Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 25 of 106
Found at i:10159101 original size:21 final size:21
Alignment explanation
Indices: 10159030--10159130 Score: 87
Period size: 21 Copynumber: 4.8 Consensus size: 21
10159020 TTTTGAGAGA
* * *
10159030 AAAATGTGCCCGAAGGTTTTG
1 AAAATGTACCCGGAGGCTTTG
** **
10159051 AAAATGTACTTGGAAACTTT-
1 AAAATGTACCCGGAGGCTTTG
*
10159071 ATAGAATGTACCAGGAGGCTTTG
1 A-A-AATGTACCCGGAGGCTTTG
*
10159094 AAAATGTACCCGGAGGTTTTG
1 AAAATGTACCCGGAGGCTTTG
*
10159115 AAAATATACCCGGAGG
1 AAAATGTACCCGGAGG
10159131 TTTTAAGAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
20 1 0.02
21 46 0.73
22 15 0.24
23 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (21 bp):
AAAATGTACCCGGAGGCTTTG
Found at i:10159367 original size:143 final size:142
Alignment explanation
Indices: 10159096--10159484 Score: 510
Period size: 143 Copynumber: 2.7 Consensus size: 142
10159086 AGGCTTTGAA
* * * * * * * *
10159096 AATGTACCCGGAGGTTTTGAAAATATACCCGGAGGTTTTAAGAAAAAAATGTAGCTCCTTGAAAA
1 AATGTACCCGGAGGTCTTCAGAATGTACCCGGAGGATTT-AG---GAAATGTGGCTCCTCGAAAA
* * * *
10159161 CTGAGGTAACGTAACTTTAAAAAATCTTGACACTAATTACCCAGAGGTTTTAGAAGATGCACCCG
62 CTGTGGTAACGTAACTTTAAAAAATCTTGACATTAATTACCCAGAGCTTTTAAAAGATGCACCCG
*
10159226 GAGAATTTAAGAGAAT
127 GAGAATTTAAAAGAAT
* **
10159242 AATGTACTCGGAGGTCTTCAGAATGTACTTGGAGGATTTAGGAAATGTGGCTCCTCGAAAACTGT
1 AATGTACCCGGAGGTCTTCAGAATGTACCCGGAGGATTTAGGAAATGTGGCTCCTCGAAAACTGT
*
10159307 GGTAACGTAACTTTAAAAAAATCTTGACATTAGTTACCCAGAGCTTTTAAAAGATGCACCCGGAG
66 GGTAACGTAACTTT-AAAAAATCTTGACATTAATTACCCAGAGCTTTTAAAAGATGCACCCGGAG
*
10159372 GATTTAAAAGAAT
130 AATTTAAAAGAAT
* * *
10159385 AATGTGCCCGGAGGTCTTCAGAATGTACCCGGAGGATTTAGGAAATGTGGCTCCTCAAAAATTGA
1 AATGTACCCGGAGGTCTTCAGAATGTACCCGGAGGATTTAGGAAATGTGGCTCCTCGAAAACTG-
* *
10159450 T-GCAACGTAACTTTAAAAAATCTTGACATCAATTA
65 TGGTAACGTAACTTTAAAAAATCTTGACATTAATTA
10159485 TCTGAAATGT
Statistics
Matches: 214, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
142 53 0.25
143 127 0.59
144 1 0.00
145 2 0.01
146 31 0.14
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (142 bp):
AATGTACCCGGAGGTCTTCAGAATGTACCCGGAGGATTTAGGAAATGTGGCTCCTCGAAAACTGT
GGTAACGTAACTTTAAAAAATCTTGACATTAATTACCCAGAGCTTTTAAAAGATGCACCCGGAGA
ATTTAAAAGAAT
Found at i:10160782 original size:78 final size:80
Alignment explanation
Indices: 10160643--10160798 Score: 203
Period size: 78 Copynumber: 2.0 Consensus size: 80
10160633 TAAATTCACA
* **
10160643 TCTTTGCTCTAGACTACTCTTTCAGGTTTTCACCCTAGAGATTTATCTTTTTCACTCAC-TTTTT
1 TCTTTGCTCTAGACTACTCTTTCAGGTTTTCACCCTAGAGATTCATCTTTCACACTCACTTTTTT
10160707 CTTTCTT-TTTTTCG
66 CTTTCTTCTTTTTCG
* * *
10160721 TCTTTGCTCTAGACTGC-CTTTTC-GAGTTTTCACCCTAGAGCTTCATCTTTCACACTTACTTTT
1 TCTTTGCTCTAGACTACTC-TTTCAG-GTTTTCACCCTAGAGATTCATCTTTCACACTCACTTTT
*
10160784 TTCTTTTTTCTTTTT
64 TTCTTTCTTCTTTTT
10160799 TTTTGATCGA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
77 2 0.03
78 49 0.73
79 11 0.16
80 5 0.07
ACGTcount: A:0.13, C:0.25, G:0.09, T:0.53
Consensus pattern (80 bp):
TCTTTGCTCTAGACTACTCTTTCAGGTTTTCACCCTAGAGATTCATCTTTCACACTCACTTTTTT
CTTTCTTCTTTTTCG
Found at i:10162421 original size:18 final size:20
Alignment explanation
Indices: 10162383--10162421 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
10162373 TTATGACCCT
*
10162383 TTTTTCTTTTTTTTTAGTGA
1 TTTTTCTTTGTTTTTAGTGA
10162403 TTTTT-TTTGTTTTTA-TGA
1 TTTTTCTTTGTTTTTAGTGA
10162421 T
1 T
10162422 CTTTGAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.10, C:0.03, G:0.10, T:0.77
Consensus pattern (20 bp):
TTTTTCTTTGTTTTTAGTGA
Found at i:10167986 original size:59 final size:59
Alignment explanation
Indices: 10167873--10167994 Score: 212
Period size: 60 Copynumber: 2.1 Consensus size: 59
10167863 TATTTATTTT
10167873 ATTTTTTACTATTTTACCATCTTATATTTTTTATTAGTATTATTTTTTGTTAATCAATC
1 ATTTTTTACTATTTTACCATCTTATATTTTTTATTAGTATTATTTTTTGTTAATCAATC
*
10167932 NATTTTTTGCTATTTTACCATCTTATATTTTTTATTAGTATTATTTTTTG-TAATCAATC
1 -ATTTTTTACTATTTTACCATCTTATATTTTTTATTAGTATTATTTTTTGTTAATCAATC
10167991 -TTTT
1 ATTTT
10167995 GTTTAAACCT
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
57 4 0.07
59 9 0.15
60 48 0.79
ACGTcount: A:0.24, C:0.10, G:0.04, T:0.61
Consensus pattern (59 bp):
ATTTTTTACTATTTTACCATCTTATATTTTTTATTAGTATTATTTTTTGTTAATCAATC
Found at i:10169819 original size:3 final size:3
Alignment explanation
Indices: 10169813--10169841 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10169803 TCTTCTTTTC
10169813 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10169842 TAATTAACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10170804 original size:20 final size:21
Alignment explanation
Indices: 10170772--10170815 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
10170762 TAAGATTGTT
10170772 AGAAATATTTGAGAAGAAAGA
1 AGAAATATTTGAGAAGAAAGA
10170793 AGAAAT-TTTGAGAAGAAAGA
1 AGAAATATTTGAGAAGAAAGA
10170813 AGA
1 AGA
10170816 GTATGACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.18
Consensus pattern (21 bp):
AGAAATATTTGAGAAGAAAGA
Found at i:10172877 original size:36 final size:36
Alignment explanation
Indices: 10172828--10172900 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
10172818 GTGTCAAGCT
* *
10172828 TAATGTAGCTAGTAATCACGTGTATAGCATGTGAGC
1 TAATGTAACTAGTAAACACGTGTATAGCATGTGAGC
* **
10172864 TAATGTAATTAGTAAAGTCGTGTATAGCATGTGAGC
1 TAATGTAACTAGTAAACACGTGTATAGCATGTGAGC
10172900 T
1 T
10172901 GATTAGTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.33
Consensus pattern (36 bp):
TAATGTAACTAGTAAACACGTGTATAGCATGTGAGC
Found at i:10177699 original size:21 final size:21
Alignment explanation
Indices: 10177673--10177712 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10177663 ACACAAAATA
*
10177673 AAAGTAAATATATTTATATTT
1 AAAGTAAATATATATATATTT
*
10177694 AAAGTACATATATATATAT
1 AAAGTAAATATATATATAT
10177713 ATATATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (21 bp):
AAAGTAAATATATATATATTT
Found at i:10177708 original size:2 final size:2
Alignment explanation
Indices: 10177701--10177725 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10177691 TTTAAAGTAC
10177701 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10177726 CAGCACCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10182059 original size:37 final size:37
Alignment explanation
Indices: 10182012--10182130 Score: 204
Period size: 37 Copynumber: 3.2 Consensus size: 37
10182002 AATGCAATAT
10182012 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
*
10182049 CATCATCATGTGTGCACTCCCTACTCGCACAC-TCTAT
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTC-AA
*
10182086 CATCATCATGTGTGCACTCTCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
10182123 CATCATCA
1 CATCATCA
10182131 CATAATATTA
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
36 2 0.03
37 73 0.95
38 2 0.03
ACGTcount: A:0.24, C:0.37, G:0.10, T:0.29
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:10185362 original size:42 final size:42
Alignment explanation
Indices: 10185301--10185478 Score: 248
Period size: 42 Copynumber: 4.2 Consensus size: 42
10185291 TTTGGAACCA
*
10185301 GCTATGTGCGAGTAGGAGTGCACATAAGCCATTACTGACCCG
1 GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTACTGACCCG
* * **
10185343 GTTATGTGCGAGTAAGAGTGCACATAAGCCGTTGTTGACCCG
1 GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTACTGACCCG
* *
10185385 GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCTG
1 GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTACTGACCCG
* * *
10185427 GCTATGTGTGAGTGGGAGTGCACATAAGCTGTTACTGACCCG
1 GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTACTGACCCG
* *
10185469 GTTATATGCG
1 GCTATGTGCG
10185479 CATAAGTCGT
Statistics
Matches: 119, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 119 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (42 bp):
GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTACTGACCCG
Found at i:10185534 original size:26 final size:26
Alignment explanation
Indices: 10185498--10185555 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
10185488 TTGCATATGA
*
10185498 GATGATGATGATGGGATAGTGTGCAT
1 GATGATCATGATGGGATAGTGTGCAT
*
10185524 GATGATCATGATGGGATGGTGTGCAT
1 GATGATCATGATGGGATAGTGTGCAT
*
10185550 GTTGAT
1 GATGAT
10185556 GATGGGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.24, C:0.05, G:0.38, T:0.33
Consensus pattern (26 bp):
GATGATCATGATGGGATAGTGTGCAT
Found at i:10189062 original size:2 final size:2
Alignment explanation
Indices: 10189041--10189122 Score: 100
Period size: 2 Copynumber: 43.0 Consensus size: 2
10189031 CTAATTACAA
* * *
10189041 AT AT AT AC AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
10189083 AT AT AT AT AT AT AT AT -T AT AT AT -T AT A- AT AT -T AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10189121 AT
1 AT
10189123 TAGGCAAATA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
1 4 0.06
2 64 0.94
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10209011 original size:22 final size:22
Alignment explanation
Indices: 10208964--10209012 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
10208954 ACGCCGTGAT
*** *
10208964 GCTCACTTATGAAGGTTGCGAT
1 GCTCACTTATGAAGGCCACGAC
10208986 GCTCACTTATGAAGGCCACGAC
1 GCTCACTTATGAAGGCCACGAC
10209008 GCTCA
1 GCTCA
10209013 TCTCCTAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (22 bp):
GCTCACTTATGAAGGCCACGAC
Found at i:10210947 original size:13 final size:13
Alignment explanation
Indices: 10210929--10210956 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10210919 ACATTGATCA
10210929 CTTGAATGACTAT
1 CTTGAATGACTAT
10210942 CTTGAATGACTAT
1 CTTGAATGACTAT
10210955 CT
1 CT
10210957 CCACACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (13 bp):
CTTGAATGACTAT
Found at i:10213333 original size:16 final size:16
Alignment explanation
Indices: 10213309--10213351 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
10213299 ACATAAAATT
*
10213309 AAAATAACTCAGT-TA
1 AAAATAACTAAGTATA
10213324 AAAATAAACTAAGTATA
1 AAAAT-AACTAAGTATA
*
10213341 AAAACAACTAA
1 AAAATAACTAA
10213352 AAATAAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 13 0.54
17 6 0.25
ACGTcount: A:0.63, C:0.12, G:0.05, T:0.21
Consensus pattern (16 bp):
AAAATAACTAAGTATA
Found at i:10221388 original size:37 final size:37
Alignment explanation
Indices: 10221316--10221388 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 37
10221306 TTTAATATTT
* * **
10221316 AAATTAAAGATTGTGTCCAAAAGCAAAGAGGCACTTC
1 AAATTAAAGATTGTGTACAAAAGAAAAGAAACACTTC
*
10221353 AAATTAAAGGTTGTGTACAAAA-AAGAAGAAACACTT
1 AAATTAAAGATTGTGTACAAAAGAA-AAGAAACACTT
10221389 ATAAGTCTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 1 0.03
37 29 0.97
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (37 bp):
AAATTAAAGATTGTGTACAAAAGAAAAGAAACACTTC
Found at i:10231565 original size:24 final size:24
Alignment explanation
Indices: 10231538--10231588 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
10231528 TAAAGAATCA
*
10231538 CATGGTTTTATTAAATTATATTAC
1 CATGGTCTTATTAAATTATATTAC
10231562 CATGGTCTTATTAAATTATATTAC
1 CATGGTCTTATTAAATTATATTAC
10231586 CAT
1 CAT
10231589 TACACAGAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (24 bp):
CATGGTCTTATTAAATTATATTAC
Found at i:10233813 original size:14 final size:13
Alignment explanation
Indices: 10233769--10233822 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
10233759 AAATCATAAA
10233769 TAAAAAACAAAAAT
1 TAAAAAA-AAAAAT
* **
10233783 GATAAAAAATGAAT
1 TA-AAAAAAAAAAT
10233797 TAAAAATAAAAAAT
1 TAAAAA-AAAAAAT
10233811 TAAAAAAAAAAA
1 TAAAAAAAAAAA
10233823 GAGGTACGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
13 10 0.31
14 17 0.53
15 5 0.16
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.17
Consensus pattern (13 bp):
TAAAAAAAAAAAT
Found at i:10246578 original size:16 final size:17
Alignment explanation
Indices: 10246540--10246580 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
10246530 TTGGCAAGCA
*
10246540 TCTGCTTT-TACTGTAT
1 TCTGCTTTCTACCGTAT
10246556 T-TGCTTTCTACCGT-T
1 TCTGCTTTCTACCGTAT
10246571 TCTGCTTTCT
1 TCTGCTTTCT
10246581 CGTGCTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.07, C:0.24, G:0.12, T:0.56
Consensus pattern (17 bp):
TCTGCTTTCTACCGTAT
Found at i:10246579 original size:59 final size:59
Alignment explanation
Indices: 10246507--10246623 Score: 198
Period size: 59 Copynumber: 2.0 Consensus size: 59
10246497 TGGCAGGCAT
* * *
10246507 CCGTTTCTGCTTTCTCATGCTTTTTGGCAAGCATCTGCTTTTACTGTATTTGCTTTCTA
1 CCGTTTCTGCTTTCTCATGCTTTTTAGCAAGCATATGCTTTTACTGTATTTACTTTCTA
*
10246566 CCGTTTCTGCTTTCTCGTGCTTTTTAGCAAGCATATGCTTTTACTGTATTTACTTTCT
1 CCGTTTCTGCTTTCTCATGCTTTTTAGCAAGCATATGCTTTTACTGTATTTACTTTCT
10246624 CGTGCTTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.13, C:0.23, G:0.15, T:0.50
Consensus pattern (59 bp):
CCGTTTCTGCTTTCTCATGCTTTTTAGCAAGCATATGCTTTTACTGTATTTACTTTCTA
Found at i:10246677 original size:43 final size:43
Alignment explanation
Indices: 10246573--10246691 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
10246563 CTACCGTTTC
* * *
10246573 TGCTTTCTCGTGCTTTTTAGCAAGCATATGCTTTTACTGTATT
1 TGCTTTCTCGTGCTTTTTGGCAAGCATCTGCTTTTACTATATT
*
10246616 TACTTTCTCGTGCTTTTTGGCAAGCATCTGCTTTTACTATATT
1 TGCTTTCTCGTGCTTTTTGGCAAGCATCTGCTTTTACTATATT
*
10246659 TGCTTTCTCGTACTTTTTGGC-AGACATCTGCTT
1 TGCTTTCTCGTGCTTTTTGGCAAG-CATCTGCTT
10246692 ATTTTTTCCT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 2 0.03
43 67 0.97
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.48
Consensus pattern (43 bp):
TGCTTTCTCGTGCTTTTTGGCAAGCATCTGCTTTTACTATATT
Found at i:10253400 original size:22 final size:21
Alignment explanation
Indices: 10253371--10253412 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
10253361 ACATTTCAAT
**
10253371 TTGGATCGTTTTTGCGGAGTG
1 TTGGATCGTTCCTGCGGAGTG
10253392 TTGGTATCGTTCCTGCGGAGT
1 TTGG-ATCGTTCCTGCGGAGT
10253413 ATATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.10, C:0.14, G:0.36, T:0.40
Consensus pattern (21 bp):
TTGGATCGTTCCTGCGGAGTG
Found at i:10258901 original size:23 final size:22
Alignment explanation
Indices: 10258862--10258906 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
10258852 TTAATATTTA
*
10258862 CAAATTGTTATCTTTAAAATATT
1 CAAATTATTATCTTT-AAATATT
10258885 CAAATTATTAT-TATTAAATATT
1 CAAATTATTATCT-TTAAATATT
10258907 ATTATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (22 bp):
CAAATTATTATCTTTAAATATT
Found at i:10264311 original size:55 final size:54
Alignment explanation
Indices: 10264233--10264418 Score: 203
Period size: 55 Copynumber: 3.4 Consensus size: 54
10264223 GTTAGAGTTA
* * *
10264233 TTTTAGCGTGTCACGGCTATTCCTGGCGTGTTGTGGGTTAACTAGTTATTTGGGT
1 TTTTAGCGTGTCACGGATGTTCCTGGCGTGTCGTGGGTTAACTAGTT-TTTGGGT
* ** * * * * *
10264288 TGTTAATGTGTCACGGATGTTCCTGGGGTGTGGTGGGTTAACTGAATTTATGGAT
1 TTTTAGCGTGTCACGGATGTTCCTGGCGTGTCGTGGGTTAACT-AGTTTTTGGGT
* * *
10264343 TTTTGGCGTGTCAC-AACTGTTCCTGGCGTGTCGTGGGTTAACTGGTTTTTTGGGT
1 TTTTAGCGTGTCACGGA-TGTTCCTGGCGTGTCGTGGGTTAACTAG-TTTTTGGGT
10264398 TTTTAGCGTGTCACGGATGTT
1 TTTTAGCGTGTCACGGATGTT
10264419 GGTGTAACCA
Statistics
Matches: 104, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
54 1 0.01
55 99 0.95
56 4 0.04
ACGTcount: A:0.13, C:0.13, G:0.32, T:0.41
Consensus pattern (54 bp):
TTTTAGCGTGTCACGGATGTTCCTGGCGTGTCGTGGGTTAACTAGTTTTTGGGT
Found at i:10264482 original size:23 final size:23
Alignment explanation
Indices: 10264447--10264507 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
10264437 TTACAGTGAT
* *
10264447 TGGCGTGTCACGACAGTGATGCA
1 TGGCGTGTCACGACACTAATGCA
* * *
10264470 TGGCTTGTAACGATACTAATGCA
1 TGGCGTGTCACGACACTAATGCA
10264493 TGGCGTGTCACGACA
1 TGGCGTGTCACGACA
10264508 TTTGACTTGA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (23 bp):
TGGCGTGTCACGACACTAATGCA
Found at i:10264526 original size:31 final size:31
Alignment explanation
Indices: 10264488--10264569 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
10264478 AACGATACTA
*
10264488 ATGCATGGCGTGTCACGACATTTGAC-TTGAT
1 ATGCATGGCGTGTCACAACATTTGACGTT-AT
* *
10264519 ATGCATGGCGTGTTACAACATTTTACGTTAT
1 ATGCATGGCGTGTCACAACATTTGACGTTAT
* *
10264550 ATGCTTGGCGTGTAACAACA
1 ATGCATGGCGTGTCACAACA
10264570 CGACTGACAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
31 43 0.96
32 2 0.04
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (31 bp):
ATGCATGGCGTGTCACAACATTTGACGTTAT
Found at i:10268088 original size:31 final size:31
Alignment explanation
Indices: 10268053--10268445 Score: 410
Period size: 31 Copynumber: 12.7 Consensus size: 31
10268043 ATAAATATGA
* ***
10268053 GACACGCCATGCATAACAAGAAAAATGAAAT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
*
10268084 GACACGCCATGCATAACAAGTAAAATGTTGT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* *
10268115 GACACGCCATGCATAACAAGTAAATTGTGCT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* ** *
10268146 GACACGCCATGCATAACAAGTTAAACATTGT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* * * *
10268177 GACACACCATGCATAACAATTAAATTGTTTT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* *
10268208 GACTCGCCATGCATAACAAGTAAAATGTTGT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* * * *
10268239 GACACGCCATGCAAAACAAGTAAATTATGCT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* * * *
10268270 GACACGCCGTGCATAACAAGTTAAACGTTGT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* * *
10268301 GACACGCCATGCATAATAATTAAATTGTTCT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* *
10268332 GAC-CTGCCATGCATAGCAAGTAAAATGTTAT
1 GACAC-GCCATGCATAACAAGTAAAATGTTCT
* * *
10268363 GACACACCATGCATAACAAGTAAATTGTGCT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* * * * *
10268394 GGCACACCATGCATAACAATTAAATTGTTTT
1 GACACGCCATGCATAACAAGTAAAATGTTCT
* *
10268425 AACCCGCCATGCATAACAAGT
1 GACACGCCATGCATAACAAGT
10268446 TCTAGTGTGT
Statistics
Matches: 295, Mismatches: 65, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
30 1 0.00
31 293 0.99
32 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (31 bp):
GACACGCCATGCATAACAAGTAAAATGTTCT
Found at i:10268150 original size:62 final size:62
Alignment explanation
Indices: 10268053--10268445 Score: 491
Period size: 62 Copynumber: 6.3 Consensus size: 62
10268043 ATAAATATGA
* * ***
10268053 GACACGCCATGCATAACAAGAAAAATGAAATGACACGCCATGCATAACAAGTAAAATGTTGT
1 GACACGCCATGCATAACAAGTAAATTGTGCTGACACGCCATGCATAACAAGTAAAATGTTGT
* **
10268115 GACACGCCATGCATAACAAGTAAATTGTGCTGACACGCCATGCATAACAAGTTAAACATTGT
1 GACACGCCATGCATAACAAGTAAATTGTGCTGACACGCCATGCATAACAAGTAAAATGTTGT
* * ** *
10268177 GACACACCATGCATAACAATTAAATTGTTTTGACTCGCCATGCATAACAAGTAAAATGTTGT
1 GACACGCCATGCATAACAAGTAAATTGTGCTGACACGCCATGCATAACAAGTAAAATGTTGT
* * * * *
10268239 GACACGCCATGCAAAACAAGTAAATTATGCTGACACGCCGTGCATAACAAGTTAAACGTTGT
1 GACACGCCATGCATAACAAGTAAATTGTGCTGACACGCCATGCATAACAAGTAAAATGTTGT
* * * * *
10268301 GACACGCCATGCATAATAATTAAATTGTTCTGAC-CTGCCATGCATAGCAAGTAAAATGTTAT
1 GACACGCCATGCATAACAAGTAAATTGTGCTGACAC-GCCATGCATAACAAGTAAAATGTTGT
* * * * * *
10268363 GACACACCATGCATAACAAGTAAATTGTGCTGGCACACCATGCATAACAATTAAATTGTTTT
1 GACACGCCATGCATAACAAGTAAATTGTGCTGACACGCCATGCATAACAAGTAAAATGTTGT
* *
10268425 AACCCGCCATGCATAACAAGT
1 GACACGCCATGCATAACAAGT
10268446 TCTAGTGTGT
Statistics
Matches: 280, Mismatches: 49, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
61 1 0.00
62 278 0.99
63 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (62 bp):
GACACGCCATGCATAACAAGTAAATTGTGCTGACACGCCATGCATAACAAGTAAAATGTTGT
Found at i:10268433 original size:124 final size:124
Alignment explanation
Indices: 10268053--10268443 Score: 543
Period size: 124 Copynumber: 3.2 Consensus size: 124
10268043 ATAAATATGA
** * *** *
10268053 GACACGCCATGCATAACAAGAAAAATGAAATGACACGCCATGCATAACAAGTAAAATGTTGTGAC
1 GACACGCCATGCATAACAATTAAATTGTTCTGACTCGCCATGCATAACAAGTAAAATGTTGTGAC
*
10268118 ACGCCATGCATAACAAGTAAATTGTGCTGACACGCCATGCATAACAAGTTAAACATTGT
66 ACGCCATGCATAACAAGTAAATTGTGCTGACACGCCATGCATAACAAGTTAAACGTTGT
* *
10268177 GACACACCATGCATAACAATTAAATTGTTTTGACTCGCCATGCATAACAAGTAAAATGTTGTGAC
1 GACACGCCATGCATAACAATTAAATTGTTCTGACTCGCCATGCATAACAAGTAAAATGTTGTGAC
* * *
10268242 ACGCCATGCAAAACAAGTAAATTATGCTGACACGCCGTGCATAACAAGTTAAACGTTGT
66 ACGCCATGCATAACAAGTAAATTGTGCTGACACGCCATGCATAACAAGTTAAACGTTGT
* * *
10268301 GACACGCCATGCATAATAATTAAATTGTTCTGAC-CTGCCATGCATAGCAAGTAAAATGTTATGA
1 GACACGCCATGCATAACAATTAAATTGTTCTGACTC-GCCATGCATAACAAGTAAAATGTTGTGA
* * * * *
10268365 CACACCATGCATAACAAGTAAATTGTGCTGGCACACCATGCATAACAA-TTAAATTGTTTT
65 CACGCCATGCATAACAAGTAAATTGTGCTGACACGCCATGCATAACAAGTTAAA-CGTTGT
* *
10268425 AACCCGCCATGCATAACAA
1 GACACGCCATGCATAACAA
10268444 GTTCTAGTGT
Statistics
Matches: 237, Mismatches: 28, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
123 6 0.03
124 231 0.97
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.24
Consensus pattern (124 bp):
GACACGCCATGCATAACAATTAAATTGTTCTGACTCGCCATGCATAACAAGTAAAATGTTGTGAC
ACGCCATGCATAACAAGTAAATTGTGCTGACACGCCATGCATAACAAGTTAAACGTTGT
Found at i:10269569 original size:16 final size:15
Alignment explanation
Indices: 10269548--10269621 Score: 64
Period size: 16 Copynumber: 4.8 Consensus size: 15
10269538 TATAATGAAT
10269548 TGTATACAATAAATTG
1 TGTATACAA-AAATTG
*
10269564 TGTATACAAAAAATG
1 TGTATACAAAAATTG
10269579 TGTATA-AAATGAA-T-
1 TGTATACAAA--AATTG
*
10269593 TGTATACAAAAATTTC
1 TGTATACAAAAA-TTG
10269609 TGTATACCAAAAA
1 TGTATA-CAAAAA
10269622 AATTATACAG
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
13 2 0.04
14 9 0.18
15 16 0.32
16 17 0.34
17 6 0.12
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (15 bp):
TGTATACAAAAATTG
Found at i:10271118 original size:31 final size:31
Alignment explanation
Indices: 10271080--10271378 Score: 282
Period size: 31 Copynumber: 9.6 Consensus size: 31
10271070 AACCATAAAT
*
10271080 AGTAAAATGTTGTGACACG-CAGTGCATACCA
1 AGTAAAATGTTGTGACACGCCA-TGCATAACA
* * *
10271111 AGTAAAATGTTGTCACACGACATGCAAAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
**
10271142 AGTAAAATGTCATGACACGCCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* * * * *
10271173 AGATAAACT-TGGTGACACGCCAAGGATAACG
1 AG-TAAAATGTTGTGACACGCCATGCATAACA
* *
10271204 AGGAAAATGTTGTGACACGCCATGCAAAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* *
10271235 ATTAAAATGTTGCGACACGCCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* * * *
10271266 AGATAAACT-TGGTGACACGCCAAGGATAACA
1 AG-TAAAATGTTGTGACACGCCATGCATAACA
* * * *
10271297 AGCAAAATGCTCT-AGCACGCCATGCATATCA
1 AGTAAAATGTTGTGA-CACGCCATGCATAACA
* * * *
10271328 AATCAAACGTTGTGACACGCCATGAATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
*
10271359 AGTAAAATATTGTGACACGC
1 AGTAAAATGTTGTGACACGC
10271379 TAAAGCTGAC
Statistics
Matches: 210, Mismatches: 51, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
30 9 0.04
31 188 0.90
32 13 0.06
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (31 bp):
AGTAAAATGTTGTGACACGCCATGCATAACA
Found at i:10271232 original size:93 final size:92
Alignment explanation
Indices: 10271109--10271378 Score: 335
Period size: 93 Copynumber: 2.9 Consensus size: 92
10271099 CAGTGCATAC
* * * **
10271109 CAAGTAAAATGTTGTCACACGACATGCAAAACAAGTAAAATGTCATGACACGCCATGCATAACAA
1 CAAGCAAAATGTTGT-ACACGCCATGCAAAACAAATAAAATGTTGTGACACGCCATGCATAACAA
10271174 GATAAACTTGGTGACACGCCAAGGATAA
65 GATAAACTTGGTGACACGCCAAGGATAA
* * * *
10271202 CGAGGAAAATGTTGTGACACGCCATGCAAAACAATTAAAATGTTGCGACACGCCATGCATAACAA
1 CAAGCAAAATGTTGT-ACACGCCATGCAAAACAAATAAAATGTTGTGACACGCCATGCATAACAA
10271267 GATAAACTTGGTGACACGCCAAGGATAA
65 GATAAACTTGGTGACACGCCAAGGATAA
* * * * * * *
10271295 CAAGCAAAATGCTCTAGCACGCCATGCATATCAAATCAAACGTTGTGACACGCCATGAATAACAA
1 CAAGCAAAATGTTGTA-CACGCCATGCAAAACAAATAAAATGTTGTGACACGCCATGCATAACAA
* *
10271360 G-TAAAATATTGTGACACGC
65 GATAAACT-TGGTGACACGC
10271379 TAAAGCTGAC
Statistics
Matches: 154, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
92 6 0.04
93 148 0.96
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (92 bp):
CAAGCAAAATGTTGTACACGCCATGCAAAACAAATAAAATGTTGTGACACGCCATGCATAACAAG
ATAAACTTGGTGACACGCCAAGGATAA
Found at i:10272029 original size:156 final size:156
Alignment explanation
Indices: 10271743--10272190 Score: 646
Period size: 156 Copynumber: 2.9 Consensus size: 156
10271733 AACTACAATA
*
10271743 ACATATATAACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTACAACTTT
1 ACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTT
* ** * * * *
10271808 AATATCCTAACCGGTGGCTTGTTAGCAGTCTGCAGTGGAGCCGGACCGATCGGTGGTTCAGGACC
66 AATATCCTTACCGCCGGCTCGTTAGCTGTCTGCGGTGGAGCCGGACCGATCGGTGCTTCAGGACC
*
10271873 TGTCGTCGC-TTTCGCATACTGTAATT
131 TGTCGTC-CTTTTCGCAAACTGTAATT
* *
10271899 ACATATATAAATGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTC
1 ACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTT
* * * *
10271964 AATATCCTTACCGCCGGCTCGTTAGCTGTCTGTGGTGGAGCCGGACCTATCTGTGCTTCAAGACC
66 AATATCCTTACCGCCGGCTCGTTAGCTGTCTGCGGTGGAGCCGGACCGATCGGTGCTTCAGGACC
*
10272029 TGTCATCCTTTTCGCAAACTGTAATT
131 TGTCGTCCTTTTCGCAAACTGTAATT
* * * *
10272055 ACATATATAACTATGTTATTTAATAATCATGTATGAAATTGTTGAACATTAACTGTTACAACTTT
1 ACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTT
* * ** * *
10272120 AATATCCTTACCGCCAGCTCATTAGCTGTCTGCGGTTAAGCTGGACCGATCGGTGCTTGAGGACC
66 AATATCCTTACCGCCGGCTCGTTAGCTGTCTGCGGTGGAGCCGGACCGATCGGTGCTTCAGGACC
10272185 TGTCGT
131 TGTCGT
10272191 GACTTCCGTA
Statistics
Matches: 258, Mismatches: 33, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
155 1 0.00
156 257 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (156 bp):
ACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTT
AATATCCTTACCGCCGGCTCGTTAGCTGTCTGCGGTGGAGCCGGACCGATCGGTGCTTCAGGACC
TGTCGTCCTTTTCGCAAACTGTAATT
Found at i:10272204 original size:156 final size:155
Alignment explanation
Indices: 10271743--10272268 Score: 640
Period size: 156 Copynumber: 3.4 Consensus size: 155
10271733 AACTACAATA
* *
10271743 ACATATATAACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTACAACTTT
1 ACATATATAACTATGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTT
* ** * * * *
10271808 AATATCCTAACCGGTGGCTTGTTAGCAGTCTGCAGTGGAGCCGGACCGATCGGTGGTTCAGGACC
66 AATATCCTTACCGCCGGCTCGTTAGCTGTCTGCGGTGGAGCCGGACCGATCGGTGCTTCAGGACC
*
10271873 TGTCGTCGCTTTCGCATACTGTAATT
131 TGTCGT-GCTTTCGCAAACTGTAATT
* * *
10271899 ACATATATAAATGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTC
1 ACATATATAACTATGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTT
* * * *
10271964 AATATCCTTACCGCCGGCTCGTTAGCTGTCTGTGGTGGAGCCGGACCTATCTGTGCTTCAAGACC
66 AATATCCTTACCGCCGGCTCGTTAGCTGTCTGCGGTGGAGCCGGACCGATCGGTGCTTCAGGACC
* *
10272029 TGTCATCCTTTTCGCAAACTGTAATT
131 TGTCGTGC-TTTCGCAAACTGTAATT
* * *
10272055 ACATATATAACTATGTTATTTAATAATCATGTATGAAATTGTTGAACATTAACTGTTACAACTTT
1 ACATATATAACTATGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTT
* * ** * *
10272120 AATATCCTTACCGCCAGCTCATTAGCTGTCTGCGGTTAAGCTGGACCGATCGGTGCTTGAGGACC
66 AATATCCTTACCGCCGGCTCGTTAGCTGTCTGCGGTGGAGCCGGACCGATCGGTGCTTCAGGACC
* * *
10272185 TGTCGTGACTTCCGTAAACTATAATT
131 TGTCGTG-CTTTCGCAAACTGTAATT
* * * ** * * * * *
10272211 ACAGAAATTACTATGTTGCTCAATAAACATATGTGGGAA-TGTAGAACATAAACCGTTA
1 ACATATATAACTATGTTATTCAATAATCATGTAT-GGAATTGTTGAACATTAACCGTTA
10272269 GAACCGATCT
Statistics
Matches: 316, Mismatches: 51, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
155 1 0.00
156 311 0.98
157 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (155 bp):
ACATATATAACTATGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTT
AATATCCTTACCGCCGGCTCGTTAGCTGTCTGCGGTGGAGCCGGACCGATCGGTGCTTCAGGACC
TGTCGTGCTTTCGCAAACTGTAATT
Found at i:10273896 original size:31 final size:31
Alignment explanation
Indices: 10273858--10274092 Score: 267
Period size: 31 Copynumber: 7.6 Consensus size: 31
10273848 AATAAGGAAT
***
10273858 AAATGTTGTGACACGCCATGCATTGTAA-TCA
1 AAATGTTGTGACACGCCATGCATAACAAGT-A
10273889 AAATGTTGTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
10273920 AAATGTTATGACACGCCATGCATAACAAGTT
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
10273951 AAACGTTATGACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
10273982 AAATGTTGTTACACGCCATGCATAACAAGTC
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
10274013 AAAT-TCTGTGACACGCTATGCATATCAAGTA
1 AAATGT-TGTGACACGCCATGCATAACAAGTA
* * * * *
10274044 AAATGTTGTCACATGCTATACATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
10274075 AAATGCTGTCACACGCCA
1 AAATGTTGTGACACGCCA
10274093 ATAACTAACT
Statistics
Matches: 178, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
30 1 0.01
31 175 0.98
32 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGTA
Found at i:10274625 original size:53 final size:52
Alignment explanation
Indices: 10274561--10274679 Score: 157
Period size: 53 Copynumber: 2.3 Consensus size: 52
10274551 TCTATTTCAA
* * *
10274561 ACCATGACGTGTCAGCTGCTCAAGCACTGCCGTGTCACACACTCTAAACCATG
1 ACCATGGCGTGTCAACTGCTCAAGCAATGCCGTGTCACACACTCTAAA-CATG
** * *
10274614 ACCATGGCGTGTCAACTTTTTAAGCAATGTCGTGTCACACACTCTAAACATG
1 ACCATGGCGTGTCAACTGCTCAAGCAATGCCGTGTCACACACTCTAAACATG
*
10274666 ACCATGGCATGTCA
1 ACCATGGCGTGTCA
10274680 CCAACTCTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
52 17 0.29
53 41 0.71
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (52 bp):
ACCATGGCGTGTCAACTGCTCAAGCAATGCCGTGTCACACACTCTAAACATG
Found at i:10274736 original size:47 final size:47
Alignment explanation
Indices: 10274667--10275040 Score: 390
Period size: 47 Copynumber: 8.0 Consensus size: 47
10274657 CTAAACATGA
* * * *
10274667 CCATGGCATGTCACCAACTCTGAACTCTGGCATGTCACAGATTCCCT
1 CCATGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCT
*
10274714 CCATGGCGTCTCACCAACTCTGAACGCTAGCGTGTCACAGATTCCCT
1 CCATGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCT
* * * * * * * ***
10274761 TCATGGCGTGTCACCAACTCTTAACTCTAGCGTCTCACAAATTTAAT
1 CCATGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCT
* * *
10274808 CCATGGGGTCTCACCAACTCTGAACGCTGGCGTGTCACAGTTTCCTT
1 CCATGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCT
* * * * *
10274855 CCATGCCGTATCACCAACTCTTAA-TCTAGCGTGTCACAGATTCCCT
1 CCATGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCT
* * * *
10274901 CCATGGCATCTCACCAACTCTGAACGCTGCCGTGTCATAGATTCCCA
1 CCATGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCT
* * * * * *
10274948 CCATGGCGTGTCACCAACTCTTAACTCTGGCGTCTCATAGATTTCCT
1 CCATGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCT
* * * * * *
10274995 CCACGGCGTCTCACCAACTCTGAGCGGTGCCATGTCACACATTCCC
1 CCATGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCC
10275041 AACATGACGT
Statistics
Matches: 263, Mismatches: 63, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
46 38 0.14
47 225 0.86
ACGTcount: A:0.22, C:0.34, G:0.17, T:0.26
Consensus pattern (47 bp):
CCATGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCT
Found at i:10275014 original size:187 final size:188
Alignment explanation
Indices: 10274677--10275017 Score: 533
Period size: 187 Copynumber: 1.8 Consensus size: 188
10274667 CCATGGCATG
* *
10274677 TCACCAACTCTGAACTCTGGCATGTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGAACGCT
1 TCACCAACTCTGAACTCTAGCATGTCACAGATTCCCTCCATGGCATCTCACCAACTCTGAACGCT
**
10274742 AGCGTGTCACAGATTCCCTTCATGGCGTGTCACCAACTCTTAACTCTAGCGTCTCACAAATTTAA
66 AGCGTGTCACAGATTCCCACCATGGCGTGTCACCAACTCTTAACTCTAGCGTCTCACAAATTTAA
* *
10274807 TCCATGGGGTCTCACCAACTCTGAACGCTGGCGTGTCACAGTTTCCTTCCATGCCGTA
131 TCCACGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGTTTCCTTCCATGCCGTA
* *
10274865 TCACCAACTCTTAA-TCTAGCGTGTCACAGATTCCCTCCATGGCATCTCACCAACTCTGAACGCT
1 TCACCAACTCTGAACTCTAGCATGTCACAGATTCCCTCCATGGCATCTCACCAACTCTGAACGCT
* * * * *
10274929 -GCCGTGTCATAGATTCCCACCATGGCGTGTCACCAACTCTTAACTCTGGCGTCTCATAGATTTC
66 AG-CGTGTCACAGATTCCCACCATGGCGTGTCACCAACTCTTAACTCTAGCGTCTCACAAATTTA
*
10274993 CTCCACGGCGTCTCACCAACTCTGA
130 ATCCACGGCGTCTCACCAACTCTGA
10275018 GCGGTGCCAT
Statistics
Matches: 138, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
186 1 0.01
187 124 0.90
188 13 0.09
ACGTcount: A:0.22, C:0.34, G:0.17, T:0.27
Consensus pattern (188 bp):
TCACCAACTCTGAACTCTAGCATGTCACAGATTCCCTCCATGGCATCTCACCAACTCTGAACGCT
AGCGTGTCACAGATTCCCACCATGGCGTGTCACCAACTCTTAACTCTAGCGTCTCACAAATTTAA
TCCACGGCGTCTCACCAACTCTGAACGCTGGCGTGTCACAGTTTCCTTCCATGCCGTA
Found at i:10275041 original size:94 final size:94
Alignment explanation
Indices: 10274666--10275062 Score: 474
Period size: 94 Copynumber: 4.2 Consensus size: 94
10274656 TCTAAACATG
* * * * *
10274666 ACCATGGCATGTCACCAACTCTGAACTCTGGCATGTCACAGATTCCCTCCATGGCGTCTCACCAA
1 ACCATGGCGTGTCACCAACTCTTAACTCTAGCGTCTCACAGATTCCCTCCATGGCGTCTCACCAA
10274731 CTCTGAACGCTAG-CGTGTCACAGATTCCC
66 CTCTGAACGCT-GCCGTGTCACAGATTCCC
** * *** *
10274760 TTCATGGCGTGTCACCAACTCTTAACTCTAGCGTCTCACAAATTTAATCCATGGGGTCTCACCAA
1 ACCATGGCGTGTCACCAACTCTTAACTCTAGCGTCTCACAGATTCCCTCCATGGCGTCTCACCAA
* * *
10274825 CTCTGAACGCTGGCGTGTCACAGTTTCCT
66 CTCTGAACGCTGCCGTGTCACAGATTCCC
* * * * *
10274854 TCCATGCCGTATCACCAACTCTTAA-TCTAGCGTGTCACAGATTCCCTCCATGGCATCTCACCAA
1 ACCATGGCGTGTCACCAACTCTTAACTCTAGCGTCTCACAGATTCCCTCCATGGCGTCTCACCAA
*
10274918 CTCTGAACGCTGCCGTGTCATAGATTCCC
66 CTCTGAACGCTGCCGTGTCACAGATTCCC
* * * *
10274947 ACCATGGCGTGTCACCAACTCTTAACTCTGGCGTCTCATAGATTTCCTCCACGGCGTCTCACCAA
1 ACCATGGCGTGTCACCAACTCTTAACTCTAGCGTCTCACAGATTCCCTCCATGGCGTCTCACCAA
* * * *
10275012 CTCTGAGCGGTGCCATGTCACACATTCCC
66 CTCTGAACGCTGCCGTGTCACAGATTCCC
* * * *
10275041 AACATGACGTTTCACAAACTCT
1 ACCATGGCGTGTCACCAACTCT
10275063 AAACCCTGCC
Statistics
Matches: 255, Mismatches: 46, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
93 80 0.31
94 175 0.69
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (94 bp):
ACCATGGCGTGTCACCAACTCTTAACTCTAGCGTCTCACAGATTCCCTCCATGGCGTCTCACCAA
CTCTGAACGCTGCCGTGTCACAGATTCCC
Found at i:10284117 original size:2 final size:2
Alignment explanation
Indices: 10284104--10284139 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
10284094 ATATTTCTTG
*
10284104 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10284140 GCAAGGTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10288653 original size:9 final size:8
Alignment explanation
Indices: 10288643--10288684 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
10288633 AAATAATTTA
10288643 TTCTTTTT
1 TTCTTTTT
10288651 ATTCTATTTT
1 -TTCT-TTTT
*
10288661 TTCTCTTT
1 TTCTTTTT
10288669 TTCTTTTT
1 TTCTTTTT
10288677 TTCTTTTT
1 TTCTTTTT
10288685 CATGGGCCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 18 0.60
9 8 0.27
10 4 0.13
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (8 bp):
TTCTTTTT
Found at i:10296178 original size:36 final size:36
Alignment explanation
Indices: 10296110--10296178 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
10296100 AAGGTAGAGT
* * *
10296110 GGTTGTGCTTAATCTATAAAAGGTATTGTATTGTAA
1 GGTTGTGCTTAATCCATAAAAGGCATTATATTGTAA
* *
10296146 GGTTGTGCTTGATCCATAAAATGCATTATATTG
1 GGTTGTGCTTAATCCATAAAAGGCATTATATTG
10296179 AACTTGATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.41
Consensus pattern (36 bp):
GGTTGTGCTTAATCCATAAAAGGCATTATATTGTAA
Found at i:10298279 original size:25 final size:24
Alignment explanation
Indices: 10298243--10298295 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
10298233 GTCAGTCCAT
*
10298243 TTTTTAT-TTTTTTCAAAAAAATTA
1 TTTTTATATTTTAT-AAAAAAATTA
*
10298267 TTTTTATAATTTTATAATAAAATTA
1 TTTTTAT-ATTTTATAAAAAAATTA
10298292 TTTT
1 TTTT
10298296 ATGATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.28
25 13 0.52
26 5 0.20
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTTATATTTTATAAAAAAATTA
Found at i:10303805 original size:14 final size:14
Alignment explanation
Indices: 10303786--10303814 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10303776 ACCAAAGATT
10303786 CCCACACATCAGAC
1 CCCACACATCAGAC
10303800 CCCACACATCAGAC
1 CCCACACATCAGAC
10303814 C
1 C
10303815 GCAGGCCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.52, G:0.07, T:0.07
Consensus pattern (14 bp):
CCCACACATCAGAC
Found at i:10311385 original size:6 final size:6
Alignment explanation
Indices: 10311374--10311405 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
10311364 AAAAACAAAC
10311374 AAATAT AAATAT AAATAT AAATAT AAAT-T AAA
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAA
10311406 AAAATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:10314434 original size:20 final size:19
Alignment explanation
Indices: 10314389--10314434 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
10314379 AATTAACTAT
* *
10314389 TTTTATCATTATATTTTTT
1 TTTTATCATTATATCTTTG
10314408 TTATTATCATTATATCCTTTG
1 TT-TTATCATTATAT-CTTTG
10314429 TTTTAT
1 TTTTAT
10314435 TTTTTTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 16 0.70
21 5 0.22
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATCATTATATCTTTG
Found at i:10314918 original size:24 final size:24
Alignment explanation
Indices: 10314881--10314945 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 24
10314871 TTTCACAAAT
* *
10314881 TTATTATATATATTTGAAT-TATCA
1 TTATTATTTTTATTT-AATCTATCA
* *
10314905 TTATTATTTTTATTTTATCTATTA
1 TTATTATTTTTATTTAATCTATCA
10314929 TTATTTATTTATTATTT
1 TTA-TTATTT-TTATTT
10314946 TTTTAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 20 0.59
25 6 0.18
26 6 0.18
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (24 bp):
TTATTATTTTTATTTAATCTATCA
Found at i:10318846 original size:172 final size:171
Alignment explanation
Indices: 10318554--10318896 Score: 623
Period size: 172 Copynumber: 2.0 Consensus size: 171
10318544 TAATTTTGAA
* *
10318554 TACCTGGTTTACTGTATCACTATGTGTATGAATTTATTTTGTTCTTACGCTACAAAAATTATTTA
1 TACCTAGTTTACTGTATCACTATGTGTATGAATTTATTTTGTTCTCACGCTACAAAAATTATTTA
10318619 TGCATAGTTCTATAAAAATTGTTTTATAAGAAAATGGAATATATTATCGAATATTTTTATTTAGT
66 TGCATAGTTCTATAAAAATTGTTTTATAAGAAAATGGAATATATTATCGAATATTTTTATTTAGT
10318684 CTAATTAGCCAACTTTTCACTCCAAATGGATGATTTAGATT
131 CTAATTAGCCAACTTTTCACTCCAAATGGATGATTTAGATT
* *
10318725 NTACCTAGTTTACTGTATCACTATGTTTATGAATTTATTTTGTTCTCACTCTACAAAAATTATTT
1 -TACCTAGTTTACTGTATCACTATGTGTATGAATTTATTTTGTTCTCACGCTACAAAAATTATTT
*
10318790 ATGCATAGTTCTATAAAATTTGTTTTATAAGAAAATGGAATATATTATCGAATATTTTTATTTAG
65 ATGCATAGTTCTATAAAAATTGTTTTATAAGAAAATGGAATATATTATCGAATATTTTTATTTAG
*
10318855 TCTAATTAGCCAACTTTTCACTCCAAATGGATTATTTAGATT
130 TCTAATTAGCCAACTTTTCACTCCAAATGGATGATTTAGATT
10318897 ACAAAAATTT
Statistics
Matches: 165, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
172 165 1.00
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (171 bp):
TACCTAGTTTACTGTATCACTATGTGTATGAATTTATTTTGTTCTCACGCTACAAAAATTATTTA
TGCATAGTTCTATAAAAATTGTTTTATAAGAAAATGGAATATATTATCGAATATTTTTATTTAGT
CTAATTAGCCAACTTTTCACTCCAAATGGATGATTTAGATT
Found at i:10321871 original size:22 final size:24
Alignment explanation
Indices: 10321845--10321900 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
10321835 TAAGTTTGAT
*
10321845 TTATTTATTTA-TTTTATTTTTAA
1 TTATTTATTTATTTTTAATTTTAA
*
10321868 -TATTT-TTAATTTTTAATTTTAA
1 TTATTTATTTATTTTTAATTTTAA
*
10321890 TTTTTTATTTA
1 TTATTTATTTA
10321901 ATAATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
21 3 0.12
22 16 0.62
23 4 0.15
24 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (24 bp):
TTATTTATTTATTTTTAATTTTAA
Found at i:10321881 original size:7 final size:7
Alignment explanation
Indices: 10321856--10321942 Score: 52
Period size: 7 Copynumber: 12.1 Consensus size: 7
10321846 TATTTATTTA
10321856 TTTT-AT
1 TTTTAAT
10321862 TTTTAATAT
1 TTTT-A-AT
10321871 TTTTAAT
1 TTTTAAT
10321878 TTTTAA-
1 TTTTAAT
10321884 TTTTAAT
1 TTTTAAT
*
10321891 TTTTTAT
1 TTTTAAT
*
10321898 TTAATAAT
1 TT-TTAAT
*
10321906 TTTTACT
1 TTTTAAT
*** *
10321913 GGGTGAT
1 TTTTAAT
*
10321920 TTTGATAT
1 TTTTA-AT
10321928 TTTTAAT
1 TTTTAAT
10321935 TTTTAAT
1 TTTTAAT
10321942 T
1 T
10321943 CTTTGCTTTT
Statistics
Matches: 59, Mismatches: 16, Indels: 11
0.69 0.19 0.13
Matches are distributed among these distances:
6 10 0.17
7 31 0.53
8 12 0.20
9 6 0.10
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.67
Consensus pattern (7 bp):
TTTTAAT
Found at i:10321889 original size:13 final size:13
Alignment explanation
Indices: 10321871--10321910 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
10321861 TTTTTAATAT
10321871 TTTTAATTTTTAA
1 TTTTAATTTTTAA
*
10321884 TTTTAATTTTTTA
1 TTTTAATTTTTAA
10321897 TTTAATAATTTTTA
1 TTT--TAATTTTTA
10321911 CTGGGTGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 15 0.65
15 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:10321905 original size:21 final size:22
Alignment explanation
Indices: 10321862--10321908 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
10321852 TTTATTTTAT
*
10321862 TTTTAATATTTTTAATTTTTAA
1 TTTTAATATTTTTAATTTATAA
10321884 TTTTAAT-TTTTT-ATTTAATAA
1 TTTTAATATTTTTAATTT-ATAA
10321905 TTTT
1 TTTT
10321909 TACTGGGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 12 0.52
22 7 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTAATATTTTTAATTTATAA
Found at i:10323747 original size:7 final size:7
Alignment explanation
Indices: 10323704--10323753 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
10323694 ATTTTTATTT
10323704 TTAAT-A
1 TTAATAA
10323710 TTAATAA
1 TTAATAA
*
10323717 TTTATAA
1 TTAATAA
10323724 TTAATTAA
1 TTAA-TAA
10323732 --AAT-A
1 TTAATAA
10323736 TTAATAA
1 TTAATAA
10323743 TTAATAA
1 TTAATAA
10323750 TTAA
1 TTAA
10323754 ATATCAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
4 1 0.03
5 1 0.03
6 10 0.27
7 22 0.59
8 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TTAATAA
Found at i:10323756 original size:15 final size:13
Alignment explanation
Indices: 10323704--10323799 Score: 51
Period size: 13 Copynumber: 7.5 Consensus size: 13
10323694 ATTTTTATTT
10323704 TTAATATTAATAA
1 TTAATATTAATAA
*
10323717 TTTATAATTAATTAA
1 TTAAT-ATTAA-TAA
10323732 --AATATTAATAA
1 TTAATATTAATAA
10323743 TTAATAATTAA-ATA
1 TTAAT-ATTAATA-A
* * *
10323757 TCAATATT-TTAG
1 TTAATATTAATAA
*
10323769 TATAAT-TTAATTA
1 T-TAATATTAATAA
*
10323782 TTAATATT-TTAA
1 TTAATATTAATAA
10323794 TTAATA
1 TTAATA
10323800 ATATTTTTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 21
0.66 0.12 0.22
Matches are distributed among these distances:
11 3 0.05
12 20 0.32
13 21 0.34
14 15 0.24
15 3 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (13 bp):
TTAATATTAATAA
Found at i:10323787 original size:25 final size:24
Alignment explanation
Indices: 10323746--10323792 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
10323736 TTAATAATTA
10323746 ATAATTAAATATCAATATTTTAGT
1 ATAATTAAATATCAATATTTTAGT
* *
10323770 ATAATTTAATTATTAATATTTTA
1 ATAA-TTAAATATCAATATTTTA
10323793 ATTAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
ATAATTAAATATCAATATTTTAGT
Found at i:10323801 original size:15 final size:15
Alignment explanation
Indices: 10323774--10323816 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
10323764 TTTAGTATAA
*
10323774 TTTAATTATTAATAT
1 TTTAATTAATAATAT
10323789 TTTAATTAATAATAT
1 TTTAATTAATAATAT
* *
10323804 TTTTATTTATAAT
1 TTTAATTAATAAT
10323817 TTAATATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTAATTAATAATAT
Found at i:10323812 original size:20 final size:20
Alignment explanation
Indices: 10323789--10323854 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
10323779 TTATTAATAT
10323789 TTTAATTAATAATATTTTTA
1 TTTAATTAATAATATTTTTA
* * *
10323809 TTTATAATTTAATATTATTATGA
1 -TT-TAA-TTAATAATATTTTTA
* * *
10323832 TTAAAATATTAATATTTTTA
1 TTTAATTAATAATATTTTTA
10323852 TTT
1 TTT
10323855 TTTATTTATA
Statistics
Matches: 33, Mismatches: 10, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
20 12 0.36
21 4 0.12
22 5 0.15
23 12 0.36
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTAATTAATAATATTTTTA
Found at i:10323919 original size:26 final size:24
Alignment explanation
Indices: 10323872--10323955 Score: 89
Period size: 24 Copynumber: 3.3 Consensus size: 24
10323862 ATACTCATTN
10323872 ATTAATATTTAATATTTT-AATTAT
1 ATTAATA-TTAATATTTTAAATTAT
10323896 ATTAATATTAATAATGTTTAAATTAT
1 ATTAATATTAAT-AT-TTTAAATTAT
*
10323922 ATATAAAATATTAATATTTTAAATTTT
1 AT-T--AATATTAATATTTTAAATTAT
*
10323949 ATAAATA
1 ATTAATA
10323956 ATTTTTTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
23 5 0.10
24 13 0.25
25 3 0.06
26 8 0.15
27 12 0.23
28 2 0.04
29 9 0.17
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (24 bp):
ATTAATATTAATATTTTAAATTAT
Found at i:10325829 original size:4 final size:4
Alignment explanation
Indices: 10325822--10325849 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
10325812 GGTGATATAT
10325822 ATGA ATGA ATGA ATGA ATGA ATGA ATGA
1 ATGA ATGA ATGA ATGA ATGA ATGA ATGA
10325850 GAGGCAAAGA
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:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
ATGA
Found at i:10330064 original size:27 final size:27
Alignment explanation
Indices: 10330034--10330089 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
10330024 GTTCTCCCTC
10330034 AGGTAATC-CTGAATCCCATATCTGATG
1 AGGTAATCTC-GAATCCCATATCTGATG
* *
10330061 AGGTAATTTCGAATCCCATATTTGATG
1 AGGTAATCTCGAATCCCATATCTGATG
10330088 AG
1 AG
10330090 TCCCATGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (27 bp):
AGGTAATCTCGAATCCCATATCTGATG
Found at i:10330102 original size:33 final size:33
Alignment explanation
Indices: 10330065--10330132 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
10330055 CTGATGAGGT
* *
10330065 AATTTCGAATCCCATATTTGATGAGTCCCATGA
1 AATTTCGAATCCCATATCTGATAAGTCCCATGA
*
10330098 AATTTCGAATCTCATATCTGATAAGTCCCATGA
1 AATTTCGAATCCCATATCTGATAAGTCCCATGA
10330131 AA
1 AA
10330133 CACATGTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (33 bp):
AATTTCGAATCCCATATCTGATAAGTCCCATGA
Found at i:10339351 original size:11 final size:12
Alignment explanation
Indices: 10339331--10339367 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
10339321 AGTTATTATT
10339331 TTTCATAATAAC
1 TTTCATAATAAC
10339343 TTT-ATAATAA-
1 TTTCATAATAAC
10339353 TTTCATAATAAC
1 TTTCATAATAAC
10339365 TTT
1 TTT
10339368 TAAATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.13
11 14 0.61
12 6 0.26
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (12 bp):
TTTCATAATAAC
Found at i:10341069 original size:2 final size:2
Alignment explanation
Indices: 10341062--10341094 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10341052 TAGTTATTAC
*
10341062 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10341095 TAGGAACTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10345230 original size:12 final size:12
Alignment explanation
Indices: 10345213--10345237 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10345203 ATTATTAATT
10345213 ACTAGATTCACA
1 ACTAGATTCACA
10345225 ACTAGATTCACA
1 ACTAGATTCACA
10345237 A
1 A
10345238 TTAAATCTCT
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:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (12 bp):
ACTAGATTCACA
Found at i:10365064 original size:110 final size:110
Alignment explanation
Indices: 10364879--10365141 Score: 420
Period size: 110 Copynumber: 2.4 Consensus size: 110
10364869 CCAACAGCTA
*
10364879 TGACACGCTAAAAACTCAATAAACCAGTTAACCCACAACACGCTAGGAACAGCCGTGACACACCA
1 TGACACGCTAAAAACTCAAAAAACCAGTTAACCCACAACACGCTAGGAACAGCCGTGACACACCA
10364944 AAAACCCAAAAAACCAATTAACCCACAACACGCCAGGAACAGTCG
66 AAAACCCAAAAAACCAATTAACCCACAACACGCCAGGAACAGTCG
* * * *
10364989 TGACACGCCAAAAA-TCAAAAAATCCAGTTAACCCACAACACGCTAGGAACAGCTGTGACACTCT
1 TGACACGCTAAAAACTCAAAAAA-CCAGTTAACCCACAACACGCTAGGAACAGCCGTGACACACC
* * * *
10365053 AAAAATCCAAAAAACCAATTAACCCACAACATGCCATGAATAGTCG
65 AAAAACCCAAAAAACCAATTAACCCACAACACGCCAGGAACAGTCG
*
10365099 TGACATGCTAAAAACTCAAAAAACCAGTTAACCCACAACACGC
1 TGACACGCTAAAAACTCAAAAAACCAGTTAACCCACAACACGC
10365142 CATATGCAGA
Statistics
Matches: 140, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
109 7 0.05
110 125 0.89
111 8 0.06
ACGTcount: A:0.45, C:0.30, G:0.12, T:0.13
Consensus pattern (110 bp):
TGACACGCTAAAAACTCAAAAAACCAGTTAACCCACAACACGCTAGGAACAGCCGTGACACACCA
AAAACCCAAAAAACCAATTAACCCACAACACGCCAGGAACAGTCG
Found at i:10365144 original size:55 final size:55
Alignment explanation
Indices: 10364879--10365143 Score: 347
Period size: 55 Copynumber: 4.8 Consensus size: 55
10364869 CCAACAGCTA
* * *
10364879 TGACACGCTAAAAACTCAATAAACCAGTTAACCCACAACACGCTAGGAACAGCCG
1 TGACACGCTAAAAACTCAAAAAACCAGTTAACCCACAACACGCCAGGAACAGTCG
* * * *
10364934 TGACACACCAAAAACCCAAAAAACCAATTAACCCACAACACGCCAGGAACAGTCG
1 TGACACGCTAAAAACTCAAAAAACCAGTTAACCCACAACACGCCAGGAACAGTCG
* *
10364989 TGACACGCCAAAAA-TCAAAAAATCCAGTTAACCCACAACACGCTAGGAACAG-CTG
1 TGACACGCTAAAAACTCAAAAAA-CCAGTTAACCCACAACACGCCAGGAACAGTC-G
* * * * *
10365044 TGACACTCTAAAAA-TCCAAAAAACCAATTAACCCACAACATGCCATGAATAGTCG
1 TGACACGCTAAAAACT-CAAAAAACCAGTTAACCCACAACACGCCAGGAACAGTCG
*
10365099 TGACATGCTAAAAACTCAAAAAACCAGTTAACCCACAACACGCCA
1 TGACACGCTAAAAACTCAAAAAACCAGTTAACCCACAACACGCCA
10365144 TATGCAGACG
Statistics
Matches: 183, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
54 8 0.04
55 166 0.91
56 9 0.05
ACGTcount: A:0.45, C:0.31, G:0.12, T:0.13
Consensus pattern (55 bp):
TGACACGCTAAAAACTCAAAAAACCAGTTAACCCACAACACGCCAGGAACAGTCG
Found at i:10365768 original size:104 final size:102
Alignment explanation
Indices: 10365646--10366412 Score: 623
Period size: 104 Copynumber: 7.5 Consensus size: 102
10365636 ACACGTCTGA
* * * *
10365646 CCATTGCGTGTCACACACTGTAAAAGCTGCTGTCTCACACCCGTCTCACATATTTTCATCGTGCC
1 CCATGGCGTGTCACACACTCTAAAAGCTGCTGTGTCACACCCGTCTCACATATTATCA-CGTGCC
* * *
10365711 GTCTCACACATTATCACCTTGCAGTGTTACAGATTCCCT
65 GTCTCACACATTATCACCCTGC-GTGTCACAGATTTCCT
* ** * * *
10365750 CCATGGCGTGTCACACACTTTAAACCCTGCCGTGTCA-ACCCGTGTCACACATTATCACTGTGCC
1 CCATGGCGTGTCACACACTCTAAAAGCTGCTGTGTCACACCCGTCTCACATATTATCAC-GTGCC
* * * ***
10365814 -TTTCACACATTATGACCCTGCCATGTCACACG-TTTTGA
65 GTCTCACACATTATCACCCTG-CGTGTCACA-GATTTCCT
* *
10365852 CCATGGCGTGTCACACACTCTAAAAGCTGCTGTCTCACACCCGTCTCACATATTCTCACCGTGCC
1 CCATGGCGTGTCACACACTCTAAAAGCTGCTGTGTCACACCCGTCTCACATATTATCA-CGTGCC
*
10365917 GTCTCACACATTATCACCCTGTCGTGTCATAGATTTCCT
65 GTCTCACACATTATCACCCTG-CGTGTCACAGATTTCCT
* ** * * * *
10365956 CCATGGCGTGTCACACACTTTAAACCCTGTTGTGTCACACCCGTGTCACATATTATCACTATGTC
1 CCATGGCGTGTCACACACTCTAAAAGCTGCTGTGTCACACCCGTCTCACATATTATCAC-GTGCC
* * * * * * ***
10366021 GTTTCACACATCATGACACTATCGTCTCACACG-TTTTGA
65 GTCTCACACATTATCACCCT-GCGTGTCACA-GATTTCCT
** * * *
10366060 CCATGAAGTGTCACACACTCTAAAAGCTGCCGTGTCACACTCGTCTCACATATTCTCACCGTGCC
1 CCATGGCGTGTCACACACTCTAAAAGCTGCTGTGTCACACCCGTCTCACATATTATCA-CGTGCC
* * *
10366125 GTCTCACACATTGTCACCCTACCGTGTCACAGATTCCCT
65 GTCTCACACATTATCACCCT-GCGTGTCACAGATTTCCT
* * * *
10366164 CCATGGAGTGTCACACACTCT-CAA-CT--T-TG------CCGTGTCACACATTATCACTGTGCC
1 CCATGGCGTGTCACACACTCTAAAAGCTGCTGTGTCACACCCGTCTCACATATTATCAC-GTGCC
* * **
10366218 GTTTCACACATTATGACCCTGCCGTGTCACACG-TTCTGAT
65 GTCTCACACATTATCACCCTG-CGTGTCACA-GATT-TCCT
* * * * *
10366258 -CATGACGTGTCACACACTCTAAATGCTGCCGTGTCACACTCGTCTCACATATTCTCACTGTGCC
1 CCATGGCGTGTCACACACTCTAAAAGCTGCTGTGTCACACCCGTCTCACATATTATCAC-GTGCC
* * * *
10366322 ATCTCATACATTATCACCCTACCATGTCACAGATTTCCT
65 GTCTCACACATTATCACCCT-GCGTGTCACAGATTTCCT
* * * * ** *
10366361 TCATGACGTGTCACAAACTCTATACCCTGCCGTGTCACACCCGTCTCACATA
1 CCATGGCGTGTCACACACTCTAAAAGCTGCTGTGTCACACCCGTCTCACATA
10366413 GTCTCACCAT
Statistics
Matches: 521, Mismatches: 112, Indels: 60
0.75 0.16 0.09
Matches are distributed among these distances:
92 1 0.00
93 65 0.12
94 3 0.01
95 2 0.00
98 2 0.00
99 2 0.00
102 60 0.12
103 54 0.10
104 330 0.63
105 2 0.00
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (102 bp):
CCATGGCGTGTCACACACTCTAAAAGCTGCTGTGTCACACCCGTCTCACATATTATCACGTGCCG
TCTCACACATTATCACCCTGCGTGTCACAGATTTCCT
Found at i:10365852 original size:23 final size:23
Alignment explanation
Indices: 10365792--10365868 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 23
10365782 TGTCAACCCG
* **
10365792 TGTCACACATTATCACTGTGCC-
1 TGTCACACATTATGACCATGCCA
* *
10365814 TTTCACACATTATGACCCTGCCA
1 TGTCACACATTATGACCATGCCA
* * * *
10365837 TGTCACACGTTTTGACCATGGCG
1 TGTCACACATTATGACCATGCCA
10365860 TGTCACACA
1 TGTCACACA
10365869 CTCTAAAAGC
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 18 0.42
23 25 0.58
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (23 bp):
TGTCACACATTATGACCATGCCA
Found at i:10366111 original size:208 final size:206
Alignment explanation
Indices: 10365627--10366437 Score: 980
Period size: 208 Copynumber: 4.0 Consensus size: 206
10365617 GTTCAAGCCG
* * *
10365627 TGCCGTGTCACACG-TCTGACCATTG-CGTGTCACACACTGTAAAAGCTGCTGTCTCACACCCGT
1 TGCCGTGTCACACGTTTTGACCA-TGACGTGTCACACACTCTAAAAGCTGCCGTCTCACACCCGT
* * * * * *
10365690 CTCACATATTTTCATCGTGCCGTCTCACACATTATCACCTTGCAGTGTTACAGATTCCCTCCATG
65 CTCACATATTCTCACCGTGCCGTCTCACACATTATCACCCTACCGTGTCACAGATTCCCTCCATG
* * *
10365755 GCGTGTCACACACTTTAAACCCTGCCGTGTCAACCCGTGTCACACATTATCACTGTGCCTTTCAC
130 GCGTGTCACACACTCTAAACCCTGCCGTGTCAACCCGTGTCACACATTATCACTATGCGTTTCAC
10365820 ACATTATGACCC
195 ACATTATGACCC
* * *
10365832 TGCCATGTCACACGTTTTGACCATGGCGTGTCACACACTCTAAAAGCTGCTGTCTCACACCCGTC
1 TGCCGTGTCACACGTTTTGACCATGACGTGTCACACACTCTAAAAGCTGCCGTCTCACACCCGTC
** * *
10365897 TCACATATTCTCACCGTGCCGTCTCACACATTATCACCCTGTCGTGTCATAGATTTCCTCCATGG
66 TCACATATTCTCACCGTGCCGTCTCACACATTATCACCCTACCGTGTCACAGATTCCCTCCATGG
* ** *
10365962 CGTGTCACACACTTTAAACCCTGTTGTGTCACACCCGTGTCACATATTATCACTATGTCGTTTCA
131 CGTGTCACACACTCTAAACCCTGCCGTGTCA-ACCCGTGTCACACATTATCACTATG-CGTTTCA
* *
10366027 CACATCATGACAC
194 CACATTATGACCC
** * * * *
10366040 TATCGTCTCACACGTTTTGACCATGAAGTGTCACACACTCTAAAAGCTGCCGTGTCACACTCGTC
1 TGCCGTGTCACACGTTTTGACCATGACGTGTCACACACTCTAAAAGCTGCCGTCTCACACCCGTC
*
10366105 TCACATATTCTCACCGTGCCGTCTCACACATTGTCACCCTACCGTGTCACAGATTCCCTCCATGG
66 TCACATATTCTCACCGTGCCGTCTCACACATTATCACCCTACCGTGTCACAGATTCCCTCCATGG
* * * *
10366170 AGTGTCACACACTCTCAA--CT----T-T---GCCGTGTCACACATTATCACTGTGCCGTTTCAC
131 CGTGTCACACACTCTAAACCCTGCCGTGTCAACCCGTGTCACACATTATCACTATG-CGTTTCAC
10366225 ACATTATGACCC
195 ACATTATGACCC
* * * * *
10366237 TGCCGTGTCACACGTTCTGATCATGACGTGTCACACACTCTAAATGCTGCCGTGTCACACTCGTC
1 TGCCGTGTCACACGTTTTGACCATGACGTGTCACACACTCTAAAAGCTGCCGTCTCACACCCGTC
* * * * * * *
10366302 TCACATATTCTCACTGTGCCATCTCATACATTATCACCCTACCATGTCACAGATTTCCTTCATGA
66 TCACATATTCTCACCGTGCCGTCTCACACATTATCACCCTACCGTGTCACAGATTCCCTCCATGG
* * * * * * * *
10366367 CGTGTCACAAACTCTATACCCTGCCGTGTCACACCCGTCTCACATAGTCTCACCATGGCGTATCA
131 CGTGTCACACACTCTAAACCCTGCCGTGTCA-ACCCGTGTCACACATTATCACTAT-GCGTTTCA
10366432 CACATT
194 CACATT
10366438 GCCACCTTGT
Statistics
Matches: 522, Mismatches: 68, Indels: 29
0.84 0.11 0.05
Matches are distributed among these distances:
197 168 0.32
199 2 0.00
201 1 0.00
202 1 0.00
203 1 0.00
204 1 0.00
205 15 0.03
206 133 0.25
207 23 0.04
208 176 0.34
209 1 0.00
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.29
Consensus pattern (206 bp):
TGCCGTGTCACACGTTTTGACCATGACGTGTCACACACTCTAAAAGCTGCCGTCTCACACCCGTC
TCACATATTCTCACCGTGCCGTCTCACACATTATCACCCTACCGTGTCACAGATTCCCTCCATGG
CGTGTCACACACTCTAAACCCTGCCGTGTCAACCCGTGTCACACATTATCACTATGCGTTTCACA
CATTATGACCC
Found at i:10366224 original size:23 final size:23
Alignment explanation
Indices: 10366105--10366249 Score: 92
Period size: 23 Copynumber: 6.3 Consensus size: 23
10366095 CACACTCGTC
* * * *
10366105 TCACATATTCTCACCGTGCCGTC
1 TCACACATTATCACCCTGCCGTG
* *
10366128 TCACACATTGTCACCCTACCGTG
1 TCACACATTATCACCCTGCCGTG
* ** * * **
10366151 TCACAGATTCCCTCCATGGAGTG
1 TCACACATTATCACCCTGCCGTG
* * **
10366174 TCACACACTCTCAACTTTGCCGTG
1 TCACACATTATC-ACCCTGCCGTG
** *
10366198 TCACACATTATCACTGTGCCGTT
1 TCACACATTATCACCCTGCCGTG
*
10366221 TCACACATTATGACCCTGCCGTG
1 TCACACATTATCACCCTGCCGTG
10366244 TCACAC
1 TCACAC
10366250 GTTCTGATCA
Statistics
Matches: 92, Mismatches: 29, Indels: 2
0.75 0.24 0.02
Matches are distributed among these distances:
23 76 0.83
24 16 0.17
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.28
Consensus pattern (23 bp):
TCACACATTATCACCCTGCCGTG
Found at i:10366268 original size:93 final size:93
Alignment explanation
Indices: 10366105--10366296 Score: 221
Period size: 93 Copynumber: 2.1 Consensus size: 93
10366095 CACACTCGTC
* * * *
10366105 TCACATATTCTCACCGTGCCGTCTCACACATTGTCACCCTACCGTGTCACAGATTCCCTCCATGG
1 TCACACATTATCACCGTGCCGTCTCACACATTATCACCCTACCGTGTCACAGATTCCATCCATGG
* *
10366170 AGTGTCACACACTCTCAACT-TTGCCGTG
66 AGTGTCACACACTCT-AAATGCTGCCGTG
* * * * *
10366198 TCACACATTATCACTGTGCCGTTTCACACATTATGACCCTGCCGTGTCACACG-TTCTGAT-CAT
1 TCACACATTATCACCGTGCCGTCTCACACATTATCACCCTACCGTGTCACA-GATTC-CATCCAT
10366261 -GACGTGTCACACACTCTAAATGCTGCCGTG
64 GGA-GTGTCACACACTCTAAATGCTGCCGTG
10366291 TCACAC
1 TCACAC
10366297 TCGTCTCACA
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
92 5 0.06
93 77 0.92
94 2 0.02
ACGTcount: A:0.22, C:0.34, G:0.16, T:0.28
Consensus pattern (93 bp):
TCACACATTATCACCGTGCCGTCTCACACATTATCACCCTACCGTGTCACAGATTCCATCCATGG
AGTGTCACACACTCTAAATGCTGCCGTG
Found at i:10366341 original size:197 final size:199
Alignment explanation
Indices: 10365627--10366400 Score: 889
Period size: 197 Copynumber: 3.8 Consensus size: 199
10365617 GTTCAAGCCG
* *
10365627 TGCCGTGTCACACG-TCTGACCATTG-CGTGTCACACACTGTAAAAGCTGCTGTCTCACACCCGT
1 TGCCGTGTCACACGTTCTGACCA-TGACGTGTCACACACTCTAAAAGCTGCCGTCTCACACCCGT
* * * * * *
10365690 CTCACATATTTTCATCGTGCCGTCTCACACATTATCACCTTGCAGTGTTACAGATTCCCTCCATG
65 CTCACATATTCTCACCGTGCCGTCTCACACATTATCACCCTACCGTGTCACAGATTCCCTCCATG
* * *
10365755 GCGTGTCACACACTTTAAACCCTGCCGTGTCAACCCGTGTCACACATTATCACTGTGCC-TTTCA
130 GAGTGTCACACACTCTAAA-CCT----TGT---GCCGTGTCACACATTATCACTGTGCCGTTTCA
10365819 CACATTATGACCC
187 CACATTATGACCC
* * * *
10365832 TGCCATGTCACACGTTTTGACCATGGCGTGTCACACACTCTAAAAGCTGCTGTCTCACACCCGTC
1 TGCCGTGTCACACGTTCTGACCATGACGTGTCACACACTCTAAAAGCTGCCGTCTCACACCCGTC
** * *
10365897 TCACATATTCTCACCGTGCCGTCTCACACATTATCACCCTGTCGTGTCATAGATTTCCTCCATGG
66 TCACATATTCTCACCGTGCCGTCTCACACATTATCACCCTACCGTGTCACAGATTCCCTCCATGG
* * * * *
10365962 CGTGTCACACACTTTAAACCCTGTTGTGTCACACCCGTGTCACATATTATCACTATGTCGTTTCA
131 AGTGTCACACACTCTAAA-CC--TTGTG------CCGTGTCACACATTATCACTGTGCCGTTTCA
* *
10366027 CACATCATGACAC
187 CACATTATGACCC
** * * * * *
10366040 TATCGTCTCACACGTTTTGACCATGAAGTGTCACACACTCTAAAAGCTGCCGTGTCACACTCGTC
1 TGCCGTGTCACACGTTCTGACCATGACGTGTCACACACTCTAAAAGCTGCCGTCTCACACCCGTC
*
10366105 TCACATATTCTCACCGTGCCGTCTCACACATTGTCACCCTACCGTGTCACAGATTCCCTCCATGG
66 TCACATATTCTCACCGTGCCGTCTCACACATTATCACCCTACCGTGTCACAGATTCCCTCCATGG
*
10366170 AGTGTCACACACTCTCAA-CTT-TGCCGTGTCACACATTATCACTGTGCCGTTTCACACATTATG
131 AGTGTCACACACTCTAAACCTTGTGCCGTGTCACACATTATCACTGTGCCGTTTCACACATTATG
10366233 ACCC
196 ACCC
* * * *
10366237 TGCCGTGTCACACGTTCTGATCATGACGTGTCACACACTCTAAATGCTGCCGTGTCACACTCGTC
1 TGCCGTGTCACACGTTCTGACCATGACGTGTCACACACTCTAAAAGCTGCCGTCTCACACCCGTC
* * * * * *
10366302 TCACATATTCTCACTGTGCCATCTCATACATTATCACCCTACCATGTCACAGATTTCCTTCAT-G
66 TCACATATTCTCACCGTGCCGTCTCACACATTATCACCCTACCGTGTCACAGATTCCCTCCATGG
* * *
10366366 ACGTGTCACAAACTCTATACC--CTGCCGTGTCACAC
131 A-GTGTCACACACTCTAAACCTTGTGCCGTGTCACAC
10366401 CCGTCTCACA
Statistics
Matches: 499, Mismatches: 56, Indels: 36
0.84 0.09 0.06
Matches are distributed among these distances:
196 2 0.00
197 180 0.36
198 1 0.00
203 2 0.00
204 5 0.01
205 15 0.03
206 124 0.25
207 22 0.04
208 148 0.30
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (199 bp):
TGCCGTGTCACACGTTCTGACCATGACGTGTCACACACTCTAAAAGCTGCCGTCTCACACCCGTC
TCACATATTCTCACCGTGCCGTCTCACACATTATCACCCTACCGTGTCACAGATTCCCTCCATGG
AGTGTCACACACTCTAAACCTTGTGCCGTGTCACACATTATCACTGTGCCGTTTCACACATTATG
ACCC
Found at i:10366433 original size:81 final size:81
Alignment explanation
Indices: 10366362--10366537 Score: 246
Period size: 81 Copynumber: 2.2 Consensus size: 81
10366352 AGATTTCCTT
*
10366362 CATGACGTGTCACAAACTCTATACCCTGCCGTGTCACACCCGTCTCACATAGTCTCACCATGGCG
1 CATGACGTGTCACAAACTCTATACCCTGCCGTGTCACACCAGTCTCACATAGTCTCACCATGGCG
10366427 TATCACACATTGCCAC
66 TATCACACATTGCCAC
* * * * * *
10366443 CTTGTCGTGTCACAAACTCTATACCCTGCCGTGTCACACCAGTTTCACATATTCTCACCATGCCA
1 CATGACGTGTCACAAACTCTATACCCTGCCGTGTCACACCAGTCTCACATAGTCTCACCATGGCG
*
10366508 TGTCACACATT-CCAAC
66 TATCACACATTGCC-AC
* *
10366524 CATGCCATGTCACA
1 CATGACGTGTCACA
10366538 CATTCCCACC
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
80 2 0.02
81 81 0.98
ACGTcount: A:0.25, C:0.36, G:0.13, T:0.26
Consensus pattern (81 bp):
CATGACGTGTCACAAACTCTATACCCTGCCGTGTCACACCAGTCTCACATAGTCTCACCATGGCG
TATCACACATTGCCAC
Found at i:10366513 original size:23 final size:22
Alignment explanation
Indices: 10366487--10366549 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 22
10366477 CACACCAGTT
*
10366487 TCACATATTCTCACCATGCCATG
1 TCACACATTC-CACCATGCCATG
10366510 TCACACATTCCAACCATGCCATG
1 TCACACATTCC-ACCATGCCATG
10366533 TCACACATTCCCACCAT
1 TCACACATT-CCACCAT
10366550 TTTGTTTCAC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
22 1 0.03
23 34 0.92
24 2 0.05
ACGTcount: A:0.29, C:0.40, G:0.06, T:0.25
Consensus pattern (22 bp):
TCACACATTCCACCATGCCATG
Found at i:10369692 original size:2 final size:2
Alignment explanation
Indices: 10369685--10369714 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10369675 AGTATTACCT
10369685 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10369715 GTGTGAGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10373080 original size:16 final size:16
Alignment explanation
Indices: 10373027--10373083 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
10373017 ATCTCTCTCT
*
10373027 TCCTCTCTGTGTCTCTC
1 TCCTCTCTGTTTCT-TC
*
10373044 CCCATCTCCT-TTTCATTC
1 TCC-TCT-CTGTTTC-TTC
10373062 TCCTCTCTGTTTCTTC
1 TCCTCTCTGTTTCTTC
10373078 TCCTCT
1 TCCTCT
10373084 GTTATCAGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
16 11 0.33
17 9 0.27
18 10 0.30
19 3 0.09
ACGTcount: A:0.04, C:0.42, G:0.05, T:0.49
Consensus pattern (16 bp):
TCCTCTCTGTTTCTTC
Found at i:10373119 original size:2 final size:2
Alignment explanation
Indices: 10373114--10373141 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10373104 GAGAAACCAA
10373114 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10373142 GTTTGGAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:10375227 original size:2 final size:2
Alignment explanation
Indices: 10375220--10375270 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
10375210 TAAAAAGTTT
*
10375220 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
10375262 TA TA AA TA T
1 TA TA TA TA T
10375271 GTTTGTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10377695 original size:31 final size:31
Alignment explanation
Indices: 10377659--10377718 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
10377649 TTGGTGAAAT
*
10377659 TTTAAGCAACAATCAATAATGCAATGCTAAA
1 TTTAAGCAACAATCAATAATGCAACGCTAAA
* *
10377690 TTTAAGTAACAATTAATAATGCAACGCTA
1 TTTAAGCAACAATCAATAATGCAACGCTA
10377719 CAATGCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (31 bp):
TTTAAGCAACAATCAATAATGCAACGCTAAA
Found at i:10390844 original size:20 final size:21
Alignment explanation
Indices: 10390821--10390859 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10390811 ATAAGTTCCA
*
10390821 TAATTTTA-TAATAATATAAT
1 TAATTTTATTAAAAATATAAT
10390841 TAATTTTATTAAAAATATA
1 TAATTTTATTAAAAATATA
10390860 TAAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATTTTATTAAAAATATAAT
Found at i:10400345 original size:17 final size:16
Alignment explanation
Indices: 10400309--10400342 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
10400299 GATGATGCAA
10400309 TTATCATTTTTTTACT
1 TTATCATTTTTTTACT
10400325 TTATCATTGTTTTT-CT
1 TTATCATT-TTTTTACT
10400341 TT
1 TT
10400343 TATTTGAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.71
Consensus pattern (16 bp):
TTATCATTTTTTTACT
Found at i:10402351 original size:63 final size:63
Alignment explanation
Indices: 10402248--10402367 Score: 159
Period size: 63 Copynumber: 1.9 Consensus size: 63
10402238 ACTCATCTTT
*
10402248 CTCTCTCATCTCTCTAAATTGTATCAACTCTATCAACTCTTTGTTAAGCACCATCGTCATTAA
1 CTCTCTCAGCTCTCTAAATTGTATCAACTCTATCAACTCTTTGTTAAGCACCATCGTCATTAA
* * * * * * * *
10402311 CTCTCTCAGCTCTCTGAATTGTATGAGCTTTGTCACCTCTTTGTTGAGTACCATCGT
1 CTCTCTCAGCTCTCTAAATTGTATCAACTCTATCAACTCTTTGTTAAGCACCATCGT
10402368 TATCGTACTG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 48 1.00
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.39
Consensus pattern (63 bp):
CTCTCTCAGCTCTCTAAATTGTATCAACTCTATCAACTCTTTGTTAAGCACCATCGTCATTAA
Found at i:10402655 original size:23 final size:23
Alignment explanation
Indices: 10402601--10402751 Score: 144
Period size: 23 Copynumber: 6.6 Consensus size: 23
10402591 ATGTGTTAGC
*
10402601 ACATGGCGTGTAACATTTTCATGTA
1 ACATGGCGTGTAACATTTT-TTG-A
* *
10402626 ACATGGCGTGTAACATGTTGTGA
1 ACATGGCGTGTAACATTTTTTGA
*
10402649 ACATGGCGTGTAACAATTTTTGA
1 ACATGGCGTGTAACATTTTTTGA
* *
10402672 AC-TTGCGTGTAAC-GTTTTTGA
1 ACATGGCGTGTAACATTTTTTGA
* * * *
10402693 ATATGGCATGTAGCATTTTTTAA
1 ACATGGCGTGTAACATTTTTTGA
* *
10402716 ACATGGTGTGTAACATTTTATGA
1 ACATGGCGTGTAACATTTTTTGA
* *
10402739 AAATGACGTGTAA
1 ACATGGCGTGTAA
10402752 TAACATGACT
Statistics
Matches: 102, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
21 8 0.08
22 18 0.18
23 56 0.55
24 2 0.02
25 18 0.18
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (23 bp):
ACATGGCGTGTAACATTTTTTGA
Found at i:10407382 original size:35 final size:36
Alignment explanation
Indices: 10407321--10407390 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 36
10407311 ATAAAAAATC
* *
10407321 GAGAGTGAAACCTAGCCTATATACTAAA-CTAAACG
1 GAGAGTGAAACCTAGCCTAAAAACTAAACCTAAACG
* *
10407356 GAGATTGAAACCTAGGCTAAAAACTAAACCTAAAC
1 GAGAGTGAAACCTAGCCTAAAAACTAAACCTAAAC
10407391 CCTAAACCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 24 0.80
36 6 0.20
ACGTcount: A:0.46, C:0.20, G:0.16, T:0.19
Consensus pattern (36 bp):
GAGAGTGAAACCTAGCCTAAAAACTAAACCTAAACG
Found at i:10408726 original size:21 final size:21
Alignment explanation
Indices: 10408702--10408747 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
10408692 ATGAAGTTAG
* *
10408702 AGATGAAGAATGTTTAAATGA
1 AGATGAAAAAGGTTTAAATGA
10408723 AGATGAAAAAGGTTTAAATGA
1 AGATGAAAAAGGTTTAAATGA
10408744 AGAT
1 AGAT
10408748 TATTTTGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (21 bp):
AGATGAAAAAGGTTTAAATGA
Found at i:10408939 original size:21 final size:21
Alignment explanation
Indices: 10408915--10409008 Score: 64
Period size: 21 Copynumber: 4.5 Consensus size: 21
10408905 TTGGACTCCA
* *
10408915 ATTTAAAGCTGTTGGTGGCTC
1 ATTTAAAGCTGTTGGAGGCCC
* *
10408936 ATTTGAAGTTGTTGGAGGCCC
1 ATTTAAAGCTGTTGGAGGCCC
* *
10408957 ATTTAAAGTTGTAGGCA-GCCC
1 ATTTAAAGCTGTTGG-AGGCCC
* * ** * *
10408978 ATCTGAATTTGCTGGAGGCCA
1 ATTTAAAGCTGTTGGAGGCCC
10408999 ATTTAAAGCT
1 ATTTAAAGCT
10409009 ATTATCTGAA
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
20 1 0.02
21 53 0.96
22 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (21 bp):
ATTTAAAGCTGTTGGAGGCCC
Found at i:10408964 original size:42 final size:42
Alignment explanation
Indices: 10408912--10409008 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
10408902 GTATTGGACT
* ** * * *
10408912 CCAATTTAAAGCTGTTGGTGGCTCATTTGAAGTTGTTGGAGG
1 CCAATTTAAAGCTGTAGGCAGCCCATCTGAAGTTGCTGGAGG
* * *
10408954 CCCATTTAAAGTTGTAGGCAGCCCATCTGAATTTGCTGGAGG
1 CCAATTTAAAGCTGTAGGCAGCCCATCTGAAGTTGCTGGAGG
10408996 CCAATTTAAAGCT
1 CCAATTTAAAGCT
10409009 ATTATCTGAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
CCAATTTAAAGCTGTAGGCAGCCCATCTGAAGTTGCTGGAGG
Found at i:10409028 original size:34 final size:34
Alignment explanation
Indices: 10408978--10409042 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
10408968 TAGGCAGCCC
* **
10408978 ATCTGAATTTGCTGGAGGCCAATTTAAAGCTATT
1 ATCTGAAGTTGCTGGAGGCCAACCTAAAGCTATT
*
10409012 ATCTGAAGTTGTTGGAGGCCAACCTAAAGCT
1 ATCTGAAGTTGCTGGAGGCCAACCTAAAGCT
10409043 GCTGGTGGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (34 bp):
ATCTGAAGTTGCTGGAGGCCAACCTAAAGCTATT
Found at i:10409066 original size:21 final size:21
Alignment explanation
Indices: 10409012--10409090 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 21
10409002 TAAAGCTATT
* * *
10409012 ATCTGAAGTTGTTGGAGGCCA
1 ATCTGAAGCTGCTGGAGGCCC
* * * *
10409033 ACCTAAAGCTGCTGGTGGCCT
1 ATCTGAAGCTGCTGGAGGCCC
* * *
10409054 TTCTGAAGTTGCTAGAGGCCC
1 ATCTGAAGCTGCTGGAGGCCC
10409075 ATCTGAAGCTGCTGGA
1 ATCTGAAGCTGCTGGA
10409091 AATGATGGAG
Statistics
Matches: 42, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (21 bp):
ATCTGAAGCTGCTGGAGGCCC
Found at i:10411436 original size:24 final size:24
Alignment explanation
Indices: 10411402--10411447 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
10411392 TAGTAGAACG
10411402 AGTGAAGTTGCTACTGGTGCACCA
1 AGTGAAGTTGCTACTGGTGCACCA
* *
10411426 AGTGAATTTGCTGCTGGTGCAC
1 AGTGAAGTTGCTACTGGTGCAC
10411448 TACGTAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (24 bp):
AGTGAAGTTGCTACTGGTGCACCA
Found at i:10412485 original size:31 final size:31
Alignment explanation
Indices: 10412447--10412546 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
10412437 GGCATCTTGT
* * * *
10412447 GGTGACACCCTTAGTGGTAGTAGATTTATGG
1 GGTGACACACTGAGTGGTAGCAAATTTATGG
*
10412478 GGTGACACACTGATTGGTAGCAAATTTATGG
1 GGTGACACACTGAGTGGTAGCAAATTTATGG
* * ** ** * *
10412509 CGTAACACGTTGAGTGAAAGCATATTTATGA
1 GGTGACACACTGAGTGGTAGCAAATTTATGG
10412540 GGTGACA
1 GGTGACA
10412547 TGCTAACTTG
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (31 bp):
GGTGACACACTGAGTGGTAGCAAATTTATGG
Found at i:10414139 original size:81 final size:81
Alignment explanation
Indices: 10413985--10414177 Score: 237
Period size: 81 Copynumber: 2.4 Consensus size: 81
10413975 TAGGAGTGCT
* * * ** *
10413985 CTAAGGAAGATGGTCCCCTTT-AGCCTGAACTGATGCAAGGTTCCCATCTTTTCCTCTTACTACT
1 CTAAGGAAGATGGT-CTCTTTCAGCCTAAACTAATGCAAGGTTCCCATCCCTTCCTCTTACTACC
*
10414049 TTGACTATTGCATCGGC
65 TCGACTATTGCATCGGC
* *
10414066 CTAAGGAAGATGGTCTCTTTCAGCCTAAACTAATGCAAGGTTCCCATCCCTTCTTAC-TGCTACC
1 CTAAGGAAGATGGTCTCTTTCAGCCTAAACTAATGCAAGGTTCCCATCCCTTCCT-CTTACTACC
*
10414130 TCGATTATTGCATCGGC
65 TCGACTATTGCATCGGC
* * *
10414147 CTGAGGAAGATGGTATCTTTCAGCCTCAACT
1 CTAAGGAAGATGGTCTCTTTCAGCCTAAACT
10414178 GAGTGAAAGT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 5 0.05
81 91 0.94
82 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (81 bp):
CTAAGGAAGATGGTCTCTTTCAGCCTAAACTAATGCAAGGTTCCCATCCCTTCCTCTTACTACCT
CGACTATTGCATCGGC
Found at i:10414215 original size:81 final size:81
Alignment explanation
Indices: 10414054--10414215 Score: 173
Period size: 81 Copynumber: 2.0 Consensus size: 81
10414044 CTACTTTGAC
* *
10414054 TATTGCATCGGCCTAAGGAAGATGGTCTCTTTCAGCCTAAACTAATGCAAGGTTCCCATCCCTTC
1 TATTGCATCGGCCTAAGGAAGATGGTATCTTTCAGCCTAAACTAATGCAAAGTTCCCATCCCTTC
** * * *
10414119 TTACTGCTACCTCGAT
66 CCACAGATACATCGAT
* * * *** *
10414135 TATTGCATCGGCCTGAGGAAGATGGTATCTTTCAGCCTCAACTGAGTG-AAAGTTCTTTTCTCTT
1 TATTGCATCGGCCTAAGGAAGATGGTATCTTTCAGCCTAAACT-AATGCAAAGTTCCCATCCCTT
*
10414199 CCCACAGATGCATCGAT
65 CCCACAGATACATCGAT
10414216 AATCGAATCA
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
81 62 0.95
82 3 0.05
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.31
Consensus pattern (81 bp):
TATTGCATCGGCCTAAGGAAGATGGTATCTTTCAGCCTAAACTAATGCAAAGTTCCCATCCCTTC
CCACAGATACATCGAT
Found at i:10415606 original size:13 final size:13
Alignment explanation
Indices: 10415588--10415612 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10415578 CTCATTTCGA
10415588 TTTGGTTCGGTTG
1 TTTGGTTCGGTTG
10415601 TTTGGTTCGGTT
1 TTTGGTTCGGTT
10415613 TATATTTGCT
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:0.00, C:0.08, G:0.36, T:0.56
Consensus pattern (13 bp):
TTTGGTTCGGTTG
Found at i:10417148 original size:31 final size:31
Alignment explanation
Indices: 10417113--10417254 Score: 203
Period size: 31 Copynumber: 4.6 Consensus size: 31
10417103 AGAAAGAAAT
* *
10417113 AAATGTTGTTACATGCCATGCATATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTC
** *
10417144 AAATGTTGTTACACAACATGCATATCAAGTT
1 AAATGTTGTTACACGCCATGCATATCAAGTC
10417175 AAATGTTGTTACACGCCATGCATATCAAGTC
1 AAATGTTGTTACACGCCATGCATATCAAGTC
* * *
10417206 AAATATTGTTACACGCTATGCATATTAAGTC
1 AAATGTTGTTACACGCCATGCATATCAAGTC
*
10417237 AAATGTTATTACACGCCA
1 AAATGTTGTTACACGCCA
10417255 ACGCTAAGTA
Statistics
Matches: 98, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 98 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (31 bp):
AAATGTTGTTACACGCCATGCATATCAAGTC
Found at i:10417414 original size:87 final size:89
Alignment explanation
Indices: 10417278--10417454 Score: 252
Period size: 87 Copynumber: 2.0 Consensus size: 89
10417268 TGGTGAAAAA
* *
10417278 CCAACCATGGCATGTCGTGACATGCCAATCACTATAATTACTATCTCGTTACA-C-GAATTGCCC
1 CCAACCATGGCATGTCGTGACATGCCAATCACTATAATTACTATCTCGTTACACCAGAACTACCC
10417341 TAAAATACCCAATATGGTGACACG
66 TAAAATACCCAATATGGTGACACG
* * * *
10417365 CCAACCATTGCATGTTGTGACATGCCAATCACTATAATTATTGA-CTCGTTACACCAGAGCTACC
1 CCAACCATGGCATGTCGTGACATGCCAATCACTATAATTACT-ATCTCGTTACACCAGAACTACC
* *
10417429 CTAAAATACCTAATGTGGTGACACG
65 CTAAAATACCCAATATGGTGACACG
10417454 C
1 C
10417455 TAAAAACCCC
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
87 48 0.61
88 2 0.03
89 29 0.37
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (89 bp):
CCAACCATGGCATGTCGTGACATGCCAATCACTATAATTACTATCTCGTTACACCAGAACTACCC
TAAAATACCCAATATGGTGACACG
Found at i:10417995 original size:23 final size:23
Alignment explanation
Indices: 10417969--10418069 Score: 103
Period size: 23 Copynumber: 4.3 Consensus size: 23
10417959 TTTTGTCTAT
10417969 TTCAAACCATGGCGTGTCACATA
1 TTCAAACCATGGCGTGTCACATA
* *
10417992 TTCAACCCATGGCGTGTCACATG
1 TTCAAACCATGGCGTGTCACATA
* * *
10418015 TTCAAGCCATGACGTGTCACACA
1 TTCAAACCATGGCGTGTCACATA
** * * *
10418038 TTCTCACCACGGCATGTCACAAA
1 TTCAAACCATGGCGTGTCACATA
10418061 TTCTAAACC
1 TTC-AAACC
10418070 CTACCGTGTC
Statistics
Matches: 62, Mismatches: 15, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
23 59 0.95
24 3 0.05
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.25
Consensus pattern (23 bp):
TTCAAACCATGGCGTGTCACATA
Found at i:10418368 original size:47 final size:47
Alignment explanation
Indices: 10418310--10418442 Score: 194
Period size: 47 Copynumber: 2.8 Consensus size: 47
10418300 ACATTATCAG
*
10418310 CCTGCCATGTCACAGATTCCCTCCATGGCATGTCACAAACTCTAAAC
1 CCTGCCATGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTAAAC
* * * * * *
10418357 CCTGTCATGTCATAGATTCCCTTCATGGCGTATAACAAACTCTGAAC
1 CCTGCCATGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTAAAC
*
10418404 CCTGCCATGTCACAGATTCCTTCCATGGCGTGTCACAAA
1 CCTGCCATGTCACAGATTCCCTCCATGGCGTGTCACAAA
10418443 TTTTGAACCT
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.26
Consensus pattern (47 bp):
CCTGCCATGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTAAAC
Found at i:10418493 original size:23 final size:23
Alignment explanation
Indices: 10418467--10418616 Score: 162
Period size: 23 Copynumber: 6.6 Consensus size: 23
10418457 GTGTCATAGC
* **
10418467 CGTGTCACATATGCTCACCATAT
1 CGTGTCACATATTCTCACCATGG
10418490 CGTGTCACATATTCTCACCATGG
1 CGTGTCACATATTCTCACCATGG
10418513 CGTGTCACATATTCTCACCATGG
1 CGTGTCACATATTCTCACCATGG
* *
10418536 CGTGTCATATATTCACACCATGG
1 CGTGTCACATATTCTCACCATGG
* *
10418559 CGTG-C-CACATTCTCA-CACTAG
1 CGTGTCACATATTCTCACCA-TGG
* * *
10418580 CGTGTCATATATTCCCACCATGT
1 CGTGTCACATATTCTCACCATGG
* *
10418603 CATCTCACATATTC
1 CGTGTCACATATTC
10418617 CCTCTGAGTC
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
20 2 0.02
21 13 0.12
22 2 0.02
23 87 0.82
24 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (23 bp):
CGTGTCACATATTCTCACCATGG
Found at i:10418540 original size:46 final size:46
Alignment explanation
Indices: 10418467--10418616 Score: 180
Period size: 46 Copynumber: 3.3 Consensus size: 46
10418457 GTGTCATAGC
* * * *
10418467 CGTGTCACATATGCTCACCATATCGTGTCACATATTCTCACCATGG
1 CGTGTCACATATTCTCACCATAGCGTGTCATATATTCACACCATGG
*
10418513 CGTGTCACATATTCTCACCATGGCGTGTCATATATTCACACCATGG
1 CGTGTCACATATTCTCACCATAGCGTGTCATATATTCACACCATGG
* * *
10418559 CGTG-C-CACATTCTCA-CACTAGCGTGTCATATATTCCCACCATGT
1 CGTGTCACATATTCTCACCA-TAGCGTGTCATATATTCACACCATGG
* *
10418603 CATCTCACATATTC
1 CGTGTCACATATTC
10418617 CCTCTGAGTC
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
43 2 0.02
44 34 0.38
45 2 0.02
46 51 0.57
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (46 bp):
CGTGTCACATATTCTCACCATAGCGTGTCATATATTCACACCATGG
Found at i:10418652 original size:23 final size:23
Alignment explanation
Indices: 10418467--10418653 Score: 150
Period size: 23 Copynumber: 8.2 Consensus size: 23
10418457 GTGTCATAGC
* * **
10418467 CGTGTCACATATGCTCACCATAT
1 CGTGTCACATATTCCCACCATGG
*
10418490 CGTGTCACATATTCTCACCATGG
1 CGTGTCACATATTCCCACCATGG
*
10418513 CGTGTCACATATTCTCACCATGG
1 CGTGTCACATATTCCCACCATGG
* *
10418536 CGTGTCATATATTCACACCATGG
1 CGTGTCACATATTCCCACCATGG
* * *
10418559 CGTG-C-CACATTCTCA-CACTAG
1 CGTGTCACATATTCCCACCA-TGG
* *
10418580 CGTGTCATATATTCCCACCATGT
1 CGTGTCACATATTCCCACCATGG
* * *
10418603 CATCTCACATATTCCC-TC-TGAG
1 CGTGTCACATATTCCCACCATG-G
**
10418625 TCGTGTCACATATTCCCTTCATGG
1 -CGTGTCACATATTCCCACCATGG
10418649 CGTGT
1 CGTGT
10418654 TACAAACTCT
Statistics
Matches: 135, Mismatches: 21, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
20 2 0.01
21 15 0.11
22 3 0.02
23 108 0.80
24 5 0.04
25 2 0.01
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.32
Consensus pattern (23 bp):
CGTGTCACATATTCCCACCATGG
Found at i:10418751 original size:23 final size:23
Alignment explanation
Indices: 10418685--10418761 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
10418675 TGTCATAGTT
**
10418685 GTGTCACACATTTCCACCATAAC
1 GTGTCACACATTTCCACCATGTC
* * *
10418708 GAGACACACATTCCCACCATGTC
1 GTGTCACACATTTCCACCATGTC
10418731 GTGTCACACATTTCCACCATGTC
1 GTGTCACACATTTCCACCATGTC
*
10418754 GTTTCACA
1 GTGTCACA
10418762 AACTTTAAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.27, C:0.35, G:0.12, T:0.26
Consensus pattern (23 bp):
GTGTCACACATTTCCACCATGTC
Found at i:10422370 original size:36 final size:39
Alignment explanation
Indices: 10422295--10422370 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 39
10422285 TATTAGATCA
*
10422295 ATTTTAATAAAATAATTTGACAAAATAATCAAAATAATT
1 ATTTTAATAAAATAATTTGACAAAATAATCAAAACAATT
10422334 ATTTTAA-AAAA-AATTT-A-AAAATCTAAT-AAAACAATT
1 ATTTTAATAAAATAATTTGACAAAA--TAATCAAAACAATT
10422370 A
1 A
10422371 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
35 4 0.12
36 10 0.29
37 9 0.26
38 4 0.12
39 7 0.21
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.34
Consensus pattern (39 bp):
ATTTTAATAAAATAATTTGACAAAATAATCAAAACAATT
Found at i:10422949 original size:15 final size:16
Alignment explanation
Indices: 10422929--10422958 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10422919 NNNNNNNNTG
10422929 GATTTT-ATTTTTAAT
1 GATTTTAATTTTTAAT
10422944 GATTTTAATTTTTAA
1 GATTTTAATTTTTAA
10422959 AAATTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (16 bp):
GATTTTAATTTTTAAT
Found at i:10438532 original size:42 final size:41
Alignment explanation
Indices: 10438472--10438589 Score: 157
Period size: 42 Copynumber: 2.9 Consensus size: 41
10438462 TAATTATGAC
*
10438472 CCAGCCATGTGCGGTGTAGGAGTGCACATGAGTTGTGCTGA
1 CCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGCTGA
*
10438513 CTCAGCCATGTGCGGTGTAGGAGTGCGCATGAGCTGTGCTGA
1 C-CAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGCTGA
* * * *
10438555 CCGGCTATATGCGGTGT-GGTAGTGCACATAAGCTG
1 CCAGCCATGTGCGGTGTAGG-AGTGCACATGAGCTG
10438590 AGACAGAGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
40 2 0.03
41 27 0.40
42 39 0.57
ACGTcount: A:0.19, C:0.20, G:0.36, T:0.25
Consensus pattern (41 bp):
CCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGCTGA
Found at i:10438635 original size:2 final size:2
Alignment explanation
Indices: 10438630--10438668 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
10438620 TATATACGTT
10438630 TA TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10438669 AATAAAGGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10440356 original size:6 final size:6
Alignment explanation
Indices: 10440345--10440397 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
10440335 TTTTTTAGTG
* * * *
10440345 AAAAGA AAAAGA AGAAAGG AAAAGA AATAGG AAAATA AAAAGA AAAA-A
1 AAAAGA AAAAGA A-AAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
10440393 AAAAG
1 AAAAG
10440398 CAAGAAAGAG
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
5 5 0.14
6 27 0.73
7 5 0.14
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (6 bp):
AAAAGA
Found at i:10441816 original size:13 final size:13
Alignment explanation
Indices: 10441798--10441822 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10441788 TGCCTATACT
10441798 AACAAATTTTATC
1 AACAAATTTTATC
10441811 AACAAATTTTAT
1 AACAAATTTTAT
10441823 TGACGGAATT
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:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
AACAAATTTTATC
Found at i:10445687 original size:20 final size:20
Alignment explanation
Indices: 10445642--10445679 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10445632 GTTTTGGACC
* *
10445642 AAATGTATTGATACATTCCA
1 AAATGTATTAATACATGCCA
10445662 AAATGTATTAATACATGC
1 AAATGTATTAATACATGC
10445680 TACAATGTTT
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:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (20 bp):
AAATGTATTAATACATGCCA
Found at i:10445772 original size:22 final size:22
Alignment explanation
Indices: 10445746--10445791 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
10445736 GAAAAGTTTC
10445746 AAAATTACTTAAATGAGTTTTG
1 AAAATTACTTAAATGAGTTTTG
* *
10445768 AAAATTACTTTAATGATTTTTG
1 AAAATTACTTAAATGAGTTTTG
10445790 AA
1 AA
10445792 CTTGTTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.43
Consensus pattern (22 bp):
AAAATTACTTAAATGAGTTTTG
Found at i:10445819 original size:18 final size:18
Alignment explanation
Indices: 10445795--10445852 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 18
10445785 TTTTGAACTT
10445795 GTTTGAATAGCTTTTAAA
1 GTTTGAATAGCTTTTAAA
* * *
10445813 NTTTGAATGAGTTTTTGAACTT
1 GTTTGAAT-AGCTTTT-AA--A
10445835 GTTTGAATAGCTTTTAAA
1 GTTTGAATAGCTTTTAAA
10445853 CTTGTTTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
18 7 0.23
19 6 0.20
20 4 0.13
21 6 0.20
22 7 0.23
ACGTcount: A:0.29, C:0.05, G:0.17, T:0.47
Consensus pattern (18 bp):
GTTTGAATAGCTTTTAAA
Found at i:10445854 original size:21 final size:21
Alignment explanation
Indices: 10445785--10445874 Score: 89
Period size: 21 Copynumber: 4.4 Consensus size: 21
10445775 CTTTAATGAT
*
10445785 TTTTGAACTTGTTTGAATAGC
1 TTTTAAACTTGTTTGAATAGC
* *
10445806 TTTTAAA---NTTTGAATGAGT
1 TTTTAAACTTGTTTGAAT-AGC
*
10445825 TTTTGAACTTGTTTGAATAGC
1 TTTTAAACTTGTTTGAATAGC
*
10445846 TTTTAAACTTGTTTAAATTAG-
1 TTTTAAACTTGTTTGAA-TAGC
10445867 TTTTAAAC
1 TTTTAAAC
10445875 CTCCCTTGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
18 7 0.12
19 8 0.14
21 31 0.55
22 10 0.18
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.49
Consensus pattern (21 bp):
TTTTAAACTTGTTTGAATAGC
Found at i:10446181 original size:21 final size:21
Alignment explanation
Indices: 10446138--10446187 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
10446128 TTCAAGGGAG
*
10446138 GTTTAAAACTAATTTAAACAA
1 GTTTAAAACTAATTCAAACAA
*
10446159 GTTTAAAAGCT-ATTCAAATAA
1 GTTTAAAA-CTAATTCAAACAA
*
10446180 GTTCAAAA
1 GTTTAAAA
10446188 ATCATTAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (21 bp):
GTTTAAAACTAATTCAAACAA
Found at i:10446206 original size:22 final size:22
Alignment explanation
Indices: 10446181--10446226 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
10446171 TTCAAATAAG
10446181 TTCAAAAATCATTAAAGTAATT
1 TTCAAAAATCATTAAAGTAATT
* *
10446203 TTCAAAACTCATTTAAGTAATT
1 TTCAAAAATCATTAAAGTAATT
10446225 TT
1 TT
10446227 GAAACTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.41
Consensus pattern (22 bp):
TTCAAAAATCATTAAAGTAATT
Found at i:10446287 original size:22 final size:22
Alignment explanation
Indices: 10446260--10446343 Score: 93
Period size: 21 Copynumber: 3.9 Consensus size: 22
10446250 TAGACACTTC
10446260 AAAACTTATTTAAA-AATGTTTA
1 AAAACTTATTTAAACAA-GTTTA
* *
10446282 AAAAC-TATTGAAACAAGTTCA
1 AAAACTTATTTAAACAAGTTTA
* * *
10446303 AAAACTCATTCAAACAACTTTA
1 AAAACTTATTTAAACAAGTTTA
10446325 AAAA-TTATTTAAACAAGTT
1 AAAACTTATTTAAACAAGTT
10446344 CAAAGATCAT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
21 28 0.55
22 23 0.45
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (22 bp):
AAAACTTATTTAAACAAGTTTA
Found at i:10446355 original size:21 final size:21
Alignment explanation
Indices: 10446257--10446357 Score: 80
Period size: 21 Copynumber: 4.8 Consensus size: 21
10446247 ACTTAGACAC
* *
10446257 TTCAAAACTTATTTAAA-AATG
1 TTCAAAAATCATTTAAACAA-G
* *
10446278 TTTAAAAA-CTATTGAAACAAG
1 TTCAAAAATC-ATTTAAACAAG
* *
10446299 TTCAAAAACTCATTCAAACAAC
1 TTCAAAAA-TCATTTAAACAAG
* *
10446321 TTTAAAAATTATTTAAACAAG
1 TTCAAAAATCATTTAAACAAG
*
10446342 TTCAAAGATCATTTAA
1 TTCAAAAATCATTTAA
10446358 GCAATTTTGA
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
21 43 0.69
22 18 0.29
23 1 0.02
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.33
Consensus pattern (21 bp):
TTCAAAAATCATTTAAACAAG
Found at i:10446398 original size:140 final size:139
Alignment explanation
Indices: 10446138--10446403 Score: 326
Period size: 140 Copynumber: 1.9 Consensus size: 139
10446128 TTCAAGGGAG
* * * * * * *
10446138 GTTTAAAACTAATTTAAACAAGTTTAAAAGCTATTCAAATAAGTTCAAAAATCATTAAAGTAATT
1 GTTTAAAACTAATTGAAACAAGTTCAAAAACTATTCAAACAACTTCAAAAATCATTAAAGCAATG
*
10446203 TTCAAAACTCATTTAAGTAATTTTGAAACTTTTCACATGGAAAAACTTAGACACTTCAAAACTTA
66 TTCAAAACTCATTTAAGCAATTTTGAAACTTTTCACATGGAAAAACTTAGACACTTCAAAACTTA
10446268 TTTAAAAAT
131 TTTAAAAAT
* *
10446277 GTTTAAAAACT-ATTGAAACAAGTTCAAAAACTCATTCAAACAACTTTAAAAATTATTTAAA-CA
1 GTTT-AAAACTAATTGAAACAAGTTCAAAAACT-ATTCAAACAACTTCAAAAATCA-TTAAAGCA
* * *
10446340 A-GTTCAAAGA-TCATTTAAGCAATTTTGATTATTTTTCACATGGAAACACTTACG-CACTTCAA
63 ATGTTCAAA-ACTCATTTAAGCAATTTTGA-AACTTTTCACATGGAAAAACTTA-GACACTTCAA
10446402 AA
125 AA
10446404 GCAAATATAT
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
139 45 0.42
140 57 0.53
141 6 0.06
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (139 bp):
GTTTAAAACTAATTGAAACAAGTTCAAAAACTATTCAAACAACTTCAAAAATCATTAAAGCAATG
TTCAAAACTCATTTAAGCAATTTTGAAACTTTTCACATGGAAAAACTTAGACACTTCAAAACTTA
TTTAAAAAT
Found at i:10446481 original size:21 final size:21
Alignment explanation
Indices: 10446456--10446517 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
10446446 TAACATTTTC
* *
10446456 AAACAACTTCAAAAATCATTT
1 AAACAAGTTCAAAGATCATTT
* *
10446477 AAACAAGTTCAAGGATCACTT
1 AAACAAGTTCAAAGATCATTT
*
10446498 AAAGAAGTTCAAAGATCATT
1 AAACAAGTTCAAAGATCATT
10446518 GGAGCATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (21 bp):
AAACAAGTTCAAAGATCATTT
Done.