Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 175 of 221
Found at i:52258128 original size:89 final size:89
Alignment explanation
Indices: 52257962--52258168 Score: 250
Period size: 89 Copynumber: 2.4 Consensus size: 89
52257952 TCATGGCCTT
* * *
52257962 TAGCGGCGCTTTTACCAAAAACGCCGC-AATAGACCC--TGATC--TATAGCGGCGCTTATCCAG
1 TAGCGGCGCTTATACCAAAAACGCCGCTAA-ATACCCTTTG-TCTATATAGCGGCGCTTAGCCAG
*
52258022 AAAACGCCGCAATAGACCCTGATCTA
64 AAAACGCCGCAATAGACCCTAATCTA
* *
52258048 TAGCGGCGCTTAT-CCAGAAAACGCTGCTAAATACCCTTTGTCTATATAGCGGCGCTTCGCGCA-
1 TAGCGGCGCTTATACCA-AAAACGCCGCTAAATACCCTTTGTCTATATAGCGGCGCTTAGC-CAG
52258111 AAAACGCCGCTAA-AGACCCTAATCTA
64 AAAACGCCGC-AATAGACCCTAATCTA
*
52258137 TAGCGGCGCTTTTACCAAAAACGCCGCTAAAT
1 TAGCGGCGCTTATACCAAAAACGCCGCTAAAT
52258169 TTGGCAGATT
Statistics
Matches: 104, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
85 3 0.03
86 26 0.25
87 4 0.04
88 2 0.02
89 62 0.60
90 7 0.07
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (89 bp):
TAGCGGCGCTTATACCAAAAACGCCGCTAAATACCCTTTGTCTATATAGCGGCGCTTAGCCAGAA
AACGCCGCAATAGACCCTAATCTA
Found at i:52258164 original size:43 final size:42
Alignment explanation
Indices: 52257962--52258167 Score: 229
Period size: 43 Copynumber: 4.7 Consensus size: 42
52257952 TCATGGCCTT
52257962 TAGCGGCGCTTTTACCAAAAACGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTT-CCAAAAACGCCGCTAA-AGACCCTGATCTA
*
52258005 TAGCGGCGCTTATCCAGAAAACGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTTCCA-AAAACGCCGCTAA-AGACCCTGATCTA
* * *
52258048 TAGCGGCGCTTATCCAGAAAACGCTGCTAAATACCCTTTG-TCTATA
1 TAGCGGCGCTTTTCCA-AAAACGCCGCTAAAGACCC--TGATC--TA
** *
52258094 TAGCGGCGCTTCGCGCAAAAACGCCGCTAAAGACCCTAATCTA
1 TAGCGGCGCTTTTC-CAAAAACGCCGCTAAAGACCCTGATCTA
52258137 TAGCGGCGCTTTTACCAAAAACGCCGCTAAA
1 TAGCGGCGCTTTT-CCAAAAACGCCGCTAAA
52258168 TTTGGCAGAT
Statistics
Matches: 144, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
42 3 0.02
43 98 0.68
44 6 0.04
45 4 0.03
46 31 0.22
47 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (42 bp):
TAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCTGATCTA
Found at i:52258501 original size:21 final size:21
Alignment explanation
Indices: 52258472--52258583 Score: 107
Period size: 21 Copynumber: 5.3 Consensus size: 21
52258462 TTTGACGCTG
*
52258472 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCTCTCGCTGCAGC
* **
52258493 CTTTGCTTCTCTCGCTTTAGC
1 CTCTGCTTCTCTCGCTGCAGC
**
52258514 CTCTGCTTCTCTTACTGCAGC
1 CTCTGCTTCTCTCGCTGCAGC
* * * *
52258535 CTGTTCTTCTCTCACTGCCGC
1 CTCTGCTTCTCTCGCTGCAGC
* *
52258556 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCTCTCGCTGCAGC
*
52258577 ATCTGCT
1 CTCTGCT
52258584 CTAAGCTGCT
Statistics
Matches: 73, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 73 1.00
ACGTcount: A:0.05, C:0.40, G:0.16, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCTCTCGCTGCAGC
Found at i:52258558 original size:42 final size:42
Alignment explanation
Indices: 52258472--52258573 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 42
52258462 TTTGACGCTG
* * * **
52258472 CTCTGCTTCCCTCGCTGCAGCCTTTGCTTCTCTCGCTTTAGC
1 CTCTGCTTCTCTTGCTGCAGCCTTTGCTTCTCTCACTGCAGC
* *
52258514 CTCTGCTTCTCTTACTGCAGCCTGTT-CTTCTCTCACTGCCGC
1 CTCTGCTTCTCTTGCTGCAGCCT-TTGCTTCTCTCACTGCAGC
52258556 CTCTGCTTCTCTTGCTGC
1 CTCTGCTTCTCTTGCTGC
52258574 CGCATCTGCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 49 0.96
43 2 0.04
ACGTcount: A:0.05, C:0.40, G:0.16, T:0.39
Consensus pattern (42 bp):
CTCTGCTTCTCTTGCTGCAGCCTTTGCTTCTCTCACTGCAGC
Found at i:52258639 original size:66 final size:66
Alignment explanation
Indices: 52258555--52258701 Score: 199
Period size: 66 Copynumber: 2.2 Consensus size: 66
52258545 CTCACTGCCG
* *
52258555 CCTCTGCTTCTCTTGCTGCCGCATCTGCTCTAAGCTGCT-GCTAGAGTTCTTCATA-CTTTTGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTG-TAGCTAGAGTTCTTCATATCTTTT-TT
52258618 GAA
64 GAA
* * * *
52258621 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTAGAGTTCTTCATATCTTTTTTGA
52258686 A
66 A
*
52258687 CATCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
52258702 ATGTTGCCTC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 66 0.92
67 5 0.07
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTAGAGTTCTTCATATCTTTTTTGA
A
Found at i:52258717 original size:66 final size:66
Alignment explanation
Indices: 52258598--52258724 Score: 193
Period size: 66 Copynumber: 1.9 Consensus size: 66
52258588 GCTGCTGCTA
* * *
52258598 GAGTTCTTCATACTTTTGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCT
1 GAGTTCTTCATACTTTTGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCT
52258663 G
66 G
* *
52258664 GAGTTCTTCATATCTTTT-TTGAACATCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 GAGTTCTTCATA-CTTTTGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
52258725 GTAATTTGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 50 0.91
67 5 0.09
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.43
Consensus pattern (66 bp):
GAGTTCTTCATACTTTTGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCT
G
Found at i:52264101 original size:16 final size:16
Alignment explanation
Indices: 52264080--52264113 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
52264070 ATAGTTAAGC
52264080 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
52264096 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
52264112 TA
1 TA
52264114 CCCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:52264145 original size:25 final size:25
Alignment explanation
Indices: 52264094--52264149 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
52264084 TAAGTTATGT
* *
52264094 ATTATGTAAGTTATTTATTACCCAA
1 ATTATGTAAGTTATGTATTACCAAA
* **
52264119 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTACCAAA
52264144 ATTATG
1 ATTATG
52264150 CTATGTAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTACCAAA
Found at i:52264163 original size:9 final size:9
Alignment explanation
Indices: 52264151--52264348 Score: 60
Period size: 9 Copynumber: 22.7 Consensus size: 9
52264141 AAAATTATGC
52264151 TATGTAAGT
1 TATGTAAGT
52264160 TATGTAAGT
1 TATGTAAGT
* **
52264169 CACATAAGT
1 TATGTAAGT
52264178 TATGTAAG-
1 TATGTAAGT
* * *
52264186 -AAGTTATT
1 TATGTAAGT
52264194 TATGTAAGT
1 TATGTAAGT
*
52264203 TAT-TTA-T
1 TATGTAAGT
* *
52264210 TATGAAAAT
1 TATGTAAGT
*
52264219 TAAGTAAGT
1 TATGTAAGT
*
52264228 TATGTAATT
1 TATGTAAGT
*
52264237 TACG-AA-T
1 TATGTAAGT
* **
52264244 AAT-TAAAAA
1 TATGT-AAGT
52264253 TATGTAAGT
1 TATGTAAGT
52264262 TATGTAAG-
1 TATGTAAGT
52264270 T-TGTAAGT
1 TATGTAAGT
*
52264278 TATGTATA-A
1 TATGTA-AGT
52264287 TAT-TAA-T
1 TATGTAAGT
**
52264294 TAACTAAGT
1 TATGTAAGT
* *
52264303 TATGTCATT
1 TATGTAAGT
*
52264312 TATGTATCATAT
1 TATGTA--A-GT
52264324 TAATGTAAGT
1 T-ATGTAAGT
*
52264334 TATGTAATT
1 TATGTAAGT
52264343 TATGTA
1 TATGTA
52264349 TATTAACTAA
Statistics
Matches: 134, Mismatches: 38, Indels: 34
0.65 0.18 0.17
Matches are distributed among these distances:
7 19 0.14
8 14 0.10
9 88 0.66
10 4 0.03
11 2 0.01
12 2 0.01
13 5 0.04
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (9 bp):
TATGTAAGT
Found at i:52264231 original size:34 final size:34
Alignment explanation
Indices: 52264193--52264271 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
52264183 AAGAAGTTAT
*** * *
52264193 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
* * *
52264227 TTATGTAATTTACGAATAATTAAAAATATGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
52264261 TTATGTAAGTT
1 TTATGTAAGTT
52264272 GTAAGTTATG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (34 bp):
TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
Found at i:52264315 original size:34 final size:34
Alignment explanation
Indices: 52264271--52264423 Score: 183
Period size: 34 Copynumber: 4.7 Consensus size: 34
52264261 TTATGTAAGT
* *
52264271 TGTAAGTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* * *
52264305 TGTCATTTATGTATCATATTAA-T--GTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
52264336 TGTAATTTATG--T-ATATTAACTAATTAATTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
*
52264367 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
*
52264401 TGTCATTTATGTATAATATTAAT
1 TGTAATTTATGTATAATATTAAT
52264424 GTAAATTATG
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
28 7 0.07
29 2 0.02
31 33 0.33
33 2 0.02
34 57 0.56
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.48
Consensus pattern (34 bp):
TGTAATTTATGTATAATATTAATTAATTAAGTTA
Found at i:52264336 original size:31 final size:31
Alignment explanation
Indices: 52264277--52264490 Score: 199
Period size: 31 Copynumber: 6.9 Consensus size: 31
52264267 AAGTTGTAAG
*
52264277 TTATGTATAATATTAATTAACTAAGTTATGTCAT
1 TTATGTATAATATTAA-T--GTAAGTTATGTCAT
* *
52264311 TTATGTATCATATTAATGTAAGTTATGTAAT
1 TTATGTATAATATTAATGTAAGTTATGTCAT
* * * * *
52264342 TTATGTATATTAACTAAT-TAATTTATGTAAG
1 TTATGTATAAT-ATTAATGTAAGTTATGTCAT
*
52264373 TTATGTATAATATTAATTAATTAAGTTATGTCAT
1 TTATGTATAATATTAA-T--GTAAGTTATGTCAT
*
52264407 TTATGTATAATATTAATGTAAATTATGT-A-
1 TTATGTATAATATTAATGTAAGTTATGTCAT
* *
52264436 -TA-ATATTA-ATTAAT-TAAGTTATGTCAT
1 TTATGTATAATATTAATGTAAGTTATGTCAT
*
52264463 CTATGTATAATATTAATGTAAGTTATGT
1 TTATGTATAATATTAATGTAAGTTATGT
52264491 ATAATATTAA
Statistics
Matches: 149, Mismatches: 20, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
25 9 0.06
26 7 0.05
27 4 0.03
28 4 0.03
29 4 0.03
30 11 0.07
31 62 0.42
32 5 0.03
33 2 0.01
34 41 0.28
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.48
Consensus pattern (31 bp):
TTATGTATAATATTAATGTAAGTTATGTCAT
Found at i:52264427 original size:56 final size:56
Alignment explanation
Indices: 52264366--52264516 Score: 284
Period size: 56 Copynumber: 2.7 Consensus size: 56
52264356 TAATTAATTT
*
52264366 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
*
52264422 ATGTAAATTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
52264478 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTC
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTC
52264517 CCTTACAATA
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 92 1.00
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.47
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
Found at i:52264640 original size:24 final size:24
Alignment explanation
Indices: 52264608--52264660 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
52264598 AGTATTTTAT
52264608 AATATAATATTAATTTTAGATACA
1 AATATAATATTAATTTTAGATACA
*
52264632 AATATAATATTAATTTTAGTTACA
1 AATATAATATTAATTTTAGATACA
52264656 AATAT
1 AATAT
52264661 TACACAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
AATATAATATTAATTTTAGATACA
Found at i:52266150 original size:17 final size:17
Alignment explanation
Indices: 52266130--52266167 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
52266120 TTAAAGTTCA
52266130 CAAGGAAGTAAAGGCTG
1 CAAGGAAGTAAAGGCTG
*
52266147 CAAGGAAGTAGAGGCTG
1 CAAGGAAGTAAAGGCTG
52266164 CAAG
1 CAAG
52266168 TTCCTGGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.13, G:0.37, T:0.11
Consensus pattern (17 bp):
CAAGGAAGTAAAGGCTG
Found at i:52266455 original size:33 final size:33
Alignment explanation
Indices: 52266408--52266481 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
52266398 ATATACATAT
*
52266408 ATTCATACCTAACACTAATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
*
52266441 ATTCATACCCAACACTCATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
52266474 ATATCATA
1 AT-TCATA
52266482 GATGGCAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 33 0.87
34 5 0.13
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.32
Consensus pattern (33 bp):
ATTCATACCCAACACTAATCTCATTTAACTCGA
Found at i:52266716 original size:14 final size:15
Alignment explanation
Indices: 52266697--52266735 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
52266687 AATTGGGAAA
52266697 TTGGGGAAAAT-ACT
1 TTGGGGAAAATAACT
52266711 TTGGGGAAGAATAACT
1 TTGGGGAA-AATAACT
*
52266727 TGGGGGAAA
1 TTGGGGAAA
52266736 TTGGGGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 4 0.18
16 10 0.45
ACGTcount: A:0.36, C:0.05, G:0.36, T:0.23
Consensus pattern (15 bp):
TTGGGGAAAATAACT
Found at i:52266740 original size:25 final size:22
Alignment explanation
Indices: 52266711--52266767 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
52266701 GGAAAATACT
*
52266711 TTGGGGAAGAATAACTTGGGGGAAA
1 TTGGGGAA-AAGAACTT--GGGAAA
*
52266736 TTGGGGGAAAAGAAGTTGGGAAA
1 TT-GGGGAAAAGAACTTGGGAAA
52266759 TTGGGGAAA
1 TTGGGGAAA
52266768 TGAAATCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 7 0.24
23 8 0.28
25 8 0.28
26 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.42, T:0.19
Consensus pattern (22 bp):
TTGGGGAAAAGAACTTGGGAAA
Found at i:52266780 original size:23 final size:23
Alignment explanation
Indices: 52266730--52266783 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
52266720 AATAACTTGG
* *
52266730 GGGAAATTGGGGGAAAAGAAGTT
1 GGGAAATTGGGGGAAAAGAAATC
*
52266753 GGGAAATT-GGGGAAATGAAATC
1 GGGAAATTGGGGGAAAAGAAATC
52266775 GTGGAAATT
1 G-GGAAATT
52266784 TGACTTGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.39, C:0.02, G:0.39, T:0.20
Consensus pattern (23 bp):
GGGAAATTGGGGGAAAAGAAATC
Found at i:52268904 original size:41 final size:41
Alignment explanation
Indices: 52268859--52269086 Score: 150
Period size: 42 Copynumber: 5.5 Consensus size: 41
52268849 ATACATTCGT
* * * * *
52268859 GGCGCTTAGATACAAACGCCACTGAATACAGGAGAATTAGC
1 GGCGCATAGATAAAAACGCCACTAAAGACACGAGAATTAGC
* * *
52268900 GGCGCATATATAAAAACGCCACTAAAGACCCGAGCATTAGC
1 GGCGCATAGATAAAAACGCCACTAAAGACACGAGAATTAGC
*** * ** * *
52268941 GGCGCATAGGCGAAAACGCCGCTGTAGACACAGAGCATTATC
1 GGCGCATAGATAAAAACGCCACTAAAGACAC-GAGAATTAGC
* ** * * *
52268983 GGCGCTTAGACGAAAACGCCGCTAAAGACTCGGAGCATTAGC
1 GGCGCATAGATAAAAACGCCACTAAAGACAC-GAGAATTAGC
* * * * * *
52269025 GGCGCTTAGATGAAAGCGCCGCTAAAGACTCGGAGCATTAGC
1 GGCGCATAGATAAAAACGCCACTAAAGACAC-GAGAATTAGC
* * *
52269067 GGCGCTTATATGAAAACGCC
1 GGCGCATAGATAAAAACGCC
52269087 GCTATATACG
Statistics
Matches: 158, Mismatches: 28, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 56 0.35
42 102 0.65
ACGTcount: A:0.33, C:0.25, G:0.26, T:0.16
Consensus pattern (41 bp):
GGCGCATAGATAAAAACGCCACTAAAGACACGAGAATTAGC
Found at i:52268997 original size:42 final size:42
Alignment explanation
Indices: 52268889--52269090 Score: 235
Period size: 42 Copynumber: 4.8 Consensus size: 42
52268879 ACTGAATACA
* * * ** *
52268889 GGAGAATTAGCGGCGCATATATAAAAACGCCACTAAAGAC-C
1 GGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTC
* * * ** *
52268930 CGAGCATTAGCGGCGCATAGGCGAAAACGCCGCTGTAGACAC
1 GGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTC
* *
52268972 AGAGCATTATCGGCGCTTAGACGAAAACGCCGCTAAAGACTC
1 GGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTC
* *
52269014 GGAGCATTAGCGGCGCTTAGATGAAAGCGCCGCTAAAGACTC
1 GGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTC
* *
52269056 GGAGCATTAGCGGCGCTTATATGAAAACGCCGCTA
1 GGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTA
52269091 TATACGAAAA
Statistics
Matches: 138, Mismatches: 22, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
41 31 0.22
42 107 0.78
ACGTcount: A:0.32, C:0.25, G:0.27, T:0.16
Consensus pattern (42 bp):
GGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTC
Found at i:52269099 original size:18 final size:18
Alignment explanation
Indices: 52269069--52269110 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
52269059 GCATTAGCGG
*
52269069 CGCT-TATATGAAAACGC
1 CGCTATATACGAAAACGC
52269086 CGCTATATACGAAAACGC
1 CGCTATATACGAAAACGC
52269104 CGCTATA
1 CGCTATA
52269111 GACCCGAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (18 bp):
CGCTATATACGAAAACGC
Found at i:52269142 original size:59 final size:60
Alignment explanation
Indices: 52269036--52269149 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 60
52269026 GCGCTTAGAT
* * * **
52269036 GAAAGCGCCGCTAAAGACTCGGAGCATTAGCGGCGCTTATATGAAAACGCCGCTATATAC
1 GAAAACGCCGCTAAAGACTCCGAGCATTAGCGGCGCTTAGACAAAAACGCCGCTATATAC
*
52269096 GAAAACGCCGCTATAGAC-CCGAGCATTAGCGGCGCTTAGACAAAAACGCCGCTA
1 GAAAACGCCGCTAAAGACTCCGAGCATTAGCGGCGCTTAGACAAAAACGCCGCTA
52269150 AATGTTTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 32 0.67
60 16 0.33
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (60 bp):
GAAAACGCCGCTAAAGACTCCGAGCATTAGCGGCGCTTAGACAAAAACGCCGCTATATAC
Found at i:52270957 original size:70 final size:70
Alignment explanation
Indices: 52270820--52270960 Score: 196
Period size: 70 Copynumber: 2.0 Consensus size: 70
52270810 ATGTCATTTG
* *
52270820 ACTGATGATAGGTCTATCTCTTAGTTTTGAAATGCACTTTGAATCACCCAATTTCGAGTATGAGA
1 ACTGATGATAGGTCTATCTCTTAGTTTCGAAATGCACTTTGAATCACCCAATTTCGAGTACGAGA
52270885 GCTCA
66 GCTCA
* * * *
52270890 ACTGATGATAGAG-CTATCTCTTA-TATTCGAAATGCGCTTTGAATCACCCAATTTCGTGTCCGG
1 ACTGATGATAG-GTCTATCTCTTAGT-TTCGAAATGCACTTTGAATCACCCAATTTCGAGTACGA
52270953 GAGCTCA
64 GAGCTCA
52270960 A
1 A
52270961 GTTATGGTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
69 1 0.02
70 61 0.97
71 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (70 bp):
ACTGATGATAGGTCTATCTCTTAGTTTCGAAATGCACTTTGAATCACCCAATTTCGAGTACGAGA
GCTCA
Found at i:52271360 original size:16 final size:16
Alignment explanation
Indices: 52271339--52271369 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52271329 TTTTTGATTT
52271339 AATACAACTATTTGTC
1 AATACAACTATTTGTC
*
52271355 AATACAACTCTTTGT
1 AATACAACTATTTGT
52271370 GTTTTCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (16 bp):
AATACAACTATTTGTC
Found at i:52275330 original size:62 final size:62
Alignment explanation
Indices: 52275233--52275358 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 62
52275223 CTCCCATTTT
* * * *
52275233 CACTCCCATTATCCCATTTTCATGCCTTTGTCCCCTTGTAAAAACCCGATTTTTAGTGGTGA
1 CACTCACATTATCCCATTTCCATGCCTTTGTCCCCTTATAAAAACCCAATTTTTAGTGGTGA
* *
52275295 CACTCACATTATCCCATTTCCATGCCTTTGTCCCCTTATAACAACCTAATTTTTAGTGGTGA
1 CACTCACATTATCCCATTTCCATGCCTTTGTCCCCTTATAAAAACCCAATTTTTAGTGGTGA
52275357 CA
1 CA
52275359 GAACAGTGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.37
Consensus pattern (62 bp):
CACTCACATTATCCCATTTCCATGCCTTTGTCCCCTTATAAAAACCCAATTTTTAGTGGTGA
Found at i:52276723 original size:36 final size:36
Alignment explanation
Indices: 52276676--52276751 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
52276666 TGTTATTGGG
* * *
52276676 TGGACTGGCTCTTATGAGCATTTGGTGTGTTTCAGT
1 TGGACTAGCTCTTATGAGCATATGGTGTGTTTCAAT
52276712 TGGACTAGCTCTTATGAGCATATGGTGTGTTTCAAT
1 TGGACTAGCTCTTATGAGCATATGGTGTGTTTCAAT
52276748 TGGA
1 TGGA
52276752 ATATCGATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.18, C:0.13, G:0.29, T:0.39
Consensus pattern (36 bp):
TGGACTAGCTCTTATGAGCATATGGTGTGTTTCAAT
Found at i:52278112 original size:30 final size:30
Alignment explanation
Indices: 52278048--52278127 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 30
52278038 TTACAATATT
* **
52278048 AATAATAATAGTAAATAATAACAAACAAGT
1 AATAATAATAGTAAATAACAACAAACAAAA
*
52278078 AATAAT-ATAGTATAATAACAACAAATAAAA
1 AATAATAATAGTA-AATAACAACAAACAAAA
52278108 AATAATTAAATAGTGAAATA
1 AATAA-T-AATAGT-AAATA
52278128 GTTTAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
29 6 0.15
30 24 0.59
31 1 0.02
33 9 0.22
34 1 0.02
ACGTcount: A:0.64, C:0.05, G:0.06, T:0.25
Consensus pattern (30 bp):
AATAATAATAGTAAATAACAACAAACAAAA
Found at i:52279335 original size:3 final size:3
Alignment explanation
Indices: 52279327--52279371 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
52279317 CATGGCATTG
52279327 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
52279372 AAGGGAGAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:52284813 original size:17 final size:15
Alignment explanation
Indices: 52284778--52284826 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
52284768 TCTTTCGTAC
*
52284778 ATTTGTTTATTGATA
1 ATTTTTTTATTGATA
52284793 ATTTTTTTATTGAGTTA
1 ATTTTTTTATTGA--TA
*
52284810 ATTTTTTT-TAGATA
1 ATTTTTTTATTGATA
52284824 ATT
1 ATT
52284827 ACGCATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 5 0.17
15 12 0.40
16 3 0.10
17 10 0.33
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (15 bp):
ATTTTTTTATTGATA
Found at i:52286293 original size:26 final size:26
Alignment explanation
Indices: 52286263--52286332 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 26
52286253 ATGCATATTT
52286263 AATTATTTATATTTAGTCA-TATAATA
1 AATTATTTATATTTA-TCATTATAATA
* *
52286289 AATTATTAATATAATTTATTATTTTAATA
1 AATTATT--TAT-ATTTATCATTATAATA
52286318 AATTATTTAATATTT
1 AATTATTT-ATATTT
52286333 TAATTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
26 7 0.19
27 5 0.14
28 7 0.19
29 18 0.49
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (26 bp):
AATTATTTATATTTATCATTATAATA
Found at i:52286302 original size:16 final size:16
Alignment explanation
Indices: 52286281--52286330 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
52286271 ATATTTAGTC
52286281 ATATAATAAATTATTA
1 ATATAATAAATTATTA
52286297 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
52286310 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
52286327 ATAT
1 ATAT
52286331 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:52286306 original size:29 final size:30
Alignment explanation
Indices: 52286273--52286330 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
52286263 AATTATTTAT
52286273 ATTTAGTCA-TATAATAAATTA-TTAATATA
1 ATTTA-TCATTATAATAAATTATTTAATATA
* *
52286302 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
52286331 TTTAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:52286420 original size:15 final size:15
Alignment explanation
Indices: 52286400--52286456 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
52286390 ATTCAATATT
52286400 AATATTTTAATAATA
1 AATATTTTAATAATA
* *
52286415 AATATTTATTACAATTATG
1 AATA-TT-TT--AATAATA
*
52286434 AATATATTAATAATA
1 AATATTTTAATAATA
52286449 AATATTTT
1 AATATTTT
52286457 GTAGTATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 16 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 9 0.28
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:52296872 original size:31 final size:29
Alignment explanation
Indices: 52296837--52296908 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
52296827 AACGGCTCAA
*
52296837 TGACTAAAATGTTACAATATGTT-AATGTAAG
1 TGACTAAAATGTTA-AA-AT-TTAAATATAAG
*
52296868 TGACTAAAACG-TAAAATTTCAAATATAAG
1 TGACTAAAATGTTAAAATTT-AAATATAAG
52296897 TGACTAAAATGT
1 TGACTAAAATGT
52296909 AACCTGAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
27 2 0.06
28 2 0.06
29 19 0.54
30 2 0.06
31 10 0.29
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (29 bp):
TGACTAAAATGTTAAAATTTAAATATAAG
Found at i:52297014 original size:23 final size:21
Alignment explanation
Indices: 52296984--52297027 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
52296974 TATATTCTTT
*
52296984 GTTATATTCTATCCTTATGTTA
1 GTTATATTATATCCTT-TGTTA
*
52297006 GTTAGTATTATATTCTTTGTTA
1 GTTA-TATTATATCCTTTGTTA
52297028 ATTTTAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.57
Consensus pattern (21 bp):
GTTATATTATATCCTTTGTTA
Found at i:52297472 original size:30 final size:30
Alignment explanation
Indices: 52297437--52297495 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
52297427 TATTTTATTG
52297437 TTAATTTTGTTATTATTTTAAAGACATTTA
1 TTAATTTTGTTATTATTTTAAAGACATTTA
*
52297467 TTAATTTTGTTATTATTTTAGAGACATTT
1 TTAATTTTGTTATTATTTTAAAGACATTT
52297496 GCTTGTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTA
Found at i:52307788 original size:185 final size:184
Alignment explanation
Indices: 52307462--52307823 Score: 462
Period size: 185 Copynumber: 2.0 Consensus size: 184
52307452 CCGCAAAATC
* * * *
52307462 TCTTAACCAAAACGCAACGTTTTCGTCTTGATGTATACTAGAATTAGTGGTGATTATGGGAAAAC
1 TCTTAACCAAAACGCAAAGTTTTCGTCTTGAGGTATACTAGAATTAGTGGCGATTATGAGAAAAC
* ** * *
52307527 GCCGCTAAATTGTATTAGCGGCATTTTGCGATAAGCGCCGCAAAATATCTTAACCAAAACGCATC
66 GCCGCAAAACAGTATTAGCGGCATTTTGCGATAAGCGCCACAAAATATCTGAACCAAAACGCATC
* *
52307592 GTTTCGGTCTTGATGTATCCTAAAATTAGTGATGCTTACGGGGAAACACCGTTA
131 GTTTCGGTCTTGATGTATACTAAAATTAGTGACGCTTACGGGGAAACACCGTTA
* ** *
52307646 TCTTAACCAAAACGCAAAG-TTTGGTCTTGAGGTATGTTAGAATTAGTGGCGTTTATGAGAAAAC
1 TCTTAACCAAAACGCAAAGTTTTCGTCTTGAGGTATACTAGAATTAGTGGCGATTATGAGAAAAC
* *
52307710 GCCGCAAAAGGACAGTATTAGAGGCGCTTTTTG-GA-AA-CGCCACAAAATATCTGAACCAAAAC
66 GCCGC-AAA--ACAGTATTAG-CG-GCATTTTGCGATAAGCGCCACAAAATATCTGAACCAAAAC
* * * *
52307772 GCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGTGAAAC
126 GCATCGTTTCGGTCTTGATGTATACTAAAATTAGTGACGCTTACGGGGAAAC
52307824 GCCGCTAAAA
Statistics
Matches: 152, Mismatches: 21, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
183 43 0.28
184 20 0.13
185 69 0.45
186 10 0.07
187 3 0.02
188 7 0.05
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (184 bp):
TCTTAACCAAAACGCAAAGTTTTCGTCTTGAGGTATACTAGAATTAGTGGCGATTATGAGAAAAC
GCCGCAAAACAGTATTAGCGGCATTTTGCGATAAGCGCCACAAAATATCTGAACCAAAACGCATC
GTTTCGGTCTTGATGTATACTAAAATTAGTGACGCTTACGGGGAAACACCGTTA
Found at i:52307843 original size:114 final size:112
Alignment explanation
Indices: 52307644--52308155 Score: 595
Period size: 114 Copynumber: 4.5 Consensus size: 112
52307634 GAAACACCGT
* * ** * * *
52307644 TATCTTAACCAAAACGCAAAG-TTTGGTCTTGAGGTATGTTAGAATTAGTGGCGTTTATGAGAAA
1 TATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACG-GGAA
* * * *
52307708 ACGCCGC-AAAAGGACAGTATTAGAGGCGCTTTTTGGAAACGCCACAAAA
65 ACGCCGCTAAAA--ATAGTATTAGCGGCGCTTTGTGGAAACGCCGCAAAA
* **
52307757 TATCTGAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGTGAA
1 TATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGG-GAA
* * * *
52307822 ACGCCGCTAAAATATAGTATTAGCGGCGATTCGTGGCTAGCGCCGCAAAA
65 ACGCCGCTAAAA-ATAGTATTAGCGGCGCTTTGTGG-AAACGCCGCAAAA
* * *
52307872 TATCTTAACCAAAATGCAGCGTTTTGGTCTTGATGTATA-TAAAATTAGTGGCGCTTACGGGAAA
1 TATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAA
* * *
52307936 CCGCCGCGAAAGAATAGTAATAGCGGCGCTTTGTGAGAAGCGCCGCAAAA
66 -CGCCGCTAAA-AATAGTATTAGCGGCGCTTTGTG-GAAACGCCGCAAAA
*
52307986 TATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAA
1 TATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAA
* * *
52308051 CGCCGTTAAAGCATAGTATTAGCGGCGCTTTGCT-AAAAGCGCCGCAAAA
66 CGCCGCTAAA-AATAGTATTAGCGGCGCTTTG-TGGAAA-CGCCGCAAAA
* *
52308100 TATCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTAT-GTAAGAATTAGTGGCGCTT
1 TATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATACT-AGAATTAGTGGCGCTT
52308156 TTTGTAAGCC
Statistics
Matches: 348, Mismatches: 40, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
112 1 0.00
113 56 0.16
114 214 0.61
115 77 0.22
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (112 bp):
TATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAA
CGCCGCTAAAAATAGTATTAGCGGCGCTTTGTGGAAACGCCGCAAAA
Found at i:52308098 original size:228 final size:226
Alignment explanation
Indices: 52307644--52308155 Score: 706
Period size: 228 Copynumber: 2.2 Consensus size: 226
52307634 GAAACACCGT
* * * * *
52307644 TATCTTAACCAAAACGCAAAGTTTGGTCTTGAGGTATGTTAGAATTAGTGGCGTTTATGAGAAAA
1 TATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTAT-ATAAAATTAGTGGCGCTTACGAGAAAA
* * *
52307709 CGCCGCAAAAGGACAGTATTAGAGGCGCTTTTTGGAAACGCCACAAAATATCTGAACCAAAACGC
65 CGCCGCAAAAGAACAGTAATAGAGGCGCTTTGTGGAAACGCCACAAAATATCTGAACCAAAACGC
* *
52307774 ATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGTGAAACGCCGCTAAAATATAG
130 ATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGTGAAACGCCGCTAAAACATAG
52307839 TATTAGCGGCGATTCGTGGCTAGCGCCGCAAAA
195 TATTAGCGGCGATTC-TGGCTAGCGCCGCAAAA
* * * * *
52307872 TATCTTAACCAAAATGCAGCGTTTTGGTCTTGATGTATATAAAATTAGTGGCGCTTACGGGAAAC
1 TATCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATATAAAATTAGTGGCGCTTACGAGAAAA
* * * * * *
52307937 CGCCGCGAAAGAATAGTAATAGCGGCGCTTTGTGAGAAGCGCCGCAAAATATCTTAACCAAAACG
65 CGCCGCAAAAGAACAGTAATAGAGGCGCTTTGTG-GAAACGCCACAAAATATCTGAACCAAAACG
* *
52308002 CATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGG-GAAACGCCGTTAAAGCATA
129 CATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGTGAAACGCCGCTAAAACATA
*
52308066 GTATTAGCGGCGCTT-T-GCTAAAAGCGCCGCAAAA
194 GTATTAGCGGCGATTCTGGCT---AGCGCCGCAAAA
*
52308100 TATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATGTAAGAATTAGTGGCGCTT
1 TATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATAA-AATTAGTGGCGCTT
52308156 TTTGTAAGCC
Statistics
Matches: 250, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
225 3 0.01
226 1 0.00
227 18 0.07
228 142 0.57
229 86 0.34
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (226 bp):
TATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATAAAATTAGTGGCGCTTACGAGAAAAC
GCCGCAAAAGAACAGTAATAGAGGCGCTTTGTGGAAACGCCACAAAATATCTGAACCAAAACGCA
TAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGTGAAACGCCGCTAAAACATAGT
ATTAGCGGCGATTCTGGCTAGCGCCGCAAAA
Found at i:52308223 original size:75 final size:74
Alignment explanation
Indices: 52308087--52308230 Score: 184
Period size: 74 Copynumber: 1.9 Consensus size: 74
52308077 GCTTTGCTAA
* * *
52308087 AAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATGTAAGAATTAGTGGC
1 AAGCCCCGCAAAATATCTGAACCAAAACGCAGAGTTTGGTCTTGAGGTATCTAAGAATTAGTGGC
52308152 GCTTTTTGT
66 GCTTTTTGT
* * * *
52308161 AAGCCCCGTAAAATATCTGAACCAAAACGCA-ACGTTTTGGTCTTGATGTATACT-TGATTTAGT
1 AAGCCCCGCAAAATATCTGAACCAAAACGCAGA-G-TTTGGTCTTGAGGTAT-CTAAGAATTAGT
52308224 GGCGCTT
63 GGCGCTT
52308231 ACGATGAAAC
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
73 1 0.02
74 29 0.48
75 29 0.48
76 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (74 bp):
AAGCCCCGCAAAATATCTGAACCAAAACGCAGAGTTTGGTCTTGAGGTATCTAAGAATTAGTGGC
GCTTTTTGT
Found at i:52308689 original size:7 final size:7
Alignment explanation
Indices: 52308679--52308755 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
52308669 AGAGTTTTGA
52308679 GTTTAGG
1 GTTTAGG
*
52308686 GTTTATG
1 GTTTAGG
* *
52308693 ATGTA-G
1 GTTTAGG
*
52308699 GTTTTGG
1 GTTTAGG
*
52308706 TGTTTTGG
1 -GTTTAGG
52308714 GTTTAGG
1 GTTTAGG
*
52308721 GTTTAAG
1 GTTTAGG
*
52308728 GTTTAAG
1 GTTTAGG
*
52308735 GTTTAAG
1 GTTTAGG
*
52308742 GTTTGGG
1 GTTTAGG
52308749 GTTTAGG
1 GTTTAGG
52308756 CTGCTTTAGT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
6 3 0.05
7 47 0.82
8 7 0.12
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.47
Consensus pattern (7 bp):
GTTTAGG
Found at i:52308730 original size:14 final size:14
Alignment explanation
Indices: 52308713--52308753 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
52308703 TGGTGTTTTG
52308713 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
*
52308727 GGTTTAAGGTTTAA
1 GGTTTAGGGTTTAA
*
52308741 GGTTTGGGGTTTA
1 GGTTTAGGGTTTA
52308754 GGCTGCTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.44
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:52310585 original size:15 final size:15
Alignment explanation
Indices: 52310565--52310593 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52310555 TTCTTATACT
52310565 GCATTAAGTTGTTTC
1 GCATTAAGTTGTTTC
52310580 GCATTAAGTTGTTT
1 GCATTAAGTTGTTT
52310594 TGATTGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (15 bp):
GCATTAAGTTGTTTC
Found at i:52310944 original size:12 final size:13
Alignment explanation
Indices: 52310921--52310949 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
52310911 CATGCTGTTT
52310921 TTTTTAACATATA
1 TTTTTAACATATA
52310934 TTTTTAA-ATATA
1 TTTTTAACATATA
52310946 TTTT
1 TTTT
52310950 ACATGACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTTAACATATA
Found at i:52311011 original size:13 final size:13
Alignment explanation
Indices: 52310993--52311082 Score: 74
Period size: 13 Copynumber: 6.8 Consensus size: 13
52310983 TTACTAAAAT
*
52310993 TTACTTTAATATA
1 TTACTTAAATATA
* *
52311006 TTACTTGAATATG
1 TTACTTAAATATA
*
52311019 TTACTTAAATAAA
1 TTACTTAAATATA
*
52311032 TTACTTAAATACA
1 TTACTTAAATATA
*
52311045 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
52311059 TTGGTTAAATTTA
1 TTACTTAAATATA
52311072 TTACTTAAATA
1 TTACTTAAATA
52311083 AATCAGTACC
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
12 3 0.05
13 48 0.81
14 5 0.08
15 3 0.05
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:52311858 original size:9 final size:9
Alignment explanation
Indices: 52311833--52312262 Score: 139
Period size: 9 Copynumber: 48.7 Consensus size: 9
52311823 CTTATATATA
52311833 AACTTACAT
1 AACTTACAT
52311842 AA--TACAT
1 AACTTACAT
52311849 AACTTACAT
1 AACTTACAT
*
52311858 AACTTATAT
1 AACTTACAT
*
52311867 AGAACTTATAT
1 --AACTTACAT
*
52311878 AACAACTTGCAT
1 ---AACTTACAT
52311890 AACTTACAT
1 AACTTACAT
*
52311899 AA-TAACATAAT
1 AACTTAC---AT
*
52311910 AACGTACAT
1 AACTTACAT
*
52311919 -AC-TATAT
1 AACTTACAT
* *
52311926 AACCTACGT
1 AACTTACAT
* *
52311935 AAATTGCAT
1 AACTTACAT
*
52311944 AACTCACAT
1 AACTTACAT
*
52311953 AA--TACAC
1 AACTTACAT
*
52311960 AACTTACAA
1 AACTTACAT
* *
52311969 AACTAAAAT
1 AACTTACAT
52311978 AACTTACAT
1 AACTTACAT
52311987 AA--TACAT
1 AACTTACAT
52311994 AACTTACATT
1 AACTTACA-T
*
52312004 AATATTATACAT
1 -A-ACT-TACAT
*
52312016 AACTCACAT
1 AACTTACAT
52312025 AACTTA-ATT
1 AACTTACA-T
*
52312034 AATACTAAACAT
1 -A-ACT-TACAT
*
52312046 AACTTGTCA-
1 AACTT-ACAT
*
52312055 GACTTACAT
1 AACTTACAT
52312064 AACTTACAT
1 AACTTACAT
*
52312073 AAC--ACAC
1 AACTTACAT
*
52312080 AACTTACAC
1 AACTTACAT
52312089 AACTTACAT
1 AACTTACAT
52312098 AACTTA-ATT
1 AACTTACA-T
52312107 AA-TTA-AT
1 AACTTACAT
*
52312114 -ACTAAACAT
1 AACT-TACAT
52312123 AACTTATCA-
1 AACTTA-CAT
*
52312132 GACTTACAT
1 AACTTACAT
52312141 AACTTACAT
1 AACTTACAT
*
52312150 AA--TACAC
1 AACTTACAT
*
52312157 AACTTATAT
1 AACTTACAT
* *
52312166 AACTTAAAA
1 AACTTACAT
52312175 AACTTACAT
1 AACTTACAT
52312184 AA-TATAC--
1 AACT-TACAT
*
52312191 AACTTATATAT
1 AAC-T-TACAT
*
52312202 AACTTTCAT
1 AACTTACAT
52312211 AACTTAC-T
1 AACTTACAT
*
52312219 TA--TA-AT
1 AACTTACAT
52312225 AACTTACAT
1 AACTTACAT
*
52312234 AACGTAC-T
1 AACTTACAT
*
52312242 TA--TA-AT
1 AACTTACAT
52312248 AACTTACAT
1 AACTTACAT
52312257 AACTTA
1 AACTTA
52312263 TTAATATTTA
Statistics
Matches: 313, Mismatches: 58, Indels: 100
0.66 0.12 0.21
Matches are distributed among these distances:
6 9 0.03
7 39 0.12
8 27 0.09
9 181 0.58
10 15 0.05
11 22 0.07
12 15 0.05
13 5 0.02
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:52311912 original size:32 final size:31
Alignment explanation
Indices: 52311838--52311912 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 31
52311828 ATATAAACTT
* *
52311838 ACATAATACATAACTTACATAACTTATATAGA
1 ACATAATA-ACAACTTACATAACTTACATAGA
* * *
52311870 ACTTATATAACAACTTGCATAACTTACATAATA
1 ACATA-ATAACAACTTACATAACTTACAT-AGA
52311903 ACATAATAAC
1 ACATAATAAC
52311913 GTACATACTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
32 26 0.74
33 9 0.26
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (31 bp):
ACATAATAACAACTTACATAACTTACATAGA
Found at i:52312037 original size:30 final size:30
Alignment explanation
Indices: 52311982--52312049 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
52311972 TAAAATAACT
*
52311982 TACATAA-TACATAACTTACATTAATATTA
1 TACATAACTACATAACTTACATTAATACTA
52312011 TACATAACTCACATAACTTA-ATTAATACTA
1 TACATAACT-ACATAACTTACATTAATACTA
*
52312041 AACATAACT
1 TACATAACT
52312050 TGTCAGACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 7 0.20
30 18 0.51
31 10 0.29
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.34
Consensus pattern (30 bp):
TACATAACTACATAACTTACATTAATACTA
Found at i:52312103 original size:43 final size:42
Alignment explanation
Indices: 52312056--52312152 Score: 101
Period size: 43 Copynumber: 2.3 Consensus size: 42
52312046 AACTTGTCAG
*
52312056 ACTTACATAACTTACATA-ACACACAACTTA-CACAACTTACATA
1 ACTTACATAA-TTA-ATACAAACACAACTTATCA-AACTTACATA
* *
52312099 ACTTA-ATTAATTAATACTAAACATAACTTATCAGACTTACATA
1 ACTTACA-TAATTAATAC-AAACACAACTTATCAAACTTACATA
52312142 ACTTACATAAT
1 ACTTACATAAT
52312153 ACACAACTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
41 3 0.07
42 4 0.09
43 36 0.78
44 3 0.07
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (42 bp):
ACTTACATAATTAATACAAACACAACTTATCAAACTTACATA
Found at i:52312110 original size:77 final size:77
Alignment explanation
Indices: 52312028--52312180 Score: 252
Period size: 77 Copynumber: 2.0 Consensus size: 77
52312018 CTCACATAAC
*
52312028 TTAATTAATACTAAACATAACTTGTCAGACTTACATAACTTACATAACACACAACTTACACAACT
1 TTAATTAATACTAAACATAACTTATCAGACTTACATAACTTACATAACACACAACTTACACAACT
* *
52312093 TACATAACTTAA
66 TAAAAAACTTAA
* * *
52312105 TTAATTAATACTAAACATAACTTATCAGACTTACATAACTTACATAATACACAACTTATATAACT
1 TTAATTAATACTAAACATAACTTATCAGACTTACATAACTTACATAACACACAACTTACACAACT
52312170 TAAAAAACTTA
66 TAAAAAACTTA
52312181 CATAATATAC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 70 1.00
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (77 bp):
TTAATTAATACTAAACATAACTTATCAGACTTACATAACTTACATAACACACAACTTACACAACT
TAAAAAACTTAA
Found at i:52312234 original size:23 final size:23
Alignment explanation
Indices: 52312192--52312262 Score: 115
Period size: 23 Copynumber: 3.0 Consensus size: 23
52312182 ATAATATACA
*
52312192 ACTTATATATAACTTTCATAACTT
1 ACTTATA-ATAACTTACATAACTT
*
52312216 ACTTATAATAACTTACATAACGT
1 ACTTATAATAACTTACATAACTT
52312239 ACTTATAATAACTTACATAACTT
1 ACTTATAATAACTTACATAACTT
52312262 A
1 A
52312263 TTAATATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
23 37 0.84
24 7 0.16
ACGTcount: A:0.42, C:0.17, G:0.01, T:0.39
Consensus pattern (23 bp):
ACTTATAATAACTTACATAACTT
Found at i:52314054 original size:21 final size:21
Alignment explanation
Indices: 52314030--52314100 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
52314020 CTACAATTTA
*
52314030 AAGCAGAAGCAGCAGCGAGGG
1 AAGCAGAAGCTGCAGCGAGGG
**
52314051 AAGCAGTGGCTGCAGCGAGGG
1 AAGCAGAAGCTGCAGCGAGGG
* * *
52314072 AAGCAGAGGCTGTAGCGAGAG
1 AAGCAGAAGCTGCAGCGAGGG
52314093 AAGCAGAA
1 AAGCAGAA
52314101 TAGAGCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.35, C:0.17, G:0.42, T:0.06
Consensus pattern (21 bp):
AAGCAGAAGCTGCAGCGAGGG
Found at i:52314497 original size:42 final size:42
Alignment explanation
Indices: 52314436--52314605 Score: 277
Period size: 42 Copynumber: 4.0 Consensus size: 42
52314426 CGCTAAAAAA
*
52314436 CGCTTAGAAAAAAATGCCGCTAAAGACCATGTTCTTTAGCGG
1 CGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
*
52314478 CGCTTAGAAAGAAACGCCGCTAAAGACCATGTTCTTTAGCGG
1 CGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
* * *
52314520 CTCTTAGAAAAAAATGCCGCTAAAGACCATGTTCTTTAGAGG
1 CGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
* *
52314562 CGCTTATAAAAAAACGCCGCTAATGACCATGTTCTTTAGCGG
1 CGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
52314604 CG
1 CG
52314606 TTTTTGTTTG
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 117 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (42 bp):
CGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
Found at i:52322873 original size:28 final size:29
Alignment explanation
Indices: 52322818--52322874 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
52322808 AGTATATATA
* *
52322818 TATAAAATTTATAATTATTTTATTATTTT
1 TATAAAATTTAGAATTATTTTATAATTTT
52322847 TATAAAA-TTAGAATCT-TTTTATAATTTT
1 TATAAAATTTAGAAT-TATTTTATAATTTT
52322875 ATTGATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (29 bp):
TATAAAATTTAGAATTATTTTATAATTTT
Found at i:52322898 original size:24 final size:22
Alignment explanation
Indices: 52322866--52322910 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
52322856 AGAATCTTTT
52322866 TATAATTTTATTGATTTTTTAAAA
1 TATAATTTTA-T-ATTTTTTAAAA
*
52322890 TATATTTTTATATTTTTTAAA
1 TATAATTTTATATTTTTTAAA
52322911 TTTAGAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 1 0.05
24 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TATAATTTTATATTTTTTAAAA
Found at i:52325383 original size:22 final size:21
Alignment explanation
Indices: 52325358--52325398 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
52325348 TACTTGTTTT
52325358 AATATTATTAATATCATTATAC
1 AATATTATTAATAT-ATTATAC
*
52325380 AATATTATTATTATATTAT
1 AATATTATTAATATATTAT
52325399 TATTGATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTATTAATATATTATAC
Found at i:52325523 original size:14 final size:14
Alignment explanation
Indices: 52325504--52325533 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
52325494 ATTTTAAGAC
52325504 ATATACATATATAT
1 ATATACATATATAT
*
52325518 ATATACATATCTAT
1 ATATACATATATAT
52325532 AT
1 AT
52325534 TTTATAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATACATATATAT
Found at i:52329672 original size:8 final size:8
Alignment explanation
Indices: 52329659--52329700 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
52329649 GACTCGAAAG
52329659 AAAAATCA
1 AAAAATCA
52329667 AAAAATCAAAA
1 AAAAATC---A
52329678 AAAAATC-
1 AAAAATCA
52329685 AAAAATCA
1 AAAAATCA
52329693 AAAAATCA
1 AAAAATCA
52329701 TAAGAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
7 7 0.23
8 15 0.50
11 8 0.27
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATCA
Found at i:52329688 original size:18 final size:19
Alignment explanation
Indices: 52329659--52329697 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
52329649 GACTCGAAAG
52329659 AAAAATCAAAAAATCAAAA
1 AAAAATCAAAAAATCAAAA
52329678 AAAAATC-AAAAATCAAAA
1 AAAAATCAAAAAATCAAAA
52329696 AA
1 AA
52329698 TCATAAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (19 bp):
AAAAATCAAAAAATCAAAA
Found at i:52329715 original size:26 final size:24
Alignment explanation
Indices: 52329655--52329715 Score: 59
Period size: 26 Copynumber: 2.3 Consensus size: 24
52329645 TTCAGACTCG
52329655 AAAGAAAAATCAAAAAATCAAAAAA
1 AAAG-AAAATCAAAAAATCAAAAAA
* *
52329680 AAATCAAAAATCAAAAAATCATAAGAGA
1 AAA--GAAAATCAAAAAATCA-AA-AAA
52329708 AAAGAAAA
1 AAAGAAAA
52329716 GAAAAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
25 3 0.10
26 19 0.66
27 2 0.07
28 5 0.17
ACGTcount: A:0.75, C:0.08, G:0.07, T:0.10
Consensus pattern (24 bp):
AAAGAAAATCAAAAAATCAAAAAA
Found at i:52330741 original size:16 final size:16
Alignment explanation
Indices: 52330720--52330755 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
52330710 TAGATTCAAT
52330720 AAAAAAAA-CAAAAAA
1 AAAAAAAAGCAAAAAA
52330735 CAAAAAAAAGCAAAAAA
1 -AAAAAAAAGCAAAAAA
52330752 AAAA
1 AAAA
52330756 GAAGAAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGCAAAAAA
Found at i:52330742 original size:17 final size:16
Alignment explanation
Indices: 52330720--52330755 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
52330710 TAGATTCAAT
52330720 AAAAAAAACAAAAAACA
1 AAAAAAAACAAAAAA-A
*
52330737 AAAAAAAGCAAAAAAA
1 AAAAAAAACAAAAAAA
52330753 AAA
1 AAA
52330756 GAAGAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAAAA
Found at i:52332618 original size:50 final size:50
Alignment explanation
Indices: 52332148--52333462 Score: 735
Period size: 50 Copynumber: 26.3 Consensus size: 50
52332138 TCTCTGGCGA
* * * **
52332148 TGCAG-TGAAACAGATCGAAGCTACGACGGCGAATTTCACTTCCTTGACAT
1 TGCAGTTGAAA-AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
* * * * * * *
52332198 TGTAATTTAAAAGATTAAAGCTACAACAGCGAATCTCACCTCCCTGACGA-
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC-AT
** * *
52332248 TGCAGCGGAACAGATTGAAGCTACGACGGCGAATCTCACTTCCCCGACAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
* * ** * *
52332298 TGCAATTTAAAAGATTGAAGCTACAATAGCGAATCTCACCTCCCTGACGA-
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC-AT
** * * * *
52332348 TGCAGCGGAACAGATTGAAGCTACGACGGTGAATCTCACTTCCCCGATAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
* * * * * * *
52332398 TGCAATTTAAAAGATTGAAGCTACAACAGCGAATCTTACCTCCCTGGCGA-
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC-AT
** * * *
52332448 TGCAGCGGAACAGATCGAAGCTACGACGGCGAATCTCACTTCCCCGACAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
* * * * * * **
52332498 TGCAATTTAAAAGATTAAAGCTACAACAGCGAATCTCACCTCCCTGACGG
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
** * * * *
52332548 TGCAGCGGAACAGATCGAAGCTACGACGGCGAATCTCACTTCCCCGATAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
* * * * * * * **
52332598 TGCAATTTAAAAAATTGAAGCCACAATGACGAATCTTACTT-CTAGACGA-
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC-AT
* ** * * * *
52332647 TGTAGCAGAACAGATCGAAGCTACGACGACGAATCTCACTTCCCCGACAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
* * * * * * * *
52332697 TGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCCCAGGCAG
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
* * * ** * ** *
52332747 TGCAGTTGAATAGATTGAAGCTACAACAGCGGATCTTGCTTTCTTGACGT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
* * * * * * * * * *
52332797 TGCAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTCTCAGGCGA-
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC-AT
** * * *
52332847 TGCAGCGGAACAA-ATTGAAGCTACGACGACGAATCTCACTTCCCAGACAT
1 TGCAGTTGAA-AAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
* * * * * * *
52332897 TGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCCCAGGCGA-
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC-AT
** * * * *
52332947 TGCAGCGGAACAGATTGAAGTTACGACGACGAATCTCACTTCCCCGACAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
* * * * * * * * * *
52332997 TGCAATTTAAAAGATCGATGCCACAACGGTGAATCTTATTTCCCAGGCGA-
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC-AT
** * * * * *
52333047 TGCAGCGGAACAGATTGAAGCTACGACGACGAATCTCACTTTCCCAACAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
* * * * *
52333097 TGCAATTCAAAAGATTGAAG-TCACAACGGCAAATCTCA-TTTCCCTAGCGA-
1 TGCAGTTGAAAAGATTGAAGCT-ACAACGGCGAATCTCACTTCCCCGA-C-AT
* * * * *
52333147 TGCAGTGGAACAGATTGAAGCTACGATGGCGAATCTCACTTCCCCAACAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
* * * * * * *
52333197 TGCAATTCAAAAGATTGAAGCCACCAA-GGCGAATTTTACTTTCCAGACGA-
1 TGCAGTTGAAAAGATTGAAGCTA-CAACGGCGAATCTCACTTCCCCGAC-AT
* * * * **
52333247 TACAGTGGAACAGATTGAAGCTACAACGGCAAATCTTGCTTCCCCGACAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
* * * * * * **
52333297 TGTAATTAAAAAGATTGAAGAC-ACAACGACGAATCTTAC-TCCCTCGGCGG
1 TGCAGTTGAAAAGATTGAAG-CTACAACGGCGAATCTCACTTCCC-CGACAT
* * * ** * **
52333347 TGCAG-CGAAACAGATTGAAGCTACAACGGTGAATTTTGCCTCCTTGACAT
1 TGCAGTTGAAA-AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
* * * * *
52333397 TGCAATT-AAATAGATGGAAGCTACGACGGCGAATCTTACTTCCTCGACAT
1 TGCAGTTGAAA-AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
52333447 TGCAGTT-AAACAGATT
1 TGCAGTTGAAA-AGATT
52333463 AGAGATGACT
Statistics
Matches: 917, Mismatches: 314, Indels: 68
0.71 0.24 0.05
Matches are distributed among these distances:
49 62 0.07
50 829 0.90
51 26 0.03
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (50 bp):
TGCAGTTGAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACAT
Found at i:52333442 original size:100 final size:100
Alignment explanation
Indices: 52332096--52333439 Score: 1485
Period size: 100 Copynumber: 13.4 Consensus size: 100
52332086 AAAATCGTAG
* * ** * * * * *
52332096 ATTGCAATTCAAAAGATTGAAGCCACAATGGTAAATCTCACCTCTCTGGCGATGCAGTGAAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGCAGCGGAACAG
* * **
52332161 ATCGAAGCTACGACGGCGAATTTCACTTCCTTGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * * *
52332196 ATTGTAATTTAAAAGATTAAAGCTACAACAGCGAATCTCACCTCCCTGACGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGCAGCGGAACAG
52332261 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* ** * * *
52332296 ATTGCAATTTAAAAGATTGAAGCTACAATAGCGAATCTCACCTCCCTGACGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGCAGCGGAACAG
* *
52332361 ATTGAAGCTACGACGGTGAATCTCACTTCCCCGAT
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * *
52332396 ATTGCAATTTAAAAGATTGAAGCTACAACAGCGAATCTTACCTCCCTGGCGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGCAGCGGAACAG
*
52332461 ATCGAAGCTACGACGGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * * *
52332496 ATTGCAATTTAAAAGATTAAAGCTACAACAGCGAATCTCACCTCCCTGACGGTGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGCAGCGGAACAG
* *
52332561 ATCGAAGCTACGACGGCGAATCTCACTTCCCCGAT
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * *
52332596 ATTGCAATTTAAAAAATTGAAGCCACAATGACGAATCTTACTT--CTAGACGATGTAGCAGAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCT-GGCGATGCAGCGGAACA
* *
52332659 GATCGAAGCTACGACGACGAATCTCACTTCCCCGAC
65 GATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * ** *
52332695 ATTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCCCAGGC-AGTGCAGTTGAATA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGA-TGCAGCGGAACA
* * * ** * **
52332759 GATTGAAGCTACAACAGCGGATCTTGCTTTCTTGAC
65 GATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * * *
52332795 GTTGCAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTCTCAGGCGATGCAGCGGAACAA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGCAGCGGAACAG
* *
52332860 ATTGAAGCTACGACGACGAATCTCACTTCCCAGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * *
52332895 ATTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGCAGCGGAACAG
* *
52332960 ATTGAAGTTACGACGACGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * *
52332995 ATTGCAATTTAAAAGATCGATGCCACAACGGTGAATCTTATTTCCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGCAGCGGAACAG
* * *
52333060 ATTGAAGCTACGACGACGAATCTCACTTTCCCAAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * * *
52333095 ATTGCAATTCAAAAGATTGAAGTCACAACGGCAAATCTCATTTCCCTAGCGATGCAGTGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGCAGCGGAACAG
* *
52333160 ATTGAAGCTACGATGGCGAATCTCACTTCCCCAAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * * *
52333195 ATTGCAATTCAAAAGATTGAAGCCACCAA-GGCGAATTTTACTTTCCAGACGATACAGTGGAACA
1 ATTGCAATTTAAAAGATTGAAGCCA-CAACGGCGAATCTTACTTCCCTGGCGATGCAGCGGAACA
* * **
52333259 GATTGAAGCTACAACGGCAAATCTTGCTTCCCCGAC
65 GATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * *
52333295 ATTGTAATTAAAAAGATTGAAGACACAACGACGAATCTTAC-TCCCTCGGCGGTGCAGCGAAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCT-GGCGATGCAGCGGAACA
* * * ** * **
52333359 GATTGAAGCTACAACGGTGAATTTTGCCTCCTTGAC
65 GATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * *
52333395 ATTGCAA-TTAAATAGATGGAAGCTACGACGGCGAATCTTACTTCC
1 ATTGCAATTTAAA-AGATTGAAGCCACAACGGCGAATCTTACTTCC
52333440 TCGACATTGC
Statistics
Matches: 1083, Mismatches: 151, Indels: 19
0.86 0.12 0.02
Matches are distributed among these distances:
98 2 0.00
99 96 0.09
100 977 0.90
101 8 0.01
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (100 bp):
ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGCAGCGGAACAG
ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
Found at i:52335057 original size:22 final size:21
Alignment explanation
Indices: 52335032--52335072 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
52335022 TACTTGTTTT
52335032 AATATTATTAATATCATTATAC
1 AATATTATTAATAT-ATTATAC
*
52335054 AATATTATTATTATATTAT
1 AATATTATTAATATATTAT
52335073 TATTGATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTATTAATATATTATAC
Found at i:52335197 original size:16 final size:16
Alignment explanation
Indices: 52335178--52335209 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52335168 ATTTTAAGAC
52335178 ATATACATATATATAT
1 ATATACATATATATAT
*
52335194 ATATACATATCTATAT
1 ATATACATATATATAT
52335210 TTTATAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATACATATATATAT
Found at i:52337835 original size:98 final size:99
Alignment explanation
Indices: 52337658--52337862 Score: 313
Period size: 98 Copynumber: 2.1 Consensus size: 99
52337648 AAATTTTTTA
* *
52337658 TTTTTATTTTTTTCGTATACTGATATCTGATTCTAACACGAAAAAAATTTTTTTTTTAAAATTGT
1 TTTTTATTTTTTTCGTATACTGATATCTGACTCTAACAC---AAAAATTTTTTTTTAAAAATTGT
* *
52337723 ACTGGGTGTCGGCCATTGACAGGCCAACACTCAAATT
63 ACTGGGTGCCGGCCATTGACAGGCCAACACCCAAATT
*
52337760 TTTTTATTTTTTTCGTATACTGATATCTGACTCTGACAC-AAAATTTTTTTTTAAAAATTGTACT
1 TTTTTATTTTTTTCGTATACTGATATCTGACTCTAACACAAAAATTTTTTTTTAAAAATTGTACT
* *
52337824 GGGTGCCGGCCATTGATAGGCCAGCACCCAAATT
66 GGGTGCCGGCCATTGACAGGCCAACACCCAAATT
52337858 TTTTT
1 TTTTT
52337863 TTTCGTTTTT
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
98 59 0.61
102 37 0.39
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (99 bp):
TTTTTATTTTTTTCGTATACTGATATCTGACTCTAACACAAAAATTTTTTTTTAAAAATTGTACT
GGGTGCCGGCCATTGACAGGCCAACACCCAAATT
Found at i:52343080 original size:62 final size:62
Alignment explanation
Indices: 52342983--52343130 Score: 233
Period size: 62 Copynumber: 2.4 Consensus size: 62
52342973 AATTCGTATT
* *
52342983 ACCCGTCCGGGTTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATCAGGATAGGATC
1 ACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATCAGGATAAGATC
* *
52343045 ACCCGTCCGAGCTAAATCTATTTTCCACATATTCTTCGGGAGGGCTATATCAGGATAAGATC
1 ACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATCAGGATAAGATC
* * *
52343107 ACTCGTCCGGGCTAGATCCTTTTT
1 ACCCGTCCGGGCTAAATCCATTTT
52343131 ACCGTCAATT
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 77 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (62 bp):
ACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATCAGGATAAGATC
Found at i:52348984 original size:18 final size:18
Alignment explanation
Indices: 52348963--52349028 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
52348953 AAAATTGTAT
52348963 TTTTA-AAAAAATTATAAA
1 TTTTATAAAAAATTA-AAA
*
52348981 TTTTAAAAAAAATCTAAAAA
1 TTTTATAAAAAAT-T-AAAA
* *
52349001 ATATATAAAAAATTAAAA
1 TTTTATAAAAAATTAAAA
52349019 TTTTATAAAA
1 TTTTATAAAA
52349029 TAATAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 17 0.43
19 8 0.20
20 14 0.35
21 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
TTTTATAAAAAATTAAAA
Found at i:52349025 original size:20 final size:19
Alignment explanation
Indices: 52348961--52349028 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
52348951 TAAAAATTGT
52348961 ATTTT-TAAAAAAATTATAA
1 ATTTTATAAAAAAATTA-AA
52348980 ATTTTA-AAAAAAATCTAAA
1 ATTTTATAAAAAAAT-TAAA
**
52348999 A-AATATATAAAAAATTAAA
1 ATTTTATA-AAAAAATTAAA
52349018 ATTTTATAAAA
1 ATTTTATAAAA
52349029 TAATAATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
18 2 0.05
19 25 0.62
20 13 0.32
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTTTATAAAAAAATTAAA
Found at i:52351738 original size:34 final size:35
Alignment explanation
Indices: 52351694--52351760 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
52351684 CAGTAAAATG
*
52351694 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAT
*
52351728 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
52351761 CTGCTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAT
Found at i:52356158 original size:17 final size:16
Alignment explanation
Indices: 52356132--52356163 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
52356122 TTTGCAATAA
52356132 TTTTTAAAATTTTTAT
1 TTTTTAAAATTTTTAT
52356148 TTTTATAAAATTTTTA
1 TTTT-TAAAATTTTTA
52356164 ATAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTAAAATTTTTAT
Found at i:52356327 original size:16 final size:16
Alignment explanation
Indices: 52356306--52356341 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
52356296 GTGGAAGTTA
52356306 AAAAGAAAGTT-GAGCT
1 AAAAG-AAGTTAGAGCT
52356322 AAAAGAAGTTAGAGCT
1 AAAAGAAGTTAGAGCT
52356338 AAAA
1 AAAA
52356342 TAGATAGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.56, C:0.06, G:0.22, T:0.17
Consensus pattern (16 bp):
AAAAGAAGTTAGAGCT
Found at i:52367549 original size:23 final size:23
Alignment explanation
Indices: 52367500--52367553 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
52367490 CAGCTTGTAT
* * *
52367500 GAGCTTACCGTTTCAGCTCTACG
1 GAGCTTACCGTCTCAGCTCAACA
*
52367523 GAGCTTACCGTCTCAGCTCAATA
1 GAGCTTACCGTCTCAGCTCAACA
52367546 GAGCTTAC
1 GAGCTTAC
52367554 TGTTTATCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (23 bp):
GAGCTTACCGTCTCAGCTCAACA
Found at i:52371495 original size:44 final size:43
Alignment explanation
Indices: 52371396--52371512 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 43
52371386 AGCTCATACA
* * *
52371396 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATTACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATACATATCG
52371439 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAAT-CATAAATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATACAT--ATCG
52371483 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
52371513 ATAACAAACA
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
42 5 0.08
43 28 0.43
44 30 0.46
45 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATACATATCG
Found at i:52374656 original size:25 final size:25
Alignment explanation
Indices: 52374628--52374688 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
52374618 TAAGCTCCTG
52374628 CGAGCTGAATATCGATAAGCGCATA
1 CGAGCTGAATATCGATAAGCGCATA
* * * *
52374653 CGAGCTGAGTGTCGGTAAGCTCATA
1 CGAGCTGAATATCGATAAGCGCATA
*
52374678 AGAGCTAGAAT
1 CGAGCT-GAAT
52374689 CGGTAACCCT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
25 26 0.90
26 3 0.10
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (25 bp):
CGAGCTGAATATCGATAAGCGCATA
Found at i:52378804 original size:2 final size:2
Alignment explanation
Indices: 52378797--52378824 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
52378787 TCATTAAGAG
52378797 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52378825 GAGATAGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52382487 original size:5 final size:5
Alignment explanation
Indices: 52382477--52382504 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
52382467 AATAATTTGA
52382477 TAAAT TAAAT TAAAT TAAAT TAAAT TAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAA
52382505 GACTACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAAAT
Found at i:52398348 original size:22 final size:21
Alignment explanation
Indices: 52398312--52398403 Score: 64
Period size: 22 Copynumber: 4.2 Consensus size: 21
52398302 GACCCGGCCT
*
52398312 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA-AAAAA
52398334 ATTTATTTTAAAAATTAAAAAA
1 ATTTATTTTAAAAA-TAAAAAA
** *
52398356 AAGTATTTTAAAAATATTTCAAAA
1 ATTTATTTTAAAAATA---AAAAA
*
52398380 A--TATTTTAAAATTAAAAAA
1 ATTTATTTTAAAAATAAAAAA
52398399 ATTTA
1 ATTTA
52398404 AAAATAAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
19 5 0.09
21 4 0.07
22 35 0.61
23 8 0.14
24 5 0.09
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (21 bp):
ATTTATTTTAAAAATAAAAAA
Found at i:52398368 original size:11 final size:11
Alignment explanation
Indices: 52398353--52398390 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
52398343 AAAAATTAAA
52398353 AAAAAGTATTTT
1 AAAAA-TATTTT
*
52398365 AAAAATATTTC
1 AAAAATATTTT
52398376 AAAAATATTTT
1 AAAAATATTTT
52398387 AAAA
1 AAAA
52398391 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:52398418 original size:16 final size:16
Alignment explanation
Indices: 52398378--52398419 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
52398368 AATATTTCAA
*
52398378 AAATAT-TTTAAAATT
1 AAATATATTTAAAAAT
* *
52398393 AAAAAAATTTAAAAAT
1 AAATATATTTAAAAAT
52398409 AAATATATTTA
1 AAATATATTTA
52398420 TTATATCGGG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATATTTAAAAAT
Found at i:52407752 original size:20 final size:20
Alignment explanation
Indices: 52407729--52407835 Score: 94
Period size: 20 Copynumber: 5.2 Consensus size: 20
52407719 AAAAAAAATC
52407729 AAAATAATTTTTAAAAATTT
1 AAAATAATTTTTAAAAATTT
*
52407749 AAAATAATTTTT-AAAATTC
1 AAAATAATTTTTAAAAATTT
*
52407768 AAAAT-ATTTATAAAAATTT
1 AAAATAATTTTTAAAAATTT
52407787 CAAAATTTAAAATTTTTAAAAATTCT
1 -AAAA--T--AATTTTTAAAAATT-T
* *
52407813 AAAA-AATATATAAAAAGTTT
1 AAAATAATTTTTAAAAA-TTT
52407833 AAA
1 AAA
52407836 TTTTAAATTT
Statistics
Matches: 72, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
18 5 0.07
19 17 0.24
20 30 0.42
21 2 0.03
22 1 0.01
25 16 0.22
26 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (20 bp):
AAAATAATTTTTAAAAATTT
Found at i:52407785 original size:19 final size:19
Alignment explanation
Indices: 52407721--52407792 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
52407711 AAAATTACAA
*
52407721 AAAAAATCAAAATAATTTTT
1 AAAAATTCAAAATAA-TTTT
*
52407741 AAAAATTTAAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
52407760 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
52407779 AAAAATTTCAAAAT
1 AAAAA-TTCAAAAT
52407793 TTAAAATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
18 4 0.09
19 20 0.44
20 21 0.47
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:52407819 original size:27 final size:27
Alignment explanation
Indices: 52407761--52407817 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
52407751 AATAATTTTT
*
52407761 AAAATTCAAAATATTTATAAAAATTTC
1 AAAATTCAAAATATTTATAAAAATTTA
*
52407788 AAAATTTAAAAT-TTT-TAAAAATTCTA
1 AAAATTCAAAATATTTATAAAAATT-TA
52407814 AAAA
1 AAAA
52407818 ATATATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 8 0.30
27 11 0.41
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAATTCAAAATATTTATAAAAATTTA
Found at i:52407835 original size:9 final size:8
Alignment explanation
Indices: 52407738--52407817 Score: 52
Period size: 8 Copynumber: 9.0 Consensus size: 8
52407728 CAAAATAATT
52407738 TTTAAAAA
1 TTTAAAAA
52407746 TTTAAAATAA
1 TTT-AAA-AA
*
52407756 TTTTTAAAA
1 -TTTAAAAA
*
52407765 TTCAAAATA
1 TTTAAAA-A
52407774 TTTATAAAAA
1 -TT-TAAAAA
*
52407784 TTTCAAAA
1 TTTAAAAA
*
52407792 TTTAAAATT
1 TTTAAAA-A
52407801 TTTAAAAA
1 TTTAAAAA
52407809 TTCTAAAAA
1 TT-TAAAAA
52407818 ATATATAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
8 21 0.38
9 21 0.38
10 7 0.12
11 7 0.12
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (8 bp):
TTTAAAAA
Found at i:52407841 original size:45 final size:43
Alignment explanation
Indices: 52407754--52407848 Score: 120
Period size: 45 Copynumber: 2.2 Consensus size: 43
52407744 AATTTAAAAT
* *
52407754 AATTTTTAAAATTCAAAATATTTATAAAAATTTCAAAATTTAA
1 AATTTTTAAAATTCAAAAAATATATAAAAATTTCAAAATTTAA
*
52407797 AATTTTTAAAAATTCTAAAAAATATATAAAAAGTTT-AAATTTTAA
1 AATTTTT-AAAATTC-AAAAAATATATAAAAA-TTTCAAAATTTAA
*
52407842 ATTTTTT
1 AATTTTT
52407849 TCTAAAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 7 0.16
44 7 0.16
45 28 0.62
46 3 0.07
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (43 bp):
AATTTTTAAAATTCAAAAAATATATAAAAATTTCAAAATTTAA
Found at i:52409489 original size:20 final size:20
Alignment explanation
Indices: 52409461--52409498 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
52409451 ACGAATCTGG
52409461 ATAAAAATTGATG-TAATGGA
1 ATAAAAATT-ATGATAATGGA
*
52409481 ATAACAATTATGATAATG
1 ATAAAAATTATGATAATG
52409499 TAAATGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.50, C:0.03, G:0.16, T:0.32
Consensus pattern (20 bp):
ATAAAAATTATGATAATGGA
Found at i:52409948 original size:3 final size:3
Alignment explanation
Indices: 52409940--52409988 Score: 62
Period size: 3 Copynumber: 15.3 Consensus size: 3
52409930 CAAATGGGTA
*
52409940 AAT AAT AAT AAT GAT AAGGT AAGT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AA--T AA-T AAT AAT AAT AAT AAT AAT AAT AAT
52409988 A
1 A
52409989 CAACTATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 35 0.83
4 4 0.10
5 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:52412544 original size:72 final size:73
Alignment explanation
Indices: 52412418--52412625 Score: 213
Period size: 72 Copynumber: 2.8 Consensus size: 73
52412408 TTAATGATCT
* * * * * * *
52412418 ATGGCTTGAGACCCAATACATGTTGTT-GATTATTTGAAGCTTGTGTGAACAACATCGAATCATT
1 ATGGCTTGAGATCCAACACGTGTT-TTGGATTCTCTAAAGCTTGTGTGAGCAACATCGAATCATT
*
52412482 CTTT-ATCG
65 CTTTAATAG
* *
52412490 ATGGCTTGAGATCCAACACGTGTTTTGGATTCTCTAAAGCTTGTGTGAGTAACATTGAATCATTC
1 ATGGCTTGAGATCCAACACGTGTTTTGGATTCTCTAAAGCTTGTGTGAGCAACATCGAATCATTC
*
52412555 TTTACCAATAT
66 TTT---AATAG
* * ** * *
52412566 ATAGCTTGAGATCCAGCACGTGTTACGGATTCTCTAAAGCTTGTGTGAGCATCTTCGAAT
1 ATGGCTTGAGATCCAACACGTGTTTTGGATTCTCTAAAGCTTGTGTGAGCAACATCGAAT
52412626 AAAACTTGTA
Statistics
Matches: 112, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
71 2 0.02
72 56 0.50
76 54 0.48
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (73 bp):
ATGGCTTGAGATCCAACACGTGTTTTGGATTCTCTAAAGCTTGTGTGAGCAACATCGAATCATTC
TTTAATAG
Found at i:52416632 original size:31 final size:31
Alignment explanation
Indices: 52416569--52416632 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
52416559 TTTTTTTCAT
* *
52416569 TTTTTTTCTATTTCAACTGTTTCTTTTCAAA
1 TTTTTTTCTATTTCAACTATTTCTTTTAAAA
*
52416600 TTTTTTTCTATTTCACCTATATT-TTTTAAAA
1 TTTTTTTCTATTTCAACTAT-TTCTTTTAAAA
52416631 TT
1 TT
52416633 CCCATCGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.22, C:0.14, G:0.02, T:0.62
Consensus pattern (31 bp):
TTTTTTTCTATTTCAACTATTTCTTTTAAAA
Found at i:52421764 original size:13 final size:13
Alignment explanation
Indices: 52421746--52421770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52421736 CATACTCTCA
52421746 ATTTTTAATATTC
1 ATTTTTAATATTC
52421759 ATTTTTAATATT
1 ATTTTTAATATT
52421771 TTAGGATTAT
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:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTTAATATTC
Found at i:52421796 original size:17 final size:17
Alignment explanation
Indices: 52421776--52421817 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
52421766 ATATTTTAGG
*
52421776 ATTATTTATGTTTTACA
1 ATTATTTAGGTTTTACA
*
52421793 ATTACTTAGGTTTTACA
1 ATTATTTAGGTTTTACA
52421810 ATTATTTA
1 ATTATTTA
52421818 AGCATTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (17 bp):
ATTATTTAGGTTTTACA
Found at i:52423755 original size:24 final size:24
Alignment explanation
Indices: 52423728--52423775 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
52423718 TCCACAGCAT
52423728 TTACTGGATGACCATCCAAGCTAC
1 TTACTGGATGACCATCCAAGCTAC
*
52423752 TTACTGGATGACTATCCAAGCTAC
1 TTACTGGATGACCATCCAAGCTAC
52423776 CCTAGTGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (24 bp):
TTACTGGATGACCATCCAAGCTAC
Found at i:52431005 original size:15 final size:13
Alignment explanation
Indices: 52430985--52431022 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
52430975 TATATGTAGG
52430985 TATAATAATATATAA
1 TATAATAATA-A-AA
52431000 TATAATAATAAAA
1 TATAATAATAAAA
52431013 -ATAATAATAA
1 TATAATAATAA
52431023 CAAAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TATAATAATAAAA
Found at i:52431027 original size:15 final size:15
Alignment explanation
Indices: 52431001--52431034 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
52430991 AATATATAAT
*
52431001 ATAATAATAAAAATA
1 ATAATAACAAAAATA
*
52431016 ATAATAACAAAATTA
1 ATAATAACAAAAATA
52431031 ATAA
1 ATAA
52431035 AATAGACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAATAACAAAAATA
Found at i:52431278 original size:19 final size:21
Alignment explanation
Indices: 52431242--52431280 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
52431232 CCTTTTTAAA
*
52431242 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
52431263 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
52431281 ACAGTAAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:52431505 original size:21 final size:21
Alignment explanation
Indices: 52431475--52431550 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
52431465 AATCATATCT
*
52431475 TCTAATATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
52431496 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
52431517 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
52431536 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
52431551 CCTCGAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.37
21 31 0.63
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:52431510 original size:19 final size:19
Alignment explanation
Indices: 52431488--52431551 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
52431478 AATATTGTAT
52431488 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
52431507 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
*
52431528 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
52431547 ATATC
1 ATATC
52431552 CTCGAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:52431937 original size:44 final size:44
Alignment explanation
Indices: 52431861--52431973 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 44
52431851 CTCTAATCCA
** ** *
52431861 CTCCACTACAACTT-AGGGAGACGAGATTTGTTTATTTAGTCTG
1 CTCCACTACAACTTCAGGGAGATAAGGCTTGTTTACTTAGTCTG
* * *
52431904 CTTCACTGCAACTTCA-GGAGGATAAGGCTTGTTTACTTAGTTTG
1 CTCCACTACAACTTCAGGGA-GATAAGGCTTGTTTACTTAGTCTG
*
52431948 CTCCACTACAATTTCAGGGAGATAAG
1 CTCCACTACAACTTCAGGGAGATAAG
52431974 ACTAGACGCA
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
43 15 0.27
44 38 0.68
45 3 0.05
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (44 bp):
CTCCACTACAACTTCAGGGAGATAAGGCTTGTTTACTTAGTCTG
Found at i:52432178 original size:44 final size:43
Alignment explanation
Indices: 52431897--52432318 Score: 162
Period size: 44 Copynumber: 9.8 Consensus size: 43
52431887 TTTGTTTATT
* * *
52431897 TAGTCTGCTTCACTGCAACTTCAGGAG-GATAAGGCTTGTTTAC
1 TAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTT-C
* * * * *
52431940 TTAGTTTGCTCCACTACAATTTCAGG-GAGATAAGACTAGAC-GC
1 -TAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTG-CTTC
* * * ** *
52431983 -AATCTGCT-CTCTGCAACTTCA-TAGAGATAAGATCCAAGGTT-
1 TAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGA--CTTGCTTC
* * * *
52432024 TTGATCCGCTCCACTGCAACTTCAGGA-AGATAGGATTATCGGC-TC
1 TAG-TCTGCTCCACTGCAACTTCAGGAGAGATAAGACT-T--GCTTC
* * *
52432069 TAATCTGCTCCACTGCAACTTCAGG-GAGATAAGATTTGCCATC
1 TAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTG-CTTC
*
52432112 TTCAGTCTAC-CTCACTGCAACTTCAGGAG-GATAAGACTTGCTTGC
1 -T-AGTCTGCTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTT-C
* * * *
52432157 TGAGTCTGCTCCACTGCAACTTTAGG-GAGATAAGACTAGATGC
1 T-AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTC
* * * ** * *
52432200 GA-TCTGCT-CTCTGCAACTTCA-AAGAGATAAGATCCAAGGTTT
1 TAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGA--CTTGCTTC
* * * * * *
52432242 TAATCCGCTCTACTGCAACTTCA-AAGAGATAGGATTATCGGCTT-
1 TAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACT-T--GCTTC
* *
52432286 TAATCTGCTTCACTGCAACTTCAGG-GAGATAAG
1 TAGTCTGCTCCACTGCAACTTCAGGAGAGATAAG
52432319 TTTTGCCATT
Statistics
Matches: 282, Mismatches: 63, Indels: 66
0.69 0.15 0.16
Matches are distributed among these distances:
40 39 0.14
41 13 0.05
42 10 0.04
43 17 0.06
44 164 0.58
45 38 0.13
46 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (43 bp):
TAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTC
Found at i:52432207 original size:217 final size:217
Alignment explanation
Indices: 52431906--52432332 Score: 678
Period size: 217 Copynumber: 2.0 Consensus size: 217
52431896 TTAGTCTGCT
* * * *
52431906 TCACTGCAACTTCAGGAGGATAAGGCTTGTTTACTTAGTTTGCTCCACTACAATTTCAGGGAGAT
1 TCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTACAATTTCAGGGAGAT
* *
52431971 AAGACTAGACGCAATCTGCTCTCTGCAACTTCATAGAGATAAGATCCAAGGTTTTGATCCGCTCC
66 AAGACTAGACGCAATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTTTAATCCGCTCC
*
52432036 ACTGCAACTTC-AGGAAGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAGGGAGATA
131 ACTGCAACTTCAAAG-AGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAGGGAGATA
52432100 AGATTTGCCATCTTCAGTCTACC
195 AGATTTGCCATCTTCAGTCTACC
* *
52432123 TCACTGCAACTTCAGGAGGATAAGACTTGCTTGCTGAGTCTGCTCCACTGCAACTTT-AGGGAGA
1 TCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTACAA-TTTCAGGGAGA
* *
52432187 TAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTTTAATCCGCTC
65 TAAGACTAGACGCAATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTTTAATCCGCTC
* * *
52432252 TACTGCAACTTCAAAGAGATAGGATTATCGGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATA
130 CACTGCAACTTCAAAGAGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAGGGAGATA
* *
52432317 AGTTTTGCCATTTTCA
195 AGATTTGCCATCTTCA
52432333 ACCTACTCCG
Statistics
Matches: 192, Mismatches: 16, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
217 187 0.97
218 5 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
TCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTACAATTTCAGGGAGAT
AAGACTAGACGCAATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTTTAATCCGCTCC
ACTGCAACTTCAAAGAGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAGGGAGATAA
GATTTGCCATCTTCAGTCTACC
Found at i:52432476 original size:132 final size:132
Alignment explanation
Indices: 52432329--52433149 Score: 1175
Period size: 132 Copynumber: 6.3 Consensus size: 132
52432319 TTTTGCCATT
* * *
52432329 TTCAACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTTCTTCCCACTATC
1 TTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
* * *
52432394 TTGGAAAGATAAGATTTACTGTCTTTGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTACAA
66 TTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
52432459 TC
131 TC
* * *
52432461 TTCAACCTTTTCCGCTGTTGCTCAGGGATACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
1 TTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
* * *
52432526 TTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCTCTACTGCTTAGGGAGATAGGATCTACAA
66 TTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
52432591 -C
131 TC
* * * *
52432592 --CTA-C-TCT--GCTACTGCTCAAGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATC
1 TTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
*
52432651 TTGGAAAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
66 TTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
52432716 TC
131 TC
* *
52432718 TTCAACCTTCTCCGTTGCTGCTCAGGGATACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
1 TTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
* ** * * *
52432783 TTGGGAAGATAAGATTTTTCGTCTTCGATCTGCTCCACTACTACTTAAGGAGATAGGATCT---A
66 TTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
52432845 --
131 TC
* * * * * *
52432845 --CAACCTACTCCGTTGCTTCTCAAGGAGACAAGGCTTTGTGGCTTAAATCCGCTTCCCACTATC
1 TTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
*
52432908 TTGGAAAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
66 TTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
*
52432973 TT
131 TC
* *
52432975 TTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
1 TTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
* * *
52433040 TTGGAAAAATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTACAA
66 TTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
52433105 TC
131 TC
**
52433107 TTCAACCTTCTTCCGCTGCTGCTCAATGAGACAAGGCTTGGTG
1 TTCAACCTTC-TCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
52433150 TTTCACCGGT
Statistics
Matches: 611, Mismatches: 63, Indels: 29
0.87 0.09 0.04
Matches are distributed among these distances:
125 219 0.36
126 1 0.00
127 2 0.00
128 4 0.01
129 4 0.01
130 3 0.00
131 1 0.00
132 347 0.57
133 30 0.05
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
TTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
TTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
TC
Found at i:52432631 original size:257 final size:257
Alignment explanation
Indices: 52432331--52433104 Score: 1305
Period size: 257 Copynumber: 3.0 Consensus size: 257
52432321 TTGCCATTTT
* * * *
52432331 CAACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTTCTTCCCACTATCTT
1 CAACCTACTCCGCTGCTGCTCAAGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTT
* *
52432396 GGAAAGATAAGATTTACTGTCTTTGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATC
66 GGAAAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
* *
52432461 TTCAACCTTTTCCGCTGTTGCTCAGGGATACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
131 TTCAACCTTCTCCGCTGCTGCTCAGGGATACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
*
52432526 TTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCTCTACTGCTTAGGGAGATAGGATCTA
196 TTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTA
* *
52432588 CAACCTACTCTGCTACTGCTCAAGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTT
1 CAACCTACTCCGCTGCTGCTCAAGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTT
52432653 GGAAAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
66 GGAAAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
*
52432718 TTCAACCTTCTCCGTTGCTGCTCAGGGATACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
131 TTCAACCTTCTCCGCTGCTGCTCAGGGATACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
* ** * *
52432783 TTGGGAAGATAAGATTTTTCGTCTTCGATCTGCTCCACTACTACTTAAGGAGATAGGATCTA
196 TTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTA
* * *
52432845 CAACCTACTCCGTTGCTTCTCAAGGAGACAAGGCTTTGTGGCTTAAATCCGCTTCCCACTATCTT
1 CAACCTACTCCGCTGCTGCTCAAGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTT
*
52432910 GGAAAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATT
66 GGAAAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
* * *
52432975 TTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
131 TTCAACCTTCTCCGCTGCTGCTCAGGGATACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
* * *
52433040 TTGGAAAAATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTA
196 TTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTA
52433102 CAA
1 CAA
52433105 TCTTCAACCT
Statistics
Matches: 482, Mismatches: 35, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
257 482 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (257 bp):
CAACCTACTCCGCTGCTGCTCAAGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTT
GGAAAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
TTCAACCTTCTCCGCTGCTGCTCAGGGATACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
TTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTA
Found at i:52433096 original size:44 final size:44
Alignment explanation
Indices: 52432914--52433098 Score: 113
Period size: 44 Copynumber: 4.2 Consensus size: 44
52432904 TATCTTGGAA
** *
52432914 AGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGAG
* ** * * * * * *
52432958 AGATAAGATCTACAATTTTCAACCTACTCCGCTGCTGCTCAGAG
1 AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGAG
* ** *** * * * *
52433002 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTTGGAA
1 AGATAAGATTTACCGTCTTCAATCTGC-T-CCACTACTGCTTAGAG
* * *
52433046 AAATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGAG
1 AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGAG
52433090 AGATAAGAT
1 AGATAAGAT
52433099 CTACAATCTT
Statistics
Matches: 95, Mismatches: 42, Indels: 8
0.66 0.29 0.06
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 81 0.85
45 2 0.02
46 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
AGATAAGATTTACCGTCTTCAATCTGCTCCACTACTGCTTAGAG
Found at i:52434389 original size:16 final size:17
Alignment explanation
Indices: 52434368--52434400 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
52434358 ATTGGCCTCT
52434368 CCTTTTGCTTTT-TTTC
1 CCTTTTGCTTTTCTTTC
*
52434384 CCTTTTTCTTTTCTTTC
1 CCTTTTGCTTTTCTTTC
52434401 TTTCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.00, C:0.27, G:0.03, T:0.70
Consensus pattern (17 bp):
CCTTTTGCTTTTCTTTC
Found at i:52434404 original size:21 final size:22
Alignment explanation
Indices: 52434369--52434416 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
52434359 TTGGCCTCTC
*
52434369 CTTTTGCTTTTTTTCCCTTTTT
1 CTTTTGCTTTCTTTCCCTTTTT
*
52434391 CTTTT-CTTTCTTTCTCTTTTT
1 CTTTTGCTTTCTTTCCCTTTTT
52434412 -TTTTG
1 CTTTTG
52434417 AAAAATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 14 0.61
22 5 0.22
ACGTcount: A:0.00, C:0.21, G:0.04, T:0.75
Consensus pattern (22 bp):
CTTTTGCTTTCTTTCCCTTTTT
Found at i:52439050 original size:15 final size:14
Alignment explanation
Indices: 52439030--52439060 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
52439020 TATATGTAGG
52439030 TATAATAATATATAA
1 TATAATAATA-ATAA
52439045 TATAATAATAATAA
1 TATAATAATAATAA
52439059 TA
1 TA
52439061 ACAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TATAATAATAATAA
Found at i:52439588 original size:20 final size:21
Alignment explanation
Indices: 52439518--52439600 Score: 109
Period size: 21 Copynumber: 4.1 Consensus size: 21
52439508 TTATAAAATC
* *
52439518 ATATC-TA-CTAATATTGTAT
1 ATATCATATCTAAGATTGCAT
52439537 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
52439558 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
* *
52439579 A-ATTATATCTAAGATTGTAT
1 ATATCATATCTAAGATTGCAT
52439599 AT
1 AT
52439601 CCTCGAAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
19 5 0.09
20 20 0.35
21 32 0.56
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:52454389 original size:5 final size:5
Alignment explanation
Indices: 52454379--52454414 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
52454369 TGGTTATGTT
52454379 TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
52454415 ATGTATAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:52455333 original size:19 final size:19
Alignment explanation
Indices: 52455309--52455383 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 19
52455299 TTATGTGTGA
52455309 ATATGTGAATTGTGAATTG
1 ATATGTGAATTGTGAATTG
*
52455328 ATATGTGAATTG-GAAATCG
1 ATATGTGAATTGTG-AATTG
* *
52455347 AGATATGAGATT-TGAA--G
1 ATATGTGA-ATTGTGAATTG
52455364 ATATGTGAATATGTGAATTG
1 ATATGTGAAT-TGTGAATTG
52455384 TGTATTGATT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.05
17 8 0.18
18 5 0.11
19 24 0.55
20 5 0.11
ACGTcount: A:0.36, C:0.01, G:0.27, T:0.36
Consensus pattern (19 bp):
ATATGTGAATTGTGAATTG
Found at i:52455678 original size:41 final size:37
Alignment explanation
Indices: 52455631--52455730 Score: 92
Period size: 41 Copynumber: 2.6 Consensus size: 37
52455621 TCAACCTTGA
52455631 GTCGATGAGACACTGGGTGTCATACTGTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-AC--TTACTTCGGATAG
* ** ** * *
52455671 ATTCGATGAGGTACTGGGTACCAACTTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTTACTTCGGATAG
*
52455709 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
52455731 CTTTATTGCT
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
37 16 0.35
38 11 0.24
40 2 0.04
41 17 0.37
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (37 bp):
GTCGATGAGACACTGGGTGTCAACTTACTTCGGATAG
Found at i:52457792 original size:33 final size:33
Alignment explanation
Indices: 52457741--52457975 Score: 124
Period size: 33 Copynumber: 6.7 Consensus size: 33
52457731 TTATCCGTTA
*
52457741 TCGGTGGATTCAGCACTTAGCAACCACCAATGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
**
52457775 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAAT
1 TCGGGGAATCAGCACTTAGCAA---C---CAC---CAATGAT
* * * *
52457817 ACGGTAGAATCAACACTTAGCAACCACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
** *
52457851 TCAAGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGAT
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A--T--GAT
* *
52457892 ACGGTGGGATCAGCACTTAGCAACCACCAATGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
52457926 TCGGGGAATCAACACTTAGCAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
52457953 T-GGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
52457976 CCGTTCACAT
Statistics
Matches: 157, Mismatches: 25, Indels: 46
0.69 0.11 0.20
Matches are distributed among these distances:
26 21 0.13
27 2 0.01
32 2 0.01
33 54 0.34
34 15 0.10
36 4 0.03
37 4 0.03
38 1 0.01
39 6 0.04
40 1 0.01
41 3 0.02
42 28 0.18
43 16 0.10
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.21
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:52457880 original size:76 final size:75
Alignment explanation
Indices: 52457754--52457953 Score: 310
Period size: 75 Copynumber: 2.7 Consensus size: 75
52457744 GTGGATTCAG
52457754 CACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATAC
1 CACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT-AAAAATAC
52457819 GGTAGAATCAA
65 GGTAGAATCAA
* ** * *
52457830 CACTTAGCAACCACCAATGAATCAAGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTAAAAATACG
* * *
52457895 GTGGGATCAG
66 GTAGAATCAA
*
52457905 CACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTT
1 CACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
52457954 GGGGAATCAG
Statistics
Matches: 112, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
75 59 0.53
76 53 0.47
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.21
Consensus pattern (75 bp):
CACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTAAAAATACG
GTAGAATCAA
Found at i:52457957 original size:26 final size:26
Alignment explanation
Indices: 52457928--52457977 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
52457918 CCAATGATTC
52457928 GGGGAATCAACACTTAGCAACCCCTT
1 GGGGAATCAACACTTAGCAACCCCTT
*
52457954 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAACACTTAGCAACCCC
52457978 GTTCACATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.22, T:0.16
Consensus pattern (26 bp):
GGGGAATCAACACTTAGCAACCCCTT
Found at i:52465585 original size:23 final size:23
Alignment explanation
Indices: 52465558--52465601 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
52465548 ACTAGATTTT
52465558 TCCTAAATATTATCACAAAATAA
1 TCCTAAATATTATCACAAAATAA
*
52465581 TCCTAAATATTATCACTAAAT
1 TCCTAAATATTATCACAAAAT
52465602 TATTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (23 bp):
TCCTAAATATTATCACAAAATAA
Found at i:52465601 original size:13 final size:13
Alignment explanation
Indices: 52465560--52465601 Score: 54
Period size: 11 Copynumber: 3.5 Consensus size: 13
52465550 TAGATTTTTC
52465560 CTAAATATTATCA
1 CTAAATATTATCA
*
52465573 C-AAA-ATAATC-
1 CTAAATATTATCA
52465583 CTAAATATTATCA
1 CTAAATATTATCA
52465596 CTAAAT
1 CTAAAT
52465602 TATTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 1 0.04
11 8 0.33
12 8 0.33
13 7 0.29
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:52475584 original size:24 final size:23
Alignment explanation
Indices: 52475557--52475615 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
52475547 CTCTATATTA
52475557 TTTTTTATTTTGAGCAATTTAATT
1 TTTTTTATTTTG-GCAATTTAATT
** *
52475581 TTTTTCT-TTTATGTTATTTTAATT
1 TTTTT-TATTT-TGGCAATTTAATT
52475605 TTTTTTATTTT
1 TTTTTTATTTT
52475616 CCATTCTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
23 2 0.07
24 24 0.83
25 3 0.10
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.73
Consensus pattern (23 bp):
TTTTTTATTTTGGCAATTTAATT
Found at i:52478051 original size:90 final size:90
Alignment explanation
Indices: 52477927--52478096 Score: 313
Period size: 90 Copynumber: 1.9 Consensus size: 90
52477917 TAATTTGATT
52477927 AAAACATAGTTAAATAAGTAAATTAAAGTTAATTAACAAACTAATCTTAGTATAAAAGTGAAATT
1 AAAACATAGTTAAATAAGTAAATTAAAGTTAATTAACAAACTAATCTTAGTATAAAAGTGAAATT
*
52477992 TGTGGATAGAGAGATCCAAGTTACC
66 GGTGGATAGAGAGATCCAAGTTACC
*
52478017 AAAACATAGTTAAATAAGTAAATTAAGGTTAATTAACAAACTAATCTTAGTATAAAAGTGAAATT
1 AAAACATAGTTAAATAAGTAAATTAAAGTTAATTAACAAACTAATCTTAGTATAAAAGTGAAATT
*
52478082 GGTGGATGGAGAGAT
66 GGTGGATAGAGAGAT
52478097 GATATCATCT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 77 1.00
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.29
Consensus pattern (90 bp):
AAAACATAGTTAAATAAGTAAATTAAAGTTAATTAACAAACTAATCTTAGTATAAAAGTGAAATT
GGTGGATAGAGAGATCCAAGTTACC
Found at i:52479523 original size:18 final size:17
Alignment explanation
Indices: 52479472--52479524 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
52479462 TTCTCGTGAA
52479472 AAATCAAAA-TAAAATTG
1 AAAT-AAAAGTAAAATTG
*
52479489 AAATAAAAGTTACAATTG
1 AAATAAAAG-TAAAATTG
52479507 AAAGTAAAAGTAAAATTG
1 AAA-TAAAAGTAAAATTG
52479525 TAACACCCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 4 0.13
17 4 0.13
18 17 0.55
19 6 0.19
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.25
Consensus pattern (17 bp):
AAATAAAAGTAAAATTG
Done.