Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 283 of 373
Found at i:96117462 original size:43 final size:43
Alignment explanation
Indices: 96117401--96117503 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
96117391 TGCATTTCAA
96117401 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
96117444 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
96117487 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
96117504 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:96119593 original size:47 final size:47
Alignment explanation
Indices: 96119515--96119753 Score: 361
Period size: 47 Copynumber: 5.1 Consensus size: 47
96119505 CCCTTCGGGA
* * * * * * *
96119515 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
96119562 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96119609 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
96119656 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
96119703 CTTATCACACATATACACATTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96119750 CTTA
1 CTTA
96119754 CTATCATTTC
Statistics
Matches: 175, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 175 1.00
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:96120036 original size:14 final size:14
Alignment explanation
Indices: 96120017--96120046 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
96120007 GGCCTTATTA
96120017 CATATATACACTTT
1 CATATATACACTTT
96120031 CATATATACACTTT
1 CATATATACACTTT
96120045 CA
1 CA
96120047 CATTCATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (14 bp):
CATATATACACTTT
Found at i:96120350 original size:47 final size:47
Alignment explanation
Indices: 96119869--96120351 Score: 669
Period size: 47 Copynumber: 10.1 Consensus size: 47
96119859 CCCTTCGGGA
* * * ** * * *
96119869 CTTATCACATTTATGCACTTTCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
96119916 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
96119963 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * **
96120010 CTTATTACATATATACACTTTCATATATACACTTTCACATTCATCACATTAGGC
1 CTTATCACATATATACACTTTCACAT-T-CA---TCACA-TCGGC-CATTAGGC
*
96120064 CTTATCACAAATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
96120111 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
96120158 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
96120205 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
96120252 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
96120301 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96120348 CTTA
1 CTTA
96120352 CTATCATTTC
Statistics
Matches: 393, Mismatches: 34, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
47 295 0.75
48 4 0.01
49 52 0.13
52 7 0.02
53 4 0.01
54 31 0.08
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:96139774 original size:24 final size:25
Alignment explanation
Indices: 96139746--96139793 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
96139736 TGATTAAATT
96139746 TTAATTAAATAAATATT-AATTAAG
1 TTAATTAAATAAATATTAAATTAAG
* *
96139770 TTAATTAAATTATTATTAAATTAA
1 TTAATTAAATAAATATTAAATTAA
96139794 TCAATGTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TTAATTAAATAAATATTAAATTAAG
Found at i:96139778 original size:20 final size:19
Alignment explanation
Indices: 96139746--96139794 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
96139736 TGATTAAATT
*
96139746 TTAATTAAATAAA-TATTAA
1 TTAATTAATTAAATTATT-A
96139765 TTAAGTTAATTAAATTATTA
1 TTAA-TTAATTAAATTATTA
96139785 TTAAATTAAT
1 TT-AATTAAT
96139795 CAATGTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.15
20 16 0.62
21 6 0.23
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
TTAATTAATTAAATTATTA
Found at i:96143348 original size:31 final size:31
Alignment explanation
Indices: 96143305--96143376 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
96143295 TTAATTTAAA
* * * *
96143305 GGGATGAGGGTTGTTGTCA-TGGAGCACTTAG
1 GGGAGGAGGGTTGGTGTCAGTCGA-CACCTAG
*
96143336 GGGTGGAGGGTTGGTGTCAGTCGACACCTAG
1 GGGAGGAGGGTTGGTGTCAGTCGACACCTAG
96143367 GGGAGGAGGG
1 GGGAGGAGGG
96143377 CTGGGGAGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.18, C:0.11, G:0.49, T:0.22
Consensus pattern (31 bp):
GGGAGGAGGGTTGGTGTCAGTCGACACCTAG
Found at i:96148955 original size:22 final size:22
Alignment explanation
Indices: 96148930--96148992 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
96148920 GTGGGAATGT
96148930 CACACAGGCGTGTTGCCCCTCC
1 CACACAGGCGTGTTGCCCCTCC
* *
96148952 CACACGGGCGTTTTGCCCCTCC
1 CACACAGGCGTGTTGCCCCTCC
*
96148974 CACATAGGCGTG-TGCCCCT
1 CACACAGGCGTGTTGCCCCT
96148993 ATGTTAAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 7 0.19
22 29 0.81
ACGTcount: A:0.13, C:0.43, G:0.24, T:0.21
Consensus pattern (22 bp):
CACACAGGCGTGTTGCCCCTCC
Found at i:96157729 original size:42 final size:43
Alignment explanation
Indices: 96157683--96157775 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
96157673 CAGTTGATAA
96157683 ATGATCAATTTG-AAATGAGATGTAGATACTAGCAAGTAAACT
1 ATGATCAATTTGAAAATGAGATGTAGATACTAGCAAGTAAACT
* * * *
96157725 ATGATCAATTTGAAAATGAGTTGTTGATACTAGCTAGTTAACT
1 ATGATCAATTTGAAAATGAGATGTAGATACTAGCAAGTAAACT
*
96157768 ATAATCAA
1 ATGATCAA
96157776 ATGAATTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 12 0.27
43 33 0.73
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (43 bp):
ATGATCAATTTGAAAATGAGATGTAGATACTAGCAAGTAAACT
Found at i:96163550 original size:18 final size:18
Alignment explanation
Indices: 96163524--96163594 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
96163514 AATTGATCGG
*
96163524 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
96163542 TTATTCAGTAAAAATCAA
1 TTATTCAGTAACAGTCAA
* * *
96163560 ATATACAGTAAC-GATTATA
1 TTATTCAGTAACAG-TCA-A
96163579 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
96163595 GATCTTTCCA
Statistics
Matches: 39, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
18 26 0.67
19 12 0.31
20 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:96163778 original size:47 final size:47
Alignment explanation
Indices: 96163719--96163821 Score: 170
Period size: 47 Copynumber: 2.2 Consensus size: 47
96163709 CAGTAACAGT
* * *
96163719 AACAATAACAGTACAGTACACGGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTACAGTACACAGAGTACCTCATCGGAACAAATCCGA
*
96163766 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
1 AACAGTAACAGTACAGTACACAGAGTACCTCATCGGAACAAATCCGA
96163813 AACAGTAAC
1 AACAGTAAC
96163822 TGTAACGGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.42, C:0.25, G:0.18, T:0.15
Consensus pattern (47 bp):
AACAGTAACAGTACAGTACACAGAGTACCTCATCGGAACAAATCCGA
Found at i:96164062 original size:19 final size:20
Alignment explanation
Indices: 96164015--96164062 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
96164005 CACTTTCTAG
*
96164015 TTTTCAATTAATTCATATTT
1 TTTTCAATTAACTCATATTT
*
96164035 TAATT-AATTAACT-ATATTT
1 T-TTTCAATTAACTCATATTT
96164054 TTTTCAATT
1 TTTTCAATT
96164063 CAATATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 2 0.09
19 11 0.48
20 8 0.35
21 2 0.09
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTCAATTAACTCATATTT
Found at i:96167942 original size:43 final size:42
Alignment explanation
Indices: 96167894--96168018 Score: 121
Period size: 42 Copynumber: 2.9 Consensus size: 42
96167884 CCAGACGTGG
* *
96167894 TCTTACATGTAATCAAATATCGATGT-AACTGTCCCAGACAATT
1 TCTTACACGAAATCAAATA-CGATGTCAA-TGTCCCAGACAATT
* *
96167937 TCTTACACGAAATCAAATACGATGTCGATGTCCCAGAC-ATGG
1 TCTTACACGAAATCAAATACGATGTCAATGTCCCAGACAAT-T
* *
96167979 TCTTACACATAAATCATAAGT-CGATGCCAATGTCCCAGAC
1 TCTTACAC-GAAATCA-AA-TACGATGTCAATGTCCCAGAC
96168019 GTGGTCTTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
41 2 0.03
42 24 0.34
43 24 0.34
44 19 0.27
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (42 bp):
TCTTACACGAAATCAAATACGATGTCAATGTCCCAGACAATT
Found at i:96167973 original size:42 final size:42
Alignment explanation
Indices: 96167881--96168034 Score: 161
Period size: 43 Copynumber: 3.6 Consensus size: 42
96167871 CAATGCCAAC
* * *
96167881 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGT-AACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATA-CGATGTCAA-T
* *
96167924 GTCCCAGACAAT-TTCTTACACGAAATCAAATACGATGTCGAT
1 GTCCCAGAC-ATGGTCTTACACGAAATCAAATACGATGTCAAT
* *
96167966 GTCCCAGACATGGTCTTACACATAAATCATAAGT-CGATGCCAAT
1 GTCCCAGACATGGTCTTACAC-GAAATCA-AA-TACGATGTCAAT
*
96168010 GTCCCAGACGTGGTCTTACACGAAA
1 GTCCCAGACATGGTCTTACACGAAA
96168035 ACACATATCG
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
41 2 0.02
42 24 0.26
43 36 0.38
44 31 0.33
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATACGATGTCAAT
Found at i:96168017 original size:44 final size:41
Alignment explanation
Indices: 96167873--96168030 Score: 133
Period size: 44 Copynumber: 3.7 Consensus size: 41
96167863 AGATAGCACA
* * *
96167873 ATGCCAACGTCCCAGACGTGGTCTTACA-TGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACT-AAATC-AA-ATCG
* * *
96167916 ATG-TAACTGTCCCAGACAAT-TTCTTACACGAAATCAAATACG
1 ATGCCAA-TGTCCCAGAC-ATGGTCTTACACTAAATCAAAT-CG
* *
96167958 ATGTCGATGTCCCAGACATGGTCTTACACATAAATCATAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-TAAATCA-AA-TCG
*
96168002 ATGCCAATGTCCCAGACGTGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
96168031 GAAAACACAT
Statistics
Matches: 93, Mismatches: 13, Indels: 17
0.76 0.11 0.14
Matches are distributed among these distances:
41 4 0.04
42 27 0.29
43 30 0.32
44 31 0.33
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACACTAAATCAAATCG
Found at i:96168907 original size:31 final size:32
Alignment explanation
Indices: 96168872--96168936 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
96168862 TGATAATTGC
96168872 CTAATTTCATACATT-TTTTATTTAATTATAA
1 CTAATTTCATACATTGTTTTATTTAATTATAA
* *
96168903 CTAATTTCATACTTTGTTTTATTTAATTTTAA
1 CTAATTTCATACATTGTTTTATTTAATTATAA
96168935 CT
1 CT
96168937 TATTAATCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.57
Consensus pattern (32 bp):
CTAATTTCATACATTGTTTTATTTAATTATAA
Found at i:96168982 original size:26 final size:25
Alignment explanation
Indices: 96168931--96168982 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
96168921 TTATTTAATT
*
96168931 TTAACTTATTAATCCAATTACCAAA
1 TTAACTTATTAATCCAATTACAAAA
*
96168956 TTAACCTTATTTAATCC-ATTATAAAA
1 TTAA-CTTA-TTAATCCAATTACAAAA
96168982 T
1 T
96168983 CACATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.17
26 12 0.52
27 7 0.30
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (25 bp):
TTAACTTATTAATCCAATTACAAAA
Found at i:96170012 original size:34 final size:34
Alignment explanation
Indices: 96169964--96170095 Score: 167
Period size: 34 Copynumber: 3.9 Consensus size: 34
96169954 GCGAATACAT
* * *
96169964 TCTGGGCCTAAGCCCATATCAATAACAGTAGCAG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
* *
96169998 TCTGGGCCTTAGCCCATTTCAGTAATAGTAACAG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
* *
96170032 TCTGGGCTTTAGCCCATTTCAGTAACAGAAGCAG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
* *
96170066 TCT-GGCCTTTATCCCATTTCAGTAATAGTA
1 TCTGGGCC-TTAGCCCATTTCAGTAACAGTA
96170096 ATTAGTGCAG
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
33 3 0.04
34 81 0.96
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (34 bp):
TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
Found at i:96170082 original size:68 final size:68
Alignment explanation
Indices: 96169964--96170096 Score: 196
Period size: 68 Copynumber: 2.0 Consensus size: 68
96169954 GCGAATACAT
*
96169964 TCTGGGCCTAAGCCCATATCAATAACAGTAGCAGTCTGGGCCTTAGCCCATTTCAGTAATAGTAA
1 TCTGGGCCTAAGCCCATATCAATAACAGAAGCAGTCTGGGCCTTAGCCCATTTCAGTAATAGTAA
96170029 CAG
66 CAG
* * * * *
96170032 TCTGGGCTTTAGCCCATTTCAGTAACAGAAGCAGTCT-GGCCTTTATCCCATTTCAGTAATAGTA
1 TCTGGGCCTAAGCCCATATCAATAACAGAAGCAGTCTGGGCC-TTAGCCCATTTCAGTAATAGTA
96170096 A
65 A
96170097 TTAGTGCAGT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 4 0.07
68 54 0.93
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (68 bp):
TCTGGGCCTAAGCCCATATCAATAACAGAAGCAGTCTGGGCCTTAGCCCATTTCAGTAATAGTAA
CAG
Found at i:96170140 original size:18 final size:18
Alignment explanation
Indices: 96170094--96170143 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
96170084 TCAGTAATAG
*
96170094 TAATTAGTGCAGTAACCA
1 TAATTAGTGCAGTAACAA
* * *
96170112 TCATCAATGCAGTAACAA
1 TAATTAGTGCAGTAACAA
96170130 TAATTAGTGCAGTA
1 TAATTAGTGCAGTA
96170144 TGCAAGCAGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (18 bp):
TAATTAGTGCAGTAACAA
Found at i:96170271 original size:26 final size:26
Alignment explanation
Indices: 96170242--96170307 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
96170232 GCCAGACACA
*
96170242 CCAATATCAGTATCACAGCAAAGCTG
1 CCAATATCAGTATCACAGCAAACCTG
* *
96170268 CCAATAGCAGTATCGCAGCAAACCTG
1 CCAATATCAGTATCACAGCAAACCTG
96170294 CCAATAATCAGTAT
1 CCAAT-ATCAGTAT
96170308 AATGGCTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
26 28 0.80
27 7 0.20
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.20
Consensus pattern (26 bp):
CCAATATCAGTATCACAGCAAACCTG
Found at i:96170499 original size:27 final size:25
Alignment explanation
Indices: 96170453--96170569 Score: 99
Period size: 27 Copynumber: 4.4 Consensus size: 25
96170443 GAACAAATCT
* *
96170453 GTCATTTTACCTTACCGGGGTATTATA
1 GTCATTTTACCCTA-TGGGGTATT-TA
* *
96170480 GTCATTTTACCCTACAGGGGTATTTCG
1 GTCATTTTACCCTA-TGGGGTATTT-A
* *
96170507 GTCATTCTACCTTATGGGCGTATTTA
1 GTCATTTTACCCTATGGG-GTATTTA
*
96170533 GGTTATTTTACCCTATGAGGGTATTTTA
1 -GTCATTTTACCCTATG-GGGTA-TTTA
96170561 GTCATTTTA
1 GTCATTTTA
96170570 TCACATAAGG
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
26 4 0.05
27 64 0.86
28 6 0.08
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.43
Consensus pattern (25 bp):
GTCATTTTACCCTATGGGGTATTTA
Found at i:96170565 original size:54 final size:54
Alignment explanation
Indices: 96170453--96170566 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 54
96170443 GAACAAATCT
* *
96170453 GTCATTTTACCTTACCGGGGTATTATAGTCATTTTACCCTACAGGGGTATTTCG
1 GTCATTCTACCTTACCGGGGTATTATAGTCATTTTACCCTACAGGGGTATTTCA
* * * *
96170507 GTCATTCTACCTTA-TGGGCGTATT-TAGGTTATTTTACCCTA-TGAGGGTATTTTA
1 GTCATTCTACCTTACCGGG-GTATTATA-GTCATTTTACCCTACAG-GGGTATTTCA
96170561 GTCATT
1 GTCATT
96170567 TTATCACATA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
53 6 0.12
54 45 0.88
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (54 bp):
GTCATTCTACCTTACCGGGGTATTATAGTCATTTTACCCTACAGGGGTATTTCA
Found at i:96170580 original size:27 final size:26
Alignment explanation
Indices: 96170561--96170796 Score: 328
Period size: 27 Copynumber: 8.8 Consensus size: 26
96170551 GGGTATTTTA
96170561 GTCATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGGC-AAATT
*
96170588 GTCATTTTATCACATGAGGGCAAAATT
1 GTCATTTTATCACATAAGGGC-AAATT
* **
96170615 GTCATTTCATCACATAAAGGTAAAATT
1 GTCATTTTATCACAT-AAGGGCAAATT
*
96170642 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGC-AAATT
*
96170669 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGC-AAATT
*
96170696 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGC-AAATT
96170723 GTCATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGGC-AAATT
*
96170750 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGC-AAATT
96170777 GTCATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGG
96170797 TTCAAGTACG
Statistics
Matches: 196, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
26 4 0.02
27 189 0.96
28 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (26 bp):
GTCATTTTATCACATAAGGGCAAATT
Found at i:96170595 original size:54 final size:54
Alignment explanation
Indices: 96170561--96170796 Score: 418
Period size: 54 Copynumber: 4.4 Consensus size: 54
96170551 GGGTATTTTA
* *
96170561 GTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATGAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATAAGGGCAAAATC
* * *
96170615 GTCATTTCATCACATAAAGGTAAAATTGTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATAAGGGCAAAATC
*
96170669 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATAAGGGCAAAATC
96170723 GTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATAAGGGCAAAATC
96170777 GTCATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGG
96170797 TTCAAGTACG
Statistics
Matches: 172, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 172 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (54 bp):
GTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATAAGGGCAAAATC
Found at i:96170794 original size:81 final size:81
Alignment explanation
Indices: 96170561--96170796 Score: 409
Period size: 81 Copynumber: 2.9 Consensus size: 81
96170551 GGGTATTTTA
* * *
96170561 GTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATGAGGGCAAAATTGTCATTTCATC
1 GTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
* * *
96170626 ACATAAAGGTAAAATT
66 ACATAAGGGCAAAATC
*
96170642 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
1 GTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
96170707 ACATAAGGGCAAAATC
66 ACATAAGGGCAAAATC
96170723 GTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
1 GTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
96170788 ACATAAGGG
66 ACATAAGGG
96170797 TTCAAGTACG
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 147 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (81 bp):
GTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
ACATAAGGGCAAAATC
Found at i:96179120 original size:43 final size:42
Alignment explanation
Indices: 96179072--96179270 Score: 154
Period size: 43 Copynumber: 4.7 Consensus size: 42
96179062 ATATGATTTC
* *
96179072 GTGTAAGACCATGTCTGGGACGTTGGCATTGACTTGAGATATT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGAATTGA-ATATT
** * **
96179115 GTGTAAGATTATGTCTAGGACACTGGCATCG-ATT-AATGATTAT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGAATTGAAT-A-T-T
* ** * * *
96179158 GTGTAAGACCATGTCTGGGACATCAGCATCGTATTTAATTTT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGAATTGAATATT
* * * *
96179200 GTGTAAGACCCTGTCTGGAACAG-TGGCATCGAAATTGATTA-C
1 GTGTAAGACCATGTCTGGGAC-GTTGGCATCG-AATTGAATATT
*
96179242 ATGTAAGACCATGTCTGGGACGTTGGCAT
1 GTGTAAGACCATGTCTGGGACGTTGGCAT
96179271 TGTACGAGCT
Statistics
Matches: 121, Mismatches: 27, Indels: 17
0.73 0.16 0.10
Matches are distributed among these distances:
40 2 0.02
41 3 0.02
42 53 0.44
43 57 0.47
44 3 0.02
45 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACGTTGGCATCGAATTGAATATT
Found at i:96179269 original size:42 final size:42
Alignment explanation
Indices: 96179072--96179270 Score: 161
Period size: 42 Copynumber: 4.7 Consensus size: 42
96179062 ATATGATTTC
* * *
96179072 GTGTAAGACCATGTCTGGGACGTTGGCATTG-ACTTGAGATATT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGAAATTGA-TTA-T
** * **
96179115 GTGTAAGATTATGTCTAGGACACTGGCATCGATTAA-TGATTAT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGA--AATTGATTAT
* ** * * * *
96179158 GTGTAAGACCATGTCTGGGACATCAGCATCGTATTTAATTTT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGAAATTGATTAT
* * *
96179200 GTGTAAGACCCTGTCTGGAACAG-TGGCATCGAAATTGATTAC
1 GTGTAAGACCATGTCTGGGAC-GTTGGCATCGAAATTGATTAT
*
96179242 ATGTAAGACCATGTCTGGGACGTTGGCAT
1 GTGTAAGACCATGTCTGGGACGTTGGCAT
96179271 TGTACGAGCT
Statistics
Matches: 119, Mismatches: 31, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
41 2 0.02
42 60 0.50
43 51 0.43
44 2 0.02
45 3 0.03
46 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACGTTGGCATCGAAATTGATTAT
Found at i:96183654 original size:42 final size:43
Alignment explanation
Indices: 96183583--96183674 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 43
96183573 CCAAATATGA
* * * * * *
96183583 TCTTATACGAAAATCTTATTTCAATGCCATGTCCCAGACGTGG
1 TCTTACACGAAAATCTCATATCAACGCCATATCCCAGACATGG
*
96183626 TCTTACACG-AAATCTCATATCAACGCCATATCCCAGATATGG
1 TCTTACACGAAAATCTCATATCAACGCCATATCCCAGACATGG
96183668 TCTTACA
1 TCTTACA
96183675 TGATAACACA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 34 0.81
43 8 0.19
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (43 bp):
TCTTACACGAAAATCTCATATCAACGCCATATCCCAGACATGG
Found at i:96191789 original size:27 final size:27
Alignment explanation
Indices: 96191758--96191935 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
96191748 TAAATTGTAC
96191758 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
96191785 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
96191811 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
96191839 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
96191867 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
96191894 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
96191921 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
96191936 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:96191872 original size:82 final size:81
Alignment explanation
Indices: 96191759--96191914 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
96191749 AAATTGTACA
* *
96191759 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
96191823 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
96191840 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
96191905 TGCGAGTTGA
65 TGCGAATTGA
96191915 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:96191926 original size:82 final size:81
Alignment explanation
Indices: 96191755--96191935 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
96191745 GATTAAATTG
* *
96191755 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
96191820 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
96191836 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
96191900 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
96191918 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
96191936 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:96207236 original size:46 final size:47
Alignment explanation
Indices: 96207153--96207359 Score: 191
Period size: 47 Copynumber: 4.3 Consensus size: 47
96207143 TTGCACATAG
* **
96207153 TCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTATACGG-A
1 TCACATATCAC--ACCGATGCCATAGCCCAGATATGGTCTTATACGGAA
* * * *
96207201 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTA
1 TCACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACGGAA
* * * *
96207248 GCACATATCACACCGATGCCATATCTCGGATATGGTCTTATACGGAA
1 TCACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACGGAA
* * * *
96207295 GCACAAATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAA
1 TCACATATCACA-----CCGATGCCATAGCCCAGATATGGTCTTATACGG-AA
*
96207348 TCACATTTCACA
1 TCACATATCACA
96207360 TGCTACCATG
Statistics
Matches: 131, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
46 28 0.21
47 53 0.40
48 11 0.08
52 28 0.21
53 11 0.08
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (47 bp):
TCACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACGGAA
Found at i:96209704 original size:31 final size:31
Alignment explanation
Indices: 96209668--96209726 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
96209658 CAGGCCAGTA
96209668 ACTTAAAT-AAAAACTT-TCAAATAATTTAGTG
1 ACTTAAATGAAAAA-TTCT-AAATAATTTAGTG
96209699 ACTTAAATGAAAAATTCTAAATAATTTA
1 ACTTAAATGAAAAATTCTAAATAATTTA
96209727 ATGATTGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (31 bp):
ACTTAAATGAAAAATTCTAAATAATTTAGTG
Found at i:96211384 original size:23 final size:24
Alignment explanation
Indices: 96211334--96211385 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 24
96211324 AACTAAAGTT
96211334 TAAATTTAAAAAATAGAAAAACTA
1 TAAATTTAAAAAATAGAAAAACTA
96211358 -AAATCTT-AAAAATA-AAAATA-TA
1 TAAAT-TTAAAAAATAGAAAA-ACTA
96211380 TAAATT
1 TAAATT
96211386 AAATTCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
22 7 0.28
23 16 0.64
24 2 0.08
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
TAAATTTAAAAAATAGAAAAACTA
Found at i:96217289 original size:25 final size:25
Alignment explanation
Indices: 96217260--96217307 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
96217250 GTAAAACAGA
*
96217260 TATAACTGATAAAAAAATTTAAAAT
1 TATAACTGATAAAAAAAATTAAAAT
*
96217285 TATAACTGTTAAAAAAAATTAAA
1 TATAACTGATAAAAAAAATTAAA
96217308 TTTACTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (25 bp):
TATAACTGATAAAAAAAATTAAAAT
Found at i:96221374 original size:17 final size:17
Alignment explanation
Indices: 96221352--96221385 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
96221342 GAATCATGAA
96221352 TAACTATTGCTTGCTTG
1 TAACTATTGCTTGCTTG
96221369 TAACTATTGCTTGCTTG
1 TAACTATTGCTTGCTTG
96221386 ATCAATGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (17 bp):
TAACTATTGCTTGCTTG
Found at i:96221898 original size:16 final size:17
Alignment explanation
Indices: 96221869--96221903 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
96221859 TGAATAAAAA
96221869 AATAAAAAATTATAAAT
1 AATAAAAAATTATAAAT
96221886 AATAAAAAA-TATAAAT
1 AATAAAAAATTATAAAT
96221902 AA
1 AA
96221904 AAGTATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAAAAAATTATAAAT
Found at i:96222502 original size:23 final size:24
Alignment explanation
Indices: 96222476--96222525 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
96222466 TGATTTTTAC
*
96222476 ATTTTA-AATTATTTAATGATAAT
1 ATTTTAGAATTATTTAATAATAAT
* *
96222499 A-TTTAGGATTATTTAGTAATAAT
1 ATTTTAGAATTATTTAATAATAAT
96222522 ATTT
1 ATTT
96222526 AAAAAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 4 0.18
23 16 0.73
24 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTTAGAATTATTTAATAATAAT
Found at i:96222526 original size:23 final size:23
Alignment explanation
Indices: 96222483--96222526 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
96222473 TACATTTTAA
*
96222483 ATTATTTAATGATAATATTTAGG
1 ATTATTTAATAATAATATTTAGG
*
96222506 ATTATTTAGTAATAATATTTA
1 ATTATTTAATAATAATATTTA
96222527 AAAAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
ATTATTTAATAATAATATTTAGG
Found at i:96222546 original size:15 final size:16
Alignment explanation
Indices: 96222526--96222565 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 16
96222516 AATAATATTT
96222526 AAAAAATATTTGTTAA
1 AAAAAATATTTGTTAA
96222542 AAAAAGATTTATTTGTTAA
1 AAAAA-A--TATTTGTTAA
96222561 AAAAA
1 AAAAA
96222566 TGAATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 1 0.05
19 15 0.71
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (16 bp):
AAAAAATATTTGTTAA
Found at i:96222635 original size:7 final size:7
Alignment explanation
Indices: 96222573--96222629 Score: 105
Period size: 7 Copynumber: 8.0 Consensus size: 7
96222563 AAATGAATTT
96222573 AATTAAA
1 AATTAAA
96222580 AATTAAA
1 AATTAAA
96222587 AATTAAA
1 AATTAAA
96222594 AATTAAA
1 AATTAAA
96222601 AATTAAA
1 AATTAAA
96222608 AATTAAA
1 AATTAAA
96222615 AATTAAA
1 AATTAAA
96222622 AATATAAA
1 AAT-TAAA
96222630 TTATAACTGG
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
7 45 0.92
8 4 0.08
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATTAAA
Found at i:96222745 original size:19 final size:19
Alignment explanation
Indices: 96222717--96222769 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
96222707 ATTTCATTTT
96222717 TTTTTA-CTTTTTTATTAAA
1 TTTTTATCTTTTTT-TTAAA
96222736 -TTTTATCTTTTTCTTTAAA
1 TTTTTATCTTTTT-TTTAAA
*
96222755 TTTTTTTCTTTTTTT
1 TTTTTATCTTTTTTT
96222770 AAGTTTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.17
19 13 0.43
20 12 0.40
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTATCTTTTTTTTAAA
Found at i:96222746 original size:18 final size:18
Alignment explanation
Indices: 96222725--96222787 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
96222715 TTTTTTTACT
96222725 TTTTTATTAAATTTTATC
1 TTTTTATTAAATTTTATC
* *
96222743 TTTTTCTTTAAATTTTTTTC
1 TTTTT-ATTAAA-TTTTATC
* * *
96222763 TTTTT-TTAAGTTTTCTT
1 TTTTTATTAAATTTTATC
96222780 TTTTTATT
1 TTTTTATT
96222788 TATTTTATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 10 0.27
18 11 0.30
19 5 0.14
20 11 0.30
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTTTATTAAATTTTATC
Found at i:96222747 original size:20 final size:21
Alignment explanation
Indices: 96222717--96222770 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
96222707 ATTTCATTTT
96222717 TTTTTA-C-TTTTTTATTAAA
1 TTTTTATCTTTTTTTATTAAA
*
96222736 -TTTTATCTTTTTCT-TTAAA
1 TTTTTATCTTTTTTTATTAAA
*
96222755 TTTTTTTCTTTTTTTA
1 TTTTTATCTTTTTTTA
96222771 AGTTTTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.18
19 6 0.21
20 17 0.61
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTATCTTTTTTTATTAAA
Found at i:96222842 original size:21 final size:22
Alignment explanation
Indices: 96222812--96222860 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
96222802 TTGGTTATTA
* * *
96222812 ATTTCAAAATTTTAAAATGTAT
1 ATTTGAAAGTTTTAAAATATAT
*
96222834 ATTTGAAATGTTTTATAATATAT
1 ATTTGAAA-GTTTTAAAATATAT
96222857 ATTT
1 ATTT
96222861 TAAAAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (22 bp):
ATTTGAAAGTTTTAAAATATAT
Found at i:96222970 original size:36 final size:35
Alignment explanation
Indices: 96222870--96223111 Score: 136
Period size: 36 Copynumber: 7.0 Consensus size: 35
96222860 TTAAAAATTT
96222870 AAATAT-TATTTTTAAATTATTTTTTAAATTTTAA
1 AAATATATATTTTTAAATTATTTTTTAAATTTTAA
** *
96222904 GTAT-TATATTTTTAAATTATGTCTTATAAATTTTAA
1 AAATATATATTTTTAAATTAT-T-TTTTAAATTTTAA
96222940 AAATATAT-TTTTTAAATTTATTTTTCTAAATTTT--
1 AAATATATATTTTTAAA-TTATTTTT-TAAATTTTAA
* ** *
96222974 -AA-ATAT-TTTTAAAAAAATATTTTTAAA----CA
1 AAATATATATTTTTAAATTAT-TTTTTAAATTTTAA
* * * *
96223003 AAATAAAATAATTTCAAATATATATATTT-AA-TTTAA
1 AAAT-ATATATTTTTAAAT-TAT-TTTTTAAATTTTAA
* *
96223039 ATATATATATATTTGAAATTATTTCTTATAAATTTTAA
1 AAATATATAT-TTTTAAATTATTT-TT-TAAATTTTAA
* * *
96223077 AAATA-AAATTTTGAAATTATTTTTTTAATTTTAA
1 AAATATATATTTTTAAATTATTTTTTAAATTTTAA
96223111 A
1 A
96223112 TATTAATTTT
Statistics
Matches: 162, Mismatches: 24, Indels: 44
0.70 0.10 0.19
Matches are distributed among these distances:
30 2 0.01
31 6 0.04
32 18 0.11
33 11 0.07
34 34 0.21
35 14 0.09
36 56 0.35
37 12 0.07
38 9 0.06
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (35 bp):
AAATATATATTTTTAAATTATTTTTTAAATTTTAA
Found at i:96222991 original size:14 final size:15
Alignment explanation
Indices: 96222974--96223007 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
96222964 TCTAAATTTT
96222974 AAATATTTTTAAA-A
1 AAATATTTTTAAACA
96222988 AAATATTTTTAAACA
1 AAATATTTTTAAACA
96223003 AAATA
1 AAATA
96223008 AAATAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATATTTTTAAACA
Found at i:96223042 original size:19 final size:20
Alignment explanation
Indices: 96223011--96223048 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
96223001 CAAAATAAAA
96223011 TAATTTCAAATATATATATT
1 TAATTTCAAATATATATATT
96223031 TAATTT-AAATATATATAT
1 TAATTTCAAATATATATAT
96223049 ATTTGAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTTCAAATATATATATT
Found at i:96223046 original size:21 final size:20
Alignment explanation
Indices: 96223011--96223052 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
96223001 CAAAATAAAA
*
96223011 TAATTTCAAATATATATATT
1 TAATTTAAAATATATATATT
96223031 TAATTTAAATATATATATATT
1 TAATTTAAA-ATATATATATT
96223052 T
1 T
96223053 GAAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TAATTTAAAATATATATATT
Found at i:96223117 original size:13 final size:13
Alignment explanation
Indices: 96223101--96223130 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
96223091 AATTATTTTT
96223101 TTAATTTTAAATA
1 TTAATTTTAAATA
96223114 TTAATTTTAAATA
1 TTAATTTTAAATA
96223127 TTAA
1 TTAA
96223131 ATATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAATTTTAAATA
Found at i:96223152 original size:22 final size:21
Alignment explanation
Indices: 96223090--96223153 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 21
96223080 TAAAATTTTG
*
96223090 AAAT-TATTTTTTTAAT-TTT
1 AAATATATTTTTATAATATTT
*
96223109 AAATATTAATTTTA-AATA-TT
1 AAATA-TATTTTTATAATATTT
96223129 AAATATATTTTTAATAATATTT
1 AAATATATTTTT-ATAATATTT
96223151 AAA
1 AAA
96223154 CATTTAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
19 10 0.28
20 11 0.31
21 10 0.28
22 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATATATTTTTATAATATTT
Found at i:96223568 original size:28 final size:28
Alignment explanation
Indices: 96223537--96223608 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
96223527 TTGAAAGTTT
*
96223537 AAAATATTTAAATATTTTATAATATC-AA
1 AAAATATTTAAATATTTAAT-ATATCAAA
*
96223565 AAAATATTT-AATATTTAATATTTCAAA
1 AAAATATTTAAATATTTAATATATCAAA
96223592 AATAATATTTAAA-ATTT
1 AA-AATATTTAAATATTT
96223609 GAAAAAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 4 0.10
27 13 0.33
28 20 0.51
29 2 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (28 bp):
AAAATATTTAAATATTTAATATATCAAA
Found at i:96223599 original size:21 final size:22
Alignment explanation
Indices: 96223573--96223627 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
96223563 AAAAAATATT
* *
96223573 TAATATTTAATATTT-CAAAAA
1 TAATATTTAAAATTTGAAAAAA
96223594 TAATATTTAAAATTTGAAAAAA
1 TAATATTTAAAATTTGAAAAAA
*
96223616 TAAT-TTCAAAAT
1 TAATATTTAAAAT
96223628 ATATATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (22 bp):
TAATATTTAAAATTTGAAAAAA
Found at i:96223624 original size:34 final size:34
Alignment explanation
Indices: 96223584--96223651 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
96223574 AATATTTAAT
96223584 ATTTCAAAA-ATAATATTTAAAATTTGAAAAAATA
1 ATTTCAAAATAT-ATATTTAAAATTTGAAAAAATA
*
96223618 ATTTCAAAATATATATTTAAAATTTTAAAAAATA
1 ATTTCAAAATATATATTTAAAATTTGAAAAAATA
96223652 TATATTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.94
35 2 0.06
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (34 bp):
ATTTCAAAATATATATTTAAAATTTGAAAAAATA
Found at i:96223653 original size:23 final size:23
Alignment explanation
Indices: 96223623--96223691 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 23
96223613 AAATAATTTC
96223623 AAAATATATATTTAAAATTTTAA
1 AAAATATATATTTAAAATTTTAA
*
96223646 AAAATATATATTAATAAAATATTTCA
1 AAAATATATATT--TAAAAT-TTTAA
*
96223672 AATATATAT-TTTAAAATTTT
1 AAAATATATATTTAAAATTTT
96223692 TAAAGTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.07
23 18 0.44
25 8 0.20
26 12 0.29
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (23 bp):
AAAATATATATTTAAAATTTTAA
Found at i:96223679 original size:24 final size:22
Alignment explanation
Indices: 96223612--96223688 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 22
96223602 AAAATTTGAA
96223612 AAAATAATTTCAAAATATATATTT
1 AAAAT-ATTTC-AAATATATATTT
*
96223636 AAAAT-TTTAAAAAATATATATTAAT
1 AAAATATTT--CAAATATATATT--T
96223661 AAAATATTTCAAATATATATTTT
1 AAAATATTTCAAATATATA-TTT
96223684 AAAAT
1 AAAAT
96223689 TTTTAAAGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
22 3 0.07
23 17 0.38
24 14 0.31
25 8 0.18
26 3 0.07
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATATTTCAAATATATATTT
Found at i:96223708 original size:47 final size:49
Alignment explanation
Indices: 96223612--96223710 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 49
96223602 AAAATTTGAA
*
96223612 AAAATAATTTCAAAATATATATTTAAAATTTTAAAAAATATATATTAAT
1 AAAATAATTTCAAAATATATATTTAAAATTTTAAAAAATATATAATAAT
* **
96223661 AAAAT-ATTTC-AAATATATATTTTAAAATTTTTAAAGTTA-ATAATAAT
1 AAAATAATTTCAAAATATATA-TTTAAAATTTTAAAAAATATATAATAAT
96223708 AAA
1 AAA
96223711 TAAGTAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
47 19 0.42
48 21 0.47
49 5 0.11
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (49 bp):
AAAATAATTTCAAAATATATATTTAAAATTTTAAAAAATATATAATAAT
Found at i:96223724 original size:4 final size:4
Alignment explanation
Indices: 96223705--96223743 Score: 60
Period size: 4 Copynumber: 9.5 Consensus size: 4
96223695 AGTTAATAAT
*
96223705 AATA AATA AGTAA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AAT-A AATA AATA AATA AATA AATA AATA AA
96223744 AGTCAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:96229909 original size:21 final size:20
Alignment explanation
Indices: 96229881--96229923 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
96229871 CCTTACTGTG
96229881 AAAAAAATAAAAAATAAAAT
1 AAAAAAATAAAAAATAAAAT
96229901 AAAATAAATAAAAAATAAAAT
1 AAAA-AAATAAAAAATAAAAT
96229922 AA
1 AA
96229924 CACACAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAAAAATAAAAAATAAAAT
Found at i:96229917 original size:16 final size:17
Alignment explanation
Indices: 96229884--96229923 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
96229874 TACTGTGAAA
96229884 AAAATAAAAAATAAAAT
1 AAAATAAAAAATAAAAT
*
96229901 AAAATAAATAA-AAAAT
1 AAAATAAAAAATAAAAT
96229917 AAAATAA
1 AAAATAA
96229924 CACACAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAATAAAAAATAAAAT
Found at i:96234375 original size:17 final size:17
Alignment explanation
Indices: 96234342--96234383 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
96234332 AATTTGTGAA
96234342 AAAACTAAAAAATAAAAT
1 AAAA-TAAAAAATAAAAT
96234360 AAAATAAAGAAA-AAAAT
1 AAAATAAA-AAATAAAAT
96234377 AAAATAA
1 AAAATAA
96234384 CACACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (17 bp):
AAAATAAAAAATAAAAT
Found at i:96237232 original size:25 final size:26
Alignment explanation
Indices: 96237170--96237232 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 26
96237160 TATTTTCTCA
*
96237170 AAAATTTAAAAATTATTAATGATTCAAT
1 AAAA-TTAAAAATTA-TAATGATTAAAT
96237198 -AAATTGAAAAATTA-AATGATTAAAT
1 AAAATT-AAAAATTATAATGATTAAAT
96237223 AAAATTAAAA
1 AAAATTAAAA
96237233 TTTAGGAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
25 14 0.44
26 7 0.22
27 11 0.34
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAATTAAAAATTATAATGATTAAAT
Found at i:96239512 original size:21 final size:20
Alignment explanation
Indices: 96239484--96239525 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
96239474 CCGAAGTGTT
*
96239484 CCCCACTTGGAATTAAGTGA
1 CCCCACTTGGAACTAAGTGA
96239504 CCCCAACTTGGAACTAAGTGA
1 CCCC-ACTTGGAACTAAGTGA
96239525 C
1 C
96239526 AATGGTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (20 bp):
CCCCACTTGGAACTAAGTGA
Found at i:96251125 original size:40 final size:40
Alignment explanation
Indices: 96251081--96251455 Score: 488
Period size: 40 Copynumber: 9.4 Consensus size: 40
96251071 GAGAATTGAG
96251081 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
96251121 AGTGATGTATCTGGGCTAATTCCCGGAGAGTATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
96251161 AGTGATGTATCCGGGCTAAGT-CCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
96251200 AATGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
96251240 AGTGATGTATCCGGGCTAAGTCTCGAAG-GCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
96251279 AGTGATGTATCCGGGCTAAGTCTCGAAGAGC-TTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
96251318 AGTGATGTATTCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
96251358 AGTGATATATCCGTGCTAA-CCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * * *
96251397 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
96251437 GGTGACGTGTATTCGGGCT
1 AGTGA--TGTATCCGGGCT
96251456 TCGTGCCTGT
Statistics
Matches: 294, Mismatches: 35, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
39 141 0.48
40 143 0.49
42 10 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:96251216 original size:79 final size:79
Alignment explanation
Indices: 96251081--96251455 Score: 477
Period size: 79 Copynumber: 4.7 Consensus size: 79
96251071 GAGAATTGAG
* *
96251081 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
1 AGTGATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
* *
96251146 GAGAGTATTCGTGCT
65 AAGAGCATTCGTGCT
* * *
96251161 AGTGATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAATGATGTATCCGGGCTAAGTCTCGA
1 AGTGATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
96251226 AGAGCATTCGTGCT
66 AGAGCATTCGTGCT
*
96251240 AGTGATGTATCCGGGCTAAGTCTCGAAG-GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCTCG
1 AGTGATGTATCCGGGCTAAGTC-CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
*
96251304 AAGAGC-TTCATGCT
65 AAGAGCATTCGTGCT
* * * * *
96251318 AGTGATGTATTCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAA-CCCCG
1 AGTGATGTATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
96251382 AAGAGCATTCGTGCT
65 AAGAGCATTCGTGCT
* * * * * * * *
96251397 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGACGTGTATTCGGGCT
1 AGTGATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGA--TGTATCCGGGCT
96251456 TCGTGCCTGT
Statistics
Matches: 259, Mismatches: 29, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
78 40 0.15
79 184 0.71
80 26 0.10
81 9 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (79 bp):
AGTGATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
AGAGCATTCGTGCT
Found at i:96255495 original size:47 final size:47
Alignment explanation
Indices: 96255440--96255844 Score: 659
Period size: 47 Copynumber: 8.6 Consensus size: 47
96255430 TATTTGAATA
96255440 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
96255487 GATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
96255534 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
96255583 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
96255630 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
96255677 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
96255724 AATGTGAAAGTGTATATATGTGATAAGG-CTAAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATG
* * * * *
96255771 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
96255818 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
96255845 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 289 0.86
48 1 0.00
49 45 0.13
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:96258333 original size:47 final size:47
Alignment explanation
Indices: 96258268--96258384 Score: 227
Period size: 47 Copynumber: 2.5 Consensus size: 47
96258258 TTTGTGTGCT
96258268 AGTGTAAGA-CATGTCTGGGACATGCATGGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATGGGCCACATTATGAGAGCC
96258314 AGTGTAAGACCATGTCTGGGACATGCATGGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATGGGCCACATTATGAGAGCC
96258361 AGTGTAAGACCATGTCTGGGACAT
1 AGTGTAAGACCATGTCTGGGACAT
96258385 AGCAACGACA
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
46 9 0.13
47 61 0.87
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATGGGCCACATTATGAGAGCC
Found at i:96258495 original size:46 final size:47
Alignment explanation
Indices: 96258268--96258573 Score: 188
Period size: 47 Copynumber: 6.5 Consensus size: 47
96258258 TTTGTGTGCT
* * * *
96258268 AGTGTAAGA-CATGTCTGGGACATGCATGGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTTTGGGACATGCATCGGCTACGA-GATGTA-AGCC
* * * *
96258314 AGTGTAAGACCATGTCTGGGACATGCATGGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTTTGGGACATGCATCGGCTACGA-GATGTA-AGCC
* * * * ** *
96258361 AGTGTAAGACCATGTCTGGGACATAGCAACGAC-ATTGAGA-CAAACGCT
1 AGTGTAAGACCATGTTTGGGACAT-GCATCGGCTA-CGAGATGTAA-GCC
* * * *
96258409 GGTGTAAGA-CATGTCTAGGACATGCATCGGCCT-CGAGATGTAACCC
1 AGTGTAAGACCATGTTTGGGACATGCATCGG-CTACGAGATGTAAGCC
*
96258455 AGTGTAAGA-CATGTTTGGGACATGCATCGGCTACGAGATGT--GTC
1 AGTGTAAGACCATGTTTGGGACATGCATCGGCTACGAGATGTAAGCC
* * * *
96258499 AGTGTCAGACCATGTTTGGGACATGGCATTGGC-ACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTTTGGGACAT-GCATCGGCTAC-GAGATGT-A-AGCC
*
96258549 AGGGTAAGACCATGTTTGGGACATG
1 AGTGTAAGACCATGTTTGGGACATG
96258574 GCGTCGGCCT
Statistics
Matches: 215, Mismatches: 28, Indels: 31
0.78 0.10 0.11
Matches are distributed among these distances:
44 9 0.04
45 18 0.08
46 67 0.31
47 79 0.37
48 17 0.08
49 2 0.01
50 23 0.11
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTTTGGGACATGCATCGGCTACGAGATGTAAGCC
Found at i:96258661 original size:47 final size:46
Alignment explanation
Indices: 96258268--96258674 Score: 175
Period size: 47 Copynumber: 8.6 Consensus size: 46
96258258 TTTGTGTGCT
*
96258268 AGTGTAAGA-CATGTCTGGGACATGCATGGGCCACATT-AT-GA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGCAT---CGAC-TTGATAGATGAGCC
*
96258314 AGTGTAAGACCATGTCTGGGACATGCATGGGCCACATT-AT-GA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGCAT---CGAC-TTGATAGATGAGCC
* * * * *
96258361 AGTGTAAGACCATGTCTGGGACATAGCAACGACATTGAGACA-AACGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGAC-TTGATAGATGA-GCC
* * * * *
96258409 GGTGTAAGA-CATGTCTAGGACATGCATCGGCCTCG--AGATGTAACCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-GACTTGATAGATG--AGCC
* * * * *
96258455 AGTGTAAGA-CATGTTTGGGACATGCATCGGC-T-ACGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGACTTGA-TAGATGAGCC
* * * * *
96258499 AGTGTCAGACCATGTTTGGGACATGGCATTGGCAC-GGATATG-TGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCA-TCG-ACTTGATA-GAT--GAGCC
* * * * * *
96258549 AGGGTAAGACCATGTTTGGGACATGGCGTCGGCCTTGATTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATC-GACTTGA--TAGATGAGCC
*
96258598 AATGTAA-AGCCATGTCTGGGACATGGCATCGACTTGATAGATGAGCC
1 AGTGTAAGA-CCATGTCTGGGACAT-GCATCGACTTGATAGATGAGCC
96258645 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACAT-GCATC
96258675 ACCATTATAC
Statistics
Matches: 285, Mismatches: 48, Indels: 55
0.73 0.12 0.14
Matches are distributed among these distances:
44 11 0.04
45 22 0.08
46 54 0.19
47 111 0.39
48 24 0.08
49 30 0.11
50 30 0.11
51 1 0.00
52 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGACTTGATAGATGAGCC
Found at i:96273534 original size:13 final size:13
Alignment explanation
Indices: 96273516--96273544 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
96273506 GCTCAGTAGG
96273516 GACACGACCGTGT
1 GACACGACCGTGT
96273529 GACACGACCGTGT
1 GACACGACCGTGT
96273542 GAC
1 GAC
96273545 GTGATTGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.31, G:0.31, T:0.14
Consensus pattern (13 bp):
GACACGACCGTGT
Found at i:96280689 original size:27 final size:27
Alignment explanation
Indices: 96280656--96280862 Score: 281
Period size: 27 Copynumber: 7.6 Consensus size: 27
96280646 TAAATTGTGC
96280656 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
96280683 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
96280711 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
96280738 AGCACTAAGTGTGTGAGTTTAACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
*
96280766 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
96280793 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
96280821 AGCACTAAGTGTGC-AAGTTGATTATAT
1 AGCACTAAGTGTGCGAA-TTGACTATGT
*
96280848 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
96280863 GACTTAATAT
Statistics
Matches: 162, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
27 89 0.55
28 73 0.45
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:96280720 original size:55 final size:55
Alignment explanation
Indices: 96280656--96280862 Score: 335
Period size: 55 Copynumber: 3.8 Consensus size: 55
96280646 TAAATTGTGC
96280656 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
96280711 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGTGAGTTTAACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
96280766 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
96280821 AGCACTAAGTGTGC-AAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAA-TTGACTATGTAGCACTAAGTGTGCG
96280863 GACTTAATAT
Statistics
Matches: 141, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
54 1 0.01
55 140 0.99
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:96288915 original size:27 final size:27
Alignment explanation
Indices: 96288882--96289088 Score: 315
Period size: 27 Copynumber: 7.6 Consensus size: 27
96288872 TAAATTGTGC
*
96288882 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
96288909 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
96288937 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
96288964 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
96288992 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
96289019 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
96289047 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
96289074 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
96289089 GACTTAATAT
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
27 91 0.54
28 77 0.46
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:96288946 original size:55 final size:55
Alignment explanation
Indices: 96288882--96289088 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
96288872 TAAATTGTGC
96288882 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
96288937 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
96288992 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
96289047 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
96289089 GACTTAATAT
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:96291521 original size:20 final size:20
Alignment explanation
Indices: 96291496--96291541 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
96291486 ATTAGGCCTT
96291496 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
96291516 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
96291535 GCCCATA
1 GCCCATA
96291542 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:96291550 original size:19 final size:20
Alignment explanation
Indices: 96291508--96291551 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
96291498 CCATATTAAC
** *
96291508 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
96291528 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
96291547 ACAGT
1 ACAGT
96291552 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:96293024 original size:25 final size:22
Alignment explanation
Indices: 96292970--96293024 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
96292960 TTTTGGCTAG
96292970 AGAAGAAAAGAAGGAGAAAAGA
1 AGAAGAAAAGAAGGAGAAAAGA
* *
96292992 AAATAGAAGAAGAGAGGAGAAGAGA
1 AGA-AGAA-AAGA-AGGAGAAAAGA
96293017 AGGAAGAA
1 A-GAAGAA
96293025 TTCGGCACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 4 0.15
24 4 0.15
25 15 0.58
26 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAGAAGGAGAAAAGA
Found at i:96295014 original size:21 final size:20
Alignment explanation
Indices: 96294990--96295028 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
96294980 CCTTGTTGAA
96294990 TTCGTAATTTGGCCCATTTTC
1 TTCGT-ATTTGGCCCATTTTC
*
96295011 TTCGTTTTTGGCCCATTT
1 TTCGTATTTGGCCCATTT
96295029 CTCGTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.10, C:0.23, G:0.15, T:0.51
Consensus pattern (20 bp):
TTCGTATTTGGCCCATTTTC
Found at i:96296759 original size:27 final size:27
Alignment explanation
Indices: 96296729--96296906 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
96296719 ATATTGAGCC
* *
96296729 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
96296756 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
96296783 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
96296811 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
96296838 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
96296865 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
96296892 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
96296907 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:96296868 original size:82 final size:81
Alignment explanation
Indices: 96296750--96296905 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
96296740 TGCTATATAA
* * * *
96296750 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
96296815 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
96296832 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
96296896 CCCTTAGTGC
65 CACTTAGTGC
96296906 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 17 0.27
82 47 0.73
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:96302771 original size:40 final size:40
Alignment explanation
Indices: 96302727--96302910 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 40
96302717 AAGCGAATAT
* *
96302727 ATCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGATACTAA
** * *
96302767 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
** * * **
96302807 ATCCGGGTTAAGTCCCGAACGCATTCGTGCGAGTTGTTAA
1 ATCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
** * * *
96302847 ATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
* * *
96302886 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGACTAAGTCCCGAAGGCATT
96302911 TGAACGAGGA
Statistics
Matches: 127, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 34 0.27
40 93 0.73
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
Found at i:96302825 original size:80 final size:79
Alignment explanation
Indices: 96302688--96302912 Score: 227
Period size: 80 Copynumber: 2.8 Consensus size: 79
96302678 TTGAATGCTG
* * * ** * * * * *
96302688 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
96302752 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * * * *
96302768 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAACGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTT
* **
96302833 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * *
96302848 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
96302913 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
79 35 0.29
80 81 0.68
81 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:96302930 original size:79 final size:80
Alignment explanation
Indices: 96302763--96302945 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
96302753 GTGCGAGATA
* * *
96302763 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAACG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAACG
** **
96302828 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
96302843 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAACG
*
96302907 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
96302922 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
96302946 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAACG
CATTCGAACGAGGAG
Found at i:96310674 original size:40 final size:40
Alignment explanation
Indices: 96310630--96310813 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 40
96310620 AAGCGAATAT
* *
96310630 ATCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGATACTAA
** * *
96310670 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
** * * **
96310710 ATCCGGGTTAAGTCCCGAACGCATTCGTGCGAGTTGTTAA
1 ATCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
** * * *
96310750 ATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
* * *
96310789 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGACTAAGTCCCGAAGGCATT
96310814 TGAACGAGGA
Statistics
Matches: 127, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 34 0.27
40 93 0.73
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
Found at i:96310728 original size:80 final size:79
Alignment explanation
Indices: 96310591--96310815 Score: 227
Period size: 80 Copynumber: 2.8 Consensus size: 79
96310581 TTGAATGCTG
* * * ** * * * * *
96310591 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
96310655 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * * * *
96310671 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAACGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTT
* **
96310736 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * *
96310751 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
96310816 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
79 35 0.29
80 81 0.68
81 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:96310833 original size:79 final size:80
Alignment explanation
Indices: 96310666--96310848 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
96310656 GTGCGAGATA
* * *
96310666 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAACG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAACG
** **
96310731 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
96310746 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAACG
*
96310810 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
96310825 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
96310849 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAACG
CATTCGAACGAGGAG
Found at i:96318826 original size:38 final size:38
Alignment explanation
Indices: 96318775--96318850 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
96318765 AAATTGGCTT
*
96318775 TTAATTTTGTTTTTAATTCATTTTAACTACTAAATGAC
1 TTAATTTTGTTTTTAATTCATTTTAACAACTAAATGAC
96318813 TTAATTTTGTTTTTAATTCATTTTAACAACTAAATGAC
1 TTAATTTTGTTTTTAATTCATTTTAACAACTAAATGAC
96318851 CAAAATGTCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.51
Consensus pattern (38 bp):
TTAATTTTGTTTTTAATTCATTTTAACAACTAAATGAC
Found at i:96323581 original size:14 final size:16
Alignment explanation
Indices: 96323557--96323588 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
96323547 AGTAGAAACC
96323557 TAGAGATATATGA-AT
1 TAGAGATATATGATAT
96323572 TAGA-ATATATGATAT
1 TAGAGATATATGATAT
96323587 TA
1 TA
96323589 TGTTAATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (16 bp):
TAGAGATATATGATAT
Found at i:96326783 original size:343 final size:343
Alignment explanation
Indices: 96326157--96326842 Score: 1185
Period size: 343 Copynumber: 2.0 Consensus size: 343
96326147 ATAAGTCCTT
*
96326157 TTCACCGATTGTGCTACTGAGGTAAGTTTGCATGTAAATAAGATATCGTTTTTACTTATGTTATA
1 TTCACCGATTGTGCTACCGAGGTAAGTTTGCATGTAAATAAGATATCGTTTTTACTTATGTTATA
*
96326222 ATATTTTGTTATTATATGAAAGGTGGTTGCATATTGAATGATCACTTGATGTAAATTATGAATTG
66 ATATTTTGTTATTATATAAAAGGTGGTTGCATATTGAATGATCACTTGATGTAAATTATGAATTG
*
96326287 AAATTGATTATGGATGAATTGATATAATGTTGAACAGTGAGGAATTTCCCGGTTGGACCATCGGA
131 AAATTGATTATGGATGAATTGATAAAATGTTGAACAGTGAGGAATTTCCCGGTTGGACCATCGGA
*
96326352 ATAGAAAAGATACGGATGATCCATTGCGAAAACACATGTGTAGTACTATGTGCAGGCTACTATGT
196 ATAGAAAAGATACGAATGATCCATTGCGAAAACACATGTGTAGTACTATGTGCAGGCTACTATGT
* * * *
96326417 GTTTAAAATTGTTTTAGGTCACGTGTGTCGTCCTAAGTGCAGGCTACTATGCGTACTCGATAGCT
261 GTTTAAAATGGTTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCT
*
96326482 TCGATCACATGTGTGGTA
326 TCAATCACATGTGTGGTA
* * *
96326500 TTCACCGATTGTTCTACCGAGGTAATTTTGTATGTAAATAAGATATCGTTTTTACTTATGTTATA
1 TTCACCGATTGTGCTACCGAGGTAAGTTTGCATGTAAATAAGATATCGTTTTTACTTATGTTATA
96326565 ATATTTTGTTATTATATAAAAGGTGGTTGCATATTGAATGATCACTTGATGTAAATTATGAATTG
66 ATATTTTGTTATTATATAAAAGGTGGTTGCATATTGAATGATCACTTGATGTAAATTATGAATTG
* *
96326630 AAATTGATTATGGATGAATTGATAAAATGTTGAACAGTGAGGAATTTTCTGGTTGGACC-TCCGG
131 AAATTGATTATGGATGAATTGATAAAATGTTGAACAGTGAGGAATTTCCCGGTTGGACCAT-CGG
* * *
96326694 AATAGAAAAGATACGAATGATCCGTTGTGAAAACATATGTGTAGTACTATGTGCAGGCTACTATG
195 AATAGAAAAGATACGAATGATCCATTGCGAAAACACATGTGTAGTACTATGTGCAGGCTACTATG
*
96326759 TGTTTAAAATGGTTTTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAGC
260 TGTTTAAAATGGTTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGC
*
96326824 TTCAATCACATGTTTGGTA
325 TTCAATCACATGTGTGGTA
96326843 AGTGTAAGCC
Statistics
Matches: 323, Mismatches: 19, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
342 1 0.00
343 322 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (343 bp):
TTCACCGATTGTGCTACCGAGGTAAGTTTGCATGTAAATAAGATATCGTTTTTACTTATGTTATA
ATATTTTGTTATTATATAAAAGGTGGTTGCATATTGAATGATCACTTGATGTAAATTATGAATTG
AAATTGATTATGGATGAATTGATAAAATGTTGAACAGTGAGGAATTTCCCGGTTGGACCATCGGA
ATAGAAAAGATACGAATGATCCATTGCGAAAACACATGTGTAGTACTATGTGCAGGCTACTATGT
GTTTAAAATGGTTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCT
TCAATCACATGTGTGGTA
Found at i:96333105 original size:46 final size:46
Alignment explanation
Indices: 96333042--96333166 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 46
96333032 AACTCGTAGT
* ** *
96333042 CGATGCATGTCCTAGGCATGTCTTACACTAGCT-TACATCTTG-AGGC
1 CGATGCATGTCCCAGGCATGTCTTACACTAGCTCT-CATAATGTA-CC
* * *
96333088 TGATGCATGTCCCAGGCATGGTCTTACACTGGCTCTCGTAATGTACC
1 CGATGCATGTCCCAGGCAT-GTCTTACACTAGCTCTCATAATGTACC
*
96333135 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGGCATGTCTTACACTAGC
96333167 ACACAATAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
46 29 0.44
47 35 0.53
48 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGGCATGTCTTACACTAGCTCTCATAATGTACC
Found at i:96335126 original size:17 final size:18
Alignment explanation
Indices: 96335104--96335137 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96335094 TAAGAGTTGA
*
96335104 TAAA-TTTATTTTTCTAT
1 TAAATTTTATTATTCTAT
96335121 TAAATTTTATTATTCTA
1 TAAATTTTATTATTCTA
96335138 GAAAGTAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (18 bp):
TAAATTTTATTATTCTAT
Found at i:96338642 original size:49 final size:49
Alignment explanation
Indices: 96338570--96338794 Score: 189
Period size: 49 Copynumber: 4.7 Consensus size: 49
96338560 TGATATATGT
* *
96338570 GCTAGTGCAAAACCTGTCTGGGACATGGCATCGGCATCGATAGATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATGAGA
* * * * * *
96338619 GCTAGTGTAAGACCTGTCTGGGACACGGCATCAGCCTCAAGATATGCA-A
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATG-AGA
* * * * * *
96338668 GCTAGTGTAAGATCTGTCTGGGACATGGCATTGGC-TTG--GGGTGTG-
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATGAGA
* * *
96338713 TC-ACTGTAAGACCTGTCTGGGACATGGCATCGACA-CAGATA-AGTGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATC-GATAGA-TGAGA
* *
96338761 GCTAGTGTAAGACTTGTCTGGGACAAGG-ATCGGC
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGC
96338795 CTTAGTGTAA
Statistics
Matches: 135, Mismatches: 32, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
44 28 0.21
45 2 0.01
46 2 0.01
47 3 0.02
48 7 0.05
49 92 0.68
50 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.23
Consensus pattern (49 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATGAGA
Found at i:96338833 original size:34 final size:34
Alignment explanation
Indices: 96338763--96338833 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
96338753 AAGTGAGAGC
* * **
96338763 TAGTGTAAGACTTGTCTGGGACAAGGATCGGCCT
1 TAGTGTAAGACCTGACTGGGACAAGGATCGAACT
*
96338797 TAGTGTAAGACCTGACTGGGACATGGCATC-AACT
1 TAGTGTAAGACCTGACTGGGACAAGG-ATCGAACT
96338831 TAG
1 TAG
96338834 ATGTGAGATC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 28 0.90
35 3 0.10
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (34 bp):
TAGTGTAAGACCTGACTGGGACAAGGATCGAACT
Found at i:96339967 original size:40 final size:41
Alignment explanation
Indices: 96339923--96340018 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 41
96339913 TCAAGGTTTT
*
96339923 TGGACACGGGCGTGTCACGGTCGTGTGAAGGACACGAG-CA
1 TGGACACGGGCGTGTCACGGCCGTGTGAAGGACACGAGCCA
* * * *
96339963 TGGACACGGGCGTGTCATGGCCGTGTGAGGGACATGGGCCA
1 TGGACACGGGCGTGTCACGGCCGTGTGAAGGACACGAGCCA
96340004 TGGACACGGGCGTGT
1 TGGACACGGGCGTGT
96340019 GCCAGAGCGT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.19, C:0.22, G:0.43, T:0.17
Consensus pattern (41 bp):
TGGACACGGGCGTGTCACGGCCGTGTGAAGGACACGAGCCA
Found at i:96344498 original size:16 final size:16
Alignment explanation
Indices: 96344477--96344508 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
96344467 GCCCAATAAC
*
96344477 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
96344493 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
96344509 TTACACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:96345063 original size:20 final size:20
Alignment explanation
Indices: 96345029--96345075 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
96345019 ATATTGTTAC
96345029 TATTATTTTTATTAATA-TAT
1 TATTATTTTTATTAA-AGTAT
96345049 TAATTATTTTT-TTAAAGTAT
1 T-ATTATTTTTATTAAAGTAT
96345069 TATTATT
1 TATTATT
96345076 ACTAATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.28
20 9 0.36
21 9 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTATTTTTATTAAAGTAT
Found at i:96345072 original size:23 final size:21
Alignment explanation
Indices: 96345030--96345075 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
96345020 TATTGTTACT
96345030 ATTATTTTTATTAATATATTA
1 ATTATTTTTATTAATATATTA
96345051 ATTATTTTT-TTAA-AGTATT-
1 ATTATTTTTATTAATA-TATTA
96345070 ATTATT
1 ATTATT
96345076 ACTAATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 8 0.33
21 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTATTTTTATTAATATATTA
Found at i:96345138 original size:13 final size:14
Alignment explanation
Indices: 96345114--96345144 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
96345104 ATTATTATCA
96345114 ATATTAATATATGT
1 ATATTAATATATGT
96345128 ATATT-ATATATGT
1 ATATTAATATATGT
96345141 ATAT
1 ATAT
96345145 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:96345241 original size:12 final size:12
Alignment explanation
Indices: 96345226--96345257 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
96345216 TATATTTCAT
*
96345226 TATTATTTTTAA
1 TATTATTATTAA
96345238 TATTATTATTAA
1 TATTATTATTAA
96345250 TATTATTA
1 TATTATTA
96345258 GATGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:96345329 original size:26 final size:24
Alignment explanation
Indices: 96345273--96345392 Score: 89
Period size: 26 Copynumber: 4.7 Consensus size: 24
96345263 TATTTATTCC
* * * *
96345273 TAATATGTATATTATGTAAATGTCT
1 TAATAT-TATATTATATAATTTTTT
*
96345298 TAATATTATATTATATGTATTTTTT
1 TAATATTATATTATAT-AATTTTTT
*
96345323 TATATATGT-TATGTATATAAGTTTTT
1 TA-ATAT-TATAT-TATATAATTTTTT
*
96345349 TAATATTATATTTTATACATATTTTT
1 TAATATTATATTATATA-AT-TTTTT
96345375 TAATATTATTAGTTATAT
1 TAATATTA-TA-TTATAT
96345393 TTTTATATAA
Statistics
Matches: 76, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
24 15 0.20
25 20 0.26
26 28 0.37
27 8 0.11
28 5 0.07
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (24 bp):
TAATATTATATTATATAATTTTTT
Found at i:96367214 original size:20 final size:20
Alignment explanation
Indices: 96367180--96367226 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
96367170 ATATTGTTAC
96367180 TATTATTTTTATTAATA-TAT
1 TATTATTTTTATTAA-AGTAT
96367200 TAATTATTTTT-TTAAAGTAT
1 T-ATTATTTTTATTAAAGTAT
96367220 TATTATT
1 TATTATT
96367227 ACTAATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.28
20 9 0.36
21 9 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTATTTTTATTAAAGTAT
Found at i:96367223 original size:23 final size:21
Alignment explanation
Indices: 96367181--96367226 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
96367171 TATTGTTACT
96367181 ATTATTTTTATTAATATATTA
1 ATTATTTTTATTAATATATTA
96367202 ATTATTTTT-TTAA-AGTATT-
1 ATTATTTTTATTAATA-TATTA
96367221 ATTATT
1 ATTATT
96367227 ACTAATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 8 0.33
21 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTATTTTTATTAATATATTA
Found at i:96367289 original size:13 final size:14
Alignment explanation
Indices: 96367265--96367295 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
96367255 ATTATTATCA
96367265 ATATTAATATATGT
1 ATATTAATATATGT
96367279 ATATT-ATATATGT
1 ATATTAATATATGT
96367292 ATAT
1 ATAT
96367296 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:96367311 original size:24 final size:24
Alignment explanation
Indices: 96367282--96367333 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
96367272 TATATGTATA
96367282 TTATATATGTA-TATATTCA-TACAT
1 TTATATA-GTACTATATTCATTAC-T
*
96367306 TTATATAGTACTATTTTCATTACT
1 TTATATAGTACTATATTCATTACT
96367330 TTAT
1 TTAT
96367334 TTTAATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 3 0.12
24 19 0.76
25 3 0.12
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.54
Consensus pattern (24 bp):
TTATATAGTACTATATTCATTACT
Found at i:96367398 original size:20 final size:20
Alignment explanation
Indices: 96367362--96367403 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
96367352 TCATATTTGT
*
96367362 TTTTATATATTTCATTATTA
1 TTTTATATATTTCATTAATA
*
96367382 TTTTA-ATATTATTATTAATA
1 TTTTATATATT-TCATTAATA
96367402 TT
1 TT
96367404 ATTAGATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTATATATTTCATTAATA
Found at i:96367401 original size:12 final size:12
Alignment explanation
Indices: 96367377--96367407 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
96367367 TATATTTCAT
96367377 TATTATT-TTAA
1 TATTATTATTAA
96367388 TATTATTATTAA
1 TATTATTATTAA
96367400 TATTATTA
1 TATTATTA
96367408 GATGTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:96367479 original size:26 final size:24
Alignment explanation
Indices: 96367423--96367542 Score: 89
Period size: 26 Copynumber: 4.7 Consensus size: 24
96367413 TATTTATTCC
* * * *
96367423 TAATATGTATATTATGTAAATGTCT
1 TAATAT-TATATTATATAATTTTTT
*
96367448 TAATATTATATTATATGTATTTTTT
1 TAATATTATATTATAT-AATTTTTT
*
96367473 TATATATGT-TATGTATATAAGTTTTT
1 TA-ATAT-TATAT-TATATAATTTTTT
*
96367499 TAATATTATATTTTATACATATTTTT
1 TAATATTATATTATATA-AT-TTTTT
96367525 TAATATTATTAGTTATAT
1 TAATATTA-TA-TTATAT
96367543 TTTTTATATA
Statistics
Matches: 76, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
24 15 0.20
25 20 0.26
26 28 0.37
27 8 0.11
28 5 0.07
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (24 bp):
TAATATTATATTATATAATTTTTT
Found at i:96367587 original size:21 final size:20
Alignment explanation
Indices: 96367554--96367596 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
96367544 TTTTATATAC
96367554 TATTACATGTATACTTCTAA
1 TATTACATGTATACTTCTAA
* *
96367574 TATTATATCGTATATTTCTAA
1 TATTACAT-GTATACTTCTAA
96367595 TA
1 TA
96367597 CCATCATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (20 bp):
TATTACATGTATACTTCTAA
Found at i:96368891 original size:38 final size:38
Alignment explanation
Indices: 96368840--96369001 Score: 252
Period size: 38 Copynumber: 4.3 Consensus size: 38
96368830 ATATTCGATG
96368840 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
96368878 TATATCCGAGTTAAATCCAGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
96368916 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
96368954 TATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
96368992 TATATTCGGG
1 TATATCCGGG
96369002 CCTTCATGCC
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 112 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:96369115 original size:43 final size:43
Alignment explanation
Indices: 96368994--96369118 Score: 196
Period size: 43 Copynumber: 2.9 Consensus size: 43
96368984 GCTGGTATTA
* * *
96368994 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
96369037 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* * *
96369080 TATTCAGGCCTTCGTGCCTAGCAGGCATAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGA
96369119 AATGATATGT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
Found at i:96373249 original size:42 final size:42
Alignment explanation
Indices: 96373185--96373339 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 42
96373175 CTAAAACTAT
*
96373185 GTGTAAGACCATATCTGGGATATGGCATCAATGTAAGATTTC
1 GTGTAAGACCATATCTGAGATATGGCATCAATGTAAGATTTC
* *
96373227 GTGTAAGACCATATTTGAGATATGGCATCAATGTGAGATTTC
1 GTGTAAGACCATATCTGAGATATGGCATCAATGTAAGATTTC
* * * *** **
96373269 GTGTAAGACCATAGT-TGGGCTATTGGCATCGATACGAGATCCC
1 GTGTAAGACCATA-TCTGAGATA-TGGCATCAATGTAAGATTTC
* *
96373312 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGAGATATGGCAT
96373340 TGGTATGGTA
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
42 64 0.65
43 34 0.35
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGAGATATGGCATCAATGTAAGATTTC
Found at i:96373537 original size:15 final size:16
Alignment explanation
Indices: 96373511--96373540 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
96373501 ATGAACCCTC
96373511 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
96373527 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
96373541 ATAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:96379644 original size:6 final size:6
Alignment explanation
Indices: 96379626--96379669 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
96379616 TGCAAATGAA
* * *
96379626 TCATTT CTCATTT TCATTT TCATTT CCATTT CCATTT CCATTT T
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT T
96379670 GAGAAAACCA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (6 bp):
TCATTT
Found at i:96379650 original size:12 final size:12
Alignment explanation
Indices: 96379627--96379669 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
96379617 GCAAATGAAT
*
96379627 CATTTCTCATTTT
1 CATTT-TCATTTC
96379640 CATTTTCATTTC
1 CATTTTCATTTC
*
96379652 CATTTCCATTTC
1 CATTTTCATTTC
96379664 CATTTT
1 CATTTT
96379670 GAGAAAACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (12 bp):
CATTTTCATTTC
Found at i:96379661 original size:18 final size:19
Alignment explanation
Indices: 96379626--96379668 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
96379616 TGCAAATGAA
*
96379626 TCATTTCTCATTTTCATTT
1 TCATTTCTCATTTCCATTT
96379645 TCATTTC-CATTTCCATTT
1 TCATTTCTCATTTCCATTT
*
96379663 CCATTT
1 TCATTT
96379669 TGAGAAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (19 bp):
TCATTTCTCATTTCCATTT
Found at i:96384047 original size:29 final size:29
Alignment explanation
Indices: 96384014--96384144 Score: 192
Period size: 29 Copynumber: 4.5 Consensus size: 29
96384004 AATCAACCGG
* * * *
96384014 GCACACTTAGTACCATGTACTTT-AAACTC
1 GCACACTCAGTGCCATGCA-TTTCAAGCTC
* *
96384043 GCACACTTAGCGCCATGCATTTCAAGCTC
1 GCACACTCAGTGCCATGCATTTCAAGCTC
96384072 GCACACTCAGTGCCATGCATTTCAAGCTC
1 GCACACTCAGTGCCATGCATTTCAAGCTC
96384101 GCACACTCAGTGCCATGCATTTCAAGCTC
1 GCACACTCAGTGCCATGCATTTCAAGCTC
96384130 GCACACTCAGTGCCA
1 GCACACTCAGTGCCA
96384145 ATCTCTCAAC
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
28 3 0.03
29 92 0.97
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (29 bp):
GCACACTCAGTGCCATGCATTTCAAGCTC
Found at i:96394832 original size:28 final size:29
Alignment explanation
Indices: 96394799--96394899 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
96394789 TATAGTAAGT
* * *
96394799 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
96394827 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
96394856 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
96394885 CCACACACTTAGTGC
1 CCGCACACTTAGTGC
96394900 CAATTTCATG
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 19 0.29
29 46 0.71
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:96401952 original size:29 final size:29
Alignment explanation
Indices: 96401919--96402021 Score: 129
Period size: 29 Copynumber: 3.6 Consensus size: 29
96401909 GTTGAGAGAT
*
96401919 TGGCACTGAGTGTGCGAGCTTGTAATACA
1 TGGCACTAAGTGTGCGAGCTTGTAATACA
* * *
96401948 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGTAATACA
*
96401977 TGGCGCTAAGTGTGCGAG-TT-TAAAGTACA
1 TGGCACTAAGTGTGCGAGCTTGT-AA-TACA
96402006 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
96402022 CGGTTGATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGTAATACA
Found at i:96409847 original size:29 final size:29
Alignment explanation
Indices: 96409810--96409912 Score: 145
Period size: 29 Copynumber: 3.6 Consensus size: 29
96409800 GTTGAGAGAT
*
96409810 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
*
96409839 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* * *
96409868 TGGCGCTAAGTGTGCGAG-TTTAAAGTACA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
96409897 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
96409913 CGGTTGATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 5 0.07
29 63 0.93
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Done.