATCGATATGAGATTTCA
1 TGTAAGACCATAGCTGGGATATTGGAATCGATATGAGATCCCA
* * *
64777775 TGTAAGACCATAGCTGGGCTATTGGCATCGATTTGAGATCCCA
1 TGTAAGACCATAGCTGGGATATTGGAATCGATATGAGATCCCA
64777818 TGTAAGACCATA
1 TGTAAGACCATA
64777830 TTTGGGACAT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 19 0.40
43 29 0.60
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATAGCTGGGATATTGGAATCGATATGAGATCCCA
Found at i:64779795 original size:7 final size:7
Alignment explanation
Indices: 64779783--64779897 Score: 131
Period size: 7 Copynumber: 16.0 Consensus size: 7
64779773 GGTGGATTTG
64779783 GGGTTTA
1 GGGTTTA
64779790 GGGTTTTA
1 GGG-TTTA
64779798 GGGTTTA
1 GGGTTTA
64779805 GGGTTTA
1 GGGTTTA
*
64779812 AGGTTTA
1 GGGTTTA
*
64779819 AGGTTTA
1 GGGTTTA
**
64779826 ATGTTTA
1 GGGTTTA
*
64779833 GTGTTTA
1 GGGTTTA
64779840 GGGTTTA
1 GGGTTTA
64779847 GGGTTTA
1 GGGTTTA
64779854 GGGTTTA
1 GGGTTTA
*
64779861 AGGTTCATA
1 GGGTT--TA
*
64779870 AGGTTTA
1 GGGTTTA
64779877 GGGTTTA
1 GGGTTTA
64779884 GGGTTTA
1 GGGTTTA
*
64779891 AGGTTTA
1 GGGTTTA
64779898 TGGCTTGGTG
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
7 84 0.86
8 7 0.07
9 7 0.07
ACGTcount: A:0.20, C:0.01, G:0.35, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:64783458 original size:20 final size:20
Alignment explanation
Indices: 64783433--64783472 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
64783423 GTATGATTGG
64783433 TAAGTTTAATTCCTATTATA
1 TAAGTTTAATTCCTATTATA
64783453 TAAGTTTAATTCCTATTATA
1 TAAGTTTAATTCCTATTATA
64783473 CGAACTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (20 bp):
TAAGTTTAATTCCTATTATA
Found at i:64786700 original size:42 final size:42
Alignment explanation
Indices: 64786584--64786737 Score: 191
Period size: 42 Copynumber: 3.6 Consensus size: 42
64786574 TACCATGCCA
* * * *
64786584 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTTTCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * **
64786626 ATGCCAATAGCCCAGTTATAGTCTTATGCGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
64786669 ATGCCATATCCCAGGTATGGTCTTACACGAAATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
64786711 ATGCCATATCCCAGATATGATCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
64786738 TATAGACTTA
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 61 0.65
43 33 0.35
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:64787230 original size:22 final size:22
Alignment explanation
Indices: 64787205--64787246 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
64787195 GCACATTTTT
*
64787205 CATTTAATCACACTTTTACACA
1 CATTTAATAACACTTTTACACA
* *
64787227 CATTTTATAACATTTTTACA
1 CATTTAATAACACTTTTACA
64787247 AATTGGTCCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (22 bp):
CATTTAATAACACTTTTACACA
Found at i:64794937 original size:31 final size:31
Alignment explanation
Indices: 64794902--64795003 Score: 143
Period size: 31 Copynumber: 3.3 Consensus size: 31
64794892 GCCCAAAATT
** *
64794902 CACACGCCCATGTAACATGCCCGTATGGGCC
1 CACACGCCCATGTGGCATGCCCGTGTGGGCC
* *
64794933 CACACGCCCATATGGCATGCCTGTGTGGGCC
1 CACACGCCCATGTGGCATGCCCGTGTGGGCC
*
64794964 CACACGCCCATGTGGCATGCCCGTGTAGG-C
1 CACACGCCCATGTGGCATGCCCGTGTGGGCC
64794994 CACACGCCCA
1 CACACGCCCA
64795004 ACTTGGCGTA
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
30 11 0.17
31 52 0.83
ACGTcount: A:0.20, C:0.39, G:0.25, T:0.16
Consensus pattern (31 bp):
CACACGCCCATGTGGCATGCCCGTGTGGGCC
Found at i:64803325 original size:27 final size:26
Alignment explanation
Indices: 64803285--64803335 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
64803275 AATACGCATA
*
64803285 TTTATATAATTAAAGTAT-TCATATT
1 TTTATATAATTAAAATATGTCATATT
64803310 TTTATAATAGATTAAAATATGTCATA
1 TTTAT-ATA-ATTAAAATATGTCATA
64803336 AGTCCTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 3 0.14
27 9 0.41
28 5 0.23
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (26 bp):
TTTATATAATTAAAATATGTCATATT
Found at i:64803712 original size:15 final size:16
Alignment explanation
Indices: 64803691--64803746 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
64803681 TATACTACAA
64803691 AATATTTATTATTAAT
1 AATATTTATTATTAAT
*
64803707 -ATATTTATAATTTTAAT
1 AATATTTAT--TATTAAT
64803724 AGATATTTATTATTTAA-
1 A-ATATTTATTA-TTAAT
64803741 AATATT
1 AATATT
64803747 AATATTGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
15 8 0.24
16 5 0.15
17 8 0.24
18 4 0.12
19 8 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
AATATTTATTATTAAT
Found at i:64803724 original size:17 final size:18
Alignment explanation
Indices: 64803702--64803746 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
64803692 ATATTTATTA
64803702 TTAAT-ATATTTATAATT
1 TTAATAATATTTATAATT
*
64803719 TTAATAGATATTTATTA-T
1 TTAATA-ATATTTATAATT
64803737 TTAA-AATATT
1 TTAATAATATT
64803747 AATATTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 5 0.20
17 6 0.24
18 5 0.20
19 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TTAATAATATTTATAATT
Found at i:64803812 original size:16 final size:16
Alignment explanation
Indices: 64803781--64803817 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
64803771 ATATGATGAA
64803781 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
64803797 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
64803813 TATTA
1 TATTA
64803818 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:64805360 original size:3 final size:3
Alignment explanation
Indices: 64805347--64805456 Score: 86
Period size: 3 Copynumber: 36.7 Consensus size: 3
64805337 TTATTTGCTC
*
64805347 ATT ATT A-T ATT ATT A-T ATT -TT ATT ATT AGCTT ATT ATT ATT ATG
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT ATT ATT ATT ATT
* *
64805391 GTT ATT ATT ATT ATT ACT ATT ATT AATT ATT ATT AGTT -TT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT A-TT ATT ATT ATT
* * *
64805436 CTT TTT ATTT ATT ACT ATT AT
1 ATT ATT A-TT ATT ATT ATT AT
64805457 ACTAATACAT
Statistics
Matches: 87, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
2 10 0.11
3 66 0.76
4 8 0.09
5 3 0.03
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:64810108 original size:9 final size:9
Alignment explanation
Indices: 64810094--64810124 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
64810084 TCTCATGAAT
64810094 TCAAAAAAA
1 TCAAAAAAA
64810103 TC-AAAAAA
1 TCAAAAAAA
64810111 TCAAAAAAA
1 TCAAAAAAA
64810120 TCAAA
1 TCAAA
64810125 GTCAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (9 bp):
TCAAAAAAA
Found at i:64812286 original size:43 final size:43
Alignment explanation
Indices: 64812238--64812375 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
64812228 AGAAGCAGAT
64812238 CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAAGC
* * * * * * ** * *
64812281 CTTGCCTTCAT-TGGTT-GCAGTGGAGCTGGTTAAAGAAGC-AGGT
1 CTTGCCTTCCTGT-GTTAACAGCGAAGCAGATCGAA-AA-CAAAGC
** *
64812324 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAAGC
64812367 CTTGCCTTC
1 CTTGCCTTC
64812376 ATTGGTTGCA
Statistics
Matches: 66, Mismatches: 23, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
42 13 0.20
43 42 0.64
44 11 0.17
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (43 bp):
CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAAGC
Found at i:64812478 original size:87 final size:87
Alignment explanation
Indices: 64812227--64812565 Score: 529
Period size: 87 Copynumber: 3.9 Consensus size: 87
64812217 CAGATCAGTG
** *
64812227 AAGA-AGCAGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCA
64812291 TTGGTTGCAGTGGAGCTGGTTA
66 TTGGTTGCAGTGGAGCTGGTTA
*
64812313 AAGA-AGCAGGTCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCA
*
64812377 TTGGTTGCAGTGGAGCTGGTCA
66 TTGGTTGCAGTGGAGCTGGTTA
* * *
64812399 AAGATAGCATATCTTGCATTCTTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCA
* * * *
64812464 TTGGCTGCAATGGAGCTAGTTG
66 TTGGTTGCAGTGGAGCTGGTTA
* *
64812486 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCA
*
64812551 TCGGTTGCAGTGGAG
66 TTGGTTGCAGTGGAG
64812566 TAGATTGAAG
Statistics
Matches: 230, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
86 85 0.37
87 145 0.63
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (87 bp):
AAGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCA
TTGGTTGCAGTGGAGCTGGTTA
Found at i:64812687 original size:44 final size:44
Alignment explanation
Indices: 64812558--64813148 Score: 187
Period size: 44 Copynumber: 13.3 Consensus size: 44
64812548 CCATCGGTTG
* ** *
64812558 CAGTGGAGTAGATT-GAAGCCAGAGATCTTATCTCCCTG-AGATTG
1 CAGTGGAGTAGATTAAAATACAG-GATCTTATCTCCCTGAAG-TTA
* * * ** * *
64812602 CAGCGGAGCAGATT-AAAGACACTATCCTATCTCCCTAAAGTTA
1 CAGTGGAGTAGATTAAAATACAGGATCTTATCTCCCTGAAGTTA
* * *
64812645 CAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
1 CAGTGGAGTAGATTAAAATACAGGATCTTATCTCCCTGAAGTTA
** *** * * *
64812689 CAGCAGAGTAGA-TCGCAT-CAGG-TCTTATCTTCTTGAGGTTA
1 CAGTGGAGTAGATTAAAATACAGGATCTTATCTCCCTGAAGTTA
** * *
64812730 CAGTGGAGTAGACCGAAGAATTTCA-GATCTTATCTCCCTGAGGTTA
1 CAGTGGAGTAGA-TTAA-AA-TACAGGATCTTATCTCCCTGAAGTTA
* **
64812776 CAGTGGAGCT-GATT-GAAGCCAGAGATCTTATCTCCCTG-AGATTA
1 CAGTGGAG-TAGATTAAAATACAG-GATCTTATCTCCCTGAAG-TTA
* * * * ** *
64812820 CAGCGGAGCAGA-TCAAAGACACTATCCTATCTCCCTGAAGTTA
1 CAGTGGAGTAGATTAAAATACAGGATCTTATCTCCCTGAAGTTA
** * * * *
64812863 CAGTGGAGCGGATTGAAATAAAAGATCTTATCTCTCTGAAGTTA
1 CAGTGGAGTAGATTAAAATACAGGATCTTATCTCCCTGAAGTTA
** * * *
64812907 CAGCAGAGTAGATCGCATCAGATTAAAACCAATGATCTTATCTCTCTGAAGTTA
1 CAGTGGAGTAGAT----T-A-A--AATA-C-AGGATCTTATCTCCCTGAAGTTA
* * *** * *
64812961 CAGTAGAGCAGA-TCGCA-CCAGG-TCTTATTTCCCT-AAGATTA
1 CAGTGGAGTAGATTAAAATACAGGATCTTATCTCCCTGAAG-TTA
** * *
64813002 CAGTGGAACAGACTGAAGAATTTCA-GATCTTATCTCCCTG-AGATTA
1 CAGTGGAGTAGA-TTAA-AA-TACAGGATCTTATCTCCCTGAAG-TTA
* * * * * *
64813048 CAGCGGAGCAGATT-GAA-GCTAGTAATCCTATCTCCCTG-AGATTA
1 CAGTGGAGTAGATTAAAATAC-AG-GATCTTATCTCCCTGAAG-TTA
** * *
64813092 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
1 CAGTGGAGTAGATTAAAATACAGGATCTTATCTCCCTGAAGTTA
*
64813136 CAGTAGAGTAGAT
1 CAGTGGAGTAGAT
64813149 CGCATCAGGT
Statistics
Matches: 404, Mismatches: 103, Indels: 80
0.69 0.18 0.14
Matches are distributed among these distances:
40 3 0.01
41 49 0.12
42 8 0.02
43 61 0.15
44 175 0.43
45 11 0.03
46 58 0.14
47 1 0.00
48 1 0.00
49 1 0.00
50 1 0.00
52 3 0.01
54 32 0.08
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (44 bp):
CAGTGGAGTAGATTAAAATACAGGATCTTATCTCCCTGAAGTTA
Found at i:64812851 original size:87 final size:87
Alignment explanation
Indices: 64812760--64812920 Score: 225
Period size: 87 Copynumber: 1.9 Consensus size: 87
64812750 TTTCAGATCT
* * * * *
64812760 TATCTCCCTGAGGTTACAGTGGAGCTGATTGAAGCCAGAGATCTTATCTCCCTG-AGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTGAAACAAAAGATCTTATCTCCCTGAAG-TTACAGC
*
64812824 GGAGCAGATCAAAGACACTATCC
65 AGAGCAGATCAAAGACACTATCC
* *
64812847 TATCTCCCTGAAGTTACAGTGGAGCGGATTGAAATAAAAGATCTTATCTCTCTGAAGTTACAGCA
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTGAAACAAAAGATCTTATCTCCCTGAAGTTACAGCA
*
64812912 GAGTAGATC
66 GAGCAGATC
64812921 GCATCAGATT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
87 62 0.97
88 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCGGATTGAAACAAAAGATCTTATCTCCCTGAAGTTACAGCA
GAGCAGATCAAAGACACTATCC
Found at i:64813050 original size:46 final size:44
Alignment explanation
Indices: 64812983--64813098 Score: 126
Period size: 46 Copynumber: 2.6 Consensus size: 44
64812973 TCGCACCAGG
* * *
64812983 TCTTATTTCCCTAAGATTACAGTGGAACAGACTGAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACTGAAGATA-GT-A-A
* * * *
64813029 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACTGAAGATAGTAA
*
64813073 TCCTATCTCCCTGAGATTACAGTGGA
1 TCTTATCTCCCTGAGATTACAGTGGA
64813099 GCGGATTAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
44 25 0.42
45 1 0.02
46 33 0.55
47 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACTGAAGATAGTAA
Found at i:64814960 original size:3 final size:3
Alignment explanation
Indices: 64814947--64815056 Score: 86
Period size: 3 Copynumber: 36.7 Consensus size: 3
64814937 TTATTTGCTC
*
64814947 ATT ATT A-T ATT ATT A-T ATT -TT ATT ATT AGCTT ATT ATT ATT ATG
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT ATT ATT ATT ATT
* *
64814991 GTT ATT ATT ATT ATT ACT ATT ATT AATT ATT ATT AGTT -TT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT A-TT ATT ATT ATT
* * *
64815036 CTT TTT ATTT ATT ACT ATT AT
1 ATT ATT A-TT ATT ATT ATT AT
64815057 ACTAATACAT
Statistics
Matches: 87, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
2 10 0.11
3 66 0.76
4 8 0.09
5 3 0.03
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:64818884 original size:21 final size:21
Alignment explanation
Indices: 64818854--64818897 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
64818844 GGAGAAATTA
64818854 TTTTTGATATTATTTTATGTG
1 TTTTTGATATTATTTTATGTG
*
64818875 TTTTTTATATTATTTTATGTG
1 TTTTTGATATTATTTTATGTG
64818896 TT
1 TT
64818898 GTGGCATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.70
Consensus pattern (21 bp):
TTTTTGATATTATTTTATGTG
Found at i:64820180 original size:97 final size:95
Alignment explanation
Indices: 64820016--64820230 Score: 231
Period size: 97 Copynumber: 2.3 Consensus size: 95
64820006 TATGTGAGCC
** * * * *
64820016 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAGTGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAACCACATAATGAGAGCCAATGTAAGACATGTCTAGG
*
64820081 ACAT-GCATCGGCCTCGGGATAT-ACAAGCT
66 ACATGGCATCGGCCTCGAGATATGA-AAGCT
* *
64820110 AGTGTAAGACTTGTCTGGGACATAGCATCAA-CACCTATAAATGAGAGCCAATGTAAGACCTGTC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAACCA-C-AT-AATGAGAGCCAATGTAAGACATGTC
** * *
64820174 TAGGACATGGTGTCGGCCTCGATATATGAAAGTT
62 TAGGACATGGCATCGGCCTCGAGATATGAAAGCT
*
64820208 AGTGTAAGACCTGT-TGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
64820231 GCATTGACTT
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
94 24 0.24
95 6 0.06
96 3 0.03
97 36 0.36
98 31 0.31
99 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (95 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACCACATAATGAGAGCCAATGTAAGACATGTCTAGG
ACATGGCATCGGCCTCGAGATATGAAAGCT
Found at i:64822464 original size:93 final size:93
Alignment explanation
Indices: 64822352--64822523 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
64822342 CGCCCATAAG
* * *
64822352 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCCACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
64822417 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
64822445 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
64822510 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
64822524 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:64822520 original size:46 final size:46
Alignment explanation
Indices: 64822345--64822520 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
64822335 TATAACCCGC
* * *
64822345 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
64822391 CCATAAGTGAACTCGGACTCCACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
64822441 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
64822484 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
64822521 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:64825409 original size:53 final size:53
Alignment explanation
Indices: 64825304--64825412 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
64825294 CTAACATACC
64825304 TAACATATTCAATTTCCTCTCTAAACTCTAGCTAAATTACTTTAAAACATAAG
1 TAACATATTCAATTTCCTCTCTAAACTCTAGCTAAATTACTTTAAAACATAAG
64825357 TAACATATTCAATTTCCTCTCTAAACTCTAGCTAAATTACTTTAAAACATAAG
1 TAACATATTCAATTTCCTCTCTAAACTCTAGCTAAATTACTTTAAAACATAAG
64825410 TAA
1 TAA
64825413 TTGCAGAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (53 bp):
TAACATATTCAATTTCCTCTCTAAACTCTAGCTAAATTACTTTAAAACATAAG
Found at i:64826628 original size:17 final size:17
Alignment explanation
Indices: 64826585--64826641 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
64826575 AAGTAACAAT
64826585 ATTTTAAAATA-AAATTACA
1 ATTTTAAAATATAAA--A-A
*
64826604 ATTTTTAAATATAAGAAA
1 ATTTTAAAATATAA-AAA
64826622 ATTTTAAAATATAAAAA
1 ATTTTAAAATATAAAAA
64826639 ATT
1 ATT
64826642 CATAGATCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 6 0.18
18 14 0.41
19 11 0.32
20 2 0.06
21 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
ATTTTAAAATATAAAAA
Found at i:64830285 original size:55 final size:54
Alignment explanation
Indices: 64830198--64830408 Score: 230
Period size: 55 Copynumber: 3.9 Consensus size: 54
64830188 ATTAGGGTTT
* *
64830198 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-GTTTCATAAGGC
* * * *
64830253 AAGGATATCGTGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-ATAAGGC
* * * * *
64830308 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCACTAGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
* * * *
64830361 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGAAAGTTTCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCA
64830409 AAAGAATACC
Statistics
Matches: 128, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
52 4 0.03
53 42 0.33
54 14 0.11
55 64 0.50
56 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
Found at i:64830405 original size:108 final size:110
Alignment explanation
Indices: 64830205--64830407 Score: 288
Period size: 108 Copynumber: 1.9 Consensus size: 110
64830195 TTTAAGGATA
* * * *
64830205 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATATCGTGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAACTAGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
64830270 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCATGGATAAGTTTCTATAAGGCAAAGGTC
* *
64830315 CCATGTAAGACCATGCCAAGGCATGG-CACTAGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAACTAGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
*
64830377 ACCATGTCGAGACATGGCAATGGA-AAGTTTC
65 ACCATGTCAAGACATGGC-ATGGATAAGTTTC
64830408 AAAAGAATAC
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
107 3 0.04
108 45 0.54
109 9 0.11
110 26 0.31
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAACTAGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCATGGATAAGTTTCTATAAGGCAAAGGTC
Found at i:64830666 original size:16 final size:16
Alignment explanation
Indices: 64830645--64830675 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64830635 ATAAATTTGA
64830645 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
64830661 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
64830676 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:64832426 original size:20 final size:20
Alignment explanation
Indices: 64832401--64832444 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
64832391 TGTGCCATTC
64832401 AGCTCCAATCAGCTCACTTG
1 AGCTCCAATCAGCTCACTTG
* * *
64832421 AGCTCCATTTAGCTCGCTTG
1 AGCTCCAATCAGCTCACTTG
64832441 AGCT
1 AGCT
64832445 TGAATTTAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.32, G:0.18, T:0.30
Consensus pattern (20 bp):
AGCTCCAATCAGCTCACTTG
Found at i:64832688 original size:13 final size:13
Alignment explanation
Indices: 64832670--64832704 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
64832660 ATTATATGAA
*
64832670 TAATTATTTTATT
1 TAATTATGTTATT
64832683 TAATTATGTTATT
1 TAATTATGTTATT
64832696 TAATTATGT
1 TAATTATGT
64832705 AGGTTAGCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (13 bp):
TAATTATGTTATT
Found at i:64833640 original size:14 final size:14
Alignment explanation
Indices: 64833600--64833663 Score: 85
Period size: 14 Copynumber: 4.6 Consensus size: 14
64833590 ACCTAAATCG
*
64833600 ACCAATTCATTCAT
1 ACCATTTCATTCAT
* *
64833614 ATCC-CTTCGTTCAT
1 A-CCATTTCATTCAT
64833628 ACCATTTCATTCAT
1 ACCATTTCATTCAT
64833642 ACCATTTCATTCAT
1 ACCATTTCATTCAT
64833656 ACCATTTC
1 ACCATTTC
64833664 GACCATTCCT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
13 2 0.05
14 40 0.91
15 2 0.05
ACGTcount: A:0.27, C:0.31, G:0.02, T:0.41
Consensus pattern (14 bp):
ACCATTTCATTCAT
Found at i:64834824 original size:18 final size:17
Alignment explanation
Indices: 64834811--64834912 Score: 59
Period size: 17 Copynumber: 5.9 Consensus size: 17
64834801 AGAAAGAATT
64834811 TGAAAGAAAAAAAGAAA
1 TGAAAGAAAAAAAGAAA
* **
64834828 TGAAAGAAAAAGAG-TG
1 TGAAAGAAAAAAAGAAA
64834844 TGAAAGAGAGCAAAAAGAAA
1 TGAAAGA-A--AAAAAGAAA
*
64834864 -GCAAGAAAAAGAA-AAA
1 TGAAAGAAAAA-AAGAAA
***
64834880 TGAAATTGAAAAAGAAA
1 TGAAAGAAAAAAAGAAA
64834897 GTGAAA-AAGAAAAAGA
1 -TGAAAGAA-AAAAAGA
64834913 GAAGGAAAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 17
0.68 0.14 0.18
Matches are distributed among these distances:
16 15 0.24
17 25 0.40
18 13 0.21
19 10 0.16
ACGTcount: A:0.68, C:0.02, G:0.23, T:0.08
Consensus pattern (17 bp):
TGAAAGAAAAAAAGAAA
Found at i:64834877 original size:6 final size:6
Alignment explanation
Indices: 64834855--64834924 Score: 59
Period size: 6 Copynumber: 11.2 Consensus size: 6
64834845 GAAAGAGAGC
** **
64834855 AAAAAG AAAGCAAG AAAAAG AAAAATG AAATTG AAAAAG AAAGTG AAAAAG
1 AAAAAG AAA--AAG AAAAAG AAAAA-G AAAAAG AAAAAG AAAAAG AAAAAG
* *
64834906 AAAAAG AGAAGG AAAAAG A
1 AAAAAG AAAAAG AAAAAG A
64834925 GATCGAGATC
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
6 39 0.80
7 4 0.08
8 6 0.12
ACGTcount: A:0.71, C:0.01, G:0.21, T:0.06
Consensus pattern (6 bp):
AAAAAG
Found at i:64834920 original size:18 final size:18
Alignment explanation
Indices: 64834866--64834924 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
64834856 AAAAGAAAGC
*
64834866 AAGAAAAAGAAAAATGAAA
1 AAGAAAAAG-AAAGTGAAA
**
64834885 TTGAAAAAGAAAGTGAAA
1 AAGAAAAAGAAAGTGAAA
64834903 AAGAAAAAGAGAAG-GAAA
1 AAGAAAAAGA-AAGTGAAA
64834921 AAGA
1 AAGA
64834925 GATCGAGATC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 24 0.71
19 10 0.29
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.07
Consensus pattern (18 bp):
AAGAAAAAGAAAGTGAAA
Found at i:64836980 original size:20 final size:21
Alignment explanation
Indices: 64836957--64837003 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
64836947 AACTCCAATC
*
64836957 AGCTCACTTGAGCTC-CATTT
1 AGCTCACTTGAGCTCGAATTT
*
64836977 AGCTCGCTTGAGCTCGAATTT
1 AGCTCACTTGAGCTCGAATTT
64836998 AGCTCA
1 AGCTCA
64837004 TTTCTTCTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (21 bp):
AGCTCACTTGAGCTCGAATTT
Found at i:64837234 original size:13 final size:13
Alignment explanation
Indices: 64837216--64837250 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
64837206 ATTAGATGAA
*
64837216 TAATTATTTTATT
1 TAATTATGTTATT
64837229 TAATTATGTTATT
1 TAATTATGTTATT
64837242 TAATTATGT
1 TAATTATGT
64837251 AGGTTAGCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (13 bp):
TAATTATGTTATT
Found at i:64839482 original size:58 final size:58
Alignment explanation
Indices: 64839394--64839534 Score: 169
Period size: 58 Copynumber: 2.4 Consensus size: 58
64839384 GCAATTTTAC
* * **
64839394 ACTTAAGGAATTTTTTCCAAAATCGTCAGCTAGGAATATTAG-TCTGCGAGCTATTTT-G
1 ACTTAAGGAA-ATTTTCAAAAATCAACAGCTAGGAATATTAGTTC-GCGAGCTATTTTGG
* *
64839452 AGCTTAAGGAAATTTTCAAAAATCAACAGCTTGGAATATTAGTTCGCGAGCTGTTTTGG
1 A-CTTAAGGAAATTTTCAAAAATCAACAGCTAGGAATATTAGTTCGCGAGCTATTTTGG
* *
64839511 ACTTAAAGAAATTTTCTAAAATCA
1 ACTTAAGGAAATTTTCAAAAATCA
64839535 TCATCTGAGA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
58 59 0.82
59 13 0.18
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (58 bp):
ACTTAAGGAAATTTTCAAAAATCAACAGCTAGGAATATTAGTTCGCGAGCTATTTTGG
Found at i:64840005 original size:71 final size:70
Alignment explanation
Indices: 64839921--64840077 Score: 199
Period size: 70 Copynumber: 2.2 Consensus size: 70
64839911 AACTCTTGCT
* * * *
64839921 AACTGTTTAGGGGGCTGTAGTCTTAAACTTTCAATCCTTAAAGTGCTAGTTGGGAGCTTTTTA-C
1 AACTATTTGGGGGGCTGTAGTCTTAAACTTT-AAGCCTTAAAGTGATAGTTGGGAGC-TTTTAGC
* *
64839985 TTTCTCC
64 TCTCACC
* **
64839992 AACTATTTGGGGGGCTGTGGTCTTAAACTTTGGGCCTTAAAGTGATAGTTGGGAGCTTTTAGCTC
1 AACTATTTGGGGGGCTGTAGTCTTAAACTTTAAGCCTTAAAGTGATAGTTGGGAGCTTTTAGCTC
*
64840057 TCACT
66 TCACC
64840062 AACTATTTGGGGGGCT
1 AACTATTTGGGGGGCT
64840078 ACGGTCTTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
69 5 0.07
70 42 0.56
71 28 0.37
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (70 bp):
AACTATTTGGGGGGCTGTAGTCTTAAACTTTAAGCCTTAAAGTGATAGTTGGGAGCTTTTAGCTC
TCACC
Found at i:64840225 original size:71 final size:70
Alignment explanation
Indices: 64839833--64840389 Score: 366
Period size: 71 Copynumber: 7.8 Consensus size: 70
64839823 AACAGGCAGA
* * * * * * * * *
64839833 AGCTTTTAACTCTTGCTAACTATTTAGGGGGTTACAGTCTTAAACCTACAAGCTTTAAGGTGACA
1 AGCTTTTAACTCTCGCTAACTATTT-GGGGGCTGCGGTCTTAAACCTTCGAGCCTTAAAGTGATA
* *
64839898 ATTGAG
65 GTTGGG
* * * ** * * * *
64839904 AGTTTTTAACTCTTGCTAACTGTTTAGGGGGCTGTAGTCTTAAACTTTCAATCCTTAAAGTGCTA
1 AGCTTTTAACTCTCGCTAACTATTT-GGGGGCTGCGGTCTTAAACCTTCGAGCCTTAAAGTGATA
64839969 GTTGGG
65 GTTGGG
* * * * * * *
64839975 AGCTTTTTACTTTCTCCAACTATTTGGGGGGCTGTGGTCTTAAA-CTTTGGGCCTTAAAGTGATA
1 AGCTTTTAACTCTCGCTAACTATTT-GGGGGCTGCGGTCTTAAACCTTCGAGCCTTAAAGTGATA
64840039 GTTGGG
65 GTTGGG
* * * * * * *
64840045 AGCTTTTAGCTCTCACTAACTATTTGGGGGGCTACGGTCTTAAACCTACGAACATTAAAGTGACA
1 AGCTTTTAACTCTCGCTAACTATTT-GGGGGCTGCGGTCTTAAACCTTCGAGCCTTAAAGTGATA
* *
64840110 ATTAGG
65 GTTGGG
** * * ** * *
64840116 ATTTTTTTTAACTTTTGCTAACTGCTTGGAGGGTTGCGGCCTTAAACCTTCGAGCCTTAAAGTGA
1 A--GCTTTTAACTCTCGCTAACTATTTGG-GGGCTGCGGTCTTAAACCTTCGAGCCTTAAAGTGA
* *
64840181 TAGCTGAG
63 TAGTTGGG
* * ** *
64840189 AGCTTTTAACTCTCGCTAACTATTTGGGCTGCTGCGGTCTTAAACCGT-GATTCTTAAAGTAATA
1 AGCTTTTAACTCTCGCTAACTATTTGGG-GGCTGCGGTCTTAAACCTTCGAGCCTTAAAGTGATA
64840253 GTTGGGGG
65 GTT--GGG
* * * * * * * * *
64840261 AGCTTTTAACTCTCACTAACTGTTTGGGGGGATACGGTATTGAACCTGCAAGCCTTAATA-TGAC
1 AGCTTTTAACTCTCGCTAACTATTT-GGGGGCTGCGGTCTTAAACCTTCGAGCCTTAA-AGTGAT
**
64840325 ACCTGGG
64 AGTTGGG
* * * *
64840332 AGTTTTTAACTCTCGCTAACTATTTGGGGAGTTGCAGTCTTAAA-CTTGTGAGCCTTAA
1 AGCTTTTAACTCTCGCTAACTATTTGGGG-GCTGCGGTCTTAAACCTT-CGAGCCTTAA
64840390 TTTCGATAAA
Statistics
Matches: 369, Mismatches: 105, Indels: 24
0.74 0.21 0.05
Matches are distributed among these distances:
70 79 0.21
71 188 0.51
72 39 0.11
73 62 0.17
74 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (70 bp):
AGCTTTTAACTCTCGCTAACTATTTGGGGGCTGCGGTCTTAAACCTTCGAGCCTTAAAGTGATAG
TTGGG
Found at i:64840376 original size:214 final size:210
Alignment explanation
Indices: 64839833--64840389 Score: 569
Period size: 214 Copynumber: 2.6 Consensus size: 210
64839823 AACAGGCAGA
** * * * * *
64839833 AGCTTTTAACTCTTGCTAACTATTTAGGGGGTTACAGTCTTAAACCTACAAGCTTTAAGGTGACA
1 AGCTTTTAACTCTCACTAACTATTTGGGGGGATACGGTCTTAAACCTACAAGCATTAA-ATGACA
* * * * * *
64839898 ATTGAGAGTTTTTAACTCTTGCTAACTGTTTAGGGGGCTGTAGTCTTAAACTTTCAATCCTTAAA
65 ATTGGGAGTTTTTAACTCTTGCTAACTGTTT-GGGGGTTGCAGTCTTAAACCTTCGAGCCTTAAA
* * * * * * * * ** *
64839963 GTGCTAGTTGGGAGCTTTTTACTTTCTCCAACTATTTGGGGGGCTGTGGTCTTAAACTTTGGGCC
129 GTGATAGCTGAGAGCTTTTAACTCTCGCCAACTATTTGGGCGGCTGCGGTCTTAAACCGTGAGCC
*
64840028 TTAAAGTGATAGTTGGG
194 TTAAAGTAATAGTTGGG
* *
64840045 AGCTTTTAGCTCTCACTAACTATTTGGGGGGCTACGGTCTTAAACCTACGAA-CATTAAAGTGAC
1 AGCTTTTAACTCTCACTAACTATTTGGGGGGATACGGTCTTAAACCTAC-AAGCATTAAA-TGAC
* * * * * *
64840109 AATTAGGATTTTTTTTAACTTTTGCTAACTGCTTGGAGGGTTGCGGCCTTAAACCTTCGAGCCTT
64 AATTGGGA--GTTTTTAACTCTTGCTAACTGTTTGG-GGGTTGCAGTCTTAAACCTTCGAGCCTT
* *
64840174 AAAGTGATAGCTGAGAGCTTTTAACTCTCGCTAACTATTTGGGCTGCTGCGGTCTTAAACCGTGA
126 AAAGTGATAGCTGAGAGCTTTTAACTCTCGCCAACTATTTGGGCGGCTGCGGTCTTAAACCGTGA
**
64840239 TTCTTAAAGTAATAGTTGGGGG
191 GCCTTAAAGTAATAGTT--GGG
* * * * *
64840261 AGCTTTTAACTCTCACTAACTGTTTGGGGGGATACGGTATTGAACCTGCAAGCCTTAATATGACA
1 AGCTTTTAACTCTCACTAACTATTTGGGGGGATACGGTCTTAAACCTACAAGCATTAA-ATGACA
** * * *
64840326 CCTGGGAGTTTTTAACTCTCGCTAACTATTTGGGGAGTTGCAGTCTTAAA-CTTGTGAGCCTTAA
65 ATTGGGAGTTTTTAACTCTTGCTAACTGTTTGGGG-GTTGCAGTCTTAAACCTT-CGAGCCTTAA
64840390 TTTCGATAAA
Statistics
Matches: 280, Mismatches: 54, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
212 58 0.21
213 9 0.03
214 150 0.54
215 2 0.01
216 60 0.21
217 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (210 bp):
AGCTTTTAACTCTCACTAACTATTTGGGGGGATACGGTCTTAAACCTACAAGCATTAAATGACAA
TTGGGAGTTTTTAACTCTTGCTAACTGTTTGGGGGTTGCAGTCTTAAACCTTCGAGCCTTAAAGT
GATAGCTGAGAGCTTTTAACTCTCGCCAACTATTTGGGCGGCTGCGGTCTTAAACCGTGAGCCTT
AAAGTAATAGTTGGG
Found at i:64844324 original size:48 final size:48
Alignment explanation
Indices: 64844266--64844363 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
64844256 CACAATGTCT
*
64844266 CATATCGATGCCAATGCCATATCCCAGATATGATCTTACATGGGATCA
1 CATATCGATGCCAATGCCATATCCCAGACATGATCTTACATGGGATCA
* * * *
64844314 CATATTGATGCCAATGCCATGTCTCAGACATGGTCTTACATGGGATCA
1 CATATCGATGCCAATGCCATATCCCAGACATGATCTTACATGGGATCA
64844362 CA
1 CA
64844364 CATAACCCTC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (48 bp):
CATATCGATGCCAATGCCATATCCCAGACATGATCTTACATGGGATCA
Found at i:64844737 original size:30 final size:30
Alignment explanation
Indices: 64844703--64844761 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
64844693 CATAAATCAT
* * *
64844703 ACTTTGACAAAATTATAATTTTGCCCCTAA
1 ACTTTGACAAAATTACAAATTAGCCCCTAA
* *
64844733 ACTTTTACATAATTACAAATTAGCCCCTA
1 ACTTTGACAAAATTACAAATTAGCCCCTA
64844762 GGCTCGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (30 bp):
ACTTTGACAAAATTACAAATTAGCCCCTAA
Found at i:64869237 original size:41 final size:42
Alignment explanation
Indices: 64869186--64869286 Score: 116
Period size: 44 Copynumber: 2.4 Consensus size: 42
64869176 TCCTAGATAG
* * *
64869186 GGTCTTACACGAAATCAGATA-CGATTCGAA-GTCCCAGACAT
1 GGTCTTACACGAAATCAGA-AGCGATGCCAACATCCCAGACAT
* *
64869227 GGTCTTACACGTAAAACAGAAGTCGATGCCAACATCCCAGACGT
1 GGTCTTACACG-AAATCAGAAG-CGATGCCAACATCCCAGACAT
64869271 GGTCTTACACGAAATC
1 GGTCTTACACGAAATC
64869287 CTATAACAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
41 12 0.24
42 7 0.14
43 11 0.22
44 20 0.40
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (42 bp):
GGTCTTACACGAAATCAGAAGCGATGCCAACATCCCAGACAT
Found at i:64875643 original size:42 final size:44
Alignment explanation
Indices: 64875577--64875702 Score: 143
Period size: 45 Copynumber: 2.9 Consensus size: 44
64875567 TTTTCTCAAA
* *
64875577 TCACCGGCATT-TTGCCTGTTAGGCTCG-AGGCCCGAATCAG-T-
1 TCACCGGCATTATAGCCTGGTAGGCTCGAAGGCCCGAAT-AGATC
64875618 TCACCGGCATTATAGCCTGGTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGGTAGGCTCGAAGGCCCGAATAG-ATC
** * * *
64875663 TCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGGTAGGCTCGAAGGCCCGAATA
64875703 ATCAGGTCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 11 0.15
42 16 0.22
43 10 0.14
44 1 0.01
45 35 0.48
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGGTAGGCTCGAAGGCCCGAATAGATC
Found at i:64876092 original size:43 final size:43
Alignment explanation
Indices: 64876031--64876206 Score: 266
Period size: 43 Copynumber: 4.1 Consensus size: 43
64876021 CTGGCATTAC
* *
64876031 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACTAA
*
64876074 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACTAA
* *
64876117 GCCTACTAAGCACGAAGGCCCAAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACTAA
* * *
64876160 GCCTGCTAGGCACGAAGGCCCAAATATA-AT-ACCAGCACTAG
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACTAA
64876201 GCCTGC
1 GCCTGC
64876207 GGGATTTATC
Statistics
Matches: 124, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 15 0.12
42 2 0.02
43 107 0.86
ACGTcount: A:0.32, C:0.34, G:0.22, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACTAA
Found at i:64876232 original size:38 final size:38
Alignment explanation
Indices: 64876183--64876257 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
64876173 GAAGGCCCAA
* * *
64876183 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
64876221 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
64876258 AATACACATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:64877682 original size:42 final size:43
Alignment explanation
Indices: 64877575--64877692 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 43
64877565 TTGGCCAATA
* ** *
64877575 AATATCCCAGATATGGTCTTACATGGGATCTCTTATCGATGCC
1 AATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCC
* * * *
64877618 AATAGCCCAGCTATGGCCTTACACAAAATCTCATATCGATGCC
1 AATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCC
*
64877661 -ATATCCCAGATATGGTCTTACACGTAATCTCA
1 AATATCCCAGATATGGTCTTACACGAAATCTCA
64877693 ACTAACCCTA
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 27 0.44
43 35 0.56
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (43 bp):
AATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCC
Found at i:64887492 original size:43 final size:42
Alignment explanation
Indices: 64887418--64887527 Score: 105
Period size: 43 Copynumber: 2.6 Consensus size: 42
64887408 GTCATATACT
* **
64887418 AGATATGGTCTTACATGGGATCTCATATCGATACCAATAGCCA
1 AGATATGGTCTTACACGAAATCTCATATCGATACC-ATAGCCA
* * * * * *
64887461 AGCTATGGTCTTACACGAAATCTTATGTCGATGCCATATCCT
1 AGATATGGTCTTACACGAAATCTCATATCGATACCATAGCCA
*
64887503 AGATATGGTCTAACAC-ATAATCTCA
1 AGATATGGTCTTACACGA-AATCTCA
64887528 ACTAACCTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
41 1 0.02
42 25 0.46
43 28 0.52
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (42 bp):
AGATATGGTCTTACACGAAATCTCATATCGATACCATAGCCA
Done.