Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 37 of 185
Found at i:10277525 original size:28 final size:27
Alignment explanation
Indices: 10277455--10277527 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
10277445 TTTATTATCA
*
10277455 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
10277483 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
10277510 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
10277528 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:10277659 original size:16 final size:17
Alignment explanation
Indices: 10277633--10277674 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
10277623 AAACATAATT
10277633 ATTATAAATATAT-TTTA
1 ATTA-AAATATATATTTA
10277650 ATTAAAATATATAATTTA
1 ATTAAAATATAT-ATTTA
10277668 A-TAAAAT
1 ATTAAAAT
10277675 TCTTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 10 0.43
18 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAAAATATATATTTA
Found at i:10277667 original size:18 final size:17
Alignment explanation
Indices: 10277640--10277674 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10277630 ATTATTATAA
*
10277640 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10277658 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10277675 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10277680 original size:143 final size:147
Alignment explanation
Indices: 10277416--10277686 Score: 478
Period size: 143 Copynumber: 1.9 Consensus size: 147
10277406 ATGATTATTG
10277416 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
10277481 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
10277546 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
10277565 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
10277627 ATAATTATTA-TAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
10277687 ATATTCTTAT
Statistics
Matches: 120, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
143 49 0.41
144 42 0.35
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:10277862 original size:17 final size:16
Alignment explanation
Indices: 10277840--10277886 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
10277830 ACTCAAATCA
10277840 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
10277857 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
10277871 TAAATATATGATTTAA
1 T-AATATATGATTTAA
10277887 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:10277887 original size:17 final size:17
Alignment explanation
Indices: 10277859--10277892 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10277849 ATTATAACTA
*
10277859 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
10277876 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
10277893 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:10278035 original size:93 final size:91
Alignment explanation
Indices: 10277925--10278118 Score: 284
Period size: 92 Copynumber: 2.1 Consensus size: 91
10277915 GATTATAGTT
* *
10277925 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTA-ATATAATTAT-ATAATAATATATAATTTC
* *
10277988 ATAAAATTCTTGATAATAAAAATTTTCTTA
63 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
10278018 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAGTGATATATAATTTCATA
1 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
10278083 AAATTCTTAATAATAAAATGTTCTTA
66 AAATTCTTAATAATAAAATGTTCTTA
10278109 TATGAATTTA
1 TATGAATTTA
10278119 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 21 0.23
92 40 0.43
93 29 0.31
94 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
AAATTCTTAATAATAAAATGTTCTTA
Found at i:10279535 original size:11 final size:11
Alignment explanation
Indices: 10279521--10279547 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10279511 AAAAATAAAT
10279521 ACAAAAGTTTC
1 ACAAAAGTTTC
10279532 ACAAAAGTTTC
1 ACAAAAGTTTC
10279543 ACAAA
1 ACAAA
10279548 CTAATTTCTA
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:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:10286628 original size:21 final size:21
Alignment explanation
Indices: 10286593--10286650 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
10286583 TGTCTTTTTT
*
10286593 TAAAATATATATATTAAGAAAG
1 TAAAA-ATATATATTAAAAAAG
* *
10286615 TAAAAATTTATATTAAAAAAT
1 TAAAAATATATATTAAAAAAG
10286636 TAAAAATATATATTA
1 TAAAAATATATATTA
10286651 TAACTAGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 27 0.84
22 5 0.16
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
TAAAAATATATATTAAAAAAG
Found at i:10288195 original size:50 final size:50
Alignment explanation
Indices: 10288074--10288317 Score: 308
Period size: 50 Copynumber: 4.7 Consensus size: 50
10288064 GGTAAAAATA
* ** *
10288074 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTA-TCATCTCGG
* **
10288125 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTATCATCTCGG
*
10288175 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTATCATCTCGG
* ** *
10288225 TGCCAACGCCATGTCCCAGACATGGTCTTACATGATACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-C-CT-ATCATCTC--GG
*
10288280 ATGCCAATACCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
10288318 TCTCTTTACC
Statistics
Matches: 167, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
50 88 0.53
51 36 0.22
52 2 0.01
53 6 0.04
55 2 0.01
56 33 0.20
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTATCATCTCGG
Found at i:10288254 original size:100 final size:105
Alignment explanation
Indices: 10288073--10288322 Score: 339
Period size: 100 Copynumber: 2.4 Consensus size: 105
10288063 TGGTAAAAAT
* * * * *
10288073 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGGTGCCCATGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCT-CTCATCTCGGTGCCAACGCCATG
* *
10288138 TCCCAGACATGGTCTTACGGGGGA-C-CT-ATCATCTC-GG
65 TCCCAGACATGGTCTTACAGGAGACCTCTCATCATCTCAGG
*
10288175 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGGTGCCAACGCCATGT
* * *
10288239 CCCAGACATGGTCTTACATGATACCTCTCATGATCTCAAGG
66 CCCAGACATGGTCTTACAGGAGACCTCTCATCATCTC-AGG
*
10288280 ATGCCAATACCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
10288323 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
100 40 0.31
101 38 0.29
102 2 0.02
103 7 0.05
105 2 0.02
106 40 0.31
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (105 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGGTGCCAACGCCATGT
CCCAGACATGGTCTTACAGGAGACCTCTCATCATCTCAGG
Found at i:10288692 original size:30 final size:30
Alignment explanation
Indices: 10288658--10288715 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10288648 CCTCAACTCT
**
10288658 AACTTTTTTAAAATTACAATTTTGCCCCTA
1 AACTTTTGCAAAATTACAATTTTGCCCCTA
* *
10288688 AACTTTTGCATAATTACATTTTTGCCCC
1 AACTTTTGCAAAATTACAATTTTGCCCC
10288716 AAGGCCCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCTA
Found at i:10292974 original size:17 final size:17
Alignment explanation
Indices: 10292952--10292995 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
10292942 TGGTTGTGTT
10292952 TATATA-ATGTGCG-AA
1 TATATATATGTGCGTAA
*
10292967 TATATATATGTGTGTAA
1 TATATATATGTGCGTAA
10292984 TATATATATGTG
1 TATATATATGTG
10292996 GATCGAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 14 0.54
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.43
Consensus pattern (17 bp):
TATATATATGTGCGTAA
Found at i:10293271 original size:41 final size:41
Alignment explanation
Indices: 10293209--10293378 Score: 268
Period size: 41 Copynumber: 4.1 Consensus size: 41
10293199 GTTTGGAATT
* *
10293209 GGTGAATTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATTTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
10293250 GGTGATTTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATTTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
10293291 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATTTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
10293332 AGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATTTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
10293373 GGTGAT
1 GGTGAT
10293379 CCGAATATGA
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 118 1.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (41 bp):
GGTGATTTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:10293314 original size:82 final size:82
Alignment explanation
Indices: 10293216--10293378 Score: 308
Period size: 82 Copynumber: 2.0 Consensus size: 82
10293206 ATTGGTGAAT
* *
10293216 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGCTATAAGCCTAGCAG
1 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAGCCTAGCAG
10293281 GCTAAGTGCCGGTGATA
66 GCTAAGTGCCGGTGATA
10293298 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAGCCTAGCAG
1 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAGCCTAGCAG
10293363 GCTAAGTGCCGGTGAT
66 GCTAAGTGCCGGTGAT
10293379 CCGAATATGA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (82 bp):
TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAGCCTAGCAG
GCTAAGTGCCGGTGATA
Found at i:10293609 original size:31 final size:34
Alignment explanation
Indices: 10293573--10293682 Score: 106
Period size: 37 Copynumber: 3.3 Consensus size: 34
10293563 GCATATTTAG
10293573 GCATTCGGCATAGGTGGATATA-TAT-T-TGTAT
1 GCATTCGGCATAGGTGGATATAGTATATATGTAT
* *
10293604 GCATTCGGCATAGATAGATATAAGTGTATATATGTAT
1 GCATTCGGCATAGGTGGATAT-A--GTATATATGTAT
*
10293641 GCATTCGGCATAGGTGGGTATAAGTGA-ATATG--T
1 GCATTCGGCATAGGTGGATAT-AGT-ATATATGTAT
10293674 GCATTCGGC
1 GCATTCGGC
10293683 CTTTATAGTT
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
31 19 0.28
32 1 0.01
33 10 0.15
35 10 0.15
36 2 0.03
37 25 0.37
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (34 bp):
GCATTCGGCATAGGTGGATATAGTATATATGTAT
Found at i:10293634 original size:37 final size:37
Alignment explanation
Indices: 10293593--10293682 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
10293583 TAGGTGGATA
*
10293593 TATATTTGTATGCATTCGGCATAGATAGATATAAGTG
1 TATATATGTATGCATTCGGCATAGATAGATATAAGTG
* * *
10293630 TATATATGTATGCATTCGGCATAGGTGGGTATAAGTG
1 TATATATGTATGCATTCGGCATAGATAGATATAAGTG
10293667 -A-ATATG--TGCATTCGGC
1 TATATATGTATGCATTCGGC
10293683 CTTTATAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
33 10 0.20
35 5 0.10
36 1 0.02
37 33 0.67
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (37 bp):
TATATATGTATGCATTCGGCATAGATAGATATAAGTG
Found at i:10297104 original size:12 final size:12
Alignment explanation
Indices: 10297087--10297113 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10297077 AAGAAGGCTT
10297087 CTCTAGCTCCTC
1 CTCTAGCTCCTC
10297099 CTCTAGCTCCTC
1 CTCTAGCTCCTC
10297111 CTC
1 CTC
10297114 CCTGTCTAAC
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:0.07, C:0.52, G:0.07, T:0.33
Consensus pattern (12 bp):
CTCTAGCTCCTC
Found at i:10297567 original size:119 final size:119
Alignment explanation
Indices: 10297356--10297596 Score: 446
Period size: 119 Copynumber: 2.0 Consensus size: 119
10297346 CCTGTTCTGA
* *
10297356 TACCAAAATTGTAACACCCTTTACCCGATACCGTTGCCGGAATCGAGCACGACGCATTACTTAGC
1 TACCAAAATTGTAACACCCCTTACCCGATACCATTGCCGGAATCGAGCACGACGCATTACTTAGC
10297421 TTATCTTACTAATTCGGAGCATAAAAACTTAGTTTGAAAATTTAATTCACTATT
66 TTATCTTACTAATTCGGAGCATAAAAACTTAGTTTGAAAATTTAATTCACTATT
*
10297475 TACCAAAATTGTAACACCCCTTACCCGATACCATTGCCGGAATCGAGCACGAGGCATTACTTAGC
1 TACCAAAATTGTAACACCCCTTACCCGATACCATTGCCGGAATCGAGCACGACGCATTACTTAGC
*
10297540 TTATCTTACTAATTCGGAGCATAAAAACTTAGTTTGAAAATTTATTTCACTATT
66 TTATCTTACTAATTCGGAGCATAAAAACTTAGTTTGAAAATTTAATTCACTATT
10297594 TAC
1 TAC
10297597 AGTAAATCTG
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 118 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (119 bp):
TACCAAAATTGTAACACCCCTTACCCGATACCATTGCCGGAATCGAGCACGACGCATTACTTAGC
TTATCTTACTAATTCGGAGCATAAAAACTTAGTTTGAAAATTTAATTCACTATT
Found at i:10298920 original size:50 final size:50
Alignment explanation
Indices: 10298798--10299091 Score: 354
Period size: 50 Copynumber: 5.7 Consensus size: 50
10298788 GGTAAAAATA
* * ** *
10298798 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTA-TCATCTCGG
* * ** *
10298849 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTATCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTATCATCTCGG
*
10298899 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTATCATCTCGG
*
10298949 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTATCATCTCGG
* * * *
10298999 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGA-C-CT-ATCATCTC--GG
* * *
10299054 ATGCCTATACCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGA
10299092 TCTCTTTACC
Statistics
Matches: 213, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
50 135 0.63
51 35 0.16
52 2 0.01
53 6 0.03
55 2 0.01
56 33 0.15
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTATCATCTCGG
Found at i:10299467 original size:30 final size:30
Alignment explanation
Indices: 10299432--10299489 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10299422 CCTCGACTCT
*
10299432 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTGCAAAATTACAATTTTGCCCCTA
* *
10299462 AACTTTTGCATAATTACATTTTTGCCCC
1 AACTTTTGCAAAATTACAATTTTGCCCC
10299490 AAGGCCCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCTA
Found at i:10301941 original size:7 final size:7
Alignment explanation
Indices: 10301919--10301975 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
10301909 ATACTAATAA
10301919 TTAAAA-
1 TTAAAAT
*
10301925 TTAAATT
1 TTAAAAT
10301932 TTAAAAT
1 TTAAAAT
10301939 TTAAAAT
1 TTAAAAT
*
10301946 ATAAAAAT
1 -TTAAAAT
*
10301954 TAAAAAT
1 TTAAAAT
*
10301961 TAAAAATT
1 TTAAAA-T
10301969 TTAAAAT
1 TTAAAAT
10301976 AAAAAAAGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
6 5 0.11
7 27 0.61
8 12 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
TTAAAAT
Found at i:10301952 original size:15 final size:15
Alignment explanation
Indices: 10301934--10301981 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
10301924 ATTAAATTTT
10301934 AAAATTTAAAATATA
1 AAAATTTAAAATATA
*
10301949 AAAATTAAAAAT-TA
1 AAAATTTAAAATATA
10301963 AAAATTTTAAAATA-A
1 AAAA-TTTAAAATATA
10301978 AAAA
1 AAAA
10301982 AGGGAGGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 6 0.21
15 23 0.79
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTTAAAATATA
Found at i:10301956 original size:21 final size:20
Alignment explanation
Indices: 10301917--10301965 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
10301907 CAATACTAAT
**
10301917 AATTAAAATTAAATTTTAAA
1 AATTAAAATTAAAAATTAAA
*
10301937 ATTTAAAATATAAAAATTAAA
1 AATTAAAAT-TAAAAATTAAA
10301958 AATTAAAA
1 AATTAAAA
10301966 ATTTTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AATTAAAATTAAAAATTAAA
Found at i:10302073 original size:4 final size:4
Alignment explanation
Indices: 10302066--10302095 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
10302056 ATTTTAAAAA
10302066 TTAT TTAT TTAT TTAT TTAT TTAT TATAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T-TAT T
10302096 CGGTCAGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:10307558 original size:18 final size:19
Alignment explanation
Indices: 10307528--10307565 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
10307518 AAAAATAATT
10307528 TTAAAAAATATATTTAAAA
1 TTAAAAAATATATTTAAAA
10307547 TTAAAAAA-ATATTTAAAA
1 TTAAAAAATATATTTAAAA
10307565 T
1 T
10307566 AAACATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TTAAAAAATATATTTAAAA
Found at i:10307562 original size:31 final size:31
Alignment explanation
Indices: 10307516--10307577 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
10307506 TTGAATATCT
*
10307516 TTAAAAATAATTTTAAAA-AATATATTTAAAA
1 TTAAAAATAATTTTAAAATAA-ACATTTAAAA
10307547 TTAAAAA-AATATTTAAAATAAACATTTAAAA
1 TTAAAAATAAT-TTTAAAATAAACATTTAAAA
10307578 AATAATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 3 0.11
31 23 0.82
32 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (31 bp):
TTAAAAATAATTTTAAAATAAACATTTAAAA
Found at i:10307664 original size:20 final size:22
Alignment explanation
Indices: 10307638--10307720 Score: 127
Period size: 20 Copynumber: 3.8 Consensus size: 22
10307628 TATAATATTA
10307638 AAAAAATAATATTTAAAA-TTT
1 AAAAAATAATATTTAAAATTTT
10307659 -AAAAATAATATTTAAAATTTTT
1 AAAAAATAATATTTAAAA-TTTT
10307681 AAAAAATAAT-TTTAAAATTTT
1 AAAAAATAATATTTAAAATTTT
10307702 AAAAAATAATATTATAAAA
1 AAAAAATAATATT-TAAAA
10307721 CATTTCAAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
20 17 0.30
21 14 0.25
22 12 0.21
23 14 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAAATAATATTTAAAATTTT
Found at i:10307775 original size:24 final size:24
Alignment explanation
Indices: 10307747--10307794 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
10307737 TTCAAATTTT
* *
10307747 ATAAAATCAATAATAAACAAATAA
1 ATAAAATAAATAAAAAACAAATAA
10307771 ATAAAATAAATAAAAAACAAATAA
1 ATAAAATAAATAAAAAACAAATAA
10307795 GAATATCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (24 bp):
ATAAAATAAATAAAAAACAAATAA
Found at i:10307778 original size:20 final size:20
Alignment explanation
Indices: 10307755--10307799 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
10307745 TTATAAAATC
*
10307755 AATAATAAACAAATAAATAA-
1 AATAATAAA-AAACAAATAAG
10307775 AATAAATAAAAAACAAATAAG
1 AAT-AATAAAAAACAAATAAG
10307796 AATA
1 AATA
10307800 TCTTAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (20 bp):
AATAATAAAAAACAAATAAG
Found at i:10309853 original size:18 final size:19
Alignment explanation
Indices: 10309821--10309856 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10309811 ACAGTTTGGT
10309821 TTGAACTTTGATTTGACTC
1 TTGAACTTTGATTTGACTC
*
10309840 TTGAA-TTTGGTTTGACT
1 TTGAACTTTGATTTGACT
10309857 TCTCTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.19, C:0.11, G:0.19, T:0.50
Consensus pattern (19 bp):
TTGAACTTTGATTTGACTC
Found at i:10312512 original size:11 final size:11
Alignment explanation
Indices: 10312480--10312512 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
10312470 CTCCTGGATC
10312480 AAAA-AAATTA
1 AAAATAAATTA
10312490 AAAATAAA-TA
1 AAAATAAATTA
10312500 AAAATAAATTA
1 AAAATAAATTA
10312511 AA
1 AA
10312513 GAAACAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 14 0.67
11 7 0.33
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATAAATTA
Found at i:10313115 original size:11 final size:11
Alignment explanation
Indices: 10313101--10313125 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10313091 TTTTTATATA
10313101 ATTATTTTAAT
1 ATTATTTTAAT
10313112 ATTATTTTAAT
1 ATTATTTTAAT
10313123 ATT
1 ATT
10313126 TATATTAGAA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTAAT
Found at i:10313137 original size:25 final size:26
Alignment explanation
Indices: 10313109--10313172 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 26
10313099 TAATTATTTT
10313109 AATATTATTTTAATATTT-ATATTAG
1 AATATTATTTTAATATTTGATATTAG
** *
10313134 AATAACATTAT-ATATTTGATATTAG
1 AATATTATTTTAATATTTGATATTAG
** *
10313159 TTTATTTTTTTAAT
1 AATATTATTTTAAT
10313173 GTATTCTAAA
Statistics
Matches: 28, Mismatches: 9, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
24 6 0.21
25 20 0.71
26 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (26 bp):
AATATTATTTTAATATTTGATATTAG
Found at i:10318747 original size:13 final size:13
Alignment explanation
Indices: 10318729--10318755 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10318719 TTTTGGGACA
10318729 AAAAATATTTTAT
1 AAAAATATTTTAT
10318742 AAAAATATTTTAT
1 AAAAATATTTTAT
10318755 A
1 A
10318756 GTTAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAAATATTTTAT
Found at i:10325485 original size:82 final size:82
Alignment explanation
Indices: 10325311--10325506 Score: 293
Period size: 82 Copynumber: 2.4 Consensus size: 82
10325301 TTTCAGACTT
*
10325311 TAAGTCTAGTAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGG
1 TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGG
*
10325376 TGATCTGAATCAGGTTA
66 TGATCTGAATCAGGCTA
** *
10325393 TAAACCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGG
1 TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGG
*
10325458 TGATCTGAATCATGCTA
66 TGATCTGAATCAGGCTA
* * * *
10325475 TAAGTTTAGCAGGTTATGTGCCGTTGAATCTG
1 TAAGTCTAGCAGGCTACGTGCCGGTG-ATCTG
10325507 TTTAAATTAA
Statistics
Matches: 100, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
82 96 0.96
83 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (82 bp):
TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGG
TGATCTGAATCAGGCTA
Found at i:10325497 original size:41 final size:41
Alignment explanation
Indices: 10325316--10325469 Score: 290
Period size: 41 Copynumber: 3.8 Consensus size: 41
10325306 GACTTTAAGT
*
10325316 CTAGTAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
10325357 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
10325398 CTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
10325439 CTAGCAGGCTACGTGCCGGTGATCTGAATCA
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCA
10325470 TGCTATAAGT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 110 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:10328661 original size:43 final size:41
Alignment explanation
Indices: 10328608--10328804 Score: 182
Period size: 43 Copynumber: 4.7 Consensus size: 41
10328598 TCAGTGATAT
* *
10328608 GGGGAATCAGCACATAGCAACCCCTTTCACAATTAAGGATTC
1 GGGGAATCAGCACTTAGCAACCCCTTT-ACAATCAAGGATTC
* * *
10328650 GGTGGAATCAGCACTTAGCAACCACCTTTATATTC-AGTGATAC
1 GG-GGAATCAGCACTTAGCAACC-CCTTTACAATCAAG-GATTC
*
10328693 GGGGAATCAGCACTTAGCAACCCCTTTCACAATCAAAGATAT-
1 GGGGAATCAGCACTTAGCAACCCCTTT-ACAATCAAGGAT-TC
* * * * * **
10328735 GGTGGGATCAACACCTAGCAACCACCTTTAGAGTCAATAATTC
1 GG-GGAATCAGCACTTAGCAACC-CCTTTACAATCAAGGATTC
*
10328778 AGGGAATCAGCACTTAGCAACCCCTTT
1 GGGGAATCAGCACTTAGCAACCCCTTT
10328805 TTATTCAGTA
Statistics
Matches: 126, Mismatches: 20, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
41 10 0.08
42 51 0.40
43 55 0.44
44 10 0.08
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (41 bp):
GGGGAATCAGCACTTAGCAACCCCTTTACAATCAAGGATTC
Found at i:10328706 original size:42 final size:41
Alignment explanation
Indices: 10328573--10328813 Score: 200
Period size: 42 Copynumber: 5.7 Consensus size: 41
10328563 CTTGGTGGAT
* *
10328573 TCAGCACTTAGCAACCTCC-ATAAATTCAGTGATATGGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAGTGATACGGGGAA
* * *
10328614 TCAGCACATAGCAACCCCTTTCACAATTAAG-GATTCGGTGGAA
1 TCAGCACTTAGCAACCCCTTT-A-AATTCAGTGATACGG-GGAA
*
10328657 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAGTGATACGGGGAA
** * *
10328699 TCAGCACTTAGCAACCCCTTTCACAA-TCAAAGATATGGTGGGA
1 TCAGCACTTAGCAACCCCTTT-A-AATTCAGTGATACGG-GGAA
* * * * * * * *
10328742 TCAACACCTAGCAACCACCTTTAGAGTCAATAATTCAGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAGTGATACGGGGAA
**
10328784 TCAGCACTTAGCAACCCCTTTTTATTCAGT
1 TCAGCACTTAGCAACCCCTTTAAATTCAGT
10328814 ATATTCCGGC
Statistics
Matches: 160, Mismatches: 29, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
40 2 0.01
41 31 0.19
42 59 0.37
43 58 0.36
44 10 0.06
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (41 bp):
TCAGCACTTAGCAACCCCTTTAAATTCAGTGATACGGGGAA
Found at i:10328711 original size:85 final size:85
Alignment explanation
Indices: 10328565--10328804 Score: 304
Period size: 85 Copynumber: 2.8 Consensus size: 85
10328555 ATTCGTTACT
* * * * *
10328565 TGGTGGATTCAGCACTTAGCAACCTCC-ATAAATTCAGTGATATGGGGAATCAGCACATAGCAAC
1 TGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACTTAGCAAC
* *
10328629 CCCTTTCACAATTAAGGAT-
66 CCCTTTCACAATCAAAGATA
*
10328648 TCGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACTTAGCAA
1 T-GGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACTTAGCAA
10328713 CCCCTTTCACAATCAAAGATA
65 CCCCTTTCACAATCAAAGATA
* * * * * * * * *
10328734 TGGTGGGATCAACACCTAGCAACCACCTTTAGAGTCAATAATTCAGGGAATCAGCACTTAGCAAC
1 TGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACTTAGCAAC
10328799 CCCTTT
66 CCCTTT
10328805 TTATTCAGTA
Statistics
Matches: 137, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
83 1 0.01
84 24 0.18
85 111 0.81
86 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (85 bp):
TGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACTTAGCAAC
CCCTTTCACAATCAAAGATA
Found at i:10330208 original size:24 final size:25
Alignment explanation
Indices: 10330181--10330228 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10330171 AGGTGCTCCG
*
10330181 AAGAGCTA-TTAACGGGAAGCTCGC
1 AAGAACTATTTAACGGGAAGCTCGC
10330205 AAGAACTATTTAACGGGAAGCTCG
1 AAGAACTATTTAACGGGAAGCTCG
10330229 AGAGCGCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (25 bp):
AAGAACTATTTAACGGGAAGCTCGC
Found at i:10333644 original size:30 final size:30
Alignment explanation
Indices: 10333608--10333670 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
10333598 CGACACGGTC
*
10333608 GCTTACACGGCCGTGTGTCCACCCCGTGTG
1 GCTTACACGACCGTGTGTCCACCCCGTGTG
* *
10333638 GCTTACATGACCGTGTGTCCAGCCCGTGTG
1 GCTTACACGACCGTGTGTCCACCCCGTGTG
10333668 GCT
1 GCT
10333671 CCTGAAATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.11, C:0.33, G:0.30, T:0.25
Consensus pattern (30 bp):
GCTTACACGACCGTGTGTCCACCCCGTGTG
Found at i:10335357 original size:15 final size:15
Alignment explanation
Indices: 10335321--10335353 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10335311 TTTTCCCTCA
10335321 TTTTCTTCCCTTTTC
1 TTTTCTTCCCTTTTC
*
10335336 TTTTCTT-CTTTTTC
1 TTTTCTTCCCTTTTC
10335350 TTTT
1 TTTT
10335354 TCTTTTCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCTTCCCTTTTC
Found at i:10343409 original size:187 final size:187
Alignment explanation
Indices: 10343094--10343469 Score: 698
Period size: 187 Copynumber: 2.0 Consensus size: 187
10343084 TTTTAAAGCT
10343094 TAGTAAGTTTATATAACGGGAAAGTTAACGTACTATTCATTTACATTTAAGTGAAGCATACAAGA
1 TAGTAAGTTTATATAACGGGAAAGTTAACGTACTATTCATTTACATTTAAGTGAAGCATACAAGA
* *
10343159 CATACTCAAGTAAATTGGCCAAAAGCCCTAGCAGATATCCTTATCAATCATGTTACACATGTATT
66 CATACTCAAGCAAATTGGCCAAAAGCCCTAGCACATATCCTTATCAATCATGTTACACATGTATT
10343224 TCATATAAACATCAAGGAACATGTATGAGCTCAATAATAATCAAATTTCCATATACA
131 TCATATAAACATCAAGGAACATGTATGAGCTCAATAATAATCAAATTTCCATATACA
* *
10343281 TAGTAAGTTTATATAACGGGAAAGTTAACTTACTATTCATTTACATTTAAGTTAAGCATACAAGA
1 TAGTAAGTTTATATAACGGGAAAGTTAACGTACTATTCATTTACATTTAAGTGAAGCATACAAGA
*
10343346 CATACTCAAGCAAATTGGCCAAAAGCCCTAGCACATATCCTTATCAATCATGTTAGACATGTATT
66 CATACTCAAGCAAATTGGCCAAAAGCCCTAGCACATATCCTTATCAATCATGTTACACATGTATT
*
10343411 TCATATAAACATCAAGGAACATGTATGAGCTCAATAGTAATCAAATTTCCATATACA
131 TCATATAAACATCAAGGAACATGTATGAGCTCAATAATAATCAAATTTCCATATACA
10343468 TA
1 TA
10343470 TACTTTCTTC
Statistics
Matches: 183, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
187 183 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (187 bp):
TAGTAAGTTTATATAACGGGAAAGTTAACGTACTATTCATTTACATTTAAGTGAAGCATACAAGA
CATACTCAAGCAAATTGGCCAAAAGCCCTAGCACATATCCTTATCAATCATGTTACACATGTATT
TCATATAAACATCAAGGAACATGTATGAGCTCAATAATAATCAAATTTCCATATACA
Found at i:10343730 original size:24 final size:25
Alignment explanation
Indices: 10343687--10343757 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 25
10343677 TAAACATGTA
*
10343687 AACGGGAAGCTC-TTTCGAGCCATAT
1 AACGGGAAGCTCATAT-GAGCCATAT
**
10343712 -ACGGGAAGCTCATATGAGCTGTAT
1 AACGGGAAGCTCATATGAGCCATAT
* * *
10343736 AACAGGAATCTCATACGAGCCA
1 AACGGGAAGCTCATATGAGCCA
10343758 ATATTGAGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
24 18 0.50
25 18 0.50
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (25 bp):
AACGGGAAGCTCATATGAGCCATAT
Found at i:10343803 original size:26 final size:28
Alignment explanation
Indices: 10343765--10343824 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
10343755 CCAATATTGA
10343765 GAAGCT-ATAG-AA-AGCCAATTAATCGG
1 GAAGCTCATAGAAAGAGCC-ATTAATCGG
*
10343791 GAAGCTCAT-GAAAGAGCCTTTAATCGG
1 GAAGCTCATAGAAAGAGCCATTAATCGG
10343818 GAAGCTC
1 GAAGCTC
10343825 CGAAGAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 7 0.23
27 19 0.63
28 4 0.13
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (28 bp):
GAAGCTCATAGAAAGAGCCATTAATCGG
Found at i:10343935 original size:24 final size:24
Alignment explanation
Indices: 10343908--10343978 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
10343898 AGATGCTCTG
*
10343908 AAGAGCTATTAACGGGAAGCTCGC
1 AAGAGCTATTAACGGGAAGCTCAC
* * *
10343932 AAGAACCATATAACGGGAAGCTCAT
1 AAGAGCTAT-TAACGGGAAGCTCAC
* * *
10343957 GAGAGCTAATAACGGGACGCTC
1 AAGAGCTATTAACGGGAAGCTC
10343979 TTTCCAACTG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
24 19 0.51
25 18 0.49
ACGTcount: A:0.37, C:0.21, G:0.27, T:0.15
Consensus pattern (24 bp):
AAGAGCTATTAACGGGAAGCTCAC
Found at i:10344308 original size:21 final size:21
Alignment explanation
Indices: 10344284--10344323 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10344274 ATTTAACATA
*
10344284 AATTTAATACAATTCACATTC
1 AATTCAATACAATTCACATTC
* *
10344305 AATTCAATCCATTTCACAT
1 AATTCAATACAATTCACAT
10344324 CTTAGACAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.38
Consensus pattern (21 bp):
AATTCAATACAATTCACATTC
Found at i:10360222 original size:261 final size:261
Alignment explanation
Indices: 10359758--10360278 Score: 927
Period size: 261 Copynumber: 2.0 Consensus size: 261
10359748 TCAGTAGTTG
* *
10359758 GTGGATCCTAACTAGTGAGACAACTCTCCTCACCTTTTTATTTATGGACATAATGAATTCCCTCA
1 GTGGATCCCAACTAGTGAGACAACTCTCCTCACCTTCTTATTTATGGACATAATGAATTCCCTCA
*
10359823 TGCATGCTTTCTAGTAAGCTTAGTTGGAGGCATCGAGTATAAGATATTTGAAAATCGAACTTCCT
66 TGCATGCGTTCTAGTAAGCTTAGTTGGAGGCATCGAGTATAAGATATTTGAAAATCGAACTTCCT
* * * * *
10359888 TCCACATCTCAACAATTCAATAACGGGATCTTTACCAAATTCATCTAGTGTCTAGTTTTGATACC
131 TCCACATCTCAACAATTCAATAACAGAATCTTTACCAAATTCATCTAATGTCTAGATTTGAAACC
*
10359953 AAATGTTAGTATTGAGTTATTGGTTTAATTGTATTTTAAGTTACAACTAAGGAACAACTAAAATT
196 AAATGTTAGTATTGAGTTACTGGTTTAATTGTATTTTAAGTTACAACTAAGGAACAACTAAAATT
10360018 A
261 A
10360019 GTGGATCCCAACTAGTGAGACAACTCTCCTCACCTTCTTATTTATGGACATAATGAATTCCCTCA
1 GTGGATCCCAACTAGTGAGACAACTCTCCTCACCTTCTTATTTATGGACATAATGAATTCCCTCA
*
10360084 TGCATGCGTTCTAGTAAGCTTAGTTGGAGGCATCGAGTATAAGATATTTGGAAATCGAACTTCCT
66 TGCATGCGTTCTAGTAAGCTTAGTTGGAGGCATCGAGTATAAGATATTTGAAAATCGAACTTCCT
10360149 TCCACATCTCAACAATTCAATAACAGAATCTTTACCAAATT-AGTCTAATGTCTAGATTTGAAAC
131 TCCACATCTCAACAATTCAATAACAGAATCTTTACCAAATTCA-TCTAATGTCTAGATTTGAAAC
*
10360213 CAAATGTTAGTATTGAGTTACTGGTTTAATTGTATTTTAAGTTGCAACTAAGGAACAACTAAAAT
195 CAAATGTTAGTATTGAGTTACTGGTTTAATTGTATTTTAAGTTACAACTAAGGAACAACTAAAAT
10360278 T
260 T
10360279 GGAAAAATAA
Statistics
Matches: 248, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
260 1 0.00
261 247 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (261 bp):
GTGGATCCCAACTAGTGAGACAACTCTCCTCACCTTCTTATTTATGGACATAATGAATTCCCTCA
TGCATGCGTTCTAGTAAGCTTAGTTGGAGGCATCGAGTATAAGATATTTGAAAATCGAACTTCCT
TCCACATCTCAACAATTCAATAACAGAATCTTTACCAAATTCATCTAATGTCTAGATTTGAAACC
AAATGTTAGTATTGAGTTACTGGTTTAATTGTATTTTAAGTTACAACTAAGGAACAACTAAAATT
A
Found at i:10362450 original size:61 final size:61
Alignment explanation
Indices: 10362380--10362500 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 61
10362370 CTTCCTTTTT
* * * * *
10362380 AAACTTTTAGATTTAGAATTAAATTGATAAA-TTTTGTAAATGTTCATGGCTAAATTTATTG
1 AAACATTTAGAATTAGAACTAAA-TGATAAATTTTTGTAAATATTCAGGGCTAAATTTATTG
* *
10362441 AAACATTTAGAATTAGAACTAAATGATAAATTTTTGTAAATATTGAGGGTTAAATTTATT
1 AAACATTTAGAATTAGAACTAAATGATAAATTTTTGTAAATATTCAGGGCTAAATTTATT
10362501 AAATTTAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
60 7 0.13
61 45 0.87
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (61 bp):
AAACATTTAGAATTAGAACTAAATGATAAATTTTTGTAAATATTCAGGGCTAAATTTATTG
Found at i:10368731 original size:16 final size:18
Alignment explanation
Indices: 10368705--10368738 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10368695 TAGAATCGAG
10368705 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
10368722 TTGA-AAAATTAATTTAA
1 TTGAGAAAATTAATTTAA
10368739 AATTATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:10369167 original size:36 final size:36
Alignment explanation
Indices: 10369099--10369182 Score: 116
Period size: 36 Copynumber: 2.3 Consensus size: 36
10369089 GCCTCAACTG
*
10369099 GATTATGCCATGTAGGCGAATCTGACAAACCTCCCT
1 GATTATGCCATATAGGCGAATCTGACAAACCTCCCT
* *
10369135 AGATTATGCCATATAGGCG-ATCTGGCAGACCTCCCT
1 -GATTATGCCATATAGGCGAATCTGACAAACCTCCCT
10369171 GAATTATGCCAT
1 G-ATTATGCCAT
10369183 GGCCATGGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
35 1 0.02
36 25 0.58
37 17 0.40
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (36 bp):
GATTATGCCATATAGGCGAATCTGACAAACCTCCCT
Found at i:10369265 original size:22 final size:22
Alignment explanation
Indices: 10369237--10369290 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
10369227 CTGCAGAGTC
*
10369237 TCATACTATCCTTAAAAGGCTT
1 TCATACTATCCGTAAAAGGCTT
* *
10369259 TCATACTACCCGTAAAGGGCTT
1 TCATACTATCCGTAAAAGGCTT
10369281 TCATAACTAT
1 TCAT-ACTAT
10369291 GTTCACGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.33
Consensus pattern (22 bp):
TCATACTATCCGTAAAAGGCTT
Found at i:10378007 original size:87 final size:87
Alignment explanation
Indices: 10377858--10378040 Score: 208
Period size: 87 Copynumber: 2.1 Consensus size: 87
10377848 AACCTCAGAT
** * **
10377858 TATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAAGGATGGTGACGACCATCAACTATGATA
1 TATGAAAAGGGATAGCTTCGAATATCGAATATGAAAAAGGATACTGACGACCATCAACTATGA-A
10377923 AA-GGATGGTGACGACCATCAAA
65 AAGGGATGGTGACGACCATCAAA
* * * * * *
10377945 TATGAAAAGGGATAGCTTCGAATATCGAATGTGAAAATGGATAACT-TCGACTATCGATTATGAA
1 TATGAAAAGGGATAGCTTCGAATATCGAATATGAAAAAGGAT-ACTGACGACCATCAACTATGAA
* **
10378009 AAGGGATGGTGACGACCGTCAGC
65 AAGGGATGGTGACGACCATCAAA
10378032 TATGAAAAG
1 TATGAAAAG
10378041 AGATGATGAC
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
86 3 0.04
87 76 0.95
88 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.23
Consensus pattern (87 bp):
TATGAAAAGGGATAGCTTCGAATATCGAATATGAAAAAGGATACTGACGACCATCAACTATGAAA
AGGGATGGTGACGACCATCAAA
Found at i:10378024 original size:29 final size:29
Alignment explanation
Indices: 10377855--10378102 Score: 146
Period size: 29 Copynumber: 8.5 Consensus size: 29
10377845 ACAAACCTCA
* * * *
10377855 GATTATGAAAAGGGATAGCT-TCGGCTATC
1 GATTATGAAAAGGGAT-GGTGACGACCATC
*
10377884 GATTATGAAAAAGGATGGTGACGACCATC
1 GATTATGAAAAGGGATGGTGACGACCATC
* *
10377913 AACTATGATAAA-GGATGGTGACGACCATC
1 GATTATGA-AAAGGGATGGTGACGACCATC
* * * * **
10377942 AAATATGAAAAGGGATAGCT-TCGAATATC
1 GATTATGAAAAGGGAT-GGTGACGACCATC
* * * ** * *
10377971 GAATGTGAAAATGGATAACT-TCGACTATC
1 GATTATGAAAAGGGAT-GGTGACGACCATC
*
10378000 GATTATGAAAAGGGATGGTGACGACCGTC
1 GATTATGAAAAGGGATGGTGACGACCATC
* * * **
10378029 -AGCTATGAAAAGAGATGATGACGGTCATC
1 GA-TTATGAAAAGGGATGGTGACGACCATC
**
10378058 GATTAATGAAAAGGGATGGTTTCGACCATC
1 GATT-ATGAAAAGGGATGGTGACGACCATC
*
10378088 GAATATGAAAAGGGA
1 GATTATGAAAAGGGA
10378103 CGGTTACAAC
Statistics
Matches: 172, Mismatches: 39, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
28 7 0.04
29 137 0.80
30 28 0.16
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.23
Consensus pattern (29 bp):
GATTATGAAAAGGGATGGTGACGACCATC
Found at i:10378114 original size:29 final size:30
Alignment explanation
Indices: 10378054--10378115 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
10378044 TGATGACGGT
* * * *
10378054 CATCGATTAATGAAAAGGGATGGTTTCGAC
1 CATCGAATAATGAAAAGGGACGGTTACAAC
10378084 CATCGAAT-ATGAAAAGGGACGGTTACAAC
1 CATCGAATAATGAAAAGGGACGGTTACAAC
10378113 CAT
1 CAT
10378116 TGTTTAGCAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (30 bp):
CATCGAATAATGAAAAGGGACGGTTACAAC
Found at i:10380078 original size:9 final size:9
Alignment explanation
Indices: 10380064--10380133 Score: 104
Period size: 9 Copynumber: 7.8 Consensus size: 9
10380054 TTTGGTTAAA
10380064 AATTACCCG
1 AATTACCCG
10380073 AATTACCCG
1 AATTACCCG
*
10380082 AATTACCTG
1 AATTACCCG
10380091 AATTACCCG
1 AATTACCCG
*
10380100 AATTAACCG
1 AATTACCCG
*
10380109 AATTAACCG
1 AATTACCCG
*
10380118 AATTAACCG
1 AATTACCCG
10380127 AATTACC
1 AATTACC
10380134 GAAAAATACC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:10381594 original size:20 final size:20
Alignment explanation
Indices: 10381569--10381607 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
10381559 AGCACTTAGC
10381569 TTTCAAAGCTCTCAACCTTT
1 TTTCAAAGCTCTCAACCTTT
10381589 TTTCAAAGCTCTCAACCTT
1 TTTCAAAGCTCTCAACCTT
10381608 CCAAGGTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.31, G:0.05, T:0.38
Consensus pattern (20 bp):
TTTCAAAGCTCTCAACCTTT
Found at i:10381760 original size:68 final size:68
Alignment explanation
Indices: 10381682--10381955 Score: 238
Period size: 68 Copynumber: 4.0 Consensus size: 68
10381672 CCTTCCAGGC
* * * * *
10381682 ACTTAGCTTTTCAAAGCTTTTGACCTTCAAAGGTTGCGTACTTCTTAAAGTACTTAGCCCTCTCA
1 ACTTACCTTTTCAAAGATTTTGACCTTCTAAGGTTGCATACTTCTTAAAGTACTTAACCCTCTCA
10381747 AGA
66 AGA
* * * *
10381750 ACTTACCTTTTCAAATATTTTGGCCTT-TCAAGGTTGCATACTTCTTAAAGTA-TTCAGCCTCCT
1 ACTTACCTTTTCAAAGATTTTGACCTTCT-AAGGTTGCATACTTCTTAAAGTACTTAACCCT-CT
*
10381813 CAAGC
64 CAAGA
* * * *
10381818 ACTCT-CCTTTTCAAAGATTTTGACCTTCTAAGGTCT-CAAAC-TCTTTAAAGTATTTAATCATC
1 ACT-TACCTTTTCAAAGATTTTGACCTTCTAAGGT-TGCATACTTC-TTAAAGTACTTAACCCTC
10381880 TCAAGA
63 TCAAGA
*** * * * * *
10381886 ACTTTTGTTTTCAAAGCTCTTGACCTTCTAA-GCT-CATGTACTTCTTAAAGTACTTAACCTTTT
1 ACTTACCTTTTCAAAGATTTTGACCTTCTAAGGTTGCA--TACTTCTTAAAGTACTTAACCCTCT
10381949 CAAGA
64 CAAGA
10381954 AC
1 AC
10381956 CCAAATTTTT
Statistics
Matches: 168, Mismatches: 27, Indels: 22
0.77 0.12 0.10
Matches are distributed among these distances:
66 3 0.02
67 9 0.05
68 146 0.87
69 10 0.06
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.38
Consensus pattern (68 bp):
ACTTACCTTTTCAAAGATTTTGACCTTCTAAGGTTGCATACTTCTTAAAGTACTTAACCCTCTCA
AGA
Found at i:10381970 original size:68 final size:68
Alignment explanation
Indices: 10381893--10382021 Score: 159
Period size: 68 Copynumber: 1.9 Consensus size: 68
10381883 AGAACTTTTG
* ** * * *
10381893 TTTTCAAAGCTCTTGACCTTCTAAGCTCATGTACTTCTTAAAGTACTTAACCTTTTCAAGAACCC
1 TTTTCAAAGCACTCAACCTTCCAAGCTCATGTACTTCTTAAAATACTTAACCTTCTCAAGAACCC
10381958 AAA
66 AAA
* * ** *
10381961 TTTTTAAAGCACTCAACCTTCCAAGGTTGTGTACTTCTTAAAATATTTAACCTTCTCAAGA
1 TTTTCAAAGCACTCAACCTTCCAAGCTCATGTACTTCTTAAAATACTTAACCTTCTCAAGA
10382022 CCTTGGCTTC
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 50 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.36
Consensus pattern (68 bp):
TTTTCAAAGCACTCAACCTTCCAAGCTCATGTACTTCTTAAAATACTTAACCTTCTCAAGAACCC
AAA
Found at i:10393977 original size:9 final size:9
Alignment explanation
Indices: 10393958--10394006 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
10393948 TTTGGTTAAA
*
10393958 AATTAACCG
1 AATTACCCG
*
10393967 AATTACTCG
1 AATTACCCG
*
10393976 AATTAACCG
1 AATTACCCG
10393985 AATTACCCG
1 AATTACCCG
10393994 AATTACCCG
1 AATTACCCG
10394003 AATT
1 AATT
10394007 GAATCACTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTACCCG
Found at i:10393981 original size:18 final size:18
Alignment explanation
Indices: 10393958--10394006 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
10393948 TTTGGTTAAA
*
10393958 AATTAACCGAATTACTCG
1 AATTAACCGAATTACCCG
10393976 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
10393994 AATTACCCGAATT
1 AATTAACCGAATT
10394007 GAATCACTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:10394150 original size:18 final size:18
Alignment explanation
Indices: 10394127--10394170 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
10394117 AATTTTTATG
*
10394127 ATTGGGTTGAGTTGGGTA
1 ATTGGGTTGAGTTGGATA
*
10394145 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGAGTTGGATA
*
10394163 CTTGGGTT
1 ATTGGGTT
10394171 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGAGTTGGATA
Found at i:10402027 original size:23 final size:23
Alignment explanation
Indices: 10401985--10402033 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
10401975 GTAATAAATG
*
10401985 TTTTATAGTATAAAATATGAATA
1 TTTTATAATATAAAATATGAATA
*
10402008 TTTTCATAATATAAAA-ATGAGTA
1 TTTT-ATAATATAAAATATGAATA
10402031 TTT
1 TTT
10402034 GTTTAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (23 bp):
TTTTATAATATAAAATATGAATA
Found at i:10403444 original size:16 final size:15
Alignment explanation
Indices: 10403419--10403452 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10403409 TTTATCCTTA
*
10403419 AAAAATTATTTTTCAG
1 AAAAACTATTTTT-AG
10403435 AAAAACTATTTTTAG
1 AAAAACTATTTTTAG
10403450 AAA
1 AAA
10403453 GTATTGCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (15 bp):
AAAAACTATTTTTAG
Found at i:10409537 original size:23 final size:23
Alignment explanation
Indices: 10409506--10409553 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
10409496 AGAAACATGA
*
10409506 ATTTCAAATTCAAAAATATATAT
1 ATTTAAAATTCAAAAATATATAT
**
10409529 ATTTAAAATTCACGAATATATAT
1 ATTTAAAATTCAAAAATATATAT
10409552 AT
1 AT
10409554 ATACTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (23 bp):
ATTTAAAATTCAAAAATATATAT
Found at i:10412610 original size:26 final size:25
Alignment explanation
Indices: 10412581--10412630 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
10412571 CAATTTAATA
10412581 ATTCAATTCAAAC-CATTTCAATTTCT
1 ATTCAA-T-AAACACATTTCAATTTCT
*
10412607 ATTCAATAATCACATTTCAATTTC
1 ATTCAATAAACACATTTCAATTTC
10412631 ACTTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTCAATAAACACATTTCAATTTCT
Found at i:10413552 original size:5 final size:5
Alignment explanation
Indices: 10413519--10413626 Score: 78
Period size: 5 Copynumber: 21.0 Consensus size: 5
10413509 ACTTTACTAT
* * *
10413519 ATATA TATATA TATAAA ATATA ATAATA ATATAA TATATA ATAAA ACATA
1 ATATA -ATATA -ATATA ATATA AT-ATA ATAT-A -ATATA ATATA ATATA
* * * *
10413569 ATA-A ATAT- CTTTA TTAT- TTAATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA
10413617 ATATA ATATA
1 ATATA ATATA
10413627 TTGAACTTAA
Statistics
Matches: 84, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
4 8 0.10
5 54 0.64
6 18 0.21
7 4 0.05
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:10423810 original size:33 final size:33
Alignment explanation
Indices: 10423773--10423836 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
10423763 AAATACTACC
*
10423773 ATAAATATAATAAATGTTTTATTATATTAAAAA
1 ATAAATATAATAAATATTTTATTATATTAAAAA
*
10423806 ATAAATATAATAAATATTTTATTGTATTAAA
1 ATAAATATAATAAATATTTTATTATATTAAA
10423837 TATAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (33 bp):
ATAAATATAATAAATATTTTATTATATTAAAAA
Found at i:10424791 original size:3 final size:3
Alignment explanation
Indices: 10424767--10424809 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
10424757 AGCACGAGAG
*
10424767 AGA AGA CAGA A-A AGA A-A AGA AGA AGA CGA AGA AGA AGA AGA AG
1 AGA AGA -AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
10424810 CAGCAGCAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.11
3 28 0.80
4 3 0.09
ACGTcount: A:0.65, C:0.05, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:10425257 original size:9 final size:9
Alignment explanation
Indices: 10425243--10425300 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
10425233 TTTGGTTAAA
10425243 AATTAACCG
1 AATTAACCG
* *
10425252 AATTAATCA
1 AATTAACCG
*
10425261 AATTAACTG
1 AATTAACCG
*
10425270 AATTACCCG
1 AATTAACCG
10425279 AATT-ACCTG
1 AATTAACC-G
10425288 AATTAACCG
1 AATTAACCG
10425297 AATT
1 AATT
10425301 GAATCATTAC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
8 2 0.05
9 34 0.87
10 3 0.08
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:10425282 original size:18 final size:18
Alignment explanation
Indices: 10425243--10425300 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
10425233 TTTGGTTAAA
* * *
10425243 AATTAACCGAATTAATCA
1 AATTAACTGAATTAACCG
*
10425261 AATTAACTGAATTACCCG
1 AATTAACTGAATTAACCG
*
10425279 AATTACCTGAATTAACCG
1 AATTAACTGAATTAACCG
10425297 AATT
1 AATT
10425301 GAATCATTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (18 bp):
AATTAACTGAATTAACCG
Found at i:10425427 original size:13 final size:13
Alignment explanation
Indices: 10425409--10425433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10425399 TATGATTGGG
10425409 TTGGGTTGGGTAA
1 TTGGGTTGGGTAA
10425422 TTGGGTTGGGTA
1 TTGGGTTGGGTA
10425434 GAAGACTTGG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
TTGGGTTGGGTAA
Found at i:10428251 original size:123 final size:122
Alignment explanation
Indices: 10427984--10428217 Score: 305
Period size: 122 Copynumber: 1.9 Consensus size: 122
10427974 ATCGATACCA
* * * * * *
10427984 TATCGATACTTGATAAA-ACCTTT-AAAAGTCAGAATGTCAATTTCGTATTGATACCGAAAAAGG
1 TATCGATACTTGATAAATA-CTTTGAAAA-ACAAAATGCCATTTTCGTATCGATACCAAAAAAGG
* * *
10428047 TATTGATAAAAGTGTAACACTACGATACTTGAAAAAATTTATTGATACCAAACAAAATG
64 TATCGATAAAAGTGTAACACTACGATACTTCAAAAAATTTATCGATACCAAACAAAATG
10428106 TATCGATACTTGATAAATACTTTGAAAAACAAAATGCCATTTTCGTATCGATACCAAAAAAGGTA
1 TATCGATACTTGATAAATACTTTGAAAAACAAAATGCCATTTTCGTATCGATACCAAAAAAGGTA
*
10428171 TCGATAGAAGTGTAA-ATCTATCGATAC-TCAACAAAATTTATCGATAC
66 TCGATAAAAGTGTAACA-CTA-CGATACTTCAA-AAAATTTATCGATAC
10428218 TTGATAGAAA
Statistics
Matches: 97, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
121 1 0.01
122 71 0.73
123 25 0.26
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (122 bp):
TATCGATACTTGATAAATACTTTGAAAAACAAAATGCCATTTTCGTATCGATACCAAAAAAGGTA
TCGATAAAAGTGTAACACTACGATACTTCAAAAAATTTATCGATACCAAACAAAATG
Found at i:10442723 original size:72 final size:72
Alignment explanation
Indices: 10442606--10442750 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
10442596 AGATTGGTTA
10442606 TCTCAATAAATCTCTGTTACGTCCCCTTGATTCAAATTTAAGTCACACAACAGCTTCTTTAGCCA
1 TCTCAATAAATCTCTGTTACGTCCCCTTGATTCAAATTTAAGTCACACAACAGCTTCTTTAGCCA
10442671 AATGGCT
66 AATGGCT
10442678 TCTCAATAAATCTCTGTTACGTCCCCTTGATTCAAATTTAAGTCACACAACAGCTTCTTTAGCCA
1 TCTCAATAAATCTCTGTTACGTCCCCTTGATTCAAATTTAAGTCACACAACAGCTTCTTTAGCCA
10442743 AATGGCT
66 AATGGCT
10442750 T
1 T
10442751 AGTTTACAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (72 bp):
TCTCAATAAATCTCTGTTACGTCCCCTTGATTCAAATTTAAGTCACACAACAGCTTCTTTAGCCA
AATGGCT
Found at i:10466236 original size:70 final size:71
Alignment explanation
Indices: 10466157--10466298 Score: 261
Period size: 71 Copynumber: 2.0 Consensus size: 71
10466147 AATGTAAACT
10466157 AAGCCATTT-GCTAAAGAAGCTGTTGTGTGACTTAAATTTGAATCAA-GGGACGTAACAGAGATT
1 AAGCCATTTGGCTAAAGAAGCTGTTGTGTGACTTAAATTTGAATCAAGGGGACGTAACAGAGATT
10466220 TATTGAG
66 TA-TGAG
10466227 AAGCCATTTGGCTAAAGAAGCTGTTGTGTGACTTAAATTTGAATCAAGGGGACGTAACAGAGATT
1 AAGCCATTTGGCTAAAGAAGCTGTTGTGTGACTTAAATTTGAATCAAGGGGACGTAACAGAGATT
10466292 TATGAG
66 TATGAG
10466298 A
1 A
10466299 TAACCAATCT
Statistics
Matches: 70, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
70 9 0.13
71 42 0.60
72 19 0.27
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (71 bp):
AAGCCATTTGGCTAAAGAAGCTGTTGTGTGACTTAAATTTGAATCAAGGGGACGTAACAGAGATT
TATGAG
Found at i:10475499 original size:23 final size:22
Alignment explanation
Indices: 10475473--10475523 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
10475463 CTTTCACTTT
10475473 TTATTCT-ATCATTTATTTATTTA
1 TTATTCTAAT-ATTTA-TTATTTA
*
10475496 TTATTTTGAATATTTATTATTTA
1 TTATTCT-AATATTTATTATTTA
10475519 TTATT
1 TTATT
10475524 AAATTTCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 18 0.72
24 5 0.20
25 2 0.08
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTCTAATATTTATTATTTA
Found at i:10497739 original size:15 final size:16
Alignment explanation
Indices: 10497710--10497739 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10497700 CAAACATGCT
10497710 TTAACACATTATCAAA
1 TTAACACATTATCAAA
10497726 TTAACACA-TATCAA
1 TTAACACATTATCAA
10497740 CAAAGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:10498736 original size:269 final size:269
Alignment explanation
Indices: 10498257--10498794 Score: 1058
Period size: 269 Copynumber: 2.0 Consensus size: 269
10498247 ATAACAACAT
10498257 TAATTCAATTCATCATTCCCTTTTCCATCATTCTACACTTCAGGTATGAACTTACTATTTCATTA
1 TAATTCAATTCATCATTCCCTTTTCCATCATTCTACACTTCAGGTATGAACTTACTATTTCATTA
10498322 CCTTTCCACACCCGTTTCATATGCATAACACACAAGACATAAGTATATCATTCAAACATAGCCAC
66 CCTTTCCACACCCGTTTCATATGCATAACACACAAGACATAAGTATATCATTCAAACATAGCCAC
10498387 AAGCTAGTGCATTAAAACATAACTCTTTTTGGAATTAGTCACATGATAAACCATTTCAAAAGAAA
131 AAGCTAGTGCATTAAAACATAACTCTTTTTGGAATTAGTCACATGATAAACCATTTCAAAAGAAA
10498452 TAACATAATTTAAACCTTACCACTCTTTCACAAACACAAGCATATTTCCATTGGAGACTTACCAT
196 TAACATAATTTAAACCTTACCACTCTTTCACAAACACAAGCATATTTCCATTGGAGACTTACCAT
10498517 TTCAATGCA
261 TTCAATGCA
10498526 TAATTCAATTCATCATTCCCTTTTCCATCATTCTACACTTCAGGTATGAACTTACTATTTCATTA
1 TAATTCAATTCATCATTCCCTTTTCCATCATTCTACACTTCAGGTATGAACTTACTATTTCATTA
10498591 CCTTTCCACACCCGTTTCATATGCATAACACACAAGACATAAGTATATCATTCAAACATAGCCAC
66 CCTTTCCACACCCGTTTCATATGCATAACACACAAGACATAAGTATATCATTCAAACATAGCCAC
*
10498656 AAGCTAGTGCATTAAAACATAACTCTTTTTGGAATTAGTCACATGATAAACCATTTCATAAGAAA
131 AAGCTAGTGCATTAAAACATAACTCTTTTTGGAATTAGTCACATGATAAACCATTTCAAAAGAAA
*
10498721 TAACATAATTTAAACCTTACCACTCTTTCACAAACACAAGCATATTTCCATTGGAGATTTACCAT
196 TAACATAATTTAAACCTTACCACTCTTTCACAAACACAAGCATATTTCCATTGGAGACTTACCAT
10498786 TTCAATGCA
261 TTCAATGCA
10498795 ACTTATAAGT
Statistics
Matches: 267, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
269 267 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (269 bp):
TAATTCAATTCATCATTCCCTTTTCCATCATTCTACACTTCAGGTATGAACTTACTATTTCATTA
CCTTTCCACACCCGTTTCATATGCATAACACACAAGACATAAGTATATCATTCAAACATAGCCAC
AAGCTAGTGCATTAAAACATAACTCTTTTTGGAATTAGTCACATGATAAACCATTTCAAAAGAAA
TAACATAATTTAAACCTTACCACTCTTTCACAAACACAAGCATATTTCCATTGGAGACTTACCAT
TTCAATGCA
Found at i:10499108 original size:25 final size:25
Alignment explanation
Indices: 10499084--10499207 Score: 87
Period size: 25 Copynumber: 5.0 Consensus size: 25
10499074 ATACATGTAT
*
10499084 GCTCATATGAGCTATGAATCGGTAT
1 GCTCATATGAGCTATGAATCGGTAA
* * *
10499109 GTTC-TCATGAGCTATAAATCAGTAA
1 GCTCAT-ATGAGCTATGAATCGGTAA
*
10499134 GCTTATATGAGCTGA-GAATCGGTAA
1 GCTCATATGAGCT-ATGAATCGGTAA
** *
10499159 GCTTTTATGAGC--TGAAATCGATAA
1 GCTCATATGAGCTATG-AATCGGTAA
* *
10499183 GCTTATACGAGCTGA-GAATCGGTAA
1 GCTCATATGAGCT-ATGAATCGGTAA
10499208 CCTCTCACGA
Statistics
Matches: 78, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
23 1 0.01
24 19 0.24
25 55 0.71
26 3 0.04
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (25 bp):
GCTCATATGAGCTATGAATCGGTAA
Found at i:10499153 original size:50 final size:49
Alignment explanation
Indices: 10499088--10499231 Score: 168
Period size: 49 Copynumber: 2.9 Consensus size: 49
10499078 ATGTATGCTC
* *
10499088 ATATGAGCT-ATGAATCGGTATG-TTCTCATGAGCTATAAATC-AGTAAGCTT
1 ATATGAGCTGA-GAATCGGTAAGCTT-TCATGAGCT-GAAATCGA-TAAGCTT
*
10499138 ATATGAGCTGAGAATCGGTAAGCTTTTATGAGCTGAAATCGATAAGCTT
1 ATATGAGCTGAGAATCGGTAAGCTTTCATGAGCTGAAATCGATAAGCTT
* * * *
10499187 ATACGAGCTGAGAATCGGTAACCTCTCACGAGCTGAAATCGATAA
1 ATATGAGCTGAGAATCGGTAAGCTTTCATGAGCTGAAATCGATAA
10499232 TCCCTAATGA
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
49 52 0.63
50 28 0.34
51 3 0.04
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (49 bp):
ATATGAGCTGAGAATCGGTAAGCTTTCATGAGCTGAAATCGATAAGCTT
Found at i:10499183 original size:24 final size:25
Alignment explanation
Indices: 10499131--10499231 Score: 109
Period size: 25 Copynumber: 4.1 Consensus size: 25
10499121 TATAAATCAG
* *
10499131 TAAGCTTATATGAGCTGAGAATCGG
1 TAAGCTTATACGAGCTGAGAATCGA
* *
10499156 TAAGCTTTTATGAGCTGA-AATCGA
1 TAAGCTTATACGAGCTGAGAATCGA
*
10499180 TAAGCTTATACGAGCTGAGAATCGG
1 TAAGCTTATACGAGCTGAGAATCGA
* *
10499205 TAACCTCT-CACGAGCTGA-AATCGA
1 TAAGCT-TATACGAGCTGAGAATCGA
10499229 TAA
1 TAA
10499232 TCCCTAATGA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
24 29 0.44
25 36 0.55
26 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (25 bp):
TAAGCTTATACGAGCTGAGAATCGA
Found at i:10501030 original size:16 final size:16
Alignment explanation
Indices: 10501009--10501040 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10500999 TTTAGGTACT
10501009 AAAAGAACATTTGAAA
1 AAAAGAACATTTGAAA
10501025 AAAAGAACATTTGAAA
1 AAAAGAACATTTGAAA
10501041 TCACTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (16 bp):
AAAAGAACATTTGAAA
Found at i:10509795 original size:16 final size:16
Alignment explanation
Indices: 10509774--10509823 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
10509764 AATGAAAAGG
* *
10509774 TTGAAAATGATATCGA
1 TTGAAAAGGATATCAA
10509790 TTGAAAAGGATATCAA
1 TTGAAAAGGATATCAA
*
10509806 ATGAAAAGGATAT-AA
1 TTGAAAAGGATATCAA
10509821 TTG
1 TTG
10509824 GAATGGATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.48, C:0.04, G:0.20, T:0.28
Consensus pattern (16 bp):
TTGAAAAGGATATCAA
Found at i:10525820 original size:40 final size:41
Alignment explanation
Indices: 10525743--10525890 Score: 147
Period size: 41 Copynumber: 3.6 Consensus size: 41
10525733 TGAACCTAAC
* * * * * * *
10525743 AGGCTTTGTACCGGTTTAACGATTCAAGCCTTAAGCCTAGA
1 AGGCTTCGTGCCGGTGTAATGAATCAGGCCTTGAGCCTAGA
* *
10525784 AGGCTTCATG-CGGTGTAATGAATCAGGCCTTGAGCCTAGT
1 AGGCTTCGTGCCGGTGTAATGAATCAGGCCTTGAGCCTAGA
* * *
10525824 AGGCTTCGTGTCGGTGT-ATGAAATTAGGCCTTGAGCCTAGC
1 AGGCTTCGTGCCGGTGTAATG-AATCAGGCCTTGAGCCTAGA
* *
10525865 AGGCTTCGTGCCAGTGTAGTGAATCA
1 AGGCTTCGTGCCGGTGTAATGAATCA
10525891 AATAACCGTT
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
40 36 0.41
41 50 0.57
42 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (41 bp):
AGGCTTCGTGCCGGTGTAATGAATCAGGCCTTGAGCCTAGA
Found at i:10527232 original size:9 final size:9
Alignment explanation
Indices: 10527203--10527247 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
10527193 AAGTTATATA
*
10527203 TATAAATAT
1 TATAATTAT
10527212 TAT-ATGTA-
1 TATAAT-TAT
10527220 TATAATTAT
1 TATAATTAT
10527229 TATAATTAT
1 TATAATTAT
10527238 TATAATTAT
1 TATAATTAT
10527247 T
1 T
10527248 TATTTAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TATAATTAT
Found at i:10527608 original size:15 final size:17
Alignment explanation
Indices: 10527590--10527621 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10527580 CAAAATAGAA
10527590 AGAA-CAAA-GAAACAG
1 AGAAGCAAACGAAACAG
10527605 AGAAGCAAACGAAACAG
1 AGAAGCAAACGAAACAG
10527622 GGGAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.62, C:0.16, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAGCAAACGAAACAG
Found at i:10528390 original size:39 final size:41
Alignment explanation
Indices: 10528347--10528429 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 41
10528337 GGAATATTAG
*
10528347 ATATTGTTTTG-AGTACTG-AGTGAATTGTGAAAATACT-GA
1 ATATTGTTATGTA-TACTGCAGTGAATTGTGAAAATACTGGA
* * *
10528386 ATATTGTTATGTATATTGCATTGAATTGTGAAATTACTGGA
1 ATATTGTTATGTATACTGCAGTGAATTGTGAAAATACTGGA
10528427 ATA
1 ATA
10528430 ATAAATTACT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 14 0.38
40 18 0.49
41 5 0.14
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (41 bp):
ATATTGTTATGTATACTGCAGTGAATTGTGAAAATACTGGA
Found at i:10528681 original size:39 final size:39
Alignment explanation
Indices: 10528601--10528731 Score: 131
Period size: 45 Copynumber: 3.2 Consensus size: 39
10528591 ATTTGCCGGC
* * *
10528601 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTCA-GCACTTTGTGTGTCGAATACTGTTACTG
* *
10528639 TTACTGATTTAGCACTTTGTGTGTCGAATACTGTTACCG
1 TTACTGATTCAGCACTTTGTGTGTCGAATACTGTTACTG
*
10528678 TTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGTTACTG
1 TTACTG----A--TTCAGCACTTTGTGTGTCGAATACTGTTACTG
10528723 TTACTGATT
1 TTACTGATT
10528732 ACTGTATACT
Statistics
Matches: 77, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
38 11 0.14
39 29 0.38
41 1 0.01
43 1 0.01
45 35 0.45
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (39 bp):
TTACTGATTCAGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:10528698 original size:45 final size:45
Alignment explanation
Indices: 10528632--10528733 Score: 150
Period size: 45 Copynumber: 2.2 Consensus size: 45
10528622 GCCGACTACT
* *
10528632 GTTACTGTTACTGATTTAGCACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACC
* * *
10528677 GTTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACC
10528722 GTTACTGATTAC
1 GTTACTG-TTAC
10528734 TGTATACTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 47 0.92
46 4 0.08
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACC
Found at i:10528859 original size:7 final size:7
Alignment explanation
Indices: 10528849--10528875 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
10528839 ATGTGAAAGG
10528849 TGAAATT
1 TGAAATT
10528856 TGAAATT
1 TGAAATT
10528863 TGAAATT
1 TGAAATT
10528870 TGAAAT
1 TGAAAT
10528876 AAAGAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (7 bp):
TGAAATT
Found at i:10535722 original size:11 final size:12
Alignment explanation
Indices: 10535700--10535735 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
10535690 TAAATTCCAA
10535700 TACATATTGAAT
1 TACATATTGAAT
10535712 TACAT-TTGAAT
1 TACATATTGAAT
10535723 T-CATATTGAAT
1 TACATATTGAAT
10535734 TA
1 TA
10535736 TACTTATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.14
11 14 0.64
12 5 0.23
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TACATATTGAAT
Found at i:10536576 original size:30 final size:30
Alignment explanation
Indices: 10536542--10536671 Score: 163
Period size: 30 Copynumber: 4.3 Consensus size: 30
10536532 TAACCCTGGG
* *
10536542 GTTGGTCAGCAACTCATCAGCTATCCCGGA
1 GTTGGTCAGCAACACATCAGCAATCCCGGA
* * *
10536572 GTTGGTCAGCAACACATCAACAATCCTGGT
1 GTTGGTCAGCAACACATCAGCAATCCCGGA
* *
10536602 GTTGGTCAGCAACTA-ATTAGCTATCCCGGA
1 GTTGGTCAGCAAC-ACATCAGCAATCCCGGA
* *
10536632 GTTGGTCAGCAACACATCAGCAATCCTGGT
1 GTTGGTCAGCAACACATCAGCAATCCCGGA
10536662 GTTGGTCAGC
1 GTTGGTCAGC
10536672 TCATGGGTGT
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
29 1 0.01
30 82 0.98
31 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (30 bp):
GTTGGTCAGCAACACATCAGCAATCCCGGA
Found at i:10536610 original size:60 final size:60
Alignment explanation
Indices: 10536536--10536671 Score: 236
Period size: 60 Copynumber: 2.3 Consensus size: 60
10536526 CCTCAATAAC
* *
10536536 CCTGGGGTTGGTCAGCAACTCATCAGCTATCCCGGAGTTGGTCAGCAACACATCAACAAT
1 CCTGGTGTTGGTCAGCAACTAATCAGCTATCCCGGAGTTGGTCAGCAACACATCAACAAT
* *
10536596 CCTGGTGTTGGTCAGCAACTAATTAGCTATCCCGGAGTTGGTCAGCAACACATCAGCAAT
1 CCTGGTGTTGGTCAGCAACTAATCAGCTATCCCGGAGTTGGTCAGCAACACATCAACAAT
10536656 CCTGGTGTTGGTCAGC
1 CCTGGTGTTGGTCAGC
10536672 TCATGGGTGT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 72 1.00
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.24
Consensus pattern (60 bp):
CCTGGTGTTGGTCAGCAACTAATCAGCTATCCCGGAGTTGGTCAGCAACACATCAACAAT
Found at i:10543226 original size:16 final size:15
Alignment explanation
Indices: 10543190--10543225 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10543180 CAAAACCAAG
10543190 ATTTTTACAACATTC
1 ATTTTTACAACATTC
* *
10543205 ATTTTTATAATATTC
1 ATTTTTACAACATTC
10543220 ATTTTT
1 ATTTTT
10543226 TTTAGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTTTACAACATTC
Found at i:10544303 original size:18 final size:18
Alignment explanation
Indices: 10544282--10544319 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10544272 ATTATTTTCT
10544282 TATTTATCATAATTATTA
1 TATTTATCATAATTATTA
* *
10544300 TATTTTTCATTATTATTA
1 TATTTATCATAATTATTA
10544318 TA
1 TA
10544320 GTATTTGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTATCATAATTATTA
Found at i:10551601 original size:38 final size:38
Alignment explanation
Indices: 10551546--10551619 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
10551536 TCGATTATTA
*
10551546 TTTTTCAAGCCTCAAACGAGGAAAACACATCACTTTAG
1 TTTTCCAAGCCTCAAACGAGGAAAACACATCACTTTAG
* * **
10551584 TTTTCCAAGCCTTAAACGTGGAAAATGCATCACTTT
1 TTTTCCAAGCCTCAAACGAGGAAAACACATCACTTT
10551620 TTTGCTTCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (38 bp):
TTTTCCAAGCCTCAAACGAGGAAAACACATCACTTTAG
Found at i:10563657 original size:17 final size:17
Alignment explanation
Indices: 10563635--10563669 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10563625 CAGAGCGTGG
10563635 TAAGTCAGAAAAGATAA
1 TAAGTCAGAAAAGATAA
*
10563652 TAAGTCAGAAAAGGTAA
1 TAAGTCAGAAAAGATAA
10563669 T
1 T
10563670 TTACCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.06, G:0.20, T:0.20
Consensus pattern (17 bp):
TAAGTCAGAAAAGATAA
Found at i:10579774 original size:16 final size:17
Alignment explanation
Indices: 10579753--10579784 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10579743 AAATATGCAA
10579753 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
10579769 TCACATAACTTCATAT
1 TCACATAACTTCATAT
10579785 AATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:10580011 original size:43 final size:43
Alignment explanation
Indices: 10579945--10580114 Score: 190
Period size: 42 Copynumber: 4.0 Consensus size: 43
10579935 GACTCGTACA
* *
10579945 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACATATCG
* * *
10579988 ATGCC-ACTGTCCCAGACAG-GGTCTTACA-CAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAAACACATATCG
* * * *
10580029 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACATA-TCG
10580072 ATGCCAACGT-CCAGACGTGGTCTTACATGAAAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACATATCG
10580114 A
1 A
10580115 AATCCTATGT
Statistics
Matches: 106, Mismatches: 13, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
41 26 0.25
42 44 0.42
43 35 0.33
44 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACATATCG
Found at i:10580093 original size:42 final size:42
Alignment explanation
Indices: 10579945--10580114 Score: 181
Period size: 43 Copynumber: 4.0 Consensus size: 42
10579935 GACTCGTACA
* *
10579945 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA-ATCG
10579988 ATGCC-ACTGTCCCAGACAG-GGTCTTACAC--AAATCA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAA-CACAAT-CG
* *
10580029 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAA-TCG
* *
10580072 ATGCCAACGT-CCAGACGTGGTCTTACATGAAAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA-ATCG
10580114 A
1 A
10580115 AATCCTATGT
Statistics
Matches: 108, Mismatches: 8, Indels: 23
0.78 0.06 0.17
Matches are distributed among these distances:
40 2 0.02
41 29 0.27
42 35 0.32
43 40 0.37
44 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAATCG
Found at i:10581759 original size:24 final size:24
Alignment explanation
Indices: 10581732--10581851 Score: 89
Period size: 26 Copynumber: 4.8 Consensus size: 24
10581722 AAACTCATGC
*
10581732 GAGCCAATATCGGGTAGCTCCGAA
1 GAGCCAATATCGGGAAGCTCCGAA
* * * *
10581756 GAGCCATTAGCAGGAAGCTCCGGA
1 GAGCCAATATCGGGAAGCTCCGAA
* * *
10581780 TAGCTTAATATCGGGAAGCTCACAAA
1 GAGC-CAATATCGGGAAGCTC-CGAA
* * *
10581806 GAGCCAATTAACGAGAAGCTCACAAA
1 GAGCCAA-TATCGGGAAGCTC-CGAA
10581832 GAGCC-ATAATCGGGAAGCTC
1 GAGCCAAT-ATCGGGAAGCTC
10581852 ATAAGAACTG
Statistics
Matches: 74, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
24 23 0.31
25 25 0.34
26 26 0.35
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (24 bp):
GAGCCAATATCGGGAAGCTCCGAA
Found at i:10583472 original size:19 final size:19
Alignment explanation
Indices: 10583448--10583484 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10583438 ACAATAAATG
10583448 TAAAATTAAATTAAATAAC
1 TAAAATTAAATTAAATAAC
*
10583467 TAAAATTAAATTAGATAA
1 TAAAATTAAATTAAATAA
10583485 TCAAATATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
TAAAATTAAATTAAATAAC
Found at i:10584815 original size:6 final size:6
Alignment explanation
Indices: 10584796--10584826 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
10584786 GGGTTTGTAT
*
10584796 TTTCTG TTTTTG TTTCTG TTTCTG TTTCTG T
1 TTTCTG TTTCTG TTTCTG TTTCTG TTTCTG T
10584827 GGGAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.13, G:0.16, T:0.71
Consensus pattern (6 bp):
TTTCTG
Found at i:10589148 original size:27 final size:27
Alignment explanation
Indices: 10589083--10589152 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
10589073 CAGATTTTAG
* *
10589083 ATTGTTGGATTTTGATATATGTCTTGA
1 ATTGTTGGATATTGATATATGTCTTAA
* *
10589110 ATTGGTTAGATATTGAT-TATGTTTTAA
1 ATT-GTTGGATATTGATATATGTCTTAA
10589137 CATTGTTGGATATTGA
1 -ATTGTTGGATATTGA
10589153 ATTGATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (27 bp):
ATTGTTGGATATTGATATATGTCTTAA
Found at i:10589157 original size:32 final size:33
Alignment explanation
Indices: 10589121--10589188 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 33
10589111 TTGGTTAGAT
10589121 ATTG-ATTATGTTTTAA-CATTGTTGGATATTGA
1 ATTGTATTATGTTTTAAGC-TTGTTGGATATTGA
10589153 ATTGATTATTATGTTTTAAGCTTGTTGGATATTGA
1 ATTG--TATTATGTTTTAAGCTTGTTGGATATTGA
10589188 A
1 A
10589189 ATTATTGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
32 4 0.12
35 27 0.84
36 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.50
Consensus pattern (33 bp):
ATTGTATTATGTTTTAAGCTTGTTGGATATTGA
Found at i:10590563 original size:34 final size:35
Alignment explanation
Indices: 10590497--10590563 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
10590487 CAAACACCAG
10590497 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
* *
10590532 AAAATATTTTCCAG-AATTCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAGTCATTTTACAGAAAA
10590564 CATTTTACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
Found at i:10590662 original size:21 final size:22
Alignment explanation
Indices: 10590637--10590681 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
10590627 AAAATAATTT
10590637 TTAAAAAATATAAA-TTAAAAA
1 TTAAAAAATATAAAGTTAAAAA
* *
10590658 TTAAAAAATCTAAAGTTTAAAA
1 TTAAAAAATATAAAGTTAAAAA
10590680 TT
1 TT
10590682 CATAAGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TTAAAAAATATAAAGTTAAAAA
Found at i:10604179 original size:13 final size:13
Alignment explanation
Indices: 10604161--10604222 Score: 88
Period size: 13 Copynumber: 4.8 Consensus size: 13
10604151 GTAAAATGAT
*
10604161 CTTTTGAGAAGTA
1 CTTTTGAGAAGTG
10604174 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
* *
10604187 CTTTTAAGAAATG
1 CTTTTGAGAAGTG
10604200 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
*
10604213 CTTTCGAGAA
1 CTTTTGAGAA
10604223 ATTTGAGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (13 bp):
CTTTTGAGAAGTG
Found at i:10604885 original size:22 final size:23
Alignment explanation
Indices: 10604855--10604922 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 23
10604845 ATAGCATACT
10604855 TATATTTGATAAGCATATGAAAA
1 TATATTTGATAAGCATATGAAAA
* *
10604878 TA-ATTTGATTA--ATAT-AATACT
1 TATATTTGATAAGCATATGAA-A-A
10604899 TATATTTGATAAGCATATGAAAA
1 TATATTTGATAAGCATATGAAAA
10604922 T
1 T
10604923 GAAAGTCGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 2 0.06
22 16 0.46
23 3 0.09
24 5 0.14
25 2 0.06
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (23 bp):
TATATTTGATAAGCATATGAAAA
Found at i:10605906 original size:12 final size:12
Alignment explanation
Indices: 10605889--10605913 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10605879 CTCTATACCT
10605889 CAAAAACTAAAG
1 CAAAAACTAAAG
10605901 CAAAAACTAAAG
1 CAAAAACTAAAG
10605913 C
1 C
10605914 TGATATACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.20, G:0.08, T:0.08
Consensus pattern (12 bp):
CAAAAACTAAAG
Found at i:10606856 original size:16 final size:17
Alignment explanation
Indices: 10606835--10606888 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 17
10606825 AAGCGAGAAA
10606835 AAGAGGCACAAAACAG-
1 AAGAGGCACAAAACAGC
10606851 AAGAGGCAGAGCAAAACAGC
1 AAGAGGC--A-CAAAACAGC
10606871 AGTAGAGGCACAAAACAG
1 A--AGAGGCACAAAACAG
10606889 TAAAGCAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
16 7 0.22
18 1 0.03
19 16 0.50
20 2 0.06
22 6 0.19
ACGTcount: A:0.52, C:0.19, G:0.28, T:0.02
Consensus pattern (17 bp):
AAGAGGCACAAAACAGC
Found at i:10610044 original size:23 final size:22
Alignment explanation
Indices: 10610017--10610108 Score: 103
Period size: 23 Copynumber: 4.0 Consensus size: 22
10610007 GAACTCACCA
10610017 CAGCTCGTATGAGCTTACCATTT
1 CAGCTC-TATGAGCTTACCATTT
*
10610040 TAGCTCTATGGAGCTTACCATTT
1 CAGCTCTAT-GAGCTTACCATTT
* * *
10610063 CAGCTTTACGGAGCTTACCGTTT
1 CAGCTCTA-TGAGCTTACCATTT
*
10610086 CAGCTCAATAGAGCTTACCATTT
1 CAGCTCTAT-GAGCTTACCATTT
10610109 ATAAGCTCGG
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
22 3 0.05
23 54 0.95
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (22 bp):
CAGCTCTATGAGCTTACCATTT
Found at i:10616955 original size:23 final size:23
Alignment explanation
Indices: 10616929--10617010 Score: 137
Period size: 23 Copynumber: 3.6 Consensus size: 23
10616919 CAGCTCGTAT
10616929 GAGCTTACCGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCTCTACG
10616952 GAGCTTACCGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCTCTACG
* **
10616975 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACCGTTTCAGCTCTACG
10616998 GAGCTTACCGTTT
1 GAGCTTACCGTTT
10617011 ATCAGCACGG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.32
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCTACG
Found at i:10617033 original size:26 final size:23
Alignment explanation
Indices: 10616929--10617033 Score: 86
Period size: 23 Copynumber: 4.4 Consensus size: 23
10616919 CAGCTCGTAT
* * **
10616929 GAGCTTACCGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCACAATA
* * **
10616952 GAGCTTACCGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCACAATA
*
10616975 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACCGTTTCAGCACAATA
10616998 GAGCTTACCGTTTATCAGCACGGAAT-
1 GAGCTTACCG-TT-TCAGCAC--AATA
10617024 GAGCTTACCG
1 GAGCTTACCG
10617034 ATCATGGCTC
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
23 53 0.72
24 2 0.03
25 6 0.08
26 10 0.14
27 3 0.04
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.29
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCACAATA
Found at i:10618318 original size:46 final size:44
Alignment explanation
Indices: 10618259--10618363 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 44
10618249 GAATGAATAG
* *
10618259 AAATAGAGAAATGAGAAACATTCAAAAATGATTATGGCTTTCTCCA
1 AAATGGAGAAATGA-AAACATTCAAAAATGAATATGGCTTTCT-CA
* ** * *
10618305 AAATGGAGAAATGAAATCATTTGAAAATGAATGTGGTTTTCTCA
1 AAATGGAGAAATGAAAACATTCAAAAATGAATATGGCTTTCTCA
10618349 AAAT-G-GAAATGAAAA
1 AAATGGAGAAATGAAAA
10618364 TGAGAAATGA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 9 0.18
43 1 0.02
44 6 0.12
45 22 0.43
46 13 0.25
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.27
Consensus pattern (44 bp):
AAATGGAGAAATGAAAACATTCAAAAATGAATATGGCTTTCTCA
Found at i:10621406 original size:17 final size:17
Alignment explanation
Indices: 10621377--10621409 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10621367 ATGGTTTGGT
10621377 AATTAATTATTTTTTTC
1 AATTAATTATTTTTTTC
10621394 AATT-ATTACTTTTTTT
1 AATTAATTA-TTTTTTT
10621410 AAAATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (17 bp):
AATTAATTATTTTTTTC
Found at i:10625187 original size:15 final size:15
Alignment explanation
Indices: 10625166--10625255 Score: 126
Period size: 15 Copynumber: 6.0 Consensus size: 15
10625156 AGGGCCCCTC
*
10625166 TGCTGAAGGATCCGA
1 TGCTGAAGGACCCGA
*
10625181 GGCTGAAGGACCCGA
1 TGCTGAAGGACCCGA
*
10625196 TACTGAAGGACCCGA
1 TGCTGAAGGACCCGA
10625211 TGCTGAAGGACCCGA
1 TGCTGAAGGACCCGA
* *
10625226 TGCCGATGGACCCGA
1 TGCTGAAGGACCCGA
*
10625241 TGTTGAAGGACCCGA
1 TGCTGAAGGACCCGA
10625256 AGGTGATGAC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 65 1.00
ACGTcount: A:0.27, C:0.26, G:0.33, T:0.14
Consensus pattern (15 bp):
TGCTGAAGGACCCGA
Found at i:10629290 original size:27 final size:28
Alignment explanation
Indices: 10629246--10629326 Score: 101
Period size: 29 Copynumber: 2.9 Consensus size: 28
10629236 CACATGGCCG
* *
10629246 TGTGTCACAAACGAGCTGTCACAC-AAA
1 TGTGTCACACACGGGCTGTCACACGAAA
***
10629273 TGTGTCACACACGGGCTGTCACACGGTTG
1 TGTGTCACACACGGGCTGTCACAC-GAAA
10629302 TGTGTCACACACGGGCTGTCACACG
1 TGTGTCACACACGGGCTGTCACACG
10629327 GTCGCATGTC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
27 22 0.47
28 1 0.02
29 24 0.51
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.21
Consensus pattern (28 bp):
TGTGTCACACACGGGCTGTCACACGAAA
Found at i:10629326 original size:29 final size:29
Alignment explanation
Indices: 10629273--10629328 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
10629263 GTCACACAAA
10629273 TGTGTCACACACGGGCTGTCACACGGTTG
1 TGTGTCACACACGGGCTGTCACACGGTTG
10629302 TGTGTCACACACGGGCTGTCACACGGT
1 TGTGTCACACACGGGCTGTCACACGGT
10629329 CGCATGTCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.18, C:0.29, G:0.30, T:0.23
Consensus pattern (29 bp):
TGTGTCACACACGGGCTGTCACACGGTTG
Done.