Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 737 of 770
Found at i:233224043 original size:117 final size:120
Alignment explanation
Indices: 233223834--233224131 Score: 453
Period size: 117 Copynumber: 2.5 Consensus size: 120
233223824 CATTTGAATG
*
233223834 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
* *
233223899 TTTGCGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGTATTTGCGCGAGTTGTT
66 TTTGCGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGCT
233223954 ATATCCGGGCTAAGACCCGAAGGCA-TT-TGCGAGTT-TTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
* *
233224016 TTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
66 TTTGCGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGCT
* * * * * *
233224071 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA-CCCGAAG
233224132 AAACTTGGGT
Statistics
Matches: 164, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
117 101 0.62
118 11 0.07
119 20 0.12
120 32 0.20
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGCGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGCT
Found at i:233225036 original size:31 final size:32
Alignment explanation
Indices: 233224980--233225047 Score: 120
Period size: 31 Copynumber: 2.1 Consensus size: 32
233224970 AACGATCATA
233224980 TGAACAGTATATTAAGATACATTAAAGTTCTCG
1 TGAACAGTATATTAAGA-ACATTAAAGTTCTCG
233225013 TGAACAGTATATTAAG-ACATTAAAGTTCTCG
1 TGAACAGTATATTAAGAACATTAAAGTTCTCG
233225044 TGAA
1 TGAA
233225048 ACAGGGCCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 19 0.54
33 16 0.46
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (32 bp):
TGAACAGTATATTAAGAACATTAAAGTTCTCG
Found at i:233227302 original size:30 final size:30
Alignment explanation
Indices: 233227205--233227303 Score: 87
Period size: 30 Copynumber: 3.3 Consensus size: 30
233227195 CAAGCTCACT
*
233227205 CCTAGCTC-ACTTTCAACTCACGAGCTAAA-
1 CCTAGCTCAACTTT-AGCTCACGAGCTAAAG
* * * **
233227234 CCTTAGCTCAACTTCAGCTTAGGAG-TTTAG
1 CC-TAGCTCAACTTTAGCTCACGAGCTAAAG
233227264 CCTCAGCTCAACTTTAGCTCACGAGCTAAAG
1 CCT-AGCTCAACTTTAGCTCACGAGCTAAAG
*
233227295 CGTAGCTCA
1 CCTAGCTCA
233227304 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
29 5 0.09
30 39 0.74
31 9 0.17
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (30 bp):
CCTAGCTCAACTTTAGCTCACGAGCTAAAG
Found at i:233229827 original size:5 final size:5
Alignment explanation
Indices: 233229817--233229877 Score: 63
Period size: 5 Copynumber: 12.0 Consensus size: 5
233229807 AAGAGAAAAC
* *
233229817 AAAGA AAAGA AAAGA AAAAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAGA AAAGA AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
233229868 AAAGA AAAGA
1 AAAGA AAAGA
233229878 GAGGCAAGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
4 4 0.09
5 33 0.70
6 9 0.19
7 1 0.02
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:233229845 original size:16 final size:15
Alignment explanation
Indices: 233229821--233229877 Score: 71
Period size: 16 Copynumber: 3.7 Consensus size: 15
233229811 GAAAACAAAG
233229821 AAAAGAAAAGAAAAA
1 AAAAGAAAAGAAAAA
*
233229836 AAAAGCAAAAG-AAGA
1 AAAAG-AAAAGAAAAA
*
233229851 AAAAGAAAATGAAATA
1 AAAAGAAAA-GAAAAA
233229867 AAAAGAAAAGA
1 AAAAGAAAAGA
233229878 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
14 4 0.11
15 16 0.43
16 17 0.46
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (15 bp):
AAAAGAAAAGAAAAA
Found at i:233229857 original size:30 final size:30
Alignment explanation
Indices: 233229821--233229877 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
233229811 GAAAACAAAG
233229821 AAAAGAAAA-GAAAAAAAAAGCAAAAGAAGA
1 AAAAGAAAATGAAAAAAAAAG-AAAAGAAGA
*
233229851 AAAAGAAAATGAAATAAAAAGAAAAGA
1 AAAAGAAAATGAAAAAAAAAGAAAAGA
233229878 GAGGCAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (30 bp):
AAAAGAAAATGAAAAAAAAAGAAAAGAAGA
Found at i:233230008 original size:30 final size:31
Alignment explanation
Indices: 233229945--233230015 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
233229935 TTTGAAAAGC
* *
233229945 AAAAAGAAA-ATGAGATTGAAAAAGAGAACG
1 AAAAAGAAATTTGAGAGTGAAAAAGAGAACG
*
233229975 -AAAAGAAATTTGAGAGTGAAAAAGA-AGATG
1 AAAAAGAAATTTGAGAGTGAAAAAGAGA-ACG
233230005 AAAAAGAAATT
1 AAAAAGAAATT
233230016 GAAACAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 9 0.26
30 16 0.46
31 10 0.29
ACGTcount: A:0.62, C:0.01, G:0.23, T:0.14
Consensus pattern (31 bp):
AAAAAGAAATTTGAGAGTGAAAAAGAGAACG
Found at i:233232160 original size:30 final size:31
Alignment explanation
Indices: 233232126--233232222 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
233232116 AGCTCACTCC
*
233232126 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
233232156 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
233232186 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
233232216 TAGCTCA
1 TAGCTCA
233232223 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:233234761 original size:6 final size:5
Alignment explanation
Indices: 233234737--233234796 Score: 59
Period size: 6 Copynumber: 11.0 Consensus size: 5
233234727 AAGAGAAAAC
233234737 AAAGA AAAGA AAAGAA AAAGCA AAAGCA AAAGA AGAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAG-A AAAGA A-AAGA AAA-GA AA-AGA
233234787 AAAGA AAAGA
1 AAAGA AAAGA
233234797 GAGGCAAGAG
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
4 1 0.02
5 22 0.45
6 25 0.51
7 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.18, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:233234928 original size:30 final size:31
Alignment explanation
Indices: 233234865--233234935 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
233234855 TTTGAAAAGC
* *
233234865 AAAAAGAAA-ATGAGATTGAAAAAGAGAACG
1 AAAAAGAAATTTGAGAGTGAAAAAGAGAACG
*
233234895 -AAAAGAAATTTGAGAGTGAAAAAGA-AGATG
1 AAAAAGAAATTTGAGAGTGAAAAAGAGA-ACG
233234925 AAAAAGAAATT
1 AAAAAGAAATT
233234936 GAAACAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 9 0.26
30 16 0.46
31 10 0.29
ACGTcount: A:0.62, C:0.01, G:0.23, T:0.14
Consensus pattern (31 bp):
AAAAAGAAATTTGAGAGTGAAAAAGAGAACG
Found at i:233237082 original size:30 final size:31
Alignment explanation
Indices: 233237048--233237144 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
233237038 AGCTCACTCC
*
233237048 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
233237078 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
233237108 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
233237138 TAGCTCA
1 TAGCTCA
233237145 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:233237286 original size:24 final size:24
Alignment explanation
Indices: 233237259--233237307 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
233237249 ATAGTCATTA
233237259 CATAAATTGATTATGTTCACATAG
1 CATAAATTGATTATGTTCACATAG
233237283 CATAAATTGATTATGTTCACATAG
1 CATAAATTGATTATGTTCACATAG
233237307 C
1 C
233237308 TAATTAATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (24 bp):
CATAAATTGATTATGTTCACATAG
Found at i:233241633 original size:29 final size:29
Alignment explanation
Indices: 233241600--233241656 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
233241590 ATAACCAAAC
*
233241600 CTACAAAAACTTTATATCCATAAACCCAA
1 CTACAAAAACTTCATATCCATAAACCCAA
*
233241629 CTACATAAACTTCATATCCATAAACCCA
1 CTACAAAAACTTCATATCCATAAACCCA
233241657 TCTTTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAA
Found at i:233243005 original size:30 final size:28
Alignment explanation
Indices: 233242969--233243024 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
233242959 AAGCGAAAAA
* *
233242969 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
233242999 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
233243025 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:233248087 original size:29 final size:29
Alignment explanation
Indices: 233248029--233248155 Score: 118
Period size: 29 Copynumber: 4.4 Consensus size: 29
233248019 AACTGATTTA
* * *
233248029 GCACACATAGCG-CTCGATTA-AAGAACTC
1 GCACACATAGTGCCTCAATTACAA-ATCTC
*
233248057 GCACACATAGTGCCTCAATTACCAATCTC
1 GCACACATAGTGCCTCAATTACAAATCTC
* *
233248086 GCACACATAGTG-CTCGATTGA-AAAACTC
1 GCACACATAGTGCCTCAATT-ACAAATCTC
* ** *
233248114 GCACACATAGTGCCTCAACTACTGATCTG
1 GCACACATAGTGCCTCAATTACAAATCTC
233248143 GCACACATAGTGC
1 GCACACATAGTGC
233248156 TCAGTTGAAG
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
28 35 0.43
29 45 0.56
30 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (29 bp):
GCACACATAGTGCCTCAATTACAAATCTC
Found at i:233248101 original size:57 final size:57
Alignment explanation
Indices: 233248029--233248187 Score: 214
Period size: 57 Copynumber: 2.8 Consensus size: 57
233248019 AACTGATTTA
* *
233248029 GCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATCTC
1 GCACACATAGTGCTCGATTAAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
** *
233248086 GCACACATAGTGCTCGATTGAAA-AACTCGCACACATAGTGCCTCAACTACTGATCTG
1 GCACACATAGTGCTCGATT-AAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
* * *
233248143 GCACACATAGTGCTC-AGTTGAAGAACTTGCACACACAGTGCCTCA
1 GCACACATAGTGCTCGA-TTAAAGAACTCGCACACATAGTGCCTCA
233248188 TAACTCCAGC
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
56 3 0.03
57 85 0.93
58 3 0.03
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (57 bp):
GCACACATAGTGCTCGATTAAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
Found at i:233248123 original size:28 final size:27
Alignment explanation
Indices: 233248029--233248126 Score: 124
Period size: 28 Copynumber: 3.5 Consensus size: 27
233248019 AACTGATTTA
*
233248029 GCACACATAGCGCTCGATTAAAGAACTC
1 GCACACATAGTGCTCGATTAAA-AACTC
* * *
233248057 GCACACATAGTGCCTCAATTACCAATCTC
1 GCACACATAGTG-CTCGATTA-AAAACTC
233248086 GCACACATAGTGCTCGATTGAAAAACTC
1 GCACACATAGTGCTCGATT-AAAAACTC
233248114 GCACACATAGTGC
1 GCACACATAGTGC
233248127 CTCAACTACT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 35 0.58
29 24 0.40
30 1 0.02
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (27 bp):
GCACACATAGTGCTCGATTAAAAACTC
Found at i:233248175 original size:28 final size:27
Alignment explanation
Indices: 233248029--233248183 Score: 107
Period size: 28 Copynumber: 5.5 Consensus size: 27
233248019 AACTGATTTA
*
233248029 GCACACATAGCGCTC-GATTAAAGAACTC
1 GCACACATAGTGCTCAG-TT-AAGAACTC
* **
233248057 GCACACATAGTGCCTCAATTACCAATCTC
1 GCACACATAGTG-CTCAGTTAAGAA-CTC
*
233248086 GCACACATAGTGCTC-GATTGAAAAACTC
1 GCACACATAGTGCTCAG-TT-AAGAACTC
** * * *
233248114 GCACACATAGTGCCTCAACTACTGATCTG
1 GCACACATAGTG-CTCAGTTA-AGAACTC
*
233248143 GCACACATAGTGCTCAGTTGAAGAACTT
1 GCACACATAGTGCTCAGTT-AAGAACTC
*
233248171 GCACACACAGTGC
1 GCACACATAGTGC
233248184 CTCATAACTC
Statistics
Matches: 99, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
28 56 0.57
29 43 0.43
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.21
Consensus pattern (27 bp):
GCACACATAGTGCTCAGTTAAGAACTC
Found at i:233248264 original size:40 final size:40
Alignment explanation
Indices: 233248215--233248500 Score: 414
Period size: 40 Copynumber: 7.2 Consensus size: 40
233248205 CCTTCAAGGT
* *
233248215 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
233248255 TTAACCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
233248295 TTAGCTCAGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
233248335 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
233248375 TTAGCCCGAATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* * *
233248415 TTAGCCCGGATATAACA-TCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACT-AGCACGAATGCTCTTCGGAAC
* * *
233248455 TTAGCCCGGATATAACA-TCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACT-AGCACGAATGCTCTTCGGAAC
233248495 TTAGCC
1 TTAGCC
233248501 TGGCTATATA
Statistics
Matches: 230, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 1 0.00
40 229 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:233248339 original size:23 final size:23
Alignment explanation
Indices: 233248313--233248385 Score: 59
Period size: 23 Copynumber: 3.4 Consensus size: 23
233248303 GATACATCAC
233248313 TAGCACGAATGCTCTTCGGAACT
1 TAGCACGAATGCTCTTCGGAACT
* * * *
233248336 TAGCCCGGAT--ACATC---AC-
1 TAGCACGAATGCTCTTCGGAACT
233248353 TAGCACGAATGCTCTTCGGAACT
1 TAGCACGAATGCTCTTCGGAACT
*
233248376 TAGCCCGAAT
1 TAGCACGAAT
233248386 ACATCACTAG
Statistics
Matches: 35, Mismatches: 9, Indels: 12
0.62 0.16 0.21
Matches are distributed among these distances:
17 8 0.23
18 2 0.06
19 3 0.09
21 3 0.09
22 2 0.06
23 17 0.49
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGAACT
Found at i:233249835 original size:37 final size:37
Alignment explanation
Indices: 233249782--233249884 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
233249772 CGAATAGTCC
* *
233249782 CCACAAGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
233249819 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
233249856 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
233249885 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:233250143 original size:95 final size:96
Alignment explanation
Indices: 233250025--233250493 Score: 806
Period size: 95 Copynumber: 4.9 Consensus size: 96
233250015 ATATACACAC
* *
233250025 ATCTCCTA-ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACA-ATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
233250088 CACTTGCCATTCGGCTTTACCACATATACAT
66 CACTTGCCATTCGGCTTTACCACATATACAT
*
233250119 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
233250184 CA-TTAGCCATTCGGCTTTACCACAT-TACAT
66 CACTT-GCCATTCGGCTTTACCACATATACAT
*
233250214 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
233250279 CACTAGCCATTCGGCTTTACCACATATACAT
66 CACTTGCCATTCGGCTTTACCACATATACAT
*
233250310 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
233250375 CACTAGCCATTCGGCTTTACCACATATACAT
66 CACTTGCCATTCGGCTTTACCACATATACAT
233250406 ATCTCATACATATTTCACA-TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
233250470 CA-TTAGCCATTTGGCTTTACCACA
66 CACTT-GCCATTCGGCTTTACCACA
233250494 CACATATATA
Statistics
Matches: 358, Mismatches: 11, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
94 8 0.02
95 204 0.57
96 146 0.41
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.35
Consensus pattern (96 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTTGCCATTCGGCTTTACCACATATACAT
Found at i:233250153 original size:48 final size:48
Alignment explanation
Indices: 233250025--233250493 Score: 822
Period size: 48 Copynumber: 9.9 Consensus size: 48
233250015 ATATACACAC
* *
233250025 ATCTCCTA-ATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
233250072 ATCTCATACA-ATTTCACACTT-GCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACA-TTAGCCATTCGGCTTTACCACATATACAT
233250119 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
233250167 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACAT-TACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
233250214 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
233250262 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
233250310 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
233250358 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
233250406 ATCTCATACATATTTCACA-TAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
233250453 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
233250494 CACATATATA
Statistics
Matches: 404, Mismatches: 12, Indels: 11
0.95 0.03 0.03
Matches are distributed among these distances:
47 146 0.36
48 258 0.64
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:233250185 original size:143 final size:142
Alignment explanation
Indices: 233250067--233250493 Score: 743
Period size: 143 Copynumber: 3.0 Consensus size: 142
233250057 TTACCACATA
*
233250067 TACATATCTCATACA-ATTTCACACT-TGCCATTCGGCTTTACCACATATACATATCTCATACAT
1 TACATATCTCATACATATTTCACA-TAAGCCATTCGGCTTTACCACATATACATATCTCATACAT
233250130 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATT
65 ATTTCACA-TAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATT
233250195 CGGCTTTACCACAT
129 CGGCTTTACCACAT
* *
233250209 TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATTCATA
1 TACATATCTCATACATATTTCACATAAGCCATTCGGCTTTACCACATATACATATCTCATACATA
233250274 TTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
66 TTTCACA-TAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
233250339 GGCTTTACCACAT
130 GGCTTTACCACAT
233250352 ATACATATCTCATACATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATACA
1 -TACATATCTCATACATATTTCACA-TAAGCCATTCGGCTTTACCACATATACATATCTCATACA
*
233250416 TATTTCACATAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATT
64 TATTTCACATAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATT
*
233250481 TGGCTTTACCACA
129 CGGCTTTACCACA
233250494 CACATATATA
Statistics
Matches: 275, Mismatches: 6, Indels: 7
0.95 0.02 0.02
Matches are distributed among these distances:
142 16 0.06
143 189 0.69
144 69 0.25
145 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (142 bp):
TACATATCTCATACATATTTCACATAAGCCATTCGGCTTTACCACATATACATATCTCATACATA
TTTCACATAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCG
GCTTTACCACAT
Found at i:233251600 original size:2 final size:2
Alignment explanation
Indices: 233251595--233251620 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
233251585 ACACACACAC
233251595 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
233251621 TATGCCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:233256248 original size:131 final size:130
Alignment explanation
Indices: 233255882--233256347 Score: 400
Period size: 131 Copynumber: 3.5 Consensus size: 130
233255872 TTCCGAAAAG
* * ** *
233255882 ATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACGATAGGGTACT-ATTCCCTGAA
1 ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCA-TGATTCCC-GAA
** ** * * * * * **** *
233255946 TTGCCGGACATCAAATATCGCCTTCATTTTAAAGGGTTTTTAGAAAACGTGAGTGAAGTTTTGAA
64 TTATCAAACACCGAGTATTGCCTTCATTTCAAA-GGTTTTTAGAAAACGTGAGTGAAAACCTAAA
233256011 GGA
128 GGA
* * * ** * *
233256014 ATCTTCGATTGTTTTGAAAAAACGAGAAATCACAACCCAACGTGTTAGGGCACGATTCCCGAATT
1 ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCCCGAATT
* * **
233256079 ATCAAACACCGAGTATTGTCTTCTTTTTGGAAGGTTTTTA-ATAAACGTGAGTGAAAACCTAAAG
66 ATCAAACACCGAGTATTGCCTTC-ATTTCAAAGGTTTTTAGA-AAACGTGAGTGAAAACCTAAAG
233256143 GA
129 GA
* *
233256145 ATATTCAATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCTCGAATT
1 ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCCCGAATT
* * *** *
233256210 ATCAAACACCGAGTATTGCCTTCATTTCAAAGGATTTTTAGAAGACATGAGTGAAATTTTGAAGG
66 ATCAAACACCGAGTATTGCCTTCATTTCAAAGG-TTTTTAGAAAACGTGAGTGAAAACCTAAAGG
*
233256275 G
130 A
* * * ** * * *
233256276 ATATTTGATTATTTT-AAGCAAAC-AAAGAATTGCAACCCAGCACGTTAGGGCACGATTCCGTGA
1 ATATTCGATTGTTTTGAA-CAAACGAGA-AATCACAACCCAGCACGATAGGGCATGATTCC-CGA
233256339 ATTATCAAA
63 ATTATCAAA
233256348 TATCGCATAT
Statistics
Matches: 267, Mismatches: 59, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
130 12 0.04
131 191 0.72
132 64 0.24
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (130 bp):
ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCCCGAATT
ATCAAACACCGAGTATTGCCTTCATTTCAAAGGTTTTTAGAAAACGTGAGTGAAAACCTAAAGGA
Found at i:233256381 original size:262 final size:262
Alignment explanation
Indices: 233255882--233256384 Score: 552
Period size: 262 Copynumber: 1.9 Consensus size: 262
233255872 TTCCGAAAAG
* * ** *
233255882 ATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACGATAGGGTACTATTCCCTGAAT
1 ATATTCAATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCACTATTCCCTGAAT
* ** * * * * *
233255947 TGCCGGACATCAAATATCGCCTTCATTTTAAAGGGTTTTTAGAAAACGTGAGTGAAGTTTTGAAG
66 TACCAAACACCAAATATCGCCTTCATTTCAAAGGATTTTTAGAAAACATGAGTGAAATTTTGAAG
* * * **
233256012 GAATCTTCGATTGTTTTGAAAAAACGAGAAATCACAACCCAACGTGTTAGGGCACGATTCCCGAA
131 GAATATTCGATTATTTTGAAAAAACAAGAAATCACAACCCAACACGTTAGGGCACGATTCCCGAA
* * *
233256077 TTATCAAACACCGAGTATTGTCTTCTTTTTGGAAGGTTTTTAATAAACGTGAGTGAAAACCTAAA
196 TTATCAAACACCGAGTATCGCCTTCTGTTT-GAAGGTTTTTAATAAACGTGAGTGAAAACCTAAA
233256142 GGA
260 GGA
* *
233256145 ATATTCAATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCA-TGATTCTC-GAA
1 ATATTCAATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCACT-ATTCCCTGAA
* * * * *
233256208 TTATCAAACACCGAGTATTGCCTTCATTTCAAAGGATTTTTAGAAGACATGAGTGAAATTTTGAA
65 TTACCAAACACCAAATATCGCCTTCATTTCAAAGGATTTTTAGAAAACATGAGTGAAATTTTGAA
* * * ** *
233256273 GGGATATTTGATTATTTT-AAGCAAACAA-AGAATTGCAACCCAGCACGTTAGGGCACGATTCCG
130 GGAATATTCGATTATTTTGAA-AAAACAAGA-AATCACAACCCAACACGTTAGGGCACGATTCC-
* * *
233256336 TGAATTATCAAATATCGCA-TATCGCCTTC-GTTT-AAGGGATTTTTAATAA
192 CGAATTATCAAACACCG-AGTATCGCCTTCTGTTTGAA-GG-TTTTTAATAA
233256385 TTGTGAAACT
Statistics
Matches: 196, Mismatches: 37, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
260 2 0.01
261 5 0.03
262 115 0.59
263 73 0.37
264 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (262 bp):
ATATTCAATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCACTATTCCCTGAAT
TACCAAACACCAAATATCGCCTTCATTTCAAAGGATTTTTAGAAAACATGAGTGAAATTTTGAAG
GAATATTCGATTATTTTGAAAAAACAAGAAATCACAACCCAACACGTTAGGGCACGATTCCCGAA
TTATCAAACACCGAGTATCGCCTTCTGTTTGAAGGTTTTTAATAAACGTGAGTGAAAACCTAAAG
GA
Found at i:233259797 original size:40 final size:40
Alignment explanation
Indices: 233259695--233259862 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
233259685 AAATTGAATG
* * * * *
233259695 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* ***
233259735 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* *
233259775 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAATT
* * * *
233259815 CTATCCGGGCTAGGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GTAATT
233259855 ATATCCGG
1 ATATCCGG
233259863 TTATATTCCG
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
39 4 0.04
40 100 0.94
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
Found at i:233266615 original size:40 final size:40
Alignment explanation
Indices: 233266513--233266662 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 40
233266503 AAATTGAATG
* * * * *
233266513 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* ***
233266553 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* *
233266593 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAATT
* *
233266633 CTATCC-GGCT-AGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
233266663 ACGTGATTAN
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
38 16 0.17
39 9 0.10
40 67 0.73
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
Found at i:233268305 original size:40 final size:40
Alignment explanation
Indices: 233268260--233268339 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
233268250 AAGATGAGTC
233268260 AGATTTTGAGGGATTTGCAAATAAATAAAAAGGGGGATCT
1 AGATTTTGAGGGATTTGCAAATAAATAAAAAGGGGGATCT
233268300 AGATTTTGAGGGATTTGCAAATAAATAAAAAGGGGGATCT
1 AGATTTTGAGGGATTTGCAAATAAATAAAAAGGGGGATCT
233268340 TTACTTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.28
Consensus pattern (40 bp):
AGATTTTGAGGGATTTGCAAATAAATAAAAAGGGGGATCT
Found at i:233271254 original size:39 final size:39
Alignment explanation
Indices: 233271200--233271346 Score: 249
Period size: 39 Copynumber: 3.7 Consensus size: 39
233271190 TGTTCGGGTA
*
233271200 ATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
233271239 ATATCCGGGCTAAGCCCGAAGGCAATTGTACGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
233271278 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
* *
233271317 ATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGT
233271347 TCGGGCTACC
Statistics
Matches: 102, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 88 0.86
40 14 0.14
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:233279138 original size:39 final size:39
Alignment explanation
Indices: 233279061--233279209 Score: 264
Period size: 39 Copynumber: 3.8 Consensus size: 39
233279051 TGTTCGGGTA
233279061 ATATCCGGGCTAAGCCCGAAGGC-ATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
233279099 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
233279138 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
* *
233279177 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
233279210 GGCTACCATA
Statistics
Matches: 107, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
38 23 0.21
39 67 0.63
40 17 0.16
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:233279227 original size:79 final size:77
Alignment explanation
Indices: 233279065--233279228 Score: 238
Period size: 79 Copynumber: 2.1 Consensus size: 77
233279055 CGGGTAATAT
233279065 CCGGGCTAAGCCCGAAGGCATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC
1 CCGGGCTAAGCCCGAAGGCATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC
* *** *
233279130 GAGTTGTGATAT
66 GAGCTACCATAA
* *
233279142 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGC-ATTGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGT
*
233279207 GCGGGCTACCATAA
64 GCGAGCTACCATAA
233279221 CCGGGCTA
1 CCGGGCTA
233279229 TTCGAGTTAA
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
77 19 0.25
78 28 0.36
79 30 0.39
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.23
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC
GAGCTACCATAA
Found at i:233285840 original size:40 final size:40
Alignment explanation
Indices: 233285716--233285866 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
233285706 TCGAATGATG
* * *
233285716 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-GACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCTACCAAA
* * *
233285755 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* **
233285795 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
233285836 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
233285867 TCGCTATATC
Statistics
Matches: 92, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
39 21 0.23
40 69 0.75
41 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:233288532 original size:26 final size:26
Alignment explanation
Indices: 233288494--233288626 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
233288484 TGATACAAAT
*
233288494 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
233288520 TGATAATGTGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
233288546 TGATAATGGGTTAGGTAAATGTTT-A
1 TGATAATGGGTTAGGTAAATGTTTCA
233288571 TGATAAT--GTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
233288595 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
233288621 TGATAA
1 TGATAA
233288627 GAATTTCATG
Statistics
Matches: 101, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
23 15 0.15
24 8 0.08
25 8 0.08
26 70 0.69
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.40
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:233288599 original size:49 final size:51
Alignment explanation
Indices: 233288494--233288627 Score: 236
Period size: 49 Copynumber: 2.6 Consensus size: 51
233288484 TGATACAAAT
*
233288494 TGATAATAGGTTAGGTAAATGTTTCATGATAATGTGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCATGATAA-GTGTTAGGTAAATGTTTCA
233288546 TGATAATGGGTTAGGTAAATGTTT-ATGATAA-TGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCATGATAAGTGTTAGGTAAATGTTTCA
233288595 TGATAATGGGTTAGGTAAATGTTTCATGATAAG
1 TGATAATGGGTTAGGTAAATGTTTCATGATAAG
233288628 AATTTCATGT
Statistics
Matches: 79, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
49 42 0.53
50 7 0.09
51 7 0.09
52 23 0.29
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.40
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTTCATGATAAGTGTTAGGTAAATGTTTCA
Found at i:233291832 original size:12 final size:12
Alignment explanation
Indices: 233291815--233291845 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
233291805 ACTCGGGGAA
233291815 GAGGCCGTGGTC
1 GAGGCCGTGGTC
233291827 GAGGCCGTGGTC
1 GAGGCCGTGGTC
233291839 GAGGCCG
1 GAGGCCG
233291846 AGGTAGTACT
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:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:233296703 original size:26 final size:26
Alignment explanation
Indices: 233296665--233296800 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
233296655 TGATACAAAT
*
233296665 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
233296691 TGATAATGTGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
233296717 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTTCA
**
233296743 TGATAATGTATTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
233296769 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
233296795 TGATAA
1 TGATAA
233296801 GAATTTCATG
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.40
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:233300014 original size:12 final size:12
Alignment explanation
Indices: 233299997--233300027 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
233299987 ACTCGGGGAA
233299997 GAGGCCGTGGTC
1 GAGGCCGTGGTC
233300009 GAGGCCGTGGTC
1 GAGGCCGTGGTC
233300021 GAGGCCG
1 GAGGCCG
233300028 AGGTAGTACT
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:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:233304879 original size:26 final size:26
Alignment explanation
Indices: 233304841--233304976 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
233304831 TGATACAAAT
*
233304841 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
233304867 TGATAATGTGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
233304893 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTTCA
**
233304919 TGATAATGTATTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
233304945 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
233304971 TGATAA
1 TGATAA
233304977 GAATTTCATG
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.40
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:233306064 original size:30 final size:30
Alignment explanation
Indices: 233306017--233306088 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
233306007 AGGGGTTAAT
233306017 ACGTAGTTTGT-ATTTGAATAGTTAGATTA
1 ACGTAGTTTGTAATTTGAATAGTTAGATTA
233306046 ACGTAGTTTGTAATTTGAATAGTTAGATTA
1 ACGTAGTTTGTAATTTGAATAGTTAGATTA
*
233306076 ACGT-GTTAGTAAT
1 ACGTAGTTTGTAAT
233306089 CCAATTGTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 19 0.46
30 22 0.54
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (30 bp):
ACGTAGTTTGTAATTTGAATAGTTAGATTA
Found at i:233310749 original size:28 final size:29
Alignment explanation
Indices: 233310682--233310753 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
233310672 ATAGTGAATC
*
233310682 CGCACACTTAGTGCTATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATTCAACT
233310711 CGCACACTTAGTGCTATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATTC-AACT
233310739 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
233310754 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATTCAACT
Found at i:233310775 original size:30 final size:28
Alignment explanation
Indices: 233310681--233310782 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
233310671 TATAGTGAAT
* *
233310681 CCGCACACTTAGTGCTATATATATTC-AGC
1 CCGCACACTTAGTGCTATACA-A-TCAAAC
* *
233310710 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
233310738 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAA--TCAAAC
*
233310768 CCGCACACTCAGTGC
1 CCGCACACTTAGTGC
233310783 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.37
29 20 0.32
30 18 0.29
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:233318487 original size:28 final size:29
Alignment explanation
Indices: 233318420--233318491 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
233318410 ATAGTGAATC
*
233318420 CGCACACTTAGTGCTATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATTCAACT
233318449 CGCACACTTAGTGCTATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATTC-AACT
233318477 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
233318492 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATTCAACT
Found at i:233318513 original size:30 final size:28
Alignment explanation
Indices: 233318419--233318520 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
233318409 TATAGTGAAT
* *
233318419 CCGCACACTTAGTGCTATATATATTC-AGC
1 CCGCACACTTAGTGCTATACA-A-TCAAAC
* *
233318448 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
233318476 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAA--TCAAAC
*
233318506 CCGCACACTCAGTGC
1 CCGCACACTTAGTGC
233318521 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.37
29 20 0.32
30 18 0.29
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:233326228 original size:28 final size:29
Alignment explanation
Indices: 233326161--233326232 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
233326151 ATAGTGAATC
*
233326161 CGCACACTTAGTGCTATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATTCAACT
233326190 CGCACACTTAGTGCTATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATTC-AACT
233326218 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
233326233 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATTCAACT
Found at i:233326254 original size:30 final size:28
Alignment explanation
Indices: 233326160--233326261 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
233326150 TATAGTGAAT
* *
233326160 CCGCACACTTAGTGCTATATATATTC-AGC
1 CCGCACACTTAGTGCTATACA-A-TCAAAC
* *
233326189 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
233326217 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAA--TCAAAC
*
233326247 CCGCACACTCAGTGC
1 CCGCACACTTAGTGC
233326262 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.37
29 20 0.32
30 18 0.29
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:233327585 original size:26 final size:24
Alignment explanation
Indices: 233327549--233327597 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
233327539 GCATCCACAC
233327549 TTTTTTTTTTCATCATTTTCCTTT
1 TTTTTTTTTTCATCATTTTCCTTT
* *
233327573 TTTTTTTCATTTCTTTATTTTCCTT
1 TTTTTTT--TTTCATCATTTTCCTT
233327598 CCATAATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
26 14 0.67
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTTTTTTCATCATTTTCCTTT
Found at i:233339145 original size:41 final size:41
Alignment explanation
Indices: 233339100--233339217 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
233339090 TGAAAGATAA
233339100 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
233339141 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
233339171 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
233339212 ATGTAG
1 ATGTAG
233339218 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:233339156 original size:71 final size:71
Alignment explanation
Indices: 233339068--233339231 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
233339058 GAGATGTATC
233339068 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
233339133 AGGACA
66 AGGACA
233339139 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
233339204 AGGACA
66 AGGACA
233339210 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
233339232 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:233346717 original size:41 final size:41
Alignment explanation
Indices: 233346672--233346789 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
233346662 TGAAAGATAA
233346672 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
233346713 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
233346743 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
233346784 ATGTAG
1 ATGTAG
233346790 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:233346728 original size:71 final size:71
Alignment explanation
Indices: 233346640--233346803 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
233346630 GAGATGTATC
233346640 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
233346705 AGGACA
66 AGGACA
233346711 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
233346776 AGGACA
66 AGGACA
233346782 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
233346804 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:233351325 original size:40 final size:40
Alignment explanation
Indices: 233351280--233351409 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
233351270 CGGAATACAA
233351280 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
233351320 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
233351360 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
233351400 CCGGATATAA
1 CCGGATATAA
233351410 TTTCCAGCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:233359436 original size:40 final size:40
Alignment explanation
Indices: 233359391--233359520 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
233359381 CGGAATACAA
233359391 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
233359431 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
233359471 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
233359511 CCGGATATAA
1 CCGGATATAA
233359521 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:233367493 original size:40 final size:40
Alignment explanation
Indices: 233367448--233367577 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
233367438 CGGAATACAA
233367448 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
233367488 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
233367528 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
233367568 CCGGATATAA
1 CCGGATATAA
233367578 TTTCCAGCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:233373003 original size:1 final size:1
Alignment explanation
Indices: 233372997--233373071 Score: 105
Period size: 1 Copynumber: 75.0 Consensus size: 1
233372987 ATCATCAAAC
* * * * *
233372997 TTTTTTTTTCTTTTCTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTGTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
233373062 TTTTTTTTTT
1 TTTTTTTTTT
233373072 GAACATGATC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.00, C:0.04, G:0.03, T:0.93
Consensus pattern (1 bp):
T
Found at i:233381853 original size:136 final size:137
Alignment explanation
Indices: 233381609--233381894 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
233381599 CATTGGGCCT
** * *
233381609 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
233381674 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
233381738 CATATGC
131 CATATGC
233381745 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
233381810 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
233381875 CATATGC
131 CATATGC
233381882 AAGCCCATTTGGG
1 AAGCCCATTTGGG
233381895 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 122 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:233383684 original size:26 final size:26
Alignment explanation
Indices: 233383648--233383757 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
233383638 CATGAATTTC
*
233383648 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
233383674 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
233383700 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
233383726 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
233383752 TTATCA
1 TTATCA
233383758 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:233388639 original size:12 final size:12
Alignment explanation
Indices: 233388622--233388676 Score: 110
Period size: 12 Copynumber: 4.6 Consensus size: 12
233388612 AGTACTACCT
233388622 CGGCCTCGACCA
1 CGGCCTCGACCA
233388634 CGGCCTCGACCA
1 CGGCCTCGACCA
233388646 CGGCCTCGACCA
1 CGGCCTCGACCA
233388658 CGGCCTCGACCA
1 CGGCCTCGACCA
233388670 CGGCCTC
1 CGGCCTC
233388677 TTCCCCGAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.15, C:0.51, G:0.25, T:0.09
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:233392834 original size:40 final size:39
Alignment explanation
Indices: 233392701--233392851 Score: 162
Period size: 39 Copynumber: 3.8 Consensus size: 39
233392691 CGAATGGTAT
* * *
233392701 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAG-TGAACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT--ATTAAA
* *
233392742 TCCGGTC-AATTCCCGAAGGCATTTGTGCGAGCTATTAAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTAAA
*
233392781 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTA-AA
* * *
233392821 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
233392852 TCGCTATATC
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
38 4 0.04
39 34 0.36
40 31 0.33
41 20 0.21
42 5 0.05
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTAAA
Found at i:233401018 original size:548 final size:548
Alignment explanation
Indices: 233399982--233401076 Score: 2145
Period size: 548 Copynumber: 2.0 Consensus size: 548
233399972 CGGCCCTTGC
233399982 ACCTATATGTATATATGTTTGCACATGATGTATTGGTATGACATATATACTATCTCAAGGTATAT
1 ACCTATATGTATATATGTTTGCACATGATGTATTGGTATGACATATATACTATCTCAAGGTATAT
233400047 ATTTACTTATGATGATGTTTCGGTTATGAAGTAAATGATAGATGTGTATTGAACTACAATATGTA
66 ATTTACTTATGATGATGTTTCGGTTATGAAGTAAATGATAGATGTGTATTGAACTACAATATGTA
233400112 ATGCATTAGTTAGTAAAATGTAAGCCGTTCATGTGTGGTATTAAACATGTAATTGGCCTCAACAT
131 ATGCATTAGTTAGTAAAATGTAAGCCGTTCATGTGTGGTATTAAACATGTAATTGGCCTCAACAT
233400177 CAACATGCATAATCGGCCACATGAATGAGTACATAGGTTGATGTGTTGTTCGGCCATAAGTAAGC
196 CAACATGCATAATCGGCCACATGAATGAGTACATAGGTTGATGTGTTGTTCGGCCATAAGTAAGC
233400242 ATGTTGAAGGCTTTATCTCGTCCTAGAAAAATTCGGCTAAGGAGAGTACTAACTAATGTGTTGAG
261 ATGTTGAAGGCTTTATCTCGTCCTAGAAAAATTCGGCTAAGGAGAGTACTAACTAATGTGTTGAG
*
233400307 TTTGATGCATGATTTCTCATGTATGTGACTTTAATGTCTAATGTATAAGTGTGGGCTAAGTGCCT
326 TTTGATGCATGATTTCACATGTATGTGACTTTAATGTCTAATGTATAAGTGTGGGCTAAGTGCCT
*
233400372 TGTGTTCCTCTTTTCGATGCTCAAATGATTAAATCGATTTATTTATTTAATTAAGCTCAAGAGCA
391 TGTGTTCCTCTTTTCGATGCTCAAATGATTAAATCGATTTACTTATTTAATTAAGCTCAAGAGCA
233400437 AAGGGGATCCAAATCCGATAAAGGGAAGGAAAAAGTGGTCGAATAGCCATCGAAATCGTTCGACG
456 AAGGGGATCCAAATCCGATAAAGGGAAGGAAAAAGTGGTCGAATAGCCATCGAAATCGTTCGACG
233400502 ACATCCGAGGTAAGTTTTCGAGTAATGA
521 ACATCCGAGGTAAGTTTTCGAGTAATGA
*
233400530 ACCTATATGTATATATGTTTGCACATGATGTATTGGTATGACATATATATTATCTCAAGGTATAT
1 ACCTATATGTATATATGTTTGCACATGATGTATTGGTATGACATATATACTATCTCAAGGTATAT
233400595 ATTTACTTATGATGATGTTTCGGTTATGAAGTAAATGATAGATGTGTATTGAACTACAATATGTA
66 ATTTACTTATGATGATGTTTCGGTTATGAAGTAAATGATAGATGTGTATTGAACTACAATATGTA
*
233400660 ATGCATTAGTTAGTAAAATGTATGCCGTTCATGTGTGGTATTAAACATGTAATTGGCCTCAACAT
131 ATGCATTAGTTAGTAAAATGTAAGCCGTTCATGTGTGGTATTAAACATGTAATTGGCCTCAACAT
233400725 CAACATGCATAATCGGCCACATGAATGAGTACATAGGTTGATGTGTTGTTCGGCCATAAGTAAGC
196 CAACATGCATAATCGGCCACATGAATGAGTACATAGGTTGATGTGTTGTTCGGCCATAAGTAAGC
233400790 ATGTTGAAGGCTTTATCTCGTCCTAGAAAAATTCGGCTAAGGAGAGTACTAACTAATGTGTTGAG
261 ATGTTGAAGGCTTTATCTCGTCCTAGAAAAATTCGGCTAAGGAGAGTACTAACTAATGTGTTGAG
233400855 TTTGATGCATGATTTCACATGTATGTGACTTTAATGTCTAATGTATAAGTGTGGGCTAAGTGCCT
326 TTTGATGCATGATTTCACATGTATGTGACTTTAATGTCTAATGTATAAGTGTGGGCTAAGTGCCT
233400920 TGTGTTCCTCTTTTCGATGCTCAAATGATTAAATCGATTTACTTATTTAATTAAGCTCAAGAGCA
391 TGTGTTCCTCTTTTCGATGCTCAAATGATTAAATCGATTTACTTATTTAATTAAGCTCAAGAGCA
*
233400985 AAGGGGATCCAAATCTGATAAAGGGAAGGAAAAAGTGGTCGAATAGCCATCGAAATCGTTCGACG
456 AAGGGGATCCAAATCCGATAAAGGGAAGGAAAAAGTGGTCGAATAGCCATCGAAATCGTTCGACG
233401050 ACATCCGAGGTAAGTTTTCGAGTAATG
521 ACATCCGAGGTAAGTTTTCGAGTAATG
233401077 GAACTTAGAT
Statistics
Matches: 542, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
548 542 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (548 bp):
ACCTATATGTATATATGTTTGCACATGATGTATTGGTATGACATATATACTATCTCAAGGTATAT
ATTTACTTATGATGATGTTTCGGTTATGAAGTAAATGATAGATGTGTATTGAACTACAATATGTA
ATGCATTAGTTAGTAAAATGTAAGCCGTTCATGTGTGGTATTAAACATGTAATTGGCCTCAACAT
CAACATGCATAATCGGCCACATGAATGAGTACATAGGTTGATGTGTTGTTCGGCCATAAGTAAGC
ATGTTGAAGGCTTTATCTCGTCCTAGAAAAATTCGGCTAAGGAGAGTACTAACTAATGTGTTGAG
TTTGATGCATGATTTCACATGTATGTGACTTTAATGTCTAATGTATAAGTGTGGGCTAAGTGCCT
TGTGTTCCTCTTTTCGATGCTCAAATGATTAAATCGATTTACTTATTTAATTAAGCTCAAGAGCA
AAGGGGATCCAAATCCGATAAAGGGAAGGAAAAAGTGGTCGAATAGCCATCGAAATCGTTCGACG
ACATCCGAGGTAAGTTTTCGAGTAATGA
Found at i:233401382 original size:40 final size:40
Alignment explanation
Indices: 233401299--233401408 Score: 159
Period size: 40 Copynumber: 2.8 Consensus size: 40
233401289 GTGACTAAAT
* *
233401299 CCGGGTCAATTCCCGAAGGCATTTGTGC-AGCTATTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
233401338 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
* * * *
233401378 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAG
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
233401409 TCGCTATATC
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
39 26 0.41
40 38 0.59
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
Found at i:233409272 original size:37 final size:38
Alignment explanation
Indices: 233409181--233409327 Score: 142
Period size: 37 Copynumber: 3.9 Consensus size: 38
233409171 TCGAATGATG
* *
233409181 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTA-TAA
* *
233409220 TCCGGTC-AA-TTCCGAAGGCATTTGTGCGAGTTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATAA
*
233409255 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG---TTATAA
* * *
233409296 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
233409328 CGCTATATCC
Statistics
Matches: 90, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
35 7 0.08
36 2 0.02
37 34 0.38
38 9 0.10
39 6 0.07
40 30 0.33
41 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (38 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATAA
Found at i:233412744 original size:79 final size:79
Alignment explanation
Indices: 233412605--233412809 Score: 211
Period size: 79 Copynumber: 2.6 Consensus size: 79
233412595 CGGAATACAA
* *
233412605 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
233412669 GCCTTCGGGTATTAGC
65 GCCTTC-GGTATTAAC
* * * **
233412685 CCGGATTTAACAACTTGCACGAATGCCTTC-GGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
233412748 GCCTTCGGTCTTAAC
65 GCCTTCGGTATTAAC
** ** * *
233412763 CCGGATATAATTAC-TAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACAT-GCACGAATGCCTTCGGGTCTTAGCCCGGATA
233412810 TCATTCAATC
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
77 1 0.01
78 32 0.31
79 42 0.40
80 29 0.28
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGTATTAAC
Found at i:233412779 original size:39 final size:40
Alignment explanation
Indices: 233412605--233412810 Score: 188
Period size: 40 Copynumber: 5.2 Consensus size: 40
233412595 CGGAATACAA
*
233412605 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTA-GCACGAATGCCTTCGGGTCTTAGC
* * * * *
233412645 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
* *
233412685 CCGGATTTAACAACTTGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
* ** *
233412724 CCGGATGTGGTC-ACTAGCAC-AATGGCCTTC-GGTCTTAAC
1 CCGGATAT-AACAACTAGCACGAAT-GCCTTCGGGTCTTAGC
** ** * *
233412763 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
233412803 CCGGATAT
1 CCGGATAT
233412811 CATTCAATCT
Statistics
Matches: 137, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
38 3 0.02
39 55 0.40
40 79 0.58
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:233420668 original size:40 final size:39
Alignment explanation
Indices: 233420623--233420830 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
233420613 CGGAATACAA
*
233420623 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
233420663 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
233420703 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
233420743 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
233420783 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
233420823 CCGGATAT
1 CCGGATAT
233420831 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:233420763 original size:80 final size:80
Alignment explanation
Indices: 233420623--233420829 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
233420613 CGGAATACAA
* * *
233420623 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
233420687 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
233420703 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
233420767 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
233420783 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
233420830 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:233430286 original size:78 final size:77
Alignment explanation
Indices: 233430165--233430348 Score: 250
Period size: 78 Copynumber: 2.4 Consensus size: 77
233430155 ATACCACTCG
233430165 CAAAGCCTTCGGGTCTTAGCCCGGATATGTACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGAT
1 CAAAGCCTTCGGGTCTTAGCCCGGATATGTACTAGCACAAATGCCTTC-GGATCTTAGCCCGGAT
233430229 ATAGT-C-TAGCA
65 ATAGTACTTAGCA
* * *
233430240 CAAATGCCTTCGGGT-TTTGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAA-GCCTTCGGGTCTTAGCCCGGA-TAT-GT-ACTAGCACAAATGCCTTCGGATCTTAGCCCG
233430304 GATATAGTCACTTAGCA
62 GATATAGT-ACTTAGCA
*
233430321 CAAAGCCTTCGGGACTTAGCCCGGATAT
1 CAAAGCCTTCGGGTCTTAGCCCGGATAT
233430349 CATTCGAATA
Statistics
Matches: 95, Mismatches: 5, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
75 13 0.14
76 13 0.14
77 5 0.05
78 33 0.35
80 13 0.14
81 18 0.19
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (77 bp):
CAAAGCCTTCGGGTCTTAGCCCGGATATGTACTAGCACAAATGCCTTCGGATCTTAGCCCGGATA
TAGTACTTAGCA
Found at i:233430291 original size:40 final size:39
Alignment explanation
Indices: 233430165--233430348 Score: 243
Period size: 38 Copynumber: 4.7 Consensus size: 39
233430155 ATACCACTCG
233430165 CAAA-GCCTTCGGGTCTTAGCCCGGATAT-GTACTAGCA
1 CAAATGCCTTCGGGTCTTAGCCCGGATATAGTACTAGCA
*
233430202 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-CTAGCA
1 CAAATGCCTTCGGGTCTTAGCCCGGATATAGTACTAGCA
* *
233430240 CAAATGCCTTCGGGT-TTTGCCCGGATTATAGTAACTCGCA
1 CAAATGCCTTCGGGTCTTAGCCCGGA-TATAGT-ACTAGCA
* *
233430280 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGTCTTAGCCCGGATATAGT-AC-TAGCA
*
233430321 CAAA-GCCTTCGGGACTTAGCCCGGATAT
1 CAAATGCCTTCGGGTCTTAGCCCGGATAT
233430349 CATTCGAATA
Statistics
Matches: 128, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
37 13 0.10
38 49 0.38
39 2 0.02
40 48 0.38
41 16 0.12
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGTCTTAGCCCGGATATAGTACTAGCA
Found at i:233434145 original size:29 final size:29
Alignment explanation
Indices: 233434111--233434213 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
233434101 TAATCAGCCG
** *
233434111 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
233434140 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
233434169 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
233434198 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
233434214 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:233442223 original size:29 final size:29
Alignment explanation
Indices: 233442189--233442291 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
233442179 TAATCAGCCG
** *
233442189 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
233442218 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
233442247 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
233442276 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
233442292 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:233450283 original size:29 final size:29
Alignment explanation
Indices: 233450249--233450351 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
233450239 TAATCAGCCG
** *
233450249 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
233450278 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
233450307 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
233450336 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
233450352 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:233454216 original size:23 final size:24
Alignment explanation
Indices: 233454172--233454257 Score: 147
Period size: 24 Copynumber: 3.6 Consensus size: 24
233454162 AATCTCAAAT
233454172 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
233454196 GCACTATGTGT-CAATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
233454219 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
233454243 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
233454258 ACATAATAAG
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
23 21 0.37
24 36 0.63
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:233454225 original size:47 final size:48
Alignment explanation
Indices: 233454172--233454279 Score: 166
Period size: 47 Copynumber: 2.3 Consensus size: 48
233454162 AATCTCAAAT
** *
233454172 GCACTATGTGTGCGATTTACTATGGCACTATGTGT-C-AATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
233454219 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
233454267 GCACTATGTGTGC
1 GCACTATGTGTGC
233454280 AACGTTTGGT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
47 35 0.62
48 15 0.27
49 6 0.11
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:233455749 original size:28 final size:28
Alignment explanation
Indices: 233455684--233455784 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
233455674 ATAGTGAATC
*
233455684 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
233455713 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
233455741 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
233455771 CGCACACTTAGTGC
1 CGCACACTTAGTGC
233455785 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:233463695 original size:28 final size:28
Alignment explanation
Indices: 233463630--233463730 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
233463620 ATAGTGAATC
*
233463630 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
233463659 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
233463687 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
233463717 CGCACACTTAGTGC
1 CGCACACTTAGTGC
233463731 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:233470730 original size:40 final size:40
Alignment explanation
Indices: 233470685--233470852 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
233470675 CGGAATATAA
233470685 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
233470725 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
233470765 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
233470805 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
233470845 CCGGATAT
1 CCGGATAT
233470853 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:233470835 original size:80 final size:80
Alignment explanation
Indices: 233470701--233470850 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
233470691 ATAACCACGT
* *
233470701 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
233470766 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
233470781 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
233470844 CCCGGAT
64 CCCGGAT
233470851 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:233474644 original size:80 final size:80
Alignment explanation
Indices: 233474560--233474708 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
233474550 TATGGTAACC
* * * *
233474560 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
233474624 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
233474640 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
233474705 CCGG
66 CCGG
233474709 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:233474650 original size:40 final size:38
Alignment explanation
Indices: 233474601--233474708 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
233474591 ATCACGATTT
*
233474601 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
233474641 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
233474681 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
233474709 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:233482766 original size:40 final size:37
Alignment explanation
Indices: 233482685--233482822 Score: 123
Period size: 40 Copynumber: 3.5 Consensus size: 37
233482675 CCGCACCAAG
* * * * *
233482685 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATAGC-C-ACTAGCAC-AAT
* ** *
233482725 GCCTTCGGGTCTTATCCCGGATAGAATGACTCGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATAG--CCACTAGCAC-AAT
*
233482765 GCCTTCGGGTCTTAGCCCGGATAGCCACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATAGCCACTAGCACAA-T
233482803 GCCTTCGGGTCTTAACCCGG
1 GCCTTCGGGTCTTAACCCGG
233482823 TATAATTTCC
Statistics
Matches: 81, Mismatches: 14, Indels: 8
0.79 0.14 0.08
Matches are distributed among these distances:
37 2 0.02
38 27 0.33
40 52 0.64
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.24
Consensus pattern (37 bp):
GCCTTCGGGTCTTAACCCGGATAGCCACTAGCACAAT
Found at i:233490827 original size:80 final size:80
Alignment explanation
Indices: 233490743--233490891 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
233490733 TATGGTAACC
* * * *
233490743 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
233490807 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
233490823 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
233490888 CCGG
66 CCGG
233490892 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:233490833 original size:40 final size:38
Alignment explanation
Indices: 233490784--233490891 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
233490774 ATCACGATTT
*
233490784 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
233490824 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
233490864 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
233490892 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:233495533 original size:40 final size:40
Alignment explanation
Indices: 233495406--233495535 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
233495396 ATGCTGGAAA
* *
233495406 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
233495446 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
233495486 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
233495526 TTATATCCGG
1 TTATATCCGG
233495536 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:233504399 original size:15 final size:15
Alignment explanation
Indices: 233504379--233504447 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
233504369 GTATCTTGGG
233504379 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
233504394 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
233504409 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
233504424 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
233504439 TTTCTTTAT
1 TTTCTTTAT
233504448 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:233504448 original size:30 final size:30
Alignment explanation
Indices: 233504370--233504457 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
233504360 CATAGTATCG
* * * *
233504370 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
233504400 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
233504430 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
233504458 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:233511709 original size:40 final size:39
Alignment explanation
Indices: 233511656--233511765 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 39
233511646 CTGGAAATTA
* *
233511656 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGT--CATAC
*
233511697 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCATAC
233511736 TATCCGGGCTAAGACCCGAAGGCATTGTGC
1 TATCCGGGCTAAGACCCGAAGGCATTGTGC
233511766 ACGTGTTATA
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
38 1 0.02
39 9 0.14
40 53 0.84
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCATAC
Found at i:233515475 original size:40 final size:40
Alignment explanation
Indices: 233515367--233515615 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
233515357 CGGGATTTAA
* * * * *
233515367 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
233515407 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233515447 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233515487 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233515527 CCGGATATATCAACTCGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233515566 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233515606 CCGGATATAT
1 CCGGATATAT
233515616 TTCCAATGTT
Statistics
Matches: 191, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 40 0.21
40 151 0.79
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:233515596 original size:119 final size:120
Alignment explanation
Indices: 233515367--233515615 Score: 376
Period size: 119 Copynumber: 2.1 Consensus size: 120
233515357 CGGGATTTAA
* * * * * * *
233515367 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGTGACTTGCACAAAGG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGATAACTCGCACAAAGG
233515432 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
233515487 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAACTCGCACGAAT
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGAT-AACTCGCACAAAG
233515551 GCCTTC-GGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
65 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233515606 CCGGATATAT
1 CCGGATATAT
233515616 TTCCAATGTT
Statistics
Matches: 117, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
119 60 0.51
120 57 0.49
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (120 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGATAACTCGCACAAAGG
CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:233523567 original size:40 final size:40
Alignment explanation
Indices: 233523459--233523708 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
233523449 CGGGATTTAA
* * * * *
233523459 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
233523499 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233523539 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233523579 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233523619 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233523659 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233523699 CCGGATATAT
1 CCGGATATAT
233523709 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:233531665 original size:40 final size:40
Alignment explanation
Indices: 233531557--233531806 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
233531547 CGGGATTTAA
* * * * *
233531557 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
233531597 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233531637 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233531677 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233531717 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233531757 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
233531797 CCGGATATAT
1 CCGGATATAT
233531807 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:233535886 original size:40 final size:39
Alignment explanation
Indices: 233535841--233535967 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
233535831 CGGAACATAA
233535841 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
233535881 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
233535921 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
233535961 CCGGATA
1 CCGGATA
233535968 AATTTCCAGC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:233543858 original size:40 final size:39
Alignment explanation
Indices: 233543813--233543942 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
233543803 CGGAATATAA
233543813 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
233543853 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
233543893 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
233543933 CCGGATATAA
1 CCGGATATAA
233543943 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:233543957 original size:40 final size:40
Alignment explanation
Indices: 233543829--233543980 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
233543819 ATAACCATGT
* * *
233543829 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
233543869 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
233543909 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
233543949 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
233543981 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:233543963 original size:80 final size:80
Alignment explanation
Indices: 233543829--233543978 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
233543819 ATAACCATGT
*
233543829 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
233543893 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
233543909 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
233543972 CCCGGAT
64 CCCGGAT
233543979 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:233546089 original size:40 final size:40
Alignment explanation
Indices: 233546054--233546236 Score: 225
Period size: 40 Copynumber: 4.6 Consensus size: 40
233546044 TACTCGTTCG
*
233546054 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACA
* *
233546094 AATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACA
*
233546134 AATGCCTTCGGG-CTTAGCCCGG-GATTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACA
* *
233546173 AATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAAC-TCGCACA
233546214 AA-GCCTTCGGGACTTAGCCCGGT
1 AATGCCTTCGGGACTTAGCCCGGT
233546237 CATCATTCGA
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACA
Found at i:233546163 original size:79 final size:81
Alignment explanation
Indices: 233546054--233546235 Score: 257
Period size: 79 Copynumber: 2.3 Consensus size: 81
233546044 TACTCGTTCG
* *
233546054 AATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
233546117 ATTTAGTAAC-TCGCACC
65 ATTTAGTAACTTAGCA-C
**
233546134 AATGCCTTCGGG-CTTAGCCCGGGAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
233546197 TTTAGTAACTTAGCAC
66 TTTAGTAACTTAGCAC
*
233546213 AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
233546236 TCATCATTCG
Statistics
Matches: 92, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
78 3 0.03
79 60 0.65
80 29 0.32
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTTAGTAACTTAGCAC
Found at i:233552302 original size:77 final size:80
Alignment explanation
Indices: 233552175--233552355 Score: 262
Period size: 77 Copynumber: 2.3 Consensus size: 80
233552165 TACTCGTTCA
* *
233552175 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
*
233552239 TTTAGTAAC-TCGCAC
65 TTTAGTAACTTAGCAC
**
233552254 AATGCCTTCGGG-CTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
233552317 TTAGTCACTTAGCAC
66 TTAGTAACTTAGCAC
*
233552332 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
233552356 CATCATTCGA
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
76 3 0.03
77 40 0.43
78 26 0.28
79 23 0.25
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
TTAGTAACTTAGCAC
Found at i:233552355 original size:40 final size:40
Alignment explanation
Indices: 233552173--233552355 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
233552163 GCTACTCGTT
*
233552173 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
233552213 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
233552253 C-AATGCCTTCGGG-CTTAGCCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
233552290 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
233552331 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
233552356 CATCATTCGA
Statistics
Matches: 129, Mismatches: 7, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
37 16 0.12
38 19 0.15
39 22 0.17
40 59 0.46
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:233553615 original size:16 final size:16
Alignment explanation
Indices: 233553594--233553626 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
233553584 GTTTTCATCA
*
233553594 TTTTTTCTCC-TTTCT
1 TTTTTTTTCCATTTCT
233553609 TTTTTTTTCCATTTCT
1 TTTTTTTTCCATTTCT
233553625 TT
1 TT
233553627 ATTACTAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTTTCCATTTCT
Found at i:233555153 original size:40 final size:39
Alignment explanation
Indices: 233555108--233555238 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 39
233555098 TATGCTGGAA
*
233555108 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGTG
* * *
233555148 GTTATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCAATT-GTGC-AGTG
* *
233555188 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-GTG
233555228 ATTATATCCGG
1 ATTATATCCGG
233555239 TTATATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.05
40 71 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
ATTATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTG
Found at i:233561712 original size:40 final size:39
Alignment explanation
Indices: 233561646--233561811 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
233561636 AAATTGAATG
* * *
233561646 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
233561685 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
233561724 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
233561764 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
233561804 ATATCCGG
1 ATATCCGG
233561812 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:233570927 original size:44 final size:44
Alignment explanation
Indices: 233570844--233570959 Score: 159
Period size: 44 Copynumber: 2.7 Consensus size: 44
233570834 CCAGCATTTT
*
233570844 GCCTGCTAGGCTCGAA-GCCCGACATCA-T-TTCACGGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGA-AT-AGTATTCACGGGCATTATA
233570887 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC-GGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTAT-TCACGGGCATTATA
*
233570931 GCCTGCTAGGCTCAAAGGCCTGAATAGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
233570960 CTATACGATA
Statistics
Matches: 67, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
42 1 0.01
43 18 0.27
44 44 0.66
45 4 0.06
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (44 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATTCACGGGCATTATA
Found at i:233577239 original size:30 final size:30
Alignment explanation
Indices: 233577203--233577303 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
233577193 GACAAGATTG
* * *
233577203 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
233577233 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
233577261 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
233577290 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
233577304 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:233585226 original size:30 final size:30
Alignment explanation
Indices: 233585190--233585290 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
233585180 GACAAGATTG
* * *
233585190 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
233585220 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
233585248 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
233585277 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
233585291 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:233593259 original size:27 final size:27
Alignment explanation
Indices: 233593205--233593259 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
233593195 AAAATTGTAC
* ***
233593205 AGCACTAAGTGTGCGAGTTGATTCTAT
1 AGCACTAAGTGTGCGAGCTGAAAATAT
233593232 AGCACTAAGTGTGCGAGCTGAAAATAT
1 AGCACTAAGTGTGCGAGCTGAAAATAT
233593259 A
1 A
233593260 TAGCACTAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTGAAAATAT
Found at i:233602667 original size:19 final size:19
Alignment explanation
Indices: 233602647--233602688 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
233602637 TTGTTTTGCA
*
233602647 TTCATTCATTTGCATTACAT
1 TTCA-TCATGTGCATTACAT
*
233602667 TTCATCATGTGCATTAAAT
1 TTCATCATGTGCATTACAT
233602686 TTC
1 TTC
233602689 GTGAAAAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (19 bp):
TTCATCATGTGCATTACAT
Found at i:233610687 original size:66 final size:66
Alignment explanation
Indices: 233610615--233610780 Score: 228
Period size: 66 Copynumber: 2.5 Consensus size: 66
233610605 CATTCATACA
* *
233610615 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCACAGCATCCTAGTTATTTGA
1 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCACACCATCCTAATTATTTGA
*
233610680 T
66 C
* * * * *
233610681 TCATTCATAACACGTTTAATTAAGAGCATTTGATTCATTTCGATCATACCATCCTAATTATTTGA
1 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCACACCATCCTAATTATTTGA
233610746 C
66 C
* *
233610747 ACATTCAT--CACATCTAGTTAGGAGCATTTGATTC
1 TCATTCATAACACATCTAATTAGGAGCATTTGATTC
233610781 GACCATAGCA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
64 22 0.25
66 65 0.75
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (66 bp):
TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCACACCATCCTAATTATTTGA
C
Found at i:233611247 original size:44 final size:44
Alignment explanation
Indices: 233611096--233611247 Score: 132
Period size: 44 Copynumber: 3.5 Consensus size: 44
233611086 GATTTTGTCT
* * * *
233611096 CCCTAAGCAGTAGTGG-AGCAAATCAAAGATGATGGGCTTTAACC
1 CCCTAAGCAGTAG-GGTAACAGATCGAAGATGATGGGCCTTAACC
* * * * **
233611140 CCCTAAGCAGTAGGGTAACA-AGCCGCA-TTTATAGATCC-TAACC
1 CCCTAAGCAGTAGGGTAACAGA-TCGAAGATGAT-GGGCCTTAACC
* *
233611183 CCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGCCTTAACC
1 CCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCCTTAACC
*
233611227 CCCTAAGCAGTAGTGTAACAG
1 CCCTAAGCAGTAGGGTAACAG
233611248 GATTGAAATC
Statistics
Matches: 82, Mismatches: 20, Indels: 12
0.72 0.18 0.11
Matches are distributed among these distances:
43 35 0.43
44 47 0.57
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.20
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCCTTAACC
Found at i:233612089 original size:18 final size:19
Alignment explanation
Indices: 233612046--233612093 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
233612036 ATGCAAGCAA
*
233612046 CAGACAAACAAACAACAAG
1 CAGAAAAACAAACAACAAG
* *
233612065 CAAAAAAACAAA-AAGAAG
1 CAGAAAAACAAACAACAAG
233612083 CAG-AAAACAAA
1 CAGAAAAACAAA
233612094 GAGCAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 8 0.32
18 7 0.28
19 10 0.40
ACGTcount: A:0.71, C:0.19, G:0.10, T:0.00
Consensus pattern (19 bp):
CAGAAAAACAAACAACAAG
Found at i:233614930 original size:17 final size:16
Alignment explanation
Indices: 233614910--233614943 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
233614900 ACCTCTCTAT
233614910 AACAATTAATGCTATTA
1 AACAATTAATGC-ATTA
233614927 AACAATTAATGCATTA
1 AACAATTAATGCATTA
233614943 A
1 A
233614944 GCTTAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (16 bp):
AACAATTAATGCATTA
Found at i:233617637 original size:39 final size:39
Alignment explanation
Indices: 233617556--233617718 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
233617546 TATGGTAACC
* *
233617556 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
233617596 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
233617635 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
233617674 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
233617713 CGCACA
1 CGCACA
233617719 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:233625558 original size:39 final size:39
Alignment explanation
Indices: 233625477--233625639 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
233625467 TATGGTAACC
* *
233625477 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
233625517 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
233625556 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
233625595 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
233625634 CGCACA
1 CGCACA
233625640 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:233633633 original size:29 final size:29
Alignment explanation
Indices: 233633600--233633759 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
233633590 GTGACGAGAT
233633600 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
233633629 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
233633658 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
233633687 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
233633716 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
233633745 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
233633760 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:233640357 original size:40 final size:39
Alignment explanation
Indices: 233640312--233640441 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
233640302 CGGAATACAA
233640312 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
233640352 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
233640392 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
233640432 CCGGATATAA
1 CCGGATATAA
233640442 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:233648424 original size:40 final size:39
Alignment explanation
Indices: 233648379--233648508 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
233648369 CGGAATACAA
233648379 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
233648419 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
233648459 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
233648499 CCGGATATAA
1 CCGGATATAA
233648509 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:233658544 original size:24 final size:24
Alignment explanation
Indices: 233658514--233658895 Score: 666
Period size: 24 Copynumber: 16.1 Consensus size: 24
233658504 GAATGTGACT
* *
233658514 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
233658538 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233658562 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233658586 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
233658610 ATAGT---GCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
233658631 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233658655 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
233658678 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
233658702 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233658726 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233658750 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233658774 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233658798 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233658822 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233658845 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233658869 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233658893 ATA
1 ATA
233658896 TGGTCTTTGC
Statistics
Matches: 348, Mismatches: 5, Indels: 10
0.96 0.01 0.03
Matches are distributed among these distances:
21 20 0.06
23 46 0.13
24 282 0.81
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:233666688 original size:24 final size:24
Alignment explanation
Indices: 233666658--233666924 Score: 462
Period size: 24 Copynumber: 11.1 Consensus size: 24
233666648 GAATGTGACT
* *
233666658 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
233666682 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233666706 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233666730 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
233666754 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
233666778 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233666802 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
233666826 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
233666850 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233666874 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
233666898 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
233666922 ATA
1 ATA
233666925 TGGTCTTTGC
Statistics
Matches: 236, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 236 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:233674274 original size:25 final size:25
Alignment explanation
Indices: 233674234--233674308 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
233674224 TCGTCAATTT
233674234 CTATACAT--GTAAGCTCATACGAG
1 CTATACATCGGTAAGCTCATACGAG
* *
233674257 CTATTA-ATTGGTATGCTC-TCACGAG
1 CTA-TACATCGGTAAGCTCAT-ACGAG
* *
233674282 TTATACATCGGTAAGCTCATATGAG
1 CTATACATCGGTAAGCTCATACGAG
233674307 CT
1 CT
233674309 GAGAATTGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
23 5 0.12
24 5 0.12
25 29 0.73
26 1 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (25 bp):
CTATACATCGGTAAGCTCATACGAG
Found at i:233674319 original size:25 final size:25
Alignment explanation
Indices: 233674291--233674369 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
233674281 GTTATACATC
233674291 GGTAAGCTCATATGAGCTGAGAATT
1 GGTAAGCTCATATGAGCTGAGAATT
*
233674316 GGTAAGCTC-TCATGAGCTG-CAATT
1 GGTAAGCTCAT-ATGAGCTGAGAATT
* ** *
233674340 GGTAATCTCATACAAGCTGAGAATC
1 GGTAAGCTCATATGAGCTGAGAATT
233674365 GGTAA
1 GGTAA
233674370 TGTAACACCC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
24 19 0.42
25 26 0.58
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (25 bp):
GGTAAGCTCATATGAGCTGAGAATT
Done.