Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 41 of 120
Found at i:11122713 original size:545 final size:545
Alignment explanation
Indices: 11121684--11122774 Score: 2173
Period size: 545 Copynumber: 2.0 Consensus size: 545
11121674 TTGTATATCT
11121684 CAGCAAGTATACTCGAGAGATCGTGCCAACCGATGAAGCTATGTGTATCCGTTTTGAGGACGGGT
1 CAGCAAGTATACTCGAGAGATCGTGCCAACCGATGAAGCTATGTGTATCCGTTTTGAGGACGGGT
11121749 TAAATGGTGAAATCAAGATGATGGTTGGTGGTTTAGAGTTGTGACCATTTATGGTTTTGATAGAT
66 TAAATGGTGAAATCAAGATGATGGTTGGTGGTTTAGAGTTGTGACCATTTATGGTTTTGATAGAT
11121814 CGAGCTCAAAAAATGAAAGAAATTTATAAGCACAAGAGACAGAGAGAAAAGAGATTCAGAGAGTT
131 CGAGCTCAAAAAATGAAAGAAATTTATAAGCACAAGAGACAGAGAGAAAAGAGATTCAGAGAGTT
11121879 CAACAAGAAGGCCATCTCTAAGACTTTCTCTATGTCACCGTAAAAGAAATTTAGAGAGAATGAGA
196 CAACAAGAAGGCCATCTCTAAGACTTTCTCTATGTCACCGTAAAAGAAATTTAGAGAGAATGAGA
*
11121944 ACCATGTAGCTGTTTTATTCGGTTATCAGAGTAGGAGCAGGTCGAGACAGCCCGAATCTAGATTC
261 ACCATGTAGCTATTTTATTCGGTTATCAGAGTAGGAGCAGGTCGAGACAGCCCGAATCTAGATTC
11122009 CAAAATCAACCTGCAGGCAGCATGGCAAGTGTTTGGAATGCAACGATTCTTGCATGCGAGCACTA
326 CAAAATCAACCTGCAGGCAGCATGGCAAGTGTTTGGAATGCAACGATTCTTGCATGCGAGCACTA
11122074 CGAAATATTTCATCCGAGAGAGTGCCGATATAAAAAAGGAGCATGTTATAGGTGCAAAGCAACTG
391 CGAAATATTTCATCCGAGAGAGTGCCGATATAAAAAAGGAGCATGTTATAGGTGCAAAGCAACTG
11122139 ATCATTTGGTTTGAAATTGTCCAATAGTGCTTGATTTTAGAGAAGATCGGAGTGTAAAACCTCCA
456 ATCATTTGGTTTGAAATTGTCCAATAGTGCTTGATTTTAGAGAAGATCGGAGTGTAAAACCTCCA
11122204 GTCACACCCTAGAAGGGGGGACGAC
521 GTCACACCCTAGAAGGGGGGACGAC
11122229 CAGCAAGTATACTCGAGAGATCGTGCCAACCGATGAAGCTATGTGTATCCGTTTTGAGGACGGGT
1 CAGCAAGTATACTCGAGAGATCGTGCCAACCGATGAAGCTATGTGTATCCGTTTTGAGGACGGGT
11122294 TAAATGGTGAAATCAAGATGATGGTTGGTGGTTTAGAGTTGTGACCATTTATGGTTTTGATAGAT
66 TAAATGGTGAAATCAAGATGATGGTTGGTGGTTTAGAGTTGTGACCATTTATGGTTTTGATAGAT
11122359 CGAGCTCAAAAAATGAAAGAAATTTATAAGCACAAGAGACAGAGAGAAAAGAGATTCAGAGAGTT
131 CGAGCTCAAAAAATGAAAGAAATTTATAAGCACAAGAGACAGAGAGAAAAGAGATTCAGAGAGTT
11122424 CAACAAGAAGGCCATCTCTAAGACTTTCTCTATGTCACCGTAAAAGAAATTTAGAGAGAATGAGA
196 CAACAAGAAGGCCATCTCTAAGACTTTCTCTATGTCACCGTAAAAGAAATTTAGAGAGAATGAGA
11122489 ACCATGTAGCTATTTTATTCGGTTATCAGAGTAGGAGCAGGTCGAGACAGCCCGAATCTAGATTC
261 ACCATGTAGCTATTTTATTCGGTTATCAGAGTAGGAGCAGGTCGAGACAGCCCGAATCTAGATTC
11122554 CAAAATCAACCTGCAGGCAGCATGGCAAGTGTTTGGAATGCAACGATTCTTGCATGCGAGCACTA
326 CAAAATCAACCTGCAGGCAGCATGGCAAGTGTTTGGAATGCAACGATTCTTGCATGCGAGCACTA
11122619 CGAAATATTTCATCCGAGAGAGTGCCGATATAAAAAAGGAGCATGTTATAGGTGCAAAGCAACTG
391 CGAAATATTTCATCCGAGAGAGTGCCGATATAAAAAAGGAGCATGTTATAGGTGCAAAGCAACTG
11122684 ATCATTTGGTTTGAAATTGTCCAATAGTGCTTGATTTTAGAGAAGATCGGAGTGTAAAACCTCCA
456 ATCATTTGGTTTGAAATTGTCCAATAGTGCTTGATTTTAGAGAAGATCGGAGTGTAAAACCTCCA
11122749 GTCACACCCTAGAAGGGGGGACGAC
521 GTCACACCCTAGAAGGGGGGACGAC
11122774 C
1 C
11122775 TAGGTAGAGC
Statistics
Matches: 545, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
545 545 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (545 bp):
CAGCAAGTATACTCGAGAGATCGTGCCAACCGATGAAGCTATGTGTATCCGTTTTGAGGACGGGT
TAAATGGTGAAATCAAGATGATGGTTGGTGGTTTAGAGTTGTGACCATTTATGGTTTTGATAGAT
CGAGCTCAAAAAATGAAAGAAATTTATAAGCACAAGAGACAGAGAGAAAAGAGATTCAGAGAGTT
CAACAAGAAGGCCATCTCTAAGACTTTCTCTATGTCACCGTAAAAGAAATTTAGAGAGAATGAGA
ACCATGTAGCTATTTTATTCGGTTATCAGAGTAGGAGCAGGTCGAGACAGCCCGAATCTAGATTC
CAAAATCAACCTGCAGGCAGCATGGCAAGTGTTTGGAATGCAACGATTCTTGCATGCGAGCACTA
CGAAATATTTCATCCGAGAGAGTGCCGATATAAAAAAGGAGCATGTTATAGGTGCAAAGCAACTG
ATCATTTGGTTTGAAATTGTCCAATAGTGCTTGATTTTAGAGAAGATCGGAGTGTAAAACCTCCA
GTCACACCCTAGAAGGGGGGACGAC
Found at i:11128858 original size:25 final size:25
Alignment explanation
Indices: 11128830--11128997 Score: 142
Period size: 25 Copynumber: 6.6 Consensus size: 25
11128820 ATAGTCCGAT
*
11128830 TCTGGCTCGTAAGAGCGTGATTCTG
1 TCTGGCTCGTAAGAGCGTAATTCTG
* *
11128855 TCTGGCTCGTAAGAGCATAATTTTG
1 TCTGGCTCGTAAGAGCGTAATTCTG
* * *
11128880 TTTGGGTCGTAAGAGCGTAATTCTA
1 TCTGGCTCGTAAGAGCGTAATTCTG
* * * *
11128905 TCTGGGTCATAAGAG-GAATATTTTG
1 TCTGGCTCGTAAGAGCGTA-ATTCTG
*
11128930 TCTGGCTCGTAAGAGC-TAAACTCTG
1 TCTGGCTCGTAAGAGCGT-AATTCTG
* * * *
11128955 TCTGGGCTCGTAAGAACGAAACTCTA
1 TCT-GGCTCGTAAGAGCGTAATTCTG
*
11128981 TCTAGGCTCGTATGAGC
1 TCT-GGCTCGTAAGAGC
11128998 TAAATTTATG
Statistics
Matches: 114, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
24 2 0.02
25 79 0.69
26 33 0.29
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (25 bp):
TCTGGCTCGTAAGAGCGTAATTCTG
Found at i:11128959 original size:50 final size:50
Alignment explanation
Indices: 11128830--11128969 Score: 167
Period size: 50 Copynumber: 2.8 Consensus size: 50
11128820 ATAGTCCGAT
* * *
11128830 TCTGGCTCGTAAGAGCGTGATTCTGTCTGGCTCGTAAGAGCATAATTTTG
1 TCTGGCTCGTAAGAGCGTAATTCTGTCTGGGTCGTAAGAGAATAATTTTG
* * * *
11128880 TTTGGGTCGTAAGAGCGTAATTCTATCTGGGTCATAAGAGGAAT-ATTTTG
1 TCTGGCTCGTAAGAGCGTAATTCTGTCTGGGTCGTAAGA-GAATAATTTTG
*
11128930 TCTGGCTCGTAAGAGC-TAAACTCTGTCTGGGCTCGTAAGA
1 TCTGGCTCGTAAGAGCGT-AATTCTGTCTGGG-TCGTAAGA
11128970 ACGAAACTCT
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
49 1 0.01
50 64 0.85
51 10 0.13
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (50 bp):
TCTGGCTCGTAAGAGCGTAATTCTGTCTGGGTCGTAAGAGAATAATTTTG
Found at i:11148058 original size:23 final size:23
Alignment explanation
Indices: 11148031--11148084 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
11148021 GAATTCTCTT
11148031 TGATGCCTTTGTGGCGTATTCTG
1 TGATGCCTTTGTGGCGTATTCTG
*
11148054 TGATGCCTTTGTGGTGTATTCTG
1 TGATGCCTTTGTGGCGTATTCTG
11148077 TGATGCCT
1 TGATGCCT
11148085 GTGTTGTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.09, C:0.17, G:0.30, T:0.44
Consensus pattern (23 bp):
TGATGCCTTTGTGGCGTATTCTG
Found at i:11148092 original size:21 final size:22
Alignment explanation
Indices: 11148031--11148092 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
11148021 GAATTCTCTT
*
11148031 TGATGCCTTTGTGGCGTATTCTG
1 TGATGCC-TTGTGGTGTATTCTG
11148054 TGATGCCTTTGTGGTGTATTCTG
1 TGATGCC-TTGTGGTGTATTCTG
*
11148077 TGATGCC-TGTGTTGTA
1 TGATGCCTTGTGGTGTA
11148093 ACAGCCCAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.22
23 29 0.78
ACGTcount: A:0.10, C:0.15, G:0.31, T:0.45
Consensus pattern (22 bp):
TGATGCCTTGTGGTGTATTCTG
Found at i:11149199 original size:21 final size:21
Alignment explanation
Indices: 11149170--11149221 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
11149160 GGAGTTTTTA
*
11149170 GTATTGGTAGAA-AAGTCACTT
1 GTATCGGTAGAACAA-TCACTT
*
11149191 GTATCGGTAGAACTATCACTT
1 GTATCGGTAGAACAATCACTT
11149212 GTATCGGTAG
1 GTATCGGTAG
11149222 GAGTTTGCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAACAATCACTT
Found at i:11149600 original size:23 final size:23
Alignment explanation
Indices: 11149529--11149603 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 23
11149519 TGTAGTGTAT
* *
11149529 TATTCTGTGATGCATGTGTGGCG
1 TATTCTGTGATGCCTGTGTGGAG
* * *
11149552 TATCCTATGATGCCCGTGTGGAG
1 TATTCTGTGATGCCTGTGTGGAG
* * *
11149575 TATTCTGTGATGCCTTTATGGTG
1 TATTCTGTGATGCCTGTGTGGAG
11149598 TATTCT
1 TATTCT
11149604 ATAAAGACCT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.15, C:0.16, G:0.28, T:0.41
Consensus pattern (23 bp):
TATTCTGTGATGCCTGTGTGGAG
Found at i:11152525 original size:37 final size:38
Alignment explanation
Indices: 11152484--11152581 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 38
11152474 GGACACGTTC
11152484 ATGCAGCGACATTCTTGGGTGCAA-TTGAAGAATACTT
1 ATGCAGCGACATTCTTGGGTGCAATTTGAAGAATACTT
* *** *
11152521 ATGCAGCGATAGTTC-TAAATGCAATTTGAAGAATATTT
1 ATGCAGCGACA-TTCTTGGGTGCAATTTGAAGAATACTT
*
11152559 ATGCAGCGACAGTCTTGGGTGCA
1 ATGCAGCGACATTCTTGGGTGCA
11152582 TTCCGGAAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
37 18 0.38
38 30 0.62
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (38 bp):
ATGCAGCGACATTCTTGGGTGCAATTTGAAGAATACTT
Found at i:11153732 original size:17 final size:17
Alignment explanation
Indices: 11153695--11153760 Score: 87
Period size: 17 Copynumber: 3.9 Consensus size: 17
11153685 ATATTTATGG
* **
11153695 AAATGCAATGACAATGT
1 AAATGCAGTGACAATAA
11153712 AAATGCAGTGACAATAA
1 AAATGCAGTGACAATAA
*
11153729 AAATGTAGTGACAATAA
1 AAATGCAGTGACAATAA
*
11153746 AAATGCAGGGACAAT
1 AAATGCAGTGACAAT
11153761 TATACTATAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 43 1.00
ACGTcount: A:0.50, C:0.11, G:0.20, T:0.20
Consensus pattern (17 bp):
AAATGCAGTGACAATAA
Found at i:11161539 original size:16 final size:16
Alignment explanation
Indices: 11161520--11161567 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 16
11161510 AGTATCAGTA
*
11161520 TCTATAGTTTTCAGAG
1 TCTATAGTTTTCAAAG
*
11161536 TCTA-AG-TTTCACAG
1 TCTATAGTTTTCAAAG
11161550 --TATAGTTTTCAAAG
1 TCTATAGTTTTCAAAG
11161564 TCTA
1 TCTA
11161568 AATTTTTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
12 2 0.08
13 2 0.08
14 14 0.54
15 2 0.08
16 6 0.23
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (16 bp):
TCTATAGTTTTCAAAG
Found at i:11161613 original size:29 final size:29
Alignment explanation
Indices: 11161571--11161645 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
11161561 AAGTCTAAAT
* **
11161571 TTTTTAGAATCTAAAG-TCTCAGAGTATAG
1 TTTTTAGAATCTAAAGTTC-CACAAAATAG
11161600 TTTTTAGAATCTAAAGTTCCACAAAATAG
1 TTTTTAGAATCTAAAGTTCCACAAAATAG
*
11161629 TTTTCAGAATCTAAAGT
1 TTTTTAGAATCTAAAGT
11161646 ATATCACAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 39 0.95
30 2 0.05
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (29 bp):
TTTTTAGAATCTAAAGTTCCACAAAATAG
Found at i:11165665 original size:9 final size:9
Alignment explanation
Indices: 11165651--11165677 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
11165641 GACTCATTAA
11165651 AATGTTGTT
1 AATGTTGTT
11165660 AATGTTGTT
1 AATGTTGTT
11165669 AATGTTGTT
1 AATGTTGTT
11165678 TTATTGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (9 bp):
AATGTTGTT
Found at i:11173676 original size:22 final size:22
Alignment explanation
Indices: 11173648--11173727 Score: 133
Period size: 22 Copynumber: 3.6 Consensus size: 22
11173638 TAAAAAATAT
11173648 TCAATTATATTGGCGCAATCAA
1 TCAATTATATTGGCGCAATCAA
* *
11173670 TCAATTAAATTGGTGCAATCAA
1 TCAATTATATTGGCGCAATCAA
*
11173692 TCAATTATATTGGTGCAATCAA
1 TCAATTATATTGGCGCAATCAA
11173714 TCAATTATATTGGC
1 TCAATTATATTGGC
11173728 ATAATACATC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (22 bp):
TCAATTATATTGGCGCAATCAA
Found at i:11179965 original size:17 final size:16
Alignment explanation
Indices: 11179943--11179987 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
11179933 TGGCAATATA
11179943 TTTCTTTTCTTTTCTCT
1 TTTCTTTTCTTTTCT-T
11179960 TTTCTTCTTC-TTTCTT
1 TTTCTT-TTCTTTTCTT
11179976 TTTC-TTTCTTTT
1 TTTCTTTTCTTTT
11179988 TGTGGATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.12
15 4 0.15
16 5 0.19
17 11 0.42
18 3 0.12
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTCTTTTCTTTTCTT
Found at i:11179986 original size:10 final size:11
Alignment explanation
Indices: 11179943--11179988 Score: 60
Period size: 10 Copynumber: 4.3 Consensus size: 11
11179933 TGGCAATATA
11179943 TTTCTTTTCTT
1 TTTCTTTTCTT
11179954 TTCTCTTTTCTT
1 TT-TCTTTTCTT
*
11179966 CTTC-TTTCTT
1 TTTCTTTTCTT
11179976 TTTC-TTTCTT
1 TTTCTTTTCTT
11179986 TTT
1 TTT
11179989 GTGGATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 18 0.56
11 4 0.12
12 10 0.31
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:11182947 original size:14 final size:14
Alignment explanation
Indices: 11182920--11182954 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
11182910 TAGAATTTAG
11182920 AAGGAAACAAATAA
1 AAGGAAACAAATAA
11182934 AAGTGAAA-AAATAA
1 AAG-GAAACAAATAA
11182948 AAGGAAA
1 AAGGAAA
11182955 TGCAAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 12 0.60
15 4 0.20
ACGTcount: A:0.71, C:0.03, G:0.17, T:0.09
Consensus pattern (14 bp):
AAGGAAACAAATAA
Found at i:11192623 original size:25 final size:23
Alignment explanation
Indices: 11192595--11192640 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
11192585 GTTCGATCCA
11192595 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
11192620 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
11192641 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:11193433 original size:21 final size:21
Alignment explanation
Indices: 11193407--11193464 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
11193397 AATAGTGCAA
*
11193407 ACTTCTACCGATACAAGTGAC
1 ACTTCTACCGATACAAGTAAC
*
11193428 AGTTCTACCGATACAAGTAAC
1 ACTTCTACCGATACAAGTAAC
* *
11193449 TCTTCTACCGAAACAA
1 ACTTCTACCGATACAA
11193465 ATCTTACTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTAAC
Found at i:11195562 original size:22 final size:22
Alignment explanation
Indices: 11195534--11195613 Score: 115
Period size: 22 Copynumber: 3.6 Consensus size: 22
11195524 AAAGAAATAT
*
11195534 TCAATTATATTAGCGCAATCAA
1 TCAATTATATTGGCGCAATCAA
* * *
11195556 TCAATTAAATTGGTGTAATCAA
1 TCAATTATATTGGCGCAATCAA
*
11195578 TCAATTGTATTGGCGCAATCAA
1 TCAATTATATTGGCGCAATCAA
11195600 TCAATTATATTGGC
1 TCAATTATATTGGC
11195614 ATAATACATC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (22 bp):
TCAATTATATTGGCGCAATCAA
Found at i:11207434 original size:36 final size:34
Alignment explanation
Indices: 11207380--11207448 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 34
11207370 GAATGATGGA
*
11207380 AGGGAATAAAATAAAATAAAAAG-AAATCAAAAAG
1 AGGGAAAAAAATAAAATAAAAAGTAAAT-AAAAAG
*
11207414 AGGGAAAAATAATAAAAATAATAAGTAAATAAAAA
1 AGGGAAAAA-AAT-AAAATAAAAAGTAAATAAAAA
11207449 TGAAGTAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 8 0.27
35 3 0.10
36 15 0.50
37 4 0.13
ACGTcount: A:0.71, C:0.01, G:0.13, T:0.14
Consensus pattern (34 bp):
AGGGAAAAAAATAAAATAAAAAGTAAATAAAAAG
Found at i:11207481 original size:16 final size:16
Alignment explanation
Indices: 11207460--11207491 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11207450 GAAGTAGAAG
11207460 AATTCAAATTCCATAT
1 AATTCAAATTCCATAT
11207476 AATTCAAATTCCATAT
1 AATTCAAATTCCATAT
11207492 GAACAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTCAAATTCCATAT
Found at i:11207500 original size:15 final size:15
Alignment explanation
Indices: 11207463--11207501 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
11207453 GTAGAAGAAT
11207463 TCAAATTCCATATAA
1 TCAAATTCCATATAA
11207478 TTCAAATTCCATATGAA
1 -TCAAATTCCATAT-AA
11207495 -CAAATTC
1 TCAAATTC
11207502 AAATTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.32
16 13 0.59
17 2 0.09
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.33
Consensus pattern (15 bp):
TCAAATTCCATATAA
Found at i:11215312 original size:158 final size:158
Alignment explanation
Indices: 11215014--11215337 Score: 407
Period size: 158 Copynumber: 2.1 Consensus size: 158
11215004 CATCTTCAAG
* * * * * *
11215014 ATTACAGGTTATATGGGTGTTGGTCTTAGATGTCTTATCGATGGCTGAGATCCGATAATTATTAC
1 ATTACAAGTTATAAGGGTGTTGGTCTTAGATGTCCTACCAATGGCTGAGATCCGACAATTATTAC
* ** ** *
11215079 GGATTCTGCACAACTTGTGTGAACAGCATCGTGTAGCTCAACATCTCAACGCACAGCTCGTGTGA
66 GGACTCACCACAACTCATGTGAACAGCATCGTGTAGCACAACATCTCAACGCACAGCTCGTGTGA
* *
11215144 ACAGGGCCATTTCACAGCTCGTGTGAGC
131 ACAGGCCCATTTCACAGCTCGTGTCAGC
*
11215172 ATTACAAGTTATAAGGGTGTTGGTCTTAGATGTCCTACCAATGGCTGAGATCCGACAATTATTAT
1 ATTACAAGTTATAAGGGTGTTGGTCTTAGATGTCCTACCAATGGCTGAGATCCGACAATTATTAC
* ** * * *
11215237 GGACTCACCACAGCTCATGTGAGTAGCATTGTGTAGCACAACATTTCGATC-CACAGCTCGTGTG
66 GGACTCACCACAACTCATGTGAACAGCATCGTGTAGCACAACATCTC-AACGCACAGCTCGTGTG
** * *
11215301 AGTAGGCCCATTTCATAGCTTGTGTCAGC
130 AACAGGCCCATTTCACAGCTCGTGTCAGC
11215330 ATTACAAG
1 ATTACAAG
11215338 ATATGGTGAT
Statistics
Matches: 140, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
158 138 0.99
159 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (158 bp):
ATTACAAGTTATAAGGGTGTTGGTCTTAGATGTCCTACCAATGGCTGAGATCCGACAATTATTAC
GGACTCACCACAACTCATGTGAACAGCATCGTGTAGCACAACATCTCAACGCACAGCTCGTGTGA
ACAGGCCCATTTCACAGCTCGTGTCAGC
Found at i:11216189 original size:24 final size:22
Alignment explanation
Indices: 11216147--11216191 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
11216137 AGGAAATTGC
*
11216147 ACTTATTTTTCGATGCTTACTG
1 ACTTATTTTTCGATACTTACTG
11216169 ACTTACTTTTATCGATACTTACT
1 ACTTA-TTTT-TCGATACTTACT
11216192 CAATCGGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 4 0.20
24 11 0.55
ACGTcount: A:0.22, C:0.20, G:0.09, T:0.49
Consensus pattern (22 bp):
ACTTATTTTTCGATACTTACTG
Found at i:11221807 original size:12 final size:12
Alignment explanation
Indices: 11221790--11221814 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11221780 CACTCTTACT
11221790 ATTAAATTAGTA
1 ATTAAATTAGTA
11221802 ATTAAATTAGTA
1 ATTAAATTAGTA
11221814 A
1 A
11221815 CTTGTTTATT
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
ATTAAATTAGTA
Found at i:11242967 original size:24 final size:24
Alignment explanation
Indices: 11242939--11242985 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
11242929 TATATTTTTT
*
11242939 TATAAAAGATTTAGTATTTATTAG
1 TATAAAAGATTTAGGATTTATTAG
* * *
11242963 TATAATATATTTTGGATTTATTA
1 TATAAAAGATTTAGGATTTATTA
11242986 TCATAATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (24 bp):
TATAAAAGATTTAGGATTTATTAG
Found at i:11250026 original size:29 final size:30
Alignment explanation
Indices: 11249994--11250071 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
11249984 GTTTGTCTCT
*
11249994 ATATAGTTTTTAGAATCTATAGTCTT-ACA
1 ATATAGTTTTCAGAATCTATAGTCTTCACA
* * * *
11250023 ATATA-TCCTTCGGAGTCTATAGTTTTCACA
1 ATATAGT-TTTCAGAATCTATAGTCTTCACA
*
11250053 ATATGGTTTTCAGAATCTA
1 ATATAGTTTTCAGAATCTA
11250072 AAGTATACTA
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
28 1 0.03
29 19 0.51
30 16 0.43
31 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (30 bp):
ATATAGTTTTCAGAATCTATAGTCTTCACA
Found at i:11251458 original size:37 final size:36
Alignment explanation
Indices: 11251396--11251488 Score: 116
Period size: 37 Copynumber: 2.6 Consensus size: 36
11251386 ATTTTCAGTA
* * *
11251396 GCATGCTTAACATGTGAATCGGAATATCAA-AATATG
1 GCATGCTTAACATGTAAATCAGAATAT-AAGAATAGG
11251432 GCATGCTTAATCATGTAAATCAGAATATAAGAATAGG
1 GCATGCTTAA-CATGTAAATCAGAATATAAGAATAGG
* *
11251469 GCATGCTCAACATGCAAATC
1 GCATGCTTAACATGTAAATC
11251489 CATAGATCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
36 21 0.42
37 29 0.58
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (36 bp):
GCATGCTTAACATGTAAATCAGAATATAAGAATAGG
Found at i:11253584 original size:19 final size:19
Alignment explanation
Indices: 11253562--11253629 Score: 109
Period size: 19 Copynumber: 3.6 Consensus size: 19
11253552 ATCTATTTCG
*
11253562 CATATTTACATCAATGTCA
1 CATATTCACATCAATGTCA
*
11253581 CATATCCACATCAATGTCA
1 CATATTCACATCAATGTCA
*
11253600 CACATTCACATCAATGTCA
1 CATATTCACATCAATGTCA
11253619 CATATTCACAT
1 CATATTCACAT
11253630 ATTCCACTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.31
Consensus pattern (19 bp):
CATATTCACATCAATGTCA
Found at i:11253601 original size:11 final size:11
Alignment explanation
Indices: 11253569--11253621 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
11253559 TCGCATATTT
11253569 ACATCAATGTC
1 ACATCAATGTC
*
11253580 ACAT--AT-CC
1 ACATCAATGTC
11253588 ACATCAATGTC
1 ACATCAATGTC
11253599 ACA-C-AT-TC
1 ACATCAATGTC
11253607 ACATCAATGTC
1 ACATCAATGTC
11253618 ACAT
1 ACAT
11253622 ATTCACATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
8 10 0.29
9 5 0.15
10 5 0.15
11 14 0.41
ACGTcount: A:0.38, C:0.30, G:0.06, T:0.26
Consensus pattern (11 bp):
ACATCAATGTC
Found at i:11256886 original size:12 final size:11
Alignment explanation
Indices: 11256867--11256908 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
11256857 TGGAAATATA
11256867 TTTCTTTTCTT
1 TTTCTTTTCTT
11256878 TTCTCTTTTCTT
1 TT-TCTTTTCTT
*
11256890 CTTTCTTTT-TC
1 -TTTCTTTTCTT
11256901 TTTCTTTT
1 TTTCTTTT
11256909 TGTGAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 8 0.29
11 3 0.11
12 15 0.54
13 2 0.07
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:11266596 original size:15 final size:15
Alignment explanation
Indices: 11266578--11266620 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
11266568 GAGGAGAAGT
* *
11266578 AAAGGAAGGAAAATA
1 AAAGGAAAGAAAAGA
* *
11266593 AAAGAAAATAAAAGA
1 AAAGGAAAGAAAAGA
11266608 AAAGGAAAGAAAA
1 AAAGGAAAGAAAA
11266621 AGAGGATGCT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (15 bp):
AAAGGAAAGAAAAGA
Found at i:11266601 original size:10 final size:10
Alignment explanation
Indices: 11266586--11266620 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
11266576 GTAAAGGAAG
11266586 GAAAATAAAA
1 GAAAATAAAA
11266596 GAAAATAAAA
1 GAAAATAAAA
**
11266606 GAAAAGGAAA
1 GAAAATAAAA
11266616 GAAAA
1 GAAAA
11266621 AGAGGATGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (10 bp):
GAAAATAAAA
Found at i:11269447 original size:10 final size:10
Alignment explanation
Indices: 11269412--11269447 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
11269402 TCAGTCTAGA
11269412 AGTTTC-TAT
1 AGTTTCATAT
*
11269421 AGTTTCCTAT
1 AGTTTCATAT
11269431 AGTTTCATAT
1 AGTTTCATAT
11269441 AGTTTCA
1 AGTTTCA
11269448 CAATCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 6 0.24
10 19 0.76
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (10 bp):
AGTTTCATAT
Found at i:11278721 original size:18 final size:17
Alignment explanation
Indices: 11278694--11278727 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11278684 TTACTTTCAG
11278694 TTACACTGACAACTTTTA
1 TTACACTGACAA-TTTTA
*
11278712 TTACATTGACAATTTT
1 TTACACTGACAATTTT
11278728 GACTATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (17 bp):
TTACACTGACAATTTTA
Found at i:11290712 original size:54 final size:54
Alignment explanation
Indices: 11290646--11290759 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
11290636 ATGTGTCTGC
* * * * * *
11290646 CCGTGTGACTCACTGACTTGGGTTACACGGCCGTGTTGCATACCGTGTGCCTGA
1 CCGTGTAACTCACTAACTTGGGTCACACGGCCGTGTCGCAGACCGTGTGCCAGA
* * *
11290700 TCGTGTAACTCACTAACTTGGGTCACACGGTCGTGTCGCAGGCCGTGTGCCAGA
1 CCGTGTAACTCACTAACTTGGGTCACACGGCCGTGTCGCAGACCGTGTGCCAGA
11290754 CCGTGT
1 CCGTGT
11290760 GAAACCTACA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.16, C:0.28, G:0.30, T:0.26
Consensus pattern (54 bp):
CCGTGTAACTCACTAACTTGGGTCACACGGCCGTGTCGCAGACCGTGTGCCAGA
Found at i:11293634 original size:22 final size:21
Alignment explanation
Indices: 11293572--11293635 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
11293562 ACAAACACAT
* **
11293572 AGGTATCGATACTGA-AATAA
1 AGGTATCGATATTGATCTTAA
**
11293592 AGGTATCGATATTTCTCTTAA
1 AGGTATCGATATTGATCTTAA
*
11293613 ATGGTATCGATATTGATTTTAA
1 A-GGTATCGATATTGATCTTAA
11293635 A
1 A
11293636 ATTGATACCA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 12 0.35
21 4 0.12
22 18 0.53
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (21 bp):
AGGTATCGATATTGATCTTAA
Found at i:11300822 original size:75 final size:75
Alignment explanation
Indices: 11300683--11300827 Score: 202
Period size: 75 Copynumber: 1.9 Consensus size: 75
11300673 ATTCGTCGAT
* *
11300683 TTATCCAACTAGCGCTGGGCGTAACCTTCGTCAATTTATCTGACTAATGCTGGGCAAATGTCTTA
1 TTATCCAACTAGCGCTGGGCGCAACCTTCGTCAATTTATCTGACTAATGCTAGGCAAATGTCTTA
11300748 TATTCTTCAA
66 TATTCTTCAA
* * * * * *
11300758 TTATCCGACTAGTGCTGGGCGCAACCTTCGTTAGTTTATCTGACTAGTGCTAGGCACACT-TCTT
1 TTATCCAACTAGCGCTGGGCGCAACCTTCGTCAATTTATCTGACTAATGCTAGGCA-AATGTCTT
11300822 ATATTC
65 ATATTC
11300828 GATGGTTATT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
75 59 0.97
76 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (75 bp):
TTATCCAACTAGCGCTGGGCGCAACCTTCGTCAATTTATCTGACTAATGCTAGGCAAATGTCTTA
TATTCTTCAA
Found at i:11300842 original size:75 final size:75
Alignment explanation
Indices: 11300683--11300850 Score: 196
Period size: 75 Copynumber: 2.2 Consensus size: 75
11300673 ATTCGTCGAT
* * * *
11300683 TTATCCAACTAGCGCTGGGCGTAACCTTCGTCAATTTATCTGACTAATGCTGGGCAAATGTCTTA
1 TTATCCGACTAGTGCTGGGCGCAACCTTCGTCAATTTATCTGACTAATGCTAGGCAAATGTCTTA
*
11300748 TATTCTTCAA
66 TATTCATCAA
* * * *
11300758 TTATCCGACTAGTGCTGGGCGCAACCTTCGTTAGTTTATCTGACTAGTGCTAGGCACACT-TCTT
1 TTATCCGACTAGTGCTGGGCGCAACCTTCGTCAATTTATCTGACTAATGCTAGGCA-AATGTCTT
**
11300822 ATATTCGAT-GG
65 ATATTC-ATCAA
*
11300833 TTATTCGACTAGTGCTGG
1 TTATCCGACTAGTGCTGG
11300851 ACGAAAAAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
75 76 0.96
76 3 0.04
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (75 bp):
TTATCCGACTAGTGCTGGGCGCAACCTTCGTCAATTTATCTGACTAATGCTAGGCAAATGTCTTA
TATTCATCAA
Found at i:11305693 original size:21 final size:21
Alignment explanation
Indices: 11305663--11305704 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11305653 GATACCTGAT
*
11305663 AAAAGGTATCGATACTTTTTG
1 AAAAGATATCGATACTTTTTG
11305684 AAAAGATATCGATACTTTTTG
1 AAAAGATATCGATACTTTTTG
11305705 TCATTATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (21 bp):
AAAAGATATCGATACTTTTTG
Found at i:11305942 original size:21 final size:24
Alignment explanation
Indices: 11305916--11305958 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11305906 AATTTGTTCA
11305916 ACTTT-ATTT-TTAT-TCAAAAAC
1 ACTTTAATTTGTTATATCAAAAAC
11305937 ACTTTAATTTGTTATATCAAAA
1 ACTTTAATTTGTTATATCAAAA
11305959 TATATTAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 4 0.21
23 4 0.21
24 6 0.32
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.47
Consensus pattern (24 bp):
ACTTTAATTTGTTATATCAAAAAC
Found at i:11306242 original size:27 final size:29
Alignment explanation
Indices: 11306212--11306304 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 29
11306202 CAGCAAATGA
11306212 TTTAAAATTATTTTTTAAAATAT-AAA-T
1 TTTAAAATTATTTTTTAAAATATAAAATT
11306239 TTTATAAATTA-TTTTTAAAATATAAAATT
1 TTTA-AAATTATTTTTTAAAATATAAAATT
*
11306268 TTTAAAATTATTTTTTTGAAATAATAAAATT
1 TTTAAAATTA-TTTTTTAAAAT-ATAAAATT
*
11306299 ATTAAA
1 TTTAAA
11306305 TAATTTTAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
27 16 0.28
28 15 0.26
29 5 0.09
30 9 0.16
31 13 0.22
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (29 bp):
TTTAAAATTATTTTTTAAAATATAAAATT
Found at i:11306246 original size:16 final size:15
Alignment explanation
Indices: 11306223--11306275 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 15
11306213 TTAAAATTAT
11306223 TTTTTAAAATATAAA
1 TTTTTAAAATATAAA
11306238 -TTTTATAAAT-T--A
1 TTTTTA-AAATATAAA
11306250 TTTTTAAAATATAAAA
1 TTTTTAAAATAT-AAA
11306266 TTTTTAAAAT
1 TTTTTAAAAT
11306276 TATTTTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
12 5 0.16
13 6 0.19
14 6 0.19
15 4 0.12
16 11 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTTTAAAATATAAA
Found at i:11306251 original size:28 final size:29
Alignment explanation
Indices: 11306212--11306311 Score: 111
Period size: 28 Copynumber: 3.5 Consensus size: 29
11306202 CAGCAAATGA
11306212 TTTA-AAATTATTTTTTAAAATAT-AAAT
1 TTTATAAATTATTTTTTAAAATATAAAAT
11306239 TTTATAAATTA-TTTTTAAAATATAAAAT
1 TTTATAAATTATTTTTTAAAATATAAAAT
*
11306267 TTT-TAAAATTATTTTTTTGAAATAATAAAAT
1 TTTAT-AAATTA-TTTTTTAAAAT-ATAAAAT
* *
11306298 TAT-TAAATAATTTT
1 TTTATAAATTATTTT
11306312 AATTTCCAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
27 17 0.27
28 19 0.30
29 4 0.06
30 14 0.22
31 10 0.16
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (29 bp):
TTTATAAATTATTTTTTAAAATATAAAAT
Found at i:11307190 original size:29 final size:30
Alignment explanation
Indices: 11307144--11307207 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 30
11307134 ATTAAAATTA
11307144 TTTAATAATTTTATTATTTCAAAAAATAAT
1 TTTAATAATTTTATTATTTCAAAAAATAAT
*
11307174 TTTAATAATTTTA-TATTTTAAAAAATAAT
1 TTTAATAATTTTATTATTTCAAAAAATAAT
11307203 TTTAA
1 TTTAA
11307208 ATCATTTGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (30 bp):
TTTAATAATTTTATTATTTCAAAAAATAAT
Found at i:11310185 original size:40 final size:39
Alignment explanation
Indices: 11310141--11310261 Score: 99
Period size: 40 Copynumber: 3.2 Consensus size: 39
11310131 CTGACTGTTA
11310141 GGCACACTTCTTATATTCATCGATTATCCGACTAGCGTTG
1 GGCACACTTCTTATATTCATCGATTATCCGACTAG-GTTG
* * * * *
11310181 GGCACA-ATCTT-CA-TCA--GTTTATCTGACTAGTTCTG
1 GGCACACTTCTTATATTCATCGATTATCCGACTAGGT-TG
** * *
11310216 GGCACACTTCTTATATTTGTCAATTATCCGACTAGTGCTG
1 GGCACACTTCTTATATTCATCGATTATCCGACTAG-GTTG
11310256 GGCACA
1 GGCACA
11310262 AAAGCTTAAT
Statistics
Matches: 60, Mismatches: 14, Indels: 14
0.68 0.16 0.16
Matches are distributed among these distances:
34 1 0.02
35 20 0.33
36 4 0.07
37 4 0.07
38 2 0.03
39 4 0.07
40 25 0.42
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (39 bp):
GGCACACTTCTTATATTCATCGATTATCCGACTAGGTTG
Found at i:11310258 original size:75 final size:74
Alignment explanation
Indices: 11310006--11310262 Score: 322
Period size: 75 Copynumber: 3.5 Consensus size: 74
11309996 CATACCATTC
* ** * *
11310006 TATTCGTCGATTTATCCAACTAGCGCTGGGTGCAACCTTCGTCAGTGTATCTGACTAGTGTTGGG
1 TATTCGTCGA-TTATCCGACTAGCGCTGGGCACAACCTTCATCAGTTTATCTGACTAGT-TTGGG
11310071 CACACTTCTTA
64 CACACTTCTTA
* * * *
11310082 TATTCGTCGGTTATCCGACTAGCACTGGGCGCAACCTTCGA-CAGTTTATCTGACT-G-TTAGGC
1 TATTCGTCGATTATCCGACTAGCGCTGGGCACAACCTTC-ATCAGTTTATCTGACTAGTTTGGGC
11310144 ACACTTCTTA
65 ACACTTCTTA
* * *
11310154 TATTCATCGATTATCCGACTAGCGTTGGGCACAATCTTCATCAGTTTATCTGACTAGTTCTGGGC
1 TATTCGTCGATTATCCGACTAGCGCTGGGCACAACCTTCATCAGTTTATCTGACTAGTT-TGGGC
11310219 ACACTTCTTA
65 ACACTTCTTA
* * *
11310229 TATTTGTCAATTATCCGACTAGTGCTGGGCACAA
1 TATTCGTCGATTATCCGACTAGCGCTGGGCACAA
11310263 AAGCTTAATA
Statistics
Matches: 157, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
71 1 0.01
72 62 0.39
73 1 0.01
74 2 0.01
75 82 0.52
76 9 0.06
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (74 bp):
TATTCGTCGATTATCCGACTAGCGCTGGGCACAACCTTCATCAGTTTATCTGACTAGTTTGGGCA
CACTTCTTA
Found at i:11313526 original size:11 final size:11
Alignment explanation
Indices: 11313512--11313550 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11313502 GTTTTTTCGT
11313512 TGTTTCTAGTG
1 TGTTTCTAGTG
**
11313523 TGTTTCTTTTG
1 TGTTTCTAGTG
11313534 TTGTTTCTAGTG
1 -TGTTTCTAGTG
11313546 TGTTT
1 TGTTT
11313551 TGGTGTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.05, C:0.08, G:0.23, T:0.64
Consensus pattern (11 bp):
TGTTTCTAGTG
Found at i:11313537 original size:23 final size:22
Alignment explanation
Indices: 11313501--11313551 Score: 84
Period size: 23 Copynumber: 2.3 Consensus size: 22
11313491 ATTGTATTAT
11313501 TGTTTTTTCGTTGTTTCTAGTG
1 TGTTTTTTCGTTGTTTCTAGTG
*
11313523 TGTTTCTTTTGTTGTTTCTAGTG
1 TGTTT-TTTCGTTGTTTCTAGTG
11313546 TGTTTT
1 TGTTTT
11313552 GGTGTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.04, C:0.08, G:0.22, T:0.67
Consensus pattern (22 bp):
TGTTTTTTCGTTGTTTCTAGTG
Found at i:11313569 original size:12 final size:12
Alignment explanation
Indices: 11313548--11313593 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
11313538 TTCTAGTGTG
* *
11313548 TTTTGGTGTTAT
1 TTTTGCTGTTGT
11313560 TTTTGCTGTTGT
1 TTTTGCTGTTGT
*
11313572 TTTTGCTTTTGT
1 TTTTGCTGTTGT
*
11313584 TTTTGTTGTT
1 TTTTGCTGTT
11313594 TTGTTATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.02, C:0.04, G:0.22, T:0.72
Consensus pattern (12 bp):
TTTTGCTGTTGT
Found at i:11313572 original size:23 final size:22
Alignment explanation
Indices: 11313546--11313630 Score: 70
Period size: 23 Copynumber: 3.8 Consensus size: 22
11313536 GTTTCTAGTG
*
11313546 TGTTTTGGTGTTATTTTTGCTGT
1 TGTTTT-GTGTTATTTTTGTTGT
11313569 TGTTTT-TGCTT-TTGTTT-TTGT
1 TGTTTTGTG-TTATT-TTTGTTGT
*
11313590 TGTTTTGTTATTATTTTTGTTGT
1 TGTTTTG-TGTTATTTTTGTTGT
11313613 TG-TTTGAATGTTATTTTT
1 TGTTTTG--TGTTATTTTT
11313631 TTATGCGCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
21 13 0.25
22 14 0.27
23 24 0.47
ACGTcount: A:0.07, C:0.02, G:0.20, T:0.71
Consensus pattern (22 bp):
TGTTTTGTGTTATTTTTGTTGT
Found at i:11313650 original size:24 final size:23
Alignment explanation
Indices: 11313623--11313675 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
11313613 TGTTTGAATG
*
11313623 TTATTTTTTTATGCGCTTTTACTA
1 TTATTTTGTTAT-CGCTTTTACTA
* * *
11313647 TTATTTTGTTGTCGTTTTTATTA
1 TTATTTTGTTATCGCTTTTACTA
11313670 TTATTT
1 TTATTT
11313676 GAATACTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.15, C:0.08, G:0.09, T:0.68
Consensus pattern (23 bp):
TTATTTTGTTATCGCTTTTACTA
Found at i:11322851 original size:2 final size:2
Alignment explanation
Indices: 11322844--11322903 Score: 50
Period size: 2 Copynumber: 30.5 Consensus size: 2
11322834 ATGGGTTGTA
* * * * *
11322844 TG TG TG TG TG TG TG GG TG TG -G GG TG TG GG TG TG GG TG TG GG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* *
11322885 TG TG GG TG TG TG TG GG TG T
1 TG TG TG TG TG TG TG TG TG T
11322904 TGTCTACACA
Statistics
Matches: 44, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.00, C:0.00, G:0.62, T:0.38
Consensus pattern (2 bp):
TG
Found at i:11322855 original size:6 final size:6
Alignment explanation
Indices: 11322847--11322903 Score: 82
Period size: 6 Copynumber: 9.7 Consensus size: 6
11322837 GGTTGTATGT
*
11322847 GTGTGT GTGTGG GTGTGGG GTGTGG GTGTGG GTGTGG GTGTGG GTGT--
1 GTGTGG GTGTGG GTGT-GG GTGTGG GTGTGG GTGTGG GTGTGG GTGTGG
11322894 GTGTGG GTGT
1 GTGTGG GTGT
11322904 TGTCTACACA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
4 4 0.09
6 37 0.79
7 6 0.13
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (6 bp):
GTGTGG
Found at i:11325480 original size:16 final size:18
Alignment explanation
Indices: 11325459--11325493 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
11325449 TTGGCTTTTT
11325459 ATTTTTA-TAA-ATTTAA
1 ATTTTTATTAATATTTAA
11325475 ATTTTTATTAATATTTAA
1 ATTTTTATTAATATTTAA
11325493 A
1 A
11325494 ATGATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 3 0.18
18 7 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTTATTAATATTTAA
Found at i:11328469 original size:15 final size:15
Alignment explanation
Indices: 11328449--11328502 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
11328439 AAAAAAACAT
*
11328449 ATTAAAATTAATAAA
1 ATTAAAATTAACAAA
* *
11328464 ATTAAATTTAACAAT
1 ATTAAAATTAACAAA
*
11328479 ATTCAAATTAACAAA
1 ATTAAAATTAACAAA
*
11328494 ATTTAAATT
1 ATTAAAATT
11328503 TCTATATTAC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTAAAATTAACAAA
Found at i:11328677 original size:10 final size:10
Alignment explanation
Indices: 11328664--11328692 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
11328654 CTTTAGAGGA
11328664 TTTGAGAGAG
1 TTTGAGAGAG
11328674 TTTGAGAGAG
1 TTTGAGAGAG
11328684 -TTGAGAGAG
1 TTTGAGAGAG
11328693 AAAAAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.31, C:0.00, G:0.41, T:0.28
Consensus pattern (10 bp):
TTTGAGAGAG
Found at i:11331950 original size:40 final size:41
Alignment explanation
Indices: 11331906--11332001 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 41
11331896 GGAGCTATTC
*
11331906 TGACTTGTTTGAAAAACATTTTGA-TATGT-TAAAATGATTT
1 TGACTTGTTTGAAAAACATTTTGAGT-TGTCTAAAATCATTT
* *
11331946 TGACTTGGTTG-AAATCATTTTGAGTTGTCTAAAATCATTT
1 TGACTTGTTTGAAAAACATTTTGAGTTGTCTAAAATCATTT
* *
11331986 TAACTTGATTTTAAAA
1 TGACTTG-TTTGAAAA
11332002 TTATTTCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
39 14 0.30
40 27 0.59
41 2 0.04
42 3 0.07
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (41 bp):
TGACTTGTTTGAAAAACATTTTGAGTTGTCTAAAATCATTT
Found at i:11331965 original size:20 final size:20
Alignment explanation
Indices: 11331906--11331992 Score: 72
Period size: 20 Copynumber: 4.3 Consensus size: 20
11331896 GGAGCTATTC
* *
11331906 TGACTTGTTTGAAAAACATTT
1 TGACTTGGTT-AAAATCATTT
*
11331927 TGA-TAT-GTTAAAATGATTT
1 TGACT-TGGTTAAAATCATTT
*
11331946 TGACTTGGTTGAAATCATTT
1 TGACTTGGTTAAAATCATTT
*
11331966 TGAGTT-GTCTAAAATCATTT
1 TGACTTGGT-TAAAATCATTT
*
11331986 TAACTTG
1 TGACTTG
11331993 ATTTTAAAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
19 14 0.27
20 34 0.65
21 4 0.08
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (20 bp):
TGACTTGGTTAAAATCATTT
Found at i:11332517 original size:37 final size:37
Alignment explanation
Indices: 11332464--11332538 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
11332454 ACTAAAAAAA
11332464 TCAATTGTATCCAAAAATACCAATAAAGCAATCAAGT
1 TCAATTGTATCCAAAAATACCAATAAAGCAATCAAGT
*
11332501 TCAATTGTATCTAAAAATACCAATAAAGCAATCAAGT
1 TCAATTGTATCCAAAAATACCAATAAAGCAATCAAGT
11332538 T
1 T
11332539 TAATCAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (37 bp):
TCAATTGTATCCAAAAATACCAATAAAGCAATCAAGT
Found at i:11350888 original size:21 final size:21
Alignment explanation
Indices: 11350862--11350908 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
11350852 GGAGTTTTTG
*
11350862 GTATCGGTAGATG-CATGACTT
1 GTATCGGTAGAAGTCAT-ACTT
11350883 GTATCGGTAGAAGTCATACTT
1 GTATCGGTAGAAGTCATACTT
11350904 GTATC
1 GTATC
11350909 CATAGAGCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (21 bp):
GTATCGGTAGAAGTCATACTT
Found at i:11357680 original size:20 final size:20
Alignment explanation
Indices: 11357643--11357681 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11357633 TTTTGATGTG
* **
11357643 CTAAAATGATTTTGACTTGT
1 CTAAAATCATTTCAACTTGT
11357663 CTAAAATCATTTCAACTTG
1 CTAAAATCATTTCAACTTG
11357682 ATTTTAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (20 bp):
CTAAAATCATTTCAACTTGT
Found at i:11386412 original size:13 final size:14
Alignment explanation
Indices: 11386394--11386426 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
11386384 TCATTCTCTC
11386394 TTCTCTCTCTA-TT
1 TTCTCTCTCTAGTT
11386407 TTCTCTCTCTAGTT
1 TTCTCTCTCTAGTT
11386421 TTCTCT
1 TTCTCT
11386427 TTAGCCTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.06, C:0.30, G:0.03, T:0.61
Consensus pattern (14 bp):
TTCTCTCTCTAGTT
Found at i:11398215 original size:43 final size:43
Alignment explanation
Indices: 11398163--11398366 Score: 275
Period size: 43 Copynumber: 4.7 Consensus size: 43
11398153 CAATGAGAGG
* * *
11398163 AACATTATTTCCTAATATTGATAGTATGTGATCGAATGAATGC
1 AACAATATTTCCTAATATTGAAAATATGTGATCGAATGAATGC
* * *
11398206 AACATTATTTCCTAATATTGAAAATTTGTGATTGAATGAATGC
1 AACAATATTTCCTAATATTGAAAATATGTGATCGAATGAATGC
* *
11398249 AACACTATTTCCTAATATTGAAAATATGTGATCGAATGAATGG
1 AACAATATTTCCTAATATTGAAAATATGTGATCGAATGAATGC
* * *
11398292 AACAATGTTTCCTAATATTGAAAGA-AAGTGATCGAATGAATGA
1 AACAATATTTCCTAATATTGAAA-ATATGTGATCGAATGAATGC
* *
11398335 AACAATGTTTCCTAATATTGATAATATGTGAT
1 AACAATATTTCCTAATATTGAAAATATGTGAT
11398367 TGACTGAGAG
Statistics
Matches: 145, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
42 1 0.01
43 143 0.99
44 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (43 bp):
AACAATATTTCCTAATATTGAAAATATGTGATCGAATGAATGC
Found at i:11399053 original size:17 final size:17
Alignment explanation
Indices: 11399031--11399069 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
11399021 AAGACTGTGG
*
11399031 TTTGGGACTATTTTTGC
1 TTTGGGACTAGTTTTGC
* *
11399048 TTTGGGATTAGTTTTGT
1 TTTGGGACTAGTTTTGC
11399065 TTTGG
1 TTTGG
11399070 ATTTTTCATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.10, C:0.05, G:0.28, T:0.56
Consensus pattern (17 bp):
TTTGGGACTAGTTTTGC
Found at i:11408559 original size:81 final size:81
Alignment explanation
Indices: 11408421--11408601 Score: 213
Period size: 81 Copynumber: 2.2 Consensus size: 81
11408411 TAATCAATAT
* * * *
11408421 ACGATGCTACTCACACAAGCTGATGAGAATTCGAAACATATGTCTGACCTCATCCATCAATACGG
1 ACGATGCTACTCACACAAGCTGATGAGAATTCGAAACATATGACGGACCTCAGCCATCAATACGA
* *
11408486 TCTA-GATTATCCGCTC
66 TCTATGA-TACCCACTC
* * * ** *
11408502 ATGATGCTGCTCACACAAGCTGATGAGAATTCGCAATGTAT-ACAGGACCTCAGCCATCACTACG
1 ACGATGCTACTCACACAAGCTGATGAGAATTCGAAACATATGAC-GGACCTCAGCCATCAATACG
11408566 ATCTATGATACCCACTC
65 ATCTATGATACCCACTC
*
11408583 ACGATGTTACTCACACAAG
1 ACGATGCTACTCACACAAG
11408602 TTGTCAAGAA
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 1 0.01
81 80 0.96
82 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (81 bp):
ACGATGCTACTCACACAAGCTGATGAGAATTCGAAACATATGACGGACCTCAGCCATCAATACGA
TCTATGATACCCACTC
Found at i:11414148 original size:15 final size:16
Alignment explanation
Indices: 11414122--11414152 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
11414112 AACAAAATAA
11414122 AAAGGAAGAAAAGAGG
1 AAAGGAAGAAAAGAGG
11414138 AAAGGAA-AAAAGAGG
1 AAAGGAAGAAAAGAGG
11414153 GGGTGACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (16 bp):
AAAGGAAGAAAAGAGG
Found at i:11418864 original size:53 final size:53
Alignment explanation
Indices: 11418801--11418903 Score: 197
Period size: 53 Copynumber: 1.9 Consensus size: 53
11418791 TTAGTCCTAC
11418801 GATTTGCATGCATAATATTTTGTTGGACGATTATTAAGTGGCTAAAGAAGAAG
1 GATTTGCATGCATAATATTTTGTTGGACGATTATTAAGTGGCTAAAGAAGAAG
*
11418854 GATTTGCATGCATAATATTTTGTTGGACGATTATTAAGTGGCTGAAGAAG
1 GATTTGCATGCATAATATTTTGTTGGACGATTATTAAGTGGCTAAAGAAG
11418904 GAGGTGGTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (53 bp):
GATTTGCATGCATAATATTTTGTTGGACGATTATTAAGTGGCTAAAGAAGAAG
Found at i:11419322 original size:37 final size:37
Alignment explanation
Indices: 11419274--11419377 Score: 118
Period size: 37 Copynumber: 2.8 Consensus size: 37
11419264 AAAATAACAA
*
11419274 CCAAATTTGCACCCAAAACTGTCGCCGCATGAGCATTT
1 CCAAA-TTGCACCCAAAACTGTCGCCGCATGAACATTT
* * * * *
11419312 CCAGATTGCACCTAAAACTGTCACCGCAGGAATATTT
1 CCAAATTGCACCCAAAACTGTCGCCGCATGAACATTT
* * *
11419349 CCAAAATGCACCCAAGACTGTCGCTGCAT
1 CCAAATTGCACCCAAAACTGTCGCCGCAT
11419378 ATTCTTCAAA
Statistics
Matches: 53, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
37 49 0.92
38 4 0.08
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (37 bp):
CCAAATTGCACCCAAAACTGTCGCCGCATGAACATTT
Found at i:11432865 original size:36 final size:36
Alignment explanation
Indices: 11432825--11433118 Score: 360
Period size: 36 Copynumber: 8.1 Consensus size: 36
11432815 TGATGACTAT
* * *
11432825 TGTGAAAGTAGATATGTGGGTATGTTATCCATGCTA
1 TGTGAAAGTAAATATGTGGGTATGTTATTCATGCCA
*
11432861 TGTGACAA-TAAATATGTGGGAATGTTATTCATGCCA
1 TGTGA-AAGTAAATATGTGGGTATGTTATTCATGCCA
* * * *
11432897 TGAGATAGTAAATATGTGTGTATGTTATTCATGCTA
1 TGTGAAAGTAAATATGTGGGTATGTTATTCATGCCA
* * *
11432933 TGTGATAGTAAATATGTGAGTACGTTATTCATGCCA
1 TGTGAAAGTAAATATGTGGGTATGTTATTCATGCCA
* * *
11432969 TGAGACAA-TAAATATGTGTGTATGTTATACATGCCA
1 TGTGA-AAGTAAATATGTGGGTATGTTATTCATGCCA
* *
11433005 TGTGACAGTAAATATGTGTGTATGTTATTCATGCCA
1 TGTGAAAGTAAATATGTGGGTATGTTATTCATGCCA
* *
11433041 TGTGACAGTAAATATGTAGGTATGTTATTCATGCCA
1 TGTGAAAGTAAATATGTGGGTATGTTATTCATGCCA
*
11433077 TGAGATAA-TAAATATGTAGGGTATGTTATTCATGCCA
1 TGTGA-AAGTAAATATGT-GGGTATGTTATTCATGCCA
11433114 TGTGA
1 TGTGA
11433119 CGGTGAATAT
Statistics
Matches: 225, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
35 2 0.01
36 197 0.88
37 26 0.12
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (36 bp):
TGTGAAAGTAAATATGTGGGTATGTTATTCATGCCA
Found at i:11432966 original size:108 final size:108
Alignment explanation
Indices: 11432825--11433115 Score: 422
Period size: 108 Copynumber: 2.7 Consensus size: 108
11432815 TGATGACTAT
* * * * * *
11432825 TGTGAAAGTAGATATGTGGGTATGTTATCCATGCTATGTGACAATAAATATGTGGGAATGTTATT
1 TGTGAAAGTAAATATGTGAGTATGTTATTCATGCCATGAGACAATAAATATGTGGGTATGTTATT
* *
11432890 CATGCCATGAGATAGTAAATATGTGTGTATGTTATTCATGCTA
66 CATGCCATGAGACAGTAAATATGTGTGTATGTTATTCATGCCA
* * * *
11432933 TGTGATAGTAAATATGTGAGTACGTTATTCATGCCATGAGACAATAAATATGTGTGTATGTTATA
1 TGTGAAAGTAAATATGTGAGTATGTTATTCATGCCATGAGACAATAAATATGTGGGTATGTTATT
*
11432998 CATGCCATGTGACAGTAAATATGTGTGTATGTTATTCATGCCA
66 CATGCCATGAGACAGTAAATATGTGTGTATGTTATTCATGCCA
* *
11433041 TGTGACAGTAAATATGT-AGGTATGTTATTCATGCCATGAGATAATAAATATGTAGGGTATGTTA
1 TGTGAAAGTAAATATGTGA-GTATGTTATTCATGCCATGAGACAATAAATATGT-GGGTATGTTA
11433105 TTCATGCCATG
64 TTCATGCCATG
11433116 TGACGGTGAA
Statistics
Matches: 163, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
107 1 0.01
108 143 0.88
109 19 0.12
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (108 bp):
TGTGAAAGTAAATATGTGAGTATGTTATTCATGCCATGAGACAATAAATATGTGGGTATGTTATT
CATGCCATGAGACAGTAAATATGTGTGTATGTTATTCATGCCA
Found at i:11433163 original size:108 final size:107
Alignment explanation
Indices: 11432831--11433155 Score: 307
Period size: 108 Copynumber: 3.0 Consensus size: 107
11432821 CTATTGTGAA
* * * * * * * *
11432831 AGTAGATATGTGGGTATGTTATCCATGCTATGTGACAATAAATATGTGGGAATGTTATTCATGCC
1 AGTAAATATGTGAGTACGTTATTCATGCCATGAGACAATAAATATGTGGGTATGTTATACATGCC
* * * * * ** * *
11432896 ATGAGATAGTAAATATGTGTGTATGTTATTCATGCTATGTGAT
66 ATGTGACAGTAAATA-GTATGTATGCTAATCATGAAATATGAC
*
11432939 AGTAAATATGTGAGTACGTTATTCATGCCATGAGACAATAAATATGTGTGTATGTTATACATGCC
1 AGTAAATATGTGAGTACGTTATTCATGCCATGAGACAATAAATATGTGGGTATGTTATACATGCC
* * * ** *
11433004 ATGTGACAGTAAATATGTGTGTATGTTATTCATGCCATGTGAC
66 ATGTGACAGTAAATA-GTATGTATGCTAATCATGAAATATGAC
* * *
11433047 AGTAAATATGT-AGGTATGTTATTCATGCCATGAGATAATAAATATGTAGGGTATGTTATTCATG
1 AGTAAATATGTGA-GTACGTTATTCATGCCATGAGACAATAAATATGT-GGGTATGTTATACATG
* * *
11433111 CCATGTGACGGTGAATA-TAT-TATGCTAATGATGTAAATATG-C
64 CCATGTGACAGTAAATAGTATGTATGCTAATCATG-AAATATGAC
11433153 AGT
1 AGT
11433156 GAGAATATAC
Statistics
Matches: 188, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
106 14 0.07
107 7 0.04
108 138 0.73
109 29 0.15
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (107 bp):
AGTAAATATGTGAGTACGTTATTCATGCCATGAGACAATAAATATGTGGGTATGTTATACATGCC
ATGTGACAGTAAATAGTATGTATGCTAATCATGAAATATGAC
Found at i:11441137 original size:13 final size:14
Alignment explanation
Indices: 11441103--11441141 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
11441093 TATCTCTTTT
*
11441103 TCTTCCTTTTCATC
1 TCTTTCTTTTCATC
*
11441117 TTTTTCTTTTC-TC
1 TCTTTCTTTTCATC
11441130 TCTTTCTTTTCA
1 TCTTTCTTTTCA
11441142 CTTTCTTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (14 bp):
TCTTTCTTTTCATC
Found at i:11441156 original size:31 final size:28
Alignment explanation
Indices: 11441121--11441177 Score: 78
Period size: 31 Copynumber: 1.9 Consensus size: 28
11441111 TTCATCTTTT
*
11441121 TCTTTTCTCTCTTTCTTTTCACTTTCTTTGA
1 TCTTTTCTCTC-AT-TTTTC-CTTTCTTTGA
11441152 TCTTTTCTCTCATTTTTCCTTTCTTT
1 TCTTTTCTCTCATTTTTCCTTTCTTT
11441178 TTTTCAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 8 0.32
29 5 0.20
30 1 0.04
31 11 0.44
ACGTcount: A:0.05, C:0.26, G:0.02, T:0.67
Consensus pattern (28 bp):
TCTTTTCTCTCATTTTTCCTTTCTTTGA
Found at i:11441178 original size:21 final size:20
Alignment explanation
Indices: 11441152--11441200 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
11441142 CTTTCTTTGA
*
11441152 TCTTTTCTCTCATTTTTCCTT
1 TCTTTT-TCTCAATTTTCCTT
* *
11441173 TCTTTTTTTCAATTTTCTTT
1 TCTTTTTCTCAATTTTCCTT
11441193 TCTTTTTC
1 TCTTTTTC
11441201 ATTCTTACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.71
Consensus pattern (20 bp):
TCTTTTTCTCAATTTTCCTT
Found at i:11443260 original size:20 final size:21
Alignment explanation
Indices: 11443220--11443263 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
11443210 TAGCCTTTTG
11443220 TTTTTTTTATACTTTCGAAAC
1 TTTTTTTTATACTTTCGAAAC
11443241 TTTTTTTTAGTAC-TTC-AAAC
1 TTTTTTTTA-TACTTTCGAAAC
11443261 TTT
1 TTT
11443264 GCACTTCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 12 0.55
22 3 0.14
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTTTTTTATACTTTCGAAAC
Found at i:11447927 original size:292 final size:292
Alignment explanation
Indices: 11447398--11447988 Score: 1022
Period size: 292 Copynumber: 2.0 Consensus size: 292
11447388 TTCCTCATGG
*
11447398 GATCAATATCCGATAGAATTGTTCTATCAACTATACTTGCATCGACGTGTGTCCACTTGAACAAC
1 GATCTATATCCGATAGAATTGTTCTATCAACTATACTTGCATCGACGTGTGTCCACTTGAACAAC
* *
11447463 TGTTGTGACGTTACAGACGTGATCACTTAACTTATCAAGAGGGTGATATGATGCGACGAGGAGGT
66 TGCTGTGACGTTACAGACGCGATCACTTAACTTATCAAGAGGGTGATATGATGCGACGAGGAGGT
* *
11447528 GACTACTTTTGACGAGGAGTGCCTAAGTGCAACCTAAGAGGAGCAATTACGGAAGGATTCTAGTG
131 GACTACTTCTGACGAGGAGTGCCTAAGTGCAACCCAAGAGGAGCAATTACGGAAGGATTCTAGTG
* *
11447593 ACTAAGAATAACATGCTTCAATTTCTTCTTTAATTACTCTTGAATGTTGATGAATTCTGTTGAGT
196 ACTAAGAATAACATGCTTCAATTTCTTCTTTAATTACTCTTGAATGTTGATGAATTCTATTGACT
11447658 TTAATTGTGTTTGGAAATACCTATTAATGTTA
261 TTAATTGTGTTTGGAAATACCTATTAATGTTA
*
11447690 GATCTATATCCGATAGAATTGTTCTATCAACTATACTTGCATCGACGTGTGTCCACTTGCACAAC
1 GATCTATATCCGATAGAATTGTTCTATCAACTATACTTGCATCGACGTGTGTCCACTTGAACAAC
* *
11447755 TGCTGTGACGTTACAGATGCGATCACTTAACTTATCAAGAGGGTGATCTGA-GCGACGAGGAGGT
66 TGCTGTGACGTTACAGACGCGATCACTTAACTTATCAAGAGGGTGATATGATGCGACGAGGAGGT
** *
11447819 GACTACTTCTGACGAGGAGTGCCTAAGTGTGACCCAAGAGGAGCAATTATGGAAGGATTCTAGTA
131 GACTACTTCTGACGAGGAGTGCCTAAGTGCAACCCAAGAGGAGCAATTACGGAAGGATTCTAGT-
* * *
11447884 GGCTAGGAATAACATGCTTCAATTTCTTCTTTAATTCCTCTTGAATGTTGATGAATTCTATTGAC
195 GACTAAGAATAACATGCTTCAATTTCTTCTTTAATTACTCTTGAATGTTGATGAATTCTATTGAC
11447949 TTTAATTGTGTTTGGAAATACCTATTAATGTTA
260 TTTAATTGTGTTTGGAAATACCTATTAATGTTA
11447982 GATCTAT
1 GATCTAT
11447989 TTTGATTTTT
Statistics
Matches: 282, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
291 72 0.26
292 210 0.74
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (292 bp):
GATCTATATCCGATAGAATTGTTCTATCAACTATACTTGCATCGACGTGTGTCCACTTGAACAAC
TGCTGTGACGTTACAGACGCGATCACTTAACTTATCAAGAGGGTGATATGATGCGACGAGGAGGT
GACTACTTCTGACGAGGAGTGCCTAAGTGCAACCCAAGAGGAGCAATTACGGAAGGATTCTAGTG
ACTAAGAATAACATGCTTCAATTTCTTCTTTAATTACTCTTGAATGTTGATGAATTCTATTGACT
TTAATTGTGTTTGGAAATACCTATTAATGTTA
Found at i:11450214 original size:66 final size:66
Alignment explanation
Indices: 11450103--11450239 Score: 188
Period size: 66 Copynumber: 2.1 Consensus size: 66
11450093 GGGGAAATAA
** * *
11450103 GGAGAGTGTTAGCTTTACGCTTCACGTTTGGGACATGTTTGACTCTATGAGTCTTTTGGTATGTT
1 GGAGAGTGTTAGCTTTACGCTTCACGTTTGGGACATGTTCAACTCTATGAGTCATCTGGTATGTT
11450168 T
66 T
* *
11450169 GGAGAGTGTTAG-TTATATGCTTCAC-TTATGGGACATGTTCAACTCTATGAGTCATCTGGTGTG
1 GGAGAGTGTTAGCTT-TACGCTTCACGTT-TGGGACATGTTCAACTCTATGAGTCATCTGGTATG
11450232 TTT
64 TTT
11450235 GGAGA
1 GGAGA
11450240 TCCGTGTATC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
65 4 0.06
66 59 0.94
ACGTcount: A:0.20, C:0.13, G:0.28, T:0.39
Consensus pattern (66 bp):
GGAGAGTGTTAGCTTTACGCTTCACGTTTGGGACATGTTCAACTCTATGAGTCATCTGGTATGTT
T
Found at i:11450597 original size:23 final size:23
Alignment explanation
Indices: 11450316--11450590 Score: 426
Period size: 23 Copynumber: 12.0 Consensus size: 23
11450306 ATTAAATGAG
*
11450316 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTATGC
*
11450339 TTAAATATTAATATGATTTATGC
1 TTAAATATTAATGTGATTTATGC
11450362 TTAAA-ATTTAATGTGATTTATGC
1 TTAAATA-TTAATGTGATTTATGC
*
11450385 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTATGC
*
11450408 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTATGC
*
11450431 TTAAATGTTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
*
11450454 TTAAATGTTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* * * *
11450477 ATAAATATTACTGTGGTTTGTGC
1 TTAAATATTAATGTGATTTATGC
11450500 TTAAATATTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
*
11450523 TTAAATGTTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
11450546 TTAAATATTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
*
11450569 TTAAATATTAATGTGATATATG
1 TTAAATATTAATGTGATTTATG
11450591 TGTAAATGGA
Statistics
Matches: 232, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
22 1 0.00
23 230 0.99
24 1 0.00
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TTAAATATTAATGTGATTTATGC
Found at i:11456516 original size:45 final size:45
Alignment explanation
Indices: 11456467--11457282 Score: 947
Period size: 45 Copynumber: 18.2 Consensus size: 45
11456457 ATTCAACCCA
* * *
11456467 ATGATATGGTAAATATTATTTGATTAATTATGATATATGATATGC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
* *
11456512 ATGATATGGTAAATATTATTAGATT-AGGTATGCTATACGATATGC
1 ATGATATGGTAAATATTATTTGATTGA-TTATGCTATACGATATGC
* * * *
11456557 ATTATATGGTAAATATTATTTGA-T-ATTATACTGTACAATATGC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
* * * *
11456600 ATGATACGGTAAATATTATTTTATTAATTATGTTATACGATATGC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
*
11456645 ACGATATGGTAAATATTATTATTTGATTGATTATGCTATACGATATGC
1 ATGATATGGT-AA-A-TATTATTTGATTGATTATGCTATACGATATGC
* * * * *
11456693 ATGATATGATAAATATTATTATTTGATTGATTATGTTGTACGATTTCC
1 ATGATATGGT-AA-A-TATTATTTGATTGATTATGCTATACGATATGC
*
11456741 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATAC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
* * * * *
11456786 ATAACAAGATAAATATTATTTGATTAATTATGCTATACGATATGC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
* *
11456831 -----AT-G---ATATTATTTGATTGACTATGTTGA-ACGATATGC
1 ATGATATGGTAAATATTATTTGATTGATTATGCT-ATACGATATGC
* * *
11456867 ATAATATGGTAAATATTATTTGATTGATTATGTTATATGATATGC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
* *
11456912 ATGATATGGTAAATATTATTATTTGATTGATTATGTTGTACGATATGC
1 ATGATATGGT-AA-A-TATTATTTGATTGATTATGCTATACGATATGC
*
11456960 ATGATATGGTAAACATTATTTGATTGATTATGCTATACGATATGC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
* * *
11457005 ATGATATGGTAAATATTATTTGATTAAATTATGTTGTACGATATGC
1 ATGATATGGTAAATATTATTTGATT-GATTATGCTATACGATATGC
* * *
11457051 ATGATATGATAAATATTATTTGATTGATTATGTTATATGATATGC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
* * * **
11457096 ATGATATGGTAAATATTACTTGATTGATTGTACTATATTATATGC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
* ** * *
11457141 ATCATATGAAAAATATTATTTCATTAATTATGCTATACGATATGC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
* *
11457186 ATGATATGCTAAATATTATTTGATTGATTATGTTATACGATATGC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
** *
11457231 ATGATAAAGTAAATATTATTTGATTGATTATGCTATACAATATGC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
11457276 ATGATAT
1 ATGATAT
11457283 ACGTTTCGCT
Statistics
Matches: 662, Mismatches: 88, Indels: 42
0.84 0.11 0.05
Matches are distributed among these distances:
36 28 0.04
37 1 0.00
40 1 0.00
41 2 0.00
42 1 0.00
43 34 0.05
44 5 0.01
45 417 0.63
46 47 0.07
47 6 0.01
48 120 0.18
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.43
Consensus pattern (45 bp):
ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
Found at i:11456838 original size:36 final size:36
Alignment explanation
Indices: 11456797--11456873 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
11456787 TAACAAGATA
*
11456797 AATATTATTTGATTAATTATGCT-ATACGATATGCAT
1 AATATTATTTGATTAACTATGCTGA-ACGATATGCAT
* * *
11456833 GATATTATTTGATTGACTATGTTGAACGATATGCAT
1 AATATTATTTGATTAACTATGCTGAACGATATGCAT
11456869 AATAT
1 AATAT
11456874 GGTAAATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 34 0.97
37 1 0.03
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (36 bp):
AATATTATTTGATTAACTATGCTGAACGATATGCAT
Found at i:11457070 original size:355 final size:357
Alignment explanation
Indices: 11456478--11457282 Score: 1045
Period size: 355 Copynumber: 2.2 Consensus size: 357
11456468 TGATATGGTA
* * * * *
11456478 AATATTATTTGATTAATTATGATATATGATATGCATGATATGGTAAATATTATTAGATT-AGGTA
1 AATATTATTTGATTGATTATGTTATACGATATGCATGATATGGTAAATATTATTTGATTGA-TTA
*
11456542 TGCTATACGATATGCATTATATGGTAAATATTATTTGATATTATACTGTACAATATGCATGATAC
65 TGCTATACGATATGCATGATATGGTAAATATTATTTGATATTATACTGTACAATATGCATGATAC
* * *
11456607 GGTAAATATTATTTTATTAATTATGTTATACGATATGCACGATATGGTAAATATTATTATTTGAT
130 GGTAAACATTATTTGATTAATTATGCTATACGATATGCACGATATGGTAAATATTATTATTTGAT
* *
11456672 TGATTATGCTATACGATATGCATGATATGATAAATATTATTATTTGATTGATTATGTTGTACGAT
195 TAATTATGCTATACGATATGCATGATATGATAAATATTATTATTTGATTGATTATGTTATACGAT
* * * *
11456737 TTCCATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATACATAACAAGATAAATAT
260 ATCCATGATATGGTAAATATTACTTGATTGATTATACTATACGATATACATAACAAGAAAAATAT
*
11456802 TATTTGATTAATTATGCTATACGATATGC-ATG
325 TATTTCATTAATTATGCTATACGATATGCAATG
* *
11456834 -ATATTATTTGATTGACTATGTTGA-ACGATATGCATAATATGGTAAATATTATTTGATTGATTA
1 AATATTATTTGATTGATTATGTT-ATACGATATGCATGATATGGTAAATATTATTTGATTGATTA
* * ** *
11456897 TGTTATATGATATGCATGATATGGTAAATATTATTATTTGATTGATTATGTTGTACGATATGCAT
65 TGCTATACGATATGCATGATATGGT-AA-A-TATTATTTGA-T-ATTATACTGTACAATATGCAT
* * *
11456962 GATATGGTAAACATTATTTGATTGATTATGCTATACGATATGCATGATATGGT-AA-A-TATTAT
125 GATACGGTAAACATTATTTGATTAATTATGCTATACGATATGCACGATATGGTAAATATTATTAT
* *
11457024 TTGATTAAATTATGTTGTACGATATGCATGATATGAT-AA-A-TATTATTTGATTGATTATGTTA
190 TTGATT-AATTATGCTATACGATATGCATGATATGATAAATATTATTATTTGATTGATTATGTTA
* * * ** * * * *
11457086 TATGATATGCATGATATGGTAAATATTACTTGATTGATTGTACTATATTATATGCATCATATGAA
254 TACGATATCCATGATATGGTAAATATTACTTGATTGATTATACTATACGATATACATAACAAGAA
11457151 AAATATTATTTCATTAATTATGCTATACGATATGCATGATATG
319 AAATATTATTTCATTAATTATGCTATACGATATGC---A-ATG
**
11457194 CTAAATATTATTTGATTGATTATGTTATACGATATGCATGATAAAGTAAATATTATTTGATTGAT
1 ---AATATTATTTGATTGATTATGTTATACGATATGCATGATATGGTAAATATTATTTGATTGAT
*
11457259 TATGCTATACAATATGCATGATAT
63 TATGCTATACGATATGCATGATAT
11457283 ACGTTTCGCT
Statistics
Matches: 387, Mismatches: 44, Indels: 28
0.84 0.10 0.06
Matches are distributed among these distances:
355 181 0.47
356 5 0.01
357 15 0.04
358 38 0.10
359 3 0.01
360 68 0.18
363 1 0.00
364 76 0.20
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.43
Consensus pattern (357 bp):
AATATTATTTGATTGATTATGTTATACGATATGCATGATATGGTAAATATTATTTGATTGATTAT
GCTATACGATATGCATGATATGGTAAATATTATTTGATATTATACTGTACAATATGCATGATACG
GTAAACATTATTTGATTAATTATGCTATACGATATGCACGATATGGTAAATATTATTATTTGATT
AATTATGCTATACGATATGCATGATATGATAAATATTATTATTTGATTGATTATGTTATACGATA
TCCATGATATGGTAAATATTACTTGATTGATTATACTATACGATATACATAACAAGAAAAATATT
ATTTCATTAATTATGCTATACGATATGCAATG
Found at i:11462072 original size:145 final size:145
Alignment explanation
Indices: 11461804--11462075 Score: 418
Period size: 145 Copynumber: 1.9 Consensus size: 145
11461794 ACATTTCTGA
* ** * *
11461804 GGTGTGACATAATCAATCTAAGAAGATGGTTATTACGGGACGTGCTACTTAAACGGTGCAAGTTT
1 GGTGTGACATAACCAATCTAAGAAGATGGTTATTACGGGACACGCTACTTAAACGGTACAAGTAT
* *
11461869 GATTGTTTGATAATTGAATTTGTAATGGTATCAAGAGATATTGTTACCTTGCACACCCTTAGAAG
66 GATTGTTTAATAATTGAATTTGTAATGGTATCAAGAGATACTGTTACCTTGCACACCCTTAGAAG
11461934 ATGATTGAATTTTCG
131 ATGATTGAATTTTCG
* * * * *
11461949 GGTGTGACATAACCAATCTGAGAAGATGGTTATTAGGGGACACGCTACTTGAATGGTACATGTAT
1 GGTGTGACATAACCAATCTAAGAAGATGGTTATTACGGGACACGCTACTTAAACGGTACAAGTAT
* *
11462014 GATTGTTTAATAATTGAATTTGTAATGGTATCGAGAGATACTGTTACCTTGCATACCCTTAG
66 GATTGTTTAATAATTGAATTTGTAATGGTATCAAGAGATACTGTTACCTTGCACACCCTTAG
11462076 GAATGGGGCC
Statistics
Matches: 113, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
145 113 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (145 bp):
GGTGTGACATAACCAATCTAAGAAGATGGTTATTACGGGACACGCTACTTAAACGGTACAAGTAT
GATTGTTTAATAATTGAATTTGTAATGGTATCAAGAGATACTGTTACCTTGCACACCCTTAGAAG
ATGATTGAATTTTCG
Found at i:11472017 original size:22 final size:22
Alignment explanation
Indices: 11471992--11472034 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11471982 ATTTGCTTTG
*
11471992 AAATTAAGTTTATTTTAAATTC
1 AAATTAAGTTTAATTTAAATTC
* *
11472014 AAATTTATTTTAATTTAAATT
1 AAATTAAGTTTAATTTAAATT
11472035 TTTTTATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
AAATTAAGTTTAATTTAAATTC
Found at i:11472043 original size:14 final size:16
Alignment explanation
Indices: 11471995--11472062 Score: 77
Period size: 17 Copynumber: 4.2 Consensus size: 16
11471985 TGCTTTGAAA
*
11471995 TTAAGTTTATTTTAAAT
1 TTAAATTTATTTT-AAT
*
11472012 TCAAATTTATTTTAAT
1 TTAAATTTATTTTAAT
11472028 TTAAATTT-TTTT-AT
1 TTAAATTTATTTTAAT
*
11472042 TTAAATTTAATTTAAAT
1 TTAAATTT-ATTTTAAT
11472059 TTAA
1 TTAA
11472063 TGTCCATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
14 10 0.23
15 4 0.09
16 13 0.30
17 17 0.39
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (16 bp):
TTAAATTTATTTTAAT
Found at i:11472056 original size:11 final size:11
Alignment explanation
Indices: 11471995--11472063 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
11471985 TGCTTTGAAA
* *
11471995 TTAAGTTTATT
1 TTAAATTTAAT
*
11472006 TTAAATTCAAAT
1 TTAAATT-TAAT
*
11472018 TT-ATTTTAAT
1 TTAAATTTAAT
*
11472028 TTAAATTTTTTTAT
1 TTAAA---TTTAAT
11472042 TTAAATTTAAT
1 TTAAATTTAAT
11472053 TTAAATTTAAT
1 TTAAATTTAAT
11472064 GTCCATTTAC
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
10 5 0.11
11 26 0.58
12 4 0.09
14 10 0.22
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:11472062 original size:17 final size:16
Alignment explanation
Indices: 11471977--11472062 Score: 70
Period size: 17 Copynumber: 5.3 Consensus size: 16
11471967 CCCAAACCAT
*
11471977 TTTAAATTTGCTTTGAAA
1 TTTAAATTT-ATTT-AAA
*
11471995 -TTAAGTTTATTTTAAA
1 TTTAAATTTA-TTTAAA
* *
11472011 TTCAAATTTATTTTAA
1 TTTAAATTTATTTAAA
*
11472027 TTTAAATTT-TTT-TA
1 TTTAAATTTATTTAAA
11472041 TTTAAATTTAATTTAAA
1 TTTAAATTT-ATTTAAA
11472058 TTTAA
1 TTTAA
11472063 TGTCCATTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
14 10 0.18
15 3 0.05
16 19 0.35
17 23 0.42
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:11473897 original size:58 final size:58
Alignment explanation
Indices: 11473833--11474147 Score: 422
Period size: 58 Copynumber: 5.4 Consensus size: 58
11473823 GAACTGTCCA
11473833 AAAATTACCATTTTGACCCTCGAACTCTT-CAAAAT-CCATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTT-ACCCTCGAACT-TTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * *
11473891 AAAATTACCGTTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* *
11473949 AAAATTACCCA-TTTACCCTCGAATTTTCCAAAATCCCATTTTTAACCTCGATTTCACC
1 AAAATTA-CCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
** * * * * *
11474007 AAAATTACCATTTCGCCCCCAAACTTTCCAAAATCCTATTTTTAACCCTGATTTTACC
1 AAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* *
11474065 AAAATTTACCATTTTGCCC-CTGAACTTTCCAAAATCCCATTTTTAACCCTGATTTCACC
1 AAAA-TTACCATTTTACCCTC-GAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
11474124 AAAAATTACCATTTTACCCTCGAA
1 -AAAATTACCATTTTACCCTCGAA
11474148 GTCAAAAATT
Statistics
Matches: 227, Mismatches: 22, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
56 2 0.01
57 18 0.08
58 136 0.60
59 66 0.29
60 5 0.02
ACGTcount: A:0.31, C:0.31, G:0.04, T:0.33
Consensus pattern (58 bp):
AAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
Found at i:11473904 original size:29 final size:30
Alignment explanation
Indices: 11473868--11474138 Score: 148
Period size: 29 Copynumber: 9.2 Consensus size: 30
11473858 TCTTCAAAAT
11473868 CCATTTTTAACCCCGATTTCACCAAAATTA
1 CCATTTTTAACCCCGATTTCACCAAAATTA
* * * *
11473898 CC-GTTTTACCCCCAAACTTT--CCAAAA-TC
1 CCATTTTTAACCCC-GA-TTTCACCAAAATTA
11473926 CCATTTTTAACCCCGATTTCACCAAAATTA
1 CCATTTTTAACCCCGATTTCACCAAAATTA
* *
11473956 CCCA--TTT-ACCCTCGAATTT-TCCAAAA-TC
1 -CCATTTTTAACCC-CG-ATTTCACCAAAATTA
*
11473984 CCATTTTTAACCTCGATTTCACCAAAATTA
1 CCATTTTTAACCCCGATTTCACCAAAATTA
*** *
11474014 CCA-TTTCGCCCCCAAACTTT--CCAAAA-T-
1 CCATTTTTAACCCC-GA-TTTCACCAAAATTA
* *
11474041 CCTATTTTTAACCCTGATTTTACCAAAATTTA
1 CC-ATTTTTAACCCCGATTTCACCAAAA-TTA
* *
11474073 CCA-TTTT-GCCCCTGAACTTT--CCAAAA-TC
1 CCATTTTTAACCCC-G-A-TTTCACCAAAATTA
*
11474101 CCATTTTTAACCCTGATTTCACCAAAAATTA
1 CCATTTTTAACCCCGATTTCACC-AAAATTA
11474132 CCATTTT
1 CCATTTT
11474139 ACCCTCGAAG
Statistics
Matches: 180, Mismatches: 29, Indels: 63
0.66 0.11 0.23
Matches are distributed among these distances:
27 14 0.08
28 21 0.12
29 86 0.48
30 34 0.19
31 20 0.11
32 5 0.03
ACGTcount: A:0.31, C:0.31, G:0.04, T:0.34
Consensus pattern (30 bp):
CCATTTTTAACCCCGATTTCACCAAAATTA
Found at i:11486664 original size:199 final size:203
Alignment explanation
Indices: 11486317--11487163 Score: 1084
Period size: 205 Copynumber: 4.2 Consensus size: 203
11486307 ACAGCGAGGT
* * * *
11486317 GGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTC-GA-C-GCTCAAAGCGAGCAAATCT
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCAGCTCAAAGCGAGCAAATCT
* * *
11486379 TCGTACCCAGCTTCTTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGTTAGCTTCCTG
66 TCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTG
* * *
11486444 ATAAGATACAGAGAAGTGGACCAAATTCGTCTTTCTGAGGAGATCTAGAGAAGCGAATTGAAACA
131 ATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCTAGAGAAGCGAATTAAAACA
11486509 AATGATGC
196 AATGATGC
* * * * * * *
11486517 GG-CATTTTCCTGATGAGATACAGAGAAGTATACTAACTC-AA-C-GCTCAAAGCGAGCAAACCT
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCAGCTCAAAGCGAGCAAATCT
* *
11486578 TCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCTTG
66 TCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTG
* * * *
11486643 ATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAAGGAGAT-TCAGAGAAGCAAATTACAAC
131 ATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCT-AGAGAAGCGAATTAAAAC
*
11486707 AAGTGATGC
195 AAATGATGC
* * *
11486716 GGTCATCTTCCTAATGAGACACTGAGAAGAAGACCAAATCAAACCCAGGCTCAATGCGAGCAAAT
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA-CCA-GCTCAAAGCGAGCAAAT
11486781 CTTCGAACCCGAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAAT-AAATGGTTAGCTTC
64 CTTCGAACCC-AGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTC
* * * *
11486845 CTAATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAA
128 CTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCTAGAGAAGCGAATTAAA
* *
11486910 ACAAGTGATGT
193 ACAAATGATGC
* * * *
11486921 TGTTATCTTCCTGATGAGACACTGAGAAGAAGACCAAATCAAACCCAAGCTCAATGCGAGCAAAT
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA-CC-AGCTCAAAGCGAGCAAAT
* * * *
11486986 CTTCGAACCCCAGCTTCCTGATGAGATACTGAGTAGCAAGTTGAAGCAATAAAATGGTTAGCTTC
64 CTTCGAA-CCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTC
* * * * * * *
11487051 CTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCT-ATGGAAACCTAGAGAAGTGGATCAA
128 CTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGA-GGAGATCTAGAGAAGCGAATTAA
* *
11487115 AACAAAAGACGC
192 AACAAATGATGC
* *
11487127 GGTCATCTTCCTGATGAAATACTGAGAAGAAGGCCAA
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAA
11487164 GTTAATGAAA
Statistics
Matches: 572, Mismatches: 62, Indels: 20
0.87 0.09 0.03
Matches are distributed among these distances:
198 1 0.00
199 181 0.32
200 31 0.05
201 2 0.00
203 1 0.00
205 208 0.36
206 148 0.26
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (203 bp):
GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCAGCTCAAAGCGAGCAAATCT
TCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTG
ATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCTAGAGAAGCGAATTAAAACA
AATGATGC
Found at i:11487131 original size:411 final size:404
Alignment explanation
Indices: 11486360--11487163 Score: 1081
Period size: 411 Copynumber: 2.0 Consensus size: 404
11486350 CCAACTCGAC
* *
11486360 GCTCAAAGCGAGCAAATCTTCGTACCCAGCTTCTTGATGAGACACTGAGAAGCAGGTCGAAACAA
1 GCTCAAAGCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAA
* * * *
11486425 TAAAATGGTTAGCTTCCTGATAAGATACAGAGAAGTGGACCAAATTCGTCTTTCTGAGGAGATCT
66 TAAAATGGTTAGCTTCCTAATAAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCC
* * * * * * *
11486490 AGAGAAGCGAATTGAAACAAATGATGCGGCATTTTCCTGATGAGATACAGAGAAGTATACTAACT
131 AGAGAAGCGAATTAAAACAAATGATGCGGCATCTTCCTGATGAGACACAGAGAAGAAGACCAAAT
* *
11486555 CAACGCTCAAAGCGAGCAAACCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAA
196 CAACGCTCAAAGCGAGCAAACCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAA
* * * * *
11486620 GCAATAAAATGGTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAAGGAG
261 GCAATAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTAAGGAA
* * * ** * *
11486685 ATTCAGAGAAGCAAATTACAACAAGTGATGCGGTCATCTTCCTAATGAGACACTGAGAAGAAGAC
326 ACTCAGAGAAGCAAATCAAAACAAAAGACGCGGTCATCTTCCTAATGAAACACTGAGAAGAAGAC
11486750 CAAATCAAACCCAG
391 CAAATCAAACCCAG
* *
11486764 GCTCAATGCGAGCAAATCTTCGAACCCGAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCA
1 GCTCAAAGCGAGCAAATCTTCGAACCC-AGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACA
* *
11486829 AT-AAATGGTTAGCTTCCTAATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATC
65 ATAAAATGGTTAGCTTCCTAATAAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATC
* * ** *
11486893 CAGAGAAGCGAATTAAAACAAGTGATGTTGTTATCTTCCTGATGAGACACTGAGAAGAAGACCAA
130 CAGAGAAGCGAATTAAAACAAATGATG-CGGCATCTTCCTGATGAGACACAGAGAAGAAGACCAA
* * * *
11486958 ATCAAACCCAAGCTCAATGCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGTAGC
194 ATC-AA--C--GCTCAAAGCGAGCAAACCTTCGAA-CCCAGCTTCCTGATGAGACACTGAGAAGC
*
11487023 AAGTTGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTC
253 AAGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTC
* *** * *
11487088 CTATGGAAAC-CTAGAGAAGTGGATCAAAACAAAAGACGCGGTCATCTTCCTGATGAAATACTGA
318 CTAAGGAAACTC-AGAGAAGCAAATCAAAACAAAAGACGCGGTCATCTTCCTAATGAAACACTGA
*
11487152 GAAGAAGGCCAA
382 GAAGAAGACCAA
11487164 GTTAATGAAA
Statistics
Matches: 343, Mismatches: 48, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
404 106 0.31
405 67 0.20
406 2 0.01
408 1 0.00
410 22 0.06
411 145 0.42
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (404 bp):
GCTCAAAGCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAA
TAAAATGGTTAGCTTCCTAATAAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCC
AGAGAAGCGAATTAAAACAAATGATGCGGCATCTTCCTGATGAGACACAGAGAAGAAGACCAAAT
CAACGCTCAAAGCGAGCAAACCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAA
GCAATAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTAAGGAA
ACTCAGAGAAGCAAATCAAAACAAAAGACGCGGTCATCTTCCTAATGAAACACTGAGAAGAAGAC
CAAATCAAACCCAG
Found at i:11487539 original size:17 final size:17
Alignment explanation
Indices: 11487512--11487600 Score: 106
Period size: 17 Copynumber: 5.2 Consensus size: 17
11487502 TGCTTTGAAA
*
11487512 TTAAGTTTATTTTAAAT
1 TTAAATTTATTTTAAAT
*
11487529 TCAAATTTATTTTAAAT
1 TTAAATTTATTTTAAAT
**
11487546 TTAAATTTATTTTTGAT
1 TTAAATTTATTTTAAAT
* *
11487563 TTAAATTTAATTTAAGT
1 TTAAATTTATTTTAAAT
* *
11487580 TTGAATTTAATTTAAAT
1 TTAAATTTATTTTAAAT
11487597 TTAA
1 TTAA
11487601 TATTATGGTA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 60 1.00
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (17 bp):
TTAAATTTATTTTAAAT
Found at i:11487548 original size:6 final size:6
Alignment explanation
Indices: 11487522--11487600 Score: 67
Period size: 6 Copynumber: 13.8 Consensus size: 6
11487512 TTAAGTTTAT
* * * **
11487522 TTTAAA TTCAAA TTT-AT TTTAAA TTTAAA TTT-AT TTTTGA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
11487568 TTT-AA TTTAAG TTTGAA TTT-AA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
11487601 TATTATGGTA
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
5 18 0.32
6 39 0.68
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:11487565 original size:23 final size:24
Alignment explanation
Indices: 11487522--11487600 Score: 85
Period size: 23 Copynumber: 3.5 Consensus size: 24
11487512 TTAAGTTTAT
* * *
11487522 TTTAAATTCAAATTT-ATTTTAAA
1 TTTAAATTTAAGTTTGAATTTAAA
**
11487545 TTTAAATTTATTTTTG-ATTTAAA
1 TTTAAATTTAAGTTTGAATTTAAA
11487568 TTT-AATTTAAGTTTGAATTT-AA
1 TTTAAATTTAAGTTTGAATTTAAA
11487590 TTTAAATTTAA
1 TTTAAATTTAA
11487601 TATTATGGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
22 15 0.32
23 32 0.68
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (24 bp):
TTTAAATTTAAGTTTGAATTTAAA
Found at i:11487574 original size:28 final size:28
Alignment explanation
Indices: 11487543--11487601 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
11487533 ATTTATTTTA
* *
11487543 AATTTAAATTT-ATTTTTGATTTAAATTT
1 AATTTAAATTTGA-ATTTAATTTAAATTT
*
11487571 AATTTAAGTTTGAATTTAATTTAAATTT
1 AATTTAAATTTGAATTTAATTTAAATTT
11487599 AAT
1 AAT
11487602 ATTATGGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (28 bp):
AATTTAAATTTGAATTTAATTTAAATTT
Found at i:11487614 original size:28 final size:28
Alignment explanation
Indices: 11487561--11487618 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
11487551 TTTATTTTTG
* *
11487561 ATTTAAATTTAATTTAAGTTTGAATTTA
1 ATTTAAATTTAATTTAAGTGTAAATTTA
*
11487589 ATTTAAATTTAATATTATG-GTAAATTTA
1 ATTTAAATTTAAT-TTAAGTGTAAATTTA
11487617 AT
1 AT
11487619 GTCCATTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (28 bp):
ATTTAAATTTAATTTAAGTGTAAATTTA
Found at i:11489460 original size:29 final size:28
Alignment explanation
Indices: 11489427--11489520 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 28
11489417 TCGAACTCTC
*
11489427 CAAAATCCCATTTTTAACCCCTATTTCA
1 CAAAATCCCATTTTTAACCCCGATTTCA
* *
11489455 CAAAAAATTACCA-TTTTACCCCCGAGCTTTC-
1 C--AAAA-TCCCATTTTTAACCCCGA--TTTCA
*
11489486 CAAAATCCCATTTTTAACCTCGATTTCA
1 CAAAATCCCATTTTTAACCCCGATTTCA
11489514 CCAAAAT
1 -CAAAAT
11489521 TTATCATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
27 4 0.08
28 5 0.10
29 20 0.38
30 14 0.27
31 5 0.10
32 4 0.08
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.32
Consensus pattern (28 bp):
CAAAATCCCATTTTTAACCCCGATTTCA
Found at i:11489492 original size:59 final size:59
Alignment explanation
Indices: 11489397--11489536 Score: 199
Period size: 59 Copynumber: 2.4 Consensus size: 59
11489387 TGATTTGTCC
* *
11489397 AAAAATTACCATTTTGACCCTCGAACTCTCCAAAATCCCATTTTTAACCCCTATTTCACA
1 AAAAATTACCATTTT-ACCCCCGAACTCTCCAAAATCCCATTTTTAACCCCGATTTCACA
* * * *
11489457 AAAAATTACCATTTTACCCCCGAGCTTTCCAAAATCCCATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAACTCTCCAAAATCCCATTTTTAACCCCGATTTCACA
* *
11489516 AAAATTTATCATTTTACCCCC
1 AAAAATTACCATTTTACCCCC
11489537 AAAGTCAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 57 0.79
60 15 0.21
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGAACTCTCCAAAATCCCATTTTTAACCCCGATTTCACA
Found at i:11492488 original size:11 final size:11
Alignment explanation
Indices: 11492461--11492496 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
11492451 TTTGTAAATG
11492461 TAAATAAAT-A
1 TAAATAAATAA
*
11492471 CAAATAAATAA
1 TAAATAAATAA
11492482 TAAATAAATAA
1 TAAATAAATAA
11492493 TAAA
1 TAAA
11492497 ATTAAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (11 bp):
TAAATAAATAA
Found at i:11493417 original size:30 final size:29
Alignment explanation
Indices: 11493380--11493615 Score: 213
Period size: 30 Copynumber: 8.0 Consensus size: 29
11493370 TTTGACCCCC
* *
11493380 AAACTTTCCAAAAATTCCAATTTTACCCT
1 AAACTTTCCAAAAATTCAAATTTAACCCT
* * * * *
11493409 CGAGCTTTCTAAAAAATCAAATTTGACCCCT
1 -AAACTTTCCAAAAATTCAAATTT-AACCCT
11493440 AAA-TTTCCAAAAATTCAAATTTAACACCT
1 AAACTTTCCAAAAATTCAAATTTAAC-CCT
*
11493469 AAACTTTCTAAAAATTCAAATTTAACCCT
1 AAACTTTCCAAAAATTCAAATTTAACCCT
* * *
11493498 AAATTTTCCAAAAATACCAATTTAACCCCT
1 AAACTTTCCAAAAATTCAAATTTAA-CCCT
* * *
11493528 AAATTTTCCAAAAATACCAATTTAACTCCT
1 AAACTTTCCAAAAATTCAAATTTAAC-CCT
* *** *
11493558 AAAATTTCCAAAAATTTTGATTTGACCCCT
1 AAACTTTCCAAAAATTCAAATTT-AACCCT
* * *
11493588 GAAGTTTCCAAAAATTCAAATTTGACCC
1 AAACTTTCCAAAAATTCAAATTTAACCC
11493616 AGTTTTAATG
Statistics
Matches: 170, Mismatches: 30, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
28 2 0.01
29 51 0.30
30 111 0.65
31 6 0.04
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.32
Consensus pattern (29 bp):
AAACTTTCCAAAAATTCAAATTTAACCCT
Found at i:11493447 original size:59 final size:59
Alignment explanation
Indices: 11493370--11493615 Score: 219
Period size: 59 Copynumber: 4.1 Consensus size: 59
11493360 AAAATTATGT
* * * *
11493370 TTTGACCCCCAAACTTTCCAAAAATTCCAATTTTACCCTCGAGCTTTCTAAAAAATCAAA
1 TTTGACCCCTAAACTTTCCAAAAATTCCAATTTAACCCT-AAACTTTCTAAAAAATCAAA
* *
11493430 TTTGACCCCTAAA-TTTCCAAAAATTCAAATTTAACACCTAAACTTTCTAAAAATTCAAA
1 TTTGACCCCTAAACTTTCCAAAAATTCCAATTTAAC-CCTAAACTTTCTAAAAAATCAAA
* * * * * *
11493489 TTT-AACCCTAAATTTTCCAAAAATACCAATTTAACCCCTAAATTTTC-CAAAAATACCAA
1 TTTGACCCCTAAACTTTCCAAAAATTCCAATTTAA-CCCTAAACTTTCTAAAAAAT-CAAA
* * * *** * * * * *
11493548 TTTAACTCCTAAAATTTCCAAAAATTTTGATTTGACCCCTGAAGTTTCCAAAAATTCAAA
1 TTTGACCCCTAAACTTTCCAAAAATTCCAATTT-AACCCTAAACTTTCTAAAAAATCAAA
11493608 TTTGACCC
1 TTTGACCC
11493616 AGTTTTAATG
Statistics
Matches: 151, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
58 13 0.09
59 75 0.50
60 57 0.38
61 6 0.04
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (59 bp):
TTTGACCCCTAAACTTTCCAAAAATTCCAATTTAACCCTAAACTTTCTAAAAAATCAAA
Found at i:11493497 original size:89 final size:89
Alignment explanation
Indices: 11493380--11493573 Score: 239
Period size: 89 Copynumber: 2.2 Consensus size: 89
11493370 TTTGACCCCC
* * * * *
11493380 AAACTTTCCAAAAATTCCAATTTTACCCTCGAGCTTTCTAAAAAAT-CAAATTTGACCCCTAAA-
1 AAACTTTCCAAAAATTCAAATTTAACCCT-AAACTTTC-AAAAAATACAAATTTAACCCCTAAAT
*
11493443 TTTCCAAAAATTCAAATTTAACACCT
64 TTTCCAAAAATACAAATTTAACACCT
* * * *
11493469 AAACTTTCTAAAAATTCAAATTTAACCCTAAATTTTCCAAAAATACCAATTTAACCCCTAAATTT
1 AAACTTTCCAAAAATTCAAATTTAACCCTAAACTTTCAAAAAATACAAATTTAACCCCTAAATTT
* *
11493534 TCCAAAAATACCAATTTAACTCCT
66 TCCAAAAATACAAATTTAACACCT
*
11493558 AAAATTTCCAAAAATT
1 AAACTTTCCAAAAATT
11493574 TTGATTTGAC
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
87 6 0.07
88 20 0.22
89 63 0.71
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.32
Consensus pattern (89 bp):
AAACTTTCCAAAAATTCAAATTTAACCCTAAACTTTCAAAAAATACAAATTTAACCCCTAAATTT
TCCAAAAATACAAATTTAACACCT
Found at i:11493652 original size:2 final size:2
Alignment explanation
Indices: 11493645--11493677 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11493635 TATTTTATCC
11493645 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11493678 GCTTTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11511023 original size:13 final size:14
Alignment explanation
Indices: 11510998--11511026 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11510988 CGACTTGGGG
11510998 GAAAAATAGAATGA
1 GAAAAATAGAATGA
11511012 GAAAAATA-AATGA
1 GAAAAATAGAATGA
11511025 GA
1 GA
11511027 GTTTAATGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.14
Consensus pattern (14 bp):
GAAAAATAGAATGA
Found at i:11514505 original size:123 final size:123
Alignment explanation
Indices: 11514286--11514651 Score: 594
Period size: 123 Copynumber: 3.0 Consensus size: 123
11514276 TTCTGCTACC
* * ** *
11514286 TTTCCTTTTATTTAATATTTCATGTT-AAACGGAATTATTTATTTATAGAAATATATGGAAGATT
1 TTTCCTTTTATTTAATATCTCATATTAAAACGGAATTATTCCTTTATAGAAATATATGGAAGGTT
11514350 TATTAAAACCATTATATCCTTTCTAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
66 TATTAAAACCATTATATCCTTTCTAAAAGGATATTAA-TTCCATGTTTTTAATATTCAA
*
11514409 TTTCCTTTTATTTAATATCTCATATTAAAACAGAATTATTCCTTTATAGAAATATATGGAAGGTT
1 TTTCCTTTTATTTAATATCTCATATTAAAACGGAATTATTCCTTTATAGAAATATATGGAAGGTT
*
11514474 TATTAAAA-CATTATATCCTTTCTAAAAGGATATTAATTTCTATGTTTTTAATATTCAA
66 TATTAAAACCATTATATCCTTTCTAAAAGGATATTAA-TTCCATGTTTTTAATATTCAA
* * *
11514532 TTTCCTTTTCTTTAATATCTCATATTAAAACGGAATTATTCCTTTATAGAAATACATGGAAGGCT
1 TTTCCTTTTATTTAATATCTCATATTAAAACGGAATTATTCCTTTATAGAAATATATGGAAGGTT
11514597 TATTAAAACCATTATATCCTTTCTAAAAGGATATTAATATCCATG-TTTTAATATT
66 TATTAAAACCATTATATCCTTTCTAAAAGGATATTAAT-TCCATGTTTTTAATATT
11514652 TAATGAAATC
Statistics
Matches: 227, Mismatches: 13, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
123 152 0.67
124 75 0.33
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.45
Consensus pattern (123 bp):
TTTCCTTTTATTTAATATCTCATATTAAAACGGAATTATTCCTTTATAGAAATATATGGAAGGTT
TATTAAAACCATTATATCCTTTCTAAAAGGATATTAATTCCATGTTTTTAATATTCAA
Found at i:11520660 original size:12 final size:12
Alignment explanation
Indices: 11520643--11520667 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11520633 GTTAAAGAAT
11520643 TAATAGCATTCA
1 TAATAGCATTCA
11520655 TAATAGCATTCA
1 TAATAGCATTCA
11520667 T
1 T
11520668 CATGATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATAGCATTCA
Found at i:11528308 original size:123 final size:124
Alignment explanation
Indices: 11528089--11528345 Score: 385
Period size: 123 Copynumber: 2.1 Consensus size: 124
11528079 GATTTTATTA
* * * * *
11528089 AATATT-AAAACATGGATATTAATATCTTTTTGAAAAGGATATAATGGTTTTAATCAACCTTCCA
1 AATATTAAAAACATGAAAATTAATATCATTTTGAAAAGGATATAATGGTTTGAATAAACCTTCCA
* *
11528153 TATATTTCTATAAAGGAATAATTTCGTTTTAATATGAGATATTAAAT-AAAAGGAAATT
66 TATATTTCTATAAAGGAATAATTTCATTTTAATATGAGATATTAAATAAAAAGAAAATT
* *
11528211 GAATATTAAAAACATGAAAATTAATATCATTTTGGAAATGATATAAT-GTTTGAATAAACCTTCC
1 -AATATTAAAAACATGAAAATTAATATCATTTTGAAAAGGATATAATGGTTTGAATAAACCTTCC
*
11528275 ATATATTTTTATAAAGGAATAATTTCATTTTAATATGAGATATTAAATAAAAAGAAAATT
65 ATATATTTCTATAAAGGAATAATTTCATTTTAATATGAGATATTAAATAAAAAGAAAATT
*
11528335 TATATTAAAAA
1 AATATTAAAAA
11528346 TATTTTGGAA
Statistics
Matches: 121, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
123 77 0.64
124 44 0.36
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (124 bp):
AATATTAAAAACATGAAAATTAATATCATTTTGAAAAGGATATAATGGTTTGAATAAACCTTCCA
TATATTTCTATAAAGGAATAATTTCATTTTAATATGAGATATTAAATAAAAAGAAAATT
Found at i:11528362 original size:108 final size:108
Alignment explanation
Indices: 11528239--11528456 Score: 303
Period size: 108 Copynumber: 2.0 Consensus size: 108
11528229 AATTAATATC
* * *
11528239 ATTTTGGAAATGATATAATGTTTGAATAAACCTTCCATATATTTTTATAAAGGAATAATTTCATT
1 ATTTTGGAAAAGATATAATATTTGAATAAACCTTCCATATATTTCTATAAAGGAATAATTTCATT
* **
11528304 TTAATATGAGATATTAAATAAAAAGAAAAT-TTATATTAAAAAT
66 TTAATATGAAATATTAAAT-AAAAGAAAATCGAATATTAAAAAT
* * * * * *
11528347 ATTTTGGAAAAGATATAATATTTTAATAAACTTTTCATATATTTCTCTAAAGGAATATTTTCGTT
1 ATTTTGGAAAAGATATAATATTTGAATAAACCTTCCATATATTTCTATAAAGGAATAATTTCATT
*
11528412 TTAATATGAAATATTAAATAAAAGGAAATCGAATATTAAAAAT
66 TTAATATGAAATATTAAATAAAAGAAAATCGAATATTAAAAAT
11528455 AT
1 AT
11528457 GGAAGTTAAT
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
107 9 0.09
108 87 0.91
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (108 bp):
ATTTTGGAAAAGATATAATATTTGAATAAACCTTCCATATATTTCTATAAAGGAATAATTTCATT
TTAATATGAAATATTAAATAAAAGAAAATCGAATATTAAAAAT
Found at i:11528411 original size:231 final size:233
Alignment explanation
Indices: 11528115--11528563 Score: 652
Period size: 231 Copynumber: 1.9 Consensus size: 233
11528105 TATTAATATC
* * *
11528115 TTTTTGAAAAGGATATAATGGTTTTAATCAACCTTCCATATATTTCTATAAAGGAATAATTTCGT
1 TTTTGGAAAAGGATATAATGATTTTAATAAACCTTCCATATATTTCTATAAAGGAATAATTTCGT
* *
11528180 TTTAATATGAGATATTAAATAAAAGGAAATTGAATATTAAAAACATGAAAATTAATATCATTTTG
66 TTTAATATGAAATATTAAATAAAAGGAAATCGAATATTAAAAACATGAAAATTAATATCATTTTG
* * * * ** * *
11528245 GAAATGATATAAT-GTTTGAATAAACCTTCCATATATTTTTATAAAGGAATAATTTCATTTTAAT
131 AAAAGGATATAATGGTTTGAATAAACATTCCATATATTTCTATAAAACAATAATTTCAGTTTAAC
11528309 ATGAGATATTAAATAAAAAGAAAATTTATATTAAAAATA
196 ATGAGATATTAAAT-AAAAGAAAATTTATATTAAAAATA
* * * *
11528348 TTTTGGAAAA-GATATAAT-ATTTTAATAAACTTTTCATATATTTCTCTAAAGGAATATTTTCGT
1 TTTTGGAAAAGGATATAATGATTTTAATAAACCTTCCATATATTTCTATAAAGGAATAATTTCGT
* * * *
11528411 TTTAATATGAAATATTAAATAAAAGGAAATCGAATATTAAAAATATGGAAGTTAATATCTTTTTG
66 TTTAATATGAAATATTAAATAAAAGGAAATCGAATATTAAAAACATGAAAATTAATATCATTTTG
* * *
11528476 AAAAGGATATAATGGTTTTAATAATCATTCCATATATTTCTATAAAACAATAATTTCGGTTTAAC
131 AAAAGGATATAATGGTTTGAATAAACATTCCATATATTTCTATAAAACAATAATTTCAGTTTAAC
11528541 ATGAGATATTAAATAAAAGAAAA
196 ATGAGATATTAAATAAAAGAAAA
11528564 GATAACATAA
Statistics
Matches: 191, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
231 118 0.62
232 64 0.34
233 9 0.05
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.38
Consensus pattern (233 bp):
TTTTGGAAAAGGATATAATGATTTTAATAAACCTTCCATATATTTCTATAAAGGAATAATTTCGT
TTTAATATGAAATATTAAATAAAAGGAAATCGAATATTAAAAACATGAAAATTAATATCATTTTG
AAAAGGATATAATGGTTTGAATAAACATTCCATATATTTCTATAAAACAATAATTTCAGTTTAAC
ATGAGATATTAAATAAAAGAAAATTTATATTAAAAATA
Found at i:11530332 original size:11 final size:10
Alignment explanation
Indices: 11530312--11530341 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
11530302 AAAATAAATG
11530312 AAATAAAAAA
1 AAATAAAAAA
*
11530322 AGATAAAAAA
1 AAATAAAAAA
11530332 AAATAAAAAA
1 AAATAAAAAA
11530342 GAAAAGCCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:11531081 original size:22 final size:20
Alignment explanation
Indices: 11531049--11531109 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
11531039 GTCTTCAATA
11531049 ATTTTCAATTAAAAATAATAAAT
1 ATTTT-AATTAAAAAT-A-AAAT
* **
11531072 GTTTTAATTAATTATAAAAT
1 ATTTTAATTAAAAATAAAAT
*
11531092 ATTTTAATTAAAATTAAA
1 ATTTTAATTAAAAATAAA
11531110 TTAAAGTATG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 18 0.58
21 1 0.03
22 8 0.26
23 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTTTAATTAAAAATAAAAT
Found at i:11531981 original size:23 final size:23
Alignment explanation
Indices: 11531954--11532000 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
11531944 TATTTAGTTT
*
11531954 ATTTAAATT-ATTCGAATTTAAAA
1 ATTT-AATTAATTCGAACTTAAAA
11531977 ATTTAATTCAATTCGAACTTAAAA
1 ATTTAATT-AATTCGAACTTAAAA
11532001 TTCGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 4 0.19
24 13 0.62
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTTAATTAATTCGAACTTAAAA
Found at i:11533300 original size:15 final size:16
Alignment explanation
Indices: 11533280--11533313 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11533270 GATCCCAAAC
*
11533280 AAAATTT-AGCTTTTA
1 AAAATTTCAACTTTTA
11533295 AAAATTTCAACTTTTA
1 AAAATTTCAACTTTTA
11533311 AAA
1 AAA
11533314 GAACTAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (16 bp):
AAAATTTCAACTTTTA
Found at i:11533998 original size:21 final size:24
Alignment explanation
Indices: 11533950--11533998 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
11533940 TAAATTTTAA
11533950 CTTTATAAAACAAATATGATCGTTT
1 CTTTATAAAACAAATATGATC-TTT
11533975 CTTTATAAAA-AAATAT-AT-TTT
1 CTTTATAAAACAAATATGATCTTT
11533996 CTT
1 CTT
11533999 AATGGCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.25
23 2 0.08
24 6 0.25
25 10 0.42
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (24 bp):
CTTTATAAAACAAATATGATCTTT
Found at i:11534184 original size:59 final size:61
Alignment explanation
Indices: 11534074--11534203 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 61
11534064 TTTTTGATCT
* * ** *
11534074 AATTTGATATATGAACTTGACATTTTTTTTTAATTTGGTACTTAAA-TTTTTTT-GGACTC
1 AATTTGGTACATGAACTTGACATTTTTTCCTAATTTGGTACTTAAACTTTTTTTAAGACTC
* * *
11534133 AATTTGGTACATGAACTTGATATTTTTTCCTAATTTGGTAGC-TAAGCTTTTTTTAAGATTC
1 AATTTGGTACATGAACTTGACATTTTTTCCTAATTTGGTA-CTTAAACTTTTTTTAAGACTC
11534194 AATTTGGTAC
1 AATTTGGTAC
11534204 CTATATTTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 38 0.63
60 8 0.13
61 14 0.23
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (61 bp):
AATTTGGTACATGAACTTGACATTTTTTCCTAATTTGGTACTTAAACTTTTTTTAAGACTC
Found at i:11534444 original size:30 final size:31
Alignment explanation
Indices: 11534408--11534482 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
11534398 GGACCTTCAA
*
11534408 AAGTTTAAGTACCAACTTA-AAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAGAAAAAAGTGTC
* *
11534438 AAGTTTAAGTACTAAATTAGAAAAAAGTGTT
1 AAGTTTAAGTACCAAATTAGAAAAAAGTGTC
*
11534469 AAGTTTTAGTACCA
1 AAGTTTAAGTACCA
11534483 TTTAAGTGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 17 0.44
31 22 0.56
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAGAAAAAAGTGTC
Found at i:11539824 original size:3 final size:3
Alignment explanation
Indices: 11539816--11539849 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
11539806 TGTTCTTTGC
11539816 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
11539850 AACACGTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:11541731 original size:42 final size:42
Alignment explanation
Indices: 11541672--11541757 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
11541662 ATCTCAAGTG
11541672 TTACGCCTTATTACAGATGTAACTTAAACTTTTCTTTCATTT
1 TTACGCCTTATTACAGATGTAACTTAAACTTTTCTTTCATTT
11541714 TTACGCCTTATTACAGATGTAACTTAAACTTTTCTTTCATTT
1 TTACGCCTTATTACAGATGTAACTTAAACTTTTCTTTCATTT
11541756 TT
1 TT
11541758 GCCTATGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.49
Consensus pattern (42 bp):
TTACGCCTTATTACAGATGTAACTTAAACTTTTCTTTCATTT
Found at i:11550947 original size:42 final size:42
Alignment explanation
Indices: 11550900--11550990 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
11550890 TGAAATGGGC
* * *
11550900 CTGCTCACACAAGCTGTGGGTTGGGATGATAGTTACTCGATG
1 CTGCTCACACAAGCTATGGGTTGAGATGATAGCTACTCGATG
**
11550942 CTGCTCACATGAGCTATGGGTTGAGATGATAGCTACTCGATG
1 CTGCTCACACAAGCTATGGGTTGAGATGATAGCTACTCGATG
11550984 CTGCTCA
1 CTGCTCA
11550991 AATGAGCTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (42 bp):
CTGCTCACACAAGCTATGGGTTGAGATGATAGCTACTCGATG
Found at i:11550996 original size:42 final size:42
Alignment explanation
Indices: 11550911--11550998 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
11550901 TGCTCACACA
* * * *
11550911 AGCTGTGGGTTGGGATGATAGTTACTCGATGCTGCTCACATG
1 AGCTATGGGTTGAGATGATAGCTACTCGATGCTGCTCAAATG
11550953 AGCTATGGGTTGAGATGATAGCTACTCGATGCTGCTCAAATG
1 AGCTATGGGTTGAGATGATAGCTACTCGATGCTGCTCAAATG
11550995 AGCT
1 AGCT
11550999 GTGGAGAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.30
Consensus pattern (42 bp):
AGCTATGGGTTGAGATGATAGCTACTCGATGCTGCTCAAATG
Done.