Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 135 of 210
Found at i:44685847 original size:7 final size:7
Alignment explanation
Indices: 44685797--44685828 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
44685787 CTTTGGCCTC
44685797 TTTT-CT
1 TTTTCCT
44685803 TTTTCCT
1 TTTTCCT
44685810 TTTTCCT
1 TTTTCCT
44685817 TTTTCCT
1 TTTTCCT
44685824 TTTTC
1 TTTTC
44685829 TTCTCTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.16
7 21 0.84
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTCCT
Found at i:44685853 original size:26 final size:27
Alignment explanation
Indices: 44685809--44685892 Score: 73
Period size: 26 Copynumber: 3.1 Consensus size: 27
44685799 TTCTTTTTCC
* *
44685809 TTTTTCCTTTTTCCTTTTTCTTCTCTCT
1 TTTTTCATTTTT-CATTTTCTTCTCTCT
*** *
44685837 TTTTTCA-TTTTCATTTTGACCTTTCT
1 TTTTTCATTTTTCATTTTCTTCTCTCT
* *
44685863 TTTTTTATTTTTCTTTTTCTTCTCT-T
1 TTTTTCATTTTTCATTTTCTTCTCTCT
44685889 TTTT
1 TTTT
44685893 GTTTTTGATT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
26 21 0.49
27 16 0.37
28 6 0.14
ACGTcount: A:0.05, C:0.20, G:0.01, T:0.74
Consensus pattern (27 bp):
TTTTTCATTTTTCATTTTCTTCTCTCT
Found at i:44685904 original size:25 final size:23
Alignment explanation
Indices: 44685859--44685905 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
44685849 ATTTTGACCT
*
44685859 TTCTTTTTTTATTTTTCTTTTTC
1 TTCTTTTTTTATTTTTATTTTTC
*
44685882 TTCTCTTTTTTGTTTTTGATTTTT
1 TTCT-TTTTTTATTTTT-ATTTTT
44685906 TTTTTGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.04, C:0.11, G:0.04, T:0.81
Consensus pattern (23 bp):
TTCTTTTTTTATTTTTATTTTTC
Found at i:44690296 original size:3 final size:3
Alignment explanation
Indices: 44690288--44690378 Score: 62
Period size: 3 Copynumber: 29.7 Consensus size: 3
44690278 AAATATGACA
* **
44690288 AAT AAT AAT AAT AAT AAT -AT AGT -AT AACT TTT AAGT AAT AAT ACAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AA-T AAT AAT A-AT
* * *
44690334 AAT AAT -TT TAG AAT AAT AAT ACACT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT AAT AAT AA
44690379 CAAAAGGTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
2 4 0.06
3 54 0.78
4 9 0.13
5 2 0.03
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:44690338 original size:24 final size:25
Alignment explanation
Indices: 44690297--44690364 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 25
44690287 AAATAATAAT
* *
44690297 AATAATAATATAGT-ATAACTTTTA-
1 AATAATAATACACTAATAA-TTTTAG
*
44690321 AGTAATAATACA-TAATAATTTTAG
1 AATAATAATACACTAATAATTTTAG
44690345 AATAATAATACACTAATAAT
1 AATAATAATACACTAATAAT
44690365 AATAATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 6 0.16
24 25 0.66
25 7 0.18
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (25 bp):
AATAATAATACACTAATAATTTTAG
Found at i:44698557 original size:55 final size:56
Alignment explanation
Indices: 44698472--44698582 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 56
44698462 CTTAAAGCCT
44698472 CAGTTGTCACACTTCTCTGAACTTTAATTACAAAAAAAGAAAATGACATGAGCATC
1 CAGTTGTCACACTTCTCTGAACTTTAATTACAAAAAAAGAAAATGACATGAGCATC
44698528 CAGTTGTCAC-CTTCTCTGAACTTTAATTACAAAAAAAGAAAATGACATGAGCATC
1 CAGTTGTCACACTTCTCTGAACTTTAATTACAAAAAAAGAAAATGACATGAGCATC
44698583 TCAAATTGAG
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 45 0.82
56 10 0.18
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.27
Consensus pattern (56 bp):
CAGTTGTCACACTTCTCTGAACTTTAATTACAAAAAAAGAAAATGACATGAGCATC
Found at i:44701123 original size:25 final size:25
Alignment explanation
Indices: 44701069--44701123 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
44701059 AAATATTAAA
*
44701069 TTTAATTTAATATTAATATAATCAC
1 TTTAATTTAATATTAATAAAATCAC
44701094 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAATAAAATCAC
44701118 TATTAA
1 T-TTAA
44701124 GATAAGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 3 0.11
25 20 0.74
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTAATTTAATATTAATAAAATCAC
Found at i:44701433 original size:168 final size:168
Alignment explanation
Indices: 44701155--44702988 Score: 3668
Period size: 168 Copynumber: 10.9 Consensus size: 168
44701145 AATATTAAAT
44701155 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
1 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
44701220 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
66 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
44701285 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
131 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
44701323 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
1 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
44701388 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
66 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
44701453 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
131 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
44701491 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
1 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
44701556 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
66 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
44701621 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
131 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
44701659 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
1 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
44701724 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
66 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
44701789 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
131 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
44701827 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
1 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
44701892 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
66 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
44701957 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
131 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
44701995 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
1 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
44702060 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
66 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
44702125 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
131 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
44702163 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
1 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
44702228 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
66 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
44702293 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
131 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
44702331 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
1 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
44702396 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
66 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
44702461 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
131 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
44702499 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
1 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
44702564 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
66 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
44702629 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
131 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
44702667 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
1 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
44702732 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
66 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
44702797 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
131 ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
44702835 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
1 ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
44702900 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
66 TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
44702965 ATGGCTCTTGCATGGATATTCAAT
131 ATGGCTCTTGCATGGATATTCAAT
44702989 CTCTGATGCA
Statistics
Matches: 1666, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 1666 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (168 bp):
ATTGTGATTTAGTCCTCCTAGCTTTCTTGCATGGAGGAGTCTCATACAAGGTTCCATCACAAGTA
TCATCTTTAGCTTCTTTGTTGACAAGTTTTAGACACACTTGATCATCACTATTGTGATCTTCAAT
ATGGCTCTTGCATGGATATTCAATTTTAGAACATTGTG
Found at i:44711742 original size:24 final size:24
Alignment explanation
Indices: 44711715--44711764 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
44711705 TGTTGTAGGT
44711715 CATGTGCACCACACGGTCGTATGC
1 CATGTGCACCACACGGTCGTATGC
44711739 CATGTGCACCACACGGTCGTATGC
1 CATGTGCACCACACGGTCGTATGC
44711763 CA
1 CA
44711765 AGCCGTGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.34, G:0.24, T:0.20
Consensus pattern (24 bp):
CATGTGCACCACACGGTCGTATGC
Found at i:44711823 original size:22 final size:22
Alignment explanation
Indices: 44711795--44711837 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
44711785 GGACTCACCG
44711795 TTTTCCCCTAGAGACCACACGA
1 TTTTCCCCTAGAGACCACACGA
44711817 TTTTCCCCTAGAGACCACACG
1 TTTTCCCCTAGAGACCACACG
44711838 GGTCAGAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.37, G:0.14, T:0.23
Consensus pattern (22 bp):
TTTTCCCCTAGAGACCACACGA
Found at i:44711974 original size:30 final size:29
Alignment explanation
Indices: 44711918--44711975 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
44711908 GACACGAGTA
*
44711918 TGTGTCAGGCCATGTGAGATACACGGGCG
1 TGTGTCAGGCCATGTGAGACACACGGGCG
*
44711947 TGTGTCAGGCCATGTGGAGCCACACGGGC
1 TGTGTCAGGCCATGT-GAGACACACGGGC
44711976 TAGCTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.19, C:0.24, G:0.38, T:0.19
Consensus pattern (29 bp):
TGTGTCAGGCCATGTGAGACACACGGGCG
Found at i:44713816 original size:14 final size:15
Alignment explanation
Indices: 44713792--44713821 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
44713782 ATAAATAGAT
44713792 AAATAGATAATAATA
1 AAATAGATAATAATA
44713807 AAATAG-TAATAATA
1 AAATAGATAATAATA
44713821 A
1 A
44713822 TGAAGGCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
AAATAGATAATAATA
Found at i:44713870 original size:13 final size:15
Alignment explanation
Indices: 44713852--44713883 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
44713842 ATAATCGATG
44713852 AAATT-AAATA-AAA
1 AAATTAAAATATAAA
44713865 AAATTAAAATATAAA
1 AAATTAAAATATAAA
44713880 AAAT
1 AAAT
44713884 GAAGGAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 5 0.29
15 7 0.41
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AAATTAAAATATAAA
Found at i:44713901 original size:4 final size:4
Alignment explanation
Indices: 44713892--44714040 Score: 63
Period size: 4 Copynumber: 36.5 Consensus size: 4
44713882 ATGAAGGAAT
* * * * * *
44713892 AATA AATA AATG AATA CAAGA ATTAA AATA AA-A AATG AAT- AATA TATG
1 AATA AATA AATA AATA -AATA AAT-A AATA AATA AATA AATA AATA AATA
* * * * **
44713940 AATA AATA AGTA AATG AACA AATA AATG AATAA AATA AA-A GGAAT- AAGG
1 AATA AATA AATA AATA AATA AATA AATA AAT-A AATA AATA --AATA AATA
* * * *
44713989 AATA AATA AACA AGTA AATA AGTA AATA AATA AATAA AAGA AATAA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AAT-A AATA AAT-A AATA
44714039 AA
1 AA
44714041 AAAGGGCTTA
Statistics
Matches: 104, Mismatches: 30, Indels: 22
0.67 0.19 0.14
Matches are distributed among these distances:
3 9 0.09
4 77 0.74
5 18 0.17
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:44717057 original size:27 final size:27
Alignment explanation
Indices: 44717001--44717075 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
44716991 TCTCATCCCT
*
44717001 ATTTTATCCC-TGCTAAAA-TTTTGACA
1 ATTTTACCCCTTG-TAAAATTTTTGACA
*
44717027 ATTTTACCCCTTGTAAAATTTTTGACG
1 ATTTTACCCCTTGTAAAATTTTTGACA
*
44717054 ATTTTACCCCTGGTAAAATTTT
1 ATTTTACCCCTTGTAAAATTTT
44717076 GAGAAAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 14 0.32
27 30 0.68
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (27 bp):
ATTTTACCCCTTGTAAAATTTTTGACA
Found at i:44729495 original size:17 final size:16
Alignment explanation
Indices: 44729453--44729490 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
44729443 AATTTCTTTT
44729453 AAAAAAAAGAACAAAG
1 AAAAAAAAGAACAAAG
44729469 AAAAAGAAAGAA-AAAG
1 AAAAA-AAAGAACAAAG
44729485 AAAAAA
1 AAAAAA
44729491 CAAAGGTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.67
17 6 0.29
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAACAAAG
Found at i:44730436 original size:27 final size:27
Alignment explanation
Indices: 44730374--44730436 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
44730364 TTAGTTTTTG
* *
44730374 TTATATATATATATACATACATATCTT
1 TTATATATACATATACATACATATATT
* * * **
44730401 TGATTTATACATGTACATATTTATATT
1 TTATATATACATATACATACATATATT
44730428 TTATATATA
1 TTATATATA
44730437 TTTCTATAAT
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (27 bp):
TTATATATACATATACATACATATATT
Found at i:44730449 original size:19 final size:19
Alignment explanation
Indices: 44730414--44730463 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
44730404 TTTATACATG
* *
44730414 TACATATTTATATTTTATA
1 TACATATCTATAATTTATA
* *
44730433 TATATTTCTATAATTTATA
1 TACATATCTATAATTTATA
44730452 TACATATCTATA
1 TACATATCTATA
44730464 TATATCTATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TACATATCTATAATTTATA
Found at i:44732589 original size:24 final size:25
Alignment explanation
Indices: 44732541--44732589 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
44732531 CGTCTCTTTT
* * *
44732541 TTGCATTCATCTGCATTACATTTCA
1 TTGCATTCATATGCATTAAACTTCA
44732566 TTGCA-TCATATGCATTAAACTTCA
1 TTGCATTCATATGCATTAAACTTCA
44732590 CAAGAAGACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (25 bp):
TTGCATTCATATGCATTAAACTTCA
Found at i:44735682 original size:5 final size:5
Alignment explanation
Indices: 44735669--44735728 Score: 77
Period size: 5 Copynumber: 11.8 Consensus size: 5
44735659 AAAACAAACA
* *
44735669 AAAAA AAAAG AAAAG AAAAAAG AAAAG AAAAG AAAAG AAAAG AAGA- AAAAG
1 AAAAG AAAAG AAAAG --AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
44735720 AAAAG AAAA
1 AAAAG AAAA
44735729 AGGAGAGGCC
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
4 3 0.06
5 41 0.84
7 5 0.10
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:44735689 original size:27 final size:27
Alignment explanation
Indices: 44735657--44735729 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 27
44735647 AAGAATGTTC
44735657 AAAAAACAAACA-AAAAAAAAAGAAAAG
1 AAAAAACAAA-AGAAAAAAAAAGAAAAG
* *
44735684 AAAAAAGAAAAGAAAAGAAAAGAAAAG
1 AAAAAACAAAAGAAAAAAAAAGAAAAG
*
44735711 AAGAAAAAGAAAAGAAAAA
1 -A-AAAAACAAAAGAAAAA
44735730 GGAGAGGCCA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 1 0.03
27 23 0.57
28 1 0.03
29 15 0.38
ACGTcount: A:0.84, C:0.03, G:0.14, T:0.00
Consensus pattern (27 bp):
AAAAAACAAAAGAAAAAAAAAGAAAAG
Found at i:44737057 original size:137 final size:137
Alignment explanation
Indices: 44736916--44737175 Score: 358
Period size: 137 Copynumber: 1.9 Consensus size: 137
44736906 AAATAACAAG
* * * * *
44736916 TCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTGAACATAGCGAATCTTATTTCCCTAAAGTTGC
1 TCTTATCTCCCTGAAATTGCAGTGGAGCAAACTGAACATAGCAAATCTTATCTCCATAAAGTTGC
* * * * * *
44736981 AATGGAACAGATTGAAGCTGTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCA
66 AATAGAACAGACTGAAGCTATAAATCACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCA
44737046 CATCAAA
131 CATCAAA
* * * * *
44737053 TCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCTATGAATTTGC
1 TCTTATCTCCCTGAAATTGCAGTGGAGCAAACTGAACATAGCAAATCTTATCTCCATAAAGTTGC
* *
44737118 AGTAGAACAGACTGAAGCTATAAATCACAAACCTTATCTCTCTGAAGTTGTAGTAGAG
66 AATAGAACAGACTGAAGCTATAAATCACAAACCTTATCTCTCTGAAGTTGCAGTAGAG
44737176 CAGGCTGAAA
Statistics
Matches: 105, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
137 105 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (137 bp):
TCTTATCTCCCTGAAATTGCAGTGGAGCAAACTGAACATAGCAAATCTTATCTCCATAAAGTTGC
AATAGAACAGACTGAAGCTATAAATCACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCA
CATCAAA
Found at i:44737105 original size:45 final size:45
Alignment explanation
Indices: 44737049--44737260 Score: 176
Period size: 44 Copynumber: 4.6 Consensus size: 45
44737039 TAGATCACAT
*
44737049 CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGATAG
1 CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGATAA
** * * *
44737094 CAAATCTTATCTCTATGAATTTGCAGTAGAACAGACTGAAGCTATAAATCA
1 CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAG--AT--A--A
* * * * * *
44737145 CAAACCTTATCTCTCTGAAGTTGTAGTAGAGCAGGCTGAA-ATAA
1 CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGATAA
* * * * **
44737189 CAAACCTTATCCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGAT-A
1 CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGATAA
* *
44737233 TAAGTCTTATCTCCCTGAAATTGCAGTG
1 CAAATCTTATCTCCCTGAAATTGCAGTG
44737261 AAGCGGATTA
Statistics
Matches: 137, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
44 59 0.43
45 38 0.28
46 1 0.01
47 2 0.01
48 2 0.01
49 1 0.01
51 34 0.25
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGATAA
Found at i:44739103 original size:19 final size:19
Alignment explanation
Indices: 44739068--44739117 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
44739058 TTTATACATG
* *
44739068 TACATATTTATATTTTATA
1 TACATATCTATAATTTATA
* *
44739087 TATATTTCTATAATTTATA
1 TACATATCTATAATTTATA
44739106 TACATATCTATA
1 TACATATCTATA
44739118 TATATCTATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TACATATCTATAATTTATA
Found at i:44739877 original size:72 final size:72
Alignment explanation
Indices: 44739760--44739899 Score: 246
Period size: 72 Copynumber: 1.9 Consensus size: 72
44739750 ATTAGGTGAA
*
44739760 ATATAATTCTTTTTCTTGATTAACGTGAAATATGGCCTTTTCCCGAAAATTTTCAACATTTCAAT
1 ATATAATTCTTTTTCTTGATTAACATGAAATATGGCCTTTTCCCGAAAATTTTCAACATTTCAAT
44739825 AAACGTG
66 AAACGTG
*
44739832 ATATAATTTTTTTTCTTGATTAACATGAAATAT-GCCATTTTCCCGAAAATTTTCAACATTTCAA
1 ATATAATTCTTTTTCTTGATTAACATGAAATATGGCC-TTTTCCCGAAAATTTTCAACATTTCAA
44739896 TAAA
65 TAAA
44739900 TGATCGTATT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
71 3 0.05
72 62 0.95
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (72 bp):
ATATAATTCTTTTTCTTGATTAACATGAAATATGGCCTTTTCCCGAAAATTTTCAACATTTCAAT
AAACGTG
Found at i:44749301 original size:20 final size:20
Alignment explanation
Indices: 44749276--44749314 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
44749266 AGACAGAGCA
*
44749276 GAACATAACAGAGTAGAACT
1 GAACATAAAAGAGTAGAACT
44749296 GAACATAAAAGAGTAGAAC
1 GAACATAAAAGAGTAGAAC
44749315 AGAGCATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.13, G:0.21, T:0.13
Consensus pattern (20 bp):
GAACATAAAAGAGTAGAACT
Found at i:44756876 original size:32 final size:31
Alignment explanation
Indices: 44756840--44756939 Score: 105
Period size: 30 Copynumber: 3.2 Consensus size: 31
44756830 AATATAATAA
44756840 AATATTATCTAGATAAATATTAAATGTAATTT
1 AATATTATCTAGATAAATATTAAAT-TAATTT
* * * **
44756872 AATA-TCTC-ATATTAATATTAAATTAATAA
1 AATATTATCTAGATAAATATTAAATTAATTT
* *
44756901 AATACTATCTAGATAAATTTTAAATTAAATTT
1 AATATTATCTAGATAAATATTAAATT-AATTT
44756933 AATATTA
1 AATATTA
44756940 AATTCATTAA
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 8 0.15
30 16 0.30
31 16 0.30
32 13 0.25
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (31 bp):
AATATTATCTAGATAAATATTAAATTAATTT
Found at i:44758723 original size:5 final size:5
Alignment explanation
Indices: 44758715--44758745 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
44758705 ATATTTCGTG
44758715 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
44758746 AAAATTACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:44759552 original size:24 final size:27
Alignment explanation
Indices: 44759520--44759611 Score: 72
Period size: 24 Copynumber: 3.6 Consensus size: 27
44759510 TGGGGTTGTT
*
44759520 GAAATAGAAGAGAAAGAGA-G-GAGAAA
1 GAAA-AGAAGAGAAAGAAAGGAGAGAAA
* *
44759546 G-AAAGAAAAAAAAGAAAGGAGAGAAA
1 GAAAAGAAGAGAAAGAAAGGAGAGAAA
*
44759572 GAAAAGAAGAAGAAA-AAAGG-GACGGAA
1 GAAAAGAAG-AGAAAGAAAGGAGA-GAAA
44759599 -AAAA-AAGAGAAAG
1 GAAAAGAAGAGAAAG
44759612 CTTTTCGAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
24 16 0.30
25 6 0.11
26 14 0.26
27 14 0.26
28 4 0.07
ACGTcount: A:0.67, C:0.01, G:0.30, T:0.01
Consensus pattern (27 bp):
GAAAAGAAGAGAAAGAAAGGAGAGAAA
Found at i:44759788 original size:7 final size:7
Alignment explanation
Indices: 44759776--44759815 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
44759766 AGAAGAAAGG
44759776 AAAGAAA
1 AAAGAAA
44759783 AAAGAAA
1 AAAGAAA
44759790 AAAGAAA
1 AAAGAAA
44759797 AAGAGAAA
1 AA-AGAAA
44759805 AAGAGAAA
1 AA-AGAAA
44759813 AAA
1 AAA
44759816 ATTTAAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 17 0.53
8 15 0.47
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:44759798 original size:8 final size:8
Alignment explanation
Indices: 44759747--44759816 Score: 50
Period size: 8 Copynumber: 8.2 Consensus size: 8
44759737 TTTTCGAAAG
44759747 AAGAAAAA
1 AAGAAAAA
*
44759755 AAGAATAAGG
1 AAGAA-AA-A
*
44759765 AAGAAGAA
1 AAGAAAAA
*
44759773 AGGAAAGAA
1 AAGAAA-AA
*
44759782 AAAAGAAAA
1 AAGA-AAAA
44759791 AAGAAAAA
1 AAGAAAAA
*
44759799 GAGAAAAA
1 AAGAAAAA
*
44759807 GAGAAAAA
1 AAGAAAAA
44759815 AA
1 AA
44759817 TTTAAAACAG
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
8 29 0.60
9 12 0.25
10 7 0.15
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.01
Consensus pattern (8 bp):
AAGAAAAA
Found at i:44760164 original size:8 final size:7
Alignment explanation
Indices: 44760152--44760191 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
44760142 AGGAAGGGAA
44760152 AAAAAAG
1 AAAAAAG
44760159 AAAAAAG
1 AAAAAAG
*
44760166 AAAAGAGG
1 AAAA-AAG
44760174 AAAAAAGG
1 AAAAAA-G
44760182 AAAAAAG
1 AAAAAAG
44760189 AAA
1 AAA
44760192 GAAAAAACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 16 0.55
8 13 0.45
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:44760192 original size:22 final size:23
Alignment explanation
Indices: 44760133--44760193 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
44760123 GCCTAGCCAG
*
44760133 AAAA-AAAAAAGGAAG-GGAAAA
1 AAAAGAAAAAAGAAAGAGGAAAA
44760154 AAAAGAAAAAAGAAAAGAGG-AAA
1 AAAAGAAAAAAG-AAAGAGGAAAA
*
44760177 AAAGGAAAAAAGAAAGA
1 AAAAGAAAAAAGAAAGA
44760194 AAAAACCCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 4 0.11
22 12 0.34
23 17 0.49
24 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (23 bp):
AAAAGAAAAAAGAAAGAGGAAAA
Found at i:44760629 original size:18 final size:18
Alignment explanation
Indices: 44760594--44760649 Score: 80
Period size: 17 Copynumber: 3.2 Consensus size: 18
44760584 GTAATTTACC
44760594 AAAATTTTCGTG-TTTCA
1 AAAATTTTCGTGTTTTCA
44760611 AAAATTTTCGTGTTTTCAA
1 AAAATTTTCGTGTTTTC-A
*
44760630 AAAATTCTCGTGTTTT-A
1 AAAATTTTCGTGTTTTCA
44760647 AAA
1 AAA
44760650 TAAAATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.44
18 4 0.11
19 16 0.44
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (18 bp):
AAAATTTTCGTGTTTTCA
Found at i:44760634 original size:19 final size:19
Alignment explanation
Indices: 44760594--44760649 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
44760584 GTAATTTACC
44760594 AAAATTTTCGTG-TTTC-A
1 AAAATTTTCGTGTTTTCAA
44760611 AAAATTTTCGTGTTTTCAA
1 AAAATTTTCGTGTTTTCAA
*
44760630 AAAATTCTCGTGTTTT-AA
1 AAAATTTTCGTGTTTTCAA
44760648 AA
1 AA
44760650 TAAAATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
17 12 0.33
18 8 0.22
19 16 0.44
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (19 bp):
AAAATTTTCGTGTTTTCAA
Found at i:44766814 original size:11 final size:11
Alignment explanation
Indices: 44766798--44766839 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
44766788 TATTATGCCT
44766798 AAAAACAAAAA
1 AAAAACAAAAA
44766809 AAAAAC--AAA
1 AAAAACAAAAA
44766818 AAAAACAAAAA
1 AAAAACAAAAA
44766829 AATAAA-AAAAA
1 AA-AAACAAAAA
44766840 GACAAAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 9 0.32
11 16 0.57
12 3 0.11
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.02
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:44766818 original size:9 final size:10
Alignment explanation
Indices: 44766805--44766846 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
44766795 CCTAAAAACA
*
44766805 AAAAAAAAAC
1 AAAAAAAGAC
44766815 AAAAAAA-AC
1 AAAAAAAGAC
*
44766824 AAAAAAATA-
1 AAAAAAAGAC
44766833 AAAAAAAGAC
1 AAAAAAAGAC
44766843 AAAA
1 AAAA
44766847 TCAAGATGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 17 0.59
10 12 0.41
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAC
Found at i:44766846 original size:11 final size:10
Alignment explanation
Indices: 44766798--44766846 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
44766788 TATTATGCCT
44766798 AAAAACAAAA
1 AAAAACAAAA
44766808 AAAAA-ACAAA
1 AAAAACA-AAA
44766818 AAAAACAAAA
1 AAAAACAAAA
*
44766828 AAATA-AAAA
1 AAAAACAAAA
*
44766837 AAAGACAAAA
1 AAAAACAAAA
44766847 TCAAGATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 9 0.26
10 24 0.71
11 1 0.03
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:44766846 original size:17 final size:17
Alignment explanation
Indices: 44766798--44766839 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
44766788 TATTATGCCT
44766798 AAAAACAAA-AAAAAAAC
1 AAAAA-AAACAAAAAAAC
*
44766815 AAAAAAAACAAAAAAAT
1 AAAAAAAACAAAAAAAC
44766832 AAAAAAAA
1 AAAAAAAA
44766840 GACAAAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.02
Consensus pattern (17 bp):
AAAAAAAACAAAAAAAC
Found at i:44768004 original size:155 final size:152
Alignment explanation
Indices: 44767721--44769029 Score: 1530
Period size: 153 Copynumber: 8.6 Consensus size: 152
44767711 TGTTTTATTT
* * * *
44767721 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACACCGAGGTATTTTTTAATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTA-TTTTCAATTTCT
* * * * * *
44767786 GTTTTTCAAAAAAATTAACTCATATTGCGAGAGATAAGTTGAGCCTCGGGTCACACGCCGAGGTA
65 GTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGCCACACGCCGAGGTA
* *
44767851 TTTTTTAATTTTTGTTTTTCAAAAAA
128 -TTTTCAATTTCTGTTTTTCAAAAAA
* * * *
44767877 ATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTTAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTCAATTTCTG
* * * *
44767942 TTTTTCAAAAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCGGGCCACATGCCGAGGTAT
66 TTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGCCACACGCCGAGGTAT
* *
44768007 ATTTTAATTTCTTTTTTTC--AAAA
129 -TTTCAATTTCTGTTTTTCAAAAAA
* *
44768030 ATCAACTCATATTGGGAGAGGTGAGTTGAGCCTTGGGTCGCACGCCGAGGTATTTTCAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTCAATTTCTG
* * * **
44768095 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATTCCGAGGTAT
66 TTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGCCACACGCCGAGGTAT
*
44768160 CTTTTAATTTCTGTTTTTC--AAAA
129 -TTTCAATTTCTGTTTTTCAAAAAA
* *
44768183 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCCGCACGCCGAGGTATTTTCAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTCAATTTCTG
* * ***
44768248 TTTTTCAAAAATCAATTCATAATGAGAGAGGTGAGTTGAGCCTTGGGTTGCACGCCGAGGTATTT
66 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGCCACACGCCGAGGTATTT
*
44768313 TCAAGTTCTGTTTTTCAAAAAAA
131 TCAATTTCTGTTTTTC-AAAAAA
* * *
44768336 ATCAACTCATATTGTGAGAGGTGAGTTGAGCCACGGGCCGCACGCCGAGGTATTTTCAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTCAATTTCTG
* * * *
44768401 TTTTTCAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTTAGGTCGCACGCCGAGGTATTT
66 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGCCACACGCCGAGGTATTT
44768466 TCAATTTCTGTTTTTCAAAAAAAAA
131 TCAATTTCTGTTTTTC---AAAAAA
* * * *
44768491 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCACGGGCCGCACGCTGAGGTATTTTCAATTTTTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTCAATTTCTG
* * * ** *
44768556 TTTTTCAAAAATCAACGCATAATGCGAGATGTGAGTTAAG-CTTGGGGCTGCACGCCGATGTATT
66 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTT-GGGCCACACGCCGAGGTATT
44768620 TTCAATTTCTGTTTTTCAAAAAAAA
130 TTCAATTTCTGTTTTTC--AAAAAA
* * * *
44768645 ATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATCTTT-AATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTAT-TTTCAATTTCT
* * * * ** *
44768709 GTTTTTCAAAAATCAACTTATAATGCGATAGGTGATTTGAGCCTTGGGCCGCATACCGAGGTTTT
65 GTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGCCACACGCCGAGGTATT
* ****
44768774 TTCAATTTTTGTTTTT-TTTTAA
130 TTCAATTTCTGTTTTTCAAAAAA
* * * * * *
44768796 ATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGAGTCACATGCCGAGGTATCTTGAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTCAATTTCTG
* * *
44768861 TTTTCCAAATATCAACTCATAATACGAGAGGTGAGTTGAGCCTTGGGCCA-ACTGCCGAGGTACT
66 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGCCACAC-GCCGAGGTA-T
*
44768925 TTT-AATTTCTG--TTTC--AAGA
129 TTTCAATTTCTGTTTTTCAAAAAA
* * * * *
44768944 ATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG-GATTATTTTTCAATTTA
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG-GTA-TTTTCAATTTC
**
44769008 TGTTTTAAAAAAATCAACTCAT
64 TGTTTTTCAAAAATCAACTCAT
44769030 GGCTCGAGAG
Statistics
Matches: 1024, Mismatches: 114, Indels: 37
0.87 0.10 0.03
Matches are distributed among these distances:
147 1 0.00
148 43 0.04
149 30 0.03
150 19 0.02
151 165 0.16
152 4 0.00
153 354 0.35
154 129 0.13
155 231 0.23
156 48 0.05
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (152 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTCAATTTCTG
TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGCCACACGCCGAGGTATTT
TCAATTTCTGTTTTTCAAAAAA
Found at i:44768288 original size:75 final size:75
Alignment explanation
Indices: 44767700--44769095 Score: 1500
Period size: 75 Copynumber: 18.3 Consensus size: 75
44767690 TAAGAATTAT
*** * *
44767700 TTTTCAATTTCTG-TTTT-ATTTATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
*
44767763 CACCGAGGTA
66 CGCCGAGGTA
* * * *
44767773 TTTTTTAATTTCTGTTTTTCAAAAAAATTAACTCATATTGCGAGAGATAAGTTGAGCCTCGGGTC
1 -TTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
*
44767838 ACACGCCGAGGTA
63 GCACGCCGAGGTA
* * * *
44767851 TTTTTTAATTTTTGTTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
1 -TTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
*
44767916 ACACGCCGAGGTA
63 GCACGCCGAGGTA
* * * *
44767929 TTTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCGGGCCA
1 TTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCG
*
44767994 CATGCCGAGGTA
64 CACGCCGAGGTA
* * * *
44768006 TATTTTAATTTCTTTTTTTCAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTTGGGTCGC
1 T-TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
44768071 ACGCCGAGGTA
65 ACGCCGAGGTA
*
44768082 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCG
**
44768147 CATTCCGAGGTA
64 CACGCCGAGGTA
* * *
44768159 TCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCCGC
1 T-TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
44768224 ACGCCGAGGTA
65 ACGCCGAGGTA
* * * * *
44768235 TTTTCAATTTCTGTTTTTCAAAAATCAATTCATAATGAGAGAGGTGAGTTGAGCCTTGGGTTGCA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
44768300 CGCCGAGGTA
66 CGCCGAGGTA
* * * *
44768310 TTTTCAAGTTCTGTTTTTCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCACGGGCC
1 TTTTCAATTTCTGTTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
44768375 GCACGCCGAGGTA
63 GCACGCCGAGGTA
* * **
44768388 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTTAGGTCGCA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
44768453 CGCCGAGGTA
66 CGCCGAGGTA
*
44768463 TTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCACGGG
1 TTTTCAATTTCTGTTTTTC-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* *
44768528 CCGCACGCTGAGGTA
61 TCGCACGCCGAGGTA
* * * * * * *
44768543 TTTTCAATTTTTGTTTTTCAAAAATCAACGCATAATGCGAGATGTGAGTTAAG-CTTGGGGCTGC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-GC
*
44768607 ACGCCGATGTA
65 ACGCCGAGGTA
* *
44768618 TTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGT
1 TTTTCAATTTCTGTTTTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* *
44768683 CACATGCCGAGGTA
62 CGCACGCCGAGGTA
* * * * * *
44768697 TCTTT-AATTTCTGTTTTTCAAAAATCAACTTATAATGCGATAGGTGATTTGAGCCTTGGGCCGC
1 T-TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
** *
44768761 ATACCGAGGTT
65 ACGCCGAGGTA
* *** * * *
44768772 TTTTCAATTTTTGTTTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGAGTCAC
1 TTTTCAATTTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
*
44768837 ATGCCGAGGTA
65 ACGCCGAGGTA
* * * * * * *
44768848 TCTTGAATTTCTGTTTTCCAAATATCAACTCATAATACGAGAGGTGAGTTGAGCCTTGGG-C-CA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC-
44768911 ACTGCCGAGGTA
65 AC-GCCGAGGTA
* * *
44768923 CTTTT-AATTTCTG--TTTCAAGAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCGC
1 -TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
* *
44768985 ACGCTG-GATTA
65 ACGCCGAG-GTA
* ** ** * *
44768996 TTTTTCAATTTATGTTTTAAAAAAATCAACTCATGGCT-CGAGAGGTGAATTGAGCTTCGGGTCG
1 -TTTTCAATTTCTGTTTTTCAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCGGGTCG
* * * *
44769060 CGCGTCAAGCTA
64 CACGCCGAGGTA
* * *
44769072 TTTTCGATCTCTATTTTTCAAAAA
1 TTTTCAATTTCTGTTTTTCAAAAA
44769096 AAAAAGGTTT
Statistics
Matches: 1122, Mismatches: 164, Indels: 71
0.83 0.12 0.05
Matches are distributed among these distances:
72 1 0.00
73 49 0.04
74 32 0.03
75 357 0.32
76 207 0.18
77 126 0.11
78 221 0.20
79 54 0.05
80 75 0.07
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
CGCCGAGGTA
Found at i:44770026 original size:13 final size:12
Alignment explanation
Indices: 44769991--44770033 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
44769981 AAGAGAGGAG
44769991 AAAGAAAGAAA-A
1 AAAG-AAGAAAGA
*
44770003 AAAGAAAAAAGA
1 AAAGAAGAAAGA
44770015 AAAGAGAGAAAGA
1 AAAGA-AGAAAGA
44770028 AAAGAA
1 AAAGAA
44770034 AAAAAAGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 5 0.19
12 11 0.41
13 11 0.41
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAGAAGAAAGA
Found at i:44770038 original size:8 final size:8
Alignment explanation
Indices: 44769989--44770038 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
44769979 GAAAGAGAGG
*
44769989 AGAAAGAA
1 AGAAAAAA
44769997 AGAAAAAA
1 AGAAAAAA
44770005 AG-AAAAA
1 AGAAAAAA
*
44770012 AGAAAAGAG
1 AGAAAA-AA
44770021 AGAAAGAAA
1 AGAAA-AAA
44770030 AGAAAAAA
1 AGAAAAAA
44770038 A
1 A
44770039 AGGGATGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 7 0.19
8 16 0.44
9 12 0.33
10 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:44770068 original size:20 final size:19
Alignment explanation
Indices: 44770002--44770068 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
44769992 AAGAAAGAAA
* *
44770002 AAAAGAAAAAAGAAAAGAG
1 AAAAGAAAAAAAAAAAAAG
*
44770021 AGAAAGAAAAGAAAAAAAAG
1 A-AAAGAAAAAAAAAAAAAG
** *
44770041 GGATGAAAAACAAAAAAAAG
1 AAAAGAAAAA-AAAAAAAAG
44770061 AAAAGAAA
1 AAAAGAAA
44770069 GCTTTTCGGA
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
19 7 0.19
20 29 0.81
ACGTcount: A:0.78, C:0.01, G:0.19, T:0.01
Consensus pattern (19 bp):
AAAAGAAAAAAAAAAAAAG
Found at i:44770233 original size:6 final size:6
Alignment explanation
Indices: 44770207--44770273 Score: 50
Period size: 6 Copynumber: 11.3 Consensus size: 6
44770197 TTTTCAAAAG
* * * * *
44770207 AAGAAA AA-AGA AAGAAG AAGAAA AAGAAG AAG-AA ATGAAA TA-AAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
44770252 AAGAAAA AAGAAA AAGAGAA AA
1 AAG-AAA AAGAAA AAGA-AA AA
44770274 AAATTAAAAC
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
5 11 0.24
6 25 0.54
7 10 0.22
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (6 bp):
AAGAAA
Found at i:44770234 original size:12 final size:12
Alignment explanation
Indices: 44770202--44770241 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
44770192 TAGGGTTTTC
*
44770202 AAAAGAAGAAAAA
1 AAAAGAAG-AAGA
44770215 AGAAAGAAGAAGA
1 A-AAAGAAGAAGA
44770228 AAAAGAAGAAGA
1 AAAAGAAGAAGA
44770240 AA
1 AA
44770242 TGAAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 13 0.52
13 5 0.20
14 7 0.28
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAAAGAAGAAGA
Found at i:44770237 original size:26 final size:24
Alignment explanation
Indices: 44770202--44770276 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 24
44770192 TAGGGTTTTC
44770202 AAAAGAAGAAAAAAGAAAGAAGAAGA
1 AAAAGAAGAAAAAAGAAAGAA-AA-A
* *
44770228 AAAAGAAGAAGAAATGAAATAAAAA
1 AAAAGAAGAA-AAAAGAAAGAAAAA
*
44770253 AGAAAAAAGAAAAAGAGAAA-AAAA
1 A-AAAGAAGAAAAA-AGAAAGAAAA
44770277 TTAAAACAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
25 9 0.21
26 24 0.57
27 9 0.21
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.03
Consensus pattern (24 bp):
AAAAGAAGAAAAAAGAAAGAAAAA
Found at i:44770271 original size:15 final size:15
Alignment explanation
Indices: 44770202--44770275 Score: 64
Period size: 15 Copynumber: 4.9 Consensus size: 15
44770192 TAGGGTTTTC
44770202 AAAAGAAGAAAAAAGA
1 AAAAG-AGAAAAAAGA
44770218 AAGAAGA-AGAAAAAGA
1 AA-AAGAGA-AAAAAGA
* * *
44770234 AGAAGA-AATGAAATA
1 AAAAGAGAA-AAAAGA
44770249 AAAA-AGAAAAAAGA
1 AAAAGAGAAAAAAGA
44770263 AAAAGAGAAAAAA
1 AAAAGAGAAAAAA
44770276 ATTAAAACAG
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
14 10 0.21
15 23 0.49
16 11 0.23
17 3 0.06
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (15 bp):
AAAAGAGAAAAAAGA
Found at i:44770420 original size:17 final size:17
Alignment explanation
Indices: 44770389--44770422 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44770379 TCAAGCCTAA
* *
44770389 AAAGAAAAGAGAAGAAG
1 AAAGAAAAAAAAAGAAG
44770406 AAAGAAAAAAAAAGAAG
1 AAAGAAAAAAAAAGAAG
44770423 CAGGTGAGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAAAGAAG
Found at i:44770639 original size:11 final size:11
Alignment explanation
Indices: 44770608--44770667 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
44770598 AGGGAAGGGG
*
44770608 AAAAAAAGAAA
1 AAAAAAAGAGA
44770619 AAAGAAAAGAGA
1 AAA-AAAAGAGA
*
44770631 AAAAAAAGAGG
1 AAAAAAAGAGA
44770642 AAAAAAAG-GA
1 AAAAAAAGAGA
44770652 AAAAAGAA-AGA
1 AAAAA-AAGAGA
44770663 AAAAA
1 AAAAA
44770668 CCCGGTCGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
10 6 0.14
11 27 0.63
12 10 0.23
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAGA
Found at i:44771081 original size:17 final size:18
Alignment explanation
Indices: 44771043--44771081 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
44771033 GTAATTTACC
44771043 AAAATTTTCGTGTTTTCAA
1 AAAATTTTCGTGTTTT-AA
44771062 AAAATTCTT-GTGTTTTAA
1 AAAATT-TTCGTGTTTTAA
44771080 AA
1 AA
44771082 TAAAATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 13 0.68
20 2 0.11
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (18 bp):
AAAATTTTCGTGTTTTAA
Found at i:44771657 original size:22 final size:22
Alignment explanation
Indices: 44771626--44771669 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
44771616 TACACCAAAA
*
44771626 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
44771648 TAGGCCTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
44771670 AGTGTCGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.20, G:0.27, T:0.43
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:44771768 original size:43 final size:43
Alignment explanation
Indices: 44771707--44771973 Score: 363
Period size: 43 Copynumber: 6.2 Consensus size: 43
44771697 CCAAAAAAAG
*
44771707 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
*
44771750 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
44771793 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAAT
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * *
44771836 GCCGCTAAAGACCACGACTTTTAGCGGCGCTTTTCCCTCAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
** **
44771879 GCCGCTAAAGACCAAGACCTTTAGCAACGCTTTTATCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * * * ** *
44771922 ACCACTATAGACCATGACCTTTAGCGGCGCTTCTAGCAAAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
44771965 GCCGCTAAA
1 GCCGCTAAA
44771974 AACATAAACT
Statistics
Matches: 195, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 195 1.00
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (43 bp):
GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:44773683 original size:118 final size:119
Alignment explanation
Indices: 44773464--44773700 Score: 458
Period size: 118 Copynumber: 2.0 Consensus size: 119
44773454 TAGCTGAAAT
44773464 GCACATGATAAACCCAAATAGATGGAAACTCGGTTCACCATATATGCAACAATAATGAAAAATAA
1 GCACATGATAAACCCAAATAGATGGAAACTCGGTTCACCATATATGCAACAATAATGAAAAATAA
*
44773529 GAATCTGAAAGTGGATTAAGCAAATGAAATACAACGTGATTAATGCAGAACACG
66 GAATCTGAAAGTGGATTAAGCAAATGAAATAAAACGTGATTAATGCAGAACACG
44773583 GCACATGAT-AACCCAAATAGATGGAAACTCGGTTCACCATATATGCAACAATAATGAAAAATAA
1 GCACATGATAAACCCAAATAGATGGAAACTCGGTTCACCATATATGCAACAATAATGAAAAATAA
44773647 GAATCTGAAAGTGGATTAAGCAAATGAAATAAAACGTGATTAATGCAGAACACG
66 GAATCTGAAAGTGGATTAAGCAAATGAAATAAAACGTGATTAATGCAGAACACG
44773701 ATTTAAATCT
Statistics
Matches: 117, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
118 108 0.92
119 9 0.08
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.20
Consensus pattern (119 bp):
GCACATGATAAACCCAAATAGATGGAAACTCGGTTCACCATATATGCAACAATAATGAAAAATAA
GAATCTGAAAGTGGATTAAGCAAATGAAATAAAACGTGATTAATGCAGAACACG
Found at i:44775841 original size:97 final size:99
Alignment explanation
Indices: 44775685--44775880 Score: 369
Period size: 97 Copynumber: 2.0 Consensus size: 99
44775675 ATAAAAACGC
44775685 CGCTATTGCTTATCTTTTGTGGCGTTTTTTATAGAAACGCCGCAAAAAATTATTTCATTTGAACA
1 CGCTATTGCTTATCTTTTGTGGCGTTTTTTATAGAAACGCCGCAAAAAATTATTTCATTTGAACA
*
44775750 AAACGACCCCGTTTTACTCAGCTAAAAATATTTT
66 AAACGACCCCGTTTTACTCAGCTAAAAAAATTTT
44775784 CGCTATTGC-T-TCTTTTGTGGCGTTTTTTATAGAAACGCCGCAAAAAATTATTTCATTTGAACA
1 CGCTATTGCTTATCTTTTGTGGCGTTTTTTATAGAAACGCCGCAAAAAATTATTTCATTTGAACA
44775847 AAACGACCCCGTTTTACTCAGCTAAAAAAATTTT
66 AAACGACCCCGTTTTACTCAGCTAAAAAAATTTT
44775881 ATTTTGTCTG
Statistics
Matches: 96, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
97 86 0.90
98 1 0.01
99 9 0.09
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (99 bp):
CGCTATTGCTTATCTTTTGTGGCGTTTTTTATAGAAACGCCGCAAAAAATTATTTCATTTGAACA
AAACGACCCCGTTTTACTCAGCTAAAAAAATTTT
Found at i:44777690 original size:81 final size:83
Alignment explanation
Indices: 44777521--44777694 Score: 203
Period size: 81 Copynumber: 2.1 Consensus size: 83
44777511 CCCTAACTAC
* * * *
44777521 TAACCCCTAAACCTTATTTAATATATAAATTAAAAAATACTAACTAATCTAAACCTTAAATCCTA
1 TAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAACTAATCTAAACCCTAAACCCTA
* * *
44777586 ACCCGAATACCTAACCCC
66 ACCCGAACACCAAACCCA
* *
44777604 TAACCCCTAAACATTATTT-A-ATATAAATTAAAACACACTAATTAATCTAAACCCTAAACCCTA
1 TAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAACTAATCTAAACCCTAAACCCTA
* * *
44777667 A-CCTAACATCAAATCCA
66 ACCCGAACACCAAACCCA
44777684 TGAA-CCCTAAA
1 T-AACCCCTAAA
44777695 TCCCTAACTC
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
80 18 0.23
81 41 0.53
82 1 0.01
83 18 0.23
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.26
Consensus pattern (83 bp):
TAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAACTAATCTAAACCCTAAACCCTA
ACCCGAACACCAAACCCA
Found at i:44777715 original size:14 final size:14
Alignment explanation
Indices: 44777693--44777730 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
44777683 ATGAACCCTA
44777693 AATCCCTAACTCTT
1 AATCCCTAACTCTT
*
44777707 AATCTCTAACTCTT
1 AATCCCTAACTCTT
44777721 AATCCCTAAC
1 AATCCCTAAC
44777731 CCCTAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (14 bp):
AATCCCTAACTCTT
Found at i:44777749 original size:28 final size:29
Alignment explanation
Indices: 44777686--44777764 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 29
44777676 CAAATCCATG
* * * *
44777686 AACCCTAAATCCCTAA-CTCTTAATCTCT
1 AACCCTTAATCCCTAACCCCTAAATCACT
*
44777714 AACTCTTAATCCCTAACCCCTAAATCAC-
1 AACCCTTAATCCCTAACCCCTAAATCACT
* **
44777742 AACCCTTAAACCAGAACCCCTAA
1 AACCCTTAATCCCTAACCCCTAA
44777765 TCCATAGTCC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 33 0.80
29 8 0.20
ACGTcount: A:0.37, C:0.38, G:0.01, T:0.24
Consensus pattern (29 bp):
AACCCTTAATCCCTAACCCCTAAATCACT
Found at i:44777856 original size:14 final size:14
Alignment explanation
Indices: 44777837--44777874 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
44777827 ATCCTAAATT
44777837 AACCATATATCCTA
1 AACCATATATCCTA
*
44777851 AACCATATACCCTA
1 AACCATATATCCTA
*
44777865 AATCATATAT
1 AACCATATAT
44777875 ATTAAACCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (14 bp):
AACCATATATCCTA
Found at i:44777993 original size:41 final size:41
Alignment explanation
Indices: 44777932--44778131 Score: 357
Period size: 41 Copynumber: 4.9 Consensus size: 41
44777922 ATACTACCGT
44777932 ATTAGCGGCGCTTTAT-CAAAAACGCCGCTAAAGCCCAGAGC
1 ATTAGCGGCGCTTT-TCCAAAAACGCCGCTAAAGCCCAGAGC
* * *
44777973 ATTAGCGGCGCTTTACCAAAAATGCCGCTAAAGCACAGAGC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAGC
44778014 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAGC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAGC
44778055 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAGC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAGC
44778096 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCC
44778132 CGAATGGGGG
Statistics
Matches: 152, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
41 152 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.17
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAGC
Found at i:44778280 original size:40 final size:39
Alignment explanation
Indices: 44778172--44778282 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 39
44778162 TCTCAAAAAA
* * * * *
44778172 CGCCTCTAATTCTCATTTTTAGCGGCGCTTTCCCTAAGG
1 CGCCGCTAATGCTCATTTTTAGCGGCGTTTTACCTAAAG
* * *
44778211 CGCCGCTAATGCTCTATCTTTAGCAGCGTTTTACGTAAAG
1 CGCCGCTAATGCTC-ATTTTTAGCGGCGTTTTACCTAAAG
44778251 CGCCGCTAATGCTCGATTTTTAGCGGCGTTTT
1 CGCCGCTAATGCTC-ATTTTTAGCGGCGTTTT
44778283 GTATCCAAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 12 0.20
40 48 0.80
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (39 bp):
CGCCGCTAATGCTCATTTTTAGCGGCGTTTTACCTAAAG
Found at i:44786114 original size:19 final size:18
Alignment explanation
Indices: 44786068--44786115 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
44786058 TACTCCTCAC
*
44786068 TATTATATTATTGTATTA
1 TATTATATTTTTGTATTA
*
44786086 TACTATTATTTTTGTATTA
1 TATTA-TATTTTTGTATTA
44786105 TTATTATATTT
1 -TATTATATTT
44786116 CAATTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.16
19 17 0.68
20 4 0.16
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (18 bp):
TATTATATTTTTGTATTA
Found at i:44786124 original size:19 final size:18
Alignment explanation
Indices: 44786102--44786183 Score: 66
Period size: 18 Copynumber: 4.6 Consensus size: 18
44786092 TATTTTTGTA
44786102 TTATTATTATATTTCAATT
1 TTATTATTATATTT-AATT
44786121 TTATTAATT-TATTTAAGTT
1 TTATT-ATTATATTTAA-TT
* *
44786140 TTAATA-TAT-TTTAATC
1 TTATTATTATATTTAATT
44786156 TTATTATTAT-TATT-ATT
1 TTATTATTATAT-TTAATT
44786173 ATTATTATTAT
1 -TTATTATTAT
44786184 TGTTATATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
16 6 0.11
17 12 0.23
18 16 0.30
19 16 0.30
20 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (18 bp):
TTATTATTATATTTAATT
Found at i:44786164 original size:3 final size:3
Alignment explanation
Indices: 44786156--44786198 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
44786146 TATTTTAATC
*
44786156 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA -TA TATA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T
44786199 AATTTATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:44791352 original size:20 final size:20
Alignment explanation
Indices: 44791329--44791370 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
44791319 TTTTTAAAAA
* *
44791329 TTAAAAATCATTAAAAGTAT
1 TTAAAAATCATAAAAAATAT
*
44791349 TTAAAAATTATAAAAAATAT
1 TTAAAAATCATAAAAAATAT
44791369 TT
1 TT
44791371 TTAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAAAAATCATAAAAAATAT
Found at i:44794513 original size:16 final size:17
Alignment explanation
Indices: 44794492--44794524 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44794482 TAAATCTATA
44794492 TACATA-TATATTTTTG
1 TACATATTATATTTTTG
44794508 TACATATTTATATTTTT
1 TACATA-TTATATTTTT
44794525 TTTTCAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (17 bp):
TACATATTATATTTTTG
Found at i:44794558 original size:19 final size:19
Alignment explanation
Indices: 44794496--44794558 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 19
44794486 TCTATATACA
*
44794496 TATATATTTTTGTACATATT
1 TATATATTTTTCT-CATATT
* * **
44794516 TATATTTTTTTTTCA-AAC
1 TATATATTTTTCTCATATT
44794534 TA-ATATTTTTCTCATATT
1 TATATATTTTTCTCATATT
44794552 TATATAT
1 TATATAT
44794559 ATACACATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
17 10 0.30
18 6 0.18
19 6 0.18
20 11 0.33
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (19 bp):
TATATATTTTTCTCATATT
Found at i:44794615 original size:24 final size:24
Alignment explanation
Indices: 44794547--44794630 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 24
44794537 TATTTTTCTC
*
44794547 ATATTTATATATATACACATATTTTAT
1 ATATTT-TATATATA-A-ATATTATAT
*
44794574 TTATTTTGATAATATAAATATTATAT
1 ATATTTT-AT-ATATAAATATTATAT
* *
44794600 ATATTTTATATGTAAATCA-TATGT
1 ATATTTTATATATAAAT-ATTATAT
44794624 ATATTTT
1 ATATTTT
44794631 TAAGCTTCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
24 18 0.37
25 3 0.06
26 15 0.31
27 8 0.16
28 5 0.10
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
ATATTTTATATATAAATATTATAT
Found at i:44799465 original size:111 final size:111
Alignment explanation
Indices: 44799271--44799484 Score: 320
Period size: 111 Copynumber: 1.9 Consensus size: 111
44799261 AACTGTACCC
* * * *
44799271 AGATTAATTCATGGAGAGATCTGGCACAGGCATTCATAAAGCAGTACAGCCATGTGACTGACATG
1 AGATTAATTCATGGAGAGATCTAGCACAGGCATTCATAAAGCAGTACAACCATGTAACCGACATG
* * * * *
44799336 GTACCTGATAGGATCACTCTGCAGAATATGGAAAAGAAACCAGGCA
66 GTACCTGATAGAATCACTCTACAAAACATGAAAAAGAAACCAGGCA
* *
44799382 AGATTAATTCATGGAGAGATTTAGCACAGGCATTCATAAAGCAGTACAATCATGTAACCGACATG
1 AGATTAATTCATGGAGAGATCTAGCACAGGCATTCATAAAGCAGTACAACCATGTAACCGACATG
*
44799447 GTACTTGATAGAATCACTCTACAAAACATGAAAAAGAA
66 GTACCTGATAGAATCACTCTACAAAACATGAAAAAGAA
44799485 GCCCAGTGAA
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
111 91 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (111 bp):
AGATTAATTCATGGAGAGATCTAGCACAGGCATTCATAAAGCAGTACAACCATGTAACCGACATG
GTACCTGATAGAATCACTCTACAAAACATGAAAAAGAAACCAGGCA
Found at i:44801586 original size:14 final size:15
Alignment explanation
Indices: 44801558--44801586 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44801548 ATTGTTGGTG
44801558 GGAAAATGAGCTTTA
1 GGAAAATGAGCTTTA
44801573 GGAAAATG-GCTTTA
1 GGAAAATGAGCTTTA
44801587 CCAGGAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (15 bp):
GGAAAATGAGCTTTA
Found at i:44807011 original size:44 final size:42
Alignment explanation
Indices: 44806880--44807680 Score: 400
Period size: 44 Copynumber: 18.5 Consensus size: 42
44806870 CCGACAATCC
* * *
44806880 TATCTCCCTGAAGTTACAGTGGAGC-GAATTAAAATCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAGAAGCA-AG-TCT
* * * * * * *
44806924 TATCTCTCTAAAGTTGCAG-AGAGCAGA-TCGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAAGCAAGTCT
*
44806964 TATCTCCCTGAAGTTGCAGTGGAGCAAGCTTAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGC-AGATTAG-AAGCAAGTCT
* * * *
44807008 TATC-CTCCTGAAGTTGCAAT-GAGGCAGACTAAAGATGGCAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGA-T-TAGA-AGCAAGTCT
* *
44807053 TATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAAG-C-A-AGTCT
* * *
44807097 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAAGCA-AG-TCT
* * * * * * *
44807141 TATCTCTCTGAAGTTGCAG-AGAGCATA-TCGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAAGCAAGTCT
* * * *
44807181 TATCTCTCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGTTT
1 TATCTCCCTGAAGTTGCAGTGGAGCA-GATTAG-AAGCAAGTCT
* *
44807225 TATC-CTCCTGAAGTTGCAGT-GAGGCAGACT-GAAGGTGACAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAGAA---G-CAAGTCT
* * * *
44807270 TATCTCCCTGAAGTTACAGTGGAGTAGATTA-AAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAAG-C-A-AGTCT
* * *
44807314 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAAGCA-AG-TCT
* * * * * * * *
44807358 TATCTCTCTAAAGTTGCAG-AGAGAAGATCA-CATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAAGCAAGTCT
* * * *
44807398 TATCTCTCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAGTTT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAG-AAGCAAGTCT
* *
44807442 TATC-CTCCTGAAGTTGCAGTAGAGCAGATTA-AAGCCGGCAA-TCC
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGATTAGAA----GCAAGTCT
* * * * *
44807486 TATCTCCCTGAAGCTGCAGTGGAGCGGGTTAAAATCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAAGCA-AG-TCT
* * * * * *
44807530 TATCTCTCTGAAGTTGTAG-AGAGCAGATT-GCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAAGCAAGTCT
* * * * *
44807570 TATCTCCTTGAAGTTGCAATGGAGCAGACTAAGTAGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAG-AAGCAAGTCT
** * * *
44807614 TATCTTTCTGAAGTTACAGTGGAGCAGATTA-AAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAAG-C-A-AGTCT
*
44807658 TATCTCCCTGAAGTCGCAGTGGA
1 TATCTCCCTGAAGTTGCAGTGGA
44807681 ATAGACTAAG
Statistics
Matches: 576, Mismatches: 126, Indels: 110
0.71 0.16 0.14
Matches are distributed among these distances:
40 81 0.14
41 38 0.07
42 26 0.05
43 50 0.09
44 304 0.53
45 71 0.12
46 6 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (42 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAAGCAAGTCT
Found at i:44807107 original size:89 final size:87
Alignment explanation
Indices: 44806961--44807159 Score: 217
Period size: 89 Copynumber: 2.3 Consensus size: 87
44806951 TCGCATCTAG
* * *
44806961 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAGCTTAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTAG-AAGCAAATCCTATCCTCCTGAAGTTGCA
**
44807026 AT-GAGGCAGACTAAAGATGGCAAA
65 ATGGA-GCAGACTAAA-ATCACAAA
44807050 TCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTA-AAGCCGATAATCCTAT-CTCCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTAGAAG-C-A-AATCCTATCCT-CCTGAAGTT
* * * *
44807112 GCAGTGGAGCGGATTAAAATCACAGA
62 GCAATGGAGCAGACTAAAATCACAAA
*
44807138 TCTTATCTCTCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAG
44807160 AGAGCATATC
Statistics
Matches: 95, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
86 3 0.03
87 1 0.01
88 34 0.36
89 55 0.58
90 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (87 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTAGAAGCAAATCCTATCCTCCTGAAGTTGCAA
TGGAGCAGACTAAAATCACAAA
Found at i:44807250 original size:217 final size:217
Alignment explanation
Indices: 44806868--44807510 Score: 1056
Period size: 217 Copynumber: 3.0 Consensus size: 217
44806858 ACAAATCCAT
* * *
44806868 AGCCGACAATCCTATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATCACAGATCTTATCTCTCT
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
* *
44806933 AAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGCTTAGT
66 AAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAAGCTAAGT
* *
44806998 AAGCAAGTCTTATCCTCCTGAAGTTGCAATGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTG
131 AAGCAAGTTTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTG
44807063 AAGTTGCAGTGGAGCAGATTAA
196 AAGTTGCAGTGGAGCAGATTAA
44807085 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
* * *
44807150 GAAGTTGCAGAGAGCATATCGCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGGCTAAGT
66 AAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAAGCTAAGT
* * *
44807215 AAGCAAGTTTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGGTGACAAATCTTATCTCCCTG
131 AAGCAAGTTTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTG
* *
44807280 AAGTTACAGTGGAGTAGATTAA
196 AAGTTGCAGTGGAGCAGATTAA
44807302 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
* * *
44807367 AAAGTTGCAGAGAGAAGATCACATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAAACTAAGT
66 AAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAAGCTAAGT
* ** *
44807432 AAGCAAGTTTTATCCTCCTGAAGTTGCAGT-AGAGCAGATTAAAGCCGGC-AATCCTATCTCCCT
131 AAGCAAGTTTTATCCTCCTGAAGTTGCAGTGAG-GCAGACTAAAGATGGCAAATCTTATCTCCCT
*
44807495 GAAGCTGCAGTGGAGC
195 GAAGTTGCAGTGGAGC
44807511 GGGTTAAAAT
Statistics
Matches: 395, Mismatches: 30, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
216 28 0.07
217 367 0.93
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (217 bp):
AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
AAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAAGCTAAGT
AAGCAAGTTTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTG
AAGTTGCAGTGGAGCAGATTAA
Found at i:44807487 original size:172 final size:172
Alignment explanation
Indices: 44807263--44807680 Score: 624
Period size: 172 Copynumber: 2.4 Consensus size: 172
44807253 CTGAAGGTGA
*
44807263 CAAATCTTAT-CTCCCTGAAGTTACAGTGGAGTAGATTAAAGCCGATAATCCTATCTCCCTGAAG
1 CAAATCTTATCCT-CCTGAAGTTACAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAG
44807327 TTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGAAGATCACATC
65 TTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGAAGATCACATC
*
44807392 TAGTCTTATCT-CTCTGAAGTTGCAGTGGAGCAAACTAAGTAAG
130 TAGTCTTATCTCCT-TGAAGTTGCAATGGAGCAAACTAAGTAAG
* * * * ** *
44807435 CAAGTTTTATCCTCCTGAAGTTGCAGTAGAGCAGATTAAAGCCGGCAATCCTATCTCCCTGAAGC
1 CAAATCTTATCCTCCTGAAGTTACAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGT
* * * * **
44807500 TGCAGTGGAGCGGGTTAAAATCACAGATCTTATCTCTCTGAAGTTGTAGAGAGCAGATTGCATCT
66 TGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGAAGATCACATCT
* *
44807565 AGTCTTATCTCCTTGAAGTTGCAATGGAGCAGACTAAGTAGG
131 AGTCTTATCTCCTTGAAGTTGCAATGGAGCAAACTAAGTAAG
* *
44807607 CAAATCTTATCTTTCTGAAGTTACAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGT
1 CAAATCTTATCCTCCTGAAGTTACAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGT
*
44807672 CGCAGTGGA
66 TGCAGTGGA
44807681 ATAGACTAAG
Statistics
Matches: 217, Mismatches: 27, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
172 213 0.98
173 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (172 bp):
CAAATCTTATCCTCCTGAAGTTACAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGT
TGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGAAGATCACATCT
AGTCTTATCTCCTTGAAGTTGCAATGGAGCAAACTAAGTAAG
Found at i:44809209 original size:16 final size:17
Alignment explanation
Indices: 44809188--44809220 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44809178 TAAATCTATA
44809188 TACATA-TATATTTTTG
1 TACATATTATATTTTTG
44809204 TACATATTTATATTTTT
1 TACATA-TTATATTTTT
44809221 TTTTCAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (17 bp):
TACATATTATATTTTTG
Found at i:44809254 original size:19 final size:19
Alignment explanation
Indices: 44809192--44809254 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 19
44809182 TCTATATACA
*
44809192 TATATATTTTTGTACATATT
1 TATATATTTTTCT-CATATT
* * **
44809212 TATATTTTTTTTTCA-AAC
1 TATATATTTTTCTCATATT
44809230 TA-ATATTTTTCTCATATT
1 TATATATTTTTCTCATATT
44809248 TATATAT
1 TATATAT
44809255 ATACACATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
17 10 0.30
18 6 0.18
19 6 0.18
20 11 0.33
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (19 bp):
TATATATTTTTCTCATATT
Found at i:44809311 original size:24 final size:24
Alignment explanation
Indices: 44809243--44809326 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 24
44809233 TATTTTTCTC
*
44809243 ATATTTATATATATACACATATTTTAT
1 ATATTT-TATATATA-A-ATATTATAT
*
44809270 TTATTTTGATAATATAAATATTATAT
1 ATATTTT-AT-ATATAAATATTATAT
* *
44809296 ATATTTTATATGTAAATCA-TATGT
1 ATATTTTATATATAAAT-ATTATAT
44809320 ATATTTT
1 ATATTTT
44809327 TAAGCTTCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
24 18 0.37
25 3 0.06
26 15 0.31
27 8 0.16
28 5 0.10
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
ATATTTTATATATAAATATTATAT
Found at i:44817946 original size:41 final size:41
Alignment explanation
Indices: 44817839--44817951 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 41
44817829 ATTTGAGATT
* *
44817839 TTCAGGCTTAATGCCTAGCAGGC-TTGATGTCGGTGAATTAA
1 TTCAGGCTTTATGCCTAGCAGGCTTTG-TGCCGGTGAATTAA
* *
44817880 TTCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGT-A
1 TTCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTG-AAT-TAA
* *
44817922 -TCAGGCTTTGTGCCTAGCAGGCTTTATGCC
1 TTCAGGCTTTATGCCTAGCAGGCTTTGTGCC
44817952 AGTGCTTTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 53 0.87
42 7 0.11
43 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (41 bp):
TTCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTAA
Found at i:44824054 original size:14 final size:14
Alignment explanation
Indices: 44824035--44824063 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44824025 CAATGTCATA
44824035 TCCCAGATATGGTC
1 TCCCAGATATGGTC
44824049 TCCCAGATATGGTC
1 TCCCAGATATGGTC
44824063 T
1 T
44824064 TACATGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (14 bp):
TCCCAGATATGGTC
Found at i:44824139 original size:50 final size:50
Alignment explanation
Indices: 44824049--44824317 Score: 358
Period size: 50 Copynumber: 5.4 Consensus size: 50
44824039 AGATATGGTC
* ** * * * * * *
44824049 TCCCAGATATGGTCTTACATGGGAAATTTCATATCAGTGCCCATGCCATA
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * ***
44824099 TCCTAGAAATGGTCTTATGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
44824149 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* **
44824199 TCCCAGACATTGTCTTACATGGGACCTCTCATCTCGGTGCCAACATCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
44824249 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGTCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
*
44824299 TCCTAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
44824318 CTAGCTCACA
Statistics
Matches: 192, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 192 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:44824351 original size:48 final size:48
Alignment explanation
Indices: 44824121--44824363 Score: 202
Period size: 50 Copynumber: 4.9 Consensus size: 48
44824111 TCTTATGGGG
* * * * *
44824121 GACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAT
1 GACCTCACATATCGATGTCAACGCCATGTCCTAGACATGGTCTTACAT
* * * * * *
44824169 GGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATTGTCTTACAT
1 --GACCTCACATATCGATGTCAACGCCATGTCCTAGACATGGTCTTACAT
* * * * ** *
44824219 GGGACCTCTCATCTCGGTGCCAACATCATGTCCCAGACATGGTCTTACAT
1 --GACCTCACATATCGATGTCAACGCCATGTCCTAGACATGGTCTTACAT
* *
44824269 GGGACCTCTCATCTCGATGTCAACGCCATGTCCTAGACATGGTCTTACACT
1 --GACCTCACATATCGATGTCAACGCCATGTCCTAGACATGGTCTTACA-T
* *
44824320 -AGCTCACATATCGATGT-AGATGCCATGTCCTAGACATGGTCTTA
1 GACCTCACATATCGATGTCA-ACGCCATGTCCTAGACATGGTCTTA
44824364 TACGAGATCG
Statistics
Matches: 178, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
47 1 0.01
48 38 0.21
50 138 0.78
51 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (48 bp):
GACCTCACATATCGATGTCAACGCCATGTCCTAGACATGGTCTTACAT
Found at i:44831862 original size:4 final size:4
Alignment explanation
Indices: 44831853--44831884 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
44831843 ACTCTAAAAA
44831853 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
44831885 TTGTGTGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:44832583 original size:326 final size:326
Alignment explanation
Indices: 44831985--44832643 Score: 1057
Period size: 326 Copynumber: 2.0 Consensus size: 326
44831975 ATATTTTCAC
** *
44831985 ATTCAAACTTATATAAATCATGCCTAAAACATTTACTTATCAAACTGATCAACAACATTCATAAT
1 ATTCAAACACATATAAATCATGCCTAAAACATTTACTTATCAAACTGATCAACAACATTCACAAT
* *
44832050 ACTATATAAAGGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGTACCAAATTAACACA
66 ACTATATAAAGGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGAACCAAACTAACACA
* *
44832115 AAAGTATATTAATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCT
131 AAAGTATATCAATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCA
** *
44832180 ACACTTAAACAATTAATTCATACGGCCAAATACACACCAACCTTTAAAAGCTAAATCTCATGGCT
196 ACACTTAAACAACCAATTCATACGGCCAAATACACACCAACCTTTAAAAGCCAAATCTCATGGCT
* * * * * * *
44832245 AATATTATAACTCAAAACATGCTAAGATGACACTAGCCTATACATGCCATTTATCATAAATATAC
261 AATATCATAACTCAAAACATACCAAGATGACACTAGCCTATACATCCCATATACCATAAACATAC
44832310 A
326 A
* *
44832311 ATTCAAACACATATAAATCATGCCTAAAACATTTACTTATTAAATTGATCAACAACATTCACAAT
1 ATTCAAACACATATAAATCATGCCTAAAACATTTACTTATCAAACTGATCAACAACATTCACAAT
* * *
44832376 ACTATATAAATGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGAACCAAACTAACTCT
66 ACTATATAAAGGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGAACCAAACTAACACA
44832441 AAAGTATATCAATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCA
131 AAAGTATATCAATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCA
* * * * * *
44832506 ACACTTAAATAGCCAATTCATATGGCTAAATACACACTAGCCTTTAAAAGCCAAATCTCATGGCT
196 ACACTTAAACAACCAATTCATACGGCCAAATACACACCAACCTTTAAAAGCCAAATCTCATGGCT
*
44832571 AATATCATAACTCAAAACATACCATGATGACACTAGCCTATACATCCCATATACCATAAACATAC
261 AATATCATAACTCAAAACATACCAAGATGACACTAGCCTATACATCCCATATACCATAAACATAC
44832636 A
326 A
44832637 ATTCAAA
1 ATTCAAA
44832644 AGTACCAACT
Statistics
Matches: 304, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
326 304 1.00
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.32
Consensus pattern (326 bp):
ATTCAAACACATATAAATCATGCCTAAAACATTTACTTATCAAACTGATCAACAACATTCACAAT
ACTATATAAAGGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGAACCAAACTAACACA
AAAGTATATCAATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCA
ACACTTAAACAACCAATTCATACGGCCAAATACACACCAACCTTTAAAAGCCAAATCTCATGGCT
AATATCATAACTCAAAACATACCAAGATGACACTAGCCTATACATCCCATATACCATAAACATAC
A
Found at i:44833475 original size:31 final size:31
Alignment explanation
Indices: 44833433--44833541 Score: 164
Period size: 31 Copynumber: 3.5 Consensus size: 31
44833423 TGCTCAAATT
* *
44833433 AATTCGACAATGTATATCTTTATACAAATCA
1 AATTCGGCAATGTATATCTATATACAAATCA
* *
44833464 AATTCGGCAATGAATATCCATATACAAATCA
1 AATTCGGCAATGTATATCTATATACAAATCA
*
44833495 AATTCGGCAATATATATCTATATACAAATCA
1 AATTCGGCAATGTATATCTATATACAAATCA
*
44833526 AATTGGGCAATGTATA
1 AATTCGGCAATGTATA
44833542 AAACATATAC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (31 bp):
AATTCGGCAATGTATATCTATATACAAATCA
Found at i:44853824 original size:25 final size:25
Alignment explanation
Indices: 44853795--44853917 Score: 126
Period size: 25 Copynumber: 5.0 Consensus size: 25
44853785 GAAGCTTTTT
*
44853795 CGAGCCATATAACGGGAAGCTCATG
1 CGAGCCATATAACGGGAAGCTCATA
* *
44853820 TGAGCCATATAACGGGAAGCTCTTA
1 CGAGCCATATAACGGGAAGCTCATA
* ** *
44853845 CGAGCCAAATATTGGGAATCTCATA
1 CGAGCCATATAACGGGAAGCTCATA
* *
44853870 CGAGCCATA-AACGGAAAGCACAATA
1 CGAGCCATATAACGGGAAGCTC-ATA
44853895 -GAGCCAT-TAATCGGGAAGCTCAT
1 CGAGCCATATAA-CGGGAAGCTCAT
44853918 GAGAGTCAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
24 18 0.23
25 60 0.77
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (25 bp):
CGAGCCATATAACGGGAAGCTCATA
Found at i:44853862 original size:50 final size:49
Alignment explanation
Indices: 44853778--44853888 Score: 123
Period size: 50 Copynumber: 2.2 Consensus size: 49
44853768 TATAAGCATG
* * * * **
44853778 TAAACAGGAAGCTTTTTCGAGCCATATAACGGGAAGCTCATGTGAGCCA
1 TAAACGGGAAGCTCTTACGAGCCAAATAACGGGAAGCTCATACGAGCCA
** *
44853827 TATAACGGGAAGCTCTTACGAGCCAAATATTGGGAATCTCATACGAGCCA
1 TA-AACGGGAAGCTCTTACGAGCCAAATAACGGGAAGCTCATACGAGCCA
*
44853877 TAAACGGAAAGC
1 TAAACGGGAAGC
44853889 ACAATAGAGC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
49 11 0.22
50 40 0.78
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (49 bp):
TAAACGGGAAGCTCTTACGAGCCAAATAACGGGAAGCTCATACGAGCCA
Found at i:44858335 original size:21 final size:20
Alignment explanation
Indices: 44858309--44858353 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
44858299 ATTATCCACC
44858309 TAATTACATACAAAAAAATTA
1 TAATTACA-ACAAAAAAATTA
* *
44858330 TAATTATAATAAAAAAATTA
1 TAATTACAACAAAAAAATTA
44858350 -AATT
1 TAATT
44858354 TAATGTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 11 0.50
21 7 0.32
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
TAATTACAACAAAAAAATTA
Found at i:44858357 original size:18 final size:20
Alignment explanation
Indices: 44858320--44858357 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44858310 AATTACATAC
44858320 AAAAAAATTATAATTATAAT
1 AAAAAAATTATAATTATAAT
44858340 AAAAAAATTA-AATT-TAAT
1 AAAAAAATTATAATTATAAT
44858358 GTTATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAAAATTATAATTATAAT
Found at i:44858576 original size:19 final size:19
Alignment explanation
Indices: 44858548--44858602 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
44858538 AAACGAGAAA
44858548 GTTT-AGAGAATTGAGAGG
1 GTTTGAGAGAATTGAGAGG
44858566 GTTTGAGAGAATTTGAGA-G
1 GTTTGAGAGAA-TTGAGAGG
** *
44858585 AATTGAGAGAGTTGAGAG
1 GTTTGAGAGAATTGAGAG
44858603 AAAGATGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 10 0.32
19 15 0.48
20 6 0.19
ACGTcount: A:0.35, C:0.00, G:0.38, T:0.27
Consensus pattern (19 bp):
GTTTGAGAGAATTGAGAGG
Found at i:44858592 original size:9 final size:9
Alignment explanation
Indices: 44858552--44858604 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
44858542 GAGAAAGTTT
44858552 AGAGAATTG
1 AGAGAATTG
**
44858561 AGAGGGTTTG
1 AGA-GAATTG
44858571 AGAGAATTTG
1 AGAGAA-TTG
44858581 AGAGAATTG
1 AGAGAATTG
*
44858590 AGAGAGTTG
1 AGAGAATTG
44858599 AGAGAA
1 AGAGAA
44858605 AGATGTGAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 20 0.56
10 16 0.44
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.23
Consensus pattern (9 bp):
AGAGAATTG
Found at i:44868902 original size:27 final size:27
Alignment explanation
Indices: 44868872--44868925 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
44868862 TAAAATATAA
44868872 GTTCTTTAATGGAGAATTTATTTTTCT
1 GTTCTTTAATGGAGAATTTATTTTTCT
*
44868899 GTTCTTTAATGGGGAATTTATTTTTCT
1 GTTCTTTAATGGAGAATTTATTTTTCT
44868926 TACAATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.07, G:0.17, T:0.56
Consensus pattern (27 bp):
GTTCTTTAATGGAGAATTTATTTTTCT
Found at i:44875020 original size:26 final size:26
Alignment explanation
Indices: 44874991--44875047 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
44874981 TACCAGGGGC
44874991 AAAATCGTCAAAATTTTACTAAGGGT
1 AAAATCGTCAAAATTTTACTAAGGGT
* *
44875017 AAAATCGTCAAAATTTTGCTAGGGGT
1 AAAATCGTCAAAATTTTACTAAGGGT
44875043 AAAAT
1 AAAAT
44875048 AGGGATGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.30
Consensus pattern (26 bp):
AAAATCGTCAAAATTTTACTAAGGGT
Found at i:44877661 original size:12 final size:12
Alignment explanation
Indices: 44877644--44877668 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44877634 CATCAAATTT
44877644 TTTGTTCTAACA
1 TTTGTTCTAACA
44877656 TTTGTTCTAACA
1 TTTGTTCTAACA
44877668 T
1 T
44877669 AATGTAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTGTTCTAACA
Found at i:44887170 original size:73 final size:73
Alignment explanation
Indices: 44887049--44887218 Score: 268
Period size: 73 Copynumber: 2.3 Consensus size: 73
44887039 TGCTCAAGGC
* ** *
44887049 TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAAACCTAAGCTGAACGACGCCGTTTTCTGAACT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAACT
44887114 TTAGGGGA
66 TTAGGGGA
* *
44887122 TTTAGCGGCGCTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAACT
44887187 TTAGGGGA
66 TTAGGGGA
* *
44887195 TTTAGCGGCATTTTTAAGAAAGCG
1 TTTAGCGGCGTTTTTGAGAAAGCG
44887219 TCGCTAATGC
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 88 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAACT
TTAGGGGA
Found at i:44887251 original size:187 final size:188
Alignment explanation
Indices: 44886937--44887632 Score: 804
Period size: 187 Copynumber: 3.8 Consensus size: 188
44886927 AAAACAAGCA
* ** * * *
44886937 TTAGCGGCATTTTCCAGAAAGCGCCGC-AAAAAACCTTAGCCCAACGACGCCATTTTCCT-AGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTT-CTGAGCT
* * * *
44887000 TTCA-GGGATTTAGCGGTGTTTTTAAAAAATCGCCGCTAATGCTCAA-GGCTTTAGCGGCGTTTT
65 TTCAGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCT-AAGGGATTTAGCGGCATTTT
* **
44887063 TGATAAAGCGCCGCAAAAAAACCTAAGCTGAACGACGCCGTTTTCTGAACTTTAGGGGAT
129 TGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAACTTTAGGGGAT
*
44887123 TTAGCGGCGCTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTT
** * **
44887188 T-AGGGGATTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTAAGGGATTTAGCGGTGTTTTTG
66 TCAGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTAAGGGATTTAGCGGCATTTTTG
* * *
44887252 AGAAAGCGCCGCAAAAAAACCTAACCCCAATGACGCCGTTTTCTGAGCTTTCA-GGGAT
131 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAACTTT-AGGGGAT
* * * * *
44887310 TTAGCGGCGTTTTTGGGAAAGTGCCG-TAAAAAATCAAAG-CC--C-A-A-------CTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTT
* * * *
44887362 TCAGGGGATTTAGCGATGTTTTTGAGAAAGCGCCGCTAATGCTTAGGGATTTAGCGACATTTTTG
66 TCAGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTAAGGGATTTAGCGGCATTTTTG
** * *
44887427 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACATCGTTTT-TTAAGCTTTCGGGGAT
131 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAA-CTTTAGGGGAT
* * * * *
44887485 TTAGCGGAGTTTTTAAGAAAGCGCCGCAAAAAAATCTAAGCCTAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTT
* * *
44887550 TC-GGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCAGCATTTTTG
66 TCAGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTAAGGGATTTAGCGGCATTTTTG
* *
44887614 GGAAAGCTCCGCAAAAAAA
131 AGAAAGCGCCGCAAAAAAA
44887633 ATCAAAGCCC
Statistics
Matches: 431, Mismatches: 58, Indels: 41
0.81 0.11 0.08
Matches are distributed among these distances:
174 11 0.03
175 123 0.29
176 11 0.03
177 1 0.00
179 1 0.00
180 1 0.00
181 1 0.00
182 1 0.00
183 1 0.00
185 2 0.00
186 38 0.09
187 229 0.53
188 11 0.03
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (188 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTT
TCAGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTAAGGGATTTAGCGGCATTTTTG
AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAACTTTAGGGGAT
Found at i:44887330 original size:114 final size:114
Alignment explanation
Indices: 44887118--44887323 Score: 342
Period size: 114 Copynumber: 1.8 Consensus size: 114
44887108 TGAACTTTAG
*
44887118 GGGATTTAGCGGCGCTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTG
1 GGGATTTAGCGGCGCTTTTGAGAAAGCGCCGCAAAAAAACCTAACCCCAACGACACCGTTTTCTG
44887183 AGCTTTAGGGGATTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTAA
66 AGCTTTAGGGGATTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTAA
* * * *
44887232 GGGATTTAGCGGTGTTTTTGAGAAAGCGCCGCAAAAAAACCTAACCCCAATGACGCCGTTTTCTG
1 GGGATTTAGCGGCGCTTTTGAGAAAGCGCCGCAAAAAAACCTAACCCCAACGACACCGTTTTCTG
*
44887297 AGCTTTCA-GGGATTTAGCGGCGTTTTT
66 AGCTTT-AGGGGATTTAGCGGCATTTTT
44887324 GGGAAAGTGC
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
114 84 0.99
115 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (114 bp):
GGGATTTAGCGGCGCTTTTGAGAAAGCGCCGCAAAAAAACCTAACCCCAACGACACCGTTTTCTG
AGCTTTAGGGGATTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTAA
Found at i:44887526 original size:73 final size:73
Alignment explanation
Indices: 44887407--44887584 Score: 259
Period size: 73 Copynumber: 2.4 Consensus size: 73
44887397 CTAATGCTTA
* * * *
44887407 GGGATTTAGC-GACATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACATCGTTTTTT
1 GGGATTTAGCGGA-GTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCT
44887471 AAGCTTTCG
65 AAGCTTTCG
* * * *
44887480 GGGATTTAGCGGAGTTTTTAAGAAAGCGCCGCAAAAAAATCTAAGCCTAACGACGCCGTTTTCTG
1 GGGATTTAGCGGAGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTA
44887545 AGCTTTCG
66 AGCTTTCG
*
44887553 GGGATTTAGCGGTGTTTTTAAGAAAGCGCCGC
1 GGGATTTAGCGGAGTTTTTAAGAAAGCGCCGC
44887585 TAATGCTCAG
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
73 93 0.98
74 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (73 bp):
GGGATTTAGCGGAGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTA
AGCTTTCG
Found at i:44887669 original size:104 final size:103
Alignment explanation
Indices: 44887542--44887749 Score: 301
Period size: 104 Copynumber: 2.0 Consensus size: 103
44887532 ACGCCGTTTT
* * *
44887542 CTGAGCTTTCGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCAGC
1 CTGAGCTTTCGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCCCAGGGATTTAACAGC
* *
44887607 ATTTTTGGGAAAGCT-CCGCAAAAAAAATCAAAGCCCAA
66 ATTTTTGAGAAAG-TGCCGCAAAAAAAACCAAAGCCCAA
*
44887645 CTGAGCTTTCGGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCCCAGGGATTTAACGG
1 CTGAGCTTTC-GGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCCCAGGGATTTAACAG
* * * *
44887710 CGTTTTTGAGAAAGTGCTGCAGAAAAAACCTAAGCCCAA
65 CATTTTTGAGAAAGTGCCGCAAAAAAAACCAAAGCCCAA
44887749 C
1 C
44887750 GACGTCGTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
103 11 0.12
104 82 0.88
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (103 bp):
CTGAGCTTTCGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCCCAGGGATTTAACAGC
ATTTTTGAGAAAGTGCCGCAAAAAAAACCAAAGCCCAA
Found at i:44888351 original size:41 final size:42
Alignment explanation
Indices: 44888298--44888615 Score: 294
Period size: 41 Copynumber: 7.5 Consensus size: 42
44888288 AGGCTTTCTC
*
44888298 TGGGATTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAATGCTT
1 TGGGCTTTAGCGGCGTTTTTGGAAGAAGCGCCGCTAATGCTT
*
44888339 TGGGCTTTAGCGGCGTTTTT-GAAGAAGCGCCGCTAATGCTC
1 TGGGCTTTAGCGGCGTTTTTGGAAGAAGCGCCGCTAATGCTT
* * *
44888380 TGGTCTTTAGCGGCATTTTT-TAAGAAGCGCCGCTAATGCTCTAGGCTTGCT
1 TGGGCTTTAGCGGCGTTTTTGGAAGAAGCGCCGCTAA-----T--GC-T--T
*
44888431 CTGGGCTTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAATGCTC
1 -TGGGCTTTAGCGGCGTTTTTGGAAGAAGCGCCGCTAATGCTT
* * **
44888473 TGGTCTTTAGCGGCGTTTTTGGAA-AAACGCCGCTAAT-AAT
1 TGGGCTTTAGCGGCGTTTTTGGAAGAAGCGCCGCTAATGCTT
* * *
44888513 CGAGGCTTTAGCGGC-TTTTTTGAAGAAGCGCCGCTAATGCTC
1 TG-GGCTTTAGCGGCGTTTTTGGAAGAAGCGCCGCTAATGCTT
*** **
44888555 T-ATTTTTAGCGGC-TTTTTTTAAGAAGCGCCGCTAATGCTT
1 TGGGCTTTAGCGGCGTTTTTGGAAGAAGCGCCGCTAATGCTT
*
44888595 TGGTCTTTAGCGGCGTTTTTG
1 TGGGCTTTAGCGGCGTTTTTG
44888616 AAAAAAGCAC
Statistics
Matches: 228, Mismatches: 31, Indels: 35
0.78 0.11 0.12
Matches are distributed among these distances:
40 47 0.21
41 136 0.60
42 5 0.02
44 1 0.00
45 2 0.01
46 1 0.00
47 1 0.00
48 2 0.01
49 1 0.00
52 30 0.13
53 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (42 bp):
TGGGCTTTAGCGGCGTTTTTGGAAGAAGCGCCGCTAATGCTT
Found at i:44888460 original size:52 final size:52
Alignment explanation
Indices: 44888375--44888473 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
44888365 GCGCCGCTAA
* *
44888375 TGCTCTGGTCTTTAGCGGCATTTTTTAAGAAGCGCCGCTAATGCTCTAGGCT
1 TGCTCTGGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCTAGGCT
*
44888427 TGCTCTGGGCTTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAATGCTCT
1 TGCTCTGGGCTTTAGCGGCATTTTT-GAAGAAGCGCCGCTAATGCTCT
44888474 GGTCTTTAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 41 0.95
53 2 0.05
ACGTcount: A:0.16, C:0.23, G:0.27, T:0.33
Consensus pattern (52 bp):
TGCTCTGGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCTAGGCT
Found at i:44888504 original size:93 final size:93
Alignment explanation
Indices: 44888334--44888593 Score: 289
Period size: 93 Copynumber: 2.9 Consensus size: 93
44888324 GCGCCGCTAA
*
44888334 TGCTTTGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCATTTT
1 TGCTCTGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCATTTT
* *
44888399 TTAAGAAGCGCCGCTAATGCTCTAGGCT
66 TGAAGAAACGCCGCTAATGCTCTAGGCT
*
44888427 TGCTCTGGGCTTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTT
1 TGCTCTGGGCTTTAGCGGCGTTTTT-GAAGAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCATTT
44888491 TTGGAA-AAACGCCGCTAA-----TA----
65 TT-GAAGAAACGCCGCTAATGCTCTAGGCT
* * * * *
44888511 --ATC-GAGGCTTTAGCGGCTTTTTTGAAGAAGCGCCGCTAATGCTCT-ATTTTTAGCGGCTTTT
1 TGCTCTG-GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCATTT
* *
44888572 TTTAAGAAGCGCCGCTAATGCT
65 TTGAAGAAACGCCGCTAATGCT
44888594 TTGGTCTTTA
Statistics
Matches: 147, Mismatches: 11, Indels: 26
0.80 0.06 0.14
Matches are distributed among these distances:
80 2 0.01
81 30 0.20
82 37 0.25
88 2 0.01
93 71 0.48
94 5 0.03
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (93 bp):
TGCTCTGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCATTTT
TGAAGAAACGCCGCTAATGCTCTAGGCT
Found at i:44888527 original size:134 final size:134
Alignment explanation
Indices: 44888287--44888556 Score: 420
Period size: 134 Copynumber: 2.0 Consensus size: 134
44888277 NNNNNNNNNN
* *
44888287 TAGGCTTTCTCTGGGATTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTTTGGGCTTTAGCGG
1 TAGGCTTGCTCTGGGATTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGGCTTTAGCGG
* ** *
44888352 CGTTTTTGAAGAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCATTTTTT-AAGAAGCGCCGCTAA
66 CGTTTTTGAAGAAACGCCGCTAATAATCTGGGCTTTAGCGGC-TTTTTTGAAGAAGCGCCGCTAA
44888416 TGCTC
130 TGCTC
* *
44888421 TAGGCTTGCTCTGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGG
1 TAGGCTTGCTCTGGGATTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGGCTTTAGCGG
44888486 CGTTTTTGGAA-AAACGCCGCTAATAATC-GAGGCTTTAGCGGCTTTTTTGAAGAAGCGCCGCTA
66 CGTTTTT-GAAGAAACGCCGCTAATAATCTG-GGCTTTAGCGGCTTTTTTGAAGAAGCGCCGCTA
44888549 ATGCTC
129 ATGCTC
44888555 TA
1 TA
44888557 TTTTTAGCGG
Statistics
Matches: 125, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
133 7 0.06
134 115 0.92
135 3 0.02
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (134 bp):
TAGGCTTGCTCTGGGATTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGGCTTTAGCGG
CGTTTTTGAAGAAACGCCGCTAATAATCTGGGCTTTAGCGGCTTTTTTGAAGAAGCGCCGCTAAT
GCTC
Found at i:44892645 original size:43 final size:43
Alignment explanation
Indices: 44892598--44892884 Score: 371
Period size: 43 Copynumber: 6.7 Consensus size: 43
44892588 CGAGAAGCAT
* **
44892598 CGCTAAAGGTCCTGATCTTTAATGGCGTTTGT-GGAATAAGCGC
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAA-AAGCGC
* * *
44892641 CGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTGGGAAAAGCGT
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
* * * * *
44892684 CGCTGAAGGTCCTGATCTTTAGCGGCGTTTGTGGTAACAGCAC
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
* *
44892727 CGCTAAAGATCCTGATCTATAGCGGCATTTGTGGGAAAAGCGC
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
* *
44892770 CGCTAAAGATCCTGATCTATAGCGGCGTTTGT-GGAAAAGCAC
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
* * * *
44892812 CGCTAAAGGTCCTAACCTATAGCGGCGTTTGTGGGGAAAGCGT
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
*
44892855 CGCTAAAGGTCATGATCTATAGCGGCGTTT
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTT
44892885 ATTTCTAAAA
Statistics
Matches: 214, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 38 0.18
43 172 0.80
44 4 0.02
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (43 bp):
CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
Found at i:44898355 original size:50 final size:50
Alignment explanation
Indices: 44898247--44898428 Score: 256
Period size: 50 Copynumber: 3.6 Consensus size: 50
44898237 ATATGTCAAA
** * * *
44898247 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAC
** *
44898298 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* *
44898348 GCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
44898398 GCCATGTCCCAGACATGGTCTTACAAGGGAC
1 GCCATGTCCCAGACATGGTCTTACATGGGAC
44898429 TTCTTTACCC
Statistics
Matches: 115, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 87 0.76
51 28 0.24
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:44900604 original size:75 final size:75
Alignment explanation
Indices: 44900505--44900646 Score: 248
Period size: 75 Copynumber: 1.9 Consensus size: 75
44900495 TTCATGGCGT
*
44900505 ACTCTTAAGAATCGCCCTTGTGGTGAACTATGAATGGATCGCTTTAGTGGCATGTTCTATCTTAT
1 ACTCTTAAGAATCGCCCTAGTGGTGAACTATGAATGGATCGCTTTAGTGGCATGTTCTATCTTAT
44900570 TGGCATGTTC
66 TGGCATGTTC
* * *
44900580 ACTCTTAAGAATCGCCCTAGTGGTGGACTTTGAATGGATTGCTTTAGTGGCATGTTCTATCTTAT
1 ACTCTTAAGAATCGCCCTAGTGGTGAACTATGAATGGATCGCTTTAGTGGCATGTTCTATCTTAT
44900645 TG
66 TG
44900647 TTGGTAAAGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (75 bp):
ACTCTTAAGAATCGCCCTAGTGGTGAACTATGAATGGATCGCTTTAGTGGCATGTTCTATCTTAT
TGGCATGTTC
Found at i:44906516 original size:12 final size:12
Alignment explanation
Indices: 44906499--44906524 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44906489 CTACTACAAA
44906499 AAAATCAATTTT
1 AAAATCAATTTT
44906511 AAAATCAATTTT
1 AAAATCAATTTT
44906523 AA
1 AA
44906525 TTTTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATCAATTTT
Found at i:44907526 original size:12 final size:12
Alignment explanation
Indices: 44907509--44907534 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44907499 CTACTACAAA
44907509 AAAATCAATTTT
1 AAAATCAATTTT
44907521 AAAATCAATTTT
1 AAAATCAATTTT
44907533 AA
1 AA
44907535 TTTTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATCAATTTT
Found at i:44910527 original size:32 final size:33
Alignment explanation
Indices: 44910486--44910548 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
44910476 TACATGACTA
*
44910486 AGATACATCTACTTTAAA-ACATTCATTAAACT
1 AGATACATCTACTCTAAATACATTCATTAAACT
44910518 AGATACATCTACTCTAAATACATTCATTAAA
1 AGATACATCTACTCTAAATACATTCATTAAA
44910549 TACAAGTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.33
Consensus pattern (33 bp):
AGATACATCTACTCTAAATACATTCATTAAACT
Found at i:44913188 original size:68 final size:68
Alignment explanation
Indices: 44913107--44913294 Score: 261
Period size: 68 Copynumber: 2.8 Consensus size: 68
44913097 TTCCATTTTC
* * *
44913107 TGTCATAGCCCAACTATGATCCTACACAATATAACCCCATGTTTATTGTCCTAGTGGACTTCA-T
1 TGTCATAGCCCAACTATGGTCTTACACAATATAA-CCCATGTTTATTGTCCTAGAGGACTTCATT
44913171 TTAT
65 TTAT
* *
44913175 TGTCATAGCCCAACTATGGTCTTACACAATATAACCCATGTTTATTGTCTTGGAGGACTTCATTT
1 TGTCATAGCCCAACTATGGTCTTACACAATATAACCCATGTTTATTGTCCTAGAGGACTTCATTT
*
44913240 TGT
66 TAT
* * * *
44913243 TGCCATAGCCCAATTATGGTCTTACACAATATAATCCCAAGTTTATTATCCT
1 TGTCATAGCCCAACTATGGTCTTACACAATATAA-CCCATGTTTATTGTCCT
44913295 GACAGACTTC
Statistics
Matches: 107, Mismatches: 11, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
67 25 0.23
68 68 0.64
69 14 0.13
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (68 bp):
TGTCATAGCCCAACTATGGTCTTACACAATATAACCCATGTTTATTGTCCTAGAGGACTTCATTT
TAT
Found at i:44915585 original size:22 final size:23
Alignment explanation
Indices: 44915547--44915590 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
44915537 GGGGACACAT
44915547 GCCCGTGTGGCCAGGCCGTGTGA
1 GCCCGTGTGGCCAGGCCGTGTGA
*
44915570 GCCCGTGT-TCCAGGCCGTGTG
1 GCCCGTGTGGCCAGGCCGTGTG
44915591 GGCATTCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.07, C:0.32, G:0.41, T:0.20
Consensus pattern (23 bp):
GCCCGTGTGGCCAGGCCGTGTGA
Found at i:44916111 original size:51 final size:51
Alignment explanation
Indices: 44916056--44916168 Score: 219
Period size: 51 Copynumber: 2.2 Consensus size: 51
44916046 CCATTTAACG
44916056 TATATGCATTTTGGACTAAATATGCTAACTCAAACTAACCATCAATATATC
1 TATATGCATTTTGGACTAAATATGCTAACTCAAACTAACCATCAATATATC
44916107 TATATGCATTTTGGACTAAATATGCTAACTCAAACTAACCATCAATATATC
1 TATATGCATTTTGGACTAAATATGCTAACTCAAACTAACCATCAATATATC
44916158 TATATGC-TTTT
1 TATATGCATTTT
44916169 CAACACTTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 4 0.06
51 58 0.94
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (51 bp):
TATATGCATTTTGGACTAAATATGCTAACTCAAACTAACCATCAATATATC
Found at i:44927449 original size:16 final size:16
Alignment explanation
Indices: 44927423--44927456 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
44927413 GTAATGAAAA
44927423 CTCCCATC-TTTATTT
1 CTCCCATCTTTTATTT
44927438 CTCCCTATCTTTTATTT
1 CTCCC-ATCTTTTATTT
44927455 CT
1 CT
44927457 ACTACACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 3 0.18
17 9 0.53
ACGTcount: A:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (16 bp):
CTCCCATCTTTTATTT
Found at i:44928774 original size:87 final size:87
Alignment explanation
Indices: 44928668--44928843 Score: 298
Period size: 87 Copynumber: 2.0 Consensus size: 87
44928658 TTCTAGCTGA
* * *
44928668 CTCTTTACCTAAGGTAGTCCTCACCGGACTTTCTCATTTGCTAGTCCCTATCATCTCTCTCGCTT
1 CTCTTTACCTAAGGTAGTCCGCACCGGACTTCCTCATCTGCTAGTCCCTATCATCTCTCTCGCTT
44928733 TATGTAGTCCTAACCAGACATT
66 TATGTAGTCCTAACCAGACATT
* * *
44928755 CTCTTTACCTAAGGTAGTCCGCAGCGGACTTCCTCGTCTGCTAGTCCCTATCGTCTCTCTCGCTT
1 CTCTTTACCTAAGGTAGTCCGCACCGGACTTCCTCATCTGCTAGTCCCTATCATCTCTCTCGCTT
44928820 TATGTAGTCCTAACCAGACATT
66 TATGTAGTCCTAACCAGACATT
44928842 CT
1 CT
44928844 TTTTCTGTAA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.18, C:0.32, G:0.15, T:0.35
Consensus pattern (87 bp):
CTCTTTACCTAAGGTAGTCCGCACCGGACTTCCTCATCTGCTAGTCCCTATCATCTCTCTCGCTT
TATGTAGTCCTAACCAGACATT
Found at i:44929272 original size:16 final size:16
Alignment explanation
Indices: 44929251--44929320 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
44929241 TTTGGTTCGC
* *
44929251 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
44929267 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
44929283 TGTAATGAAATAGAGG
1 TGTAATGGAATAGAGG
44929299 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
44929315 TGTAAT
1 TGTAAT
44929321 AGCAAATCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.33, C:0.00, G:0.34, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:44943258 original size:8 final size:8
Alignment explanation
Indices: 44943245--44943273 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
44943235 ATATTCAATC
44943245 ATACCATT
1 ATACCATT
44943253 ATACCATT
1 ATACCATT
44943261 ATACCATT
1 ATACCATT
44943269 ATACC
1 ATACC
44943274 TCCAATGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (8 bp):
ATACCATT
Found at i:44944476 original size:17 final size:17
Alignment explanation
Indices: 44944454--44944492 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
44944444 TGTCAACACT
*
44944454 ATTCAGTTC-TTAAATCA
1 ATTCAGTTCAATAAAT-A
44944471 ATTCAGTTCAATAAATA
1 ATTCAGTTCAATAAATA
44944488 ATTCA
1 ATTCA
44944493 ATGTACATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (17 bp):
ATTCAGTTCAATAAATA
Found at i:44945531 original size:162 final size:163
Alignment explanation
Indices: 44945267--44945592 Score: 645
Period size: 162 Copynumber: 2.0 Consensus size: 163
44945257 TTTATTATTT
44945267 TAACAATAAGTTAACTAAACTTTATAATATAATATATATAATAATAAGTTTTAACCCACCACTCA
1 TAACAATAAGTTAACTAAACTTTATAATATAATATATATAATAATAAGTTTTAACCCACCACTCA
44945332 TATATATTCATACATAATGGTTTATTTACTTTATAATCCCTATATATTAAATTCTAATTGTAATT
66 TATATATTCATACATAATGGTTTATTTACTTTATAATCCCTATATATTAAATTCTAATTGTAATT
44945397 CCTTAATAATTTTTACTTTGGTTACTTACACAA
131 CCTTAATAATTTTTACTTTGGTTACTTACACAA
44945430 TAACAATAAG-TAACTAAACTTTATAATATAATATATATAATAATAAGTTTTAACCCACCACTCA
1 TAACAATAAGTTAACTAAACTTTATAATATAATATATATAATAATAAGTTTTAACCCACCACTCA
44945494 TATATATTCATACATAATGGTTTATTTACTTTATAATCCCTATATATTAAATTCTAATTGTAATT
66 TATATATTCATACATAATGGTTTATTTACTTTATAATCCCTATATATTAAATTCTAATTGTAATT
44945559 CCTTAATAATTTTTACTTTGGTTACTTACACAA
131 CCTTAATAATTTTTACTTTGGTTACTTACACAA
44945592 T
1 T
44945593 TTAGTCCCTA
Statistics
Matches: 163, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
162 153 0.94
163 10 0.06
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.42
Consensus pattern (163 bp):
TAACAATAAGTTAACTAAACTTTATAATATAATATATATAATAATAAGTTTTAACCCACCACTCA
TATATATTCATACATAATGGTTTATTTACTTTATAATCCCTATATATTAAATTCTAATTGTAATT
CCTTAATAATTTTTACTTTGGTTACTTACACAA
Found at i:44948978 original size:15 final size:15
Alignment explanation
Indices: 44948958--44949011 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
44948948 TGACTACTAG
44948958 ATACATCTATTCTAA
1 ATACATCTATTCTAA
* *
44948973 ATACATTTATTAAACTAG
1 ATACATCTATT---CTAA
*
44948991 ATACATCTACTCTAA
1 ATACATCTATTCTAA
44949006 ATACAT
1 ATACAT
44949012 TCATTAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 19 0.61
18 12 0.39
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (15 bp):
ATACATCTATTCTAA
Found at i:44948990 original size:33 final size:33
Alignment explanation
Indices: 44948953--44949019 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
44948943 ATGCATGACT
* *
44948953 ACTAGATACATCTATTCTAAATACATTTATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
44948986 ACTAGATACATCTACTCTAAATACATTCATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
44949019 A
1 A
44949020 TAAAAGTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.36
Consensus pattern (33 bp):
ACTAGATACATCTACTCTAAATACATTCATTAA
Found at i:44948996 original size:18 final size:16
Alignment explanation
Indices: 44948952--44948999 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
44948942 CATGCATGAC
44948952 TACTAGATACATCTAT
1 TACTAGATACATCTAT
* *
44948968 T-CTAAATACATTTAT
1 TACTAGATACATCTAT
44948983 TAAACTAGATACATCTA
1 T--ACTAGATACATCTA
44949000 CTCTAAATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 13 0.52
16 1 0.04
18 11 0.44
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.38
Consensus pattern (16 bp):
TACTAGATACATCTAT
Done.