Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 32 of 182
Found at i:10434621 original size:30 final size:30
Alignment explanation
Indices: 10434587--10434661 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
10434577 TTATTTTTTT
10434587 TATTTTTTTAATTTTAAAATATTATTAAAA
1 TATTTTTTTAATTTTAAAATATTATTAAAA
*
10434617 TATTTTTTTAATTTTAAAATATTTTTAAAA
1 TATTTTTTTAATTTTAAAATATTATTAAAA
* *
10434647 TACTTTTTAAATTTT
1 TATTTTTTTAATTTT
10434662 TTTATTTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (30 bp):
TATTTTTTTAATTTTAAAATATTATTAAAA
Found at i:10434655 original size:12 final size:11
Alignment explanation
Indices: 10434598--10434657 Score: 63
Period size: 11 Copynumber: 5.6 Consensus size: 11
10434588 ATTTTTTTAA
10434598 TTTTAAAATAT
1 TTTTAAAATAT
*
10434609 TATTAAAATAT
1 TTTTAAAATAT
* *
10434620 TTTT---TTAA
1 TTTTAAAATAT
10434628 TTTTAAAATAT
1 TTTTAAAATAT
10434639 TTTTAAAATACT
1 TTTTAAAATA-T
10434651 TTTTAAA
1 TTTTAAA
10434658 TTTTTTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
8 6 0.15
11 25 0.64
12 8 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:10434658 original size:11 final size:10
Alignment explanation
Indices: 10434597--10434665 Score: 50
Period size: 11 Copynumber: 6.7 Consensus size: 10
10434587 TATTTTTTTA
*
10434597 ATTTTAAAAT
1 ATTTTTAAAT
*
10434607 ATTATTAAAAT
1 ATT-TTTAAAT
**
10434618 ATTTTTTTA-
1 ATTTTTAAAT
*
10434627 ATTTTAAAAT
1 ATTTTTAAAT
10434637 ATTTTTAAAAT
1 ATTTTT-AAAT
10434648 ACTTTTTAAAT
1 A-TTTTTAAAT
*
10434659 TTTTTTA
1 ATTTTTA
10434666 TTTTTAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
9 6 0.13
10 17 0.36
11 19 0.40
12 5 0.11
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTTTAAAT
Found at i:10435016 original size:16 final size:17
Alignment explanation
Indices: 10434990--10435024 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
10434980 CAGGAAAACA
10434990 AAAATCACAACCTGAGC
1 AAAATCACAACCTGAGC
10435007 AAAA-CACAACCTGAGC
1 AAAATCACAACCTGAGC
10435023 AA
1 AA
10435025 CTAATAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.51, C:0.29, G:0.11, T:0.09
Consensus pattern (17 bp):
AAAATCACAACCTGAGC
Found at i:10438587 original size:16 final size:16
Alignment explanation
Indices: 10438566--10438604 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
10438556 TATAATTTAA
*
10438566 TTTTAATTAATTAATT
1 TTTTAATTAAATAATT
10438582 TTTTAATTAAATAATT
1 TTTTAATTAAATAATT
10438598 TTCTTAA
1 TT-TTAA
10438605 CTCGATTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTAATTAAATAATT
Found at i:10440818 original size:30 final size:30
Alignment explanation
Indices: 10440774--10440836 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
10440764 ACTTAACAAG
*
10440774 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAAAAACAAAATTAA
* * *
10440804 CAAATGTCTTTAAAATAAAAATAAAATTAA
1 CAAATGCCTCTAAAATAAAAACAAAATTAA
10440834 CAA
1 CAA
10440837 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAAAAACAAAATTAA
Found at i:10442942 original size:25 final size:25
Alignment explanation
Indices: 10442905--10443041 Score: 114
Period size: 25 Copynumber: 5.5 Consensus size: 25
10442895 GTAAACACGG
** *
10442905 ATTCTCTGGAAAGCCTTTGTGGTAA
1 ATTCTCTATAAAGCCTTTGTGGCAA
* **
10442930 ATTCTCTATAAAGACTTTGTGGTGA
1 ATTCTCTATAAAGCCTTTGTGGCAA
*
10442955 ATTCTCTATAAAGTCTTTGTGGCAA
1 ATTCTCTATAAAGCCTTTGTGGCAA
* * * * *
10442980 ATTCTTTGTAAACCCTTTGTAGCGA
1 ATTCTCTATAAAGCCTTTGTGGCAA
* *
10443005 ATAT-TCTATGAAGCCTTTGTGGCGA
1 AT-TCTCTATAAAGCCTTTGTGGCAA
* *
10443030 ACTCTCTGTAAA
1 ATTCTCTATAAA
10443042 ATCTTCTTGG
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
24 1 0.01
25 87 0.98
26 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (25 bp):
ATTCTCTATAAAGCCTTTGTGGCAA
Found at i:10442998 original size:50 final size:50
Alignment explanation
Indices: 10442905--10443041 Score: 141
Period size: 50 Copynumber: 2.7 Consensus size: 50
10442895 GTAAACACGG
** * * * * *
10442905 ATTCTCTGGAAAGCCTTTGTGGTAAATTCTCTATAAAGACTTTGTGGTGA
1 ATTCTCTATAAAGCCTTTGTGGCAAATTCTCTGTAAACACTTTGTAGCGA
* * *
10442955 ATTCTCTATAAAGTCTTTGTGGCAAATTCTTTGTAAACCCTTTGTAGCGA
1 ATTCTCTATAAAGCCTTTGTGGCAAATTCTCTGTAAACACTTTGTAGCGA
* * *
10443005 ATAT-TCTATGAAGCCTTTGTGGCGAACTCTCTGTAAA
1 AT-TCTCTATAAAGCCTTTGTGGCAAATTCTCTGTAAA
10443042 ATCTTCTTGG
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
50 70 0.99
51 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (50 bp):
ATTCTCTATAAAGCCTTTGTGGCAAATTCTCTGTAAACACTTTGTAGCGA
Found at i:10446123 original size:34 final size:34
Alignment explanation
Indices: 10446080--10446151 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
10446070 TATCATTAGC
10446080 ATGAAAATATAAATTTCATTCGAGCTTTGGGTCG
1 ATGAAAATATAAATTTCATTCGAGCTTTGGGTCG
*
10446114 ATGAAAATATAAATTTCATTCGAGTTTTGGGTCG
1 ATGAAAATATAAATTTCATTCGAGCTTTGGGTCG
10446148 ATGA
1 ATGA
10446152 TGGCAAGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (34 bp):
ATGAAAATATAAATTTCATTCGAGCTTTGGGTCG
Found at i:10448279 original size:42 final size:42
Alignment explanation
Indices: 10448191--10448351 Score: 151
Period size: 43 Copynumber: 3.8 Consensus size: 42
10448181 CAATGCCAAC
* * *** * *
10448191 GTCCTAGACGTGGTCTTACATGTAATCAAATAACGATGTCACT
1 GTCCCAGACATGGTCTTACACAAAATCACAT-ACGATGTCAAT
*
10448234 GTCCCAGACAGGGTCTTACACAAAATCACATACGATGTCAAT
1 GTCCCAGACATGGTCTTACACAAAATCACATACGATGTCAAT
* * * * *
10448276 GTCCCGGACATGGTCTTACACATAAATCTCAAATCGATGCCAAC
1 GTCCCAGACATGGTCTTACACA-AAATCACATA-CGATGTCAAT
* * *
10448320 GTCCCAAACATGGTCTTACACGATATCACATA
1 GTCCCAGACATGGTCTTACACAAAATCACATA
10448352 TCGAATTTCC
Statistics
Matches: 96, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 30 0.31
43 39 0.41
44 27 0.28
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACAAAATCACATACGATGTCAAT
Found at i:10451426 original size:56 final size:56
Alignment explanation
Indices: 10451320--10451473 Score: 227
Period size: 56 Copynumber: 2.7 Consensus size: 56
10451310 ATAAGTTAGA
* * *
10451320 ATATTATTATGTGATATTATCTTTTTTGCAATTTGATCCCTAATAGGATATTATAGG
1 ATATTATTATGAGATATTATC-TTTTAGCAATTTGATTCCTAATAGGATATTATAGG
* * * *
10451377 GTATTATTATGGGATATTATCTCTTAGCAATTTGATTCCTAATGGGATATTATAGG
1 ATATTATTATGAGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAGG
*
10451433 ATATTATTATGAGATATTATCTTTTAGCAATTTAATTCCTA
1 ATATTATTATGAGATATTATCTTTTAGCAATTTGATTCCTA
10451474 TGTAATTACT
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
56 68 0.78
57 19 0.22
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (56 bp):
ATATTATTATGAGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAGG
Found at i:10455495 original size:44 final size:43
Alignment explanation
Indices: 10455446--10455687 Score: 181
Period size: 44 Copynumber: 5.7 Consensus size: 43
10455436 TTTAATCCGT
* * *
10455446 TCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGG-TTCTTCAGTCTGC
* * * *
10455490 TCCACTGCAACTTCAGGGAGATAAGACTGG--ATGC-GATATGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCAG-TCTGC
* * * * *
10455531 TCTACTGCAACTTCAGAGAGATAAGATCTGTGGTCTT-AATCCGC
1 TCCACTGCAACTTCAGGGAGATAAGAT-TG-GTTCTTCAGTCTGC
* * * *
10455575 TCCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGT-TCTTCAGTCTGC
* * * * *
10455619 TCCACTGCAACTTCAGGGAGATAAGACTGGAT-GT-AATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCAGTCTGC
* * *
10455660 TCTACTGCAACTTTAGAGAGATAAGATT
1 TCCACTGCAACTTCAGGGAGATAAGATT
10455688 TGTAGTTTTA
Statistics
Matches: 154, Mismatches: 36, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
40 1 0.01
41 59 0.38
42 4 0.03
43 5 0.03
44 84 0.55
45 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (43 bp):
TCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCAGTCTGC
Found at i:10455636 original size:129 final size:129
Alignment explanation
Indices: 10455432--10455731 Score: 456
Period size: 129 Copynumber: 2.3 Consensus size: 129
10455422 ACGAGATTTA
* * * ** *
10455432 TGGTTTTAATCCGTTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTG
1 TGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTG
* *
10455497 CAACTTCAGGGAGATAAGACTGGATGCGATATGCTCTACTGCAACTTCAGAGAGATAAGATCTG
66 CAACTTCAGGGAGATAAGACTGGATGCAATATACTCTACTGCAACTTCAGAGAGATAAGATCTG
* *
10455561 TGGTCTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTG
1 TGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTG
* * * *
10455626 CAACTTCAGGGAGATAAGACTGGATGTAATCTACTCTACTGCAACTTTAGAGAGATAAGATTTG
66 CAACTTCAGGGAGATAAGACTGGATGCAATATACTCTACTGCAACTTCAGAGAGATAAGATCTG
* *
10455690 TAGTTTTAATCCACTCCACTGTAACTTCAAGGAGATAGGATT
1 TGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATT
10455732 CGCCATTGCG
Statistics
Matches: 153, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 153 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (129 bp):
TGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTG
CAACTTCAGGGAGATAAGACTGGATGCAATATACTCTACTGCAACTTCAGAGAGATAAGATCTG
Found at i:10455656 original size:85 final size:88
Alignment explanation
Indices: 10455528--10455726 Score: 208
Period size: 85 Copynumber: 2.3 Consensus size: 88
10455518 GGATGCGATA
* * * * *
10455528 TGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTCTTAATCCGCTCCACTGCAACTTCAAG-
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATCGTAATCCACTCCACTGCAACTT-AAGA
* *
10455592 GAGATAGGATTAGTAGCTTCAGTC
65 GAGATAAGATTAGTAGCTTCAATC
* * *
10455616 TGCTCCACTGCAACTTCAGGGAGATAAGA-CTG-GAT-GTAATCTACTCTACTGCAACTTTAGAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATCGTAATCCACTCCACTGCAACTTAAGAG
* * *
10455678 AGATAAGATTTGTAGTTTTAATC
66 AGATAAGATTAGTAGCTTCAATC
** * *
10455701 CACTCCACTGTAACTTCAAGGAGATA
1 TGCTCCACTGCAACTTCAGGGAGATA
10455727 GGATTCGCCA
Statistics
Matches: 93, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
84 2 0.02
85 59 0.63
86 2 0.02
87 3 0.03
88 27 0.29
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (88 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATCGTAATCCACTCCACTGCAACTTAAGAG
AGATAAGATTAGTAGCTTCAATC
Found at i:10455716 original size:44 final size:44
Alignment explanation
Indices: 10455534--10455726 Score: 164
Period size: 44 Copynumber: 4.5 Consensus size: 44
10455524 GATATGCTCT
* * *
10455534 ACTGCAACTTCAGAGAGATAAGATCTGTGGTCTTAATCCGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTGTAGTTTTAATCCACTCC
* * * * **
10455578 ACTGCAACTTCA-AGGAGATAGGAT-TAGTAGCTTCAGTCTGCTCC
1 ACTGCAACTTCAGA-GAGATAAGATCT-GTAGTTTTAATCCACTCC
* * * * *
10455622 ACTGCAACTTCAGGGAGATAAGA-CTG--GATGTAATCTACTCT
1 ACTGCAACTTCAGAGAGATAAGATCTGTAGTTTTAATCCACTCC
* *
10455663 ACTGCAACTTTAGAGAGATAAGATTTGTAGTTTTAATCCACTCC
1 ACTGCAACTTCAGAGAGATAAGATCTGTAGTTTTAATCCACTCC
*
10455707 ACTGTAACTTCA-AGGAGATA
1 ACTGCAACTTCAGA-GAGATA
10455727 GGATTCGCCA
Statistics
Matches: 117, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
41 30 0.26
42 2 0.02
43 4 0.03
44 81 0.69
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGATCTGTAGTTTTAATCCACTCC
Found at i:10455864 original size:50 final size:50
Alignment explanation
Indices: 10455810--10456339 Score: 309
Period size: 50 Copynumber: 10.7 Consensus size: 50
10455800 GCACTGCCAA
* * * * *
10455810 GGAAGTAAGATTCGCTGTTGCGGCTTCAATCTTTTAAATTGCAATATCAG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * * * * ** * * * *
10455860 GGAAGCAATATTCACCGTCGTAGCTTTAATCTGCTCCATTGTACTGCCAG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * * *
10455910 GGAAGTGAGATTCACAGTTGTGGCTTTAATCCTTTT-AATTGCAATGTCGG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAAT-CTTTTCAATTGCAATGTCAG
* * * ** * * *
10455960 GGAA-TAAGATTCGCCATTGTAGCTTCAATCTAATCCACTGC-ATCGCCAG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAAT-GTCAG
* * * * * *
10456009 GAAAGTAAGATTCGCCCTTGCGGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * * * ** * * ****
10456059 GGAAGCAAGATTCACCGTCGTAGCTTTAATCTGGTCCACTGCACCACCAG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * * * * *
10456109 GAAAGTAAGATTCACCGTTGCGGCTTCAGTCTTTTAAATTGGAATGTCGG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* ** * * * *
10456159 GGAACG--AGATTCACCGTTGTAGCTTCAATCTGATCCACTG-TATCGTTAG
1 GGAA-GTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAAT-GTCAG
* * * * *
10456208 GAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * * * * * * *
10456258 GGAA-TAAGATTCACTGTTGTAGCTTCAATATGTTCCACTGCACTGCCAG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* *
10456307 GGAGGTAAGATTCACCGTTGCGGCTTCAATCTT
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTT
10456340 CTTTGCTGCA
Statistics
Matches: 338, Mismatches: 131, Indels: 22
0.69 0.27 0.04
Matches are distributed among these distances:
48 8 0.02
49 97 0.29
50 225 0.67
51 8 0.02
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (50 bp):
GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
Found at i:10456122 original size:199 final size:200
Alignment explanation
Indices: 10455747--10456337 Score: 762
Period size: 199 Copynumber: 3.0 Consensus size: 200
10455737 TTGCGACCTC
* * * * * *
10455747 AATTACAATGTCAGGGAACATGATTCG-CAGTCGTAGCTTGAATCTGTTCCACTGCA-CTGCCAA
1 AATTGCAATGTCGGGGAACAAGATTCGCCA-TTGTAGCTTCAATCTGATCCACTGCATC-GCC-A
* * * *
10455810 GG-AAGTAAGATTCGCTGTTGCGGCTTCAATCTTTTAAATTGCAATATCAGGGAAGCAATATTCA
63 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCA
* * * * * *
10455874 CCGTCGTAGCTTTAATCTGCTCCATTGTACTGCCAGGGAAGTGAGATTCACAGTTGTGGCTTTAA
128 CCGTCGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTAAGATTCACCGTTGCGGCTTCAA
10455939 TCCTTTT-
193 TCCTTTTA
* *
10455946 AATTGCAATGTCGGGGAATAAGATTCGCCATTGTAGCTTCAATCTAATCCACTGCATCGCCAGGA
1 AATTGCAATGTCGGGGAACAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCATCGCCAGGA
* *
10456011 AAGTAAGATTCGCCCTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCG
66 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCG
* ** * *
10456076 TCGTAGCTTTAATCTGGTCCACTGCACCACCAGGAAAGTAAGATTCACCGTTGCGGCTTCAGT-C
131 TCGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTAAGATTCACCGTTGCGGCTTCAATCC
10456140 TTTTA
196 TTTTA
* * * * * **
10456145 AATTGGAATGTCGGGGAACGAGATTCACCGTTGTAGCTTCAATCTGATCCACTGTATCGTTAGGA
1 AATTGCAATGTCGGGGAACAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCATCGCCAGGA
* *
10456210 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAA-TAAGATTCACTG
66 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCG
* * * * *
10456274 TTGTAGCTTCAATATGTTCCACTGCACTGCCAGGGAGGTAAGATTCACCGTTGCGGCTTCAATC
131 TCGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTAAGATTCACCGTTGCGGCTTCAATC
10456338 TTCTTTGCTG
Statistics
Matches: 340, Mismatches: 47, Indels: 10
0.86 0.12 0.03
Matches are distributed among these distances:
198 72 0.21
199 265 0.78
200 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (200 bp):
AATTGCAATGTCGGGGAACAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCATCGCCAGGA
AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCG
TCGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTAAGATTCACCGTTGCGGCTTCAATCC
TTTTA
Found at i:10456350 original size:99 final size:99
Alignment explanation
Indices: 10455747--10456339 Score: 672
Period size: 99 Copynumber: 6.0 Consensus size: 99
10455737 TTGCGACCTC
* * * * * * *
10455747 AATTACAATGTCAGGGAACATGATTCGCAGTCGTAGCTTGAATCTGTTCCACTGCACTGCCAAGG
1 AATTGCAATGTCGGGGAACAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCACTGCC-AGG
* *
10455812 -AAGTAAGATTCGCTGTTGCGGCTTCAATCTTTTA
65 AAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTA
* * * * * * *
10455846 AATTGCAATATCAGGGAAGCAATATTCACCGTCGTAGCTTTAATCTGCTCCATTGTACTGCCAGG
1 AATTGCAATGTCGGGGAA-CAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCACTGCCAGG
* * * * *
10455911 GAAGTGAGATTCACAGTTGTGGCTTTAATCCTTTT-
65 AAAGTAAGATTCACCGTTGCGGCTTCAAT-CTTTTA
* * * * *
10455946 AATTGCAATGTCGGGGAATAAGATTCGCCATTGTAGCTTCAATCTAATCCACTGCA-TCGCCAGG
1 AATTGCAATGTCGGGGAACAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCACT-GCCAGG
* * *
10456010 AAAGTAAGATTCGCCCTTGCGGCTTCAATCTTTTT
65 AAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTA
* * **
10456045 AATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGGTCCACTGCACCACCAGG
1 AATTGCAATGTCGGGGAA-CAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCACTGCCAGG
*
10456110 AAAGTAAGATTCACCGTTGCGGCTTCAGTCTTTTA
65 AAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTA
* * * * **
10456145 AATTGGAATGTCGGGGAACGAGATTCACCGTTGTAGCTTCAATCTGATCCACTGTA-TCGTTAGG
1 AATTGCAATGTCGGGGAACAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCACT-GCCAGG
*
10456209 AAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTA
65 AAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTA
* * * * * *
10456244 AATTGCAATGTCGGGGAATAAGATTCACTGTTGTAGCTTCAATATGTTCCACTGCACTGCCAGGG
1 AATTGCAATGTCGGGGAACAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCACTGCCAGGA
*
10456309 AGGTAAGATTCACCGTTGCGGCTTCAATCTT
66 AAGTAAGATTCACCGTTGCGGCTTCAATCTT
10456340 CTTTGCTGCA
Statistics
Matches: 414, Mismatches: 71, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
98 6 0.01
99 244 0.59
100 159 0.38
101 5 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (99 bp):
AATTGCAATGTCGGGGAACAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCACTGCCAGGA
AAGTAAGATTCACCGTTGCGGCTTCAATCTTTTA
Found at i:10456519 original size:90 final size:90
Alignment explanation
Indices: 10456380--10456630 Score: 387
Period size: 90 Copynumber: 2.8 Consensus size: 90
10456370 GTTTCGCCAT
*
10456380 CAATACAGGAAGGCAAGATCTGTTATCTTCAGTCTACTTTGCTGA-CAATACAGGAAGACAAGAC
1 CAATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTTTGCT-ACCAATACAGGAAGACAAGAC
10456444 TTGCTATCTTCGATCTACTTCGCTGC
65 TTGCTATCTTCGATCTACTTCGCTGC
* *
10456470 CAATACAGGAAGACAAGATCTGTTATCTTTAGTCTACTTCGCTACCAATACAGGAAGACAAGACT
1 CAATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTTTGCTACCAATACAGGAAGACAAGACT
* *
10456535 TACTATCTTCGATCTACTTCGCTGT
66 TGCTATCTTCGATCTACTTCGCTGC
* * * * * *
10456560 CAATACAGGAAGACAAGATCTGCTACCTTCAGTTTACTTTACTGCCAATATAGGAAGACAAGACT
1 CAATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTTTGCTACCAATACAGGAAGACAAGACT
10456625 TGCTAT
66 TGCTAT
10456631 GATGACTTCA
Statistics
Matches: 146, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
89 1 0.01
90 145 0.99
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (90 bp):
CAATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTTTGCTACCAATACAGGAAGACAAGACT
TGCTATCTTCGATCTACTTCGCTGC
Found at i:10456615 original size:135 final size:135
Alignment explanation
Indices: 10456380--10456622 Score: 334
Period size: 135 Copynumber: 1.8 Consensus size: 135
10456370 GTTTCGCCAT
* *
10456380 CAATACAGGAAGGCAAGATCTGTTATCTTCAGTCTACTTTGCTGACAATACAGGAAGACAAGACT
1 CAATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTTCGCTGACAATACAGGAAGACAAGACT
* *
10456445 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTTAGTCTACTTC
66 TGCTACCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGTTATCTTTAGTCTACTTC
10456510 GCTAC
131 GCTAC
*
10456515 CAATACAGGAAGACAAGA-CT-TACTATCTTC-GATCTACTTCGCTGTCAATACAGGAAGACAAG
1 CAATACAGGAAGACAAGATCTGT--TATCTTCAG-TCTACTTCGCTGACAATACAGGAAGACAAG
* * *
10456577 A-TCTGCTACCTTC-AGTTTACTTTACTGCCAATATAGGAAGACAAGA
63 ACT-TGCTACCTTCGA-TCTACTTCACTGCCAATACAGGAAGACAAGA
10456623 CTTGCTATGA
Statistics
Matches: 95, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
133 1 0.01
134 5 0.05
135 89 0.94
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (135 bp):
CAATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTTCGCTGACAATACAGGAAGACAAGACT
TGCTACCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGTTATCTTTAGTCTACTTC
GCTAC
Found at i:10456629 original size:45 final size:45
Alignment explanation
Indices: 10456380--10456630 Score: 296
Period size: 45 Copynumber: 5.6 Consensus size: 45
10456370 GTTTCGCCAT
* * * *
10456380 CAATACAGGAAGGCAAGATCTGTTATCTTCAGTCTACTTTGCTGA
1 CAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGC
10456425 CAATACAGGAAGACAAGA-CTTGCTATCTTC-GATCTACTTCGCTGC
1 CAATACAGGAAGACAAGATC-TGCTATCTTCAG-TCTACTTCGCTGC
* * *
10456470 CAATACAGGAAGACAAGATCTGTTATCTTTAGTCTACTTCGCTAC
1 CAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGC
* *
10456515 CAATACAGGAAGACAAGA-CTTACTATCTTC-GATCTACTTCGCTGT
1 CAATACAGGAAGACAAGATC-TGCTATCTTCAG-TCTACTTCGCTGC
* * **
10456560 CAATACAGGAAGACAAGATCTGCTACCTTCAGTTTACTTTACTGC
1 CAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGC
*
10456605 CAATATAGGAAGACAAGA-CTTGCTAT
1 CAATACAGGAAGACAAGATC-TGCTAT
10456631 GATGACTTCA
Statistics
Matches: 177, Mismatches: 20, Indels: 18
0.82 0.09 0.08
Matches are distributed among these distances:
44 5 0.03
45 168 0.95
46 4 0.02
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (45 bp):
CAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGC
Found at i:10457183 original size:46 final size:44
Alignment explanation
Indices: 10457084--10457185 Score: 105
Period size: 46 Copynumber: 2.2 Consensus size: 44
10457074 GCAAAGCTCG
* * *
10457084 AAATGAATGAATCAATCAAGATAGCAATTTTTGCTAGAATAAAA
1 AAATGAATAAATCAATCAAGATAGCAATTTTTGCAAAAATAAAA
* * * * *
10457128 AATAAGAATAAATTAATCAAGATGGCGTATTTTTTCAAAAATACAAA
1 AA-ATGAATAAATCAATCAAGATAGC-AATTTTTGCAAAAATA-AAA
10457175 AAATGAATAAA
1 AAATGAATAAA
10457186 ATGGAAATAG
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
44 2 0.04
45 19 0.41
46 20 0.43
47 5 0.11
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (44 bp):
AAATGAATAAATCAATCAAGATAGCAATTTTTGCAAAAATAAAA
Found at i:10457952 original size:8 final size:8
Alignment explanation
Indices: 10457939--10458007 Score: 52
Period size: 8 Copynumber: 8.6 Consensus size: 8
10457929 CCGGTAGAGG
10457939 TTTTTTGT
1 TTTTTTGT
*
10457947 TTTTTT-A
1 TTTTTTGT
10457954 TTTTTT-T
1 TTTTTTGT
* *
10457961 TATTTTCT
1 TTTTTTGT
* *
10457969 TATTTTCT
1 TTTTTTGT
10457977 TATTTTTGTT
1 T-TTTTTG-T
10457987 TTTTTTGT
1 TTTTTTGT
*
10457995 TTTTTTAT
1 TTTTTTGT
10458003 TTTTT
1 TTTTT
10458008 GCCTCCACGG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
7 11 0.21
8 29 0.56
9 10 0.19
10 2 0.04
ACGTcount: A:0.07, C:0.03, G:0.04, T:0.86
Consensus pattern (8 bp):
TTTTTTGT
Found at i:10457958 original size:9 final size:9
Alignment explanation
Indices: 10457946--10458007 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
10457936 AGGTTTTTTG
10457946 TTTTTTTAT
1 TTTTTTTAT
10457955 TTTTTTTAT
1 TTTTTTTAT
*
10457964 TTTCTTATTTT
1 TTT-TT-TTAT
*
10457975 CTTATTTTTGT
1 -TT-TTTTTAT
*
10457986 TTTTTTT-G
1 TTTTTTTAT
10457994 TTTTTTTAT
1 TTTTTTTAT
10458003 TTTTT
1 TTTTT
10458008 GCCTCCACGG
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 7 0.16
9 22 0.50
10 4 0.09
11 6 0.14
12 4 0.09
13 1 0.02
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.85
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:10463704 original size:18 final size:17
Alignment explanation
Indices: 10463671--10463704 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10463661 AATTTTCATG
10463671 ATAAAAAATGATAAAAA
1 ATAAAAAATGATAAAAA
*
10463688 ATAAAAGAATTATAAAA
1 ATAAAA-AATGATAAAA
10463705 TAAATAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
ATAAAAAATGATAAAAA
Found at i:10466584 original size:13 final size:13
Alignment explanation
Indices: 10466568--10466592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10466558 TTACCTCTTT
10466568 ATTTAATTTTTAA
1 ATTTAATTTTTAA
10466581 ATTTAATTTTTA
1 ATTTAATTTTTA
10466593 TGAAATAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTAATTTTTAA
Found at i:10471464 original size:86 final size:85
Alignment explanation
Indices: 10471301--10471465 Score: 253
Period size: 86 Copynumber: 1.9 Consensus size: 85
10471291 AACCGAGTTA
*
10471301 GTAAATAATTATTAGGAGTAATTAAAATTATGAGTTTGATAGTGTGTTTAATTATTTTTTTTGAA
1 GTAAATAATTATTAGGAGTAATTAAAATTATGAGTCTGATAGTGTGTTTAATTATTTTTTTT-AA
*
10471366 GTTAGTTTAATTTAAAGTAAT
65 GTTAGTTGAATTTAAAGTAAT
10471387 GTAAATAATTATTAGGAGTAATTAAAATTATGAGTCTGATAGTGTGTTTAATTAGATTTCTTTTT
1 GTAAATAATTATTAGGAGTAATTAAAATTATGAGTCTGATAGTGTGTTTAATT--ATTT-TTTTT
*
10471452 -ATTTAG-TGAATTTA
63 AAGTTAGTTGAATTTA
10471466 GTTTAATTTA
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
86 59 0.81
87 5 0.07
88 4 0.05
89 5 0.07
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.47
Consensus pattern (85 bp):
GTAAATAATTATTAGGAGTAATTAAAATTATGAGTCTGATAGTGTGTTTAATTATTTTTTTTAAG
TTAGTTGAATTTAAAGTAAT
Found at i:10471658 original size:17 final size:16
Alignment explanation
Indices: 10471636--10471669 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10471626 ATTATATAAT
10471636 TAATGATAATTAAATTA
1 TAATGAT-ATTAAATTA
*
10471653 TAATGATATTATATTA
1 TAATGATATTAAATTA
10471669 T
1 T
10471670 TAAATAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TAATGATATTAAATTA
Found at i:10473511 original size:804 final size:804
Alignment explanation
Indices: 10471963--10473571 Score: 3218
Period size: 804 Copynumber: 2.0 Consensus size: 804
10471953 AGAAAAGAAA
10471963 ACATAAAACAAAAGAAACAAAGCTAAAAGTAACAGAGGCCATTTCGAAACAGAGCATGAAAGAAA
1 ACATAAAACAAAAGAAACAAAGCTAAAAGTAACAGAGGCCATTTCGAAACAGAGCATGAAAGAAA
10472028 AAGGAAAGAAAGAAGAAAGGGAAAATTAGAGTTTTAAAGCTTGAAATTTAATTGGTAAGTTTAAT
66 AAGGAAAGAAAGAAGAAAGGGAAAATTAGAGTTTTAAAGCTTGAAATTTAATTGGTAAGTTTAAT
10472093 CAATACATTTTCTTATAAATTTGATGTTTTTGAAATCCTAGAGTGAAATACTCTTGGATTTAAGT
131 CAATACATTTTCTTATAAATTTGATGTTTTTGAAATCCTAGAGTGAAATACTCTTGGATTTAAGT
10472158 TGAAATTTTGAAAGTTAATAGATTTTTTAGTAGGGTTTATGTTGAAAAAAAATGGTGGAATTGAG
196 TGAAATTTTGAAAGTTAATAGATTTTTTAGTAGGGTTTATGTTGAAAAAAAATGGTGGAATTGAG
10472223 GGTTTATTTGATAGAAATTTTGATTGGAATTGAATAAAGAATTGAATTGTAAATTAAGCTATATG
261 GGTTTATTTGATAGAAATTTTGATTGGAATTGAATAAAGAATTGAATTGTAAATTAAGCTATATG
10472288 TTTTGAGTTTTAGGGATTAAATTGAAATTATGAAAATATGATAAGAATTAGATAGTTAAATGTGA
326 TTTTGAGTTTTAGGGATTAAATTGAAATTATGAAAATATGATAAGAATTAGATAGTTAAATGTGA
10472353 GTTTGGCAAGAAATTGAGTAGCAAAAGGGTATGGATTGAGAAGAAAAATATATAGGTTTAGTTAG
391 GTTTGGCAAGAAATTGAGTAGCAAAAGGGTATGGATTGAGAAGAAAAATATATAGGTTTAGTTAG
10472418 GATTCAAATTGGAATTAAAGTAAAAGTTAAATAAAAATTTCAGCAATTAAATTGTGTTGTGCTAA
456 GATTCAAATTGGAATTAAAGTAAAAGTTAAATAAAAATTTCAGCAATTAAATTGTGTTGTGCTAA
10472483 TGATTGTGAAATTATTTTAATTGTTCGTAGCTAATATCGAGTCTGAAGCATCGACCCAAAAAGGA
521 TGATTGTGAAATTATTTTAATTGTTCGTAGCTAATATCGAGTCTGAAGCATCGACCCAAAAAGGA
10472548 AAAGAAAAGATCGTAGAGGATTAAATCCGAAGAGAATTCTGGTTTGTATCACTACAATTCAAACT
586 AAAGAAAAGATCGTAGAGGATTAAATCCGAAGAGAATTCTGGTTTGTATCACTACAATTCAAACT
10472613 TTATCATTATTATGTGTTTAATTTACTAATTATATGTGGTAAGTATTTTAAGGTAAGTGTTTAGT
651 TTATCATTATTATGTGTTTAATTTACTAATTATATGTGGTAAGTATTTTAAGGTAAGTGTTTAGT
10472678 AAAATGAAAATTTATGATTGGGTATTGAAAGTGAGACTGATATTGAACTGTATTATGGAATACTG
716 AAAATGAAAATTTATGATTGGGTATTGAAAGTGAGACTGATATTGAACTGTATTATGGAATACTG
10472743 AATATTGTTTTTGAGTACTAAATT
781 AATATTGTTTTTGAGTACTAAATT
10472767 ACATAAAACAAAAGAAACAAAGCTAAAAGTAACAGAGGCCATTTCGAAACAGAGCATGAAAGAAA
1 ACATAAAACAAAAGAAACAAAGCTAAAAGTAACAGAGGCCATTTCGAAACAGAGCATGAAAGAAA
10472832 AAGGAAAGAAAGAAGAAAGGGAAAATTAGAGTTTTAAAGCTTGAAATTTAATTGGTAAGTTTAAT
66 AAGGAAAGAAAGAAGAAAGGGAAAATTAGAGTTTTAAAGCTTGAAATTTAATTGGTAAGTTTAAT
10472897 CAATACATTTTCTTATAAATTTGATGTTTTTGAAATCCTAGAGTGAAATACTCTTGGATTTAAGT
131 CAATACATTTTCTTATAAATTTGATGTTTTTGAAATCCTAGAGTGAAATACTCTTGGATTTAAGT
10472962 TGAAATTTTGAAAGTTAATAGATTTTTTAGTAGGGTTTATGTTGAAAAAAAATGGTGGAATTGAG
196 TGAAATTTTGAAAGTTAATAGATTTTTTAGTAGGGTTTATGTTGAAAAAAAATGGTGGAATTGAG
10473027 GGTTTATTTGATAGAAATTTTGATTGGAATTGAATAAAGAATTGAATTGTAAATTAAGCTATATG
261 GGTTTATTTGATAGAAATTTTGATTGGAATTGAATAAAGAATTGAATTGTAAATTAAGCTATATG
10473092 TTTTGAGTTTTAGGGATTAAATTGAAATTATGAAAATATGATAAGAATTAGATAGTTAAATGTGA
326 TTTTGAGTTTTAGGGATTAAATTGAAATTATGAAAATATGATAAGAATTAGATAGTTAAATGTGA
10473157 GTTTGGCAAGAAATTGAGTAGCAAAAGGGTATGGATTGAGAAGAAAAATATATAGGTTTAGTTAG
391 GTTTGGCAAGAAATTGAGTAGCAAAAGGGTATGGATTGAGAAGAAAAATATATAGGTTTAGTTAG
10473222 GATTCAAATTGGAATTAAAGTAAAAGTTAAATAAAAATTTCAGCAATTAAATTGTGTTGTGCTAA
456 GATTCAAATTGGAATTAAAGTAAAAGTTAAATAAAAATTTCAGCAATTAAATTGTGTTGTGCTAA
10473287 TGATTGTGAAATTATTTTAATTGTTCGTAGCTAATATCGAGTCTGAAGCATCGACCCAAAAAGGA
521 TGATTGTGAAATTATTTTAATTGTTCGTAGCTAATATCGAGTCTGAAGCATCGACCCAAAAAGGA
10473352 AAAGAAAAGATCGTAGAGGATTAAATCCGAAGAGAATTCTGGTTTGTATCACTACAATTCAAACT
586 AAAGAAAAGATCGTAGAGGATTAAATCCGAAGAGAATTCTGGTTTGTATCACTACAATTCAAACT
10473417 TTATCATTATTATGTGTTTAATTTACTAATTATATGTGGTAAGTATTTTAAGGTAAGTGTTTAGT
651 TTATCATTATTATGTGTTTAATTTACTAATTATATGTGGTAAGTATTTTAAGGTAAGTGTTTAGT
10473482 AAAATGAAAATTTATGATTGGGTATTGAAAGTGAGACTGATATTGAACTGTATTATGGAATACTG
716 AAAATGAAAATTTATGATTGGGTATTGAAAGTGAGACTGATATTGAACTGTATTATGGAATACTG
10473547 AATATTGTTTTTGAGTACTAAATT
781 AATATTGTTTTTGAGTACTAAATT
10473571 A
1 A
10473572 AATTGTGAAG
Statistics
Matches: 805, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
804 805 1.00
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (804 bp):
ACATAAAACAAAAGAAACAAAGCTAAAAGTAACAGAGGCCATTTCGAAACAGAGCATGAAAGAAA
AAGGAAAGAAAGAAGAAAGGGAAAATTAGAGTTTTAAAGCTTGAAATTTAATTGGTAAGTTTAAT
CAATACATTTTCTTATAAATTTGATGTTTTTGAAATCCTAGAGTGAAATACTCTTGGATTTAAGT
TGAAATTTTGAAAGTTAATAGATTTTTTAGTAGGGTTTATGTTGAAAAAAAATGGTGGAATTGAG
GGTTTATTTGATAGAAATTTTGATTGGAATTGAATAAAGAATTGAATTGTAAATTAAGCTATATG
TTTTGAGTTTTAGGGATTAAATTGAAATTATGAAAATATGATAAGAATTAGATAGTTAAATGTGA
GTTTGGCAAGAAATTGAGTAGCAAAAGGGTATGGATTGAGAAGAAAAATATATAGGTTTAGTTAG
GATTCAAATTGGAATTAAAGTAAAAGTTAAATAAAAATTTCAGCAATTAAATTGTGTTGTGCTAA
TGATTGTGAAATTATTTTAATTGTTCGTAGCTAATATCGAGTCTGAAGCATCGACCCAAAAAGGA
AAAGAAAAGATCGTAGAGGATTAAATCCGAAGAGAATTCTGGTTTGTATCACTACAATTCAAACT
TTATCATTATTATGTGTTTAATTTACTAATTATATGTGGTAAGTATTTTAAGGTAAGTGTTTAGT
AAAATGAAAATTTATGATTGGGTATTGAAAGTGAGACTGATATTGAACTGTATTATGGAATACTG
AATATTGTTTTTGAGTACTAAATT
Found at i:10473619 original size:40 final size:41
Alignment explanation
Indices: 10473542--10473629 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 41
10473532 TATTATGGAA
* * *
10473542 TACTGAATATTGTTTTTGAGTACTAAATTAAATTGTGAAGT
1 TACTGAATATTGTTTATGAGTACTAAATTAAACTGTGAAAT
* ** *
10473583 TACTGAATATTG-TTATGTGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTGTTTATGAGTACTAAATTAAACTGTGAAAT
10473623 TACTGAA
1 TACTGAA
10473630 GTAATGAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 28 0.70
41 12 0.30
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (41 bp):
TACTGAATATTGTTTATGAGTACTAAATTAAACTGTGAAAT
Found at i:10473901 original size:45 final size:45
Alignment explanation
Indices: 10473833--10473933 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 45
10473823 GCTGACTACT
* *
10473833 GTTACTGTTACCGATTAACCACTTCGTGTGTCGGATACTGTTACC
1 GTTACTGTTACAGATTAACCACTTCGTGTGTCGAATACTGTTACC
* * * * * *
10473878 GTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATATTGTTACT
1 GTTACTGTTACAGATTAACCACTTCGTGTGTCGAATACTGTTACC
*
10473923 GTTATTGTTAC
1 GTTACTGTTAC
10473934 CGTTACTGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (45 bp):
GTTACTGTTACAGATTAACCACTTCGTGTGTCGAATACTGTTACC
Found at i:10479922 original size:17 final size:16
Alignment explanation
Indices: 10479900--10479933 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10479890 ATTATATAAT
10479900 TAATGATAATTAAATTA
1 TAATGAT-ATTAAATTA
*
10479917 TAATGATATTATATTA
1 TAATGATATTAAATTA
10479933 T
1 T
10479934 TAAATAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TAATGATATTAAATTA
Found at i:10484636 original size:24 final size:24
Alignment explanation
Indices: 10484598--10484643 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
10484588 CATATATCAT
10484598 TAAGCACAAAGTGC-AAATAATGA
1 TAAGCACAAAGTGCAAAATAATGA
*
10484621 TAAGCACCGAAGTGCAAAATAAT
1 TAAGCA-CAAAGTGCAAAATAAT
10484644 TACAATAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (24 bp):
TAAGCACAAAGTGCAAAATAATGA
Found at i:10486286 original size:25 final size:24
Alignment explanation
Indices: 10486252--10486442 Score: 82
Period size: 25 Copynumber: 8.1 Consensus size: 24
10486242 CTTATCAGGG
10486252 TACGCCACAAAGGCAACATATAGAA
1 TACGCCACAAAGGC-ACATATAGAA
10486277 TACGCCACAAAGG--C-TATCAGAA
1 TACGCCACAAAGGCACATAT-AGAA
* * * *
10486299 TATGCCACAAA-ACGC-TATCAGAG
1 TACGCCACAAAGGCACATAT-AGAA
** ** * *
10486322 TTTGCCACAAATGAAACATACATAA
1 TACGCCACAAA-GGCACATATAGAA
*
10486347 TACGCCACAAAGGTCA-A-ATAAAA
1 TACGCCACAAAGG-CACATATAGAA
*
10486370 TACACCACAAA-G-AC-TATCA-AA
1 TACGCCACAAAGGCACATAT-AGAA
* *
10486391 GTACGCCACAAAGGCAACATACAAAA
1 -TACGCCACAAAGGC-ACATATAGAA
* *
10486417 TACACCACAAAGGC-CAAATAGAA
1 TACGCCACAAAGGCACATATAGAA
10486440 TAC
1 TAC
10486443 CACCCAGACA
Statistics
Matches: 128, Mismatches: 22, Indels: 34
0.70 0.12 0.18
Matches are distributed among these distances:
20 1 0.01
21 7 0.05
22 27 0.21
23 42 0.33
24 2 0.02
25 43 0.34
26 6 0.05
ACGTcount: A:0.48, C:0.25, G:0.13, T:0.14
Consensus pattern (24 bp):
TACGCCACAAAGGCACATATAGAA
Found at i:10486319 original size:23 final size:23
Alignment explanation
Indices: 10486273--10486332 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
10486263 GGCAACATAT
* *
10486273 AGAATACGCCAC-AAAGGCTATC
1 AGAATATGCCACAAAACGCTATC
10486295 AGAATATGCCACAAAACGCTATC
1 AGAATATGCCACAAAACGCTATC
* *
10486318 AGAGTTTGCCACAAA
1 AGAATATGCCACAAA
10486333 TGAAACATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 11 0.33
23 22 0.67
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.17
Consensus pattern (23 bp):
AGAATATGCCACAAAACGCTATC
Found at i:10488382 original size:24 final size:24
Alignment explanation
Indices: 10488355--10488440 Score: 68
Period size: 25 Copynumber: 3.5 Consensus size: 24
10488345 TCCTGAAATC
10488355 GGCTCGTATGAGCTTCCTGTTAAT
1 GGCTCGTATGAGCTTCCTGTTAAT
**
10488379 GGCTC-TCCA-GAGCTTCCAATTACAT
1 GGCTCGT--ATGAGCTTCCTGTTA-AT
*** *
10488404 GGCTCACGTGAGCTTCCTGTTTAT
1 GGCTCGTATGAGCTTCCTGTTAAT
10488428 GTGCTCGTATGAG
1 G-GCTCGTATGAG
10488441 TATTCCCGAA
Statistics
Matches: 46, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
23 1 0.02
24 19 0.41
25 26 0.57
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.34
Consensus pattern (24 bp):
GGCTCGTATGAGCTTCCTGTTAAT
Found at i:10494432 original size:32 final size:31
Alignment explanation
Indices: 10494374--10494436 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
10494364 GCCCGAAGGA
*
10494374 TCTTTGGTGTGAACACTCGGATTTGAATGGT
1 TCTTTGGTGTGAACACTAGGATTTGAATGGT
*
10494405 TCTTTGGGTGTGAACACCTAGTA-TTGAATGGT
1 TCTTT-GGTGTGAACA-CTAGGATTTGAATGGT
10494437 CCATTGAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 5 0.18
32 19 0.68
33 4 0.14
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.38
Consensus pattern (31 bp):
TCTTTGGTGTGAACACTAGGATTTGAATGGT
Found at i:10497611 original size:24 final size:24
Alignment explanation
Indices: 10497584--10497641 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
10497574 CAGCTCGAAA
* *
10497584 GAGCATCCCGTTATTAGCTC-TCAT
1 GAGCATCCCGTTAATAGCTCTTC-G
*
10497608 GAGCTTCCCGTTAATAGCTCTTCG
1 GAGCATCCCGTTAATAGCTCTTCG
10497632 GAGCATCCCG
1 GAGCATCCCG
10497642 ATTGGTTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 27 0.93
25 2 0.07
ACGTcount: A:0.19, C:0.31, G:0.21, T:0.29
Consensus pattern (24 bp):
GAGCATCCCGTTAATAGCTCTTCG
Found at i:10497778 original size:26 final size:26
Alignment explanation
Indices: 10497740--10497811 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
10497730 GCTCTTTCAT
* * *
10497740 GAGCTTATCGATTAATTGGCTCTCTA
1 GAGCTTCTTGATTAATTGGCTCTCCA
*
10497766 GAGCTTCTTGATTAAGTGGCTCTCCA
1 GAGCTTCTTGATTAATTGGCTCTCCA
*
10497792 GAGCTTCCTGA-T-ATTGGCTC
1 GAGCTTCTTGATTAATTGGCTC
10497812 ACTTGAACCT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.17
25 1 0.03
26 32 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
GAGCTTCTTGATTAATTGGCTCTCCA
Found at i:10500738 original size:7 final size:8
Alignment explanation
Indices: 10500683--10500742 Score: 59
Period size: 8 Copynumber: 7.0 Consensus size: 8
10500673 TTAGAAATTC
10500683 AAAAA-AT
1 AAAAATAT
10500690 AAAAATCATT
1 AAAAAT-A-T
*
10500700 AAAATTATT
1 AAAAATA-T
10500709 AAAAAAGTAT
1 -AAAAA-TAT
10500719 AAAAATAT
1 AAAAATAT
10500727 AAAAATAT
1 AAAAATAT
10500735 AAAAATAT
1 AAAAATAT
10500743 TTGTTAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
7 5 0.11
8 19 0.41
9 9 0.20
10 11 0.24
11 2 0.04
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (8 bp):
AAAAATAT
Found at i:10503481 original size:25 final size:24
Alignment explanation
Indices: 10503430--10503514 Score: 82
Period size: 25 Copynumber: 3.5 Consensus size: 24
10503420 CACACCACAA
* *
10503430 CTCGTATGAGCTTCTCGATTTCTAG
1 CTCGTATGAGCTTATCGTTTTC-AG
10503455 CTCGTATGAGCTTATCGTTATTCAG
1 CTCGTATGAGCTTATCGTT-TTCAG
* * *
10503480 CTCAG-AAGAGCTTACCGTTTACAG
1 CTC-GTATGAGCTTATCGTTTTCAG
*
10503504 CTTGTATGAGC
1 CTCGTATGAGC
10503515 ATACATGTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.02
24 11 0.22
25 34 0.68
26 4 0.08
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.35
Consensus pattern (24 bp):
CTCGTATGAGCTTATCGTTTTCAG
Found at i:10510854 original size:25 final size:25
Alignment explanation
Indices: 10510811--10510956 Score: 193
Period size: 25 Copynumber: 5.8 Consensus size: 25
10510801 CACACCACAG
* *
10510811 CTCGTATGAGCTTCTCGATTTGCAA
1 CTCGTATGAGCTTCCCGATTTACAA
* * *
10510836 CTCTTATGAGATTCCCGATTTGCAA
1 CTCGTATGAGCTTCCCGATTTACAA
*
10510861 CTCGTATGAGCTTCCCGATTTACAG
1 CTCGTATGAGCTTCCCGATTTACAA
*
10510886 CTCGTATGAGCTTCCCGATTTATAA
1 CTCGTATGAGCTTCCCGATTTACAA
* * *
10510911 CTCATATGAGCTTCCCGATTTATAG
1 CTCGTATGAGCTTCCCGATTTACAA
*
10510936 CTCGTATGAGCTTCACGATTT
1 CTCGTATGAGCTTCCCGATTT
10510957 GTAGGAAGAG
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 108 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (25 bp):
CTCGTATGAGCTTCCCGATTTACAA
Found at i:10510930 original size:75 final size:75
Alignment explanation
Indices: 10510807--10510956 Score: 219
Period size: 75 Copynumber: 2.0 Consensus size: 75
10510797 CTGACACACC
* * * *
10510807 ACAGCTCGTATGAGCTTCTCGATTTGCAACTCTTATGAGATTCCCGATTTGCAACTCGTATGAGC
1 ACAGCTCGTATGAGCTTCCCGATTTACAACTCATATGAGATTCCCGATTTACAACTCGTATGAGC
*
10510872 TTCCCGATTT
66 TTCACGATTT
* * * *
10510882 ACAGCTCGTATGAGCTTCCCGATTTATAACTCATATGAGCTTCCCGATTTATAGCTCGTATGAGC
1 ACAGCTCGTATGAGCTTCCCGATTTACAACTCATATGAGATTCCCGATTTACAACTCGTATGAGC
10510947 TTCACGATTT
66 TTCACGATTT
10510957 GTAGGAAGAG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (75 bp):
ACAGCTCGTATGAGCTTCCCGATTTACAACTCATATGAGATTCCCGATTTACAACTCGTATGAGC
TTCACGATTT
Found at i:10513805 original size:30 final size:30
Alignment explanation
Indices: 10513769--10513827 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
10513759 ATTTGTGAAC
* * *
10513769 ATTGAACTAAATTAAAATTTCATGTATAAA
1 ATTGAACAAAATAAAAAATTCATGTATAAA
10513799 ATTGAACAAAATAAAAAATTCATGTATAA
1 ATTGAACAAAATAAAAAATTCATGTATAA
10513828 TTTTATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (30 bp):
ATTGAACAAAATAAAAAATTCATGTATAAA
Found at i:10516059 original size:18 final size:18
Alignment explanation
Indices: 10516028--10516071 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
10516018 AAAAGTTTCA
*
10516028 AAATAATTTTTAAAAATCC
1 AAAT-ATTTATAAAAATCC
*
10516047 AAATATTTATAAAAATTC
1 AAATATTTATAAAAATCC
10516065 AAA-ATTT
1 AAATATTT
10516072 TTATATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 15 0.65
19 4 0.17
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATATTTATAAAAATCC
Found at i:10516061 original size:19 final size:19
Alignment explanation
Indices: 10516025--10516076 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
10516015 ACAAAAAGTT
*
10516025 TCAAAATAATTT-TTAAAAA
1 TCAAAAT-ATTTATAAAAAA
* *
10516044 TCCAAATATTTATAAAAAT
1 TCAAAATATTTATAAAAAA
*
10516063 TCAAAATTTTTATA
1 TCAAAATATTTATA
10516077 TTTTTTAAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (19 bp):
TCAAAATATTTATAAAAAA
Found at i:10522176 original size:20 final size:20
Alignment explanation
Indices: 10522148--10522190 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
10522138 AAAATGGTTT
* *
10522148 AAACTTTTTTAACTCAATTG
1 AAACATTTTTAAATCAATTG
10522168 AAACATTTTTAAATCAATTG
1 AAACATTTTTAAATCAATTG
10522188 AAA
1 AAA
10522191 AATTGCTCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.40
Consensus pattern (20 bp):
AAACATTTTTAAATCAATTG
Found at i:10522420 original size:21 final size:20
Alignment explanation
Indices: 10522393--10522448 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
10522383 CAAACAATTA
10522393 TAAAAAGTATTGATACCTTT
1 TAAAAAGTATTGATACCTTT
*
10522413 TCAAAAAGTATTAATACCTTT
1 T-AAAAAGTATTGATACCTTT
**
10522434 TACCAAGTATTGATA
1 TAAAAAGTATTGATA
10522449 AAATGTCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.39
21 19 0.61
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (20 bp):
TAAAAAGTATTGATACCTTT
Found at i:10523881 original size:29 final size:29
Alignment explanation
Indices: 10523839--10523895 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
10523829 AAAAAAAAAG
10523839 TTAAACACCAAAATGATATGTCAGTAGGA
1 TTAAACACCAAAATGATATGTCAGTAGGA
* * *
10523868 TTAAATACCAAAATGGTATGTTAGTAGG
1 TTAAACACCAAAATGATATGTCAGTAGG
10523896 GGTGGTGTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (29 bp):
TTAAACACCAAAATGATATGTCAGTAGGA
Found at i:10524277 original size:14 final size:14
Alignment explanation
Indices: 10524258--10524306 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
10524248 AAAAAGAGGG
10524258 AAAGAAAGGAGAAA
1 AAAGAAAGGAGAAA
10524272 AAAGAAAGGA-AAA
1 AAAGAAAGGAGAAA
* *
10524285 GAAG-AAGAAGAAA
1 AAAGAAAGGAGAAA
10524298 GAAAGAAAG
1 -AAAGAAAG
10524307 AAAGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 4 0.14
13 9 0.31
14 13 0.45
15 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
AAAGAAAGGAGAAA
Found at i:10524279 original size:4 final size:4
Alignment explanation
Indices: 10524257--10524313 Score: 52
Period size: 4 Copynumber: 15.0 Consensus size: 4
10524247 AAAAAAGAGG
*
10524257 GAAA GAAA G-GA GAAA -AAA GAAA GGAAA -AGAA G-AA G-AA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GA-AA GAAA GAAA GAAA GAAA
10524302 GAAA GAAA GAAA
1 GAAA GAAA GAAA
10524314 AGGTATATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
3 12 0.27
4 29 0.64
5 4 0.09
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:10524282 original size:23 final size:23
Alignment explanation
Indices: 10524247--10524312 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
10524237 GGCAAAGAGA
* *
10524247 AAAAAAG-AGGGAAAGAAAGGAG
1 AAAAAAGAAAGGAAAGAAAGAAG
10524269 AAAAAAGAAAGGAAA-AGAAGAAG
1 AAAAAAGAAAGGAAAGA-AAGAAG
*
10524292 AAGAAAGAAA-GAAAGAAAGAA
1 AAAAAAGAAAGGAAAGAAAGAA
10524313 AAGGTATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
22 17 0.45
23 21 0.55
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (23 bp):
AAAAAAGAAAGGAAAGAAAGAAG
Found at i:10524311 original size:19 final size:19
Alignment explanation
Indices: 10524257--10524313 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
10524247 AAAAAAGAGG
*
10524257 GAAAGAAAGGAGAAA-AAA
1 GAAAGAAAGAAGAAAGAAA
10524275 GAAAGGAAAAGAAG-AAG-AA
1 GAAA-G-AAAGAAGAAAGAAA
10524294 GAAAGAAAGAAAGAAAGAAA
1 GAAAGAAAG-AAGAAAGAAA
10524314 AGGTATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
17 4 0.12
18 8 0.25
19 12 0.38
20 8 0.25
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (19 bp):
GAAAGAAAGAAGAAAGAAA
Found at i:10527046 original size:48 final size:48
Alignment explanation
Indices: 10526923--10527052 Score: 135
Period size: 48 Copynumber: 2.7 Consensus size: 48
10526913 ACTTTAGACT
* * * * * *
10526923 AACTTTGTAATTCAAATTAGATTAATCGC-A-A--AAAATTTTATATA
1 AACTTTGTAATTTAAATTAGATTCATTGCAACATTAAAATTTGAAACA
10526967 AACTTTGTACTTATTT-AATTGAGATTCATTGCAACATTAAAATTTGAAACA
1 AACTTTGTA---ATTTAAATT-AGATTCATTGCAACATTAAAATTTGAAACA
10527018 AACTTTGTAATTTAAATTAGATTCATTGCAACATT
1 AACTTTGTAATTTAAATTAGATTCATTGCAACATT
10527053 GGAGTATATT
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
44 9 0.13
46 4 0.06
47 12 0.17
48 22 0.31
49 5 0.07
51 19 0.27
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (48 bp):
AACTTTGTAATTTAAATTAGATTCATTGCAACATTAAAATTTGAAACA
Found at i:10530754 original size:25 final size:26
Alignment explanation
Indices: 10530726--10530774 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
10530716 ATAAACATTA
*
10530726 AACTAA-ACAAAT-AATTTATAATAGT
1 AACTAAGA-AAATAAATTTAAAATAGT
10530751 AACTAAGAAAATAAATTTAAAATA
1 AACTAAGAAAATAAATTTAAAATA
10530775 AATTAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (26 bp):
AACTAAGAAAATAAATTTAAAATAGT
Found at i:10530783 original size:11 final size:11
Alignment explanation
Indices: 10530758--10530810 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
10530748 AGTAACTAAG
*
10530758 AAAATAAATTT
1 AAAATAAATTA
10530769 AAAATAAATTA
1 AAAATAAATTA
*
10530780 AAAACAACA-TA
1 AAAATAA-ATTA
*
10530791 AAAATAAAAATA
1 AAAAT-AAATTA
10530803 AAAATAAA
1 AAAATAAA
10530811 CAAACTACAC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
11 26 0.72
12 10 0.28
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATAAATTA
Found at i:10531233 original size:29 final size:29
Alignment explanation
Indices: 10531191--10531247 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
10531181 AGGCACCACC
*
10531191 CCTACTGACATACCATTTTGGTATTTAAT
1 CCTACTAACATACCATTTTGGTATTTAAT
10531220 CCTACTAACATACCATTTTGGTATTTAA
1 CCTACTAACATACCATTTTGGTATTTAA
10531248 ATTTTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (29 bp):
CCTACTAACATACCATTTTGGTATTTAAT
Found at i:10532238 original size:3 final size:3
Alignment explanation
Indices: 10532225--10532259 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
10532215 TTGCTAGATC
10532225 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10532260 TGTAGAATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10533139 original size:58 final size:61
Alignment explanation
Indices: 10533004--10533167 Score: 192
Period size: 58 Copynumber: 2.7 Consensus size: 61
10532994 TGAGATTATG
* * *
10533004 TTATGATTTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGTTATTAAATTATATA
1 TTATCATTTTTATTAAATT-AT-TTTTAATAATAATTATATTAA-AATATGATTAAATTATATA
* *
10533067 TTATCATTTTTATTAAATTGTTTTTTATAATAATTATATTAAAATATGATTAAA-T-T-TA
1 TTATCATTTTTATTAAATTATTTTTAATAATAATTATATTAAAATATGATTAAATTATATA
* * * *
10533125 TTATTATTTTTATTAAATTATATTTAATAATAATCATGTTAAA
1 TTATCATTTTTATTAAATTATTTTTAATAATAATTATATTAAA
10533168 TTTTAATAAC
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
58 39 0.44
59 1 0.01
60 1 0.01
61 10 0.11
62 20 0.22
63 14 0.16
64 4 0.04
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (61 bp):
TTATCATTTTTATTAAATTATTTTTAATAATAATTATATTAAAATATGATTAAATTATATA
Found at i:10534331 original size:18 final size:20
Alignment explanation
Indices: 10534298--10534334 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
10534288 AAAGTGATAC
10534298 TAATAATTTAATTTTTAAAT
1 TAATAATTTAATTTTTAAAT
10534318 TAATAA-TT-ATTTTTAAA
1 TAATAATTTAATTTTTAAA
10534335 ATATTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TAATAATTTAATTTTTAAAT
Found at i:10539246 original size:17 final size:17
Alignment explanation
Indices: 10539224--10539284 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
10539214 CTTAAAGTTT
10539224 TAATTGTATACAGCTTC
1 TAATTGTATACAGCTTC
* *
10539241 TAATTGTGT-CTTAGAGTTC
1 TAATTGTATAC--AG-CTTC
*
10539260 TAATTGTATACAGCTTT
1 TAATTGTATACAGCTTC
10539277 TAATTGTA
1 TAATTGTA
10539285 GCCCTTGATG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 1 0.03
17 18 0.51
18 4 0.11
19 11 0.31
20 1 0.03
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (17 bp):
TAATTGTATACAGCTTC
Found at i:10539264 original size:36 final size:36
Alignment explanation
Indices: 10539213--10539283 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
10539203 GATTATAAAA
*
10539213 TCTTAAAGTTTTAATTGTATACAGCTTCTAATTGTG
1 TCTTAAAGTTCTAATTGTATACAGCTTCTAATTGTG
* *
10539249 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAAAGTTCTAATTGTATACAGCTTCTAATTGT
10539284 AGCCCTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (36 bp):
TCTTAAAGTTCTAATTGTATACAGCTTCTAATTGTG
Found at i:10543324 original size:36 final size:36
Alignment explanation
Indices: 10543277--10543347 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
10543267 GATTATAAAA
10543277 TCTTAGAGTTCTAATTATATACAGCTTCTAATTGTG
1 TCTTAGAGTTCTAATTATATACAGCTTCTAATTGTG
* * *
10543313 TCTTAGAGTTCTAATTGTATGCAGCTTTTAATTGT
1 TCTTAGAGTTCTAATTATATACAGCTTCTAATTGT
10543348 AGCCCTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTATATACAGCTTCTAATTGTG
Found at i:10545730 original size:14 final size:14
Alignment explanation
Indices: 10545711--10545750 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
10545701 TTGATTGCCA
10545711 GTAAAATGTTTTCT
1 GTAAAATGTTTTCT
*
10545725 GTAAAATGATTTCT
1 GTAAAATGTTTTCT
*
10545739 GGAAAATGTTTT
1 GTAAAATGTTTT
10545751 ACTTTTCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (14 bp):
GTAAAATGTTTTCT
Found at i:10545757 original size:34 final size:35
Alignment explanation
Indices: 10545719--10545785 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
10545709 CAGTAAAATG
*
10545719 TTTTCTGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
10545753 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
10545786 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:10545759 original size:20 final size:20
Alignment explanation
Indices: 10545734--10545773 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10545724 TGTAAAATGA
*
10545734 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
10545754 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
10545774 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:10545789 original size:14 final size:15
Alignment explanation
Indices: 10545713--10545789 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
10545703 GATTGCCAGT
*
10545713 AAAATG-TTTTCTGT
1 AAAATGATTTTCTGG
10545727 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
10545741 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
10545761 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
10545776 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
10545790 TGTTTGATTG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 26 0.51
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:10547259 original size:21 final size:21
Alignment explanation
Indices: 10547234--10547276 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
10547224 TATAAACAAA
*
10547234 AAATGCTCGTAACAGCAGCAC
1 AAATGCTCGTAACAGCAACAC
10547255 AAATGCTCGTAACAGCAACAC
1 AAATGCTCGTAACAGCAACAC
10547276 A
1 A
10547277 TAACAATCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.28, G:0.16, T:0.14
Consensus pattern (21 bp):
AAATGCTCGTAACAGCAACAC
Found at i:10548331 original size:14 final size:15
Alignment explanation
Indices: 10548312--10548351 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
10548302 AAGCTGGAAA
10548312 TTTACA-AAAAATAT
1 TTTACAGAAAAATAT
* *
10548326 TTTACAGTAAATTAT
1 TTTACAGAAAAATAT
10548341 TTTACAGAAAA
1 TTTACAGAAAA
10548352 GTAAAACATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (15 bp):
TTTACAGAAAAATAT
Found at i:10548377 original size:34 final size:34
Alignment explanation
Indices: 10548319--10548384 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
10548309 AAATTTACAA
* *
10548319 AAAATATTTTACAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTACAGTAAATCATTTTAC-GAAAAGT
*
10548354 AAAACATTTTTCAG-AAATCATTTTACGAAAA
1 AAAACATTTTACAGTAAATCATTTTACGAAAA
10548385 ATATTTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 5 0.18
34 11 0.39
35 12 0.43
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.35
Consensus pattern (34 bp):
AAAACATTTTACAGTAAATCATTTTACGAAAAGT
Found at i:10556731 original size:43 final size:43
Alignment explanation
Indices: 10556663--10556765 Score: 170
Period size: 43 Copynumber: 2.4 Consensus size: 43
10556653 CCCATGTTAA
* * *
10556663 GATATTATGGGATATTATCTTTTAGCAAATTGATTCCTAATAG
1 GATATTATAGGATATTAACTCTTAGCAAATTGATTCCTAATAG
10556706 GATATTATAGGATATTAACTCTTAGCAAATTGATTCCTAATAG
1 GATATTATAGGATATTAACTCTTAGCAAATTGATTCCTAATAG
*
10556749 GATATTATAAGATATTA
1 GATATTATAGGATATTA
10556766 TTATGGGATA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.40
Consensus pattern (43 bp):
GATATTATAGGATATTAACTCTTAGCAAATTGATTCCTAATAG
Found at i:10557525 original size:18 final size:18
Alignment explanation
Indices: 10557474--10557515 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
10557464 TAAGGAAGAT
10557474 GCATGAACAATGTCATGA
1 GCATGAACAATGTCATGA
10557492 GCATGAACAATGTCATGA
1 GCATGAACAATGTCATGA
10557510 GCATGA
1 GCATGA
10557516 CCGACTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (18 bp):
GCATGAACAATGTCATGA
Found at i:10561410 original size:43 final size:46
Alignment explanation
Indices: 10561307--10561413 Score: 148
Period size: 48 Copynumber: 2.3 Consensus size: 46
10561297 GTTAGGATAT
*
10561307 TATTATAGGATATTATCTTTTAGCAAATTGATTCATAATAGGATAGGA
1 TATTATAGGATATTATCTCTTAGCAAATTGATTCAT-ATA-GATAGGA
* *
10561355 TATTATAGGATATTATCTCTTAGTAATTTGATTC-T-TA-ATAGGA
1 TATTATAGGATATTATCTCTTAGCAAATTGATTCATATAGATAGGA
10561398 TATTATAGGATATTAT
1 TATTATAGGATATTAT
10561414 TATGGGATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
43 22 0.39
45 2 0.04
47 1 0.02
48 31 0.55
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.44
Consensus pattern (46 bp):
TATTATAGGATATTATCTCTTAGCAAATTGATTCATATAGATAGGA
Found at i:10563385 original size:16 final size:17
Alignment explanation
Indices: 10563364--10563396 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10563354 TTTTTTATAA
*
10563364 AATTTTTGAATT-TTTG
1 AATTTTTAAATTATTTG
10563380 AATTTTTAAATTATTTG
1 AATTTTTAAATTATTTG
10563397 TTGATGTGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (17 bp):
AATTTTTAAATTATTTG
Found at i:10564009 original size:10 final size:11
Alignment explanation
Indices: 10563985--10564009 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10563975 TAAACAATGG
10563985 AAAAATAAATA
1 AAAAATAAATA
10563996 AAAAATAAATA
1 AAAAATAAATA
10564007 AAA
1 AAA
10564010 CTTAAGACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:10576377 original size:28 final size:28
Alignment explanation
Indices: 10576311--10576417 Score: 99
Period size: 28 Copynumber: 3.8 Consensus size: 28
10576301 AGTTTGCTAC
* * *
10576311 AAGGCATTCATTTAACTGAGATAACCACA-
1 AAGGC-TTCCTTTAACAGAGATAGCCA-AG
* * *
10576340 AATGCATCCTTTAACAGAGATTGCCAAG
1 AAGGCTTCCTTTAACAGAGATAGCCAAG
* *
10576368 AAGGCTTCCTTTTAGCAGAGATAGCCACG
1 AAGGCTTCC-TTTAACAGAGATAGCCAAG
*
10576397 AAGGCTTCCTTTAATAGAGAT
1 AAGGCTTCCTTTAACAGAGAT
10576418 CGCTACAAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
27 1 0.02
28 33 0.52
29 29 0.46
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (28 bp):
AAGGCTTCCTTTAACAGAGATAGCCAAG
Found at i:10576388 original size:29 final size:29
Alignment explanation
Indices: 10576349--10576417 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
10576339 AAATGCATCC
*
10576349 TTTAACAGAGATTGCCAAGAAGGCTTCCT
1 TTTAACAGAGATAGCCAAGAAGGCTTCCT
* *
10576378 TTTAGCAGAGATAGCCACGAAGGCTTCC-
1 TTTAACAGAGATAGCCAAGAAGGCTTCCT
*
10576406 TTTAATAGAGAT
1 TTTAACAGAGAT
10576418 CGCTACAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 10 0.29
29 25 0.71
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (29 bp):
TTTAACAGAGATAGCCAAGAAGGCTTCCT
Found at i:10576433 original size:28 final size:28
Alignment explanation
Indices: 10576293--10576467 Score: 88
Period size: 28 Copynumber: 6.2 Consensus size: 28
10576283 GTAAGTGCCT
* * *
10576293 TTTAATAGAGTTTGCTAC-AAGGCATTCA
1 TTTAATAGAGATAGCTACAAAGG-ATTCC
* * *
10576321 TTTAACT-GAGATAACCACAAATGCA-TCC
1 TTTAA-TAGAGATAGCTACAAA-GGATTCC
* * * *
10576349 TTTAACAGAGATTGCCA-AGAAGGCTTCC
1 TTTAATAGAGATAGCTACA-AAGGATTCC
** * * *
10576377 TTTTAGCAGAGATAGCCACGAAGGCTTCC
1 -TTTAATAGAGATAGCTACAAAGGATTCC
* *
10576406 TTTAATAGAGATCGCTACAAATGATTCC
1 TTTAATAGAGATAGCTACAAAGGATTCC
* * *
10576434 TTTTATTAGGGATAGCTACAAAGGCTTCC
1 -TTTAATAGAGATAGCTACAAAGGATTCC
10576463 TTTAA
1 TTTAA
10576468 CAAAGATTGC
Statistics
Matches: 111, Mismatches: 27, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
27 2 0.02
28 57 0.51
29 51 0.46
30 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (28 bp):
TTTAATAGAGATAGCTACAAAGGATTCC
Found at i:10576434 original size:57 final size:57
Alignment explanation
Indices: 10576328--10576628 Score: 239
Period size: 57 Copynumber: 5.2 Consensus size: 57
10576318 TCATTTAACT
* * * * * *
10576328 GAGATAACCACAAATGCATCCTTTAACAGAGATTGCCA-AGAAGGCTTCCTTTTAGCA
1 GAGATAGCCACAAAGGCTTCCTTTAACAAAGATCGCCACA-AAGACTTCCTTTTAGCA
* * * * **
10576385 GAGATAGCCACGAAGGCTTCCTTTAATAGAGATCGCTACAAATGA-TTCCTTTTATTA
1 GAGATAGCCACAAAGGCTTCCTTTAACAAAGATCGCCACAAA-GACTTCCTTTTAGCA
* * * * **
10576442 GGGATAGCTACAAAGGCTTCCTTTAACAAAGATTGCCACAAAAGACTTTCTTTTAATA
1 GAGATAGCCACAAAGGCTTCCTTTAACAAAGATCGCCAC-AAAGACTTCCTTTTAGCA
* * * * * *
10576500 -AGGATAACAACAAGGGATTTCTTTAACAAAGATCGCCACAAAGATTTCCTTTTAGCA
1 GA-GATAGCCACAAAGGCTTCCTTTAACAAAGATCGCCACAAAGACTTCCTTTTAGCA
* ** * * * * * *
10576557 GAGATAGCCACAAAGACTTCCTTTTAGTATATATAGCCATAAAGACTTCATTTTAGTA
1 GAGATAGCCACAAAGGCTTCC-TTTAACAAAGATCGCCACAAAGACTTCCTTTTAGCA
10576615 GAGATAGCCACAAA
1 GAGATAGCCACAAA
10576629 TACTTACTTT
Statistics
Matches: 192, Mismatches: 45, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
57 104 0.54
58 88 0.46
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (57 bp):
GAGATAGCCACAAAGGCTTCCTTTAACAAAGATCGCCACAAAGACTTCCTTTTAGCA
Found at i:10576451 original size:29 final size:29
Alignment explanation
Indices: 10576368--10576658 Score: 112
Period size: 29 Copynumber: 10.1 Consensus size: 29
10576358 GATTGCCAAG
* ** * *
10576368 AAGGCTTCCTTTTAGCAGAGATAGCCACG
1 AAGGATTCCTTTTAATAGAGATAGCTACA
* *
10576397 AAGGCTTCC-TTTAATAGAGATCGCTACA
1 AAGGATTCCTTTTAATAGAGATAGCTACA
* * *
10576425 AATGATTCCTTTTATTAGGGATAGCTACA
1 AAGGATTCCTTTTAATAGAGATAGCTACA
* * * * *
10576454 AAGGCTTCC-TTTAACAAAGATTGCCACA
1 AAGGATTCCTTTTAATAGAGATAGCTACA
* * * *
10576482 AAAGACTTTCTTTTAATA-AGGATAACAACA
1 AAGGA-TTCCTTTTAATAGA-GATAGCTACA
* * * * * *
10576512 AGGGATTTC-TTTAACAAAGATCGCCACA
1 AAGGATTCCTTTTAATAGAGATAGCTACA
** *
10576540 AA-GATTTCCTTTTAGCAGAGATAGCCACA
1 AAGGA-TTCCTTTTAATAGAGATAGCTACA
* * * * *
10576569 AA-GACTTCCTTTTAGTATATATAGCCATA
1 AAGGA-TTCCTTTTAATAGAGATAGCTACA
* * *
10576598 AA-GACTTCATTTTAGTAGAGATAGCCACA
1 AAGGA-TTCCTTTTAATAGAGATAGCTACA
* * * *
10576627 AA-TACTTACTTTTAACAGAGATAACTACA
1 AAGGA-TTCCTTTTAATAGAGATAGCTACA
10576656 AAG
1 AAG
10576659 TCTCACTTTA
Statistics
Matches: 202, Mismatches: 52, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
27 2 0.01
28 54 0.27
29 130 0.64
30 16 0.08
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (29 bp):
AAGGATTCCTTTTAATAGAGATAGCTACA
Found at i:10581034 original size:59 final size:59
Alignment explanation
Indices: 10580963--10581156 Score: 388
Period size: 59 Copynumber: 3.3 Consensus size: 59
10580953 GTCCATGGGC
10580963 TTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTA
1 TTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTA
10581022 TTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTA
1 TTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTA
10581081 TTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTA
1 TTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTA
10581140 TTAATTGTATTAATTGT
1 TTAATTGTATTAATTGT
10581157 ATTAATTGTT
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 135 1.00
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (59 bp):
TTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTA
Found at i:10581150 original size:9 final size:9
Alignment explanation
Indices: 10581138--10581165 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10581128 TTTATCAAAT
10581138 TATTAATTG
1 TATTAATTG
10581147 TATTAATTG
1 TATTAATTG
10581156 TATTAATTG
1 TATTAATTG
10581165 T
1 T
10581166 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:10582966 original size:62 final size:62
Alignment explanation
Indices: 10582876--10582997 Score: 149
Period size: 62 Copynumber: 2.0 Consensus size: 62
10582866 GGTATCTAAA
* * *
10582876 CTTTTTTTTATCACAAGTGGTACCCTAAATTATACTT-CGTTATCCAAAGTAGTACCTAAACT
1 CTTTTTTTTATCACAAGTGGTACCCTAAACTATA-TTACATTACCCAAAGTAGTACCTAAACT
* * * *
10582938 CTTTTTTTTAGTTACTAGTGGTA-CCTAAACTATATTATATTACCCAAAGTGGTACCTAAA
1 CTTTTTTTTA-TCACAAGTGGTACCCTAAACTATATTACATTACCCAAAGTAGTACCTAAA
10582998 TTATACTCCA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
61 2 0.04
62 39 0.76
63 10 0.20
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (62 bp):
CTTTTTTTTATCACAAGTGGTACCCTAAACTATATTACATTACCCAAAGTAGTACCTAAACT
Found at i:10582989 original size:31 final size:31
Alignment explanation
Indices: 10582954--10583016 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
10582944 TTTAGTTACT
* *
10582954 AGTGGTACCTAAACTATATTATATTACCCAA
1 AGTGGTACCTAAACTATACTACATTACCCAA
* *
10582985 AGTGGTACCTAAATTATACTCCATTACCCAA
1 AGTGGTACCTAAACTATACTACATTACCCAA
10583016 A
1 A
10583017 TTACCTCAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (31 bp):
AGTGGTACCTAAACTATACTACATTACCCAA
Found at i:10583130 original size:25 final size:24
Alignment explanation
Indices: 10583076--10583144 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
10583066 TGGTACTTTT
*
10583076 AAATTAAAATTAAATTAAAAGAATT
1 AAATT-AAATTAAATTAAAAGAATC
*
10583101 GAATTAAATTAAATCATAAAA-AATC
1 AAATTAAATTAAAT--TAAAAGAATC
* *
10583126 AAATTTAATTATATTAAAA
1 AAATTAAATTAAATTAAAA
10583145 CTTTTCATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
23 5 0.14
24 9 0.24
25 18 0.49
26 5 0.14
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (24 bp):
AAATTAAATTAAATTAAAAGAATC
Found at i:10590350 original size:12 final size:12
Alignment explanation
Indices: 10590333--10590359 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10590323 TGGGCATACT
10590333 TATGTATATATA
1 TATGTATATATA
10590345 TATGTATATATA
1 TATGTATATATA
10590357 TAT
1 TAT
10590360 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:10593819 original size:23 final size:19
Alignment explanation
Indices: 10593772--10593830 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
10593762 ATATCTATGG
10593772 ATTAATAATACTCTATATA
1 ATTAATAATACTCTATATA
10593791 ATTAATAATACTCTATATA
1 ATTAATAATACTCTATATA
* *
10593810 GATAAATAATAATCTATATA
1 -ATTAATAATACTCTATATA
10593830 A
1 A
10593831 CATAATCTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 20 0.54
20 17 0.46
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (19 bp):
ATTAATAATACTCTATATA
Found at i:10593837 original size:14 final size:14
Alignment explanation
Indices: 10593818--10593846 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10593808 TAGATAAATA
10593818 ATAATCTATATAAC
1 ATAATCTATATAAC
10593832 ATAATCTATATAAC
1 ATAATCTATATAAC
10593846 A
1 A
10593847 AAGTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATCTATATAAC
Found at i:10600086 original size:50 final size:50
Alignment explanation
Indices: 10600031--10600274 Score: 285
Period size: 50 Copynumber: 4.9 Consensus size: 50
10600021 CATTGAGATT
*
10600031 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* * *
10600081 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
** * *
10600131 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
** * * * * *
10600181 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGACATCGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AG
* * ** *
10600230 AAGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
10600275 TTTATTATCA
Statistics
Matches: 166, Mismatches: 27, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
48 1 0.01
49 37 0.22
50 128 0.77
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:10605924 original size:18 final size:17
Alignment explanation
Indices: 10605887--10605938 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
10605877 CTAAGGGATG
* *
10605887 ACAAATAATCGATAAAT
1 ACAAATAAGCAATAAAT
10605904 ACAAATAAGCAATACAAT
1 ACAAATAAGCAATA-AAT
*
10605922 ACACATGAGAGCAATAA
1 ACAAAT-A-AGCAATAA
10605939 TCTTACATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 12 0.41
18 8 0.28
19 2 0.07
20 7 0.24
ACGTcount: A:0.58, C:0.15, G:0.10, T:0.17
Consensus pattern (17 bp):
ACAAATAAGCAATAAAT
Found at i:10606665 original size:24 final size:23
Alignment explanation
Indices: 10606638--10606693 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 23
10606628 AAAAAACTAT
10606638 ATAAAATAATA-GATGGAAATTAAA
1 ATAAAATAATACGAT--AAATTAAA
10606662 ATAATAAT-ATACGATAAATTAAA
1 ATAA-AATAATACGATAAATTAAA
*
10606685 A-AAAGTAAT
1 ATAAAATAAT
10606694 TACACATGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
21 2 0.07
22 4 0.14
23 9 0.32
24 7 0.25
25 6 0.21
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (23 bp):
ATAAAATAATACGATAAATTAAA
Found at i:10606722 original size:25 final size:24
Alignment explanation
Indices: 10606657--10606744 Score: 81
Period size: 24 Copynumber: 3.6 Consensus size: 24
10606647 TAGATGGAAA
*
10606657 TTAAAATAATAATATACGAT-AAA-
1 TTAAAATAATAATACAC-ATAAAAC
*
10606680 TTAAAAAAAGTAATTACACATGAAAAC
1 TTAAAATAA-TAA-TACACAT-AAAAC
* *
10606707 TTAGAATAATAATACATATAAAAC
1 TTAAAATAATAATACACATAAAAC
*
10606731 TTAAAATGATAATA
1 TTAAAATAATAATA
10606745 TATGATAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
23 8 0.15
24 22 0.42
25 10 0.19
26 6 0.11
27 7 0.13
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (24 bp):
TTAAAATAATAATACACATAAAAC
Found at i:10606842 original size:65 final size:65
Alignment explanation
Indices: 10606766--10606894 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 65
10606756 TAAACAATGT
10606766 TAATAAAAAATTTAAAATAATAATTGAGCTTAATCATTAAATTAGATTTAAAATTAAATGTATTC
1 TAATAAAAAATTTAAAATAATAATTGAGCTTAATCATTAAATTAGATTTAAAATTAAATGTATTC
*
10606831 TAATAATAAATTTAAAATAATAATTGAGCTTAATCATTAAATTAGATTTAAAATTAAATGTATT
1 TAATAAAAAATTTAAAATAATAATTGAGCTTAATCATTAAATTAGATTTAAAATTAAATGTATT
10606895 AAAAAATGAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (65 bp):
TAATAAAAAATTTAAAATAATAATTGAGCTTAATCATTAAATTAGATTTAAAATTAAATGTATTC
Found at i:10607014 original size:5 final size:5
Alignment explanation
Indices: 10607004--10607030 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
10606994 GAAAAAACGT
10607004 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
10607031 GGACCAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:10607879 original size:23 final size:23
Alignment explanation
Indices: 10607832--10607875 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
10607822 GAAACCCTAA
10607832 GGGTTTCTGGAAACTTGGATTTG
1 GGGTTTCTGGAAACTTGGATTTG
10607855 GGGTTTCTGGAAACTT-GATTT
1 GGGTTTCTGGAAACTTGGATTT
10607876 TGGGCCACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.18, C:0.09, G:0.32, T:0.41
Consensus pattern (23 bp):
GGGTTTCTGGAAACTTGGATTTG
Found at i:10608352 original size:44 final size:44
Alignment explanation
Indices: 10608283--10608406 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
10608273 GAATTTTATT
* * * * * *
10608283 TTCAATCCACTCCAATGTAATTTCAGGAAGAAAAGACTTGTAAC
1 TTCAATCTACTCCACTGCAACTTCAGGAAGATAAGACTGGTAAC
* * * * **
10608327 TTCGATCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGC
1 TTCAATCTACTCCACTGCAACTTCAGGAAGATAAGACTGGTAAC
10608371 TTCAATCTACTCCACTGCAACTTCAGGAAGATAAGA
1 TTCAATCTACTCCACTGCAACTTCAGGAAGATAAGA
10608407 TTCACCATAA
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.26
Consensus pattern (44 bp):
TTCAATCTACTCCACTGCAACTTCAGGAAGATAAGACTGGTAAC
Found at i:10608602 original size:143 final size:143
Alignment explanation
Indices: 10608336--10608986 Score: 864
Period size: 143 Copynumber: 4.6 Consensus size: 143
10608326 CTTCGATCTA
* * * *
10608336 CTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCGCTGCAATTTCAGGAAG
* *
10608401 ATAAGATTCACCATAACTTGTAGCTTTAATCTGTTCCACTACAATG-TCAGGGAAATAAGATTCG
66 ATAAGATTCACCGTAACTTGTAGCTTTAATCTGTTCCACTACAACGCT-AGGGAAATAAGATTCG
* *
10608465 TTGTCTTTAGTCTG
130 CTGTCTTCAGTCTG
** * *
10608479 CTCTGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAATTTCAGGAAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCGCTGCAATTTCAGGAAG
** *
10608544 ATAAGATTCACCGTAACTTGTAGCTTTAATCTGTTCCACTGTAACACTAGGGAAATAAGATTCGC
66 ATAAGATTCACCGTAACTTGTAGCTTTAATCTGTTCCACTACAACGCTAGGGAAATAAGATTCGC
10608609 TGTCTTCAGTCTG
131 TGTCTTCAGTCTG
* * **
10608622 CTCCACTGCAACTTTAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCGCTATAACTTT-AGGAA
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCGCTGCAA-TTTCAGGAA
* * * * *
10608686 GATAAGATTCAACGTAACTTGTAACTTTAATCTATTCCACTACAACGCCAGAGAAATAAGATTCG
65 GATAAGATTCACCGTAACTTGTAGCTTTAATCTGTTCCACTACAACGCTAGGGAAATAAGATTCG
10608751 CTGTCTTCAGTCTG
130 CTGTCTTCAGTCTG
* * * *
10608765 CTCCACTGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATTTGCTCTGCTGCAACTTCAGGAAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCGCTGCAATTTCAGGAAG
* * ** *
10608830 ATAAGATTCGCCGTAACTTGTAGCTTTAATCTGTTCCATTGTAACGCTAGGGAAATAAGATTTGC
66 ATAAGATTCACCGTAACTTGTAGCTTTAATCTGTTCCACTACAACGCTAGGGAAATAAGATTCGC
*
10608895 TATCTTCAGTCTG
131 TGTCTTCAGTCTG
* * * **
10608908 CT-CATTTGCAACTTCAGTGAGATAAGGCTGGTGGATTC-AT-TGCTCCGCTGCAACTTT-AAAA
1 CTCCA-CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCGCTGCAA-TTTCAGGA
*
10608969 AGATAAGATTCACTGTAA
64 AGATAAGATTCACCGTAA
10608987 TGACTTCAAT
Statistics
Matches: 447, Mismatches: 56, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
141 30 0.07
142 8 0.02
143 405 0.91
144 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (143 bp):
CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCGCTGCAATTTCAGGAAG
ATAAGATTCACCGTAACTTGTAGCTTTAATCTGTTCCACTACAACGCTAGGGAAATAAGATTCGC
TGTCTTCAGTCTG
Found at i:10617896 original size:18 final size:17
Alignment explanation
Indices: 10617859--10617910 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
10617849 CTAAGGGATG
* *
10617859 ACAAATAATCGATAAAT
1 ACAAATAAGCAATAAAT
10617876 ACAAATAAGCAATACAAT
1 ACAAATAAGCAATA-AAT
*
10617894 ACACATGAGAGCAATAA
1 ACAAAT-A-AGCAATAA
10617911 TCTTACATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 12 0.41
18 8 0.28
19 2 0.07
20 7 0.24
ACGTcount: A:0.58, C:0.15, G:0.10, T:0.17
Consensus pattern (17 bp):
ACAAATAAGCAATAAAT
Found at i:10618645 original size:24 final size:23
Alignment explanation
Indices: 10618618--10618673 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 23
10618608 AAAAAACTAT
10618618 ATAAAATAATA-GATGGAAATTAAA
1 ATAAAATAATACGAT--AAATTAAA
10618642 ATAATAAT-ATACGATAAATTAAA
1 ATAA-AATAATACGATAAATTAAA
*
10618665 A-AAAGTAAT
1 ATAAAATAAT
10618674 TACACATGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
21 2 0.07
22 4 0.14
23 9 0.32
24 7 0.25
25 6 0.21
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (23 bp):
ATAAAATAATACGATAAATTAAA
Found at i:10618702 original size:25 final size:24
Alignment explanation
Indices: 10618637--10618724 Score: 81
Period size: 24 Copynumber: 3.6 Consensus size: 24
10618627 TAGATGGAAA
*
10618637 TTAAAATAATAATATACGAT-AAA-
1 TTAAAATAATAATACAC-ATAAAAC
*
10618660 TTAAAAAAAGTAATTACACATGAAAAC
1 TTAAAATAA-TAA-TACACAT-AAAAC
* *
10618687 TTAGAATAATAATACATATAAAAC
1 TTAAAATAATAATACACATAAAAC
*
10618711 TTAAAATGATAATA
1 TTAAAATAATAATA
10618725 TATGATAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
23 8 0.15
24 22 0.42
25 10 0.19
26 6 0.11
27 7 0.13
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (24 bp):
TTAAAATAATAATACACATAAAAC
Found at i:10625553 original size:188 final size:188
Alignment explanation
Indices: 10625236--10625610 Score: 732
Period size: 188 Copynumber: 2.0 Consensus size: 188
10625226 CACGTAGTCA
10625236 TCGGATCTTTAGAGCTCGGATATAGTACGAGCACGAAGCTTACGAACATTAATCAGTGATAATAT
1 TCGGATCTTTAGAGCTCGGATATAGTACGAGCACGAAGCTTACGAACATTAATCAGTGATAATAT
10625301 TTTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACACAAATGCCCTTCGGGACTT
66 TTTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACACAAATGCCCTTCGGGACTT
*
10625366 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATAG
131 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATAG
10625424 TCGGATCTTTAGAGCTCGGATATAGTACGAGCACGAAGCTTACGAACATTAATCAGTGATAATAT
1 TCGGATCTTTAGAGCTCGGATATAGTACGAGCACGAAGCTTACGAACATTAATCAGTGATAATAT
10625489 TTTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACACAAATGCCCTTCGGGACTT
66 TTTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACACAAATGCCCTTCGGGACTT
*
10625554 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTTATCACATATA
131 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATA
10625611 TACACTTTCA
Statistics
Matches: 185, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
188 185 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (188 bp):
TCGGATCTTTAGAGCTCGGATATAGTACGAGCACGAAGCTTACGAACATTAATCAGTGATAATAT
TTTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACACAAATGCCCTTCGGGACTT
ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATAG
Found at i:10625620 original size:47 final size:47
Alignment explanation
Indices: 10625551--10626803 Score: 2192
Period size: 47 Copynumber: 26.6 Consensus size: 47
10625541 CCCTTCGGGA
* * * * * * *
10625551 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
*
10625598 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
* *
10625645 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCAC--ATATATACATTTTCACATTCATCACATCGGCCATT-AGGC
* * *
10625694 CTTATCACATATATATACACTTT--CA--CATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACATTTTCACATTCATCACATCGGCCATTAGGC
* *
10625739 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
* *
10625786 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACATTTTCACATTCATCACATCGGCCATTAGGC
*
10625835 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10625882 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10625929 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10625976 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10626023 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10626070 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10626117 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10626164 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10626211 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10626258 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10626305 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10626352 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10626399 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10626446 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10626493 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10626540 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10626587 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
10626634 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
* *
10626681 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
*
10626728 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACATTTTCACATTCATCACATCGGCCATTAGGC
*
10626777 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACATTTTCACATT
10626804 TATTCAAATA
Statistics
Matches: 1176, Mismatches: 18, Indels: 24
0.97 0.01 0.02
Matches are distributed among these distances:
43 13 0.01
45 28 0.02
47 984 0.84
49 150 0.13
50 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
Found at i:10628154 original size:85 final size:85
Alignment explanation
Indices: 10628025--10628883 Score: 1709
Period size: 85 Copynumber: 10.1 Consensus size: 85
10628015 TATTTTATTG
*
10628025 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
10628090 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
10628110 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
10628175 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
10628195 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
10628260 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
10628280 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
10628345 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
10628365 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
10628430 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
10628450 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
10628515 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
10628535 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
10628600 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
10628620 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
10628685 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
10628705 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
10628770 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
10628790 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
10628855 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
10628875 CCCATGCTC
1 CCCATGCTC
10628884 ATGGCCGGCC
Statistics
Matches: 773, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 773 1.00
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:10630476 original size:45 final size:45
Alignment explanation
Indices: 10630409--10630496 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
10630399 ACATATACTC
* * *
10630409 GGTGGATTCAACACATAGCAACCACCTTATTAATCAATGATGTCT
1 GGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTCT
*
10630454 GGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATGT
1 GGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGT
10630497 TCGGTTCACA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTCT
Found at i:10630976 original size:61 final size:61
Alignment explanation
Indices: 10630901--10631022 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
10630891 CTTTTTATTC
10630901 AATTTCCTTGCATTTTAGGCCTAGCTAAACCATTTTCATAACTATAGCAGTCCACAATACT
1 AATTTCCTTGCATTTTAGGCCTAGCTAAACCATTTTCATAACTATAGCAGTCCACAATACT
10630962 AATTTCCTTGCATTTTAGGCCTAGCTAAACCATTTTCATAACTATAGCAGTCCACAATACT
1 AATTTCCTTGCATTTTAGGCCTAGCTAAACCATTTTCATAACTATAGCAGTCCACAATACT
10631023 TACTTATCCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (61 bp):
AATTTCCTTGCATTTTAGGCCTAGCTAAACCATTTTCATAACTATAGCAGTCCACAATACT
Found at i:10633454 original size:17 final size:16
Alignment explanation
Indices: 10633432--10633475 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
10633422 GGTGTCACTT
*
10633432 GAATTAAATTAATTATA
1 GAATTAAATTAATT-CA
*
10633449 GAATTAATTTAATTCA
1 GAATTAAATTAATTCA
10633465 GTAATTAAATT
1 G-AATTAAATT
10633476 TCCAACACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (16 bp):
GAATTAAATTAATTCA
Found at i:10642178 original size:40 final size:40
Alignment explanation
Indices: 10642124--10642201 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
10642114 TTAATTTAAA
10642124 TAAACTCATCTTAGTTAATAAATAAGTTGCTGGACTTTAT
1 TAAACTCATCTTAGTTAATAAATAAGTTGCTGGACTTTAT
* * * * *
10642164 TAAACTCATTTTAGTTAGTAATTGAGTTGTTGGACTTT
1 TAAACTCATCTTAGTTAATAAATAAGTTGCTGGACTTT
10642202 CTTTTATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (40 bp):
TAAACTCATCTTAGTTAATAAATAAGTTGCTGGACTTTAT
Found at i:10648098 original size:40 final size:40
Alignment explanation
Indices: 10648032--10648109 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
10648022 TTAATTTAAA
10648032 TAAACTCATCTTAGGTAATAAATGAGTTGCTGGACTTTAT
1 TAAACTCATCTTAGGTAATAAATGAGTTGCTGGACTTTAT
* * * *
10648072 TAAACTCATCTTAGTTACTAATTGAGTTGTTGGACTTT
1 TAAACTCATCTTAGGTAATAAATGAGTTGCTGGACTTT
10648110 CTTTTATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (40 bp):
TAAACTCATCTTAGGTAATAAATGAGTTGCTGGACTTTAT
Found at i:10655006 original size:18 final size:18
Alignment explanation
Indices: 10654983--10655024 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10654973 CGGTTGGCTG
*
10654983 AAAATATGGTTTTTACTA
1 AAAATAAGGTTTTTACTA
* *
10655001 AAAATAAGTTTTTTTCTA
1 AAAATAAGGTTTTTACTA
10655019 AAAATA
1 AAAATA
10655025 CGAACGAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (18 bp):
AAAATAAGGTTTTTACTA
Found at i:10664498 original size:11 final size:11
Alignment explanation
Indices: 10664482--10664508 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10664472 GTCTGTGTCC
10664482 CATAACCAATT
1 CATAACCAATT
10664493 CATAACCAATT
1 CATAACCAATT
10664504 CATAA
1 CATAA
10664509 AATTTTACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (11 bp):
CATAACCAATT
Found at i:10665227 original size:40 final size:40
Alignment explanation
Indices: 10665194--10665313 Score: 195
Period size: 40 Copynumber: 3.0 Consensus size: 40
10665184 TGTGTGTTCG
* *
10665194 GGGGTACTGAAGTACAAATAGGGGCACGCATGTGCATTCA
1 GGGGTACCGAAGTACAAATAGGGGCACGAATGTGCATTCA
* *
10665234 GGGGCACCGAAGTACAAATAGGGGCACAAATGTGCATTCA
1 GGGGTACCGAAGTACAAATAGGGGCACGAATGTGCATTCA
*
10665274 GGGGTACCGAAGTACAAATAGGGGTACGAATGTGCATTCA
1 GGGGTACCGAAGTACAAATAGGGGCACGAATGTGCATTCA
10665314 AACAACAAGT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.33, C:0.17, G:0.32, T:0.18
Consensus pattern (40 bp):
GGGGTACCGAAGTACAAATAGGGGCACGAATGTGCATTCA
Found at i:10665256 original size:20 final size:19
Alignment explanation
Indices: 10665202--10665303 Score: 64
Period size: 20 Copynumber: 5.2 Consensus size: 19
10665192 CGGGGGTACT
10665202 GAAGTACAAATAGGGGCAC
1 GAAGTACAAATAGGGGCAC
* * *
10665221 GCATGTGC-ATTCAGGGGCACC
1 G-AAGTACAAAT-AGGGGCA-C
10665242 GAAGTACAAATAGGGGCAC
1 GAAGTACAAATAGGGGCAC
* * * *
10665261 AAATGTGC-ATTCAGGGGTACC
1 GAA-GTACAAAT-AGGGGCA-C
*
10665282 GAAGTACAAATAGGGGTAC
1 GAAGTACAAATAGGGGCAC
10665301 GAA
1 GAA
10665304 TGTGCATTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
19 12 0.19
20 41 0.66
21 9 0.15
ACGTcount: A:0.35, C:0.18, G:0.31, T:0.16
Consensus pattern (19 bp):
GAAGTACAAATAGGGGCAC
Found at i:10668474 original size:136 final size:136
Alignment explanation
Indices: 10668230--10668780 Score: 935
Period size: 136 Copynumber: 4.1 Consensus size: 136
10668220 AACTAATTTG
*
10668230 TAAAACTGTCAAATGTTATGGATTATGTAATTGATGAGTTTAGTAT-TTTTTTAAGTTTTATGAT
1 TAAAA-TGTCAAATGTTATGGATTATGTAATTGATGAGTTTAGTATGTTTTTGAAGTTTTATGAT
* *
10668294 AAATTATTAAGCTTTATTATTAAATAAGACTATTTTGTAAAGTAATTTTTAGTAATTTTAATGTT
65 AAATTATTAAGCTTTATTGTTAAATAAGACTATTTTGTAAAGTAATTTTTAGCAATTTTAATGTT
*
10668359 AAAGGAT
130 AAAGGAC
*
10668366 TAAAATGTCAAATGTTATGGATTATGTAATTGATGAGTTTAGTGTGTTTTTGAAGTTTTATGATA
1 TAAAATGTCAAATGTTATGGATTATGTAATTGATGAGTTTAGTATGTTTTTGAAGTTTTATGATA
* * *
10668431 AATTAGTAAGCTTTATTGTTGAATAAGACTATTTTGCAAAGTAATTTTTAGCAATTTTAATGTTA
66 AATTATTAAGCTTTATTGTTAAATAAGACTATTTTGTAAAGTAATTTTTAGCAATTTTAATGTTA
10668496 AAGGAC
131 AAGGAC
* *
10668502 TAAAATGTCAAATGTTCTGGATTATGTAATTGATGAGTTTAGTATGTTTTTGAAGTTTTATTATA
1 TAAAATGTCAAATGTTATGGATTATGTAATTGATGAGTTTAGTATGTTTTTGAAGTTTTATGATA
*
10668567 AATTATTAAGCTTTATTGTTAAATAAGACTATTTAGTAAAGTAATTTTTAGCAATTTTAATGTTA
66 AATTATTAAGCTTTATTGTTAAATAAGACTATTTTGTAAAGTAATTTTTAGCAATTTTAATGTTA
*
10668632 AAGGAT
131 AAGGAC
*
10668638 TAAAATGTCAAATGTTATGGATTATGTAATTGATGATTTTAGTATGTTTTTGAAGTTTTATGATA
1 TAAAATGTCAAATGTTATGGATTATGTAATTGATGAGTTTAGTATGTTTTTGAAGTTTTATGATA
* *
10668703 AATTATTAAGTTTTATTGTTAAATAAGACTATTTTGT-AAGTAATTTTTAGTAATTTTAATGTTA
66 AATTATTAAGCTTTATTGTTAAATAAGACTATTTTGTAAAGTAATTTTTAGCAATTTTAATGTTA
*
10668767 AAAGAC
131 AAGGAC
10668773 TAAAATGT
1 TAAAATGT
10668781 TAAAGTGATA
Statistics
Matches: 390, Mismatches: 24, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
135 77 0.20
136 313 0.80
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (136 bp):
TAAAATGTCAAATGTTATGGATTATGTAATTGATGAGTTTAGTATGTTTTTGAAGTTTTATGATA
AATTATTAAGCTTTATTGTTAAATAAGACTATTTTGTAAAGTAATTTTTAGCAATTTTAATGTTA
AAGGAC
Found at i:10685507 original size:64 final size:64
Alignment explanation
Indices: 10685423--10685610 Score: 288
Period size: 64 Copynumber: 2.9 Consensus size: 64
10685413 AGGTAAGTTT
* *
10685423 GTCGATAGTTTTGGGAATTGACGATTGTAAGTAATTTAGATTAAGTGATTGAGATTGAGTTTTC
1 GTCGATAGTTTTGGGAATTGACGATTGTAAGTAATTCAGATTAAGTGACTGAGATTGAGTTTTC
* ** * *
10685487 GTTGATAGTTTCAGGAATTGACTATTGTAAGTAATTCAGATTAAGTGACTGAGATTGAGTTTTT
1 GTCGATAGTTTTGGGAATTGACGATTGTAAGTAATTCAGATTAAGTGACTGAGATTGAGTTTTC
*
10685551 GTCGATAGTTTTGGGAATTGACTG-TTGTAAGTAATTCAGATTAAGTGACTGGGATTGAGT
1 GTCGATAGTTTTGGGAATTGAC-GATTGTAAGTAATTCAGATTAAGTGACTGAGATTGAGT
10685611 CTCCAATTTT
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
64 111 1.00
ACGTcount: A:0.28, C:0.06, G:0.27, T:0.39
Consensus pattern (64 bp):
GTCGATAGTTTTGGGAATTGACGATTGTAAGTAATTCAGATTAAGTGACTGAGATTGAGTTTTC
Found at i:10685941 original size:19 final size:19
Alignment explanation
Indices: 10685917--10685975 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
10685907 CACACAGCCA
10685917 AGGCCATTTTGGGTCGTGT
1 AGGCCATTTTGGGTCGTGT
*** * *
10685936 AGGCCA-CACGAGT-GT-A
1 AGGCCATTTTGGGTCGTGT
10685952 AGGCCATTTTGGGTCGTGT
1 AGGCCATTTTGGGTCGTGT
10685971 AGGCC
1 AGGCC
10685976 CACATGGCCA
Statistics
Matches: 27, Mismatches: 10, Indels: 6
0.63 0.23 0.14
Matches are distributed among these distances:
16 6 0.22
17 5 0.19
18 5 0.19
19 11 0.41
ACGTcount: A:0.17, C:0.20, G:0.36, T:0.27
Consensus pattern (19 bp):
AGGCCATTTTGGGTCGTGT
Found at i:10688138 original size:125 final size:126
Alignment explanation
Indices: 10687916--10688173 Score: 464
Period size: 125 Copynumber: 2.1 Consensus size: 126
10687906 GAATTAGGAG
*
10687916 TTATTAATGTACATGGACTAAATCACGTAAGAGCTAAAAGTTGAATTATAGATTGAAATTAATTA
1 TTATTAATGTACATGGACTAAATCACGTAAGAGCTAAAAGTTAAATTATAGATTGAAATTAATTA
*
10687981 AAAGGAGTAAAGTAGTAATTACACCACTAATTAAATGTTGATGGGCGATGGTGGGTTGG-T
66 AAAGGACTAAAGTAGTAATTACACCACTAATTAAATGTTGATGGGCGATGGTGGGTTGGTT
* *
10688041 TTATTAATGTACATGGACTAAATCGCGTAAGTGCTAAAAGTTAAATTATAGATTGAAATTAATTA
1 TTATTAATGTACATGGACTAAATCACGTAAGAGCTAAAAGTTAAATTATAGATTGAAATTAATTA
*
10688106 AAAGGACTAAAGTAGTAATTACACCACTAATTAAATGTTGATGGGTGATGGTGGGTTGGTT
66 AAAGGACTAAAGTAGTAATTACACCACTAATTAAATGTTGATGGGCGATGGTGGGTTGGTT
10688167 TTATTAA
1 TTATTAA
10688174 AAATTTATTA
Statistics
Matches: 127, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
125 119 0.94
126 8 0.06
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (126 bp):
TTATTAATGTACATGGACTAAATCACGTAAGAGCTAAAAGTTAAATTATAGATTGAAATTAATTA
AAAGGACTAAAGTAGTAATTACACCACTAATTAAATGTTGATGGGCGATGGTGGGTTGGTT
Found at i:10691078 original size:11 final size:11
Alignment explanation
Indices: 10691062--10691091 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
10691052 TCAGATTACT
10691062 CGTTGCTGAGG
1 CGTTGCTGAGG
10691073 CGTTGCTGAGG
1 CGTTGCTGAGG
10691084 CGTTGCTG
1 CGTTGCTG
10691092 TCTACTCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.07, C:0.20, G:0.43, T:0.30
Consensus pattern (11 bp):
CGTTGCTGAGG
Found at i:10693388 original size:26 final size:24
Alignment explanation
Indices: 10693359--10693414 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
10693349 ATTATTATAA
10693359 AATAATTAAATTGTAATTAAATTATT
1 AATAATTAAATT-TAATTAAATTA-T
* * *
10693385 AATATGTTGAATTTAATTAATTTAT
1 AATA-ATTAAATTTAATTAAATTAT
10693410 AATAA
1 AATAA
10693415 CTTTTTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
25 5 0.20
26 14 0.56
27 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.46
Consensus pattern (24 bp):
AATAATTAAATTTAATTAAATTAT
Found at i:10696658 original size:11 final size:11
Alignment explanation
Indices: 10696642--10696681 Score: 80
Period size: 11 Copynumber: 3.6 Consensus size: 11
10696632 ACCATACCTT
10696642 GCAACATTAGA
1 GCAACATTAGA
10696653 GCAACATTAGA
1 GCAACATTAGA
10696664 GCAACATTAGA
1 GCAACATTAGA
10696675 GCAACAT
1 GCAACAT
10696682 ATTATTGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.17
Consensus pattern (11 bp):
GCAACATTAGA
Found at i:10701376 original size:26 final size:26
Alignment explanation
Indices: 10701318--10701377 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
10701308 ATTCTTCTCC
*
10701318 TAAA-TTTCAATTTTATTTAATTATT
1 TAAATTTTCAATTTTATTAAATTATT
*
10701343 TAATTTTTCAA-TTTATTGAAATTA-T
1 TAAATTTTCAATTTTATT-AAATTATT
10701368 TAAGATTTTC
1 TAA-ATTTTC
10701378 TACTAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (26 bp):
TAAATTTTCAATTTTATTAAATTATT
Done.