Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 68 of 210
Found at i:24093901 original size:8 final size:8
Alignment explanation
Indices: 24093885--24093929 Score: 81
Period size: 8 Copynumber: 5.6 Consensus size: 8
24093875 ATTATGGGTT
*
24093885 AAATTGAA
1 AAATAGAA
24093893 AAATAGAA
1 AAATAGAA
24093901 AAATAGAA
1 AAATAGAA
24093909 AAATAGAA
1 AAATAGAA
24093917 AAATAGAA
1 AAATAGAA
24093925 AAATA
1 AAATA
24093930 TTCATGGCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (8 bp):
AAATAGAA
Found at i:24097953 original size:37 final size:37
Alignment explanation
Indices: 24097895--24097971 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
24097885 AAATAATGAG
*
24097895 TAAAACTATTATTTTTGATTTATTTATAGTCTATTTT
1 TAAAACTATTATTTTTGATTTATTTATAATCTATTTT
* * *
24097932 TAAACCTATTGTTTTTTATTTATTTATAATCTATTTT
1 TAAAACTATTATTTTTGATTTATTTATAATCTATTTT
24097969 TAA
1 TAA
24097972 CTAAATAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (37 bp):
TAAAACTATTATTTTTGATTTATTTATAATCTATTTT
Found at i:24098902 original size:26 final size:28
Alignment explanation
Indices: 24098871--24098934 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 28
24098861 CATAGTACAT
*
24098871 ATATATATGTG-G-TTTTATTATATATA
1 ATATATATGTGCGATTTTATTATATAGA
24098897 ATATATATGTGTCGATTTTATTATATAGA
1 ATATATATGTG-CGATTTTATTATATAGA
24098926 ATATATATG
1 ATATATATG
24098935 CGTTTATAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 11 0.32
28 1 0.03
29 22 0.65
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (28 bp):
ATATATATGTGCGATTTTATTATATAGA
Found at i:24103130 original size:37 final size:37
Alignment explanation
Indices: 24103047--24103152 Score: 97
Period size: 37 Copynumber: 2.9 Consensus size: 37
24103037 ATCTGTAAAG
* * * **
24103047 TAATAGCAAACAATTTCACATGTTAATCAATTTAGTA
1 TAATAACAAACAATTTCACATATCAATCAATTTAACA
* * **
24103084 CAATGACAAACAATTTCACATATCAATTTATTTAACA
1 TAATAACAAACAATTTCACATATCAATCAATTTAACA
* *
24103121 TAATAACAAACAGTCT-AGCATATCAATCAATT
1 TAATAACAAACAATTTCA-CATATCAATCAATT
24103153 CAATACAGTC
Statistics
Matches: 53, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
36 1 0.02
37 52 0.98
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (37 bp):
TAATAACAAACAATTTCACATATCAATCAATTTAACA
Found at i:24104191 original size:28 final size:29
Alignment explanation
Indices: 24104153--24104232 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
24104143 AATTTTGGAA
24104153 AAAATTGTAAAATCTAGAAAACT-GGGGT
1 AAAATTGTAAAATCTAGAAAACTAGGGGT
* *
24104181 AAAATTGTAAAGTTCTA-AAAACTAGTGGT
1 AAAATTGTAAA-ATCTAGAAAACTAGGGGT
* *
24104210 AAAACTGTAAAATCTGGAAAACT
1 AAAATTGTAAAATCTAGAAAACT
24104233 TGTAACGACC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 20 0.45
29 24 0.55
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.26
Consensus pattern (29 bp):
AAAATTGTAAAATCTAGAAAACTAGGGGT
Found at i:24105805 original size:70 final size:69
Alignment explanation
Indices: 24105675--24105806 Score: 183
Period size: 70 Copynumber: 1.9 Consensus size: 69
24105665 AACTATTATT
* ** * *
24105675 GGTTATCCGACTAGCGCTGGGCGAATAATTTGTCGTTTCGTTCGACTAGTGGTGGACACAACTAT
1 GGTTATCCGACTAGCGCTGGGCCAATAATTTGTCAATTCATTCGACTAGTGCTGGACACAACTAT
24105740 CGTC
66 CGTC
* * *
24105744 GGTTATTCGATTAGCGCTGGGCACAATAATTTGTCAATTCATTCGACTAGTGCTGGGCACAAC
1 GGTTATCCGACTAGCGCTGGGC-CAATAATTTGTCAATTCATTCGACTAGTGCTGGACACAAC
24105807 AATGATTTCG
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
69 20 0.37
70 34 0.63
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (69 bp):
GGTTATCCGACTAGCGCTGGGCCAATAATTTGTCAATTCATTCGACTAGTGCTGGACACAACTAT
CGTC
Found at i:24113054 original size:70 final size:70
Alignment explanation
Indices: 24112934--24113074 Score: 174
Period size: 70 Copynumber: 2.0 Consensus size: 70
24112924 TCGATTGAGT
* ** * * * *
24112934 AACTATCATCGGTTATCCGACTAGCGTTAGGTGCAATAATTTTTCGATTCGTTTGACTAGTGGTG
1 AACTATCATCGGTTATCCGACTAGCGCTAGGCACAATAATTTGTCAATTCGTTCGACTAGTGCTG
24112999 GACAC
66 GACAC
* * * *
24113004 AACTATCGTCGGTTATCTGACTAGTGCTGGGCACAATAATTTGTCAATTCGTTCGACTAGTGCTG
1 AACTATCATCGGTTATCCGACTAGCGCTAGGCACAATAATTTGTCAATTCGTTCGACTAGTGCTG
*
24113069 GGCAC
66 GACAC
24113074 A
1 A
24113075 CCAATGATTT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (70 bp):
AACTATCATCGGTTATCCGACTAGCGCTAGGCACAATAATTTGTCAATTCGTTCGACTAGTGCTG
GACAC
Found at i:24114967 original size:17 final size:18
Alignment explanation
Indices: 24114934--24114968 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24114924 TAGGGAGTTA
*
24114934 AATTCTTTTTGGAATTTT
1 AATTCTATTTGGAATTTT
24114952 AATTCTATTT-GAATTTT
1 AATTCTATTTGGAATTTT
24114969 GAAAAGTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.60
Consensus pattern (18 bp):
AATTCTATTTGGAATTTT
Found at i:24116554 original size:27 final size:27
Alignment explanation
Indices: 24116524--24116576 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
24116514 TTCGCTGTCG
24116524 TGAGGGTAGGCCATTTTAGAACTCTTT
1 TGAGGGTAGGCCATTTTAGAACTCTTT
24116551 TGAGGGTAGGCCATTTTAGAACTCTT
1 TGAGGGTAGGCCATTTTAGAACTCTT
24116577 CTGTGCAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (27 bp):
TGAGGGTAGGCCATTTTAGAACTCTTT
Found at i:24121810 original size:9 final size:9
Alignment explanation
Indices: 24121796--24121836 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
24121786 AGTTTCTTCG
24121796 AAAAAAATT
1 AAAAAAATT
24121805 AAAAAAATT
1 AAAAAAATT
*
24121814 CAAAAAATT
1 AAAAAAATT
*
24121823 CAAAAAAAAT
1 -AAAAAAATT
24121833 AAAA
1 AAAA
24121837 TTTAGTTTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAAAAATT
Found at i:24126582 original size:22 final size:23
Alignment explanation
Indices: 24126535--24126586 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
24126525 CTAATGTTAT
*
24126535 AAAAGAAAAAATGAAGAAAAAGA
1 AAAAGAAAAAATGAAGAAAAACA
* *
24126558 AAAAGAAAAAAT-AATAATAACA
1 AAAAGAAAAAATGAAGAAAAACA
24126580 AAAAGAA
1 AAAAGAA
24126587 GAGAAAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.08
Consensus pattern (23 bp):
AAAAGAAAAAATGAAGAAAAACA
Found at i:24127430 original size:43 final size:43
Alignment explanation
Indices: 24127363--24127455 Score: 123
Period size: 43 Copynumber: 2.2 Consensus size: 43
24127353 ATTTAAAAAT
* * * *
24127363 AAGATAATTTTGGGTCGTTGAAAAATGAATTTAAAAAGAGGAG
1 AAGATAATATTGGGTCGTTAAAAAAAGAACTTAAAAAGAGGAG
* * *
24127406 AAGATGATATTGGGTTGTTAAAAAAAGAACTTAAAAAGAGGAT
1 AAGATAATATTGGGTCGTTAAAAAAAGAACTTAAAAAGAGGAG
24127449 AAGATAA
1 AAGATAA
24127456 ACATGGGTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.26
Consensus pattern (43 bp):
AAGATAATATTGGGTCGTTAAAAAAAGAACTTAAAAAGAGGAG
Found at i:24127463 original size:43 final size:43
Alignment explanation
Indices: 24127373--24127467 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
24127363 AAGATAATTT
* * * * * *
24127373 TGGGTCGTTGAAAAATGAATTTAAAAAGAGGAGAAGATGATAT
1 TGGGTTGTTAAAAAAAGAACTTAAAAAGAGGAGAAGATGAAAA
*
24127416 TGGGTTGTTAAAAAAAGAACTTAAAAAGAGGATAAGAT-AAACA
1 TGGGTTGTTAAAAAAAGAACTTAAAAAGAGGAGAAGATGAAA-A
24127459 TGGGTTGTT
1 TGGGTTGTT
24127468 GGATTTACCC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 2 0.05
43 42 0.95
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.26
Consensus pattern (43 bp):
TGGGTTGTTAAAAAAAGAACTTAAAAAGAGGAGAAGATGAAAA
Found at i:24130435 original size:70 final size:70
Alignment explanation
Indices: 24130350--24130489 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
24130340 TGAAAATGGC
24130350 ATAAAAATTAAAATAAACACACAAAAATTCATAAAAACAAGAAAAACAAAACAAATAAAACTATG
1 ATAAAAATTAAAATAAACACACAAAAATTCATAAAAACAAGAAAAACAAAACAAATAAAACTATG
24130415 TACAT
66 TACAT
24130420 ATAAAAATTAAAATAAACACACAAAAATTCATAAAAACAAGAAAAACAAAACAAATAAAACTATG
1 ATAAAAATTAAAATAAACACACAAAAATTCATAAAAACAAGAAAAACAAAACAAATAAAACTATG
24130485 TACAT
66 TACAT
24130490 CCCCCCACAC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.67, C:0.13, G:0.03, T:0.17
Consensus pattern (70 bp):
ATAAAAATTAAAATAAACACACAAAAATTCATAAAAACAAGAAAAACAAAACAAATAAAACTATG
TACAT
Found at i:24133510 original size:34 final size:34
Alignment explanation
Indices: 24133467--24133536 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
24133457 GAATATTGGT
*
24133467 TATAATACATAGGGAATTTGATTACAAGTATCAC
1 TATAATACATAGGGAATTTAATTACAAGTATCAC
24133501 TATAATACATAGGGAATTTAATTACAAGTATCAC
1 TATAATACATAGGGAATTTAATTACAAGTATCAC
24133535 TA
1 TA
24133537 AAATGATTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (34 bp):
TATAATACATAGGGAATTTAATTACAAGTATCAC
Found at i:24134560 original size:27 final size:27
Alignment explanation
Indices: 24134521--24134593 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
24134511 GGTTTCTTTA
* *
24134521 TCATAAATAGCCACAAAGGCTTCATTT
1 TCATAGATCGCCACAAAGGCTTCATTT
*
24134548 TCATAGATCGCCACAAAGGCTTCTTTT
1 TCATAGATCGCCACAAAGGCTTCATTT
* * *
24134575 TTATAGATCACGACAAAGG
1 TCATAGATCGCCACAAAGG
24134594 TTTCCCTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (27 bp):
TCATAGATCGCCACAAAGGCTTCATTT
Found at i:24134603 original size:27 final size:28
Alignment explanation
Indices: 24134531--24134603 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 28
24134521 TCATAAATAG
* *
24134531 CCACAAAGGCTT-CATTTTCATAGATCG
1 CCACAAAGGCTTCCCTTTTCATAGATCA
* *
24134558 CCACAAAGGCTT-CTTTTTTATAGATCA
1 CCACAAAGGCTTCCCTTTTCATAGATCA
* *
24134585 CGACAAAGGTTTCCCTTTT
1 CCACAAAGGCTTCCCTTTT
24134604 TGTAACGTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 34 0.87
28 5 0.13
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (28 bp):
CCACAAAGGCTTCCCTTTTCATAGATCA
Found at i:24138751 original size:14 final size:15
Alignment explanation
Indices: 24138731--24138771 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
24138721 TTTGATTGCC
24138731 AGTAAAATGTTTTC-
1 AGTAAAATGTTTTCT
* *
24138745 CGTAAAATGATTTCT
1 AGTAAAATGTTTTCT
24138760 AG-AAAATGTTTT
1 AGTAAAATGTTTT
24138772 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 21 0.95
15 1 0.05
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (15 bp):
AGTAAAATGTTTTCT
Found at i:24146411 original size:15 final size:15
Alignment explanation
Indices: 24146391--24146421 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24146381 AAGGTTCTCT
24146391 TTATTTTCATATGCA
1 TTATTTTCATATGCA
24146406 TTATTTTCATATGCA
1 TTATTTTCATATGCA
24146421 T
1 T
24146422 GAATTTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (15 bp):
TTATTTTCATATGCA
Found at i:24162627 original size:25 final size:26
Alignment explanation
Indices: 24162585--24162638 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
24162575 TTCTCCTAAA
*
24162585 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATTGAATTA-TTAATAT
24162611 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAATTATTAATAT
24162636 TTT
1 TTT
24162639 ATACTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTATTAATAT
Found at i:24162872 original size:27 final size:27
Alignment explanation
Indices: 24162834--24162888 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
24162824 GCTGAAAGAA
24162834 AGCAACTATATTGATTTCATGGCGCGC
1 AGCAACTATATTGATTTCATGGCGCGC
24162861 AGCAACTATATTGATTTCATGGCGCGC
1 AGCAACTATATTGATTTCATGGCGCGC
24162888 A
1 A
24162889 TTCGACAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (27 bp):
AGCAACTATATTGATTTCATGGCGCGC
Found at i:24165499 original size:13 final size:12
Alignment explanation
Indices: 24165463--24165499 Score: 51
Period size: 10 Copynumber: 3.2 Consensus size: 12
24165453 ATTAACATGT
24165463 TTAATTTTA--A
1 TTAATTTTATTA
24165473 TTAATTTTATTA
1 TTAATTTTATTA
24165485 TTAATTTTGATTA
1 TTAATTTT-ATTA
24165498 TT
1 TT
24165500 TTCGACAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 9 0.38
12 9 0.38
13 6 0.25
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (12 bp):
TTAATTTTATTA
Found at i:24167181 original size:133 final size:133
Alignment explanation
Indices: 24167022--24167287 Score: 498
Period size: 133 Copynumber: 2.0 Consensus size: 133
24167012 GAAATCGTAC
24167022 ATTGGAACTTTTATTTTATTTATATTTATTTTACTTAGTTTAA-ATCCTAGTTTTTAATCACCTC
1 ATTGGAACTTTTATTTTATTTATATTTATTTTACTTAG-TTAATATCCTAGTTTTTAATCACCTC
24167086 TTCAAATCAAAATATTTTTCTTCACCAAAGTGTTTTTAAAATTGCATTCATAAATAATTCTTTTC
65 TTCAAATCAAAATATTTTTCTTCACCAAAGTGTTTTTAAAATTGCATTCATAAATAATTCTTTTC
24167151 ACAG
130 ACAG
* *
24167155 ATTGGAACTTTTATTTTATTTTTATTTATTTTACTTTGTTAATATCCTAGTTTTTAATCACCTCT
1 ATTGGAACTTTTATTTTATTTATATTTATTTTACTTAGTTAATATCCTAGTTTTTAATCACCTCT
24167220 TCAAATCAAAATATTTTTCTTCACCAAAGTGTTTTTAAAATTGCATTCATAAATAATTCTTTTCA
66 TCAAATCAAAATATTTTTCTTCACCAAAGTGTTTTTAAAATTGCATTCATAAATAATTCTTTTCA
24167285 CAG
131 CAG
24167288 CCCCTGTGGG
Statistics
Matches: 130, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
132 4 0.03
133 126 0.97
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (133 bp):
ATTGGAACTTTTATTTTATTTATATTTATTTTACTTAGTTAATATCCTAGTTTTTAATCACCTCT
TCAAATCAAAATATTTTTCTTCACCAAAGTGTTTTTAAAATTGCATTCATAAATAATTCTTTTCA
CAG
Found at i:24170121 original size:139 final size:139
Alignment explanation
Indices: 24169868--24170144 Score: 455
Period size: 139 Copynumber: 2.0 Consensus size: 139
24169858 TAACATGATT
24169868 TAATAGAAATCTCACTCCATGTATTATGCCAATATCATTTCTGTCATAAATATGGTTTTTAGCCA
1 TAATAGAAATCTCACTCCATGTATTATGCCAATATCATTTCTGTCATAAATATGGTTTTTAGCCA
* *
24169933 TTTTGTAACACCCCAAACCCAACCTAGACGTTATAGCCAGATTTAAAGGTGTTACCATAAATCAA
66 TTTTGTAACACCCCAAACCCAACCTAGACGTTATAGCCAAATCTAAAGGTGTTACCATAAATCAA
24169998 TTGAAAACA
131 TTGAAAACA
*
24170007 TAATAGAAATCTCACTTCATGTATTATGCCAATATCATTTCTGTCATAAATATGGTTTTTAGCCA
1 TAATAGAAATCTCACTCCATGTATTATGCCAATATCATTTCTGTCATAAATATGGTTTTTAGCCA
* * ** * * * *
24170072 TTTTGTAACACCCCATACTCGGCCTAGATGTTATGGCCAAATCTGAAGGTGTTACCGTAAATCAA
66 TTTTGTAACACCCCAAACCCAACCTAGACGTTATAGCCAAATCTAAAGGTGTTACCATAAATCAA
24170137 TTGAAAAC
131 TTGAAAAC
24170145 CTAGAATTCG
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
139 127 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (139 bp):
TAATAGAAATCTCACTCCATGTATTATGCCAATATCATTTCTGTCATAAATATGGTTTTTAGCCA
TTTTGTAACACCCCAAACCCAACCTAGACGTTATAGCCAAATCTAAAGGTGTTACCATAAATCAA
TTGAAAACA
Found at i:24176331 original size:17 final size:17
Alignment explanation
Indices: 24176302--24176336 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24176292 TATCTTTTAC
24176302 ATATATAATTTATTTTT
1 ATATATAATTTATTTTT
24176319 ATATCATAA-TTATTTTT
1 ATAT-ATAATTTATTTTT
24176336 A
1 A
24176337 AACATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATATAATTTATTTTT
Found at i:24177922 original size:3 final size:3
Alignment explanation
Indices: 24177916--24177958 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
24177906 AACTAATTAG
24177916 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
24177959 GTATATTNNN
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:24179278 original size:13 final size:14
Alignment explanation
Indices: 24179260--24179299 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
24179250 AATTATTTTC
24179260 TGAAAAATA-AAAA
1 TGAAAAATAGAAAA
24179273 TG-AAAATAGAAAA
1 TGAAAAATAGAAAA
24179286 TG-AAAATAGAAAA
1 TGAAAAATAGAAAA
24179299 T
1 T
24179300 ATTTTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.17
Consensus pattern (14 bp):
TGAAAAATAGAAAA
Found at i:24179297 original size:7 final size:7
Alignment explanation
Indices: 24179263--24179300 Score: 55
Period size: 6 Copynumber: 5.9 Consensus size: 7
24179253 TATTTTCTGA
24179263 AAAATA-
1 AAAATAG
24179269 AAAAT-G
1 AAAATAG
24179275 AAAATAG
1 AAAATAG
24179282 AAAAT-G
1 AAAATAG
24179288 AAAATAG
1 AAAATAG
24179295 AAAATA
1 AAAATA
24179301 TTTTCATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 16 0.55
7 13 0.45
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.16
Consensus pattern (7 bp):
AAAATAG
Found at i:24182146 original size:43 final size:43
Alignment explanation
Indices: 24182079--24182344 Score: 278
Period size: 43 Copynumber: 6.2 Consensus size: 43
24182069 ACGTCGCTAA
*
24182079 CTTTTGCGGCGCTTACA-GAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGC-TA-AGGAAATAAACGCCGCTAAAGATCATGTT
* * *
24182123 CTTTAGCGGCGCTAAGGAAATAAACACCGCTAAAGATCCTATT
1 CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
* * *
24182166 ATTTAGCGGCGCTTATGAAA-AAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
* *
24182208 CTTTAGCAGCGCTAAGGAAATAAACACCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
* * *
24182251 ATTTAGCGGCGCTTA-GAAATAAAACGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTAAGGAAAT-AAACGCCGCTAAAGA-TCATGTT
* * *
24182294 CTGTAGCGGCGCT-TGGTCAA-AAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTAAGG-AAATAAACGCCGCTAAAGA-TCA-TGTT
24182336 CTTTAGCGG
1 CTTTAGCGG
24182345 TGCTTATTTC
Statistics
Matches: 190, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 70 0.37
43 106 0.56
44 13 0.07
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (43 bp):
CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
Found at i:24182324 original size:128 final size:128
Alignment explanation
Indices: 24182096--24182342 Score: 315
Period size: 128 Copynumber: 1.9 Consensus size: 128
24182086 GGCGCTTACA
* * *
24182096 GAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACACCGCTAAAGATC
1 GAAATAAACACCGCTAAAGATCATGTTATTTAGCGGCGCTAAGGAAATAAACACCGCTAAAGATA
* *
24182161 CTATTATTTAGCGGCGCTTATGAAAAAACGCCGCT-AAAGATCA-TGTTCTTTAGCAGCGCTAAG
66 ATATTATGTAGCGGCGCTTATGAAAAAACGCCGCTAAAAG-T-AGTGTTCTTTAGCAGCGCTAAG
* *
24182224 GAAATAAACACCGCTAAAGATCATGTTATTTAGCGGCGCTTA-GAAATAAAACGCCGCTAAA-AG
1 GAAATAAACACCGCTAAAGATCATGTTATTTAGCGGCGCTAAGGAAAT-AAACACCGCTAAAGA-
* * * *
24182287 TAATGTTCTGTAGCGGCGCTT-GGTCAAAAACGCCGCTAAAAGTAGTGTTCTTTAGC
64 TAATATTATGTAGCGGCGCTTATG-AAAAAACGCCGCTAAAAGTAGTGTTCTTTAGC
24182343 GGTGCTTATT
Statistics
Matches: 103, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
127 8 0.08
128 91 0.88
129 4 0.04
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (128 bp):
GAAATAAACACCGCTAAAGATCATGTTATTTAGCGGCGCTAAGGAAATAAACACCGCTAAAGATA
ATATTATGTAGCGGCGCTTATGAAAAAACGCCGCTAAAAGTAGTGTTCTTTAGCAGCGCTAAG
Found at i:24182326 original size:85 final size:86
Alignment explanation
Indices: 24182084--24182306 Score: 337
Period size: 85 Copynumber: 2.6 Consensus size: 86
24182074 GCTAACTTTT
24182084 GCGGCGCTTACAGAAAT-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAAC
1 GCGGCGCTT--AGAAATAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAAC
*
24182148 ACCGCTAAAGATCCTATTATTTA
64 ACCGCTAAAGATCATATTATTTA
*
24182171 GCGGCGCTTATG-AA-AAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTAAGGAAATAAACA
1 GCGGCGCTTA-GAAATAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACA
*
24182234 CCGCTAAAGATCATGTTATTTA
65 CCGCTAAAGATCATATTATTTA
* *
24182256 GCGGCGCTTAGAAATAAAACGCCGCTAAA-AGTAATGTTCTGTAGCGGCGCT
1 GCGGCGCTTAGAAATAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCT
24182307 TGGTCAAAAA
Statistics
Matches: 125, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
84 1 0.01
85 83 0.66
86 32 0.26
87 9 0.07
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (86 bp):
GCGGCGCTTAGAAATAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACAC
CGCTAAAGATCATATTATTTA
Found at i:24182822 original size:21 final size:21
Alignment explanation
Indices: 24182798--24182855 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
24182788 GCTTCTATCG
*
24182798 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
24182819 CTGCTTCTCTTGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
24182840 CTGCTTCCCTCACTGC
1 CTGCTTCTCTCGCTGC
24182856 CGCATCTGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.03, C:0.41, G:0.19, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:24189108 original size:22 final size:21
Alignment explanation
Indices: 24189080--24189134 Score: 87
Period size: 22 Copynumber: 2.7 Consensus size: 21
24189070 NNNNNNNNNN
24189080 ATGTAATTTATGTATCATATT
1 ATGTAATTTATGTATCATATT
24189101 AATGTAATTTATGTATCATATT
1 -ATGTAATTTATGTATCATATT
24189123 ATGT-A-TTATGTA
1 ATGTAATTTATGTA
24189135 AGTTATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 7 0.21
20 1 0.03
21 4 0.12
22 21 0.64
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.51
Consensus pattern (21 bp):
ATGTAATTTATGTATCATATT
Found at i:24189163 original size:9 final size:9
Alignment explanation
Indices: 24189128--24189262 Score: 91
Period size: 9 Copynumber: 15.2 Consensus size: 9
24189118 ATATTATGTA
24189128 TTATGTAAG
1 TTATGTAAG
* *
24189137 TTATTTAAA
1 TTATGTAAG
*
24189146 TTATTTAAG
1 TTATGTAAG
*
24189155 TTGTGTAAG
1 TTATGTAAG
*
24189164 TTGTGTAAG
1 TTATGTAAG
* *
24189173 ATATTTAAG
1 TTATGTAAG
24189182 TTATGTAAG
1 TTATGTAAG
*
24189191 TTTTGT-A-
1 TTATGTAAG
24189198 TTATGTAAG
1 TTATGTAAG
*
24189207 TTATGTATG
1 TTATGTAAG
*
24189216 CTATGT-A-
1 TTATGTAAG
*
24189223 TAATGTAAG
1 TTATGTAAG
*
24189232 TCCATATGTTA-
1 T---TATGTAAG
24189243 TTATGTAAG
1 TTATGTAAG
*
24189252 TTATGAAAG
1 TTATGTAAG
24189261 TT
1 TT
24189263 TAAATATAAG
Statistics
Matches: 97, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
7 9 0.09
8 9 0.09
9 73 0.75
11 1 0.01
12 5 0.05
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:24189171 original size:36 final size:34
Alignment explanation
Indices: 24189124--24189210 Score: 111
Period size: 36 Copynumber: 2.5 Consensus size: 34
24189114 TATCATATTA
*
24189124 TGTATTATGTAAGTTATTTAAATTATTTAAGTTG
1 TGTATTATGTAAGTTATTTAAATTATGTAAGTTG
* * * *
24189158 TGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTT
1 TGT-A-TTATGTAAGTTATTTAAATTATGTAAGTTG
24189194 TGTATTATGTAAGTTAT
1 TGTATTATGTAAGTTAT
24189211 GTATGCTATG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 14 0.32
35 2 0.05
36 28 0.64
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (34 bp):
TGTATTATGTAAGTTATTTAAATTATGTAAGTTG
Found at i:24189222 original size:25 final size:25
Alignment explanation
Indices: 24189178--24189232 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
24189168 GTAAGATATT
* * *
24189178 TAAGTTATGTAAGTTTTGTATTATG
1 TAAGTTATGTAAGCTATGTATAATG
*
24189203 TAAGTTATGTATGCTATGTATAATG
1 TAAGTTATGTAAGCTATGTATAATG
24189228 TAAGT
1 TAAGT
24189233 CCATATGTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (25 bp):
TAAGTTATGTAAGCTATGTATAATG
Found at i:24189543 original size:29 final size:29
Alignment explanation
Indices: 24189510--24189580 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
24189500 AATATAATTT
24189510 TAATTATTCATTATGTAAGTTAAGATCGA
1 TAATTATTCATTATGTAAGTTAAGATCGA
*
24189539 TAATTAGTCATTATGTAAGTTAAGATCGA
1 TAATTATTCATTATGTAAGTTAAGATCGA
24189568 TAATTATTCATTA
1 TAATTATTCATTA
24189581 ATTTGAAGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (29 bp):
TAATTATTCATTATGTAAGTTAAGATCGA
Found at i:24191805 original size:27 final size:27
Alignment explanation
Indices: 24191757--24191808 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
24191747 TCTTACATTT
* *
24191757 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
**
24191784 AAATAAATAATTACTTACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
24191809 TTTGTTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:24194022 original size:41 final size:40
Alignment explanation
Indices: 24193954--24194175 Score: 129
Period size: 41 Copynumber: 5.5 Consensus size: 40
24193944 GACGCTTCGG
* * ** * *
24193954 CAAAAACACCGCTAAAGGTAAATGCATTAGCGACGCTTACA
1 CAAAAACGCCACTAAAGGCCAA-GCATTAGCGGCGCTTAAA
* * **
24193995 CAAAAGCGCCTCTAAAGGCCACAGCATTAGCGGCGCACAAA
1 CAAAAACGCCACTAAAGGCCA-AGCATTAGCGGCGCTTAAA
* * **
24194036 CAAAAATGCCACTAAAGGCCAACCATTAGCGGCGCTTAGT
1 CAAAAACGCCACTAAAGGCCAAGCATTAGCGGCGCTTAAA
* ** * * ** *
24194076 TAAAAACGCCGTTAAAGGCTAGAGAATTAGCGGCGCCCAGA
1 CAAAAACGCCACTAAAGGCCA-AGCATTAGCGGCGCTTAAA
* * * * * * **
24194117 TAGAAACGCCGCTAAAGATCCGAGCATTAGCGTCGCTTTTA
1 CAAAAACGCCACTAAAG-GCCAAGCATTAGCGGCGCTTAAA
*
24194158 CAAAAACGCCGCTAAAGG
1 CAAAAACGCCACTAAAGG
24194176 GCGCTTTATA
Statistics
Matches: 137, Mismatches: 41, Indels: 7
0.74 0.22 0.04
Matches are distributed among these distances:
40 30 0.22
41 105 0.77
42 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (40 bp):
CAAAAACGCCACTAAAGGCCAAGCATTAGCGGCGCTTAAA
Found at i:24194666 original size:17 final size:17
Alignment explanation
Indices: 24194644--24194676 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24194634 TAGTAAAAAT
24194644 ATAATTT-TATTATTTAA
1 ATAATTTATATT-TTTAA
24194661 ATAATTTATATTTTTA
1 ATAATTTATATTTTTA
24194677 TAATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATAATTTATATTTTTAA
Found at i:24195787 original size:6 final size:6
Alignment explanation
Indices: 24195776--24195805 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
24195766 CAGAATTGTA
24195776 TGCCAT TGCCAT TGCCAT TGCCAT TGCCAT
1 TGCCAT TGCCAT TGCCAT TGCCAT TGCCAT
24195806 GCTGGTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (6 bp):
TGCCAT
Found at i:24197269 original size:24 final size:24
Alignment explanation
Indices: 24197240--24197293 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
24197230 TATGATTTAA
*
24197240 TCAAAGAATTTTAATTGATACTAT
1 TCAAAGAAATTTAATTGATACTAT
*
24197264 TTAAAGAAATTTAATTGATACTAT
1 TCAAAGAAATTTAATTGATACTAT
24197288 TCAAAG
1 TCAAAG
24197294 TATAATGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (24 bp):
TCAAAGAAATTTAATTGATACTAT
Found at i:24199109 original size:33 final size:32
Alignment explanation
Indices: 24199065--24199126 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
24199055 AAATGAAGAT
24199065 ATAATTAATAATAAATACTTGAAAT-TAGTATAA
1 ATAATTAATAATAAATA-TT-AAATATAGTATAA
*
24199098 ATAATTTATAATAAATATTAAATATAGTA
1 ATAATTAATAATAAATATTAAATATAGTA
24199127 GGTCTTCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 4 0.15
32 7 0.26
33 16 0.59
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (32 bp):
ATAATTAATAATAAATATTAAATATAGTATAA
Found at i:24203719 original size:26 final size:27
Alignment explanation
Indices: 24203658--24203721 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
24203648 TTTACTCTAG
* * *
24203658 TAAAATTTTGACGATTTTGTCCTCTGA
1 TAAAATTTTGACGATTTTGACCCCCGA
*
24203685 TAAAATTTTGATGATTTT-ACCCCCGA
1 TAAAATTTTGACGATTTTGACCCCCGA
24203711 TAAAATTTTGA
1 TAAAATTTTGA
24203722 GAAAATTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 16 0.48
27 17 0.52
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.42
Consensus pattern (27 bp):
TAAAATTTTGACGATTTTGACCCCCGA
Found at i:24203888 original size:18 final size:18
Alignment explanation
Indices: 24203862--24203897 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24203852 AGATTGCAAG
*
24203862 TTTCCATTTTCATTTTCA
1 TTTCCATTTCCATTTTCA
*
24203880 TTTCTATTTCCATTTTCA
1 TTTCCATTTCCATTTTCA
24203898 AAAACCTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTCCATTTCCATTTTCA
Found at i:24205422 original size:25 final size:25
Alignment explanation
Indices: 24205383--24205430 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
24205373 TTGAAAATAA
24205383 GAAAAATATCTTTAGA-AATTTTTT
1 GAAAAATATCTTTAGAGAATTTTTT
*
24205407 GAAATAATTTCTTTAGAGAATTTT
1 GAAA-AATATCTTTAGAGAATTTT
24205431 CTCTCTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 11 0.52
26 6 0.29
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (25 bp):
GAAAAATATCTTTAGAGAATTTTTT
Found at i:24205663 original size:31 final size:29
Alignment explanation
Indices: 24205607--24205664 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 29
24205597 ATTTATCAAC
24205607 AAGATAAACTTTAAATTAAATTTAATATT
1 AAGATAAACTTTAAATTAAATTTAATATT
24205636 AAGATAATCACTTTAATATTAAA-TTAATA
1 AAGATAA--ACTTTAA-ATTAAATTTAATA
24205665 AAATACTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 7 0.27
31 13 0.50
32 6 0.23
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (29 bp):
AAGATAAACTTTAAATTAAATTTAATATT
Found at i:24209127 original size:24 final size:24
Alignment explanation
Indices: 24209100--24209147 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
24209090 TTTACTGCAA
*
24209100 TATTGAGTGGTTTGGGCACAACGT
1 TATTGAGTGGTTTGGCCACAACGT
*
24209124 TATTGAGTGGTTTGTCCACAACGT
1 TATTGAGTGGTTTGGCCACAACGT
24209148 ACAGCTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (24 bp):
TATTGAGTGGTTTGGCCACAACGT
Found at i:24215582 original size:23 final size:24
Alignment explanation
Indices: 24215556--24215609 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
24215546 CATGTTCGTA
* *
24215556 TAGTGTTT-GGGAAAAGGTTTGTT
1 TAGTGTTTCAGGAAAAGGCTTGTT
* *
24215579 TAGTGTTTCAGGAACATGCTTGTT
1 TAGTGTTTCAGGAAAAGGCTTGTT
24215603 TAGTGTT
1 TAGTGTT
24215610 CATAACGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.20, C:0.06, G:0.30, T:0.44
Consensus pattern (24 bp):
TAGTGTTTCAGGAAAAGGCTTGTT
Found at i:24215749 original size:11 final size:10
Alignment explanation
Indices: 24215729--24215782 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
24215719 GTTACAATTT
24215729 TAAACAAACA
1 TAAACAAACA
24215739 TAAACCAAACA
1 TAAA-CAAACA
* *
24215750 TGAAC-AACT
1 TAAACAAACA
24215759 TAAACAAAC-
1 TAAACAAACA
24215768 -AAACAAACA
1 TAAACAAACA
*
24215777 CAAACA
1 TAAACA
24215783 TGTGGTTGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
8 8 0.22
9 7 0.19
10 13 0.35
11 9 0.24
ACGTcount: A:0.65, C:0.24, G:0.02, T:0.09
Consensus pattern (10 bp):
TAAACAAACA
Found at i:24217399 original size:18 final size:18
Alignment explanation
Indices: 24217376--24217450 Score: 82
Period size: 18 Copynumber: 4.3 Consensus size: 18
24217366 TATTTAAATT
24217376 ATTATAGAACGTGTAAAA
1 ATTATAGAACGTGTAAAA
*
24217394 ATTATAAAACGTGTAAAA
1 ATTATAGAACGTGTAAAA
** ***
24217412 ATTATA-AAAATG-ATTT
1 ATTATAGAACGTGTAAAA
24217428 ATTATAGAACGTGTAAAA
1 ATTATAGAACGTGTAAAA
24217446 ATTAT
1 ATTAT
24217451 TATGAAAATT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
16 7 0.16
17 8 0.18
18 29 0.66
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.33
Consensus pattern (18 bp):
ATTATAGAACGTGTAAAA
Found at i:24217431 original size:52 final size:49
Alignment explanation
Indices: 24217371--24217507 Score: 159
Period size: 52 Copynumber: 2.7 Consensus size: 49
24217361 CCCTTTATTT
* * *
24217371 AAATTATTATAGAACGTGTAAAAATTATAAAACGTGTAAAAATTA-TAAA
1 AAATTATTATAGAACGTGTAAAAATTATAAAAAGTATAAAAAATACT-AA
* *
24217420 AATGATTTATTATAGAACGTGTAAAAATTATTATGAAAATTATAAAAAATACTAT
1 AA--A-TTATTATAGAACGTGTAAAAATTA-TA--AAAAGTATAAAAAATACTAA
24217475 AAATTATTATAGAACGTGTAAAAATTATAAAAA
1 AAATTATTATAGAACGTGTAAAAATTATAAAAA
24217508 TAATTTAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
49 6 0.08
51 3 0.04
52 48 0.63
53 3 0.04
55 15 0.20
56 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (49 bp):
AAATTATTATAGAACGTGTAAAAATTATAAAAAGTATAAAAAATACTAA
Found at i:24217508 original size:49 final size:51
Alignment explanation
Indices: 24217370--24217526 Score: 148
Period size: 52 Copynumber: 3.1 Consensus size: 51
24217360 ACCCTTTATT
* * *
24217370 TAAATTATTATAGAACGTGTAAAAATTA-TA-AAACGT--GTAAAAATTATAA
1 TAAATTATTATAGAACGTGTAAAAATTATTAGAAA-ATAATTAAAAAATAT-A
* *
24217419 AAATGATTTATTATAGAACGTGTAAAAATTATTATGAAAATTA-TAAAAAATACTA
1 TAA--A-TTATTATAGAACGTGTAAAAATTATTA-GAAAATAATTAAAAAATA-TA
*
24217474 TAAATTATTATAGAACGTGTAAAAATTA-TA-AAAATAATTTAAAAATATA
1 TAAATTATTATAGAACGTGTAAAAATTATTAGAAAATAATTAAAAAATATA
24217523 TAAA
1 TAAA
24217527 AAAATTTATT
Statistics
Matches: 92, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
49 14 0.15
50 8 0.09
51 3 0.03
52 48 0.52
53 3 0.03
54 1 0.01
55 14 0.15
56 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (51 bp):
TAAATTATTATAGAACGTGTAAAAATTATTAGAAAATAATTAAAAAATATA
Found at i:24217518 original size:21 final size:20
Alignment explanation
Indices: 24217493--24217534 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
24217483 ATAGAACGTG
24217493 TAAAAAT-TATAAAAATAATT
1 TAAAAATATATAAAAA-AATT
24217513 TAAAAATATATAAAAAAATT
1 TAAAAATATATAAAAAAATT
24217533 TA
1 TA
24217535 TTTCATCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAATATATAAAAAAATT
Found at i:24220554 original size:17 final size:16
Alignment explanation
Indices: 24220514--24220560 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
24220504 TTTTTTTCTT
*
24220514 TTTTATTTATTT-TGA
1 TTTTATTTATTTATTA
24220529 TTTTGATTTATTTATTA
1 TTTT-ATTTATTTATTA
*
24220546 TTTATATTTTTTTAT
1 TTT-TATTTATTTAT
24220561 GCTTTAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 4 0.15
16 8 0.30
17 14 0.52
18 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (16 bp):
TTTTATTTATTTATTA
Found at i:24221621 original size:12 final size:13
Alignment explanation
Indices: 24221604--24221649 Score: 71
Period size: 12 Copynumber: 3.8 Consensus size: 13
24221594 CCAAATAAGT
24221604 AATAAA-TAATAA
1 AATAAAGTAATAA
24221616 AATAAAGTAAT-A
1 AATAAAGTAATAA
24221628 AATAAAGTAAT-A
1 AATAAAGTAATAA
24221640 AATAAAGTAA
1 AATAAAGTAA
24221650 AGAAAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 29 0.88
13 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.24
Consensus pattern (13 bp):
AATAAAGTAATAA
Found at i:24221625 original size:20 final size:21
Alignment explanation
Indices: 24221596--24221676 Score: 80
Period size: 20 Copynumber: 3.9 Consensus size: 21
24221586 ATTAATATCC
24221596 AAAT-AAGTAATAAATAAT-A
1 AAATAAAGTAATAAATAATAA
24221615 AAATAAAGTAATAAATAAAGTAA
1 AAATAAAGTAATAAAT-AA-TAA
* *
24221638 TAAATAAAGTAAAGAAAAAATAA
1 -AAATAAAGT-AATAAATAATAA
24221661 AAATAAA-TAA-AAATAA
1 AAATAAAGTAATAAATAA
24221677 AAATTGGGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
19 9 0.17
20 13 0.25
21 3 0.06
22 8 0.15
23 4 0.08
24 11 0.21
25 5 0.09
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (21 bp):
AAATAAAGTAATAAATAATAA
Found at i:24221672 original size:16 final size:17
Alignment explanation
Indices: 24221604--24221680 Score: 70
Period size: 17 Copynumber: 4.5 Consensus size: 17
24221594 CCAAATAAGT
*
24221604 AATAAATAATAAAAT-AA
1 AATAAA-AATAAAGTAAA
*
24221621 AGTAATAAATAAAGTAATA
1 AATAA-AAATAAAGTAA-A
* *
24221640 AAT-AAAGTAAAGAAAA
1 AATAAAAATAAAGTAAA
24221656 AATAAAAATAAA-TAAA
1 AATAAAAATAAAGTAAA
24221672 AATAAAAAT
1 AATAAAAAT
24221681 TGGGTTGCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
16 16 0.33
17 27 0.55
18 3 0.06
19 3 0.06
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
AATAAAAATAAAGTAAA
Found at i:24227869 original size:15 final size:14
Alignment explanation
Indices: 24227848--24227883 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
24227838 ATAATCATTA
*
24227848 ATAATTATCTTAAT
1 ATAATTATCCTAAT
24227862 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
24227877 ATAATTA
1 ATAATTA
24227884 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:24235871 original size:15 final size:17
Alignment explanation
Indices: 24235841--24235872 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
24235831 GAGAGTTTGA
24235841 AAATGAGATCGAAAAAG
1 AAATGAGATCGAAAAAG
24235858 AAATGAG-T-GAAAAAG
1 AAATGAGATCGAAAAAG
24235873 TCGAAAGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.59, C:0.03, G:0.25, T:0.12
Consensus pattern (17 bp):
AAATGAGATCGAAAAAG
Found at i:24240933 original size:49 final size:49
Alignment explanation
Indices: 24240850--24240946 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
24240840 ATCTATTTAT
* *
24240850 AGGTTGAAAAACCTTATTCTAATCAATCATAAATAGATAC-AGTATAGTA
1 AGGTTGAAAAACCTTAATCTAATCAATCATAAATA-AAACAAGTATAGTA
24240899 AGGTTGAAAAACCTTAATCTAATCAAT-ATAAAATAAAACAAGTATAGT
1 AGGTTGAAAAACCTTAATCTAATCAATCAT-AAATAAAACAAGTATAGT
24240947 TCTATATAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
48 5 0.11
49 39 0.89
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.29
Consensus pattern (49 bp):
AGGTTGAAAAACCTTAATCTAATCAATCATAAATAAAACAAGTATAGTA
Found at i:24243900 original size:17 final size:17
Alignment explanation
Indices: 24243874--24243917 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
24243864 ATAGGTCTCC
*
24243874 AACGAACTTCCAACCCA
1 AACGAGCTTCCAACCCA
24243891 AACGAGCTTCCAACCCA
1 AACGAGCTTCCAACCCA
24243908 AACGAGCTTC
1 AACGAGCTTC
24243918 TGAGTAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.36, C:0.39, G:0.11, T:0.14
Consensus pattern (17 bp):
AACGAGCTTCCAACCCA
Found at i:24244308 original size:30 final size:30
Alignment explanation
Indices: 24244272--24244550 Score: 201
Period size: 30 Copynumber: 9.4 Consensus size: 30
24244262 GTTTGTCACC
*
24244272 ATCCCTTTTCATAGTTTGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTTGATAGTCGAAGCT
* ** * * *
24244302 ATCCCTTTTCCTAGTTCAATGGTCGTCA-CC
1 ATCCCTTTTCATAGTTTGATAGTCG-AAGCT
* * * *
24244332 ATCCCTTTTCATTG-CTGATAGTCGTCATC-
1 ATCCCTTTTCATAGTTTGATAGTCG-AAGCT
* * * *
24244361 ATCCATTTTCATAATTCGATAGTCAAAGCT
1 ATCCCTTTTCATAGTTTGATAGTCGAAGCT
* ** *
24244391 ATCTCTTTTCATTTTTTGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTTGATAGTCGAAGCT
* *
24244421 ATCTCTTTTCATAGTTCGATAGTCGAAGCT
1 ATCCCTTTTCATAGTTTGATAGTCGAAGCT
* * * * *
24244451 ATCCTTTTTCATAATTTGATGGTCGTTA-CC
1 ATCCCTTTTCATAGTTTGATAGTCG-AAGCT
* * *
24244481 ATCCCTTTTCATTG-TTGATGGTCGTCA-CT
1 ATCCCTTTTCATAGTTTGATAGTCG-AAGCT
* *
24244510 ATCCCTTTTCATATTTTGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTTGATAGTCGAAGCT
24244540 ATCCCTTTTCA
1 ATCCCTTTTCA
24244551 CTGGTCGATG
Statistics
Matches: 193, Mismatches: 49, Indels: 14
0.75 0.19 0.05
Matches are distributed among these distances:
29 48 0.25
30 143 0.74
31 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTTGATAGTCGAAGCT
Found at i:24244501 original size:29 final size:29
Alignment explanation
Indices: 24244466--24244521 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
24244456 TTTTCATAAT
*
24244466 TTGATGGTCGTTACCATCCCTTTTCATTG
1 TTGATGGTCGTCACCATCCCTTTTCATTG
*
24244495 TTGATGGTCGTCACTATCCCTTTTCAT
1 TTGATGGTCGTCACCATCCCTTTTCAT
24244522 ATTTTGATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.25, G:0.16, T:0.45
Consensus pattern (29 bp):
TTGATGGTCGTCACCATCCCTTTTCATTG
Found at i:24244548 original size:149 final size:149
Alignment explanation
Indices: 24244276--24244550 Score: 390
Period size: 149 Copynumber: 1.8 Consensus size: 149
24244266 GTCACCATCC
* * *
24244276 CTTTTCATAGTTTGATAGCCGAAGCTATCCCTTTTCCTAGTTCAATGGTCGTCACCATCCCTTTT
1 CTTTTCATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCGTCACCATCCCTTTT
* *
24244341 CATTGCTGATAGTCGTCATCATCCATTTTCATAATTCGATAGTCAAAGCTATCTCTTTTCATTTT
66 CATTGCTGATAGTCGTCATCATCCATTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCATTTT
24244406 TTGATAGCCGAAGCTATCT
131 TTGATAGCCGAAGCTATCT
* * ** *
24244425 CTTTTCATAGTTCGATAGTCGAAGCTATCCTTTTTCATAATTTGATGGTCGTTACCATCCCTTTT
1 CTTTTCATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCGTCACCATCCCTTTT
* * * * * *
24244490 CATTGTTGATGGTCGTCA-CTATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCA
66 CATTGCTGATAGTCGTCATC-ATCCATTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCA
24244551 CTGGTCGATG
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
148 1 0.01
149 108 0.99
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (149 bp):
CTTTTCATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCGTCACCATCCCTTTT
CATTGCTGATAGTCGTCATCATCCATTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCATTTT
TTGATAGCCGAAGCTATCT
Found at i:24244559 original size:119 final size:120
Alignment explanation
Indices: 24244266--24244552 Score: 316
Period size: 119 Copynumber: 2.4 Consensus size: 120
24244256 CACAATGTTT
* * * * *
24244266 GTCACCATCCCTTTTCATAGTTTGATAGCCGAAGCTATCCCTTTTC-CTAGTTCAATGGTCGTCA
1 GTCACTATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCACTAGTTCGATAGTCGTAA
*
24244330 CCATCCCTTTTCATTGCTGATAGTCGTCATCATCCATTTTCATAATTCGATAGTC
66 CCATCCCTTTTCATTGCTGATAGTCGTCACCATCCATTTTCATAATTCGATAGTC
** * * *
24244385 -AAAGCTATCTCTTTTCATTTTTTGATAGCCGAAGCTATCTCTTTTCA-TAGTTCGATAGTCG-A
1 GTCA-CTATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCACTAGTTCGATAGTCGTA
* * * * * * ** *
24244447 AGCTATCCTTTTTCATAAT-TTGATGGTCGTTACCATCCCTTTTCATTGTT-GATGGTC
65 A-CCATCCCTTTTCAT--TGCTGATAGTCGTCACCATCCATTTTCATAATTCGATAGTC
24244504 GTCACTATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCACT
1 GTCACTATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCACT
24244553 GGTCGATGAT
Statistics
Matches: 136, Mismatches: 25, Indels: 13
0.78 0.14 0.07
Matches are distributed among these distances:
118 2 0.01
119 107 0.79
120 26 0.19
121 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.41
Consensus pattern (120 bp):
GTCACTATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCACTAGTTCGATAGTCGTAA
CCATCCCTTTTCATTGCTGATAGTCGTCACCATCCATTTTCATAATTCGATAGTC
Found at i:24248604 original size:3 final size:3
Alignment explanation
Indices: 24248598--24248646 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
24248588 ATATAGTAAT
* *
24248598 GAG GAG GAG GAG GAG AAG AAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
24248646 G
1 G
24248647 TGGTGGCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:24250616 original size:24 final size:24
Alignment explanation
Indices: 24250584--24250633 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
24250574 TAATTTGGAG
24250584 TTCTGTACCATAAGGTATAAATAA
1 TTCTGTACCATAAGGTATAAATAA
24250608 TTCTGTACCATAAGGTATAAATAA
1 TTCTGTACCATAAGGTATAAATAA
24250632 TT
1 TT
24250634 TAGTGACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (24 bp):
TTCTGTACCATAAGGTATAAATAA
Found at i:24260189 original size:21 final size:21
Alignment explanation
Indices: 24260163--24260221 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
24260153 AGCAACAGAA
*
24260163 TTCTACCGATAGAACT-GGGAG
1 TTCTACCGATACAACTCGGG-G
* *
24260184 TTCTACCGAGACAACTCTGGG
1 TTCTACCGATACAACTCGGGG
24260205 TTCTACCGATACAACTC
1 TTCTACCGATACAACTC
24260222 AAACTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (21 bp):
TTCTACCGATACAACTCGGGG
Found at i:24260543 original size:122 final size:122
Alignment explanation
Indices: 24260318--24260545 Score: 305
Period size: 122 Copynumber: 1.9 Consensus size: 122
24260308 GTTATACATA
* * *
24260318 TACCTTGAGGACTTCTACTGAAATAAGTCAAAACAGTAGCCAAAGTTCAGCCCCTCCTGCATTTC
1 TACCTTGAGGACTTCTACCGAAACAAGTCAAAACAGTAGCCAAAGTTCAGCCCCTCCTGCACTTC
* ** ** * * **
24260383 TATCGGTACTCTGTTGGGTTCTACCGATACCAGTTGAAACCACCAGAGTTCTACCGC
66 TACCAATACTCTGACGAGCTCTACCGATACCACATGAAACCACCAGAGTTCTACCGC
24260440 TACCTTGAGGACTTCTACCGAAACAAGTCAAAACAGTAGCCAAAGTTCAGCCTCC-CCTGCACTT
1 TACCTTGAGGACTTCTACCGAAACAAGTCAAAACAGTAGCCAAAGTTCAGCC-CCTCCTGCACTT
* * *
24260504 CTACCAATACTTTGACGAGCTCTATCGATACTACATGAAACC
65 CTACCAATACTCTGACGAGCTCTACCGATACCACATGAAACC
24260546 CTCAAAGTTG
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
122 88 0.98
123 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (122 bp):
TACCTTGAGGACTTCTACCGAAACAAGTCAAAACAGTAGCCAAAGTTCAGCCCCTCCTGCACTTC
TACCAATACTCTGACGAGCTCTACCGATACCACATGAAACCACCAGAGTTCTACCGC
Found at i:24264408 original size:33 final size:33
Alignment explanation
Indices: 24264371--24264435 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
24264361 ATAATGTTAG
*
24264371 CGGATTTGAAGTGTGTAGAATATTTTTTTTAAA
1 CGGATTTGAAGTGTGTAGAACATTTTTTTTAAA
*
24264404 CGGATTTGAAGTGTGTAGCACATTTTTTTTAA
1 CGGATTTGAAGTGTGTAGAACATTTTTTTTAA
24264436 GGTTTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.45
Consensus pattern (33 bp):
CGGATTTGAAGTGTGTAGAACATTTTTTTTAAA
Found at i:24267614 original size:47 final size:47
Alignment explanation
Indices: 24267560--24267654 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
24267550 ATCAATGATG
*
24267560 TAAATGGATACGACACATGTGTTTAGGGTCTAATTGTGAAAATAGAC
1 TAAATGGATACGACACATGTGTTTAGAGTCTAATTGTGAAAATAGAC
*
24267607 TAAATGGATATGACACATGTGTTTAGAGTCTAATTGTGAAAATAGAC
1 TAAATGGATACGACACATGTGTTTAGAGTCTAATTGTGAAAATAGAC
24267654 T
1 T
24267655 CATTTTAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (47 bp):
TAAATGGATACGACACATGTGTTTAGAGTCTAATTGTGAAAATAGAC
Found at i:24273565 original size:21 final size:21
Alignment explanation
Indices: 24273536--24273590 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
24273526 CACGGTTGGA
* * *
24273536 CACACGGGCATGTGGGGTAGT
1 CACATGGGCATGTGGGATAGC
*
24273557 CACATGGGCGTGTGGGATAGC
1 CACATGGGCATGTGGGATAGC
* *
24273578 CACCTGGCCATGT
1 CACATGGGCATGT
24273591 TTGGAGCCAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.24, G:0.38, T:0.20
Consensus pattern (21 bp):
CACATGGGCATGTGGGATAGC
Found at i:24273716 original size:36 final size:36
Alignment explanation
Indices: 24273676--24273747 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
24273666 TGATTTGTTC
24273676 TTATTTGGTCCCTGATTGCTCGAAGGCTATTTTTAA
1 TTATTTGGTCCCTGATTGCTCGAAGGCTATTTTTAA
24273712 TTATTTGGTCCCTGATTGCTCGAAGGCTATTTTTAA
1 TTATTTGGTCCCTGATTGCTCGAAGGCTATTTTTAA
24273748 GGCCACGTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.44
Consensus pattern (36 bp):
TTATTTGGTCCCTGATTGCTCGAAGGCTATTTTTAA
Found at i:24278984 original size:61 final size:61
Alignment explanation
Indices: 24278912--24279027 Score: 223
Period size: 61 Copynumber: 1.9 Consensus size: 61
24278902 CACAAACTCT
*
24278912 ACCTCTAAATAGTAAGTAATCATTAAACCCTATTTGAAAATCTGAATCAAGAGTCCACAAA
1 ACCTCTAAATAGTAAGCAATCATTAAACCCTATTTGAAAATCTGAATCAAGAGTCCACAAA
24278973 ACCTCTAAATAGTAAGCAATCATTAAACCCTATTTGAAAATCTGAATCAAGAGTC
1 ACCTCTAAATAGTAAGCAATCATTAAACCCTATTTGAAAATCTGAATCAAGAGTC
24279028 ATTTCATATA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (61 bp):
ACCTCTAAATAGTAAGCAATCATTAAACCCTATTTGAAAATCTGAATCAAGAGTCCACAAA
Found at i:24282082 original size:20 final size:19
Alignment explanation
Indices: 24282056--24282195 Score: 111
Period size: 20 Copynumber: 7.1 Consensus size: 19
24282046 ATAAATACAT
24282056 AACAGAGGCACCGAAGTGC
1 AACAGAGGCACCGAAGTGC
* **
24282075 AGACAGAGGCACGGTTGTGC
1 A-ACAGAGGCACCGAAGTGC
*
24282095 AATCAGAGGCACCAAAGTGC
1 AA-CAGAGGCACCGAAGTGC
* * *
24282115 AAACAAAGACACCGAAGTGT
1 -AACAGAGGCACCGAAGTGC
* *
24282135 AATAGAGGCACC-AGATTGC
1 AACAGAGGCACCGA-AGTGC
** *
24282154 AAGCAGAGGTGCCAAAGTGC
1 AA-CAGAGGCACCGAAGTGC
24282174 AAACAGAGGCACCGAAGTGC
1 -AACAGAGGCACCGAAGTGC
24282194 AA
1 AA
24282196 TCCCGTACAA
Statistics
Matches: 91, Mismatches: 23, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
18 1 0.01
19 18 0.20
20 67 0.74
21 5 0.05
ACGTcount: A:0.39, C:0.22, G:0.29, T:0.10
Consensus pattern (19 bp):
AACAGAGGCACCGAAGTGC
Found at i:24286347 original size:176 final size:176
Alignment explanation
Indices: 24286053--24286404 Score: 704
Period size: 176 Copynumber: 2.0 Consensus size: 176
24286043 GAGAAATCGT
24286053 TTAATACGTAAAAGGAGTTATACGTGGCAAAATATGATAGTACAACATTCATTTTAAATAACCAT
1 TTAATACGTAAAAGGAGTTATACGTGGCAAAATATGATAGTACAACATTCATTTTAAATAACCAT
24286118 GACATAACATGCATAATAAAATATACATATAGCATCGATATGGATAAATCTTAATGTTAACATGC
66 GACATAACATGCATAATAAAATATACATATAGCATCGATATGGATAAATCTTAATGTTAACATGC
24286183 ATGAATAAAAATAATGATATAAATGACAATATAATAGCGACAATAA
131 ATGAATAAAAATAATGATATAAATGACAATATAATAGCGACAATAA
24286229 TTAATACGTAAAAGGAGTTATACGTGGCAAAATATGATAGTACAACATTCATTTTAAATAACCAT
1 TTAATACGTAAAAGGAGTTATACGTGGCAAAATATGATAGTACAACATTCATTTTAAATAACCAT
24286294 GACATAACATGCATAATAAAATATACATATAGCATCGATATGGATAAATCTTAATGTTAACATGC
66 GACATAACATGCATAATAAAATATACATATAGCATCGATATGGATAAATCTTAATGTTAACATGC
24286359 ATGAATAAAAATAATGATATAAATGACAATATAATAGCGACAATAA
131 ATGAATAAAAATAATGATATAAATGACAATATAATAGCGACAATAA
24286405 AACACAAAAC
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
176 176 1.00
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.28
Consensus pattern (176 bp):
TTAATACGTAAAAGGAGTTATACGTGGCAAAATATGATAGTACAACATTCATTTTAAATAACCAT
GACATAACATGCATAATAAAATATACATATAGCATCGATATGGATAAATCTTAATGTTAACATGC
ATGAATAAAAATAATGATATAAATGACAATATAATAGCGACAATAA
Found at i:24288472 original size:50 final size:50
Alignment explanation
Indices: 24288337--24288728 Score: 347
Period size: 50 Copynumber: 7.9 Consensus size: 50
24288327 TGGATCTATT
* * * * * * ** * *
24288337 TGCCAGGTAAGTAAGATTCACTATCGTAGCTTTAATCTATTTAAATACAA
1 TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
* * * *
24288387 TGTCGGGGAAGCAAGATTCGC-GTTGTAGCTTCAATCTGTTCCACTGCAC
1 TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
* * * **
24288436 CGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTGCAA
1 TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
* ** * *
24288486 TGTCAGGGAAGCAAGATTTTCTGTTGTAGCTTCAATCTGTTCCACTGCAT
1 TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
* * ** *
24288536 TGCCAGGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTTAACTACAA
1 TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
* * * * * *
24288586 TGTCGGGGAAGCAAGATTCTCTGTTGTAGCCTCAATTTATTCCACTGCAC
1 TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
* * * ** *
24288636 CGCCGGGGAAGTC-AGATTTGCTGTTGTAGCTTCAATCTATTTAACTACAA
1 TGCCAGGGAAG-CAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
* * * * *
24288686 TGTCGGGGAAGCAAGATTCACTGTTATAGCTTCAATCTGTTCC
1 TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCC
24288729 GCTGTAACGT
Statistics
Matches: 268, Mismatches: 71, Indels: 6
0.78 0.21 0.02
Matches are distributed among these distances:
49 36 0.13
50 231 0.86
51 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (50 bp):
TGCCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAA
Found at i:24288561 original size:100 final size:100
Alignment explanation
Indices: 24288338--24288728 Score: 577
Period size: 100 Copynumber: 3.9 Consensus size: 100
24288328 GGATCTATTT
* * * * *
24288338 GCCAGGTAAGTAAGATTCACTATCGTAGCTTTAATCTATTTAAATACAATGTCGGGGAAGCAAGA
1 GCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGA
*
24288403 TTCGC-GTTGTAGCTTCAATCTGTTCCACTGCACC
66 TTCTCTGTTGTAGCTTCAATCTGTTCCACTGCACC
* *
24288437 GCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGCAAGA
1 GCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGA
* **
24288502 TTTTCTGTTGTAGCTTCAATCTGTTCCACTGCATT
66 TTCTCTGTTGTAGCTTCAATCTGTTCCACTGCACC
**
24288537 GCCAGGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGA
1 GCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGA
* * *
24288602 TTCTCTGTTGTAGCCTCAATTTATTCCACTGCACC
66 TTCTCTGTTGTAGCTTCAATCTGTTCCACTGCACC
* * **
24288637 GCCGGGGAAGTCAGATTTGCTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGA
1 GCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGA
* *
24288702 TTCACTGTTATAGCTTCAATCTGTTCC
66 TTCTCTGTTGTAGCTTCAATCTGTTCC
24288729 GCTGTAACGT
Statistics
Matches: 261, Mismatches: 30, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
99 61 0.23
100 200 0.77
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (100 bp):
GCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGA
TTCTCTGTTGTAGCTTCAATCTGTTCCACTGCACC
Found at i:24289415 original size:38 final size:37
Alignment explanation
Indices: 24289359--24289431 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 37
24289349 TGAATGAATT
24289359 AATCAAGATAGCAAATTTTGCCAAAAATACAAAATGGG
1 AATCAAGATAGCAAATTTTGCC-AAAATACAAAATGGG
**
24289397 AATCAAGATAGCGTATTTTGCCAAAATACAAAATG
1 AATCAAGATAGCAAATTTTGCCAAAATACAAAATG
24289432 AATGAAATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
37 13 0.39
38 20 0.61
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.23
Consensus pattern (37 bp):
AATCAAGATAGCAAATTTTGCCAAAATACAAAATGGG
Found at i:24293683 original size:18 final size:18
Alignment explanation
Indices: 24293662--24293697 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24293652 TGCCTTTCGC
24293662 CTCTATTACCTCTTTTCT
1 CTCTATTACCTCTTTTCT
24293680 CTCTATTACCTCTTTTCT
1 CTCTATTACCTCTTTTCT
24293698 AACTCTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.33, G:0.00, T:0.56
Consensus pattern (18 bp):
CTCTATTACCTCTTTTCT
Found at i:24301549 original size:14 final size:14
Alignment explanation
Indices: 24301530--24301580 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
24301520 TCCTTTGTCC
24301530 TTTTCTTTTTTGTT
1 TTTTCTTTTTTGTT
*
24301544 TTTTCTTTTCTGTT
1 TTTTCTTTTTTGTT
*
24301558 TGTTGCTTTCTTTTGTT
1 T-TTTC-TT-TTTTGTT
24301575 TTTTCT
1 TTTTCT
24301581 CTTGTTGCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 14 0.47
15 4 0.13
16 5 0.17
17 7 0.23
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (14 bp):
TTTTCTTTTTTGTT
Found at i:24301553 original size:19 final size:20
Alignment explanation
Indices: 24301529--24301578 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
24301519 TTCCTTTGTC
*
24301529 CTTTTCTTTTTTGTT-TTTT
1 CTTTTCTTTTTTGTTGCTTT
*
24301548 CTTTTC-TGTTTGTTGCTTT
1 CTTTTCTTTTTTGTTGCTTT
*
24301567 CTTTTGTTTTTT
1 CTTTTCTTTTTT
24301579 CTCTTGTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 7 0.28
19 14 0.56
20 4 0.16
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (20 bp):
CTTTTCTTTTTTGTTGCTTT
Found at i:24301919 original size:28 final size:28
Alignment explanation
Indices: 24301884--24301940 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
24301874 AGTTCAGGGA
24301884 AAAATTTAAAATTTTCAAAATAAGGGTC
1 AAAATTTAAAATTTTCAAAATAAGGGTC
*
24301912 AAAATTTAAAATTTTTAAAATAAGGGTC
1 AAAATTTAAAATTTTCAAAATAAGGGTC
24301940 A
1 A
24301941 CACGTCCGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.33
Consensus pattern (28 bp):
AAAATTTAAAATTTTCAAAATAAGGGTC
Found at i:24302795 original size:41 final size:41
Alignment explanation
Indices: 24302749--24302832 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 41
24302739 TCACTAGCAC
* * *
24302749 AAAGCCTGCTAGGCTCAAGG-TCAGATACAATACACCGGCAT
1 AAAGCCTGCTAGGCCCAAGGCCCA-ATACAATACACCGCCAT
24302790 AAAGCCTGCTAGGCCCAAGGCCCAATACAATACACCGCCAT
1 AAAGCCTGCTAGGCCCAAGGCCCAATACAATACACCGCCAT
24302831 AA
1 AA
24302833 CAACTCAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
41 37 0.95
42 2 0.05
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.14
Consensus pattern (41 bp):
AAAGCCTGCTAGGCCCAAGGCCCAATACAATACACCGCCAT
Found at i:24314868 original size:27 final size:27
Alignment explanation
Indices: 24314830--24315014 Score: 230
Period size: 27 Copynumber: 6.8 Consensus size: 27
24314820 AAAACGCCAA
24314830 GAAATGGAAGCCTTTGTGGCAATCTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
* *
24314857 GAAATAGAAGCCTTTGTGGCGATCTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
* * *
24314884 GAAATGAAATCCTTTATGGCAATCTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
*
24314911 GAAATGGAAGTCTTTGTGGCAATCTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
*
24314938 GAAAGGGAAGCCTTTGTGGCAATCTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
* * *
24314965 GAAATAGAAGCCCTTT-TGGCGATCTAAG
1 GAAATGGAAG-CCTTTGTGGCAATCT-AT
*
24314993 GAAA-GGAAAGCCCTTGTGGCAA
1 GAAATGG-AAGCCTTTGTGGCAA
24315015 ATGGAGAAAG
Statistics
Matches: 134, Mismatches: 20, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
27 116 0.87
28 18 0.13
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (27 bp):
GAAATGGAAGCCTTTGTGGCAATCTAT
Found at i:24319710 original size:19 final size:19
Alignment explanation
Indices: 24319686--24319725 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
24319676 AAATTAATTT
*
24319686 AATTAA-CTAACTGCAAGTG
1 AATTAACCTAAATGCAA-TG
24319705 AATTAACCTAAATGCAATG
1 AATTAACCTAAATGCAATG
24319724 AA
1 AA
24319726 ATGGTTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.25
Consensus pattern (19 bp):
AATTAACCTAAATGCAATG
Found at i:24326916 original size:23 final size:23
Alignment explanation
Indices: 24326885--24326937 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
24326875 ACCTACTTTC
* *
24326885 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
24326908 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
24326931 TTACAGT
1 TTACAGT
24326938 CAATCCCCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:24329029 original size:20 final size:20
Alignment explanation
Indices: 24329004--24329047 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
24328994 AAATCTGAAA
24329004 TTTTAA-AGGAATTTATTTAT
1 TTTTAACAGGAATTT-TTTAT
**
24329024 TTTTAACATTAATTTTTTAT
1 TTTTAACAGGAATTTTTTAT
24329044 TTTT
1 TTTT
24329048 TTGAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTAACAGGAATTTTTTAT
Found at i:24332482 original size:120 final size:119
Alignment explanation
Indices: 24332228--24332500 Score: 282
Period size: 119 Copynumber: 2.3 Consensus size: 119
24332218 CTGCTCAAAT
* *
24332228 ATAGTAGTAATCCATAACTTCTAAGTCCAAAACAAATATCTTATTCACAGAGTTGCAAATTCATC
1 ATAGTAGTAATCCATAACTTCTTAGCCCAAAACAAATATCTTATTCACAGAGTTGCAAATTCATC
* * * * * * * * *
24332293 ATCGAATTGGTATATACTGCACATGTGAGTAGATATACCTGCTCCAAATATGGG
66 ATCGAATTGATAAAAACTGAACATGTAAGAACATACACCTGCTCCAAATATAGG
* * * * * * *
24332347 ACAGTAGTAATCCATAATTTCTTGGCCCAAGAAC-AATTTCTTATTTACGGA-TTCGCAGATTCA
1 ATAGTAGTAATCCATAACTTCTTAGCCCAA-AACAAATATCTTATTCACAGAGTT-GCAAATTCA
* *
24332410 TCATCGAATTGATAAAAAACTGAACATGTAAGAACATACACCTGCTCGAGATATAAGG
64 TCATCGAATTGAT-AAAAACTGAACATGTAAGAACATACACCTGCTCCAAATAT-AGG
* *
24332468 -TAGTAGTAATCCATAAGTTCTTAGTCCTAAAAC
1 ATAGTAGTAATCCATAACTTCTTAG-CCCAAAAC
24332501 GATGTCTTAT
Statistics
Matches: 125, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
118 2 0.02
119 59 0.47
120 58 0.46
121 6 0.05
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (119 bp):
ATAGTAGTAATCCATAACTTCTTAGCCCAAAACAAATATCTTATTCACAGAGTTGCAAATTCATC
ATCGAATTGATAAAAACTGAACATGTAAGAACATACACCTGCTCCAAATATAGG
Found at i:24332509 original size:120 final size:118
Alignment explanation
Indices: 24332228--24332515 Score: 301
Period size: 120 Copynumber: 2.4 Consensus size: 118
24332218 CTGCTCAAAT
* *
24332228 ATAGTAGTAATCCATAACTTCTAAGTCCAAAACAAATATCTTATTCACAGAGTTGCAAATTCATC
1 ATAGTAGTAATCCATAACTTCTTAGTCCAAAAC-AATATCTTATTTACAGAGTTGCAAATTCATC
* * * * * * * * *
24332293 ATCGAATTGGTATATACTGCACATGTGAGTAGATATACCTGCTCCAAATATGGG
65 ATCGAATTGATAAAAACTGAACATGTAAGAACATACACCTGCTCCAAATATAGG
* * * * * * *
24332347 ACAGTAGTAATCCATAATTTCTTGGCCCAAGAACAATTTCTTATTTACGGA-TTCGCAGATTCAT
1 ATAGTAGTAATCCATAACTTCTTAGTCCAA-AACAATATCTTATTTACAGAGTT-GCAAATTCAT
* *
24332411 CATCGAATTGATAAAAAACTGAACATGTAAGAACATACACCTGCTCGAGATATAAGG
64 CATCGAATTGAT-AAAAACTGAACATGTAAGAACATACACCTGCTCCAAATAT-AGG
* * *
24332468 -TAGTAGTAATCCATAAGTTCTTAGTCCTAAAACGATGTCTTATTTACA
1 ATAGTAGTAATCCATAACTTCTTAGTCC-AAAACAATATCTTATTTACA
24332516 TATATCATCT
Statistics
Matches: 137, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
118 2 0.01
119 59 0.43
120 72 0.53
121 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (118 bp):
ATAGTAGTAATCCATAACTTCTTAGTCCAAAACAATATCTTATTTACAGAGTTGCAAATTCATCA
TCGAATTGATAAAAACTGAACATGTAAGAACATACACCTGCTCCAAATATAGG
Found at i:24334272 original size:19 final size:19
Alignment explanation
Indices: 24334244--24334281 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24334234 TCTCTTCATC
*
24334244 GCTGGTTCTTTGTTCCTCT
1 GCTGGGTCTTTGTTCCTCT
24334263 GCTGGGTCTTTGTTCCTCT
1 GCTGGGTCTTTGTTCCTCT
24334282 TCTCCACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.24, T:0.50
Consensus pattern (19 bp):
GCTGGGTCTTTGTTCCTCT
Found at i:24334680 original size:14 final size:14
Alignment explanation
Indices: 24334642--24334674 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
24334632 GCCAAACAAT
*
24334642 TTCTGGCATTTTAG
1 TTCTAGCATTTTAG
24334656 TTCTAGCATTTTAG
1 TTCTAGCATTTTAG
24334670 TTCTA
1 TTCTA
24334675 CAATTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (14 bp):
TTCTAGCATTTTAG
Found at i:24336657 original size:13 final size:13
Alignment explanation
Indices: 24336633--24336697 Score: 78
Period size: 13 Copynumber: 4.9 Consensus size: 13
24336623 CACTCAATTT
24336633 TTTTCAAAAAGCA-
1 TTTTC-AAAAGCAC
24336646 TTTCTCAAAAGCAC
1 TTT-TCAAAAGCAC
* **
24336660 TTTTCCACGGCAC
1 TTTTCAAAAGCAC
24336673 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
24336686 TTTTCAAAAGCA
1 TTTTCAAAAGCA
24336698 ATAAAGAACT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
13 39 0.89
14 5 0.11
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:24349074 original size:30 final size:30
Alignment explanation
Indices: 24349040--24349102 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
24349030 ATGGGCTATC
24349040 ACATGG-CTGTGTGACACACACGGCCTGGCT
1 ACATGGTC-GTGTGACACACACGGCCTGGCT
24349070 ACATGGTCGTGTGACACACACGGCCTGGCT
1 ACATGGTCGTGTGACACACACGGCCTGGCT
24349100 ACA
1 ACA
24349103 CCGTTGTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.22, C:0.30, G:0.29, T:0.19
Consensus pattern (30 bp):
ACATGGTCGTGTGACACACACGGCCTGGCT
Found at i:24349112 original size:30 final size:30
Alignment explanation
Indices: 24349047--24349112 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
24349037 ATCACATGGC
**
24349047 TGTGTGACACACACGGCCTGGCTACATGGT
1 TGTGTGACACACACGGCCTGGCTACACCGT
*
24349077 CGTGTGACACACACGGCCTGGCTACACCGT
1 TGTGTGACACACACGGCCTGGCTACACCGT
24349107 TGTGTG
1 TGTGTG
24349113 GCAACTCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.18, C:0.29, G:0.30, T:0.23
Consensus pattern (30 bp):
TGTGTGACACACACGGCCTGGCTACACCGT
Found at i:24356621 original size:23 final size:22
Alignment explanation
Indices: 24356562--24356628 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
24356552 ATAAAATTGT
*
24356562 GGTGTATTTGAATGGATGAATTA
1 GGTGTATTTGAATGGATG-TTTA
24356585 GGATG--TTTGAAATGGTATGTTTA
1 GG-TGTATTTG-AATGG-ATGTTTA
24356608 GGTGTATTTGAAT-GATGTTTA
1 GGTGTATTTGAATGGATGTTTA
24356629 AATCCCTTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
21 7 0.18
22 7 0.18
23 15 0.39
24 9 0.24
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (22 bp):
GGTGTATTTGAATGGATGTTTA
Found at i:24365170 original size:26 final size:26
Alignment explanation
Indices: 24365118--24365170 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
24365108 AAAATTATTT
*
24365118 TAAAATTTTAAAATTTATTAAAAATA
1 TAAAATTTTAAAATTTATCAAAAATA
* *
24365144 TAAATTTTTTAAATTT-TCAAAAGATA
1 TAAAATTTTAAAATTTATCAAAA-ATA
24365170 T
1 T
24365171 GATAGTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
TAAAATTTTAAAATTTATCAAAAATA
Found at i:24369738 original size:12 final size:12
Alignment explanation
Indices: 24369721--24369745 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24369711 CATAAGTTTT
24369721 TAAATTTAAATA
1 TAAATTTAAATA
24369733 TAAATTTAAATA
1 TAAATTTAAATA
24369745 T
1 T
24369746 TCTCTTGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAATTTAAATA
Found at i:24370653 original size:90 final size:90
Alignment explanation
Indices: 24370502--24370705 Score: 299
Period size: 90 Copynumber: 2.3 Consensus size: 90
24370492 AATTTTTAAT
* *
24370502 AAAAGCAGGGGCTTAATTGC-TTTTTTTGAAAAAGTTTGAGGGTCTTTTCGATGCATTTTGAAAG
1 AAAAACAGGGGCTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGCCTTTTCGATGCATTTTGAAAG
*
24370566 TTCAAGTACCCAATTGAGTG-AAAA
66 TTCAAGTACCCAAATGAGTGTAAAA
** * * *
24370590 AAAAGGTAGGGGCTTAATTGCTTTTTTTTGAAAAGGTTTTAGGGCCTTTTTGATGCATTTTGAAA
1 AAAA-ACAGGGGCTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGCCTTTTCGATGCATTTTGAAA
24370655 GTTCAAGTACCCAAATGAGTGTAAAA
65 GTTCAAGTACCCAAATGAGTGTAAAA
24370681 AAAAACAGGGGCTTAATT--TTTTTTT
1 AAAAACAGGGGCTTAATTGCTTTTTTT
24370706 AAATTTGAGG
Statistics
Matches: 105, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
88 11 0.10
89 15 0.14
90 71 0.68
91 8 0.08
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.36
Consensus pattern (90 bp):
AAAAACAGGGGCTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGCCTTTTCGATGCATTTTGAAAG
TTCAAGTACCCAAATGAGTGTAAAA
Found at i:24371175 original size:33 final size:33
Alignment explanation
Indices: 24371132--24371194 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
24371122 AGTCTCATTT
* *
24371132 CCCTTGTTTTCTTAAGTAATGTGAGATATGAGA
1 CCCTTATTTTCTTAAATAATGTGAGATATGAGA
*
24371165 CCCTTATTTTCTTAAATAATGTGGGATATG
1 CCCTTATTTTCTTAAATAATGTGAGATATG
24371195 GGATATGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (33 bp):
CCCTTATTTTCTTAAATAATGTGAGATATGAGA
Found at i:24371868 original size:94 final size:95
Alignment explanation
Indices: 24371701--24371878 Score: 261
Period size: 94 Copynumber: 1.9 Consensus size: 95
24371691 ATACACATGG
* ** *
24371701 CTTATACGTTATATAAATATAACTAATACGGTATTATGCACAAAACTTTAATCTAATATTTTTGG
1 CTTATACATTATATAAATATAACTAATACAATATGAT-CACAAAACTTTAATCTAATATTTTTGG
* * *
24371766 ATCGTAGAGTCATATTTTAGTTTACAAATTA
65 ATCATAGAGTAACATTTTAGTTTACAAATTA
24371797 CTTATACATTATATAAATATAACTAATACAATATGAT-ACAAAACTTTAATCTAAT-TTTTTGGG
1 CTTATACATTATATAAATATAACTAATACAATATGATCACAAAACTTTAATCTAATATTTTT-GG
24371860 ATCATAGAGTAACATTTTA
65 ATCATAGAGTAACATTTTA
24371879 TAATTTTAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
93 5 0.07
94 36 0.49
96 33 0.45
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (95 bp):
CTTATACATTATATAAATATAACTAATACAATATGATCACAAAACTTTAATCTAATATTTTTGGA
TCATAGAGTAACATTTTAGTTTACAAATTA
Found at i:24372966 original size:13 final size:13
Alignment explanation
Indices: 24372948--24372972 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24372938 TGTCATCTGA
24372948 TACACATAGTACC
1 TACACATAGTACC
24372961 TACACATAGTAC
1 TACACATAGTAC
24372973 TACGCACGTG
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TACACATAGTACC
Found at i:24373075 original size:51 final size:51
Alignment explanation
Indices: 24372911--24373134 Score: 190
Period size: 51 Copynumber: 4.4 Consensus size: 51
24372901 TTCGGTGGTT
* * * * * *
24372911 TGCACATAGTACCACCCATGTGACCATTGTCATCTGATACACATAGTA-CC
1 TGCACATAGTACTACACACGTGACCAATGCCATTTGATACACATAGTAGCC
* * * * * * *
24372961 TACACATAGTACTACGCACGTGATCAA-G-C-TTTCCAGTTCACGTAATAGCC
1 TGCACATAGTACTACACACGTGACCAATGCCATTT-GA-TACACATAGTAGCC
*
24373011 TGCACATAGTACTACACACGTGACCAATGCCATTTGGTACACATAGTAGCC
1 TGCACATAGTACTACACACGTGACCAATGCCATTTGATACACATAGTAGCC
* * ** *
24373062 TGCACATAGTACTACACATGTGACCATTAT-CTA-ACGATACACGTAGTAGCC
1 TGCACATAGTACTACACACGTGACCA--ATGCCATTTGATACACATAGTAGCC
*
24373113 TGCACTTAGTACTACACACGTG
1 TGCACATAGTACTACACACGTG
24373135 TTCATAGGTA
Statistics
Matches: 139, Mismatches: 27, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
47 2 0.01
48 2 0.01
49 9 0.06
50 47 0.34
51 71 0.51
52 3 0.02
53 5 0.04
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (51 bp):
TGCACATAGTACTACACACGTGACCAATGCCATTTGATACACATAGTAGCC
Found at i:24380404 original size:51 final size:52
Alignment explanation
Indices: 24380342--24380566 Score: 208
Period size: 51 Copynumber: 4.4 Consensus size: 52
24380332 TTCGGTGGTT
* * *
24380342 TGCACATAGTACCACCCATGTGACCATTGTC-ATCCGATACACGGAGTAGCC
1 TGCACATAGTACTACACACGTGACCATTGTCTATCCGATACACGGAGTAGCC
* * * * * * *
24380393 TACACATAGTACTACACACGTGATCA-AG-CTTTCTGGTTCACGGAGTAGCC
1 TGCACATAGTACTACACACGTGACCATTGTCTATCCGATACACGGAGTAGCC
* * * * * **
24380443 TGCACATAGTACTACACACGTGACCA-AGGCCATCTGGTACACATAGTAGCC
1 TGCACATAGTACTACACACGTGACCATTGTCTATCCGATACACGGAGTAGCC
* * * *
24380494 TGCACATAGTACTACACATGTGACCATTATCTAT-CGATACGCGTAGTAGCC
1 TGCACATAGTACTACACACGTGACCATTGTCTATCCGATACACGGAGTAGCC
* *
24380545 TGCACTTAGTACTACGCACGTG
1 TGCACATAGTACTACACACGTG
24380567 TTCATAGGTA
Statistics
Matches: 142, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
49 1 0.01
50 43 0.30
51 95 0.67
52 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (52 bp):
TGCACATAGTACTACACACGTGACCATTGTCTATCCGATACACGGAGTAGCC
Found at i:24395149 original size:27 final size:26
Alignment explanation
Indices: 24395026--24395179 Score: 146
Period size: 27 Copynumber: 5.7 Consensus size: 26
24395016 AACATGTCAA
* *
24395026 AAAAGAATAGCCTTTATGACGTATTGC
1 AAAAGAATAGCCTTTGTGGCGTATT-C
* **
24395053 AAAAGAATATCCTTTGTGATGTATTAC
1 AAAAGAATAGCCTTTGTGGCGTATT-C
** *
24395080 AAAAGAATAGCCTTTGTGGCAAAGTTT
1 AAAAGAATAGCCTTTGTGGCGTA-TTC
*
24395107 AAAATAATAGCCTTTGTGGCGTATTAC
1 AAAAGAATAGCCTTTGTGGCGTATT-C
* * * *
24395134 AAAAGACTAGCCTTTGTGGAGAAGTC
1 AAAAGAATAGCCTTTGTGGCGTATTC
24395160 TAAAAGAATAGCCTTTGTGG
1 -AAAAGAATAGCCTTTGTGG
24395180 GGAACTTTAG
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 3 0.03
27 99 0.95
28 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (26 bp):
AAAAGAATAGCCTTTGTGGCGTATTC
Found at i:24395166 original size:81 final size:81
Alignment explanation
Indices: 24395026--24395179 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 81
24395016 AACATGTCAA
* * * *
24395026 AAAAGAATAGCCTTTATGACGTATTGCAAAAGAATATCCTTTGTGATGTATTACAAAAGAATAGC
1 AAAAGAATAGCCTTTATGACGTATTACAAAAGAATAGCCTTTGTGATGAAGTACAAAAGAATAGC
24395091 CTTTGTGGCAAAGTTT
66 CTTTGTGGCAAAGTTT
* * * *
24395107 AAAATAATAGCCTTTGTGGCGTATTACAAAAGACTAGCCTTTGTGGA-GAAGT-CTAAAAGAATA
1 AAAAGAATAGCCTTTATGACGTATTACAAAAGAATAGCCTTTGT-GATGAAGTAC-AAAAGAATA
24395170 GCCTTTGTGG
64 GCCTTTGTGG
24395180 GGAACTTTAG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.02
81 60 0.95
82 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (81 bp):
AAAAGAATAGCCTTTATGACGTATTACAAAAGAATAGCCTTTGTGATGAAGTACAAAAGAATAGC
CTTTGTGGCAAAGTTT
Found at i:24395179 original size:54 final size:54
Alignment explanation
Indices: 24395053--24395179 Score: 184
Period size: 54 Copynumber: 2.4 Consensus size: 54
24395043 GACGTATTGC
* ** *
24395053 AAAAGAATATCCTTTGTGATGTATTACAAAAGAATAGCCTTTGTGGCAAAGTTT
1 AAAAGAATAGCCTTTGTGGCGTATTACAAAAGAATAGCCTTTGTGGCAAAGTCT
* *
24395107 AAAATAATAGCCTTTGTGGCGTATTACAAAAGACTAGCCTTTGTGG-AGAAGTCT
1 AAAAGAATAGCCTTTGTGGCGTATTACAAAAGAATAGCCTTTGTGGCA-AAGTCT
24395161 AAAAGAATAGCCTTTGTGG
1 AAAAGAATAGCCTTTGTGG
24395180 GGAACTTTAG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 1 0.02
54 64 0.98
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (54 bp):
AAAAGAATAGCCTTTGTGGCGTATTACAAAAGAATAGCCTTTGTGGCAAAGTCT
Found at i:24398473 original size:5 final size:5
Alignment explanation
Indices: 24398463--24398503 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
24398453 GATCAAAATC
24398463 TTTCT TTTCT TTTCT TTTCTT TTTCTT TTTCTT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTC-T TTTC-T TTTC-T TTTCT TTT
24398504 TATTTTCCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 18 0.51
6 17 0.49
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTCT
Found at i:24398488 original size:6 final size:6
Alignment explanation
Indices: 24398463--24398509 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
24398453 GATCAAAATC
*
24398463 TTTC-T TTTC-T TTTC-T TTTCTT TTTCTT TTTCTT TTTCTT TTTATT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
24398508 TT
1 TT
24398510 CCTCTCTTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
5 14 0.35
6 26 0.65
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTCTT
Found at i:24399294 original size:25 final size:25
Alignment explanation
Indices: 24399238--24399294 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
24399228 TCTCATGCTC
*** *
24399238 GTGATATGTGATGAATTGCTTATGT
1 GTGATATGTGATGAATTAAATATAT
* *
24399263 GTTATATGTGATGATTTAAATATAT
1 GTGATATGTGATGAATTAAATATAT
24399288 GTGATAT
1 GTGATAT
24399295 ATATGTATAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.46
Consensus pattern (25 bp):
GTGATATGTGATGAATTAAATATAT
Found at i:24399952 original size:29 final size:29
Alignment explanation
Indices: 24399919--24399977 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
24399909 TTTTATGGCT
24399919 ATGGACTATTT-TATTATTTTGGGACTTTC
1 ATGGACT-TTTATATTATTTTGGGACTTTC
*
24399948 ATGGACTTTTAAATTTTATTTTGGGACTTT
1 ATGGACTTTT--ATATTATTTTGGGACTTT
24399978 AATTTGTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 3 0.12
29 7 0.27
31 16 0.62
ACGTcount: A:0.22, C:0.08, G:0.17, T:0.53
Consensus pattern (29 bp):
ATGGACTTTTATATTATTTTGGGACTTTC
Found at i:24401237 original size:22 final size:21
Alignment explanation
Indices: 24401221--24401270 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
24401211 GTGGTTTAAT
*
24401221 GGTGGTGATATGTTGGTTGTTG
1 GGTGGTGATATGATGGTT-TTG
24401243 GGTGGTGATATGATGGTTTTTG
1 GGTGGTGATATGATGG-TTTTG
24401265 GGTGGT
1 GGTGGT
24401271 ATTTCGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.10, C:0.00, G:0.46, T:0.44
Consensus pattern (21 bp):
GGTGGTGATATGATGGTTTTG
Found at i:24404693 original size:31 final size:33
Alignment explanation
Indices: 24404649--24404716 Score: 106
Period size: 31 Copynumber: 2.1 Consensus size: 33
24404639 GTTAAAGTTG
24404649 AATTCAATGTATTAAAAATA-AGTAATATTAATT
1 AATTCAATGTATTAAAAATAGA-TAATATTAATT
24404682 AATT-AAT-TATTAAAAATAGATAATATTAATT
1 AATTCAATGTATTAAAAATAGATAATATTAATT
24404713 AATT
1 AATT
24404717 TTTAATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 26 0.76
32 4 0.12
33 4 0.12
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (33 bp):
AATTCAATGTATTAAAAATAGATAATATTAATT
Found at i:24404711 original size:27 final size:27
Alignment explanation
Indices: 24404679--24404731 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
24404669 AGTAATATTA
24404679 ATTAATTAATTATTAAAAATAGATAAT
1 ATTAATTAATTATTAAAAATAGATAAT
* *
24404706 ATTAATTAATTTTTAATAATAGATAA
1 ATTAATTAATTATTAAAAATAGATAA
24404732 AATCATATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (27 bp):
ATTAATTAATTATTAAAAATAGATAAT
Found at i:24406602 original size:41 final size:41
Alignment explanation
Indices: 24406552--24406629 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
24406542 AATAAAAAGA
24406552 ATACATAAAATTTATTCAATTGTTAGTTGAACCAATTTTTT
1 ATACATAAAATTTATTCAATTGTTAGTTGAACCAATTTTTT
* *
24406593 ATACTTAAAATTTATTTAATTGTTAGTTGAACCAATT
1 ATACATAAAATTTATTCAATTGTTAGTTGAACCAATT
24406630 CTTTGTTCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (41 bp):
ATACATAAAATTTATTCAATTGTTAGTTGAACCAATTTTTT
Found at i:24409668 original size:25 final size:25
Alignment explanation
Indices: 24409614--24409687 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 25
24409604 ATTATTCATA
* *
24409614 GTTGACTAATTGACAGCTTAGCACT
1 GTTGACTAATTGATAGCCTAGCACT
* * *
24409639 CTTGACTAATAGATAGCCTAGTACT
1 GTTGACTAATTGATAGCCTAGCACT
24409664 GTTGACTAATTGATAGCCTAGCAC
1 GTTGACTAATTGATAGCCTAGCAC
24409688 AATCTTGCTG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (25 bp):
GTTGACTAATTGATAGCCTAGCACT
Found at i:24420739 original size:15 final size:15
Alignment explanation
Indices: 24420715--24420752 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
24420705 TTAATTTAAT
*
24420715 TCAC-ATTCTCGTGC
1 TCACGATTCTCATGC
*
24420729 TCACGATTCTCATGT
1 TCACGATTCTCATGC
24420744 TCACGATTC
1 TCACGATTC
24420753 AATTCAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.18, C:0.32, G:0.13, T:0.37
Consensus pattern (15 bp):
TCACGATTCTCATGC
Found at i:24429348 original size:51 final size:51
Alignment explanation
Indices: 24429232--24429408 Score: 180
Period size: 51 Copynumber: 3.5 Consensus size: 51
24429222 TCCGATTAGG
* * * * * *
24429232 GTAGTACTATGTGCAGGTTACTACGTGTACCGGA-A-TGATAGGTCGCATGT
1 GTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAAT-GATCACATGT
* *
24429282 GTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-TTCGATCACGTGT
1 GTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAAT-GATCACATGT
* * * * *
24429333 GTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGT
1 GTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGATCACATGT
* *
24429384 ATAATACTATGTGCAGGCTACTATG
1 GTAGTACTATGTGCAGGCTACTATG
24429409 TGAACCGAAC
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 31 0.29
51 73 0.69
52 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
GTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGATCACATGT
Found at i:24429480 original size:45 final size:45
Alignment explanation
Indices: 24429411--24429497 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
24429401 CTACTATGTG
*
24429411 AACCGAACATCATTGAGTAGTAAGGTGGTTGCTATGTGCTGATTC
1 AACCGAACATCATTGAGTAATAAGGTGGTTGCTATGTGCTGATTC
* *
24429456 AACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGA
1 AACCGAACATCATTGAGTAATAAGGTGGTTGCTATGTGCTGA
24429498 ATCCACTGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (45 bp):
AACCGAACATCATTGAGTAATAAGGTGGTTGCTATGTGCTGATTC
Done.