Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 68 of 85
Found at i:23619513 original size:29 final size:28
Alignment explanation
Indices: 23619463--23619525 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 28
23619453 AAAGTATTTT
*
23619463 AAAAATATTTTAAAATTAAAAAAATTTAA
1 AAAAATATTTTAAAATTAAAAAAA-ATAA
23619492 AAAAAGTATTTTAAAATT-AAAAAAATAA
1 AAAAA-TATTTTAAAATTAAAAAAAATAA
23619520 AAAAAT
1 AAAAAT
23619526 TTATTATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 1 0.03
28 8 0.25
29 11 0.34
30 12 0.38
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (28 bp):
AAAAATATTTTAAAATTAAAAAAAATAA
Found at i:23622185 original size:24 final size:24
Alignment explanation
Indices: 23622158--23622214 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
23622148 TGTCGAAACA
23622158 TATGCTCCGACATATCATCCAATT
1 TATGCTCCGACATATCATCCAATT
*
23622182 TATGCTCCGACATATCCTCCAATT
1 TATGCTCCGACATATCATCCAATT
23622206 TATGCTCCG
1 TATGCTCCG
23622215 GCGTACGCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.25, C:0.32, G:0.11, T:0.33
Consensus pattern (24 bp):
TATGCTCCGACATATCATCCAATT
Found at i:23627971 original size:39 final size:40
Alignment explanation
Indices: 23627906--23627996 Score: 114
Period size: 39 Copynumber: 2.3 Consensus size: 40
23627896 GCTCTTAAAT
*
23627906 AAATTACTGAATCTTTTAAATAATTATTAAATTTCATACA
1 AAATTACTGAATCTTTTAAATAATTATTAAATCTCATACA
* *
23627946 AAATTACTG-ATTTTTTAAA-ACATTATTAAATCTCTTACA
1 AAATTACTGAATCTTTTAAATA-ATTATTAAATCTCATACA
* *
23627985 ATATTAATGAAT
1 AAATTACTGAAT
23627997 AACTTACAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.02
39 32 0.73
40 11 0.25
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (40 bp):
AAATTACTGAATCTTTTAAATAATTATTAAATCTCATACA
Found at i:23628894 original size:20 final size:20
Alignment explanation
Indices: 23628871--23628909 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23628861 AATCTCATAC
*
23628871 AATATTATTGAATCTCTTGT
1 AATATTACTGAATCTCTTGT
*
23628891 AATATTACTGAATTTCTTG
1 AATATTACTGAATCTCTTG
23628910 CTTGGAATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (20 bp):
AATATTACTGAATCTCTTGT
Found at i:23636476 original size:58 final size:58
Alignment explanation
Indices: 23636389--23636500 Score: 199
Period size: 58 Copynumber: 1.9 Consensus size: 58
23636379 CCACTTTTTC
23636389 GGCCCGGGACCGGCCCGGCCCGATATAATAAATATATTTATTTTTTAAAATTTTACCCG
1 GGCCCGGGACCGGCCCGGCCCGATATAATAAATATATTTATTTTTT-AAATTTTACCCG
*
23636448 GGCCC-GGCCCGGCCCGGCCCGATATAATAAATATATTTATTTTTTAAATTTTA
1 GGCCCGGGACCGGCCCGGCCCGATATAATAAATATATTTATTTTTTAAATTTTA
23636501 AAATATTTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
57 8 0.15
58 39 0.75
59 5 0.10
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (58 bp):
GGCCCGGGACCGGCCCGGCCCGATATAATAAATATATTTATTTTTTAAATTTTACCCG
Found at i:23636562 original size:40 final size:40
Alignment explanation
Indices: 23636486--23636626 Score: 212
Period size: 40 Copynumber: 3.5 Consensus size: 40
23636476 AAATATATTT
* * *
23636486 ATTTTTTAAATTTTAAAATATTTTTTACATAC-TTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
*
23636525 ATTTTTTTTATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
23636565 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
*
23636605 ATTTTTTAAAATTTTTAAAATA
1 ATTTTTT-TAA-TTTTAAAATA
23636627 AAAATGGGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 28 0.30
40 53 0.57
41 2 0.02
42 10 0.11
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:23636604 original size:31 final size:31
Alignment explanation
Indices: 23636566--23636626 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
23636556 CTTTTTTTAA
23636566 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTAAAA-ATTTTTAAAATAC
*
23636597 TTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTTTTAATTTTTAAAAATTTTTAAAATA
23636627 AAAATGGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTTTAATTTTTAAAAATTTTTAAAATAC
Found at i:23637778 original size:20 final size:20
Alignment explanation
Indices: 23637750--23637793 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
23637740 TACAAAGCTT
* *
23637750 ATATCTTACTCAAGTTAACA
1 ATATATTACGCAAGTTAACA
23637770 ATATATTACGCAAGTTAACA
1 ATATATTACGCAAGTTAACA
23637790 ATAT
1 ATAT
23637794 GTACCATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (20 bp):
ATATATTACGCAAGTTAACA
Found at i:23637900 original size:17 final size:16
Alignment explanation
Indices: 23637872--23637924 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
23637862 TTTGGTTCGC
23637872 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23637888 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
23637905 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23637921 TGTA
1 TGTA
23637925 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:23641235 original size:18 final size:18
Alignment explanation
Indices: 23641212--23641246 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
23641202 GTTTCAGACG
23641212 TGAGAAAGAAATGAGAAA
1 TGAGAAAGAAATGAGAAA
23641230 TGAGAAAGAAATGAGAA
1 TGAGAAAGAAATGAGAA
23641247 GACGGCTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.11
Consensus pattern (18 bp):
TGAGAAAGAAATGAGAAA
Found at i:23644491 original size:12 final size:13
Alignment explanation
Indices: 23644468--23644506 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
23644458 TTTTTTACAG
*
23644468 ATAATTTTTTTAT
1 ATAATTTATTTAT
*
23644481 ATAA-TTATTTAA
1 ATAATTTATTTAT
23644493 ATAATTTATTTAT
1 ATAATTTATTTAT
23644506 A
1 A
23644507 AAATAAATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATAATTTATTTAT
Found at i:23647165 original size:90 final size:91
Alignment explanation
Indices: 23647043--23647236 Score: 372
Period size: 90 Copynumber: 2.1 Consensus size: 91
23647033 ATTTTTATGA
*
23647043 AAATAAATAAATAAATTTAATTTTATAGTAGTTCAATATGTAATTAAATTTATATTTATGTTGTA
1 AAATAAAAAAATAAATTTAATTTTATAGTAGTTCAATATGTAATTAAATTTATATTTATGTTGTA
23647108 ATTAAAATTGAATAAACAAATAAACT
66 ATTAAAATTGAATAAACAAATAAACT
23647134 AAATAAAAAAATAAATTTAA-TTTATAGTAGTTCAATATGTAATTAAATTTATATTTATGTTGTA
1 AAATAAAAAAATAAATTTAATTTTATAGTAGTTCAATATGTAATTAAATTTATATTTATGTTGTA
23647198 ATTAAAATTGAATAAACAAATAAACT
66 ATTAAAATTGAATAAACAAATAAACT
23647224 AAATAAAAAAATA
1 AAATAAAAAAATA
23647237 CAAAGATAAA
Statistics
Matches: 102, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
90 83 0.81
91 19 0.19
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (91 bp):
AAATAAAAAAATAAATTTAATTTTATAGTAGTTCAATATGTAATTAAATTTATATTTATGTTGTA
ATTAAAATTGAATAAACAAATAAACT
Found at i:23655538 original size:7 final size:7
Alignment explanation
Indices: 23655526--23655553 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
23655516 TTTTCTACAT
23655526 TAAGTAA
1 TAAGTAA
23655533 TAAGTAA
1 TAAGTAA
23655540 TAAGTAA
1 TAAGTAA
23655547 TAAGTAA
1 TAAGTAA
23655554 GTCTCTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TAAGTAA
Found at i:23656161 original size:16 final size:17
Alignment explanation
Indices: 23656131--23656164 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
23656121 AAGATTATGT
*
23656131 TAAAATATTTTTAAAAA
1 TAAAATATTTCTAAAAA
23656148 TAAAA-ATTTCTAAAAA
1 TAAAATATTTCTAAAAA
23656164 T
1 T
23656165 TCAAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAATATTTCTAAAAA
Found at i:23657040 original size:19 final size:19
Alignment explanation
Indices: 23657016--23657088 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 19
23657006 TTTAACATAA
23657016 ATTTTAATATTTTTAATAT
1 ATTTTAATATTTTTAATAT
* * *
23657035 ATTTTAAACAATTTTCATA-
1 ATTTT-AATATTTTTAATAT
* *
23657054 ATTTATACTTATTTTTAAGATT
1 ATTT-TA-ATATTTTTAATA-T
23657076 ATTTTAATATTTT
1 ATTTTAATATTTT
23657089 AGAATTATTG
Statistics
Matches: 40, Mismatches: 9, Indels: 9
0.69 0.16 0.16
Matches are distributed among these distances:
19 10 0.25
20 24 0.60
21 2 0.05
22 4 0.10
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (19 bp):
ATTTTAATATTTTTAATAT
Found at i:23668783 original size:18 final size:19
Alignment explanation
Indices: 23668760--23668808 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
23668750 TTCCTTAGAA
23668760 TTTTTT-GTATTTCCTCAC
1 TTTTTTGGTATTTCCTCAC
23668778 TTTTTTGGTATTTCCTCA-
1 TTTTTTGGTATTTCCTCAC
23668796 TAATTTTTGGTAT
1 T--TTTTTGGTAT
23668809 GTAACACTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.25
19 11 0.39
20 10 0.36
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.61
Consensus pattern (19 bp):
TTTTTTGGTATTTCCTCAC
Found at i:23668802 original size:20 final size:20
Alignment explanation
Indices: 23668740--23668808 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
23668730 AATATATATT
* * *
23668740 TTTTTGGTACTTCCTTAGAA
1 TTTTTGGTATTTCCTCATAA
*
23668760 TTTTTTGTATTTCCTCACT--
1 TTTTTGGTATTTCCTCA-TAA
23668779 TTTTTGGTATTTCCTCATAA
1 TTTTTGGTATTTCCTCATAA
23668799 TTTTTGGTAT
1 TTTTTGGTAT
23668809 GTAACACTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 1 0.02
19 16 0.39
20 24 0.59
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.58
Consensus pattern (20 bp):
TTTTTGGTATTTCCTCATAA
Found at i:23670304 original size:43 final size:43
Alignment explanation
Indices: 23670228--23670353 Score: 123
Period size: 43 Copynumber: 2.9 Consensus size: 43
23670218 TCTGACACCG
23670228 TAGTGCATCATCGGATCAACTGAACGAAGTATACTGGCACCTA
1 TAGTGCATCATCGGATCAACTGAACGAAGTATACTGGCACCTA
* * * * *
23670271 TAGTGCATCATTGGA-CAAGTCGAAGGAATTATACTGGCACATA
1 TAGTGCATCATCGGATCAACT-GAACGAAGTATACTGGCACCTA
* * * *
23670314 -AGGTGCATTATCGGATGAACCGAAGCG-ATTATACTGGCAC
1 TA-GTGCATCATCGGATCAACTGAA-CGAAGTATACTGGCAC
23670354 ATAGGTGCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
42 5 0.07
43 60 0.88
44 3 0.04
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (43 bp):
TAGTGCATCATCGGATCAACTGAACGAAGTATACTGGCACCTA
Found at i:23670430 original size:44 final size:42
Alignment explanation
Indices: 23670373--23670454 Score: 103
Period size: 44 Copynumber: 1.9 Consensus size: 42
23670363 TTGTCGGATA
**
23670373 AATCAAAGCAAATATTTTGGAACACGTAAGTGCATCATCAAATG
1 AATCAAAGCAAATATACTGGAACA-G-AAGTGCATCATCAAATG
*
23670417 AATCGAAA-CAAATATACTGGAACAGCAGTGCATCATCA
1 AATC-AAAGCAAATATACTGGAACAGAAGTGCATCATCA
23670455 GATAAACTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 12 0.35
43 1 0.03
44 18 0.53
45 3 0.09
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (42 bp):
AATCAAAGCAAATATACTGGAACAGAAGTGCATCATCAAATG
Found at i:23671505 original size:15 final size:15
Alignment explanation
Indices: 23671487--23671528 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23671477 ATAGTTAAGT
23671487 TTATTTTAATTAAAC
1 TTATTTTAATTAAAC
23671502 TTA-TTTAATT-AAC
1 TTATTTTAATTAAAC
*
23671515 TTAATTATAATTAA
1 TT-ATTTTAATTAA
23671529 TTAGGCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 5 0.22
14 8 0.35
15 9 0.39
16 1 0.04
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (15 bp):
TTATTTTAATTAAAC
Found at i:23671505 original size:29 final size:29
Alignment explanation
Indices: 23671471--23671528 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
23671461 CACTTAATTT
* * * *
23671471 ACTTATATAGTTAAGTTTATTTTAATTAA
1 ACTTATATAATTAACTTAATTATAATTAA
*
23671500 ACTTATTTAATTAACTTAATTATAATTAA
1 ACTTATATAATTAACTTAATTATAATTAA
23671529 TTAGGCTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.50
Consensus pattern (29 bp):
ACTTATATAATTAACTTAATTATAATTAA
Found at i:23671508 original size:14 final size:15
Alignment explanation
Indices: 23671491--23671528 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
23671481 TTAAGTTTAT
23671491 TTTAATTAAACTT-A
1 TTTAATTAAACTTAA
23671505 TTTAATT-AACTTAA
1 TTTAATTAAACTTAA
23671519 TTATAATTAA
1 TT-TAATTAA
23671529 TTAGGCTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.24
14 10 0.48
15 5 0.24
16 1 0.05
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAATTAAACTTAA
Found at i:23672179 original size:21 final size:21
Alignment explanation
Indices: 23672147--23672239 Score: 79
Period size: 20 Copynumber: 4.6 Consensus size: 21
23672137 TTTTATAGTC
*
23672147 CCTCGTAA-TTTTTGTTACTT
1 CCTCATAATTTTTTGTTACTT
*
23672167 CCTCATAATTTTTTGGTA-TT
1 CCTCATAATTTTTTGTTACTT
23672187 CTCTCATAATTTTTTG-TACTT
1 C-CTCATAATTTTTTGTTACTT
* * * * *
23672208 ACTCAGAA-ATTTTATTACTC
1 CCTCATAATTTTTTGTTACTT
23672228 CCTCAT-ATTTTT
1 CCTCATAATTTTT
23672240 GGTACTTTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
19 5 0.09
20 29 0.50
21 24 0.41
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (21 bp):
CCTCATAATTTTTTGTTACTT
Found at i:23672200 original size:22 final size:21
Alignment explanation
Indices: 23672147--23672246 Score: 79
Period size: 21 Copynumber: 5.0 Consensus size: 21
23672137 TTTTATAGTC
* *
23672147 CCTCGTAA-TTTTTGTTACTT
1 CCTCATAATTTTTTGGTACTT
23672167 CCTCATAATTTTTTGGTA-TT
1 CCTCATAATTTTTTGGTACTT
23672187 CTCTCATAATTTTTT-GTACTT
1 C-CTCATAATTTTTTGGTACTT
* * * *
23672208 ACTCAGAAATTTTAT--TACTC
1 CCTCA-TAATTTTTTGGTACTT
23672228 CCTCAT-A-TTTTTGGTACTT
1 CCTCATAATTTTTTGGTACTT
23672247 TTAGATAAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
17 4 0.06
18 1 0.02
19 4 0.06
20 25 0.39
21 30 0.47
ACGTcount: A:0.21, C:0.19, G:0.08, T:0.52
Consensus pattern (21 bp):
CCTCATAATTTTTTGGTACTT
Found at i:23672450 original size:19 final size:20
Alignment explanation
Indices: 23672426--23672471 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
23672416 CCAAGCAATT
* *
23672426 TTTTTTTGTACTTC-TCATG
1 TTTTTTTCTACTTCTTCATA
23672445 TTTTTTTCTACTTCTTCATA
1 TTTTTTTCTACTTCTTCATA
23672465 TTTTTTT
1 TTTTTTT
23672472 ATATTCCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.11, C:0.15, G:0.04, T:0.70
Consensus pattern (20 bp):
TTTTTTTCTACTTCTTCATA
Found at i:23680929 original size:6 final size:6
Alignment explanation
Indices: 23680920--23680946 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23680910 AGTCGGCGAA
23680920 GGCAAT GGCAAT GGCAAT GGCAAT GGC
1 GGCAAT GGCAAT GGCAAT GGCAAT GGC
23680947 GGCGGCTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.37, T:0.15
Consensus pattern (6 bp):
GGCAAT
Found at i:23681771 original size:4 final size:4
Alignment explanation
Indices: 23681755--23681786 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
23681745 AGGAATAATC
*
23681755 TTTA TTCA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
23681787 CTAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:23689672 original size:18 final size:19
Alignment explanation
Indices: 23689651--23689687 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
23689641 TAAAATAATA
23689651 TTAAAT-TAATTATATATG
1 TTAAATATAATTATATATG
23689669 TTAAATAATAATTATATAT
1 TTAAAT-ATAATTATATAT
23689688 ATTTATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TTAAATATAATTATATATG
Found at i:23690891 original size:123 final size:124
Alignment explanation
Indices: 23690670--23690920 Score: 486
Period size: 123 Copynumber: 2.0 Consensus size: 124
23690660 TCATCATGCG
23690670 AATCAAAGTTGCCACCCTGGCCAACAACGTAACAATTAAATAAGGCTAATTTGTTCTTAACAATT
1 AATCAAAGTTG-CACCCTGGCCAACAACGTAACAATTAAATAAGGCTAATTTGTTCTTAACAATT
23690735 TTTGTTAATCACTTAAAAACGTAAATATATATATATATATATGAAAATATTCATTAAAAA
65 TTTGTTAATCACTTAAAAACGTAAATATATATATATATATATGAAAATATTCATTAAAAA
23690795 AATCAAAGTTG-ACCCTGGCCAACAACGTAACAATTAAATAAGGCTAATTTGTTCTTAACAATTT
1 AATCAAAGTTGCACCCTGGCCAACAACGTAACAATTAAATAAGGCTAATTTGTTCTTAACAATTT
23690859 TTGTTAATCACTTAAAAACGTAAATATATATATATATATATGAAAATATTCATTAAAAA
66 TTGTTAATCACTTAAAAACGTAAATATATATATATATATATGAAAATATTCATTAAAAA
23690918 AAT
1 AAT
23690921 AGGAAAATAT
Statistics
Matches: 126, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
123 115 0.91
125 11 0.09
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.33
Consensus pattern (124 bp):
AATCAAAGTTGCACCCTGGCCAACAACGTAACAATTAAATAAGGCTAATTTGTTCTTAACAATTT
TTGTTAATCACTTAAAAACGTAAATATATATATATATATATGAAAATATTCATTAAAAA
Found at i:23698913 original size:3 final size:3
Alignment explanation
Indices: 23698905--23698935 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
23698895 NNNNNNNNNN
23698905 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
23698936 TACATTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:23699522 original size:19 final size:19
Alignment explanation
Indices: 23699475--23699569 Score: 127
Period size: 19 Copynumber: 4.8 Consensus size: 19
23699465 CAAATTAAAT
*
23699475 TCTAAGATTGCAAAATCATATA
1 TCTAAGATTGC-ATATC--ATA
23699497 TTCTAAGATTGCATATCATA
1 -TCTAAGATTGCATATCATA
**
23699517 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
23699536 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
23699555 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
23699570 ATCAAAAAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 49 0.73
20 3 0.04
22 4 0.06
23 11 0.16
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:23702167 original size:25 final size:25
Alignment explanation
Indices: 23702139--23702246 Score: 74
Period size: 25 Copynumber: 4.3 Consensus size: 25
23702129 AGGCTCTCAC
* * *
23702139 GAGCTTCCCGTTATTTATCTCTTAT
1 GAGCTTCCCGATACTTAGCTCTTAT
* *
23702164 GAGCTTCCCGATACTTGGCTTTTAT
1 GAGCTTCCCGATACTTAGCTCTTAT
* * * * *
23702189 GAGCTTCCTGATTA-ATGGCTCGTAG
1 GAGCTTCCCGA-TACTTAGCTCTTAT
* * * *
23702214 GAGCTTCCCGATATTTGGCTCGTAA
1 GAGCTTCCCGATACTTAGCTCTTAT
23702239 GAGCTTCC
1 GAGCTTCC
23702247 TATTACATGG
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
24 2 0.03
25 64 0.94
26 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (25 bp):
GAGCTTCCCGATACTTAGCTCTTAT
Found at i:23702257 original size:25 final size:25
Alignment explanation
Indices: 23702189--23702294 Score: 90
Period size: 25 Copynumber: 4.2 Consensus size: 25
23702179 TGGCTTTTAT
*
23702189 GAGCTTCCTGATTA-ATGGCTCGTAG
1 GAGCTTCCT-ATTATATGGCTCGTAA
* *
23702214 GAGCTTCCCGA-TATTTGGCTCGTAA
1 GAGCTT-CCTATTATATGGCTCGTAA
* ** *
23702239 GAGCTTCCTATTACATGGCTCACAT
1 GAGCTTCCTATTATATGGCTCGTAA
* * *
23702264 GAGCTTCCCATTATATAGCTCGAAA
1 GAGCTTCCTATTATATGGCTCGTAA
23702289 GAGCTT
1 GAGCTT
23702295 TTCGATTACA
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
24 5 0.08
25 56 0.89
26 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (25 bp):
GAGCTTCCTATTATATGGCTCGTAA
Found at i:23702268 original size:50 final size:50
Alignment explanation
Indices: 23702162--23702294 Score: 144
Period size: 50 Copynumber: 2.7 Consensus size: 50
23702152 TTTATCTCTT
* ** * **
23702162 ATGAGCTTCCCGATACTTGGCTTTTATGAGCTTCCTGATTAATGGCTCGT
1 ATGAGCTTCCCGATATTTGGCTCGTAAGAGCTTCCTGATTAATGGCTCAC
*
23702212 AGGAGCTTCCCGATATTTGGCTCGTAAGAGCTTCCT-ATTACATGGCTCAC
1 ATGAGCTTCCCGATATTTGGCTCGTAAGAGCTTCCTGATTA-ATGGCTCAC
* * *
23702262 ATGAGCTTCCC-ATTATATAGCTCGAAAGAGCTT
1 ATGAGCTTCCCGA-TATTTGGCTCGTAAGAGCTT
23702295 TTCGATTACA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 5 0.07
50 65 0.93
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (50 bp):
ATGAGCTTCCCGATATTTGGCTCGTAAGAGCTTCCTGATTAATGGCTCAC
Found at i:23702311 original size:50 final size:50
Alignment explanation
Indices: 23702214--23702313 Score: 114
Period size: 50 Copynumber: 2.0 Consensus size: 50
23702204 TGGCTCGTAG
* * * * *
23702214 GAGCTTCCCGATATTTGGCTCGTAAGAGCTTCCTATTACATGGCTCACAT
1 GAGCTTCCCGATATATAGCTCGAAAGAGCTTCCGATTACATGACTCACAT
*
23702264 GAGCTTCCC-ATTATATAGCTCGAAAGAGCTTTTCGATTACAT-ACTCACAT
1 GAGCTTCCCGA-TATATAGCTCGAAAGAGC-TTCCGATTACATGACTCACAT
23702314 AGGCATACCT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
49 1 0.02
50 31 0.74
51 10 0.24
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (50 bp):
GAGCTTCCCGATATATAGCTCGAAAGAGCTTCCGATTACATGACTCACAT
Found at i:23724492 original size:13 final size:13
Alignment explanation
Indices: 23724476--23724513 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
23724466 TAAACCAAAT
23724476 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
23724489 TTTTTAAAAACAC
1 TTTTCAAAAGCAC
23724502 TTTTCAAAAGCA
1 TTTTCAAAAGCA
23724514 ATGAAGAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:23731251 original size:79 final size:79
Alignment explanation
Indices: 23731120--23731279 Score: 320
Period size: 79 Copynumber: 2.0 Consensus size: 79
23731110 TATAAACTTA
23731120 ATTTGGAGAAAGACTCATACTAAGTTTTATAATTTTTTATAATACATAAATTAAGTAAAAATAAT
1 ATTTGGAGAAAGACTCATACTAAGTTTTATAATTTTTTATAATACATAAATTAAGTAAAAATAAT
23731185 ATAATTTATAATAT
66 ATAATTTATAATAT
23731199 ATTTGGAGAAAGACTCATACTAAGTTTTATAATTTTTTATAATACATAAATTAAGTAAAAATAAT
1 ATTTGGAGAAAGACTCATACTAAGTTTTATAATTTTTTATAATACATAAATTAAGTAAAAATAAT
23731264 ATAATTTATAATAT
66 ATAATTTATAATAT
23731278 AT
1 AT
23731280 ATATAAGGTT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (79 bp):
ATTTGGAGAAAGACTCATACTAAGTTTTATAATTTTTTATAATACATAAATTAAGTAAAAATAAT
ATAATTTATAATAT
Found at i:23734755 original size:137 final size:138
Alignment explanation
Indices: 23734587--23734864 Score: 549
Period size: 137 Copynumber: 2.0 Consensus size: 138
23734577 TATATATTTT
23734587 AAAAATCCGCCATCGATTTTTGTAATATTTTTTTTCCTTAAGAAATCAAATTCAGATTTAAATAT
1 AAAAATCCGCCATCGATTTTTGTAATATTTTTTTTCCTTAAGAAATCAAATTCAGATTTAAATAT
23734652 TTTAAAGCTAGAGGGTACCAACTTAATATTCGTTCAAAGAAGAGGTACGATTATCCCCTTTATTT
66 TTTAAAGCTAGAGGGTACCAACTTAATATTCGTTCAAAGAAGAGGTACGATTATCCCCTTTATTT
23734717 ATAAGCTA
131 ATAAGCTA
23734725 AAAAATCCGCCA-CGATTTTTGTAATATTTTTTTTCCTTAAGAAATCAAATTCAGATTTAAATAT
1 AAAAATCCGCCATCGATTTTTGTAATATTTTTTTTCCTTAAGAAATCAAATTCAGATTTAAATAT
23734789 TTTAAAGCTAGAGGGTACCAACTTAATATTCGTTCAAAGAAGAGGTACGATTATCCCCTTTATTT
66 TTTAAAGCTAGAGGGTACCAACTTAATATTCGTTCAAAGAAGAGGTACGATTATCCCCTTTATTT
23734854 ATAAGCTA
131 ATAAGCTA
23734862 AAA
1 AAA
23734865 TGAATGGATT
Statistics
Matches: 140, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
137 128 0.91
138 12 0.09
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (138 bp):
AAAAATCCGCCATCGATTTTTGTAATATTTTTTTTCCTTAAGAAATCAAATTCAGATTTAAATAT
TTTAAAGCTAGAGGGTACCAACTTAATATTCGTTCAAAGAAGAGGTACGATTATCCCCTTTATTT
ATAAGCTA
Found at i:23735570 original size:34 final size:35
Alignment explanation
Indices: 23735526--23735592 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
23735516 CAGTAAAATA
* *
23735526 TTTTCCGTAAAATGA-TTTCTAGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTAGAAAATATTTTAC
* *
23735560 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTAGAAAATATTTT
23735593 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTAGAAAATATTTTAC
Found at i:23740710 original size:16 final size:16
Alignment explanation
Indices: 23740689--23740720 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23740679 ATCAAGAAAG
23740689 TAGAGGAGGAAAAACA
1 TAGAGGAGGAAAAACA
23740705 TAGAGGAGGAAAAACA
1 TAGAGGAGGAAAAACA
23740721 GCAGAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.31, T:0.06
Consensus pattern (16 bp):
TAGAGGAGGAAAAACA
Found at i:23744333 original size:41 final size:42
Alignment explanation
Indices: 23744244--23744342 Score: 130
Period size: 41 Copynumber: 2.4 Consensus size: 42
23744234 ACGTCGCAAA
* *
23744244 CGTTTGCAGCGTTTTTTTCTAAGTGCCGCTAAAGAACATTAT
1 CGTTAGCAGCGTTTTTTTCTAAGCGCCGCTAAAGAACATTAT
*
23744286 CTTTAGCAGCGTTTTTTT-TAAGCGCCGCTAAAGAACATGT-T
1 CGTTAGCAGCGTTTTTTTCTAAGCGCCGCTAAAGAACAT-TAT
* *
23744327 CGTTAGCGGCGCTTTT
1 CGTTAGCAGCGTTTTT
23744343 ATAAAAAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 33 0.66
42 17 0.34
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (42 bp):
CGTTAGCAGCGTTTTTTTCTAAGCGCCGCTAAAGAACATTAT
Found at i:23746613 original size:27 final size:28
Alignment explanation
Indices: 23746566--23746621 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
23746556 CATTGTAAAA
23746566 CCAAATTGATCTTGCTTAATTCCACGAG
1 CCAAATTGATCTTGCTTAATTCCACGAG
23746594 CCAAATTGAT-TTGCTTAATTCCACGAG
1 CCAAATTGATCTTGCTTAATTCCACGAG
23746621 C
1 C
23746622 TGTATTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (28 bp):
CCAAATTGATCTTGCTTAATTCCACGAG
Found at i:23748886 original size:9 final size:9
Alignment explanation
Indices: 23748872--23749053 Score: 162
Period size: 9 Copynumber: 20.9 Consensus size: 9
23748862 TTTTTATGTA
23748872 TTATGTAAG
1 TTATGTAAG
23748881 TTATGTAAG
1 TTATGTAAG
*
23748890 TTGTGT-A-
1 TTATGTAAG
*
23748897 TTATGTGAG
1 TTATGTAAG
*
23748906 TTATGTGAG
1 TTATGTAAG
23748915 TTATGTAAG
1 TTATGTAAG
*
23748924 TTATGGAAG
1 TTATGTAAG
* *
23748933 TTATTTAAT
1 TTATGTAAG
23748942 TTATGTAAG
1 TTATGTAAG
23748951 TTATGTAAG
1 TTATGTAAG
*
23748960 TTATGTAGG
1 TTATGTAAG
*
23748969 CTATGT-A-
1 TTATGTAAG
* *
23748976 TTATCTAAA
1 TTATGTAAG
*
23748985 TAATGTAAG
1 TTATGTAAG
* *
23748994 TTA-GGAATC
1 TTATGTAA-G
23749003 TTATGT-A-
1 TTATGTAAG
23749010 TTATGTAAG
1 TTATGTAAG
*
23749019 TTATGCAAG
1 TTATGTAAG
* *
23749028 TTATTTAAT
1 TTATGTAAG
23749037 TTATGTAAG
1 TTATGTAAG
23749046 TTATGTAA
1 TTATGTAA
23749054 TTAGAAATTT
Statistics
Matches: 138, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
7 15 0.11
8 7 0.05
9 115 0.83
10 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:23749029 original size:34 final size:35
Alignment explanation
Indices: 23748865--23749053 Score: 149
Period size: 34 Copynumber: 5.4 Consensus size: 35
23748855 TGATATATTT
* *
23748865 TTATGTATTATGTAAGTTATGTAAGTTGT-G--TA
1 TTATGTATTATGTAAGTTATGTAAGTTATGGAATC
* *
23748897 TTATGTGAGTTATGTGAGTTATGTAAGTTATGGAA-G
1 TTATGT-A-TTATGTAAGTTATGTAAGTTATGGAATC
* * **
23748933 TTATTTAATTTATGTAAGTTATGTAAGTTATGTAGGC
1 TTATGT-A-TTATGTAAGTTATGTAAGTTATGGAATC
* * *
23748970 -TATGTATTATCTAAATAATGTAAGTTA-GGAATC
1 TTATGTATTATGTAAGTTATGTAAGTTATGGAATC
* **
23749003 TTATGTATTATGTAAGTTATGCAAGTTATTTAAT-
1 TTATGTATTATGTAAGTTATGTAAGTTATGGAATC
23749037 TTATGTAAGTTATGTAA
1 TTATGT-A-TTATGTAA
23749054 TTAGAAATTT
Statistics
Matches: 124, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
32 6 0.05
33 4 0.03
34 67 0.54
35 6 0.05
36 41 0.33
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (35 bp):
TTATGTATTATGTAAGTTATGTAAGTTATGGAATC
Found at i:23749086 original size:37 final size:37
Alignment explanation
Indices: 23749033--23749114 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
23749023 GCAAGTTATT
* *
23749033 TAAT-TTATGTAAGTTATGTAATTAGAAATTTTATCA
1 TAATATTATCTAAGTTATGTAATTAGAAATTTGATCA
* *
23749069 TAATATTATCTAAGTTATGTAATTCGAAATTTGATCT
1 TAATATTATCTAAGTTATGTAATTAGAAATTTGATCA
23749106 TAATATTAT
1 TAATATTAT
23749115 AAAAGTAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 4 0.10
37 37 0.90
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (37 bp):
TAATATTATCTAAGTTATGTAATTAGAAATTTGATCA
Found at i:23749127 original size:20 final size:20
Alignment explanation
Indices: 23749102--23749140 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
23749092 TCGAAATTTG
23749102 ATCTTAATATTATAAAAGTA
1 ATCTTAATATTATAAAAGTA
*
23749122 ATCTTAATATTATATAAGT
1 ATCTTAATATTATAAAAGT
23749141 TATGTAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
ATCTTAATATTATAAAAGTA
Found at i:23751651 original size:147 final size:146
Alignment explanation
Indices: 23751440--23751782 Score: 384
Period size: 147 Copynumber: 2.3 Consensus size: 146
23751430 CGGCCTCGTA
* * * *
23751440 TCGATAAATGCTAAAACATTTTTGCGGCGTTTTAATTAAAGCGCCACTAACTATAAATCAAAACG
1 TCGATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAATCAAAACG
* * * * * * *
23751505 CAGTCGTTTCATCAACACTTACCTCAAACCCGTGGCGTTTTCAAAAAATCGCCACTAATAACATT
66 AAGTCATTTCACCAACACTTAACTCAAACCCGTGGCGTTTCCAAAAAA-AGCCACTAATAACATA
* * * *
23751570 TAAAAAATGGCAGCATT
130 GAAAAAACGACAACATT
* *
23751587 TCTATAAATGTTAGAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATC-AAAC
1 TCGATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAA-ATCAAAAC
* * * ** *
23751651 GAAGTCATTTCCCCAACAGTTAACTCAATCTTGTGGCGTTTCCAAAAAAAGCCACTAATACCATA
65 GAAGTCATTTCACCAACACTTAACTCAAACCCGTGGCGTTTCCAAAAAAAGCCACTAATAACATA
*
23751716 GACAAAACGACAACATT
130 GAAAAAACGACAACATT
** * * *
23751733 TCGATAAA-CATAACTACAATTTTGCGGCGTTTCATGTAAAGCGCCACTAA
1 TCGATAAATGTTAA-AACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAA
23751783 TAGCAACGTA
Statistics
Matches: 163, Mismatches: 31, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
145 2 0.01
146 65 0.40
147 93 0.57
148 3 0.02
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (146 bp):
TCGATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAATCAAAACG
AAGTCATTTCACCAACACTTAACTCAAACCCGTGGCGTTTCCAAAAAAAGCCACTAATAACATAG
AAAAAACGACAACATT
Found at i:23751994 original size:19 final size:19
Alignment explanation
Indices: 23751970--23752006 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23751960 CGCCGTTCCC
*
23751970 CTTCCCAGTTACAGGATAA
1 CTTCCCACTTACAGGATAA
23751989 CTTCCCACTTACAGGATA
1 CTTCCCACTTACAGGATA
23752007 CAAATTTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (19 bp):
CTTCCCACTTACAGGATAA
Found at i:23752637 original size:25 final size:25
Alignment explanation
Indices: 23752609--23752662 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
23752599 ATATTGCTTG
23752609 TTTAAACCCTAAAAAATAACTTTTC
1 TTTAAACCCTAAAAAATAACTTTTC
* *** *
23752634 TTTATATTTTTAAAAATAACTTTTC
1 TTTAAACCCTAAAAAATAACTTTTC
23752659 TTTA
1 TTTA
23752663 TATTTTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTAAACCCTAAAAAATAACTTTTC
Found at i:23752671 original size:26 final size:25
Alignment explanation
Indices: 23752620--23752669 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
23752610 TTAAACCCTA
23752620 AAAAATAACTTTTCTTTATATTTTT
1 AAAAATAACTTTTCTTTATATTTTT
23752645 AAAAATAACTTTTCTTTATATTTTT
1 AAAAATAACTTTTCTTTATATTTTT
23752670 TATCAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (25 bp):
AAAAATAACTTTTCTTTATATTTTT
Found at i:23753410 original size:114 final size:111
Alignment explanation
Indices: 23753212--23753595 Score: 391
Period size: 114 Copynumber: 3.4 Consensus size: 111
23753202 GCTTGTTAAT
* * *
23753212 AAACGCCGCTAAATCCCCCAATGCTAAGTAAAACGACCTCGTTGGGCTTAGGTTT-TTTGCGGCG
1 AAACGCCGCTAAATCCCCGAATGCTCAG-AAAACGACGTCGTT-GGCTTAGGTTTCTTTGCGGCG
* *
23753276 CTTTCCAAAAAATGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCTCCAT
64 C-TTCC-AAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCTCCAA
* * * *
23753326 AAACGCCGCTAAATCCCCGAATACTCAGAGAACGGCGTCGTTCGGCTTATGTTTCTTTGCGGCGC
1 AAACGCCGCTAAATCCCCGAATGCTCAGAAAACGACGTCGTT-GGCTTAGGTTTCTTTGCGGCGC
* ** * * *
23753391 TTCCACAGAAACGCCGCTAAAGTACTAAACATTGGCGGCG-TTAC-CTCAA
65 TTCCA-A-AAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT-CTC-CAA
* * *
23753440 AAACGCCGCTAAGTCACCGAATGCTCAGAAAACGACGTCGTTGGTCTTAGGTTTCTTTGCGGTGA
1 AAACGCCGCTAAATCCCCGAATGCTCAGAAAACGACGTCGTTGG-CTTAGGTTTCTTTGCGGCG-
* * * *
23753505 ATTCTCAAAAATGCCGCTAAATCCCTGAGCTTTAGCGGCGCTTCAT-AAA
64 CTTC-CAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTC-TCCAA
* *
23753554 AAATGCCGCTAAATCCCCGAATG-TGCGGAAAACGACGTCGTT
1 AAACGCCGCTAAATCCCCGAATGCT-CAGAAAACGACGTCGTT
23753596 CGGCCGAGGT
Statistics
Matches: 221, Mismatches: 37, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
112 1 0.00
113 32 0.14
114 180 0.81
115 6 0.03
116 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (111 bp):
AAACGCCGCTAAATCCCCGAATGCTCAGAAAACGACGTCGTTGGCTTAGGTTTCTTTGCGGCGCT
TCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCTCCAA
Found at i:23753676 original size:40 final size:40
Alignment explanation
Indices: 23753628--23753718 Score: 173
Period size: 40 Copynumber: 2.3 Consensus size: 40
23753618 TTATAGAAAT
23753628 CGCCGCTAATGCTTATTCTTCAGCGGCGTTTTCCGTAAAG
1 CGCCGCTAATGCTTATTCTTCAGCGGCGTTTTCCGTAAAG
*
23753668 CGCTGCTAATGCTTATTCTTCAGCGGCGTTTTCCGTAAAG
1 CGCCGCTAATGCTTATTCTTCAGCGGCGTTTTCCGTAAAG
23753708 CGCCGCTAATG
1 CGCCGCTAATG
23753719 ATTGATCTGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (40 bp):
CGCCGCTAATGCTTATTCTTCAGCGGCGTTTTCCGTAAAG
Found at i:23753733 original size:40 final size:40
Alignment explanation
Indices: 23753628--23753734 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 40
23753618 TTATAGAAAT
* *
23753628 CGCCGCTAATGCTTATTCTTCAGCGGCGTTTTCCGTAAAG
1 CGCCGCTAATGATTATTCTGCAGCGGCGTTTTCCGTAAAG
* * *
23753668 CGCTGCTAATGCTTATTCTTCAGCGGCGTTTTCCGTAAAG
1 CGCCGCTAATGATTATTCTGCAGCGGCGTTTTCCGTAAAG
*
23753708 CGCCGCTAATGATTGA-TCTGGAGCGGC
1 CGCCGCTAATGATT-ATTCTGCAGCGGC
23753735 ATTTGTTATC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 60 0.98
41 1 0.02
ACGTcount: A:0.18, C:0.26, G:0.25, T:0.31
Consensus pattern (40 bp):
CGCCGCTAATGATTATTCTGCAGCGGCGTTTTCCGTAAAG
Found at i:23754556 original size:60 final size:61
Alignment explanation
Indices: 23754431--23754564 Score: 152
Period size: 59 Copynumber: 2.2 Consensus size: 61
23754421 TTATTAAGAC
* *
23754431 ATCTTTTTTGGTCA-TCCAACTATAAAAAATTACAAAATGTTACTCAACTATTACTAAATT
1 ATCTTTTTTGGTCACTCCAACTATAAAAAATTACAAAATGTCACCCAACTATTACTAAATT
* * * *
23754491 -TCTTTTTTGGTCACT-CAATTATGAAAAGTTACAAAATAGTCACCCAACTATT-C-AATTTT
1 ATCTTTTTTGGTCACTCCAACTATAAAAAATTACAAAAT-GTCACCCAACTATTACTAA-ATT
*
23754550 ATCTTTTTTAGTCAC
1 ATCTTTTTTGGTCAC
23754565 CATTGGGATA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
58 2 0.03
59 35 0.56
60 26 0.41
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (61 bp):
ATCTTTTTTGGTCACTCCAACTATAAAAAATTACAAAATGTCACCCAACTATTACTAAATT
Found at i:23755151 original size:55 final size:55
Alignment explanation
Indices: 23755058--23755188 Score: 131
Period size: 57 Copynumber: 2.3 Consensus size: 55
23755048 TGATAGTTGG
* * * * **
23755058 GTGACCATTTTGTAACTTTTTCATAGTTAGGTGAC-AAAAAAATACTAATAGTTAA
1 GTGACCATTTTATAAC-TTTTAATAATTAGATGACAAAAAAAATACTAATAACTAA
23755113 GTGACCATTTTATAACTTTTAATAATT-GATCGATCAAAAAAAAATACTAATAACTAA
1 GTGACCATTTTATAACTTTTAATAATTAGAT-GA-C-AAAAAAAATACTAATAACTAA
* *
23755170 GTGACTACTTGTATAACTT
1 GTGACCA-TTTTATAACTT
23755189 ACCCAAAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
53 2 0.03
54 11 0.17
55 16 0.25
57 24 0.38
58 10 0.16
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.36
Consensus pattern (55 bp):
GTGACCATTTTATAACTTTTAATAATTAGATGACAAAAAAAATACTAATAACTAA
Found at i:23755409 original size:18 final size:18
Alignment explanation
Indices: 23755386--23755420 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23755376 TTGAAATAAT
*
23755386 ATTTTTTAAATAATAAAC
1 ATTTTTTAAAAAATAAAC
23755404 ATTTTTTAAAAAATAAA
1 ATTTTTTAAAAAATAAA
23755421 AATGTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTTTTAAAAAATAAAC
Found at i:23762500 original size:3 final size:3
Alignment explanation
Indices: 23762485--23762524 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
23762475 TAAATAATAA
23762485 ATT A-T ATT AATT ATT ATT ATT ATT ATT ATT ATT A-T ATT AT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
23762525 GAAATAAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 27 0.79
4 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:23770105 original size:25 final size:25
Alignment explanation
Indices: 23770061--23770110 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
23770051 TTCCGTGTGC
*
23770061 GAAAAAATAATATTAATTATGATTT
1 GAAAAAATAATATTAATTATAATTT
*
23770086 GAAAGAAATAATATT-TTTATAATTT
1 GAAA-AAATAATATTAATTATAATTT
23770111 TATAACTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (25 bp):
GAAAAAATAATATTAATTATAATTT
Found at i:23771891 original size:17 final size:19
Alignment explanation
Indices: 23771869--23771903 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
23771859 CTAAAATAGT
23771869 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
23771886 AACAAAAGTTATACAATA
1 AACAAAAGTTATACAATA
23771904 TCGAAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:23778164 original size:21 final size:21
Alignment explanation
Indices: 23778140--23778183 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
23778130 TCATTGTTAT
* *
23778140 ATACTTATAATAACATTTGAG
1 ATACGTATAACAACATTTGAG
*
23778161 ATACGTGTAACAACATTTGAG
1 ATACGTATAACAACATTTGAG
23778182 AT
1 AT
23778184 TCCAATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (21 bp):
ATACGTATAACAACATTTGAG
Found at i:23779202 original size:21 final size:21
Alignment explanation
Indices: 23779168--23779210 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
23779158 CTCTCTTAAC
23779168 AAAAATTTAAAAATTTTCAAAAA
1 AAAAATTT-AAAATTTT-AAAAA
23779191 AAAAATTT-AAATTTTAAAAA
1 AAAAATTTAAAATTTTAAAAA
23779211 TCCAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 7 0.35
23 8 0.40
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATTTAAAATTTTAAAAA
Found at i:23779291 original size:11 final size:11
Alignment explanation
Indices: 23779275--23779323 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
23779265 ATATATATAT
23779275 AAAATCTAAAA
1 AAAATCTAAAA
*
23779286 AAAATCTAAAG
1 AAAATCTAAAA
* *
23779297 AATATATAAAA
1 AAAATCTAAAA
*
23779308 AAATTCTAAAA
1 AAAATCTAAAA
*
23779319 TAAAT
1 AAAAT
23779324 AAATTTGGGG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.24
Consensus pattern (11 bp):
AAAATCTAAAA
Found at i:23779320 original size:20 final size:22
Alignment explanation
Indices: 23779281--23779326 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
23779271 ATATAAAATC
*
23779281 TAAAAAAAATCTAAAGAATATA
1 TAAAAAAAATCTAAAGAATAAA
*
23779303 TAAAAAAATTCT-AA-AATAAA
1 TAAAAAAAATCTAAAGAATAAA
23779323 TAAA
1 TAAA
23779327 TTTGGGGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 2 0.09
22 11 0.50
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (22 bp):
TAAAAAAAATCTAAAGAATAAA
Found at i:23783600 original size:45 final size:45
Alignment explanation
Indices: 23783550--23783947 Score: 510
Period size: 45 Copynumber: 8.8 Consensus size: 45
23783540 AAAGTGTAGG
* * * **
23783550 TCTTGTCTTTCTATATTGGCAGTGAAGTAGATCAAAGATAGTAGA
1 TCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAACAGA
* * *
23783595 TCTTGTCTTCCTATATTTGTAGTGAAGTAGATTGAAAATAACAGA
1 TCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAACAGA
23783640 TCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAACAGA
1 TCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAACAGA
* * * *
23783685 TCTTTTCTTCCTGTATTGGTAGTGAAGTAGATCAAAGATAGCAGA
1 TCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAACAGA
* ** *
23783730 TCTTGTCTTCCTATATTAGTAGTGGTGTAGATCGAAGATAACAAA
1 TCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAACAGA
* * * * *
23783775 TCTTGTTTTTCTGTATTGGCAGTGAAGTAGATCAAAGATAGA-AGA
1 TCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATA-ACAGA
* * *
23783820 TCTTGTCTTCCTACATTGGTAGCGGAGTAGATCGAAGATAACAGA
1 TCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAACAGA
* *
23783865 TCTTGTCTTCCCATATTGGTAGCGAAGTAGATCGAAGATAACAGA
1 TCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAACAGA
* * * *
23783910 TATTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
1 TCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGA
23783948 CTGAATAAAC
Statistics
Matches: 304, Mismatches: 47, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
44 1 0.00
45 302 0.99
46 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (45 bp):
TCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAACAGA
Found at i:23785484 original size:3 final size:3
Alignment explanation
Indices: 23785478--23785523 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
23785468 TTTTATCATC
* *
23785478 ATT ATT ATT ATT ATT ATTT ATT ATT ATT AAT ATT ATA ATT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23785524 TCCACGTACG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:23785506 original size:25 final size:25
Alignment explanation
Indices: 23785469--23785520 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
23785459 TTTTCTTCTT
* *
23785469 TTTATCATCATTATTATTATTATTA
1 TTTATCATCATTAATATTATAATTA
* *
23785494 TTTATTATTATTAATATTATAATTA
1 TTTATCATCATTAATATTATAATTA
23785519 TT
1 TT
23785521 ATTTCCACGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTATCATCATTAATATTATAATTA
Found at i:23788653 original size:16 final size:16
Alignment explanation
Indices: 23788634--23788665 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23788624 TCTAAATGAC
*
23788634 AATTGTTCTAAACATA
1 AATTGTCCTAAACATA
23788650 AATTGTCCTAAACATA
1 AATTGTCCTAAACATA
23788666 TTTGTTCTTG
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:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (16 bp):
AATTGTCCTAAACATA
Found at i:23795970 original size:11 final size:11
Alignment explanation
Indices: 23795954--23795985 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
23795944 TTTTATGATG
23795954 ACTATATAAAA
1 ACTATATAAAA
23795965 ACTATATAAAA
1 ACTATATAAAA
23795976 A-TAT-TAAAA
1 ACTATATAAAA
23795985 A
1 A
23795986 TTAAAATNNN
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 6 0.29
10 3 0.14
11 12 0.57
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (11 bp):
ACTATATAAAA
Found at i:23800284 original size:44 final size:44
Alignment explanation
Indices: 23800219--23800332 Score: 210
Period size: 44 Copynumber: 2.6 Consensus size: 44
23800209 GTCTCGACTT
*
23800219 TCATTTTCATATACTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
*
23800263 TTATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
23800307 TCATTTTCATATGCTTATCAAATATA
1 TCATTTTCATATGCTTATCAAATATA
23800333 GCATCTAGTT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.43
Consensus pattern (44 bp):
TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
Found at i:23800306 original size:22 final size:22
Alignment explanation
Indices: 23800237--23800307 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
23800227 ATATACTTAT
23800237 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
* * * *
23800259 CAAAT-T-A-TTTTCATATGCTTAT
1 CAAATATAAGTATT-GTAT--TAAC
23800281 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
23800303 CAAAT
1 CAAAT
23800308 CATTTTCATA
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
19 3 0.09
20 4 0.11
21 1 0.03
22 19 0.54
23 1 0.03
24 4 0.11
25 3 0.09
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.39
Consensus pattern (22 bp):
CAAATATAAGTATTGTATTAAC
Found at i:23800802 original size:13 final size:13
Alignment explanation
Indices: 23800783--23800859 Score: 118
Period size: 13 Copynumber: 5.9 Consensus size: 13
23800773 AACACTCAAT
*
23800783 TTCTCAAAAGCAT
1 TTCTCAAAAGCAC
*
23800796 TTATCAAAAGCAC
1 TTCTCAAAAGCAC
*
23800809 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
*
23800822 TTTTCAAAAGCAC
1 TTCTCAAAAGCAC
23800835 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
23800848 TTCTCAAAAGCA
1 TTCTCAAAAGCA
23800860 ATAAAGAACT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 57 1.00
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.26
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:23803683 original size:16 final size:15
Alignment explanation
Indices: 23803657--23803691 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
23803647 TAATGCTCTG
23803657 TTAGTGGAACAAATT
1 TTAGTGGAACAAATT
23803672 TTAGTCGGAACAAATT
1 TTAGT-GGAACAAATT
23803688 TTAG
1 TTAG
23803692 CCGGTAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (15 bp):
TTAGTGGAACAAATT
Found at i:23816734 original size:21 final size:21
Alignment explanation
Indices: 23816680--23816740 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
23816670 ATTATAAATT
*
23816680 TTTATTTAATAATAAA-AATC
1 TTTAGTTAATAATAAAGAATC
23816700 TTTAGTTTAATAATAAAGAA-C
1 TTTAG-TTAATAATAAAGAATC
*
23816721 TTTAGTTAATTAATCAAGAA
1 TTTAGTTAA-TAATAAAGAA
23816741 ATAATATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 8 0.22
21 26 0.72
22 2 0.06
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (21 bp):
TTTAGTTAATAATAAAGAATC
Found at i:23816734 original size:24 final size:21
Alignment explanation
Indices: 23816675--23816727 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
23816665 AATATATTAT
*
23816675 AAATTTTTA-TTTAATAATAA
1 AAATCTTTAGTTTAATAATAA
23816695 AAATCTTTAGTTTAATAATAA
1 AAATCTTTAGTTTAATAATAA
23816716 AGAA-CTTTAGTT
1 A-AATCTTTAGTT
23816728 AATTAATCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 8 0.27
21 20 0.67
22 2 0.07
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (21 bp):
AAATCTTTAGTTTAATAATAA
Found at i:23816876 original size:21 final size:21
Alignment explanation
Indices: 23816822--23816882 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
23816812 ATTATAAATT
*
23816822 TTTATTTAATAATAAA-AATC
1 TTTAGTTAATAATAAAGAATC
23816842 TTTAGTTTAATAATAAAGAA-C
1 TTTAG-TTAATAATAAAGAATC
*
23816863 TTTAGTTAATTAATCAAGAA
1 TTTAGTTAA-TAATAAAGAA
23816883 ATAATATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 8 0.22
21 26 0.72
22 2 0.06
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (21 bp):
TTTAGTTAATAATAAAGAATC
Found at i:23816876 original size:24 final size:21
Alignment explanation
Indices: 23816817--23816869 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
23816807 AATATATTAT
*
23816817 AAATTTTTA-TTTAATAATAA
1 AAATCTTTAGTTTAATAATAA
23816837 AAATCTTTAGTTTAATAATAA
1 AAATCTTTAGTTTAATAATAA
23816858 AGAA-CTTTAGTT
1 A-AATCTTTAGTT
23816870 AATTAATCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 8 0.27
21 20 0.67
22 2 0.07
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (21 bp):
AAATCTTTAGTTTAATAATAA
Found at i:23816912 original size:142 final size:143
Alignment explanation
Indices: 23816644--23816929 Score: 565
Period size: 142 Copynumber: 2.0 Consensus size: 143
23816634 TCAAAAGCAC
23816644 ATAATAAGAGATTATTTTAAAAATATATTATAAATTTTTATTTAATAATAAAAATCTTTAGTTTA
1 ATAATAAGAGATTATTTTAAAAATATATTATAAATTTTTATTTAATAATAAAAATCTTTAGTTTA
23816709 ATAATAAAGAACTTTAGTTAATTAATCAAGAAATAATATTATGAGAATACAGATAAAATACCATA
66 ATAATAAAGAACTTTAGTTAATTAATCAAGAAATAATATTATGAGAATACAGATAAAATACCATA
23816774 CTAATGATTTCAG
131 CTAATGATTTCAG
23816787 ATAATAAGAGA-TATTTTAAAAATATATTATAAATTTTTATTTAATAATAAAAATCTTTAGTTTA
1 ATAATAAGAGATTATTTTAAAAATATATTATAAATTTTTATTTAATAATAAAAATCTTTAGTTTA
23816851 ATAATAAAGAACTTTAGTTAATTAATCAAGAAATAATATTATGAGAATACAGATAAAATACCATA
66 ATAATAAAGAACTTTAGTTAATTAATCAAGAAATAATATTATGAGAATACAGATAAAATACCATA
23816916 CTAATGATTTCAG
131 CTAATGATTTCAG
23816929 A
1 A
23816930 ATTTCTTTTA
Statistics
Matches: 143, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
142 132 0.92
143 11 0.08
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (143 bp):
ATAATAAGAGATTATTTTAAAAATATATTATAAATTTTTATTTAATAATAAAAATCTTTAGTTTA
ATAATAAAGAACTTTAGTTAATTAATCAAGAAATAATATTATGAGAATACAGATAAAATACCATA
CTAATGATTTCAG
Found at i:23825956 original size:14 final size:14
Alignment explanation
Indices: 23825937--23826001 Score: 55
Period size: 14 Copynumber: 4.7 Consensus size: 14
23825927 ATTTTATAAT
23825937 TATATTTAAAACTA
1 TATATTTAAAACTA
* *
23825951 TATATTTGAAGCTA
1 TATATTTAAAACTA
23825965 TA-ACTTTAAAA-TA
1 TATA-TTTAAAACTA
*
23825978 AATATTT-AAACTGA
1 TATATTTAAAACT-A
*
23825992 AATATTTAAA
1 TATATTTAAA
23826002 GTCTTTTGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
12 3 0.07
13 8 0.20
14 28 0.68
15 2 0.05
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (14 bp):
TATATTTAAAACTA
Found at i:23827694 original size:23 final size:22
Alignment explanation
Indices: 23827656--23827698 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
23827646 AAATCTCCTA
23827656 AAAATCCAAATAAAATAAAATC
1 AAAATCCAAATAAAATAAAATC
23827678 AAAATCTCTAAAT-AAATAAAA
1 AAAATC-C-AAATAAAATAAAA
23827699 CTACTTCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAATCCAAATAAAATAAAATC
Found at i:23828860 original size:43 final size:42
Alignment explanation
Indices: 23828811--23829115 Score: 207
Period size: 43 Copynumber: 7.2 Consensus size: 42
23828801 CTAATGCCAA
* * *
23828811 GGAGATAGGATTAGG-TCTTCAGTCTGCTCCACTGCAACTTCAG
1 GGAGATAAGATT-GGAT-TTCAATCTACTCCACTGCAACTTCAG
* * * * * *
23828854 GGAGATAAGACTT-AATGT-GATCTGCT-CTCTGCAACCTCAG
1 GGAGATAAGA-TTGGATTTCAATCTACTCCACTGCAACTTCAG
* * *
23828894 AGAGATAAGATCCGTGATTT-AATCCACTCCACTGCAACTTCAG
1 GGAGATAAGAT-TG-GATTTCAATCTACTCCACTGCAACTTCAG
* * *
23828937 GGAGATAGGATTGGTTCTTCAGTCTACTCCACTGCAACTTCAG
1 GGAGATAAGATTGGAT-TTCAATCTACTCCACTGCAACTTCAG
* * * * * *
23828980 AGAGATAAGACTT-GA-TGCGATCTGCT-CTCTGCAACCTC-G
1 GGAGATAAGA-TTGGATTTCAATCTACTCCACTGCAACTTCAG
* *
23829019 GAGAGATAAGATCTGTGATTT-AATCCACTCCACTGTAACTTCAG
1 G-GAGATAAGAT-TG-GATTTCAATCTACTCCACTGCAACTTCAG
* *
23829063 GGAGATAGGATTGGTTCTTCAATCTACTCCACTGCAACTTCAG
1 GGAGATAAGATTGGAT-TTCAATCTACTCCACTGCAACTTCAG
*
23829106 AGAGATAAGA
1 GGAGATAAGA
23829116 CTTGATGCGA
Statistics
Matches: 199, Mismatches: 45, Indels: 36
0.71 0.16 0.13
Matches are distributed among these distances:
39 3 0.02
40 41 0.21
41 17 0.09
42 23 0.12
43 109 0.55
44 6 0.03
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (42 bp):
GGAGATAAGATTGGATTTCAATCTACTCCACTGCAACTTCAG
Found at i:23828956 original size:126 final size:126
Alignment explanation
Indices: 23828811--23829202 Score: 615
Period size: 126 Copynumber: 3.1 Consensus size: 126
23828801 CTAATGCCAA
* * * *
23828811 GGAGATAGGATTAGG-TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTAATGTGAT
1 GGAGATAGGATT-GGTTCTTCAGTCTACTCCACTGCAACTTCAGAGAGATAAGACTTGATGCGAT
* *
23828875 CTGCTCTCTGCAACCTCAGAGAGATAAGATCCGTGATTTAATCCACTCCACTGCAACTTCAG
65 CTGCTCTCTGCAACCTCAGAGAGATAAGATCTGTGATTTAATCCACTCCACTGTAACTTCAG
23828937 GGAGATAGGATTGGTTCTTCAGTCTACTCCACTGCAACTTCAGAGAGATAAGACTTGATGCGATC
1 GGAGATAGGATTGGTTCTTCAGTCTACTCCACTGCAACTTCAGAGAGATAAGACTTGATGCGATC
*
23829002 TGCTCTCTGCAACCTCGGAGAGATAAGATCTGTGATTTAATCCACTCCACTGTAACTTCAG
66 TGCTCTCTGCAACCTCAGAGAGATAAGATCTGTGATTTAATCCACTCCACTGTAACTTCAG
*
23829063 GGAGATAGGATTGGTTCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGACTTGATGCGATC
1 GGAGATAGGATTGGTTCTTCAGTCTACTCCACTGCAACTTCAGAGAGATAAGACTTGATGCGATC
* * * * * *
23829128 TGCTCTCTGCAACATCAGAAAGATAAGATCTATATGTTTTAATCCACTCCATTGTAACTTCAA
66 TGCTCTCTGCAACCTCAGAGAGATAAGATC--TGTGATTTAATCCACTCCACTGTAACTTCAG
*
23829191 GGAGATATGATT
1 GGAGATAGGATT
23829203 ATTTACTTCA
Statistics
Matches: 247, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
125 2 0.01
126 207 0.84
128 38 0.15
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (126 bp):
GGAGATAGGATTGGTTCTTCAGTCTACTCCACTGCAACTTCAGAGAGATAAGACTTGATGCGATC
TGCTCTCTGCAACCTCAGAGAGATAAGATCTGTGATTTAATCCACTCCACTGTAACTTCAG
Found at i:23829261 original size:50 final size:49
Alignment explanation
Indices: 23829207--23829502 Score: 200
Period size: 50 Copynumber: 5.9 Consensus size: 49
23829197 ATGATTATTT
* * *
23829207 ACTTCAATCTGTTTAACTGCAGTGTCAGGGAAACAAGATTCGCCGCCGTG
1 ACTTCAATCT-TTTAACTGCAATGTCAGGGAAACAAGATCCGCCGTCGTG
** * * * ** *
23829257 ACTTCAATCTATTCCACTACACTGCCAGGGAAGTAAGATCCGCCGTTGTG
1 ACTTCAATCT-TTTAACTGCAATGTCAGGGAAACAAGATCCGCCGTCGTG
* * *
23829307 GCTTCAATCTTTTAAATTGCAATATCAGGGAAACCAA-ATCCGCCGTCGTG
1 ACTTCAATCTTTT-AACTGCAATGTCAGGGAAA-CAAGATCCGCCGTCGTG
* * * ** * * ** *
23829357 GCTTCAATATACTCCACTACACCT-TCAGGGAAGTAAGATCCGCCGTTGTG
1 ACTTCAATCT-TTTAACTGCA-ATGTCAGGGAAACAAGATCCGCCGTCGTG
* * * * *
23829407 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAACCAGATCCGCCGTTGTG
1 ACTTCAATCTTTT-AACTGCAATGTCAGGGAAACAAGATCCGCCGTCGTG
* * * * *
23829457 GCTTCAATCTTTTTAATTGCAATGTTAAGGAAACCAGATCCGCCGT
1 ACTTCAATC-TTTTAACTGCAATGTCAGGGAAACAAGATCCGCCGT
23829503 TGTAGCTTTA
Statistics
Matches: 192, Mismatches: 46, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
49 6 0.03
50 178 0.93
51 8 0.04
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (49 bp):
ACTTCAATCTTTTAACTGCAATGTCAGGGAAACAAGATCCGCCGTCGTG
Found at i:23829351 original size:100 final size:100
Alignment explanation
Indices: 23829208--23829466 Score: 362
Period size: 100 Copynumber: 2.6 Consensus size: 100
23829198 TGATTATTTA
* * * * * *
23829208 CTTCAATCTGTTT-AACTGCAGTGTCAGGGAAA-CAAGATTCGCCGCCGTGACTTCAATCTATTC
1 CTTCAATCT-TTTAAATTGCAATGTCAGGGAAACCAA-ATCCGCCGTCGTGGCTTCAATCTACTC
23829271 CACTACA-CTGCCAGGGAAGTAAGATCCGCCGTTGTGG
64 CACTACACCT-CCAGGGAAGTAAGATCCGCCGTTGTGG
* *
23829308 CTTCAATCTTTTAAATTGCAATATCAGGGAAACCAAATCCGCCGTCGTGGCTTCAATATACTCCA
1 CTTCAATCTTTTAAATTGCAATGTCAGGGAAACCAAATCCGCCGTCGTGGCTTCAATCTACTCCA
*
23829373 CTACACCTTCAGGGAAGTAAGATCCGCCGTTGTGG
66 CTACACCTCCAGGGAAGTAAGATCCGCCGTTGTGG
* * *
23829408 CTTCAATCTTTTAAATTGCAATGTCGGGGAAACCAGATCCGCCGTTGTGGCTTCAATCT
1 CTTCAATCTTTTAAATTGCAATGTCAGGGAAACCAAATCCGCCGTCGTGGCTTCAATCT
23829467 TTTTAATTGC
Statistics
Matches: 142, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
99 3 0.02
100 134 0.94
101 5 0.04
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (100 bp):
CTTCAATCTTTTAAATTGCAATGTCAGGGAAACCAAATCCGCCGTCGTGGCTTCAATCTACTCCA
CTACACCTCCAGGGAAGTAAGATCCGCCGTTGTGG
Found at i:23829479 original size:150 final size:149
Alignment explanation
Indices: 23829292--23829564 Score: 402
Period size: 150 Copynumber: 1.8 Consensus size: 149
23829282 CAGGGAAGTA
* *
23829292 AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATATCAGGGAAACCAAATCCGCCGTCGTG
1 AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATATCAAGGAAACCAAATCCGCCGTCGTA
*
23829357 GCTTCAATATACTCCACTACACCTTCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAA
66 GCTTCAATATACTCCACTACA-CTTCAGGGAAGCAAGATCCGCCGTTGTGGCTTCAATCTTTTAA
23829422 ATTGCAATGTCGGGGAAACC
130 ATTGCAATGTCGGGGAAACC
* * * * *
23829442 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTTAAGGAAACCAGATCCGCCGTTGTA
1 AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATATCAAGGAAACCAAATCCGCCGTCGTA
* * ** * * *
23829507 GCTTTAATCTGTTCCACTACACTTCGGGGAAGCAAGATTCGCCGTTGTGGGTTCAATC
66 GCTTCAATATACTCCACTACACTTCAGGGAAGCAAGATCCGCCGTTGTGGCTTCAATC
23829565 CGTTCCACTG
Statistics
Matches: 108, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
149 33 0.31
150 75 0.69
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (149 bp):
AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATATCAAGGAAACCAAATCCGCCGTCGTA
GCTTCAATATACTCCACTACACTTCAGGGAAGCAAGATCCGCCGTTGTGGCTTCAATCTTTTAAA
TTGCAATGTCGGGGAAACC
Found at i:23829503 original size:50 final size:50
Alignment explanation
Indices: 23829292--23829516 Score: 254
Period size: 50 Copynumber: 4.5 Consensus size: 50
23829282 CAGGGAAGTA
*
23829292 AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATATCAGGGAAACC
1 AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAACC
* * * ** ** * * * ***
23829342 AAATCCGCCGTCGTGGCTTCAATATACTCCACTACACCT-TCAGGGAAGTA
1 AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGCA-ATGTCAGGGAAACC
*
23829392 AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAACC
1 AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAACC
* * *
23829442 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTTAAGGAAACC
1 AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAACC
* *
23829492 AGATCCGCCGTTGTAGCTTTAATCT
1 AGATCCGCCGTTGTGGCTTCAATCT
23829517 GTTCCACTAC
Statistics
Matches: 140, Mismatches: 33, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
49 1 0.01
50 138 0.99
51 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (50 bp):
AGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAACC
Found at i:23829825 original size:100 final size:100
Alignment explanation
Indices: 23829652--23829835 Score: 244
Period size: 100 Copynumber: 1.8 Consensus size: 100
23829642 TAACGCCAGG
* *
23829652 GAGATAAGATCCGCCGTCGTGGCTTCAATCTACTCCGCTGCAATGCCAAAAAAATAAGACCCGCC
1 GAGATAAGATCCGCCGTCGTGGCTTCAATCTACTCCGCTGCAACGCCAAAAAAATAAGACCCACC
23829717 GTTGTGGCTTCAATCTTTTTAATTACAATGCCAAA
66 GTTGTGGCTTCAATCTTTTTAATTACAATGCCAAA
* * * * * * ** *
23829752 GAGATAGGATTCGCCTTTGTGGCTTCAATCTGCTCTGCTG-AGACGCCAGGAAAATAAGATCCAC
1 GAGATAAGATCCGCCGTCGTGGCTTCAATCTACTCCGCTGCA-ACGCCAAAAAAATAAGACCCAC
*
23829816 CGTTGTGGCTTCAGTCTTTT
65 CGTTGTGGCTTCAATCTTTT
23829836 CCATTGCAAC
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 1 0.01
100 70 0.99
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (100 bp):
GAGATAAGATCCGCCGTCGTGGCTTCAATCTACTCCGCTGCAACGCCAAAAAAATAAGACCCACC
GTTGTGGCTTCAATCTTTTTAATTACAATGCCAAA
Found at i:23829969 original size:88 final size:88
Alignment explanation
Indices: 23829863--23830039 Score: 266
Period size: 88 Copynumber: 2.0 Consensus size: 88
23829853 CGATAAGACG
* *
23829863 GGTATCTTCGATCTGCTTCGCTACCAGTACAGGAAGGCAAGATCTG-TCATTTTCAACCTACTCC
1 GGTATCTTCGATCTGCTTCGCTACCAATACAGGAAGACAAGATCTGCT-ATTTTCAACCTACTCC
23829927 ACTGCTACCCAGGGAGACAAGGCT
65 ACTGCTACCCAGGGAGACAAGGCT
* * *
23829951 GGTATCTTCGATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTATTCCA
1 GGTATCTTCGATCTGCTTCGCTACCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCA
* * *
23830016 CTGCTGCTCAGGGAGATAAGGCT
66 CTGCTACCCAGGGAGACAAGGCT
23830039 G
1 G
23830040 AAGTTTCACC
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 79 0.99
89 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (88 bp):
GGTATCTTCGATCTGCTTCGCTACCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCA
CTGCTACCCAGGGAGACAAGGCT
Found at i:23831285 original size:13 final size:13
Alignment explanation
Indices: 23831269--23831306 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
23831259 CCATTTTTAC
23831269 TTTTTCATTTTCA
1 TTTTTCATTTTCA
*
23831282 TTTTTCGTTTTCA
1 TTTTTCATTTTCA
23831295 TCTTTTCATTTT
1 T-TTTTCATTTT
23831307 TTTCACATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.11, C:0.16, G:0.03, T:0.71
Consensus pattern (13 bp):
TTTTTCATTTTCA
Found at i:23837016 original size:23 final size:22
Alignment explanation
Indices: 23836978--23837020 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
23836968 AAATCTCCTA
23836978 AAAATCCAAATAAAATAAAATC
1 AAAATCCAAATAAAATAAAATC
23837000 AAAATCTCTAAAT-AAATAAAA
1 AAAATC-C-AAATAAAATAAAA
23837021 CTACTTCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAATCCAAATAAAATAAAATC
Found at i:23837471 original size:20 final size:20
Alignment explanation
Indices: 23837446--23837493 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
23837436 ACATTAGAAA
*
23837446 ATATAAAAATGGA-AATAAAT
1 ATATAAAAATGCAGAA-AAAT
*
23837466 ATATAAAAATTCAGAAAAAT
1 ATATAAAAATGCAGAAAAAT
23837486 ATATAAAA
1 ATATAAAA
23837494 TATAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
ATATAAAAATGCAGAAAAAT
Found at i:23842575 original size:41 final size:41
Alignment explanation
Indices: 23842337--23842562 Score: 362
Period size: 41 Copynumber: 5.5 Consensus size: 41
23842327 TACTTTAGTA
* *
23842337 CACCGGCATGAAGCCTGCTAGACATAAAGTCTGAAATAATT
1 CACCGGCATTAAACCTGCTAGACATAAAGTCTGAAATAATT
* * * *
23842378 CACCGACATTAAGCCTGCTAGACATAAAATCTAAAATAATT
1 CACCGGCATTAAACCTGCTAGACATAAAGTCTGAAATAATT
23842419 CACCGGCATTAAACCTGCTAGACATAAAGTCTGAAATAATT
1 CACCGGCATTAAACCTGCTAGACATAAAGTCTGAAATAATT
* *
23842460 CACCGGCATTAAGCCTGCTAGACATAATGTCTGAAATAATT
1 CACCGGCATTAAACCTGCTAGACATAAAGTCTGAAATAATT
**
23842501 CTTCGGCATTAAACCTGCTAGACATAAAGTCTGAAATAATT
1 CACCGGCATTAAACCTGCTAGACATAAAGTCTGAAATAATT
23842542 CACCGGCATTAAACCTGCTAG
1 CACCGGCATTAAACCTGCTAG
23842563 GCATTGAGTC
Statistics
Matches: 169, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 169 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (41 bp):
CACCGGCATTAAACCTGCTAGACATAAAGTCTGAAATAATT
Found at i:23852981 original size:16 final size:15
Alignment explanation
Indices: 23852929--23852981 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
23852919 TTAGATTCAG
* *
23852929 ATTTTTCTGGGCTCA
1 ATTTTTTTGGGCTTA
* *
23852944 AGTTTTCTTGGGATTA
1 A-TTTTTTTGGGCTTA
*
23852960 AATTTTTTGGGCTTA
1 ATTTTTTTGGGCTTA
23852975 ATTTTTT
1 ATTTTTT
23852982 CGTGCTCGGG
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 18 0.62
16 11 0.38
ACGTcount: A:0.17, C:0.09, G:0.19, T:0.55
Consensus pattern (15 bp):
ATTTTTTTGGGCTTA
Found at i:23853253 original size:5 final size:5
Alignment explanation
Indices: 23853226--23853268 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
23853216 TGTAAAATTC
*
23853226 ATTAT ATTTT ATTAT -TTATT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTA-T ATTAT ATTAT ATTAT ATTAT ATT
23853269 GTCAATTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 3 0.09
5 28 0.82
6 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
ATTAT
Found at i:23853495 original size:5 final size:5
Alignment explanation
Indices: 23853468--23853510 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
23853458 TGTAAAATTC
*
23853468 ATTAT ATTTT ATTAT -TTATT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTA-T ATTAT ATTAT ATTAT ATTAT ATT
23853511 GTCAATTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 3 0.09
5 28 0.82
6 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
ATTAT
Found at i:23853611 original size:242 final size:243
Alignment explanation
Indices: 23853174--23853660 Score: 967
Period size: 242 Copynumber: 2.0 Consensus size: 243
23853164 ATATTTATTT
23853174 AATAGAGTTCGTTTAGATAAAATAATTAAAGTGTTTATTGTATGTAAAATTCATTATATTTTATT
1 AATAGAGTTCGTTTAGATAAAATAATTAAAGTGTTTATTGTATGTAAAATTCATTATATTTTATT
23853239 ATTTATTATTATATTATATTATATTATATTGTCAATTGAATAATTCTATCTTTCTTATATTCTAA
66 ATTTATTATTATATTATATTATATTATATTGTCAATTGAATAATTCTATCTTTCTTATATTCTAA
23853304 AATATTTATTTCAAAATTCAAATATATTATACTAAGCTCAAACCCGAATAATATTCTCATTATTA
131 AATATTTATTTCAAAATTCAAATATATTATACTAAGCTCAAACCCGAATAATATTCTCATTATTA
23853369 CCTAAACTCAAAATAAACTAATTATACCCCAAATCTCAAGTCGAAATA
196 CCTAAACTCAAAATAAACTAATTATACCCCAAATCTCAAGTCGAAATA
23853417 AATAGAGTTCG-TTAGATAAAATAATTAAAGTGTTTATTGTATGTAAAATTCATTATATTTTATT
1 AATAGAGTTCGTTTAGATAAAATAATTAAAGTGTTTATTGTATGTAAAATTCATTATATTTTATT
23853481 ATTTATTATTATATTATATTATATTATATTGTCAATTGAATAATTCTATCTTTCTTATATTCTAA
66 ATTTATTATTATATTATATTATATTATATTGTCAATTGAATAATTCTATCTTTCTTATATTCTAA
23853546 AATATTTATTTCAAAATTCAAATATATTATACTAAGCTCAAACCCGAATAATATTCTCATTATTA
131 AATATTTATTTCAAAATTCAAATATATTATACTAAGCTCAAACCCGAATAATATTCTCATTATTA
23853611 CCTAAACTCAAAATAAACTAATTATACCCCAAATCTCAAGTCGAAATA
196 CCTAAACTCAAAATAAACTAATTATACCCCAAATCTCAAGTCGAAATA
23853659 AA
1 AA
23853661 AAGAAATTAA
Statistics
Matches: 244, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
242 233 0.95
243 11 0.05
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.42
Consensus pattern (243 bp):
AATAGAGTTCGTTTAGATAAAATAATTAAAGTGTTTATTGTATGTAAAATTCATTATATTTTATT
ATTTATTATTATATTATATTATATTATATTGTCAATTGAATAATTCTATCTTTCTTATATTCTAA
AATATTTATTTCAAAATTCAAATATATTATACTAAGCTCAAACCCGAATAATATTCTCATTATTA
CCTAAACTCAAAATAAACTAATTATACCCCAAATCTCAAGTCGAAATA
Found at i:23855172 original size:23 final size:23
Alignment explanation
Indices: 23855141--23855194 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
23855131 CCCCCATCTG
23855141 CTACACACTATCTCTGTCCATCC
1 CTACACACTATCTCTGTCCATCC
* * *
23855164 CTACTCACTATCTCTGTTCATCT
1 CTACACACTATCTCTGTCCATCC
23855187 CTACACAC
1 CTACACAC
23855195 CAAATAGGGT
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:0.41, G:0.04, T:0.33
Consensus pattern (23 bp):
CTACACACTATCTCTGTCCATCC
Found at i:23860881 original size:43 final size:43
Alignment explanation
Indices: 23860824--23861119 Score: 240
Period size: 43 Copynumber: 6.9 Consensus size: 43
23860814 GTTTTAAAAA
*
23860824 AAACGCCGCTAAAGATCATGTCCTTTAGCGGCACTTTTTCTAC
1 AAACGCCGCTAAAGACCATGTCCTTTAGCGGCACTTTTTCTAC
* *
23860867 AAACGCCGCTAAAGACCATGTCCTTTAGCAGCACTTATTCTAC
1 AAACGCCGCTAAAGACCATGTCCTTTAGCGGCACTTTTTCTAC
* * * *
23860910 AAACGTCGTTAAAGACCATGTCCTTTAGCGGCGC-TTTTCTCC
1 AAACGCCGCTAAAGACCATGTCCTTTAGCGGCACTTTTTCTAC
** * * * * * * **
23860952 AGGCGCCGCTAAAGATCGTGGT-CTTTAGTGGC-GTTTGTGTGGG
1 AAACGCCGCTAAAGACCAT-GTCCTTTAGCGGCACTTTTTCT-AC
* * * * *
23860995 AATCGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGTCCTTTAGCGGCACTTTTTCTAC
* * * * *
23861038 AAACGCCGCTAAAGACCATGAT-CTTTAGCGGCGCTTATCCCAT
1 AAACGCCGCTAAAGACCATG-TCCTTTAGCGGCACTTTTTCTAC
** * ** *
23861081 AAACTTCGCTAAAGACCGTGAGCTTTAGCGGCGCTTTTT
1 AAACGCCGCTAAAGACCATGTCCTTTAGCGGCACTTTTT
23861120 AAAAAACGCC
Statistics
Matches: 204, Mismatches: 42, Indels: 14
0.78 0.16 0.05
Matches are distributed among these distances:
42 34 0.17
43 166 0.81
44 4 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGTCCTTTAGCGGCACTTTTTCTAC
Found at i:23860930 original size:86 final size:84
Alignment explanation
Indices: 23860824--23861119 Score: 272
Period size: 86 Copynumber: 3.5 Consensus size: 84
23860814 GTTTTAAAAA
* *
23860824 AAACGCCGCTAAAGATCATGTCCTTTAGCGGCACTTTTTCTACAAACGCCGCTAAAGACCATGTC
1 AAACGCCGCTAAAGACCATGTCCTTTAGCGGCGCTTTTTCTACAAACGCCGCTAAAGACCATGT-
*
23860889 CTTTAGCAGCACTTATTCTAC
65 CTTTAGCGGC-CTTATTCTAC
* * * ** * *
23860910 AAACGTCGTTAAAGACCATGTCCTTTAGCGGCGC-TTTTCTCCAGGCGCCGCTAAAGATCGTGGT
1 AAACGCCGCTAAAGACCATGTCCTTTAGCGGCGCTTTTTCTACAAACGCCGCTAAAGACCAT-GT
* * * **
23860974 CTTTAGTGGCGTT-TGTGTGGG
65 CTTTAGCGGCCTTAT-TCT-AC
* * * *
23860995 AATCGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAT
1 AAACGCCGCTAAAGACCATGTCCTTTAGCGGCGCTTTTTCTACAAACGCCGCTAAAGACCATG-T
* * *
23861060 CTTTAGCGGCGCTTATCCCAT
65 CTTTAGCGGC-CTTATTCTAC
** * **
23861081 AAACTTCGCTAAAGACCGTGAGCTTTAGCGGCGCTTTTT
1 AAACGCCGCTAAAGACCATGTCCTTTAGCGGCGCTTTTT
23861120 AAAAAACGCC
Statistics
Matches: 162, Mismatches: 41, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
83 1 0.01
84 4 0.02
85 61 0.38
86 93 0.57
87 2 0.01
88 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (84 bp):
AAACGCCGCTAAAGACCATGTCCTTTAGCGGCGCTTTTTCTACAAACGCCGCTAAAGACCATGTC
TTTAGCGGCCTTATTCTAC
Found at i:23861335 original size:19 final size:19
Alignment explanation
Indices: 23861311--23861348 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23861301 TACAAAAATG
*
23861311 TTAAAAGTTAAAATGATAA
1 TTAAAAGTCAAAATGATAA
23861330 TTAAAAGTCAAAATGATAA
1 TTAAAAGTCAAAATGATAA
23861349 AAATATTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.29
Consensus pattern (19 bp):
TTAAAAGTCAAAATGATAA
Found at i:23871539 original size:41 final size:41
Alignment explanation
Indices: 23871475--23871664 Score: 170
Period size: 41 Copynumber: 4.6 Consensus size: 41
23871465 TTTTGTTACT
* ** *
23871475 ATTAGCGGCGCTTCGGCAAAAACGCCGCTAAAGGTAAATAC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGTAGATAC
* ** *
23871516 ATTAGCGGCGCTTAGATACAAACGCCGCTAAAGG-CCATAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGTAGATA-C
* * * * * *
23871557 ATTAGTGGCGCTCAGATAAAAACGCCACGAAAGGCCAGAGA-
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG-TAGATAC
* * *
23871598 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCAGA-GC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGT-AGATAC
*
23871639 ATTAGCGGCGTTTAGATAAAAACGCC
1 ATTAGCGGCGCTTAGATAAAAACGCC
23871665 ACCAAAAATC
Statistics
Matches: 121, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
40 3 0.02
41 116 0.96
43 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (41 bp):
ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGTAGATAC
Found at i:23871692 original size:41 final size:41
Alignment explanation
Indices: 23871515--23871689 Score: 197
Period size: 41 Copynumber: 4.3 Consensus size: 41
23871505 AAGGTAAATA
* * * *
23871515 CATTAGCGGCGCTTAGATACAAACGCCGCTAAAGGCCATAG
1 CATTAGCGGCGCTTAGATAAAAACGCCACTAAAGACCAGAG
* * * * *
23871556 AATTAGTGGCGCTCAGATAAAAACGCCACGAAAGGCCAGAG
1 CATTAGCGGCGCTTAGATAAAAACGCCACTAAAGACCAGAG
* * * *
23871597 AATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCAGAG
1 CATTAGCGGCGCTTAGATAAAAACGCCACTAAAGACCAGAG
* * * *
23871638 CATTAGCGGCGTTTAGATAAAAACGCCACCAAAAATCAGAG
1 CATTAGCGGCGCTTAGATAAAAACGCCACTAAAGACCAGAG
23871679 CATTAGCGGCG
1 CATTAGCGGCG
23871690 TTTTTTACAA
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 116 1.00
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.15
Consensus pattern (41 bp):
CATTAGCGGCGCTTAGATAAAAACGCCACTAAAGACCAGAG
Found at i:23871707 original size:82 final size:82
Alignment explanation
Indices: 23871516--23871689 Score: 222
Period size: 82 Copynumber: 2.1 Consensus size: 82
23871506 AGGTAAATAC
* ** * * *
23871516 ATTAGCGGCGCTTAGATACAAACGCCGCTAAAGGCCATAGAATTAGTGGCGCTCAGATAAAAACG
1 ATTAGCGGCGCTCAGATACAAACGCCGCTAAAGATCAGAGCATTAGCGGCGCTCAGATAAAAACG
* **
23871581 CCACGAAAGGCCAGAGA
66 CCACCAAAAACCAGAGA
* * *
23871598 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCAGAGCATTAGCGGCGTTTAGATAAAAACG
1 ATTAGCGGCGCTCAGATACAAACGCCGCTAAAGATCAGAGCATTAGCGGCGCTCAGATAAAAACG
* *
23871663 CCACCAAAAATCAGAGC
66 CCACCAAAAACCAGAGA
23871680 ATTAGCGGCG
1 ATTAGCGGCG
23871690 TTTTTTACAA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.16
Consensus pattern (82 bp):
ATTAGCGGCGCTCAGATACAAACGCCGCTAAAGATCAGAGCATTAGCGGCGCTCAGATAAAAACG
CCACCAAAAACCAGAGA
Found at i:23871724 original size:41 final size:41
Alignment explanation
Indices: 23871616--23871753 Score: 136
Period size: 41 Copynumber: 3.4 Consensus size: 41
23871606 CGCTCAGATA
* **
23871616 AAAACGCCGCTAAAGATCAGAGCATTAGCGGCGTTTAGATA-
1 AAAACGCCGCCAAAGATCAGAGCATTAGCGGCGTTT-TTTAC
* *
23871657 AAAACGCCACCAAAAATCAGAGCATTAGCGGCGTTTTTTAC
1 AAAACGCCGCCAAAGATCAGAGCATTAGCGGCGTTTTTTAC
* * * * * *
23871698 AAAGCGCCGCGAAAGATCCGATCATTAGCGTCG-CTTTTAC
1 AAAACGCCGCCAAAGATCAGAGCATTAGCGGCGTTTTTTAC
*
23871738 AAAAACGCCGCTAAAG
1 -AAAACGCCGCCAAAG
23871754 GCCCAAAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 8 0.10
41 72 0.90
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCCAAAGATCAGAGCATTAGCGGCGTTTTTTAC
Found at i:23879685 original size:21 final size:21
Alignment explanation
Indices: 23879660--23879705 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
23879650 TCTCTCAACC
*
23879660 AAAATTATTT-TAAAAAAATTT
1 AAAA-TATTTATAAAAAAATAT
*
23879681 AAAATATTTATAAAAATATAT
1 AAAATATTTATAAAAAAATAT
23879702 AAAA
1 AAAA
23879706 AAAAGTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAATATTTATAAAAAAATAT
Found at i:23892039 original size:26 final size:26
Alignment explanation
Indices: 23892001--23892088 Score: 140
Period size: 26 Copynumber: 3.3 Consensus size: 26
23891991 GTTTCTATTA
* *
23892001 AAAAGAGAGAATTTTCGTTTTCACACT
1 AAAA-AGAGAATTTTTGTTTTCACCCT
*
23892028 AAAAAGATAATTTTTGTTTTCACCCT
1 AAAAAGAGAATTTTTGTTTTCACCCT
23892054 AAAAAGAGAATTTTTGTTTTCACCCT
1 AAAAAGAGAATTTTTGTTTTCACCCT
23892080 AAAAAGAGA
1 AAAAAGAGA
23892089 GAAAACTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
26 53 0.93
27 4 0.07
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (26 bp):
AAAAAGAGAATTTTTGTTTTCACCCT
Found at i:23892099 original size:26 final size:26
Alignment explanation
Indices: 23892042--23892100 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
23892032 AGATAATTTT
****
23892042 TGTTTTCACCCTAAAAAGAGAATTTT
1 TGTTTTCACCCTAAAAAGAGAAAAAC
23892068 TGTTTTCACCCTAAAAAGAGAGAAAAC
1 TGTTTTCACCCTAAAAAGAGA-AAAAC
23892095 T-TTTTC
1 TGTTTTC
23892101 TAGTTCTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (26 bp):
TGTTTTCACCCTAAAAAGAGAAAAAC
Found at i:23899897 original size:51 final size:49
Alignment explanation
Indices: 23899786--23899899 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 49
23899776 AAAATTCACG
* * * * *
23899786 CATTTTGTCAATTTGGTCTTGATTTAACATATTTGGCCCATAATATTTA
1 CATTTTATCAATTTGATCTTGATTTAACAAATTTAGCCCACAATATTTA
* *
23899835 CATATTCTATCAATTTGATCTTGATTTAACAAATTTATCCCGCAATACTTTCA
1 CAT-TT-TATCAATTTGATCTTGATTTAACAAATTTAGCCCACAATA-TTT-A
23899888 CATTTTATCAAT
1 CATTTTATCAAT
23899900 ATTTACATAA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
49 3 0.06
50 2 0.04
51 40 0.74
52 5 0.09
53 4 0.07
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.45
Consensus pattern (49 bp):
CATTTTATCAATTTGATCTTGATTTAACAAATTTAGCCCACAATATTTA
Found at i:23900519 original size:16 final size:16
Alignment explanation
Indices: 23900486--23900515 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23900476 ACGTGTCTCC
23900486 TTTTTTTAAATATTTA
1 TTTTTTTAAATATTTA
23900502 TTTTTTT-AATATTT
1 TTTTTTTAAATATTT
23900516 TATTATGCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTTAAATATTTA
Found at i:23901947 original size:23 final size:23
Alignment explanation
Indices: 23901921--23901974 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
23901911 CTCAACTCGA
23901921 ACTCGAATTACTTATTTGTGTTG
1 ACTCGAATTACTTATTTGTGTTG
23901944 ACTCGAATTACTTATTTGTGTTG
1 ACTCGAATTACTTATTTGTGTTG
23901967 ACTCGAAT
1 ACTCGAAT
23901975 AACTCGATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (23 bp):
ACTCGAATTACTTATTTGTGTTG
Found at i:23902388 original size:181 final size:183
Alignment explanation
Indices: 23902075--23902441 Score: 720
Period size: 181 Copynumber: 2.0 Consensus size: 183
23902065 TCATGGATGA
23902075 AAAAAATTATATAACAAATATATTTATAAAAAAATTATTTAAGAATTAAATGAAGTTTTAGAAAT
1 AAAAAATTATATAACAAATATATTTATAAAAAAATTATTTAAGAATTAAATGAAGTTTTAGAAAT
23902140 GGTAAAAATATTAAAAATTACGAATTTTTGAGTTCGAATATTATGAAACACAATTTTCTAGATTT
66 GGTAAAAATATTAAAAATTACGAATTTTTGAGTTCGAATATTATGAAACACAATTTTCTAGATTT
23902205 CAAATGATTTGATATGGCAAAAATATCTTGATAACAATTTCTATCATTTTATG
131 CAAATGATTTGATATGGCAAAAATATCTTGATAACAATTTCTATCATTTTATG
23902258 AAAAAA-T-TATAACAAATATATTTATAAAAAAATTATTTAAGAATTAAATGAAGTTTTAGAAAT
1 AAAAAATTATATAACAAATATATTTATAAAAAAATTATTTAAGAATTAAATGAAGTTTTAGAAAT
23902321 GGTAAAAATATTAAAAATTACGAATTTTTGAGTTCGAATATTATGAAACACAATTTTCTAGATTT
66 GGTAAAAATATTAAAAATTACGAATTTTTGAGTTCGAATATTATGAAACACAATTTTCTAGATTT
23902386 CAAATGATTTGATATGGCAAAAATATCTTGATAACAATTTCTATCATTTTATG
131 CAAATGATTTGATATGGCAAAAATATCTTGATAACAATTTCTATCATTTTATG
23902439 AAA
1 AAA
23902442 GGAAAGTTTT
Statistics
Matches: 184, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
181 177 0.96
182 1 0.01
183 6 0.03
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (183 bp):
AAAAAATTATATAACAAATATATTTATAAAAAAATTATTTAAGAATTAAATGAAGTTTTAGAAAT
GGTAAAAATATTAAAAATTACGAATTTTTGAGTTCGAATATTATGAAACACAATTTTCTAGATTT
CAAATGATTTGATATGGCAAAAATATCTTGATAACAATTTCTATCATTTTATG
Found at i:23909414 original size:126 final size:125
Alignment explanation
Indices: 23909205--23909431 Score: 316
Period size: 126 Copynumber: 1.8 Consensus size: 125
23909195 TTAAAAAAAA
* * *
23909205 TTAAAAGGATTCTTTGCTATTTAGGTTTAGCGAGAAAATCGAAACCCCGTAAGTTAGGGTACGAT
1 TTAAAAGGATACTTTGCTATTTAGGTTTAACGAGAAAATCGAAACCCCGTAAGTTAGGGTACAAT
23909270 CTCCCAAATCACTAAAATGC-AAAGCTATTGCCTTATTGAGATTCCTTTCATTTTTGAAATC
66 CTCCCAAATCACTAAAATGCGAAA--TATTGCCTTATTGAGATTCCTTTCATTTTTGAAATC
* *
23909331 TTAAAAGGATACTTTGTTATCTT-GGTTTAACGAGAAAATTGAAACCCCGTAAGTTAGGGTACAA
1 TTAAAAGGATACTTTGCTAT-TTAGGTTTAACGAGAAAATCGAAACCCCGTAAGTTAGGGTACAA
* * * *
23909395 TTTCTCAAATTTAC-GAAATGCGAAATATTGCCTTATT
65 TCTCCCAAA-TCACTAAAATGCGAAATATTGCCTTATT
23909432 TTAACAATTT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
125 12 0.13
126 69 0.78
127 8 0.09
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (125 bp):
TTAAAAGGATACTTTGCTATTTAGGTTTAACGAGAAAATCGAAACCCCGTAAGTTAGGGTACAAT
CTCCCAAATCACTAAAATGCGAAATATTGCCTTATTGAGATTCCTTTCATTTTTGAAATC
Found at i:23911425 original size:34 final size:34
Alignment explanation
Indices: 23911382--23911451 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
23911372 AGACTTTTAA
23911382 GAAAGACAAATTTTGCCCAGTCTCACCGAGTCTT
1 GAAAGACAAATTTTGCCCAGTCTCACCGAGTCTT
23911416 GAAAGACAAATTTTGCCCAGTCTCACCGAGTCTT
1 GAAAGACAAATTTTGCCCAGTCTCACCGAGTCTT
23911450 GA
1 GA
23911452 CTTTCTGGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (34 bp):
GAAAGACAAATTTTGCCCAGTCTCACCGAGTCTT
Found at i:23911702 original size:44 final size:44
Alignment explanation
Indices: 23911566--23911842 Score: 241
Period size: 44 Copynumber: 6.4 Consensus size: 44
23911556 ATATTCTCTT
* ** * * * *
23911566 CTGCAACTTCAGGGTGACGAGATTTGTGGTTTTAGTCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCTGCTTCA
* * *
23911610 CTGCAACGTCAGGGAGATAAGA-CTG-GA-TATGATCTGC-TCTA
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCTGCTTC-A
* *
23911651 CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTTCA
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCTGCTTCA
** **
23911695 CTGCAACTTCAGGGAGATAAGAT-TGGTTTTTTTCGTCTG-TTCCA
1 CTGCAACTTCAGGGAGATAAGATCT-GTGATTTTAATCTGCTT-CA
* ***
23911739 CTGCAACTTCAGGGAAATAAGA-CTG-GA-TGCGATCTGC-TCTA
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCTGCTTC-A
* * *
23911780 CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATTTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCTGCTTCA
23911824 CTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGGGAGATA
23911843 GGATTGATTT
Statistics
Matches: 183, Mismatches: 36, Indels: 28
0.74 0.15 0.11
Matches are distributed among these distances:
40 2 0.01
41 55 0.30
42 7 0.04
43 10 0.05
44 106 0.58
45 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCTGCTTCA
Found at i:23911709 original size:85 final size:85
Alignment explanation
Indices: 23911561--23911716 Score: 213
Period size: 85 Copynumber: 1.8 Consensus size: 85
23911551 CTTCAATATT
* * * * * * * *
23911561 CTCTTCTGCAACTTCAGGGTGACGAGATTTGTGGTTTTAGTCTGCTCCACTGCAACGTCAGGGAG
1 CTCTACTGCAACTTCAGAGAGACAAGATCTGTGATTTTAATCCGCTCCACTGCAACGTCAGGGAG
23911626 ATAAGACTGGATATGATCTG
66 ATAAGACTGGATATGATCTG
* * *
23911646 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTTCACTGCAACTTCAGGGAG
1 CTCTACTGCAACTTCAGAGAGACAAGATCTGTGATTTTAATCCGCTCCACTGCAACGTCAGGGAG
23911711 ATAAGA
66 ATAAGA
23911717 TTGGTTTTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 60 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (85 bp):
CTCTACTGCAACTTCAGAGAGACAAGATCTGTGATTTTAATCCGCTCCACTGCAACGTCAGGGAG
ATAAGACTGGATATGATCTG
Found at i:23911762 original size:129 final size:129
Alignment explanation
Indices: 23911566--23911848 Score: 422
Period size: 129 Copynumber: 2.2 Consensus size: 129
23911556 ATATTCTCTT
* ** * *
23911566 CTGCAACTTCAGGGTGACGAGATTTGTGGTTTTAGTCTGCTCCACTGCAACGTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAAGATTGGTGGTTTTAGTCTGCTCCACTGCAACGTCAGGGAAATAAG
* *
23911631 ACTGGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTTCA
66 ACTGGATACGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
** * * *
23911695 CTGCAACTTCAGGGAGATAAGATTGGTTTTTTTCGTCTGTTCCACTGCAACTTCAGGGAAATAAG
1 CTGCAACTTCAGGGAGATAAGATTGGTGGTTTTAGTCTGCTCCACTGCAACGTCAGGGAAATAAG
* **
23911760 ACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATTTGCTCCA
66 ACTGGATACGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
*
23911824 CTGCAACTTCAGGGAGATAGGATTG
1 CTGCAACTTCAGGGAGATAAGATTG
23911849 ATTTCTGTCG
Statistics
Matches: 138, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 138 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (129 bp):
CTGCAACTTCAGGGAGATAAGATTGGTGGTTTTAGTCTGCTCCACTGCAACGTCAGGGAAATAAG
ACTGGATACGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
Found at i:23913010 original size:27 final size:27
Alignment explanation
Indices: 23912992--23913063 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
23912982 TTCACCTTGG
**
23912992 CCTCTCCTTTTTCTTTTTTCGTTCTTA
1 CCTCTCCTTTTTCTTTTTTCGACCTTA
**
23913019 CCTCTCCTTTTTCTTTTTTCGTTCTTA
1 CCTCTCCTTTTTCTTTTTTCGACCTTA
*
23913046 -CT-TTCTTTTTCTTTTTTC
1 CCTCTCCTTTTTCTTTTTTC
23913064 TTTTCATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
25 15 0.34
26 2 0.05
27 27 0.61
ACGTcount: A:0.03, C:0.28, G:0.03, T:0.67
Consensus pattern (27 bp):
CCTCTCCTTTTTCTTTTTTCGACCTTA
Found at i:23916234 original size:19 final size:20
Alignment explanation
Indices: 23916210--23916256 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
23916200 TGTGAAACTC
*
23916210 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGCAATG
*
23916229 TAATGCAAATGCATGGAATG
1 TAATGCAAATGCATGCAATG
23916249 -AATGCAAA
1 TAATGCAAA
23916257 AGAAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGCAATG
Found at i:23928635 original size:14 final size:14
Alignment explanation
Indices: 23928616--23928642 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23928606 TCTTTCCCCT
23928616 TTTCTATCATTTTA
1 TTTCTATCATTTTA
23928630 TTTCTATCATTTT
1 TTTCTATCATTTT
23928643 TGGTTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTCTATCATTTTA
Found at i:23938696 original size:24 final size:23
Alignment explanation
Indices: 23938670--23938730 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
23938660 TATATTACAA
*
23938670 TTTATAAATATTTAATAATAAATAT
1 TTTAT-AATATATAAT-ATAAATAT
*
23938695 TTTATAGTATATAATATAAATAT
1 TTTATAATATATAATATAAATAT
*
23938718 TTTA-ATTATATAA
1 TTTATAATATATAA
23938731 ATATGAGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.24
23 12 0.36
24 8 0.24
25 5 0.15
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTATAATATATAATATAAATAT
Found at i:23938742 original size:23 final size:23
Alignment explanation
Indices: 23938682--23938730 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
23938672 TATAAATATT
23938682 TAATAATAAATATTTTATAGTATA
1 TAAT-ATAAATATTTTATAGTATA
*
23938706 TAATATAAATATTTTA-ATTATA
1 TAATATAAATATTTTATAGTATA
23938728 TAA
1 TAA
23938731 ATATGAGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 8 0.33
23 12 0.50
24 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TAATATAAATATTTTATAGTATA
Done.