Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold39
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: 4724573
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 178835 characters in sequence are not A, C, G, or T
File 13 of 27
Found at i:2246664 original size:12 final size:12
Alignment explanation
Indices: 2246647--2246693 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
2246637 ACAAAGATCA
2246647 ATGTATCGATAC
1 ATGTATCGATAC
2246659 ATGTATCGATAC
1 ATGTATCGATAC
2246671 AT-T-T-GAGTA-
1 ATGTATCGA-TAC
2246680 ATGTATCGATAC
1 ATGTATCGATAC
2246692 AT
1 AT
2246694 TTCCTTGGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
9 4 0.13
10 4 0.13
11 4 0.13
12 18 0.60
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:2247903 original size:79 final size:80
Alignment explanation
Indices: 2247813--2248204 Score: 368
Period size: 79 Copynumber: 5.0 Consensus size: 80
2247803 AGCTAAAAAT
* * * * * *
2247813 AGGGTTGGAGTACCCCCTCAG-AAATGATGGGGTTGGAGTATCCCCAATGGTGGAAAATCGATGT
1 AGGGTTAGAGTATCCCCTCAGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATAGATGT
*
2247877 TTTGGAAATAAAATC
66 TTTGGAAATAAAAGC
* * * * ** ** *
2247892 AAGGTTAGAGTATCCTCT-TGAAAATAACGGGGTTGGAGTATCTCTAATTATAGAAAATAGATGT
1 AGGGTTAGAGTATCCCCTCAGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATAGATGT
*
2247956 TTTAGAAAT-AAAGC
66 TTTGGAAATAAAAGC
* * * * * * *
2247970 CGGAGTTGGAGTATCCCCT-TGAAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATAGGTA
1 AGG-GTTAGAGTATCCCCTCAGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATAGATG
**
2248034 TTTTGGAAATAAAATT
65 TTTTGGAAATAAAAGC
* * * ** * *
2248050 GGGGTTAGAGTATCCCCTCAG-AAATAACAGGGTTAG-GTATCCCCGATTATGAAAAATTGATGT
1 AGGGTTAGAGTATCCCCTCAGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATAGATGT
*
2248113 TTTAGAAAT-AAAGC
66 TTTGGAAATAAAAGC
* * *
2248127 TAGGGTTAGAGTATCCCCTC-GAAAATAACGGGGTTGGGGTATCCCCGATGGTGGAAAATCGGTG
1 -AGGGTTAGAGTATCCCCTCAGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATAGATG
*
2248191 CTTTGGAAATAAAA
65 TTTTGGAAATAAAA
2248205 ACATGAATGA
Statistics
Matches: 249, Mismatches: 56, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
77 4 0.02
78 67 0.27
79 169 0.68
80 9 0.04
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (80 bp):
AGGGTTAGAGTATCCCCTCAGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATAGATGT
TTTGGAAATAAAAGC
Found at i:2248169 original size:157 final size:158
Alignment explanation
Indices: 2247812--2248204 Score: 499
Period size: 157 Copynumber: 2.5 Consensus size: 158
2247802 GAGCTAAAAA
* * * *
2247812 TAGGGTTGGAGTACCCCCTC-AGAAATGATGGGGTTGGAGTATCCCCAATGGTGGAAAATCGATG
1 TAGGGTTGGAGTATCCCCTCGA-AAATAATGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTG
* * * * * *
2247876 TTTTGGAAATAAAATCAAGGTTAGAGTATCCTCTTGAAAATAACGGGGTTGGAGTATCTCTAATT
65 TTTTGGAAATAAAATCAAGGTTAGAGTATCCCCTAGAAAATAACAGGGTTAGAGTATCCCCAATT
2247941 ATAGAAAATAGATGTTTTAGAAATAAAGC
130 ATAGAAAATAGATGTTTTAGAAATAAAGC
* * * * *
2247970 -CGGAGTTGGAGTATCCCCTTGAAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATAGGTA
1 TAGG-GTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTG
*** *
2248034 TTTTGGAAATAAAATTGGGGTTAGAGTATCCCCTCAG-AAATAACAGGGTTAG-GTATCCCCGAT
65 TTTTGGAAATAAAATCAAGGTTAGAGTATCCCCT-AGAAAATAACAGGGTTAGAGTATCCCCAAT
*
2248097 TAT-GAAAAATTGATGTTTTAGAAATAAAGC
129 TATAG-AAAATAGATGTTTTAGAAATAAAGC
* * * *
2248127 TAGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGGGTATCCCCGATGGTGGAAAATCGGTGC
1 TAGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGT
2248192 TTTGGAAATAAAA
66 TTTGGAAATAAAA
2248205 ACATGAATGA
Statistics
Matches: 201, Mismatches: 29, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
156 1 0.00
157 103 0.51
158 95 0.47
159 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.27
Consensus pattern (158 bp):
TAGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGT
TTTGGAAATAAAATCAAGGTTAGAGTATCCCCTAGAAAATAACAGGGTTAGAGTATCCCCAATTA
TAGAAAATAGATGTTTTAGAAATAAAGC
Found at i:2256621 original size:13 final size:13
Alignment explanation
Indices: 2256603--2256628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2256593 ATTTGCCTGC
2256603 ATGTATCGATACA
1 ATGTATCGATACA
2256616 ATGTATCGATACA
1 ATGTATCGATACA
2256629 TTTGAGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2256706 original size:33 final size:33
Alignment explanation
Indices: 2256669--2256735 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2256659 AGTAGCTTAA
2256669 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2256702 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2256735 A
1 A
2256736 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2256709 original size:13 final size:13
Alignment explanation
Indices: 2256691--2256715 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2256681 CAAAAAAATA
2256691 TGTATCGATACAT
1 TGTATCGATACAT
2256704 TGTATCGATACA
1 TGTATCGATACA
2256716 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2258543 original size:143 final size:143
Alignment explanation
Indices: 2258280--2258558 Score: 531
Period size: 143 Copynumber: 2.0 Consensus size: 143
2258270 ATGAACACAT
2258280 GCATAAGGCATCAAATTGAGGATTATGCTTAACAAAAAAATTCATGAATTTTGTTTCTTTCTCAA
1 GCATAAGGCATCAAATTGAGGATTATGCTTAACAAAAAAATTCATGAATTTTGTTTCTTTCTCAA
*
2258345 AGGCATTGTATCCTAATCCATCTTTATCAAAGAATGCCCTTTGAGTTTCTAGCATGTTATTCAAT
66 AGGCATTGTATCCTAATCCATCTTTATCAAAGAATGCCCTTTGAGTTTCTAGCATGTCATTCAAT
2258410 TTTTGAGTTTCTA
131 TTTTGAGTTTCTA
* *
2258423 GCATGAGGCATCAAATTGAGGATTATGCTTAACAAAACAATTCATGAATTTTGTTTCTTTCTCAA
1 GCATAAGGCATCAAATTGAGGATTATGCTTAACAAAAAAATTCATGAATTTTGTTTCTTTCTCAA
2258488 AGGCATTGTATCCTAATCCATCTTTATCAAAGAATGCCCTTTGAGTTTCTAGCATGTCATTCAAT
66 AGGCATTGTATCCTAATCCATCTTTATCAAAGAATGCCCTTTGAGTTTCTAGCATGTCATTCAAT
2258553 TTTTGA
131 TTTTGA
2258559 TGTGACATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
143 133 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (143 bp):
GCATAAGGCATCAAATTGAGGATTATGCTTAACAAAAAAATTCATGAATTTTGTTTCTTTCTCAA
AGGCATTGTATCCTAATCCATCTTTATCAAAGAATGCCCTTTGAGTTTCTAGCATGTCATTCAAT
TTTTGAGTTTCTA
Found at i:2263694 original size:160 final size:165
Alignment explanation
Indices: 2263520--2263823 Score: 390
Period size: 160 Copynumber: 1.9 Consensus size: 165
2263510 AAATTACGGG
* * * *
2263520 GTTTTCTTCTCTGTAAATTTTTTTGG-GAGGA-TTTTCATGGGTTTAAAAATTTTAAAATTAATA
1 GTTTTCTACTCTGTAAATGTTTTCGGAG-GGATTTTTCATGGCTTT-AAAATTTTAAAATTAATA
*
2263583 AAATATTATTATTT-ATT-A-A-AGT-AGTTTTCAAAAATTCAT-TCATTTTCATGAGTTTTTCA
64 AAATATTATTATTTAATTCATATAATCAGTTTTCAAAAATTCATGT-ATTTTCATGAGTTTTTCA
2263642 TATTTTTCCTTGAAAATCCTTTGTTTCCGAAATATAGA
128 TATTTTTCCTTGAAAATCCTTTGTTTCCGAAATATAGA
* * * * *
2263680 GTTTTCTACTCTGTAAATGTTTTCGGAGGGATTTTTCTTGGCTTTTAATTTTTAAAATTTATCAA
1 GTTTTCTACTCTGTAAATGTTTTCGGAGGGATTTTTCATGGCTTTAAAATTTTAAAATTAATAAA
* *
2263745 ATATTATTATTTAATTCATATTTAATCAGTTTTGAAAAATTCATGTATTTTCATTAGTTTTTCAT
66 ATATTATTATTTAATTCATA--TAATCAGTTTTCAAAAATTCATGTATTTTCATGAGTTTTTCAT
*
2263810 TTTTTTCCTTGAAA
129 ATTTTTCCTTGAAA
2263824 TTTATTTCCA
Statistics
Matches: 121, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
160 54 0.45
161 15 0.12
162 1 0.01
163 1 0.01
166 2 0.02
167 47 0.39
168 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.50
Consensus pattern (165 bp):
GTTTTCTACTCTGTAAATGTTTTCGGAGGGATTTTTCATGGCTTTAAAATTTTAAAATTAATAAA
ATATTATTATTTAATTCATATAATCAGTTTTCAAAAATTCATGTATTTTCATGAGTTTTTCATAT
TTTTCCTTGAAAATCCTTTGTTTCCGAAATATAGA
Found at i:2269252 original size:19 final size:19
Alignment explanation
Indices: 2269228--2269295 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2269218 AATTCAACAA
2269228 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2269247 TTTGTATCGAT--ATAA--
1 TTTGTATCGATACATAAGT
2269262 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2269279 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2269296 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 9 0.21
15 4 0.09
17 4 0.09
19 26 0.60
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2269266 original size:32 final size:32
Alignment explanation
Indices: 2269230--2269290 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
2269220 TTCAACAATT
*
2269230 TGTATCGATACATAAGTTTTGTATCGATATAA
1 TGTATCGATACATAAGTATTGTATCGATATAA
2269262 TGTATCGATACATAAGTATTGTATCGATA
1 TGTATCGATACATAAGTATTGTATCGATA
2269291 CATAATTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATATAA
Found at i:2269353 original size:13 final size:13
Alignment explanation
Indices: 2269335--2269360 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2269325 CATTTTTCTG
2269335 TGTATCGATACAT
1 TGTATCGATACAT
2269348 TGTATCGATACAT
1 TGTATCGATACAT
2269361 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2269357 original size:33 final size:33
Alignment explanation
Indices: 2269315--2269381 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2269305 GCCAAGGAAA
***
2269315 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2269348 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2269381 T
1 T
2269382 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2271824 original size:53 final size:53
Alignment explanation
Indices: 2271645--2271867 Score: 240
Period size: 52 Copynumber: 4.3 Consensus size: 53
2271635 TTATTTCCGA
* * ***
2271645 GGGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGATTTTT-CATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCCATAATC
* * * * * *
2271696 GGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCCATAATC
* * *
2271748 GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCC-ATAATC
* * *
2271801 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCCATAATC
*
2271853 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2271868 TCGTTATCTC
Statistics
Matches: 147, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
50 3 0.02
51 34 0.23
52 62 0.42
53 34 0.23
54 14 0.10
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (53 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCCATAATC
Found at i:2271851 original size:105 final size:103
Alignment explanation
Indices: 2271645--2271867 Score: 277
Period size: 105 Copynumber: 2.1 Consensus size: 103
2271635 TTATTTCCGA
* ***
2271645 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
* * * *
2271710 CCCGGTTTTATTGCTAAAACACTAATTTTTTCACAATC
66 CCCGATTTTATTCCAAAAACACCAATTTTTTCACAATC
** * *
2271748 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTT-C-ATAATCGGGGATACTCCA
* *
2271813 ACTCCGATTTTATTTCCAAAAATACCAA-TTTTTCACAATC
64 ACCCCGATTTTA-TTCCAAAAACACCAATTTTTTCACAATC
*
2271853 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2271868 TCGTTATCTC
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
103 37 0.36
104 1 0.01
105 53 0.52
106 11 0.11
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (103 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
CCCGATTTTATTCCAAAAACACCAATTTTTTCACAATC
Found at i:2271886 original size:28 final size:28
Alignment explanation
Indices: 2271850--2271926 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
2271840 ATTTTTCACA
* *
2271850 ATCGAGGATACTCCAACCTCGTTA-TCTC
1 ATCGGGGATACTCCAACCCCGTTACT-TC
2271878 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*
2271906 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
2271927 GCTTTATTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.02
28 42 0.95
29 1 0.02
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:2274936 original size:56 final size:56
Alignment explanation
Indices: 2274818--2275104 Score: 214
Period size: 56 Copynumber: 5.2 Consensus size: 56
2274808 TTGTAATAGC
* ** * * * *
2274818 TAGCTGATTGGTTTCATCCCAATTAAAATTGCCACT-AAATCAGAAAGCCTAAAAG
1 TAGCTGATTGGTTTCGTCTTAGTTAAAATTGGCACTAAAATAAGAAAGCCTAAGAG
* * *
2274873 TAACTGATTGGTTTCGTCTTAGTTTAAATTGGCACTAAAATAAGAAAGCGTAAGAG
1 TAGCTGATTGGTTTCGTCTTAGTTAAAATTGGCACTAAAATAAGAAAGCCTAAGAG
* * * * *
2274929 TAGCTGATTAGTTTCGTCTTAGTCAAATTTGGCAC-----TAAGAAACCCCAAGAG
1 TAGCTGATTGGTTTCGTCTTAGTTAAAATTGGCACTAAAATAAGAAAGCCTAAGAG
* * * * * * * *
2274980 TAGCTAATTAGTTTCATC-TAGTCAAAATTGGTAATAAAATGAGAAAGCCTAAAAG
1 TAGCTGATTGGTTTCGTCTTAGTTAAAATTGGCACTAAAATAAGAAAGCCTAAGAG
* * * * * *
2275035 TAGGTTATTAGCTTT-GTCTAAG-TAGAAAATGGCATTAAAATAAGAAAGCCTAAGAG
1 TAGCTGATT-GGTTTCGTCTTAGTTA-AAATTGGCACTAAAATAAGAAAGCCTAAGAG
**
2275091 TAATTGATTGGTTT
1 TAGCTGATTGGTTT
2275105 TATCCAAGTT
Statistics
Matches: 180, Mismatches: 43, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
50 13 0.07
51 29 0.16
55 55 0.31
56 83 0.46
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (56 bp):
TAGCTGATTGGTTTCGTCTTAGTTAAAATTGGCACTAAAATAAGAAAGCCTAAGAG
Found at i:2275351 original size:93 final size:89
Alignment explanation
Indices: 2275249--2275588 Score: 271
Period size: 93 Copynumber: 3.7 Consensus size: 89
2275239 CTTAGTTATT
* *
2275249 TTCTCGACTAACAGGTTTTGCCTTAATCGTTTTCTTTGACTAATAGGTTTCAGCCTAGTCATCTT
1 TTCTCGACTAATAGGTTTTGCCTT--TC-TTTCCTTTGACTAATAGGTTTCA-CCTAGTCATCTT
* * *
2275314 TTTTAGCGATGGTTTCATCTCAATCATC
62 TTTAAACAATGGTTTCATCTCAATCATC
* * * *
2275342 TTCTCGACTATTAAGTTTTGCC---CTTTCCCTTTGACTAATAGGTTTCTCCTTAGTCATC-TTG
1 TTCTCGACTAATAGGTTTTGCCTTTCTTT-CCTTTGACTAATAGGTTTCACC-TAGTCATCTTTT
* * *
2275403 TCAACTAATGGTTTCGTC-CTAGTCATC
64 TAAAC-AATGGTTTCATCTC-AATCATC
* * *
2275430 TTCTTGACTAATAGGTTTTGCCTTGGTCATTTCCTTTGACTAATACGTTTCACTTTAGTCATCTT
1 TTCTCGACTAATAGGTTTTGCCTT--TC-TTTCCTTTGACTAATAGGTTTCAC-CTAGTCATCTT
* * *
2275495 TTTAACCAATGGTTTCATCTCGATCATT
62 TTTAAACAATGGTTTCATCTCAATCATC
** * * *
2275523 TTCTCGACTAAT-TCTTTTCACCTTACTTATTTCCTTTGACTAATAAGTTTCACCTACGT-ATCT
1 TTCTCGACTAATAGGTTTT-GCC-T--TTCTTTCCTTTGACTAATAGGTTTCACCTA-GTCATCT
2275586 TTT
61 TTT
2275589 CGACTAATGG
Statistics
Matches: 198, Mismatches: 31, Indels: 37
0.74 0.12 0.14
Matches are distributed among these distances:
87 11 0.06
88 62 0.31
92 13 0.07
93 100 0.51
94 11 0.06
96 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (89 bp):
TTCTCGACTAATAGGTTTTGCCTTTCTTTCCTTTGACTAATAGGTTTCACCTAGTCATCTTTTTA
AACAATGGTTTCATCTCAATCATC
Found at i:2275414 original size:88 final size:88
Alignment explanation
Indices: 2275282--2275534 Score: 262
Period size: 88 Copynumber: 2.8 Consensus size: 88
2275272 TAATCGTTTT
* *
2275282 CTTTGACTAATAGGTTTCAGCC-TAGTCATCTTTTTTAGCGATGGTTTCATCTCAATCATCTTCT
1 CTTTGACTAATAGGTTTCA-CCTTAGTCATC-TTTTTAACAATGGTTTCATCTCAATCATCTTCT
*
2275346 CGACTATTAAGTTTTGCCCTT-TC-C
64 CGACTAATAAGTTTTG-CCTTGTCTC
* * * * *
2275370 CTTTGACTAATAGGTTTCTCCTTAGTCATCTTGTCAACTAATGGTTTCGTC-CTAGTCATCTTCT
1 CTTTGACTAATAGGTTTCACCTTAGTCATCTTTTTAAC-AATGGTTTCATCTC-AATCATCTTCT
* *
2275434 TGACTAATAGGTTTTGCCTTGGTCATTTC
64 CGACTAATAAGTTTTGCCTT-GTC---TC
* * * *
2275463 CTTTGACTAATACGTTTCACTTTAGTCATCTTTTTAACCAATGGTTTCATCTCGATCATTTTCTC
1 CTTTGACTAATAGGTTTCACCTTAGTCATCTTTTTAA-CAATGGTTTCATCTCAATCATCTTCTC
2275528 GACTAAT
65 GACTAAT
2275535 TCTTTTCACC
Statistics
Matches: 134, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
87 12 0.09
88 59 0.44
89 2 0.01
93 59 0.44
94 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (88 bp):
CTTTGACTAATAGGTTTCACCTTAGTCATCTTTTTAACAATGGTTTCATCTCAATCATCTTCTCG
ACTAATAAGTTTTGCCTTGTCTC
Found at i:2275440 original size:30 final size:31
Alignment explanation
Indices: 2275372--2275679 Score: 122
Period size: 30 Copynumber: 10.0 Consensus size: 31
2275362 CCCTTTCCCT
*
2275372 TTGACTAATAGGTTTCTCCTTAGTCATCTTG
1 TTGACTAATAGGTTTCTCCTTAGTCATCTTC
**
2275403 TCAACTAAT-GGTTTCGTCC-TAGTCATCTTC
1 TTGACTAATAGGTTTC-TCCTTAGTCATCTTC
*
2275433 TTGACTAATAGGTTT-TGCCTTGGTCAT-TTCC
1 TTGACTAATAGGTTTCT-CCTTAGTCATCTT-C
* * * *
2275464 TTTGACTAATACGTTTCACTTTAGTCATCTTT
1 -TTGACTAATAGGTTTCTCCTTAGTCATCTTC
* * * *
2275496 TTAACCAAT-GGTTTCAT-C-TCGATCATTTTC
1 TTGACTAATAGGTTTC-TCCTTAG-TCATCTTC
* *** * * *
2275526 TCGACTAATTCTTTTCACCTTACTTAT-TTCC
1 TTGACTAATAGGTTTCTCCTTAGTCATCTT-C
* *
2275557 TTTGACTAATAAGTTTCACC-TACGT-ATCTT-
1 -TTGACTAATAGGTTTCTCCTTA-GTCATCTTC
*
2275587 TTCGACTAAT-GGTTT-TGTCTTAGTCATCTTC
1 TT-GACTAATAGGTTTCT-CCTTAGTCATCTTC
* * * * * * *
2275618 TTGAGTAATATGTTTCACCCTAATCGTCTCC
1 TTGACTAATAGGTTTCTCCTTAGTCATCTTC
* *
2275649 TTTAGCTAATAGGTTT-TGCCCTAGTCATCTT
1 TTGA-CTAATAGGTTTCT-CCTTAGTCATCTT
2275680 TTTATCCGAT
Statistics
Matches: 200, Mismatches: 51, Indels: 51
0.66 0.17 0.17
Matches are distributed among these distances:
29 12 0.06
30 66 0.33
31 60 0.30
32 60 0.30
33 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (31 bp):
TTGACTAATAGGTTTCTCCTTAGTCATCTTC
Found at i:2275496 original size:181 final size:183
Alignment explanation
Indices: 2275249--2275683 Score: 447
Period size: 181 Copynumber: 2.4 Consensus size: 183
2275239 CTTAGTTATT
* * * * *
2275249 TTCTCGACTAACAGGTTTTGCCTTAATCGTTTTCTTTGACTAATAGGTTTCAGCCTAGTCATCTT
1 TTCTTGACTAATAGGTTTTGCCTTAATCATTTCCTTTGACTAATACGTTTCAGCCTAGTCATCTT
* * * * *
2275314 TTTTAGCGATGGTTTCATCTCAATCATCTTCTCGACT-ATTAAGTTTT-GCC-C-T-TTCCCTTT
66 TTTAACCAATGGTTTCATCTCAATCATCTTCTCGACTAATT--CTTTTCACCTCTTATTCCCTTT
* *
2275374 GACTAATAGGTTTCTCCTTA-GTCATCTTGTCAACTAATGGTTTCGTCCTAGTCATC
129 GACTAATAAGTTTCACC-TACGT-ATCTTGTCAACTAATGGTTTCGTCCTAGTCATC
** *
2275430 TTCTTGACTAATAGGTTTTGCCTTGGTCATTTCCTTTGACTAATACGTTTCA-CTTTAGTCATCT
1 TTCTTGACTAATAGGTTTTGCCTTAATCATTTCCTTTGACTAATACGTTTCAGC-CTAGTCATCT
* * *
2275494 TTTTAACCAATGGTTTCATCTCGATCATTTTCTCGACTAATTCTTTTCACCTTACTTATTTCCTT
65 TTTTAACCAATGGTTTCATCTCAATCATCTTCTCGACTAATTCTTTTCACC-T-CTTATTCCCTT
* * * *
2275559 TGACTAATAAGTTTCACCTACGTATCTTTTCGACTAATGGTTTTGTCTTAGTCATC
128 TGACTAATAAGTTTCACCTACGTATCTTGTCAACTAATGGTTTCGTCCTAGTCATC
* * ** * * * * *
2275615 TTCTTGAGTAATATGTTTCACCCTAATCGTCTCCTTT-AGCTAATAGGTTT-TGCCCTAGTCATC
1 TTCTTGACTAATAGGTTTTGCCTTAATCATTTCCTTTGA-CTAATACGTTTCAG-CCTAGTCATC
2275678 TTTTTA
64 TTTTTA
2275684 TCCGATCGTT
Statistics
Matches: 208, Mismatches: 34, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
180 5 0.02
181 89 0.43
182 3 0.01
184 2 0.01
185 84 0.40
186 25 0.12
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (183 bp):
TTCTTGACTAATAGGTTTTGCCTTAATCATTTCCTTTGACTAATACGTTTCAGCCTAGTCATCTT
TTTAACCAATGGTTTCATCTCAATCATCTTCTCGACTAATTCTTTTCACCTCTTATTCCCTTTGA
CTAATAAGTTTCACCTACGTATCTTGTCAACTAATGGTTTCGTCCTAGTCATC
Found at i:2280431 original size:19 final size:19
Alignment explanation
Indices: 2280409--2280445 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2280399 ATTTAGTTTA
2280409 GGGAATT-TAGTTTAAATAT
1 GGGAATTATAG-TTAAATAT
2280428 GGGAATTATAGTTAAATA
1 GGGAATTATAGTTAAATA
2280446 CTAGTTACCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (19 bp):
GGGAATTATAGTTAAATAT
Found at i:2282951 original size:28 final size:28
Alignment explanation
Indices: 2282915--2282972 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
2282905 AATTAAATTC
*
2282915 AATAGCATAAGCTTTGGATTAATTTAAT
1 AATAGCATAAGCTTTGGATTAATATAAT
*
2282943 AATATCATAAGCTTTGGATTAATATAAT
1 AATAGCATAAGCTTTGGATTAATATAAT
2282971 AA
1 AA
2282973 GTTTATGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (28 bp):
AATAGCATAAGCTTTGGATTAATATAAT
Found at i:2287098 original size:13 final size:13
Alignment explanation
Indices: 2287080--2287104 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2287070 CATAAAGTGT
2287080 TGTATCGATACAA
1 TGTATCGATACAA
2287093 TGTATCGATACA
1 TGTATCGATACA
2287105 TATTTTTTTG
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2287102 original size:33 final size:33
Alignment explanation
Indices: 2287060--2287126 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2287050 TTCAACGATT
2287060 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
2287093 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2287126 T
1 T
2287127 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2287185 original size:13 final size:13
Alignment explanation
Indices: 2287167--2287194 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2287157 ATTACTCAAA
2287167 TGTATCGATACAC
1 TGTATCGATACAC
2287180 TGTATCGATACAC
1 TGTATCGATACAC
2287193 TG
1 TG
2287195 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2290674 original size:27 final size:27
Alignment explanation
Indices: 2290644--2290697 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
2290634 TAGGTTTGAC
* * *
2290644 TATTCCAAAAGAGTCCCTAAAAAGTTT
1 TATTACAAAAGAATCCCCAAAAAGTTT
*
2290671 TATTACAAAAGAATCCCCATAAAGTTT
1 TATTACAAAAGAATCCCCAAAAAGTTT
2290698 CCTATTTCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (27 bp):
TATTACAAAAGAATCCCCAAAAAGTTT
Found at i:2291143 original size:22 final size:24
Alignment explanation
Indices: 2291113--2291156 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
2291103 CCTCTCAATC
2291113 TCTTCAAGA-ATTATACCCTAAAT
1 TCTTCAAGACATTATACCCTAAAT
*
2291136 TCTT-AAGACATTGTACCCTAA
1 TCTTCAAGACATTATACCCTAA
2291157 GGTTGAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (24 bp):
TCTTCAAGACATTATACCCTAAAT
Found at i:2291605 original size:13 final size:13
Alignment explanation
Indices: 2291587--2291611 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2291577 TACCAAGAAC
2291587 ATGTATCGATACA
1 ATGTATCGATACA
2291600 ATGTATCGATAC
1 ATGTATCGATAC
2291612 TAAGCAATAT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2291610 original size:32 final size:33
Alignment explanation
Indices: 2291569--2291632 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2291559 CAATTCAGGG
*
2291569 TGTATCGATACCAAG-AACATGTATCGATACAA
1 TGTATCGATACCAAGCAACATGCATCGATACAA
* *
2291601 TGTATCGATACTAAGCAATATGCATCGATACA
1 TGTATCGATACCAAGCAACATGCATCGATACA
2291633 TCTAGGTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (33 bp):
TGTATCGATACCAAGCAACATGCATCGATACAA
Found at i:2295957 original size:22 final size:22
Alignment explanation
Indices: 2295929--2295974 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
2295919 AATATTCTAA
*
2295929 TGGCTTCTAACCTAGCTATGGG
1 TGGCTTCTAACCTAGCTACGGG
2295951 TGGCTTCTAACCTAGCTACGGG
1 TGGCTTCTAACCTAGCTACGGG
2295973 TG
1 TG
2295975 CATAGGTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.24, G:0.28, T:0.30
Consensus pattern (22 bp):
TGGCTTCTAACCTAGCTACGGG
Found at i:2303074 original size:52 final size:52
Alignment explanation
Indices: 2302926--2303054 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2302916 CGAAATATGA
*
2302926 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
2302978 AAATTTCCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
2303030 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2303055 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:2303155 original size:19 final size:18
Alignment explanation
Indices: 2303131--2303228 Score: 72
Period size: 13 Copynumber: 5.8 Consensus size: 18
2303121 TAGCTTACAT
2303131 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
*
2303150 TGTATCAATAC--A--T-
1 TGTATCGATACAAACTTA
*
2303163 TGTATCAATACAACACTTA
1 TGTATCGATACAA-ACTTA
2303182 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2303195 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
2303215 TGTATCGATACAAA
1 TGTATCGATACAAA
2303229 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 1 0.02
19 22 0.34
20 13 0.20
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:2303167 original size:32 final size:32
Alignment explanation
Indices: 2303126--2303226 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
2303116 GGCAGTAGCT
* *
2303126 TACATTGTATCGATACAAAACTTATGTATCAA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
2303158 TACATTGTATCAATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
2303190 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
2303223 TACA
1 TACA
2303227 AATCGTTGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 49 0.77
33 15 0.23
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:2304102 original size:67 final size:68
Alignment explanation
Indices: 2303980--2304106 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
2303970 ATTGGGTTTT
* * *
2303980 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
2304045 AGA
66 AGA
* * * *
2304048 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
2304107 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:2304160 original size:55 final size:52
Alignment explanation
Indices: 2304096--2304563 Score: 240
Period size: 43 Copynumber: 9.9 Consensus size: 52
2304086 CGATATTGGG
* *
2304096 CTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAAGCCAGCTACATTGAA
1 CTTAAAGATG-G-AAAAGG-TGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
2304151 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * *
2304203 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * * * *
2304246 CTTAAAGA---AGAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
2304295 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * * * *
2304338 CTTAAAGAT---AAAGATGCCAATATGCTGATTCAAGGCTAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
2304387 C------AT---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * * *
2304430 CTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
2304479 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* *
2304522 CTTAAAGAT---AAAGGTGCCAATATGTTGATTCAAGGCCAGCTA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTA
2304564 TAATGGGCTT
Statistics
Matches: 346, Mismatches: 39, Indels: 62
0.77 0.09 0.14
Matches are distributed among these distances:
43 149 0.43
44 3 0.01
46 1 0.00
48 2 0.01
49 142 0.41
51 1 0.00
52 31 0.09
53 6 0.02
54 1 0.00
55 10 0.03
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (52 bp):
CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
Found at i:2304224 original size:43 final size:43
Alignment explanation
Indices: 2304163--2304579 Score: 447
Period size: 43 Copynumber: 9.1 Consensus size: 43
2304153 TAAAGATGGA
2304163 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
2304206 AAAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
2304249 AAAGAAGAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
2304298 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
2304341 AAAGATAAAGATGCCAATATGCTGATTCAAGGCTAGCGATATTGGACAT
1 AAAG-----G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
2304390 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
2304433 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
2304482 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
* * *
2304531 AAAGGTGCCAATATGTTGATTCAAGGCCAGCTATAATGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
2304574 AGAAGG
1 A-AAGG
2304580 GTTGCCACCG
Statistics
Matches: 316, Mismatches: 33, Indels: 49
0.79 0.08 0.12
Matches are distributed among these distances:
43 150 0.47
44 10 0.03
45 1 0.00
46 2 0.01
47 1 0.00
48 6 0.02
49 146 0.46
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:2304291 original size:92 final size:92
Alignment explanation
Indices: 2304110--2304579 Score: 744
Period size: 92 Copynumber: 5.1 Consensus size: 92
2304100 AAGATGAGAA
* * *
2304110 AAAGGATGTCAATGTGCTGATTCAAAGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
*
2304175 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
*
2304206 AAAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGA-AGAAGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA-AAGGTGCCAATATG
*
2304270 CTGATTTAAGGCCAGCGATATTGGACTT
65 CTGATTCAAGGCCAGCGATATTGGACTT
*
2304298 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* *
2304363 TGATTCAAGGCTAGCGATATTGGACAT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
2304390 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
2304455 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
2304482 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
2304547 TGATTCAAGGCCAGCTATAATGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
2304574 AGAAGG
1 A-AAGG
2304580 GTTGCCACCG
Statistics
Matches: 351, Mismatches: 20, Indels: 9
0.92 0.05 0.02
Matches are distributed among these distances:
91 1 0.00
92 301 0.86
93 5 0.01
95 39 0.11
96 5 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:2304618 original size:33 final size:32
Alignment explanation
Indices: 2304567--2304872 Score: 451
Period size: 33 Copynumber: 9.5 Consensus size: 32
2304557 CCAGCTATAA
*
2304567 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
2304597 TGGGCTTTAGAGAATGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAA-GGTTGCCACCGACTTGTG
* *
2304630 TGGGCTTTAGAGAGGGTTGCCATCGACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
2304662 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAA-GGTTGCCACCGACTTGTG
2304694 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AGAAGGTTGCCACCGACTTGTG
*
2304727 TGGGCTTT-GAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAA-GGTTGCCACCGACTTGTG
* *
2304759 TGGGCTTTAAAAGAAGGTTGCCACCGACCTGTG
1 TGGGCTTT-AGAGAAGGTTGCCACCGACTTGTG
*
2304792 TGAGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AGAAGGTTGCCACCGACTTGTG
2304825 TGGGCTTTAGAGAAGGTTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAAGG-TTGCCACCGACTTGTG
2304858 TGGGCTTTAGA-AAGG
1 TGGGCTTTAGAGAAGG
2304873 GTGAAAGATG
Statistics
Matches: 252, Mismatches: 13, Indels: 20
0.88 0.05 0.07
Matches are distributed among these distances:
30 5 0.02
31 13 0.05
32 88 0.35
33 138 0.55
34 8 0.03
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (32 bp):
TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
Found at i:2304657 original size:65 final size:65
Alignment explanation
Indices: 2304567--2304868 Score: 452
Period size: 65 Copynumber: 4.7 Consensus size: 65
2304557 CCAGCTATAA
2304567 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCGACTTGTG
* *
2304630 TGGGCTTTAGAGAGGGTTGCCATCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCGACTTGTG
* *
2304694 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT-GAGAATGGTTGCCACCAACTTGT
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCGACTTGT
2304758 G
65 G
* * * *
2304759 TGGGCTTTAAAAGAAGGTTGCCACCGACCTGTGTGAGCTTTAGAAGAA-GGTTGCCACCGACTTG
1 TGGGCTTT-AGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAATGGTTGCCACCGACTTG
2304823 TG
64 TG
*
2304825 TGGGCTTTAGAGAAGGTTTGCCACCGACTTGTGTGGGCTTTAGA
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTGTGGGCTTTAGA
2304869 AAGGGTGAAA
Statistics
Matches: 217, Mismatches: 15, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
63 5 0.02
64 38 0.18
65 117 0.54
66 53 0.24
67 4 0.02
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (65 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCGACTTGTG
Found at i:2304745 original size:97 final size:95
Alignment explanation
Indices: 2304567--2304874 Score: 467
Period size: 97 Copynumber: 3.2 Consensus size: 95
2304557 CCAGCTATAA
2304567 TGGGC-TTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAATGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA-GGTTGCCACCGACTTGTG
* *
2304630 TGGGCTTTAGAGAGGGTTGCCATCGACTTGTG
65 TGGGCTTT-GAGAAGGTTGCCACCGACTTGTG
2304662 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTT-AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
*
2304727 TGGGCTTTGAGAATGGTTGCCACCAACTTGTG
65 TGGGCTTTGAGAA-GGTTGCCACCGACTTGTG
* * *
2304759 TGGGCTTTAAAAGAAGGTTGCCACCGACCTGTGTGAGCTTTAGAAGAAGGTTGCCACCGACTTGT
1 TGGGCTTTAGAAG--GGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGT
2304824 GTGGGCTTTAGAGAAGGTTTGCCACCGACTTGTG
64 GTGGGCTTT-GAGAAGG-TTGCCACCGACTTGTG
2304858 TGGGCTTTAGAAAGGGT
1 TGGGCTTTAG-AAGGGT
2304875 GAAAGATGCC
Statistics
Matches: 196, Mismatches: 8, Indels: 15
0.89 0.04 0.07
Matches are distributed among these distances:
95 5 0.03
96 10 0.05
97 83 0.42
98 66 0.34
99 29 0.15
100 3 0.02
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (95 bp):
TGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGT
GGGCTTTGAGAAGGTTGCCACCGACTTGTG
Found at i:2305078 original size:100 final size:97
Alignment explanation
Indices: 2304881--2305881 Score: 781
Period size: 100 Copynumber: 10.2 Consensus size: 97
2304871 GGGTGAAAGA
* * * * * *
2304881 TGCCACGAAGTTGTGGACTTAAAAAGAACAAGGTGCCACGGAGTTATGGGCTTT-AAA--AAGAA
1 TGCCACGGAGTTGTGGACTTAGAAGGAA-AAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAA
*
2304943 GGTGCCACGGAGTTGTGGACTTTGAAAGGAAGG
65 GGTGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* * * * *
2304976 TGCCACAGAGTCGTGGACTTAAAAGGAACAAGGTGCCATGGGGTTGTGGACTTTAAAAGGGAAAA
1 TGCCACGGAGTTGTGGACTTAGAAGGAA-AAGGTGCCACGGAGTTGTGGACTTTAAAA-GGAAAA
*
2305041 AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
64 AG-GTGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* *
2305076 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAA
1 TGCCACGGAGTTGTGGACTTAGAAGGAA-AAGGTGCCACGGAGTTGTGGACTTTAAAA-GGAAAA
* * *
2305141 AGAGTGCTACAGAGTTGTGGGCTTTGAAAAGAAGG
64 AG-GTGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* * * * **
2305176 TGCCACGAAGTTATGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTTGAAAGGAATG
1 TGCCACGGAGTTGTGGACTTAGAAGG-AAAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGAAAA
* *
2305241 AGGTGCCACGGGGTCGTGGACTTT-AAAAGGGAAAAAGAG
64 AGGTGCCACGGAGTTGTGGACTTTGAAAA--G---AAG-G
* * * * * * *
2305280 TACTACGGAGTTGTGGGCTTTGAA--AAGAAGGTGCCACGGAATCGTGGAC-TTAAAAGGAACAA
1 TGCCACGGAGTTGTGGACTTAGAAGGAA-AAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAA
*
2305342 GGTGCCACGGAGTTGTGGACTTTGAAAGGGAAAAAGAG
65 GGTGCCACGGAGTTGTGGACTTTG-AA---AAGAAG-G
* * * *
2305380 TGCCACGGAGTTGTGGGCTTTGAA--AAGAAGGTGCCACGGAGTCGTGGAC-TTAAAAGGAACAA
1 TGCCACGGAGTTGTGGACTTAGAAGGAA-AAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAA
*
2305442 GGTGCCACAGG-GTTGTGAACTTT-AAAAGGGGAAAAGAG
65 GGTGCCAC-GGAGTTGTGGACTTTGAAAA---G--AAG-G
*
2305480 TGCCACGGAGTTGTGGACTTAGAAGGTAAAAGAGTGCCACGGAGTTGTGGAC-TTAGAAGG-AAA
1 TGCCACGGAGTTGTGGACTTAGAAGG-AAAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGAAAA
*
2305543 AGAGTGCCACGGAGTTGTGGGC-TT-AAAAG--GG
64 AG-GTGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* *
2305574 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCATGGAGTTGTGGGC-TTAAAA-G----
1 TGCCACGGAGTTGTGGACTTAGAAGG-AAAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGAAAA
2305633 -GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGG
64 AGGTGCCACGGAGTTGTGGACTTTGAAAAG---AAGG
* * * ** * * *
2305669 TGCCACGGAGTCGTGGACTT---TGGAAAGAGATGCCACTAAATTATGGACTTTAAGAA--AGAA
1 TGCCACGGAGTTGTGGACTTAGAAGGAAA-AGGTGCCACGGAGTTGTGGACTTTAA-AAGGAAAA
* * * * *
2305729 AGATGCCACTGAGCTGTGGGCTTT-AGAAAG-AGA
64 AGGTGCCACGGAGTTGTGGACTTTGA-AAAGAAGG
** * * * ** *
2305762 TGCCACTAAATTGTGGACTTTAAGAAGG-AAAGATGCCACTGAGCGGTGGGCTTTAAAAGGGAAA
1 TGCCACGGAGTTGTGGAC-TT-AGAAGGAAAAGGTGCCACGGAGTTGTGGACTTTAAAA-GGAAA
*
2305826 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
63 AAG-GTGCCACGGAGTTGTGGACTTTGAAAAGAAGG
*
2305862 TGCCACGGAGTCGTGGACTT
1 TGCCACGGAGTTGTGGACTT
2305882 TAAGAAGGTA
Statistics
Matches: 753, Mismatches: 95, Indels: 112
0.78 0.10 0.12
Matches are distributed among these distances:
88 18 0.02
89 3 0.00
90 5 0.01
91 15 0.02
92 8 0.01
93 19 0.03
94 57 0.08
95 72 0.10
96 24 0.03
97 25 0.03
98 13 0.02
99 48 0.06
100 315 0.42
101 46 0.06
102 20 0.03
103 44 0.06
104 19 0.03
105 2 0.00
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.20
Consensus pattern (97 bp):
TGCCACGGAGTTGTGGACTTAGAAGGAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAG
GTGCCACGGAGTTGTGGACTTTGAAAAGAAGG
Found at i:2305264 original size:235 final size:231
Alignment explanation
Indices: 2304875--2305881 Score: 1111
Period size: 235 Copynumber: 4.4 Consensus size: 231
2304865 TAGAAAGGGT
* * * * * *
2304875 GAAAGATGCCACGAAGTTGTGGAC-TTAAAA-AGAACAAG-GTGCCACGGAGTTATGGGCTTTAA
1 GAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
*
2304937 AAAGAAGGTGCCACGGAGTTGTGGACTTTGAAAGG---AAGGTGCCACAGAGTCGTGGAC-TTAA
66 AAAGAAGGTGCCACGGAGTTGTGGACTTAGAAAGGAAAAAGGTGCCACAGAGTCGTGGACTTTAA
* *
2304998 AAGGAACAAGGTGCCATGGGGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC
131 AAGGAA-AAGGTGCCACGGAGTTGTGGACTTTAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGC
*
2305063 TTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
194 TTTGAAAAGAAGGTGCCACGGAATCGTGGACTTAAAAG
* *
2305101 GAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCTACAGAGTTGTGGGCTTT
1 G-A-AAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * *
2305166 GAAAAGAAGGTGCCACGAAGTTATGGACTTAG-AAGGAAAAAGAGTGCCACAGAGTTGTGGACTT
64 GAAAAGAAGGTGCCACGGAGTTGTGGACTTAGAAAGGAAAAAG-GTGCCACAGAGTCGTGGACTT
* * * * * *
2305230 TGAAAGGAATGAGGTGCCACGGGGTCGTGGACTTTAAAAGGGAAAAAGAGTACTACGGAGTTGTG
128 TAAAAGGAA-AAGGTGCCACGGAGTTGTGGACTTTAAAA-GGAAAAAGAGTGCCACGGAGTTGTG
2305295 GGCTTTGAAAAGAAGGTGCCACGGAATCGTGGACTTAAAAG
191 GGCTTTGAAAAGAAGGTGCCACGGAATCGTGGACTTAAAAG
*
2305336 GAACAAGGTGCCACGGAGTTGTGGACTTTGAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 G-A-AAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * * * *
2305401 GAAAAGAAGGTGCCACGGAGTCGTGGACTTA-AAAGGAACAAGGTGCCACAGGGTTGTGAACTTT
64 GAAAAGAAGGTGCCACGGAGTTGTGGACTTAGAAAGGAAAAAGGTGCCACAGAGTCGTGGACTTT
* *
2305465 AAAAGGGGAAAAGAGTGCCACGGAGTTGTGGAC-TTAGAAGGTAAAAGAGTGCCACGGAGTTGTG
129 AAAA--GGAAAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTG
* * * * *
2305529 GACTTAGAAGGAA-AAGAGTGCCACGGAGTTGTGGGCTTAAAA-
191 GGCTTTGAA--AAGAAG-GTGCCACGGAATCGTGGACTTAAAAG
* *
2305571 G---GGTGCCACGGAGTTGTGGAC-TTAGAA-GGAAAAAGAGTGCCATGGAGTTGTGGGC-TT-A
1 GAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
* * *
2305629 AAAG--GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTCGTGGACTTT--
66 AAAGAAGGTGCCACGGAGTTGTGGACTTAGAAAGGAAAAAGGTGCCACAGAGTCGTGGACTTTAA
* ** * * * * *
2305690 --GGAAAGAGATGCCACTAAATTATGGACTTTAAGAA--AGAAAGA-TGCCACTGAGCTGTGGGC
131 AAGGAAA-AGGTGCCACGGAGTTGTGGACTTTAA-AAGGAAAAAGAGTGCCACGGAGTTGTGGGC
* ** *
2305750 TTT-AGAAAG-AGATGCCACTAAATTGTGGACTTTAAGAAG
194 TTTGA-AAAGAAGGTGCCACGGAATCGTGGAC-TTAA-AAG
* * ** *
2305789 GAAAGATGCCACTGAGCGGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
1 GAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
*
2305854 AAAGAAGGTGCCACGGAGTCGTGGACTT
66 AAAGAAGGTGCCACGGAGTTGTGGACTT
2305882 TAAGAAGGTA
Statistics
Matches: 668, Mismatches: 78, Indels: 69
0.82 0.10 0.08
Matches are distributed among these distances:
215 14 0.02
216 8 0.01
217 3 0.00
218 19 0.03
219 24 0.04
220 5 0.01
221 17 0.03
222 5 0.01
223 27 0.04
224 23 0.03
225 32 0.05
226 6 0.01
227 24 0.04
228 47 0.07
229 10 0.01
230 30 0.04
231 47 0.07
233 3 0.00
234 70 0.10
235 209 0.31
236 45 0.07
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.20
Consensus pattern (231 bp):
GAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
AAAGAAGGTGCCACGGAGTTGTGGACTTAGAAAGGAAAAAGGTGCCACAGAGTCGTGGACTTTAA
AAGGAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
TGAAAAGAAGGTGCCACGGAATCGTGGACTTAAAAG
Found at i:2305445 original size:335 final size:326
Alignment explanation
Indices: 2304947--2305695 Score: 1055
Period size: 335 Copynumber: 2.3 Consensus size: 326
2304937 AAAGAAGGTG
* * *
2304947 CCACGGAGTTGTGGACTTTGAAAGGAAGGTGCCACAGAGTCGTGGACTTAAAAGGAACAAGGTGC
1 CCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGC
* * *
2305012 CATGGGGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGT
66 CACGGAGTTGTGGACTTTGAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGT
*
2305077 GCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCAC-GGAGTTGTGGACTTTAAAAGGGAAAA
131 GCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACAGG-GTTGTGAACTTTAAAAGGGAAAA
* * *
2305141 AGAGTGCTACAGAGTTGTGGGCTTTGAA-AAGAAG-GTGCCACGAAGTTATGGACTTAGAAGGAA
195 AGAGTGCCACAGAGTTGTGGACTTAGAAGAA-AAGAGTGCCACGAAGTTATGGACTTAGAAGG-A
*
2305204 AAAGAGTGCCACAGAGTTGTGGACTTTGAAAGGAATGAGGTGCCACGGGGTCGTGGACTTTAAAA
258 AAAGAGTGCCACAGAGTTGTGGAC-TT--AA--AA-G-GGTGCCACGGAGTCGTGGAC-TTAAAA
2305269 GGGAAAAAGAGTA
315 -GGAAAAAGAGTA
* *
2305282 CTACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAATCGTGGACTTAAAAGGAACAAGGTGC
1 CCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGC
2305347 CACGGAGTTGTGGACTTTGAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGT
66 CACGGAGTTGTGGACTTTGAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGT
*
2305412 GCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACAGGGTTGTGAACTTTAAAAGGGGAAAA
131 GCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACAGGGTTGTGAACTTTAAAAGGGAAAAA
* * *
2305477 GAGTGCCACGGAGTTGTGGACTTAGAAGGTAAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAA
196 GAGTGCCACAGAGTTGTGGACTTAGAA-G-AAAAGAGTGCCACGAAGTTATGGACTTAGAAGGAA
* * * *
2305542 AAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
259 AAGAGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGA
*
2305607 GTG
324 GTA
* * *
2305610 CCATGGAGTTGTGGGC-TT-AAAAG--GGTGCCACGGAGTTGTGGACTTTGAAAA-GAAAAAGGT
1 CCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGAC-TT-AAAAGGAACAAGGT
*
2305670 GCCACGGAGTCGTGGACTTTGGAAAG
64 GCCACGGAGTTGTGGACTTT-GAAAG
2305696 AGATGCCACT
Statistics
Matches: 378, Mismatches: 28, Indels: 25
0.88 0.06 0.06
Matches are distributed among these distances:
324 18 0.05
325 29 0.08
326 14 0.04
327 2 0.01
328 25 0.07
329 5 0.01
330 18 0.05
331 1 0.00
332 2 0.01
334 2 0.01
335 205 0.54
336 4 0.01
337 26 0.07
338 27 0.07
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (326 bp):
CCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGC
CACGGAGTTGTGGACTTTGAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGT
GCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACAGGGTTGTGAACTTTAAAAGGGAAAAA
GAGTGCCACAGAGTTGTGGACTTAGAAGAAAAGAGTGCCACGAAGTTATGGACTTAGAAGGAAAA
GAGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGAGT
A
Found at i:2305578 original size:27 final size:27
Alignment explanation
Indices: 2305506--2305650 Score: 128
Period size: 27 Copynumber: 4.9 Consensus size: 27
2305496 ACTTAGAAGG
*
2305506 TAAAAGAGTGCCACGGAGTTGTGGACT
1 TAAAAGAGTGCCACGGAGTTGTGGGCT
2305533 TAGAAGGAAAAGAGTGCCACGGAGTTGTGGGCT
1 T------AAAAGAGTGCCACGGAGTTGTGGGCT
* *
2305566 TAAAAGGGTGCCACGGAGTTGTGGACT
1 TAAAAGAGTGCCACGGAGTTGTGGGCT
*
2305593 TAGAAGGAAAAAGAGTGCCATGGAGTTGTGGGCT
1 T-------AAAAGAGTGCCACGGAGTTGTGGGCT
*
2305627 TAAAAGGGTGCCACGGAGTTGTGG
1 TAAAAGAGTGCCACGGAGTTGTGG
2305651 ACTTTGAAAA
Statistics
Matches: 97, Mismatches: 8, Indels: 26
0.74 0.06 0.20
Matches are distributed among these distances:
27 47 0.48
33 26 0.27
34 24 0.25
ACGTcount: A:0.29, C:0.12, G:0.38, T:0.21
Consensus pattern (27 bp):
TAAAAGAGTGCCACGGAGTTGTGGGCT
Found at i:2305632 original size:61 final size:61
Alignment explanation
Indices: 2305506--2305684 Score: 290
Period size: 61 Copynumber: 3.0 Consensus size: 61
2305496 ACTTAGAAGG
*
2305506 TAAAAGAGTGCCACGGAGTTGTGGACTTAGAAGG-AAAAGAGTGCCACGGAGTTGTGGGCT
1 TAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCT
*
2305566 TAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCATGGAGTTGTGGGCT
1 TAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCT
* * *
2305627 TAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAG-GTGCCACGGAGTCGTGG
1 TAAAAGGGTGCCACGGAGTTGTGGACTTAG-AAGGAAAAAGAGTGCCACGGAGTTGTGG
2305685 ACTTTGGAAA
Statistics
Matches: 111, Mismatches: 6, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
60 33 0.30
61 69 0.62
62 9 0.08
ACGTcount: A:0.30, C:0.13, G:0.37, T:0.20
Consensus pattern (61 bp):
TAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCT
Found at i:2305685 original size:34 final size:34
Alignment explanation
Indices: 2305628--2305696 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
2305618 TTGTGGGCTT
* *
2305628 AAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAG
1 AAAAAGGTGCCACGGAGTCGTGGACTTTGAAAAG
*
2305662 AAAAAGGTGCCACGGAGTCGTGGACTTTGGAAAG
1 AAAAAGGTGCCACGGAGTCGTGGACTTTGAAAAG
2305696 A
1 A
2305697 GATGCCACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.35, T:0.19
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTCGTGGACTTTGAAAAG
Found at i:2305736 original size:33 final size:33
Alignment explanation
Indices: 2305681--2305801 Score: 137
Period size: 33 Copynumber: 3.8 Consensus size: 33
2305671 CCACGGAGTC
*
2305681 GTGGACTTT-GGAAAG--AGATGCCACTAAATT
1 GTGGACTTTAAGAAAGAAAGATGCCACTAAATT
* * **
2305711 ATGGACTTTAAGAAAGAAAGATGCCACTGAGCT
1 GTGGACTTTAAGAAAGAAAGATGCCACTAAATT
*
2305744 GTGGGCTTT-AGAAAG--AGATGCCACTAAATT
1 GTGGACTTTAAGAAAGAAAGATGCCACTAAATT
*
2305774 GTGGACTTTAAGAAGGAAAGATGCCACT
1 GTGGACTTTAAGAAAGAAAGATGCCACT
2305802 GAGCGGTGGG
Statistics
Matches: 73, Mismatches: 12, Indels: 9
0.78 0.13 0.10
Matches are distributed among these distances:
30 28 0.38
31 10 0.14
32 6 0.08
33 29 0.40
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (33 bp):
GTGGACTTTAAGAAAGAAAGATGCCACTAAATT
Found at i:2305761 original size:63 final size:63
Alignment explanation
Indices: 2305664--2305820 Score: 228
Period size: 63 Copynumber: 2.5 Consensus size: 63
2305654 TTGAAAAGAA
* * * *
2305664 AAAGGTGCCACGGAG-TCGTGGACTTTGGAAAGAGATGCCACTAAATTATGGACTTTAAGAAAG
1 AAAGATGCCACTGAGCT-GTGGGCTTTAGAAAGAGATGCCACTAAATTATGGACTTTAAGAAAG
* *
2305727 AAAGATGCCACTGAGCTGTGGGCTTTAGAAAGAGATGCCACTAAATTGTGGACTTTAAGAAGG
1 AAAGATGCCACTGAGCTGTGGGCTTTAGAAAGAGATGCCACTAAATTATGGACTTTAAGAAAG
*
2305790 AAAGATGCCACTGAGCGGTGGGCTTTA-AAAG
1 AAAGATGCCACTGAGCTGTGGGCTTTAGAAAG
2305821 GGAAAAAGAG
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
62 4 0.05
63 81 0.94
64 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (63 bp):
AAAGATGCCACTGAGCTGTGGGCTTTAGAAAGAGATGCCACTAAATTATGGACTTTAAGAAAG
Found at i:2305816 original size:33 final size:33
Alignment explanation
Indices: 2305716--2305889 Score: 130
Period size: 33 Copynumber: 5.3 Consensus size: 33
2305706 AAATTATGGA
*
2305716 CTTTAAGAAAGAAAGATGCCACTGAGCTGTGGG
1 CTTTAAGAAGGAAAGATGCCACTGAGCTGTGGG
* * ** *
2305749 CTTT-AGAA--AGAGATGCCACTAAATTGTGGA
1 CTTTAAGAAGGAAAGATGCCACTGAGCTGTGGG
*
2305779 CTTTAAGAAGGAAAGATGCCACTGAGCGGTGGG
1 CTTTAAGAAGGAAAGATGCCACTGAGCTGTGGG
* *
2305812 CTTTAA-AAGGGAAAAAGAGTGCCACGGAGTTGTGGG
1 CTTTAAGAA-GG--AAAGA-TGCCACTGAGCTGTGGG
* * *
2305848 CTTTGAA-AA-G-AAGGTGCCACGGAG-TCGTGGA
1 CTTT-AAGAAGGAAAGATGCCACTGAGCT-GTGGG
2305879 CTTTAAGAAGG
1 CTTTAAGAAGG
2305890 TATTTGAAGA
Statistics
Matches: 114, Mismatches: 16, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
30 24 0.21
31 24 0.21
32 10 0.09
33 28 0.25
35 6 0.05
36 18 0.16
37 4 0.04
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (33 bp):
CTTTAAGAAGGAAAGATGCCACTGAGCTGTGGG
Found at i:2307197 original size:12 final size:11
Alignment explanation
Indices: 2307172--2307212 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
2307162 CCTTTGCACC
*
2307172 TTTTTTTCTGTG
1 TTTTTTT-TTTG
2307184 TTTTCTTTTTTG
1 TTTT-TTTTTTG
2307196 TTTTTTTTTTG
1 TTTTTTTTTTG
2307207 TTTTTT
1 TTTTTT
2307213 CTTGTGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 13 0.48
12 11 0.41
13 3 0.11
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:2307220 original size:12 final size:11
Alignment explanation
Indices: 2307172--2307221 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 11
2307162 CCTTTGCACC
2307172 TTTTTTTCTGTG
1 TTTTTTT-TGTG
*
2307184 TTTTCTTTTTTG
1 TTTT-TTTTGTG
*
2307196 TTTTTTTTTTG
1 TTTTTTTTGTG
2307207 TTTTTTCTTGTG
1 TTTTTT-TTGTG
2307219 TTT
1 TTT
2307222 ACTTTTGACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 13 0.38
12 18 0.53
13 3 0.09
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.82
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:2307220 original size:23 final size:24
Alignment explanation
Indices: 2307172--2307221 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
2307162 CCTTTGCACC
*
2307172 TTTTTTTCTGTGTTTTCTTTTTTG
1 TTTTTTTCTGTGTTTTCTTTTGTG
*
2307196 TTTTTTT-TTTGTTTT-TTCTTGTG
1 TTTTTTTCTGTGTTTTCTT-TTGTG
2307219 TTT
1 TTT
2307222 ACTTTTGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 2 0.09
23 14 0.61
24 7 0.30
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.82
Consensus pattern (24 bp):
TTTTTTTCTGTGTTTTCTTTTGTG
Found at i:2314179 original size:13 final size:13
Alignment explanation
Indices: 2314161--2314185 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2314151 CAAAGATCAG
2314161 TGTATCGATACAA
1 TGTATCGATACAA
2314174 TGTATCGATACA
1 TGTATCGATACA
2314186 TTTAAGTAAT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2314253 original size:19 final size:18
Alignment explanation
Indices: 2314229--2314326 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
2314219 TAGCTTACAT
2314229 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
2314248 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
2314261 TGTATCAATACAACACTTA
1 TGTATCGATACAA-ACTTA
2314280 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2314293 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
2314313 TGTATCGATACAAA
1 TGTATCGATACAAA
2314327 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 23 0.36
20 13 0.20
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:2314265 original size:32 final size:32
Alignment explanation
Indices: 2314224--2314324 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
2314214 AGCAGTAGCT
*
2314224 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
2314256 TACATTGTATCAATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
2314288 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
2314321 TACA
1 TACA
2314325 AATCGTTGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 50 0.77
33 15 0.23
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:2314266 original size:13 final size:13
Alignment explanation
Indices: 2314248--2314304 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
2314238 ACAAAACTTA
2314248 TGTATCGATACAT
1 TGTATCGATACAT
*
2314261 TGTATCAATACAACACTT
1 TGTATCGAT---ACA--T
2314279 ATGTATCGATACAT
1 -TGTATCGATACAT
2314293 TGTATCGATACA
1 TGTATCGATACA
2314305 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2315073 original size:20 final size:21
Alignment explanation
Indices: 2315048--2315089 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
2315038 ACTTTAAATT
2315048 ATTTTTA-CTTGAAAAACATC
1 ATTTTTAGCTTGAAAAACATC
2315068 ATTTTTATGCTTGAAAAACATC
1 ATTTTTA-GCTTGAAAAACATC
2315090 TATACTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (21 bp):
ATTTTTAGCTTGAAAAACATC
Found at i:2317122 original size:20 final size:20
Alignment explanation
Indices: 2317097--2317136 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2317087 ACGATATAAA
2317097 TAGTAAATGCATCGATACAT
1 TAGTAAATGCATCGATACAT
*
2317117 TAGTAAATGTATCGATACAT
1 TAGTAAATGCATCGATACAT
2317137 GCTTACAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (20 bp):
TAGTAAATGCATCGATACAT
Found at i:2329796 original size:14 final size:14
Alignment explanation
Indices: 2329777--2329814 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
2329767 CATCTTTCGC
2329777 CAAAAAAAATCAAT
1 CAAAAAAAATCAAT
*
2329791 CAAAAAAAATTAAT
1 CAAAAAAAATCAAT
*
2329805 CAAGAAAAAT
1 CAAAAAAAAT
2329815 AAAAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.71, C:0.11, G:0.03, T:0.16
Consensus pattern (14 bp):
CAAAAAAAATCAAT
Found at i:2330830 original size:14 final size:13
Alignment explanation
Indices: 2330808--2330841 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 13
2330798 CATATTAGAC
2330808 TTCACATCATGCA
1 TTCACATCATGCA
2330821 TTCTACATCATGCA
1 TTC-ACATCATGCA
2330835 TTCACAT
1 TTCACAT
2330842 TGCCATCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (13 bp):
TTCACATCATGCA
Found at i:2331571 original size:33 final size:33
Alignment explanation
Indices: 2331530--2331756 Score: 181
Period size: 33 Copynumber: 7.1 Consensus size: 33
2331520 CCCTTGTGGA
*
2331530 GCAA-CTCTTTTTAAAGCCCACACGAGTTGGTG
1 GCAACCTCTTTTTAAAGCCCACACAAGTTGGTG
* * *
2331562 GCAACCTCTTCTT-AAGCCTACACAGGTTGGTG
1 GCAACCTCTTTTTAAAGCCCACACAAGTTGGTG
* *
2331594 GCGATCC-CTTTTT-AAGCCCACACAAGCTGGTG
1 GC-AACCTCTTTTTAAAGCCCACACAAGTTGGTG
*
2331626 GC-A--TCTTTTTCAAAACCCACACAAGTTGAG-G
1 GCAACCTCTTTTT-AAAGCCCACACAAGTTG-GTG
*
2331657 GCATCCT-TTTTTAAAAGCCCACACAAGTTGGTG
1 GCAACCTCTTTTT-AAAGCCCACACAAGTTGGTG
* * ** *
2331690 GCATCAT-TTCTCGATAGCCCACACAAGTTGGTG
1 GCAACCTCTT-TTTAAAGCCCACACAAGTTGGTG
* * *
2331723 GCAACC-C-TCTCAAAGCCCACATAAGTTGGTG
1 GCAACCTCTTTTTAAAGCCCACACAAGTTGGTG
2331754 GCA
1 GCA
2331757 TCTCCTTCTA
Statistics
Matches: 157, Mismatches: 26, Indels: 25
0.75 0.12 0.12
Matches are distributed among these distances:
29 6 0.04
31 38 0.24
32 48 0.31
33 63 0.40
34 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (33 bp):
GCAACCTCTTTTTAAAGCCCACACAAGTTGGTG
Found at i:2331738 original size:64 final size:61
Alignment explanation
Indices: 2331542--2331759 Score: 204
Period size: 64 Copynumber: 3.4 Consensus size: 61
2331532 AACTCTTTTT
* * * * * *
2331542 AAAGCCCACACGAGTTGGTGGCAACCTCTTCTTAAGCCTACACAGGTTGGTGGCGATCCCTTTT
1 AAAGCCCACACAAGTTGGTGGC-ATCT-TTCTCAAGCCCACACAAGTTGGTGGC-ATCCCTTTA
* * * * *
2331606 TAAGCCCACACAAGCTGGTGGCATCTTTTTCAAAACCCACACAAGTTGAG-GGCATCCTTTTTTA
1 AAAGCCCACACAAGTTGGTGGCATCTTTCTC-AAGCCCACACAAGTTG-GTGGCATCC--CTTTA
* * *
2331670 AAAGCCCACACAAGTTGGTGGCATCATTTCTCGATAGCCCACACAAGTTGGTGGCAACCCTCTC
1 AAAGCCCACACAAGTTGGTGGCATC-TTTCTC-A-AGCCCACACAAGTTGGTGGCATCCCTTTA
*
2331734 AAAGCCCACATAAGTTGGTGGCATCT
1 AAAGCCCACACAAGTTGGTGGCATCT
2331760 CCTTCTAAGC
Statistics
Matches: 126, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
62 7 0.06
63 20 0.16
64 72 0.57
65 7 0.06
66 20 0.16
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (61 bp):
AAAGCCCACACAAGTTGGTGGCATCTTTCTCAAGCCCACACAAGTTGGTGGCATCCCTTTA
Found at i:2331770 original size:31 final size:30
Alignment explanation
Indices: 2331543--2331770 Score: 170
Period size: 31 Copynumber: 7.2 Consensus size: 30
2331533 ACTCTTTTTA
* *
2331543 AAGCCCACACGAGTTGGTGGCAACCTCTTCTT
1 AAGCCCACACAAGTTGGTGGCATCC-CTTC-T
* * *
2331575 AAGCCTACACAGGTTGGTGGCGATCCCTTTTT
1 AAGCCCACACAAGTTGGTGGC-ATCCC-TTCT
* ** *
2331607 AAGCCCACACAAGCTGGTGGCATCTTTTTCA
1 AAGCCCACACAAGTTGGTGGCATC-CCTTCT
* * *
2331638 AAACCCACACAAGTTGAG-GGCATCCTTTTTT
1 AAGCCCACACAAGTTG-GTGGCATCC-CTTCT
**
2331669 AAAAGCCCACACAAGTTGGTGGCATCATTTCT
1 --AAGCCCACACAAGTTGGTGGCATCCCTTCT
* *
2331701 CGATAGCCCACACAAGTTGGTGGCAACCCTCTCA
1 --A-AGCCCACACAAGTTGGTGGCATCCCT-TCT
*
2331735 AAGCCCACATAAGTTGGTGGCATCTCCTTCT
1 AAGCCCACACAAGTTGGTGGCATC-CCTTCT
2331766 AAGCC
1 AAGCC
2331771 TAATGTTGTT
Statistics
Matches: 156, Mismatches: 29, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
31 56 0.36
32 49 0.31
33 49 0.31
34 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (30 bp):
AAGCCCACACAAGTTGGTGGCATCCCTTCT
Found at i:2331879 original size:52 final size:52
Alignment explanation
Indices: 2331822--2332288 Score: 383
Period size: 52 Copynumber: 9.0 Consensus size: 52
2331812 ACCGTCTCTT
* * *
2331822 TTTAAGCCCAATGTCGCTACCCTTGGATCAGCACATTGGCACTCTTATCATC
1 TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTATCATC
** * * *
2331874 TTTAAGTCCAATGTCATTGGCCTTGAATCAGTACATTGGCAC-CTTTGTCATC
1 TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTC-TTATCATC
* * * * * * * *
2331926 TTCAAGTCTAATATCACTGGACTTGAATCAGCATATTGGCACT-TCTATCATT
1 TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCT-TATCATC
* * * *
2331978 TTTAAG-CCTAATATCGCTAGCCTTGAATTAGCACATTGGCACCCTTATCATG
1 TTTAAGTCC-AATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTATCATC
* * * *
2332030 TTTAAGTCCAATGTCGCTAGCCTTGAATAAGCACACT-GCATTCTTCTCATC
1 TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTATCATC
* * * * * * * *
2332081 TTCAAGCCCAATGTTGCTAGCTTTGAATTAGCTCATTGGCACTTTTATAATC
1 TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTATCATC
* ** * *
2332133 TTTAAGTCCAATATTACTGGCCTTGAATCAGTACATTTGGCA-TCCTTATCATC
1 TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACA-TTGGCACT-CTTATCATC
** * *
2332186 TTTAAGTCCAATGGAGCTAACCTTGAATCAGCACATTTGGCATTCTTATCATC
1 TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACA-TTGGCACTCTTATCATC
* ** * *
2332239 TTTGAG-CCTAATGTCTTTGGCCTTGAA-CTAGCACATTAGCAC-CTTTATCA
1 TTTAAGTCC-AATGTCGCTAGCCTTGAATC-AGCACATTGGCACTC-TTATCA
2332289 ACTTCAAATC
Statistics
Matches: 331, Mismatches: 71, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
51 44 0.13
52 203 0.61
53 83 0.25
54 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (52 bp):
TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTATCATC
Found at i:2332198 original size:156 final size:155
Alignment explanation
Indices: 2331822--2332240 Score: 425
Period size: 156 Copynumber: 2.7 Consensus size: 155
2331812 ACCGTCTCTT
* * * * *
2331822 TTTAAGCCCAATGTCGCTACCCTTGGATCAGCACATTGGCACTCTTATCATCTTTAAGTCCAATG
1 TTTAAGCCTAATATCACTAGCCTTGAATCAGCACATTGGCAC-CTTATCATCTTTAAGTCCAATG
** * * * * * * *
2331887 TCATTGGCCTTGAATCAGTACATTGGCA-CCTTTGTCATCTTCAAGTCTAATATCACTGGACTTG
65 TCGCTAGCCTTGAATCAGCACATTGGCATTC-TTATCATCTTCAAGCCCAATATCACTAGACTTG
* *
2331951 AATCAGCATATTGGCACTTCTATCATT
129 AATCAGCATATTGGCACTTCTATAATC
* * *
2331978 TTTAAGCCTAATATCGCTAGCCTTGAATTAGCACATTGGCACCCTTATCATGTTTAAGTCCAATG
1 TTTAAGCCTAATATCACTAGCCTTGAATCAGCACATTGGCA-CCTTATCATCTTTAAGTCCAATG
* * * * **
2332043 TCGCTAGCCTTGAATAAGCACACT-GCATTCTTCTCATCTTCAAGCCCAATGTTGCTAG-CTTTG
65 TCGCTAGCCTTGAATCAGCACATTGGCATTCTTATCATCTTCAAGCCCAATATCACTAGAC-TTG
* *
2332106 AATTAGC-TCATTGGCACTTTTATAATC
129 AATCAGCAT-ATTGGCACTTCTATAATC
* * *
2332133 TTTAAGTCC-AATATTACTGGCCTTGAATCAGTACATTTGGCATCCTTATCATCTTTAAGTCCAA
1 TTTAAG-CCTAATATCACTAGCCTTGAATCAGCACA-TTGGCA-CCTTATCATCTTTAAGTCCAA
** *
2332197 TGGAGCTAACCTTGAATCAGCACATTTGGCATTCTTATCATCTT
63 TGTCGCTAGCCTTGAATCAGCACA-TTGGCATTCTTATCATCTT
2332241 TGAGCCTAAT
Statistics
Matches: 218, Mismatches: 37, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
154 2 0.01
155 75 0.34
156 124 0.57
157 2 0.01
158 15 0.07
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (155 bp):
TTTAAGCCTAATATCACTAGCCTTGAATCAGCACATTGGCACCTTATCATCTTTAAGTCCAATGT
CGCTAGCCTTGAATCAGCACATTGGCATTCTTATCATCTTCAAGCCCAATATCACTAGACTTGAA
TCAGCATATTGGCACTTCTATAATC
Found at i:2332323 original size:158 final size:156
Alignment explanation
Indices: 2332013--2332327 Score: 348
Period size: 158 Copynumber: 2.0 Consensus size: 156
2332003 AATTAGCACA
* ** * *
2332013 TTGGCACCCTTATCATGTTTAAGTCCAATGTCGCTAGCCTTGAATAAGCACACTGCATTCTTCTC
1 TTGGCACCCTTATCATCTTTAAGTCCAATGGAGCTAACCTTGAATAAGCACACTGCATTCTTATC
* * * * * * *
2332078 ATCTTCAAGCCCAATGTTGCTAGCTTTGAATTAGCTCATTGGCACTTTTATAATCTTTAAGTCCA
66 ATCTTCAAGCCCAATGTTGCTAGCCTTGAACTAGCACATTAGCACCTTTATAATCTTCAAATCCA
* *
2332143 ATATTACTGGCCTTGAATCAGTACAT
131 ATATTACTGACCTTGAAGCAGTACAT
* * *
2332169 TTGGCATCCTTATCATCTTTAAGTCCAATGGAGCTAACCTTGAATCAGCACATTTGGCATTCTTA
1 TTGGCACCCTTATCATCTTTAAGTCCAATGGAGCTAACCTTGAATAAGCACA-CT-GCATTCTTA
** * * *
2332234 TCATCTTTGAGCCTAATGTCT-TTGGCCTTGAACTAGCACATTAGCACCTTTATCAA-CTTCAAA
64 TCATCTTCAAGCCCAATGT-TGCTAGCCTTGAACTAGCACATTAGCACCTTTAT-AATCTTCAAA
* *
2332297 TCTAATGTTACT-ACTCTTGAAGCAGTACAT
127 TCCAATATTACTGAC-CTTGAAGCAGTACAT
2332327 T
1 T
2332328 AGCATTATGC
Statistics
Matches: 130, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
156 46 0.35
157 2 0.02
158 79 0.61
159 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (156 bp):
TTGGCACCCTTATCATCTTTAAGTCCAATGGAGCTAACCTTGAATAAGCACACTGCATTCTTATC
ATCTTCAAGCCCAATGTTGCTAGCCTTGAACTAGCACATTAGCACCTTTATAATCTTCAAATCCA
ATATTACTGACCTTGAAGCAGTACAT
Found at i:2333692 original size:13 final size:13
Alignment explanation
Indices: 2333674--2333699 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2333664 TTCAGGTTTA
2333674 ACAAAAAGTTATG
1 ACAAAAAGTTATG
2333687 ACAAAAAGTTATG
1 ACAAAAAGTTATG
2333700 GACGATGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
ACAAAAAGTTATG
Found at i:2334329 original size:101 final size:101
Alignment explanation
Indices: 2334184--2334440 Score: 313
Period size: 101 Copynumber: 2.6 Consensus size: 101
2334174 AGCAACATTA
* ** * **
2334184 GACTTAAAGAAGAA--TGCCAATGTGCTGAGACAAGGCCAACGACATTGGGCTT-AGGAATGTTA
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAG-ATGACA
*
2334246 AAGATACCAATACGCTGATTCAAGGCCAACGATATTG
65 AAGACACCAATACGCTGATTCAAGGCCAACGATATTG
* ** ** *
2334283 GACTTAAGGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTTTTAAAGATGACGA
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAGATGACAA
* * **
2334348 AGGCACCAATATGCTGATTCAAGGCCAGGGATATTG
66 AGACACCAATACGCTGATTCAAGGCCAACGATATTG
* *
2334384 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAA
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAA
2334441 AGTGCCAATA
Statistics
Matches: 132, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 12 0.09
101 118 0.89
102 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (101 bp):
GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAGATGACAA
AGACACCAATACGCTGATTCAAGGCCAACGATATTG
Found at i:2334440 original size:49 final size:49
Alignment explanation
Indices: 2334155--2334440 Score: 252
Period size: 49 Copynumber: 5.8 Consensus size: 49
2334145 GAAGAATGAT
* * * * * *
2334155 AATGTGTTGATTCATGGCCAGCAACATTAGACTTAAAGAAGAA--TGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
** * * * * *
2334202 AATGTGCTGAGACAAGGCCAACGACATTGGGCTTAGGAATGTTAAAGATACC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTA--AA-GATGAAGGTGCC
** * *
2334254 AATACGCTGATTCAAGGCCAACGATATTGGACTTAAGGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
** ** **
2334303 AATGTGCTGATTCAAGGCCAGTGACATTGGTTTTAAAGATGACGAAGGCACC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT---GAAGGTGCC
* ** *
2334355 AATATGCTGATTCAAGGCCAGGGATATTGGACTTAAAGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
*
2334404 AATGTGCTGATTCAAGGCCAACAACATTGGACTTAAA
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAA
2334441 AGTGCCAATA
Statistics
Matches: 186, Mismatches: 45, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
47 27 0.15
49 81 0.44
50 4 0.02
52 74 0.40
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (49 bp):
AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
Found at i:2334460 original size:43 final size:47
Alignment explanation
Indices: 2334162--2334463 Score: 182
Period size: 52 Copynumber: 6.2 Consensus size: 47
2334152 GATAATGTGT
* * * * *
2334162 TGATTCATGGCCAGCAACATTAGACTTAA-AGAAGAATGCCAATGTGC
1 TGATTCAAGGCCAACAACATTGGACTTAAGAGAAG-GTGCCAATATGC
** * * * * * *
2334209 TGAGACAAGGCCAACGACATTGGGCTTAGGAATGTTAAAGATACCAATACGC
1 TGATTCAAGGCCAACAACATTGGACTTAAG-A-G---AAGGTGCCAATATGC
* * *
2334261 TGATTCAAGGCCAACGATATTGGACTTAAGGATGAAGGTGCCAATGTGC
1 TGATTCAAGGCCAACAACATTGGACTTAA-GA-GAAGGTGCCAATATGC
*** ** **
2334310 TGATTCAAGGCCAGTGACATTGGTTTTAAAGATGACGAAGGCACCAATATGC
1 TGATTCAAGGCCAACAACATTGGACTT--A-A-GA-GAAGGTGCCAATATGC
*** * *
2334362 TGATTCAAGGCCAGGGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 TGATTCAAGGCCAACAACATTGGACTT-AAGA-GAAGGTGCCAATATGC
2334411 TGATTCAAGGCCAACAACATTGGACTT-A-A-AA-GTGCCAATATGC
1 TGATTCAAGGCCAACAACATTGGACTTAAGAGAAGGTGCCAATATGC
2334454 TGATTCAAGG
1 TGATTCAAGG
2334464 ATAGCTATAT
Statistics
Matches: 202, Mismatches: 43, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
43 21 0.10
44 2 0.01
46 1 0.00
47 22 0.11
49 72 0.36
50 2 0.01
51 3 0.01
52 75 0.37
53 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (47 bp):
TGATTCAAGGCCAACAACATTGGACTTAAGAGAAGGTGCCAATATGC
Found at i:2334476 original size:43 final size:46
Alignment explanation
Indices: 2334252--2334494 Score: 168
Period size: 49 Copynumber: 5.1 Consensus size: 46
2334242 GTTAAAGATA
* * *
2334252 CCAATACGCTGATTCAAGGCCAACGATATTGGACTTAAGGATGAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCAATATTGGACTT-A-GA-GAAGGTG
* ** * ** **
2334301 CCAATGTGCTGATTCAAGGCCAGTGACATTGGTTTTAAAGATGACGAAGGCA
1 CCAATATGCTGATTCAAGGCCAGCAATATTGGACTT----A-GA-GAAGGTG
**
2334353 CCAATATGCTGATTCAAGGCCAGGGATATTGGACTTAAAGATGAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCAATATTGGACTT--AGA-GAAGGTG
* * *
2334402 CCAATGTGCTGATTCAAGGCCAACAACATTGGACTTA-A-AA-GTG
1 CCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAGAGAAGGTG
** * *
2334445 CCAATATGCTGATTCAAGGATAGCTATATTGGACTTAGAAGAAGATG
1 CCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAG-AGAAGGTG
2334492 CCA
1 CCA
2334495 CTAACTTGTG
Statistics
Matches: 154, Mismatches: 33, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
43 34 0.22
44 2 0.01
45 1 0.01
46 3 0.02
47 6 0.04
49 67 0.44
50 2 0.01
52 39 0.25
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (46 bp):
CCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAGAGAAGGTG
Found at i:2334569 original size:28 final size:27
Alignment explanation
Indices: 2334537--2334738 Score: 230
Period size: 28 Copynumber: 7.2 Consensus size: 27
2334527 CAACTTTTGT
*
2334537 GCTTTTGAAGGTTGCCACTGTCTTGTGG
1 GCTTTTGAAGG-TGCCACTGACTTGTGG
*
2334565 GC-TTTGAAGGCTGTCACTGACTTGTGG
1 GCTTTTGAAGG-TGCCACTGACTTGTGG
2334592 GC-TTTGAAAAGGTGCCACTGACTTGTGG
1 GCTTTTG--AAGGTGCCACTGACTTGTGG
*
2334620 GC-TTTGAAAAAGTGCCACTGACTTGTGG
1 GCTTTTG--AAGGTGCCACTGACTTGTGG
**
2334648 GCTTTAAAAAGGTGCCACTGACTTGTGG
1 GCTTT-TGAAGGTGCCACTGACTTGTGG
*
2334676 GCTTCTGAAGGTTGCCACTGACTTGTGG
1 GCTTTTGAAGG-TGCCACTGACTTGTGG
2334704 GCTTTTGAAAAGGGTGCCACTGACTTGTGG
1 GCTTTTG--AA-GGTGCCACTGACTTGTGG
2334734 GCTTT
1 GCTTT
2334739 GAAAGAGTGA
Statistics
Matches: 154, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
27 32 0.21
28 91 0.59
29 6 0.04
30 23 0.15
31 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.31, T:0.32
Consensus pattern (27 bp):
GCTTTTGAAGGTGCCACTGACTTGTGG
Found at i:2334646 original size:56 final size:55
Alignment explanation
Indices: 2334544--2334743 Score: 285
Period size: 56 Copynumber: 3.5 Consensus size: 55
2334534 TGTGCTTTTG
* * *
2334544 AAGGTTGCCACTGTCTTGTGGGCTTTGAAGGCTGTCACTGACTTGTGGGCTTTGAA
1 AAGG-TGCCACTGACTTGTGGGCTTTGAAAGCTGCCACTGACTTGTGGGCTTTGAA
*
2334600 AAGGTGCCACTGACTTGTGGGCTTTGAAAAAG-TGCCACTGACTTGTGGGCTTTAAA
1 AAGGTGCCACTGACTTGTGGGCTTTG--AAAGCTGCCACTGACTTGTGGGCTTTGAA
* *
2334656 AAGGTGCCACTGACTTGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGCTTTTGAA
1 AAGGTGCCACTGACTTGTGGGCTT-TGAAAGCTGCCACTGACTTGTGGGC-TTTGAA
2334713 AAGGGTGCCACTGACTTGTGGGCTTTGAAAG
1 AA-GGTGCCACTGACTTGTGGGCTTTGAAAG
2334744 AGTGAGGAAT
Statistics
Matches: 131, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
55 24 0.18
56 68 0.52
57 17 0.13
58 22 0.17
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (55 bp):
AAGGTGCCACTGACTTGTGGGCTTTGAAAGCTGCCACTGACTTGTGGGCTTTGAA
Found at i:2334678 original size:84 final size:85
Alignment explanation
Indices: 2334549--2334743 Score: 274
Period size: 84 Copynumber: 2.3 Consensus size: 85
2334539 TTTTGAAGGT
* * *
2334549 TGCCACTGTCTTGTGGGCTTTGAAGGCTGTCACTGACTTGTGGGCTT-TGAAAAGG-TGCCACTG
1 TGCCACTGACTTGTGGGCTTTAAAGGCTGCCACTGACTTGTGGGCTTCTG--AAGGTTGCCACTG
2334612 ACTTGTGGGC-TTTGAAAA-AG
64 ACTTGTGGGCTTTTGAAAAGAG
2334632 TGCCACTGACTTGTGGGCTTTAAAAAGG-TGCCACTGACTTGTGGGCTTCTGAAGGTTGCCACTG
1 TGCCACTGACTTGTGGGCTTT--AAAGGCTGCCACTGACTTGTGGGCTTCTGAAGGTTGCCACTG
*
2334696 ACTTGTGGGCTTTTGAAAAGGG
64 ACTTGTGGGCTTTTGAAAAGAG
2334718 TGCCACTGACTTGTGGGCTTTGAAAG
1 TGCCACTGACTTGTGGGCTTT-AAAG
2334744 AGTGAGGAAT
Statistics
Matches: 101, Mismatches: 5, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
83 24 0.24
84 37 0.37
85 18 0.18
86 22 0.22
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.31
Consensus pattern (85 bp):
TGCCACTGACTTGTGGGCTTTAAAGGCTGCCACTGACTTGTGGGCTTCTGAAGGTTGCCACTGAC
TTGTGGGCTTTTGAAAAGAG
Found at i:2349702 original size:32 final size:33
Alignment explanation
Indices: 2349639--2349706 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
2349629 CGTTACAAGC
*
2349639 CAATGTATCGATACATTTGGTCATGTATCGATA
1 CAATGAATCGATACATTTGGTCATGTATCGATA
*
2349672 CAATGAATCTATACATCTT-GT-ATGTATCGATA
1 CAATGAATCGATACAT-TTGGTCATGTATCGATA
2349704 CAA
1 CAA
2349707 ATAGTTAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 14 0.44
33 16 0.50
34 2 0.06
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (33 bp):
CAATGAATCGATACATTTGGTCATGTATCGATA
Found at i:2349804 original size:13 final size:13
Alignment explanation
Indices: 2349786--2349810 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2349776 TACAGTGGTC
2349786 ATGTATCGATACA
1 ATGTATCGATACA
2349799 ATGTATCGATAC
1 ATGTATCGATAC
2349811 TGTGCATTAT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2351384 original size:19 final size:19
Alignment explanation
Indices: 2351360--2351476 Score: 105
Period size: 19 Copynumber: 6.7 Consensus size: 19
2351350 AGTGATACAT
2351360 TGTATCGATACAATACTTA
1 TGTATCGATACAATACTTA
2351379 TGTATCGATAC---A--T-
1 TGTATCGATACAATACTTA
2351392 TGTATCGATACAATACTTA
1 TGTATCGATACAATACTTA
2351411 TGTATCGATAC---A--T-
1 TGTATCGATACAATACTTA
*
2351424 TGTATCGATACAAAACTTA
1 TGTATCGATACAATACTTA
* *
2351443 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-ATACT-TA
2351464 TGTATCGATACAA
1 TGTATCGATACAA
2351477 ATTGTTGAAA
Statistics
Matches: 80, Mismatches: 4, Indels: 27
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.28
14 2 0.03
16 4 0.05
18 2 0.03
19 34 0.43
20 3 0.04
21 13 0.16
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (19 bp):
TGTATCGATACAATACTTA
Found at i:2351394 original size:32 final size:32
Alignment explanation
Indices: 2351353--2351456 Score: 199
Period size: 32 Copynumber: 3.2 Consensus size: 32
2351343 GCTTTGTAGT
2351353 GATACATTGTATCGATACAATACTTATGTATC
1 GATACATTGTATCGATACAATACTTATGTATC
2351385 GATACATTGTATCGATACAATACTTATGTATC
1 GATACATTGTATCGATACAATACTTATGTATC
*
2351417 GATACATTGTATCGATACAAAACTTATGTATC
1 GATACATTGTATCGATACAATACTTATGTATC
2351449 GATACATT
1 GATACATT
2351457 TACTGTTTGT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 71 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (32 bp):
GATACATTGTATCGATACAATACTTATGTATC
Found at i:2351397 original size:13 final size:13
Alignment explanation
Indices: 2351379--2351435 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
2351369 ACAATACTTA
2351379 TGTATCGATACAT
1 TGTATCGATACAT
2351392 TGTATCGATACAATACTT
1 TGTATCGATAC---A--T
2351410 ATGTATCGATACAT
1 -TGTATCGATACAT
2351424 TGTATCGATACA
1 TGTATCGATACA
2351436 AAACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2353429 original size:162 final size:161
Alignment explanation
Indices: 2353235--2353530 Score: 529
Period size: 162 Copynumber: 1.8 Consensus size: 161
2353225 TTTGTGTGCC
*
2353235 TAACATGCTATGTTATCTCCATCATCCTAGCAGCCCATATTTATGCATTTCATGTCATGATTCCA
1 TAACATGCTATGTTATCTCCATCATCCTAGCAGCCCATATTTATGAATTTCATGTCATGATTCCA
* ** *
2353300 TGCATTTTGACATGTCCAACGCATGTTTGATGTTTAAGTCAGCATCTCACAATCATGTTCATGCA
66 TGCATTTTGACATGTCCAACGCATGTTTCATGTTTAAGTCAAAATCTCACAAGCATGTTCATGCA
2353365 TCAACATGCTATGTTTGATTATGCTATGCAT
131 TCAACATGCTATGTTTGATTATGCTATGCAT
2353396 TAACATGCTATGTTCATCTCCATCATCCTAGCAGCCCATATTTATGAATTTCATGTCATGATTCC
1 TAACATGCTATGTT-ATCTCCATCATCCTAGCAGCCCATATTTATGAATTTCATGTCATGATTCC
*
2353461 ATGCATTTTGACATGTCCAATGCATGTTTCATGTTTAAGTCAAAATCTCACAAGCATGTTCATGC
65 ATGCATTTTGACATGTCCAACGCATGTTTCATGTTTAAGTCAAAATCTCACAAGCATGTTCATGC
2353526 ATCAA
130 ATCAA
2353531 TTTATGTTTT
Statistics
Matches: 128, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
161 14 0.11
162 114 0.89
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (161 bp):
TAACATGCTATGTTATCTCCATCATCCTAGCAGCCCATATTTATGAATTTCATGTCATGATTCCA
TGCATTTTGACATGTCCAACGCATGTTTCATGTTTAAGTCAAAATCTCACAAGCATGTTCATGCA
TCAACATGCTATGTTTGATTATGCTATGCAT
Found at i:2357776 original size:21 final size:22
Alignment explanation
Indices: 2357736--2357777 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2357726 GTTAAGTATA
*
2357736 AATGTTTTTCAAGCATAAAAAT
1 AATGTTTTTCAAGCAAAAAAAT
*
2357758 AATG-TTTTCAAGTAAAAAAA
1 AATGTTTTTCAAGCAAAAAAA
2357778 ATCTAAAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (22 bp):
AATGTTTTTCAAGCAAAAAAAT
Found at i:2357914 original size:13 final size:13
Alignment explanation
Indices: 2357896--2357920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2357886 ATATTGCTTA
2357896 GTATCGATACATT
1 GTATCGATACATT
2357909 GTATCGATACAT
1 GTATCGATACAT
2357921 GTTCTTAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2357933 original size:32 final size:33
Alignment explanation
Indices: 2357875--2357938 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2357865 CACACCCAGA
2357875 TGTATCAATACATATTGCTTAGTATCGATACAT
1 TGTATCAATACATATTGCTTAGTATCGATACAT
* *
2357908 TGTATCGATACATGTT-CTTAGTATCGATACA
1 TGTATCAATACATATTGCTTAGTATCGATACA
2357939 CACTAAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCAATACATATTGCTTAGTATCGATACAT
Found at i:2357956 original size:31 final size:31
Alignment explanation
Indices: 2357918--2357979 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
2357908 TGTATCGATA
2357918 CATGTTCTTAGTATCGATACACACTAAATTG
1 CATGTTCTTAGTATCGATACACACTAAATTG
2357949 CATGTTCTTAGTATCGATACACACTAAATTG
1 CATGTTCTTAGTATCGATACACACTAAATTG
2357980 TATCGAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (31 bp):
CATGTTCTTAGTATCGATACACACTAAATTG
Found at i:2358056 original size:13 final size:13
Alignment explanation
Indices: 2358020--2358056 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2358010 ACTCACTTAA
*
2358020 TATCGATACAGTG
1 TATCGATACATTG
*
2358033 TATCAATACATTG
1 TATCGATACATTG
2358046 TATCGATACAT
1 TATCGATACAT
2358057 GATAAAATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:2358551 original size:32 final size:31
Alignment explanation
Indices: 2358509--2358635 Score: 123
Period size: 32 Copynumber: 3.9 Consensus size: 31
2358499 AGTGATTGAG
*
2358509 AGGTTTTATCTTAGCCTTGAAAGATAGGGATA
1 AGGTTCTATCTTAGCCTTGAAAGATAGGGA-A
*
2358541 AGGTTCTATCTTAGCCTTTATAAAAGATAGGGAGAA
1 AGGTTCTATCTTAGCC--T-TGAAAGATA-GG-GAA
* *
2358577 AGGTTATATCTTAGCACATGAAAAGATAGGG--
1 AGGTTCTATCTTAGC-CTTG-AAAGATAGGGAA
2358608 AGGTTTCTATCTTAGCCTTGAAAGATAG
1 AGG-TTCTATCTTAGCCTTGAAAGATAG
2358636 TGTTGTAAGG
Statistics
Matches: 80, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
30 8 0.10
31 6 0.08
32 26 0.32
33 1 0.01
34 4 0.05
35 15 0.19
36 17 0.21
37 3 0.04
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (31 bp):
AGGTTCTATCTTAGCCTTGAAAGATAGGGAA
Found at i:2358601 original size:35 final size:34
Alignment explanation
Indices: 2358509--2358609 Score: 109
Period size: 35 Copynumber: 2.9 Consensus size: 34
2358499 AGTGATTGAG
* * *
2358509 AGGTTTTATCTTAGCCTTG-AAAGATAGGGA-TA
1 AGGTTATATCTTAGCCATGAAAAGATAGGGAGAA
*
2358541 AGGTTCTATCTTAGCCTTTAT-AAAAGATAGGGAGAA
1 AGGTTATATCTTAGCC---ATGAAAAGATAGGGAGAA
2358577 AGGTTATATCTTAGCACATGAAAAGATAGGGAG
1 AGGTTATATCTTAGC-CATGAAAAGATAGGGAG
2358610 GTTTCTATCT
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
32 15 0.26
34 2 0.03
35 25 0.43
36 15 0.26
37 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.30
Consensus pattern (34 bp):
AGGTTATATCTTAGCCATGAAAAGATAGGGAGAA
Found at i:2360068 original size:79 final size:77
Alignment explanation
Indices: 2359919--2360138 Score: 305
Period size: 79 Copynumber: 2.8 Consensus size: 77
2359909 AACGGGGCTA
* * * *
2359919 GAGTATCCCCGATTATGGAAAATCGGTGTTCTAGAAATAAAAATCGGGGTTGGAGTATCCCCTCG
1 GAGTATCCCTGATTATAGAAAATTGGTGTT-TTGAAAT-AAAATC-GGGTTGGAGTATCCCCTCG
*
2359984 AAAATAACAGGGTTG
63 AAAATAACAAGGTTG
* *
2359999 GAGTATCCCTGATTATAGAAAATTGGTATTTTGAAACTAAAATCGAGGTTGGAGTATCCCCTCGG
1 GAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAA-TAAAATCG-GGTTGGAGTATCCCCTCGA
2360064 AAATAACAAGGTTG
64 AAATAACAAGGTTG
*
2360078 GAGTATCCTTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCC
1 GAGTATCCCTGATTATAGAAAATTGGTGTTTTG-AAATAAAATCGG-GTTGGAGTATCCCC
2360139 GATTGTGAAA
Statistics
Matches: 127, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
78 2 0.02
79 95 0.75
80 30 0.24
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (77 bp):
GAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAATAAAATCGGGTTGGAGTATCCCCTCGAAA
ATAACAAGGTTG
Found at i:2360155 original size:51 final size:51
Alignment explanation
Indices: 2360074--2360189 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
2360064 AAATAACAAG
** *
2360074 GTTGGAGTATCCTTGATTATAGAAAATTGGTGTTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAGAAAATTGGTATTTTAG-AAATAAAATCGGA
* *
2360125 GTTGGAGTATCCCCGATTGT-GAAAATTTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTATAGAAAA-TTGGTATTTTAGAAATAAAATCGGA
2360176 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
2360190 TCGGAAATAC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 5 0.09
51 52 0.90
52 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATAGAAAATTGGTATTTTAGAAATAAAATCGGA
Found at i:2360290 original size:79 final size:78
Alignment explanation
Indices: 2360202--2360374 Score: 186
Period size: 79 Copynumber: 2.2 Consensus size: 78
2360192 GGAAATACTA
* * *
2360202 GGGTTGGAGTATCCCT-GATGACATAACTGGGTTAGAGTACCCCCGATTATGAAAAATCAATATT
1 GGGTTGGAGTATCCCTCG--GAAATAACGGGGTTAGAGTACCCCCAATTATGAAAAATCAATATT
*
2360266 TTAGATATAAAACCG
64 TTAGAAATAAAACCG
* * * *** *
2360281 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCTAATTATGAAAAATTGGTGTTT
1 GGGTTGGAGTAT-CCCTCGGAAATAACGGGGTTAGAGTACCCCCAATTATGAAAAATCAATATTT
* *
2360346 TGGAAATAAAATCG
65 TAGAAATAAAACCG
*
2360360 GAGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
2360375 CGATTAAGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
78 3 0.04
79 70 0.90
80 4 0.05
81 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (78 bp):
GGGTTGGAGTATCCCTCGGAAATAACGGGGTTAGAGTACCCCCAATTATGAAAAATCAATATTTT
AGAAATAAAACCG
Found at i:2360427 original size:51 final size:51
Alignment explanation
Indices: 2360307--2360428 Score: 156
Period size: 51 Copynumber: 2.4 Consensus size: 51
2360297 TCGGAAATAA
* ** * **
2360307 CGGGGTTGGAGTATCCCTAATTATGAAAAATTGGTGTTTTGGAAATAAAAT
1 CGGGATTGGAGTATCCCCGATTAAGAAAAATTAATGTTTTGGAAATAAAAT
**
2360358 C-GGAGTTGGAGTATCCCCGATTAAGAAAAATTAATGTTTTGGAAATGGAAT
1 CGGGA-TTGGAGTATCCCCGATTAAGAAAAATTAATGTTTTGGAAATAAAAT
2360409 CGGGATTGGAGTATCCCCGA
1 CGGGATTGGAGTATCCCCGA
2360429 GATGAAAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 2 0.03
51 56 0.92
52 3 0.05
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
CGGGATTGGAGTATCCCCGATTAAGAAAAATTAATGTTTTGGAAATAAAAT
Found at i:2362772 original size:20 final size:19
Alignment explanation
Indices: 2362729--2362832 Score: 62
Period size: 20 Copynumber: 5.6 Consensus size: 19
2362719 ATGCCTGAAT
*
2362729 GTATCGATACATTG-TAAAA
1 GTATCGATACAATGAT-AAA
2362748 TGTATCGATACAATGAGTAAA
1 -GTATCGATACAATGA-TAAA
*
2362769 GTATTGATAC-A--AT---
1 GTATCGATACAATGATAAA
* *
2362782 GTATCGATACAATGAGCAAT
1 GTATCGATACAATGA-TAAA
2362802 GTATCGATACAATGCA-AAA
1 GTATCGATACAATG-ATAAA
2362821 TGTATCGATACA
1 -GTATCGATACA
2362833 TCTGGGTAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
13 9 0.13
14 1 0.01
16 2 0.03
17 1 0.01
19 3 0.04
20 47 0.69
21 4 0.06
22 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (19 bp):
GTATCGATACAATGATAAA
Found at i:2362788 original size:33 final size:33
Alignment explanation
Indices: 2362746--2362815 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
2362736 TACATTGTAA
* *
2362746 AATGTATCGATACAATGAGTAAAGTATTGATAC
1 AATGTATCGATACAATGAGCAAAGTATCGATAC
*
2362779 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAAAGTATCGATAC
2362812 AATG
1 AATG
2362816 CAAAATGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAAAGTATCGATAC
Found at i:2362831 original size:53 final size:52
Alignment explanation
Indices: 2362726--2362832 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 52
2362716 AAAATGCCTG
* *
2362726 AATGTATCGATACATTGTAAAATGTATCGATACAATGAGTAAAGTATTGATAC
1 AATGTATCGATACAATGTAAAATGTATCGATACAATGAG-AAAGTATCGATAC
*
2362779 AATGTATCGATACAATG-AGCAATGTATCGATACAATGCA-AAATGTATCGATAC
1 AATGTATCGATACAATGTA-AAATGTATCGATACAATG-AGAAA-GTATCGATAC
2362832 A
1 A
2362833 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
52 4 0.08
53 43 0.90
54 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (52 bp):
AATGTATCGATACAATGTAAAATGTATCGATACAATGAGAAAGTATCGATAC
Found at i:2368011 original size:15 final size:15
Alignment explanation
Indices: 2367979--2368020 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
2367969 TAAGTTTAGA
**
2367979 AAAAAATAACTAAAT
1 AAAAAATATTTAAAT
2367994 AAAAAATATTT-AAT
1 AAAAAATATTTAAAT
*
2368008 TAAAAATATTTAA
1 AAAAAATATTTAA
2368021 CCGTTGATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAAATATTTAAAT
Found at i:2368294 original size:22 final size:23
Alignment explanation
Indices: 2368252--2368295 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
2368242 GATGGTCAAT
*
2368252 TCAATAATTTTGTGAAAAAGGTC
1 TCAATAATTTTCTGAAAAAGGTC
2368275 TCAA-AATTTTCT-AAAGAAGGT
1 TCAATAATTTTCTGAAA-AAGGT
2368296 TAAATCAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 3 0.16
22 12 0.63
23 4 0.21
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (23 bp):
TCAATAATTTTCTGAAAAAGGTC
Found at i:2372037 original size:18 final size:18
Alignment explanation
Indices: 2372016--2372054 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2372006 AAGAAATAGC
*
2372016 AAAGCAAAGAAAGACAAA
1 AAAGCAAAAAAAGACAAA
* *
2372034 AAAGGAAAAAAAGAGAAA
1 AAAGCAAAAAAAGACAAA
2372052 AAA
1 AAA
2372055 AAGAAGATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.77, C:0.05, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAGCAAAAAAAGACAAA
Found at i:2374029 original size:23 final size:22
Alignment explanation
Indices: 2373980--2374027 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2373970 AGCGAAAAAG
*
2373980 AAAATAATGAACAAATTTACAT
1 AAAATAATGAACAAATATACAT
*
2374002 AAAATAAATGCACAAA-ATACAT
1 AAAAT-AATGAACAAATATACAT
2374024 AAAA
1 AAAA
2374028 ATGTGAGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.65, C:0.10, G:0.04, T:0.21
Consensus pattern (22 bp):
AAAATAATGAACAAATATACAT
Found at i:2374887 original size:20 final size:20
Alignment explanation
Indices: 2374862--2374915 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
2374852 GTTTGAAGCA
2374862 ATGTATCGATACAA-GT-CATC
1 ATGTATCGATACAATGTGC--C
*
2374882 ATGTATCAATACAATGTGCC
1 ATGTATCGATACAATGTGCC
2374902 ATGTATCGATACAA
1 ATGTATCGATACAA
2374916 ACAATAGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 27 0.90
21 2 0.07
22 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:2374969 original size:20 final size:20
Alignment explanation
Indices: 2374944--2375001 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
2374934 CTACCAGTTT
*
2374944 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTA
*
2374964 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTA
*
2374983 CATGTATTGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
2375002 TCGATACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.52
20 15 0.45
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:2375028 original size:33 final size:32
Alignment explanation
Indices: 2374966--2375030 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
2374956 CAATTGTCCA
* *
2374966 TGTATCGATACAATGAACATGTATTGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
2374998 TGTATCGATACAAAGCATA-ATGTATCGATACAT
1 TGTATCGATACAAAG-A-ACATGTATCGATACAT
2375031 CTGGGTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:2375608 original size:22 final size:23
Alignment explanation
Indices: 2375583--2375629 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
2375573 GGCTCTCGTT
*
2375583 AAAAAATTT-TCCCT-TTGATAA
1 AAAAAATTTCTCCCTCTTAATAA
2375604 AAAAAATTTCTCCCTCTTAATAA
1 AAAAAATTTCTCCCTCTTAATAA
2375627 AAA
1 AAA
2375630 TTTATTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.39
22 5 0.22
23 9 0.39
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.34
Consensus pattern (23 bp):
AAAAAATTTCTCCCTCTTAATAA
Found at i:2383578 original size:21 final size:21
Alignment explanation
Indices: 2383554--2383630 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
2383544 AAAAATTTCA
2383554 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
2383575 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
2383596 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
2383617 AATGTATCGATACA
1 AATGTATCGATACA
2383631 AGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:2383690 original size:19 final size:19
Alignment explanation
Indices: 2383666--2383733 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2383656 AATTCAACAA
2383666 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2383685 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2383700 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2383717 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2383734 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2383705 original size:13 final size:13
Alignment explanation
Indices: 2383687--2383711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2383677 ACATAAGTTT
2383687 TGTATCGATACAA
1 TGTATCGATACAA
2383700 TGTATCGATACA
1 TGTATCGATACA
2383712 TAAGTATTGT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2383709 original size:32 final size:32
Alignment explanation
Indices: 2383668--2383730 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2383658 TTCAACAATT
*
2383668 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2383700 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2383731 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2386217 original size:52 final size:53
Alignment explanation
Indices: 2386144--2386243 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 53
2386134 AATTCTCCGC
* * **
2386144 AATCGGGGATATTCCATCTCCGATTTTATTT-TTAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTCCTTT
*
2386196 AATCGGGGATACTCGAGCTCCGATTTTATTTCCAAAAACACCAATTTT
1 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTT
2386244 TTCACAATCG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 28 0.67
53 14 0.33
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (53 bp):
AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTCCTTT
Found at i:2386259 original size:53 final size:51
Alignment explanation
Indices: 2386143--2386264 Score: 138
Period size: 52 Copynumber: 2.3 Consensus size: 51
2386133 CAATTCTCCG
* * **
2386143 CAATCGGGGATATTCCATCTCCGATTTTATTTTTAAAACACCAATTTTCCTT
1 CAATCGGGGATACTCCAGCTCCGATTTTATTTCAAAAACACCAATTTT-CTT
* *
2386195 TAATCGGGGATACTCGAGCTCCGATTTTATTTCCAAAAACACCAATTTT-TT
1 CAATCGGGGATACTCCAGCTCCGATTTTATTT-CAAAAACACCAATTTTCTT
*
2386246 CACAATCGAGGATACTCCA
1 --CAATCGGGGATACTCCA
2386265 ACCTCGTTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
51 2 0.03
52 28 0.48
53 28 0.48
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (51 bp):
CAATCGGGGATACTCCAGCTCCGATTTTATTTCAAAAACACCAATTTTCTT
Found at i:2386278 original size:31 final size:28
Alignment explanation
Indices: 2386250--2386326 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
2386240 TTTTTTCACA
*
2386250 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
2386278 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
2386306 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
2386327 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:2386464 original size:80 final size:79
Alignment explanation
Indices: 2386280--2386484 Score: 232
Period size: 80 Copynumber: 2.6 Consensus size: 79
2386270 GTTATTTCAT
** *
2386280 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
* * *
2386345 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * ** * * *
2386359 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTCC-TAATC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG-GCTTTATTCCCAAAAT-
2386423 ATCGATTTCTCACAAC
64 ATCGATTTCTCACAAC
* * * *
2386439 CGGGGATACTCCAGCCCCGTCATTTTCAAGGGGACACTCCAACCCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC
2386485 ATTATTATCT
Statistics
Matches: 105, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
79 45 0.43
80 60 0.57
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:2398860 original size:12 final size:12
Alignment explanation
Indices: 2398860--2398900 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
2398850 AAGCAAAAAA
2398860 AAAAAAAAAAGC
1 AAAAAAAAAAGC
2398872 AAAAAAAAAAAGC
1 -AAAAAAAAAAGC
*
2398885 AAAAAAAAAAAC
1 AAAAAAAAAAGC
2398897 AAAA
1 AAAA
2398901 CAAAGAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGC
Found at i:2398861 original size:13 final size:13
Alignment explanation
Indices: 2398859--2398900 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
2398849 AAAGCAAAAA
2398859 AAAAAAAAAAAGC
1 AAAAAAAAAAAGC
2398872 AAAAAAAAAAAGC
1 AAAAAAAAAAAGC
2398885 AAAAAAAAAAA-C
1 AAAAAAAAAAAGC
2398897 AAAA
1 AAAA
2398901 CAAAGAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 5 0.17
13 24 0.83
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGC
Found at i:2398900 original size:18 final size:18
Alignment explanation
Indices: 2398843--2398904 Score: 76
Period size: 18 Copynumber: 3.5 Consensus size: 18
2398833 CTTTCTCTTC
2398843 AAAAA-AAAAGCAAAAAA
1 AAAAACAAAAGCAAAAAA
*
2398860 AAAAAAAAAAGCAAAAAA
1 AAAAACAAAAGCAAAAAA
2398878 AAAAAGCAAAA--AAAAAA
1 AAAAA-CAAAAGCAAAAAA
2398895 ACAAAACAAA
1 A-AAAACAAA
2398905 GAAAAAGAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
17 16 0.39
18 21 0.51
19 4 0.10
ACGTcount: A:0.87, C:0.08, G:0.05, T:0.00
Consensus pattern (18 bp):
AAAAACAAAAGCAAAAAA
Found at i:2398910 original size:18 final size:18
Alignment explanation
Indices: 2398843--2398882 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
2398833 CTTTCTCTTC
2398843 AAAAAAAAAGCAAAAAAA
1 AAAAAAAAAGCAAAAAAA
2398861 AAAAAAAAAGCAAAAAAA
1 AAAAAAAAAGCAAAAAAA
2398879 AAAA
1 AAAA
2398883 GCAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.90, C:0.05, G:0.05, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGCAAAAAAA
Found at i:2398925 original size:1 final size:1
Alignment explanation
Indices: 2398843--2398910 Score: 55
Period size: 1 Copynumber: 68.0 Consensus size: 1
2398833 CTTTCTCTTC
** ** ** * * *
2398843 AAAAAAAAAGCAAAAAAAAAAAAAAAAGCAAAAAAAAAAAGCAAAAAAAAAAACAAAACAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2398908 AAA
1 AAA
2398911 GAGAGAAAAG
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.87, C:0.07, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:2398925 original size:31 final size:31
Alignment explanation
Indices: 2398843--2398910 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
2398833 CTTTCTCTTC
2398843 AAAAAAAAAGCAAAAAAAAAAAAAAAAGCAA
1 AAAAAAAAAGCAAAAAAAAAAAAAAAAGCAA
*
2398874 AAAAAAAAAGCAAAAAAAAAAACAAAA-CAA
1 AAAAAAAAAGCAAAAAAAAAAAAAAAAGCAA
*
2398904 AGAAAAA
1 AAAAAAA
2398911 GAGAGAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 9 0.26
31 26 0.74
ACGTcount: A:0.87, C:0.07, G:0.06, T:0.00
Consensus pattern (31 bp):
AAAAAAAAAGCAAAAAAAAAAAAAAAAGCAA
Found at i:2400174 original size:55 final size:55
Alignment explanation
Indices: 2399923--2400654 Score: 787
Period size: 55 Copynumber: 12.9 Consensus size: 55
2399913 ATGCCTTTTT
* * *
2399923 CTTTTAAAGCCTACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGATGCCTTTT
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--CC---C
* * *
2399982 CTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGATGCCTTTT
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--CC---C
* * * *
2400041 CTTTTAAAGCCCACCCGAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGATGCTTTTTC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----CC
* * *
2400101 TTTTCAAAGCCCACACAAGTTGGTGGTACCTTTCAGTCCTCAAATAGCAGGACCC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACCC
* * *
2400156 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCGAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACCC
* * * *
2400211 CTTTCAAAGCCCACACAAGTTAGTGGCA-TTTTCCAATCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACCC
* *
2400266 CTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC-CC
* * * * *
2400321 TTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACC-TTCATTCCTCAAAGAGCAGGATGCTTTTTC
1 ----CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----CC
* * *
2400385 TTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACCC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACCC
* * *
2400440 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCGAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACCC
* *
2400495 CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACCC
*
2400550 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACCC
* * *
2400605 CTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAG
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAG
2400655 AATACCCTTT
Statistics
Matches: 594, Mismatches: 57, Indels: 48
0.85 0.08 0.07
Matches are distributed among these distances:
54 26 0.04
55 315 0.53
56 5 0.01
59 157 0.26
60 51 0.09
61 39 0.07
64 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (55 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACCC
Found at i:2400492 original size:284 final size:284
Alignment explanation
Indices: 2399982--2400654 Score: 1176
Period size: 284 Copynumber: 2.4 Consensus size: 284
2399972 GATGCCTTTT
*
2399982 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTA
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTA
2400047 AAGCCCACCCGAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCC
66 AAGCCCACCCGAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCC
* * *
2400112 CACACAAGTTGGTGGTACCTTTCAGTCCTCAAATAGCAGGACCCCTTTCAAAGCCCACACAAGTT
131 CACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTT
2400177 GGTGGCACCTTTCAGTCCCCGAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCATTT
196 GGTGGCACCTTTCAGTCCCCGAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCATTT
2400242 TCCAATCCTCAAAGAGCAGGACAC
261 TCCAATCCTCAAAGAGCAGGACAC
2400266 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTA
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTA
*
2400331 AAGCCCACCCGAGTTGGTGGCACCTTCATTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCC
66 AAGCCCACCCGAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCC
*
2400396 CACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTT
131 CACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTT
*
2400461 GGTGGCACCTTTCAGTCCCCGAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTT
196 GGTGGCACCTTTCAGTCCCCGAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCATTT
*
2400526 TCCAGTCCTCAAAGAGCAGGACAC
261 TCCAATCCTCAAAGAGCAGGACAC
* *
2400550 CTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC-TTTC----
1 CTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTT
* * *
2400610 AAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAG
65 AAAGCCCACCCGAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAG
2400655 AATACCCTTT
Statistics
Matches: 373, Mismatches: 14, Indels: 7
0.95 0.04 0.02
Matches are distributed among these distances:
280 23 0.06
281 17 0.05
284 309 0.83
285 24 0.06
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (284 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTA
AAGCCCACCCGAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCC
CACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTT
GGTGGCACCTTTCAGTCCCCGAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTAGTGGCATTT
TCCAATCCTCAAAGAGCAGGACAC
Found at i:2401425 original size:21 final size:21
Alignment explanation
Indices: 2401399--2401475 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
2401389 AAAAAAATCA
2401399 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
* *
2401420 AATGTATCAATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
2401441 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
2401462 AATGTATCGATACA
1 AATGTATCGATACA
2401476 GGGGTCCCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 3 0.06
21 46 0.94
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:2401536 original size:19 final size:19
Alignment explanation
Indices: 2401512--2401566 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
2401502 AATTCAACAA
2401512 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2401531 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2401550 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2401567 TTAGCTAGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Done.