Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 50 of 167
Found at i:15450437 original size:27 final size:27
Alignment explanation
Indices: 15450339--15450445 Score: 112
Period size: 27 Copynumber: 3.9 Consensus size: 27
15450329 CTCGATTTGT
* *
15450339 AAAATTACCA-AAATACCCTTGATTTAC
1 AAAATTA-CAGAAATACCATTGGTTTAC
* *
15450366 AAAATTACAGAAATA-CATTTGACTTTAA
1 AAAATTACAGAAATACCA-TTG-GTTTAC
15450394 AAAATTACAGAAATACCATTGGTTTAC
1 AAAATTACAGAAATACCATTGGTTTAC
*
15450421 AAAATTATC-GAAATACCCTTGGTTT
1 AAAATTA-CAGAAATACCATTGGTTT
15450446 GTAGATTTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
26 3 0.04
27 41 0.59
28 23 0.33
29 2 0.03
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACAGAAATACCATTGGTTTAC
Found at i:15450745 original size:41 final size:41
Alignment explanation
Indices: 15450700--15450818 Score: 166
Period size: 41 Copynumber: 2.9 Consensus size: 41
15450690 GAAGAAATTG
* * *
15450700 AGGATCGCATGGTTGCTTGACGACCGTAGATCCACCGATTA
1 AGGATTGCATGGTTGCTTGACGATCGTGGATCCACCGATTA
* *
15450741 AGGATTGCATGGTTGCTTAACGATTGTGGATCCACCGATTA
1 AGGATTGCATGGTTGCTTGACGATCGTGGATCCACCGATTA
* * *
15450782 AAGATTGCATGGTTGCTAGATGATCGTGGATCCACCG
1 AGGATTGCATGGTTGCTTGACGATCGTGGATCCACCG
15450819 GTGGCTTTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (41 bp):
AGGATTGCATGGTTGCTTGACGATCGTGGATCCACCGATTA
Found at i:15451324 original size:11 final size:11
Alignment explanation
Indices: 15451308--15451333 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15451298 ATTGCATGTA
15451308 TGATATTATTG
1 TGATATTATTG
15451319 TGATATTATTG
1 TGATATTATTG
15451330 TGAT
1 TGAT
15451334 GTGGGCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:15452549 original size:24 final size:24
Alignment explanation
Indices: 15452511--15453407 Score: 1692
Period size: 24 Copynumber: 37.4 Consensus size: 24
15452501 TTGGAGGCCT
* *
15452511 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTGATAACTGGGGCATA
*
15452536 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
* *
15452560 AGCCC-TTTAATAACTGGGGCGTA
1 AGCCCTTTTGATAACTGGGGCATA
15452583 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15452607 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
*
15452631 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15452654 AGCCCTTTTTGATAACTGGGGCATA
1 AGCCC-TTTTGATAACTGGGGCATA
15452679 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15452703 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15452727 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15452751 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15452775 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15452799 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15452823 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15452847 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15452871 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15452895 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15452919 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15452943 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15452967 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15452991 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453015 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453039 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453063 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453087 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453111 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453135 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453159 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453183 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453207 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453231 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453255 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453279 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453303 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453327 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453351 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
*
15453375 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
15453398 AGCCCTTTTG
1 AGCCCTTTTG
15453408 CACTTCCTCC
Statistics
Matches: 858, Mismatches: 10, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
23 65 0.08
24 767 0.89
25 26 0.03
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAACTGGGGCATA
Found at i:15453478 original size:9 final size:9
Alignment explanation
Indices: 15453464--15453520 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
15453454 ATCTCATGTG
15453464 CATATCATA
1 CATATCATA
*
15453473 CATATCATGTG
1 CATATCA--TA
15453484 CATATCATA
1 CATATCATA
* *
15453493 CATGTCATGTG
1 CATATCA--TA
15453504 CATATCATA
1 CATATCATA
15453513 CATATCAT
1 CATATCAT
15453521 GTTTCTCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:15453480 original size:20 final size:20
Alignment explanation
Indices: 15453452--15453522 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
15453442 GCATTTATGA
*
15453452 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
15453472 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
15453492 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
15453512 ACATATCATGT
1 ACATATCATGT
15453523 TTCTCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:15453487 original size:11 final size:11
Alignment explanation
Indices: 15453457--15453511 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
15453447 TATGAACATC
15453457 TCATGTGCATA
1 TCATGTGCATA
*
15453468 TCA--TACATA
1 TCATGTGCATA
15453477 TCATGTGCATA
1 TCATGTGCATA
* *
15453488 TCA--TACATG
1 TCATGTGCATA
15453497 TCATGTGCATA
1 TCATGTGCATA
15453508 TCAT
1 TCAT
15453512 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:15456744 original size:46 final size:47
Alignment explanation
Indices: 15456600--15456815 Score: 200
Period size: 46 Copynumber: 4.7 Consensus size: 47
15456590 TTTGTGTGCT
* * * *
15456600 AGTGTAAGACATGTCCGGGACATGCATC-GACTAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGA-GATGACAGCC
* * * *
15456646 AGTGTAAGACCATGTCTGAGACATGGCATCGGCAT-TGAGACGACA-CC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTACGAGATGACAGCC
15456693 TAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTA-AGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATG-ACAGCC
* * *
15456740 AGTGTAAGACATGTCTGGGACATGCATTGG-CTACGAGATG--TGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGACAGCC
15456784 AGTGTAAGACCATGTCTGGGA-ATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
15456816 ATTATACCCT
Statistics
Matches: 143, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
44 13 0.09
45 19 0.13
46 60 0.42
47 30 0.21
48 18 0.13
49 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGACAGCC
Found at i:15460107 original size:21 final size:21
Alignment explanation
Indices: 15460077--15460131 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
15460067 GTGGTCCAAT
15460077 GGACATGCCCGTGTGACCCTA
1 GGACATGCCCGTGTGACCCTA
* *
15460098 GGACACGCCCGTGTGACCCTG
1 GGACATGCCCGTGTGACCCTA
15460119 GGACATGCCCGTG
1 GGACATGCCCGTG
15460132 CTACAGGCCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (21 bp):
GGACATGCCCGTGTGACCCTA
Found at i:15461099 original size:31 final size:31
Alignment explanation
Indices: 15461057--15461120 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
15461047 CCTTTTCATA
* * *
15461057 TTTCATTTTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGACAAAGCCT
**
15461088 TTTCATATTTCATATTACTGGGACAAAGCCT
1 TTTCATATTTCATAACACTGGGACAAAGCCT
15461119 TT
1 TT
15461121 AACTGTAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGACAAAGCCT
Found at i:15461357 original size:25 final size:24
Alignment explanation
Indices: 15461315--15461530 Score: 242
Period size: 25 Copynumber: 9.0 Consensus size: 24
15461305 GCTTTATCAT
*
15461315 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
15461340 ATAACTAGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
15461364 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* * * *
15461387 ATAATTGGGGCATAAGCTCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTA
* * *
15461412 ATAACTAGGGCATAAGCTCTTCATA
1 ATAACTGGGGCATAAGCCCTT-TTA
*
15461437 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
15461462 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
15461485 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
15461508 ATAACTGGGGCATAAGGCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
15461531 GCATTTCCTC
Statistics
Matches: 166, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
23 62 0.37
24 31 0.19
25 73 0.44
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:15461395 original size:23 final size:23
Alignment explanation
Indices: 15461336--15461529 Score: 244
Period size: 23 Copynumber: 8.1 Consensus size: 23
15461326 CCTAGCCTCT
* *
15461336 TTTAATAACTAGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
15461359 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
15461383 TTTAATAATTGGGGCATAAGCTC
1 TTTAATAACTGGGGCATAAGCCC
* * *
15461406 TTCATCATAACTAGGGCATAAGCTC
1 TT--TAATAACTGGGGCATAAGCCC
15461431 TTCATAATAACTGGGGCATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
15461456 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
15461481 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
15461504 TTTAATAACTGGGGCATAAGGCC
1 TTTAATAACTGGGGCATAAGCCC
15461527 TTT
1 TTT
15461530 TGCATTTCCT
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
23 68 0.44
24 20 0.13
25 65 0.42
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:15461494 original size:98 final size:95
Alignment explanation
Indices: 15461338--15461523 Score: 282
Period size: 98 Copynumber: 1.9 Consensus size: 95
15461328 TAGCCTCTTT
* *
15461338 TAATAACTAGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTAATAATTGGGGCATAAG
1 TAATAACTAGGGCAAAAGCCCTTTTCATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAG
* *
15461403 CTCTTCATCATAACTAGGGCATAAGCTCTTCA
66 CCCTT--TAATAACTAGGGCATAAGCTCTTCA
* *
15461435 TAATAACTGGGGCATAAGCCCTTTATCATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAA
1 TAATAACTAGGGCAAAAGCCCTTT-TCATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAA
*
15461500 GCCCTTTAATAACTGGGGCATAAG
65 GCCCTTTAATAACTAGGGCATAAG
15461524 GCCTTTTGCA
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
96 16 0.20
97 22 0.27
98 43 0.53
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (95 bp):
TAATAACTAGGGCAAAAGCCCTTTTCATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAG
CCCTTTAATAACTAGGGCATAAGCTCTTCA
Found at i:15461604 original size:20 final size:20
Alignment explanation
Indices: 15461576--15461659 Score: 150
Period size: 20 Copynumber: 4.2 Consensus size: 20
15461566 GCATTTATGA
*
15461576 ACATCTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
15461596 ACATGTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
*
15461616 ACATATCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
15461636 ACATGTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
15461656 ACAT
1 ACAT
15461660 ATCCTGTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATGTCATGTGCATATCAT
Found at i:15461620 original size:9 final size:9
Alignment explanation
Indices: 15461588--15461662 Score: 51
Period size: 9 Copynumber: 7.7 Consensus size: 9
15461578 ATCTCATGTG
15461588 CATATCATA
1 CATATCATA
* *
15461597 CATGTCATGTG
1 CATATCA--TA
15461608 CATATCATA
1 CATATCATA
*
15461617 CATATCATGTG
1 CATATCA--TA
15461628 CATATCATA
1 CATATCATA
* *
15461637 CATGTCATGTG
1 CATATCA--TA
15461648 CATATCATA
1 CATATCATA
15461657 CATATC
1 CATATC
15461663 CTGTTTATCA
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 28 0.56
11 22 0.44
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:15461631 original size:11 final size:11
Alignment explanation
Indices: 15461581--15461655 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
15461571 TATGAACATC
15461581 TCATGTGCATA
1 TCATGTGCATA
* *
15461592 TCA--TACATG
1 TCATGTGCATA
15461601 TCATGTGCATA
1 TCATGTGCATA
*
15461612 TCA--TACATA
1 TCATGTGCATA
15461621 TCATGTGCATA
1 TCATGTGCATA
* *
15461632 TCA--TACATG
1 TCATGTGCATA
15461641 TCATGTGCATA
1 TCATGTGCATA
15461652 TCAT
1 TCAT
15461656 ACATATCCTG
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:15463008 original size:27 final size:27
Alignment explanation
Indices: 15462908--15462991 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
15462898 GGGCATATTC
* *
15462908 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
15462935 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
15462962 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
15462989 GTC
1 GTC
15462992 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:15463083 original size:27 final size:27
Alignment explanation
Indices: 15463053--15463137 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
15463043 GTAAATCTAC
15463053 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
15463080 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAAGGTATTTCTATAATTTTGT
* * *
15463106 AGAAAGTCAAGGGTATTTCTATAAATTTGT
1 --AAA-CCAAAGGTATTTCTATAATTTTGT
15463136 AA
1 AA
15463138 GTCAGGGGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
26 1 0.02
27 22 0.45
28 6 0.12
29 19 0.39
30 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:15463147 original size:27 final size:29
Alignment explanation
Indices: 15463088--15463150 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 29
15463078 GTAAACCAAT
*
15463088 GGTATTTCTATAATTTTTAGAAAGTCAAG
1 GGTATTTCTATAATATTTAGAAAGTCAAG
* *
15463117 GGTATTTCTATAA-ATTT-GTAAGTCAGG
1 GGTATTTCTATAATATTTAGAAAGTCAAG
15463144 GGTATTT
1 GGTATTT
15463151 TGGTAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 15 0.48
28 3 0.10
29 13 0.42
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (29 bp):
GGTATTTCTATAATATTTAGAAAGTCAAG
Found at i:15463173 original size:27 final size:26
Alignment explanation
Indices: 15463143--15463321 Score: 223
Period size: 27 Copynumber: 6.7 Consensus size: 26
15463133 TGTAAGTCAG
*
15463143 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACT-A
*
15463170 GGGTATTTTGGTAATTTCACAAACTA
1 GGGTATTTTGGTAATTTTACAAACTA
15463196 GTGGTATTTTGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTTTACAAACTA
* *
15463223 GGTGTATTTTGATAATTTTACAAATTGA
1 GG-GTATTTTGGTAATTTTACAAACT-A
* *
15463251 GGGTATTTTTGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CTA
* * *
15463278 GGGTATTTTAGCAATTTTACAGACTA
1 GGGTATTTTGGTAATTTTACAAACTA
*
15463304 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
15463322 GTAAATCGAG
Statistics
Matches: 134, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
26 22 0.16
27 109 0.81
28 3 0.02
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACTA
Found at i:15463240 original size:81 final size:80
Alignment explanation
Indices: 15463143--15463335 Score: 255
Period size: 81 Copynumber: 2.4 Consensus size: 80
15463133 TGTAAGTCAG
* * *
15463143 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAA-CTAGTGGTATTTTG
1 GGGTATTTTGATAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAAG-GGTATTTTA
*
15463207 GTAATTTTACAAACTA
65 GCAATTTTACAAACTA
* *
15463223 GGTGTATTTTGATAATTTTACAAATTGAGGGTATTTTTGTAATTTTACAAACCAAGGGTATTTTA
1 GG-GTATTTTGATAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAAGGGTATTTTA
*
15463288 GCAATTTTACAGACTA
65 GCAATTTTACAAACTA
** *
15463304 GGGTATTTT-AGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGA-TAATTTTACAAATTGAGGGTA
15463336 AAACAGTAAT
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
79 1 0.01
80 27 0.27
81 69 0.69
82 3 0.03
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (80 bp):
GGGTATTTTGATAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAAGGGTATTTTAG
CAATTTTACAAACTA
Found at i:15463343 original size:27 final size:27
Alignment explanation
Indices: 15463313--15463470 Score: 208
Period size: 27 Copynumber: 5.9 Consensus size: 27
15463303 AGGGTATTTT
*
15463313 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
15463340 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
15463367 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
15463394 GGTACTTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
15463421 GGTAATTCTGTAAGTTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
15463448 GGTAATTATGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
15463471 CTTTGGTAAT
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:15463493 original size:81 final size:79
Alignment explanation
Indices: 15463303--15463497 Score: 192
Period size: 81 Copynumber: 2.4 Consensus size: 79
15463293 TTTACAGACT
* *
15463303 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
1 AGGGTAATTTGGTAA-TTT-TAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
*
15463368 GTAATTCTATAAATCA
64 GTAATTATATAAATCA
*** * * * ** *
15463384 AGGGTAAAACGGTACTTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTTGAGGGTAAAACG
1 AGGGTAATTTGGTAATT-T-TAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
* *
15463449 GTAATTATGTAAATCG
64 GTAATTATATAAATCA
* *
15463465 GGGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 AGGGTAATTTGGTAATTTTA-AA-TCGAGGGTA
15463498 TTTCAATAAT
Statistics
Matches: 91, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.02
80 5 0.05
81 84 0.92
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (79 bp):
AGGGTAATTTGGTAATTTTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGT
AATTATATAAATCA
Found at i:15463495 original size:54 final size:54
Alignment explanation
Indices: 15463327--15463497 Score: 180
Period size: 54 Copynumber: 3.2 Consensus size: 54
15463317 ATTTTGTAAA
* * * * * *
15463327 TCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAA
1 TCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
* * * **
15463381 TCAAGGGTAAAACGGTACTTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAG
1 TCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
* * **** *
15463435 TTGAGGGTAAAACGGTAATTATGTAAATCGGGGGTACTTTGGTAATTTTACAAG
1 TCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
15463489 TCGAGGGTA
1 TCGAGGGTA
15463498 TTTCAATAAT
Statistics
Matches: 97, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 97 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (54 bp):
TCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
Found at i:15466879 original size:42 final size:42
Alignment explanation
Indices: 15466777--15466930 Score: 141
Period size: 42 Copynumber: 3.6 Consensus size: 42
15466767 TATGTGATTT
* * * * * *
15466777 CGTGTAAGACCACATCTGGAACGTTGGCATCGATTTGTGATTTA
1 CGTGTAAGACCACGTCTGGGAC-ATGGCATCG-TATATGAATTA
* *
15466821 CGTGTTAAGACCATGTCTGGGACATCGGCATCGTATATGAGTT-
1 CGTG-TAAGACCACGTCTGGGACAT-GGCATCGTATATGAATTA
* *
15466864 CGTGTAAGACCATGTCTGGGACAGTAGCATCG-ATATGTAATTA
1 CGTGTAAGACCACGTCTGGGACA-TGGCATCGTATATG-AATTA
*
15466907 CATGTAAGACCACGTCTGGGACAT
1 CGTGTAAGACCACGTCTGGGACAT
15466931 TGGTGTTGTA
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
41 5 0.05
42 29 0.31
43 26 0.28
44 12 0.13
45 22 0.23
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATGGCATCGTATATGAATTA
Found at i:15466927 original size:43 final size:43
Alignment explanation
Indices: 15466764--15466929 Score: 160
Period size: 43 Copynumber: 3.8 Consensus size: 43
15466754 CATAGGATTC
* * * *
15466764 CGATATGTGATTTCGTGTAAGACCACATCTGGAAC-GTTGGCAT
1 CGATATGTAATTACGTGTAAGACCACGTCTGGGACAG-TGGCAT
* * *
15466807 CGATTTGTGATTTACGTGTTAAGACCATGTCTGGGACA-TCGGCAT
1 CGATATGT-AATTACGTG-TAAGACCACGTCTGGGACAGT-GGCAT
* * *
15466852 CGTATATG-AGTT-CGTGTAAGACCATGTCTGGGACAGTAGCAT
1 CG-ATATGTAATTACGTGTAAGACCACGTCTGGGACAGTGGCAT
*
15466894 CGATATGTAATTACATGTAAGACCACGTCTGGGACA
1 CGATATGTAATTACGTGTAAGACCACGTCTGGGACA
15466930 TTGGTGTTGT
Statistics
Matches: 102, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
41 5 0.05
42 28 0.27
43 33 0.32
44 10 0.10
45 22 0.22
46 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
CGATATGTAATTACGTGTAAGACCACGTCTGGGACAGTGGCAT
Found at i:15468942 original size:27 final size:26
Alignment explanation
Indices: 15468894--15468945 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
15468884 GTGAGGCTGC
*
15468894 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
15468920 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
15468946 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:15478143 original size:15 final size:15
Alignment explanation
Indices: 15478125--15478191 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
15478115 CTTGGGTTTC
*
15478125 TTTATCCTGGATCTT-
1 TTTATTCTGGAT-TTA
15478140 TTTATTCTGGATTTA
1 TTTATTCTGGATTTA
*
15478155 TTTATTCTGGGTTT-
1 TTTATTCTGGATTTA
*
15478169 TTCTA-TCTTGGATTTC
1 TT-TATTC-TGGATTTA
15478185 TTTATTC
1 TTTATTC
15478192 GGTTTTCTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
14 6 0.14
15 34 0.77
16 4 0.09
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTATTCTGGATTTA
Found at i:15478181 original size:30 final size:30
Alignment explanation
Indices: 15478112--15478191 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
15478102 CATAGTATCG
* *
15478112 TATCTTGGGTTTCTTTATCCTGGATCTTTT
1 TATCTTGGATTTCTTTATTCTGGATCTTTT
* *
15478142 TAT-TCTGGATTTATTTATTCTGGGT-TTTT
1 TATCT-TGGATTTCTTTATTCTGGATCTTTT
15478171 CTATCTTGGATTTCTTTATTC
1 -TATCTTGGATTTCTTTATTC
15478192 GGTTTTCTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
29 5 0.12
30 36 0.86
31 1 0.02
ACGTcount: A:0.12, C:0.14, G:0.15, T:0.59
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTTTT
Found at i:15480651 original size:46 final size:46
Alignment explanation
Indices: 15480598--15480773 Score: 184
Period size: 46 Copynumber: 3.8 Consensus size: 46
15480588 TATTTGGGCA
15480598 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
15480644 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
*
15480689 CATCC-AAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATG
1 --TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
15480737 -CCTGAGCTCGTTGAGTTGAGTCCGATTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15480774 GCGGGTTACG
Statistics
Matches: 107, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 26 0.24
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:15480753 original size:93 final size:93
Alignment explanation
Indices: 15480594--15480766 Score: 287
Period size: 93 Copynumber: 1.9 Consensus size: 93
15480584 GGGATATTTG
15480594 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAG
15480659 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
15480687 GGCATCC-AAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATG-CCTGAGCTCGTTG
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCC-GAACTCGTTG
*
15480750 AGTTGAGTCCGATTTCG
64 AGTTGAGTCCGAGTTCG
15480767 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:15488488 original size:48 final size:48
Alignment explanation
Indices: 15488432--15488704 Score: 519
Period size: 48 Copynumber: 5.7 Consensus size: 48
15488422 ACGACATTCG
15488432 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
15488480 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
15488528 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
15488576 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
15488624 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
* * *
15488672 CATTAGCCATTCGGCTTCACCACACATATATAT
1 CATTAGCCATTCGGCTTTACCACATATACATAT
15488705 ATTTATCTTG
Statistics
Matches: 222, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 222 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.37
Consensus pattern (48 bp):
CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
Found at i:15490679 original size:25 final size:25
Alignment explanation
Indices: 15490651--15490743 Score: 125
Period size: 25 Copynumber: 3.7 Consensus size: 25
15490641 TCGCACTCTC
*
15490651 AGTGCCTCTAATCATTTGCACACAT
1 AGTGCCCCTAATCATTTGCACACAT
* *
15490676 AGTGCCCCTATTCATTTGCACTC-T
1 AGTGCCCCTAATCATTTGCACACAT
*
15490700 CAGTGCCTCTAATCATTTGCACACAT
1 -AGTGCCCCTAATCATTTGCACACAT
*
15490726 AGTGCCCCTATTCATTTG
1 AGTGCCCCTAATCATTTG
15490744 TTGTTACACA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
24 1 0.02
25 56 0.97
26 1 0.02
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (25 bp):
AGTGCCCCTAATCATTTGCACACAT
Found at i:15490705 original size:50 final size:50
Alignment explanation
Indices: 15490643--15490743 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
15490633 TGAAGAACTC
15490643 GCACTCTCAGTGCCTCTAATCATTTGCACACATAGTGCCCCTATTCATTT
1 GCACTCTCAGTGCCTCTAATCATTTGCACACATAGTGCCCCTATTCATTT
15490693 GCACTCTCAGTGCCTCTAATCATTTGCACACATAGTGCCCCTATTCATTT
1 GCACTCTCAGTGCCTCTAATCATTTGCACACATAGTGCCCCTATTCATTT
15490743 G
1 G
15490744 TTGTTACACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.34
Consensus pattern (50 bp):
GCACTCTCAGTGCCTCTAATCATTTGCACACATAGTGCCCCTATTCATTT
Found at i:15490963 original size:40 final size:40
Alignment explanation
Indices: 15490919--15491220 Score: 415
Period size: 40 Copynumber: 7.5 Consensus size: 40
15490909 CCAGCATGAT
* * * * * *
15490919 TGCTCTTCAGGACCTAGCCTGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
15490959 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
15490999 TGCTCTTCAGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
15491039 TGCTCTTCGGGACTTAACCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
15491079 TTCTCTTCGGGACTTAGCCCGGTTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
15491119 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *** * *
15491159 TGCTATTCAACACTTAACCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
15491199 TGCTCTTCGGGACTTAGCCCGG
1 TGCTCTTCGGGACTTAGCCCGG
15491221 CTATACAACT
Statistics
Matches: 229, Mismatches: 33, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 229 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:15493275 original size:48 final size:48
Alignment explanation
Indices: 15493222--15494291 Score: 2016
Period size: 48 Copynumber: 22.3 Consensus size: 48
15493212 TGTTACAACA
*
15493222 TTCACATTATCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493270 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493318 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493366 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493414 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493462 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493510 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493558 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493606 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493654 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493702 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493750 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493798 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493846 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493894 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493942 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15493990 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15494038 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATC-TAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACA-CATAT
* * *
15494086 TTCACATTAGCCATTCGGCTTTACCACATACACGTATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
* * *
15494134 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
* *
15494182 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
* * *
15494230 TTCACATTCGTCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
15494278 TTCACATTAGCCAT
1 TTCACATTAGCCAT
15494292 ATACATATCA
Statistics
Matches: 1004, Mismatches: 16, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
48 1003 1.00
49 1 0.00
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
Found at i:15494293 original size:81 final size:81
Alignment explanation
Indices: 15494208--15494372 Score: 260
Period size: 81 Copynumber: 2.0 Consensus size: 81
15494198 GGCTTTACCA
* * * * *
15494208 CATATACATATCTCATA-CATATTTCACATTCGTCATTCGGCTTTACCACATATACATATCACAC
1 CATATACATATCACACATC-TATTTCACATTAGCCATTCGGCTTTACCACATACACATATCACAC
15494272 ATATATTTCACATTAGC
65 ATATATTTCACATTAGC
*
15494289 CATATACATATCACACATCTATTTCACATTAGCCATTCGGCTTTACCACATACACGTATCACACA
1 CATATACATATCACACATCTATTTCACATTAGCCATTCGGCTTTACCACATACACATATCACACA
15494354 TATATTTCACATTAGC
66 TATATTTCACATTAGC
15494370 CAT
1 CAT
15494373 TCGGCTTCAC
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
81 76 0.99
82 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.34
Consensus pattern (81 bp):
CATATACATATCACACATCTATTTCACATTAGCCATTCGGCTTTACCACATACACATATCACACA
TATATTTCACATTAGC
Found at i:15494298 original size:33 final size:33
Alignment explanation
Indices: 15494256--15494324 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
15494246 GGCTTTACCA
15494256 CATATACATATCACACATATATTTCACATTAGC
1 CATATACATATCACACATATATTTCACATTAGC
*
15494289 CATATACATATCACACATCTATTTCACATTAGC
1 CATATACATATCACACATATATTTCACATTAGC
15494322 CAT
1 CAT
15494325 TCGGCTTTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (33 bp):
CATATACATATCACACATATATTTCACATTAGC
Found at i:15494315 original size:129 final size:129
Alignment explanation
Indices: 15494160--15494395 Score: 355
Period size: 129 Copynumber: 1.8 Consensus size: 129
15494150 GGCTTTACCA
* * * * *
15494160 CATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATACACATATCACACA
* * * *
15494225 CATATTTCACATTCGTCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGC
66 CATATTTCACATTAGCCATTCGGCTTCACCACACATACATATCACACATATATTTCACATTAGC
* *
15494289 CATATACATATCACACATCTATTTCACATTAGCCATTCGGCTTTACCACATACACGTATCACACA
1 CATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATACACATATCACACA
* *
15494354 TATATTTCACATTAGCCATTCGGCTTCACCACACATATATAT
66 CATATTTCACATTAGCCATTCGGCTTCACCACACATACATAT
15494396 ATTTATCTTG
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
129 94 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (129 bp):
CATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATACACATATCACACA
CATATTTCACATTAGCCATTCGGCTTCACCACACATACATATCACACATATATTTCACATTAGC
Found at i:15496408 original size:28 final size:29
Alignment explanation
Indices: 15496344--15496414 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
15496334 AATGTGACTA
* * *
15496344 GGCCTAACGGGCCATATAAATGTGTTTTG
1 GGCCTAATGGGCCATATAAATATGTATTG
*
15496373 GGCCTAATGGGCCATATGAATATG-ATTG
1 GGCCTAATGGGCCATATAAATATGTATTG
*
15496401 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
15496415 GATACAAGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATATGTATTG
Found at i:15499081 original size:42 final size:43
Alignment explanation
Indices: 15498978--15499090 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 43
15498968 CAATGCTATA
* * *
15498978 CCCAGATATGGTCTTACATGTAATCTCATATCGATGGCAATAG
1 CCCAGATATGGTCTTACACGTAATCTCATATCAATGACAATAG
* *
15499021 CCCAGCTATGGTCTTACACG-AAGTCTCATATCAATGAC-ATAT
1 CCCAGATATGGTCTTACACGTAA-TCTCATATCAATGACAATAG
*
15499063 CCCAAATATGGTCTTACACGTAATCTCA
1 CCCAGATATGGTCTTACACGTAATCTCA
15499091 GTAACCCTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
42 28 0.46
43 33 0.54
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
CCCAGATATGGTCTTACACGTAATCTCATATCAATGACAATAG
Found at i:15502276 original size:31 final size:31
Alignment explanation
Indices: 15502240--15502301 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
15502230 GTCCTTAGCA
15502240 TTTTTTCTAATTTTCCATAGATGAATCATCC
1 TTTTTTCTAATTTTCCATAGATGAATCATCC
*
15502271 TTTTTTCTAATTTTCCATAGGTGAATCATCC
1 TTTTTTCTAATTTTCCATAGATGAATCATCC
15502302 AAAAATATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.48
Consensus pattern (31 bp):
TTTTTTCTAATTTTCCATAGATGAATCATCC
Found at i:15505774 original size:9 final size:9
Alignment explanation
Indices: 15505757--15505817 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 9
15505747 TTTTTAGTTT
*
15505757 TATTTTATA
1 TATTATATA
15505766 TATTATATAA
1 TATTATAT-A
*
15505776 TTATTTTATA
1 -TATTATATA
15505786 TATTACTCATA
1 TATTA-T-ATA
15505797 TTATTTATATA
1 -TA-TTATATA
15505808 TATTATATA
1 TATTATATA
15505817 T
1 T
15505818 TATTTTCACA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
9 19 0.44
10 5 0.12
11 13 0.30
12 3 0.07
13 3 0.07
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (9 bp):
TATTATATA
Found at i:15505781 original size:20 final size:19
Alignment explanation
Indices: 15505756--15505871 Score: 128
Period size: 20 Copynumber: 5.8 Consensus size: 19
15505746 ATTTTTAGTT
15505756 TTATTTTATATATTATATAA
1 TTATTTTATATATTATAT-A
15505776 TTATTTTATATATTACTCATA
1 TTATTTTATATATTA-T-ATA
15505797 TTATTTATATATATTATATA
1 TTATTT-TATATATTATATA
* *
15505817 TTATTTTCACATA-TATACTT
1 TTATTTT-ATATATTATA-TA
*
15505837 TTATATTATATATTATAT-
1 TTATTTTATATATTATATA
15505855 TTATTTTATATTATTAT
1 TTATTTTATA-TATTAT
15505872 GTCATTTTAT
Statistics
Matches: 84, Mismatches: 5, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
18 9 0.11
19 16 0.19
20 39 0.46
21 9 0.11
22 11 0.13
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATTTTATATATTATATA
Found at i:15505878 original size:18 final size:17
Alignment explanation
Indices: 15505845--15505888 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
15505835 TTTTATATTA
*
15505845 TATATTA-TATTTATTT
1 TATATTATTATTCATTT
15505861 TATATTATTATGTCATTT
1 TATATTATTAT-TCATTT
*
15505879 TATACTATTA
1 TATATTATTA
15505889 AATATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.29
17 3 0.12
18 14 0.58
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (17 bp):
TATATTATTATTCATTT
Found at i:15506232 original size:21 final size:21
Alignment explanation
Indices: 15506172--15506233 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
15506162 CATTATATTT
*
15506172 TATATTTTTATATAATTATTAA
1 TATATTTTTATAT-ATTATAAA
* *
15506194 TATAATTATTAT-TCTTATAAA
1 TAT-ATTTTTATATATTATAAA
15506215 TATATTTTTATATATTATA
1 TATATTTTTATATATTATA
15506234 TCATTAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 7 0.21
21 15 0.45
22 4 0.12
23 7 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATTTTTATATATTATAAA
Found at i:15518194 original size:87 final size:87
Alignment explanation
Indices: 15518091--15518285 Score: 381
Period size: 87 Copynumber: 2.2 Consensus size: 87
15518081 AAAGAGATCC
15518091 AAGATGATTTGGCATCCTTGTGCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCAC
1 AAGATGATTTGGCATCCTTGTGCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCAC
15518156 GTGTTTACGATGAAGCAAATCT
66 GTGTTTACGATGAAGCAAATCT
15518178 AAGATGATTTGGCATCCTTGTGCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCAC
1 AAGATGATTTGGCATCCTTGTGCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCAC
15518243 GTGTTTACGATGAAGCAAATCT
66 GTGTTTACGATGAAGCAAATCT
*
15518265 AAGATGATTTGGCATCTTTGT
1 AAGATGATTTGGCATCCTTGT
15518286 ATTGTTAGAG
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 107 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (87 bp):
AAGATGATTTGGCATCCTTGTGCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCAC
GTGTTTACGATGAAGCAAATCT
Found at i:15518304 original size:87 final size:87
Alignment explanation
Indices: 15518091--15518307 Score: 328
Period size: 87 Copynumber: 2.5 Consensus size: 87
15518081 AAAGAGATCC
* * *
15518091 AAGATGATTTGGCATCCTTGTGCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCAC
1 AAGATGATTTGGCATCCTTGTGATTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCAC
15518156 GTGTTTACGATGAAGCAAATCT
66 GTGTTTACGATGAAGCAAATCT
* * *
15518178 AAGATGATTTGGCATCCTTGTGCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCAC
1 AAGATGATTTGGCATCCTTGTGATTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCAC
15518243 GTGTTTACGATGAAGCAAATCT
66 GTGTTTACGATGAAGCAAATCT
* ***
15518265 AAGATGATTTGGCATCTTTGT-ATTGTTAGAGAACAAATCGAAG
1 AAGATGATTTGGCATCCTTGTGATTACAAG-GAACAAATCGAAG
15518308 TCTAGCATCT
Statistics
Matches: 122, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
86 4 0.03
87 118 0.97
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (87 bp):
AAGATGATTTGGCATCCTTGTGATTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCAC
GTGTTTACGATGAAGCAAATCT
Found at i:15518491 original size:87 final size:87
Alignment explanation
Indices: 15518383--15518573 Score: 382
Period size: 87 Copynumber: 2.2 Consensus size: 87
15518373 AAGGAGATCC
15518383 AAGATGATTTGGCATCTTTGTGCTTACAAGGAACGAATCGACGAGATAGCTGATTTGGCTTTCAC
1 AAGATGATTTGGCATCTTTGTGCTTACAAGGAACGAATCGACGAGATAGCTGATTTGGCTTTCAC
15518448 GTGTTTACGATGAAGCAAATCT
66 GTGTTTACGATGAAGCAAATCT
15518470 AAGATGATTTGGCATCTTTGTGCTTACAAGGAACGAATCGACGAGATAGCTGATTTGGCTTTCAC
1 AAGATGATTTGGCATCTTTGTGCTTACAAGGAACGAATCGACGAGATAGCTGATTTGGCTTTCAC
15518535 GTGTTTACGATGAAGCAAATCT
66 GTGTTTACGATGAAGCAAATCT
15518557 AAGATGATTTGGCATCT
1 AAGATGATTTGGCATCT
15518574 CTGTATTGTT
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 104 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (87 bp):
AAGATGATTTGGCATCTTTGTGCTTACAAGGAACGAATCGACGAGATAGCTGATTTGGCTTTCAC
GTGTTTACGATGAAGCAAATCT
Found at i:15518572 original size:292 final size:291
Alignment explanation
Indices: 15518048--15518779 Score: 1171
Period size: 292 Copynumber: 2.5 Consensus size: 291
15518038 TAGGTCGCAG
* * * * *
15518048 CATAGCAGATTTCACGTTCAGATGTTTATACTGAAAGAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATATTTAT-CTGAAGGAGATCCAAGATGATTTGGCATCTTTGTG
*
15518113 CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
65 CTTACAAGGAACGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
* *
15518178 AAGATGATTTGGCATCCTTGTGCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCAC
130 AAGATGATTTGGCATCTTTGTGCTTACAAGGAACGAATCGAAGACATAGCTGATTTGGCTTTCAC
*
15518243 GTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGTTAGAGAACAAATCGAAG
195 GTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAG
*
15518308 TCTAGCATCTCCACTTCGACGGGGAGCAAATA
260 TCTAGCAGCTCCACTTCGACGGGGAGCAAATA
15518340 CATAGCAGATCTCACCTTCAGATATTTATTCTGAAGGAGATCCAAGATGATTTGGCATCTTTGTG
1 CATAGCAGATCTCACCTTCAGATATTTA-TCTGAAGGAGATCCAAGATGATTTGGCATCTTTGTG
* *
15518405 CTTACAAGGAACGAATCGACGAGATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
65 CTTACAAGGAACGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
* *
15518470 AAGATGATTTGGCATCTTTGTGCTTACAAGGAACGAATCGACGAGATAGCTGATTTGGCTTTCAC
130 AAGATGATTTGGCATCTTTGTGCTTACAAGGAACGAATCGAAGACATAGCTGATTTGGCTTTCAC
**
15518535 GTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGATTACAAATCGAAG
195 GTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAG
* **
15518600 TCTGGCAGCTCCACTTCGACGGGGAGCTGATA
260 TCTAGCAGCTCCACTTCGACGGGGAGCAAATA
*
15518632 CATAGCAGATCTCACCTTCAGATAATTTCA-CTGAAGCAAGATCCAAGATGATTTGGCAT-TCTT
1 CATAGCAGATCTCACCTTCAGAT-ATTT-ATCTGAAG-GAGATCCAAGATGATTTGGCATCT-TT
** * * *
15518695 GTGCTTACAAGGAAAAAATTGAAGACATAGCTGATTTGGCTTTCACGTGCTTACAATGAAGCAAA
62 GTGCTTACAAGGAACGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAA
15518760 TCTAAGATGATTTGGCATCT
127 TCTAAGATGATTTGGCATCT
15518780 CTGTATTGTC
Statistics
Matches: 408, Mismatches: 27, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
292 301 0.74
293 106 0.26
294 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (291 bp):
CATAGCAGATCTCACCTTCAGATATTTATCTGAAGGAGATCCAAGATGATTTGGCATCTTTGTGC
TTACAAGGAACGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTA
AGATGATTTGGCATCTTTGTGCTTACAAGGAACGAATCGAAGACATAGCTGATTTGGCTTTCACG
TGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGT
CTAGCAGCTCCACTTCGACGGGGAGCAAATA
Found at i:15520477 original size:7 final size:6
Alignment explanation
Indices: 15520451--15520574 Score: 51
Period size: 7 Copynumber: 19.3 Consensus size: 6
15520441 TGTTTTTTGC
* * *
15520451 TTTATA TTTATT TTTATA TTGTATA TTATATA ATTAT- TGTATA TATTACTCA
1 TTTATA TTTATA TTTATA TT-TATA TT-TATA TTTATA TTTATA T-TTA-T-A
* *
15520503 TATTAT- TTATATA TATTATA TATTAT- TTTCACA TATATA CTTT-TA
1 T-TTATA TT-TATA T-TTATA T-TTATA TTT-ATA TTTATA -TTTATA
15520548 TATTATA TATTATA TTTAT- TTTATA TT
1 T-TTATA T-TTATA TTTATA TTTATA TT
15520575 ATTATGTCAT
Statistics
Matches: 93, Mismatches: 11, Indels: 28
0.70 0.08 0.21
Matches are distributed among these distances:
5 12 0.13
6 34 0.37
7 38 0.41
8 3 0.03
9 6 0.06
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (6 bp):
TTTATA
Found at i:15520493 original size:11 final size:12
Alignment explanation
Indices: 15520452--15520579 Score: 55
Period size: 12 Copynumber: 11.1 Consensus size: 12
15520442 GTTTTTTGCT
* *
15520452 TTATATTTATTT
1 TTATATATATTA
*
15520464 TTATAT-TGTATA
1 TTATATATAT-TA
15520476 TTATATA-ATTA
1 TTATATATATTA
*
15520487 TTGTATATATTA
1 TTATATATATTA
*
15520499 CTCATAT-TA-T-
1 -TTATATATATTA
15520509 TTATATATATTA
1 TTATATATATTA
15520521 -TATAT-TATT-
1 TTATATATATTA
15520530 TTCACATATATACTT-
1 TT---ATATATA-TTA
15520545 TTATAT-TATATA
1 TTATATATAT-TA
*
15520557 TTATATTTATT-
1 TTATATATATTA
15520568 TTATAT-TATTA
1 TTATATATATTA
15520579 T
1 T
15520580 GTCATTTTAC
Statistics
Matches: 92, Mismatches: 7, Indels: 35
0.69 0.05 0.26
Matches are distributed among these distances:
9 5 0.05
10 12 0.13
11 27 0.29
12 31 0.34
13 11 0.12
14 2 0.02
15 4 0.04
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (12 bp):
TTATATATATTA
Found at i:15520495 original size:20 final size:19
Alignment explanation
Indices: 15520472--15520579 Score: 78
Period size: 20 Copynumber: 5.4 Consensus size: 19
15520462 TTTTATATTG
*
15520472 TATATTATATAATTATTGTA
1 TATATTATAT-ATTATTATA
15520492 TATATTACTCATATTATTTATA
1 TATATTA-T-ATATTA-TTATA
*
15520514 TATATTATATATTATTTTCA
1 TATATTATATATTATTAT-A
* *
15520534 CATA-TATACTTTTA-TATTA
1 TATATTATA-TATTATTA-TA
*
15520553 TATATTATAT-TTATTTTA
1 TATATTATATATTATTATA
15520571 TATTATTAT
1 TA-TATTAT
15520580 GTCATTTTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 19
0.73 0.07 0.19
Matches are distributed among these distances:
18 7 0.10
19 20 0.28
20 26 0.36
21 6 0.08
22 13 0.18
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (19 bp):
TATATTATATATTATTATA
Found at i:15520538 original size:22 final size:22
Alignment explanation
Indices: 15520491--15520540 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
15520481 TAATTATTGT
*
15520491 ATATATTACTCATATTATTTAT
1 ATATATTACTCATATTATTTAC
15520513 ATATATTA-T-ATATTATTTTCAC
1 ATATATTACTCATATTA-TTT-AC
15520535 ATATAT
1 ATATAT
15520541 ACTTTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 6 0.24
21 4 0.16
22 15 0.60
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATATTACTCATATTATTTAC
Found at i:15520588 original size:23 final size:23
Alignment explanation
Indices: 15520452--15520579 Score: 57
Period size: 25 Copynumber: 5.2 Consensus size: 23
15520442 GTTTTTTGCT
*
15520452 TTATATTTATTTTTATATTGTATA
1 TTATATTTA-TTTTATATTATATA
15520476 TTATATAATTATTGTATATATTACTCATA
1 TTATAT--TTATT-T-TATATTA-T-ATA
*
15520505 -T-TATTTA-TATATATTATATA
1 TTATATTTATTTTATATTATATA
* * *
15520525 TTAT-TTTCACATATATACTTTTATA
1 TTATATTT-A-TTTTATA-TTATATA
*
15520550 TTATATATTATATTTATTTTATATTA
1 TTATAT-TTAT-TTTATATTATA-TA
15520576 TTAT
1 TTAT
15520580 GTCATTTTAC
Statistics
Matches: 81, Mismatches: 7, Indels: 30
0.69 0.06 0.25
Matches are distributed among these distances:
20 3 0.04
21 5 0.06
22 9 0.11
24 13 0.16
25 19 0.23
26 16 0.20
27 11 0.14
28 2 0.02
29 3 0.04
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATATTTATTTTATATTATATA
Found at i:15520942 original size:21 final size:21
Alignment explanation
Indices: 15520882--15520943 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
15520872 CATTATATTT
*
15520882 TATATTTTTATATAATTATTAA
1 TATATTTTTATAT-ATTATAAA
* *
15520904 TATAATTATTAT-TCTTATAAA
1 TAT-ATTTTTATATATTATAAA
15520925 TATATTTTTATATATTATA
1 TATATTTTTATATATTATA
15520944 TCATTGAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 7 0.21
21 15 0.45
22 4 0.12
23 7 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATTTTTATATATTATAAA
Found at i:15521096 original size:16 final size:18
Alignment explanation
Indices: 15521063--15521101 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
15521053 TTTAGAATTA
15521063 ATGTATTATTACTATGTT
1 ATGTATTATTACTATGTT
15521081 ATGTATT-TTA-TATGTT
1 ATGTATTATTACTATGTT
15521097 ATGTA
1 ATGTA
15521102 ATATCTTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.52
17 3 0.14
18 7 0.33
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.56
Consensus pattern (18 bp):
ATGTATTATTACTATGTT
Found at i:15535262 original size:30 final size:30
Alignment explanation
Indices: 15535228--15535287 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
15535218 ATTTAATACG
15535228 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
15535258 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
15535288 GGCTCGGGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:15541746 original size:54 final size:54
Alignment explanation
Indices: 15541678--15541785 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 54
15541668 TTAACCAGTC
*
15541678 CATTCCCAGAATTATATC-AAATTCGTCGACAGGAAAAAGCATCAGATCAGCAGG
1 CATTCCCAGAATTATATCAAAATT-GTCGAAAGGAAAAAGCATCAGATCAGCAGG
* *
15541732 CATTCCCAGGATTATATCAAAATTGTCGAAAGGAAAAAGCATCAGATTAGCAGG
1 CATTCCCAGAATTATATCAAAATTGTCGAAAGGAAAAAGCATCAGATCAGCAGG
15541786 AAAACAAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
54 45 0.90
55 5 0.10
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (54 bp):
CATTCCCAGAATTATATCAAAATTGTCGAAAGGAAAAAGCATCAGATCAGCAGG
Found at i:15549032 original size:50 final size:47
Alignment explanation
Indices: 15548919--15549146 Score: 139
Period size: 47 Copynumber: 4.8 Consensus size: 47
15548909 ATTGAAACGA
15548919 GAGCTAGTGTAAGACATGTCTAGGACAT-GCATCGGCTACAAGATGT
1 GAGCTAGTGTAAGACATGTCTAGGACATGGCATCGGCTACAAGATGT
* * *
15548965 G-TC-AGTGTAAGACCATGTCTAGGACTTGGCATCGGC-ACGAATATGT
1 GAGCTAGTGTAAGA-CATGTCTAGGACATGGCATCGGCTAC-AAGATGT
* * * *
15549011 GAAAGCTAGTGTAAGATCATGTTTGGGACATGGCGTCGGCCT-CGATGATGAT
1 G--AGCTAGTGTAAGA-CATGTCTAGGACATGGCATCGG-CTAC-AAGATG-T
* * * * ** **
15549063 -AG-TCAATGTAAGACCATGTTTGGGACATGGCATCGACT-TGAGAAAT
1 GAGCT-AGTGTAAGA-CATGTCTAGGACATGGCATCGGCTACAAGATGT
* * *
15549109 GAGCCAGTGTAAGACCCTGTCTGGGACATGGCATCGGC
1 GAGCTAGTGTAAGA-CATGTCTAGGACATGGCATCGGC
15549147 ATTCTACCCC
Statistics
Matches: 144, Mismatches: 25, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
44 9 0.06
45 16 0.11
46 17 0.12
47 33 0.23
48 3 0.02
49 31 0.22
50 27 0.19
51 7 0.05
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGGCATCGGCTACAAGATGT
Found at i:15549076 original size:99 final size:94
Alignment explanation
Indices: 15548920--15549097 Score: 223
Period size: 99 Copynumber: 1.8 Consensus size: 94
15548910 TTGAAACGAG
*
15548920 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACAAGATGTGTCAGTGTAAGACCATGTCT
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACAAGATGTGTCAATGTAAGACCATGTCT
*
15548985 AGGACTTGGCATCGGCACGAATATGTGAA
66 AGGACATGGCATCGGCACGAATATGTGAA
* * * *
15549014 AGCTAGTGTAAGATCATGTTTGGGACATGGCGTCGGCCT-CGATGATGATAGTCAATGTAAGACC
1 AGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGG-CTAC-AAGATG-T-GTCAATGTAAGACC
* *
15549078 ATGTTTGGGACATGGCATCG
60 ATGTCTAGGACATGGCATCG
15549098 ACTTGAGAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
94 13 0.19
95 12 0.17
96 7 0.10
97 7 0.10
98 1 0.01
99 30 0.43
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (94 bp):
AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACAAGATGTGTCAATGTAAGACCATGTCT
AGGACATGGCATCGGCACGAATATGTGAA
Found at i:15554762 original size:27 final size:27
Alignment explanation
Indices: 15554671--15554771 Score: 96
Period size: 27 Copynumber: 3.8 Consensus size: 27
15554661 ATGGAGGAAG
* * *
15554671 TACTG-TATTGGTAGCTATGTCACATT
1 TACTGTTACTGGTGGCTATGCCACATT
* * * *
15554697 CACCGTTACTGATGGCTATGCCACAAT
1 TACTGTTACTGGTGGCTATGCCACATT
* *
15554724 TACTGATACTGGTGGCTTTGCCACATT
1 TACTGTTACTGGTGGCTATGCCACATT
* *
15554751 TACTGTTTCTGGCGGCTATGC
1 TACTGTTACTGGTGGCTATGC
15554772 TGCATTATTA
Statistics
Matches: 57, Mismatches: 17, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
26 3 0.05
27 54 0.95
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTATGCCACATT
Found at i:15554946 original size:28 final size:27
Alignment explanation
Indices: 15554910--15554980 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 27
15554900 ATTACACTGT
*
15554910 ACTGATACTGTATTGGGCTTAGGCCCAC
1 ACTG-TACTGTATTGGGCTAAGGCCCAC
* *
15554938 ACTGTTACTGTATAGGGCTAAGGCCCAG
1 ACTG-TACTGTATTGGGCTAAGGCCCAC
15554966 ACTGTACTGATATTG
1 ACTGTACTG-TATTG
15554981 AATAGGACTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 5 0.14
28 32 0.86
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (27 bp):
ACTGTACTGTATTGGGCTAAGGCCCAC
Found at i:15559222 original size:25 final size:26
Alignment explanation
Indices: 15559163--15559222 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
15559153 TATTATAATT
15559163 TAAATTTAT-TTGTTATATTAAATAA
1 TAAATTTATATTGTTATATTAAATAA
* *
15559188 TAAATATATATTAGTTA-ATTGAA-AA
1 TAAATTTATATT-GTTATATTAAATAA
15559213 TAAATTTATA
1 TAAATTTATA
15559223 AAATTATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 19 0.63
26 7 0.23
27 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (26 bp):
TAAATTTATATTGTTATATTAAATAA
Found at i:15561328 original size:7 final size:7
Alignment explanation
Indices: 15561316--15561341 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15561306 AAGAGATAGG
15561316 AAGAATA
1 AAGAATA
15561323 AAGAATA
1 AAGAATA
15561330 AAGAATA
1 AAGAATA
15561337 AAGAA
1 AAGAA
15561342 AATATGAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAGAATA
Found at i:15566298 original size:48 final size:48
Alignment explanation
Indices: 15566137--15566329 Score: 150
Period size: 48 Copynumber: 4.1 Consensus size: 48
15566127 ATGGCTTCAA
* * * *
15566137 CATCGTTATGTGATCTCATGTAAGACCATGTCCGGGACATGACATTGG
1 CATCATTATGTGATCCCATGTAAGACCATATCTGGGACATGACATTGG
* * * * *
15566185 CATCATAATGAGA---CATTGTGGAAGACCATAGCTGGG-CTATCGTC-TTCG
1 CATCATTATGTGATCCCA-TGT--AAGACCATATCTGGGAC-AT-GACATTGG
* * * *
15566233 -AT-A-TGTGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGG
1 CATCATTATGTGATCCCATGTAAGACCATATCTGGGACATGACATTGG
* *
15566278 CATCATTATGTGGTCCCATGTAAGACCATATCTGGGATATGACATTGG
1 CATCATTATGTGATCCCATGTAAGACCATATCTGGGACATGACATTGG
15566326 CATC
1 CATC
15566330 CTACCTTGTG
Statistics
Matches: 110, Mismatches: 22, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
44 2 0.02
45 23 0.21
46 7 0.06
47 7 0.06
48 69 0.63
49 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (48 bp):
CATCATTATGTGATCCCATGTAAGACCATATCTGGGACATGACATTGG
Found at i:15567267 original size:21 final size:21
Alignment explanation
Indices: 15567243--15567297 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
15567233 GAAACAGGGC
15567243 ACACACCCGTGTGGAAAGGCA
1 ACACACCCGTGTGGAAAGGCA
* * * *
15567264 ACACGCCTGTATGGAAGGGCA
1 ACACACCCGTGTGGAAAGGCA
**
15567285 ACATTCCCGTGTG
1 ACACACCCGTGTG
15567298 ATCACTAAGA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.16
Consensus pattern (21 bp):
ACACACCCGTGTGGAAAGGCA
Found at i:15571987 original size:40 final size:40
Alignment explanation
Indices: 15571932--15572049 Score: 218
Period size: 40 Copynumber: 3.0 Consensus size: 40
15571922 GGAAAAAAAA
15571932 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
15571972 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
15572012 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
15572050 GTTACATCCG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:15574212 original size:37 final size:37
Alignment explanation
Indices: 15574162--15574240 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
15574152 TTATTACGAA
* * *
15574162 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
15574199 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
15574236 GTCTT
1 GTCTT
15574241 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:15574469 original size:47 final size:47
Alignment explanation
Indices: 15574358--15574629 Score: 463
Period size: 47 Copynumber: 5.7 Consensus size: 47
15574348 GCCCTTCGGG
* *
15574358 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTGTCAC--ATATATAC
15574408 ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATAC
15574455 ACTTTCACATTCATCACTCATCGGCCATTAGGCCTTGTCACATATATAC
1 ACTTTCACATTCATCA--CATCGGCCATTAGGCCTTGTCACATATATAC
15574504 ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATAC
* *
15574551 ACTTTCACATTCATCAAATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATAC
15574598 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
15574630 ATACTATCAT
Statistics
Matches: 215, Mismatches: 5, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
47 131 0.61
49 80 0.37
50 4 0.02
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATAC
Found at i:15574527 original size:96 final size:94
Alignment explanation
Indices: 15574358--15574629 Score: 472
Period size: 96 Copynumber: 2.8 Consensus size: 94
15574348 GCCCTTCGGG
*
15574358 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
15574423 ACATCGGCCATTAGGCCTTGTCACATATATAC
63 ACATCGGCCATTAGGCCTTGTCACATATATAC
*
15574455 ACTTTCACATTCATCACTCATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCA
1 ACTTTCACATTCATCA--CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
15574520 CATCGGCCATTAGGCCTTGTCACATATATAC
64 CATCGGCCATTAGGCCTTGTCACATATATAC
*
15574551 ACTTTCACATTCATCAAATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
15574616 TCGGCCATTAGGCC
66 TCGGCCATTAGGCC
15574630 ATACTATCAT
Statistics
Matches: 169, Mismatches: 4, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
94 61 0.36
96 83 0.49
97 4 0.02
98 21 0.12
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (94 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTGTCACATATATAC
Found at i:15592041 original size:50 final size:48
Alignment explanation
Indices: 15591975--15592199 Score: 180
Period size: 46 Copynumber: 4.8 Consensus size: 48
15591965 TGTCATCGAG
* * *
15591975 GCCGACGCCATTTCCCAAACATGGTCTTACACTAGCTCTCACATATCCGT
1 GCCGATGCCATGTCCCAAACAT-GTCTTACACTAGCTCTCACATAT-CAT
* * *
15592025 GCCGATGCCATGTCCCAGACATGGTCTTACACTA----ACACATCTCAT
1 GCCGATGCCATGTCCCAAACAT-GTCTTACACTAGCTCTCACATATCAT
* * * * * * *
15592070 AGCCGATG-CATGTCCCTAACATGTCTTATACTGGCT-TCCCTTATGAA
1 -GCCGATGCCATGTCCCAAACATGTCTTACACTAGCTCTCACATATCAT
* * * *
15592117 GCCGATG-CATGTCCTAGACACGTCTTACACTAGCTCT--CATCTCAAT
1 GCCGATGCCATGTCCCAAACATGTCTTACACTAGCTCTCACATATC-AT
*
15592163 GCCGATGCCATGTCCCACACATGTCTTACACTAGCTC
1 GCCGATGCCATGTCCCAAACATGTCTTACACTAGCTC
15592200 ACAATAGCCC
Statistics
Matches: 139, Mismatches: 29, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
44 9 0.06
45 17 0.12
46 50 0.36
47 32 0.23
50 31 0.22
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGTCTTACACTAGCTCTCACATATCAT
Found at i:15592189 original size:47 final size:48
Alignment explanation
Indices: 15591877--15592199 Score: 240
Period size: 47 Copynumber: 6.8 Consensus size: 48
15591867 ATAGGGTATG
* *
15591877 ATGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCATGTCTA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC-A
* * * * ** *
15591924 AAGTCGATACCATGTCCCAGACATGGTCTTACACT-GACTATTGTCATCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATC-TCA
* * * * * *
15591973 AGGCCGACGCCATTTCCCAAACATGGTCTTACACTAGCTCTCACATATCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATCTCA
* * *
15592023 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTA--ACACATCTC-
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCA
* * * * * *
15592068 ATAGCCGATG-CATGTCCCTA-ACAT-GTCTTATACTGGCTTCCCTTATGA
1 AT-GCCGATGCCATGTCCC-AGACATGGTCTTACACTAGC-TCTCATCTCA
* *
15592116 A-GCCGATG-CATGTCCTAGACA-CGTCTTACACTAGCTCTCATCTCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCA
*
15592161 ATGCCGATGCCATGTCCCACACAT-GTCTTACACTAGCTC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
15592200 ACAATAGCCC
Statistics
Matches: 214, Mismatches: 45, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
44 9 0.04
45 21 0.10
46 48 0.22
47 63 0.29
48 2 0.01
49 34 0.16
50 36 0.17
51 1 0.00
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCA
Found at i:15599294 original size:53 final size:53
Alignment explanation
Indices: 15599188--15599295 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
15599178 GGCAAAGATC
* * * * * *
15599188 CCACGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGTAAGGCTA
1 CCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTTAAAAAGGTAAAGCTA
*
15599241 CCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTTTAAAAAGG-AAAGCTA
1 CCACGTAAGACCATGCCAAGACATGGAAATGGTAAG-TTAAAAAGGTAAAGCTA
15599294 CC
1 CC
15599296 CATGTATCCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 40 0.85
54 7 0.15
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (53 bp):
CCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTTAAAAAGGTAAAGCTA
Found at i:15600783 original size:174 final size:173
Alignment explanation
Indices: 15600487--15600827 Score: 538
Period size: 174 Copynumber: 2.0 Consensus size: 173
15600477 TTAAAAAAAG
* *
15600487 TAATTTTTTTTATGTCCCGAACAGGTAAGATAAGTCTGGTAACGCCTCGTGCTCAACTCCGGCGA
1 TAATTTTTTTTATGTCCCGAACAGATAAGATAAGTCTGGTAACGCCTCGTGCTCAACTCCGACGA
** * * **
15600552 TGGTCTCGGGTAAGGGGTGTTACATTTATTAGTATCAGAACAAGAGTTTAGTCAGTTCTCGAAAT
66 CAGCCTCCGGTAAGGGGTGTTACATTTATTAGTATCAGAACAAGAGTTTAGTCAGTTCTAAAAAT
* *
15600617 ATTTAGTATGAGTAAGAGTCTAGCTATACATGCCATACTTATA
131 ATTCAGTATGAGTAAAAGTCTAGCTATACATGCCATACTTATA
* *
15600660 TAATTTCTTTTTATGTCCCGAACAGATAAGATAAGTCTGGTAATGCCTCGTGCTCGACTCCGACG
1 TAATTT-TTTTTATGTCCCGAACAGATAAGATAAGTCTGGTAACGCCTCGTGCTCAACTCCGACG
* *
15600725 ACAGCCTCCGGTAAGGGGTGTTACATTTATTGGTATCAGAGCAAGAGTTTAGTCAGTTCTAAAAA
65 ACAGCCTCCGGTAAGGGGTGTTACATTTATTAGTATCAGAACAAGAGTTTAGTCAGTTCTAAAAA
*
15600790 TATTCAGTATGAGTAAAAGTCTAGCTATACATGTCATA
130 TATTCAGTATGAGTAAAAGTCTAGCTATACATGCCATA
15600828 TTTTGATAGT
Statistics
Matches: 152, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
173 6 0.04
174 146 0.96
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (173 bp):
TAATTTTTTTTATGTCCCGAACAGATAAGATAAGTCTGGTAACGCCTCGTGCTCAACTCCGACGA
CAGCCTCCGGTAAGGGGTGTTACATTTATTAGTATCAGAACAAGAGTTTAGTCAGTTCTAAAAAT
ATTCAGTATGAGTAAAAGTCTAGCTATACATGCCATACTTATA
Found at i:15604905 original size:27 final size:27
Alignment explanation
Indices: 15604859--15605014 Score: 172
Period size: 27 Copynumber: 5.8 Consensus size: 27
15604849 ATTACTAAAG
* *
15604859 TACCCCCGA-TTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
15604885 TACCCTCGACTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
15604912 TACCCTCAATTTACAGAAGTT-CCGTTT
1 TACCCTCGATTTACAGAA-TTACCGTTT
* * **
15604939 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
15604966 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
15604993 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
15605015 TAAAATACCC
Statistics
Matches: 112, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.09
27 100 0.89
28 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:15605139 original size:81 final size:80
Alignment explanation
Indices: 15604993--15605187 Score: 250
Period size: 81 Copynumber: 2.4 Consensus size: 80
15604983 ATTACTGTTT
* ** * * *
15604993 TACCCTCGATTTACAAAATTACTAAAATA-CCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTT
1 TACCCTCAATTTGTAAAATTAC-AAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTAGTT
*
15605057 TGTAAAATTACAGAAG
65 TGTAAAATTACAGAAA
*
15605073 TACCCTCAATTTGTAAAATTAGCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TAGT
1 TACCCTCAATTTGTAAAATTA-CAAAATACCCCTAGTCTGTAAAATTACCAAAATACC-CTTAGT
* *
15605137 TTGTGAAATTACCGAAA
64 TTGTAAAATTACAGAAA
15605154 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTCAATTTGTAAAATTA-CAAAATACCCCT
15605188 GATTTACAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
80 24 0.24
81 76 0.75
82 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (80 bp):
TACCCTCAATTTGTAAAATTACAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTAGTTT
GTAAAATTACAGAAA
Found at i:15605192 original size:27 final size:26
Alignment explanation
Indices: 15605007--15605192 Score: 169
Period size: 27 Copynumber: 6.9 Consensus size: 26
15604997 CTCGATTTAC
* *
15605007 AAAATTACTAAAATA-CCCTAGTCTGT
1 AAAATTACCAAAATACCCCTA-TTTGT
* * * *
15605033 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCT-ATTTGT
* *
15605060 AAAATTA-CAGAAGTACCCTCAATTTGT
1 AAAATTACCA-AAATACCC-CTATTTGT
*
15605087 AAAATTAGCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTA-TTTGT
*
15605114 AAAATTACCAAAATACCACTAGTTTGT
1 AAAATTACCAAAATACCCCTA-TTTGT
* * *
15605141 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCC-CTATTTGT
15605168 AAAATTACCAAAATACCCCTGATTT
1 AAAATTACCAAAATACCCCT-ATTT
15605193 ACAAAGTTAC
Statistics
Matches: 131, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
26 18 0.14
27 109 0.83
28 4 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAAATACCCCTATTTGT
Found at i:15605208 original size:54 final size:54
Alignment explanation
Indices: 15604993--15605213 Score: 147
Period size: 54 Copynumber: 4.1 Consensus size: 54
15604983 ATTACTGTTT
* ** * * *
15604993 TACCCTCGATTTACAAAATTACTAAAATACC-CTAGTCTGTA-AAATTGCTA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTAGTTTG-ACAAATTAC-AGAAA
*** * *
15605046 TACCCTTGGTTTGTAAAATTA-CAGAAGTACC-CTCAATTTGTA-AAATTAGCA-AAA
1 TACCCTCAATTTGTAAAATTACCA-AAATACCACT-AGTTTG-ACAAATTA-CAGAAA
* ** *
15605100 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCACTAGTTTGACAAATTACAGAAA
*
15605154 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTT-ACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTAG-TTTGACAAA-TTACAGAAA
15605208 TACCCT
1 TACCCT
15605214 TGACTTTCTA
Statistics
Matches: 137, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
52 1 0.01
53 30 0.22
54 100 0.73
55 6 0.04
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCACTAGTTTGACAAATTACAGAAA
Found at i:15605263 original size:27 final size:27
Alignment explanation
Indices: 15605224--15605275 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
15605214 TGACTTTCTA
15605224 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
15605251 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
15605276 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:15605359 original size:27 final size:27
Alignment explanation
Indices: 15605329--15605420 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
15605319 ACCCCTATTA
*
15605329 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
15605356 GGTAAAGTGATCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
15605383 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
15605410 GGTAAAATGAC
1 GGTAAAATGAC
15605421 GAATATGCCC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:15606610 original size:25 final size:24
Alignment explanation
Indices: 15606577--15606624 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
15606567 TTATAACATG
* * *
15606577 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
15606601 AAAAGTGACCATTATACCCCTAGG
1 AAAA-TGACCATTATACCCCTAGG
15606625 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:15606763 original size:24 final size:24
Alignment explanation
Indices: 15606736--15606903 Score: 243
Period size: 24 Copynumber: 7.0 Consensus size: 24
15606726 GGAGGAAGTG
15606736 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
15606760 CAAAAAGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
15606784 CAAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
15606808 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
15606832 CAAAA-GGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
15606855 AAAAAGGGCTTTTGCCCCAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
*
15606878 CTAAAAGAGGC-TAGGCCTCCAGTTAT
1 C-AAAAG-GGCTTATGCC-CCAGTTAT
15606904 ATGATAAAGT
Statistics
Matches: 130, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
23 22 0.17
24 98 0.75
25 10 0.08
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:15607133 original size:31 final size:31
Alignment explanation
Indices: 15607097--15607160 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
15607087 CGTTTACAGT
*
15607097 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
15607128 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
15607159 AA
1 AA
15607161 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:15612614 original size:27 final size:26
Alignment explanation
Indices: 15612545--15612652 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
15612535 AGCATGGCTG
** *
15612545 CCAGAACAGATATTGTGATAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
15612571 CCAGATACAGATATTGTGGGAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
15612598 CCAGAACAGATATTTGTTGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* * *
15612625 CTAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAGAGCCA
15612652 C
1 C
15612653 TTAACAGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.17
27 49 0.71
28 8 0.12
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:15612653 original size:27 final size:26
Alignment explanation
Indices: 15612547--15612670 Score: 90
Period size: 27 Copynumber: 4.7 Consensus size: 26
15612537 CATGGCTGCC
** * * *
15612547 AGAACAGATATTGTGATAGAGTCACC
1 AGAACAGATATTGTGGCAAAGCCACT
* * *
15612573 AGATACAGATATTGTGGGAGAGCCACC
1 AGA-ACAGATATTGTGGCAAAGCCACT
* *
15612600 AGAACAGATATTTGTTGCATAGCCACT
1 AGAACAGATA-TTGTGGCAAAGCCACT
*
15612627 AGAAACAGATAATGTGGCAAAGCCACT
1 AG-AACAGATATTGTGGCAAAGCCACT
*
15612654 -TAACAGA-ATATGTGGCA
1 AGAACAGATAT-TGTGGCA
15612671 CAAAGCTATC
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
24 1 0.01
25 13 0.16
26 10 0.12
27 50 0.61
28 8 0.10
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (26 bp):
AGAACAGATATTGTGGCAAAGCCACT
Found at i:15612839 original size:22 final size:21
Alignment explanation
Indices: 15612811--15612875 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
15612801 GCAAATACGT
15612811 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* *
15612833 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
*
15612855 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
15612876 AATAATAGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:15613294 original size:27 final size:27
Alignment explanation
Indices: 15613263--15613485 Score: 288
Period size: 27 Copynumber: 8.3 Consensus size: 27
15613253 GGGGCAAAAT
* * * *
15613263 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
15613290 AGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
15613317 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
15613344 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
15613371 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
15613398 GG-AATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
15613424 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
15613451 GGTAATTCTACCCTATA-GGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
15613477 AGTAATTCT
1 GGTAATTCT
15613486 TGTAACACCC
Statistics
Matches: 173, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
26 42 0.24
27 131 0.76
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:15613484 original size:80 final size:81
Alignment explanation
Indices: 15613267--15613485 Score: 309
Period size: 80 Copynumber: 2.7 Consensus size: 81
15613257 CAAAATGGTA
* * * *
15613267 ATTT-TACCCCACAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTTGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCT
*
15613331 ATAAGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
* * * * *
15613347 AATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTA-TTTCGGAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCT
*
15613411 ACAGGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
*
15613427 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATA-GGGTATTTTAGTAATTCT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTAGTAATTCT
15613486 TGTAACACCC
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
79 5 0.04
80 78 0.64
81 38 0.31
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCT
ACAAGGGTATTTCGGT
Found at i:15614889 original size:40 final size:40
Alignment explanation
Indices: 15614852--15615077 Score: 323
Period size: 40 Copynumber: 5.7 Consensus size: 40
15614842 GCTACTCGTT
* *
15614852 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
15614892 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
15614932 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
15614972 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
15615012 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
15615053 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
15615078 CATCATTCGA
Statistics
Matches: 173, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 3 0.02
40 157 0.91
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:15622148 original size:39 final size:40
Alignment explanation
Indices: 15621994--15622165 Score: 242
Period size: 40 Copynumber: 4.3 Consensus size: 40
15621984 GCTACTCGTT
* * *
15621994 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCA
*
15622034 CAAATGTCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAA-TTAGTAACTCGCA
*
15622074 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
* *
15622114 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
15622153 CAAATGCCTTCGG
1 CAAATGCCTTCGG
15622166 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 36 0.30
40 80 0.67
41 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
Found at i:15622178 original size:79 final size:81
Alignment explanation
Indices: 15621994--15622216 Score: 271
Period size: 80 Copynumber: 2.8 Consensus size: 81
15621984 GCTACTCGTT
* *
15621994 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGTCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
15622058 AATTTAGTAACTCGCA
66 AATTTAGTAACTCGCA
* * *
15622074 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC-
15622137 GAA-TTAGTAACTCGCA
65 GAATTTAGTAACTCGCA
* * * * * *
15622153 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCACAAA-GCCTTCAGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACC
15622215 CG
64 CG
15622217 TACATCATTC
Statistics
Matches: 125, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
78 4 0.03
79 54 0.43
80 65 0.52
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
AATTTAGTAACTCGCA
Found at i:15622202 original size:119 final size:120
Alignment explanation
Indices: 15621996--15622216 Score: 279
Period size: 119 Copynumber: 1.9 Consensus size: 120
15621986 TACTCGTTCA
* *
15621996 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGTCTTCGGGACTTAACCCGAAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAT
* * *
15622061 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACC
* ** *
15622116 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGA
* * *
15622178 ATATGGTCACTTAGCACAAA-GCCTTCAGGACTTAGCCCG
64 ATATAGTAAC-TAGCACAAATGCCTTCAGGACTTAACCCG
15622217 TACATCATTC
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 62 0.72
120 20 0.23
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAT
ATAGTAACTAGCACAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:15623485 original size:19 final size:18
Alignment explanation
Indices: 15623461--15623502 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 18
15623451 GGGGTATTTC
15623461 GGTATTTCTACCCTACAAG
1 GGTATTTCTA-CCTACAAG
15623480 GGTA--T-TACCTACAAG
1 GGTATTTCTACCTACAAG
15623495 GGTATTTC
1 GGTATTTC
15623503 AGTAATTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 7
0.74 0.00 0.26
Matches are distributed among these distances:
15 12 0.60
16 2 0.10
17 2 0.10
19 4 0.20
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (18 bp):
GGTATTTCTACCTACAAG
Found at i:15623492 original size:15 final size:15
Alignment explanation
Indices: 15623472--15623500 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15623462 GTATTTCTAC
15623472 CCTACAAGGGTATTA
1 CCTACAAGGGTATTA
15623487 CCTACAAGGGTATT
1 CCTACAAGGGTATT
15623501 TCAGTAATTC
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:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (15 bp):
CCTACAAGGGTATTA
Found at i:15623589 original size:27 final size:27
Alignment explanation
Indices: 15623523--15623590 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
15623513 CCCTACAGGT
* * *
15623523 GTATTTCAGTAATTTTGTAAATCGAGG
1 GTATTTCGGTAATTCTATAAATCGAGG
*** *
15623550 GTAAAACGATAATTCTATAAATCGAGG
1 GTATTTCGGTAATTCTATAAATCGAGG
15623577 GTATTTCGGTAATT
1 GTATTTCGGTAATT
15623591 TGGTAAACTA
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
GTATTTCGGTAATTCTATAAATCGAGG
Found at i:15630997 original size:22 final size:22
Alignment explanation
Indices: 15630972--15631017 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
15630962 TTAGTGACTA
15630972 AAATGTTACAACATGATAATGT
1 AAATGTTACAACATGATAATGT
15630994 AAATGTTACAACATGATAATGT
1 AAATGTTACAACATGATAATGT
15631016 AA
1 AA
15631018 GTGACTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (22 bp):
AAATGTTACAACATGATAATGT
Found at i:15631520 original size:22 final size:22
Alignment explanation
Indices: 15631488--15631531 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15631478 ATACATTAAA
*
15631488 ATTATTTAGCAAAATTATGATT
1 ATTATTCAGCAAAATTATGATT
15631510 ATTATTCAGCAAAATTATGATT
1 ATTATTCAGCAAAATTATGATT
15631532 TCTTTTATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (22 bp):
ATTATTCAGCAAAATTATGATT
Found at i:15631913 original size:18 final size:17
Alignment explanation
Indices: 15631883--15631917 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15631873 CCTAAATATG
15631883 AAAAATAAAAAATATTT
1 AAAAATAAAAAATATTT
*
15631900 AAAAATATATAAATATTT
1 AAAAATA-AAAAATATTT
15631918 TCAAAGCATC
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAATAAAAAATATTT
Found at i:15638179 original size:40 final size:40
Alignment explanation
Indices: 15638135--15638211 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
15638125 ACATACATAG
*
15638135 TCTGCTATCTA-TTCAGGATTTATGTATGACATACTATAAA
1 TCTGCTATCTACTT-AGGATTTATGTATGACACACTATAAA
*
15638175 TCTGCTATCTACTTAGGATTTATGTATGCCACACTAT
1 TCTGCTATCTACTTAGGATTTATGTATGACACACTAT
15638212 GAACGTCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (40 bp):
TCTGCTATCTACTTAGGATTTATGTATGACACACTATAAA
Found at i:15653620 original size:10 final size:10
Alignment explanation
Indices: 15653607--15653668 Score: 51
Period size: 10 Copynumber: 6.6 Consensus size: 10
15653597 TCAGTTTATT
15653607 TATTTTTAAA
1 TATTTTTAAA
15653617 TATTTTT--A
1 TATTTTTAAA
15653625 TATTTTT-AA
1 TATTTTTAAA
* **
15653634 TATATTTATG
1 TATTTTTAAA
* *
15653644 TGTTTATAAA
1 TATTTTTAAA
15653654 TATTTTTAAA
1 TATTTTTAAA
15653664 -ATTTT
1 TATTTT
15653669 ATAATAATGA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
8 8 0.20
9 12 0.30
10 20 0.50
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (10 bp):
TATTTTTAAA
Found at i:15653630 original size:18 final size:18
Alignment explanation
Indices: 15653607--15653661 Score: 67
Period size: 17 Copynumber: 3.0 Consensus size: 18
15653597 TCAGTTTATT
15653607 TATTTTTAAATATTTTTA
1 TATTTTTAAATATTTTTA
*
15653625 TATTTTT-AATATATTTA
1 TATTTTTAAATATTTTTA
*
15653642 TGTGTTTATAAATATTTTTA
1 TAT-TTT-TAAATATTTTTA
15653662 AAATTTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 11 0.35
18 10 0.32
19 1 0.03
20 9 0.29
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (18 bp):
TATTTTTAAATATTTTTA
Found at i:15655923 original size:24 final size:24
Alignment explanation
Indices: 15655895--15655952 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
15655885 GAAAAGTGCA
15655895 AAATTTTTTAAAATTTCTTTAAAT
1 AAATTTTTTAAAATTTCTTTAAAT
*
15655919 AAATTTTTT-ACATTTCTTTAAAT
1 AAATTTTTTAAAATTTCTTTAAAT
*
15655942 ATAAATTTTTA
1 A-AATTTTTTA
15655953 TATTTTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (24 bp):
AAATTTTTTAAAATTTCTTTAAAT
Found at i:15656087 original size:106 final size:106
Alignment explanation
Indices: 15655858--15656068 Score: 261
Period size: 106 Copynumber: 2.0 Consensus size: 106
15655848 AAAATTCAAA
*
15655858 AAATA-ATAAATCCTTTTATATTTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAAA
1 AAATATATAAAT-TTTTTATATTTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAAA
* * * **
15655922 TTTTTTACATTTCTTTAAATATAAATTTTTATATTTTTGTAT
65 TTTTTTACATTTCTTTAAAGATAAAGTTTTAAAAGTTTGTAT
* * * *
15655964 AAATATATAAATTTTTTATTTTTTTTATAAAAGTGCAAATTTTTTTAAAATTTCTTTAAATAATT
1 AAATATATAAATTTTTTATATTTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAA-A
**
15656029 TTTTTTTGATTT-TTT-AAGA-AAAGTTTTAAAAGTTT-TAT
65 TTTTTTACATTTCTTTAAAGATAAAGTTTTAAAAGTTTGTAT
15656067 AA
1 AA
15656069 TATTTTTAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
103 5 0.05
104 12 0.13
105 3 0.03
106 55 0.60
107 16 0.18
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (106 bp):
AAATATATAAATTTTTTATATTTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAAAT
TTTTTACATTTCTTTAAAGATAAAGTTTTAAAAGTTTGTAT
Found at i:15656095 original size:106 final size:106
Alignment explanation
Indices: 15655879--15656095 Score: 235
Period size: 106 Copynumber: 2.0 Consensus size: 106
15655869 CCTTTTATAT
*
15655879 TTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAAATTTTTTACATTTCTTTAAATAT
1 TTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAAATTTTTTACATTTCTTTAAAGAT
* * ** ***
15655944 AAATTTTTATATTTTTGTATAAATATATAAATTTTTTATTT
66 AAAGTTTTAAAAGTTTGTATAAATATATAAATTTTTTAGAA
* * * **
15655985 TTTTTATAAAAGTGCAAATTTTTTTAAAATTTCTTTAAATAATTTTTTTTTGATTT-TTT-AAGA
1 TTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAA-ATTTTTTACATTTCTTTAAAGA
* *
15656048 -AAAGTTTTAAAAGTTT-TATAATATTTTTAAATAATTTTTAGAA
65 TAAAGTTTTAAAAGTTTGTATAA-ATATATAAAT--TTTTTAGAA
15656091 TTTTT
1 TTTTT
15656096 CGAAGAAAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
103 5 0.05
104 20 0.22
105 3 0.03
106 54 0.59
107 10 0.11
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (106 bp):
TTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAAATTTTTTACATTTCTTTAAAGAT
AAAGTTTTAAAAGTTTGTATAAATATATAAATTTTTTAGAA
Found at i:15660316 original size:26 final size:26
Alignment explanation
Indices: 15660287--15660439 Score: 114
Period size: 27 Copynumber: 5.7 Consensus size: 26
15660277 TTAGTTTACC
*
15660287 AAATTACTGAAATATCCTCAGTTGTA
1 AAATTACTGAAATACCCTCAGTTGTA
* *
15660313 AAATTAC-CAAAGTACCCTCAGTTTATA
1 AAATTACTGAAA-TACCCTCAG-TTGTA
** * *
15660340 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTC-AGTTGTA
*
15660367 AAATTA-TCGAAATACCCTCAGTTTGCA
1 AAATTACT-GAAATACCCTCAG-TTGTA
* **
15660394 AAATTATTGAAATACCCTCGACATGTA
1 AAATTACTGAAATACCCTC-AGTTGTA
*
15660421 AAATTA-TCAAAGTACCCTC
1 AAATTACTGAAA-TACCCTC
15660440 GATTTACAAA
Statistics
Matches: 103, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
25 3 0.03
26 20 0.19
27 73 0.71
28 7 0.07
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (26 bp):
AAATTACTGAAATACCCTCAGTTGTA
Found at i:15660390 original size:54 final size:54
Alignment explanation
Indices: 15660279--15660455 Score: 207
Period size: 54 Copynumber: 3.3 Consensus size: 54
15660269 AGAATACTTT
* * * *
15660279 AGTTTACCAAATTACTGAAATATCCTC-AGTTGTAAAATTACCAAAGTACCCTC
1 AGTTTACAAAATTACCGAAATATCCTCGACTTGTAAAATTATCAAAGTACCCTC
* * *
15660332 AGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAA-TACCCTC
1 AGTTTACAAAATTACCGAAATATCCTCGACTTGTAAAATTATC-AAAGTACCCTC
* ** * *
15660386 AGTTTGCAAAATTATTGAAATACCCTCGACATGTAAAATTATCAAAGTACCCTC
1 AGTTTACAAAATTACCGAAATATCCTCGACTTGTAAAATTATCAAAGTACCCTC
15660440 -GATTTACAAAATTACC
1 AG-TTTACAAAATTACC
15660456 ATTTTATCCT
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
53 27 0.26
54 73 0.71
55 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AGTTTACAAAATTACCGAAATATCCTCGACTTGTAAAATTATCAAAGTACCCTC
Found at i:15660466 original size:27 final size:27
Alignment explanation
Indices: 15660433--15660850 Score: 322
Period size: 27 Copynumber: 15.4 Consensus size: 27
15660423 ATTATCAAAG
*
15660433 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
15660460 TATCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
15660487 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
15660514 TACCCTCGATTTACAGAGTTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
15660541 TACCCTTGAATTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
15660568 TACCCTCGATTTATAGAATTACCGTTC
1 TACCCTCGATTTACAGAATTACCATTT
*
15660595 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
15660622 TACCCTCGATTTAGAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * ***
15660649 TACCCTCGATTTAGAAAATTACAAAAA
1 TACCCTCGATTTACAGAATTACCATTT
* * * ***
15660676 TACCCCTGGTTTGTA-A-AATTACTAAAA
1 TA-CCCTCGATT-TACAGAATTACCATTT
* ** * * **
15660703 TACCCCCTGATTTGTAAAATTACTGA-AA
1 TACCCTC-GATTTACAGAATTAC-CATTT
* * ***
15660731 TACCCTCGACTGGTA-AAAATTACCAAAG
1 TACCCTCGA-T-TTACAGAATTACCATTT
* *
15660759 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
**
15660786 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
15660813 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
15660840 TACCCTCGATT
1 TACCCTCGATT
15660851 GTGAAATTAC
Statistics
Matches: 328, Mismatches: 53, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
26 6 0.02
27 277 0.84
28 41 0.12
29 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:15660709 original size:28 final size:28
Alignment explanation
Indices: 15660663--15660735 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
15660653 CTCGATTTAG
* *
15660663 AAAATTACAAAAATA-CCCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
15660690 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
*
15660718 AAAATTACTGAAATACCC
1 AAAATTACTAAAATACCC
15660736 TCGACTGGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 14 0.33
28 28 0.67
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTGATTTGT
Found at i:15660749 original size:28 final size:27
Alignment explanation
Indices: 15660688--15660767 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 27
15660678 CCCCTGGTTT
* * *
15660688 GTAAAATTACTAAAATACCCCCTGATTT
1 GTAAAATTACTAAAATACCCTC-GACTG
*
15660716 GTAAAATTACTGAAATACCCTCGACTG
1 GTAAAATTACTAAAATACCCTCGACTG
* *
15660743 GTAAAAATTACCAAAGTACCCTCGA
1 GT-AAAATTACTAAAATACCCTCGA
15660768 TTTATAGAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 5 0.11
28 39 0.89
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (27 bp):
GTAAAATTACTAAAATACCCTCGACTG
Found at i:15660849 original size:81 final size:81
Alignment explanation
Indices: 15660433--15660850 Score: 399
Period size: 81 Copynumber: 5.1 Consensus size: 81
15660423 ATTATCAAAG
* * * *
15660433 TACCCTCGATTTACAAAATTACCATTTTATCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
*
15660498 TACAAAATTACTATTT
66 TACAAAATTACCATTT
* * * * * *
15660514 TACCCTCGATTTACAGAGTTACTATTTTACCCTTGAATTACAAAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
* * * *
15660579 TATAGAATTACCGTTC
66 TACAAAATTACCATTT
* * **
15660595 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAGAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
* * ***
15660660 TAGAAAATTACAAAAA
66 TACAAAATTACCATTT
* * * *** * ** * ***
15660676 TACCC-CTGGTTTGTAAAATTACTAAAATACCCCCTGATTTGTAAAATTACTGAAATACCCTCGA
1 TACCCTC-GATTTATAGAATTACTATTTTACCCTC-GATTTACAGAATTACTGTTTTACCCTCGA
* ***
15660740 CTGGTA-AAAATTACCAAAG
64 -T-TTACAAAATTACCATTT
*
15660759 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTTGATT
1 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
*
15660824 TACAAAATTACCGTTT
66 TACAAAATTACCATTT
15660840 TACCCTCGATT
1 TACCCTCGATT
15660851 GTGAAATTAC
Statistics
Matches: 265, Mismatches: 66, Indels: 12
0.77 0.19 0.03
Matches are distributed among these distances:
80 3 0.01
81 179 0.68
82 43 0.16
83 37 0.14
84 3 0.01
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
TACAAAATTACCATTT
Found at i:15660885 original size:27 final size:27
Alignment explanation
Indices: 15660855--15661375 Score: 647
Period size: 27 Copynumber: 19.3 Consensus size: 27
15660845 TCGATTGTGA
* *
15660855 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * ** *
15660882 AATTACCAAAACACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* * *
15660909 AATTACCAAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
15660936 AATTACTAAAAT-CCCCTAGTAAGGTAG
1 AATTACCGAAATACCCCT-GTAGGGTAG
** *
15660963 AATTACTAAAAT-CCCCTAGTAAGGTAG
1 AATTACCGAAATACCCCT-GTAGGGTAG
* *
15660990 AATTACCG-AATACCTCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
15661016 AATTACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
15661043 AATTACCGAAATACCCCTGTAGGGCAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
15661070 GATTACCGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
15661097 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
15661124 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
15661151 AATTATCGAAAATACCCCTGTAGGGTAG
1 AATTACCG-AAATACCCCTGTAGGGTAG
15661179 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
15661206 AATTATCGAAAATACCCCTGTAGGGTAG
1 AATTACCG-AAATACCCCTGTAGGGTAG
15661234 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
15661261 AATTATCGAAAATACCCCTGTAGGGTAG
1 AATTACCG-AAATACCCCTGTAGGGTAG
15661289 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
15661316 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
15661343 AATTACAGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
15661369 AATTACC
1 AATTACC
15661376 ATTTTGCCCT
Statistics
Matches: 440, Mismatches: 46, Indels: 17
0.87 0.09 0.03
Matches are distributed among these distances:
26 41 0.09
27 320 0.73
28 79 0.18
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:15661705 original size:67 final size:67
Alignment explanation
Indices: 15661597--15661817 Score: 406
Period size: 67 Copynumber: 3.3 Consensus size: 67
15661587 GAGGAAGCGT
* * *
15661597 TCTGGCAGCCTCACTGCAATTTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTAGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
15661662 TA
66 TA
15661664 TCTGGCAGCCTCGCTGCAATCTAGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTAGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
15661729 TA
66 TA
15661731 TCTGGCAGCCTCGCTGCAATCTAGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTAGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
15661796 TA
66 TA
*
15661798 TCTGGCAGCCTCGTTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
15661818 TTCTGTGGTG
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 150 1.00
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTAGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:15661952 original size:25 final size:25
Alignment explanation
Indices: 15661924--15661987 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
15661914 ATTCACATTT
* *
15661924 TGATTATGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGTTACCTAATAC
*
15661949 TGATTCTGATTCTGTTACCTAATTC
1 TGATTCTGATTCTGTTACCTAATAC
*
15661974 TGATTCTGGTTCTG
1 TGATTCTGATTCTG
15661988 ATTTTGATTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (25 bp):
TGATTCTGATTCTGTTACCTAATAC
Found at i:15661959 original size:6 final size:6
Alignment explanation
Indices: 15661924--15662041 Score: 107
Period size: 6 Copynumber: 19.2 Consensus size: 6
15661914 ATTCACATTT
* * *
15661924 TGATTA TGATTC TG-TTACC TGATAC TGATTC TGATTC TG-TTACC TAATTC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATT--C TGATTC
* * *
15661974 TGATTC TGGTTC TGATTT TGATTC TG-TCACC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC
15662023 TGATTC TGATTC TGATTC T
1 TGATTC TGATTC TGATTC T
15662042 AGTTATGATA
Statistics
Matches: 92, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
5 5 0.05
6 75 0.82
7 8 0.09
8 4 0.04
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
TGATTC
Found at i:15661990 original size:37 final size:37
Alignment explanation
Indices: 15661942--15662036 Score: 145
Period size: 37 Copynumber: 2.6 Consensus size: 37
15661932 ATTCTGTTAC
* *
15661942 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
* * *
15661979 CTGGTTCTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
15662016 CTGATTCTGATTCTGATTCTG
1 CTGATTCTGATTCTGATTCTG
15662037 ATTCTAGTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
Found at i:15661997 original size:18 final size:18
Alignment explanation
Indices: 15661924--15662041 Score: 107
Period size: 19 Copynumber: 6.4 Consensus size: 18
15661914 ATTCACATTT
*
15661924 TGATTATGATTCTG-TTACC
1 TGATTCTGATTCTGATT--C
*
15661943 TGATACTGATTCTGATTC
1 TGATTCTGATTCTGATTC
*
15661961 TG-TTACCTAATTCTGATTC
1 TGATT--CTGATTCTGATTC
* *
15661980 TGGTTCTGATTTTGATTC
1 TGATTCTGATTCTGATTC
*
15661998 TG-TCACCTGATTCTGATTC
1 TGAT--TCTGATTCTGATTC
15662017 TGATTCTGATTCTGATTC
1 TGATTCTGATTCTGATTC
15662035 TGATTCT
1 TGATTCT
15662042 AGTTATGATA
Statistics
Matches: 83, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.02
18 36 0.43
19 40 0.48
20 5 0.06
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (18 bp):
TGATTCTGATTCTGATTC
Found at i:15662958 original size:2 final size:2
Alignment explanation
Indices: 15662945--15662979 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
15662935 CTTACCAAAT
*
15662945 AC AC AG AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
15662980 TATATATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.46, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15664323 original size:25 final size:24
Alignment explanation
Indices: 15664295--15664354 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
15664285 ACTACCAATT
15664295 AGGATGCTCGCAGGAACTATATAAC
1 AGGATGCTCG-AGGAACTATATAAC
** * *
15664320 AGGACTGCTCGAGGAGGTTTTTAAC
1 AGGA-TGCTCGAGGAACTATATAAC
15664345 AGGATGCTCG
1 AGGATGCTCG
15664355 TTCAAGCTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 6 0.20
25 18 0.60
26 6 0.20
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (24 bp):
AGGATGCTCGAGGAACTATATAAC
Found at i:15667854 original size:40 final size:40
Alignment explanation
Indices: 15667820--15668606 Score: 1416
Period size: 40 Copynumber: 19.7 Consensus size: 40
15667810 GGATATAGCT
* * * *
15667820 ACTCGCTCAAATGCCTTCGGGACTTGGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
*
15667860 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
* *
15667900 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
15667940 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
15667980 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
15668020 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
15668060 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
15668100 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
15668140 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
15668180 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
15668220 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
15668260 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
15668300 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
15668340 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
15668380 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
15668420 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
15668460 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
15668500 ACTCGCACAAATGCCTTCGGGACTTAGC-CTGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCGC-GGATTTAGTA
* * ** *
15668540 ACTCGCACAAATGCCTTCGAGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
* * *
15668579 ACTAGCGCAGATGCCTTCGGGACTTAGC
1 ACTCGCACAAATGCCTTCGGGACTTAGC
15668607 CCGGTTATCA
Statistics
Matches: 730, Mismatches: 14, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
39 31 0.04
40 699 0.96
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCGCGGATTTAGTA
Done.