Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 75 of 125
Found at i:23450384 original size:16 final size:17
Alignment explanation
Indices: 23450363--23450395 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
23450353 GAACTAATAA
23450363 ATTTTATTTAAT-TATT
1 ATTTTATTTAATGTATT
23450379 ATTTTATTTAATGTATT
1 ATTTTATTTAATGTATT
23450396 TTTAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
ATTTTATTTAATGTATT
Found at i:23450483 original size:24 final size:23
Alignment explanation
Indices: 23450456--23450503 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
23450446 TTTTTTATGA
* *
23450456 AATAAATAATAAAGAGAGTAAAAG
1 AATAAAAAATAAA-AGAGCAAAAG
23450480 AATAAAAAATAAAAGAGCAAAAG
1 AATAAAAAATAAAAGAGCAAAAG
23450503 A
1 A
23450504 GAATAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.71, C:0.02, G:0.15, T:0.12
Consensus pattern (23 bp):
AATAAAAAATAAAAGAGCAAAAG
Found at i:23450506 original size:25 final size:24
Alignment explanation
Indices: 23450456--23450515 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
23450446 TTTTTTATGA
* *
23450456 AATAAATAATAAAGAGAGTAAAAG
1 AATAAAAAATAAAGAGAGAAAAAG
23450480 AATAAAAAATAAA-AGAGCAAAAGAG
1 AATAAAAAATAAAGAGAG-AAAA-AG
*
23450505 AATAACAAATA
1 AATAAAAAATA
23450516 GGAGAGTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.13
24 15 0.48
25 12 0.39
ACGTcount: A:0.70, C:0.03, G:0.13, T:0.13
Consensus pattern (24 bp):
AATAAAAAATAAAGAGAGAAAAAG
Found at i:23450521 original size:25 final size:25
Alignment explanation
Indices: 23450475--23450531 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
23450465 TAAAGAGAGT
23450475 AAAAGAATAAAAAATAAAAGAGCAA
1 AAAAGAATAAAAAATAAAAGAGCAA
* * ** *
23450500 AAGAGAATAACAAATAGGAGAGTAA
1 AAAAGAATAAAAAATAAAAGAGCAA
23450525 AAAAGAA
1 AAAAGAA
23450532 CATATTTGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.70, C:0.04, G:0.18, T:0.09
Consensus pattern (25 bp):
AAAAGAATAAAAAATAAAAGAGCAA
Found at i:23453169 original size:52 final size:52
Alignment explanation
Indices: 23453087--23453289 Score: 230
Period size: 52 Copynumber: 3.9 Consensus size: 52
23453077 GAGCCCAGAT
* * * *
23453087 AGAATATCGCTCATACGAGCCAAACGAAATATTGCTCTTACAAGCTAGAATC
1 AGAATATCGCTCTTACGAGCCAGACAAAATATTGCTCTTACGAGCTAGAATC
* *
23453139 AGAATATCACTCTTACGAGCCAGACAAAATATTGCTCTTACGAGCCTA-AATT
1 AGAATATCGCTCTTACGAGCCAGACAAAATATTGCTCTTACGAG-CTAGAATC
* * * *
23453191 AGAATATCGCTCTTATGAGCTAGA-AAGAATATTACTCTTACGAGCTTGAATC
1 AGAATATCGCTCTTACGAGCCAGACAA-AATATTGCTCTTACGAGCTAGAATC
* * **
23453243 AGAATATCCCTCTTACGAGCCAGAATCATAATATCACTCTTACGAGC
1 AGAATATCGCTCTTACGAGCCAG-A-CAAAATATTGCTCTTACGAGC
23453290 CAAACAAAAT
Statistics
Matches: 128, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
51 4 0.03
52 102 0.80
53 4 0.03
54 17 0.13
55 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.27
Consensus pattern (52 bp):
AGAATATCGCTCTTACGAGCCAGACAAAATATTGCTCTTACGAGCTAGAATC
Found at i:23453181 original size:77 final size:77
Alignment explanation
Indices: 23453089--23453235 Score: 190
Period size: 77 Copynumber: 1.9 Consensus size: 77
23453079 GCCCAGATAG
*
23453089 AATATCGCTCATACGAGCC-AAACGA-AATATTGCTCTTACAAGCTAGAATCAGAATATCACTCT
1 AATATCGCTCATACGAGCCTAAACGAGAATATCGCTCTTACAAGCTAGAA--AGAATATCACTCT
23453152 TACGAGCCAGACAA
64 TACGAGCCAGACAA
* * ** ** *
23453166 AATATTGCTCTTACGAGCCTAAATTAGAATATCGCTCTTATGAGCTAGAAAGAATATTACTCTTA
1 AATATCGCTCATACGAGCCTAAACGAGAATATCGCTCTTACAAGCTAGAAAGAATATCACTCTTA
23453231 CGAGC
66 CGAGC
23453236 TTGAATCAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
77 36 0.60
78 4 0.07
79 20 0.33
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.27
Consensus pattern (77 bp):
AATATCGCTCATACGAGCCTAAACGAGAATATCGCTCTTACAAGCTAGAAAGAATATCACTCTTA
CGAGCCAGACAA
Found at i:23453266 original size:104 final size:106
Alignment explanation
Indices: 23453086--23453290 Score: 281
Period size: 104 Copynumber: 2.0 Consensus size: 106
23453076 TGAGCCCAGA
* *
23453086 TAGAATATCGCTCATACGAGCCAAACGAAATATTGCTCTTACAAGCTAGAATCAGAATATCACTC
1 TAGAATATCGCTCATACGAGCCAAAAGAAATATTACTCTTACAAGCTAGAATCAGAATATCACTC
**
23453151 TTACGAGCCAG-A-CAAAATATTGCTCTTACGAGCCTAAAT
66 TTACGAGCCAGAATCAAAATATCACTCTTACGAGCCTAAAT
* * * * * *
23453190 TAGAATATCGCTCTTATGAGCTAGAAAG-AATATTACTCTTACGAGCTTGAATCAGAATATCCCT
1 TAGAATATCGCTCATACGAGCCA-AAAGAAATATTACTCTTACAAGCTAGAATCAGAATATCACT
*
23453254 CTTACGAGCCAGAATCATAATATCACTCTTACGAGCC
65 CTTACGAGCCAGAATCAAAATATCACTCTTACGAGCC
23453291 AAACAAAATA
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
104 64 0.74
105 4 0.05
106 19 0.22
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.27
Consensus pattern (106 bp):
TAGAATATCGCTCATACGAGCCAAAAGAAATATTACTCTTACAAGCTAGAATCAGAATATCACTC
TTACGAGCCAGAATCAAAATATCACTCTTACGAGCCTAAAT
Found at i:23453290 original size:27 final size:27
Alignment explanation
Indices: 23453087--23453322 Score: 186
Period size: 27 Copynumber: 9.0 Consensus size: 27
23453077 GAGCCCAGAT
* *
23453087 AGAATATCGCTCATACGAGCCA-AA-C
1 AGAATATCACTCTTACGAGCCAGAATC
** * *
23453112 -GAAATATTGCTCTTACAAGCTAGAATC
1 AG-AATATCACTCTTACGAGCCAGAATC
23453139 AGAATATCACTCTTACGAGCCAG-A-C
1 AGAATATCACTCTTACGAGCCAGAATC
* ** *
23453164 AAAATATTGCTCTTACGAGCCTA-AATT
1 AGAATATCACTCTTACGAGCC-AGAATC
* * *
23453191 AGAATATCGCTCTTATGAGCTAGAA--
1 AGAATATCACTCTTACGAGCCAGAATC
* **
23453216 AGAATATTACTCTTACGAGCTTGAATC
1 AGAATATCACTCTTACGAGCCAGAATC
*
23453243 AGAATATCCCTCTTACGAGCCAGAATC
1 AGAATATCACTCTTACGAGCCAGAATC
*
23453270 ATAATATCACTCTTACGAGCCA-AA-C
1 AGAATATCACTCTTACGAGCCAGAATC
* * * *
23453295 AAAATATTACCCTTATGAGCCAGAATC
1 AGAATATCACTCTTACGAGCCAGAATC
23453322 A
1 A
23453323 AAATTACTTT
Statistics
Matches: 169, Mismatches: 30, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
24 1 0.01
25 75 0.44
26 10 0.06
27 82 0.49
28 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (27 bp):
AGAATATCACTCTTACGAGCCAGAATC
Found at i:23453301 original size:52 final size:51
Alignment explanation
Indices: 23453087--23453326 Score: 191
Period size: 52 Copynumber: 4.6 Consensus size: 51
23453077 GAGCCCAGAT
* * * * * *
23453087 AGAATATCGCTCATACGAGCCA-AACGAAATATTGCTCTTACAAGCTAGAATC
1 AGAATATCCCTCTTACGAGCCAGAACAAAATATTACTCTTACGAGCCA-AA-C
* * *
23453139 AGAATATCACTCTTACGAGCCAG-ACAAAATATTGCTCTTACGAGCCTAAATT
1 AGAATATCCCTCTTACGAGCCAGAACAAAATATTACTCTTACGAGCC-AAA-C
* * * * * *
23453191 AGAATATCGCTCTTATGAGCTAGAA-AGAATATTACTCTTACGAGCTTGAATC
1 AGAATATCCCTCTTACGAGCCAGAACAAAATATTACTCTTACGAGC--CAAAC
* *
23453243 AGAATATCCCTCTTACGAGCCAGAATCATAATATCACTCTTACGAGCCAAAC
1 AGAATATCCCTCTTACGAGCCAGAA-CAAAATATTACTCTTACGAGCCAAAC
* * *
23453295 AAAATATTACC-CTTATGAGCCAGAATCAAAAT
1 AGAATA-TCCCTCTTACGAGCCAGAA-CAAAAT
23453327 TACTTTGTCT
Statistics
Matches: 155, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
52 130 0.84
53 7 0.05
54 18 0.12
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.26
Consensus pattern (51 bp):
AGAATATCCCTCTTACGAGCCAGAACAAAATATTACTCTTACGAGCCAAAC
Found at i:23453321 original size:79 final size:79
Alignment explanation
Indices: 23453141--23453322 Score: 183
Period size: 79 Copynumber: 2.3 Consensus size: 79
23453131 CTAGAATCAG
* * * ** * *
23453141 AATATCACTCTTACGAGCCAG-A-CAAAATATTGCTCTTACGAGCCTAAATTAGAATATCGCTCT
1 AATATTACCCTTACGAGCCAGAATCAGAATATCCCTCTTACGAGCCTAAATCAGAATATCACTCT
* * *
23453204 TATGAGCTAGAAAG
66 TACGAGCCAGAAAA
* ** *
23453218 AATATTACTCTTACGAGCTTGAATCAGAATATCCCTCTTACGAGCC-AGAATCATAATATCACTC
1 AATATTACCCTTACGAGCCAGAATCAGAATATCCCTCTTACGAGCCTA-AATCAGAATATCACTC
23453282 TTACGAGCCA-AACAA
65 TTACGAGCCAGAA-AA
*
23453297 AATATTACCCTTATGAGCCAGAATCA
1 AATATTACCCTTACGAGCCAGAATCA
23453323 AAATTACTTT
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
77 18 0.21
78 4 0.05
79 63 0.74
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (79 bp):
AATATTACCCTTACGAGCCAGAATCAGAATATCCCTCTTACGAGCCTAAATCAGAATATCACTCT
TACGAGCCAGAAAA
Found at i:23461722 original size:17 final size:18
Alignment explanation
Indices: 23461696--23461740 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
23461686 ATAGTTTGCA
* *
23461696 TGCATCTTTA-TTGTCAT
1 TGCATTTTTATTTATCAT
23461713 TGCATTTTTATTTTATCAT
1 TGCATTTTTA-TTTATCAT
23461732 TGCATTTTT
1 TGCATTTTT
23461741 TGTTAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
19 15 0.62
ACGTcount: A:0.18, C:0.13, G:0.09, T:0.60
Consensus pattern (18 bp):
TGCATTTTTATTTATCAT
Found at i:23471005 original size:22 final size:23
Alignment explanation
Indices: 23470954--23471005 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
23470944 ATGTGTTTGG
*
23470954 TTCGTTTATATTCACGAACAAGC
1 TTCGTTTATATTCACGAACAAGA
* *
23470977 TT-ATTTATGTTCACGAACAA-A
1 TTCGTTTATATTCACGAACAAGA
23470998 TTCGTTTA
1 TTCGTTTA
23471006 AAAGTTTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 2 0.08
22 20 0.83
23 2 0.08
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (23 bp):
TTCGTTTATATTCACGAACAAGA
Found at i:23471029 original size:12 final size:12
Alignment explanation
Indices: 23471013--23471056 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
23471003 TTAAAAGTTT
23471013 GTTTATTGGCTC
1 GTTTATTGGCTC
* **
23471025 ATTTATAAGCTC
1 GTTTATTGGCTC
*
23471037 GTTTATTGACTC
1 GTTTATTGGCTC
23471049 GTTTATTG
1 GTTTATTG
23471057 ATTAATGACA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.50
Consensus pattern (12 bp):
GTTTATTGGCTC
Found at i:23473750 original size:33 final size:33
Alignment explanation
Indices: 23473687--23473751 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
23473677 TCTTTATACC
* * *
23473687 TTAAATTGAAAAAGATTTTTATATAGGGGGAGT
1 TTAAATTGAAAAAGACTTTCATATAAGGGGAGT
*
23473720 TTAAATTGAAAATGACTTTCAT-TAAAGGGGAG
1 TTAAATTGAAAAAGACTTTCATAT-AAGGGGAG
23473752 CAATCTATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 1 0.04
33 26 0.96
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (33 bp):
TTAAATTGAAAAAGACTTTCATATAAGGGGAGT
Found at i:23474112 original size:20 final size:21
Alignment explanation
Indices: 23474073--23474114 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23474063 CAAACAATGA
*
23474073 CAAAAAGTATCGATACCTTTT
1 CAAAAAATATCGATACCTTTT
*
23474094 CAAAAAATATCGATACTTTTT
1 CAAAAAATATCGATACCTTTT
23474115 ATTATGTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
CAAAAAATATCGATACCTTTT
Found at i:23476317 original size:24 final size:24
Alignment explanation
Indices: 23476290--23476352 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
23476280 CTCGTAACAA
*
23476290 CTAATCTATCTGGGCCCATAAAAG
1 CTAATCTATCTAGGCCCATAAAAG
* ***
23476314 CTAACCTATCTAGGCTGGTAAAAG
1 CTAATCTATCTAGGCCCATAAAAG
*
23476338 CTAATTCTGTCTAGG
1 CTAA-TCTATCTAGG
23476353 TTCGTATGAG
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 23 0.74
25 8 0.26
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (24 bp):
CTAATCTATCTAGGCCCATAAAAG
Found at i:23488744 original size:21 final size:21
Alignment explanation
Indices: 23488706--23488745 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23488696 TTAAAAACAA
* *
23488706 CATACTTGTTTCGATAGAACT
1 CATACATGTCTCGATAGAACT
*
23488727 CATACATGTCTCGGTAGAA
1 CATACATGTCTCGATAGAA
23488746 GTACAGGGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (21 bp):
CATACATGTCTCGATAGAACT
Found at i:23492449 original size:55 final size:55
Alignment explanation
Indices: 23492320--23492524 Score: 250
Period size: 55 Copynumber: 3.7 Consensus size: 55
23492310 CTTTAATTGC
* * * * * * * **
23492320 AAAATAGTATACTCACACGGCCTGGCACACACGCATGTGCCTGACACGTGTTTCTA
1 AAAATAGTATACACACACGGTCTGGCACACGCCCGTGTGTCTGCCA-GTGTGCCTA
*
23492376 AAAATAGTATACACACACGG-CTTGGCACACGCCCGTGTGTTTGCCAGTGTGCCTA
1 AAAATAGTATACACACACGGTC-TGGCACACGCCCGTGTGTCTGCCAGTGTGCCTA
* * *
23492431 AAAAAAGTATACACACACGGTCTGGCACACGCCCTTGTGTCTGCCAGTGTGCCTC
1 AAAATAGTATACACACACGGTCTGGCACACGCCCGTGTGTCTGCCAGTGTGCCTA
* *
23492486 AAAATAGTATACACACACGGTCTAGCACACGCCTGTGTG
1 AAAATAGTATACACACACGGTCTGGCACACGCCCGTGTG
23492525 CCTCAAAACA
Statistics
Matches: 130, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
55 92 0.71
56 38 0.29
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (55 bp):
AAAATAGTATACACACACGGTCTGGCACACGCCCGTGTGTCTGCCAGTGTGCCTA
Found at i:23492524 original size:43 final size:43
Alignment explanation
Indices: 23492477--23492572 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
23492467 GTGTCTGCCA
* *
23492477 GTGTGCCTCAAAATAGTATACACACACGGTCTAG-CACACGCCT
1 GTGTGCCTCAAAACAATATACACACACGGTCT-GTCACACGCCT
* * * *
23492520 GTGTGCCTCAAAACAATATGCAGACACGGTGTGTCACATGCCT
1 GTGTGCCTCAAAACAATATACACACACGGTCTGTCACACGCCT
*
23492563 GTATGCCTCA
1 GTGTGCCTCA
23492573 TGTAGCCTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.02
43 44 0.98
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (43 bp):
GTGTGCCTCAAAACAATATACACACACGGTCTGTCACACGCCT
Found at i:23496466 original size:18 final size:18
Alignment explanation
Indices: 23496445--23496491 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
23496435 ACAAAAACAA
*
23496445 ATTCAGATGCAAGTACAG
1 ATTCAGATGCAAGTAAAG
*
23496463 ATTCAAATGCAAGTAAAG
1 ATTCAGATGCAAGTAAAG
23496481 ATTCAGATGCA
1 ATTCAGATGCA
23496492 GTTATTTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (18 bp):
ATTCAGATGCAAGTAAAG
Found at i:23497403 original size:38 final size:38
Alignment explanation
Indices: 23497343--23497443 Score: 93
Period size: 38 Copynumber: 2.7 Consensus size: 38
23497333 ACTAGTAATG
*
23497343 TCACTGCATGAGTCTAT-T-CAGAATTGTGC-CAAGAATTG
1 TCACTGCATGAG-C-ATGTCCAGAATTGTGCTC-AGAATTA
* * *
23497381 TCATTGCATGA-CGATGTCCAGAACTGTGCTCATAATTA
1 TCACTGCATGAGC-ATGTCCAGAATTGTGCTCAGAATTA
*
23497419 TCACTGCATGAGCTTGTCCAGAATT
1 TCACTGCATGAGCATGTCCAGAATT
23497444 TTCGCTGTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
36 3 0.06
37 1 0.02
38 45 0.88
39 2 0.04
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (38 bp):
TCACTGCATGAGCATGTCCAGAATTGTGCTCAGAATTA
Found at i:23517120 original size:6 final size:6
Alignment explanation
Indices: 23517102--23517179 Score: 67
Period size: 6 Copynumber: 13.3 Consensus size: 6
23517092 TTAAATTGAT
*
23517102 TTTAAA TTT--A TTTGAA TTTAAA TTT--A TCTTAAA TTTAATTA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA--A TTTAAA
* *
23517149 TTT-AC CTTAAA TTTAAA TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT
23517180 ATATAACAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
4 6 0.10
5 5 0.08
6 40 0.68
7 2 0.03
8 6 0.10
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:23518962 original size:30 final size:30
Alignment explanation
Indices: 23518936--23519165 Score: 302
Period size: 30 Copynumber: 7.6 Consensus size: 30
23518926 CCCTAAATTG
* *
23518936 TCCAGAAATTACATTTTGACCCCTAAACTTT
1 TCCA-AAATTATATTTTGACCCCAAAACTTT
23518967 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
23518997 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
23519027 TCCAAAATTATATTTTAACCCTAAAAC-TT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* * *
23519056 TCTGAAAATTATATTTTAACCTCAAAACTTT
1 TC-CAAAATTATATTTTGACCCCAAAACTTT
*
23519087 TCCAAAATTATATTTTGACCCTAAAAC-TT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* * *
23519116 TCTAAAAATTACATTTTAACCCCAAAACTTT
1 TC-CAAAATTATATTTTGACCCCAAAACTTT
* *
23519147 TCCAAAATTACACTTTGAC
1 TCCAAAATTATATTTTGAC
23519166 TGTAAAATTT
Statistics
Matches: 177, Mismatches: 18, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
29 8 0.05
30 157 0.89
31 12 0.07
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (30 bp):
TCCAAAATTATATTTTGACCCCAAAACTTT
Found at i:23519015 original size:60 final size:60
Alignment explanation
Indices: 23518941--23519215 Score: 333
Period size: 60 Copynumber: 4.6 Consensus size: 60
23518931 AATTGTCCAG
* * *
23518941 AAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTT-TCCA
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTATATTTTGACCCTAAAACTTTCT-CA
* * * *
23519001 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTCTGA
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTATATTTTGACCCTAAAACTTTCTCA
* * *
23519061 AAATTATATTTTAACCTCAAAACTTTTCCAAAATTATATTTTGACCCTAAAACTTTCTAA
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTATATTTTGACCCTAAAACTTTCTCA
* * **
23519121 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTACACTTTGACTGTAAAA-TTTC-CAAA
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTATATTTTGACCCTAAAACTTTCTC--A
* * * *
23519181 AAATTGCATTTTTACCCCGAAAC-TTTCAAAAATTA
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTA
23519216 CCATTTTACC
Statistics
Matches: 192, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
59 15 0.08
60 176 0.92
61 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (60 bp):
AAATTACATTTTAACCCCAAAACTTTTCCAAAATTATATTTTGACCCTAAAACTTTCTCA
Found at i:23519184 original size:90 final size:88
Alignment explanation
Indices: 23518941--23519231 Score: 311
Period size: 90 Copynumber: 3.2 Consensus size: 88
23518931 AATTGTCCAG
* * *
23518941 AAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATT
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTATATTTTGA-CTCAAAAC-TTTCCAAAATT
*
23519006 ATATTTTGACCCCAAAACTTT-TCCA
64 ATATTTTGACCCCAAAACTTTCT-AA
* * * *
23519031 AAATTATATTTTAACCCTAAAAC-TTTCTGAAAATTATATTTTAACCTCAAAACTTTTCCAAAAT
1 AAATTACATTTTAACCCCAAAACTTTTC-CAAAATTATATTTTGA-CTCAAAAC-TTTCCAAAAT
*
23519095 TATATTTTGACCCTAAAACTTTCTAA
63 TATATTTTGACCCCAAAACTTTCTAA
* * *
23519121 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTACACTTTGACTGTAAAA-TTTCCAAAAAAT
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTATATTTTGACT-CAAAACTTTCC--AAAAT
** * *
23519185 TGCATTTTTACCCCGAAACTTTC-AA
63 TATATTTTGACCCCAAAACTTTCTAA
*
23519210 AAATTACCATTTTACCCCCAAA
1 AAATTA-CATTTTAACCCCAAA
23519232 CTTCCCTAAA
Statistics
Matches: 172, Mismatches: 22, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
88 5 0.03
89 14 0.08
90 148 0.86
91 5 0.03
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.36
Consensus pattern (88 bp):
AAATTACATTTTAACCCCAAAACTTTTCCAAAATTATATTTTGACTCAAAACTTTCCAAAATTAT
ATTTTGACCCCAAAACTTTCTAA
Found at i:23519242 original size:29 final size:28
Alignment explanation
Indices: 23519190--23519250 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
23519180 AAAATTGCAT
* *
23519190 TTTTACCCCGAAACTTTCAAAAATTACCA
1 TTTTACCCCCAAACTTCCAAAAA-TACCA
** *
23519219 TTTTACCCCCAAACTTCCCTAAATCCCA
1 TTTTACCCCCAAACTTCCAAAAATACCA
23519247 TTTT
1 TTTT
23519251 TAACCCTGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.31, C:0.33, G:0.02, T:0.34
Consensus pattern (28 bp):
TTTTACCCCCAAACTTCCAAAAATACCA
Found at i:23519252 original size:29 final size:30
Alignment explanation
Indices: 23519174--23519236 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
23519164 ACTGTAAAAT
* *
23519174 TTCCAAAAAATT-GCATTTTTACCCCGAAAC
1 TTCC-AAAAATTACCATTTTTACCCCCAAAC
*
23519204 TTTCAAAAATTACCA-TTTTACCCCCAAAC
1 TTCCAAAAATTACCATTTTTACCCCCAAAC
23519233 TTCC
1 TTCC
23519237 CTAAATCCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.32
Consensus pattern (30 bp):
TTCCAAAAATTACCATTTTTACCCCCAAAC
Found at i:23531088 original size:38 final size:37
Alignment explanation
Indices: 23531037--23531161 Score: 103
Period size: 38 Copynumber: 3.4 Consensus size: 37
23531027 TCTTTATCTC
23531037 TGAAATTGAAGTAAGAGCAGCGTCATTTCCTATCCACT
1 TGAAATTGAAGTAAGAGCA-CGTCATTTCCTATCCACT
** ** * *
23531075 TGAAATTGAAGTAA-AGCTATATCAAGTCTTTAT-CTC-
1 TGAAATTGAAGTAAGAGC-ACGTCATTTC-CTATCCACT
* **
23531111 TGAAATTGAAGTAAGAACAACGTCATTTCCTATCTGCT
1 TGAAATTGAAGTAAGAGC-ACGTCATTTCCTATCCACT
*
23531149 TGAAATTAAAGTA
1 TGAAATTGAAGTA
23531162 GAGTTGGATA
Statistics
Matches: 66, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
36 17 0.26
37 19 0.29
38 30 0.45
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (37 bp):
TGAAATTGAAGTAAGAGCACGTCATTTCCTATCCACT
Found at i:23531217 original size:76 final size:76
Alignment explanation
Indices: 23531025--23532023 Score: 1118
Period size: 76 Copynumber: 13.4 Consensus size: 76
23531015 ATTGAAGTAG
* * *
23531025 AGTCTTTATCTCTGAAATTGAAGTAAGAGC-AGCGTCATTTCCTATCCACTTGAAATTGAAGTAA
1 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG-ATCATTTCCTATCCTCTTGAAATTGAAGTAG
* *
23531089 AGCT--ATATCA
65 AGTTGGATAGCA
* *
23531099 AGTCTTTATCTCTGAAATTGAAGTAAGAACAACG-TCATTTCCTAT-CTGCTTGAAATTAAAGTA
1 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAA-GATCATTTCCTATCCT-CTTGAAATTGAAGTA
23531162 GAGTTGGATAGCA
64 GAGTTGGATAGCA
* * * * *
23531175 AGCCTTTATCTCCGAAATTGAAGTAAGAGCAAGATCAGTTCCTATCCTTTTGAAATTGAAGTAAA
1 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGA
*
23531240 GTTGGGATATCA
66 GTT-GGATAGCA
* * *
23531252 AGCCTTTATCTCTGAAATTGAAGTAAGAGCAAGACCTTTTCCTATCCTCTTGAAATTGAAGTAGA
1 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGA
*
23531317 GTTGGATAACA
66 GTTGGATAGCA
* * * *
23531328 CGTCTTTATCTCCGAAATTGAAGTAAGA-CCA-A-C--GT-C-ATCCTCTTGAAATTGAAGTAGA
1 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGA
*
23531386 G-TGGATAACA
66 GTTGGATAGCA
* *
23531396 CA-TCTTTATCTCTGAAATTGAAGTAAGAGCAAGACCTTTTCCTATCCTCTTGAAATTGAAGTAG
1 -AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAG
23531460 AGTTGGATAGCA
65 AGTTGGATAGCA
* * * *
23531472 CGTCTTTATCTCCGAAATTGAAGTAAGA-CCA-A-C--GT-C-ATCCTCTTGAAATTGAAGTAGA
1 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGA
23531530 G-TGGATAGATAACA
66 GTTGGATAG----CA
* *
23531544 CA-TCTTTATCTCTGAAATTGAAGTAAGAACAAGATCATTTCCTATCCTCTTGAAATTAAAGTAG
1 -AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAG
*
23531608 AG-TGGATAACA
65 AGTTGGATAGCA
* * *
23531619 CGTCTTTATCTCTGAAATTGAAGTAAGAACAACG-TCATTTCCTAT-CTGTTTGAAATTGAAGTA
1 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAA-GATCATTTCCTATCCT-CTTGAAATTGAAGTA
23531682 GAGTTGGATAGCA
64 GAGTTGGATAGCA
* * *
23531695 AGCCTTTATCT-TCGAAATTGAAGTAAGAGCAAGATCAGTTCCTATCCTCTTGAAATTGAAGTAA
1 AGTCTTTATCTCT-GAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAG
*
23531759 AGTTGGATATCA
65 AGTTGGATAGCA
* * *
23531771 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGACCTTTTCCTATCCTCTTAAAATTGAAGTAGA
1 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGA
23531836 GTTGGATAGCA
66 GTTGGATAGCA
* * *
23531847 CGTCTTTATCT-TCGAAATTGAAGTAAGGGC-A-A-C--GT-C-ATCCTCTTGAAATTGAAGTAG
1 AGTCTTTATCTCT-GAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAG
* *
23531904 A-CTGGATAACA
65 AGTTGGATAGCA
*
23531915 CA-TCTTTATCTCTGAAATTGAAATAAGAGCAAGATCATTTTCCTATCCTCTTGAAATTGAAGTA
1 -AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA-TTTCCTATCCTCTTGAAATTGAAGTA
* * *
23531979 AAGCTGGATATCA
64 GAGTTGGATAGCA
*
23531992 AGTCTTTATCTCTCTGAAATTGAAGCAAGAGC
1 AGTCTTTA--TCTCTGAAATTGAAGTAAGAGC
23532024 TAGACGAAGC
Statistics
Matches: 799, Mismatches: 73, Indels: 101
0.82 0.08 0.10
Matches are distributed among these distances:
68 73 0.09
69 71 0.09
70 5 0.01
71 5 0.01
72 27 0.03
73 7 0.01
74 65 0.08
75 94 0.12
76 313 0.39
77 90 0.11
78 1 0.00
79 48 0.06
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (76 bp):
AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGA
GTTGGATAGCA
Found at i:23531345 original size:38 final size:37
Alignment explanation
Indices: 23531225--23531936 Score: 238
Period size: 38 Copynumber: 19.3 Consensus size: 37
23531215 CCTATCCTTT
* * * *
23531225 TGAAATTGAAGTAAAGTTGGGATATCAAGCCTTTATCTC
1 TGAAATTGAAGTAGAG-T-GGATAACACGTCTTTATCTC
* * *
23531264 TGAAATTGAAGTA-AGAGCA-AGAC-C-TTTTCCTATCCTC
1 TGAAATTGAAGTAGAGTGGATA-ACACGTCTT--TAT-CTC
23531301 TTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTC
1 -TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTC
* ** * **
23531340 CGAAATTGAAGTA-A---GACCA-ACGTCATCCTCT-
1 TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC
*
23531371 TGAAATTGAAGTAGAGTGGATAACACATCTTTATCTC
1 TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC
* * *
23531408 TGAAATTGAAGTA-AGAGCA-AGAC-C-TTTTCCTATCCTC
1 TGAAATTGAAGTAGAGTGGATA-ACACGTCTT--TAT-CTC
*
23531445 TTGAAATTGAAGTAGAGTTGGATAGCACGTCTTTATCTC
1 -TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTC
* ** * **
23531484 CGAAATTGAAGTA-A---GACCA-ACGTCATCCTCT-
1 TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC
*
23531515 TGAAATTGAAGTAGAGTGGATAGATAACACATCTTTATCTC
1 TGAAATTGAAGTAGAGT-G---GATAACACGTCTTTATCTC
* * * *
23531556 TGAAATTGAAGTA-A--GAACAAGATCAT-TTCCTATCCTC
1 TGAAATTGAAGTAGAGTGGATAACA-CGTCTT--TAT-CTC
*
23531593 TTGAAATTAAAGTAGAGTGGATAACACGTCTTTATCTC
1 -TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC
*
23531631 TGAAATTGAAGTA-A---G--AACAACGTCATTTCCTATCTGTT
1 TGAAATTGAAGTAGAGTGGATAAC-ACGTC--TT--TATC--TC
* * *
23531669 TGAAATTGAAGTAGAGTTGGATAGCAAGCCTTTATCT-
1 TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTC
* * *
23531706 TCGAAATTGAAGTA-AGAGCA-AGATCA-GT-TCCTATCCTC
1 T-GAAATTGAAGTAGAGTGGATA-A-CACGTCT-TTAT-CTC
* * *
23531744 TTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTC
1 -TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTC
* * *
23531783 TGAAATTGAAGTA-AGAGCA-AGAC-C-TTTTCCTATCCTC
1 TGAAATTGAAGTAGAGTGGATA-ACACGTCTT--TAT-CTC
* *
23531820 TTAAAATTGAAGTAGAGTTGGATAGCACGTCTTTATCT-
1 -TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTC
* * **
23531858 TCGAAATTGAAGTA-AG-GG--CA-ACGTCATCCTCT-
1 T-GAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC
* *
23531890 TGAAATTGAAGTAGACTGGATAACACATCTTTATCTC
1 TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC
23531927 TGAAATTGAA
1 TGAAATTGAA
23531937 ATAAGAGCAA
Statistics
Matches: 498, Mismatches: 87, Indels: 178
0.65 0.11 0.23
Matches are distributed among these distances:
31 39 0.08
32 36 0.07
33 8 0.02
34 16 0.03
35 15 0.03
36 51 0.10
37 62 0.12
38 142 0.29
39 43 0.09
40 41 0.08
41 28 0.06
42 11 0.02
43 1 0.00
44 3 0.01
45 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (37 bp):
TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC
Found at i:23531898 original size:519 final size:505
Alignment explanation
Indices: 23530934--23532021 Score: 1716
Period size: 519 Copynumber: 2.1 Consensus size: 505
23530924 TTATTTCCTA
* *
23530934 TATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGACCA
* *
23530999 ACGTCATCCGCTTGAAATTGAAGTAGAGTCTTTATCTCTGAAATTGAAGTAAGAGCAGCGTCATT
66 ACGTCATCCGCTTGAAATTGAAGTAGAGTCTTTATCTCTGAAATTGAAGTAAGAACAGCATCATT
* *
23531064 TCCTATCCACTTGAAATTGAAGTAAAGCTATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAAC
131 TCCTATCCACTTGAAATTAAAGTAAAGCTATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAAC
23531129 AACGTCATTTCCTATCTGCTTGAAATTAAAGTAGAGTTGGATAGCAAGCCTTTATCTCCGAAATT
196 AACGTCATTTCCTATCTGCTTGAAATTAAAGTAGAGTTGGATAGCAAGCCTTTATCTCCGAAATT
*
23531194 GAAGTAAGAGCAAGATCAGTTCCTATCCTTTTGAAATTGAAGTAAAGTTGGGATATCAAGCCTTT
261 GAAGTAAGAGCAAGATCAGTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGGATATCAAGCCTTT
*
23531259 ATCTCTGAAATTGAAGTAAGAGCAAGACCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGAT
326 ATCTCTGAAATTGAAGTAAGAGCAAGACCTTTTCCTATCCTCTTAAAATTGAAGTAGAGTTGGAT
*
23531324 AACACGTCTTTATCTCCGAAATTGAAGTAAGACCAACGTCATCCTCTTGAAATTGAAGTAGAGTG
391 AACACGTCTTTATCTCCGAAATTGAAGTAAGACCAACGTCATCCTCTTGAAATTGAAGTAGACTG
* *
23531389 GATAACACATCTTTATCTCTGAAATTGAAGTAAGAGCAAGA-CCTTTTCC
456 GATAACACATCTTTATCTCTGAAATTGAAATAAGAGCAAGATCATTTTCC
* * * *
23531438 TATCCTCTTGAAATTGAAGTAGAGTTGGATAGCACGTCTTTATCTCCGAAATTGAAGTAAGACCA
1 TATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGACCA
*
23531503 ACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAGATAACACATCTTTATCTCTGAAATTGAAGT
66 ACGTCATCCGCTTGAAATTGAAGT--A---G--AG--------TCTTTATCTCTGAAATTGAAGT
* * *
23531568 AAGAACAAG-ATCATTTCCTATCCTCTTGAAATTAAAGTAGAG-TGGATAACACGTCTTTATCTC
116 AAGAAC-AGCATCATTTCCTATCCACTTGAAATTAAAGTAAAGCT--ATAACAAGTCTTTATCTC
* *
23531631 TGAAATTGAAGTAAGAACAACGTCATTTCCTATCTGTTTGAAATTGAAGTAGAGTTGGATAGCAA
178 TGAAATTGAAGTAAGAACAACGTCATTTCCTATCTGCTTGAAATTAAAGTAGAGTTGGATAGCAA
*
23531696 GCCTTTATCTTCGAAATTGAAGTAAGAGCAAGATCAGTTCCTATCCTCTTGAAATTGAAGTAAAG
243 GCCTTTATCTCCGAAATTGAAGTAAGAGCAAGATCAGTTCCTATCCTCTTGAAATTGAAGTAAAG
*
23531761 TT-GGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGACCTTTTCCTATCCTCTTAAA
308 TTGGGATATCAAGCCTTTATCTCTGAAATTGAAGTAAGAGCAAGACCTTTTCCTATCCTCTTAAA
* * **
23531825 ATTGAAGTAGAGTTGGATAGCACGTCTTTATCTTCGAAATTGAAGTAAGGGCAACGTCATCCTCT
373 ATTGAAGTAGAGTTGGATAACACGTCTTTATCTCCGAAATTGAAGTAAGACCAACGTCATCCTCT
23531890 TGAAATTGAAGTAGACTGGATAACACATCTTTATCTCTGAAATTGAAATAAGAGCAAGATCATTT
438 TGAAATTGAAGTAGACTGGATAACACATCTTTATCTCTGAAATTGAAATAAGAGCAAGATCATTT
23531955 TCC
503 TCC
*
23531958 TATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTCTGAAATTGAAGCAAGA
1 TATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC-C-GAAATTGAAGTAAGA
23532022 GCTAGACGAA
Statistics
Matches: 531, Mismatches: 32, Indels: 24
0.90 0.05 0.04
Matches are distributed among these distances:
504 82 0.15
506 1 0.00
509 1 0.00
511 2 0.00
518 1 0.00
519 234 0.44
520 195 0.37
521 1 0.00
522 14 0.03
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (505 bp):
TATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGACCA
ACGTCATCCGCTTGAAATTGAAGTAGAGTCTTTATCTCTGAAATTGAAGTAAGAACAGCATCATT
TCCTATCCACTTGAAATTAAAGTAAAGCTATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAAC
AACGTCATTTCCTATCTGCTTGAAATTAAAGTAGAGTTGGATAGCAAGCCTTTATCTCCGAAATT
GAAGTAAGAGCAAGATCAGTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGGATATCAAGCCTTT
ATCTCTGAAATTGAAGTAAGAGCAAGACCTTTTCCTATCCTCTTAAAATTGAAGTAGAGTTGGAT
AACACGTCTTTATCTCCGAAATTGAAGTAAGACCAACGTCATCCTCTTGAAATTGAAGTAGACTG
GATAACACATCTTTATCTCTGAAATTGAAATAAGAGCAAGATCATTTTCC
Found at i:23532413 original size:6 final size:6
Alignment explanation
Indices: 23532395--23532477 Score: 68
Period size: 6 Copynumber: 14.0 Consensus size: 6
23532385 TTAAATTGAT
*
23532395 TTTAAA TTT--A TTTGAA TTTAAA TTT--A TCTTAAA TTTAATTA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA--A TTTAAA
* *
23532442 TTT-AC CTTAAA TTTAAA TTTAAA TTTAAA TTATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
23532478 ACAAATTTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
4 6 0.10
5 5 0.08
6 40 0.63
7 6 0.10
8 6 0.10
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:23532477 original size:25 final size:23
Alignment explanation
Indices: 23532404--23532469 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 23
23532394 TTTTAAATTT
*
23532404 ATTTGAATTTAAATTT-ATCTTAA
1 ATTTAAATTTAAATTTAAT-TTAA
**
23532427 ATTTAATTATTTAAATTTACCTTAA
1 ATTTAA--ATTTAAATTTAATTTAA
23532452 ATTTAAATTTAAATTTAA
1 ATTTAAATTTAAATTTAA
23532470 ATTATAAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 16 0.44
25 20 0.56
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTAAATTTAAATTTAATTTAA
Found at i:23533303 original size:23 final size:25
Alignment explanation
Indices: 23533277--23533322 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
23533267 CATTAATGGT
23533277 AATAAATATCAATA-ATA-ATAATA
1 AATAAATATCAATATATATATAATA
*
23533300 AATAAATATTAATATATATATAA
1 AATAAATATCAATATATATATAA
23533323 AAAAAAGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 3 0.15
25 4 0.20
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
AATAAATATCAATATATATATAATA
Found at i:23534334 original size:30 final size:30
Alignment explanation
Indices: 23534300--23534553 Score: 294
Period size: 30 Copynumber: 8.6 Consensus size: 30
23534290 CTTTGTAAGT
*
23534300 CCCTAAA-TTGTCCAAAAATTACATTTTGAC
1 CCCTAAACTTTTCC-AAAATTACATTTTGAC
* *
23534330 CCCTAAACTTTTCCAAAATTATATTTTAAC
1 CCCTAAACTTTTCCAAAATTACATTTTGAC
* *
23534360 CCCAAAACTTTTCCAAAATTATATTTTGAC
1 CCCTAAACTTTTCCAAAATTACATTTTGAC
* * *
23534390 CCCAAAAC-TTTCTGAAAATTATATTTTGAC
1 CCCTAAACTTTTC-CAAAATTACATTTTGAC
* *
23534420 CCCAAAACTTTTTCAAAATTACATTTTGA-
1 CCCTAAACTTTTCCAAAATTACATTTTGAC
23534449 CCCTAAAACTTTTCCAAAATTACATTTTGA-
1 CCCT-AAACTTTTCCAAAATTACATTTTGAC
23534479 CCCTAAAACTTTTCCAAAATTACATTTTGAC
1 CCCT-AAACTTTTCCAAAATTACATTTTGAC
*
23534510 CCCAAAACTTTTCC-----TACATTTTGA-
1 CCCTAAACTTTTCCAAAATTACATTTTGAC
23534534 CCCTAAAACTTTTCCAAAAT
1 CCCT-AAACTTTTCCAAAAT
23534554 CATACTTTGA
Statistics
Matches: 200, Mismatches: 13, Indels: 22
0.85 0.06 0.09
Matches are distributed among these distances:
24 3 0.01
25 20 0.10
29 7 0.04
30 159 0.80
31 11 0.05
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (30 bp):
CCCTAAACTTTTCCAAAATTACATTTTGAC
Found at i:23534408 original size:60 final size:60
Alignment explanation
Indices: 23534314--23534553 Score: 339
Period size: 60 Copynumber: 4.1 Consensus size: 60
23534304 AAATTGTCCA
* *
23534314 AAAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCC
* * *
23534374 AAAATTATATTTTGACCCCAAAAC-TTTCTGAAAATTATATTTTGACCCCAAAACTTTTTC
1 AAAATTACATTTTGACCCCAAAACTTTTC-CAAAATTATATTTTGACCCCAAAACTTTTCC
* * *
23534434 AAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCC
* *
23534494 AAAATTACATTTTGACCCCAAAACTTTTCC-----TACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCC
23534549 AAAAT
1 AAAAT
23534554 CATACTTTGA
Statistics
Matches: 166, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
55 30 0.18
59 4 0.02
60 128 0.77
61 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (60 bp):
AAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCC
Found at i:23534467 original size:90 final size:90
Alignment explanation
Indices: 23534314--23534580 Score: 343
Period size: 90 Copynumber: 3.0 Consensus size: 90
23534304 AAATTGTCCA
* * * * *
23534314 AAAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTAACCCCAAAACTTTTCCAAAAT
1 AAAATTACATTTTGACCCCAAAACTTTTTCAAAATTACATTTTGACCCTAAAACTTTTCCAAAAT
*
23534379 TATATTTTGACCCCAAAAC-TTTCTG
66 TATATTTTGACCCCAAAACTTTTC-C
*
23534404 AAAATTATATTTTGACCCCAAAACTTTTTCAAAATTACATTTTGACCCTAAAACTTTTCCAAAAT
1 AAAATTACATTTTGACCCCAAAACTTTTTCAAAATTACATTTTGACCCTAAAACTTTTCCAAAAT
* *
23534469 TACATTTTGACCCTAAAACTTTTCC
66 TATATTTTGACCCCAAAACTTTTCC
*
23534494 AAAATTACATTTTGACCCCAAAAC-TTTTC----CTACATTTTGACCCTAAAACTTTTCCAAAAT
1 AAAATTACATTTTGACCCCAAAACTTTTTCAAAATTACATTTTGACCCTAAAACTTTTCCAAAAT
* * * *
23534554 CATACTTTGATCACAAAA--TTTCC
66 TATATTTTGACCCCAAAACTTTTCC
23534577 AAAA
1 AAAA
23534581 AATTGCATTT
Statistics
Matches: 159, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
83 9 0.06
85 42 0.26
89 5 0.03
90 99 0.62
91 4 0.03
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.36
Consensus pattern (90 bp):
AAAATTACATTTTGACCCCAAAACTTTTTCAAAATTACATTTTGACCCTAAAACTTTTCCAAAAT
TATATTTTGACCCCAAAACTTTTCC
Found at i:23557485 original size:27 final size:27
Alignment explanation
Indices: 23557452--23557542 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
23557442 CAAGTTACTA
* *
23557452 CCACAAGGGCTCGTATATTAGATTTTG
1 CCACAAGGGCTCGTACATTAGATTCTG
*
23557479 CCACAAGGGCTTGTACATTAGATTCTG
1 CCACAAGGGCTCGTACATTAGATTCTG
* *
23557506 -C-CAAGGGCTTGTACATCAGATTCTG
1 CCACAAGGGCTCGTACATTAGATTCTG
23557531 CCACAAGGGCTC
1 CCACAAGGGCTC
23557543 ACATATAGCA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
25 23 0.40
26 2 0.04
27 32 0.56
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.27
Consensus pattern (27 bp):
CCACAAGGGCTCGTACATTAGATTCTG
Found at i:23557516 original size:25 final size:25
Alignment explanation
Indices: 23557455--23557533 Score: 104
Period size: 25 Copynumber: 3.1 Consensus size: 25
23557445 GTTACTACCA
* * *
23557455 CAAGGGCTCGTATATTAGATTTTGCC
1 CAAGGGCTTGTACATTAGATTCTG-C
23557481 ACAAGGGCTTGTACATTAGATTCTGC
1 -CAAGGGCTTGTACATTAGATTCTGC
*
23557507 CAAGGGCTTGTACATCAGATTCTGC
1 CAAGGGCTTGTACATTAGATTCTGC
23557532 CA
1 CA
23557534 CAAGGGCTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 26 0.54
26 1 0.02
27 21 0.44
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (25 bp):
CAAGGGCTTGTACATTAGATTCTGC
Found at i:23557601 original size:21 final size:21
Alignment explanation
Indices: 23557577--23557650 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
23557567 GGATCACAAC
*
23557577 AGCCAAAAAGGCTCGCAGAAT
1 AGCCAAAAAGGCTCACAGAAT
* *
23557598 AGCCACAAAAGGCT-TC--AAC
1 AGCCA-AAAAGGCTCACAGAAT
23557617 AGCCAAAAAGGCTCACAGAAT
1 AGCCAAAAAGGCTCACAGAAT
*
23557638 AGCCACAAAGGCT
1 AGCCAAAAAGGCT
23557651 TTCTATAACA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 8 0.18
19 8 0.18
21 20 0.45
22 8 0.18
ACGTcount: A:0.43, C:0.27, G:0.20, T:0.09
Consensus pattern (21 bp):
AGCCAAAAAGGCTCACAGAAT
Found at i:23557628 original size:40 final size:39
Alignment explanation
Indices: 23557573--23557651 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 39
23557563 TAAGGGATCA
*
23557573 CAACAGCCAAAAAGGCTCGCAGAATAGCCACAAAAGGCTT
1 CAACAGCCAAAAAGGCTCACAGAATAGCCAC-AAAGGCTT
23557613 CAACAGCCAAAAAGGCTCACAGAATAGCCACAAAGGCTT
1 CAACAGCCAAAAAGGCTCACAGAATAGCCACAAAGGCTT
23557652 TCTATAACAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 8 0.21
40 30 0.79
ACGTcount: A:0.43, C:0.28, G:0.19, T:0.10
Consensus pattern (39 bp):
CAACAGCCAAAAAGGCTCACAGAATAGCCACAAAGGCTT
Found at i:23560420 original size:119 final size:119
Alignment explanation
Indices: 23560209--23560447 Score: 433
Period size: 119 Copynumber: 2.0 Consensus size: 119
23560199 ATTTGATTGC
*
23560209 TTAAAAACCAAGCCTTTCCTAGCCAGAGCCAATTCTAGACATGCACCTTCCCATTACCACACTTC
1 TTAAAAACCAAGCCTTTCCTAGCCAGAGCCAATTCTAAACATGCACCTTCCCATTACCACACTTC
* * *
23560274 TCACAGTTATCAAATAATTAACTTAATGTTAAATCTTTCCATCTTACATTGATT
66 TCACAATTATCAAATAATCAACTTAATGTTAAATCTTTCCATCTTACATCGATT
*
23560328 TTAAAAACCAAGCCTTTCCTAGCCAGAGCTAATTCTAAACATGCACCTTCCCATTACCACACTTC
1 TTAAAAACCAAGCCTTTCCTAGCCAGAGCCAATTCTAAACATGCACCTTCCCATTACCACACTTC
23560393 TCACAATTATCAAATAATCAACTTAATGTTAAATCTTTCCATCTTACATCGATT
66 TCACAATTATCAAATAATCAACTTAATGTTAAATCTTTCCATCTTACATCGATT
23560447 T
1 T
23560448 ATCATATAAA
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 115 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (119 bp):
TTAAAAACCAAGCCTTTCCTAGCCAGAGCCAATTCTAAACATGCACCTTCCCATTACCACACTTC
TCACAATTATCAAATAATCAACTTAATGTTAAATCTTTCCATCTTACATCGATT
Found at i:23562110 original size:17 final size:18
Alignment explanation
Indices: 23562091--23562125 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23562081 CATTTTATGG
23562091 TTTCCAAACTATTTTGGT
1 TTTCCAAACTATTTTGGT
* *
23562109 TTTTCAAAGTATTTTGG
1 TTTCCAAACTATTTTGG
23562126 AATTGTGAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.11, G:0.14, T:0.51
Consensus pattern (18 bp):
TTTCCAAACTATTTTGGT
Found at i:23563645 original size:379 final size:380
Alignment explanation
Indices: 23562781--23563901 Score: 1750
Period size: 379 Copynumber: 3.0 Consensus size: 380
23562771 AACATATAAT
* *
23562781 CACAATTTATGATAATTTGGATGTTGAGACTATGAAACATATAGTGAGATCTATCATCACACATT
1 CACAATTTATGATAATTTGGCTGTTGAGACTATGAAACATATAGTGAGCTCTATCATCACACATT
* * *
23562846 GGATACGCGGATCTCCAACACACCAAGACTGGACTCATAGATTCGAAACATATCCCATAAGTGAA
66 GGATACCCGGATCTCCAACACACCAACACTGGACTCATAGAGTCGAAACATATCCCATAAGTGAA
* * * * *
23562911 GCATATAGCTATCACTCTCCAGCACACCAAACATATCTTGTTGAATGGATCATAGCTCACATTCT
131 GCATATAGCTAACACTCTCTAACACACCAAACATATCTCGTTGAATGGATCATAGCTCACATTCC
* * * *
23562976 CTTATCTCTCTAACATGTCTCTGGGCCTCAATGCCCCACATATAACAAAAATGTGAGTACTCACA
196 CTTATCTCTCTAACATGTCCCTGGGCCTCAACGCCCTACATATAACAAAAACGTGAGTACTCACA
23563041 ATCCTATGACATGCCAACTATATCCAAAGGTCTCATAAGATGACAAAGCCAAAATATCCACATTA
261 ATCCTATGACATGCCAACTATATCCAAAGGTCTCATAAGATGACAAAGCCAAAATATCCACATTA
* * *
23563106 TTATTATTACATATGTTTATCATATATTCAATACATATTCATAATCACAATCAAA
326 TTATTATTACATATTTTTATCATATATTCACTGCATATTCATAATCACAATCAAA
** *
23563161 CACAATTTATGATAATTTAACTGTTGAGACTATGAAACATATAGTGAGCTTTATCATCACACATT
1 CACAATTTATGATAATTTGGCTGTTGAGACTATGAAACATATAGTGAGCTCTATCATCACACATT
*
23563226 GGATACCCGGATCTCCAACACACCAACACTGGACTCATAGAGTCGAAACATATCCTATAAGTGAA
66 GGATACCCGGATCTCCAACACACCAACACTGGACTCATAGAGTCGAAACATATCCCATAAGTGAA
* *
23563291 GCATATAGCTAACACTCTCTAACACACCAAACATATCCCATTGAATGGATCATAGCTCACATTCC
131 GCATATAGCTAACACTCTCTAACACACCAAACATATCTCGTTGAATGGATCATAGCTCACATTCC
** *
23563356 CTTATCTCTCTAACATGTCCCTGGGCCTCAGGGCCCTACATATAACAAAAACGTGAATACTCACA
196 CTTATCTCTCTAACATGTCCCTGGGCCTCAACGCCCTACATATAACAAAAACGTGAGTACTCACA
* *
23563421 ATCATATGACATGCCAACTATATCCAAAGGT-TCATAAGATGACAAAGCCAAATTATCCACATTA
261 ATCCTATGACATGCCAACTATATCCAAAGGTCTCATAAGATGACAAAGCCAAAATATCCACATTA
23563485 TTATTATTACATATTTTTATCATATATTCACTGCATATTCATAATCACAATCAAA
326 TTATTATTACATATTTTTATCATATATTCACTGCATATTCATAATCACAATCAAA
* * *
23563540 CACAATTTATGATAATTTGGCTGTTAAGACTATAAAACATATAGTGAGCTCTACCATCACACATT
1 CACAATTTATGATAATTTGGCTGTTGAGACTATGAAACATATAGTGAGCTCTATCATCACACATT
* *
23563605 GGATACTCGGATCTCCAACACACCAACACTGGAATCATAGAGTCGAAACATATCCCATAAGTGAA
66 GGATACCCGGATCTCCAACACACCAACACTGGACTCATAGAGTCGAAACATATCCCATAAGTGAA
* * * * *
23563670 GTATATAGCTAACACACTCTAACACACCAAATATATCTCGTTCAATGGATCGTAGCTCACATTCC
131 GCATATAGCTAACACTCTCTAACACACCAAACATATCTCGTTGAATGGATCATAGCTCACATTCC
* * ** * * *
23563735 CTTATCTCTCCCAACATATCCCTAAGCCTTAACGCCCT--ATATAATACAAACGTGAGTACTCAC
196 CTTATCTCT-CTAACATGTCCCTGGGCCTCAACGCCCTACATATAACAAAAACGTGAGTACTCAC
* *
23563798 AATCCTATGACATGCCAACTATATCCAAAGGTCTCATAAGATCACAAAGCCAAAATA-CC-CA-C
260 AATCCTATGACATGCCAACTATATCCAAAGGTCTCATAAGATGACAAAGCCAAAATATCCACATT
* *
23563860 ATTATTATTACATAGTTTTATAATATATTCACTGCATATTCA
325 ATTATTATTACATATTTTTATCATATATTCACTGCATATTCA
23563902 CTTTATTATC
Statistics
Matches: 680, Mismatches: 59, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
376 40 0.06
377 2 0.00
378 55 0.08
379 294 0.43
380 289 0.43
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.28
Consensus pattern (380 bp):
CACAATTTATGATAATTTGGCTGTTGAGACTATGAAACATATAGTGAGCTCTATCATCACACATT
GGATACCCGGATCTCCAACACACCAACACTGGACTCATAGAGTCGAAACATATCCCATAAGTGAA
GCATATAGCTAACACTCTCTAACACACCAAACATATCTCGTTGAATGGATCATAGCTCACATTCC
CTTATCTCTCTAACATGTCCCTGGGCCTCAACGCCCTACATATAACAAAAACGTGAGTACTCACA
ATCCTATGACATGCCAACTATATCCAAAGGTCTCATAAGATGACAAAGCCAAAATATCCACATTA
TTATTATTACATATTTTTATCATATATTCACTGCATATTCATAATCACAATCAAA
Found at i:23564062 original size:23 final size:23
Alignment explanation
Indices: 23564035--23564164 Score: 161
Period size: 23 Copynumber: 5.7 Consensus size: 23
23564025 ATCTTAATTC
* *
23564035 TTTAAGCACCAATTACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
23564058 TTTAAGCACAAATCAAATTAATA
1 TTTAAGCACAAATCACATTAATA
* * * *
23564081 TGTAAGCATAAACCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
23564104 TTTAAGCACAAATCACATTCATA
1 TTTAAGCACAAATCACATTAATA
* *
23564127 TTTAAGCATAAATCACGTTAATA
1 TTTAAGCACAAATCACATTAATA
*
23564150 TTTAAGAACAAATCA
1 TTTAAGCACAAATCA
23564165 TTTAAGCATA
Statistics
Matches: 90, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 90 1.00
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:23564087 original size:46 final size:46
Alignment explanation
Indices: 23564035--23564310 Score: 307
Period size: 46 Copynumber: 6.2 Consensus size: 46
23564025 ATCTTAATTC
* *
23564035 TTTAAGCACCAATTACATTAATATTTAAGCACAAATCAAATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCAAATTAATA
* * * * * *
23564081 TGTAAGCATAAACCATATTAATATTTAAGCACAAATCACATTCATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCAAATTAATA
* * *
23564127 TTTAAGCATAAATCACGTTAATATTTAAG----AA-CAAA-T--CA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCAAATTAATA
* * * * * *
23564165 TTTAAGCATAAATCTCATTAATATTTGAGTACAAATTATATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCAAATTAATA
*
23564211 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCAAATTAATA
* * *
23564257 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCTAATTAACA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCAAATTAATA
23564303 TTTAAGCA
1 TTTAAGCA
23564311 TAGATATAAG
Statistics
Matches: 193, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
38 27 0.14
40 1 0.01
41 3 0.02
42 4 0.02
43 2 0.01
44 1 0.01
46 155 0.80
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (46 bp):
TTTAAGCACAAATCACATTAATATTTAAGCACAAATCAAATTAATA
Found at i:23564177 original size:38 final size:38
Alignment explanation
Indices: 23564126--23564254 Score: 114
Period size: 38 Copynumber: 3.2 Consensus size: 38
23564116 TCACATTCAT
*
23564126 ATTTAAGCATAAATCACGTTAATATTTAAGAACAAATC
1 ATTTAAGCATAAATCACATTAATATTTAAGAACAAATC
* * * *
23564164 ATTTAAGCATAAATCTCATTAATATTTGAGTACAAATTATATTAAT
1 ATTTAAGCATAAATCACATTAATATTTAAG-A-ACA--A-A-T--C
* *
23564210 ATTTAAGCACAAATCACATTAATATTTAAGCACAAATC
1 ATTTAAGCATAAATCACATTAATATTTAAGAACAAATC
23564248 ATATTAA
1 AT-TTAA
23564255 TATTTAAGCA
Statistics
Matches: 71, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
38 29 0.41
39 5 0.07
40 3 0.04
41 1 0.01
42 2 0.03
43 1 0.01
44 3 0.04
46 27 0.38
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (38 bp):
ATTTAAGCATAAATCACATTAATATTTAAGAACAAATC
Found at i:23564187 original size:107 final size:107
Alignment explanation
Indices: 23564057--23564271 Score: 304
Period size: 107 Copynumber: 2.0 Consensus size: 107
23564047 TTACATTAAT
*
23564057 ATTTAAGCACAAATCAAATTAATATGTAAGCATAAACCATATTAATATTTAAGCACAAATCACAT
1 ATTTAAGCACAAATCAAATTAATATGTAAGCACAAACCATATTAATATTTAAGCACAAATCACAT
* * *
23564122 TCATATTTAAGCATAAATCACGTTAATATTTAAGAACAAATC
66 TAATATTTAAGCACAAATCACATTAATATTTAAGAACAAATC
* ** * * * **
23564164 ATTTAAGCATAAATCTCATTAATATTTGAGTACAAATTATATTAATATTTAAGCACAAATCACAT
1 ATTTAAGCACAAATCAAATTAATATGTAAGCACAAACCATATTAATATTTAAGCACAAATCACAT
* *
23564229 TAATATTTAAGCACAAATCATATTAATATTTAAGCACAAATC
66 TAATATTTAAGCACAAATCACATTAATATTTAAGAACAAATC
23564271 A
1 A
23564272 CATTAATATT
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
107 94 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (107 bp):
ATTTAAGCACAAATCAAATTAATATGTAAGCACAAACCATATTAATATTTAAGCACAAATCACAT
TAATATTTAAGCACAAATCACATTAATATTTAAGAACAAATC
Found at i:23564209 original size:61 final size:61
Alignment explanation
Indices: 23564103--23564285 Score: 195
Period size: 61 Copynumber: 2.9 Consensus size: 61
23564093 CCATATTAAT
* * *
23564103 ATTTAAGCACAAATCACATTCATATTTAAGCATAAATCACGTTAATATTTAAGAACAAATC
1 ATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGAACAAATC
* * * * * * *
23564164 ATTTAAGCATAAATCTCATTAATATTTGAGTACAAATTATATTAATATTTAAGCACAAATCAC
1 ATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGAACAAAT--C
*
23564227 ATTAATATTTAAGCACAAATCATATTAATATTTAAGCACAAATCACATTAATATTTAAG
1 ------ATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAG
23564286 CATAAATCTA
Statistics
Matches: 97, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
61 50 0.52
63 1 0.01
69 46 0.47
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (61 bp):
ATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGAACAAATC
Found at i:23564224 original size:84 final size:85
Alignment explanation
Indices: 23564035--23564254 Score: 246
Period size: 84 Copynumber: 2.5 Consensus size: 85
23564025 ATCTTAATTC
* * *
23564035 TTTAAGCACCAATTACATTAATATTTAAGCACAAATCAAATTAATATGTAAGCATAAACCATATT
1 TTTAAGCACAAATCACATTAATATTTAAG----AA-CAAA-TCATAT-TAAGCATAAACCATATT
*
23564100 AATATTTAAGCACAAATCACATTCATA
59 AATATTTAAGCACAAATCACATTAATA
* * *
23564127 TTTAAGCATAAATCACGTTAATATTTAAGAACAAATCAT-TTAAGCATAAATC-TCATTAATATT
1 TTTAAGCACAAATCACATTAATATTTAAGAACAAATCATATTAAGCATAAACCAT-ATTAATATT
* * * *
23564190 TGAGTACAAATTATATTAATA
65 TAAGCACAAATCACATTAATA
*
23564211 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAA
1 TTTAAGCACAAATCACATTAATATTTAAGAACAAATCATATTAA
23564255 TATTTAAGCA
Statistics
Matches: 112, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
83 1 0.01
84 72 0.64
85 5 0.04
86 3 0.03
87 4 0.04
88 2 0.02
92 25 0.22
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (85 bp):
TTTAAGCACAAATCACATTAATATTTAAGAACAAATCATATTAAGCATAAACCATATTAATATTT
AAGCACAAATCACATTAATA
Found at i:23564293 original size:130 final size:130
Alignment explanation
Indices: 23564050--23564285 Score: 364
Period size: 130 Copynumber: 1.8 Consensus size: 130
23564040 GCACCAATTA
* *
23564050 CATTAATATTTAAGCACAAATCAAATTAATATGTAAGCATAAACCATATTAATATTTAAGCACAA
1 CATTAATATTTAAGCACAAATCAAATTAATATGTAAGCACAAACCACATTAATATTTAAGCACAA
* * *
23564115 ATCACATTCATATTTAAGCATAAATCACGTTAATATTTAAGAACAAATCATTTAAGCATAAATCT
66 ATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGAACAAATCATTTAAGCATAAATCT
* * * * * *
23564180 CATTAATATTTGAGTACAAATTATATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAA
1 CATTAATATTTAAGCACAAATCAAATTAATATGTAAGCACAAACCACATTAATATTTAAGCACAA
*
23564245 ATCATATTAATATTTAAGCACAAATCACATTAATATTTAAG
66 ATCACATTAATATTTAAGCACAAATCACATTAATATTTAAG
23564286 CATAAATCTA
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
130 94 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.34
Consensus pattern (130 bp):
CATTAATATTTAAGCACAAATCAAATTAATATGTAAGCACAAACCACATTAATATTTAAGCACAA
ATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGAACAAATCATTTAAGCATAAATCT
Found at i:23564312 original size:23 final size:23
Alignment explanation
Indices: 23564164--23564310 Score: 197
Period size: 23 Copynumber: 6.4 Consensus size: 23
23564154 AGAACAAATC
* *
23564164 ATTTAAGCATAAATCTCATTAAT
1 ATTTAAGCACAAATCACATTAAT
* * * *
23564187 ATTTGAGTACAAATTATATTAAT
1 ATTTAAGCACAAATCACATTAAT
23564210 ATTTAAGCACAAATCACATTAAT
1 ATTTAAGCACAAATCACATTAAT
*
23564233 ATTTAAGCACAAATCATATTAAT
1 ATTTAAGCACAAATCACATTAAT
23564256 ATTTAAGCACAAATCACATTAAT
1 ATTTAAGCACAAATCACATTAAT
* *
23564279 ATTTAAGCATAAATCTA-ATTAAC
1 ATTTAAGCACAAATC-ACATTAAT
23564302 ATTTAAGCA
1 ATTTAAGCA
23564311 TAGATATAAG
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
23 108 0.99
24 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.35
Consensus pattern (23 bp):
ATTTAAGCACAAATCACATTAAT
Found at i:23575881 original size:7 final size:7
Alignment explanation
Indices: 23575869--23575897 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
23575859 ATATTTCTTT
23575869 TCTTTTC
1 TCTTTTC
23575876 TCTTTTC
1 TCTTTTC
23575883 TCTTTTC
1 TCTTTTC
23575890 T-TTTTC
1 TCTTTTC
23575896 TC
1 TC
23575898 ATTCAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTTTTC
Found at i:23576646 original size:21 final size:21
Alignment explanation
Indices: 23576620--23576666 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
23576610 CTCTCCTTCC
* * *
23576620 TCCTTGTGATTCTTCTTTTTG
1 TCCTTGCGATTCCTCTTCTTG
*
23576641 TCCTTGCGCTTCCTCTTCTTG
1 TCCTTGCGATTCCTCTTCTTG
23576662 TCCTT
1 TCCTT
23576667 TGAACCAACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.30, G:0.13, T:0.55
Consensus pattern (21 bp):
TCCTTGCGATTCCTCTTCTTG
Found at i:23589529 original size:36 final size:36
Alignment explanation
Indices: 23589482--23589556 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
23589472 GTCACGACAT
23589482 AGGCTAAGCTACATCACAACCAAGGGACCAGACTTA
1 AGGCTAAGCTACATCACAACCAAGGGACCAGACTTA
* * *
23589518 AGGCTGAGCTACATCGCAACGAAGGGACCAGACTTA
1 AGGCTAAGCTACATCACAACCAAGGGACCAGACTTA
23589554 AGG
1 AGG
23589557 AATTTGACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.13
Consensus pattern (36 bp):
AGGCTAAGCTACATCACAACCAAGGGACCAGACTTA
Found at i:23589936 original size:42 final size:42
Alignment explanation
Indices: 23589875--23590028 Score: 159
Period size: 42 Copynumber: 3.7 Consensus size: 42
23589865 TAGGGACATA
* ** *
23589875 AGATTTGCCTTTGCAGCTTCAATCTAGC-CCTTTACAG-CTTTG
1 AGATTCGCCTTTGTGGCTTCAATCT-GCTCCTCTACAGTC-TTG
* *
23589917 AGATTCGCCTTTGTGGCTTCAGTCTGCTTCTCTACAGTCTTG
1 AGATTCGCCTTTGTGGCTTCAATCTGCTCCTCTACAGTCTTG
* * * * *
23589959 AGATTCACCTTTTTGGCTTCAATCTGCTTCTCTACAATCTTA
1 AGATTCGCCTTTGTGGCTTCAATCTGCTCCTCTACAGTCTTG
* *
23590001 AGATTCGCTTTTTTGGCTTCAATCTGCT
1 AGATTCGCCTTTGTGGCTTCAATCTGCT
23590029 TCTCCTTATC
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
41 2 0.02
42 94 0.97
43 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.42
Consensus pattern (42 bp):
AGATTCGCCTTTGTGGCTTCAATCTGCTCCTCTACAGTCTTG
Found at i:23590029 original size:42 final size:42
Alignment explanation
Indices: 23589917--23590032 Score: 178
Period size: 42 Copynumber: 2.8 Consensus size: 42
23589907 TACAGCTTTG
* * * *
23589917 AGATTCGCCTTTGTGGCTTCAGTCTGCTTCTCTACAGTCTTG
1 AGATTCGCCTTTTTGGCTTCAATCTGCTTCTCTACAATCTTA
*
23589959 AGATTCACCTTTTTGGCTTCAATCTGCTTCTCTACAATCTTA
1 AGATTCGCCTTTTTGGCTTCAATCTGCTTCTCTACAATCTTA
*
23590001 AGATTCGCTTTTTTGGCTTCAATCTGCTTCTC
1 AGATTCGCCTTTTTGGCTTCAATCTGCTTCTC
23590033 CTTATCTTCA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.43
Consensus pattern (42 bp):
AGATTCGCCTTTTTGGCTTCAATCTGCTTCTCTACAATCTTA
Found at i:23591144 original size:17 final size:16
Alignment explanation
Indices: 23591122--23591190 Score: 72
Period size: 15 Copynumber: 4.3 Consensus size: 16
23591112 TGACCACTCC
23591122 TTTTTCTTTTTCTCTTT
1 TTTTTC-TTTTCTCTTT
23591139 TTTTTC-TTTCT-TCTT
1 TTTTTCTTTTCTCT-TT
* *
23591154 TCTTT-TTTTCTCTTC
1 TTTTTCTTTTCTCTTT
23591169 TTTTTCTTTTCTTCTTT
1 TTTTTCTTTTC-TCTTT
23591186 TTTTT
1 TTTTT
23591191 GGGTGAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 1 0.02
15 21 0.49
16 6 0.14
17 15 0.35
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTCTTTTCTCTTT
Found at i:23591164 original size:30 final size:30
Alignment explanation
Indices: 23591121--23591190 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
23591111 TTGACCACTC
*
23591121 CTTTTTCTTTTTCTCTTTTTTTTC-TTTCTT
1 CTTTTT-TTTTTCTCTTCTTTTTCTTTTCTT
23591151 CTTTCTTTTTTTCTCTTCTTTTTCTTTTCTT
1 CTTT-TTTTTTTCTCTTCTTTTTCTTTTCTT
23591182 CTTTTTTTT
1 CTTTTTTTT
23591191 GGGTGAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
30 25 0.68
31 12 0.32
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (30 bp):
CTTTTTTTTTTCTCTTCTTTTTCTTTTCTT
Found at i:23592088 original size:5 final size:5
Alignment explanation
Indices: 23592078--23592124 Score: 64
Period size: 5 Copynumber: 10.0 Consensus size: 5
23592068 TTCTTCTTGA
*
23592078 TTTCT TTTCT TTTCT TTT-T CTTCT TTT-T TTTCT TTT-T TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT
23592125 CTTTTGTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
4 11 0.30
5 26 0.70
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTCT
Found at i:23592097 original size:27 final size:27
Alignment explanation
Indices: 23592067--23592127 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
23592057 CTTTGCAGGC
23592067 TTTCTTC-TTGATTTCTTTTCTTTTCTT
1 TTTCTTCTTTGATTTCTTTT-TTTTCTT
**
23592094 TTTCTTCTTTTTTTTCTTTTTTTTCTT
1 TTTCTTCTTTGATTTCTTTTTTTTCTT
23592121 TTCTCTT
1 TT-TCTT
23592128 TTGTTTGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 16 0.53
28 14 0.47
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (27 bp):
TTTCTTCTTTGATTTCTTTTTTTTCTT
Found at i:23592103 original size:9 final size:9
Alignment explanation
Indices: 23592067--23592127 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
23592057 CTTTGCAGGC
23592067 TTTCTTCTT
1 TTTCTTCTT
23592076 GATTTCTT-TT
1 --TTTCTTCTT
*
23592086 CTT-TTCTT
1 TTTCTTCTT
23592094 TTTCTTCTT
1 TTTCTTCTT
*
23592103 TTTTTTCTT
1 TTTCTTCTT
*
23592112 TTTTTTCTT
1 TTTCTTCTT
23592121 TTCTCTT
1 TT-TCTT
23592128 TTGTTTGGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
7 2 0.05
8 6 0.14
9 24 0.56
10 5 0.12
11 6 0.14
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (9 bp):
TTTCTTCTT
Found at i:23592108 original size:18 final size:19
Alignment explanation
Indices: 23592079--23592124 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
23592069 TCTTCTTGAT
23592079 TTCTTTTCTTTTCTTTTTC
1 TTCTTTTCTTTTCTTTTTC
*
23592098 TTCTTTT-TTTTCTTTTTT
1 TTCTTTTCTTTTCTTTTTC
23592116 TTCTTTTCT
1 TTCTTTTCT
23592125 CTTTTGTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTCTTTTCTTTTCTTTTTC
Found at i:23592124 original size:23 final size:23
Alignment explanation
Indices: 23592082--23592129 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
23592072 TCTTGATTTC
*
23592082 TTTTCTTTTCTTTTTCTTCTTTT
1 TTTTCTTTTCTTTTTCTTCTCTT
*
23592105 TTTTCTTTT-TTTTCTTTTCTCTT
1 TTTTCTTTTCTTTT-TCTTCTCTT
23592128 TT
1 TT
23592130 GTTTGGGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (23 bp):
TTTTCTTTTCTTTTTCTTCTCTT
Found at i:23592129 original size:14 final size:14
Alignment explanation
Indices: 23592087--23592129 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
23592077 ATTTCTTTTC
23592087 TTTTCTTTT-TCTT
1 TTTTCTTTTCTCTT
*
23592100 CTTTT-TTTTCTTTT
1 -TTTTCTTTTCTCTT
23592114 TTTTCTTTTCTCTT
1 TTTTCTTTTCTCTT
23592128 TT
1 TT
23592130 GTTTGGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTCTTTTCTCTT
Found at i:23606969 original size:24 final size:26
Alignment explanation
Indices: 23606942--23606989 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
23606932 AGAGAAATGT
23606942 AAATG-TGATATATGA-A-ATTATGAG
1 AAATGATGA-ATATGAGAGATTATGAG
23606966 AAATGATGAATATGAGAGATTATG
1 AAATGATGAATATGAGAGATTATG
23606990 CCCATGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (26 bp):
AAATGATGAATATGAGAGATTATGAG
Found at i:23607130 original size:23 final size:23
Alignment explanation
Indices: 23607073--23607123 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
23607063 AGCACATTTC
*
23607073 GTGCCCTCTGTTCAGCATTGTGT
1 GTGCCCTCTATTCAGCATTGTGT
23607096 GTGCCCTCTATTCAGCACTT-TGT
1 GTGCCCTCTATTCAGCA-TTGTGT
23607119 GTGCC
1 GTGCC
23607124 TACTATTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 24 0.92
24 2 0.08
ACGTcount: A:0.10, C:0.29, G:0.24, T:0.37
Consensus pattern (23 bp):
GTGCCCTCTATTCAGCATTGTGT
Found at i:23612580 original size:23 final size:23
Alignment explanation
Indices: 23612554--23612627 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
23612544 AGCACATTTC
23612554 GTGCCCTCTGTTCAGCACTGTGT
1 GTGCCCTCTGTTCAGCACTGTGT
*
23612577 GTGCCCTCTATTCAGCACTGTGT
1 GTGCCCTCTGTTCAGCACTGTGT
* * *
23612600 GTG-CTTCTGTTTAGCACTTTGT
1 GTGCCCTCTGTTCAGCACTGTGT
23612622 GTGCCC
1 GTGCCC
23612628 ACTATTGCCC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
22 18 0.41
23 26 0.59
ACGTcount: A:0.09, C:0.28, G:0.24, T:0.38
Consensus pattern (23 bp):
GTGCCCTCTGTTCAGCACTGTGT
Found at i:23612652 original size:47 final size:45
Alignment explanation
Indices: 23612560--23612657 Score: 126
Period size: 45 Copynumber: 2.1 Consensus size: 45
23612550 TTTCGTGCCC
* *
23612560 TCTGTTCAGCACTGTGTGTGCCCTCTATTCAGCACTGTGTGTGCT
1 TCTGTTCAGCACTGTGTGTGCCCACTATTCAGCACTGTATGTGCT
* *
23612605 TCTGTTTAGCACTTTGTGTGCCCACTATTGCCCAGCACT-TATGTGCT
1 TCTGTTCAGCACTGTGTGTGCCCACTATT---CAGCACTGTATGTGCT
23612652 TCTGTT
1 TCTGTT
23612658 AAGTACTTCG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
45 26 0.57
47 13 0.28
48 7 0.15
ACGTcount: A:0.12, C:0.27, G:0.21, T:0.40
Consensus pattern (45 bp):
TCTGTTCAGCACTGTGTGTGCCCACTATTCAGCACTGTATGTGCT
Found at i:23615438 original size:29 final size:28
Alignment explanation
Indices: 23615406--23615475 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 28
23615396 AATTAATAGA
23615406 TATAAAATTATACTTTAATATTTTAAAA-T
1 TATAAAATTATAC-TTAA-ATTTTAAAATT
*
23615435 TATAAAAATT-TAACTTAACTTTTAAAATT
1 TAT-AAAATTAT-ACTTAAATTTTAAAATT
*
23615464 TATAAAAATATA
1 TATAAAATTATA
23615476 AATAATTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
28 14 0.40
29 13 0.37
30 8 0.23
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (28 bp):
TATAAAATTATACTTAAATTTTAAAATT
Found at i:23619413 original size:62 final size:60
Alignment explanation
Indices: 23619266--23619414 Score: 158
Period size: 62 Copynumber: 2.5 Consensus size: 60
23619256 TAAAAAAATT
* ** *
23619266 GTGTTGGTCATGCATTGGGTGACGCCACCTTATTTATTAGATAAAAAACAAATTTATTTG
1 GTGTTGGCCATGCATTGGCCGACACCACCTTATTTATTAGATAAAAAACAAATTTATTTG
* * * * *
23619326 GTGTTAGCTAATG-TTTGGCCAACACCACCTTATTTATCT-GATAAAATAAATAAATTTATTTG
1 GTGTTGGC-CATGCATTGGCCGACACCACCTTATTTAT-TAGAT-AAA-AAACAAATTTATTTG
*
23619388 GTGTTGGCCATGCATTGACCGACACCA
1 GTGTTGGCCATGCATTGGCCGACACCA
23619415 ACTTTCCTTT
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
60 28 0.40
61 10 0.14
62 32 0.46
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (60 bp):
GTGTTGGCCATGCATTGGCCGACACCACCTTATTTATTAGATAAAAAACAAATTTATTTG
Found at i:23620245 original size:30 final size:30
Alignment explanation
Indices: 23620209--23620299 Score: 130
Period size: 29 Copynumber: 3.1 Consensus size: 30
23620199 AAAAAATAAT
**
23620209 AATTAGAAAAGAAATTTAAAATATAAACGA
1 AATTAGAAATTAAATTTAAAATATAAACGA
*
23620239 AATTAGAAATTAAA-GTAAAATATAAACGA
1 AATTAGAAATTAAATTTAAAATATAAACGA
* *
23620268 AATTACAAATTAAATTTAAAAAATAAACGA
1 AATTAGAAATTAAATTTAAAATATAAACGA
23620298 AA
1 AA
23620300 AAAATCAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
29 27 0.50
30 27 0.50
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.24
Consensus pattern (30 bp):
AATTAGAAATTAAATTTAAAATATAAACGA
Found at i:23621024 original size:267 final size:267
Alignment explanation
Indices: 23620543--23621076 Score: 933
Period size: 267 Copynumber: 2.0 Consensus size: 267
23620533 GAGGTACAGA
* * * *
23620543 GCCAAAAATATCCTCCATTGTCGATGTATGTTCTTCTCGATGGATCTCCGGTTGATATGAGGATG
1 GCCAAAAATATCCTCCATTGTCGATGTACGTTCTTCCCGATGGATCTCCGATTGATATGAGGATA
* * *
23620608 AACCGGAGTAATATGAACGTTGAGGGTCGGGGTCGATGCCAAAAATCTCCTTCATGGAATGATGA
66 AACCGGAGTAATATGAACGTTAAGGGTCGGGGTCGACGCCAAAAATCTCCTTCATGGAACGATGA
* *
23620673 TATAGGTCTTGCGGCAAAAAAGACGAAGAGCCGGATTCTTGATATTAGGGCTCGAGTTGGTACTC
131 TATAGGTCTTGCGGAAAAAAAGACGAAGAGCCGGATTCTTGATATTAGGGCTCGAATTGGTACTC
* *
23620738 GGGCTGGTCGTCGGGCTGGTCCACGGCCTCGTACTCGGGCTCATCCTCGGGTTTATCCTTAGGCT
196 GGGCTGATCGTCAGGCTGGTCCACGGCCTCGTACTCGGGCTCATCCTCGGGTTTATCCTTAGGCT
23620803 CAAAATC
261 CAAAATC
23620810 GCCAAAAATATCCTCCATTGTCGATGTACGTTCTTCCCGATGGATCTCCGATTGATATGAGGATA
1 GCCAAAAATATCCTCCATTGTCGATGTACGTTCTTCCCGATGGATCTCCGATTGATATGAGGATA
*
23620875 AACCGGAGTAATATGAACGTTAAGGGTTGGGGTCGACGCCAAAAATCTCCTTCATGGAACGATGA
66 AACCGGAGTAATATGAACGTTAAGGGTCGGGGTCGACGCCAAAAATCTCCTTCATGGAACGATGA
23620940 TATAGGTCTTGCGGAAAAAAAGACGAAGAGCCGGATTCTTGATATTAGGGCTCGAATTGGTACTC
131 TATAGGTCTTGCGGAAAAAAAGACGAAGAGCCGGATTCTTGATATTAGGGCTCGAATTGGTACTC
* *
23621005 GGGCTGATCGTCAGGCTGGTCTACGGCCTCGTACTCGGGCTCGTCCTCGGGTTTATCCTTAGGCT
196 GGGCTGATCGTCAGGCTGGTCCACGGCCTCGTACTCGGGCTCATCCTCGGGTTTATCCTTAGGCT
*
23621070 CGAAATC
261 CAAAATC
23621077 TGAATTGGGG
Statistics
Matches: 252, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
267 252 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (267 bp):
GCCAAAAATATCCTCCATTGTCGATGTACGTTCTTCCCGATGGATCTCCGATTGATATGAGGATA
AACCGGAGTAATATGAACGTTAAGGGTCGGGGTCGACGCCAAAAATCTCCTTCATGGAACGATGA
TATAGGTCTTGCGGAAAAAAAGACGAAGAGCCGGATTCTTGATATTAGGGCTCGAATTGGTACTC
GGGCTGATCGTCAGGCTGGTCCACGGCCTCGTACTCGGGCTCATCCTCGGGTTTATCCTTAGGCT
CAAAATC
Found at i:23622099 original size:92 final size:94
Alignment explanation
Indices: 23621915--23622186 Score: 417
Period size: 92 Copynumber: 2.9 Consensus size: 94
23621905 GGGTATTTTA
* *
23621915 GTAAAT-ATGTATTATCAAATCAAACACATTATTTGAT-AAAATTGAAATATTATAATAATTATT
1 GTAAATAATGTATTGTCAAATC-AACACATTATTTGATAAAAATTAAAATATTATAATAATT-TT
23621978 TTTATTTAAATAAATTTAAAATTTAAATTTG
64 TTTATTTAAATAAATTTAAAATTTAAATTTG
23622009 GTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATA-T-TAATAATTTTTT
1 GTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAATTTTTT
* *
23622072 TATTTAAATAATTTTAAAATTTGAATTTG
66 TATTTAAATAAATTTAAAATTTAAATTTG
* * *
23622101 GTAAATAATATATTGTCAAACCAATACATTATTTGATAAAAATTAAAATATTATAATAATATTTT
1 GTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAAT-TTTT
*
23622166 TTATTTAAATAACTTTAAAAT
65 TTATTTAAATAAATTTAAAAT
23622187 AATTTTAAAA
Statistics
Matches: 165, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
92 78 0.47
93 9 0.05
94 29 0.18
95 49 0.30
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (94 bp):
GTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAATTTTTT
TATTTAAATAAATTTAAAATTTAAATTTG
Found at i:23624759 original size:205 final size:205
Alignment explanation
Indices: 23624392--23624803 Score: 711
Period size: 205 Copynumber: 2.0 Consensus size: 205
23624382 CACGAGCTCG
*
23624392 AGCCACATCTGGGTCTACGTCGCTCATAGAAGCCCCAAGATTATTCCTGATAACTATACTCGGGC
1 AGCCACATATGGGTCTACGTCGCTCATAGAAGCCCCAAGATTATTCCTGATAACTATACTCGGGC
*
23624457 TCGTATTTCCTCCAGAACGGGTGTTAACATCATCACCCTCCACCAACCCCTACTCATCTAAGTCT
66 TCATATTTCCTCCAGAACGGGTGTTAACATCATCACCCTCCACCAACCCCTACTCATCTAAGTCT
* * *
23624522 TCGAGGATGTCATCTAAATCGGGGTTTTCCAAAGCTTCATTTTCGTCATAATCTTTTATGGGGGC
131 TCGAGGATGTCATCCAAATCGAGGTATTCCAAAGCTTCATTTTCGTCATAATCTTTTATGGGGGC
23624587 TAACACCTCC
196 TAACACCTCC
* *
23624597 AGCCGCATATGGGTCTACGTTGCTCAT-GAAAG-CCCAGAGATTATTCCTGATAACTATACTCGG
1 AGCCACATATGGGTCTACGTCGCTCATAG-AAGCCCCA-AGATTATTCCTGATAACTATACTCGG
*
23624660 GCTCATATTTCCTCCAGAACGGGTGTTAACATCATCACCGTCCACCAACCCCTACTCATCTAAGT
64 GCTCATATTTCCTCCAGAACGGGTGTTAACATCATCACCCTCCACCAACCCCTACTCATCTAAGT
*
23624725 CTTCGAGGATGTCATCCAAATCGAGGTATTCCAAAGCTTCATTTTTGTCATAATCTTTTATGGGG
129 CTTCGAGGATGTCATCCAAATCGAGGTATTCCAAAGCTTCATTTTCGTCATAATCTTTTATGGGG
23624790 GCTAACACCTCC
194 GCTAACACCTCC
23624802 AG
1 AG
23624804 ATGAAATTGT
Statistics
Matches: 196, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
204 5 0.03
205 191 0.97
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (205 bp):
AGCCACATATGGGTCTACGTCGCTCATAGAAGCCCCAAGATTATTCCTGATAACTATACTCGGGC
TCATATTTCCTCCAGAACGGGTGTTAACATCATCACCCTCCACCAACCCCTACTCATCTAAGTCT
TCGAGGATGTCATCCAAATCGAGGTATTCCAAAGCTTCATTTTCGTCATAATCTTTTATGGGGGC
TAACACCTCC
Found at i:23626324 original size:31 final size:30
Alignment explanation
Indices: 23626289--23626349 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
23626279 TTGTTGCTTC
*
23626289 ACATGACAGTATATAATTCAACTCCGGAAAT
1 ACATGACAGTATATAATTCAAC-CCCGAAAT
*
23626320 ACATGACAGTATATAGTTCAACCCCGAAAT
1 ACATGACAGTATATAATTCAACCCCGAAAT
23626350 TCGATTGTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (30 bp):
ACATGACAGTATATAATTCAACCCCGAAAT
Found at i:23626624 original size:62 final size:58
Alignment explanation
Indices: 23626518--23627126 Score: 335
Period size: 60 Copynumber: 10.5 Consensus size: 58
23626508 TGGTGTCAGT
* * *
23626518 CAATGCATGGCAACACCAAAAAATTTGTTTCTTTTATCAGATAAAAAAGGTGGTGTCGAT
1 CAATGCATGGCAACACAAAAAAAATT-TTT-TTTTATCAGATAAAAAAGGTGGTGTCGAC
*
23626578 CAATGCATGACGAACATCAAAAAAAATTGTTTTTTTAATCAGATAAAAAAGGTGGTGTCGAC
1 CAATGCATGGC-AACA-CAAAAAAAATT-TTTTTTT-ATCAGATAAAAAAGGTGGTGTCGAC
* * * *
23626640 TAATGCATGATCAACACAAAAAAAATTATTTTTTTATCAGATAAAAAAAGTGGTGTCGGC
1 CAATGCATG-GCAACACAAAAAAAATT-TTTTTTTATCAGATAAAAAAGGTGGTGTCGAC
* ** * * *
23626700 CAATGCATGGCCAACACAAAAAAAAAATAATTTTTATCAGATAAAAAAGGTGGTATTGGC
1 CAATGCATGG-CAACAC-AAAAAAAATTTTTTTTTATCAGATAAAAAAGGTGGTGTCGAC
* *
23626760 CAA-GCATTGGCCAACACCAAAAAAAA-TATTTTTTATCTGAT-AAAAAGGTGGTGTCGAC
1 CAATGCA-TGG-CAACA-CAAAAAAAATTTTTTTTTATCAGATAAAAAAGGTGGTGTCGAC
* * * * * *
23626818 CAATGCGTTGCCAACAC-----CAA-TTTTTTTTATCTGACAAAAAAGATGGTGTC-AGC
1 CAATGC-ATGGCAACACAAAAAAAATTTTTTTTTATCAGATAAAAAAGGTGGTGTCGA-C
* * * *
23626871 CAATGCATGGCCAACAC---CAAAA-TTTTTTTTAACTGATAAAAAAATGTTGGTGTC-AGC
1 CAATGCATGG-CAACACAAAAAAAATTTTTTTTTATCAGAT-AAAAAA-GGTGGTGTCGA-C
* * * * **
23626928 CAATGCATGACCAACAC---CAAAA-TCTTTTTTATCTGATAAAAAAAATATTGGTGTCGAC
1 CAATGCATG-GCAACACAAAAAAAATTTTTTTTTATCAGAT--AAAAAA-GGTGGTGTCGAC
* * * *
23626986 CAATGCATGGTTAACAC----CAAA-TTTTTTTTATCTGATAAAAATGGTGGTGTC-AGC
1 CAATGCATGG-CAACACAAAAAAAATTTTTTTTTATCAGATAAAAAAGGTGGTGTCGA-C
* * * * **
23627040 CAA-GCATTGGCCAACAC-CAAATAA---TTTTTTATCTGATAAAAATA-CTGGTGTCGTT
1 CAATGCA-TGG-CAACACAAAAAAAATTTTTTTTTATCAGATAAAAA-AGGTGGTGTCGAC
** *
23627095 CAATGCATGGCCAACACTCAAAAAATTATTTT
1 CAATGCATGG-CAACACAAAAAAAATTTTTTT
23627127 ATCTGACAAA
Statistics
Matches: 462, Mismatches: 54, Indels: 67
0.79 0.09 0.11
Matches are distributed among these distances:
52 18 0.04
53 30 0.06
54 19 0.04
55 58 0.13
56 15 0.03
57 64 0.14
58 53 0.11
59 25 0.05
60 94 0.20
61 36 0.08
62 49 0.11
63 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (58 bp):
CAATGCATGGCAACACAAAAAAAATTTTTTTTTATCAGATAAAAAAGGTGGTGTCGAC
Found at i:23626645 original size:122 final size:118
Alignment explanation
Indices: 23626518--23626823 Score: 348
Period size: 122 Copynumber: 2.5 Consensus size: 118
23626508 TGGTGTCAGT
* *
23626518 CAATGCATGGCAACACCAAAAAATTTGTTTCTTTTATCAGATAAAAAAGGTGGTGTCGATCAATG
1 CAATGCATGGCAACACCAAAAAAATT-TTT-TTTTATCAGATAAAAAAGGTGGTGTCGACCAATG
* * ** *
23626583 CATGACGAACATC-AAAAAAAATTGTTTTTTTAATCAGATAAAAAAGGTGGTGTCGAC
64 CATGACCAACA-CAAAAAAAAAAT-AATTTTT-ATCAGATAAAAAAGGTGGTATCGAC
* * * * *
23626640 TAATGCATGATCAACACAAAAAAAATTATTTTTTTATCAGATAAAAAAAGTGGTGTCGGCCAATG
1 CAATGCATG-GCAACACCAAAAAAATT-TTTTTTTATCAGATAAAAAAGGTGGTGTCGACCAATG
* * *
23626705 CATGGCCAACACAAAAAAAAAATAATTTTTATCAGATAAAAAAGGTGGTATTGGC
64 CATGACCAACACAAAAAAAAAATAATTTTTATCAGATAAAAAAGGTGGTATCGAC
* * *
23626760 CAA-GCATTGGCCAACACCAAAAAAAATATTTTTTATCTGAT-AAAAAGGTGGTGTCGACCAATG
1 CAATGCA-TGG-CAACACCAAAAAAATTTTTTTTTATCAGATAAAAAAGGTGGTGTCGACCAATG
23626823 C
64 C
23626824 GTTGCCAACA
Statistics
Matches: 156, Mismatches: 24, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
118 21 0.13
119 15 0.10
120 40 0.26
121 6 0.04
122 57 0.37
123 17 0.11
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (118 bp):
CAATGCATGGCAACACCAAAAAAATTTTTTTTTATCAGATAAAAAAGGTGGTGTCGACCAATGCA
TGACCAACACAAAAAAAAAATAATTTTTATCAGATAAAAAAGGTGGTATCGAC
Found at i:23626793 original size:59 final size:60
Alignment explanation
Indices: 23626518--23627171 Score: 415
Period size: 57 Copynumber: 11.3 Consensus size: 60
23626508 TGGTGTCAGT
* * *
23626518 CAATGCATGG-CAACACC-AAAAAATTTGTTTCTTTTATCAGATAAAAAAGGTGGTGTCGAT
1 CAATGCATGGCCAACACCAAAAAAAATT-ATT-TTTTATCAGATAAAAAAGGTGGTGTCGAC
* * * *
23626578 CAATGCATGACGAACATCAAAAAAAATTGTTTTTTTAATCAGATAAAAAAGGTGGTGTCGAC
1 CAATGCATGGCCAACACCAAAAAAAATT-ATTTTTT-ATCAGATAAAAAAGGTGGTGTCGAC
* ** * *
23626640 TAATGCATGATCAACA-CAAAAAAAATTATTTTTTTATCAGATAAAAAAAGTGGTGTCGGC
1 CAATGCATGGCCAACACCAAAAAAAATTA-TTTTTTATCAGATAAAAAAGGTGGTGTCGAC
* * * * * *
23626700 CAATGCATGGCCAACACAAAAAAAAAATAATTTTTATCAGATAAAAAAGGTGGTATTGGC
1 CAATGCATGGCCAACACCAAAAAAAATTATTTTTTATCAGATAAAAAAGGTGGTGTCGAC
*
23626760 CAA-GCATTGGCCAACACCAAAAAAAA-TATTTTTTATCTGAT-AAAAAGGTGGTGTCGAC
1 CAATGCA-TGGCCAACACCAAAAAAAATTATTTTTTATCAGATAAAAAAGGTGGTGTCGAC
* * * * *
23626818 CAATGCGTTGCCAACACC------AATT-TTTTTTATCTGACAAAAAAGATGGTGTC-AGC
1 CAATGCATGGCCAACACCAAAAAAAATTATTTTTTATCAGATAAAAAAGGTGGTGTCGA-C
* * *
23626871 CAATGCATGGCCAACACC----AAAATT-TTTTTTAACTGATAAAAAAATGTTGGTGTC-AGC
1 CAATGCATGGCCAACACCAAAAAAAATTATTTTTTATCAGAT-AAAAAA-GGTGGTGTCGA-C
* * * **
23626928 CAATGCATGACCAACACC----AAAA-TCTTTTTTATCTGATAAAAAAAATATTGGTGTCGAC
1 CAATGCATGGCCAACACCAAAAAAAATTATTTTTTATCAGAT--AAAAAA-GGTGGTGTCGAC
** * *
23626986 CAATGCATGGTTAACACC-----AAATT-TTTTTTATCTGATAAAAATGGTGGTGTC-AGC
1 CAATGCATGGCCAACACCAAAAAAAATTATTTTTTATCAGATAAAAAAGGTGGTGTCGA-C
* * * **
23627040 CAA-GCATTGGCCAACACC-----AAATAATTTTTTATCTGATAAAAATA-CTGGTGTCGTT
1 CAATGCA-TGGCCAACACCAAAAAAAATTATTTTTTATCAGATAAAAA-AGGTGGTGTCGAC
* * * * * *
23627095 CAATGCATGGCCAACACTC--AAAAAATTA--TTTTATCTGACAAAAAAGATGATGTTGGC
1 CAATGCATGGCCAACAC-CAAAAAAAATTATTTTTTATCAGATAAAAAAGGTGGTGTCGAC
23627152 CAA-GCATTGGCCAACACCAA
1 CAATGCA-TGGCCAACACCAA
23627172 TTTTTTTTTC
Statistics
Matches: 504, Mismatches: 58, Indels: 66
0.80 0.09 0.11
Matches are distributed among these distances:
52 15 0.03
53 35 0.07
54 24 0.05
55 58 0.12
56 16 0.03
57 94 0.19
58 60 0.12
59 24 0.05
60 93 0.18
61 36 0.07
62 49 0.10
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (60 bp):
CAATGCATGGCCAACACCAAAAAAAATTATTTTTTATCAGATAAAAAAGGTGGTGTCGAC
Found at i:23627060 original size:169 final size:168
Alignment explanation
Indices: 23626808--23627179 Score: 440
Period size: 169 Copynumber: 2.2 Consensus size: 168
23626798 GATAAAAAGG
* *
23626808 TGGTGTCGACCAATGCGTTGCCAACACCAATTTTTTTTATCTGACAAAAAAGATGGTGTCAGCCA
1 TGGTGTCGACCAATGCATGGCCAACACCAATTTTTTTTATCTGACAAAAAAGATGGTGTCAGCCA
* **
23626873 ATGCATGGCCAACACCAAA-ATTTTTTTTAACTGATAAAAAAATGTTGGTGTCAG-CCAATGCAT
66 ATGCATGGCCAACACCAAATA-ATTTTTTAACTGAT--AAAAATACTGGTGTC-GTCCAATGCAT
** *
23626936 GACCAACAC-CAAAATCTT-TTTTATCTGATAAAAAAAATAT
127 GACCAACACTCAAAAAATTATTTTATCTGACAAAAAAAATAT
** * * *
23626976 TGGTGTCGACCAATGCATGGTTAACACCAAATTTTTTTTATCTGATAAAAATGGTGGTGTCAGCC
1 TGGTGTCGACCAATGCATGGCCAACACC-AATTTTTTTTATCTGACAAAAAAGATGGTGTCAGCC
* * *
23627041 AA-GCATTGGCCAACACCAAATAATTTTTTATCTGATAAAAATACTGGTGTCGTTCAATGCATGG
65 AATGCA-TGGCCAACACCAAATAATTTTTTAACTGATAAAAATACTGGTGTCGTCCAATGCATGA
*
23627105 CCAACACTCAAAAAATTATTTTATCTGACAAAAAAGATGA-
129 CCAACACTCAAAAAATTATTTTATCTGACAAAAAAAAT-AT
*
23627145 T-GT-T-GGCCAA-GCATTGGCCAACACCAATTTTTTTT
1 TGGTGTCGACCAATGCA-TGGCCAACACCAATTTTTTTT
23627180 TCAAAATGTC
Statistics
Matches: 176, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
165 13 0.07
166 15 0.09
167 30 0.17
168 36 0.20
169 80 0.45
170 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (168 bp):
TGGTGTCGACCAATGCATGGCCAACACCAATTTTTTTTATCTGACAAAAAAGATGGTGTCAGCCA
ATGCATGGCCAACACCAAATAATTTTTTAACTGATAAAAATACTGGTGTCGTCCAATGCATGACC
AACACTCAAAAAATTATTTTATCTGACAAAAAAAATAT
Found at i:23627154 original size:112 final size:110
Alignment explanation
Indices: 23626667--23627171 Score: 401
Period size: 112 Copynumber: 4.5 Consensus size: 110
23626657 AAAAAAAATT
* * * *
23626667 ATTTTTTTATCAGATAAAAAA-AGTGGTGTCGGCCAATGCA-TGGCCAACACAAAAAAAAAATAA
1 ATTTTTTTATCTGATAAAAAAGA-TGGTGTCAGCCAATGCATTGGCCAACAC---CAAATAAT--
* * * *
23626730 TTTTTATCAGATAAAAA-AGGTGGTATTGGCCAA-GCATTGGCCAACACCAAAAAAA
60 TTTTTATCTGATAAAAATA-ATGGT-GTCGCCAATGCA-TGGCCAACACC---AAAA
* * *
23626785 ATATTTTTTATCTGAT-AAAAAGGTGGTGTC-GACCAATGCGTT-GCCAACACC-AAT-TTTTTT
1 AT-TTTTTTATCTGATAAAAAAGATGGTGTCAG-CCAATGCATTGGCCAACACCAAATAATTTTT
*
23626845 TATCTGACAAAAA-AGATGGTGTCAGCCAATGCATGGCCAACACCAAAA
64 TATCTGATAAAAATA-ATGGTGTC-GCCAATGCATGGCCAACACCAAAA
* * * * *
23626893 TTTTTTTTAACTGATAAAAAAATGTTGGTGTCAGCCAATGCA-TGACCAACACCAAA-ATCTTTT
1 ATTTTTTTATCTGAT-AAAAAA-GATGGTGTCAGCCAATGCATTGGCCAACACCAAATA-ATTTT
* **
23626956 TTATCTGATAAAAAAAATATTGGTGTCGACCAATGCATGGTTAACACC-AAA
63 TTATCTGAT---AAAAATAATGGTGTCG-CCAATGCATGGCCAACACCAAAA
* * *
23627007 TTTTTTTTATCTGATAAAAATGGTGGTGTCAGCCAA-GCATTGGCCAACACCAAATAATTTTTTA
1 ATTTTTTTATCTGATAAAAAAGATGGTGTCAGCCAATGCATTGGCCAACACCAAATAATTTTTTA
* *
23627071 TCTGATAAAAATACTGGTGTCGTTCAATGCATGGCCAACACTCAAAAA
66 TCTGATAAAAATAATGGTGTCG-CCAATGCATGGCCAACAC-C-AAAA
* * * **
23627119 ATTATTTTATCTGACAAAAAAGATGATGTTGGCCAA-GCATTGGCCAACACCAA
1 ATTTTTTTATCTGATAAAAAAGATGGTGTCAGCCAATGCATTGGCCAACACCAA
23627172 TTTTTTTTTC
Statistics
Matches: 324, Mismatches: 39, Indels: 54
0.78 0.09 0.13
Matches are distributed among these distances:
107 12 0.04
108 5 0.02
109 36 0.11
110 25 0.08
111 43 0.13
112 103 0.32
113 7 0.02
114 20 0.06
115 29 0.09
116 1 0.00
117 1 0.00
118 29 0.09
119 13 0.04
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (110 bp):
ATTTTTTTATCTGATAAAAAAGATGGTGTCAGCCAATGCATTGGCCAACACCAAATAATTTTTTA
TCTGATAAAAATAATGGTGTCGCCAATGCATGGCCAACACCAAAA
Found at i:23627604 original size:20 final size:20
Alignment explanation
Indices: 23627579--23627616 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23627569 TCAAAAAATA
*
23627579 AAAAAATATTAAAATCATTT
1 AAAAAATATAAAAATCATTT
23627599 AAAAAATATAAAAATCAT
1 AAAAAATATAAAAATCAT
23627617 AACAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAATATAAAAATCATTT
Found at i:23627623 original size:20 final size:19
Alignment explanation
Indices: 23627576--23627626 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
23627566 AATTCAAAAA
*
23627576 ATAAAAAAATATTAAAATC
1 ATAAAAAAATATAAAAATC
*
23627595 ATTTAAAAAATATAAAAATC
1 A-TAAAAAAATATAAAAATC
*
23627615 ATAACAAAATAT
1 ATAAAAAAATAT
23627627 TTTAAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (19 bp):
ATAAAAAAATATAAAAATC
Found at i:23629610 original size:26 final size:28
Alignment explanation
Indices: 23629581--23629640 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
23629571 TAAAATAATT
23629581 ATATAAAAAATT-TT-AATAAATAAAA-A
1 ATATAAAAAATTATTAAAT-AATAAAATA
* *
23629607 ATATATAAAATTATTAAATATTAAAATA
1 ATATAAAAAATTATTAAATAATAAAATA
23629635 ATATAA
1 ATATAA
23629641 TATAAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 11 0.39
27 8 0.29
28 9 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
ATATAAAAAATTATTAAATAATAAAATA
Found at i:23631362 original size:36 final size:38
Alignment explanation
Indices: 23631315--23631390 Score: 120
Period size: 36 Copynumber: 2.1 Consensus size: 38
23631305 AGTTTTCAAC
* *
23631315 TTTTTTTTCTTTTTATTGTGTT-TTT-TTGGGCTTATA
1 TTTTTTTTCTTTTTATTGTGTTCTTTCTTGGACATATA
23631351 TTTTTTTTCTTTTTATTGTGTTCTTTCTTGGACATATA
1 TTTTTTTTCTTTTTATTGTGTTCTTTCTTGGACATATA
23631389 TT
1 TT
23631391 ATGTCTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 22 0.61
37 3 0.08
38 11 0.31
ACGTcount: A:0.11, C:0.08, G:0.12, T:0.70
Consensus pattern (38 bp):
TTTTTTTTCTTTTTATTGTGTTCTTTCTTGGACATATA
Found at i:23631398 original size:36 final size:35
Alignment explanation
Indices: 23631322--23631399 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 35
23631312 AACTTTTTTT
* * * *
23631322 TCTTTTTATTGTGTTTTTTTGGGCTTATATTTTTTT
1 TCTTTTTATTGTGTTTTTTTGGAC-TATATATTATG
23631358 TCTTTTTATTGTGTTCTTTCTTGGAC-ATATATTATG
1 TCTTTTTATTGTGTT-TTT-TTGGACTATATATTATG
23631394 TCTTTT
1 TCTTTT
23631400 GAATGAGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 28 0.78
37 3 0.08
38 5 0.14
ACGTcount: A:0.12, C:0.09, G:0.13, T:0.67
Consensus pattern (35 bp):
TCTTTTTATTGTGTTTTTTTGGACTATATATTATG
Found at i:23634286 original size:15 final size:15
Alignment explanation
Indices: 23634262--23634291 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23634252 CAAATTAAAG
*
23634262 AATTATTAGAAAAAA
1 AATTAATAGAAAAAA
23634277 AATTAATAGAAAAAA
1 AATTAATAGAAAAAA
23634292 CTAATAGTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
AATTAATAGAAAAAA
Found at i:23634915 original size:14 final size:14
Alignment explanation
Indices: 23634896--23634923 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23634886 GATAAAAAAC
23634896 AGCTTTAACAATTT
1 AGCTTTAACAATTT
23634910 AGCTTTAACAATTT
1 AGCTTTAACAATTT
23634924 TTAGGAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
AGCTTTAACAATTT
Found at i:23637006 original size:43 final size:43
Alignment explanation
Indices: 23636940--23637036 Score: 176
Period size: 43 Copynumber: 2.3 Consensus size: 43
23636930 ACAGAGGACC
23636940 CTACGTGGAAAAAGCCACATTCAAGAAACGACAAAGAAGGAAG
1 CTACGTGGAAAAAGCCACATTCAAGAAACGACAAAGAAGGAAG
*
23636983 CTACGTGGAAAAAGCCACTTTCAAGAAACGACAAAGAAGGAAG
1 CTACGTGGAAAAAGCCACATTCAAGAAACGACAAAGAAGGAAG
*
23637026 CTACGAGGAAA
1 CTACGTGGAAA
23637037 TCACCCACTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.47, C:0.19, G:0.24, T:0.10
Consensus pattern (43 bp):
CTACGTGGAAAAAGCCACATTCAAGAAACGACAAAGAAGGAAG
Found at i:23638419 original size:38 final size:38
Alignment explanation
Indices: 23638362--23638444 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
23638352 CTTACAGCGA
* * *
23638362 CAATTCTGGGCATGCTCATGCAGTGATAATTTTGGGCC
1 CAATTCTGGACATGCTCATGCAGTGACAATTCTGGGCC
*
23638400 CAATTCTGGACAT-CATCATGCAGTGACAATTCTGGGCG
1 CAATTCTGGACATGC-TCATGCAGTGACAATTCTGGGCC
23638438 CAATTCT
1 CAATTCT
23638445 AAATAGACTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 1 0.03
38 39 0.98
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (38 bp):
CAATTCTGGACATGCTCATGCAGTGACAATTCTGGGCC
Found at i:23639485 original size:17 final size:17
Alignment explanation
Indices: 23639463--23639496 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23639453 CATTAATACT
*
23639463 AAAATGCAATGGCAATG
1 AAAATGCAATGACAATG
23639480 AAAATGCAATGACAATG
1 AAAATGCAATGACAATG
23639497 CTTAGTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATG
Found at i:23641961 original size:38 final size:38
Alignment explanation
Indices: 23641904--23641986 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 38
23641894 CCTGTAGCAA
* *
23641904 CAATTCTGGGCATGCTCATGCAGTGATAATTTTGGGCT-
1 CAATTCTGGACATGCTCATGCAGTGACAATTTTGGG-TG
23641942 CAATTCTGGACAT-CGTCATGCAGTGACAATTTTGGGTG
1 CAATTCTGGACATGC-TCATGCAGTGACAATTTTGGGTG
23641980 CAATTCT
1 CAATTCT
23641987 AAGTAGACTC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
37 2 0.05
38 39 0.95
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (38 bp):
CAATTCTGGACATGCTCATGCAGTGACAATTTTGGGTG
Found at i:23642247 original size:39 final size:39
Alignment explanation
Indices: 23642193--23642272 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
23642183 CTACTAGTAG
23642193 TTCCATATTGTAATCTTATCCACCGTCCTCTCCCTATAA
1 TTCCATATTGTAATCTTATCCACCGTCCTCTCCCTATAA
*
23642232 TTCCATATTGTAATCTTATCCACCGTCCTCTCCCTGTAA
1 TTCCATATTGTAATCTTATCCACCGTCCTCTCCCTATAA
23642271 TT
1 TT
23642273 GGTATCATAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.40
Consensus pattern (39 bp):
TTCCATATTGTAATCTTATCCACCGTCCTCTCCCTATAA
Found at i:23643935 original size:27 final size:29
Alignment explanation
Indices: 23643881--23643935 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 29
23643871 AACCCAGAAA
* * *
23643881 AATAAAGAACAGATTTTAAAATAGAAAAG
1 AATAAAGAACAGATTTAAAAAAAAAAAAG
23643910 AATAAA-AA-AGATTTAAAAAAAAAAAA
1 AATAAAGAACAGATTTAAAAAAAAAAAA
23643936 AAAACAATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 15 0.65
28 2 0.09
29 6 0.26
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.18
Consensus pattern (29 bp):
AATAAAGAACAGATTTAAAAAAAAAAAAG
Found at i:23644736 original size:29 final size:29
Alignment explanation
Indices: 23644703--23644917 Score: 165
Period size: 29 Copynumber: 7.5 Consensus size: 29
23644693 TTAGACTCTC
* *
23644703 AAACTTTTTCAAAATCATATTTTAACCCT
1 AAACTTTTCCAAAATCACATTTTAACCCT
* *
23644732 AAACTTTTCCAAAATCATATTTTAACCCC
1 AAACTTTTCCAAAATCACATTTTAACCCT
* * * *
23644761 AAACTTTCCCAAAATTACATTTTGATCCTT
1 AAACTTTTCCAAAATCACATTTT-AACCCT
* *
23644791 GAAC--TTCCTAAAATCACATTTTAACCCCA
1 AAACTTTTCC-AAAATCACATTTTAA-CCCT
*
23644820 AAAC-TTTCCAAAATCACATTTTGACCC-
1 AAACTTTTCCAAAATCACATTTTAACCCT
* * *
23644847 AAAC-TTTCCAAAAATTATATTTTGACCCTT
1 AAACTTTTCC-AAAATCACATTTTAACCC-T
* ** *
23644877 GAA-TTTTATAAAATTACATTTTAACCCT
1 AAACTTTTCCAAAATCACATTTTAACCCT
*
23644905 AAA-TTTTTCAAAA
1 AAACTTTTCCAAAA
23644918 CTTCATTTTC
Statistics
Matches: 152, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
27 9 0.06
28 34 0.22
29 94 0.62
30 15 0.10
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (29 bp):
AAACTTTTCCAAAATCACATTTTAACCCT
Found at i:23644774 original size:58 final size:57
Alignment explanation
Indices: 23644702--23644917 Score: 186
Period size: 58 Copynumber: 3.7 Consensus size: 57
23644692 TTTAGACTCT
* *
23644702 CAAACTTTTTCAAAATCATATTTTAACCCTAAACTTTTCC-AAAATCATATTTTAACCC
1 CAAAC-TTTCCAAAATCACATTTTAACCCTAAAC-TTTCCAAAAATCATATTTTAACCC
* * * * * *
23644760 CAAACTTTCCCAAAATTACATTTTGATCCTTGAAC-TTCCTAAAATCACATTTTAACCC
1 CAAACTTT-CCAAAATCACATTTT-AACCCTAAACTTTCCAAAAATCATATTTTAACCC
* * *
23644818 CAAAACTTTCCAAAATCACATTTTGACCC-AAACTTTCCAAAAATTATATTTTGACCC
1 C-AAACTTTCCAAAATCACATTTTAACCCTAAACTTTCCAAAAATCATATTTTAACCC
** * ** * * *
23644875 TTGAATTTTATAAAATTACATTTTAACCCTAAATTTTTCAAAA
1 -CAAACTTTCCAAAATCACATTTTAACCCTAAACTTTCCAAAA
23644918 CTTCATTTTC
Statistics
Matches: 126, Mismatches: 25, Indels: 14
0.76 0.15 0.08
Matches are distributed among these distances:
56 3 0.02
57 49 0.39
58 60 0.48
59 14 0.11
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (57 bp):
CAAACTTTCCAAAATCACATTTTAACCCTAAACTTTCCAAAAATCATATTTTAACCC
Found at i:23644860 original size:28 final size:27
Alignment explanation
Indices: 23644683--23644874 Score: 143
Period size: 29 Copynumber: 6.7 Consensus size: 27
23644673 ATTTTACCCA
* * *
23644683 AAAATTACATTTAGACTCTCAAACTTTTTC
1 AAAATCACATTTTGAC-C-CAAAC-TTTCC
* *
23644713 AAAATCATATTTTAACCCTAAACTTTTCC
1 AAAATCACATTTTGACCC-AAAC-TTTCC
* *
23644742 AAAATCATATTTTAACCCCAAACTTTCCC
1 AAAATCACATTTTGA-CCCAAACTTT-CC
* **
23644771 AAAATTACATTTTGATCCTTGAAC-TTCC
1 AAAATCACATTTTGA-CC-CAAACTTTCC
*
23644799 TAAAATCACATTTTAACCCCAAAACTTTCC
1 -AAAATCACATTTTGA-CCC-AAACTTTCC
23644829 AAAATCACATTTTGACCCAAACTTTCC
1 AAAATCACATTTTGACCCAAACTTTCC
* *
23644856 AAAAATTATATTTTGACCC
1 -AAAATCACATTTTGACCC
23644875 TTGAATTTTA
Statistics
Matches: 135, Mismatches: 19, Indels: 18
0.78 0.11 0.10
Matches are distributed among these distances:
27 9 0.07
28 25 0.19
29 79 0.59
30 22 0.16
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (27 bp):
AAAATCACATTTTGACCCAAACTTTCC
Found at i:23644889 original size:86 final size:88
Alignment explanation
Indices: 23644680--23644903 Score: 265
Period size: 86 Copynumber: 2.6 Consensus size: 88
23644670 CCTATTTTAC
* * ** ** * *
23644680 CCAAAAATTACATTTAGACTCTCAAACTTTTTCAAAATCATATTTTAA-CCCTAAACTTTTCCAA
1 CCAAAAATTACATTTTGACCCTTGAACTTCAT-AAAATCACATTTTAACCCCAAAACTTTTCCAA
*
23644744 AATCATATTTTAACCCCAAACTTT
65 AATCACATTTTAACCCCAAACTTT
* * *
23644768 CCCAAAATTACATTTTGATCCTTGAACTTCCTAAAATCACATTTTAACCCCAAAAC-TTTCCAAA
1 CCAAAAATTACATTTTGACCCTTGAACTTCATAAAATCACATTTTAACCCCAAAACTTTTCCAAA
*
23644832 ATCACATTTTGA-CCCAAACTTT
66 ATCACATTTTAACCCCAAACTTT
* * * *
23644854 CCAAAAATTATATTTTGACCCTTGAATTTTATAAAATTACATTTTAACCC
1 CCAAAAATTACATTTTGACCCTTGAACTTCATAAAATCACATTTTAACCC
23644904 TAAATTTTTC
Statistics
Matches: 116, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
86 53 0.46
87 32 0.28
88 31 0.27
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.36
Consensus pattern (88 bp):
CCAAAAATTACATTTTGACCCTTGAACTTCATAAAATCACATTTTAACCCCAAAACTTTTCCAAA
ATCACATTTTAACCCCAAACTTT
Found at i:23646857 original size:37 final size:35
Alignment explanation
Indices: 23646816--23646884 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
23646806 GGTTTTAAAT
*
23646816 TTTTTTTTAGAAAAAGTAACAAAAGAATA-AAAACAGA
1 TTTTTTTAAGAAAAAG-AA-AAAA-AATACAAAACAGA
*
23646853 TTTTTTTAATAAAAAGAAAAAAAATACAAAAC
1 TTTTTTTAAGAAAAAGAAAAAAAATACAAAAC
23646885 CTTGATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.14
35 9 0.31
36 2 0.07
37 14 0.48
ACGTcount: A:0.59, C:0.06, G:0.07, T:0.28
Consensus pattern (35 bp):
TTTTTTTAAGAAAAAGAAAAAAAATACAAAACAGA
Found at i:23647556 original size:60 final size:59
Alignment explanation
Indices: 23647492--23647709 Score: 215
Period size: 60 Copynumber: 3.7 Consensus size: 59
23647482 GACCCCATTG
* * *
23647492 CATTTTAACCCTTGAACTTTTCAAAAATTACATTTTGACCCCTAAATTTTTCTAAAATTA
1 CATTTTAACCCCT-AAATTTTCCAAAATTACATTTTGACCCCTAAATTTTTCTAAAATTA
* * * * *
23647552 CATTTTAACCCCCTAAATTTTCCAAAATTTCATGTTGACACCC-AAACTTTCCCAAAATTA
1 CATTTTAA-CCCCTAAATTTTCCAAAATTACATTTTGAC-CCCTAAATTTTTCTAAAATTA
* * * * * * * * *
23647612 CATTTTGATCTCTAAATTTCCCAAAATCACATTTTTACCTCTAAATTTCT-TAAAATCA
1 CATTTTAACCCCTAAATTTTCCAAAATTACATTTTGACCCCTAAATTTTTCTAAAATTA
* *
23647670 CATTTTAGCCCCTAAATTTTTCTAAAATTACATTTTGACC
1 CATTTTAACCCCTAAA-TTTTCCAAAATTACATTTTGACC
23647710 TCAAATTCTT
Statistics
Matches: 124, Mismatches: 30, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
58 20 0.16
59 47 0.38
60 50 0.40
61 7 0.06
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.39
Consensus pattern (59 bp):
CATTTTAACCCCTAAATTTTCCAAAATTACATTTTGACCCCTAAATTTTTCTAAAATTA
Found at i:23647716 original size:29 final size:30
Alignment explanation
Indices: 23647509--23647709 Score: 189
Period size: 30 Copynumber: 6.8 Consensus size: 30
23647499 ACCCTTGAAC
*
23647509 TTTTCAAAAATTACATTTTGACCCCTAAAT
1 TTTTCCAAAATTACATTTTGACCCCTAAAT
* *
23647539 TTTTCTAAAATTACATTTTAACCCCCTAAA-
1 TTTTCCAAAATTACATTTTGA-CCCCTAAAT
* * *
23647569 TTTTCCAAAATTTCATGTTGACACCC-AAAC
1 TTTTCCAAAATTACATTTTGAC-CCCTAAAT
* * *
23647599 TTTCCCAAAATTACATTTTGATCTCTAAA-
1 TTTTCCAAAATTACATTTTGACCCCTAAAT
* * * *
23647628 TTTCCCAAAATCACATTTTTACCTCTAAAT
1 TTTTCCAAAATTACATTTTGACCCCTAAAT
*
23647658 TTCTT--AAAATCACATTTT-AGCCCCTAAAT
1 TT-TTCCAAAATTACATTTTGA-CCCCTAAAT
*
23647687 TTTTCTAAAATTACATTTTGACC
1 TTTTCCAAAATTACATTTTGACC
23647710 TCAAATTCTT
Statistics
Matches: 144, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
28 3 0.02
29 55 0.38
30 76 0.53
31 10 0.07
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (30 bp):
TTTTCCAAAATTACATTTTGACCCCTAAAT
Found at i:23649700 original size:19 final size:18
Alignment explanation
Indices: 23649672--23649717 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
23649662 AATACTATTT
*
23649672 ATTTATTTAATTAAAATAA
1 ATTTAATTAATT-AAATAA
* *
23649691 ATTTAATTAATTAATTTA
1 ATTTAATTAATTAAATAA
23649709 ATTTAATTA
1 ATTTAATTA
23649718 TTTTTTTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTAATTAATTAAATAA
Found at i:23663571 original size:32 final size:32
Alignment explanation
Indices: 23663535--23663599 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
23663525 TTGTTGATGC
*
23663535 ATCTGCTAATGGTCCTTTGTTGGATTGCACTT
1 ATCTGCTAATGGTCCTTTATTGGATTGCACTT
23663567 ATCTGCTAATGGTCCTTTATTGGATTGCACTT
1 ATCTGCTAATGGTCCTTTATTGGATTGCACTT
23663599 A
1 A
23663600 CAATGAAGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.43
Consensus pattern (32 bp):
ATCTGCTAATGGTCCTTTATTGGATTGCACTT
Found at i:23664113 original size:18 final size:18
Alignment explanation
Indices: 23664090--23664129 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
23664080 CAAATGTAGT
*
23664090 CACATAGCCAGATGCAAC
1 CACATAACCAGATGCAAC
*
23664108 CACATAATCAGATGCAAC
1 CACATAACCAGATGCAAC
23664126 CACA
1 CACA
23664130 ATAGGCTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.33, G:0.12, T:0.12
Consensus pattern (18 bp):
CACATAACCAGATGCAAC
Found at i:23670230 original size:12 final size:12
Alignment explanation
Indices: 23670195--23670242 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
23670185 AGGAAAAACA
23670195 GAAAAGAGAAGAAG
1 GAAAA-AGAA-AAG
23670209 GAATAGAAGAAAAG
1 GAA-A-AAGAAAAG
*
23670223 GAAAAAGAAAAT
1 GAAAAAGAAAAG
23670235 GAAAAAGA
1 GAAAAAGA
23670243 TTTTGTGTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 15 0.48
13 1 0.03
14 9 0.29
15 5 0.16
16 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (12 bp):
GAAAAAGAAAAG
Found at i:23684055 original size:26 final size:26
Alignment explanation
Indices: 23684021--23684073 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
23684011 GTCCTAACAT
23684021 TTATTAGCTGCAGACACAGTGTACTA
1 TTATTAGCTGCAGACACAGTGTACTA
*
23684047 TTATTAGCTGCAGGCACAGTGTACTA
1 TTATTAGCTGCAGACACAGTGTACTA
23684073 T
1 T
23684074 CACCAATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (26 bp):
TTATTAGCTGCAGACACAGTGTACTA
Found at i:23696483 original size:29 final size:29
Alignment explanation
Indices: 23696450--23696510 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
23696440 AAGTAGAAGA
*
23696450 GAAAGGAAAGGGAAGGAAGTGATAACGAG
1 GAAAGGAAAAGGAAGGAAGTGATAACGAG
*
23696479 GAAAGGAAAAGGAAGGAAGTGATGACGAG
1 GAAAGGAAAAGGAAGGAAGTGATAACGAG
23696508 GAA
1 GAA
23696511 GCTGAAAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.03, G:0.41, T:0.07
Consensus pattern (29 bp):
GAAAGGAAAAGGAAGGAAGTGATAACGAG
Found at i:23696524 original size:29 final size:28
Alignment explanation
Indices: 23696450--23696524 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
23696440 AAGTAGAAGA
23696450 GAAAGGAAAGGGAAGGAAGTGATAACGAG
1 GAAAGGAAAGGG-AGGAAGTGATAACGAG
* *
23696479 GAAAGGAAAAGGAAGGAAGTGATGACGAG
1 GAAAGG-AAAGGGAGGAAGTGATAACGAG
23696508 G-AAGCTGAAAGGGAGGA
1 GAAAG--GAAAGGGAGGA
23696525 GGATGAGATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 3 0.08
29 31 0.77
30 6 0.15
ACGTcount: A:0.47, C:0.04, G:0.43, T:0.07
Consensus pattern (28 bp):
GAAAGGAAAGGGAGGAAGTGATAACGAG
Found at i:23697711 original size:41 final size:41
Alignment explanation
Indices: 23697628--23697758 Score: 140
Period size: 41 Copynumber: 3.2 Consensus size: 41
23697618 AAACGCGGCA
* * * *
23697628 AAAGGT-AAAGCAATAGCGGCATTTATAGGAAAAACG-CTGCT
1 AAAGGTCAGAGCATTAGCGGCGTTTAT-GAAAAAACGTC-GCT
* * ** *
23697669 AAAGGTTAGAGCATTAGTGGCGTTTATGAGGAAGCGTCGCT
1 AAAGGTCAGAGCATTAGCGGCGTTTATGAAAAAACGTCGCT
23697710 AAAGGTCAGAGCATTAGCGGCGTTTATGAAAAAACGTCGCT
1 AAAGGTCAGAGCATTAGCGGCGTTTATGAAAAAACGTCGCT
*
23697751 AAATGTCA
1 AAAGGTCA
23697759 AAAAATATTT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
41 57 0.77
42 17 0.23
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (41 bp):
AAAGGTCAGAGCATTAGCGGCGTTTATGAAAAAACGTCGCT
Found at i:23697799 original size:16 final size:17
Alignment explanation
Indices: 23697778--23697816 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
23697768 TAATGACATA
23697778 TTAATCAATA-TAATAG
1 TTAATCAATATTAATAG
23697794 TTAATCAATATTTAATAG
1 TTAATCAATA-TTAATAG
23697812 TTAAT
1 TTAAT
23697817 TGACTCAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.48
18 11 0.52
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (17 bp):
TTAATCAATATTAATAG
Found at i:23700496 original size:21 final size:20
Alignment explanation
Indices: 23700452--23700501 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
23700442 ATCAATATTT
*
23700452 TTAAAAAAATATTTAATATA
1 TTAAAAAAATATTTAAAATA
23700472 -TAAAAAAATATTTACAAATA
1 TTAAAAAAATATTTA-AAATA
*
23700492 TTAAATAAAT
1 TTAAAAAAAT
23700502 TATACTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 14 0.54
20 4 0.15
21 8 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TTAAAAAAATATTTAAAATA
Found at i:23700530 original size:18 final size:20
Alignment explanation
Indices: 23700509--23700550 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
23700499 AATTATACTG
23700509 AATAAATT-TCAA-ATATAA
1 AATAAATTATCAATATATAA
23700527 AAT-AATTATCAATTATATAA
1 AATAAATTATCAA-TATATAA
23700547 AATA
1 AATA
23700551 TTCATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 4 0.20
18 7 0.35
20 9 0.45
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
AATAAATTATCAATATATAA
Found at i:23702635 original size:2 final size:2
Alignment explanation
Indices: 23702628--23702663 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
23702618 AACTTAAATC
23702628 AT AT AT AT AT 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 AT AT AT AT AT
23702664 TTTTCGTGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23702726 original size:15 final size:15
Alignment explanation
Indices: 23702706--23702734 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23702696 GAAGTTATTG
23702706 GTTGGATTTGAATTA
1 GTTGGATTTGAATTA
23702721 GTTGGATTTGAATT
1 GTTGGATTTGAATT
23702735 TACAGGACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (15 bp):
GTTGGATTTGAATTA
Found at i:23702828 original size:43 final size:43
Alignment explanation
Indices: 23702780--23703007 Score: 296
Period size: 43 Copynumber: 5.3 Consensus size: 43
23702770 ATCTATTAAT
* * *
23702780 TTTAGTGGCGTTTGTG-GAAAAAACGCCGCTAAAGACTATGTTC
1 TTTAGCGGCGTTTGTGAG-AAAAGCGCCGCTAAAGACCATGTTC
* * * * *
23702823 TTTAGTGGCGTTTGTGAGAAAAGTGTCACTAAAGACTATGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTC
* * * * *
23702866 TTTAGCAGCGTTTGTGAGGAAAGCGCTGTTAAAGACCATGTAC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTC
*
23702909 TTTAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTC
* *
23702952 TTTAGCAGCGTTTGTGAGAAAAGTGCCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTC
23702995 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
23703008 TTCCTCATAA
Statistics
Matches: 160, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
43 159 0.99
44 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTC
Found at i:23707331 original size:22 final size:22
Alignment explanation
Indices: 23707285--23707331 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
23707275 AAACAAAAAT
* * *
23707285 AGAAGATATCAGATACAGCTGC
1 AGAACATATCAGATAAAGATGC
*
23707307 AGAACATATCAGATAAAGATTC
1 AGAACATATCAGATAAAGATGC
23707329 AGA
1 AGA
23707332 TTCCTACCCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (22 bp):
AGAACATATCAGATAAAGATGC
Found at i:23707965 original size:13 final size:13
Alignment explanation
Indices: 23707949--23707973 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23707939 CGATCTGAAG
23707949 ACACGCCCGTGTT
1 ACACGCCCGTGTT
23707962 ACACGCCCGTGT
1 ACACGCCCGTGT
23707974 GTTTCCAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.24, T:0.20
Consensus pattern (13 bp):
ACACGCCCGTGTT
Found at i:23711237 original size:20 final size:20
Alignment explanation
Indices: 23711186--23711237 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
23711176 TGACCGACCG
* *
23711186 TTGACTGTTGACCATTGACT
1 TTGACCGTTGATCATTGACT
23711206 TTGACCGTTGATCATTGACT
1 TTGACCGTTGATCATTGACT
23711226 TTGACCGTTGAT
1 TTGACCGTTGAT
23711238 TTTTTCGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGACCGTTGATCATTGACT
Found at i:23717463 original size:58 final size:58
Alignment explanation
Indices: 23717373--23717487 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 58
23717363 GAATATACCA
*
23717373 ATGTAAATCCAAAATTGTAATTATGATTAAACAGATATTTGCATAAATACTTGAAAAT
1 ATGTAAATCCAAAATTGTAATTATGATTAAACAGAGATTTGCATAAATACTTGAAAAT
*
23717431 ATGTAAATTCAAAATTGTAATTATGATTAAACAGAGATTTGCATAAATACTTGAAAA
1 ATGTAAATCCAAAATTGTAATTATGATTAAACAGAGATTTGCATAAATACTTGAAAA
23717488 ATATTTTCAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (58 bp):
ATGTAAATCCAAAATTGTAATTATGATTAAACAGAGATTTGCATAAATACTTGAAAAT
Found at i:23718976 original size:18 final size:18
Alignment explanation
Indices: 23718940--23718973 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23718930 TAATCAGCCC
23718940 ATCATCAATTAGGAATTA
1 ATCATCAATTAGGAATTA
23718958 ATCATCAATTA-GAATT
1 ATCATCAATTAGGAATT
23718974 TAACTACTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (18 bp):
ATCATCAATTAGGAATTA
Done.