Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 60 of 444
Found at i:14393494 original size:22 final size:22
Alignment explanation
Indices: 14393466--14393514 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
14393456 CAATATTGTT
*
14393466 GTTATCATGTGATGTAATATTA
1 GTTATCATATGATGTAATATTA
*
14393488 GTTATCATATGGTGTAATATTA
1 GTTATCATATGATGTAATATTA
14393510 GTTAT
1 GTTAT
14393515 GCACTTGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (22 bp):
GTTATCATATGATGTAATATTA
Found at i:14393527 original size:22 final size:20
Alignment explanation
Indices: 14393434--14393527 Score: 55
Period size: 22 Copynumber: 4.2 Consensus size: 20
14393424 TAATGTGGTG
14393434 TAATATTAGTTATGCACTTGGA
1 TAATATTAGTTAT-CA-TTGGA
* *
14393456 CAATATTGTTGTTATCA-TGTGA
1 TAATA-T-TAGTTATCATTG-GA
*
14393478 TGTAATATTAGTTATCATATGGTG
1 --TAATATTAGTTATCAT-TGG-A
14393502 TAATATTAGTTATGCACTTGGA
1 TAATATTAGTTAT-CA-TTGGA
14393524 TAAT
1 TAAT
14393528 GTTGTTGTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 20
0.68 0.07 0.24
Matches are distributed among these distances:
21 2 0.04
22 31 0.55
23 10 0.18
24 13 0.23
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (20 bp):
TAATATTAGTTATCATTGGA
Found at i:14393574 original size:68 final size:68
Alignment explanation
Indices: 14393429--14393577 Score: 201
Period size: 68 Copynumber: 2.2 Consensus size: 68
14393419 ACTTTTAATG
* * *
14393429 TGGTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGATGTAATATTAGTTATC
1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGATGTAATACTAATTATC
14393494 ATA
66 ATA
* * * *
14393497 TGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAATTATG
1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGATGTAATACTAATTAT-
* *
14393562 TATT
65 CATA
14393566 TGG-ATAATATTA
1 TGGTATAATATTA
14393578 TTAATTTCTA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
68 67 0.93
69 5 0.07
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (68 bp):
TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGATGTAATACTAATTATC
ATA
Found at i:14394001 original size:15 final size:14
Alignment explanation
Indices: 14393970--14394028 Score: 82
Period size: 14 Copynumber: 4.1 Consensus size: 14
14393960 CAGAAAAGTG
14393970 AATCATTTTCCAGA
1 AATCATTTTCCAGA
14393984 AATCATTTTCCAAGA
1 AATCATTTTCC-AGA
* *
14393999 AATTATATTCCAGA
1 AATCATTTTCCAGA
*
14394013 AATCATTTTCCGGA
1 AATCATTTTCCAGA
14394027 AA
1 AA
14394029 ATATTTTACC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 27 0.69
15 12 0.31
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (14 bp):
AATCATTTTCCAGA
Found at i:14396548 original size:38 final size:35
Alignment explanation
Indices: 14396487--14396604 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 35
14396477 TCAATCATGC
*
14396487 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
*
14396526 ACTGGGCCGAAGCATTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
14396557 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
14396588 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
14396605 ACTGTAAACG
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
31 48 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 13 0.17
39 11 0.14
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:14396601 original size:31 final size:31
Alignment explanation
Indices: 14396510--14396604 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
14396500 CCTTTTCATA
* *
14396510 TTTCATATTTCATAATACTGGGCCGAAGCAT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
14396541 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
14396572 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
14396603 TT
1 TT
14396605 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:14396847 original size:24 final size:24
Alignment explanation
Indices: 14396796--14396962 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
14396786 GCTTTATCAT
* *
14396796 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
14396821 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
14396845 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
14396868 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
14396892 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
14396916 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
14396940 ATAACTGAGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
14396963 TCACTTCCTC
Statistics
Matches: 134, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
23 23 0.17
24 99 0.74
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:14396896 original size:71 final size:71
Alignment explanation
Indices: 14396795--14396962 Score: 248
Period size: 71 Copynumber: 2.3 Consensus size: 71
14396785 TGCTTTATCA
*
14396795 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
14396859 AGCCCTTT
64 AGCCCTTT
* * **
14396867 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
14396932 CCCTTT
66 CCCTTT
*
14396938 TGATAACTGAGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
14396963 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
71 53 0.60
72 35 0.40
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:14397038 original size:20 final size:20
Alignment explanation
Indices: 14397013--14397072 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
14397003 TATGATTACC
14397013 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
14397033 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
14397053 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
14397073 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:14398383 original size:27 final size:27
Alignment explanation
Indices: 14398321--14398385 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
14398311 GGGCATATTC
14398321 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
14398348 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
14398375 GTCTTTTTACC
1 GTCATTTTACC
14398386 TTTTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:14398469 original size:27 final size:26
Alignment explanation
Indices: 14398439--14398494 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
14398429 GTAAATCAAC
*
14398439 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTACTTCTA-TAATTTT-T
*
14398466 AAACCAATGGTACTTCTATAATTTTT
1 AAACCAAAGGTACTTCTATAATTTTT
14398492 AAA
1 AAA
14398495 AAGTCAAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (26 bp):
AAACCAAAGGTACTTCTATAATTTTT
Found at i:14398535 original size:27 final size:27
Alignment explanation
Indices: 14398447--14398614 Score: 101
Period size: 27 Copynumber: 6.1 Consensus size: 27
14398437 ACAAACCAAA
* * **
14398447 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTCTGTAATTTTGTAAATCAGG
* * *
14398474 GGTACTTCTATAATTTT-TAAAAAGTCAAG
1 GGTATTTCTGTAATTTTGT--AAA-TCAGG
*
14398503 GGTATTTCTGTAACTTTGTAAATCAGG
1 GGTATTTCTGTAATTTTGTAAATCAGG
** *
14398530 GGTATTT-TGGTAATTTTACAAAT-TGAG
1 GGTATTTCT-GTAATTTTGTAAATCAG-G
*
14398557 GGTATTTCGGTAATTTTGTAAATC-GAG
1 GGTATTTCTGTAATTTTGTAAATCAG-G
*** * *
14398584 GGTAAAACAGTAATTTTGTAAATCAAG
1 GGTATTTCTGTAATTTTGTAAATCAGG
14398611 GGTA
1 GGTA
14398615 AAACAGTAAT
Statistics
Matches: 111, Mismatches: 21, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
26 3 0.03
27 84 0.76
28 6 0.05
29 17 0.15
30 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCTGTAATTTTGTAAATCAGG
Found at i:14398615 original size:27 final size:27
Alignment explanation
Indices: 14398564--14398965 Score: 477
Period size: 27 Copynumber: 14.9 Consensus size: 27
14398554 GAGGGTATTT
*
14398564 CGGTAATTTTGTAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* * *
14398591 CAGTAATTTTGTAAATCAAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* *
14398618 CAGTAATTCTATAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
*
14398645 CGGTAATTCTGTAAATCGAGAGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
*
14398672 CGGTAATTCTGTAAGTCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* *
14398699 CGATAATTATGTAAATC-AGGGGTAAAA
1 CGGTAATTCTGTAAATCGA-GGGTAAAA
* * * *
14398726 CGATAATTATGTAAATTGTGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
*
14398753 CGGTAATTCTGTAAGTCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* * *
14398780 TGATAATTATGTAAATC-AGGGGTAAAA
1 CGGTAATTCTGTAAATCGA-GGGTAAAA
* * *
14398807 CGATAATTATGTAAAT-TAGGGGTAAAA
1 CGGTAATTCTGTAAATCGA-GGGTAAAA
* *
14398834 TGGTAATTCTATAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
** *
14398861 TAGTAATTCTGTAAATTGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
*
14398888 CGGTAATTCTATAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* **
14398915 CGGTAATTTTACAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
*
14398942 CGGTAATTCTATAAATCGAGGGTA
1 CGGTAATTCTGTAAATCGAGGGTA
14398966 CTTTGGTAAT
Statistics
Matches: 329, Mismatches: 41, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 326 0.99
28 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
CGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:14398987 original size:27 final size:27
Alignment explanation
Indices: 14398889--14399185 Score: 233
Period size: 27 Copynumber: 11.0 Consensus size: 27
14398879 AGGGTAAAAC
* * ****
14398889 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
****
14398916 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
14398943 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
14398970 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
14398997 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
14399024 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
14399051 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
14399078 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
14399105 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
14399132 AGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
14399159 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
14399186 AAACATGGAT
Statistics
Matches: 233, Mismatches: 32, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
26 3 0.01
27 226 0.97
28 4 0.02
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:14398988 original size:54 final size:53
Alignment explanation
Indices: 14398537--14398992 Score: 354
Period size: 54 Copynumber: 8.4 Consensus size: 53
14398527 AGGGGTATTT
* *** * *
14398537 TGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTGTAAATCGAGGGTAAAA
1 TGGTAATTTTAC-AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
** * *
14398591 CAGTAATTTTGTA-AATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAA-TTT-TACAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
* * * *
14398645 CGGTAATTCTGTA-AATCGAGAGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAA
1 TGGTAATT-T-TACAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
* * * * * * *
14398699 CGATAATTATGTA-AATC-AGGGGTAAAACGATAATTATGTAAATTGTGGGTAAAA
1 TGGTAATT-T-TACAATCGA-GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
* * * * * *
14398753 CGGTAATTCTGTA-AGTCGAGGGTAAAATGATAATTATGTAAATC-AGGGGTAAAA
1 TGGTAATT-T-TACAATCGAGGGTAAAACGGTAATTCTATAAATCGA-GGGTAAAA
* * * *
14398807 CGATAATTATGTA-AAT-TAGGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATT-T-TACAATCGA-GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
* *
14398861 TAGTAATTCTGTA-AATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATT-T-TACAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
* ***
14398915 CGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTACTT
1 TGGTAATTTTAC-AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
14398969 TGGTAATTTTACAAGTCGAGGGTA
1 TGGTAATTTTACAA-TCGAGGGTA
14398993 TTTCAATAAT
Statistics
Matches: 340, Mismatches: 50, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
52 2 0.01
53 7 0.02
54 323 0.95
55 6 0.02
56 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (53 bp):
TGGTAATTTTACAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
Found at i:14399003 original size:81 final size:81
Alignment explanation
Indices: 14398576--14399019 Score: 286
Period size: 81 Copynumber: 5.5 Consensus size: 81
14398566 GTAATTTTGT
* ** *
14398576 AAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGT
1 AAATCGAGGGTAAAACAATAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGT
**
14398641 AAAACGGTAATTCTGT
66 AAAACGGTAATTCTAC
* ** * ** * * *
14398657 AAATCGAGAGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAAC-GATAATTATGTAAATC-AGGG
1 AAATCGAGGGTAAAACAATAATTTTACAAATCGAGGGTAAAACAG-TAATTCTATAAATCGA-GG
* * **
14398720 GTAAAACGATAATTATGT
64 GTAAAACGGTAATTCTAC
* * ** * ** * * * *
14398738 AAATTGTGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAA-TGATAATTATGTAAATC-AGGG
1 AAATCGAGGGTAAAACAATAATTTTACAAATCGAGGGTAAAACAG-TAATTCTATAAATCGA-GG
* * **
14398801 GTAAAACGATAATTATGT
64 GTAAAACGGTAATTCTAC
* *** * * * * *
14398819 AAAT-TAGGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATTGAGGG
1 AAATCGA-GGGTAAAACAATAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGG
*
14398883 TAAAACGGTAATTCTAT
65 TAAAACGGTAATTCTAC
** *
14398900 AAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGT
1 AAATCGAGGGTAAAACAATAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGT
**** *
14398965 ACTTTGGTAATTTTAC
66 AAAACGGTAATTCTAC
* *** **
14398981 AAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTA
1 AAATCGAGGGTAAAACAATAATTTTACAAATCGAGGGTA
14399020 TTTCAGTAAT
Statistics
Matches: 311, Mismatches: 45, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
80 2 0.01
81 306 0.98
82 3 0.01
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (81 bp):
AAATCGAGGGTAAAACAATAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGT
AAAACGGTAATTCTAC
Found at i:14400803 original size:34 final size:34
Alignment explanation
Indices: 14400759--14400838 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
14400749 AAAACAGTCT
* *
14400759 GGCCTAAGCCCATACCAGTGAT-AGTATCAGAGTG
1 GGCCTTAGCCCATACCAGT-ATCAGAATCAGAGTG
*** *
14400793 GGCCTTAGCCCATTTTAGTATCAGAATCAGTGTG
1 GGCCTTAGCCCATACCAGTATCAGAATCAGAGTG
14400827 GGCCTTAGCCCA
1 GGCCTTAGCCCA
14400839 ATTCAGTAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 2 0.05
34 37 0.95
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (34 bp):
GGCCTTAGCCCATACCAGTATCAGAATCAGAGTG
Found at i:14406049 original size:20 final size:19
Alignment explanation
Indices: 14406020--14406057 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
14406010 CAAATTTATA
14406020 TTTTTAAAAAAAGTATAAT
1 TTTTTAAAAAAAGTATAAT
*
14406039 TTTTTATAAAAAATTATAA
1 TTTTTA-AAAAAAGTATAA
14406058 AGAATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
TTTTTAAAAAAAGTATAAT
Found at i:14406184 original size:89 final size:90
Alignment explanation
Indices: 14406079--14406260 Score: 339
Period size: 89 Copynumber: 2.0 Consensus size: 90
14406069 AGAAAGTTAA
14406079 ATTTTTAAAAATTTTCTAAAATAATCATTTTGGGACCTAAATTTGTTACTTAATTATTCAAGTTT
1 ATTTTTAAAAATTTTCTAAAATAATCATTTTGGGACCTAAATTTGTTACTTAATTATTCAAGTTT
*
14406144 ATCATACTAAAGTGT-TTTTTTTTT
66 ATCATACTAAAGTGTCTTTTTTATT
14406168 ATTTTTAAAAATTTTCTAAAATAATCATTTTGGGACCTAAATTTGTTACTTAATTATTCAAGTTT
1 ATTTTTAAAAATTTTCTAAAATAATCATTTTGGGACCTAAATTTGTTACTTAATTATTCAAGTTT
*
14406233 ATCATCCTAAAGTGTCTTTTTTATT
66 ATCATACTAAAGTGTCTTTTTTATT
14406258 ATT
1 ATT
14406261 ATTTTGTTTT
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
89 79 0.88
90 11 0.12
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (90 bp):
ATTTTTAAAAATTTTCTAAAATAATCATTTTGGGACCTAAATTTGTTACTTAATTATTCAAGTTT
ATCATACTAAAGTGTCTTTTTTATT
Found at i:14408376 original size:18 final size:19
Alignment explanation
Indices: 14408340--14408390 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 19
14408330 TAAAATATAA
14408340 ATTTTAGAATTTTTATAAATATT
1 ATTTT-GAA-TTTTA-AAA-ATT
*
14408363 -TTTTTAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
14408381 ATTTTGAATT
1 ATTTTGAATT
14408391 ATTTTGTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 3 0.12
19 11 0.44
20 5 0.20
21 2 0.08
22 4 0.16
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:14408497 original size:18 final size:18
Alignment explanation
Indices: 14408474--14408511 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14408464 CATCAATCTG
14408474 TTATTC-AGACTATTCGAA
1 TTATTCGAG-CTATTCGAA
*
14408492 TTATTCGAGTTATTCGAA
1 TTATTCGAGCTATTCGAA
14408510 TT
1 TT
14408512 GTAAAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (18 bp):
TTATTCGAGCTATTCGAA
Found at i:14409470 original size:32 final size:32
Alignment explanation
Indices: 14409434--14409530 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
14409424 TGTATGCATT
14409434 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
*
14409466 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
14409498 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
14409530 T
1 T
14409531 GATAAGCATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:14411062 original size:26 final size:26
Alignment explanation
Indices: 14411010--14411062 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
14411000 TCTACAGTTT
*
14411010 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
14411036 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
14411062 T
1 T
14411063 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:14415574 original size:14 final size:14
Alignment explanation
Indices: 14415557--14415588 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14415547 ATTTATTTTT
*
14415557 ATATAAAATAATTA
1 ATATAAAAAAATTA
14415571 ATATAAAAAAATTA
1 ATATAAAAAAATTA
14415585 ATAT
1 ATAT
14415589 GGGCCGTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATATAAAAAAATTA
Found at i:14416389 original size:17 final size:17
Alignment explanation
Indices: 14416369--14416412 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
14416359 AGTAATTTAA
14416369 TTTTTTCTTTTATATTT
1 TTTTTTCTTTTATATTT
** * *
14416386 TTTTAACTTTTCTTTTT
1 TTTTTTCTTTTATATTT
14416403 TTTTTTCTTT
1 TTTTTTCTTT
14416413 AGTTTACATT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTCTTTTATATTT
Found at i:14417576 original size:72 final size:71
Alignment explanation
Indices: 14417483--14417619 Score: 211
Period size: 72 Copynumber: 1.9 Consensus size: 71
14417473 TTGGGTCTTT
*
14417483 TCCCTTTGAATGTAATATGATGTATAAATAATTATGAATCTGTTTATGTGCAGATTCAAGTCTCT
1 TCCCTTTGAATGTAATATGATGTATAAATAATTATGAATCTGTTTATGTGCAGATTCAAATCTCT
14417548 TGTTCG
66 TGTTCG
* * * **
14417554 TCCCTTTTGAATGTGATGTGATGTATAAGTAATTATGAATCTGTTTATGTGTTGATTCAAATCTC
1 TCCC-TTTGAATGTAATATGATGTATAAATAATTATGAATCTGTTTATGTGCAGATTCAAATCTC
14417619 T
65 T
14417620 AATGTCTAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
71 4 0.07
72 55 0.93
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.44
Consensus pattern (71 bp):
TCCCTTTGAATGTAATATGATGTATAAATAATTATGAATCTGTTTATGTGCAGATTCAAATCTCT
TGTTCG
Found at i:14418907 original size:18 final size:18
Alignment explanation
Indices: 14418876--14418913 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14418866 AGCATGCATA
*
14418876 TAATAGTATCAATATTAG
1 TAATAGTATCAATAATAG
14418894 TAATAAGTAT-AATAATAG
1 TAAT-AGTATCAATAATAG
14418912 TA
1 TA
14418914 TTGAAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.37
Consensus pattern (18 bp):
TAATAGTATCAATAATAG
Found at i:14420795 original size:13 final size:13
Alignment explanation
Indices: 14420777--14420801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14420767 TTTGAAACAT
14420777 AGAAATTAAAAGC
1 AGAAATTAAAAGC
14420790 AGAAATTAAAAG
1 AGAAATTAAAAG
14420802 GCTCAACTCA
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:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:14420875 original size:68 final size:68
Alignment explanation
Indices: 14420792--14421167 Score: 630
Period size: 68 Copynumber: 5.5 Consensus size: 68
14420782 TTAAAAGCAG
14420792 AAATTAAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAA
1 AAATT-AAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAA
14420857 ACGA
65 ACGA
14420861 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
14420926 CGA
66 CGA
* * * * *
14420929 AAATTAAAGGTTCAACTCACCTCTCGCAATATGAGTTGAT-CTTTGAAAAGTAGATTTTGAAAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
14420993 CGA
66 CGA
14420996 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
14421061 CGA
66 CGA
* * * *
14421064 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-CTTTGAAAAGTAGATTTTGAAAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
14421128 CGA
66 CGA
* *
14421131 AAATTGAAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTT
14421168 GATCTTTGAA
Statistics
Matches: 291, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
67 123 0.42
68 163 0.56
69 5 0.02
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (68 bp):
AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
CGA
Found at i:14420988 original size:135 final size:135
Alignment explanation
Indices: 14420792--14421167 Score: 671
Period size: 135 Copynumber: 2.8 Consensus size: 135
14420782 TTAAAAGCAG
* * * *
14420792 AAATTAAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAA
1 AAATT-AAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-CTTTGAAAAGTAGATTTTGAAAA
14420857 ACGAAAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGA
64 ACGAAAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGA
14420922 GAAACGA
129 GAAACGA
*
14420929 AAATTAAAGGTTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTAGATTTTGAAAAAC
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTAGATTTTGAAAAAC
14420994 GAAAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGA
66 GAAAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGA
14421059 AACGA
131 AACGA
14421064 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTAGATTTTGAAAAAC
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTAGATTTTGAAAAAC
* *
14421129 GAAAATTGAAGGCTCAACTCACCTCTCGCAATATGAGTT
66 GAAAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTT
14421168 GATCTTTGAA
Statistics
Matches: 231, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
135 194 0.84
136 32 0.14
137 5 0.02
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (135 bp):
AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTAGATTTTGAAAAAC
GAAAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGA
AACGA
Found at i:14421011 original size:67 final size:67
Alignment explanation
Indices: 14420731--14421179 Score: 618
Period size: 68 Copynumber: 6.7 Consensus size: 67
14420721 GCAGGTGAAC
* * * * ** *
14420731 AAAGGCTCAACACA-TTCCTCGCAATATGGGTTGATTTTTGAAACA-TAGAAATT-AAAAGC-AG
1 AAAGGCTCAACTCACCT-CTCGCAATATGAGTTGATATTTGAAA-AGTAGATTTTGAAAAACGA-
14420792 AAATT
63 AAATT
* * *
14420797 AAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAACGAA
1 -AAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-ATTTGAAAAGTAGATTTTGAAAAACGAA
14420862 AATT
64 AATT
* * *
14420866 AAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAACGAAA
1 AAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-ATTTGAAAAGTAGATTTTGAAAAACGAAA
14420931 ATT
65 ATT
* *
14420934 AAAGGTTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTAGATTTTGAAAAACGAAAA
1 AAAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTGAAAAGTAGATTTTGAAAAACGAAAA
14420999 TT
66 TT
* * *
14421001 AAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAACGAAA
1 AAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-ATTTGAAAAGTAGATTTTGAAAAACGAAA
14421066 ATT
65 ATT
*
14421069 AAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTAGATTTTGAAAAACGAAAA
1 AAAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTGAAAAGTAGATTTTGAAAAACGAAAA
14421134 TT
66 TT
* *
14421136 GAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAA
1 AAAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTGAAAA
14421180 ATTAAAAAAA
Statistics
Matches: 351, Mismatches: 25, Indels: 12
0.90 0.06 0.03
Matches are distributed among these distances:
67 164 0.47
68 177 0.50
69 9 0.03
70 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (67 bp):
AAAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTGAAAAGTAGATTTTGAAAAACGAAAA
TT
Found at i:14421370 original size:74 final size:71
Alignment explanation
Indices: 14421219--14421468 Score: 247
Period size: 71 Copynumber: 3.5 Consensus size: 71
14421209 ATTAAAAAGA
* * * *
14421219 CTCAACTCACCTT-TCGCAATATGAATTAACTTTT-GAAA-ATATAATTTGAAAATACCTTAGCG
1 CTCAACTCA-CTTCTCGCAATATGAGTTGA-TTTTAGAAACATA-AA-TTGAAATTACCTCAGCG
* *
14421281 TGCCGCAAGG
62 TGCCCCGAGG
*
14421291 CTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTA-ATAGGAATTGAAATTACCTCAGCG
1 CTCAACTCACTTCTCGCAATATGAGTTGATTTTAGA--AACATA--AATTGAAATTACCTCAGCG
14421355 TGCCCCGAGG
62 TGCCCCGAGG
* * * * *
14421365 TTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTC
1 CTCAACTCACTTCTCGCAATATGAGTTGATTTTAGAAACATAAATTGAAATTACCTCAGCGTGCC
** *
14421430 TTGGGG
66 CCGAGG
* *
14421436 CTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 CTCAACTCACTTCTCGCAATATGAGTTGATTTT
14421469 CTTGGAAAAC
Statistics
Matches: 151, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
71 60 0.40
72 26 0.17
73 3 0.02
74 60 0.40
75 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (71 bp):
CTCAACTCACTTCTCGCAATATGAGTTGATTTTAGAAACATAAATTGAAATTACCTCAGCGTGCC
CCGAGG
Found at i:14421601 original size:161 final size:161
Alignment explanation
Indices: 14421336--14421882 Score: 1004
Period size: 161 Copynumber: 3.4 Consensus size: 161
14421326 ATTTAATAGG
* * * *
14421336 AATTGAAATTACCTCAGCGTGCCCCGAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
* * * *
14421401 AACATAAATTGAAATTACCTCAACGTGTCTTGGGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 GACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGAAATATGAGCTGAT
*
14421466 TTTCTTGGAAAACATGAATTTAAGAAGCAGA
131 TTTCTTGGAAAACATGAATTTAAAAAGCAGA
*
14421497 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
14421562 GACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGAAATATGAGCTGAT
66 GACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGAAATATGAGCTGAT
14421627 TTTCTTGGAAAACATGAATTTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTTAAAAAGCAGA
14421658 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
14421723 GACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGAAATATGAGCTGAT
66 GACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGAAATATGAGCTGAT
14421788 TTTCTTGGAAAACATGAATTTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTTAAAAAGCAGA
14421819 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
14421883 GAAAAAACAA
Statistics
Matches: 375, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
161 375 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (161 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
GACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGAAATATGAGCTGAT
TTTCTTGGAAAACATGAATTTAAAAAGCAGA
Found at i:14421612 original size:71 final size:71
Alignment explanation
Indices: 14421496--14421629 Score: 205
Period size: 71 Copynumber: 1.9 Consensus size: 71
14421486 TAAGAAGCAG
* * * *
14421496 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTTCTCGAAATATGAGCTGATTTTTG
14421561 AGACAT
66 AGACAT
* * *
14421567 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGAAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTTCTCGAAATATGAGCTGATTTT
14421630 CTTGGAAAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 56 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTTCTCGAAATATGAGCTGATTTTTG
AGACAT
Found at i:14421773 original size:71 final size:71
Alignment explanation
Indices: 14421657--14421790 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
14421647 TAAAAAGCAG
* * *
14421657 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTTCTCGAAATATGAGCTGATTTTTG
14421722 AGACAT
66 AGACAT
* * *
14421728 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGAAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTTCTCGAAATATGAGCTGATTTT
14421791 CTTGGAAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTTCTCGAAATATGAGCTGATTTTTG
AGACAT
Found at i:14434704 original size:21 final size:22
Alignment explanation
Indices: 14434667--14434710 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
14434657 GCATGGTATG
14434667 AAAGACAAAATTTTTTGGTACA
1 AAAGACAAAATTTTTTGGTACA
14434689 AAAGACAAAA-TTTTTGGTACA
1 AAAGACAAAATTTTTTGGTACA
14434710 A
1 A
14434711 TGGAAAGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.30
Consensus pattern (22 bp):
AAAGACAAAATTTTTTGGTACA
Found at i:14443114 original size:30 final size:31
Alignment explanation
Indices: 14443065--14443133 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
14443055 AGTTTCATTT
* * *
14443065 CAGTCACTAAACTTTTG-AAAAGTTACAAAG
1 CAGTCACTAAACTTATGAAAAAGTGACAAAA
14443095 CAGTCACT-AACGTTATGAAAAAGTGACAAAA
1 CAGTCACTAAAC-TTATGAAAAAGTGACAAAA
*
14443126 TAGTCACT
1 CAGTCACT
14443134 GCTTAACAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.09
30 12 0.36
31 18 0.55
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.25
Consensus pattern (31 bp):
CAGTCACTAAACTTATGAAAAAGTGACAAAA
Found at i:14444604 original size:21 final size:23
Alignment explanation
Indices: 14444580--14444622 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14444570 TATGAAGAAT
14444580 AATAA-TTTATA-TATACAATAA
1 AATAATTTTATAGTATACAATAA
*
14444601 AATAATTTTATAGTATATAATA
1 AATAATTTTATAGTATACAATA
14444623 TAAACAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 8 0.42
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AATAATTTTATAGTATACAATAA
Found at i:14444660 original size:19 final size:19
Alignment explanation
Indices: 14444638--14444687 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
14444628 AATAAGGATA
14444638 AAAATAAATATCA-ATATAT
1 AAAATAAATAT-ATATATAT
* *
14444657 AAAAAAAATATATGTATAT
1 AAAATAAATATATATATAT
*
14444676 AGAATAAATATA
1 AAAATAAATATA
14444688 GGACTAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 1 0.04
19 25 0.96
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (19 bp):
AAAATAAATATATATATAT
Found at i:14446260 original size:83 final size:83
Alignment explanation
Indices: 14446120--14446446 Score: 460
Period size: 83 Copynumber: 3.9 Consensus size: 83
14446110 CGATTTGTGG
* * * * * * * *
14446120 GGATGCCAAATCAACTTGAGTCTATTTTGAGAATATCT-ACGAGTCAAATCAGCTACGTCTTCGA
1 GGATGCCAAACCATCTTGAGTCT-GTTTGAGAACATTTGA-GAGTCATATCTGCTACGTCCTCGA
14446184 TTTGTTCCTTGTAAGCACAA
64 TTTGTTCCTTGTAAGCACAA
*
14446204 GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATTTGCTACGTCCTCGATT
1 GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCGATT
14446269 TGTTCCTTGTAAGCACAA
66 TGTTCCTTGTAAGCACAA
*
14446287 GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATT
1 GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCGATT
14446352 TGTTCCTTGTAAGCACAA
66 TGTTCCTTGTAAGCACAA
* ** * * *
14446370 AGATGCCAAACCATCTTTGA-TCTACTTGAGAACATTTGAAAGTCATATCTGCAATGTCCTCGAT
1 GGATGCCAAACCATC-TTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCGAT
*
14446434 TTGTTTCTTGTAA
65 TTGTTCCTTGTAA
14446447 ACAAAAATAC
Statistics
Matches: 224, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
83 198 0.88
84 26 0.12
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (83 bp):
GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCGATT
TGTTCCTTGTAAGCACAA
Found at i:14446622 original size:119 final size:119
Alignment explanation
Indices: 14446396--14446868 Score: 711
Period size: 119 Copynumber: 4.0 Consensus size: 119
14446386 TTGATCTACT
* * * * *
14446396 TGAGAACATTTGAAAGTCATATCTGCAATGTCCTCGATTTGTTTCTTGTAAACA-AA-AATACCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * *
14446459 AATCATCTTGGATCTACTTCAGTATAAACATCTGAAGAT-TAGATCCGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACGTCTGAAG-TCTAGATCTGCTATATC
*
14446513 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCAATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* *
14446578 AATCATCTTGGATCTGCTTCAGTATAAATGTCTAAAGTCTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACGTCTGAAGTCTAGATCTGCTATATC
* * *
14446632 CGAGAACATCTGAGAGTTAAATCTACTATGTCCTCGATTTGTTTCCTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
*
14446697 AATCATCTTGGATCTGCTTCAGTATAAATGTCTGAAGTCTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACGTCTGAAGTCTAGATCTGCTATATC
* * * * *
14446751 TAAGAACATCTGAGAGTTC-AATATGCTATGTTCTCGATTTGTTTTTTGTAAACACAAGAATACC
1 TGAGAACATCTGAGAG-TCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACC
*
14446815 AAATCATCTTGGATCTGCTTCAATATAAACGTCTGAAGTCTAGATCTGCTATAT
65 AAATCATCTTGGATCTGCTTCAGTATAAACGTCTGAAGTCTAGATCTGCTATAT
14446869 TGCGGCCTAT
Statistics
Matches: 326, Mismatches: 26, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
117 48 0.15
118 3 0.01
119 274 0.84
120 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (119 bp):
TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTGCTTCAGTATAAACGTCTGAAGTCTAGATCTGCTATATC
Found at i:14458831 original size:21 final size:23
Alignment explanation
Indices: 14458807--14458849 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14458797 TATGAAGAAT
14458807 AATAA-TTTATA-TATACAATAA
1 AATAATTTTATAGTATACAATAA
*
14458828 AATAATTTTATAGTATATAATA
1 AATAATTTTATAGTATACAATA
14458850 TAAACAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 8 0.42
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AATAATTTTATAGTATACAATAA
Found at i:14460532 original size:6 final size:6
Alignment explanation
Indices: 14460523--14460572 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
14460513 CAATTTCAAA
* * *
14460523 TTTGAT TTTGAA TCTGAT TTTGAT TTCGAT TTCT-AT TTTGAT TTTGAT
1 TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TT-TGAT TTTGAT TTTGAT
14460571 TT
1 TT
14460573 CAATTTTGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 1 0.03
6 35 0.97
ACGTcount: A:0.18, C:0.06, G:0.14, T:0.62
Consensus pattern (6 bp):
TTTGAT
Found at i:14460544 original size:18 final size:18
Alignment explanation
Indices: 14460523--14460581 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
14460513 CAATTTCAAA
14460523 TTTGATTTTGA-ATCTGAT
1 TTTGATTTTGATATCT-AT
* *
14460541 TTTGATTTCGATTTCTAT
1 TTTGATTTTGATATCTAT
* *
14460559 TTTGATTTTGATTTCAAT
1 TTTGATTTTGATATCTAT
14460577 TTTGA
1 TTTGA
14460582 AACACTCACT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
18 33 0.92
19 3 0.08
ACGTcount: A:0.20, C:0.07, G:0.14, T:0.59
Consensus pattern (18 bp):
TTTGATTTTGATATCTAT
Found at i:14460553 original size:12 final size:12
Alignment explanation
Indices: 14460538--14460581 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
14460528 TTTTGAATCT
14460538 GATTTTGATTTC
1 GATTTTGATTTC
*
14460550 GATTTCT-ATTTT
1 GATTT-TGATTTC
14460562 GATTTTGATTTC
1 GATTTTGATTTC
*
14460574 AATTTTGA
1 GATTTTGA
14460582 AACACTCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 25 0.93
13 1 0.04
ACGTcount: A:0.20, C:0.07, G:0.14, T:0.59
Consensus pattern (12 bp):
GATTTTGATTTC
Found at i:14462570 original size:31 final size:29
Alignment explanation
Indices: 14462501--14462574 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
14462491 ACAAAATAAT
**
14462501 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGGCA
*
14462530 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAACGTAACAT--GGCA
*
14462561 AACAAAAGTGACTA
1 AACATAAGTGACTA
14462575 TTTTTGTAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGCA
Found at i:14464911 original size:36 final size:38
Alignment explanation
Indices: 14464831--14464914 Score: 109
Period size: 38 Copynumber: 2.3 Consensus size: 38
14464821 GTTAGCCATG
* * ** *
14464831 TATACCAGTAGCCATGTATAGCATATGTTAAGTAACAA
1 TATACCAGCAGCCATGTATACCATATCATAAGCAACAA
14464869 TATACCAGCAGCCATGTATACCA-A-CATAAGCAACAA
1 TATACCAGCAGCCATGTATACCATATCATAAGCAACAA
14464905 TATACCAGCA
1 TATACCAGCA
14464915 ACAATATTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
36 19 0.46
37 1 0.02
38 21 0.51
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.23
Consensus pattern (38 bp):
TATACCAGCAGCCATGTATACCATATCATAAGCAACAA
Found at i:14464931 original size:36 final size:36
Alignment explanation
Indices: 14464859--14464935 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
14464849 TAGCATATGT
* * * * *
14464859 TAAGTAACAATATACCAGCAGCCATGTATACCAACA
1 TAAGCAACAATATACCAGCAACAATATATACAAACA
14464895 TAAGCAACAATATACCAGCAACAATAT-TACAAAACA
1 TAAGCAACAATATACCAGCAACAATATATAC-AAACA
14464931 TAAGC
1 TAAGC
14464936 TGGTTTCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 3 0.09
36 32 0.91
ACGTcount: A:0.49, C:0.23, G:0.09, T:0.18
Consensus pattern (36 bp):
TAAGCAACAATATACCAGCAACAATATATACAAACA
Found at i:14466808 original size:42 final size:42
Alignment explanation
Indices: 14466698--14466825 Score: 136
Period size: 44 Copynumber: 3.0 Consensus size: 42
14466688 GGTATTGATC
* * * *
14466698 TGAATTATCGTGTAAGACCGTGTTTGGGACACAGGCCTCGATT
1 TGAATT-TCGTATAAGACCTTGTCTGGGACACAGGCATCGATT
14466741 TGAAATTTACGTATAAGA-CTATGTCTGGGACATCA-GCATCGTATT
1 TG-AATTT-CGTATAAGACCT-TGTCTGGGACA-CAGGCATCG-ATT
*
14466786 TG-ATTTCGTATAAGACCTTGTCTGGGACAGAGGCATCGAT
1 TGAATTTCGTATAAGACCTTGTCTGGGACACAGGCATCGAT
14466826 ACTGAATTAC
Statistics
Matches: 73, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
41 3 0.04
42 26 0.36
43 10 0.14
44 27 0.37
45 7 0.10
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
TGAATTTCGTATAAGACCTTGTCTGGGACACAGGCATCGATT
Found at i:14468268 original size:16 final size:16
Alignment explanation
Indices: 14468247--14468277 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14468237 TACATTCTTA
14468247 ATATTATTAAATAATG
1 ATATTATTAAATAATG
*
14468263 ATATTATTATATAAT
1 ATATTATTAAATAAT
14468278 TATTATTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATTATTAAATAATG
Found at i:14473270 original size:15 final size:15
Alignment explanation
Indices: 14473247--14473280 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14473237 CAAGACTCAA
*
14473247 AAAAAGAACAAAAGT
1 AAAAAGAACAAAAGC
*
14473262 AAAAGGAACAAAAGC
1 AAAAAGAACAAAAGC
14473277 AAAA
1 AAAA
14473281 TAAAAGAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.74, C:0.09, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAAAGAACAAAAGC
Found at i:14474100 original size:16 final size:16
Alignment explanation
Indices: 14474079--14474109 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14474069 TAAATATTTA
14474079 ATATTATTAAATAATG
1 ATATTATTAAATAATG
*
14474095 ATATTATTATATAAT
1 ATATTATTAAATAAT
14474110 TATTATTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATTATTAAATAATG
Found at i:14475338 original size:6 final size:6
Alignment explanation
Indices: 14475327--14475351 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14475317 CCATTATACA
14475327 TAATGC TAATGC TAATGC TAATGC T
1 TAATGC TAATGC TAATGC TAATGC T
14475352 TGCTCTGCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (6 bp):
TAATGC
Found at i:14476358 original size:22 final size:22
Alignment explanation
Indices: 14476309--14476351 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14476299 AACAGTCCAT
*
14476309 TAAC-AAAACTACAAGCCCAAA
1 TAACAAAAAATACAAGCCCAAA
14476330 TAACAAAAAATACAAGCCCAAA
1 TAACAAAAAATACAAGCCCAAA
14476352 ATGCAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.60, C:0.26, G:0.05, T:0.09
Consensus pattern (22 bp):
TAACAAAAAATACAAGCCCAAA
Found at i:14476737 original size:18 final size:18
Alignment explanation
Indices: 14476714--14476760 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
14476704 TATTTTCGAA
*
14476714 GTAAATAAATAATAGTAG
1 GTAAATAAAAAATAGTAG
14476732 GTAAATAAAAAATAGTAG
1 GTAAATAAAAAATAGTAG
14476750 GTAAATAAAAA
1 GTAAATAAAAA
14476761 GAAACAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (18 bp):
GTAAATAAAAAATAGTAG
Found at i:14477648 original size:4 final size:4
Alignment explanation
Indices: 14477639--14477668 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
14477629 TTATAAATTG
*
14477639 TTTA TTTA TTTA TTCA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
14477669 ACTTCCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:14488978 original size:43 final size:43
Alignment explanation
Indices: 14488930--14489023 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
14488920 ATTCTAGAAA
14488930 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
14488973 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
14489016 TATTTTCT
1 TATTTTCT
14489024 CAATTAGGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 47 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:14493697 original size:43 final size:43
Alignment explanation
Indices: 14493649--14493741 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
14493639 ATTCTAGAAA
14493649 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
14493692 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
14493735 TATTTTC
1 TATTTTC
14493742 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:14500543 original size:23 final size:25
Alignment explanation
Indices: 14500498--14500553 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
14500488 TTTTCTTATA
*
14500498 ATTTTTTTAAGTTTATATCAATTTT
1 ATTTTTTAAAGTTTATATCAATTTT
*
14500523 ATTTTTTAAATTTTA-AT-AATTTT
1 ATTTTTTAAAGTTTATATCAATTTT
14500546 ATATTTTT
1 AT-TTTTT
14500554 TTATGGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 8 0.29
24 7 0.25
25 13 0.46
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (25 bp):
ATTTTTTAAAGTTTATATCAATTTT
Found at i:14501264 original size:10 final size:10
Alignment explanation
Indices: 14501249--14501304 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
14501239 TTATTATATC
14501249 TTTTATAAAT
1 TTTTATAAAT
*
14501259 TTTTATAAGT
1 TTTTATAAAT
*
14501269 TTATATAAAT
1 TTTTATAAAT
* *
14501279 TTTAAT-ATT
1 TTTTATAAAT
*
14501288 TTTTAAAATAT
1 TTTTATAA-AT
14501299 TTTTAT
1 TTTTAT
14501305 TTTTAATAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
9 6 0.18
10 22 0.65
11 6 0.18
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:14501264 original size:19 final size:19
Alignment explanation
Indices: 14501242--14501304 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
14501232 TCAGATTTTA
14501242 TTATATCTTTTATAAATTT
1 TTATATCTTTTATAAATTT
**
14501261 TTATAAGTTTATATAAATTT
1 TTATATCTTT-TATAAATTT
* * *
14501281 TAATATTTTTTAAAATATTT
1 TTATATCTTTTATAA-ATTT
14501301 TTAT
1 TTAT
14501305 TTTTAATAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
19 12 0.34
20 23 0.66
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATATCTTTTATAAATTT
Found at i:14501324 original size:18 final size:17
Alignment explanation
Indices: 14501249--14501327 Score: 61
Period size: 18 Copynumber: 4.4 Consensus size: 17
14501239 TTATTATATC
*
14501249 TTTTATAAATTTTTATAA
1 TTTT-TAAAATTTTATAA
* *
14501267 GTTTATATAAATTTTAATAT
1 -TTTTTA-AAATTTT-ATAA
*
14501287 TTTTTAAAATATTT-TTA
1 TTTTTAAAAT-TTTATAA
14501304 TTTTTAATAATTTTATAA
1 TTTTTAA-AATTTTATAA
14501322 TTTTTA
1 TTTTTA
14501328 TGGGAAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
17 11 0.23
18 17 0.35
19 17 0.35
20 3 0.06
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (17 bp):
TTTTTAAAATTTTATAA
Found at i:14504347 original size:26 final size:26
Alignment explanation
Indices: 14504311--14504394 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
14504301 CATGAAATTC
14504311 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
14504337 TTATCATGAAACATTTACCTAACTCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14504363 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
14504389 TTATCA
1 TTATCA
14504395 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14504878 original size:27 final size:28
Alignment explanation
Indices: 14504843--14504898 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
14504833 GGTAAAATTA
14504843 TAATTTAA-TTTTAAAAATAATAAAAAT
1 TAATTTAATTTTTAAAAATAATAAAAAT
*
14504870 TAATTTAATTTTTTAAAAATTATAAAAAT
1 TAATTTAA-TTTTTAAAAATAATAAAAAT
14504899 ATAAACTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 8 0.31
29 18 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
TAATTTAATTTTTAAAAATAATAAAAAT
Found at i:14506858 original size:18 final size:18
Alignment explanation
Indices: 14506831--14506873 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
14506821 CGCATAAAAA
* *
14506831 GAAAGCAAATAAATAAAC
1 GAAAGAAAATAAACAAAC
*
14506849 GAAAGAAAATAAACAAAT
1 GAAAGAAAATAAACAAAC
14506867 GAAAGAA
1 GAAAGAA
14506874 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:14507706 original size:2 final size:2
Alignment explanation
Indices: 14507701--14507740 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
14507691 ATATATTGTG
14507701 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
14507741 CATAGAAATC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14507706 original size:10 final size:10
Alignment explanation
Indices: 14507676--14507706 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
14507666 ATCACAAGTC
14507676 TTGTGATATA
1 TTGTGATATA
*
14507686 GTGTGATATA
1 TTGTGATATA
14507696 TTGTGATATA
1 TTGTGATATA
14507706 T
1 T
14507707 ATATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (10 bp):
TTGTGATATA
Found at i:14510493 original size:32 final size:32
Alignment explanation
Indices: 14510438--14510515 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 32
14510428 ATGTTGATGA
* *
14510438 TATTTTA-TAAT-TATTAATTAGATA-AATAT
1 TATTTTATTAATATTTTAATAAGATATAATAT
**
14510467 TATTTTTATTAATATTTTAATAAGATATTTTAT
1 TA-TTTTATTAATATTTTAATAAGATATAATAT
*
14510500 TATTTTATTATTATTT
1 TATTTTATTAATATTT
14510516 ATTAAGTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 2 0.05
30 5 0.12
31 4 0.10
32 24 0.60
33 5 0.12
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (32 bp):
TATTTTATTAATATTTTAATAAGATATAATAT
Found at i:14515071 original size:3 final size:3
Alignment explanation
Indices: 14515063--14515204 Score: 100
Period size: 3 Copynumber: 48.0 Consensus size: 3
14515053 TAGTGCCATT
* * * * * * *
14515063 ATA ATA ATA AAA ATA AAA ATA ATA AAA ATA ACA AT- ATG TTA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
14515110 A-A A-A ATAA ATA ATG GTA ATAA ATA TATA TATA A-A ATA ATA GTA A-A
1 ATA ATA AT-A ATA ATA ATA AT-A ATA -ATA -ATA ATA ATA ATA ATA ATA
14515155 AGTA ATA A-A AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14515199 ATA ATA
1 ATA ATA
14515205 CTCTCCCCTC
Statistics
Matches: 111, Mismatches: 18, Indels: 20
0.74 0.12 0.13
Matches are distributed among these distances:
2 14 0.13
3 82 0.74
4 15 0.14
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:14515581 original size:17 final size:16
Alignment explanation
Indices: 14515559--14515644 Score: 58
Period size: 17 Copynumber: 5.6 Consensus size: 16
14515549 CATGGTGGCA
14515559 AGTAGGGTAATGGAGTT
1 AGTAGGGT-ATGGAGTT
*
14515576 AGTAGGGTA--G-CTT
1 AGTAGGGTATGGAGTT
14515589 AGTAGGGTGATGGAGTT
1 AGTAGGGT-ATGGAGTT
* *
14515606 AGT-GGG-GTGG-CTT
1 AGTAGGGTATGGAGTT
*
14515619 AGTGGGGTGATGGAGTT
1 AGTAGGGT-ATGGAGTT
*
14515636 AGTGGGGTA
1 AGTAGGGTA
14515645 GTTTAGGAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
13 15 0.27
14 8 0.15
16 9 0.16
17 23 0.42
ACGTcount: A:0.21, C:0.02, G:0.48, T:0.29
Consensus pattern (16 bp):
AGTAGGGTATGGAGTT
Found at i:14515595 original size:30 final size:30
Alignment explanation
Indices: 14515559--14515650 Score: 139
Period size: 30 Copynumber: 3.1 Consensus size: 30
14515549 CATGGTGGCA
* *
14515559 AGTAGGGTAATGGAGTTAGTAGGGTAGCTT
1 AGTAGGGTGATGGAGTTAGTGGGGTAGCTT
*
14515589 AGTAGGGTGATGGAGTTAGTGGGGTGGCTT
1 AGTAGGGTGATGGAGTTAGTGGGGTAGCTT
* *
14515619 AGTGGGGTGATGGAGTTAGTGGGGTAGTTT
1 AGTAGGGTGATGGAGTTAGTGGGGTAGCTT
14515649 AG
1 AG
14515651 GAGTTAGTGG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.21, C:0.02, G:0.47, T:0.30
Consensus pattern (30 bp):
AGTAGGGTGATGGAGTTAGTGGGGTAGCTT
Found at i:14515668 original size:19 final size:19
Alignment explanation
Indices: 14515630--14515669 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
14515620 GTGGGGTGAT
14515630 GGAGTTAGTGGGGTAGTTTA
1 GGAGTTAGT-GGGTAGTTTA
14515650 GGAGTTAGT-GGTCAGTTTA
1 GGAGTTAGTGGGT-AGTTTA
14515669 G
1 G
14515670 TGGGTGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 7 0.37
20 9 0.47
ACGTcount: A:0.20, C:0.03, G:0.42, T:0.35
Consensus pattern (19 bp):
GGAGTTAGTGGGTAGTTTA
Found at i:14516002 original size:44 final size:45
Alignment explanation
Indices: 14515915--14516004 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
14515905 GATCTGCTTT
* ** *
14515915 ACTCCTGCTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCC
1 ACTCCTGCTCAGTAAAGATAAGAGCTGGTATGTGGAACCTGCTCC
*
14515960 ACTCCTGCTCAGTGAAGATAAG-GCTGGTGAT-TGGAACCTGCTCC
1 ACTCCTGCTCAGTAAAGATAAGAGCTGGT-ATGTGGAACCTGCTCC
14516004 A
1 A
14516005 TTGCCGATAC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
44 16 0.41
45 23 0.59
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (45 bp):
ACTCCTGCTCAGTAAAGATAAGAGCTGGTATGTGGAACCTGCTCC
Found at i:14516136 original size:133 final size:132
Alignment explanation
Indices: 14515900--14516421 Score: 776
Period size: 133 Copynumber: 3.9 Consensus size: 132
14515890 GATCTGCTGT
** ** * *
14515900 AATTTGATCTGCTTTACTCCTGCTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTA--TATAGCCTGCTCCACTCC
** * *
14515965 TGCTCAGTGAAGATAAGGCTGGTGATTGGAACCTGCTCCATTGCCGATACATGGAGATAAGATTC
64 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
14516030 ATCAA
129 A-CAA
* *
14516035 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATATAGCTTGCTCCACTCCTG
1 AATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATATAGCCTGCTCCACTCCTG
*
14516100 CTCAGTGAAGATAAGGCTGGTGGCTGAAATTTGCTCCATTGCCGATACATGGAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCA-
14516165 CAA
130 CAA
* * * *
14516168 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTATCCTGCTCCACTCTTG
1 AATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATATAGCCTGCTCCACTCCTG
14516233 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTGC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TT-C
14516298 -CAA
129 ACAA
* * * *
14516301 AATTTGATCTGCTTCACTCTTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCTACTCCTG
1 AATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATATAGCCTGCTCCACTCCTG
* *
14516366 CTCAGTGAAGATAAGGCTGGTGGTTGAAATTTGCTCCATTGCCGATACATGGAGAT
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGAT
14516422 GAGACTCGCT
Statistics
Matches: 356, Mismatches: 29, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
133 314 0.88
134 2 0.01
135 40 0.11
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (132 bp):
AATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATATAGCCTGCTCCACTCCTG
CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
AA
Found at i:14516461 original size:45 final size:45
Alignment explanation
Indices: 14516397--14516490 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
14516387 GGTTGAAATT
* * **
14516397 TGCTCCATTGCCGATACATGGAGATGAGACTCGCTATCTTCGATC
1 TGCTCCATTGCCAATACATGGAGATAAGACTCGAAATCTTCGATC
* *
14516442 TGCTCCATTGCCAATACATGGAGATAAGATTCGAAATCTTCGGTC
1 TGCTCCATTGCCAATACATGGAGATAAGACTCGAAATCTTCGATC
14516487 TGCT
1 TGCT
14516491 TCCTGCAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (45 bp):
TGCTCCATTGCCAATACATGGAGATAAGACTCGAAATCTTCGATC
Found at i:14516576 original size:43 final size:44
Alignment explanation
Indices: 14516485--14516577 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 44
14516475 AAATCTTCGG
**
14516485 TCTGCT-TCCTGCAACTTCAGAAAGATAAGACCTGTATCTTCAA
1 TCTGCTCTCCTGCAACTTCAGAAAGATAAGACCTGTATCTAAAA
* *
14516528 CCTGCTCT-CTGCAACTTCAGAGAGATAAGA-CTG-ATGGCTAAAA
1 TCTGCTCTCCTGCAACTTCAGAAAGATAAGACCTGTAT--CTAAAA
14516571 TCTGCTC
1 TCTGCTC
14516578 CATAGCCGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
41 2 0.05
42 3 0.07
43 36 0.86
44 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
TCTGCTCTCCTGCAACTTCAGAAAGATAAGACCTGTATCTAAAA
Found at i:14516588 original size:176 final size:176
Alignment explanation
Indices: 14516374--14516878 Score: 764
Period size: 176 Copynumber: 2.9 Consensus size: 176
14516364 TGCTCAGTGA
* * * * * * * *
14516374 AGATAAGGCTGGTGGTTGAAATTTGCTCCATTGCCGATACATGGAGATGAGACTCGCTATCTTCG
1 AGATAAGGCTGATGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTG
* *
14516439 ATCTGCTCCATTGCCAATACATGGAGATAAGATTCGAAATCTTCGGTCTGCTTCCTGCAACTTCA
66 ATCTGCTCCATAGCCGATACATGGAGATAAGATTCGAAATCTTCGGTCTGCTTCCTGCAACTTCA
14516504 GAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACTTCAGAG
131 GAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACTTCAGAG
* *
14516550 AGATAAGACTGATGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTG
1 AGATAAGGCTGATGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTG
* **
14516615 ATCTGCTCCATAGCCGATATATGGAGATAAGATCTATAAAT-TTCGGTCTGCTTCCTGCAACTTC
66 ATCTGCTCCATAGCCGATACATGGAGATAAGAT-TCGAAATCTTCGGTCTGCTTCCTGCAACTTC
*
14516679 AGAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGTAACTTCAGAG
130 AGAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACTTCAGAG
* *
14516726 AGATAAGGTTGATGGCTAAAATCTGCTCCATAGCCGATACATGGAGTTAAGACTCGCCA-CTTTT
1 AGATAAGGCTGATGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATC-TTT
* *
14516790 GATCTGCTCTATAGCCGATACATGGAGATAAGA-TCTGAAATCTTCGGCCTGCTTCCTGCAACTT
65 GATCTGCTCCATAGCCGATACATGGAGATAAGATTC-GAAATCTTCGGTCTGCTTCCTGCAACTT
* *
14516854 CAGAAAGACAAAACCTGTATCTTCA
129 CAGAAAGATAAGACCTGTATCTTCA
14516879 CCGATGTCGC
Statistics
Matches: 298, Mismatches: 27, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
174 1 0.00
175 4 0.01
176 288 0.97
177 5 0.02
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (176 bp):
AGATAAGGCTGATGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTG
ATCTGCTCCATAGCCGATACATGGAGATAAGATTCGAAATCTTCGGTCTGCTTCCTGCAACTTCA
GAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACTTCAGAG
Found at i:14516665 original size:45 final size:45
Alignment explanation
Indices: 14516570--14516666 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 45
14516560 GATGGCTAAA
* * * *
14516570 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCACAAATTTCG
* *
14516615 ATCTGCTCCATAGCCGATATATGGAGATAAGA-TCTATAAATTTCG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTC-ACAAATTTCG
*
14516660 GTCTGCT
1 ATCTGCT
14516667 TCCTGCAACT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 2 0.05
45 42 0.95
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (45 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGACTCACAAATTTCG
Found at i:14518140 original size:13 final size:15
Alignment explanation
Indices: 14518110--14518142 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14518100 TTCTTTTCTT
14518110 TTTTTTTTGTATTCC
1 TTTTTTTTGTATTCC
14518125 TTTTTTTT-TATT-C
1 TTTTTTTTGTATTCC
14518138 TTTTT
1 TTTTT
14518143 GATTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 4 0.22
15 8 0.44
ACGTcount: A:0.06, C:0.09, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTTTTTGTATTCC
Found at i:14521013 original size:19 final size:18
Alignment explanation
Indices: 14520970--14521017 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
14520960 ATAAAATACA
14520970 AATG-ATGC-AATGATGC
1 AATGAATGCAAATGATGC
*
14520986 AATGTAATGCAAATGCATGG
1 AATG-AATGCAAATG-ATGC
14521006 AATGAATGCAAA
1 AATGAATGCAAA
14521018 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 4 0.15
18 4 0.15
19 12 0.44
20 7 0.26
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (18 bp):
AATGAATGCAAATGATGC
Found at i:14523010 original size:3 final size:3
Alignment explanation
Indices: 14523002--14523129 Score: 95
Period size: 3 Copynumber: 42.0 Consensus size: 3
14522992 ATATAGTGCC
* * * *
14523002 ATA ATA ATA ATA ATA ATA ACA AT- ATG TTA CTA ATA ATA ATAA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A
* * *
14523048 ATA ATG GTA ATAA ATA TATA TATA A-A ATA ATA GTA A-A AGTA ATA A-A
1 ATA ATA ATA AT-A ATA -ATA -ATA ATA ATA ATA ATA ATA A-TA ATA ATA
14523094 ATA A-A TATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14523130 CTCTCCCCCT
Statistics
Matches: 103, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
2 9 0.09
3 74 0.72
4 20 0.19
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:14523572 original size:13 final size:13
Alignment explanation
Indices: 14523530--14523565 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
14523520 GGTGATGGAG
14523530 TTAGTGGGGTGGC
1 TTAGTGGGGTGGC
14523543 TTAGTGGGGTGGC
1 TTAGTGGGGTGGC
14523556 TTAGTGGGGT
1 TTAGTGGGGT
14523566 AGTTTAGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.08, C:0.06, G:0.53, T:0.33
Consensus pattern (13 bp):
TTAGTGGGGTGGC
Found at i:14523621 original size:20 final size:20
Alignment explanation
Indices: 14523596--14523633 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14523586 GTTTAGTGGG
14523596 TGCTTATTGGTCCCGGGCTC
1 TGCTTATTGGTCCCGGGCTC
*
14523616 TGCTTATTGGTCTCGGGC
1 TGCTTATTGGTCCCGGGC
14523634 ATAAATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.26, G:0.32, T:0.37
Consensus pattern (20 bp):
TGCTTATTGGTCCCGGGCTC
Found at i:14525944 original size:43 final size:43
Alignment explanation
Indices: 14525878--14526023 Score: 202
Period size: 43 Copynumber: 3.4 Consensus size: 43
14525868 TTTATTTGAA
* *
14525878 AAAAACGCCGCTAAAGGTTGCGACCTTTAACGACGCTTATCCC
1 AAAAACGCCGCTAAAGGTCGCGACCTTTAGCGACGCTTATCCC
* * *
14525921 AAAAACGCCACTAAAAGTCGCGACCTTTAGCAACGCTTATCCC
1 AAAAACGCCGCTAAAGGTCGCGACCTTTAGCGACGCTTATCCC
* ** *
14525964 ACAAACGCCGCTAAAGGTCGCGACCTTTAGCGGTGCTTTTCCC
1 AAAAACGCCGCTAAAGGTCGCGACCTTTAGCGACGCTTATCCC
*
14526007 ACAAACGCCGCTAAAGG
1 AAAAACGCCGCTAAAGG
14526024 CCATGAAATT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 91 1.00
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTCGCGACCTTTAGCGACGCTTATCCC
Found at i:14526313 original size:18 final size:19
Alignment explanation
Indices: 14526276--14526316 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
14526266 ATTTAGAATC
14526276 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
14526295 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
14526313 AAAA
1 AAAA
14526317 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:14526318 original size:31 final size:31
Alignment explanation
Indices: 14526242--14526315 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
14526232 TCAATTTATC
*
14526242 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
14526274 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
14526304 TTAAATATAAAA
1 TTAAATATAAAA
14526316 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:14531873 original size:16 final size:16
Alignment explanation
Indices: 14531854--14531891 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
14531844 GTGTTGATTA
14531854 ATTTTAA-ATTTTTTTT
1 ATTTTAACA-TTTTTTT
14531870 ATTTTTAACATTTTTTT
1 A-TTTTAACATTTTTTT
14531887 ATTTT
1 ATTTT
14531892 TCTCTTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 14 0.70
18 1 0.05
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTAACATTTTTTT
Found at i:14531891 original size:23 final size:23
Alignment explanation
Indices: 14531865--14531909 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14531855 TTTTAAATTT
14531865 TTTTTAT-TTTTAACATTTTTTTA
1 TTTTTATCTTTTAA-ATTTTTTTA
* *
14531888 TTTTTCTCTTTTGAATTTTTTT
1 TTTTTATCTTTTAAATTTTTTT
14531910 TAATTTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTTATCTTTTAAATTTTTTTA
Found at i:14531976 original size:8 final size:8
Alignment explanation
Indices: 14531965--14532111 Score: 65
Period size: 8 Copynumber: 18.8 Consensus size: 8
14531955 TTAAATATTA
14531965 AATTTTTT
1 AATTTTTT
14531973 AATTTTTTT
1 AA-TTTTTT
14531982 AATTTTTTTTT
1 AA---TTTTTT
*
14531993 AA-ATTTT
1 AATTTTTT
*
14532000 AA-ATTTT
1 AATTTTTT
*
14532007 AA-ATTTT
1 AATTTTTT
*
14532014 AA-ATTTT
1 AATTTTTT
*
14532021 AA-ATTTT
1 AATTTTTT
*
14532028 AAAT-TTT
1 AATTTTTT
*
14532035 AAATTTTT
1 AATTTTTT
*
14532043 AA-ATTTT
1 AATTTTTT
*
14532050 AAATTTTT
1 AATTTTTT
*
14532058 AAATTTTT
1 AATTTTTT
*
14532066 AAATTTTT
1 AATTTTTT
* *
14532074 AAATTTTA
1 AATTTTTT
*
14532082 AATTTTTA
1 AATTTTTT
*
14532090 AATTTTTA
1 AATTTTTT
*
14532098 AATTTTTA
1 AATTTTTT
14532106 AATTTT
1 AATTTT
14532112 ATTTTTTGAG
Statistics
Matches: 127, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
7 47 0.37
8 63 0.50
9 8 0.06
11 9 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
AATTTTTT
Found at i:14531978 original size:7 final size:7
Alignment explanation
Indices: 14531977--14532117 Score: 117
Period size: 7 Copynumber: 19.7 Consensus size: 7
14531967 TTTTTTAATT
14531977 TTTTTAA
1 TTTTTAA
14531984 TTTTT--
1 TTTTTAA
*
14531989 TTTTAAA
1 TTTTTAA
*
14531996 TTTTAAA
1 TTTTTAA
*
14532003 TTTTAAA
1 TTTTTAA
*
14532010 TTTTAAA
1 TTTTTAA
*
14532017 TTTTAAA
1 TTTTTAA
*
14532024 TTTTAAA
1 TTTTTAA
*
14532031 TTTTAAA
1 TTTTTAA
14532038 TTTTTAAA
1 TTTTT-AA
*
14532046 TTTTAAA
1 TTTTTAA
14532053 TTTTTAAA
1 TTTTT-AA
14532061 TTTTTAAA
1 TTTTT-AA
14532069 TTTTTAAA
1 TTTTT-AA
*
14532077 TTTTAAA
1 TTTTTAA
14532084 TTTTTAAA
1 TTTTT-AA
14532092 TTTTTAAA
1 TTTTT-AA
14532100 TTTTTAA
1 TTTTTAA
*
14532107 ATTTT-A
1 TTTTTAA
14532113 TTTTT
1 TTTTT
14532118 TGAGTTTATT
Statistics
Matches: 121, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
5 4 0.03
6 5 0.04
7 69 0.57
8 43 0.36
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTTAA
Found at i:14532118 original size:15 final size:15
Alignment explanation
Indices: 14531948--14532112 Score: 216
Period size: 15 Copynumber: 11.1 Consensus size: 15
14531938 AAATATGGAC
* *
14531948 TAAATTATTAAATAT
1 TAAATTTTTAAATTT
*
14531963 TAAATTTTTTAATTTTT
1 TAAA-TTTTTAA-ATTT
*
14531980 TTAATTTTT---TTT
1 TAAATTTTTAAATTT
14531992 TAAA-TTTTAAATTT
1 TAAATTTTTAAATTT
14532006 TAAA-TTTTAAATTT
1 TAAATTTTTAAATTT
14532020 TAAA-TTTTAAATTT
1 TAAATTTTTAAATTT
14532034 TAAATTTTTAAATTT
1 TAAATTTTTAAATTT
14532049 TAAATTTTTAAATTTT
1 TAAATTTTTAAA-TTT
14532065 TAAATTTTTAAATTT
1 TAAATTTTTAAATTT
14532080 TAAATTTTTAAATTTT
1 TAAATTTTTAAA-TTT
14532096 TAAATTTTTAAATTT
1 TAAATTTTTAAATTT
14532111 TA
1 TA
14532113 TTTTTTGAGT
Statistics
Matches: 137, Mismatches: 5, Indels: 16
0.87 0.03 0.10
Matches are distributed among these distances:
11 4 0.03
12 6 0.04
14 35 0.26
15 46 0.34
16 41 0.30
17 5 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TAAATTTTTAAATTT
Found at i:14532118 original size:23 final size:22
Alignment explanation
Indices: 14531990--14532112 Score: 180
Period size: 23 Copynumber: 5.5 Consensus size: 22
14531980 TTAATTTTTT
14531990 TTTAAATTTTAAATTTTAAA-T
1 TTTAAATTTTAAATTTTAAATT
14532011 TTTAAATTTTAAATTTTAAA-T
1 TTTAAATTTTAAATTTTAAATT
14532032 TTTAAATTTTTAAATTTTAAATT
1 TTTAAA-TTTTAAATTTTAAATT
14532055 TTTAAATTTTTAAATTTTTAAA-T
1 TTTAAA-TTTTAAA-TTTTAAATT
14532078 TTTAAATTTTTAAATTTTTAAATT
1 TTTAAA-TTTTAAA-TTTTAAATT
14532102 TTTAAATTTTA
1 TTTAAATTTTA
14532113 TTTTTTGAGT
Statistics
Matches: 98, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
21 27 0.28
22 14 0.14
23 43 0.44
24 14 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTAAATTTTAAATTTTAAATT
Found at i:14532743 original size:7 final size:7
Alignment explanation
Indices: 14532716--14532779 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
14532706 CCCATGGCCA
14532716 TTAAACC
1 TTAAACC
*
14532723 TAAAACC
1 TTAAACC
*
14532730 ATAAAACC
1 -TTAAACC
14532738 TTAAACC
1 TTAAACC
* *
14532745 ATAGACC
1 TTAAACC
14532752 TTAAACC
1 TTAAACC
**
14532759 TTAAATA
1 TTAAACC
14532766 TTAAACC
1 TTAAACC
*
14532773 GTAAACC
1 TTAAACC
14532780 AAAAAATAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 38 0.84
8 7 0.16
ACGTcount: A:0.48, C:0.25, G:0.03, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:14532752 original size:14 final size:15
Alignment explanation
Indices: 14532713--14532763 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
14532703 ATACCCATGG
* *
14532713 CCATTAAACCTAAAA
1 CCATAAAACCTTAAA
14532728 CCATAAAACCTTAAA
1 CCATAAAACCTTAAA
*
14532743 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
14532757 CCTTAAA
1 CCATAAA
14532764 TATTAAACCG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:14533122 original size:42 final size:41
Alignment explanation
Indices: 14533052--14533206 Score: 274
Period size: 41 Copynumber: 3.8 Consensus size: 41
14533042 ATGCTCTGGT
14533052 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGAC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGAC
14533093 TTTTAGCGGCGTTTTTACCAAAAGCGCCGCTATTGCTCCGAC
1 TTTTAGCGGCG-TTTTACCAAAAGCGCCGCTATTGCTCCGAC
*
14533135 TTTTAGCGGCATTTTACCAAAAGCGCCGCTATTGCTCCGAC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGAC
* *
14533176 TTTTAGTGGCGTTTTACCAAAAACGCCGCTA
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTA
14533207 AAAACGCCGC
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
41 69 0.63
42 40 0.37
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGAC
Found at i:14533150 original size:83 final size:82
Alignment explanation
Indices: 14533052--14533206 Score: 274
Period size: 83 Copynumber: 1.9 Consensus size: 82
14533042 ATGCTCTGGT
* *
14533052 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGACTTTTAGCGGCGTTTTTACCAAAAG
1 TTTTAGCGGCATTTTACCAAAAGCGCCGCTATTGCTCCGACTTTTAGCGGCG-TTTTACCAAAAA
14533117 CGCCGCTATTGCTCCGAC
65 CGCCGCTATTGCTCCGAC
*
14533135 TTTTAGCGGCATTTTACCAAAAGCGCCGCTATTGCTCCGACTTTTAGTGGCGTTTTACCAAAAAC
1 TTTTAGCGGCATTTTACCAAAAGCGCCGCTATTGCTCCGACTTTTAGCGGCGTTTTACCAAAAAC
14533200 GCCGCTA
66 GCCGCTA
14533207 AAAACGCCGC
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
82 19 0.28
83 50 0.72
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (82 bp):
TTTTAGCGGCATTTTACCAAAAGCGCCGCTATTGCTCCGACTTTTAGCGGCGTTTTACCAAAAAC
GCCGCTATTGCTCCGAC
Found at i:14533222 original size:11 final size:12
Alignment explanation
Indices: 14533194--14533221 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
14533184 GCGTTTTACC
14533194 AAAAACGCCGCT
1 AAAAACGCCGCT
14533206 AAAAACGCCGCT
1 AAAAACGCCGCT
14533218 AAAA
1 AAAA
14533222 CCCTATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.29, G:0.14, T:0.07
Consensus pattern (12 bp):
AAAAACGCCGCT
Found at i:14534226 original size:25 final size:26
Alignment explanation
Indices: 14534187--14534238 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
14534177 ATTTTATTTG
*
14534187 AAAATACTTTATATAATATATAATAC
1 AAAATACTATATATAATATATAATAC
* *
14534213 AAAAT-CTATATATATTATATACTAC
1 AAAATACTATATATAATATATAATAC
14534238 A
1 A
14534239 GAAACCAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (26 bp):
AAAATACTATATATAATATATAATAC
Found at i:14534702 original size:17 final size:15
Alignment explanation
Indices: 14534663--14534723 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
14534653 ATATAAAAAT
**
14534663 AATT-AAAAATAAAA
1 AATTAAAAAATATTA
14534677 AATTATAAAAATTATTA
1 AATTA-AAAAA-TATTA
14534694 GATATTAAAAAATATTA
1 -A-ATTAAAAAATATTA
14534711 AATTAAAAAATAT
1 AATTAAAAAATAT
14534724 ATGAAAATTG
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 4 0.10
15 12 0.30
16 6 0.15
17 8 0.20
18 6 0.15
19 4 0.10
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
AATTAAAAAATATTA
Found at i:14534725 original size:17 final size:17
Alignment explanation
Indices: 14534676--14534725 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
14534666 TAAAAATAAA
14534676 AAATTATAAAAAT-TATT
1 AAATTA-AAAAATATATT
14534693 AGATATT-AAAAA-ATATT
1 A-A-ATTAAAAAATATATT
14534710 AAATTAAAAAATATAT
1 AAATTAAAAAATATAT
14534726 GAAAATTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
15 3 0.11
16 6 0.21
17 15 0.54
18 1 0.04
19 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AAATTAAAAAATATATT
Found at i:14545801 original size:24 final size:24
Alignment explanation
Indices: 14545760--14545806 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
14545750 AAATCTAGGT
*
14545760 ACATATAAGCATGGGATGCGATAA
1 ACATATAAGCACGGGATGCGATAA
* *
14545784 ACATATAAGCACGTGATGTGATA
1 ACATATAAGCACGGGATGCGATA
14545807 TGTAAATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (24 bp):
ACATATAAGCACGGGATGCGATAA
Found at i:14548158 original size:20 final size:18
Alignment explanation
Indices: 14548133--14548177 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
14548123 TTTAAAATTT
*
14548133 AAAAATTATTAAAATTATTA
1 AAAAATTA-TAAAAATA-TA
14548153 AAAAATTATAAAAATATA
1 AAAAATTATAAAAATATA
14548171 AAAAATT
1 AAAAATT
14548178 TAATTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 9 0.38
19 7 0.29
20 8 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATTATAAAAATATA
Found at i:14548165 original size:9 final size:9
Alignment explanation
Indices: 14548126--14548174 Score: 57
Period size: 8 Copynumber: 5.4 Consensus size: 9
14548116 ACTATTATTT
14548126 AAAATT-TA
1 AAAATTATA
*
14548134 AAAATTATT
1 AAAATTATA
14548143 AAAATTATTAA
1 AAAATTA-T-A
14548154 AAAATTATA
1 AAAATTATA
14548163 AAAA-TATA
1 AAAATTATA
14548171 AAAA
1 AAAA
14548175 ATTTAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
8 14 0.39
9 13 0.36
10 2 0.06
11 7 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:14548840 original size:20 final size:20
Alignment explanation
Indices: 14548815--14548852 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14548805 TAAACTATAG
14548815 TAATAATATTAAAATAATGA
1 TAATAATATTAAAATAATGA
* *
14548835 TAATAATGTTAAATTAAT
1 TAATAATATTAAAATAAT
14548853 CCATTTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
TAATAATATTAAAATAATGA
Found at i:14550315 original size:46 final size:46
Alignment explanation
Indices: 14550262--14550375 Score: 131
Period size: 46 Copynumber: 2.5 Consensus size: 46
14550252 ATTCATTGTC
* * *
14550262 TTCTTCAATCCAACCTACTGCGTCCCAAGG-GTATAGGATCTGCATT
1 TTCTTCAATCCATCCCACTGCAT-CCAAGGAGTATAGGATCTGCATT
* ** ** *
14550308 TTCTTCAATTCATCCCACCACATCTTAGGAGTATAGGCTCTGCATT
1 TTCTTCAATCCATCCCACTGCATCCAAGGAGTATAGGATCTGCATT
14550354 TTCTTCAATCCATCCCACTGCA
1 TTCTTCAATCCATCCCACTGCA
14550376 AGTTTAGGGA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
45 4 0.07
46 51 0.93
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.32
Consensus pattern (46 bp):
TTCTTCAATCCATCCCACTGCATCCAAGGAGTATAGGATCTGCATT
Found at i:14550557 original size:44 final size:44
Alignment explanation
Indices: 14550465--14550578 Score: 106
Period size: 44 Copynumber: 2.6 Consensus size: 44
14550455 TTTTAATCTA
* ** * *
14550465 CTCCACTGCAACTTCAGGGAGATAAAATTAGTGGCTTCAATCTG
1 CTCCACTGCAACTTTAGGGAGATAAGGTTAGTAGCTTCAACCTG
* * *
14550509 CTCCACTGCAACTTTAGGGAGATAAGGTTTGTATCTT-AAGCCTT
1 CTCCACTGCAACTTTAGGGAGATAAGGTTAGTAGCTTCAA-CCTG
** *
14550553 CTCCACTGCCGC-TTAGGGTGATAAGG
1 CTCCACTGCAACTTTAGGGAGATAAGG
14550579 CTAACGGCTT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 15 0.26
44 43 0.74
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTTAGGGAGATAAGGTTAGTAGCTTCAACCTG
Found at i:14550708 original size:132 final size:131
Alignment explanation
Indices: 14550499--14550928 Score: 540
Period size: 132 Copynumber: 3.3 Consensus size: 131
14550489 AAATTAGTGG
* * ** *
14550499 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGT-ATCTT-AAGCCTTCTCCACTGC
1 CTTCGATCTGCTCCACTACTGC-TTAGGGAGATAAGATTTGTCATCTTCAA-CCTTCTCCACTGC
* * * ** *
14550562 CGCTTAGGGTGATAAGGCTAACGGCTTAAATCTACTTCCCTACTACCTCGGGAAGATAAGATTCG
64 TGC-TCGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCG
*
14550627 TCAT
128 TCGT
*
14550631 CTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGATTTGTCATCTTCAACCTTCTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTCATCTTCAACCTTCTCCACTGCTG
**
14550696 CTCGGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACC
66 CTCGG-GAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGTC
14550761 GT
130 GT
* * * * * **
14550763 CTTCGATCTGCTCCATTACTGCTTAGGGAAATAAGATCTGCCATCTTCAGCCTTCTCCACTTTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTCATCTTCAACCTTCTCCACTGCTG
* * * * **
14550828 TTCAGGGAGATAAGGCTAGTAGCTTAAATATGCTTTCCTACTACCTCTAGAAGATAAGATTCGTC
66 CTC-GGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGTC
14550893 GT
130 GT
*
14550895 CTTCGATCTGCTCTACTACTGCTTAGGGAGATAA
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
14550929 AATCTGTGAA
Statistics
Matches: 260, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
131 21 0.08
132 235 0.90
133 4 0.02
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (131 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTCATCTTCAACCTTCTCCACTGCTG
CTCGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGTCG
T
Found at i:14550927 original size:44 final size:44
Alignment explanation
Indices: 14550615--14550928 Score: 142
Period size: 44 Copynumber: 7.1 Consensus size: 44
14550605 TACCTCGGGA
* * *
14550615 AGATAAGATTCGTCATCTTCGATCTGCTCCACTACTGTTTAGGG
1 AGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
14550659 AGATAAGATTTGTCATCTTCAACCTTCTCCACTGCTGC-TCGGAG
1 AGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAGG-G
** * * * * * *
14550703 AGATAAGGCTAGT-GGCTTAAATCTGCTTCC-CTACTACCTCGGG
1 AGATAAGATTCGTCGTCTTCAATCTGC-TCCACTACTGCTTAGGG
** * *
14550746 AAGATAAGATTCACCGTCTTCGATCTGCTCCATTACTGCTTAGGG
1 -AGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * ** * **
14550791 AAATAAGA-TCTGCCATCTTCAGCCTTCTCCACTTTTG-TTCAGGG
1 AGATAAGATTC-GTCGTCTTCAATCTGCTCCACTACTGCTT-AGGG
** * * * * *
14550835 AGATAAGGCTAGTAG-CTTAAATATGCTTTCCTACTAC--CTCTA-GA
1 AGATAAGATTCGTCGTCTTCAATCTGC--TCC-ACTACTGCT-TAGGG
* *
14550879 AGATAAGATTCGTCGTCTTCGATCTGCTCTACTACTGCTTAGGG
1 AGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
14550923 AGATAA
1 AGATAA
14550929 AATCTGTGAA
Statistics
Matches: 190, Mismatches: 62, Indels: 36
0.66 0.22 0.12
Matches are distributed among these distances:
42 5 0.03
43 31 0.16
44 117 0.62
45 33 0.17
46 4 0.02
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (44 bp):
AGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:14563774 original size:30 final size:30
Alignment explanation
Indices: 14563739--14563795 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
14563729 ATTTTTCAAT
14563739 TTTTATAATATTAAAAACATGTTTGTTGAA
1 TTTTATAATATTAAAAACATGTTTGTTGAA
*
14563769 TTTTATAATATTAAAAATATGTTTGTT
1 TTTTATAATATTAAAAACATGTTTGTT
14563796 AAATAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.51
Consensus pattern (30 bp):
TTTTATAATATTAAAAACATGTTTGTTGAA
Found at i:14564222 original size:23 final size:23
Alignment explanation
Indices: 14564196--14564241 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
14564186 AATGATTAGT
*
14564196 ATGCTTGGATCATAAAATATGCA
1 ATGCATGGATCATAAAATATGCA
14564219 ATGCATGGATCATAAAATATGCA
1 ATGCATGGATCATAAAATATGCA
14564242 TGAAAAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (23 bp):
ATGCATGGATCATAAAATATGCA
Found at i:14564695 original size:19 final size:20
Alignment explanation
Indices: 14564673--14564716 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
14564663 GAAAAATATA
14564673 AAAAATCTTATA-AAAAACG
1 AAAAATCTTATATAAAAACG
* *
14564692 AAAAA-GTTATATAAAAACT
1 AAAAATCTTATATAAAAACG
14564711 AAAAAT
1 AAAAAT
14564717 ATTTACAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAATCTTATATAAAAACG
Found at i:14565651 original size:3 final size:3
Alignment explanation
Indices: 14565643--14565689 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
14565633 ATTTTAATCC
14565643 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14565690 GGAATTTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14578778 original size:37 final size:37
Alignment explanation
Indices: 14578734--14578808 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
14578724 GATGATCATA
*
14578734 AATTCTTAAAAAGATTAATTTTAATATATCATAAAAT
1 AATTCTTAAAAAAATTAATTTTAATATATCATAAAAT
14578771 AATTCTTAAAAAAATTAATTTTAATATATCATAAAAT
1 AATTCTTAAAAAAATTAATTTTAATATATCATAAAAT
14578808 A
1 A
14578809 GACATAAAAT
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:0.53, C:0.05, G:0.01, T:0.40
Consensus pattern (37 bp):
AATTCTTAAAAAAATTAATTTTAATATATCATAAAAT
Found at i:14578828 original size:33 final size:36
Alignment explanation
Indices: 14578740--14578817 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 36
14578730 CATAAATTCT
* *
14578740 TAAAAAGATTAATTTTAATATATCATAAAATAATTCT
1 TAAAAAAATTAATTTTAATATATCATAAAATAA-TCA
14578777 TAAAAAAATTAATTTTAATATATCATAAAATAGA-CA
1 TAAAAAAATTAATTTTAATATATCATAAAATA-ATCA
14578813 TAAAA
1 TAAAA
14578818 TATATTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 6 0.16
37 31 0.82
38 1 0.03
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (36 bp):
TAAAAAAATTAATTTTAATATATCATAAAATAATCA
Found at i:14582643 original size:41 final size:41
Alignment explanation
Indices: 14582479--14582636 Score: 289
Period size: 41 Copynumber: 3.9 Consensus size: 41
14582469 TATGACTTTG
14582479 AGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTT
1 AGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTT
*
14582520 AGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGTTTTT
1 AGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTT
14582561 AGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTT
1 AGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTT
* *
14582602 AGCGGCGTTTTAACAAAAGCGCCGCTATTGCTCTG
1 AGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG
14582637 TATTTTAAAA
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 113 1.00
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (41 bp):
AGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTT
Found at i:14585766 original size:16 final size:16
Alignment explanation
Indices: 14585747--14585777 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14585737 ACAAGGCTTG
14585747 AAAAATGGGTTTGGGT
1 AAAAATGGGTTTGGGT
14585763 AAAAATGGGTTTGGG
1 AAAAATGGGTTTGGG
14585778 ACAGGTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.29
Consensus pattern (16 bp):
AAAAATGGGTTTGGGT
Found at i:14588282 original size:3 final size:3
Alignment explanation
Indices: 14588274--14588325 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
14588264 AACGAAAACG
* *
14588274 ATA ATA ATA ATA ATA ATA AT- ATAA ATA ATA ATA GT- ATA A-A ACA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
14588317 ATA ATA ATA
1 ATA ATA ATA
14588326 CACATGGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
2 5 0.12
3 35 0.83
4 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:14588726 original size:20 final size:22
Alignment explanation
Indices: 14588697--14588737 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
14588687 TAAAGTGGAA
*
14588697 AATAATGATA-ATA-ATATATG
1 AATAAAGATATATATATATATG
14588717 AATAAAGATATATATATATAT
1 AATAAAGATATATATATATAT
14588738 ATATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (22 bp):
AATAAAGATATATATATATATG
Found at i:14588729 original size:2 final size:2
Alignment explanation
Indices: 14588724--14588750 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14588714 ATGAATAAAG
14588724 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14588751 CACACACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14588848 original size:48 final size:47
Alignment explanation
Indices: 14588796--14588931 Score: 148
Period size: 50 Copynumber: 2.8 Consensus size: 47
14588786 AATAGTATTG
* * *
14588796 AGTATTAAAAGTATATATATAATATAGACAAAAATATATGCATAATGT
1 AGTATTAAAAGTATATACATAATATATA-AAAAATATATGAATAATGT
* * *
14588844 AGTATTGAAAGTATTTACATGGGATAATATAAAAAATATATGAATAATGT
1 AGTATTAAAAGTATATACAT--AAT-ATATAAAAAATATATGAATAATGT
*
14588894 -GATATTAAAAATATATACATAATATATATAAAAATATA
1 AG-TATTAAAAGTATATACATAATATATA-AAAAATATA
14588932 ATATTAAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
47 5 0.07
48 28 0.38
49 1 0.01
50 35 0.48
51 4 0.05
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.34
Consensus pattern (47 bp):
AGTATTAAAAGTATATACATAATATATAAAAAATATATGAATAATGT
Done.