Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 51 of 344
Found at i:16923262 original size:16 final size:15
Alignment explanation
Indices: 16923236--16923270 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
16923226 TGATGTGAAT
16923236 AATATAAAATATTAA
1 AATATAAAATATTAA
*
16923251 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
16923267 AATA
1 AATA
16923271 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:16923471 original size:22 final size:22
Alignment explanation
Indices: 16923446--16923487 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16923436 ATAGTGTAAA
*
16923446 AAAATACATACATAATATAATT
1 AAAATACATACATAAGATAATT
*
16923468 AAAATATATACATAAGATAA
1 AAAATACATACATAAGATAA
16923488 CATGTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATACATACATAAGATAATT
Found at i:16923478 original size:26 final size:29
Alignment explanation
Indices: 16923428--16923536 Score: 76
Period size: 26 Copynumber: 4.1 Consensus size: 29
16923418 TAAAAATATG
* *
16923428 TACATAATATA-GTGTAAA-A-AAATACA
1 TACATAATATACATGTAAAGATATATACA
16923454 TACATAATATA-AT-TAAA-ATATATACA
1 TACATAATATACATGTAAAGATATATACA
* * *
16923480 TA-A-GATA-ACATGTAAATATATATATA
1 TACATAATATACATGTAAAGATATATACA
* *
16923506 TAAATAATATAGTAT-TAAAGATATATACA
1 TACATAATATA-CATGTAAAGATATATACA
16923535 TA
1 TA
16923537 AAATAGTATA
Statistics
Matches: 67, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
23 1 0.01
24 5 0.07
25 10 0.15
26 30 0.45
27 1 0.01
28 3 0.04
29 15 0.22
30 2 0.03
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (29 bp):
TACATAATATACATGTAAAGATATATACA
Found at i:16923524 original size:15 final size:14
Alignment explanation
Indices: 16923492--16923553 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
16923482 AGATAACATG
16923492 TAAATATATATATA
1 TAAATATATATATA
16923506 TAAATA-ATATAGTA
1 TAAATATATATA-TA
* *
16923520 TTAAAGATATATACA
1 -TAAATATATATATA
16923535 TAAAATAGTATAATATA
1 T-AAATA-TAT-ATATA
16923552 TA
1 TA
16923554 TACGTAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
13 5 0.13
14 9 0.24
15 10 0.26
16 9 0.24
17 5 0.13
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:16923529 original size:25 final size:24
Alignment explanation
Indices: 16923501--16923632 Score: 110
Period size: 23 Copynumber: 5.6 Consensus size: 24
16923491 GTAAATATAT
*
16923501 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATT-AAG
* *
16923526 ATATATACATAAAATAGTA-TAAT
1 ATATATACATAATATAGTATTAAG
* * *
16923549 ATATATACGTAATATAGAATTTAG
1 ATATATACATAATATAGTATTAAG
* * *
16923573 A-ATATACCTAATATATTA-AAAG
1 ATATATACATAATATAGTATTAAG
* *
16923595 AATATATATATAATATAATATTAAG
1 -ATATATACATAATATAGTATTAAG
*
16923620 AAATATA-ATAATA
1 ATATATACATAATA
16923633 ACAAAAAAAA
Statistics
Matches: 85, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
22 2 0.02
23 39 0.46
24 24 0.28
25 20 0.24
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (24 bp):
ATATATACATAATATAGTATTAAG
Found at i:16923608 original size:24 final size:23
Alignment explanation
Indices: 16923581--16923632 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
16923571 AGAATATACC
*
16923581 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
16923605 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
16923628 TAATA
1 TAATA
16923633 ACAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:16924026 original size:14 final size:14
Alignment explanation
Indices: 16924007--16924043 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
16923997 TACAATAACT
16924007 TTCTTCCCCAAAAC
1 TTCTTCCCCAAAAC
16924021 TTCTTCCCCAAAAC
1 TTCTTCCCCAAAAC
16924035 TTCTTCCCC
1 TTCTTCCCC
16924044 TCCTAATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.46, G:0.00, T:0.32
Consensus pattern (14 bp):
TTCTTCCCCAAAAC
Found at i:16926784 original size:32 final size:32
Alignment explanation
Indices: 16926743--16926805 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
16926733 TAATATACAT
* *
16926743 ATATGGTAAGGTATTGAAACAAAATAGGAAAG
1 ATATGGTAAGGAATTGAAACAAAACAGGAAAG
16926775 ATATGGTAAGGAATTGAAACAAAACAGGAAA
1 ATATGGTAAGGAATTGAAACAAAACAGGAAA
16926806 CATAGGTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.52, C:0.05, G:0.24, T:0.19
Consensus pattern (32 bp):
ATATGGTAAGGAATTGAAACAAAACAGGAAAG
Found at i:16927941 original size:23 final size:23
Alignment explanation
Indices: 16927915--16927958 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
16927905 TTTGGGCTTC
16927915 GGTGCTCCTATTACTT-GCACTTT
1 GGTGCTCCTATT-CTTGGCACTTT
*
16927938 GGTGCTTCTATTCTTGGCACT
1 GGTGCTCCTATTCTTGGCACT
16927959 ATCGTGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.43
Consensus pattern (23 bp):
GGTGCTCCTATTCTTGGCACTTT
Found at i:16931119 original size:21 final size:21
Alignment explanation
Indices: 16931078--16931119 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16931068 AATTAGTATC
* *
16931078 TAATTAATCTTAACTTTAACT
1 TAATTAATATTAACTTAAACT
16931099 TAATTAATTATTAA-TTAAACT
1 TAATTAA-TATTAACTTAAACT
16931120 AAAGACAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATTAATATTAACTTAAACT
Found at i:16934075 original size:34 final size:35
Alignment explanation
Indices: 16934037--16934106 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
16934027 AGTCCCTTCT
* *
16934037 AACATGCAATACAACTAA-TACAAACAGATA-ATCA
1 AACATGAAATACAA-AAACTACAAACAGATATATCA
*
16934071 AACATGAAATACAAAAACTGCAAACAGATATATCA
1 AACATGAAATACAAAAACTACAAACAGATATATCA
16934106 A
1 A
16934107 TTCCTTCCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 2 0.06
34 24 0.77
35 5 0.16
ACGTcount: A:0.57, C:0.19, G:0.07, T:0.17
Consensus pattern (35 bp):
AACATGAAATACAAAAACTACAAACAGATATATCA
Found at i:16935560 original size:12 final size:13
Alignment explanation
Indices: 16935543--16935572 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
16935533 TAACCAATGT
16935543 AAAATAATTAA-A
1 AAAATAATTAACA
16935555 AAAATAATTAACA
1 AAAATAATTAACA
16935568 AAAAT
1 AAAAT
16935573 CGCTCTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATAATTAACA
Found at i:16936096 original size:32 final size:32
Alignment explanation
Indices: 16936060--16936124 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 32
16936050 ATTAATATAC
16936060 ATATATGGTAA-GATATTGAAACAAAATAGGAA
1 ATATATGGTAAGGA-ATTGAAACAAAATAGGAA
16936092 ATATATGGTAAGGAATTGAAACAAAATAGGAA
1 ATATATGGTAAGGAATTGAAACAAAATAGGAA
16936124 A
1 A
16936125 CATAGGTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 30 0.94
33 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.20, T:0.23
Consensus pattern (32 bp):
ATATATGGTAAGGAATTGAAACAAAATAGGAA
Found at i:16937398 original size:22 final size:23
Alignment explanation
Indices: 16937356--16937400 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16937346 TTTAGATAAA
16937356 ATAAAAAATTATTAATAATTTTC
1 ATAAAAAATTATTAATAATTTTC
* *
16937379 ATAAAATATTATT-ATTATTTTC
1 ATAAAAAATTATTAATAATTTTC
16937401 TTAATTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
ATAAAAAATTATTAATAATTTTC
Found at i:16939912 original size:112 final size:112
Alignment explanation
Indices: 16939724--16939945 Score: 358
Period size: 112 Copynumber: 2.0 Consensus size: 112
16939714 GACACATGGT
*
16939724 CGTGTCTCTACCCGTGTGTTTACTACCTTGCATACTGACTTGTAAAATTTATGTGCATGGGACAC
1 CGTGTCTCTACCCGTGTGTTTACTACCTTGCATACTGACTTGTAAAATTTACGTGCATGGGACAC
16939789 ACAGCCGGACAACATGCCCATAGGGCTGGCCATGTGTCACACACGAC
66 ACAGCCGGACAACATGCCCATAGGGCTGGCCATGTGTCACACACGAC
*
16939836 CGTGTCTCTACCCGTGTGTTTACTACCATT-CATATTGACTTGTAAAATTTACGTGCA-GGAGAC
1 CGTGTCTCTACCCGTGTGTTTACTACC-TTGCATACTGACTTGTAAAATTTACGTGCATGG-GAC
* ** *
16939899 ACACGGCCGGACAACATGCTTATGGGGCTGGCCATGTGTCACACACG
64 ACACAGCCGGACAACATGCCCATAGGGCTGGCCATGTGTCACACACG
16939946 GCCTAGGCAT
Statistics
Matches: 102, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
111 2 0.02
112 98 0.96
113 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (112 bp):
CGTGTCTCTACCCGTGTGTTTACTACCTTGCATACTGACTTGTAAAATTTACGTGCATGGGACAC
ACAGCCGGACAACATGCCCATAGGGCTGGCCATGTGTCACACACGAC
Found at i:16947245 original size:21 final size:21
Alignment explanation
Indices: 16947191--16947246 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
16947181 CTTTGAAATA
* *
16947191 GGGC-ACACGCCCATGTGGAT
1 GGGCAACACGCCCGTATGGAT
* * *
16947211 AGGAAACACTCCCGTATGGAT
1 GGGCAACACGCCCGTATGGAT
16947232 GGGCAACACGCCCGT
1 GGGCAACACGCCCGT
16947247 GCGAAACTTG
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.14
Consensus pattern (21 bp):
GGGCAACACGCCCGTATGGAT
Found at i:16952558 original size:45 final size:45
Alignment explanation
Indices: 16952497--16952654 Score: 235
Period size: 45 Copynumber: 3.5 Consensus size: 45
16952487 TAAGATTGAG
*
16952497 ATATGTGTTTTCGTGTAAGACCACGTCAGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* *
16952542 ATATGTGTTTTTGTGTAAGACCACGCCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * *
16952587 ATATGTGTTTTCGTGTAAGACCACCTCTGGAACATTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * *
16952632 CTATGTGGTTACGTGTAAGACCA
1 ATATGTGTTTTCGTGTAAGACCA
16952655 TTTTTGGGAC
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 102 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:16952673 original size:45 final size:45
Alignment explanation
Indices: 16952497--16952674 Score: 124
Period size: 45 Copynumber: 4.0 Consensus size: 45
16952487 TAAGATTGAG
* * * * * * **
16952497 ATATGTGTTTTCGTGTAAGACCACGTCAGGGACGTTGGCATCGAT
1 ATATGTGGTTACGTGTAAGACCACCTCTGGAACATCAGCATCGAT
* ** * * **
16952542 ATATGTGTTTTTGTGTAAGACCACGC-CTGGGACGTTGGCATCGAT
1 ATATGTGGTTACGTGTAAGACCAC-CTCTGGAACATCAGCATCGAT
* * **
16952587 ATATGTGTTTTCGTGTAAGACCACCTCTGGAACATTGGCATCGAT
1 ATATGTGGTTACGTGTAAGACCACCTCTGGAACATCAGCATCGAT
* ** * *
16952632 CTATGTGGTTACGTGTAAGACCATTTTTGGGACATCAGCATCG
1 ATATGTGGTTACGTGTAAGACCACCTCTGGAACATCAGCATCG
16952675 TATTTGATTC
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.01
45 115 0.99
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (45 bp):
ATATGTGGTTACGTGTAAGACCACCTCTGGAACATCAGCATCGAT
Found at i:16952673 original size:90 final size:90
Alignment explanation
Indices: 16952497--16952674 Score: 221
Period size: 90 Copynumber: 2.0 Consensus size: 90
16952487 TAAGATTGAG
* * * * **
16952497 ATATGTGTTTTCGTGTAAGACCACGTCAGGGACGTTGGCATCGATATATGTGTTTTTGTGTAAGA
1 ATATGTGTTTTCGTGTAAGACCACCTCAGGAACATTGGCATCGATATATGTGGTTACGTGTAAGA
* **
16952562 CCACGCCTGGGACGTTGGCATCGAT
66 CCACGCCTGGGACATCAGCATCGAT
* *
16952587 ATATGTGTTTTCGTGTAAGACCACCTCTGGAACATTGGCATCGATCTATGTGGTTACGTGTAAGA
1 ATATGTGTTTTCGTGTAAGACCACCTCAGGAACATTGGCATCGATATATGTGGTTACGTGTAAGA
****
16952652 CCATTTTTGGGACATCAGCATCG
66 CCACGCCTGGGACATCAGCATCG
16952675 TATTTGATTC
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
90 73 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (90 bp):
ATATGTGTTTTCGTGTAAGACCACCTCAGGAACATTGGCATCGATATATGTGGTTACGTGTAAGA
CCACGCCTGGGACATCAGCATCGAT
Found at i:16957793 original size:48 final size:47
Alignment explanation
Indices: 16957673--16957884 Score: 202
Period size: 48 Copynumber: 4.5 Consensus size: 47
16957663 TATGTGTGGT
* * *
16957673 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT--AG-CATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAGATATTA-AGCC
*
16957719 AGTGTAAGACATGTCTGGGACCTGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATA-TTAAGCC
* * * *
16957767 AGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGATGA-T-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT-ATTAAGCC
* * * *
16957813 AGTGTAAGACATGTCTGGGACATGTATCGGCC-CCACGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATAT-TAAGCC
* *
16957861 AGTGTAAGACGTATCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
16957885 GCGTTAGCTT
Statistics
Matches: 140, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
45 3 0.02
46 65 0.46
47 3 0.02
48 66 0.47
49 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTAAGCC
Found at i:16957822 original size:94 final size:95
Alignment explanation
Indices: 16957673--16957988 Score: 315
Period size: 94 Copynumber: 3.4 Consensus size: 95
16957663 TATGTGTGGT
* *
16957673 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCA-T-AGCATGAGAGCCAGTGTAAGACATGTCT
1 AGTGTAAGACATGTCTGGGACATGGCATCAG-CATTGAG-ATGATAGCTAGTGTAAGACATGTCT
* **
16957735 GGGACCTGCATCGGCCTCGAGATATTTAAGCC
64 GGGACATGCATCGGCCTCGAGATATAAAAGCC
* *
16957767 AGTGTAAGACATGTCTAGGACAT-GCATCGGCATTGAGATGATAGCTAGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGATGATAGCTAGTGTAAGACATGTCTGG
* * * *
16957831 GACATGTATCGGCC-CCACGATATACAAGCT
66 GACATGCATCGGCCTCGA-GATATAAAAGCC
* * * * * * * *
16957861 AGTGTAAGACGTATCTGGGACATGGCGTTAGC-TTGTGGTG-T-GTTAGTGTAAGACCTGTCTGG
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGATGATAGCTAGTGTAAGACATGTCTGG
* ** * *
16957923 GACATGGCATCAGCCTCGCTACATGAAAGCC
66 GACAT-GCATCGGCCTCGAGATATAAAAGCC
16957954 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAGCAT
16957989 CTTAACCCAT
Statistics
Matches: 181, Mismatches: 33, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
92 24 0.13
93 28 0.15
94 121 0.67
95 8 0.04
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (95 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGATGATAGCTAGTGTAAGACATGTCTGG
GACATGCATCGGCCTCGAGATATAAAAGCC
Found at i:16957842 original size:46 final size:46
Alignment explanation
Indices: 16957673--16957843 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
16957663 TATGTGTGGT
* *
16957673 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-T-AGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCATTGAG-ATGATAGCC
* * *
16957719 AGTGTAAGACATGTCTGGGACCTGCATCGGCCTCGAGAT-ATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGA--T-AGCC
* *
16957767 AGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGATGATAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGATAGCC
*
16957813 AGTGTAAGACATGTCTGGGACATGTATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
16957844 CCCACGATAT
Statistics
Matches: 107, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
45 3 0.03
46 61 0.57
47 3 0.03
48 39 0.36
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGATAGCC
Found at i:16964015 original size:11 final size:11
Alignment explanation
Indices: 16963999--16964050 Score: 70
Period size: 11 Copynumber: 4.7 Consensus size: 11
16963989 TCAAAAATAA
*
16963999 ATAAAAGAAAG
1 ATAAAATAAAG
16964010 ATAAAATAAA-
1 ATAAAATAAAG
16964020 ATAAAATAAAG
1 ATAAAATAAAG
*
16964031 ATAAAAATAAAA
1 AT-AAAATAAAG
16964043 ATAAAATA
1 ATAAAATA
16964051 GATGGACTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
10 10 0.27
11 17 0.46
12 10 0.27
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (11 bp):
ATAAAATAAAG
Found at i:16964020 original size:5 final size:5
Alignment explanation
Indices: 16963992--16964050 Score: 66
Period size: 5 Copynumber: 11.2 Consensus size: 5
16963982 TAAGTCTTCA
*
16963992 AAAAT -AAAT AAAAG AAAGAT AAAAT AAAAT AAAAT AAAGAT AAAAAT
1 AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT AAA-AT -AAAAT
16964039 AAAAAT AAAAT A
1 -AAAAT AAAAT A
16964051 GATGGACTCA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
4 4 0.08
5 27 0.56
6 14 0.29
7 3 0.06
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:16964021 original size:21 final size:22
Alignment explanation
Indices: 16963991--16964048 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
16963981 ATAAGTCTTC
16963991 AAAAAT-AAATAAAAGAAAGAT
1 AAAAATAAAATAAAAGAAAGAT
*
16964012 -AAAATAAAATAAAATAAAGAT
1 AAAAATAAAATAAAAGAAAGAT
16964033 AAAAATAAAAATAAAA
1 AAAAAT-AAAATAAAA
16964049 TAGATGGACT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 5 0.15
21 14 0.42
22 5 0.15
23 9 0.27
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (22 bp):
AAAAATAAAATAAAAGAAAGAT
Found at i:16964040 original size:6 final size:6
Alignment explanation
Indices: 16964012--16964048 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
16964002 AAAGAAAGAT
*
16964012 AAAAT- AAAAT- AAAATA AAGATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
16964049 TAGATGGACT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:16964053 original size:21 final size:21
Alignment explanation
Indices: 16963991--16964053 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 21
16963981 ATAAGTCTTC
16963991 AAAAATAAATAA-AAGAA-AGAT
1 AAAAATAAA-AATAA-AATAGAT
16964012 -AAAAT-AAAATAAAATAAAGAT
1 AAAAATAAAAATAAAAT--AGAT
16964033 AAAAATAAAAATAAAATAGAT
1 AAAAATAAAAATAAAATAGAT
16964054 GGACTCAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
18 4 0.11
19 4 0.11
20 5 0.14
21 8 0.22
22 5 0.14
23 10 0.28
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.17
Consensus pattern (21 bp):
AAAAATAAAAATAAAATAGAT
Found at i:16966000 original size:13 final size:13
Alignment explanation
Indices: 16965982--16966006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16965972 CAACATGGCC
16965982 ATGTCACACGCCT
1 ATGTCACACGCCT
16965995 ATGTCACACGCC
1 ATGTCACACGCC
16966007 CGTTTGGGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.40, G:0.16, T:0.20
Consensus pattern (13 bp):
ATGTCACACGCCT
Found at i:16976401 original size:16 final size:16
Alignment explanation
Indices: 16976380--16976417 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
16976370 TTTTTGGCTG
*
16976380 GTATAGCGTGGATGGT
1 GTATAGCGTGAATGGT
*
16976396 GTATAGGGTGAATGGT
1 GTATAGCGTGAATGGT
16976412 GTATAG
1 GTATAG
16976418 ACTAATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.03, G:0.42, T:0.32
Consensus pattern (16 bp):
GTATAGCGTGAATGGT
Found at i:16976804 original size:211 final size:210
Alignment explanation
Indices: 16976441--16976863 Score: 706
Period size: 211 Copynumber: 2.0 Consensus size: 210
16976431 TTTTATAAGG
* *
16976441 TACATTTATCCAAATTGCAATGGGAAAATCATATGTTTAAATGATCAAATTGTCCTTTTAGTCTT
1 TACATTTATCCAAATTGCAATGGGAAAATCATATGCTTAAATGATCAAATTGTCCTTTTAATCTT
* * * *
16976506 ATGTTTATTGTCACTGCATTATTTATTAAGCTAAATTAAATTAGGCTTAAACAACAAATATTGGT
66 ATCTTTATTGTCACTGCATTATTTACTAAGCTAAATTAAATTAGGCATAAACAAAAAATATTGGT
* * *
16976571 CATTACTTCCAAGCATAATGTTAAATTACATAAAAAAACAACCAATA-TTGCTCAATGAACATTT
131 CATTACTGCCAAGCATAATGTTAAATTACATAAAAAAACAACAAATATTTG-TCAATCAACATTT
16976635 GCAACTGCTAGCTGCA
195 GCAACTGCTAGCTGCA
16976651 TACATTTATCCAAATTGCAATAGGG-AAATCATATGCTTAAATGATCAAATTTGTCCTTTTAATC
1 TACATTTATCCAAATTGCAAT-GGGAAAATCATATGCTTAAATGATCAAA-TTGTCCTTTTAATC
16976715 TTATCTTTATTGTCACTGCATTATTTACTAAGCTAAATTAAATTAGGCATAAACAAAAAATATTG
64 TTATCTTTATTGTCACTGCATTATTTACTAAGCTAAATTAAATTAGGCATAAACAAAAAATATTG
* *
16976780 GTCATTACTGCCAAGCATAATGTTAAATTACATAAAAAAATAATAAATATTTGTCAATCAACATT
129 GTCATTACTGCCAAGCATAATGTTAAATTACATAAAAAAACAACAAATATTTGTCAATCAACATT
16976845 TGCAACTGCTAGCTGCA
194 TGCAACTGCTAGCTGCA
16976862 TA
1 TA
16976864 TGCCTCTTAC
Statistics
Matches: 199, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
210 44 0.22
211 152 0.76
212 3 0.02
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (210 bp):
TACATTTATCCAAATTGCAATGGGAAAATCATATGCTTAAATGATCAAATTGTCCTTTTAATCTT
ATCTTTATTGTCACTGCATTATTTACTAAGCTAAATTAAATTAGGCATAAACAAAAAATATTGGT
CATTACTGCCAAGCATAATGTTAAATTACATAAAAAAACAACAAATATTTGTCAATCAACATTTG
CAACTGCTAGCTGCA
Found at i:16978026 original size:17 final size:16
Alignment explanation
Indices: 16977986--16978033 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
16977976 GAATGCTAAT
*
16977986 GATTTAGGGATTTCAA
1 GATTTAGGGATTTAAA
16978002 GATTTAGGGATTTAAA
1 GATTTAGGGATTTAAA
*
16978018 GATTTTAGGTATTTAA
1 GA-TTTAGGGATTTAA
16978034 TGAAGATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 17 0.59
17 12 0.41
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.42
Consensus pattern (16 bp):
GATTTAGGGATTTAAA
Found at i:16984645 original size:6 final size:6
Alignment explanation
Indices: 16984634--16984668 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
16984624 AAGACAATGT
16984634 TTATCC TTATCC TTATCC TTATCC TTATCC TTATC
1 TTATCC TTATCC TTATCC TTATCC TTATCC TTATC
16984669 TTTTGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.51
Consensus pattern (6 bp):
TTATCC
Found at i:16987201 original size:39 final size:39
Alignment explanation
Indices: 16987147--16987225 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
16987137 TTCTTTTATA
16987147 GGATTATGGACTTGTTTAGATTAACTACTGATGTAGGTT
1 GGATTATGGACTTGTTTAGATTAACTACTGATGTAGGTT
16987186 GGATTATGGACTTGTTTAGATTAACTACTGATGTAGGTT
1 GGATTATGGACTTGTTTAGATTAACTACTGATGTAGGTT
16987225 G
1 G
16987226 TCTTTCTCGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.41
Consensus pattern (39 bp):
GGATTATGGACTTGTTTAGATTAACTACTGATGTAGGTT
Found at i:16989980 original size:33 final size:33
Alignment explanation
Indices: 16989941--16990032 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
16989931 GATGTGTATA
16989941 TTCCTTTCCAAGTGGTACACACAAAGTATACCT
1 TTCCTTTCCAAGTGGTACACACAAAGTATACCT
* *
16989974 TTCCTTTTCATA-TGGTATACACAAAGTATACCT
1 TTCCTTTCCA-AGTGGTACACACAAAGTATACCT
** * *
16990007 AACCTTTCCAAGT-ATAGACACAAAGT
1 TTCCTTTCCAAGTGGTACACACAAAGT
16990033 GTACATAACA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
32 12 0.24
33 37 0.74
34 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (33 bp):
TTCCTTTCCAAGTGGTACACACAAAGTATACCT
Found at i:16990801 original size:47 final size:47
Alignment explanation
Indices: 16990747--16990847 Score: 118
Period size: 46 Copynumber: 2.2 Consensus size: 47
16990737 ATAATCTTTC
*
16990747 ATTTTCTATCAAAAACT-TTCAATTTACAGTATATTCATCCATGGGCA
1 ATTTTCTAT-AAAAACTGTTCAATTTACAGCATATTCATCCATGGGCA
*** *
16990794 ATTTTC--TAAACTTTGGTTCAATTTACAGCATATTCATCCATGGGTA
1 ATTTTCTATAAAAACT-GTTCAATTTACAGCATATTCATCCATGGGCA
16990840 ATTTTCTA
1 ATTTTCTA
16990848 AACTTTGGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
44 4 0.09
45 1 0.02
46 34 0.76
47 6 0.13
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.42
Consensus pattern (47 bp):
ATTTTCTATAAAAACTGTTCAATTTACAGCATATTCATCCATGGGCA
Found at i:16990817 original size:46 final size:46
Alignment explanation
Indices: 16990764--16990857 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
16990754 ATCAAAAACT
*
16990764 TTCAATTTACAGTATATTCATCCATGGGCAATTTTCTAAACTTTGG
1 TTCAATTTACAGCATATTCATCCATGGGCAATTTTCTAAACTTTGG
*
16990810 TTCAATTTACAGCATATTCATCCATGGGTAATTTTCTAAACTTTGG
1 TTCAATTTACAGCATATTCATCCATGGGCAATTTTCTAAACTTTGG
16990856 TT
1 TT
16990858 TTCTTTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.43
Consensus pattern (46 bp):
TTCAATTTACAGCATATTCATCCATGGGCAATTTTCTAAACTTTGG
Found at i:17001379 original size:5 final size:5
Alignment explanation
Indices: 17001369--17001393 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
17001359 TCAAAGTCAG
17001369 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
17001394 TTCAGAGCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:17010235 original size:27 final size:27
Alignment explanation
Indices: 17010195--17010246 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
17010185 ACTTTGTAAA
17010195 TTGATTAAATTAATTAGTTATTGTATTT
1 TTGATTAAATTAATTAGTTA-TGTATTT
* *
17010223 TTGATTTAA-TAATTATTTATGTAT
1 TTGATTAAATTAATTAGTTATGTAT
17010247 GTTGTGGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 9 0.41
28 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.58
Consensus pattern (27 bp):
TTGATTAAATTAATTAGTTATGTATTT
Found at i:17010756 original size:40 final size:40
Alignment explanation
Indices: 17010695--17011271 Score: 779
Period size: 40 Copynumber: 14.4 Consensus size: 40
17010685 TCGGGTGAAG
* *
17010695 AATAGATATATAAAATGGTTATATGAATTGATTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
* * *
17010735 AATAGATAAATGAAATAGTTATATGAATCGATTATATGAAA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATG-GA
* *
17010776 AATAAATATATGAAATGGTTATATGAATCGATTATATGAAA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATG-GA
*
17010817 AATACATATATGAAATGGTTATATGAATCGATTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
* * *
17010857 AATAGATAAATGAAATTGTTATATGAATCAATTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
* * *
17010897 AATAGATAAATGAAATGGTTATATGAACCGGTTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
* * * * *
17010937 AGTAGATACATAAAATGGTTATACGAATCGTTTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
* *
17010977 AATAAATAAATGAAATGGTTATATGAATC-AGTTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGA-TTATATGGA
* * *
17011017 AGTAGATATATGAAAT-G-AATATGAATC-AGTTATATGAA
1 AATAGATATATGAAATGGTTATATGAATCGA-TTATATGGA
*
17011055 AATAGATAAATGAAATGGTTATATGAATCGATTATAT-GA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
*
17011094 AAGTAGATATATGAAATGGTTATATGAATCGGTTATATGGA
1 AA-TAGATATATGAAATGGTTATATGAATCGATTATATGGA
* *
17011135 AGTAGATATATGAAATGGTTATATGAATCGGTTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
* *
17011175 AATAGATATATGAAATGGTTGTATGAATCAATTATATGGA
1 AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
*
17011215 AATAGATATATGAAATGGTTATATGAATC-AGTTATATAGA
1 AATAGATATATGAAATGGTTATATGAATCGA-TTATATGGA
17011255 AATAGATATATGAAATG
1 AATAGATATATGAAATG
17011272 AAACATTGGA
Statistics
Matches: 481, Mismatches: 48, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
38 33 0.07
39 6 0.01
40 362 0.75
41 80 0.17
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.34
Consensus pattern (40 bp):
AATAGATATATGAAATGGTTATATGAATCGATTATATGGA
Found at i:17010922 original size:13 final size:13
Alignment explanation
Indices: 17010701--17011271 Score: 225
Period size: 13 Copynumber: 42.8 Consensus size: 13
17010691 GAAGAATAGA
*
17010701 TATATAAAATGGT
1 TATATGAAATGGT
* *
17010714 TATATGAATTGAT
1 TATATGAAATGGT
* *
17010727 TATATGGAAATAGA
1 TATAT-GAAATGGT
* *
17010741 TAAATGAAATAGT
1 TATATGAAATGGT
*
17010754 TATATG-AATCGAT
1 TATATGAAAT-GGT
***
17010767 TATATGAAAAATAAA
1 TATATG--AAATGGT
17010782 TATATGAAATGGT
1 TATATGAAATGGT
*
17010795 TATATG-AATCGAT
1 TATATGAAAT-GGT
***
17010808 TATATGAAAAATACA
1 TATATG--AAATGGT
17010823 TATATGAAATGGT
1 TATATGAAATGGT
*
17010836 TATATG-AATCGAT
1 TATATGAAAT-GGT
* *
17010849 TATATGGAAATAGA
1 TATAT-GAAATGGT
* *
17010863 TAAATGAAATTGT
1 TATATGAAATGGT
**
17010876 TATATG-AATCAAT
1 TATATGAAAT-GGT
* *
17010889 TATATGGAAATAGA
1 TATAT-GAAATGGT
*
17010903 TAAATGAAATGGT
1 TATATGAAATGGT
**
17010916 TATATGAACCGGT
1 TATATGAAATGGT
* * *
17010929 TATATGGAAGTAGA
1 TATAT-GAAATGGT
* *
17010943 TACATAAAATGGT
1 TATATGAAATGGT
* *
17010956 TATACG-AATCGTT
1 TATATGAAAT-GGT
***
17010969 TATATGGAAATAAA
1 TATAT-GAAATGGT
*
17010983 TAAATGAAATGGT
1 TATATGAAATGGT
*
17010996 TATATG-AATCAGT
1 TATATGAAAT-GGT
* * *
17011009 TATATGGAAGTAGA
1 TATAT-GAAATGGT
17011023 TATATGAAAT-G-
1 TATATGAAATGGT
* *
17011034 AATATG-AATCAGT
1 TATATGAAAT-GGT
* *
17011047 TATATGAAAATAGA
1 TATATG-AAATGGT
*
17011061 TAAATGAAATGGT
1 TATATGAAATGGT
*
17011074 TATATG-AATCGAT
1 TATATGAAAT-GGT
* *
17011087 TATATGAAAGTAGA
1 TATATGAAA-TGGT
17011101 TATATGAAATGGT
1 TATATGAAATGGT
17011114 TATATG-AATCGGT
1 TATATGAAAT-GGT
* * *
17011127 TATATGGAAGTAGA
1 TATAT-GAAATGGT
17011141 TATATGAAATGGT
1 TATATGAAATGGT
17011154 TATATG-AATCGGT
1 TATATGAAAT-GGT
* *
17011167 TATATGGAAATAGA
1 TATAT-GAAATGGT
17011181 TATATGAAATGGT
1 TATATGAAATGGT
* **
17011194 TGTATG-AATCAAT
1 TATATGAAAT-GGT
* *
17011207 TATATGGAAATAGA
1 TATAT-GAAATGGT
17011221 TATATGAAATGGT
1 TATATGAAATGGT
*
17011234 TATATG-AATCAGT
1 TATATGAAAT-GGT
* *
17011247 TATATAGAAATAGA
1 TATAT-GAAATGGT
17011261 TATATGAAATG
1 TATATGAAATG
17011272 AAACATTGGA
Statistics
Matches: 414, Mismatches: 102, Indels: 84
0.69 0.17 0.14
Matches are distributed among these distances:
10 3 0.01
11 5 0.01
12 35 0.08
13 239 0.58
14 87 0.21
15 39 0.09
16 6 0.01
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (13 bp):
TATATGAAATGGT
Found at i:17014805 original size:36 final size:36
Alignment explanation
Indices: 17014755--17014847 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 36
17014745 GTAAATCGAC
* * *
17014755 AATCCAACCAAAACACACCATATGCTCATAAGAGCT
1 AATCCATCCAAAACACACCAAATGCTCATAAAAGCT
* *
17014791 AATCCATCCTAAACATACCAAATGCTCATAAAAGCT
1 AATCCATCCAAAACACACCAAATGCTCATAAAAGCT
* *
17014827 AATCTATCCGAAACACACCAA
1 AATCCATCCAAAACACACCAA
17014848 TGGCTCCGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.45, C:0.30, G:0.06, T:0.18
Consensus pattern (36 bp):
AATCCATCCAAAACACACCAAATGCTCATAAAAGCT
Found at i:17027195 original size:34 final size:37
Alignment explanation
Indices: 17027156--17027224 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
17027146 GGAAAATATG
* *
17027156 ATTGAATGTG-AATG-ATTTTTATTTGAA-AATGAAA
1 ATTGAATGTGAAATGTATGTTTATTTAAATAATGAAA
17027190 ATTGAATGTGAAATGTATGTTTATTTAAATAATGA
1 ATTGAATGTGAAATGTATGTTTATTTAAATAATGA
17027225 GTCTGGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 10 0.33
35 4 0.13
36 11 0.37
37 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.42
Consensus pattern (37 bp):
ATTGAATGTGAAATGTATGTTTATTTAAATAATGAAA
Found at i:17028103 original size:18 final size:18
Alignment explanation
Indices: 17028076--17028118 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
17028066 TGCATAAAAA
* *
17028076 GAAAGCAAATAAATAAAC
1 GAAAGAAAATAAACAAAC
*
17028094 GAAAGAAAATAAACAAAT
1 GAAAGAAAATAAACAAAC
17028112 GAAAGAA
1 GAAAGAA
17028119 GGGGGAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.14, T:0.09
Consensus pattern (18 bp):
GAAAGAAAATAAACAAAC
Found at i:17036847 original size:27 final size:26
Alignment explanation
Indices: 17036812--17036923 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
17036802 AGCATGGCTG
*
17036812 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
17036838 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
* *
17036866 CCAGAACAGAAATATATGACAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * *
17036893 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGACAGAGCCA
17036920 CCAG
1 CCAG
17036924 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 49 0.68
28 17 0.24
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:17036871 original size:54 final size:54
Alignment explanation
Indices: 17036812--17036923 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
17036802 AGCATGGCTG
* * *
17036812 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAATATATGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* *
17036866 CCAGAACAGAAATATATGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAATATATGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
17036920 CCAG
1 CCAG
17036924 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAATATATGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:17039534 original size:16 final size:16
Alignment explanation
Indices: 17039513--17039544 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17039503 TTTCTCTCTC
*
17039513 TAGGGTTAGGTTTTTT
1 TAGGGTTAGATTTTTT
17039529 TAGGGTTAGATTTTTT
1 TAGGGTTAGATTTTTT
17039545 ATTTTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (16 bp):
TAGGGTTAGATTTTTT
Found at i:17039544 original size:15 final size:16
Alignment explanation
Indices: 17039513--17039545 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
17039503 TTTCTCTCTC
*
17039513 TAGGGTTAGGTTTTTT
1 TAGGGTTAGGATTTTT
17039529 TAGGGTTA-GATTTTT
1 TAGGGTTAGGATTTTT
17039544 TA
1 TA
17039546 TTTTATTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (16 bp):
TAGGGTTAGGATTTTT
Found at i:17048011 original size:46 final size:44
Alignment explanation
Indices: 17047907--17048014 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
17047897 TGTCTTTGAC
** * * *
17047907 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
17047951 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
17047997 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
17048015 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:17051246 original size:18 final size:18
Alignment explanation
Indices: 17051223--17051275 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
17051213 AATGAAAAAG
17051223 ATGAGAAATGAATATGAA
1 ATGAGAAATGAATATGAA
*
17051241 ATGAGAAATAAAATATGAA
1 ATGAGAAAT-GAATATGAA
17051260 ATGATGAAATG-ATATG
1 ATGA-GAAATGAATATG
17051276 TGAAACTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 14 0.45
19 12 0.39
20 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.25
Consensus pattern (18 bp):
ATGAGAAATGAATATGAA
Found at i:17051257 original size:19 final size:18
Alignment explanation
Indices: 17051223--17051269 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 18
17051213 AATGAAAAAG
*
17051223 ATGAGAAATGAATATGAA
1 ATGAGAAATAAATATGAA
17051241 ATGAGAAATAAAATATGAA
1 ATGAGAAAT-AAATATGAA
17051260 ATGATGAAAT
1 ATGA-GAAAT
17051270 GATATGTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 9 0.35
19 12 0.46
20 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.19, T:0.23
Consensus pattern (18 bp):
ATGAGAAATAAATATGAA
Found at i:17056427 original size:24 final size:24
Alignment explanation
Indices: 17056390--17056441 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
17056380 TTCCCCGGTA
*
17056390 GAAGTCAAAACCGAAAAAGGGTCT
1 GAAGTCAAAACCGAAAAAAGGTCT
* *
17056414 GAAGTCGAATCCGAAAAAAGGTCT
1 GAAGTCAAAACCGAAAAAAGGTCT
17056438 GAAG
1 GAAG
17056442 AACACGTCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.15, G:0.27, T:0.13
Consensus pattern (24 bp):
GAAGTCAAAACCGAAAAAAGGTCT
Found at i:17056551 original size:48 final size:48
Alignment explanation
Indices: 17056484--17056667 Score: 280
Period size: 48 Copynumber: 3.8 Consensus size: 48
17056474 GCCATGGCCG
* * * * *
17056484 ATGAATCGAAAGCAATAAGTTCTGTTCCAAAATCTGTAGAGAAAGCCG
1 ATGAACCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGAGAAAGCCA
17056532 ATGAACCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGA-AGAAGCCA
1 ATGAACCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGAGA-AAGCCA
* *
17056580 ATGAATCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGAGGAAGCCA
1 ATGAACCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGAGAAAGCCA
*
17056628 ATGAACCAAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGA
1 ATGAACCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGA
17056668 AGAAGGAAGC
Statistics
Matches: 125, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
47 1 0.01
48 124 0.99
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (48 bp):
ATGAACCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGAGAAAGCCA
Found at i:17056648 original size:96 final size:96
Alignment explanation
Indices: 17056484--17056672 Score: 324
Period size: 96 Copynumber: 2.0 Consensus size: 96
17056474 GCCATGGCCG
* * *
17056484 ATGAATCGAAAGCAATAAGTTCTGTTCCAAAATCTGTAGAGAAAGCCGATGAACCGAAAGCAGTA
1 ATGAATCGAAAGCAATAAGTTCTGTTCCAAAATCTGCAGAGAAAGCCAATGAACCAAAAGCAGTA
17056549 AGTTCTGTTCCGAAATCTGCAGAAGAAGCCA
66 AGTTCTGTTCCGAAATCTGCAGAAGAAGCCA
* * *
17056580 ATGAATCGAAAGCAGTAAGTTCTGTTCCGAAATCTGCAGAGGAAGCCAATGAACCAAAAGCAGTA
1 ATGAATCGAAAGCAATAAGTTCTGTTCCAAAATCTGCAGAGAAAGCCAATGAACCAAAAGCAGTA
17056645 AGTTCTGTTCCGAAATCTGCAGAAGAAG
66 AGTTCTGTTCCGAAATCTGCAGAAGAAG
17056673 GAAGCGTTAG
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (96 bp):
ATGAATCGAAAGCAATAAGTTCTGTTCCAAAATCTGCAGAGAAAGCCAATGAACCAAAAGCAGTA
AGTTCTGTTCCGAAATCTGCAGAAGAAGCCA
Found at i:17057076 original size:9 final size:9
Alignment explanation
Indices: 17057064--17057122 Score: 57
Period size: 9 Copynumber: 6.6 Consensus size: 9
17057054 CAATTCCAGC
17057064 AGAAGAGAA
1 AGAAGAGAA
*
17057073 AGAAGTGAA
1 AGAAGAGAA
*
17057082 GGAAGTA-AA
1 AGAAG-AGAA
*
17057091 AGAAGTGAA
1 AGAAGAGAA
*
17057100 ACAAGAGAA
1 AGAAGAGAA
*
17057109 AGAAAAGAA
1 AGAAGAGAA
17057118 AGAAG
1 AGAAG
17057123 TAGCTCTGGG
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.63, C:0.02, G:0.31, T:0.05
Consensus pattern (9 bp):
AGAAGAGAA
Found at i:17070352 original size:16 final size:18
Alignment explanation
Indices: 17070326--17070371 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
17070316 TTCTCTTTTA
17070326 TTTATTTATTATTTAA-TC
1 TTTA-TTATTATTTAATTC
17070344 -TTATTATTA-TTAATTC
1 TTTATTATTATTTAATTC
17070360 TTTATT-TTATTT
1 TTTATTATTATTT
17070372 TACTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.16
16 11 0.44
17 10 0.40
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTATTATTTAATTC
Found at i:17070353 original size:23 final size:23
Alignment explanation
Indices: 17070319--17070363 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17070309 TTTCCCATTC
*
17070319 TCTTTTATTTATTTATTATTTAA
1 TCTTTTATTTATTAATTATTTAA
*
17070342 TCTTATTA-TTATTAATTCTTTA
1 TCTT-TTATTTATTAATTATTTA
17070364 TTTTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (23 bp):
TCTTTTATTTATTAATTATTTAA
Found at i:17082641 original size:16 final size:16
Alignment explanation
Indices: 17082620--17082651 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17082610 TATGGACCAA
17082620 TTATACATATGCTCAT
1 TTATACATATGCTCAT
17082636 TTATACATATGCTCAT
1 TTATACATATGCTCAT
17082652 CATACAACAA
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:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (16 bp):
TTATACATATGCTCAT
Found at i:17086133 original size:40 final size:40
Alignment explanation
Indices: 17086076--17086305 Score: 327
Period size: 40 Copynumber: 5.8 Consensus size: 40
17086066 ATTTGAATAC
* * * *
17086076 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-TAT
17086116 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
17086156 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
17086196 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * * *
17086236 ATCCAGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
17086276 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
17086306 TTGTGGTTAT
Statistics
Matches: 174, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 171 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:17087965 original size:47 final size:47
Alignment explanation
Indices: 17087896--17087990 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
17087886 ATATAAACAA
17087896 ATTAAATTATTAATTCATCACATTCTTCAATTTCAACCCGAAAACTT
1 ATTAAATTATTAATTCATCACATTCTTCAATTTCAACCCGAAAACTT
17087943 ATTAAATTATTAATTCATCACATTCTTCAATTTCAACCCGAAAACTT
1 ATTAAATTATTAATTCATCACATTCTTCAATTTCAACCCGAAAACTT
17087990 A
1 A
17087991 CTCTATGGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (47 bp):
ATTAAATTATTAATTCATCACATTCTTCAATTTCAACCCGAAAACTT
Found at i:17089070 original size:21 final size:19
Alignment explanation
Indices: 17089021--17089070 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 19
17089011 TCTTCTATTT
17089021 CTTTC-TCTTCTTCAGCAA
1 CTTTCTTCTTCTTCAGCAA
17089039 CTTTCTT-TTCTTCAGCAA
1 CTTTCTTCTTCTTCAGCAA
17089057 CAATTTCTTCTTCT
1 C--TTTCTTCTTCT
17089071 GCAGTAGCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 17 0.61
19 1 0.04
20 6 0.21
21 4 0.14
ACGTcount: A:0.16, C:0.30, G:0.04, T:0.50
Consensus pattern (19 bp):
CTTTCTTCTTCTTCAGCAA
Found at i:17089435 original size:21 final size:19
Alignment explanation
Indices: 17089386--17089435 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
17089376 TCTTCTATTT
17089386 CTTTCC-CTTCTTCAGCAA
1 CTTTCCTCTTCTTCAGCAA
*
17089404 C-TTCCTTTTCTTCAGCAA
1 CTTTCCTCTTCTTCAGCAA
17089422 CAATTTCCTCTTCT
1 C--TTTCCTCTTCT
17089436 GCAGTAGCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 4 0.15
18 13 0.50
21 9 0.35
ACGTcount: A:0.16, C:0.36, G:0.04, T:0.44
Consensus pattern (19 bp):
CTTTCCTCTTCTTCAGCAA
Found at i:17089628 original size:365 final size:365
Alignment explanation
Indices: 17088956--17090017 Score: 1982
Period size: 365 Copynumber: 2.9 Consensus size: 365
17088946 CTAGATTTTT
17088956 AATATTTACACCCACAGATTCTAGTGTGGTGACAATATTCACATCAGAATCTTTCTCTTCTATTT
1 AATATTTACACCCACAGATTCTAGTGTGGTGACAATATTCACATCAGAATCTTTCTCTTCTATTT
* *
17089021 CTTTCTCTTCTTCAGCAACTTTCTTTTCTTCAGCAACAATTTCTTCTTCTGCAGTAGCAGCTTCC
66 CTTTCTCTTCTTCAGCAACTTCCTTTTCTTCAGCAACAATTTCCTCTTCTGCAGTAGCAGCTTCC
17089086 TTGTCAACAATAGTGCCCTATTGATCAGCAAAAATATCATTTCGAACAAGCTATCAATCTTGTGT
131 TTGTCAACAATAGTGCCCTATTGATCAGCAAAAATATCATTTCGAACAAGCTATCAATCTTGTGT
17089151 AGACATTCCTCAAAGCCTATGGATTCTTCATCTTTGTCATTATCAGAGACTTGCACGATAGGAGG
196 AGACATTCCTCAAAGCCTATGGATTCTTCATCTTTGTCATTATCAGAGACTTGCACGATAGGAGG
* *
17089216 AGATGCCACCAATCGGTCTCAATCTTTGAAGTCGTCATTTTTAAATGAATGCTTATAGTTTCAAA
261 AGATGCCACCGATCGGTCTCAATCTTTGAAGTCGTCATTTGTAAATGAATGCTTATAGTTTCAAA
17089281 TGATTGGTGGAAATACTGGGAAGTTCGGTATTATAGTTTC
326 TGATTGGTGGAAATACTGGGAAGTTCGGTATTATAGTTTC
* *
17089321 AATATTTACACCCATAGATTCTAGTGTGGTGACAATATTCACATCAGAATTTTTCTCTTCTATTT
1 AATATTTACACCCACAGATTCTAGTGTGGTGACAATATTCACATCAGAATCTTTCTCTTCTATTT
*
17089386 CTTTCCCTTCTTCAGCAACTTCCTTTTCTTCAGCAACAATTTCCTCTTCTGCAGTAGCAGCTTCC
66 CTTTCTCTTCTTCAGCAACTTCCTTTTCTTCAGCAACAATTTCCTCTTCTGCAGTAGCAGCTTCC
*
17089451 TTGTCAACAATAGTGCCCTATTGATCAGCAAAAATATCATTTTGAACAAGCTATCAATCTTGTGT
131 TTGTCAACAATAGTGCCCTATTGATCAGCAAAAATATCATTTCGAACAAGCTATCAATCTTGTGT
* *
17089516 AGACATTCCTCAAAGCTTATGGATTCTTCATCTTTGTCATTATCAGAGACTTGCACGATAGGAGA
196 AGACATTCCTCAAAGCCTATGGATTCTTCATCTTTGTCATTATCAGAGACTTGCACGATAGGAGG
17089581 AGATGCCACCGATCGGTCTCAATCTTTGAAGTCGTCATTTGTAAATGAATGCTTATAGTTTCAAA
261 AGATGCCACCGATCGGTCTCAATCTTTGAAGTCGTCATTTGTAAATGAATGCTTATAGTTTCAAA
17089646 TGATTGGTGGAAATACTGGGAAGTTCGGTATTATAGTTTC
326 TGATTGGTGGAAATACTGGGAAGTTCGGTATTATAGTTTC
17089686 AATATTTACACCCACAGATTCTAGTGTGGTGACAATATTCACATCAGAATCTTTCTCTTCTATTT
1 AATATTTACACCCACAGATTCTAGTGTGGTGACAATATTCACATCAGAATCTTTCTCTTCTATTT
* *
17089751 CTTTCTCTTCTTCAGCAACTTCCTTTTCTTCAGCAACAATTTCCTCTTTTGCAATAGCAGCTTCC
66 CTTTCTCTTCTTCAGCAACTTCCTTTTCTTCAGCAACAATTTCCTCTTCTGCAGTAGCAGCTTCC
*
17089816 TTGTCAACAATAGTGCCCTATTGATCAGCAAAAATACCATTTCGAACAAGCTATCAATCTTGTGT
131 TTGTCAACAATAGTGCCCTATTGATCAGCAAAAATATCATTTCGAACAAGCTATCAATCTTGTGT
*
17089881 AGACATTCCTCAAAGCCTATGGATTCTTCATTTTTGTCATTATCAGAGACTTGCACGAT-GAGAG
196 AGACATTCCTCAAAGCCTATGGATTCTTCATCTTTGTCATTATCAGAGACTTGCACGATAG-GAG
17089945 GAGATGCCACCGATCGGTCTCAATCTTTGAAGTCGTCATTTGTAAATGAATGCTTATAGTTTCAA
260 GAGATGCCACCGATCGGTCTCAATCTTTGAAGTCGTCATTTGTAAATGAATGCTTATAGTTTCAA
17090010 ATGATTGG
325 ATGATTGG
17090018 ACTGGGAAGT
Statistics
Matches: 676, Mismatches: 20, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
364 1 0.00
365 675 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (365 bp):
AATATTTACACCCACAGATTCTAGTGTGGTGACAATATTCACATCAGAATCTTTCTCTTCTATTT
CTTTCTCTTCTTCAGCAACTTCCTTTTCTTCAGCAACAATTTCCTCTTCTGCAGTAGCAGCTTCC
TTGTCAACAATAGTGCCCTATTGATCAGCAAAAATATCATTTCGAACAAGCTATCAATCTTGTGT
AGACATTCCTCAAAGCCTATGGATTCTTCATCTTTGTCATTATCAGAGACTTGCACGATAGGAGG
AGATGCCACCGATCGGTCTCAATCTTTGAAGTCGTCATTTGTAAATGAATGCTTATAGTTTCAAA
TGATTGGTGGAAATACTGGGAAGTTCGGTATTATAGTTTC
Found at i:17105147 original size:74 final size:71
Alignment explanation
Indices: 17104959--17105308 Score: 328
Period size: 70 Copynumber: 4.9 Consensus size: 71
17104949 TTTGGGTACT
* * * ** **
17104959 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTTATG-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCA
17105024 GGTCACA
65 GGTCACA
* ** *
17105031 CGCTGAGGTA-TTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTT
1 --CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTC
17105095 AGGTCACA
64 AGGTCACA
* * **
17105103 CTGAGGTATTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGAGGTATTTTTAATT--T-ATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCT
* * *
17105168 CAAGACACG
63 CAGGTCACA
* * * * * *
17105177 TTGAGGTAATTTCAATTTATG-TTCCAAAATCAACTCATATTGCGAAAGGTGAGTCAAGCCTCGG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAG
* *
17105241 GGCACG
66 GTCACA
* * * * * *
17105247 CTGAGGTATTTTTAGTTTATGTTT-AGAAAATTAACTAATCTTGCGAAAGGTGAGTTAAGCCT
1 CTGAGGTATTTTTAATTTATGTTTCA-AAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCT
17105309 TTTAATTTCT
Statistics
Matches: 227, Mismatches: 43, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
70 66 0.29
71 43 0.19
72 43 0.19
73 10 0.04
74 65 0.29
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (71 bp):
CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAG
GTCACA
Found at i:17105219 original size:144 final size:143
Alignment explanation
Indices: 17104959--17105270 Score: 394
Period size: 144 Copynumber: 2.2 Consensus size: 143
17104949 TTTGGGTACT
*
17104959 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCA
* * * ** *
17105024 GGTCACACGCTGAGGTATTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCA
66 AG-CACACGCTGAGGTATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTCA
* *
17105089 AGCCTTAGGTCACA
130 AGCCTCAGGGCACA
* * * **
17105103 CTGAGGTATTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGAGGTATTTTTAATTCATG-T-TTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCT
* *
17105168 CAAG-ACACGTTGAGGTAATTTCAATTTATG-TTCCAAAATCAACTCATATTGCGAAAGGTGAGT
64 CAAGCACACGCTGAGGT-ATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAAAGGTGAGT
* *
17105231 CAAGCCTCGGGGCACG
128 CAAGCCTCAGGGCACA
* *
17105247 CTGAGGTATTTTTAGTTTATGTTT
1 CTGAGGTATTTTTAATTCATGTTT
17105271 AGAAAATTAA
Statistics
Matches: 144, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
142 2 0.01
143 1 0.01
144 89 0.62
145 12 0.08
146 40 0.28
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (143 bp):
CTGAGGTATTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCA
AGCACACGCTGAGGTATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTCAA
GCCTCAGGGCACA
Found at i:17105476 original size:88 final size:88
Alignment explanation
Indices: 17105327--17105494 Score: 257
Period size: 88 Copynumber: 1.9 Consensus size: 88
17105317 CTGTTTTTCA
* * * *
17105327 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTT
1 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAATT
*
17105392 CTGTTTTTCAAATTCCGTTCGTC
66 CTGTTATTCAAATTCCGTTCGTC
* *
17105415 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAAAT
1 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGCTCACATGCT-GAGCTATTTTCAAAT
17105479 TCTGTTATTCAAATTC
65 TCTGTTATTCAAATTC
17105495 TATTTTTAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 1 0.01
88 71 0.99
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (88 bp):
AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAATT
CTGTTATTCAAATTCCGTTCGTC
Found at i:17105926 original size:74 final size:72
Alignment explanation
Indices: 17105743--17105927 Score: 217
Period size: 72 Copynumber: 2.5 Consensus size: 72
17105733 CTACTTTTTC
* * * * *
17105743 AAAATCAGCTCATATTGCTAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
***
17105808 GTGTTTT
66 GTGTAAA
** * *
17105815 AATTTCAACTTATATGGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
17105880 GTTGTAAAA
66 G-TGT-AAA
* * *
17105889 AAAATCAACTCAGATTGCGAAAAGTGAGTTGAGCCTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
17105928 TTCACATGCT
Statistics
Matches: 92, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
72 57 0.62
73 3 0.03
74 32 0.35
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTGTAAA
Found at i:17107738 original size:3 final size:3
Alignment explanation
Indices: 17107695--17107722 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17107685 TCACTTTTAC
17107695 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
17107723 GTGTTGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:17108425 original size:35 final size:31
Alignment explanation
Indices: 17108359--17108450 Score: 87
Period size: 35 Copynumber: 2.8 Consensus size: 31
17108349 CTAGATTTTA
*
17108359 TATTCTTATATGTATATTATTACATTGATTT
1 TATTCTTATATATATATTATTACATTGATTT
17108390 TATTCTTATCATATATATTATCAATACA-TGTATTT
1 TATTCTTAT-ATATATATTAT---TACATTG-ATTT
* *
17108425 TATTATATGTATATATATTATGTACA
1 TATTCT-TATATATATATTAT-TACA
17108451 CATATTAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
31 9 0.18
32 10 0.20
33 4 0.08
34 2 0.04
35 24 0.47
36 2 0.04
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (31 bp):
TATTCTTATATATATATTATTACATTGATTT
Found at i:17109954 original size:25 final size:25
Alignment explanation
Indices: 17109926--17109978 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
17109916 GTTTTGGAAA
* *
17109926 ATAATTGGCGTGGGAGTGGAGAAGG
1 ATAACTGGCGTGAGAGTGGAGAAGG
17109951 ATAACTGGCGTGAGAGTGGAGAAGG
1 ATAACTGGCGTGAGAGTGGAGAAGG
17109976 ATA
1 ATA
17109979 CTCCGGTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.32, C:0.06, G:0.43, T:0.19
Consensus pattern (25 bp):
ATAACTGGCGTGAGAGTGGAGAAGG
Found at i:17115262 original size:30 final size:30
Alignment explanation
Indices: 17115217--17115348 Score: 176
Period size: 30 Copynumber: 4.4 Consensus size: 30
17115207 CTGACACATA
* *
17115217 GGCGTGTAG-CCAGCCCATGTGATTCACACG
1 GGCGTGT-GCCCAGCCCGTGTGGTTCACACG
*
17115247 GGCATGTGCCCAGCCCGTGTGGTTCACACG
1 GGCGTGTGCCCAGCCCGTGTGGTTCACACG
*
17115277 GGCGTATGCCCAGCCCGTGTGGTTCACACG
1 GGCGTGTGCCCAGCCCGTGTGGTTCACACG
* ** *
17115307 GCCGTGTGCCCAGCTTGTGTGGTTTACACG
1 GGCGTGTGCCCAGCCCGTGTGGTTCACACG
17115337 GGCGTGTGCCCA
1 GGCGTGTGCCCA
17115349 ACCCCTATGG
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 1 0.01
30 89 0.99
ACGTcount: A:0.14, C:0.31, G:0.33, T:0.22
Consensus pattern (30 bp):
GGCGTGTGCCCAGCCCGTGTGGTTCACACG
Found at i:17123353 original size:59 final size:59
Alignment explanation
Indices: 17123261--17123383 Score: 212
Period size: 59 Copynumber: 2.1 Consensus size: 59
17123251 TAAGCAAATT
*
17123261 ACTTAAACACAAGGCATAAGTCAGGGATTTTCAAATAATCATATAAATAACCTCCCCAC
1 ACTTAAACACAAGGCATAAGTCAGAGATTTTCAAATAATCATATAAATAACCTCCCCAC
*
17123320 ACTTAAACATAAGGCATAAGTCA-AGATTTTTCAAATAATCATATAAATAACCTCCCCAC
1 ACTTAAACACAAGGCATAAGTCAGAGA-TTTTCAAATAATCATATAAATAACCTCCCCAC
17123379 ACTTA
1 ACTTA
17123384 CGATGTACAT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
58 2 0.03
59 59 0.97
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.26
Consensus pattern (59 bp):
ACTTAAACACAAGGCATAAGTCAGAGATTTTCAAATAATCATATAAATAACCTCCCCAC
Found at i:17123658 original size:6 final size:6
Alignment explanation
Indices: 17123633--17123742 Score: 82
Period size: 6 Copynumber: 18.5 Consensus size: 6
17123623 AATAAATTTC
* * **
17123633 AAAATAT AAAAA- CAAAAT AAACAT AAAAAT AAAAAT AAAAAT AAACCT
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* * * **
17123681 -AAAA- AAACAT AAAGAG AAAAATT AAAAAT AACGAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAA-T AAAAAT AAAAAT AAAAAT AAAAAT
* *
17123728 AAACAT AAAGAT AAA
1 AAAAAT AAAAAT AAA
17123743 TGGACTCAAT
Statistics
Matches: 80, Mismatches: 19, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
5 9 0.11
6 62 0.77
7 9 0.11
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:17123720 original size:34 final size:34
Alignment explanation
Indices: 17123642--17123720 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
17123632 CAAAATATAA
* *
17123642 AAACA-AAATAAACATAAAAATAAAAATAAAAAT
1 AAACATAAAAAAACATAAAAAGAAAAATAAAAAT
* *
17123675 AAACCTAAAAAAACATAAAGAGAAAAATTAAAAAT
1 AAACATAAAAAAACATAAAAAGAAAAA-TAAAAAT
17123710 -AACGATAAAAA
1 AAAC-ATAAAAA
17123721 TAAAAATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
33 4 0.11
34 21 0.55
35 13 0.34
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.14
Consensus pattern (34 bp):
AAACATAAAAAAACATAAAAAGAAAAATAAAAAT
Found at i:17125078 original size:3 final size:3
Alignment explanation
Indices: 17125070--17125096 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
17125060 AAAACAAGGG
17125070 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
17125097 ATCTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17125377 original size:18 final size:16
Alignment explanation
Indices: 17125354--17125396 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
17125344 CCGTGTGGGT
17125354 AAGAGGACAAGTGGGAGA
1 AAGAGGA-AAG-GGGAGA
*
17125372 AAGAGGAGAGGGGAGA
1 AAGAGGAAAGGGGAGA
17125388 AAG-GGAAAG
1 AAGAGGAAAG
17125397 AAAGGGGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.22
16 9 0.39
17 2 0.09
18 7 0.30
ACGTcount: A:0.47, C:0.02, G:0.49, T:0.02
Consensus pattern (16 bp):
AAGAGGAAAGGGGAGA
Found at i:17125431 original size:20 final size:19
Alignment explanation
Indices: 17125392--17125433 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
17125382 GGGAGAAAGG
*
17125392 GAAAGAAAGGGGAAATAAA
1 GAAAGAAAGGGGAAAGAAA
*
17125411 GAAAGAAAAGGGGAAGGAAA
1 GAAAG-AAAGGGGAAAGAAA
17125431 GAA
1 GAA
17125434 GGAAGAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (19 bp):
GAAAGAAAGGGGAAAGAAA
Found at i:17135108 original size:22 final size:22
Alignment explanation
Indices: 17135070--17135119 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
17135060 TAATATATTT
17135070 GAACAT-AAAAATAGACACTTG
1 GAACATAAAAAATAGACACTTG
*
17135091 GAACATAAAAAATGGACACTTG
1 GAACATAAAAAATAGACACTTG
17135113 GAACATA
1 GAACATA
17135120 CTTAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.18
Consensus pattern (22 bp):
GAACATAAAAAATAGACACTTG
Found at i:17135464 original size:13 final size:13
Alignment explanation
Indices: 17135446--17135477 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
17135436 TTTTAATTTA
17135446 TATATCTTCTTAC
1 TATATCTTCTTAC
17135459 TATATCTTCTTAC
1 TATATCTTCTTAC
17135472 TATATC
1 TATATC
17135478 AATATTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (13 bp):
TATATCTTCTTAC
Found at i:17135523 original size:13 final size:15
Alignment explanation
Indices: 17135493--17135524 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17135483 TCAATTCATG
17135493 CATTTCATCAATAAT
1 CATTTCATCAATAAT
17135508 CATTTCAT-AA-AAT
1 CATTTCATCAATAAT
17135521 CATT
1 CATT
17135525 ATTTCACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (15 bp):
CATTTCATCAATAAT
Found at i:17136048 original size:21 final size:20
Alignment explanation
Indices: 17135986--17136050 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 20
17135976 TAGAAATAGT
*
17135986 ATACGACACATAAAGTGCCTA
1 ATACGACACAT-AAGTGCCTG
* *
17136007 AAACGACACACAAGGTGCCTG
1 ATACGACACATAA-GTGCCTG
17136028 ATACGACACATATAGTGCCTG
1 ATACGACACATA-AGTGCCTG
17136049 AT
1 AT
17136051 CAGAAAAGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.05
21 34 0.92
22 1 0.03
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (20 bp):
ATACGACACATAAGTGCCTG
Found at i:17136449 original size:75 final size:72
Alignment explanation
Indices: 17136370--17136538 Score: 171
Period size: 79 Copynumber: 2.3 Consensus size: 72
17136360 ATTCATTTTC
* * * *
17136370 CAATTAAATTCAAATCACTAATTACTTTTCAATCAATATACATTTCAAATAGTCACATATTTTCT
1 CAATTAAATTCAAATCACT-ATTACTTTCCAATCAATAAAC-TTTCAAATAGTCACATA-ATTCA
*
17136435 TCATTCAATT
63 TAATTCAATT
* * *
17136445 CAATTTTATTCAATTCAAATCACTTTTAGTTTCCAATCAATAAACTTTCAAATATTCACATAATT
1 CAA--TTA---AATTCAAATCACTATTACTTTCCAATCAATAAACTTTCAAATAGTCACATAATT
17136510 CATAATTCAATT
61 CATAATTCAATT
*
17136522 -ACTT-AATTCAAATCACT
1 CAATTAAATTCAAATCACT
17136539 TTTAATTTAC
Statistics
Matches: 80, Mismatches: 9, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
70 13 0.16
74 2 0.03
75 3 0.04
76 1 0.01
77 15 0.19
78 16 0.20
79 17 0.21
80 13 0.16
ACGTcount: A:0.39, C:0.19, G:0.01, T:0.41
Consensus pattern (72 bp):
CAATTAAATTCAAATCACTATTACTTTCCAATCAATAAACTTTCAAATAGTCACATAATTCATAA
TTCAATT
Found at i:17136462 original size:20 final size:19
Alignment explanation
Indices: 17136428--17136472 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
17136418 ATAGTCACAT
* *
17136428 ATTTTCTTCATTCAATTCA
1 ATTTTATTCATTCAAATCA
17136447 ATTTTATTCAATTCAAATCA
1 ATTTTATTC-ATTCAAATCA
*
17136467 CTTTTA
1 ATTTTA
17136473 GTTTCCAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTTATTCATTCAAATCA
Found at i:17137838 original size:5 final size:5
Alignment explanation
Indices: 17137830--17137869 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
17137820 TATTTATTTC
*
17137830 ATAAT ATAAT ATAAT ATAATT ATAAT ATAAT -TATT ATAAT
1 ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT ATAAT ATAAT
17137870 TTAACATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.10
5 23 0.74
6 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (5 bp):
ATAAT
Found at i:17137855 original size:11 final size:11
Alignment explanation
Indices: 17137830--17137863 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
17137820 TATTTATTTC
17137830 ATAATATAA-T
1 ATAATATAATT
17137840 ATAATATAATT
1 ATAATATAATT
17137851 ATAATATAATT
1 ATAATATAATT
17137862 AT
1 AT
17137864 TATAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATAATATAATT
Found at i:17140979 original size:24 final size:24
Alignment explanation
Indices: 17140947--17141010 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
17140937 GAAAATTTCA
* *
17140947 GGCACTATGTGTGCG-GTTTAGTAT
1 GGCACTATGTGTGCGAGCTTAAT-T
*
17140971 GGCACTATGTGTGTGAGCTTAATT
1 GGCACTATGTGTGCGAGCTTAATT
*
17140995 AGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
17141011 ATTTGGTTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 29 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.14, G:0.31, T:0.34
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGCTTAATT
Found at i:17159489 original size:43 final size:42
Alignment explanation
Indices: 17159320--17159490 Score: 118
Period size: 43 Copynumber: 4.0 Consensus size: 42
17159310 CATAGGATTC
***
17159320 CGATATTTGATTTTGTGTAAGACCACGTTTGGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACGTTT-GGACGTTGGCAT
* * * *
17159363 CGAT-TTGAGATTTACATGTAAGA-CATGTTTGGAACATCGGCAT
1 CGATATT-TGA-TTACATGTAAGACCACGTTTGG-ACGTTGGCAT
* * * * *
17159406 TG-TATTTGATTTCGTGTAAGACC-CTTTCTGGGATAG-TGGCAT
1 CGATATTTGATTACATGTAAGACCACGTT-T-GGA-CGTTGGCAT
*
17159448 CGATATTTGATTACATGTAAGACCACATCTTGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACGT-TTGGACGTTGGCAT
17159491 TGTATGAGCT
Statistics
Matches: 95, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
41 12 0.13
42 17 0.18
43 53 0.56
44 12 0.13
45 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (42 bp):
CGATATTTGATTACATGTAAGACCACGTTTGGACGTTGGCAT
Found at i:17159490 original size:85 final size:85
Alignment explanation
Indices: 17159323--17159495 Score: 194
Period size: 85 Copynumber: 2.0 Consensus size: 85
17159313 AGGATTCCGA
* *
17159323 TATTTGATTTTGTGTAAGACCACGTTTGGGACGTTGGCATCGATTTGAGATTTACATGTAAGACA
1 TATTTGATTTCGTGTAAGACCACGTTTGGGAAGTTGGCATCGATTTGAGATTTACATGTAAGACA
**
17159388 TGTTTGGAACATCGGCATTG
66 CATTTGGAACATCGGCATTG
* *
17159408 TATTTGATTTCGTGTAAGACC-CTTTCTGGGATAG-TGGCATCGATATT-TGA-TTACATGTAAG
1 TATTTGATTTCGTGTAAGACCACGTT-TGGGA-AGTTGGCATCGAT-TTGAGATTTACATGTAAG
* *
17159469 ACCACATCTTGG-ACGTTGGCATTG
63 A-CACAT-TTGGAACATCGGCATTG
17159493 TAT
1 TAT
17159496 GAGCTTTTTG
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
84 15 0.20
85 53 0.71
86 7 0.09
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.37
Consensus pattern (85 bp):
TATTTGATTTCGTGTAAGACCACGTTTGGGAAGTTGGCATCGATTTGAGATTTACATGTAAGACA
CATTTGGAACATCGGCATTG
Found at i:17160430 original size:54 final size:54
Alignment explanation
Indices: 17160348--17160454 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
17160338 CTACAATTTA
* *
17160348 AAGTTAGTCTTGAGCACGGCCTAGACACACGGGCGTGTCTGGTGGCTGTGTGCC
1 AAGTTAGTCTCGAGCACGGCCTAGACACACAGGCGTGTCTGGTGGCTGTGTGCC
17160402 AAGTTAGTCTCGAGCACGGCCTAGACACACAGGCGTGTCTGGTGGCTGTGTGC
1 AAGTTAGTCTCGAGCACGGCCTAGACACACAGGCGTGTCTGGTGGCTGTGTGC
17160455 AGCACAAAGC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.18, C:0.24, G:0.35, T:0.23
Consensus pattern (54 bp):
AAGTTAGTCTCGAGCACGGCCTAGACACACAGGCGTGTCTGGTGGCTGTGTGCC
Found at i:17165766 original size:13 final size:13
Alignment explanation
Indices: 17165748--17165772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17165738 TATGTGTTAA
17165748 ATGTGAAAATTTC
1 ATGTGAAAATTTC
17165761 ATGTGAAAATTT
1 ATGTGAAAATTT
17165773 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (13 bp):
ATGTGAAAATTTC
Found at i:17166935 original size:44 final size:42
Alignment explanation
Indices: 17166865--17167021 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 42
17166855 TTCCGATATG
* * * * *
17166865 TGATTTTGTGTAAAACCACGTTTGGGACGTC-AGCATCG-ATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATCGA-CATCGTATT
*
17166906 TGAGATTTACGTGTAAGACCATGTCTGGGACATCGACATTGTATT
1 T--GATTT-CGTGTAAGACCATGTCTGGGACATCGACATCGTATT
* * **
17166951 TGATTTCGTGTAAGACCCTGTCTGGGACAAT-GGCATTAATATT
1 TGATTTCGTGTAAGACCATGTCTGGGAC-ATCGACA-TCGTATT
* * *
17166994 TGATTACATGTAAGACCACGTCTGGGAC
1 TGATTTCGTGTAAGACCATGTCTGGGAC
17167022 GTTGGCATTG
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 24 0.25
43 41 0.43
44 24 0.25
45 5 0.05
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATCGACATCGTATT
Found at i:17166965 original size:42 final size:43
Alignment explanation
Indices: 17166909--17167021 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 43
17166899 ATCGATTTGA
*
17166909 GATTTACGTGTAAGACCATGTCTGGGAC-ATCGACATT-GTATTT
1 GATTT-CGTGTAAGACCATGTCTGGGACAAT-GACATTAATATTT
* *
17166952 GATTTCGTGTAAGACCCTGTCTGGGACAATGGCATTAATATTT
1 GATTTCGTGTAAGACCATGTCTGGGACAATGACATTAATATTT
* * *
17166995 GATTACATGTAAGACCACGTCTGGGAC
1 GATTTCGTGTAAGACCATGTCTGGGAC
17167022 GTTGGCATTG
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
42 26 0.43
43 35 0.57
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGGGACAATGACATTAATATTT
Found at i:17168830 original size:112 final size:112
Alignment explanation
Indices: 17168633--17168856 Score: 403
Period size: 112 Copynumber: 2.0 Consensus size: 112
17168623 AATCCCATCC
* *
17168633 CAAGTACTCATTGGATGGTAGGTTTCTTAAGAGAAAAGGGAAAGTGATGATCAGTCACAACACAA
1 CAAGTACTCATTGGATGGCAAGTTTCTTAAGAGAAAAGGGAAAGTGATGATCAGTCACAACACAA
*
17168698 ACCTCATGAAGGCAATTTTTTAGTTGTTCCACAATGAGGCCATTGGT
66 ACCTCATGAAGGCAATTTTTTAGCTGTTCCACAATGAGGCCATTGGT
17168745 CAAGTACTCATTGGATGGCAAGTTTCTTAAGAGAAAAGGGAAAGTGATGATCAGTCACAACACAA
1 CAAGTACTCATTGGATGGCAAGTTTCTTAAGAGAAAAGGGAAAGTGATGATCAGTCACAACACAA
* *
17168810 ACCTCATGAAGGCAATTTTTTAGCTGTTCCACAATGAGTCTATTGGT
66 ACCTCATGAAGGCAATTTTTTAGCTGTTCCACAATGAGGCCATTGGT
17168857 GGCCACTCAG
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 107 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (112 bp):
CAAGTACTCATTGGATGGCAAGTTTCTTAAGAGAAAAGGGAAAGTGATGATCAGTCACAACACAA
ACCTCATGAAGGCAATTTTTTAGCTGTTCCACAATGAGGCCATTGGT
Found at i:17170588 original size:13 final size:13
Alignment explanation
Indices: 17170543--17170588 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
17170533 TATTTTATGC
17170543 ATATATTATTGTT
1 ATATATTATTGTT
*
17170556 ATAGTATTTTTCGCTT
1 ATA-TATTATT-G-TT
17170572 ATATATTATTGTT
1 ATATATTATTGTT
17170585 ATAT
1 ATAT
17170589 GTAAATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 9 0.32
14 7 0.25
15 7 0.25
16 5 0.18
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (13 bp):
ATATATTATTGTT
Found at i:17171909 original size:12 final size:12
Alignment explanation
Indices: 17171879--17171911 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
17171869 TATATATTTT
17171879 AAAATT-ATATA
1 AAAATTAATATA
17171890 AAAA-TAATATA
1 AAAATTAATATA
17171901 AAAATTAATAT
1 AAAATTAATAT
17171912 GAGCGGGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:17172640 original size:176 final size:173
Alignment explanation
Indices: 17172149--17172649 Score: 445
Period size: 176 Copynumber: 2.8 Consensus size: 173
17172139 ATCCACAATC
* * * **
17172149 GTTGATCATTTGGGCTTCGTTGAGCTACT-TTTATGGGCTAAACACCGACAACCCATTTTCTAAA
1 GTTGATCATTTAGGCTTCGTTGAGCT-CTGTTTATGGACTAAACA-CGA-AACCCATTCTCTGCA
* * * *
17172213 TGTGACAGAACCGACCA-TCAAGTGAGTCTTTATGCCGCCAAGAAGAAAGCCGGTGAGG-AATCA
63 TGT-ACAGAACCGACCATTC-GGTGAGTCTTTACGCCGCCAAGAAGAAAGTCGGTGAGGAAATCG
* * * * * *
17172276 CTCGTACTTATAATGATATCTACGATCTTTCTTTCAATGGACTCAACT
126 CTCATACTTATAATCATATCTACAACCTTTCCTTCAATAGACTCAACT
* ** ** * *
17172324 GTCGATCATTTAGGCTTTATTGAGCTCTGTTTATAAACTTAACACTGAAAACCCATTCTCCGAAC
1 GTTGATCATTTAGGCTTCGTTGAGCTCTGTTTATGGACTAAACAC-G-AAACCCATTCTCTG--C
* ** ** * * * *
17172389 ATG-ACAGAACCGACCATCCGGCAAGTCTTTACATCACCATGAAGAAAGTCAGTGAGGAAACCGC
62 ATGTACAGAACCGACCATTCGGTGAGTCTTTACGCCGCCAAGAAGAAAGTCGGTGAGGAAATCGC
* * * * *
17172453 TTATGCTTATAATCATATTTACAACCTTTCCTTCACTAGACTCAGCAT
127 TCATACTTATAATCATATCTACAACCTTTCCTTCAATAGACTCAAC-T
*
17172501 -TTGATCATTTAGGCTTCGTTGAGCTCTGTTTATGGACTCAACATCGAAAGCCCATTCTCTGCAT
1 GTTGATCATTTAGGCTTCGTTGAGCTCTGTTTATGGACTAAACA-CGAAA-CCCATTCTCTGCAT
* ** * * * *
17172565 GTAATAGAACCGATTATTCGGTGAGTCTTTACGCCGCCACGAAGAAAGTTGGTAAGGAAATTGCT
64 GT-ACAGAACCGACCATTCGGTGAGTCTTTACGCCGCCAAGAAGAAAGTCGGTGAGGAAATCGCT
*
17172630 CATACTTATAACCATATCTA
128 CATACTTATAATCATATCTA
17172650 TGACATTTCC
Statistics
Matches: 252, Mismatches: 62, Indels: 23
0.75 0.18 0.07
Matches are distributed among these distances:
174 7 0.03
175 88 0.35
176 152 0.60
177 5 0.02
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (173 bp):
GTTGATCATTTAGGCTTCGTTGAGCTCTGTTTATGGACTAAACACGAAACCCATTCTCTGCATGT
ACAGAACCGACCATTCGGTGAGTCTTTACGCCGCCAAGAAGAAAGTCGGTGAGGAAATCGCTCAT
ACTTATAATCATATCTACAACCTTTCCTTCAATAGACTCAACT
Found at i:17174746 original size:17 final size:18
Alignment explanation
Indices: 17174714--17174747 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17174704 TAAGTTAGTG
*
17174714 AAAATAAAATTCAATATT
1 AAAATAAAATTAAATATT
17174732 AAAAT-AAATTAAATAT
1 AAAATAAAATTAAATAT
17174748 CGACCAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATAAAATTAAATATT
Found at i:17177909 original size:11 final size:11
Alignment explanation
Indices: 17177883--17177941 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
17177873 GCCTGGGGCG
*
17177883 TAAAAATTTGT
1 TAAAAATATGT
*
17177894 GAAAAATATGT
1 TAAAAATATGT
17177905 T-AAAATAATGT
1 TAAAAAT-ATGT
* **
17177916 T-AAATTAAAT
1 TAAAAATATGT
17177926 TAAAAATATGT
1 TAAAAATATGT
17177937 TAAAA
1 TAAAA
17177942 CAATAATAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
10 8 0.22
11 29 0.78
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (11 bp):
TAAAAATATGT
Found at i:17199781 original size:19 final size:19
Alignment explanation
Indices: 17199757--17199801 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
17199747 CGAAGCCTTG
17199757 TTAATAGCTACATATCTTA
1 TTAATAGCTACATATCTTA
17199776 TTAATAGCTACATATCTTA
1 TTAATAGCTACATATCTTA
17199795 TTAATAG
1 TTAATAG
17199802 AATGCCCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (19 bp):
TTAATAGCTACATATCTTA
Found at i:17202234 original size:42 final size:42
Alignment explanation
Indices: 17202170--17202252 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
17202160 TATTTTTATT
*
17202170 TTATCTTTTAGTTGTTTATTAGAATAAGGGAACTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
* *
17202212 TTATGTTTTAGTAGTTTGTTAGAATAAGGGAACTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCC
17202253 AATTAGGATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
Found at i:17212489 original size:24 final size:26
Alignment explanation
Indices: 17212431--17212482 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
17212421 TGGTATAATG
*
17212431 ATAAATTTAATCCTTGATTTTTTTAC
1 ATAAATTTAATCCTTGATATTTTTAC
17212457 ATAAATTTAATCCTT-A-ATTTTTAC
1 ATAAATTTAATCCTTGATATTTTTAC
17212481 AT
1 AT
17212483 CATTTTATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 9 0.36
25 1 0.04
26 15 0.60
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.52
Consensus pattern (26 bp):
ATAAATTTAATCCTTGATATTTTTAC
Found at i:17212714 original size:14 final size:13
Alignment explanation
Indices: 17212688--17212724 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
17212678 CTAATTCTTT
17212688 TTTAAATTTTGAAA
1 TTTAAA-TTTGAAA
17212702 TTTGAAATTTGAAA
1 TTT-AAATTTGAAA
17212716 TTTAAATTT
1 TTTAAATTT
17212725 TTTATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.27
14 13 0.59
15 3 0.14
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (13 bp):
TTTAAATTTGAAA
Found at i:17212724 original size:6 final size:7
Alignment explanation
Indices: 17212695--17212724 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
17212685 TTTTTTAAAT
17212695 TTTGAAA
1 TTTGAAA
17212702 TTTGAAA
1 TTTGAAA
17212709 TTTGAAA
1 TTTGAAA
17212716 TTT-AAA
1 TTTGAAA
17212722 TTT
1 TTT
17212725 TTTATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (7 bp):
TTTGAAA
Found at i:17213026 original size:16 final size:16
Alignment explanation
Indices: 17213005--17213072 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
17212995 TTTGGTTCGC
*
17213005 TGTATTTGATTAGAGG
1 TGTATTGGATTAGAGG
17213021 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17213037 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
17213053 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
17213069 TGTA
1 TGTA
17213073 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:17213107 original size:45 final size:44
Alignment explanation
Indices: 17213053--17213147 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
17213043 GGATTAGAGG
* *
17213053 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
17213098 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
17213142 TGTAAT
1 TGTAAT
17213148 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:17213330 original size:18 final size:17
Alignment explanation
Indices: 17213309--17213343 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17213299 TTATTATTTA
*
17213309 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17213327 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17213344 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17213337 original size:28 final size:27
Alignment explanation
Indices: 17213267--17213339 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
17213257 TTTATTATCA
*
17213267 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
17213295 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
17213322 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
17213340 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:17213477 original size:18 final size:17
Alignment explanation
Indices: 17213456--17213490 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17213446 TTATTATTAA
*
17213456 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17213474 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17213491 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17213502 original size:147 final size:149
Alignment explanation
Indices: 17213228--17213502 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
17213218 ATGATTATTG
*
17213228 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
17213293 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
17213358 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
17213377 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
17213440 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
17213503 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:17213534 original size:54 final size:54
Alignment explanation
Indices: 17213476--17213654 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
17213466 ATTAAAATAT
*
17213476 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
17213530 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
17213593 TAT
53 -AC
*
17213596 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
17213650 ATAAT
1 ATAAT
17213655 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:17213597 original size:18 final size:17
Alignment explanation
Indices: 17213576--17213610 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17213566 TTATTATTAA
17213576 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
17213594 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
17213611 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:17213725 original size:18 final size:17
Alignment explanation
Indices: 17213686--17213717 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17213676 TTTTAAATAA
17213686 TTAATATTAAATATATT
1 TTAATATTAAATATATT
17213703 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
17213718 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:17213742 original size:120 final size:120
Alignment explanation
Indices: 17213439--17213731 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
17213429 ATCATATTTA
17213439 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
17213504 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* *
17213559 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
17213624 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* * *
17213680 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
17213732 TAAAATAATT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 3 0.02
120 155 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:17215545 original size:20 final size:19
Alignment explanation
Indices: 17215486--17215532 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 19
17215476 CAACTACACA
17215486 AATTCACAATGTAACCTACT
1 AATT-ACAATGTAACCTACT
17215506 AATTACAATGTAACCTACT
1 AATTACAATGTAACCTACT
17215525 AATTACAA
1 AATTACAA
17215533 CTTCGACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (19 bp):
AATTACAATGTAACCTACT
Found at i:17215591 original size:41 final size:41
Alignment explanation
Indices: 17215540--17215632 Score: 177
Period size: 41 Copynumber: 2.2 Consensus size: 41
17215530 CAACTTCGAC
17215540 CTACTACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
1 CTAC-ACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
17215582 CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
1 CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
17215623 CTACACAAAT
1 CTACACAAAT
17215633 TCACAATGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 47 0.92
42 4 0.08
ACGTcount: A:0.40, C:0.33, G:0.02, T:0.25
Consensus pattern (41 bp):
CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
Found at i:17216281 original size:14 final size:14
Alignment explanation
Indices: 17216256--17216290 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
17216246 AAGAAGAAGC
17216256 AGAAATATGGAGAAA
1 AGAAA-ATGGAGAAA
17216271 AGAAAATGGAGAAA
1 AGAAAATGGAGAAA
17216285 AGAAAA
1 AGAAAA
17216291 GAAATGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (14 bp):
AGAAAATGGAGAAA
Found at i:17216288 original size:19 final size:18
Alignment explanation
Indices: 17216266--17216310 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
17216256 AGAAATATGG
17216266 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
17216285 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
17216302 AGAAAAGAA
1 AGAAAAGAA
17216311 GCGTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:17216747 original size:29 final size:28
Alignment explanation
Indices: 17216707--17216800 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 28
17216697 TTTTGGTAAC
17216707 CCAACTAT-GATTTTATTTAAATTGGTCA
1 CCAACTATGGATTTT-TTTAAATTGGTCA
***
17216735 CCAACTATGGATTTGTTTCTTTTTTGGTCA
1 CCAACTATGGATTT-TTT-TAAATTGGTCA
* * *
17216765 CCCAACTATGAACTTTTTAAAATTGGTCA
1 -CCAACTATGGATTTTTTTAAATTGGTCA
17216794 CCAACTA
1 CCAACTA
17216801 ATTGAGATTG
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
28 15 0.28
29 14 0.26
30 12 0.23
31 12 0.23
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (28 bp):
CCAACTATGGATTTTTTTAAATTGGTCA
Found at i:17216773 original size:31 final size:30
Alignment explanation
Indices: 17216671--17216774 Score: 106
Period size: 31 Copynumber: 3.5 Consensus size: 30
17216661 TACACCGCAA
**
17216671 GTCACCCAACTATGGACCATTTTCTTTTTTG
1 GTCACCCAACTATGGA-TTTTTTCTTTTTTG
* ***
17216702 GTAACCCAACTAT-GATTTTATT-TAAATTG
1 GTCACCCAACTATGGATTTT-TTCTTTTTTG
17216731 GTCA-CCAACTATGGATTTGTTTCTTTTTTG
1 GTCACCCAACTATGGATTT-TTTCTTTTTTG
17216761 GTCACCCAACTATG
1 GTCACCCAACTATG
17216775 AACTTTTTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
28 8 0.14
29 16 0.28
30 13 0.22
31 21 0.36
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.41
Consensus pattern (30 bp):
GTCACCCAACTATGGATTTTTTCTTTTTTG
Found at i:17217088 original size:19 final size:19
Alignment explanation
Indices: 17217054--17217110 Score: 55
Period size: 20 Copynumber: 3.1 Consensus size: 19
17217044 CTAGAAATAA
*
17217054 TATATAAAAA--TAAAAAT
1 TATATAAAAATTTTAAAAT
*
17217071 TATATAAAAATTTTAAAAA
1 TATATAAAAATTTTAAAAT
* *
17217090 TATAATGATAATTTTAAAAT
1 TAT-ATAAAAATTTTAAAAT
17217110 T
1 T
17217111 TAAAATTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
17 10 0.31
19 8 0.25
20 14 0.44
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TATATAAAAATTTTAAAAT
Found at i:17217089 original size:20 final size:20
Alignment explanation
Indices: 17217064--17217108 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
17217054 TATATAAAAA
17217064 TAAAAAT-TATATAAAAATTT
1 TAAAAATATA-ATAAAAATTT
* *
17217084 TAAAAATATAATGATAATTT
1 TAAAAATATAATAAAAATTT
17217104 TAAAA
1 TAAAA
17217109 TTTAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAAAATATAATAAAAATTT
Done.