Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 45 of 279
Found at i:15083025 original size:22 final size:23
Alignment explanation
Indices: 15082997--15083076 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 23
15082987 CTCTAAACCC
15082997 TAATTTATTTAAAACCCT-AACT
1 TAATTTATTTAAAACCCTAAACT
*
15083019 TAATTTATTTAAACCCCTAAAAACT
1 TAATTTATTTAAAACCCT--AAACT
*
15083044 CTAATTTACTTAAAAACCCTAAACCT
1 -TAATTTA-TTTAAAACCCTAAA-CT
15083070 TAATTTA
1 TAATTTA
15083077 AATAATTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
22 17 0.35
25 14 0.29
26 9 0.18
27 9 0.18
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (23 bp):
TAATTTATTTAAAACCCTAAACT
Found at i:15087885 original size:59 final size:61
Alignment explanation
Indices: 15087818--15087934 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
15087808 ATCACTTTAA
* * * * *
15087818 TATTAAATTAATATAATATTTA-T-CAATATAAATATTAGATTGAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
15087877 TATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
15087935 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
61 1 0.02
62 28 0.56
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (61 bp):
TATTAAATTAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:15087960 original size:20 final size:18
Alignment explanation
Indices: 15087913--15087961 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
15087903 CAAGATAAAC
15087913 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
15087930 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
15087950 ATTAAATTAATA
1 ATTAAATTAATA
15087962 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:15088446 original size:94 final size:94
Alignment explanation
Indices: 15088285--15088661 Score: 700
Period size: 94 Copynumber: 4.0 Consensus size: 94
15088275 AGTTCAATCA
** * * * *
15088285 CCCATTGAACCAATTGTCTGACTTAAAAATTAGTTTCTAAAAACATCTTATTAATTTGATTAATT
1 CCCATTGGGCCAATTGTCTGACTTAAAAATTAATTTCTAAAAATATATTATTAATTTGCTTAATT
15088350 TAATTTTACTTTATCAAAATTAATTTTCC
66 TAATTTTACTTTATCAAAATTAATTTTCC
15088379 CCCATTGGGCCAATTGTCTGACTTAAAAATTAATTTCTAAAAATATATTATTAATTTGCTTAATT
1 CCCATTGGGCCAATTGTCTGACTTAAAAATTAATTTCTAAAAATATATTATTAATTTGCTTAATT
15088444 TAATTTTACTTTATCAAAATTAATTTTCC
66 TAATTTTACTTTATCAAAATTAATTTTCC
15088473 CCCATTGGGCCAATTGTCTGACTTAAAAATTAATTTCTAAAAATATATTATTAATTTGCTTAATT
1 CCCATTGGGCCAATTGTCTGACTTAAAAATTAATTTCTAAAAATATATTATTAATTTGCTTAATT
15088538 TAATTTTACTTTATCAAAATTAATTTTCC
66 TAATTTTACTTTATCAAAATTAATTTTCC
15088567 CCCATTGGGCCAATTGTCTGACTTAAAAATTAATTTCTAAAAATATATTATTAATTTGCTTAATT
1 CCCATTGGGCCAATTGTCTGACTTAAAAATTAATTTCTAAAAATATATTATTAATTTGCTTAATT
15088632 TAATTTTACTTTATCAAAATTAATTTTCC
66 TAATTTTACTTTATCAAAATTAATTTTCC
15088661 C
1 C
15088662 AAAAATCATT
Statistics
Matches: 277, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 277 1.00
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.44
Consensus pattern (94 bp):
CCCATTGGGCCAATTGTCTGACTTAAAAATTAATTTCTAAAAATATATTATTAATTTGCTTAATT
TAATTTTACTTTATCAAAATTAATTTTCC
Found at i:15090400 original size:57 final size:58
Alignment explanation
Indices: 15090320--15090439 Score: 161
Period size: 57 Copynumber: 2.1 Consensus size: 58
15090310 AAATTGGTGA
* * * * *
15090320 AAAATGGATAAATGAGAAACATTTGGAAATGATTATGGTTTTATCCAAAATGAAAATG
1 AAAATAGAGAAATGAGAAACATTTGAAAATGAATATGGTTTTATCCAAAATAAAAATG
* * *
15090378 AAAATAGAGAAATG-GAATCATTTGAAAATGAATGTGGTTTTCTCCAAAATAAAAATG
1 AAAATAGAGAAATGAGAAACATTTGAAAATGAATATGGTTTTATCCAAAATAAAAATG
15090435 AAAAT
1 AAAAT
15090440 GACCTGGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
57 42 0.78
58 12 0.22
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.28
Consensus pattern (58 bp):
AAAATAGAGAAATGAGAAACATTTGAAAATGAATATGGTTTTATCCAAAATAAAAATG
Found at i:15091768 original size:21 final size:21
Alignment explanation
Indices: 15091742--15091792 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
15091732 GAAGCTCAAA
* * *
15091742 AGCTGAATAGAAGCTCGTAGG
1 AGCTGAACAGAAACTCGTAAG
15091763 AGCTGAACAGAAACTCGTAAG
1 AGCTGAACAGAAACTCGTAAG
*
15091784 AGTTGAACA
1 AGCTGAACA
15091793 AAAAATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.18
Consensus pattern (21 bp):
AGCTGAACAGAAACTCGTAAG
Found at i:15099562 original size:15 final size:15
Alignment explanation
Indices: 15099542--15099573 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
15099532 CTCGTTATAG
15099542 GTACATTGTGCTTGA
1 GTACATTGTGCTTGA
15099557 GTACATTGTGCTTGA
1 GTACATTGTGCTTGA
15099572 GT
1 GT
15099574 TTGAATAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.12, G:0.28, T:0.41
Consensus pattern (15 bp):
GTACATTGTGCTTGA
Found at i:15102510 original size:23 final size:21
Alignment explanation
Indices: 15102478--15102519 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
15102468 ACATATAACA
15102478 CTCATACTCATATCACAATATAC
1 CTCATACTCATA-C-CAATATAC
*
15102501 CTCATTCTCATACCAATAT
1 CTCATACTCATACCAATAT
15102520 GTAAGTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (21 bp):
CTCATACTCATACCAATATAC
Found at i:15102996 original size:19 final size:21
Alignment explanation
Indices: 15102972--15103015 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
15102962 CAAATATGCC
*
15102972 AACAGAAGTTCG-AA-AGCTG
1 AACAGAAGGTCGTAAGAGCTG
15102991 AACAGAAGGTCGTAAGAGCTG
1 AACAGAAGGTCGTAAGAGCTG
15103012 AACA
1 AACA
15103016 TAAAGTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 2 0.09
21 9 0.41
ACGTcount: A:0.43, C:0.16, G:0.27, T:0.14
Consensus pattern (21 bp):
AACAGAAGGTCGTAAGAGCTG
Found at i:15106247 original size:18 final size:18
Alignment explanation
Indices: 15106215--15106249 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15106205 TAAAATTTTT
*
15106215 AATTTTTTTGGAAAAATC
1 AATTTTTTTGAAAAAATC
*
15106233 AATTTTTTTTAAAAAAT
1 AATTTTTTTGAAAAAAT
15106250 AAGGAATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (18 bp):
AATTTTTTTGAAAAAATC
Found at i:15110949 original size:23 final size:22
Alignment explanation
Indices: 15110923--15110965 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
15110913 CTCGTGATTG
*
15110923 GTATTTAATTTTATTATTAAAAT
1 GTATCTAATTTT-TTATTAAAAT
*
15110946 GTATCTAATTTTTTTTTAAA
1 GTATCTAATTTTTTATTAAA
15110966 TTGATGCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (22 bp):
GTATCTAATTTTTTATTAAAAT
Found at i:15111980 original size:41 final size:42
Alignment explanation
Indices: 15111929--15112009 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 42
15111919 TCTGAAAGTA
15111929 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAA-TAAAAT
1 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAAAT
15111970 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAA
1 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAA
15112010 TTCTAAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
41 35 0.90
42 4 0.10
ACGTcount: A:0.65, C:0.06, G:0.05, T:0.23
Consensus pattern (42 bp):
AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAAAT
Found at i:15112002 original size:22 final size:22
Alignment explanation
Indices: 15111936--15112003 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
15111926 GTAAAAAAAT
15111936 TAAAATCCTTGAAATAAAAGTA
1 TAAAATCCTTGAAATAAAAGTA
* * *
15111958 TAAAA---ATAAAATAAAA-AA
1 TAAAATCCTTGAAATAAAAGTA
15111976 TTAAAATCCTTGAAATAAAAGTA
1 -TAAAATCCTTGAAATAAAAGTA
15111999 TAAAA
1 TAAAA
15112004 ACTAAATTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
18 1 0.03
19 14 0.40
22 19 0.54
23 1 0.03
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.25
Consensus pattern (22 bp):
TAAAATCCTTGAAATAAAAGTA
Found at i:15112627 original size:6 final size:6
Alignment explanation
Indices: 15112616--15112643 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
15112606 TTTAAATTAT
15112616 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
15112644 GATGAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:15115678 original size:29 final size:29
Alignment explanation
Indices: 15115645--15115711 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
15115635 ATGTACATGA
*
15115645 CCGTGTGTCACACAGGCTGAGACACACAC
1 CCGTGTCTCACACAGGCTGAGACACACAC
15115674 CCGTGTCTCACACAGGCTGAGACACACAC
1 CCGTGTCTCACACAGGCTGAGACACACAC
15115703 CCGTGTCTC
1 CCGTGTCTC
15115712 CACTCGTGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.24, C:0.37, G:0.22, T:0.16
Consensus pattern (29 bp):
CCGTGTCTCACACAGGCTGAGACACACAC
Found at i:15116548 original size:105 final size:105
Alignment explanation
Indices: 15116424--15116903 Score: 811
Period size: 105 Copynumber: 4.6 Consensus size: 105
15116414 TACACTCGTA
* * * * * *
15116424 ATGCCATAACCCAGTTATGGTCTTATCA-TTAGGATGCTATAGC-CTAGCTATGGTCTTACACTT
1 ATGCTATAACCTAGTTATGGTCTTTTCACTGA-AATGCCATAGCTC-AGCTATGGTCTTACACTT
*
15116487 ATACATATACTGTCGTGGTTCAATCATAGTCTTACGTTCATG
64 ATACATATACTGTCGTGGTTCAATCATAGTCTTACGTTCACG
15116529 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCTCAGCTATGGTCTTACACTTAT
1 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCTCAGCTATGGTCTTACACTTAT
*
15116594 ACATATACTGTCGTGGTTCAATCATAGTCTTACGTTCATG
66 ACATATACTGTCGTGGTTCAATCATAGTCTTACGTTCACG
15116634 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCTCAGCTATGGTCTTACACTTAT
1 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCTCAGCTATGGTCTTACACTTAT
*
15116699 ACATATACTGTCGTGGTTCAATCATGGTCTTACGTTCACG
66 ACATATACTGTCGTGGTTCAATCATAGTCTTACGTTCACG
*
15116739 ATGCTATACCCTAGTTATGGTCTTTTCACTGAAATGCCATAGCTCAGCTATGGTCTTACACTTAT
1 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCTCAGCTATGGTCTTACACTTAT
*
15116804 ACATATACTGTCGTGGTTCAATCATGGTCTTACGTTCACG
66 ACATATACTGTCGTGGTTCAATCATAGTCTTACGTTCACG
* *
15116844 ATGCTATACCCTAGTTATGGTCTTTTCACTGAAATGCCATAGCCCAGCTATGGTCTTACA
1 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCTCAGCTATGGTCTTACA
15116904 TTTAACACTT
Statistics
Matches: 363, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
105 360 0.99
106 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (105 bp):
ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCTCAGCTATGGTCTTACACTTAT
ACATATACTGTCGTGGTTCAATCATAGTCTTACGTTCACG
Found at i:15120842 original size:56 final size:56
Alignment explanation
Indices: 15120753--15121018 Score: 406
Period size: 56 Copynumber: 4.8 Consensus size: 56
15120743 AGGGTGTTAA
*
15120753 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTATTAGGATATTATAG
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAG
* ** * *
15120809 GATATTATTATGAGATATTATCTCATAGAAATTTGATTCCTAATGGGATATTATAG
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAG
* *
15120865 AATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTATTAGGATATTATAG
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAG
* ** * *
15120921 GATATTATTATGAGATATTATCTCATAGAAATTTGATTCCTAATGGGATATTATAG
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAG
*
15120977 AATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
15121019 CGTAACTACT
Statistics
Matches: 185, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 185 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (56 bp):
GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAG
Found at i:15120951 original size:112 final size:112
Alignment explanation
Indices: 15120754--15121018 Score: 530
Period size: 112 Copynumber: 2.4 Consensus size: 112
15120744 GGGTGTTAAG
15120754 ATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTATTAGGATATTATAGGATATTATTA
1 ATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTATTAGGATATTATAGGATATTATTA
15120819 TGAGATATTATCTCATAGAAATTTGATTCCTAATGGGATATTATAGA
66 TGAGATATTATCTCATAGAAATTTGATTCCTAATGGGATATTATAGA
15120866 ATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTATTAGGATATTATAGGATATTATTA
1 ATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTATTAGGATATTATAGGATATTATTA
15120931 TGAGATATTATCTCATAGAAATTTGATTCCTAATGGGATATTATAGA
66 TGAGATATTATCTCATAGAAATTTGATTCCTAATGGGATATTATAGA
15120978 ATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
1 ATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
15121019 CGTAACTACT
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 153 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.45
Consensus pattern (112 bp):
ATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTATTAGGATATTATAGGATATTATTA
TGAGATATTATCTCATAGAAATTTGATTCCTAATGGGATATTATAGA
Found at i:15123997 original size:39 final size:39
Alignment explanation
Indices: 15123746--15124002 Score: 390
Period size: 39 Copynumber: 6.6 Consensus size: 39
15123736 GCTCTGATGA
* *
15123746 GCTTCACTTAGCCTTCTGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
15123785 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
15123824 GCTTCAGTTAGCATTCGGGCTTTCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
15123863 GCTTCAGTTAGCC-TCTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTC-GGGCTTCCGTTTAGCACTTATGT
* * *
15123902 GCTTCAGTTAGCCTCCGGGATTTCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
15123941 GCTTCAGTTAGCCTTCGGGCTTCCGTTAAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
15123980 GCTTCAGCTAGATTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
15124003 AGATCACGAT
Statistics
Matches: 198, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
38 2 0.01
39 195 0.98
40 1 0.01
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:15127967 original size:24 final size:24
Alignment explanation
Indices: 15127914--15127959 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
15127904 TATTTCTAGA
* * *
15127914 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGCATGTATTAGCATAAT
15127938 ATATTTAGCATGTATTAGCATA
1 ATATTTAGCATGTATTAGCATA
15127960 GTTTATTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (24 bp):
ATATTTAGCATGTATTAGCATAAT
Found at i:15129934 original size:24 final size:24
Alignment explanation
Indices: 15129881--15129926 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
15129871 TCTTTCTAGA
*
15129881 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGTATTTATTAGCATAAT
15129905 ATATTTAGTATTTATTAGCATA
1 ATATTTAGTATTTATTAGCATA
15129927 GTTTATTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (24 bp):
ATATTTAGTATTTATTAGCATAAT
Found at i:15136082 original size:52 final size:52
Alignment explanation
Indices: 15136004--15136104 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 52
15135994 ATTTCACACT
* *
15136004 ATTCTTTTTAATCCATTATTGTTGTCTTGGGTGTCTCATTTGTCAATCGGAC
1 ATTCTTTTTAATCCATTATTGTTGTCTTAGGTGTCCCATTTGTCAATCGGAC
* * *
15136056 ATTCTTTTTAATGCATTGTTTTTGTCTTAGGTGTCCCATTTGTCAATCG
1 ATTCTTTTTAATCCATTATTGTTGTCTTAGGTGTCCCATTTGTCAATCG
15136105 AAGAGCACCT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (52 bp):
ATTCTTTTTAATCCATTATTGTTGTCTTAGGTGTCCCATTTGTCAATCGGAC
Found at i:15137609 original size:5 final size:5
Alignment explanation
Indices: 15137599--15137631 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
15137589 ATTATAAAAA
*
15137599 AATTT AATTT AATTT AA-TT AATTT AATTA AATT
1 AATTT AATTT AATTT AATTT AATTT AATTT AATT
15137632 GAATATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
AATTT
Found at i:15137621 original size:9 final size:9
Alignment explanation
Indices: 15137599--15137628 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
15137589 ATTATAAAAA
15137599 AATTTAATTT
1 AATTTAA-TT
15137609 AATTTAATT
1 AATTTAATT
15137618 AATTTAATT
1 AATTTAATT
15137627 AA
1 AA
15137629 ATTGAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
AATTTAATT
Found at i:15137621 original size:14 final size:14
Alignment explanation
Indices: 15137602--15137631 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15137592 ATAAAAAAAT
*
15137602 TTAATTTAATTTAA
1 TTAATTTAATTAAA
15137616 TTAATTTAATTAAA
1 TTAATTTAATTAAA
15137630 TT
1 TT
15137632 GAATATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAATTTAATTAAA
Found at i:15137641 original size:19 final size:19
Alignment explanation
Indices: 15137599--15137635 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15137589 ATTATAAAAA
* *
15137599 AATTTAATTTAATTTAATT
1 AATTTAATTAAATTGAATT
15137618 AATTTAATTAAATTGAAT
1 AATTTAATTAAATTGAAT
15137636 ATATTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
AATTTAATTAAATTGAATT
Found at i:15137838 original size:13 final size:13
Alignment explanation
Indices: 15137820--15137844 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15137810 TGAGTAACGA
15137820 ATGACAATTAATC
1 ATGACAATTAATC
15137833 ATGACAATTAAT
1 ATGACAATTAAT
15137845 TTTTTCATCA
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:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (13 bp):
ATGACAATTAATC
Found at i:15146248 original size:13 final size:13
Alignment explanation
Indices: 15146230--15146255 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15146220 TCGGTAGGGA
15146230 CATGCCCGTGTGC
1 CATGCCCGTGTGC
15146243 CATGCCCGTGTGC
1 CATGCCCGTGTGC
15146256 GATTATTTCA
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:0.08, C:0.38, G:0.31, T:0.23
Consensus pattern (13 bp):
CATGCCCGTGTGC
Found at i:15147655 original size:22 final size:22
Alignment explanation
Indices: 15147627--15147668 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15147617 GGGACGAAAC
*
15147627 AGGGTGTGCGTGTTGCGACACA
1 AGGGTGTGCGTGTTACGACACA
*
15147649 AGGGTGTGTGTGTTACGACA
1 AGGGTGTGCGTGTTACGACA
15147669 TAGACACCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.14, G:0.40, T:0.26
Consensus pattern (22 bp):
AGGGTGTGCGTGTTACGACACA
Found at i:15181078 original size:65 final size:66
Alignment explanation
Indices: 15180972--15181106 Score: 191
Period size: 65 Copynumber: 2.1 Consensus size: 66
15180962 TTTTTCAAAA
* * * * * *
15180972 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGTT-
1 TCAACTCATATGGAGAGAAGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAAATTCTCTTG
15181036 T
66 T
* *
15181037 TCAACTCATGTGGAGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTCTTG
1 TCAACTCATATGGAGAGAAGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAAATTCTCTTG
15181102 T
66 T
15181103 TCAA
1 TCAA
15181107 ATCCTGTCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
65 56 0.92
66 5 0.08
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (66 bp):
TCAACTCATATGGAGAGAAGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAAATTCTCTTG
T
Found at i:15181390 original size:73 final size:74
Alignment explanation
Indices: 15181133--15181428 Score: 409
Period size: 73 Copynumber: 3.9 Consensus size: 74
15181123 TCACTTTTCC
* *
15181133 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC-CACACGCTGAGGTATTTTCAATTT
* *
15181198 CTGTTCGTAAAAAA
65 CTGTTTGT----CA
*
15181212 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTTAAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCCACACGCTGAGGTA-TTTTCAATT
*
15181275 TCTGTTTTTCA
64 TCTGTTTGTCA
* *
15181286 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GACACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACACGCTGAGGTATTTTCAATTTC
15181350 TGTTTGTCA
66 TGTTTGTCA
* *
15181359 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC-CACACGCTGAGGTATTTTCAATTT
15181424 CTGTT
65 CTGTT
15181429 CTTCAATTTC
Statistics
Matches: 199, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
73 58 0.29
74 51 0.26
75 25 0.13
77 11 0.06
78 15 0.08
79 37 0.19
80 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACACGCTGAGGTATTTTCAATTTC
TGTTTGTCA
Found at i:15181493 original size:90 final size:90
Alignment explanation
Indices: 15181341--15181934 Score: 1154
Period size: 90 Copynumber: 6.6 Consensus size: 90
15181331 CTGAGGTAAT
* * *
15181341 TTCAATTTCTGTTTGT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTCAATTTCTATTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
15181405 GCTGAGGTCTTTTCAATTTCTGTTC
66 GCTGAGGTCTTTTCAATTTCTGTTC
15181430 TTCAATTTCTATTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTCAATTTCTATTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
15181495 GCTGAGGTCTTTTCAATTTCTGTTC
66 GCTGAGGTCTTTTCAATTTCTGTTC
15181520 TTCAATTTCTATTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTCAATTTCTATTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
15181585 GCTGAGGTCTTTTCAATTTCTGTTC
66 GCTGAGGTCTTTTCAATTTCTGTTC
15181610 TTCAATTTCTATTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTCAATTTCTATTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
15181675 GCTGAGGTCTTTTCAATTTCTGTTC
66 GCTGAGGTCTTTTCAATTTCTGTTC
15181700 TTCAATTTCTATTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTCAATTTCTATTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
15181765 GCTGAGGTCTTTTCAATTTCTGTTC
66 GCTGAGGTCTTTTCAATTTCTGTTC
15181790 TTCAATTTCTATTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTCAATTTCTATTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
15181855 GCTGAGGTCTTTTCAATTTCTGTTC
66 GCTGAGGTCTTTTCAATTTCTGTTC
15181880 TTCAATTTCTATTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTCAATTTCTATTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
15181935 TTTAATTTCT
Statistics
Matches: 501, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
89 14 0.03
90 487 0.97
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (90 bp):
TTCAATTTCTATTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
GCTGAGGTCTTTTCAATTTCTGTTC
Found at i:15181964 original size:56 final size:55
Alignment explanation
Indices: 15181898--15182093 Score: 317
Period size: 54 Copynumber: 3.6 Consensus size: 55
15181888 CTATTCGTAA
15181898 AAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTTAATTTCTGTTTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGCA-CCTTTTAATTTCTG-TTTTTTC
* *
15181954 AAAAAGCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTTTG-TTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTCTGTTTTTTC
*
15182008 AAAAATCAACTCATATTGCGAGAGGTGAGTTGTACCTTTTAATTTCTG-TTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTCTGTTTTTTC
*
15182062 AAAAATCAATTCATATTGCGAGAGGTGAGTTG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTG
15182094 AGCCTCGGGG
Statistics
Matches: 133, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
54 88 0.66
56 44 0.33
57 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (55 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTCTGTTTTTTC
Found at i:15182339 original size:74 final size:74
Alignment explanation
Indices: 15182261--15182579 Score: 561
Period size: 74 Copynumber: 4.3 Consensus size: 74
15182251 TCTGTTTTTT
15182261 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
15182326 GCTGAGGTA
66 GCTGAGGTA
15182335 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
15182400 GCTGAGGTA
66 GCTGAGGTA
15182409 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
15182474 GCTGAGGTA
66 GCTGAGGTA
15182483 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCA
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---A
*
15182547 CATGCTGAGGT-
63 CACGCTGAGGTA
* * *
15182558 CTTTTCAATTTCTGTTCTTCAA
1 TTTTTAAATTTCTGTTTTTCAA
15182580 TTTCTATTCG
Statistics
Matches: 238, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
73 2 0.01
74 206 0.87
75 19 0.08
76 11 0.05
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (74 bp):
TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTA
Found at i:15182680 original size:54 final size:54
Alignment explanation
Indices: 15182598--15182739 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
15182588 CGTAAAAAAA
* *
15182598 TCAAAAAGCAACTCATATTGCAAGAGGTGAGTTGCACCTTTTAATTTTTGTTTT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTTTGTTTT
* *
15182652 TCAAAAATCAACTCATATTGTGAGAGGTGAGTTGTACCTTTTAATTTTTGTTTT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTTTGTTTT
* *
15182706 TCAAAAATCAACCCATATTGCGAGAAGTGAGTTG
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
15182740 AGCCTCGGGT
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (54 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTTTGTTTT
Found at i:15182948 original size:56 final size:56
Alignment explanation
Indices: 15182789--15182953 Score: 242
Period size: 58 Copynumber: 2.9 Consensus size: 56
15182779 CCAATTCCCG
* *
15182789 TTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATA
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTATATA
* *
15182845 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATT
1 TTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTATATA
* *
15182903 TTTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-TCTTTTAATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTTAATTT
15182954 TTGTCTTTCA
Statistics
Matches: 100, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
56 47 0.47
57 1 0.01
58 52 0.52
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.39
Consensus pattern (56 bp):
TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTATATA
Found at i:15185176 original size:10 final size:9
Alignment explanation
Indices: 15185109--15185178 Score: 58
Period size: 9 Copynumber: 7.7 Consensus size: 9
15185099 TTATTACTAG
15185109 TATTA-GTA
1 TATTATGTA
15185117 TCATTAT-TCA
1 T-ATTATGT-A
15185127 TATTA-GTA
1 TATTATGTA
15185135 TATATATGT-
1 TAT-TATGTA
*
15185144 TATTATATA
1 TATTATGTA
15185153 TATATATGTA
1 TAT-TATGTA
15185163 TATTATGTA
1 TATTATGTA
15185172 GTATTAT
1 -TATTAT
15185179 CTTTTTCTAC
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
8 9 0.18
9 24 0.47
10 18 0.35
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.53
Consensus pattern (9 bp):
TATTATGTA
Found at i:15188149 original size:14 final size:15
Alignment explanation
Indices: 15188130--15188158 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15188120 AAATAAAGGC
15188130 AAGATTAAAT-AAAA
1 AAGATTAAATCAAAA
15188144 AAGATTAAATCAAAA
1 AAGATTAAATCAAAA
15188159 CCATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (15 bp):
AAGATTAAATCAAAA
Found at i:15189998 original size:94 final size:93
Alignment explanation
Indices: 15189916--15190461 Score: 675
Period size: 94 Copynumber: 5.8 Consensus size: 93
15189906 CATTTCGACT
* ** * ** * *
15189916 CACTGTAACTTCAGAGAGATAAGATTTGCTATGATAACTTCAATCCAACCCATTGCAACTTTAGG
1 CACTGCAACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAGG
*
15189981 GGTATAGGACTTGTAGTTTTATCTTGCTC
66 GGTATAGGATTTGTAG-TTTATCTTGCTC
* * * * *
15190010 CACTGCAACTTCAGGGAGATAAGATTCCCCATGGTAACTTCAATCTAACCCACTGCAACTTTAGG
1 CACTGCAACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAGG
*
15190075 GGTATAGGATTTGTAGCTTTTTCTTGC-C
66 GGTATAGGATTTGTAG-TTTATCTTGCTC
* * * ** * * * *
15190103 CTACTACAACTTCATAGAGATAAGAATCGTTATGGTAACTTCAATCTGATCCACTACAACTTTAA
1 C-ACTGCAACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAG
* *
15190168 GGATACAGGATTTGTAGCTTTATCTTGCTC
65 GGGTATAGGATTTGTAG-TTTATCTTGCTC
* *
15190198 CACTCCAACTTCAAAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAGG
1 CACTGCAACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAGG
* *
15190263 GGTATAGGATTTGTCACTTTATCTTTCTC
66 GGTATAGGATTTGT-AGTTTATCTTGCTC
* *
15190292 CACTGCATCTTCAG-GAAGGTAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAG
1 CACTGCAACTTCAGAG-AGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAG
* *
15190356 GGGTATAGGATTTGTCACTTTATCTTTCTC
65 GGGTATAGGATTTGT-AGTTTATCTTGCTC
* *
15190386 CACTGCATCTTCAG-GAAGGTAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAG
1 CACTGCAACTTCAGAG-AGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAG
15190450 GGGTATAGGATT
65 GGGTATAGGATT
15190462 AGCTATGGCA
Statistics
Matches: 406, Mismatches: 42, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
93 3 0.01
94 400 0.99
95 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (93 bp):
CACTGCAACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAGG
GGTATAGGATTTGTAGTTTATCTTGCTC
Found at i:15190087 original size:144 final size:144
Alignment explanation
Indices: 15189810--15190070 Score: 317
Period size: 144 Copynumber: 1.8 Consensus size: 144
15189800 TTGTTCTAGT
* *
15189810 TTCAATCCAACCCACTGCAACTTCAAGAGTATAAGATTTGTAGCTTCGTCTTGCTCCACTGCAAC
1 TTCAATCCAACCCACTGCAACTTCAAGAGTATAAGACTTGTAGCTTCATCTTGCTCCACTGCAAC
* * * ** * * * *
15189875 TTTAAGGAGATAAGCTTCACCATTATAGTTTCATTTCGACTCACTGTAACTTCAGAGAGATAAGA
66 TTCAAGGAGATAAGATTCACCATGATAACTTCATCTCAACCCACTGCAACTTCAGAGAGATAAGA
15189940 TTTGCTATGATAAC
131 TTTGCTATGATAAC
* * * * * * *
15189954 TTCAATCCAACCCATTGCAACTTTAGGGGTATAGGACTTGTAGTTTTATCTTGCTCCACTGCAAC
1 TTCAATCCAACCCACTGCAACTTCAAGAGTATAAGACTTGTAGCTTCATCTTGCTCCACTGCAAC
* * *
15190019 TTCAGGGAGATAAGATTCCCCATGGTAACTTCAATCT-AACCCACTGCAACTT
66 TTCAAGGAGATAAGATTCACCATGATAACTTC-ATCTCAACCCACTGCAACTT
15190071 TAGGGGTATA
Statistics
Matches: 95, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
144 92 0.97
145 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (144 bp):
TTCAATCCAACCCACTGCAACTTCAAGAGTATAAGACTTGTAGCTTCATCTTGCTCCACTGCAAC
TTCAAGGAGATAAGATTCACCATGATAACTTCATCTCAACCCACTGCAACTTCAGAGAGATAAGA
TTTGCTATGATAAC
Found at i:15190486 original size:144 final size:142
Alignment explanation
Indices: 15190291--15190605 Score: 395
Period size: 144 Copynumber: 2.2 Consensus size: 142
15190281 TTATCTTTCT
* * *
15190291 CCACTGCATCTTCAGGAAGGTAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAG
1 CCACTGCAACTTCAGG--GGTAAGATTCACTATGGCAACTTCAATCCGACCCACTGCAACTTCAG
* * * * *
15190356 GGGTATAGGATTTGTCA-CTTTATCTTTCTCCACTGCATC-TTCAGGAAGGTAAGATTCA-CTAT
64 GGGTATAGGATTTGT-AGCTTCATCTTGCTCCACTGCAACTTTAAGG-AGATAAGATT-AGCTAT
15190418 GGTAACTTCAATCTGAC
126 GGTAACTTCAATCTGAC
* *
15190435 CCACTGCAACTTCAGGGGTATAGGATT-AGCTATGGCAACTTCAATCCGACCCACTGTAACTTTA
1 CCACTGCAACTTCAGGGGTA-A-GATTCA-CTATGGCAACTTCAATCCGACCCACTGCAACTTCA
*
15190499 GGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGTAACTTTAAGGAGATAAGATTAGCTATGG
63 GGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAAGGAGATAAGATTAGCTATGG
15190564 TAACTTCAATCTGAC
128 TAACTTCAATCTGAC
* *
15190579 CAACTACAACTTCAGGGAGATAAGATT
1 CCACTGCAACTTCAGGG-G-TAAGATT
15190606 TGTAGCTTCA
Statistics
Matches: 150, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
142 4 0.03
143 4 0.03
144 133 0.89
145 7 0.05
146 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (142 bp):
CCACTGCAACTTCAGGGGTAAGATTCACTATGGCAACTTCAATCCGACCCACTGCAACTTCAGGG
GTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAAGGAGATAAGATTAGCTATGGTAA
CTTCAATCTGAC
Found at i:15190564 original size:238 final size:238
Alignment explanation
Indices: 15190226--15190686 Score: 599
Period size: 238 Copynumber: 1.9 Consensus size: 238
15190216 ATAAGATTCA
* * * *
15190226 CTATGGTAACTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTCACTTTATCTTTCT
1 CTATGGCAACTTCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTCACTTCATCTTGCT
* * * * *
15190291 CCACTGCATCTTCAGGAAGGTAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAG
66 CCACTGCAACTTAAGGAAGATAAGATTCACTATGGTAACTTCAATCTGACCAACTACAACTTCAG
* * * * * * *
15190356 GG-GTATAGGATTTGTCA-CTTTATCTTTCTCCACTGCATCTTCAGGAAGGTAAGATTCACTATG
131 GGAG-ATAAGATTTGT-AGCTTCATCTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACCATC
15190419 GTAACTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTAG
194 GTAACTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTAG
* *
15190464 CTATGGCAACTTCAATCCGACCCACTGTAACTTTAGGGGTATAGGATTTGT-AGCTTCATCTTGC
1 CTATGGCAACTTCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTCA-CTTCATCTTGC
*
15190528 TCCACTGTAACTTTAAGG-AGATAAGATT-AGCTATGGTAACTTCAATCTGACCAACTACAACTT
65 TCCACTGCAAC-TTAAGGAAGATAAGATTCA-CTATGGTAACTTCAATCTGACCAACTACAACTT
* * ** *
15190591 CAGGGAGATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCCT
128 CAGGGAGATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACCAT
** *
15190656 CGTAGTTTCATTCTGACCCACTGCAACTTCA
193 CGTAACTTCAATCTGACCCACTGCAACTTCA
15190687 AAGGTATAAG
Statistics
Matches: 191, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
237 3 0.02
238 182 0.95
239 6 0.03
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (238 bp):
CTATGGCAACTTCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTCACTTCATCTTGCT
CCACTGCAACTTAAGGAAGATAAGATTCACTATGGTAACTTCAATCTGACCAACTACAACTTCAG
GGAGATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACCATCGT
AACTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTAG
Found at i:15190598 original size:50 final size:49
Alignment explanation
Indices: 15190009--15190686 Score: 269
Period size: 50 Copynumber: 14.3 Consensus size: 49
15189999 TTATCTTGCT
* * *
15190009 CCACTGCAACTTCAGGGAGATAAGATTCCCCATGGTAACTTCAATCTAAC
1 CCACTGCAACTTCAGGGAGATAAGATT-ACTATGGTAACTTCAATCTGAC
* * * **
15190059 CCACTGCAACTTTAGGG-GTATAGGA-T--T-T-GTAGCTT-TTTCTTG-C
1 CCACTGCAACTTCAGGGAG-ATAAGATTACTATGGTAACTTCAATC-TGAC
* ** * *
15190102 CCTACTACAACTTCATAGAGATAAGAAT-CGTTATGGTAACTTCAATCTGAT
1 CC-ACTGCAACTTCAGGGAGATAAGATTAC--TATGGTAACTTCAATCTGAC
* * * * * * * *
15190153 CCACTACAACTTTAAGGATACAGGA-T--T-T-GTAGCTT-TATCTTG-C
1 CCACTGCAACTTCAGGGAGATAAGATTACTATGGTAACTTCAATC-TGAC
* **
15190196 TCCACTCCAACTTCAAAGAGATAAGATTCACTATGGTAACTTCAATCTGAC
1 -CCACTGCAACTTCAGGGAGATAAGATT-ACTATGGTAACTTCAATCTGAC
* * * **
15190247 CCACTGCAACTTCAGGG-GTATAGGA-T--T-T-GTCACTT-TATCTTTC
1 CCACTGCAACTTCAGGGAG-ATAAGATTACTATGGTAACTTCAATCTGAC
* * *
15190290 TCCACTGCATCTTCAGGAAGGTAAGATTCACTATGGTAACTTCAATCTGAC
1 -CCACTGCAACTTCAGGGAGATAAGATT-ACTATGGTAACTTCAATCTGAC
* * * **
15190341 CCACTGCAACTTCAGGG-GTATAGGA-T--T-T-GTCACTT-TATCTTTC
1 CCACTGCAACTTCAGGGAG-ATAAGATTACTATGGTAACTTCAATCTGAC
* * *
15190384 TCCACTGCATCTTCAGGAAGGTAAGATTCACTATGGTAACTTCAATCTGAC
1 -CCACTGCAACTTCAGGGAGATAAGATT-ACTATGGTAACTTCAATCTGAC
* * *
15190435 CCACTGCAACTTCAGGG-GTATAGGATTAGCTATGGCAACTTCAATCCGAC
1 CCACTGCAACTTCAGGGAG-ATAAGATTA-CTATGGTAACTTCAATCTGAC
* * * *
15190485 CCACTGTAACTTTAGGG-GTATAGGA-T--T-T-GTAGCTTC-ATCTTG-C
1 CCACTGCAACTTCAGGGAG-ATAAGATTACTATGGTAACTTCAATC-TGAC
* * *
15190528 TCCACTGTAACTTTAAGGAGATAAGATTAGCTATGGTAACTTCAATCTGAC
1 -CCACTGCAACTTCAGGGAGATAAGATTA-CTATGGTAACTTCAATCTGAC
* * *
15190579 CAACTACAACTTCAGGGAGATAAGA-T--T-T-GTAGCTTC-ATCTTG-C
1 CCACTGCAACTTCAGGGAGATAAGATTACTATGGTAACTTCAATC-TGAC
* * ** * ** *
15190622 TCCACTGCAACTTTAGGGAGATAAGATTTGCCCTCGTAGTTTCATTCTGAC
1 -CCACTGCAACTTCAGGGAGATAAGA-TTACTATGGTAACTTCAATCTGAC
15190673 CCACTGCAACTTCA
1 CCACTGCAACTTCA
15190687 AAGGTATAAG
Statistics
Matches: 471, Mismatches: 92, Indels: 130
0.68 0.13 0.19
Matches are distributed among these distances:
43 26 0.06
44 159 0.34
45 15 0.03
46 6 0.01
48 5 0.01
49 17 0.04
50 218 0.46
51 25 0.05
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (49 bp):
CCACTGCAACTTCAGGGAGATAAGATTACTATGGTAACTTCAATCTGAC
Found at i:15190640 original size:44 final size:44
Alignment explanation
Indices: 15190485--15190651 Score: 160
Period size: 44 Copynumber: 3.7 Consensus size: 44
15190475 TCAATCCGAC
* *
15190485 CCACTGTAACTTTAGGG-GTATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTTAGGGAG-ATAAGATTTGTAGCTTCATCTTGCT
* * *
15190529 CCACTGTAACTTTAAGGAGATAAGATTAGCTATGGTAACTTCAATC-TGAC-
1 CCACTGCAACTTTAGGGAGATAAGA-T---T-T-GTAGCTTC-ATCTTG-CT
* * *
15190579 CAACTACAACTTCAGGGAGATAAGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCATCTTGCT
15190623 CCACTGCAACTTTAGGGAGATAAGATTTG
1 CCACTGCAACTTTAGGGAGATAAGATTTG
15190652 CCCTCGTAGT
Statistics
Matches: 100, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
43 4 0.04
44 56 0.56
45 3 0.03
46 1 0.01
48 1 0.01
49 2 0.02
50 29 0.29
51 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (44 bp):
CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCATCTTGCT
Found at i:15190696 original size:94 final size:94
Alignment explanation
Indices: 15190435--15190707 Score: 289
Period size: 94 Copynumber: 2.9 Consensus size: 94
15190425 TCAATCTGAC
* * * * * * * * *
15190435 CCACTGCAAC-TTCAGGGGTATAGGATTAGCTATGGCAACTTCAATCCGACCCACTGTAACTTTA
1 CCACTGCAACTTTAAGGAG-ATAAGATTAGCCATCGTAACTTCAATCTGACCCACTGCAACTTCA
* *
15190499 GGGGTATAGGATTTGTAGCTTCATCTTGCT
65 AGGGTATAAGATTTGTAGCTTCATCTTGCT
* * * * *
15190529 CCACTGTAACTTTAAGGAGATAAGATTAGCTATGGTAACTTCAATCTGACCAACTACAACTTC-A
1 CCACTGCAACTTTAAGGAGATAAGATTAGCCATCGTAACTTCAATCTGACCCACTGCAACTTCAA
*
15190593 GGGAGATAAGATTTGTAGCTTCATCTTGCT
66 GGG-TATAAGATTTGTAGCTTCATCTTGCT
* * * ** *
15190623 CCACTGCAACTTTAGGGAGATAAGATTTGCCCTCGTAGTTTCATTCTGACCCACTGCAACTTCAA
1 CCACTGCAACTTTAAGGAGATAAGATTAGCCATCGTAACTTCAATCTGACCCACTGCAACTTCAA
* *
15190688 AGGTATAAGAATTGTAGCTT
66 GGGTATAAGATTTGTAGCTT
15190708 TAATCCAATC
Statistics
Matches: 149, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
93 3 0.02
94 137 0.92
95 9 0.06
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (94 bp):
CCACTGCAACTTTAAGGAGATAAGATTAGCCATCGTAACTTCAATCTGACCCACTGCAACTTCAA
GGGTATAAGATTTGTAGCTTCATCTTGCT
Found at i:15202853 original size:5 final size:5
Alignment explanation
Indices: 15202842--15202884 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
15202832 AAATAGAAAG
* *
15202842 ATTTT GTTTT GTTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
15202885 AATTTAGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:15211061 original size:5 final size:5
Alignment explanation
Indices: 15211047--15211084 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
15211037 AAATAGAAAG
*
15211047 ATTTT ATTTT GTTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
15211085 AATTTAGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:15216229 original size:21 final size:21
Alignment explanation
Indices: 15216203--15216254 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
15216193 TTACTCGAAG
15216203 GAAGCCGATTGATCCATCTCA
1 GAAGCCGATTGATCCATCTCA
15216224 GAAGCCGATTGATCCATCTCA
1 GAAGCCGATTGATCCATCTCA
15216245 GAAGCCGATT
1 GAAGCCGATT
15216255 AGGCCCTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (21 bp):
GAAGCCGATTGATCCATCTCA
Found at i:15216967 original size:59 final size:56
Alignment explanation
Indices: 15216904--15217017 Score: 149
Period size: 59 Copynumber: 2.0 Consensus size: 56
15216894 CTCTATGATT
* *
15216904 TCTTAGTTCAGA-TAATTAGTTAGTTAAAACAAAACCTATTTATTCTTAGGCTAGATAAC
1 TCTTAGTTCA-ATTAATTAGTTAGAT-AAACAAAACCCATTT-TT-TTAGGCTAGATAAC
* *
15216963 TCTTAGTTTAATTAATTAGTTAGATAAACAAAACCCGTTTTTTTAGGCTAGATAA
1 TCTTAGTTCAATTAATTAGTTAGATAAACAAAACCCATTTTTTTAGGCTAGATAA
15217018 TAAAAAGAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
56 13 0.26
57 2 0.04
58 14 0.28
59 21 0.42
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (56 bp):
TCTTAGTTCAATTAATTAGTTAGATAAACAAAACCCATTTTTTTAGGCTAGATAAC
Found at i:15222103 original size:21 final size:21
Alignment explanation
Indices: 15222077--15222118 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
15222067 CAAGGAGGAG
15222077 AATGACTTACATGCTCTCAAC
1 AATGACTTACATGCTCTCAAC
15222098 AATGACTTACATGCTCTCAAC
1 AATGACTTACATGCTCTCAAC
15222119 CGCCACATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.29
Consensus pattern (21 bp):
AATGACTTACATGCTCTCAAC
Found at i:15226504 original size:93 final size:93
Alignment explanation
Indices: 15226391--15226562 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
15226381 CGCCCATAAG
* *
15226391 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCTATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
15226455 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
15226484 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
15226549 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
15226563 TCAATCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:15226557 original size:46 final size:46
Alignment explanation
Indices: 15226384--15226559 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
15226374 TGTAACCCGC
* *
15226384 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * *
15226430 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
15226480 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
15226523 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
15226560 TGCTCAATCA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 59 0.55
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:15234231 original size:31 final size:30
Alignment explanation
Indices: 15234188--15234245 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15234178 TATCAAAATT
*
15234188 AACAATAAAATAAGAATTATA-CAATATTCA
1 AACAATAAAATAA-AATAATAGCAATATTCA
*
15234218 AACAGTAACAATAAAATAATAGCAATAT
1 AACAATAA-AATAAAATAATAGCAATAT
15234246 AATAGTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.24
Consensus pattern (30 bp):
AACAATAAAATAAAATAATAGCAATATTCA
Found at i:15237519 original size:41 final size:40
Alignment explanation
Indices: 15237443--15237528 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
15237433 CAAATACATT
*
15237443 TAAAACAACTATTAAAACAAGAAACAAATAAAAAATGATAC
1 TAAAACAACTATTAAAACAAGAAACAAATAAAAAAT-ATAA
* * * * **
15237484 TAAAACAATTGTTAAAACAATACACAAATTGAAAATATAA
1 TAAAACAACTATTAAAACAAGAAACAAATAAAAAATATAA
15237524 TAAAA
1 TAAAA
15237529 AGTGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (40 bp):
TAAAACAACTATTAAAACAAGAAACAAATAAAAAATATAA
Found at i:15237579 original size:28 final size:27
Alignment explanation
Indices: 15237515--15237579 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
15237505 ACACAAATTG
* * *
15237515 AAAATATAATAAAAAGTGATTATATTA
1 AAAATAAAATAAAAAGTAAATATATTA
* *
15237542 AAATTGAAAATAAAATGTAAATATGATTA
1 AAAAT-AAAATAAAAAGTAAATAT-ATTA
15237571 AAAATAAAA
1 AAAATAAAA
15237580 AATATAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.13
28 18 0.60
29 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAAATATATTA
Found at i:15238903 original size:37 final size:37
Alignment explanation
Indices: 15238861--15239009 Score: 298
Period size: 37 Copynumber: 4.0 Consensus size: 37
15238851 AAGCTACTAT
15238861 AAAATTTAAAATCATTTTAAAAAAAATAGTCTTTTTA
1 AAAATTTAAAATCATTTTAAAAAAAATAGTCTTTTTA
15238898 AAAATTTAAAATCATTTTAAAAAAAATAGTCTTTTTA
1 AAAATTTAAAATCATTTTAAAAAAAATAGTCTTTTTA
15238935 AAAATTTAAAATCATTTTAAAAAAAATAGTCTTTTTA
1 AAAATTTAAAATCATTTTAAAAAAAATAGTCTTTTTA
15238972 AAAATTTAAAATCATTTTAAAAAAAATAGTCTTTTTA
1 AAAATTTAAAATCATTTTAAAAAAAATAGTCTTTTTA
15239009 A
1 A
15239010 GTTATCACTA
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 112 1.00
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (37 bp):
AAAATTTAAAATCATTTTAAAAAAAATAGTCTTTTTA
Found at i:15239291 original size:21 final size:21
Alignment explanation
Indices: 15239243--15239291 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
15239233 CAATTTAATA
*
15239243 TTAATTATCATATTTTTAAAT
1 TTAATTATCATATTATTAAAT
*
15239264 TTAAATTAT-ATATTATTATGAT
1 TT-AATTATCATATTATTA-AAT
15239286 TTAATT
1 TTAATT
15239292 TCGTAACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TTAATTATCATATTATTAAAT
Found at i:15241575 original size:142 final size:142
Alignment explanation
Indices: 15241327--15241610 Score: 523
Period size: 142 Copynumber: 2.0 Consensus size: 142
15241317 ATGTTGATAT
15241327 TATTATTTAAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAAAAATTATATG
1 TATTATTTAAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAAAAATTATATG
*
15241392 TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTGAGTATGGTGCTATATTG
66 TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTGAGTATGGCGCTATATTG
*
15241457 TATAGTTGAAAA
131 TAAAGTTGAAAA
* *
15241469 TATTATTTGAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAGAAATTATATG
1 TATTATTTAAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAAAAATTATATG
*
15241534 TATTTGAAATGAATTATATTATTATAAGGTATGCTAATGACCATGTTGAGTATGGCGCTATATTG
66 TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTGAGTATGGCGCTATATTG
15241599 TAAAGTTGAAAA
131 TAAAGTTGAAAA
15241611 GAATATGGGA
Statistics
Matches: 137, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 137 1.00
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.38
Consensus pattern (142 bp):
TATTATTTAAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAAAAATTATATG
TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTGAGTATGGCGCTATATTG
TAAAGTTGAAAA
Found at i:15244341 original size:46 final size:45
Alignment explanation
Indices: 15244236--15244455 Score: 183
Period size: 46 Copynumber: 4.7 Consensus size: 45
15244226 GGGTATAATA
* * * *
15244236 CCGATGCCATGCCCCAGACATGGTCTTACACTGACTTTAACATATCCG-TG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-TT--CGTAT-CGAGG
* * * *
15244286 CCGATGCATGTCTCAAACATGTCTTACACTGGCTTACATCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTATCGAGG
* * * *
15244332 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTTTCCATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCT-TCGTATCGAGG
* *
15244378 CCGATGCCATGTCCCAGACATGGTCTTATACTGGCTTTCGTAAT-GTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-TTCGT-ATCGAGG
*
15244426 TCGATGCATGTCCCAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
15244456 AGCACACAAT
Statistics
Matches: 143, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.01
46 58 0.41
47 31 0.22
48 33 0.23
49 13 0.09
50 6 0.04
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.29
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTATCGAGG
Found at i:15244404 original size:94 final size:92
Alignment explanation
Indices: 15244284--15244458 Score: 244
Period size: 94 Copynumber: 1.9 Consensus size: 92
15244274 AACATATCCG
* *
15244284 TGCCGATGCATGTCTCAAACATGTCTTACACTGGCTTACAT-CTCGAGGCCGATGCATGTCCCAG
1 TGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATAAT-GAGGCCGATGCATGTCCCAG
15244348 ACATGTCTTACACTAGCTCTCGTTTCCA
65 ACATGTCTTACACTAGCTCTCGTTTCCA
* * * * * *
15244376 TGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCTTTCGTAATGTGGTCGATGCATGTCCCA
1 TGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACATAATGAGGCCGATGCATGTCCCA
15244441 GACATGTCTTACACTAGC
64 GACATGTCTTACACTAGC
15244459 ACACAATTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
92 8 0.11
93 12 0.17
94 51 0.71
95 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.30
Consensus pattern (92 bp):
TGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATAATGAGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCTCTCGTTTCCA
Found at i:15256554 original size:22 final size:22
Alignment explanation
Indices: 15256526--15256570 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
15256516 TAAAAATGAA
15256526 TCATTAATACCTCGCATTATTC
1 TCATTAATACCTCGCATTATTC
15256548 TCATTAATACCTCGCATTATTC
1 TCATTAATACCTCGCATTATTC
15256570 T
1 T
15256571 TTTCGAGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.04, T:0.42
Consensus pattern (22 bp):
TCATTAATACCTCGCATTATTC
Found at i:15265597 original size:43 final size:42
Alignment explanation
Indices: 15265524--15265690 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 42
15265514 CATAAGCTCG
* * * *
15265524 TACAATGCC-ATATCCCGGATATGGTCTTACATGTCAATACGT-A
1 TACAATGCCAATGTCCCAGACAGGGTCTTACATG-CAAT-C-TAA
* *
15265567 T-CAATGCCATTGTCCCAGACAGGGTCTTACATGAAATCATAA
1 TACAATGCCAATGTCCCAGACAGGGTCTTACATGCAATC-TAA
* * *
15265609 TACGATGCCAATGTCTCAGAC-GTGGTCTTACACGCAATCTCAA
1 TACAATGCCAATGTCCCAGACAG-GGTCTTACATGCAATCT-AA
* *
15265652 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 TACAATGCCAATGTCCCAGACAGGGTCTTACATGCAATC
15265691 ACATCTCGAT
Statistics
Matches: 101, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 14 0.14
43 85 0.84
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACAGGGTCTTACATGCAATCTAA
Found at i:15281757 original size:12 final size:12
Alignment explanation
Indices: 15281742--15281772 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
15281732 AACCACACGC
15281742 CCGTGTGCCAAG
1 CCGTGTGCCAAG
15281754 CCGTGTGCCAAG
1 CCGTGTGCCAAG
15281766 CCGTGTG
1 CCGTGTG
15281773 AAATCTAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.32, G:0.35, T:0.19
Consensus pattern (12 bp):
CCGTGTGCCAAG
Found at i:15282991 original size:43 final size:42
Alignment explanation
Indices: 15282877--15283033 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 42
15282867 AGCTCGTACA
* * *
15282877 ATGCC-ATATCCCAGATATGGTCTTACATGTAAATACGT-AT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAAT-C-TAATACG
*
15282919 ATGCCACTGTCCCAAGACATGGTCTTACACGAAATCATAATACG
1 ATGCCAATGTCCC-AGACATGGTCTTACACGAAATC-TAATACG
*
15282963 ATGCCAATGTCCCAGACATGGTCTTACAC-ACAATCTCAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA-AATCT-AATACG
*
15283006 ATACCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
15283034 TGTAATCACA
Statistics
Matches: 101, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
42 9 0.09
43 63 0.62
44 29 0.29
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCTAATACG
Found at i:15283622 original size:27 final size:27
Alignment explanation
Indices: 15283592--15283648 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
15283582 TTCATCAAAA
15283592 ATCCCAATAGAAAACATATTAACACAT
1 ATCCCAATAGAAAACATATTAACACAT
15283619 ATCCCAATAGAAAACATATTAACACAT
1 ATCCCAATAGAAAACATATTAACACAT
15283646 ATC
1 ATC
15283649 TTTCATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.51, C:0.23, G:0.04, T:0.23
Consensus pattern (27 bp):
ATCCCAATAGAAAACATATTAACACAT
Found at i:15285136 original size:30 final size:30
Alignment explanation
Indices: 15285076--15285146 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
15285066 CTTGGGTCAT
* *
15285076 ACGCCCATGTATGTTGCCTGTGTCTAACAC
1 ACGCCCATGTGTGTTGCCCGTGTCTAACAC
* * *
15285106 ATGCCCATGTGTGTTGCCCGTGTGTGACAC
1 ACGCCCATGTGTGTTGCCCGTGTCTAACAC
*
15285136 ACGCCCGTGTG
1 ACGCCCATGTG
15285147 GCCAGGTCGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.15, C:0.30, G:0.27, T:0.28
Consensus pattern (30 bp):
ACGCCCATGTGTGTTGCCCGTGTCTAACAC
Found at i:15294258 original size:15 final size:15
Alignment explanation
Indices: 15294238--15294269 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15294228 CATTTCACTA
*
15294238 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
15294253 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
15294268 TT
1 TT
15294270 TTCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:15296042 original size:20 final size:20
Alignment explanation
Indices: 15296019--15296056 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
15296009 TTTTATTAAA
15296019 TTAATATTAAAGTGATTATC
1 TTAATATTAAAGTGATTATC
15296039 TTAATATTAAAGTGATTA
1 TTAATATTAAAGTGATTA
15296057 AGTTTAATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
TTAATATTAAAGTGATTATC
Found at i:15297210 original size:30 final size:33
Alignment explanation
Indices: 15297176--15297239 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 33
15297166 AATATTAAAA
* *
15297176 TAAATCTT-TTTTATCTTAA-ATTTA-ATTATT
1 TAAATCTTATTTTATCATAATATTCATATTATT
*
15297206 TAAATTTTATTTTATCATAATATTCATATTATT
1 TAAATCTTATTTTATCATAATATTCATATTATT
15297239 T
1 T
15297240 TACCTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 7 0.25
31 10 0.36
32 4 0.14
33 7 0.25
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (33 bp):
TAAATCTTATTTTATCATAATATTCATATTATT
Found at i:15297867 original size:14 final size:16
Alignment explanation
Indices: 15297848--15297885 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
15297838 GTGAAATAAA
15297848 AATTTA-ATTTT-TAT
1 AATTTATATTTTATAT
15297862 AATTTATATTTTATAT
1 AATTTATATTTTATAT
*
15297878 ATTTTATA
1 AATTTATA
15297886 AAATTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 5 0.24
16 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
AATTTATATTTTATAT
Found at i:15298818 original size:9 final size:9
Alignment explanation
Indices: 15298783--15298814 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
15298773 ATCATTTAAC
15298783 ATATATCAT
1 ATATATCAT
15298792 ATATATCAT
1 ATATATCAT
15298801 ATATAT-AT
1 ATATATCAT
15298809 ATATAT
1 ATATAT
15298815 TATAATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (9 bp):
ATATATCAT
Found at i:15299421 original size:21 final size:22
Alignment explanation
Indices: 15299366--15299421 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
15299356 TTATGAATTG
*
15299366 TTAAAATATAATTAAAAATGTT
1 TTAAAACATAATTAAAAATGTT
*
15299388 TTAAAACATAATTAATAGA-GTT
1 TTAAAACATAATTAA-AAATGTT
15299410 TTAAAA-ATAATT
1 TTAAAACATAATT
15299422 TATTTCTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 6 0.19
22 23 0.74
23 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (22 bp):
TTAAAACATAATTAAAAATGTT
Found at i:15300063 original size:17 final size:19
Alignment explanation
Indices: 15300043--15300079 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
15300033 ATTTGAAATC
15300043 TTTAAAA-AT-ATATAAAA
1 TTTAAAACATAATATAAAA
15300060 TTTAAAACATAATATAAAA
1 TTTAAAACATAATATAAAA
15300079 T
1 T
15300080 CAAATATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 2 0.11
19 9 0.50
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
TTTAAAACATAATATAAAA
Found at i:15305125 original size:17 final size:18
Alignment explanation
Indices: 15305072--15305169 Score: 137
Period size: 18 Copynumber: 5.5 Consensus size: 18
15305062 AATCATATCT
*
15305072 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
15305091 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
15305109 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
15305126 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
15305144 TTTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
15305161 TCTAAGATT
1 TCTAAGATT
15305170 ACATATCATT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
17 30 0.42
18 31 0.44
19 10 0.14
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:15305130 original size:35 final size:35
Alignment explanation
Indices: 15305072--15305178 Score: 169
Period size: 35 Copynumber: 3.0 Consensus size: 35
15305062 AATCATATCT
15305072 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
15305109 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
15305144 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
15305179 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
35 52 0.78
36 5 0.07
37 10 0.15
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:15305718 original size:84 final size:84
Alignment explanation
Indices: 15305564--15306589 Score: 1898
Period size: 84 Copynumber: 12.2 Consensus size: 84
15305554 TTCGAGTTGT
* * * * * *
15305564 AAGGATGTC-AAATCATCTTGAGTCTATTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
*
15305628 ACTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
* * * *
15305647 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTAAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
15305712 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
15305731 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
15305796 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
15305815 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
15305880 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
15305899 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
15305964 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
15305983 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
15306048 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
15306067 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
15306132 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
15306151 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
15306216 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
15306235 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
15306300 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
15306319 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
15306384 ATTTGTTCCTTGTAAGCCAC
66 ATTTGTTCCTTGTAAG-CAC
* *
15306404 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
15306468 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
15306487 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
1 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
15306551 ATTTGTTCCTTGTAAGCAC
66 ATTTGTTCCTTGTAAGCAC
15306570 AAGGATGCC-AAACCATCTTG
1 AAGGATGCCTAAACCATCTTG
15306590 GATCTGCTTC
Statistics
Matches: 926, Mismatches: 15, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
83 112 0.12
84 802 0.87
85 12 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (84 bp):
AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
ATTTGTTCCTTGTAAGCAC
Found at i:15306724 original size:119 final size:119
Alignment explanation
Indices: 15306513--15307112 Score: 993
Period size: 119 Copynumber: 5.0 Consensus size: 119
15306503 CTTGAGTCTG
* * * * * * * *
15306513 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
15306578 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
15306632 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
15306697 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
15306751 TTTGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * *
15306816 CAAATCATCTTGGATCTGCTTCAGTGTAAACATCTAAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
15306870 TTTGAGAACGCCTGAGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAACACAAAAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
15306935 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
15306989 TTTGAGAACGTCTGAGAGTCAAATCTGATATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
15307054 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
15307108 TTTGA
1 TTTGA
15307113 TCTGTTCCCT
Statistics
Matches: 449, Mismatches: 32, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 449 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:15307146 original size:44 final size:44
Alignment explanation
Indices: 15307098--15307292 Score: 157
Period size: 44 Copynumber: 4.4 Consensus size: 44
15307088 TGAAGGTTAG
15307098 ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAA
* * *
15307142 ATCTGCTATC-TTCAACTTGTTCCCTATAAACACAGGGATTCC--
1 ATCTGCTATCTTTGATC-TGTTCCCTATAAACACAGGGATGCCAA
** ** * * * * * *
15307184 ATGCTGAAATCTTCAATCTGCTTCGC-AGAGAGCACAGGAATGTCAG
1 AT-CTGCTATCTTTGATCTG-TTCCCTATA-AACACAGGGATGCCAA
* * *
15307230 ATCTACTATCTTCGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAA
*
15307274 ATCTTG-TTTCTTTGATCTG
1 ATC-TGCTATCTTTGATCTG
15307293 CATTGTCCCA
Statistics
Matches: 114, Mismatches: 28, Indels: 18
0.71 0.17 0.11
Matches are distributed among these distances:
42 2 0.02
43 14 0.12
44 80 0.70
45 16 0.14
46 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (44 bp):
ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:15308179 original size:21 final size:20
Alignment explanation
Indices: 15308155--15308241 Score: 85
Period size: 21 Copynumber: 4.5 Consensus size: 20
15308145 GGCCTCTCCA
15308155 TTTTTTTATTTTTTCTCTTTC
1 TTTTTTT-TTTTTTCTCTTTC
*
15308176 ---TTTTTTTTTTCTTTTTC
1 TTTTTTTTTTTTTCTCTTTC
* *
15308193 TTTTCTTTTTTTCTCTTTTTC
1 TTTT-TTTTTTTTTCTCTTTC
*
15308214 TTTTCTTTTTTTTCTC--TC
1 TTTTTTTTTTTTTCTCTTTC
15308232 TTTTTTTTTT
1 TTTTTTTTTT
15308242 GAAATAGAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
17 12 0.21
18 15 0.27
20 10 0.18
21 19 0.34
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTTTTTTTTCTCTTTC
Found at i:15308180 original size:22 final size:20
Alignment explanation
Indices: 15308155--15308226 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 20
15308145 GGCCTCTCCA
*
15308155 TTTTTTTATTTTTTCTCTTTC
1 TTTTTTTTTTTTTTCT-TTTC
15308176 TTTTTTTTTTCTTTTTCTTTTC
1 -TTTTTTTTT-TTTTTCTTTTC
*
15308198 TTTTTTTCTCTTTTTCTTTTC
1 TTTTTTT-TTTTTTTCTTTTC
15308219 TTTTTTTT
1 TTTTTTTT
15308227 CTCTCTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
20 1 0.02
21 25 0.54
22 13 0.28
23 7 0.15
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTTTTTTTTTTCTTTTC
Found at i:15308227 original size:22 final size:22
Alignment explanation
Indices: 15308155--15308240 Score: 113
Period size: 22 Copynumber: 3.9 Consensus size: 22
15308145 GGCCTCTCCA
*
15308155 TTTTTTTAT-TTTTTCTCTTTCT
1 TTTTTTTCTCTTTTTCT-TTTCT
*
15308177 TTTTTTTTTCTTTTTCTTTTC-
1 TTTTTTTCTCTTTTTCTTTTCT
15308198 TTTTTTTCTCTTTTTCTTTTCT
1 TTTTTTTCTCTTTTTCTTTTCT
*
15308220 TTTTTTTCTCTCTTTTTTTTT
1 TTTTTTTCTCT-TTTTCTTTT
15308241 TGAAATAGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
21 20 0.34
22 23 0.40
23 15 0.26
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTTTTCTCTTTTTCTTTTCT
Found at i:15311195 original size:43 final size:43
Alignment explanation
Indices: 15311134--15311219 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
15311124 TGTGAAGTTG
*
15311134 TTCTGATTATCTTGAAAGAAATATTGGCAAACAAGTGGGCATT
1 TTCTGATTATCTTGAAAGAAAGATTGGCAAACAAGTGGGCATT
15311177 TTCTGATTATCTTGAAAGAAAGATTGGCAAACAAGTGGGCATT
1 TTCTGATTATCTTGAAAGAAAGATTGGCAAACAAGTGGGCATT
15311220 CCTGCTTAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (43 bp):
TTCTGATTATCTTGAAAGAAAGATTGGCAAACAAGTGGGCATT
Found at i:15314269 original size:18 final size:18
Alignment explanation
Indices: 15314229--15314310 Score: 130
Period size: 18 Copynumber: 4.6 Consensus size: 18
15314219 AATCATATCT
15314229 TCTAAGATTGTATATCATA
1 TCTAAGATTGTA-ATCATA
*
15314248 TCTAAGATTGTAATCGTA
1 TCTAAGATTGTAATCATA
15314266 TCTAAGATTGT-ATCATA
1 TCTAAGATTGTAATCATA
*
15314283 TCTAAGATTGCAATCATA
1 TCTAAGATTGTAATCATA
15314301 TCTAAGATTG
1 TCTAAGATTG
15314311 GGCCTCTATT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.25
18 32 0.54
19 12 0.20
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGTAATCATA
Found at i:15314287 original size:35 final size:36
Alignment explanation
Indices: 15314229--15314310 Score: 130
Period size: 35 Copynumber: 2.3 Consensus size: 36
15314219 AATCATATCT
* *
15314229 TCTAAGATTGTATATCATATCTAAGATTGTAATCGTA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
15314266 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
15314301 TCTAAGATTG
1 TCTAAGATTG
15314311 GGCCTCTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 33 0.77
37 10 0.23
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.39
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:15314450 original size:196 final size:196
Alignment explanation
Indices: 15314116--15314471 Score: 685
Period size: 196 Copynumber: 1.8 Consensus size: 196
15314106 GAAGGGAAAT
15314116 GCCTCTATTTATAGTTGAGCCTCCCCAAATCCAACGGTACAGATCAATTACATCAACGGTTAAGA
1 GCCTCTATTTATAGTTGAGCCTCCCCAAATCCAACGGTACAGATCAATTACATCAACGGTTAAGA
15314181 TTAAAGGATAGCTACAAATTAAATCTCCAAGATTACAAAATCATATCTTCTAAGATTGTATATCA
66 TTAAAGGATAGCTACAAATTAAATCTCCAAGATTACAAAATCATATCTTCTAAGATTGTATATCA
* *
15314246 TATCTAAGATTGTAATCGTATCTAAGATTGTATCATATCTAAGATTGCAATCATATCTAAGATTG
131 TATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCAATCATATCTAAGATTG
15314311 G
196 G
15314312 GCCTCTATTTATAGTTGAGCCTCCCCAAATCCAACGGTACAGATCAATTACATCAACGGTTAAGA
1 GCCTCTATTTATAGTTGAGCCTCCCCAAATCCAACGGTACAGATCAATTACATCAACGGTTAAGA
*
15314377 TTAAAGGATATCTACAAATTAAATCTCCAAGATTACAAAATCATATCTTCTAAGATTGTATATCA
66 TTAAAGGATAGCTACAAATTAAATCTCCAAGATTACAAAATCATATCTTCTAAGATTGTATATCA
15314442 TATCTAAGATTGCAATCATATCTAAGATTG
131 TATCTAAGATTGCAATCATATCTAAGATTG
15314472 CATATCATTG
Statistics
Matches: 157, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
196 157 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.32
Consensus pattern (196 bp):
GCCTCTATTTATAGTTGAGCCTCCCCAAATCCAACGGTACAGATCAATTACATCAACGGTTAAGA
TTAAAGGATAGCTACAAATTAAATCTCCAAGATTACAAAATCATATCTTCTAAGATTGTATATCA
TATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCAATCATATCTAAGATTG
G
Found at i:15314461 original size:18 final size:19
Alignment explanation
Indices: 15314425--15314479 Score: 94
Period size: 18 Copynumber: 2.9 Consensus size: 19
15314415 AATCATATCT
*
15314425 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
15314444 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
15314462 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
15314480 TGAAGATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 18 0.53
19 16 0.47
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15322954 original size:5 final size:5
Alignment explanation
Indices: 15322944--15322993 Score: 82
Period size: 5 Copynumber: 9.6 Consensus size: 5
15322934 CTGTGTGTTC
15322944 TTTAT TTTAT TTTATT TTTATT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
15322994 CACAACTACC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 33 0.75
6 11 0.25
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:15323136 original size:5 final size:5
Alignment explanation
Indices: 15323126--15323163 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
15323116 CTGTGTGTTC
15323126 TTTAT TTTAT TTT-T TATTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTT
15323164 CACAACTACC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 2 0.06
5 27 0.87
6 2 0.06
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:15325957 original size:30 final size:30
Alignment explanation
Indices: 15325921--15325983 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
15325911 ACTTAACAAT
15325921 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
15325951 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
15325981 CAA
1 CAA
15325984 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:15345367 original size:11 final size:11
Alignment explanation
Indices: 15345353--15345398 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
15345343 GTCCTCTTAC
15345353 AATTCTCTCTA
1 AATTCTCTCTA
* *
15345364 AATTTTCTCCA
1 AATTCTCTCTA
15345375 AATTCTCTC-A
1 AATTCTCTCTA
*
15345385 AATT-TCTCTC
1 AATTCTCTCTA
15345395 AATT
1 AATT
15345399 TTTGTCAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 4 0.13
10 9 0.30
11 17 0.57
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTCTCTCTA
Found at i:15345390 original size:20 final size:22
Alignment explanation
Indices: 15345353--15345394 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
15345343 GTCCTCTTAC
15345353 AATTCTCTCTAAATTTTCTCCA
1 AATTCTCTCTAAATTTTCTCCA
15345375 AATTCTCTC-AAATTTCTCTC
1 AATTCTCTCTAAATTT-TCTC
15345395 AATTTTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTCTCTCTAAATTTTCTCCA
Found at i:15345398 original size:20 final size:21
Alignment explanation
Indices: 15345352--15345398 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
15345342 AGTCCTCTTA
15345352 CAATTCTCTCTAAATTTTCTC
1 CAATTCTCTCTAAATTTTCTC
15345373 CAAATTCTCTC-AAA-TTTCTC
1 C-AATTCTCTCTAAATTTTCTC
15345393 TCAATT
1 -CAATT
15345399 TTTGTCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 10 0.42
21 5 0.21
22 9 0.38
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (21 bp):
CAATTCTCTCTAAATTTTCTC
Found at i:15346595 original size:7 final size:7
Alignment explanation
Indices: 15346580--15346618 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
15346570 AATCGTTTCA
15346580 TATTTAG
1 TATTTAG
*
15346587 TAGTTAG
1 TATTTAG
15346594 TATTTAG
1 TATTTAG
*
15346601 TATTTAT
1 TATTTAG
15346608 TATTTAG
1 TATTTAG
15346615 TATT
1 TATT
15346619 ACGTATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:15347232 original size:18 final size:18
Alignment explanation
Indices: 15347209--15347249 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
15347199 TCAGGTGCGC
*
15347209 ATCCTAGCCCTTATATGT
1 ATCCTAACCCTTATATGT
*
15347227 ATCCTAACCCTTTTATGT
1 ATCCTAACCCTTATATGT
*
15347245 TTCCT
1 ATCCT
15347250 TTTCCCAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.29, G:0.07, T:0.44
Consensus pattern (18 bp):
ATCCTAACCCTTATATGT
Found at i:15347531 original size:21 final size:21
Alignment explanation
Indices: 15347505--15347551 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
15347495 AGATCCCCTG
* *
15347505 CCGGAGGAATCACAATCCCCA
1 CCGGAGCAACCACAATCCCCA
* *
15347526 CCGGAGCAACCACAATCGCCG
1 CCGGAGCAACCACAATCCCCA
15347547 CCGGA
1 CCGGA
15347552 AGCTGAACCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.06
Consensus pattern (21 bp):
CCGGAGCAACCACAATCCCCA
Found at i:15347897 original size:130 final size:130
Alignment explanation
Indices: 15347655--15348028 Score: 612
Period size: 129 Copynumber: 2.9 Consensus size: 130
15347645 TTGTAGAAAC
15347655 TTTTTTATATAGTTTC-ATATAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAC--
1 TTTTTTATATAGTTTCAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
* **
15347717 TTTTTAATTTTATTAAAACAAATGTTCTTTTAAATTAGGTAATATTTTTTTATCATTTTTATATT
65 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATA--TTTTTATCATTTTTATATT
15347782 TAA
128 TAA
15347785 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
*
15347850 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTTAA
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATCATTTTTATATTTAA
* * *
15347915 -TTTTTATATATTTTTAATTAATAAAATAAAATTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
* *
15347979 TTTTAATTTTAATACAATAAATGTTCTTTTAAATTAGCCAATATTTTTAT
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTAT
15348029 TAAAAAAATG
Statistics
Matches: 232, Mismatches: 9, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
129 109 0.47
130 80 0.34
131 2 0.01
132 41 0.18
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (130 bp):
TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATCATTTTTATATTTAA
Found at i:15347931 original size:17 final size:17
Alignment explanation
Indices: 15347890--15347934 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
15347880 AAATTAGCCA
15347890 ATATTTTT-ATTATTTT
1 ATATTTTTAATTATTTT
*
15347906 -TATATTTAATT-TTTAT
1 ATATTTTTAATTATTT-T
15347922 ATATTTTTAATTA
1 ATATTTTTAATTA
15347935 ATAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
15 9 0.39
16 4 0.17
17 10 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATATTTTTAATTATTTT
Found at i:15355939 original size:17 final size:17
Alignment explanation
Indices: 15355917--15355951 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
15355907 CACGGCCTAG
15355917 GCTCTGTCACACAGCCT
1 GCTCTGTCACACAGCCT
15355934 GCTCTGTCACACAGCCT
1 GCTCTGTCACACAGCCT
15355951 G
1 G
15355952 ACCACATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.40, G:0.20, T:0.23
Consensus pattern (17 bp):
GCTCTGTCACACAGCCT
Found at i:15356401 original size:30 final size:29
Alignment explanation
Indices: 15356367--15356453 Score: 68
Period size: 30 Copynumber: 2.9 Consensus size: 29
15356357 AGAAGTAAAA
*
15356367 CTAAATCGATAGAATATGTAAAGTTGAGGG
1 CTAAAT-GATAGAATATGTAAAGTTGAAGG
* * * * *
15356397 CTAAAGTTATTGAATTTTTTAAAATT-AAGG
1 CTAAA-TGATAGAA-TATGTAAAGTTGAAGG
*
15356427 CTAAATTGATAGAATGTGTAAAGTTGA
1 CTAAA-TGATAGAATATGTAAAGTTGA
15356454 TGATTGAATT
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
29 8 0.19
30 25 0.60
31 9 0.21
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (29 bp):
CTAAATGATAGAATATGTAAAGTTGAAGG
Found at i:15356447 original size:60 final size:60
Alignment explanation
Indices: 15356351--15356501 Score: 176
Period size: 60 Copynumber: 2.5 Consensus size: 60
15356341 TCCTTTTAAG
* * * *
15356351 TTTTTAAGAAGTAAAACTAAATCGATAGAATATGTAAAGTTGAGGGCTAAAGTTATTGAAT
1 TTTTTAA-AATTAAAACTAAATTGATAGAATATGTAAAGTTGAGGACTAAAGTTATTAAAT
** * * * * *
15356412 TTTTTAAAATTAAGGCTAAATTGATAGAATGTGTAAAGTTGATGATTGAATTTATTAAAT
1 TTTTTAAAATTAAAACTAAATTGATAGAATATGTAAAGTTGAGGACTAAAGTTATTAAAT
* *
15356472 TTTTTAGAATTAAAACTAAATTAATAGAAT
1 TTTTTAAAATTAAAACTAAATTGATAGAAT
15356502 TTATAAATAT
Statistics
Matches: 75, Mismatches: 15, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
60 68 0.91
61 7 0.09
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (60 bp):
TTTTTAAAATTAAAACTAAATTGATAGAATATGTAAAGTTGAGGACTAAAGTTATTAAAT
Found at i:15357766 original size:16 final size:16
Alignment explanation
Indices: 15357728--15357759 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15357718 AGCTACTTTT
15357728 AAGTTGAGCTTTACAG
1 AAGTTGAGCTTTACAG
15357744 AAGTTGAGCTTTACAG
1 AAGTTGAGCTTTACAG
15357760 GGTTTGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (16 bp):
AAGTTGAGCTTTACAG
Found at i:15370209 original size:31 final size:31
Alignment explanation
Indices: 15370171--15370319 Score: 244
Period size: 31 Copynumber: 4.8 Consensus size: 31
15370161 ACAAATGACA
15370171 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
15370202 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
15370233 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
15370264 AGTGAAAAATGGTAGCTCCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
15370295 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
15370320 AAGTGACAAG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:15370442 original size:49 final size:48
Alignment explanation
Indices: 15370372--15370498 Score: 167
Period size: 49 Copynumber: 2.8 Consensus size: 48
15370362 GCATCAGTGA
* *
15370372 GATATGTGATTCGTGTAAGACCATAGCTGAGCTATGGCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGAGCTATGACATCGATATAT
*
15370420 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGACATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTGAGCTATGACATCGATATAT
*
15370469 GA-A--T-A-T-GTGTAAGACCATAGCTGGGCTATG
1 GATATGTGATTCGTGTAAGACCATAGCTGAGCTATG
15370499 GCGTCATTAT
Statistics
Matches: 75, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
42 24 0.32
44 1 0.01
45 1 0.01
46 1 0.01
48 12 0.16
49 36 0.48
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGAGCTATGACATCGATATAT
Found at i:15370479 original size:42 final size:42
Alignment explanation
Indices: 15370433--15370530 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
15370423 ATGTGATTAC
*
15370433 GTGTAAGACCATAGCTGGGCTATGACATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGACATC-ATTATATGAAGAT
* * *
15370475 GTGTAAGACCATAGCTGGGCTATGGCGTCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGACATCATTATATGAAGAT
*
15370517 GTGTAAAACCATAG
1 GTGTAAGACCATAG
15370531 TTGAACTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 49 0.98
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGACATCATTATATGAAGAT
Found at i:15380219 original size:19 final size:19
Alignment explanation
Indices: 15380195--15380238 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
15380185 TAATATATAT
*
15380195 TAATATTTTTTTATCAAAA
1 TAATATTTATTTATCAAAA
*
15380214 TAATATTTATTTATTAAAA
1 TAATATTTATTTATCAAAA
*
15380233 TGATAT
1 TAATAT
15380239 GTTTACTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATATTTATTTATCAAAA
Found at i:15380983 original size:23 final size:23
Alignment explanation
Indices: 15380947--15381004 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
15380937 TTTTTATTAG
** * *
15380947 TGAAAATTAATTGTTTACTTACT
1 TGAAAATTGTTTGTTTAATTAAT
* *
15380970 TGTAATTTGTTTGTTTAATTAAT
1 TGAAAATTGTTTGTTTAATTAAT
15380993 TGAAAATTGTTT
1 TGAAAATTGTTT
15381005 ATTTTATAAG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.53
Consensus pattern (23 bp):
TGAAAATTGTTTGTTTAATTAAT
Found at i:15392999 original size:19 final size:19
Alignment explanation
Indices: 15392975--15393021 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
15392965 TTTTTATAAA
*
15392975 TATTTTGAAGTTTAAAAAT
1 TATTTTGAAATTTAAAAAT
* *
15392994 TATTTTAAAATTTTAAAAT
1 TATTTTGAAATTTAAAAAT
15393013 TCATTTTGA
1 T-ATTTTGA
15393022 TTTATTTTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.51
Consensus pattern (19 bp):
TATTTTGAAATTTAAAAAT
Found at i:15406496 original size:16 final size:16
Alignment explanation
Indices: 15406477--15406507 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15406467 CTTCTTCACT
15406477 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
15406493 TACTTACTTACTTAA
1 TACTCACTTACTTAA
15406508 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:15406513 original size:20 final size:20
Alignment explanation
Indices: 15406474--15406513 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15406464 AAACTTCTTC
* *
15406474 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
15406494 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
15406514 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:15406894 original size:55 final size:53
Alignment explanation
Indices: 15406704--15406958 Score: 227
Period size: 55 Copynumber: 4.8 Consensus size: 53
15406694 ACACGAGTAC
* * * * *
15406704 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
15406753 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
15406806 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* *** *
15406861 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCATTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * * *
15406914 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
15406959 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 23, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 10 0.06
55 70 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:15406895 original size:108 final size:110
Alignment explanation
Indices: 15406751--15406948 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
15406741 ATCCTTTTGA
* * *
15406751 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCATTA-GAAACCTCACCAA
15406814 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
15406859 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCATTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCATTAGAAACCTCACCAAT
15406924 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
15406949 CGGTATCCTT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCATTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:15414071 original size:16 final size:16
Alignment explanation
Indices: 15414052--15414082 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15414042 CTTCTTCACT
15414052 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
15414068 TACTTACTTACTTAA
1 TACTCACTTACTTAA
15414083 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:15414088 original size:20 final size:20
Alignment explanation
Indices: 15414049--15414088 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15414039 AAACTTCTTC
* *
15414049 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
15414069 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
15414089 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:15414353 original size:49 final size:50
Alignment explanation
Indices: 15414279--15414498 Score: 176
Period size: 49 Copynumber: 4.2 Consensus size: 50
15414269 ACACGGGTAC
* * * *
15414279 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT-TTGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTCTTGAAA
*
15414328 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTT-ATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT--CTTGA--AA
* * * * *
15414381 CTCACCAATGCCATG-CTTTGGCATGGTCTTACATGGGACATTTGCCTTATTGTAA
1 CTTACCAATGCCATGTC-TTGACATGGTCTTACAT-GG---TAT-CCTTCTTGAAA
* * *
15414436 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT--CTT-GAAA
15414489 CCTTACCAAT
1 -CTTACCAAT
15414499 TGACAAGCAT
Statistics
Matches: 138, Mismatches: 16, Indels: 29
0.75 0.09 0.16
Matches are distributed among these distances:
49 40 0.29
50 4 0.03
51 4 0.03
52 5 0.04
53 34 0.25
54 11 0.08
55 31 0.22
56 3 0.02
57 2 0.01
58 4 0.03
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (50 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTCTTGAAA
Found at i:15414408 original size:53 final size:54
Alignment explanation
Indices: 15414279--15414498 Score: 224
Period size: 53 Copynumber: 4.2 Consensus size: 54
15414269 ACACGGGTAC
* * * *
15414279 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
15414328 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * * *
15414381 CTCACCAATGCCATG-CTTTGGCATGGTCTTACATGGGA-CATTTGCCTTATTGTAA
1 CTTACCAATGCCATGTC-TTGACATGGTCTTACATGGTATC-CTTGCCTTA-TGAAA
* * *
15414436 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
15414489 CCTTACCAAT
1 -CTTACCAAT
15414499 TGACAAGCAT
Statistics
Matches: 142, Mismatches: 17, Indels: 19
0.80 0.10 0.11
Matches are distributed among these distances:
49 38 0.27
50 1 0.01
52 2 0.01
53 47 0.33
54 12 0.08
55 40 0.28
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:15414748 original size:55 final size:53
Alignment explanation
Indices: 15414621--15414752 Score: 149
Period size: 53 Copynumber: 2.5 Consensus size: 53
15414611 TTACCATTGT
* * * *
15414621 CATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGATCTCACCAATGC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGACTTATGAACTCACCAATGC
* * * *
15414674 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGACTTATAGTAACTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGGATCC-TTGACTTAT-G-AACTCACCAATGC
*
15414729 CATGTCTTAACATGGTCTTACATG
1 CATGTCTTGACATGGTCTTACATG
15414753 ATTTCCTTGC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.03
53 31 0.48
54 1 0.02
55 31 0.48
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGGATCCTTGACTTATGAACTCACCAATGC
Found at i:15415303 original size:186 final size:186
Alignment explanation
Indices: 15414982--15415353 Score: 717
Period size: 186 Copynumber: 2.0 Consensus size: 186
15414972 ACATATTTGC
15414982 ACTTTTGCCCCAAGGCTCGTAAATTAAAATTCATCCTATTTTCTTATGTTTTATGACATGCTGAT
1 ACTTTTGCCCCAAGGCTCGTAAATTAAAATTCATCCTATTTTCTTATGTTTTATGACATGCTGAT
*
15415047 CATTTTTCCTTTCTATGACAACATCAAATTCACACTCTAACATGTACTTACGACTATTAGGTATT
66 CATTTTTCCCTTCTATGACAACATCAAATTCACACTCTAACATGTACTTACGACTATTAGGTATT
15415112 TTTACCGATTAAGCCCTTTTACTCGTTTTCACTTAAAACCGAGTAGCACAAGTTGT
131 TTTACCGATTAAGCCCTTTTACTCGTTTTCACTTAAAACCGAGTAGCACAAGTTGT
* *
15415168 ACTTTTTCCCCAAGGCTCGTAAATTAAAATTCATCCTATTTTCTTATGTTTTATGACATTCTGAT
1 ACTTTTGCCCCAAGGCTCGTAAATTAAAATTCATCCTATTTTCTTATGTTTTATGACATGCTGAT
15415233 CATTTTTCCCTTCTATGACAACATCAAATTCACACTCTAACATGTACTTACGACTATTAGGTATT
66 CATTTTTCCCTTCTATGACAACATCAAATTCACACTCTAACATGTACTTACGACTATTAGGTATT
15415298 TTTACCGATTAAGCCCTTTTACTCGTTTTCACTTAAAACCGAGTAGCACAAGTTGT
131 TTTACCGATTAAGCCCTTTTACTCGTTTTCACTTAAAACCGAGTAGCACAAGTTGT
15415354 CTAACATAAT
Statistics
Matches: 183, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
186 183 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (186 bp):
ACTTTTGCCCCAAGGCTCGTAAATTAAAATTCATCCTATTTTCTTATGTTTTATGACATGCTGAT
CATTTTTCCCTTCTATGACAACATCAAATTCACACTCTAACATGTACTTACGACTATTAGGTATT
TTTACCGATTAAGCCCTTTTACTCGTTTTCACTTAAAACCGAGTAGCACAAGTTGT
Found at i:15415506 original size:58 final size:58
Alignment explanation
Indices: 15415416--15415533 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
15415406 TTTCACCTAT
15415416 GTATATTTTTCCAAATATGAACCCTAGGTTGAATTATTGCTAGAATAAGCTTATTCAA
1 GTATATTTTTCCAAATATGAACCCTAGGTTGAATTATTGCTAGAATAAGCTTATTCAA
*
15415474 GTATATTTTTCCAAATTTGAACCCTAGGTTGAATTATTGCTAGAATAAGCTTATTCAA
1 GTATATTTTTCCAAATATGAACCCTAGGTTGAATTATTGCTAGAATAAGCTTATTCAA
15415532 GT
1 GT
15415534 TATCGGGACT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (58 bp):
GTATATTTTTCCAAATATGAACCCTAGGTTGAATTATTGCTAGAATAAGCTTATTCAA
Found at i:15421614 original size:23 final size:25
Alignment explanation
Indices: 15421587--15421641 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
15421577 AATATTTACG
*
15421587 AAGTTAAGTG-AGTG-ATTAATTTA
1 AAGTTAAGTGAAGTGAATTAACTTA
15421610 AAGTTTAA-TGAAGTGAATTAACTTA
1 AAG-TTAAGTGAAGTGAATTAACTTA
15421635 AA-TTAAG
1 AAGTTAAG
15421642 GATAATTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
23 9 0.33
24 8 0.30
25 10 0.37
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (25 bp):
AAGTTAAGTGAAGTGAATTAACTTA
Found at i:15422084 original size:17 final size:19
Alignment explanation
Indices: 15422064--15422101 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15422054 CAGGGGAAGG
15422064 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
15422081 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
15422100 AA
1 AA
15422102 TTAAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Done.