Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold93
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: 1685797
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 216 characters in sequence are not A, C, G, or T
File 13 of 14
Found at i:1556923 original size:14 final size:13
Alignment explanation
Indices: 1556904--1556937 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
1556894 GGTTATTTTC
1556904 AAAAAAATAAAAAT
1 AAAAAAAT-AAAAT
1556918 AAAAAAATAAAAT
1 AAAAAAATAAAAT
1556931 AAAAAAA
1 AAAAAAA
1556938 GATAATCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:1557488 original size:24 final size:25
Alignment explanation
Indices: 1557461--1557524 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
1557451 AATAGCTGTT
* *
1557461 GCAAGGAAGAAAGAAA-TAATAGCC
1 GCAATGAAGAAAGAAAGTAACAGCC
*
1557485 GCAATGAAGAAA-AAAGTAACAGCT
1 GCAATGAAGAAAGAAAGTAACAGCC
1557509 GCAATGAAGAAAGAAA
1 GCAATGAAGAAAGAAA
1557525 AAACTGCAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.09
24 29 0.83
25 3 0.09
ACGTcount: A:0.56, C:0.11, G:0.23, T:0.09
Consensus pattern (25 bp):
GCAATGAAGAAAGAAAGTAACAGCC
Found at i:1557536 original size:24 final size:24
Alignment explanation
Indices: 1557461--1557536 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
1557451 AATAGCTGTT
* *
1557461 GCAAGGAAGAAAGAAATAA-TAGCC
1 GCAATGAAGAAAGAAATAACT-GCA
* *
1557485 GCAATGAAGAAA-AAAGTAACAGCT
1 GCAATGAAGAAAGAAA-TAACTGCA
*
1557509 GCAATGAAGAAAGAAAAAACTGCA
1 GCAATGAAGAAAGAAATAACTGCA
1557533 GCAA
1 GCAA
1557537 GCAAATGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
23 3 0.07
24 37 0.86
25 3 0.07
ACGTcount: A:0.55, C:0.13, G:0.22, T:0.09
Consensus pattern (24 bp):
GCAATGAAGAAAGAAATAACTGCA
Found at i:1557758 original size:19 final size:20
Alignment explanation
Indices: 1557722--1557760 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1557712 AAAAAGGAGG
1557722 ACAGCAAAAGAAAGAAAAAA
1 ACAGCAAAAGAAAGAAAAAA
1557742 ACAGCAAAGAGAAA-AAAAA
1 ACAGCAAA-AGAAAGAAAAA
1557761 CAAAAACAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.74, C:0.10, G:0.15, T:0.00
Consensus pattern (20 bp):
ACAGCAAAAGAAAGAAAAAA
Found at i:1557776 original size:18 final size:18
Alignment explanation
Indices: 1557736--1557777 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1557726 CAAAAGAAAG
* *
1557736 AAAAAAACAGCAAAGAGA
1 AAAAAAACAGAAAACAGA
1557754 AAAAAAACA-AAAACAGA
1 AAAAAAACAGAAAACAGA
1557771 ACAAAAA
1 A-AAAAA
1557778 GAACTGGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.79, C:0.12, G:0.10, T:0.00
Consensus pattern (18 bp):
AAAAAAACAGAAAACAGA
Found at i:1558137 original size:12 final size:12
Alignment explanation
Indices: 1558118--1558164 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
1558108 GCACCAGTAG
1558118 CAACCAAAACAA
1 CAACCAAAACAA
*
1558130 CAAGCAAAAACAA
1 CAA-CCAAAACAA
*
1558143 CAACCAAAACAG
1 CAACCAAAACAA
1558155 C-ACCAAAACA
1 CAACCAAAACA
1558165 GAAAAGGAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
11 9 0.29
12 11 0.35
13 11 0.35
ACGTcount: A:0.64, C:0.32, G:0.04, T:0.00
Consensus pattern (12 bp):
CAACCAAAACAA
Found at i:1558141 original size:13 final size:13
Alignment explanation
Indices: 1558118--1558151 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1558108 GCACCAGTAG
1558118 CAACC-AAAACAA
1 CAACCAAAAACAA
*
1558130 CAAGCAAAAACAA
1 CAACCAAAAACAA
1558143 CAACCAAAA
1 CAACCAAAA
1558152 CAGCACCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.68, C:0.29, G:0.03, T:0.00
Consensus pattern (13 bp):
CAACCAAAAACAA
Found at i:1558325 original size:22 final size:24
Alignment explanation
Indices: 1558275--1558328 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
1558265 AATCCCATGC
*
1558275 TATTT-TTGTTTGTTTTTGCCACT
1 TATTTGTTCTTTGTTTTTGCCACT
*
1558298 TA-TTGTTCTTTG-TTTT-CCATT
1 TATTTGTTCTTTGTTTTTGCCACT
1558319 TATTTGTTCT
1 TATTTGTTCT
1558329 CATTTGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 6 0.22
22 13 0.48
23 8 0.30
ACGTcount: A:0.09, C:0.13, G:0.11, T:0.67
Consensus pattern (24 bp):
TATTTGTTCTTTGTTTTTGCCACT
Found at i:1563858 original size:87 final size:88
Alignment explanation
Indices: 1563698--1563858 Score: 189
Period size: 87 Copynumber: 1.8 Consensus size: 88
1563688 GCCTCACCTA
* * * * * * * * ** * *
1563698 CATTTGCATTTTAGATGACAGTGGTATTTGCATCATTTCATATGCGTTTGCCCCTTTGTTGATGT
1 CATTTGCATTTCAGATAACAGTGGCATTTACATAATTTAATATGCATTTGCCACTTTACTAATGC
1563763 TTGCATTTGTATCATTTTACATG
66 TTGCATTTGTATCATTTTACATG
*
1563786 CATTTGCA-TTCAGATAACATTGGCATTTACATAATTTAATATGCATTTGCCACTTTACTAATGC
1 CATTTGCATTTCAGATAACAGTGGCATTTACATAATTTAATATGCATTTGCCACTTTACTAATGC
*
1563850 TTGTATTTG
66 TTGCATTTG
1563859 CATTGTTTCA
Statistics
Matches: 59, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
87 51 0.86
88 8 0.14
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.45
Consensus pattern (88 bp):
CATTTGCATTTCAGATAACAGTGGCATTTACATAATTTAATATGCATTTGCCACTTTACTAATGC
TTGCATTTGTATCATTTTACATG
Found at i:1564524 original size:89 final size:90
Alignment explanation
Indices: 1564357--1564526 Score: 202
Period size: 89 Copynumber: 1.9 Consensus size: 90
1564347 TTCAAGGAAA
* * * * * **
1564357 ACACATTTCCTAATCATATCCCCTTAACTCAGCCCTTAGATGGTAATGATGTATCACAAAGCTTG
1 ACACATTTCCTAATCATATCCCCTTAACCCAACCATTAGATGCTAATGATGCATCACAAAGCCCG
*
1564422 ATTTCCTAGGGGCAAGATGCAACCC
66 ATATCCTAGGGGCAAGATGCAACCC
* * *
1564447 ACACA-TTCCTAATCATATTCCCTTCACCCAACCATTAGATGCTACA-GATGCATTACAAAGCCC
1 ACACATTTCCTAATCATATCCCCTTAACCCAACCATTAGATGCTA-ATGATGCATCACAAAGCCC
1564510 GATATCCTTA-GGGCAAG
65 GATATCC-TAGGGGCAAG
1564527 GATATCTTGA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
89 59 0.88
90 8 0.12
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (90 bp):
ACACATTTCCTAATCATATCCCCTTAACCCAACCATTAGATGCTAATGATGCATCACAAAGCCCG
ATATCCTAGGGGCAAGATGCAACCC
Found at i:1564785 original size:35 final size:34
Alignment explanation
Indices: 1564744--1564809 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
1564734 TCATTGTTTA
*
1564744 ACTATATCTGGTCAAATTCTTTTCCTTCTCATTTG
1 ACTATATCTGGTCAAACTCTTTT-CTTCTCATTTG
*
1564779 ACTATATCTGGTTAAACTCTTTTCTTCTCAT
1 ACTATATCTGGTCAAACTCTTTTCTTCTCAT
1564810 GTTTGACTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 8 0.28
35 21 0.72
ACGTcount: A:0.21, C:0.23, G:0.08, T:0.48
Consensus pattern (34 bp):
ACTATATCTGGTCAAACTCTTTTCTTCTCATTTG
Found at i:1564897 original size:83 final size:84
Alignment explanation
Indices: 1564754--1565113 Score: 415
Period size: 84 Copynumber: 4.3 Consensus size: 84
1564744 ACTATATCTG
* * * * * *
1564754 GTCAAATTCTTTTCCTT-CTCATTTGACTATATCTGGTTAAACTCTTTTCTTCTCAT-GTTTGAC
1 GTCAAACTCTTTTCTTTCCTCGTTTGACTATATCTGGTCAAACTCTTTTCATC-CCTCGTTTGAC
* * *
1564817 TGTATTGGGGTTAGGGACTA
65 TATATTGGTGTTAGGGCCTA
* * * *
1564837 GTCAAACTCTTTT-TTTCCTTGTTTGACTATATCTAGTTATACTCTTTTCATCCCTCGTTTGACT
1 GTCAAACTCTTTTCTTTCCTCGTTTGACTATATCTGGTCAAACTCTTTTCATCCCTCGTTTGACT
*
1564901 ATATTGGTGTTAGGGCCTG
66 ATATTGGTGTTAGGGCCTA
* * * * * * *
1564920 GTCAAACTCTTTTCCTTCCTCGTTTGACTGTATTTGCTCAAACTCTTTCCTTCCCTTGTTTGACT
1 GTCAAACTCTTTTCTTTCCTCGTTTGACTATATCTGGTCAAACTCTTTTCATCCCTCGTTTGACT
*
1564985 ATATTAGTGTTAGGGCCTA
66 ATATTGGTGTTAGGGCCTA
*
1565004 GTCAAATTCTTTTCTTTCCTCGTTTGACTATATCTGGTCAAACTCTTTTCCATCCCTCGTTTGAC
1 GTCAAACTCTTTTCTTTCCTCGTTTGACTATATCTGGTCAAACTCTTTT-CATCCCTCGTTTGAC
* * *
1565069 TGTATTGGTGTTAAGGCCTG
65 TATATTGGTGTTAGGGCCTA
* *
1565089 GTTAAACTC-TTTC-TACCTCGTTTGA
1 GTCAAACTCTTTTCTTTCCTCGTTTGA
1565114 TTGTATTGGT
Statistics
Matches: 233, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
82 4 0.02
83 89 0.38
84 104 0.45
85 36 0.15
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (84 bp):
GTCAAACTCTTTTCTTTCCTCGTTTGACTATATCTGGTCAAACTCTTTTCATCCCTCGTTTGACT
ATATTGGTGTTAGGGCCTA
Found at i:1564981 original size:36 final size:36
Alignment explanation
Indices: 1564921--1564989 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
1564911 TAGGGCCTGG
*
1564921 TCAAACTCTTTTCCTTCCTCGTTTGACTGTATTTGC
1 TCAAACTCTTTTCCTTCCTCGTTTGACTATATTTGC
*
1564957 TCAAACTC-TTTCCTTCCCTTGTTTGACTATATT
1 TCAAACTCTTTTCCTT-CCTCGTTTGACTATATT
1564990 AGTGTTAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 7 0.23
36 23 0.77
ACGTcount: A:0.16, C:0.28, G:0.09, T:0.48
Consensus pattern (36 bp):
TCAAACTCTTTTCCTTCCTCGTTTGACTATATTTGC
Found at i:1565051 original size:36 final size:36
Alignment explanation
Indices: 1565004--1565077 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
1564994 TTAGGGCCTA
* * *
1565004 GTCAAATTCTTTT-CTTTCCTCGTTTGACTATATCTG
1 GTCAAACTCTTTTCCATCCCTCGTTTGACTATAT-TG
*
1565040 GTCAAACTCTTTTCCATCCCTCGTTTGACTGTATTG
1 GTCAAACTCTTTTCCATCCCTCGTTTGACTATATTG
1565076 GT
1 GT
1565078 GTTAAGGCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 16 0.48
37 17 0.52
ACGTcount: A:0.16, C:0.24, G:0.14, T:0.46
Consensus pattern (36 bp):
GTCAAACTCTTTTCCATCCCTCGTTTGACTATATTG
Found at i:1565110 original size:167 final size:167
Alignment explanation
Indices: 1564751--1565120 Score: 485
Period size: 167 Copynumber: 2.2 Consensus size: 167
1564741 TTAACTATAT
* * * * * * * * *
1564751 CTGGTCAAATTCTTTTCCT-TCTCATTTGACTATATCTGGTTAAACTCTTTTCTTCTCATGTTTG
1 CTGGTCAAACTCTTTTCCTACCTCGTTTGACTGTATTTGCTCAAACTCTTTCCTTCCCATGTTTG
* * * * *
1564815 ACTGTATTGGGGTTAGGGACTAGTCAAACTCTTTTTTTCCTTGTTTGACTATATCTAGTTATACT
66 ACTATATTAGGGTTAGGGACTAGTCAAACTCTTTTTTTCCTCGTTTGACTATATCTAGTCAAACT
*
1564880 CTTTTCATCCCTCGTTTGACTATATTGGTGTTAGGGC
131 CTTTTCATCCCTCGTTTGACTATATTGGTGTTAAGGC
* *
1564917 CTGGTCAAACTCTTTTCCTTCCTCGTTTGACTGTATTTGCTCAAACTCTTTCCTTCCCTTGTTTG
1 CTGGTCAAACTCTTTTCCTACCTCGTTTGACTGTATTTGCTCAAACTCTTTCCTTCCCATGTTTG
* * * *
1564982 ACTATATTAGTGTTAGGGCCTAGTCAAATTCTTTTCTTTCCTCGTTTGACTATATCTGGTCAAAC
66 ACTATATTAGGGTTAGGGACTAGTCAAACTCTTTT-TTTCCTCGTTTGACTATATCTAGTCAAAC
*
1565047 TCTTTTCCATCCCTCGTTTGACTGTATTGGTGTTAAGGC
130 TCTTTT-CATCCCTCGTTTGACTATATTGGTGTTAAGGC
* *
1565086 CTGGTTAAACTC-TTT-CTACCTCGTTTGATTGTATT
1 CTGGTCAAACTCTTTTCCTACCTCGTTTGACTGTATT
1565121 GGTGTTAGGA
Statistics
Matches: 177, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
166 18 0.10
167 84 0.47
168 34 0.19
169 41 0.23
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (167 bp):
CTGGTCAAACTCTTTTCCTACCTCGTTTGACTGTATTTGCTCAAACTCTTTCCTTCCCATGTTTG
ACTATATTAGGGTTAGGGACTAGTCAAACTCTTTTTTTCCTCGTTTGACTATATCTAGTCAAACT
CTTTTCATCCCTCGTTTGACTATATTGGTGTTAAGGC
Found at i:1565175 original size:47 final size:47
Alignment explanation
Indices: 1565037--1565970 Score: 878
Period size: 47 Copynumber: 20.1 Consensus size: 47
1565027 TTGACTATAT
* * *
1565037 CTGGTCAAACTCTTTTCCATCCCTCGTTTGACTGTATTGGTGTTAAGG-C
1 CTGGTCAAACTCTTCT-CA-CCTTCGTTTGACTGTATTGGCGTT-AGGAC
* * *
1565086 CTGGTTAAACTCTT-TCTACC-TCGTTTGATTGTATTGGTGTTAGGAC
1 CTGGTCAAACTCTTCTC-ACCTTCGTTTGACTGTATTGGCGTTAGGAC
* *
1565132 CTGGTCAAACTCTTCTCACCTTCATTTGACTGTATTAGCGTTAGGAC
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
* * *
1565179 CTGATCAAACTCTTATCACCCTCGTTTGACTGTATTGGCGTTA-GAC
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
* * * * *
1565225 TTGATCAAACTCTTCTCACCCTT-GTTTAACTGTATTAGCGTCAGGAC
1 CTGGTCAAACTCTTCTCA-CCTTCGTTTGACTGTATTGGCGTTAGGAC
* * * * *
1565272 CTGGTCAAACTATTC-CACCCTAGTTTGACTATATTGGCGTTAGGAT
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
* * * *
1565318 ATGGTCAAACTCTTCTAACCTTTGTTTGACTGTATTGG-GATTAGAAC
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCG-TTAGGAC
* * *
1565365 TTGGTCAAACACTTCTCA-C--C--TTGACTGTATTGGCATTAGGAC
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
* * * *
1565407 TTGGTCAAACTCTTCTCACCTTTGTTTGACTATATTGGCGTTAAGAC
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
* * * * * *
1565454 CTGGTCAAACACTTCTCACTTTAGTTTGACTATATTAGCATTAGGAC
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
* * ** * *
1565501 CTGGTCAAACTTTTCTCACCCTAATTTGACTGTATTAGCATTAGGAC
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
* * * * *
1565548 CTAGTTAAACTCTTC-CAGCTTAGTTTGACTGCATTGGCGTTAGGAC
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
* * * * *
1565594 CTGGTCAAACTCTTC-CACCCTAGTTTGACTATATTGGCATTAGGAT
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
* * *
1565640 CTGATCAAACACTTCTCACCATT-GTTTGAATGTATTGGCGTTAGGAC
1 CTGGTCAAACTCTTCTCACC-TTCGTTTGACTGTATTGGCGTTAGGAC
* * * * *
1565687 CTGGTCAAACACTTCTCACCTTGGTTTGACTATATTGGCATTAGGTC
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
* * * *
1565734 CTAGTCAAACTCTTCTCACATTTGTTTGACTGTATTGGTGTTAGGAC
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
* * * *
1565781 CTGGTCAAACACTTCTCACCTTGGTTTGACTATATTGGAGTTAGGAC
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
* * * * ** * *
1565828 CTAGTTAAACTCTTCTTACCCTCGTTTGACTGTATAAGTGTTAAGAC
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
* * * * *
1565875 CTGGTCAAACACTTTTCATC-TCGTTTAACTGTA-TGGCATTAGGAC
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
* * * * * *
1565920 CTAGTCAAACACTTTTCACC-TCGTTTGACTGTATTAGCATTAAGAC
1 CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
1565966 CTGGT
1 CTGGT
1565971 GAACCCTTCA
Statistics
Matches: 735, Mismatches: 131, Indels: 41
0.81 0.14 0.05
Matches are distributed among these distances:
42 36 0.05
43 1 0.00
45 43 0.06
46 213 0.29
47 426 0.58
48 3 0.00
49 13 0.02
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (47 bp):
CTGGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCGTTAGGAC
Found at i:1566142 original size:44 final size:43
Alignment explanation
Indices: 1566093--1566754 Score: 489
Period size: 44 Copynumber: 15.0 Consensus size: 43
1566083 CTCTGTTCTG
* *
1566093 TTTGACGTATGGTTACTATCCTGGTCAAACTTTTCTCATTTCGA
1 TTTGACGTATGGTTACCACCCTGGTCAAA-TTTTCTCATTTCGA
* * * *
1566137 TTTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTTGA
1 TTTGACGTATGGTTACCACCCTGGTCAAATT-TTCTCATTTCGA
* * * * *
1566181 TTTGACGTATAGTTACCACCCTAGTCAAATCTGC-CTTTGTTCTG-
1 TTTGACGTATGGTTACCACCCTGGTCAAATTTTCTC-AT-TTC-GA
* * * * *
1566225 TTTGATGTATGGTTATCA-CCTAGTTCAAACTTTTCTTATTTCAA
1 TTTGACGTATGGTTACCACCCT-GGTCAAA-TTTTCTCATTTCGA
* * * *
1566269 TCTGACATATGGTTACCACCCTGGTCAGATTCTTTTCA-TTCTGA
1 TTTGACGTATGGTTACCACCCTGGTCAAATT-TTCTCATTTC-GA
** *
1566313 TTTGACGTATGGTTACCACCCTGGTCAAATCTGCCTC-TATTCTA
1 TTTGACGTATGGTTACCACCCTGGTCAAAT-TTTCTCAT-TTCGA
*
1566357 TTTGACGTATGGTTACCACCTTGGTCAAACTTTTCTCATTTCGA
1 TTTGACGTATGGTTACCACCCTGGTCAAA-TTTTCTCATTTCGA
* * * * * * *
1566401 TTTGACCTATGGTTACCACCTTGGTGAGATTCTTTTCATTTTGG
1 TTTGACGTATGGTTACCACCCTGGTCAAATT-TTCTCATTTCGA
*** *
1566445 TTTGACGTATGGTTACCACCCTGGTCAAATCCGCCTC-TATTCTA
1 TTTGACGTATGGTTACCACCCTGGTCAAAT-TTTCTCAT-TTCGA
* * * * *
1566489 TCTGATGTATTGTTACCACCCTGGTCAAACTTTTCTCGTTTTGA
1 TTTGACGTATGGTTACCACCCTGGTCAAA-TTTTCTCATTTCGA
* * * * *
1566533 TTTGACGTATGGTTACTATCCTAGTCAAATTTGCCTCTATTTTG-
1 TTTGACGTATGGTTACCACCCTGGTCAAATTT-TCTC-ATTTCGA
* *
1566577 TTTGACATATGGTTACCACCCTGGTCAAACTTTTCTTATTTCGA
1 TTTGACGTATGGTTACCACCCTGGTCAAA-TTTTCTCATTTCGA
* * * * * *
1566621 TCTGATGTATGGTTACCACCCTAGTCAGATTCTTGTCATTTTGA
1 TTTGACGTATGGTTACCACCCTGGTCAAATT-TTCTCATTTCGA
* * * *
1566665 TTTGACATATGGTTATCACCTTGGTCAAATTGGCTT-TCA-TCCTG-
1 TTTGACGTATGGTTACCACCCTGGTCAAATT---TTCTCATTTC-GA
* * *
1566709 TTTGACATATGCTTACCACCCTGGTCAAACTTTTCTCATTTTGA
1 TTTGACGTATGGTTACCACCCTGGTCAAA-TTTTCTCATTTCGA
1566753 TT
1 TT
1566755 GGTCAAATTC
Statistics
Matches: 480, Mismatches: 105, Indels: 66
0.74 0.16 0.10
Matches are distributed among these distances:
42 3 0.01
43 29 0.06
44 415 0.86
45 30 0.06
46 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.42
Consensus pattern (43 bp):
TTTGACGTATGGTTACCACCCTGGTCAAATTTTCTCATTTCGA
Found at i:1566306 original size:132 final size:132
Alignment explanation
Indices: 1566069--1566737 Score: 706
Period size: 132 Copynumber: 5.1 Consensus size: 132
1566059 GGCTTAGTCT
* * * *
1566069 CTAGTCAAATCTGCCTCTGTTCTGTTTGACGTATGGTTACTATCCTGGTCAAACTTTTCTCATTT
1 CTAGTCAAATCTGCCTCTATTCTATTTGACGTATGGTTACCACCCTGGTCAAACTTTTCTCATTT
* * *
1566134 CGATTTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTTGATTTGACGTATAGTTACCA
66 CGATTTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGATTTGACGTATGGTTACCA
1566199 CC
131 CC
* * * * * * *
1566201 CTAGTCAAATCTGCCTTTGTTCTGTTTGATGTATGGTTATCA-CCTAGTTCAAACTTTTCTTATT
1 CTAGTCAAATCTGCCTCTATTCTATTTGACGTATGGTTACCACCCT-GGTCAAACTTTTCTCATT
* * *
1566265 TCAATCTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACC
65 TCGATTTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGATTTGACGTATGGTTACC
1566330 ACC
130 ACC
* *
1566333 CTGGTCAAATCTGCCTCTATTCTATTTGACGTATGGTTACCACCTTGGTCAAACTTTTCTCATTT
1 CTAGTCAAATCTGCCTCTATTCTATTTGACGTATGGTTACCACCCTGGTCAAACTTTTCTCATTT
* * * *
1566398 CGATTTGACCTATGGTTACCACCTTGGTGAGATTCTTTTCATTTTGGTTTGACGTATGGTTACCA
66 CGATTTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGATTTGACGTATGGTTACCA
1566463 CC
131 CC
* * * * * *
1566465 CTGGTCAAATCCGCCTCTATTCTATCTGATGTATTGTTACCACCCTGGTCAAACTTTTCTCGTTT
1 CTAGTCAAATCTGCCTCTATTCTATTTGACGTATGGTTACCACCCTGGTCAAACTTTTCTCATTT
* * * * * * ** *
1566530 TGATTTGACGTATGGTTACTATCCTAGTCAAATT-TGCCTCTATTTTG-TTTGACATATGGTTAC
66 CGATTTGACATATGGTTACCACCCTGGTCAGATTCT-TTTC-ATTTTGATTTGACGTATGGTTAC
1566593 CACC
129 CACC
* ** * * * * * *
1566597 CTGGTCAAA-CT-TTTCTTATTTCGATCTGATGTATGGTTACCACCCTAGTCAGA-TTCTTGTCA
1 CTAGTCAAATCTGCCTC-TA-TTCTATTTGACGTATGGTTACCACCCTGGTCAAACTT-TTCTCA
* * * * ** * *
1566659 TTTTGATTTGACATATGGTTATCACCTTGGTCAAATTGGC-TTTCATCCTG-TTTGACATATGCT
63 TTTCGATTTGACATATGGTTACCACCCTGGTCAGATT--CTTTTCATTTTGATTTGACGTATGGT
1566722 TACCACC
126 TACCACC
*
1566729 CTGGTCAAA
1 CTAGTCAAA
1566738 CTTTTCTCAT
Statistics
Matches: 462, Mismatches: 65, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
130 2 0.00
131 9 0.02
132 441 0.95
133 10 0.02
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.41
Consensus pattern (132 bp):
CTAGTCAAATCTGCCTCTATTCTATTTGACGTATGGTTACCACCCTGGTCAAACTTTTCTCATTT
CGATTTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGATTTGACGTATGGTTACCA
CC
Found at i:1566900 original size:44 final size:43
Alignment explanation
Indices: 1566754--1566900 Score: 120
Period size: 44 Copynumber: 3.3 Consensus size: 43
1566744 TCATTTTGAT
* * *
1566754 TGGTCAAATTCTTTTTATTCTGATTTGATGTATGGTTACTACCC
1 TGGTCAAATACTTTTCATTCTGATTTGAAGTATGGTTAC-ACCC
* * ** *
1566798 TGGT-AAA-ACTTTTCTCATT-TCGATCTAAAGTATGGTTATTGCCA
1 TGGTCAAATAC-TTT-TCATTCT-GATTTGAAGTATGGTTA-CACCC
* *
1566842 TGGTCAAATTCTTTTCATTCTGATTTGACGTATGGTTAGCACCC
1 TGGTCAAATACTTTTCATTCTGATTTGAAGTATGGTTA-CACCC
*
1566886 TGGTCAAACACTTTT
1 TGGTCAAATACTTTT
1566901 AACCCTTTCA
Statistics
Matches: 78, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.09
44 62 0.79
45 7 0.09
46 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (43 bp):
TGGTCAAATACTTTTCATTCTGATTTGAAGTATGGTTACACCC
Found at i:1567022 original size:100 final size:101
Alignment explanation
Indices: 1566849--1567043 Score: 277
Period size: 100 Copynumber: 1.9 Consensus size: 101
1566839 CCATGGTCAA
* * * *
1566849 ATTCTTTTCATTCTGATTTGACGTATGGTTAGCACCCTGGTCAAACACTTTTAACCCTTTCATTA
1 ATTCTTTTCATTCTGATTTAACATATGGTTAGCACCCTAGTCAAACACTTTTAACCCTTTCACTA
* * *
1566914 ACCTTTTAATTGATTGAC-TCATCAGTTTTGCTTAG
66 ACCTTTTAACTAATTGACTTCATCAATTTTGCTTAG
* *
1566949 ATTCTTTTCATTCTTATTTAACATATGGTTAGCACCCTAGTCAAAC-CTTTCTAACCCTTTGACT
1 ATTCTTTTCATTCTGATTTAACATATGGTTAGCACCCTAGTCAAACACTTT-TAACCCTTTCACT
*
1567013 AGCCTTTTAACTAATTGACTTCATCAATTTT
65 AACCTTTTAACTAATTGACTTCATCAATTTT
1567044 CCCCTGGTCA
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
99 4 0.05
100 69 0.83
101 10 0.12
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.43
Consensus pattern (101 bp):
ATTCTTTTCATTCTGATTTAACATATGGTTAGCACCCTAGTCAAACACTTTTAACCCTTTCACTA
ACCTTTTAACTAATTGACTTCATCAATTTTGCTTAG
Found at i:1567153 original size:42 final size:42
Alignment explanation
Indices: 1567104--1567557 Score: 338
Period size: 42 Copynumber: 10.8 Consensus size: 42
1567094 AACCTTTCTA
* *
1567104 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTAACCCTAGAG
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCCTAGAG
* * * *
1567146 ATTTCCTTACTTTTAGTCTACCTGTCGACTTTGACCCTAGAG
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCCTAGAG
* * * * **
1567188 ACTTCCTCACTTTTA-CCTACCTGTTAGCTTTGACCCT-GAAG
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCCTAG-AG
* * * * *
1567229 ACTTCCTCACCTTTAGTCTTCTTGTCGACATTGACCCTAGAG
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCCTAGAG
* * * *
1567271 ACTTCTTTACCCTTAGTCTGCTTGTCAGCTTTGACCCTAGAG
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCCTAGAG
* * * * * * *
1567313 ACTT-TTTAACTTTTAATCTGCTTGTCGACTTTAACCTTAGAG
1 ACTTCCTT-ACCTTTAGTCTGCCTGTCGGCTTTGACCCTAGAG
* * * *
1567355 ATTTCCTTACCTTTAGTCTGCCTGTTGGCTTTGACTCTGGAG
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCCTAGAG
* * * * * * * *
1567397 ACTTCTTTATCTTTAGTCTGCCTATTGACTTTGACCTTGGAA
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCCTAGAG
** * * * * * *
1567439 ACAACCTAACTTTTAGTCTACCTGTCAGCTTTAACCTTAGAG
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCCTAGAG
* * * **
1567481 ACTTCCTTACCTTTAGTTTTCCTGTCGGCTTTAATGCTAGAG
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCCTAGAG
* ** * * *
1567523 ATTTATTTACCTTTTGTCTACCCGTCGGCTTTGAC
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGAC
1567558 TCGGGAGACT
Statistics
Matches: 321, Mismatches: 86, Indels: 10
0.77 0.21 0.02
Matches are distributed among these distances:
40 1 0.00
41 37 0.12
42 280 0.87
43 3 0.01
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.40
Consensus pattern (42 bp):
ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCCTAGAG
Found at i:1567555 original size:126 final size:125
Alignment explanation
Indices: 1567104--1567557 Score: 437
Period size: 126 Copynumber: 3.6 Consensus size: 125
1567094 AACCTTTCTA
* * * *
1567104 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTAACCCTAGAGATTTCCTTACTTTTAGTCTACCT
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTAACCCTAGAGACTTCTTTACCTTTAGTCTACCT
* * * * *
1567169 GTCGACTTTGACCCTAGAGACTTCCTCACTTTTACCTACCTGTTAGCTTTGACCCT-GAAG
66 GTCGACTTTGACCCTAGAGACTTCCTAACTTTTATCTACCTGTCAGCTTTAACCTTAG-AG
* * * * * * * * *
1567229 ACTTCCTCACCTTTAGTCTTCTTGTCGACATTGACCCTAGAGACTTCTTTACCCTTAGTCTGCTT
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTAACCCTAGAGACTTCTTTACCTTTAGTCTACCT
** * *
1567294 GTC-AGCTTTGACCCTAGAGACTTTTTAACTTTTAATCTGCTTGTC-GACTTTAACCTTAGAG
66 GTCGA-CTTTGACCCTAGAGACTTCCTAACTTTT-ATCTACCTGTCAG-CTTTAACCTTAGAG
* * * * * * *
1567355 ATTTCCTTACCTTTAGTCTGCCTGTTGGCTTTGACTCTGGAGACTTCTTTATCTTTAGTCTGCCT
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTAACCCTAGAGACTTCTTTACCTTTAGTCTACCT
* * * * * **
1567420 ATTGACTTTGACCTTGGAAACAACCTAACTTTTAGTCTACCTGTCAGCTTTAACCTTAGAG
66 GTCGACTTTGACCCTAGAGACTTCCTAACTTTTA-TCTACCTGTCAGCTTTAACCTTAGAG
* * ** * * * *
1567481 ACTTCCTTACCTTTAGTTTTCCTGTCGGCTTTAATGCTAGAGATTTATTTACCTTTTGTCTACCC
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTAACCCTAGAGACTTCTTTACCTTTAGTCTACCT
*
1567546 GTCGGCTTTGAC
66 GTCGACTTTGAC
1567558 TCGGGAGACT
Statistics
Matches: 260, Mismatches: 62, Indels: 13
0.78 0.19 0.04
Matches are distributed among these distances:
124 1 0.00
125 82 0.32
126 174 0.67
127 3 0.01
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.40
Consensus pattern (125 bp):
ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTAACCCTAGAGACTTCTTTACCTTTAGTCTACCT
GTCGACTTTGACCCTAGAGACTTCCTAACTTTTATCTACCTGTCAGCTTTAACCTTAGAG
Found at i:1567847 original size:21 final size:20
Alignment explanation
Indices: 1567817--1567855 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1567807 TACATTTTTG
*
1567817 TCCAAATGTATCGATACATT
1 TCCAAATGTATCAATACATT
1567837 TCCAGAATGTATCAATACA
1 TCCA-AATGTATCAATACA
1567856 AGGTCCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (20 bp):
TCCAAATGTATCAATACATT
Found at i:1574440 original size:20 final size:20
Alignment explanation
Indices: 1574415--1574465 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1574405 ATCGATACAT
**
1574415 TGTATCGATACTTGACTAAA
1 TGTATCGATACTTGAAAAAA
1574435 TGTATCGATACTTGAAAAAA
1 TGTATCGATACTTGAAAAAA
1574455 TGTATCGATAC
1 TGTATCGATAC
1574466 AAGTCATTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (20 bp):
TGTATCGATACTTGAAAAAA
Found at i:1574536 original size:13 final size:13
Alignment explanation
Indices: 1574518--1574542 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1574508 ACACACAGTA
1574518 TGTATCGATACAT
1 TGTATCGATACAT
1574531 TGTATCGATACA
1 TGTATCGATACA
1574543 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1574539 original size:32 final size:33
Alignment explanation
Indices: 1574498--1574565 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1574488 GTAGCTAAAC
**
1574498 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
1574530 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
1574563 TTG
1 TTG
1574566 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:1583091 original size:13 final size:13
Alignment explanation
Indices: 1583073--1583146 Score: 62
Period size: 14 Copynumber: 5.4 Consensus size: 13
1583063 TCCTCCGCAC
1583073 AAAAAAACAAA-A
1 AAAAAAACAAACA
1583085 TAAAAAAACAAACA
1 -AAAAAAACAAACA
*
1583099 AAACAAAACAAGCAA
1 AAA-AAAACAAAC-A
*
1583114 ACAAAAAAAAAACA
1 A-AAAAAACAAACA
1583128 AACAAACAAC-AACA
1 AA-AAA-AACAAACA
1583142 AAAAA
1 AAAAA
1583147 TGTCCGGATG
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
13 18 0.35
14 20 0.39
15 11 0.22
16 2 0.04
ACGTcount: A:0.81, C:0.16, G:0.01, T:0.01
Consensus pattern (13 bp):
AAAAAAACAAACA
Found at i:1583099 original size:4 final size:4
Alignment explanation
Indices: 1583071--1583136 Score: 53
Period size: 4 Copynumber: 16.0 Consensus size: 4
1583061 CGTCCTCCGC
* * * *
1583071 ACAA AAAA ACAAA ATAA AAAA ACAA ACAAA ACAAA ACAA GCAA ACAA A-AA
1 ACAA ACAA AC-AA ACAA ACAA ACAA AC-AA AC-AA ACAA ACAA ACAA ACAA
*
1583121 AAAA ACAA ACAA ACAA
1 ACAA ACAA ACAA ACAA
1583137 CAACAAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
3 3 0.06
4 36 0.71
5 12 0.24
ACGTcount: A:0.80, C:0.17, G:0.02, T:0.02
Consensus pattern (4 bp):
ACAA
Found at i:1583123 original size:33 final size:35
Alignment explanation
Indices: 1583077--1583142 Score: 102
Period size: 33 Copynumber: 1.9 Consensus size: 35
1583067 CCGCACAAAA
1583077 AAACAAAATAAAAAAACAAACAAAACAA-AACAAGC
1 AAACAAAATAAAAAAACAAAC-AAACAACAACAAGC
1583112 AAAC-AAA-AAAAAAACAAACAAACAACAACAA
1 AAACAAAATAAAAAAACAAACAAACAACAACAA
1583143 AAAATGTCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 6 0.20
33 17 0.57
34 3 0.10
35 4 0.13
ACGTcount: A:0.79, C:0.18, G:0.02, T:0.02
Consensus pattern (35 bp):
AAACAAAATAAAAAAACAAACAAACAACAACAAGC
Found at i:1583138 original size:22 final size:22
Alignment explanation
Indices: 1583073--1583146 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
1583063 TCCTCCGCAC
1583073 AAAAAAACAAA-ATAA-AA-AAA
1 AAAAAAACAAACA-AACAACAAA
*
1583093 CAAACAAAACAAAACAAGCAAACAAA
1 -AAA-AAAAC-AAACAAAC-AACAAA
*
1583119 AAAAAAACAAACAAACAACAAC
1 AAAAAAACAAACAAACAACAAA
1583141 AAAAAA
1 AAAAAA
1583147 TGTCCGGATG
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
21 3 0.07
22 16 0.36
23 11 0.25
24 6 0.14
25 5 0.11
26 3 0.07
ACGTcount: A:0.81, C:0.16, G:0.01, T:0.01
Consensus pattern (22 bp):
AAAAAAACAAACAAACAACAAA
Found at i:1583143 original size:14 final size:13
Alignment explanation
Indices: 1583071--1583143 Score: 66
Period size: 13 Copynumber: 5.8 Consensus size: 13
1583061 CGTCCTCCGC
1583071 ACAAAA-AAACAA
1 ACAAAACAAACAA
*
1583083 A-ATAAAAAAACAA
1 ACA-AAACAAACAA
1583096 ACAAAACAAAACAA
1 ACAAAAC-AAACAA
*
1583110 GC-AAACAAA-AA
1 ACAAAACAAACAA
1583121 A-AAAACAAACAA
1 ACAAAACAAACAA
1583133 ACAACAACAAA
1 ACAA-AACAAA
1583144 AAATGTCCGG
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
11 10 0.20
12 10 0.20
13 16 0.32
14 14 0.28
ACGTcount: A:0.79, C:0.18, G:0.01, T:0.01
Consensus pattern (13 bp):
ACAAAACAAACAA
Found at i:1584619 original size:29 final size:29
Alignment explanation
Indices: 1584579--1584870 Score: 331
Period size: 29 Copynumber: 10.1 Consensus size: 29
1584569 ATTCCTCACC
1584579 TTTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAAGCCCACAAGTCAGTGGCATCT
* * * *
1584608 TTTCCAAAGCCCGCAAGTCAGTGACAAC-
1 TTTCAAAAGCCCACAAGTCAGTGGCATCT
* * *
1584636 CTTCAAAAACCCACAAGTTAGTGGCATCTT
1 TTTCAAAAGCCCACAAGTCAGTGGCATC-T
1584666 TTTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAAGCCCACAAGTCAGTGGCATCT
* *
1584695 TTTCCAAAGCCCATAAGTCAGTGGCATCT
1 TTTCAAAAGCCCACAAGTCAGTGGCATCT
* * *
1584724 TTTCCAAAGCCCACAAGTCAATGGCAAC-
1 TTTCAAAAGCCCACAAGTCAGTGGCATCT
* * *
1584752 CTTCGAAAGCCCACAAGTCAATGGCATCTT
1 TTTCAAAAGCCCACAAGTCAGTGGCATC-T
* * *
1584782 TTTTAAAAGCCCACAGGTTAGTGGCATCTT
1 TTTCAAAAGCCCACAAGTCAGTGGCATC-T
*
1584812 TTTC-AAAGCCCACAAGTCAGTGGCAAC-
1 TTTCAAAAGCCCACAAGTCAGTGGCATCT
* * *
1584839 CTTCAAAAGCCTACAAGTCTGTGGCATCT
1 TTTCAAAAGCCCACAAGTCAGTGGCATCT
1584868 TTT
1 TTT
1584871 TCCTTTTAAG
Statistics
Matches: 220, Mismatches: 37, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
27 3 0.01
28 66 0.30
29 99 0.45
30 52 0.24
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (29 bp):
TTTCAAAAGCCCACAAGTCAGTGGCATCT
Found at i:1584790 original size:116 final size:116
Alignment explanation
Indices: 1584579--1584836 Score: 399
Period size: 116 Copynumber: 2.2 Consensus size: 116
1584569 ATTCCTCACC
* * *
1584579 TTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCGCAAGTCAGTGACAACCTTCAAAA
1 TTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAATGACAACCTTCAAAA
* *
1584644 ACCCACAAGTTAGTGGCATCTTTTTCAAAAGCCCACAAGTCAGTGGCATCT
66 ACCCACAAGTCAATGGCATCTTTTTCAAAAGCCCACAAGTCAGTGGCATCT
* * *
1584695 TTTCCAAAGCCCATAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAATGGCAACCTTCGAAA
1 TTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAATGACAACCTTCAAAA
* * * *
1584760 GCCCACAAGTCAATGGCATCTTTTTTAAAAGCCCACAGGTTAGTGGCATCT
66 ACCCACAAGTCAATGGCATCTTTTTCAAAAGCCCACAAGTCAGTGGCATCT
*
1584811 TTTTCAAAGCCCACAAGTCAGTGGCA
1 TTTCCAAAGCCCACAAGTCAGTGGCA
1584837 ACCTTCAAAA
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
116 128 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (116 bp):
TTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAATGACAACCTTCAAAA
ACCCACAAGTCAATGGCATCTTTTTCAAAAGCCCACAAGTCAGTGGCATCT
Found at i:1584791 original size:87 final size:86
Alignment explanation
Indices: 1584580--1584870 Score: 368
Period size: 87 Copynumber: 3.4 Consensus size: 86
1584570 TTCCTCACCT
* * * * *
1584580 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCGCAAGTCAGTGACAAC-CTTCAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAA
* * * *
1584644 ACCCACAAGTTAGTGGCATCTTT
66 GCCCACAAGTCAGTGGCAAC--C
*
1584667 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCATAAGTCAGTGGCATCTTTTCCAAA
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAA
*
1584732 GCCCACAAGTCAATGGCAACC
66 GCCCACAAGTCAGTGGCAACC
* * ** * * *
1584753 TTCGAAAGCCCACAAGTCAATGGCATCTTTTTTAAAAGCCCACAGGTTAGTGGCATCTTTTTCAA
1 TTCAAAAGCCCACAAGTCAGTGGCATC-TTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAA
1584818 AGCCCACAAGTCAGTGGCAACC
65 AGCCCACAAGTCAGTGGCAACC
* *
1584840 TTCAAAAGCCTACAAGTCTGTGGCATCTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTT
1584871 TCCTTTTAAG
Statistics
Matches: 178, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
86 29 0.16
87 127 0.71
88 22 0.12
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (86 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAA
GCCCACAAGTCAGTGGCAACC
Found at i:1584931 original size:34 final size:33
Alignment explanation
Indices: 1584845--1585004 Score: 151
Period size: 33 Copynumber: 4.8 Consensus size: 33
1584835 CAACCTTCAA
* * * *
1584845 AAGCCTACAAGTCTGTGGCATCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* ** * *
1584878 AAGTCCACAACTCTATGGCACATTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
*
1584911 AAAGCCCACAACTCCGTGGCACC-TTTTCTTTTT
1 -AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
1584944 AAGTCCACAACTCCGTGGCACCCTTTTCCCTTTT
1 AAGCCCACAACTCCGTGGCA-CCTTTTTCCTTTT
* ** *
1584978 AAGCCCACACCTCTATGGCATCTTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTT
1585005 TTCCTACTCC
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
32 19 0.18
33 43 0.41
34 42 0.40
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.37
Consensus pattern (33 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:1584963 original size:66 final size:68
Alignment explanation
Indices: 1584844--1585004 Score: 175
Period size: 66 Copynumber: 2.4 Consensus size: 68
1584834 GCAACCTTCA
* * * * * * *
1584844 AAAGCCTACAAGTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCTATGGCA-CATTTTTCTT
1 AAAGCCCACAACTCCGTGGCATCCTTTTCCTTTTAAGTCCACAACTCCATGGCACCATTTTCCCT
1584908 TTT
66 TTT
* * *
1584911 AAAGCCCACAACTCCGTGGCA-CCTTTTCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTCCCT
1 AAAGCCCACAACTCCGTGGCATCCTTTTCCTTTTAAGTCCACAACTCCATGGCACCATTTTCCCT
1584975 TTT
66 TTT
* ** *
1584978 -AAGCCCACACCTCTATGGCATCTTTTT
1 AAAGCCCACAACTCCGTGGCATCCTTTT
1585005 TTCCTACTCC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
66 45 0.58
67 33 0.42
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.37
Consensus pattern (68 bp):
AAAGCCCACAACTCCGTGGCATCCTTTTCCTTTTAAGTCCACAACTCCATGGCACCATTTTCCCT
TTT
Found at i:1585003 original size:33 final size:33
Alignment explanation
Indices: 1584860--1585004 Score: 148
Period size: 34 Copynumber: 4.4 Consensus size: 33
1584850 TACAAGTCTG
* * *
1584860 TGGCATCTTTTTCCTTTTAAGTCCACAACTCTA
1 TGGCACCTTTTTCCTTTTAAGCCCACAACTCCA
* * *
1584893 TGGCACATTTTTCTTTTTAAAGCCCACAACTCCG
1 TGGCACCTTTTTCCTTTT-AAGCCCACAACTCCA
* * *
1584927 TGGCACC-TTTTCTTTTTAAGTCCACAACTCCG
1 TGGCACCTTTTTCCTTTTAAGCCCACAACTCCA
* * *
1584959 TGGCACCCTTTTCCCTTTTAAGCCCACACCTCTA
1 TGGCA-CCTTTTTCCTTTTAAGCCCACAACTCCA
*
1584993 TGGCATCTTTTT
1 TGGCACCTTTTT
1585005 TTCCTACTCC
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
32 19 0.20
33 32 0.34
34 42 0.45
ACGTcount: A:0.19, C:0.31, G:0.11, T:0.39
Consensus pattern (33 bp):
TGGCACCTTTTTCCTTTTAAGCCCACAACTCCA
Found at i:1585100 original size:47 final size:47
Alignment explanation
Indices: 1585022--1585497 Score: 421
Period size: 49 Copynumber: 10.0 Consensus size: 47
1585012 TCCGTGCCAC
* *
1585022 CTTTAAGCCCAATATCGCTGGCCTTGTATCAGCACATTGGCATTCTT
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTT
* * * *
1585069 CTTTAAGACAAATGTCGCTAGCCCTGAATCAGCACATTGGCA-----
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTT
* * * **
1585111 C---AAGCCCAATGTCGTTGGCCTTGAATTAGCATATTGGCACCTTCAC
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TTCTT
* * *
1585157 CTTTAAGCCCAATATCGCTGGCCTTGTATCAGCACATTGACATTCTT
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTT
* * * * *
1585204 TTTTAAGACCAATGTCACCGGCCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TTCTT
* * ** *
1585253 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTTACACCTTCAT
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TTCTT
* *
1585302 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TTCTT
* * * * *
1585351 CTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCA-TCTTT
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTC-TT
**
1585398 ACCATTCCTAAGCCCAATGTCGCTGGCCTTGTCTCAGCACATTGGCATTCTT
1 --C-TT--TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTT
* * * * *
1585450 CTTCAAGTCTAATGTCGCTGGCCATGAATCAGCACATTGTCATTCTT
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTT
1585497 C
1 C
1585498 GCATCTTCAA
Statistics
Matches: 348, Mismatches: 62, Indels: 38
0.78 0.14 0.08
Matches are distributed among these distances:
39 31 0.09
42 1 0.00
46 3 0.01
47 113 0.32
49 161 0.46
50 3 0.01
52 34 0.10
53 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (47 bp):
CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTT
Found at i:1585177 original size:135 final size:138
Alignment explanation
Indices: 1585019--1585357 Score: 423
Period size: 135 Copynumber: 2.4 Consensus size: 138
1585009 TACTCCGTGC
1585019 CACCTTTAAGCCCAATATCGCTGGCCTTGTATCAGCACATTGGCATTCTTCTTTAAGACAAATGT
1 CACCTTTAAGCCCAATATCGCTGGCCTTGTATCAGCACATTGGCATTCTTCTTTAAGACAAATGT
* * * * *
1585084 CGCTAGCCCTGAATCAGCACATTGG-CA-C-AAGCCCAATGTCGTTGGCCTTGAATTAGCATATT
66 CACCAGCCCTGAATCAGCACATTGGCCATCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATT
*
1585146 GGCACCTT
131 GACACCTT
* * *
1585154 CACCTTTAAGCCCAATATCGCTGGCCTTGTATCAGCACATTGACATTCTTTTTTAAGACCAATGT
1 CACCTTTAAGCCCAATATCGCTGGCCTTGTATCAGCACATTGGCATTCTTCTTTAAGACAAATGT
* *
1585219 CACCGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCA
66 CACCAGCCCTGAATCAGCACATTGG---C--CATC--TAAGCCCAATATCGCTGGCCTTGAATCA
*
1585284 GCATATTTACACCTT
124 GCATATTGACACCTT
* * * * *
1585299 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAG
1 CACCTTTAAGCCCAATATCGCTGGCCTTGTATCAGCACATTGGCA--TTCTTCTTTAAG
1585358 TCCGATATCG
Statistics
Matches: 173, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
135 83 0.48
141 2 0.01
142 1 0.01
145 77 0.45
147 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (138 bp):
CACCTTTAAGCCCAATATCGCTGGCCTTGTATCAGCACATTGGCATTCTTCTTTAAGACAAATGT
CACCAGCCCTGAATCAGCACATTGGCCATCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATT
GACACCTT
Found at i:1590042 original size:151 final size:151
Alignment explanation
Indices: 1589778--1590080 Score: 597
Period size: 151 Copynumber: 2.0 Consensus size: 151
1589768 ATTTCACACA
*
1589778 TTCACAATTGAAACGGTGAAATGAATGACTACATGATCGAAAATTCATCTTTCTCGGATGAGTGT
1 TTCACAATTGAAACGGTGAAATGAATGACTACACGATCGAAAATTCATCTTTCTCGGATGAGTGT
1589843 AGGTTGTATCATTTGAACATTTTCTCGGAGGTTCAAAGAAAGTTACAATTAATAGGATAAATTTG
66 AGGTTGTATCATTTGAACATTTTCTCGGAGGTTCAAAGAAAGTTACAATTAATAGGATAAATTTG
1589908 TCAGGTTATTTTTAAAAAAAT
131 TCAGGTTATTTTTAAAAAAAT
1589929 TTCACAATTGAAACGGTGAAATGAATGACTACACGATCGAAAATTCATCTTTCTCGGATGAGTGT
1 TTCACAATTGAAACGGTGAAATGAATGACTACACGATCGAAAATTCATCTTTCTCGGATGAGTGT
1589994 AGGTTGTATCATTTGAACATTTTCTCGGAGGTTCAAAGAAAGTTACAATTAATAGGATAAATTTG
66 AGGTTGTATCATTTGAACATTTTCTCGGAGGTTCAAAGAAAGTTACAATTAATAGGATAAATTTG
1590059 TCAGGTTATTTTTAAAAAAAT
131 TCAGGTTATTTTTAAAAAAAT
1590080 T
1 T
1590081 AAAATGAAAT
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 151 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (151 bp):
TTCACAATTGAAACGGTGAAATGAATGACTACACGATCGAAAATTCATCTTTCTCGGATGAGTGT
AGGTTGTATCATTTGAACATTTTCTCGGAGGTTCAAAGAAAGTTACAATTAATAGGATAAATTTG
TCAGGTTATTTTTAAAAAAAT
Found at i:1590095 original size:5 final size:5
Alignment explanation
Indices: 1590071--1590126 Score: 57
Period size: 5 Copynumber: 12.0 Consensus size: 5
1590061 AGGTTATTTT
* * *
1590071 TAAAA -AAAT TAAAA TGAAA TAAAA TAAAA TAAAA -AATA -AAAA T-AAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1590117 TAAAA TAAAA
1 TAAAA TAAAA
1590127 AATATAATCA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
4 13 0.31
5 29 0.69
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:1590106 original size:22 final size:21
Alignment explanation
Indices: 1590081--1590162 Score: 83
Period size: 22 Copynumber: 3.7 Consensus size: 21
1590071 TAAAAAAATT
1590081 AAAATGAAATAAAATAAAATAA
1 AAAAT-AAATAAAATAAAATAA
*
1590103 AAAATAAAAATAAATAAAATAA
1 AAAATAAATA-AAATAAAATAA
* *
1590125 AAAATATAATCATAATTAAATAAA
1 AAAATA-AAT-AAAATAAAAT-AA
*
1590149 AAAATATATAAAAT
1 AAAATAAATAAAAT
1590163 TAATCGTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
21 4 0.08
22 26 0.52
23 11 0.22
24 9 0.18
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (21 bp):
AAAATAAATAAAATAAAATAA
Found at i:1590108 original size:12 final size:12
Alignment explanation
Indices: 1590091--1590130 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
1590081 AAAATGAAAT
1590091 AAAATAAAATAA
1 AAAATAAAATAA
1590103 AAAAT-AAA-AA
1 AAAATAAAATAA
*
1590113 TAAATAAAATAA
1 AAAATAAAATAA
1590125 AAAATA
1 AAAATA
1590131 TAATCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 6 0.25
11 6 0.25
12 12 0.50
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:1590117 original size:27 final size:28
Alignment explanation
Indices: 1590073--1590126 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
1590063 GTTATTTTTA
*
1590073 AAAAAATTAAAATGAAATAAAATAAAAT
1 AAAAAATAAAAATGAAATAAAATAAAAT
1590101 AAAAAATAAAAAT-AAATAAAATAAAA
1 AAAAAATAAAAATGAAATAAAATAAAA
1590127 AATATAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (28 bp):
AAAAAATAAAAATGAAATAAAATAAAAT
Found at i:1590133 original size:18 final size:18
Alignment explanation
Indices: 1590087--1590133 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
1590077 AATTAAAATG
1590087 AAATAAAATA-AAATAAA
1 AAATAAAATATAAATAAA
1590104 AAATAAAA-ATAAATAAA
1 AAATAAAATATAAATAAA
1590121 ATAA-AAAATATAA
1 A-AATAAAATATAA
1590134 TCATAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.04
17 20 0.74
18 6 0.22
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (18 bp):
AAATAAAATATAAATAAA
Found at i:1590146 original size:32 final size:31
Alignment explanation
Indices: 1590110--1590180 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
1590100 TAAAAAATAA
1590110 AAATAAATAAAATA-A-AAAATATAATCATAATT
1 AAATAAA-AAAATATATAAAAT-TAATCAT-ATT
*
1590142 AAATAAAAAAATATATAAAATTAATCGTATT
1 AAATAAAAAAATATATAAAATTAATCATATT
1590173 AAA-AAAAA
1 AAATAAAAA
1590181 GAGAAAAGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 5 0.14
31 12 0.33
32 14 0.39
33 5 0.14
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (31 bp):
AAATAAAAAAATATATAAAATTAATCATATT
Found at i:1590274 original size:43 final size:43
Alignment explanation
Indices: 1590213--1590333 Score: 199
Period size: 43 Copynumber: 2.8 Consensus size: 43
1590203 TCAACGTTTC
1590213 TGCCACCTAATTGATTTAGGTGGCATTGCATGCTTAATTCAAT
1 TGCCACCTAATTGATTTAGGTGGCATTGCATGCTTAATTCAAT
1590256 TGCCACCTAATTGATTTAGGTGGCATTGCATGCTTAATTCAAT
1 TGCCACCTAATTGATTTAGGTGGCATTGCATGCTTAATTCAAT
* * *
1590299 TGCCACCTAAATCAATTAGGTGGCAATT-CATGCTT
1 TGCCACCTAATTGATTTAGGTGGC-ATTGCATGCTT
1590334 TCATGCAAGA
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
43 71 0.96
44 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (43 bp):
TGCCACCTAATTGATTTAGGTGGCATTGCATGCTTAATTCAAT
Found at i:1590764 original size:27 final size:24
Alignment explanation
Indices: 1590690--1590754 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
1590680 AAACAGCTGT
* *
1590690 TGCAATGAAGAAAGAAATAATAGC
1 TGCAATGAAGAAAGAAGTAACAGC
1590714 TGCAATGAAGAAAGAAGTAACAGC
1 TGCAATGAAGAAAGAAGTAACAGC
1590738 TGCAATGAAGAAAGAAG
1 TGCAATGAAGAAAGAAG
1590755 AACCTGCAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.52, C:0.09, G:0.25, T:0.14
Consensus pattern (24 bp):
TGCAATGAAGAAAGAAGTAACAGC
Found at i:1591206 original size:21 final size:21
Alignment explanation
Indices: 1591180--1591251 Score: 94
Period size: 21 Copynumber: 3.4 Consensus size: 21
1591170 CAAAAGAAAA
1591180 AAGCAGCAAACAAACTCCAGC
1 AAGCAGCAAACAAACTCCAGC
1591201 AAGCAGCAAACAAACTCCAGC
1 AAGCAGCAAACAAACTCCAGC
*
1591222 AAGCA--ATAACTGAAACTCCAAC
1 AAGCAGCA-AAC--AAACTCCAGC
1591244 AAGCAGCA
1 AAGCAGCA
1591252 GCCATACCAA
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 26 0.58
22 14 0.31
24 1 0.02
ACGTcount: A:0.49, C:0.31, G:0.14, T:0.07
Consensus pattern (21 bp):
AAGCAGCAAACAAACTCCAGC
Found at i:1591928 original size:29 final size:31
Alignment explanation
Indices: 1591855--1591920 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
1591845 AAAAAGTAAA
* *
1591855 TTATTAAATTATTA-ATTTTTAAGTAAATTT
1 TTATTATACTATTATATTTTTAAGTAAATTT
*
1591885 TTATTATACTATTATATTTTTAA-TATA-TT
1 TTATTATACTATTATATTTTTAAGTAAATTT
1591914 TTATTAT
1 TTATTAT
1591921 TTATTTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 9 0.28
30 15 0.47
31 8 0.25
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (31 bp):
TTATTATACTATTATATTTTTAAGTAAATTT
Found at i:1591970 original size:18 final size:19
Alignment explanation
Indices: 1591940--1591978 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
1591930 AAAATCTATA
1591940 TTTATATATAAATTAATTT
1 TTTATATATAAATTAATTT
1591959 TTTATATA-AAATTAATTT
1 TTTATATATAAATTAATTT
1591977 TT
1 TT
1591979 CAAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATATATAAATTAATTT
Found at i:1591985 original size:18 final size:18
Alignment explanation
Indices: 1591949--1591985 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1591939 ATTTATATAT
* *
1591949 AAATTAATTTTTTATATA
1 AAATTAATTTTTCAAATA
1591967 AAATTAATTTTTCAAATA
1 AAATTAATTTTTCAAATA
1591985 A
1 A
1591986 TTTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATTAATTTTTCAAATA
Found at i:1592690 original size:16 final size:15
Alignment explanation
Indices: 1592663--1592692 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1592653 ATGTTAACTT
1592663 TATATTCTATTCTAC
1 TATATTCTATTCTAC
1592678 TATATTGCTATTCTA
1 TATATT-CTATTCTA
1592693 AGTGTAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.17, G:0.03, T:0.53
Consensus pattern (15 bp):
TATATTCTATTCTAC
Found at i:1593208 original size:16 final size:16
Alignment explanation
Indices: 1593160--1593287 Score: 77
Period size: 16 Copynumber: 8.1 Consensus size: 16
1593150 TTGGGTCAGA
* *
1593160 TTCGAGTTCAGGCTCT
1 TTCGGGTTCAGGCTTT
* * * *
1593176 TTCAGCTTTAGGTTTT
1 TTCGGGTTCAGGCTTT
*
1593192 TTCGGGTTCGGGCTTT
1 TTCGGGTTCAGGCTTT
1593208 TTCGGGTTCAGGCTTT
1 TTCGGGTTCAGGCTTT
* *
1593224 CTT-GAGTTCAGGCTAT
1 -TTCGGGTTCAGGCTTT
*
1593240 CTCGGGTTCA-GCTATT
1 TTCGGGTTCAGGCT-TT
* * *
1593256 TT-TGGTTTAGG-TAAT
1 TTCGGGTTCAGGCT-TT
1593271 TTCGGGTTCAGG-TTT
1 TTCGGGTTCAGGCTTT
1593286 TT
1 TT
1593288 GACTTTTTGA
Statistics
Matches: 83, Mismatches: 24, Indels: 11
0.70 0.20 0.09
Matches are distributed among these distances:
15 17 0.20
16 64 0.77
17 2 0.02
ACGTcount: A:0.11, C:0.16, G:0.27, T:0.45
Consensus pattern (16 bp):
TTCGGGTTCAGGCTTT
Found at i:1594284 original size:13 final size:13
Alignment explanation
Indices: 1594266--1594291 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1594256 CAATTTTTTG
1594266 TGTATCGATACAT
1 TGTATCGATACAT
1594279 TGTATCGATACAT
1 TGTATCGATACAT
1594292 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1594288 original size:33 final size:33
Alignment explanation
Indices: 1594246--1594310 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1594236 TACAAGCCAA
* *
1594246 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
1594279 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
1594311 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:1596424 original size:21 final size:20
Alignment explanation
Indices: 1596395--1596437 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1596385 GGCTAGTATG
*
1596395 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
1596416 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
1596436 GG
1 GG
1596438 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:1596896 original size:13 final size:13
Alignment explanation
Indices: 1596878--1596916 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
1596868 ATAATCCCCC
*
1596878 TGTATCGATACAG
1 TGTATCGATACAA
*
1596891 TGTATCAATACAA
1 TGTATCGATACAA
1596904 TGTATCGATACAA
1 TGTATCGATACAA
1596917 AGAAAAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1603125 original size:20 final size:19
Alignment explanation
Indices: 1603082--1603139 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
1603072 TGCAAGCCAA
* * *
1603082 TGTATCAATACAATTTTTG
1 TGTATCGATACAACTTTGG
1603101 TGTATCGATACATACTTTGG
1 TGTATCGATACA-ACTTTGG
*
1603121 TGTATCGATACAAGTTTGG
1 TGTATCGATACAACTTTGG
1603140 CTACTGCCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (19 bp):
TGTATCGATACAACTTTGG
Found at i:1603899 original size:22 final size:22
Alignment explanation
Indices: 1603852--1603898 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
1603842 CGTCAGGTAC
*
1603852 AAAACGTAATTTTCAAAATTTA
1 AAAACGTAAATTTCAAAATTTA
1603874 AAAAC-TAAATTT-AAAATTTA
1 AAAACGTAAATTTCAAAATTTA
1603894 GAAAA
1 -AAAA
1603899 AATTTGGCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 10 0.43
22 5 0.22
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.32
Consensus pattern (22 bp):
AAAACGTAAATTTCAAAATTTA
Found at i:1606274 original size:19 final size:20
Alignment explanation
Indices: 1606237--1606274 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1606227 TCCCATAGCT
*
1606237 ATGTATTGATACAATTCATA
1 ATGTATCGATACAATTCATA
1606257 ATGTATCGATAC-ATTCAT
1 ATGTATCGATACAATTCAT
1606275 TTGAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:1606424 original size:13 final size:13
Alignment explanation
Indices: 1606406--1606430 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1606396 GCCAGTTTCA
1606406 TGTATCGATACAT
1 TGTATCGATACAT
1606419 TGTATCGATACA
1 TGTATCGATACA
1606431 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1608495 original size:20 final size:22
Alignment explanation
Indices: 1608456--1608498 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
1608446 GCAGTGGGTG
*
1608456 TGGGAGCTGCCCGATTGCGACC
1 TGGGAGCTGCCCGATCGCGACC
1608478 TGGGAG-TG-CCGATCGCGACC
1 TGGGAGCTGCCCGATCGCGACC
1608498 T
1 T
1608499 AGAGGTGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 2 0.10
22 6 0.30
ACGTcount: A:0.14, C:0.30, G:0.37, T:0.19
Consensus pattern (22 bp):
TGGGAGCTGCCCGATCGCGACC
Found at i:1608957 original size:13 final size:13
Alignment explanation
Indices: 1608939--1608987 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
1608929 AATAGTAACC
1608939 ATGTATCGATACA
1 ATGTATCGATACA
1608952 ATGTATCG----A
1 ATGTATCGATACA
*
1608961 ATGTATCGATATA
1 ATGTATCGATACA
1608974 ATGTATCGATACA
1 ATGTATCGATACA
1608987 A
1 A
1608988 AGAATATTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
9 9 0.29
13 22 0.71
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1608967 original size:22 final size:22
Alignment explanation
Indices: 1608939--1608982 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1608929 AATAGTAACC
1608939 ATGTATCGATACAATGTATCGA
1 ATGTATCGATACAATGTATCGA
*
1608961 ATGTATCGATATAATGTATCGA
1 ATGTATCGATACAATGTATCGA
1608983 TACAAAGAAT
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:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (22 bp):
ATGTATCGATACAATGTATCGA
Found at i:1615081 original size:19 final size:20
Alignment explanation
Indices: 1615044--1615081 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1615034 TCCTGTAGCT
1615044 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
1615064 ATGTATCGATAC-ATTCAT
1 ATGTATCGATACAATTCAT
1615082 TTGAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:1619804 original size:20 final size:19
Alignment explanation
Indices: 1619774--1619814 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
1619764 TTGAAACCCT
1619774 TGAATGTATCGATACATTA
1 TGAATGTATCGATACATTA
1619793 TGAATAGTATCGATACATTA
1 TGAAT-GTATCGATACATTA
1619813 TG
1 TG
1619815 CTGAAACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (19 bp):
TGAATGTATCGATACATTA
Found at i:1623113 original size:20 final size:21
Alignment explanation
Indices: 1623088--1623126 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1623078 AAAATTTGAA
*
1623088 TATTGTATTGATA-CTTTCTC
1 TATTGTATCGATATCTTTCTC
1623108 TATTGTATCGATATCTTTC
1 TATTGTATCGATATCTTTC
1623127 CCCACTGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (21 bp):
TATTGTATCGATATCTTTCTC
Found at i:1626391 original size:33 final size:33
Alignment explanation
Indices: 1626354--1626420 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1626344 TTCAACGATT
1626354 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1626387 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1626420 T
1 T
1626421 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1626392 original size:13 final size:13
Alignment explanation
Indices: 1626374--1626398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1626364 CATAAAATGT
1626374 TGTATCGATACAA
1 TGTATCGATACAA
1626387 TGTATCGATACA
1 TGTATCGATACA
1626399 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1626481 original size:13 final size:13
Alignment explanation
Indices: 1626463--1626487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1626453 ATTACTCACA
1626463 TGTATCGATACAT
1 TGTATCGATACAT
1626476 TGTATCGATACA
1 TGTATCGATACA
1626488 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1626624 original size:52 final size:52
Alignment explanation
Indices: 1626496--1626615 Score: 222
Period size: 52 Copynumber: 2.3 Consensus size: 52
1626486 CACTGATCTT
*
1626496 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1626548 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1626600 TGTATCGATACATGCA
1 TGTATCGATACATGCA
1626616 AATAAATTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1633917 original size:12 final size:13
Alignment explanation
Indices: 1633889--1633919 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1633879 CCTACTCTTC
1633889 AAAAAAAAAAACA
1 AAAAAAAAAAACA
*
1633902 AAAAAAAAAAAGA
1 AAAAAAAAAAACA
1633915 AAAAA
1 AAAAA
1633920 CCCCTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAACA
Found at i:1634963 original size:27 final size:27
Alignment explanation
Indices: 1634904--1634958 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
1634894 GCACCTTGTT
* *
1634904 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGGGGCAC
*
1634931 CCTTTTAAAGCCCACAATTCCGGGGCAC
1 CCTTTT-AAGCCCACAACTCCGGGGCAC
1634959 TTTTTTCATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGGGGCAC
Found at i:1634964 original size:28 final size:28
Alignment explanation
Indices: 1634873--1635572 Score: 209
Period size: 34 Copynumber: 21.1 Consensus size: 28
1634863 ATTTTTTTTC
1634873 TTTAAAGCCCACAACTCCGTGGCACCTTGTT
1 TTTAAAGCCCACAACTCCGTGGCA-C-T-TT
* * **
1634904 CCTTTTAAGTCCACAACTCCGTGGCACCCT
1 --TTTAAAGCCCACAACTCCGTGGCACTTT
* *
1634934 TTTAAAGCCCACAATTCCGGGGCACTTT
1 TTTAAAGCCCACAACTCCGTGGCACTTT
* * ***
1634962 TTTCATCTTTAAGTCCACAACTACGTGGCACCCG
1 TTT-A-----AAGCCCACAACTCCGTGGCACTTT
*
1634996 TTT-AAGCTCACAACTCCGTGGCACCTTCTTCT
1 TTTAAAGCCCACAACTCCGTGGCA----CTT-T
1635028 GTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 -TTTAAAGCCCACAACTCCGTGGCA-C---TT-T
*
1635062 GTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCT
1 -TTTAAAGCCCACAACTCCGTGGCA--C---TT---T
1635099 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 TTT-AAAGCCCACAACTCCGTGGCA-C---TT-T
1635133 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCT
1 -TTTAAAGCCCACAACTCCGTGGCA--C----T-T-T
* *
1635170 TTTCAAAGCCCACGACTCCGTGGCAC-TC
1 TTT-AAAGCCCACAACTCCGTGGCACTTT
1635198 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 TTTAAAGCCCACAACTCCGTGGCA----CTT-T
1635231 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 -TTTAAAGCCCACAACTCCGTGGCA--C---TT---T
1635268 TTTCAAAGCCCACAACTCCGTGGCACTTTTTTCT
1 TTT-AAAGCCCACAACTCCGTGGCAC----TT-T
*
1635302 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCA--C---TT---T
1635338 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 TTT-AAAGCCCACAACTCCGTGGCA-C---TT-T
1635372 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCT
1 -TTTAAAGCCCACAACTCCGTGGCA--C----T-T-T
* *
1635409 TTTCAAAGCCCACGACTCCGTGGCAC-TC
1 TTT-AAAGCCCACAACTCCGTGGCACTTT
1635437 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 TTTAAAGCCCACAACTCCGTGGCA----CTT-T
1635470 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 -TTTAAAGCCCACAACTCCGTGGCA--C---TT---T
1635507 TTTCAAAGCCCACAACTCCGTGGCACTTTTTTCT
1 TTT-AAAGCCCACAACTCCGTGGCAC----TT-T
1635541 TTTAAAGCCCACAACTCCGTGGCACTCTT
1 TTTAAAGCCCACAACTCCGTGGCACT-TT
1635570 TTT
1 TTT
1635573 CCCTTTTAAG
Statistics
Matches: 559, Mismatches: 44, Indels: 132
0.76 0.06 0.18
Matches are distributed among these distances:
27 57 0.10
28 31 0.06
29 8 0.01
30 2 0.00
31 4 0.01
32 7 0.01
33 67 0.12
34 176 0.31
35 23 0.04
36 50 0.09
37 134 0.24
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.32
Consensus pattern (28 bp):
TTTAAAGCCCACAACTCCGTGGCACTTT
Found at i:1635007 original size:27 final size:27
Alignment explanation
Indices: 1634969--1635020 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
1634959 TTTTTTCATC
1634969 TTTAAGTCCACAACTACGTGGCACCCG
1 TTTAAGTCCACAACTACGTGGCACCCG
*
1634996 TTTAAG-CTCACAACTCCGTGGCACC
1 TTTAAGTC-CACAACTACGTGGCACC
1635021 TTCTTCTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (27 bp):
TTTAAGTCCACAACTACGTGGCACCCG
Found at i:1635117 original size:71 final size:67
Alignment explanation
Indices: 1634867--1635604 Score: 788
Period size: 71 Copynumber: 11.0 Consensus size: 67
1634857 AGTGGCATTT
* *
1634867 TTTTTC-TTTAAAGCCCACAACTCCGTGGCAC-CTTGTTCCTTTT-AAGTCCACAACTCCGTGGC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT-TTTCTTTTAAAGCCCACAACTCCGTGGC
1634929 ACC
65 ACC
* * * *
1634932 -----CTTTTAAAGCCCACAATTCCGGGGCACT-TTTTTCATCTTT-AAGTCCACAACTACGTGG
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-T-TTTAAAGCCCACAACTCCGTGG
1634990 CACC
64 CACC
* * *
1634994 -----CGTTT-AAGCTCACAACTCCGTGGCAC-CTTCTTCTGTTTAAAGCCCACAACTCCGTGGC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCT-TTTAAAGCCCACAACTCCGTGGC
1635052 ACC
65 ACC
*
1635055 TTTTTCTGTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGT
1 TTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT--CTTTT-AAAGCCCACAACTCCGT
1635120 GGCACC
62 GGCACC
*
1635126 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGT
1 TTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTC-TTTT-TCTTTT-AAAGCCCACAACTCCGT
1635191 GGCA-C
62 GGCACC
*
1635196 ----TC-TTTAAAGCCCACAACTCCGTGGCAC-CTTCTTCTGTTTAAAGCCCACAACTCCGTGGC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCT-TTTAAAGCCCACAACTCCGTGGC
1635255 ACTC
65 AC-C
*
1635259 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACT-TTTTTCTTTTAAAGCCCACAACTCTGTG
1 TTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTAAAGCCCACAACTCCGTG
1635323 GCACTC
63 GCAC-C
1635329 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTGTTTAAAGCCCACAACTCCGT
1 TTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCT-TTTAAAGCCCACAACTCCGT
1635393 GGCACTC
62 GGCAC-C
*
1635400 TTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA--C----TC-TTTAAAGCCCACAACTCCGTG
1 -TTTT-TCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTAAAGCCCACAACTCCGTG
1635458 GCACC
63 GCACC
*
1635463 TTCTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGT
1 TTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT--CTTTT-AAAGCCCACAACTCCGT
*
1635528 GGCACT
62 GGCACC
*
1635534 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGG
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT--CTTTTAAAGCCCACAACTCCGTGG
*
1635598 CATC
64 CACC
1635602 TTT
1 TTT
1635605 CTCCCTTCTC
Statistics
Matches: 596, Mismatches: 31, Indels: 89
0.83 0.04 0.12
Matches are distributed among these distances:
60 8 0.01
61 115 0.19
62 40 0.07
63 4 0.01
64 50 0.08
66 5 0.01
67 5 0.01
68 41 0.07
69 7 0.01
70 118 0.20
71 193 0.32
72 8 0.01
73 2 0.00
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (67 bp):
TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
CC
Found at i:1635232 original size:98 final size:98
Alignment explanation
Indices: 1634843--1635604 Score: 675
Period size: 98 Copynumber: 7.6 Consensus size: 98
1634833 ATTTTGTCTC
* * * *
1634843 AAAGTCCACGACTCAGTGGCA-T-TTTTTTTC-TTTAAAGCCCACAACTCCGTGGCAC-CTTGTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTAAAGCCCACAACTCCGTGGCACTCTT-TT
* *
1634904 CCTTTTAAGTCCACAACTCCGTGGCACC-----CTTTT
65 -C---AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * * * * *
1634937 AAAGCCCACAATTCCGGGGCACT-TTTTTCATC-TTT-AAGTCCACAACTACGTGGCACCCGTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTC-TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
* *
1634999 --AAGCTCACAACTCCGTGGCACCTTCTTCTGTTT
65 CAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
* *
1635032 AAAGCCCACAACTCCGTGGCAC-CTTTTTCT-GTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTAAAGCCCACAACTCCGTGGCA--C----T
1635095 CCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
60 --CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
*
1635137 AAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCACTC-TTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTT
*
1635201 -AAAGCCCACAACTCCGTGGCACCTTCTTCTGTTT
65 CAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
* *
1635235 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTT
*
1635300 CTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
65 C----AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
*
1635341 CAAAGCCCACAACTCCGTGGCAC-CTTTTTCT-GTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 -AAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTAAAGCCCACAACTCCGTGGCA-------
*
1635404 TCTCTTTTCAAAGCCCACGACTCCGTGGCA-C----TC-TTT
58 -CTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
1635440 AAAGCCCACAACTCCGTGGCAC-CTTCTTCT-GTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTAAAGCCCACAACTCCGTGGCA--C----T
*
1635503 CCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
60 --CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
1635544 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCA-TCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1635605 CTCCCTTCTC
Statistics
Matches: 569, Mismatches: 42, Indels: 112
0.79 0.06 0.15
Matches are distributed among these distances:
89 20 0.04
92 2 0.00
94 22 0.04
95 73 0.13
96 12 0.02
97 1 0.00
98 172 0.30
99 9 0.02
100 2 0.00
102 2 0.00
103 6 0.01
104 67 0.12
105 86 0.15
106 23 0.04
107 27 0.05
108 38 0.07
112 7 0.01
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.32
Consensus pattern (98 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTC
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:1635330 original size:239 final size:239
Alignment explanation
Indices: 1634995--1635604 Score: 1099
Period size: 239 Copynumber: 2.6 Consensus size: 239
1634985 CGTGGCACCC
* * *
1634995 GTTT-AAGCTCACAACTCCGTGGCAC-CTTCTT--CTGTTT-AAAGCCCACAACTCCGTGGCACC
1 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT-TTTCAAAGCCCACAACTCCGTGGCACT
1635055 TTTTTCTGTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGT
65 TTTTTCT-TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGT
1635120 GGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGA
129 GGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGA
1635185 CTCCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
194 CTCCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1635231 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTT
1 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTT
1635296 TTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
66 TTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
1635361 CACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACT
131 CACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACT
1635426 CCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
196 CCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1635470 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTT
1 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTT
* *
1635535 TTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT--AAGTCCACAACTCCGTGG
66 TTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
*
1635598 CATCTTT
131 CACCTTT
1635605 CTCCCTTCTC
Statistics
Matches: 363, Mismatches: 6, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
236 4 0.01
237 43 0.12
238 5 0.01
239 280 0.77
240 31 0.09
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (239 bp):
GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTT
TTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGG
CACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACT
CCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
Found at i:1635687 original size:30 final size:34
Alignment explanation
Indices: 1635607--1635680 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
1635597 GCATCTTTCT
1635607 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1635641 CCCTTCTCTAAAGCCCACACAAGTCGGTGGC-AA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1635674 CCCTTCT
1 CCCTTCT
1635681 AAGCCCAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 9 0.22
34 31 0.77
ACGTcount: A:0.26, C:0.38, G:0.16, T:0.20
Consensus pattern (34 bp):
CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
Found at i:1635738 original size:49 final size:49
Alignment explanation
Indices: 1635680--1636725 Score: 1309
Period size: 49 Copynumber: 21.2 Consensus size: 49
1635670 GCAACCCTTC
* * * *
1635680 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1635729 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1635778 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1635827 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1635870 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACATTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1635919 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1635968 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1636017 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCAACTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1636065 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1636114 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1636161 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-TCA-CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1636207 CTAAG-CTCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTATCTT
1 -TAAGTC-CAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1636257 TAAGTCCAATGTAACTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1636306 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1636353 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1636402 TAAGTCCAACGTAGCTGGCCTTGAATCAGCACATTGGCA-C-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1636449 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTCA-T-CTT
* * *
1636501 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
1636553 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC----T--TCATCTT
* * * * * * *
1636609 TAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTTCTCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--------C--CTTCATCTT
* *
1636668 TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTT-ATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1636716 TAAGTCCAAT
1 TAAGTCCAAT
1636726 ATCGCTAGCC
Statistics
Matches: 878, Mismatches: 83, Indels: 73
0.85 0.08 0.07
Matches are distributed among these distances:
43 41 0.05
46 4 0.00
47 173 0.20
48 66 0.08
49 419 0.48
50 6 0.01
51 1 0.00
52 76 0.09
53 6 0.01
54 1 0.00
55 3 0.00
56 36 0.04
57 1 0.00
59 41 0.05
61 1 0.00
63 2 0.00
65 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1635891 original size:22 final size:22
Alignment explanation
Indices: 1635824--1635891 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
1635814 GCACCTTTAT
1635824 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
* * *
1635846 CTTGAA-TCAGCACAT-TGGC--AC
1 CTTTAAGTC--CA-ATGTAGCTGGC
1635867 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
1635889 CTT
1 CTT
1635892 GACTCAGCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATGTAGCTGGC
Found at i:1636258 original size:96 final size:96
Alignment explanation
Indices: 1635675--1636588 Score: 1304
Period size: 96 Copynumber: 9.4 Consensus size: 96
1635665 CGGTGGCAAC
* * * * *
1635675 CCTTCTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
1635740 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA-C-TCA
* * * * *
1635774 CCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
1635839 AGCTGGCCTTGAATCAGCACATTGG----CA
66 AGCTGGCCTTGAATCAGCACATTGGCACTCA
* * *
1635866 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACATTCACCATTAAGTCCAATGT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
* *
1635931 CGCTGGCCTTGAATCAGCATATTGGCATCATCA
66 AGCTGGCCTTGAATCAGCACATTGGCA-C-TCA
*
1635964 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
1636029 AGCTGGCCTTGAATCAGCACATTGGCACCTCA
66 AGCTGGCCTTGAATCAGCACATTGGCA-CTCA
*
1636061 ACTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
1636126 AGCTGGCCTTGAATCAGCACATTGGCACTCA
66 AGCTGGCCTTGAATCAGCACATTGGCACTCA
*
1636157 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-TCA-CTTCTAAG-CTCAAT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT-TAAGTC-CAAT
* * *
1636218 ATAGCTGGCCTTGAATCAGCATATTGGCACATTTA
64 GTAGCTGGCCTTGAATCAGCACATTGGCAC--TCA
* *
1636253 TCTTTAAGTCCAATGTAACTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
1636318 AGCTGGCCTTGAATCAGCACATTGGCACTCA
66 AGCTGGCCTTGAATCAGCACATTGGCACTCA
*
1636349 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAACGT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
1636414 AGCTGGCCTTGAATCAGCACATTGGCACTCA
66 AGCTGGCCTTGAATCAGCACATTGGCACTCA
* * *
1636445 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCATTAAGTCCAA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TTCA-T-CTTTAAGTCCAA
* * *
1636510 TATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA-C---T-CA
* * *
1636549 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTG
1636589 ACATCCTTTT
Statistics
Matches: 747, Mismatches: 46, Indels: 39
0.90 0.06 0.05
Matches are distributed among these distances:
92 82 0.11
93 4 0.01
94 39 0.05
95 1 0.00
96 226 0.30
97 98 0.13
98 211 0.28
99 44 0.06
100 1 0.00
103 1 0.00
104 40 0.05
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (96 bp):
CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCACTCA
Found at i:1636469 original size:288 final size:291
Alignment explanation
Indices: 1635680--1636725 Score: 1421
Period size: 288 Copynumber: 3.5 Consensus size: 291
1635670 GCAACCCTTC
* * * *
1635680 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * * * *
1635745 GGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
*
1635810 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG----CACCTTT
130 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTCACCTTT
* * * *
1635871 AAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACATTCACCAT-TAAGTCCAATGTCGCT
195 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-TTCA-CTTCTAAGTCCAATATAGCT
* *
1635935 GGCCTTGAATCAGCATATTGGCATCA-TCATCTT
258 GGCCTTGAATCAGCATATTGGCACCATTTATCTT
*
1635968 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
1636033 GGCCTTGAATCAGCACATTGGCACCTCAACTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACA
66 GGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACA
1636098 TTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTCACCTTTA
131 TTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTCACCTTTA
1636163 AGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-TCACTTCTAAG-CTCAATATAGCTGG
196 AGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCACTTCTAAGTC-CAATATAGCTGG
1636226 CCTTGAATCAGCATATTGGCA-CATTTATCTT
260 CCTTGAATCAGCATATTGGCACCATTTATCTT
* *
1636257 TAAGTCCAATGTAACTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1636322 GGCCTTGAATCAGCACATTGGCA-CTCACCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACA
66 GGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACA
*
1636386 TTGGCACCTTCATCTTTAAGTCCAACGTAGCTGGCCTTGAATCAGCACATTGGCACTCACCTTTA
131 TTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTCACCTTTA
* * *
1636451 AGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCATTAAGTCCAATATAGC
196 AGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-TTCACTTC--TAAGTCCAATATAGC
* *
1636516 TGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
257 TGGCCTTGAATCAGCATATTGGCACCATTT--ATCTT
* * *
1636553 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAA
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC----T--TCATCTTTAAGTCCAA
* * * * * * * *
1636618 TATCGTTGGCCGTGAATCAACATATTGGCATCTTTTCTCATCTTCATCTTTAAGTCCAATGTCGT
59 TGTAGCTGGCCTTGAATCAGCACATTGGCA-C----CTCA----C--CTTTAAGTCCAATGTAGC
*
1636683 TGGCCTTGAATCAGCACATTGGCACCTT-ATCTTTAAGTCCAAT
113 TGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
1636726 ATCGCTAGCC
Statistics
Matches: 683, Mismatches: 40, Indels: 44
0.89 0.05 0.06
Matches are distributed among these distances:
287 87 0.13
288 230 0.34
289 132 0.19
291 49 0.07
293 36 0.05
294 5 0.01
296 40 0.06
297 2 0.00
301 1 0.00
303 39 0.06
309 4 0.01
313 1 0.00
314 14 0.02
315 43 0.06
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (291 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACA
TTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTCACCTTTA
AGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCACTTCTAAGTCCAATATAGCTGGC
CTTGAATCAGCATATTGGCACCATTTATCTT
Found at i:1636634 original size:56 final size:56
Alignment explanation
Indices: 1636446--1636710 Score: 255
Period size: 52 Copynumber: 4.8 Consensus size: 56
1636436 TGGCACTCAC
* *
1636446 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC--TTTAAGTC--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCCTTTTTCA-TCAT
* * *
1636498 CATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCA-CC-TTTTC--CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCCTTTTTCATCAT
* * *
1636550 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCCTTTTTCATCAT
* * * * * *
1636606 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCAT-CTTTTCTCATCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCCTTTT-TCA---TCAT
* * *
1636665 CTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-CCTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCCTT
1636711 ATCTTTAAGT
Statistics
Matches: 176, Mismatches: 25, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
50 1 0.01
52 76 0.43
53 5 0.03
54 5 0.03
55 5 0.03
56 40 0.23
59 44 0.25
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (56 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCCTTTTTCATCAT
Found at i:1638194 original size:12 final size:12
Alignment explanation
Indices: 1638179--1638207 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1638169 AAAAGATAAA
1638179 AGAAAATTACAC
1 AGAAAATTACAC
1638191 AGAAAATTACAC
1 AGAAAATTACAC
1638203 AGAAA
1 AGAAA
1638208 CTTAAAGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.14, G:0.10, T:0.14
Consensus pattern (12 bp):
AGAAAATTACAC
Found at i:1638239 original size:7 final size:7
Alignment explanation
Indices: 1638229--1638282 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
1638219 CATTTTCCTT
1638229 TTTTTTC
1 TTTTTTC
1638236 -TTTTTC
1 TTTTTTC
1638242 TTTTTTC
1 TTTTTTC
**
1638249 TTTTGCC
1 TTTTTTC
1638256 TTTTTTC
1 TTTTTTC
1638263 TTTTTT-
1 TTTTTTC
*
1638269 TTTTCCTC
1 TTTT-TTC
1638277 TTTTTT
1 TTTTTT
1638283 TTTGGTCTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 10 0.26
7 24 0.63
8 4 0.11
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTTTTC
Found at i:1638247 original size:14 final size:13
Alignment explanation
Indices: 1638227--1638285 Score: 64
Period size: 14 Copynumber: 4.4 Consensus size: 13
1638217 ATCATTTTCC
1638227 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
*
1638240 TCTTTTTTCTTTT
1 TTTTTTTTCTTTT
**
1638253 GCCTTTTTTCTTTT
1 -TTTTTTTTCTTTT
*
1638267 TTTTTTCCTCTTTT
1 TTTTTT-TTCTTTT
1638281 TTTTT
1 TTTTT
1638286 GGTCTCTAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
13 16 0.41
14 23 0.59
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (13 bp):
TTTTTTTTCTTTT
Found at i:1640506 original size:36 final size:36
Alignment explanation
Indices: 1640465--1640577 Score: 106
Period size: 36 Copynumber: 3.1 Consensus size: 36
1640455 TGATGACCTA
1640465 GGAGTTAGTTCTATAAAATTATGAAAATACCCCGAG
1 GGAGTTAGTTCTATAAAATTATGAAAATACCCCGAG
* ** ** *
1640501 GGAGTTAGTTCCATAAAAGCAAACTCGATGATGA--CCTA-
1 GGAGTTAGTTCTATAAAA--TTA-T-GAAAAT-ACCCCGAG
1640539 GGAGTTAGTTCTATAAAATTATGAAAATACCCCGAG
1 GGAGTTAGTTCTATAAAATTATGAAAATACCCCGAG
1640575 GGA
1 GGA
1640578 ATACTTTTGA
Statistics
Matches: 57, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
33 1 0.02
34 4 0.07
35 4 0.07
36 21 0.37
38 18 0.32
39 4 0.07
40 4 0.07
41 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (36 bp):
GGAGTTAGTTCTATAAAATTATGAAAATACCCCGAG
Found at i:1640547 original size:38 final size:38
Alignment explanation
Indices: 1640438--1640556 Score: 113
Period size: 38 Copynumber: 3.2 Consensus size: 38
1640428 CCATCTTCGG
1640438 CATAAAAGCAAACTCGATGATGACCTAGGAGTTAGTTC
1 CATAAAAGCAAACTCGATGATGACCTAGGAGTTAGTTC
* ** ** *
1640476 TATAAAA--TTA-T-GAAAAT-ACCCCGAGGGAGTTAGTTC
1 CATAAAAGCAAACTCGATGATGA--CCTA-GGAGTTAGTTC
1640512 CATAAAAGCAAACTCGATGATGACCTAGGAGTTAGTTC
1 CATAAAAGCAAACTCGATGATGACCTAGGAGTTAGTTC
*
1640550 TATAAAA
1 CATAAAA
1640557 TTATGAAAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
33 1 0.02
34 4 0.07
35 4 0.07
36 18 0.30
38 24 0.40
39 4 0.07
40 4 0.07
41 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.25
Consensus pattern (38 bp):
CATAAAAGCAAACTCGATGATGACCTAGGAGTTAGTTC
Found at i:1640559 original size:74 final size:74
Alignment explanation
Indices: 1640438--1640577 Score: 280
Period size: 74 Copynumber: 1.9 Consensus size: 74
1640428 CCATCTTCGG
1640438 CATAAAAGCAAACTCGATGATGACCTAGGAGTTAGTTCTATAAAATTATGAAAATACCCCGAGGG
1 CATAAAAGCAAACTCGATGATGACCTAGGAGTTAGTTCTATAAAATTATGAAAATACCCCGAGGG
1640503 AGTTAGTTC
66 AGTTAGTTC
1640512 CATAAAAGCAAACTCGATGATGACCTAGGAGTTAGTTCTATAAAATTATGAAAATACCCCGAGGG
1 CATAAAAGCAAACTCGATGATGACCTAGGAGTTAGTTCTATAAAATTATGAAAATACCCCGAGGG
1640577 A
66 A
1640578 ATACTTTTGA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (74 bp):
CATAAAAGCAAACTCGATGATGACCTAGGAGTTAGTTCTATAAAATTATGAAAATACCCCGAGGG
AGTTAGTTC
Found at i:1654992 original size:18 final size:18
Alignment explanation
Indices: 1654950--1654993 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1654940 TTATCCAAGT
*
1654950 AACAACAACAAATATATT
1 AACAACAACAAATATATA
*
1654968 AAGAACAA-AATATATATA
1 AACAACAACAA-ATATATA
1654986 AACAACAA
1 AACAACAA
1654994 TTATTACGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.66, C:0.14, G:0.02, T:0.18
Consensus pattern (18 bp):
AACAACAACAAATATATA
Found at i:1657867 original size:166 final size:165
Alignment explanation
Indices: 1657434--1657867 Score: 427
Period size: 166 Copynumber: 2.6 Consensus size: 165
1657424 TTTGTAAACG
* ** *
1657434 TTTC-TTGGTTTATAATTTTTAAAATTCATCAAATATCATCATTCAA-T-TCATAGTAAATTACT
1 TTTCTTTGGTTTA-AATTTTTAAAATTCATCTAATATTGTCATTAAACTCTCATA-TAAATTACT
* * * *
1657496 TTTGAAAAATTCATTTACTTTCATGAGTTTTTCATTTTTTTCTTGAAATTCCCTAGTTTTTGAAA
64 TTTGAAAAATTCATTTACTTTCATGAATTTTTCATTTTTTCCTTGAAATGCCCTAGTTTTCGAAA
** ** *
1657561 AATTGAATTTTCTATTCCATAAATGTTTTCGGAGGGA
129 AACCGAATTTTCTACCCCATAAATATTTTCGGAGGGA
* * * * * ** * * *
1657598 TTT-TTCTCGATTTAATTTTTTTTAAATTCGTCTAACATTGTCATTAGCCTC-CCTAGAAATTAG
1 TTTCTT-T-GGTTTAA-ATTTTTAAAATTCATCTAATATTGTCATTAAACTCTCATATAAATTAC
* *
1657661 TTTTGAAAAATTCATTTATTTTTAT-AAGTTTTTCATTTTTTCCTTGAAATGCCTCTA-TTTTCG
63 TTTTGAAAAATTCATTTACTTTCATGAA-TTTTTCATTTTTTCCTTGAAATGCC-CTAGTTTTCG
*
1657724 AAAAACCGAATTTTCTACCCCATAAATATTTTTGGAGGGA
126 AAAAACCGAATTTTCTACCCCATAAATATTTTCGGAGGGA
* * *
1657764 CTTTCTTTGGTTTAGAATTTTCAAAATTTATCTAATATTGTCATTAAACTCTCAT-TAAATTATT
1 -TTTCTTTGGTTTA-AATTTTTAAAATTCATCTAATATTGTCATTAAACTCTCATATAAATTACT
* **
1657828 TTTGAGAAATTCCATTTA-TTTCATGAATTTTGAATTTTTT
64 TTTGAAAAATT-CATTTACTTTCATGAATTTTTCATTTTTT
1657868 GTATATATTG
Statistics
Matches: 214, Mismatches: 42, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
164 4 0.02
165 3 0.01
166 183 0.86
167 22 0.10
168 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.48
Consensus pattern (165 bp):
TTTCTTTGGTTTAAATTTTTAAAATTCATCTAATATTGTCATTAAACTCTCATATAAATTACTTT
TGAAAAATTCATTTACTTTCATGAATTTTTCATTTTTTCCTTGAAATGCCCTAGTTTTCGAAAAA
CCGAATTTTCTACCCCATAAATATTTTCGGAGGGA
Found at i:1659407 original size:169 final size:169
Alignment explanation
Indices: 1659198--1659663 Score: 851
Period size: 169 Copynumber: 2.8 Consensus size: 169
1659188 TGAAATTTTT
* * **
1659198 AAAAATAAAATAATAAATAAATATTATTTTATCCAATAAAAATTATCACCTTAATTTTTTGGAAT
1 AAAAATAAAATAATAAATAAGTATTATTTTATTCAATAAAAATTATCACCTTAATTTTTCAGAAT
* * * * *
1659263 TTCTAATATTTCCATGGGTTTCCATGGAGGTATGAAAATTTTTAAAACTTTTCGTATCTTTTCAA
66 TTCTAATATTTTCATGAGTATCCATGAAGGTATGCAAATTTTTAAAACTTTTCGTATCTTTTCAA
1659328 TTCTCCATTAAAGTACGAAATAAAATTTTTGAAAATAAA
131 TTCTCCATTAAAGTACGAAATAAAATTTTTGAAAATAAA
1659367 AAAAATAAAATAATAAATAAGTATTATTTTATTCAATAAAAATTATCACCTTAATTTTTCAGAAT
1 AAAAATAAAATAATAAATAAGTATTATTTTATTCAATAAAAATTATCACCTTAATTTTTCAGAAT
1659432 TTCTAATATTTTCATGAGTATCCATGAAGGTATGCAAATTTTTAAAACTTTTCGTATCTTTTCAA
66 TTCTAATATTTTCATGAGTATCCATGAAGGTATGCAAATTTTTAAAACTTTTCGTATCTTTTCAA
1659497 TTCTCCATTAAAGTACGAAATAAAATTTTTGAAAATAAA
131 TTCTCCATTAAAGTACGAAATAAAATTTTTGAAAATAAA
1659536 AAAAATAAAATAATAAATAAGTATTATTTTATTCAATAAAAATTATCACCTTAATTTTTCAGAAT
1 AAAAATAAAATAATAAATAAGTATTATTTTATTCAATAAAAATTATCACCTTAATTTTTCAGAAT
1659601 TTCTAATATTTTCATGAGTATCCATGAAGGTATGCAAATTTTTAAAACTTTTCGTATCTTTTC
66 TTCTAATATTTTCATGAGTATCCATGAAGGTATGCAAATTTTTAAAACTTTTCGTATCTTTTC
1659664 GGTTCTCTAT
Statistics
Matches: 288, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
169 288 1.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (169 bp):
AAAAATAAAATAATAAATAAGTATTATTTTATTCAATAAAAATTATCACCTTAATTTTTCAGAAT
TTCTAATATTTTCATGAGTATCCATGAAGGTATGCAAATTTTTAAAACTTTTCGTATCTTTTCAA
TTCTCCATTAAAGTACGAAATAAAATTTTTGAAAATAAA
Found at i:1663072 original size:20 final size:20
Alignment explanation
Indices: 1663049--1663121 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1663039 ACAATTCAAA
1663049 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1663069 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1663090 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1663110 GTATCGATACAT
1 GTATCGATACAT
1663122 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1663093 original size:21 final size:21
Alignment explanation
Indices: 1663067--1663142 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
1663057 ACATGTTGCA
1663067 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1663088 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1663108 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
1663129 TTGTATCGATACAT
1 ATGTATCGATACAT
1663143 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1663100 original size:41 final size:41
Alignment explanation
Indices: 1663049--1663142 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
1663039 ACAATTCAAA
*
1663049 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
1663090 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1663131 GTATCGATACAT
1 GTATCGATACAT
1663143 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1663199 original size:13 final size:13
Alignment explanation
Indices: 1663181--1663206 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1663171 TACAGCAAGT
1663181 ATGTATCGATACA
1 ATGTATCGATACA
1663194 ATGTATCGATACA
1 ATGTATCGATACA
1663207 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1667243 original size:15 final size:15
Alignment explanation
Indices: 1667223--1667261 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1667213 TAAAAATGTC
*
1667223 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1667238 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
1667253 CCAAATGAA
1 CAAAATGAA
1667262 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1669352 original size:20 final size:20
Alignment explanation
Indices: 1669273--1669352 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
1669263 AATGTCCAAA
*
1669273 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
1669293 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
1669318 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
1669338 TTGTATCGATACATT
1 ATGTATCGATACATT
1669353 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:1669356 original size:13 final size:13
Alignment explanation
Indices: 1669338--1669376 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1669328 ACATTTTTCT
1669338 TTGTATCGATACA
1 TTGTATCGATACA
1669351 TTGTATCGATACA
1 TTGTATCGATACA
*
1669364 CTGTATCGATACA
1 TTGTATCGATACA
1669377 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1671847 original size:21 final size:21
Alignment explanation
Indices: 1671821--1671876 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
1671811 ACATGTTGCA
*
1671821 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATAAAAAAG
1671842 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATAAAAAAG
*
1671863 TTGTATCGATACAT
1 ATGTATCGATACAT
1671877 TTCTTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATAAAAAAG
Found at i:1671933 original size:13 final size:13
Alignment explanation
Indices: 1671915--1671940 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1671905 TACAGCAAGT
1671915 ATGTATCGATACA
1 ATGTATCGATACA
1671928 ATGTATCGATACA
1 ATGTATCGATACA
1671941 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1674003 original size:20 final size:20
Alignment explanation
Indices: 1673978--1674016 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1673968 TACAAGCATA
* *
1673978 TATCGATATATTCACTTATG
1 TATCGATACATTAACTTATG
1673998 TATCGATACATTAACTTAT
1 TATCGATACATTAACTTAT
1674017 TATGTCGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (20 bp):
TATCGATACATTAACTTATG
Found at i:1675921 original size:16 final size:15
Alignment explanation
Indices: 1675885--1675914 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1675875 TGCTGAGGCA
1675885 TTTTTTTCTCTAAAT
1 TTTTTTTCTCTAAAT
1675900 TTTTTTT-TCTAAAT
1 TTTTTTTCTCTAAAT
1675914 T
1 T
1675915 ATCTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTTTCTCTAAAT
Found at i:1676402 original size:30 final size:30
Alignment explanation
Indices: 1676366--1676425 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
1676356 ACCTTACTAG
1676366 TTGCACAAAGACCAATTCATATAAAAAAAA
1 TTGCACAAAGACCAATTCATATAAAAAAAA
* * * *
1676396 TTGCACACAGATCAGTTCATGTAAAAAAAA
1 TTGCACAAAGACCAATTCATATAAAAAAAA
1676426 ATCATAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.52, C:0.17, G:0.10, T:0.22
Consensus pattern (30 bp):
TTGCACAAAGACCAATTCATATAAAAAAAA
Found at i:1678685 original size:13 final size:13
Alignment explanation
Indices: 1678669--1678698 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1678659 ATACATTGTT
1678669 CATTGTATCAATA
1 CATTGTATCAATA
*
1678682 CATTGTATCGATA
1 CATTGTATCAATA
1678695 CATT
1 CATT
1678699 CTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (13 bp):
CATTGTATCAATA
Found at i:1678739 original size:20 final size:20
Alignment explanation
Indices: 1678714--1678765 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1678704 TTTACCTAGA
*
1678714 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
1678734 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
1678754 TGTATCGATACA
1 TGTATCGATACA
1678766 ATGTATCAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:1678761 original size:40 final size:38
Alignment explanation
Indices: 1678714--1678820 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 38
1678704 TTTACCTAGA
1678714 TGTATCGATACATTTTGCATTGTATCGATACATTGCTCAT
1 TGTATCGATACATTTT-CA-TGTATCGATACATTGCTCAT
*
1678754 TGTATCGATACA-----ATGTATCAATACATTGCTCAT
1 TGTATCGATACATTTTCATGTATCGATACATTGCTCAT
* *
1678787 TGTATCAATATATTTTACAATGTATCGATACATT
1 TGTATCGATACATTTT-C-ATGTATCGATACATT
1678821 CAGGCATTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
33 29 0.52
34 1 0.02
40 26 0.46
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (38 bp):
TGTATCGATACATTTTCATGTATCGATACATTGCTCAT
Found at i:1678788 original size:53 final size:53
Alignment explanation
Indices: 1678713--1678818 Score: 126
Period size: 53 Copynumber: 2.0 Consensus size: 53
1678703 GTTTACCTAG
* * * *
1678713 ATGTATCGATACATTTTGCATTGTATCGATACATTGCT-CATTGTATCGATACA
1 ATGTATCAATACATTCTGCATTGTATCAATACATT-CTACAATGTATCGATACA
* *
1678766 ATGTATCAATACATTGCT-CATTGTATCAATATATTTTACAATGTATCGATACA
1 ATGTATCAATACATT-CTGCATTGTATCAATACATTCTACAATGTATCGATACA
1678819 TTCAGGCATT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
52 1 0.02
53 43 0.96
54 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (53 bp):
ATGTATCAATACATTCTGCATTGTATCAATACATTCTACAATGTATCGATACA
Found at i:1678792 original size:20 final size:20
Alignment explanation
Indices: 1678731--1678796 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
1678721 ATACATTTTG
*
1678731 CATTGTATCGATACATTGCT
1 CATTGTATCAATACATTGCT
*
1678751 CATTGTATCGATACA-----
1 CATTGTATCAATACATTGCT
1678766 -A-TGTATCAATACATTGCT
1 CATTGTATCAATACATTGCT
1678784 CATTGTATCAATA
1 CATTGTATCAATA
1678797 TATTTTACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
19 1 0.03
20 25 0.66
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (20 bp):
CATTGTATCAATACATTGCT
Found at i:1678810 original size:20 final size:21
Alignment explanation
Indices: 1678762--1678820 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
1678752 ATTGTATCGA
1678762 TACAATGTATCAATACATTGC
1 TACAATGTATCAATACATTGC
* * *
1678783 T-CATTGTATCAATATATT-T
1 TACAATGTATCAATACATTGC
*
1678802 TACAATGTATCGATACATT
1 TACAATGTATCAATACATT
1678821 CAGGCATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (21 bp):
TACAATGTATCAATACATTGC
Found at i:1681182 original size:28 final size:28
Alignment explanation
Indices: 1681146--1681222 Score: 109
Period size: 28 Copynumber: 2.8 Consensus size: 28
1681136 ATTTTTCACA
*
1681146 ATCGGGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
1681174 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*** *
1681202 CGAGGGGATACTCTAACCCCG
1 ATCGGGGATACTCCAACCCCG
1681223 GCTTTATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:1681271 original size:51 final size:51
Alignment explanation
Indices: 1681208--1681306 Score: 114
Period size: 51 Copynumber: 1.9 Consensus size: 51
1681198 TTTCCGAGGG
*
1681208 GATACTCTAACCCCGG-CTTTATTTTCAAAAT-ATTGATTTCTCACAATCAAA
1 GATACTCTAACCCCGGTC-TTA-TTTCAAAATCATCGATTTCTCACAATCAAA
* * *
1681259 GATACT-TCAACCCTGGTCTTATTTCTAAATCATCGATTTTTCACAATC
1 GATACTCT-AACCCCGGTCTTATTTCAAAATCATCGATTTCTCACAATC
1681307 GGGGATACTC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
50 9 0.22
51 31 0.76
52 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.37
Consensus pattern (51 bp):
GATACTCTAACCCCGGTCTTATTTCAAAATCATCGATTTCTCACAATCAAA
Found at i:1681888 original size:54 final size:54
Alignment explanation
Indices: 1681824--1682015 Score: 228
Period size: 54 Copynumber: 3.4 Consensus size: 54
1681814 CTCCTTTCAC
1681824 CCTTT-AGTCCTCAAAGAGCAGGACGCC-TTCAAAGCCTACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC-ACACAAGTTGGTGGCA
* * *
1681877 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACATAAGCTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG-CCACACAAGTTGGTGGCA
* *
1681932 CC-TTCAGTCCTCAAAGAACAGGATGCCTTCTCCTTTTAAAGACCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAG-CCACACAAGTTGGTGGCA
*
1681992 CTTTTCAGTCCTCAAAGAGCAGGA
1 CCTTTCAGTCCTCAAAGAGCAGGA
1682016 TGCTTTCTTT
Statistics
Matches: 118, Mismatches: 11, Indels: 12
0.84 0.08 0.09
Matches are distributed among these distances:
53 5 0.04
54 47 0.40
55 23 0.19
56 2 0.02
60 21 0.18
61 20 0.17
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (54 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCACACAAGTTGGTGGCA
Found at i:1681978 original size:60 final size:61
Alignment explanation
Indices: 1681903--1682324 Score: 217
Period size: 61 Copynumber: 6.8 Consensus size: 61
1681893 GAGCAGGACG
* *
1681903 CCTTTTAAAGCCCACATAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAACAGGATGCCTTCT
1 CCTTTTAAAGACCACACAAGCTGGTGGCACTCTTCAGTCCTCAAAGAACAGGATGCCTTCT
* * *
1681963 CCTTTTAAAGACCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG-CTT-T
1 CCTTTTAAAGACCACACAAGCTGGTGGCACTCTTCAGTCCTCAAAGAACAGGATGCCTTCT
* * *
1682022 -CTTTTGCAAAGCCCACACAAG-T--TGGCAACACTTCATAGTCCTCAAA-AGCAGGACACTCTC
1 CCTTTT--AAAGACCACACAAGCTGGTGGC-ACTCTTC--AGTCCTCAAAGAACAGG--A---T-
*
1682082 TCCTTTCGT
55 GCC-TTC-T
* * * ***
1682091 CTTTTTCTTTTAA-AGCC-CACATAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGACAACT
1 C---CT-TTTAAAGA-CCACAC--AAGCTGGTGGCACTCTTCAGTCCTCAAAGAACAGGATGCCT
1682153 TCT
59 TCT
* * * *
1682156 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG-CTT-T
1 CCTTTTAAAGACCACACAAGCTGGTGGCACTCTTCAGTCCTCAAAGAACAGGATGCCTTCT
* * * * * ** *
1682215 CTTTTTGCAAAGCCCACACAAGTTGGTGGTA-TCTTCCAGTCCTCAACGGGCAGGACGCCTT-T
1 CCTTTT--AAAGACCACACAAGCTGGTGGCACTCTT-CAGTCCTCAAAGAACAGGATGCCTTCT
* * * * * * *
1682277 TCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTTAAAGA
1 CCTTTT-AAAGACCACACAAGCTGGTGGCACTCTTCAGTCCTCAAAGA
1682325 GTGGGACACA
Statistics
Matches: 289, Mismatches: 37, Indels: 71
0.73 0.09 0.18
Matches are distributed among these distances:
57 4 0.01
58 10 0.03
59 14 0.05
60 71 0.25
61 122 0.42
62 15 0.05
64 1 0.00
65 2 0.01
66 4 0.01
67 3 0.01
69 1 0.00
71 4 0.01
72 14 0.05
73 10 0.03
74 8 0.03
75 2 0.01
76 4 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (61 bp):
CCTTTTAAAGACCACACAAGCTGGTGGCACTCTTCAGTCCTCAAAGAACAGGATGCCTTCT
Found at i:1682227 original size:61 final size:60
Alignment explanation
Indices: 1682094--1682325 Score: 242
Period size: 61 Copynumber: 3.9 Consensus size: 60
1682084 CTTTCGTCTT
* * * *
1682094 TTTC-TTTT-AAAGCCCACATAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGACAAC
1 TTTCTTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA-AGC
* *
1682152 TTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGC
1 TT-TCTTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAAGC
* * * * *
1682212 TTTCTTTTTGCAAAGCCCACACAAGTTGGTGGTA-TCTTCCAGTCCTCAACGGGCAGGACGCC
1 TTTCTTTTT-CAAAGCCCACACAAGTTGGTGGCACT-TTTCAGTCCTCAAAGAGCAGGAAG-C
* * *
1682274 TTT-TCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTTAAAGAG
1 TTTCT-TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAG
1682326 TGGGACACAC
Statistics
Matches: 147, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
58 2 0.01
59 8 0.05
60 30 0.20
61 98 0.67
62 9 0.06
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (60 bp):
TTTCTTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAAGC
Found at i:1682318 original size:122 final size:121
Alignment explanation
Indices: 1682102--1682325 Score: 315
Period size: 122 Copynumber: 1.8 Consensus size: 121
1682092 TTTTTCTTTT
*
1682102 AAAGCCCACATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACAACTTCTCCTTTTAAAGC
1 AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACAACTTCTCCTTTTAAAGC
1682167 CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGC
66 CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGC
* * * * * ** *
1682223 AAAGCCCACACAAGTTGGTGGTATCTTCCAGTCCTCAACGGGCAGGACGCCTT-TTCTTTTCAAA
1 AAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACAACTTCTCCTTTT-AAA
* * *
1682287 GCCCACACGAGTTGGTGGCACTTTTTAGTCCTTAAAGAG
64 GCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAG
1682326 TGGGACACAC
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
121 29 0.33
122 60 0.67
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (121 bp):
AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACAACTTCTCCTTTTAAAGC
CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGC
Found at i:1682435 original size:42 final size:42
Alignment explanation
Indices: 1682347--1682438 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
1682337 TCCTTCCCTT
* * *
1682347 CTTTTCTCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTTC
1 CTTTT-TCTTTTATCCTCAAAGAGCAGGACGCACTTTATTTCC
* *
1682390 CTTTTTCTTTTATCCTCAGAGAGCAGGACGTA-TTTCATTTCC
1 CTTTTTCTTTTATCCTCAAAGAGCAGGACGCACTTT-ATTTCC
1682432 CTTTTTC
1 CTTTTTC
1682439 CTTTGTCTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.07
42 35 0.81
43 5 0.12
ACGTcount: A:0.17, C:0.24, G:0.13, T:0.46
Consensus pattern (42 bp):
CTTTTTCTTTTATCCTCAAAGAGCAGGACGCACTTTATTTCC
Found at i:1682564 original size:40 final size:42
Alignment explanation
Indices: 1682468--1682567 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
1682458 GACGTACTAT
* *
1682468 TTTTCACTTTGTCCTCAAGAAGCATGACACTTTCCTTTTCTTC
1 TTTTC-CTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
* * * *
1682511 TCTTCCTTGGTCCTCAAGGAGCAAGAC-CTATTTC-ATTC-TC
1 TTTTCCTTTGTCCTCAAGAAGCAAGACACT-TTCCTATTCTTC
1682551 TTTTCCTTTGTCCTCAA
1 TTTTCCTTTGTCCTCAA
1682568 AAAGTGGGAC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
40 17 0.35
41 5 0.10
42 22 0.46
43 4 0.08
ACGTcount: A:0.18, C:0.29, G:0.11, T:0.42
Consensus pattern (42 bp):
TTTTCCTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
Done.