Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 52 of 253
Found at i:14146503 original size:25 final size:25
Alignment explanation
Indices: 14146469--14146517 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
14146459 CATGGTACTT
14146469 AACTTACCATTCATTCTATTTTGAA
1 AACTTACCATTCATTCTATTTTGAA
14146494 AACTTACCATTCATTCTATTTTGA
1 AACTTACCATTCATTCTATTTTGA
14146518 GGTAACTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.45
Consensus pattern (25 bp):
AACTTACCATTCATTCTATTTTGAA
Found at i:14153454 original size:26 final size:26
Alignment explanation
Indices: 14153425--14153573 Score: 116
Period size: 26 Copynumber: 6.0 Consensus size: 26
14153415 TATATAATAA
14153425 GAAGCTCACAAAGAGCCATTAATCAG
1 GAAGCTCACAAAGAGCCATTAATCAG
14153451 GAAGCTCACAAAGAGCC--T-ATCAG
1 GAAGCTCACAAAGAGCCATTAATCAG
* * **
14153474 GAAGCTTATC-CAG-GTTATATAA-CAG
1 GAAGCTCA-CAAAGAGCCAT-TAATCAG
*
14153499 GAAGCTCA-TAAGAGCCA-TAATCAG
1 GAAGCTCACAAAGAGCCATTAATCAG
* * **
14153523 GAAGTTCACAAAGAACTTTTAATCAG
1 GAAGCTCACAAAGAGCCATTAATCAG
* * *
14153549 GATGCTCACAAAGGGCCTTTAATCA
1 GAAGCTCACAAAGAGCCATTAATCA
14153574 AGAGCTCCGG
Statistics
Matches: 95, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
22 1 0.01
23 17 0.18
24 14 0.15
25 18 0.19
26 45 0.47
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCATTAATCAG
Found at i:14153476 original size:23 final size:25
Alignment explanation
Indices: 14153425--14153636 Score: 109
Period size: 26 Copynumber: 8.6 Consensus size: 25
14153415 TATATAATAA
14153425 GAAGCTCACAAAGAGCCATTAATCAG
1 GAAGCTCACAAAGAGCCA-TAATCAG
14153451 GAAGCTCACAAAGAGCC-T-ATCAG
1 GAAGCTCACAAAGAGCCATAATCAG
* * ** *
14153474 GAAGCTTATC-CAG-GTTATATAACAG
1 GAAGCTCA-CAAAGAGCCATA-ATCAG
*
14153499 GAAGCTCA-TAAGAGCCATAATCAG
1 GAAGCTCACAAAGAGCCATAATCAG
* * **
14153523 GAAGTTCACAAAGAACTTTTAATCAG
1 GAAGCTCACAAAGAGC-CATAATCAG
* * * *
14153549 GATGCTCACAAAGGGCCTTTAATCAA
1 GAAGCTCACAAAGAGCC-ATAATCAG
** *
14153575 G-AGCTC-CGGATAGCCATATATCAG
1 GAAGCTCACAAAGAGCCATA-ATCAG
* ** *
14153599 GAAGTTCA-AGTGAGCCAT-ATCAA
1 GAAGCTCACAAAGAGCCATAATCAG
*
14153622 GACGCTCACAAAGAG
1 GAAGCTCACAAAGAG
14153637 TTGCGTTTGT
Statistics
Matches: 136, Mismatches: 37, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
22 1 0.01
23 27 0.20
24 29 0.21
25 35 0.26
26 44 0.32
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (25 bp):
GAAGCTCACAAAGAGCCATAATCAG
Found at i:14153707 original size:65 final size:65
Alignment explanation
Indices: 14153626--14153790 Score: 192
Period size: 65 Copynumber: 2.6 Consensus size: 65
14153616 TATCAAGACG
* * * * *
14153626 CTCACAAAGAGTTGCGTTTGTGTCTGCAACATATGCAGGATCACAACCAATCATAAAATAGGACA
1 CTCACAAAGAGCTGCGTTTATGTCCGCAACATATGCAAGATCACAACCAATCATAAAACAGGACA
* * * * *
14153691 CTCACAAAGAGCTGCGTTTATGTCCGTAATATATGTAAGATCACAACCGATCATATAACAGGACA
1 CTCACAAAGAGCTGCGTTTATGTCCGCAACATATGCAAGATCACAACCAATCATAAAACAGGACA
* *
14153756 CTCACAAAGAGATGCAG--TA-GTCCACAACATATGCA
1 CTCACAAAGAGCTGC-GTTTATGTCCGCAACATATGCA
14153791 GGACCACTAC
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
63 12 0.14
64 2 0.02
65 69 0.82
66 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (65 bp):
CTCACAAAGAGCTGCGTTTATGTCCGCAACATATGCAAGATCACAACCAATCATAAAACAGGACA
Found at i:14158097 original size:454 final size:453
Alignment explanation
Indices: 14157117--14158432 Score: 2120
Period size: 454 Copynumber: 2.9 Consensus size: 453
14157107 TATGTCATTA
*
14157117 TTATTGTTTTGATATGCAAAATGTTAAAGTATGATTTTAAGTGCAAGTAGTTAACCTCATATGAT
1 TTATTGTTTTGATATGTAAAATGTTAAAGTATGATTTTAAGTGCAAGTAGTTAACCTCATATGAT
* * * **
14157182 ATGTGAACTGAGAAAGATGTTTTAGTGCAAATATATGATATGTGTTAATGGAATGTTGTGACTTT
66 ATGTGAACTAAGGAAGATGTTTTAGTGCAAATATATGGTATGTGTTAATGGAATGTTGTGACTAA
* * *
14157247 GATGCCTAAGTTTGGCATATTGATTGAATGTTACATGGTGTGATTTAACATACTTTGAATGATAG
131 GGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATAG
* *
14157312 TTCTTTTTGTTGCAAAATTGTATATACTTGTGGTATCAATGAGGATACATTGGTTAGGCACTTAG
196 TTCTTTTTGTTGTAAAATTGTATATACTTGTGGTATCAATGAGGATACATTGGTTAGGCACTTAA
* *
14157377 GATTGTTGATTTAGCATGTTTTTAGCTTTTTTTAATGTCACTTTAAATAGGTCTTTTGGCTGGTA
261 GATTCTTGATTTAGCATGTTTTTAGCTTTTTTTAATGTCACTTTGAATAGGTCTTTTGGCTGGTA
*
14157442 AATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTTTTGTTTAAGGTTCATTTTGGG
326 AATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTGTTGTTTAAGGTTCATTTTGGG
* * * *
14157507 TTCACATAGCCTGAGACACTACCGTGTAAGACACACGGCCTGGCGACACGGCTGTATGTCACC
391 TTCACACAGCCTGAGACACAACCGTGTAAGACACACAGCCCGGCGACACGGCTGTATGTCACC
* *
14157570 TTATTTTTTTGATATGTAAAATATTAAAGTATGATTTTAAGTGCAAGTAGTTAACCT-AGTATGA
1 TTATTGTTTTGATATGTAAAATGTTAAAGTATGATTTTAAGTGCAAGTAGTTAACCTCA-TATGA
* *
14157634 TATGTGAACTAAGGAAGATATTTTAGTGCAAATATATGGTATGTGTTAATGGAATGTTCTGACTA
65 TATGTGAACTAAGGAAGATGTTTTAGTGCAAATATATGGTATGTGTTAATGGAATGTTGTGACTA
14157699 AGGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATA
130 AGGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATA
* *
14157764 GTTCTTTTTGTTGTAAAATTGTATATACTTATGGTATCAATGAGGATACACTGGTTAGGCACTTA
195 GTTCTTTTTGTTGTAAAATTGTATATACTTGTGGTATCAATGAGGATACATTGGTTAGGCACTTA
*
14157829 AGATTTTTGATTTAGCATGATTTTTAGCTTTTTTTAATGTCACTTTGAATAGGTCTTTTGGCTGG
260 AGATTCTTGATTTAGCATG-TTTTTAGCTTTTTTTAATGTCACTTTGAATAGGTCTTTTGGCTGG
* * *
14157894 TAAATGGATTACTTAGAGTCCAAGTAACCTTGAAATGGTAAACTAGTTGTTTAAGGTTCATTTTG
324 TAAATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTGTTGTTTAAGGTTCATTTTG
* * * * * *
14157959 GGTTCACAGAGCCTAAGACACAACCGTGTGAGACACACATCCCGGTGATACGG-TCGTATGTCAC
389 GGTTCACACAGCCTGAGACACAACCGTGTAAGACACACAGCCCGGCGACACGGCT-GTATGTCAC
14158023 C
453 C
* *
14158024 TTATTGTTTTGATATGTAAAATGTTAATGTATAATTTTAAGTGCAAGTAGTTAACCTCATATGAT
1 TTATTGTTTTGATATGTAAAATGTTAAAGTATGATTTTAAGTGCAAGTAGTTAACCTCATATGAT
* * * *
14158089 ACGTGAACTAAGGAATATGTTTTAGTGCAAATATATGGTATGTATTAATGGAATGTTGTGACTGA
66 ATGTGAACTAAGGAAGATGTTTTAGTGCAAATATATGGTATGTGTTAATGGAATGTTGTGACTAA
14158154 GGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATAG
131 GGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATAG
* * * *
14158219 TTCTTTTGGTTGTAAAGTTGTATATACTTGTGGTATCAGTGAGGATACATTGGTTAGGCAC-CAA
196 TTCTTTTTGTTGTAAAATTGTATATACTTGTGGTATCAATGAGGATACATTGGTTAGGCACTTAA
* *
14158283 TGATTCTTGATTTAGCTTGTTTTTAGC-TTGTTTAATGTCACTTTGAATAGGTCTTTTGGCTGGT
261 -GATTCTTGATTTAGCATGTTTTTAGCTTTTTTTAATGTCACTTTGAATAGGTCTTTTGGCTGGT
* *
14158347 AAATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTGTTGGTTAAGGTTTATTTTGG
325 AAATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTGTTGTTTAAGGTTCATTTTGG
14158412 GTAT-ACACAGCCTGAGACACA
390 GT-TCACACAGCCTGAGACACA
14158433 GCTTGGCAAC
Statistics
Matches: 799, Mismatches: 58, Indels: 13
0.92 0.07 0.01
Matches are distributed among these distances:
452 114 0.14
453 270 0.34
454 414 0.52
455 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (453 bp):
TTATTGTTTTGATATGTAAAATGTTAAAGTATGATTTTAAGTGCAAGTAGTTAACCTCATATGAT
ATGTGAACTAAGGAAGATGTTTTAGTGCAAATATATGGTATGTGTTAATGGAATGTTGTGACTAA
GGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATAG
TTCTTTTTGTTGTAAAATTGTATATACTTGTGGTATCAATGAGGATACATTGGTTAGGCACTTAA
GATTCTTGATTTAGCATGTTTTTAGCTTTTTTTAATGTCACTTTGAATAGGTCTTTTGGCTGGTA
AATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTGTTGTTTAAGGTTCATTTTGGG
TTCACACAGCCTGAGACACAACCGTGTAAGACACACAGCCCGGCGACACGGCTGTATGTCACC
Found at i:14159350 original size:17 final size:18
Alignment explanation
Indices: 14159328--14159363 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
14159318 AAACATATAG
*
14159328 TTCTATCAATTAA-CAAT
1 TTCTATCAAATAACCAAT
14159345 TTCTATCAAATAACCAAT
1 TTCTATCAAATAACCAAT
14159363 T
1 T
14159364 CGAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (18 bp):
TTCTATCAAATAACCAAT
Found at i:14161976 original size:43 final size:43
Alignment explanation
Indices: 14161920--14162003 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
14161910 GATATATGTG
* *
14161920 GCATCCGAGCTCGTTGAGTGGTCCAAGTTTATTATGGATGCAA
1 GCATCCGAGCTCGTTGAGTGGTCCAAGTTCATAATGGATGCAA
* *
14161963 GCATCCGAGCTCGTTGAGTTGTCCGAGTTCATAATGGATGC
1 GCATCCGAGCTCGTTGAGTGGTCCAAGTTCATAATGGATGC
14162004 GATAGATGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGTGGTCCAAGTTCATAATGGATGCAA
Found at i:14163966 original size:19 final size:21
Alignment explanation
Indices: 14163934--14163975 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
14163924 ATAGATGTTC
*
14163934 AGTAGAGTTTGTAAGTAG-TT
1 AGTAGAGTTAGTAAGTAGATT
14163954 AGTA-AGTTAGTAAGTAGATT
1 AGTAGAGTTAGTAAGTAGATT
14163974 AG
1 AG
14163976 ATTTATGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (21 bp):
AGTAGAGTTAGTAAGTAGATT
Found at i:14164253 original size:12 final size:12
Alignment explanation
Indices: 14164236--14164270 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
14164226 CTTGTATGAC
14164236 TTAATTGATTAA
1 TTAATTGATTAA
14164248 TTAATTGATTAA
1 TTAATTGATTAA
*
14164260 TTAATCGATTA
1 TTAATTGATTA
14164271 TTTGATTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (12 bp):
TTAATTGATTAA
Found at i:14168163 original size:20 final size:19
Alignment explanation
Indices: 14168118--14168164 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
14168108 AATTTTTTGT
*
14168118 ATTATAAAATATATAATAT
1 ATTATAAAATATATAATAC
* *
14168137 ATGATAACATAATATAATAC
1 ATTATAAAAT-ATATAATAC
14168157 ATTATAAA
1 ATTATAAA
14168165 CATTAAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (19 bp):
ATTATAAAATATATAATAC
Found at i:14171399 original size:31 final size:30
Alignment explanation
Indices: 14171361--14171466 Score: 176
Period size: 31 Copynumber: 3.4 Consensus size: 30
14171351 ACGGTTACTG
14171361 GGCCGAAGCCTTTTCATAAATCATATCACT
1 GGCCGAAGCCTTTTCATAAATCATATCACT
14171391 AGGCCGAAGCCTTTTCATAAATCATATCACT
1 -GGCCGAAGCCTTTTCATAAATCATATCACT
*
14171422 GGGCCGAAGCCTTTTCATAAATCATTTCACT
1 -GGCCGAAGCCTTTTCATAAATCATATCACT
14171453 GAGCCGAAGCCTTT
1 G-GCCGAAGCCTTT
14171467 ACTGTAAACG
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
30 1 0.01
31 71 0.99
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (30 bp):
GGCCGAAGCCTTTTCATAAATCATATCACT
Found at i:14171541 original size:42 final size:42
Alignment explanation
Indices: 14171491--14171581 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
14171481 GGCCCACAGA
* ** *
14171491 CCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAAG
1 CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAG
* *
14171533 CCGATTTCAATATCATATGAAATACCAATGAATGTATGCAAG
1 CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAG
14171575 CCCATTT
1 CCCATTT
14171582 GGGGAGACTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (42 bp):
CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAG
Found at i:14171798 original size:26 final size:26
Alignment explanation
Indices: 14171714--14171849 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
14171704 CTGGAGGCCT
*
14171714 AGCCTCTTTT-AAT-AACTAGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
14171738 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
14171763 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
14171789 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
14171815 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
14171841 AGCCCTTTT
1 AGCCCTTTT
14171850 GTACTTTCTC
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 32 0.32
26 57 0.58
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:14171839 original size:52 final size:51
Alignment explanation
Indices: 14171714--14171849 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
14171704 CTGGAGGCCT
14171714 AGCCTCTTTT-AAT-AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
*
14171763 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
14171815 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
14171850 GTACTTTCTC
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 9 0.11
51 25 0.31
52 35 0.43
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:14171924 original size:20 final size:19
Alignment explanation
Indices: 14171899--14171961 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
14171889 TTATGAATAC
14171899 ATCATGTGCATTTCATACAT
1 ATCATGTGCA-TTCATACAT
14171919 ATCATGTGCA-T--TACAT
1 ATCATGTGCATTCATACAT
14171935 ATCATGTGCATATCATATCA-
1 ATCATGTGCAT-TCATA-CAT
14171955 ATCATGT
1 ATCATGT
14171962 ATATCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
16 15 0.39
18 2 0.05
20 19 0.50
21 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATGTGCATTCATACAT
Found at i:14171935 original size:16 final size:15
Alignment explanation
Indices: 14171912--14171954 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
14171902 ATGTGCATTT
14171912 CATACATATCATGTG
1 CATACATATCATGTG
14171927 CATTACATATCATGTG
1 CA-TACATATCATGTG
14171943 CATATCATATCA
1 CATA-CATATCA
14171955 ATCATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (15 bp):
CATACATATCATGTG
Found at i:14172815 original size:27 final size:27
Alignment explanation
Indices: 14172785--14172893 Score: 87
Period size: 27 Copynumber: 3.9 Consensus size: 27
14172775 GTAAATCTAC
14172785 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
14172812 AAACCAATGGTATTCCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
14172838 AAAAAAGTCAAAGGTATTTCTGTAATTTTGT
1 ---AAA-CCAAGGGTATTTCAGTAATTTTGT
* **
14172869 AAATCAAGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
14172894 ACAAATTCAG
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
26 1 0.02
27 40 0.61
28 4 0.06
29 3 0.05
30 17 0.26
31 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:14172899 original size:27 final size:26
Alignment explanation
Indices: 14172762--14172899 Score: 69
Period size: 27 Copynumber: 5.0 Consensus size: 26
14172752 TTTCATCCTA
* * * *
14172762 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTT-GTAATTTTACAAAT
* ** *
14172789 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTT-TGTAATTTTACAAAT
* * * *
14172816 CAATGGTATTCCTATAATTTTTAAAAAAGT
1 CAAGGGTATT-TTGTAA-TTTT-ACAAA-T
* **
14172846 CAAAGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTT-TGTAATTTTACAAAT
14172873 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTT-GTAATTTTACAAAT
14172900 TCAGGGTGTT
Statistics
Matches: 83, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
26 1 0.01
27 55 0.66
28 7 0.08
29 7 0.08
30 13 0.16
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (26 bp):
CAAGGGTATTTTGTAATTTTACAAAT
Found at i:14173014 original size:27 final size:27
Alignment explanation
Indices: 14172977--14173284 Score: 366
Period size: 27 Copynumber: 11.4 Consensus size: 27
14172967 GTAATTTCAC
14172977 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
14173004 AATTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
14173031 AATCAAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
** *
14173058 AATCGAGGGTAAAATAGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
14173085 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
14173112 AATCGAGGGTAAAACAGAAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
14173139 AATCGAGGGTAAGAGGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
14173166 AATCGAGGGTAAAATC-GTAATTTTGTA
1 AATCGAGGGTAAAA-CGGTAATTTTGTA
* * * *
14173193 AATCGAGGGCAAGAGGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* ** *
14173220 AATTGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
14173247 AATCGAGGCTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
14173274 AATTGAGGGTA
1 AATCGAGGGTA
14173285 TTTTAGTAAT
Statistics
Matches: 236, Mismatches: 43, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
27 236 1.00
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:14173052 original size:54 final size:54
Alignment explanation
Indices: 14172977--14173307 Score: 410
Period size: 54 Copynumber: 6.1 Consensus size: 54
14172967 GTAATTTCAC
* * * *
14172977 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * *
14173031 AATCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * * *
14173085 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGAAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * *
14173139 AATCGAGGGTAAGAGGGTAATTCTGTAAATCGAGGGTAAAATCGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * * * *
14173193 AATCGAGGGCAAGAGGGTAATTCTGTAAATTGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * * * *** **
14173247 AATCGAGGCTAAAACAGTAATTTTGTAAATTGAGGGTATTTTAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
14173301 AATCGAG
1 AATCGAG
14173308 TATATTTGGG
Statistics
Matches: 243, Mismatches: 34, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 243 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.31
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
Found at i:14173292 original size:27 final size:27
Alignment explanation
Indices: 14173209--14173382 Score: 82
Period size: 27 Copynumber: 6.5 Consensus size: 27
14173199 GGGCAAGAGG
* ***
14173209 GTAATTCTGTAAATTGAGGGTAAAATA
1 GTAATTTTGTAAATTGAGGGTATTTTA
* * * ****
14173236 GTAATTCTGTAAATCGAGGCTAAAACA
1 GTAATTTTGTAAATTGAGGGTATTTTA
14173263 GTAATTTTGTAAATTGAGGGTATTTTA
1 GTAATTTTGTAAATTGAGGGTATTTTA
** * ** **
14173290 GTAATTTTACAAATCGAGTATATTTGG
1 GTAATTTTGTAAATTGAGGGTATTTTA
* * * * *
14173317 GTAATTTTATAAACTGGGGGTACTTTG
1 GTAATTTTGTAAATTGAGGGTATTTTA
* * *
14173344 GTAA-TTT-TACAACTGGGGGTATTTCA
1 GTAATTTTGTA-AATTGAGGGTATTTTA
*
14173370 GTAATTTGGTAAA
1 GTAATTTTGTAAA
14173383 CTAAAGTATT
Statistics
Matches: 115, Mismatches: 29, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
25 2 0.02
26 20 0.17
27 91 0.79
28 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (27 bp):
GTAATTTTGTAAATTGAGGGTATTTTA
Found at i:14173384 original size:27 final size:25
Alignment explanation
Indices: 14173317--14173376 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
14173307 GTATATTTGG
*
14173317 GTAATTTTATAAACTGGGGGTACTTTG
1 GTAA-TTT-TAAACTGGGGGTACTTTA
14173344 GTAATTTTACAACTGGGGGTA-TTTCA
1 GTAATTTTA-AACTGGGGGTACTTT-A
14173370 GTAATTT
1 GTAATTT
14173377 GGTAAACTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.17
26 21 0.70
27 4 0.13
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (25 bp):
GTAATTTTAAACTGGGGGTACTTTA
Found at i:14175748 original size:42 final size:42
Alignment explanation
Indices: 14175701--14175788 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
14175691 CCATAGGCCT
* ** *
14175701 ATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGCCC
1 ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
*
14175743 ATTTCAATATCATATGAAATACCAATGAATGTATGCAAGCCC
1 ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
14175785 ATTT
1 ATTT
14175789 TGGGAGACTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (42 bp):
ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
Found at i:14176003 original size:26 final size:26
Alignment explanation
Indices: 14175921--14176055 Score: 138
Period size: 26 Copynumber: 5.3 Consensus size: 26
14175911 CTGGAGGCCT
14175921 AGCCTCTTTT-AAT-AACT-GGGCA-A
1 AGCC-CTTTTCAATAAACTAGGGCATA
***
14175944 AGCCCTTTTTGGTAAAC-AGGGGCA-A
1 AGCCCTTTTCAATAAACTA-GGGCATA
**
14175969 AGCCCTTTTCAATAAACCCGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
** *
14175995 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
14176021 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
14176047 AGCCCTTTT
1 AGCCCTTTT
14176056 GCACTTCCTC
Statistics
Matches: 93, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
22 5 0.05
23 5 0.05
24 3 0.03
25 25 0.27
26 55 0.59
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTAGGGCATA
Found at i:14176044 original size:52 final size:50
Alignment explanation
Indices: 14175921--14176055 Score: 186
Period size: 52 Copynumber: 2.7 Consensus size: 50
14175911 CTGGAGGCCT
*
14175921 AGCCTCTTTT-AAT-AACTGGGCA-AAGCCCTTTTTGGTAAACAGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGCATAAGCCCTTTTCGGTAAACAGGGGCAA
* *
14175969 AGCCCTTTTCAATAAACCCGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAA-CTGGGCATAAGCCCTTTTCGGTAAACAGGGGCA-A
14176021 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACT-GGGCATAAGCCCTTTT
14176056 GCACTTCCTC
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
47 5 0.06
48 7 0.09
49 2 0.03
50 6 0.08
51 24 0.31
52 33 0.43
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTGGGCATAAGCCCTTTTCGGTAAACAGGGGCAA
Found at i:14176130 original size:20 final size:19
Alignment explanation
Indices: 14176105--14176167 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
14176095 TTATGAATAC
14176105 ATCATGTGCATTTCATACAT
1 ATCATGTGCA-TTCATACAT
14176125 ATCATGTGCA-T--TACAT
1 ATCATGTGCATTCATACAT
14176141 ATCATGTGCATATCATATCA-
1 ATCATGTGCAT-TCATA-CAT
14176161 ATCATGT
1 ATCATGT
14176168 ATATCATCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
16 15 0.39
18 2 0.05
20 19 0.50
21 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATGTGCATTCATACAT
Found at i:14176141 original size:16 final size:15
Alignment explanation
Indices: 14176118--14176160 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
14176108 ATGTGCATTT
14176118 CATACATATCATGTG
1 CATACATATCATGTG
14176133 CATTACATATCATGTG
1 CA-TACATATCATGTG
14176149 CATATCATATCA
1 CATA-CATATCA
14176161 ATCATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (15 bp):
CATACATATCATGTG
Found at i:14177104 original size:27 final size:27
Alignment explanation
Indices: 14176967--14177192 Score: 95
Period size: 27 Copynumber: 8.3 Consensus size: 27
14176957 TTTCATCCTA
* * * * *
14176967 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* ** *
14176994 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* * *
14177021 CAATGGTATTCCTA-TAATTTTTAAAAAAGT
1 CAAGGGTATT-TTAGTAA-TTTT-ACAAA-T
* **
14177051 CAAAGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAT
*
14177078 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
** * *
14177105 TGAGGGTATTTCATTAATTTCT-CAAA-
1 CAAGGGTATTTTAGTAATTT-TACAAAT
* * * **
14177131 CTAGTGGTATTTTGGTAATTCTATCCTA-
1 CAAG-GGTATTTTAGTAATTTTA-CAAAT
*
14177159 CAAGGGTATTTTAGTAATTTCAC-AAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
*
14177185 CGAGGGTA
1 CAAGGGTA
14177193 AAGCGGTAAT
Statistics
Matches: 148, Mismatches: 39, Indels: 25
0.70 0.18 0.12
Matches are distributed among these distances:
25 1 0.01
26 12 0.08
27 101 0.68
28 14 0.09
29 7 0.05
30 13 0.09
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAT
Found at i:14177219 original size:27 final size:27
Alignment explanation
Indices: 14177182--14177481 Score: 334
Period size: 27 Copynumber: 11.1 Consensus size: 27
14177172 GTAATTTCAC
**
14177182 AATCGAGGGTAAAGCGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
14177209 AATTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * *
14177236 AAT-GAAGGGTAAAACGATAATTCTGTA
1 AATCG-AGGGTAAAATGGTAATTTTGTA
*
14177263 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
14177290 AATCAAAGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
14177317 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * * * *
14177344 AATCGAGGGTAAGAGGGTAAATCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
**
14177371 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * * *
14177398 AATCGACGGTAAGAGGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
14177425 AATTGAGGGTAAAATAGTAATTCTT-TA
1 AATCGAGGGTAAAATGGTAATT-TTGTA
**
14177452 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
14177479 AAT
1 AAT
14177482 TGAAGGTATT
Statistics
Matches: 226, Mismatches: 43, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
26 3 0.01
27 221 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:14177500 original size:54 final size:54
Alignment explanation
Indices: 14177182--14177481 Score: 379
Period size: 54 Copynumber: 5.6 Consensus size: 54
14177172 GTAATTTCAC
* * * * *
14177182 AATCGAGGGTAAAGCGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
*
14177236 AAT-GAAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
1 AATCG-AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * * *
14177290 AATCAAAGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * * * *
14177344 AATCGAGGGTAAGAGGGTAAATCTATAAATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * * *
14177398 AATCGACGGTAAGAGGGTAATTCTGTAAATTGAGGGTAAAATAGTAATTCTT-TA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATT-TTGTA
* *
14177452 AATCGAGGGTAAAACAGTAATTTTGTAAAT
1 AATCGAGGGTAAAACGGTAATTCTGTAAAT
14177482 TGAAGGTATT
Statistics
Matches: 214, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.00
54 211 0.99
55 2 0.01
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
Found at i:14177578 original size:26 final size:26
Alignment explanation
Indices: 14177486--14177581 Score: 79
Period size: 27 Copynumber: 3.6 Consensus size: 26
14177476 GTAAATTGAA
*
14177486 GGTATTTCAGTAATTTTACAGATCGAG
1 GGTATTTCAGTAATTTTACA-ATCGGG
** ** *
14177513 TATATTTGGGTAATTTTATAAATCGGG
1 GGTATTTCAGTAATTTTA-CAATCGGG
*
14177540 GGTACTTT-GGTAATTTTACAA-CTGGG
1 GGTA-TTTCAGTAATTTTACAATC-GGG
14177566 GGTATTTCAGTAATTT
1 GGTATTTCAGTAATTT
14177582 GGTAAACTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
25 4 0.07
26 16 0.29
27 31 0.56
28 4 0.07
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (26 bp):
GGTATTTCAGTAATTTTACAATCGGG
Found at i:14179948 original size:42 final size:42
Alignment explanation
Indices: 14179901--14179992 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
14179891 TGGCCCATAG
* ** *
14179901 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
14179943 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
14179985 GCCCATTT
1 GCCCATTT
14179993 TGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:14180207 original size:26 final size:26
Alignment explanation
Indices: 14180125--14180259 Score: 145
Period size: 26 Copynumber: 5.3 Consensus size: 26
14180115 CTGGAGGCCT
14180125 AGCCTCTTTT-AAT-AACT-GGGCAT-
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
14180148 AGCCCTTTTCGGTAAACAGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
** *
14180173 AGCCCTTTTCAATAAACCCGAGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** *
14180199 AGCCCTTTTCGGTAAACTGGGGCACA
1 AGCCCTTTTCAATAAACTGGGGCATA
14180225 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
14180251 AGCCCTTTT
1 AGCCCTTTT
14180260 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
22 5 0.06
23 5 0.06
24 3 0.03
25 24 0.27
26 53 0.59
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:14180250 original size:52 final size:50
Alignment explanation
Indices: 14180125--14180259 Score: 186
Period size: 52 Copynumber: 2.7 Consensus size: 50
14180115 CTGGAGGCCT
14180125 AGCCTCTTTT-AAT-AACTGGGCAT-AGCCCTTTTCGGTAAACAGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGCATAAGCCCTTTTCGGTAAACAGGGGCAA
* * *
14180173 AGCCCTTTTCAATAAACCCGAGCATAAGCCCTTTTCGGTAAACTGGGGCACA
1 AGCCCTTTTCAATAAA-CTGGGCATAAGCCCTTTTCGGTAAACAGGGGCA-A
14180225 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACT-GGGCATAAGCCCTTTT
14180260 GCACTTCCTC
Statistics
Matches: 76, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
47 5 0.07
48 7 0.09
49 2 0.03
50 6 0.08
51 24 0.32
52 32 0.42
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTGGGCATAAGCCCTTTTCGGTAAACAGGGGCAA
Found at i:14180334 original size:20 final size:19
Alignment explanation
Indices: 14180309--14180371 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
14180299 TTATGAATAC
14180309 ATCATGTGCATTTCATACAT
1 ATCATGTGCA-TTCATACAT
14180329 ATCATGTGCA-T--TACAT
1 ATCATGTGCATTCATACAT
14180345 ATCATGTGCATATCATATCA-
1 ATCATGTGCAT-TCATA-CAT
14180365 ATCATGT
1 ATCATGT
14180372 ATATCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
16 15 0.39
18 2 0.05
20 19 0.50
21 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATGTGCATTCATACAT
Found at i:14180345 original size:16 final size:15
Alignment explanation
Indices: 14180322--14180364 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
14180312 ATGTGCATTT
14180322 CATACATATCATGTG
1 CATACATATCATGTG
14180337 CATTACATATCATGTG
1 CA-TACATATCATGTG
14180353 CATATCATATCA
1 CATA-CATATCA
14180365 ATCATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (15 bp):
CATACATATCATGTG
Found at i:14180435 original size:25 final size:25
Alignment explanation
Indices: 14180407--14180454 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14180397 ATAATTAAAC
* * *
14180407 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
14180432 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
14180455 CATACTGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:14180636 original size:27 final size:27
Alignment explanation
Indices: 14180606--14180910 Score: 269
Period size: 27 Copynumber: 11.3 Consensus size: 27
14180596 ATGGGCTCTA
14180606 CGAGGGTAAAATAGTAATTTTATAAAT
1 CGAGGGTAAAATAGTAATTTTATAAAT
* * *
14180633 CGAGGGTGAAAA-GGTAATTCTGTAAAT
1 CGAGGGT-AAAATAGTAATTTTATAAAT
*
14180660 CGAGGGTAAAATGGTAATTTTATAAAT
1 CGAGGGTAAAATAGTAATTTTATAAAT
* *
14180687 CGAGGGTAAAATGGTAATTCTATAAAT
1 CGAGGGTAAAATAGTAATTTTATAAAT
* *
14180714 CGAGGGTAAAATAATAATTTTGTAAAT
1 CGAGGGTAAAATAGTAATTTTATAAAT
** * *
14180741 CGAGGGTAAAACGGTAATTCTGTAAAT
1 CGAGGGTAAAATAGTAATTTTATAAAT
* * * *
14180768 CGAGTGTAAAACAGTAATTCTGTAAAT
1 CGAGGGTAAAATAGTAATTTTATAAAT
*
14180795 CGATGGTAAAATAGTAATTCTT-TAAAT
1 CGAGGGTAAAATAGTAATT-TTATAAAT
* * * *
14180822 CGAGGGTAAAACAATAATTATGTAAA-
1 CGAGGGTAAAATAGTAATTTTATAAAT
** * *
14180848 CTGAGGGT-ATTTCGATAATTTTACAAAT
1 C-GAGGGTAAAATAG-TAATTTTATAAAT
* ** *
14180876 CGAGGAT-ATTTGGGTAATTTTATAAAT
1 CGAGGGTAAAAT-AGTAATTTTATAAAT
14180903 CGAGGGTA
1 CGAGGGTA
14180911 CTTGGTAATT
Statistics
Matches: 233, Mismatches: 36, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
26 7 0.03
27 219 0.94
28 7 0.03
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
CGAGGGTAAAATAGTAATTTTATAAAT
Found at i:14180712 original size:81 final size:81
Alignment explanation
Indices: 14180606--14180833 Score: 323
Period size: 81 Copynumber: 2.8 Consensus size: 81
14180596 ATGGGCTCTA
* *
14180606 CGAGGGTAAAATAGTAATTTTATAAATCGAGGGTGAAAA-GGTAATTCTGTAAATCGAGGGTAAA
1 CGAGGGTAAAATAGTAATTCTATAAATCGAGGGT-AAAATAGTAATTCTGTAAATCGAGGGTAAA
* *
14180670 ATGGTAATTTTATAAAT
65 ACGGTAATTCTATAAAT
* * *
14180687 CGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAATAATTTTGTAAATCGAGGGTAAAA
1 CGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAA
*
14180752 CGGTAATTCTGTAAAT
66 CGGTAATTCTATAAAT
* * * * *
14180768 CGAGTGTAAAACAGTAATTCTGTAAATCGATGGTAAAATAGTAATTCTTTAAATCGAGGGTAAAA
1 CGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAA
14180833 C
66 C
14180834 AATAATTATG
Statistics
Matches: 130, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 4 0.03
81 126 0.97
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (81 bp):
CGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAA
CGGTAATTCTATAAAT
Found at i:14180833 original size:54 final size:54
Alignment explanation
Indices: 14180606--14180856 Score: 335
Period size: 54 Copynumber: 4.6 Consensus size: 54
14180596 ATGGGCTCTA
*
14180606 CGAGGGTAAAATAGTAATTTTATAAATCGAGGGTGAAAA-GGTAATTCTGTAAAT
1 CGAGGGTAAAATAGTAATTTTGTAAATCGAGGGT-AAAATGGTAATTCTGTAAAT
* * *
14180660 CGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAAT
1 CGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAAT
* *
14180714 CGAGGGTAAAATAATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAAT
1 CGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAAT
* * * * * *
14180768 CGAGTGTAAAACAGTAATTCTGTAAATCGATGGTAAAATAGTAATTCTTTAAAT
1 CGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAAT
* * *
14180822 CGAGGGTAAAACAATAATTATGTAAA-CTGAGGGTA
1 CGAGGGTAAAATAGTAATTTTGTAAATC-GAGGGTA
14180857 TTTCGATAAT
Statistics
Matches: 176, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
53 5 0.03
54 171 0.97
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (54 bp):
CGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAAT
Found at i:14180915 original size:27 final size:26
Alignment explanation
Indices: 14180863--14180926 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
14180853 GGTATTTCGA
*
14180863 TAATTTTACAAATCGAGGATATTTGGG
1 TAATTTTACAAATCGAGGATACTT-GG
* *
14180890 TAATTTTATAAATCGAGGGTACTTGG
1 TAATTTTACAAATCGAGGATACTTGG
14180916 TAATTTTACAA
1 TAATTTTACAA
14180927 CTGGGGGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 12 0.36
27 21 0.64
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (26 bp):
TAATTTTACAAATCGAGGATACTTGG
Found at i:14185628 original size:26 final size:26
Alignment explanation
Indices: 14185591--14185674 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
14185581 TGATACAAAT
* *
14185591 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14185617 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14185643 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14185669 TGATAA
1 TGATAA
14185675 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:14187717 original size:136 final size:136
Alignment explanation
Indices: 14187463--14187743 Score: 528
Period size: 136 Copynumber: 2.1 Consensus size: 136
14187453 AGTCTCCCCA
14187463 AATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTT
1 AATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTT
14187528 ATTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTGT
66 ATTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTGT
14187593 TACC-C
131 TACCTC
*
14187598 AATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATATTGTT
1 AATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTT
14187663 ATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTG
66 AT-TGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTG
*
14187728 TTACCTG
130 TTACCTC
14187735 AATGGGCTT
1 AATGGGCTT
14187744 AGGCCCAATG
Statistics
Matches: 142, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
135 66 0.46
136 67 0.47
137 9 0.06
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (136 bp):
AATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTT
ATTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTGT
TACCTC
Found at i:14191545 original size:26 final size:26
Alignment explanation
Indices: 14191508--14191591 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
14191498 TGATACAAAT
* *
14191508 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14191534 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14191560 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14191586 TGATAA
1 TGATAA
14191592 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:14193621 original size:137 final size:137
Alignment explanation
Indices: 14193375--14193658 Score: 523
Period size: 137 Copynumber: 2.1 Consensus size: 137
14193365 TAGTCTCCCT
*
14193375 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
1 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTACTTTGAAATGGGCCTATGGGCCATACTGT
14193440 TATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
14193505 GTTACCC
131 GTTACCC
*
14193512 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTACTTTGAAATGGGCCTATGGGCTATACTGT
1 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTACTTTGAAATGGGCCTATGGGCCATACTGT
*
14193577 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
*
14193642 GTTACCT
131 GTTACCC
*
14193649 GAATGGGCTT
1 AAATGGGCTT
14193659 AGGCCTAATG
Statistics
Matches: 142, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 142 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
AAATGGGCTTGCATATGTTTACTGATGTTGCATGTACTTTGAAATGGGCCTATGGGCCATACTGT
TATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
GTTACCC
Found at i:14199029 original size:18 final size:18
Alignment explanation
Indices: 14199008--14199045 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14198998 AAAGGATTAC
14199008 TACTGAACGAA-TAATTGT
1 TACTGAA-GAACTAATTGT
*
14199026 TACTGAATAACTAATTGT
1 TACTGAAGAACTAATTGT
14199044 TA
1 TA
14199046 TCAAATGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
TACTGAAGAACTAATTGT
Found at i:14199655 original size:99 final size:103
Alignment explanation
Indices: 14199531--14199762 Score: 235
Period size: 99 Copynumber: 2.3 Consensus size: 103
14199521 TATTAGATAT
* *
14199531 TATTATATAATTTTATATAATAATTTAATAAATACATAAA-TTTATTGCCATA-AA-TATATAAT
1 TATTATTTAATATTA-AT-ATAATTTAATAAATACATAAATTTTATTG-CATATAATTATAT-AT
* ** *
14199593 TTTAATTATTATTTAATTTAAAAT-AA-TTTA-AATATGTTT
62 TTTAATTATCATTTAATAAAAAATAAATTTTATAATATGTTA
* ** * *
14199632 TATTATTTATTATTAATATAATTTAA-AAATATTTAAATTTTATTGCATATGATTTTATATTTTA
1 TATTATTTAATATTAATATAATTTAATAAATACATAAATTTTATTGCATATAATTATATATTTTA
* **
14199696 ATTATCATTTTATAAAAAATAAAATTTTATTTTATGTTA
66 ATTATCATTTAATAAAAAAT-AAATTTTATAATATGTTA
14199735 TATTATTTAATATTAATATAAATTTAAT
1 TATTATTTAATATTAATAT-AATTTAAT
14199763 TATTTATCTT
Statistics
Matches: 107, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
98 13 0.12
99 39 0.36
100 6 0.06
101 14 0.13
102 4 0.04
103 24 0.22
104 7 0.07
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (103 bp):
TATTATTTAATATTAATATAATTTAATAAATACATAAATTTTATTGCATATAATTATATATTTTA
ATTATCATTTAATAAAAAATAAATTTTATAATATGTTA
Found at i:14205957 original size:6 final size:6
Alignment explanation
Indices: 14205946--14205982 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
14205936 GTGTACCCTT
* *
14205946 CTGTTA CTGTTA CTGTTA CTATTA CTGTTA CCGTTA C
1 CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA C
14205983 GGTGTATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.46
Consensus pattern (6 bp):
CTGTTA
Found at i:14205958 original size:53 final size:51
Alignment explanation
Indices: 14205855--14205962 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
14205845 CTACTATGAT
*
14205855 TGTTCCAGATTCGTTCCGAAGAGGTACTCTGTACCTGACTGTTATTGTTAC
1 TGTTCCAGATTCGTTCCGAAGAGGTACTCTGTACCTGACTGTTACTGTTAC
* * * * *
14205906 TGTTCCGGATTTGTTCTGATGAGGTACTCTGTGTACCCT-TCTGTTACTGTTAC
1 TGTTCCAGATTCGTTCCGAAGAGGTACTC--TGTA-CCTGACTGTTACTGTTAC
14205959 TGTT
1 TGTT
14205963 ACTATTACTG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
51 25 0.52
53 20 0.42
54 3 0.06
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (51 bp):
TGTTCCAGATTCGTTCCGAAGAGGTACTCTGTACCTGACTGTTACTGTTAC
Found at i:14206255 original size:18 final size:18
Alignment explanation
Indices: 14206234--14206284 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
14206224 AAAGGATTAC
14206234 TACTGAACGAA-TAATTGT
1 TACTGAA-GAACTAATTGT
*
14206252 TACTGAATAACTAATTGT
1 TACTGAAGAACTAATTGT
*
14206270 TA-TCGAATAACTAAT
1 TACT-GAAGAACTAAT
14206285 AGTTTGCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 3 0.10
18 27 0.90
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TACTGAAGAACTAATTGT
Found at i:14206872 original size:19 final size:19
Alignment explanation
Indices: 14206826--14206873 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
14206816 GTATATATTT
14206826 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
14206844 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
14206863 TAAGTTTTATT
1 TAAATTTTATT
14206874 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:14206949 original size:42 final size:42
Alignment explanation
Indices: 14206890--14206980 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
14206880 CTAGGAATAT
* *
14206890 TTTTATTTTATCTTTTAGTAGTTTATTAGAAGAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGGGAACTA
*
14206932 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGGGAACTA
14206974 TTTTCTT
1 TTTTCTT
14206981 AATTAGGATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGGGAACTA
Found at i:14219621 original size:42 final size:42
Alignment explanation
Indices: 14219562--14219649 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
14219552 CTAGGAATAT
*
14219562 TTTTATTTTATCTTTTAGTAGTTTATTAGAAGAAGGGAACTA
1 TTTTATTTTATATTTTAGTAGTTTATTAGAAGAAGGGAACTA
* *
14219604 TTTTGTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTATTTTATATTTTAGTAGTTTATTAGAAGAAGGGAACTA
14219646 TTTT
1 TTTT
14219650 CCCAATTAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (42 bp):
TTTTATTTTATATTTTAGTAGTTTATTAGAAGAAGGGAACTA
Found at i:14221504 original size:24 final size:23
Alignment explanation
Indices: 14221460--14221504 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
14221450 CTTGTAAATG
* *
14221460 TTTAGAACTAAATTTATTGAATT
1 TTTAGAACTAAATTAAATGAATT
*
14221483 TTTAGAATTAAAATTAAATGAA
1 TTTAGAACT-AAATTAAATGAA
14221505 AAAAATTGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (23 bp):
TTTAGAACTAAATTAAATGAATT
Found at i:14232544 original size:25 final size:25
Alignment explanation
Indices: 14232516--14232565 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
14232506 TCTTATTTGC
14232516 ACCTTAATATTACATTGAGGGAGAT
1 ACCTTAATATTACATTGAGGGAGAT
14232541 ACCTTAATATTACATTGAGGGAGAT
1 ACCTTAATATTACATTGAGGGAGAT
14232566 GTATGTTCTG
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:0.12, G:0.20, T:0.32
Consensus pattern (25 bp):
ACCTTAATATTACATTGAGGGAGAT
Found at i:14234940 original size:20 final size:21
Alignment explanation
Indices: 14234899--14234942 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
14234889 TATTCGTAGC
14234899 TTTCATTAATTGTTAATTTAT
1 TTTCATTAATTGTTAATTTAT
*
14234920 TTTCATTAATT-TTAGTTTAT
1 TTTCATTAATTGTTAATTTAT
14234940 TTT
1 TTT
14234943 ATGATCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTCATTAATTGTTAATTTAT
Found at i:14260539 original size:28 final size:28
Alignment explanation
Indices: 14260479--14260539 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
14260469 TTTGCATTGT
* *
14260479 TGTGTATTAGATCTAGTAAATTTTGATA
1 TGTGTATTAGATCAAGTAAATTTTGACA
* * *
14260507 CGTGTATTAGATCAAGTGATTTTTGACA
1 TGTGTATTAGATCAAGTAAATTTTGACA
14260535 TGTGT
1 TGTGT
14260540 TGAGGCAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (28 bp):
TGTGTATTAGATCAAGTAAATTTTGACA
Found at i:14268946 original size:40 final size:40
Alignment explanation
Indices: 14268891--14269114 Score: 306
Period size: 40 Copynumber: 5.5 Consensus size: 40
14268881 TATTCGGATG
*
14268891 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
14268931 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
14268974 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
14269014 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
14269054 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
14269094 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
14269115 ATACTTGGGT
Statistics
Matches: 164, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 113 0.69
41 1 0.01
43 37 0.23
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:14269038 original size:83 final size:80
Alignment explanation
Indices: 14268899--14269114 Score: 303
Period size: 83 Copynumber: 2.7 Consensus size: 80
14268889 TGATATCCGA
* **
14268899 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC-
14268964 AGTAGTTG-CTATACCCGG
65 --TAG-TGACTATACCCGG
*
14268982 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGCT
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGCT
*
14269047 AGTGACTATATCCGG
66 AGTGACTATACCCGG
* *
14269062 GCTAAGACCCGAAGGCATTTGTGCAAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 GCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
14269115 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.37
81 2 0.02
83 60 0.49
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
GCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGCT
AGTGACTATACCCGG
Found at i:14286977 original size:22 final size:22
Alignment explanation
Indices: 14286869--14286978 Score: 73
Period size: 22 Copynumber: 4.8 Consensus size: 22
14286859 GACATGGCCG
14286869 GTAAGCTCATAATGAGCTGATAACA
1 GTAAGCTCAT-ATGAGCTG--AACA
* *
14286894 GTAAGCTCGAT-TGAGTTGGAAACG
1 GTAAGCTC-ATATGAGCT-G-AACA
* *
14286918 GAAAGCTC-TATTAAGCTGAACA
1 GTAAGCTCATA-TGAGCTGAACA
* *
14286940 GTAAGCTC-TTTCGAGCTGATCA
1 GTAAGCTCATAT-GAGCTGAACA
14286962 GTAAGCTCATATGAGCT
1 GTAAGCTCATATGAGCT
14286979 ATGGTGAGTC
Statistics
Matches: 67, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
21 1 0.01
22 33 0.49
23 3 0.04
24 19 0.28
25 9 0.13
26 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (22 bp):
GTAAGCTCATATGAGCTGAACA
Found at i:14295072 original size:21 final size:21
Alignment explanation
Indices: 14295048--14295090 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14295038 AGTTGTTTAC
*
14295048 CTATCAAAAACATTTCATTTT
1 CTATCAAAAACATTTAATTTT
* *
14295069 CTATCATAAATATTTAATTTT
1 CTATCAAAAACATTTAATTTT
14295090 C
1 C
14295091 AGCATATACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (21 bp):
CTATCAAAAACATTTAATTTT
Found at i:14311382 original size:84 final size:82
Alignment explanation
Indices: 14311200--14311431 Score: 254
Period size: 84 Copynumber: 2.8 Consensus size: 82
14311190 TTGTATCATT
* * * * *
14311200 AAATCAAATTAAAAT-ATGTTAAACGGCGAGAATAAATCCTGAAATAGA-ATTATTTGATTACGT
1 AAATCAAA-TAAAATCTTGTTAAACGGCAAGAATAAATCCTGAAATAGATTTTATTT-ATTTC-A
* * *
14311263 CTTTGTTTGGAAACAAAATA
63 ATTCGCTTGGAAACAAAATA
* *
14311283 ATATCGAATAAAATCTTGTTAAACGGCAAGAATAAATCCTGAAATAGATTTTATTTATTTCAATT
1 AAATCAAATAAAATCTTGTTAAACGGCAAGAATAAATCCTGAAATAGATTTTATTTATTTCAATT
14311348 CGAACTTGGAAACAAAATA
66 CG--CTTGGAAACAAAATA
** * * *
14311367 AAATCAAATAAAATCTTGTTAAATAGCAGGAATAAATCCCGAAACAGATTTTATTTTATTT-AAT
1 AAATCAAATAAAATCTTGTTAAACGGCAAGAATAAATCCTGAAATAGATTTTA-TTTATTTCAAT
14311431 T
65 T
14311432 TCTCGTTTTT
Statistics
Matches: 127, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
82 9 0.07
83 41 0.32
84 70 0.55
85 7 0.06
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (82 bp):
AAATCAAATAAAATCTTGTTAAACGGCAAGAATAAATCCTGAAATAGATTTTATTTATTTCAATT
CGCTTGGAAACAAAATA
Found at i:14311486 original size:87 final size:86
Alignment explanation
Indices: 14311395--14311595 Score: 251
Period size: 87 Copynumber: 2.3 Consensus size: 86
14311385 TTAAATAGCA
* *
14311395 GGAATAAATCCCGAAACAGATTTTATTTTATTTAATTTCTCGTTTTTGAAAACAAAATC-AAATC
1 GGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCTCATTTTTGAAAACAAAATCAAAATC
*
14311459 AAATAAATCTTTATTGAACGGTG
66 AAATAAATC--CATTGAACGGTG
* * * ** *
14311482 GGAATAAATCCCGAAACATATTTAATTTAATTTAATTTTTCATTTTTGGCAACAAAATCAAAATG
1 GGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCTCATTTTTGAAAACAAAATCAAAATC
* * *
14311547 TAATAAATCCGTTGAACTGTG
66 AAATAAATCCATTGAACGGTG
* *
14311568 GGAATCAATCCCGAAACGGATTTTATTT
1 GGAATAAATCCCGAAACAGATTTTATTT
14311596 CACTCATTTT
Statistics
Matches: 97, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
86 33 0.34
87 52 0.54
88 12 0.12
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.36
Consensus pattern (86 bp):
GGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCTCATTTTTGAAAACAAAATCAAAATC
AAATAAATCCATTGAACGGTG
Found at i:14313920 original size:34 final size:34
Alignment explanation
Indices: 14313882--14313950 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
14313872 ATAAAAGTAA
*
14313882 TACTTAGGTTATATTAGGTTGTGATATCCTATGG
1 TACTTAGATTATATTAGGTTGTGATATCCTATGG
*
14313916 TACTTAGATTATATTGGGTTGTGATATCCTATGG
1 TACTTAGATTATATTAGGTTGTGATATCCTATGG
14313950 T
1 T
14313951 CCGGATCTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.45
Consensus pattern (34 bp):
TACTTAGATTATATTAGGTTGTGATATCCTATGG
Found at i:14315478 original size:15 final size:15
Alignment explanation
Indices: 14315429--14315479 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
14315419 TTTAAAAAAT
14315429 ATTTATATTATT-TTA
1 ATTTATA-TATTGTTA
* *
14315444 ATTTAAAT-TTGATA
1 ATTTATATATTGTTA
14315458 ATTTTATATATTGTTA
1 A-TTTATATATTGTTA
14315474 ATTTAT
1 ATTTAT
14315480 TAAGATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 2 0.07
14 4 0.14
15 17 0.59
16 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (15 bp):
ATTTATATATTGTTA
Found at i:14327576 original size:45 final size:44
Alignment explanation
Indices: 14327469--14327620 Score: 211
Period size: 44 Copynumber: 3.5 Consensus size: 44
14327459 GGTACTAATT
*
14327469 GGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAAATGATATC
1 GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATC
* * *
14327513 AGGCCTTTGAGCCTAGCAGGATATAATGCCGGTGACATACTG-T-TC
1 GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A-A-TGATATC
14327558 GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATC
1 GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATC
*
14327602 GAG-CTTCGAGCCTAGCAGG
1 GGGCCTTCGAGCCTAGCAGG
14327621 TGAAATGTCG
Statistics
Matches: 95, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
42 2 0.02
43 18 0.19
44 36 0.38
45 35 0.37
46 2 0.02
47 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (44 bp):
GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATC
Found at i:14335426 original size:45 final size:44
Alignment explanation
Indices: 14335320--14335475 Score: 217
Period size: 44 Copynumber: 3.5 Consensus size: 44
14335310 GTAGGTACTA
* * *
14335320 ATCGGGCCTTCGAGCCTAGTAGGCTATAAAGCCAGTGAAATGAT
1 ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCTAGTGAAATGAT
* *
14335364 ATCGGGCCTTTGAGCCTAGCAGGCTATAATGCTAGTGAGAT-ACT
1 ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCTAGTGAAATGA-T
*
14335408 ATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGAT
1 A-TCGGGCCTTCGAGCCTAGCAGGCTATAATGCTAGTGAAATGAT
*
14335453 ATC-GGTCTTCGAGCCTAGCAGGC
1 ATCGGGCCTTCGAGCCTAGCAGGC
14335476 GAAATACCGG
Statistics
Matches: 100, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
43 20 0.20
44 40 0.40
45 39 0.39
46 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (44 bp):
ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCTAGTGAAATGAT
Found at i:14344742 original size:27 final size:27
Alignment explanation
Indices: 14344712--14345173 Score: 572
Period size: 27 Copynumber: 17.1 Consensus size: 27
14344702 AGTACTCCCA
*
14344712 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
14344739 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
* *
14344766 ATTTACAGAATTACCGTTTTACCCTCA
1 ATTTACAGAATTACCATTTTACCCTCG
** *
14344793 ATTTTTAAAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
* *
14344820 ATTTACAGAATTACCGTTTTACCCTCA
1 ATTTACAGAATTACCATTTTACCCTCG
14344847 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
* * *
14344874 ATTTATAGAATTATCGTTTTACCCTC-
1 ATTTACAGAATTACCATTTTACCCTCG
*
14344900 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCATTTTACCCTCG
* *
14344928 ATTTATAGAATTACTATTTTACCCTC-
1 ATTTACAGAATTACCATTTTACCCTCG
* *
14344954 AGTTTACAAAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCATTTTACCCTCG
14344982 ATTTACAGAATTACCATTTTACCCTC-
1 ATTTACAGAATTACCATTTTACCCTCG
* *
14345008 AGTTTACAGAATTACTATTTTACCCTCA
1 A-TTTACAGAATTACCATTTTACCCTCG
* *
14345036 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
** * * *
14345063 ATTTGTAAAATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCATTTTACCCTCG
* * *
14345090 ATTTACAAAATTACTAGTTTACCCTC-
1 ATTTACAGAATTACCATTTTACCCTCG
* * *
14345116 AGTTTACAAAATTATCGTTTTACCCTCG
1 A-TTTACAGAATTACCATTTTACCCTCG
*
14345144 ATTTACAGAATTACCATTTTACCCTTG
1 ATTTACAGAATTACCATTTTACCCTCG
14345171 ATT
1 ATT
14345174 GTGAAATTAC
Statistics
Matches: 378, Mismatches: 49, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.01
27 370 0.98
28 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
ATTTACAGAATTACCATTTTACCCTCG
Found at i:14345208 original size:27 final size:27
Alignment explanation
Indices: 14345178--14345373 Score: 223
Period size: 27 Copynumber: 7.3 Consensus size: 27
14345168 TTGATTGTGA
* *
14345178 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
14345205 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * *
14345232 AATTATTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
14345259 AATTACCAAAATACCCCTT-TAGGGTAG
1 AATTACCGAAATA-CCCTTGTAGGGTAG
* *
14345286 AATTATCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
14345313 AAATACCGAAATACTCTTGTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
14345340 AATTACCGAGATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
14345367 AATTACC
1 AATTACC
14345374 ATTTTGCCCC
Statistics
Matches: 144, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
26 5 0.03
27 134 0.93
28 5 0.03
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:14345787 original size:27 final size:27
Alignment explanation
Indices: 14345765--14345838 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
14345755 TAGGTGGGTT
*
14345765 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
14345792 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
14345819 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
14345839 CAGCCATGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:14345991 original size:31 final size:30
Alignment explanation
Indices: 14345956--14346088 Score: 178
Period size: 31 Copynumber: 4.4 Consensus size: 30
14345946 TTGCATTCAC
*
14345956 ATTCTGATTTTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTCAC-TAATTCTG
*
14345987 ATTCTGATTCTGATTCTGTCACCTAATTCTA
1 ATTCTGATTCTGATTCTGTCA-CTAATTCTG
* *
14346018 ATTTTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTCACTAAT-TCTG
* *
14346048 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTCACTAATTCTG
14346078 ATTCTGATTCT
1 ATTCTGATTCT
14346089 CATTTTGGTT
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.01
30 43 0.47
31 47 0.51
32 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTCACTAATTCTG
Found at i:14345992 original size:6 final size:6
Alignment explanation
Indices: 14345981--14346088 Score: 98
Period size: 6 Copynumber: 17.8 Consensus size: 6
14345971 CTGTCACGTA
* * * *
14345981 ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTA ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
14346030 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
14346078 ATTCTG ATTCT
1 ATTCTG ATTCT
14346089 CATTTTGGTT
Statistics
Matches: 85, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
5 6 0.07
6 72 0.85
7 5 0.06
8 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:14346963 original size:10 final size:10
Alignment explanation
Indices: 14346948--14346992 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
14346938 AGTTAGATTA
14346948 AACCTTAATT
1 AACCTTAATT
14346958 AACCTTAATT
1 AACCTTAATT
*
14346968 AA--TTAAGT
1 AACCTTAATT
*
14346976 AA-ATTAATT
1 AACCTTAATT
14346985 AACCTTAA
1 AACCTTAA
14346993 CCGCAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 7 0.23
9 7 0.23
10 16 0.53
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (10 bp):
AACCTTAATT
Found at i:14347971 original size:35 final size:35
Alignment explanation
Indices: 14347925--14347996 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
14347915 TCACCTAAGG
*
14347925 TTGACACACATAGGTTTTGCACAACGATTCGTACA
1 TTGACACACATAGGTTTTGCACAACGATTCATACA
*
14347960 TTGACACACATAGGTTTTGCACAACGGTTCATACA
1 TTGACACACATAGGTTTTGCACAACGATTCATACA
14347995 TT
1 TT
14347997 TAGGGTTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (35 bp):
TTGACACACATAGGTTTTGCACAACGATTCATACA
Found at i:14348149 original size:22 final size:22
Alignment explanation
Indices: 14348113--14348222 Score: 127
Period size: 22 Copynumber: 5.0 Consensus size: 22
14348103 GGTTCACAAA
*
14348113 ACTAACATA-AGGGCTCGCATGGT
1 ACTAACATATA-GGCTCACAT-GT
14348136 A-TAACATATAGGCTTC-CATGT
1 ACTAACATATAGGC-TCACATGT
* *
14348157 ACTAACATATAGGCTTACATAT
1 ACTAACATATAGGCTCACATGT
*
14348179 ACTAACATATTGGCTCACATGT
1 ACTAACATATAGGCTCACATGT
*
14348201 ACTAACATATAGGCTCGCATGT
1 ACTAACATATAGGCTCACATGT
14348223 TTACAGAGTT
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
21 4 0.05
22 68 0.89
23 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (22 bp):
ACTAACATATAGGCTCACATGT
Found at i:14353882 original size:15 final size:15
Alignment explanation
Indices: 14353862--14353890 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14353852 AAGAAATGGC
14353862 TAGTCATAGCACCAA
1 TAGTCATAGCACCAA
14353877 TAGTCATAGCACCA
1 TAGTCATAGCACCA
14353891 GATTGGAATT
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:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (15 bp):
TAGTCATAGCACCAA
Found at i:14366292 original size:47 final size:47
Alignment explanation
Indices: 14366239--14366830 Score: 995
Period size: 47 Copynumber: 12.5 Consensus size: 47
14366229 GTTGGCCCTG
*
14366239 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
14366286 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
14366333 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* * *
14366380 TCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
14366427 TCACATATATACACTTTCACATTTATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
14366474 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
14366521 TCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
14366570 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGACCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
14366617 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
14366664 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
14366713 TCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
14366762 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGACCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
14366809 TCACATATATATACATTCACAT
1 TCACATATATACACTTTCACAT
14366831 GACAATTATC
Statistics
Matches: 515, Mismatches: 26, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
47 376 0.73
49 139 0.27
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:14366454 original size:25 final size:25
Alignment explanation
Indices: 14366377--14366457 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 25
14366367 CCATTAGGCC
14366377 TTATCACATATATACACTTTCACAT
1 TTATCACATATATACACTTTCACAT
* *** * *
14366402 TCATCACAT-TGGCCAC--TCGGC-C
1 TTATCACATATATACACTTTC-ACAT
14366424 TTATCACATATATACACTTTCACAT
1 TTATCACATATATACACTTTCACAT
14366449 TTATCACAT
1 TTATCACAT
14366458 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
22 10 0.26
23 5 0.13
24 5 0.13
25 19 0.49
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (25 bp):
TTATCACATATATACACTTTCACAT
Found at i:14366577 original size:143 final size:143
Alignment explanation
Indices: 14366243--14366830 Score: 1013
Period size: 143 Copynumber: 4.1 Consensus size: 143
14366233 GCCCTGTCAC
*
14366243 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
*
14366308 TCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
66 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
14366373 GGCCTTATCAC--
131 GGCCTTATCACAT
* * *
14366384 ATATATACACTTTCACATTCATCACATTGGCCACTCGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
*
14366449 TTATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
66 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
14366514 GGCCTTATCACAT
131 GGCCTTATCACAT
* *
14366527 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
* *
14366592 TCATCACATCGGCTATTAGACCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
66 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
14366657 GGCCTTATCACAT
131 GGCCTTATCACAT
14366670 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCAC
* *
14366735 ATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCAT
64 ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCAT
*
14366800 TAGACCTTATCACAT
129 TAGGCCTTATCACAT
14366815 ATATATACA--TTCACAT
1 ATATATACACTTTCACAT
14366831 GACAATTATC
Statistics
Matches: 426, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
141 135 0.32
143 191 0.45
145 100 0.23
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
GGCCTTATCACAT
Found at i:14394134 original size:20 final size:20
Alignment explanation
Indices: 14394111--14394149 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14394101 TAAACATGGT
*
14394111 ATGTATGATATGCACATGAC
1 ATGTATGATACGCACATGAC
14394131 ATGTATGATACGCACATGA
1 ATGTATGATACGCACATGA
14394150 TGTATTCATA
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:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (20 bp):
ATGTATGATACGCACATGAC
Found at i:14394221 original size:25 final size:25
Alignment explanation
Indices: 14394193--14394321 Score: 151
Period size: 25 Copynumber: 5.2 Consensus size: 25
14394183 AGGAAGTGCA
14394193 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
14394218 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
14394243 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
14394267 AAAGGGCTCTA--CCCCAGTTATTA-
1 AAAGGGCT-TATGCCCCAGTTATGAT
*
14394290 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
14394318 AAAG
1 AAAG
14394322 TAGCTATGCT
Statistics
Matches: 94, Mismatches: 2, Indels: 13
0.86 0.02 0.12
Matches are distributed among these distances:
22 2 0.02
23 16 0.17
24 13 0.14
25 54 0.57
26 1 0.01
27 4 0.04
28 4 0.04
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:14394560 original size:31 final size:31
Alignment explanation
Indices: 14394506--14394566 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
14394496 CGTTTACAGT
*
14394506 AAAGGCTTCGGCCCAGTAATATGAGATATGG
1 AAAGGCTTCGGCCCAGTAATATGAAATATGG
**
14394537 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
14394567 AAATATGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGG
Found at i:14402223 original size:9 final size:9
Alignment explanation
Indices: 14402195--14402247 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
14402185 ATAAACATGG
14402195 TATGTATGA
1 TATGTATGA
*
14402204 TATGCACATGA
1 TATG--TATGA
*
14402215 CATGTATGA
1 TATGTATGA
14402224 TATGCATATGA
1 TATG--TATGA
14402235 TATGTATGA
1 TATGTATGA
14402244 TATG
1 TATG
14402248 CACATGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:14402233 original size:11 final size:11
Alignment explanation
Indices: 14402199--14402255 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
14402189 ACATGGTATG
14402199 TATGATATGCA
1 TATGATATGCA
* *
14402210 CATGACATG--
1 TATGATATGCA
14402219 TATGATATGCA
1 TATGATATGCA
14402230 TATGATATG--
1 TATGATATGCA
14402239 TATGATATGCA
1 TATGATATGCA
*
14402250 CATGAT
1 TATGAT
14402256 GTATTCATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (11 bp):
TATGATATGCA
Found at i:14402255 original size:20 final size:20
Alignment explanation
Indices: 14402189--14402255 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
14402179 ATTTTGATAA
*
14402189 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
14402209 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
14402229 ATATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
14402249 ACATGAT
1 ACATGAT
14402256 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:14402326 original size:25 final size:25
Alignment explanation
Indices: 14402298--14402426 Score: 131
Period size: 25 Copynumber: 5.2 Consensus size: 25
14402288 AGGAAGTGCA
*
14402298 AAAGGGCTTATGCCCTAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
14402323 AAAGGGCTTATACCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
14402348 AAAGGGCTTATGCCCTAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
14402372 AAAGGGC-TCTGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
14402395 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
14402423 AAAG
1 AAAG
14402427 CAGCTATGCT
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
23 18 0.20
24 14 0.16
25 48 0.54
26 1 0.01
27 4 0.04
28 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:14402357 original size:50 final size:48
Alignment explanation
Indices: 14402298--14402392 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 48
14402288 AGGAAGTGCA
14402298 AAAGGGCTTATGCCCTAGTTATGATAAAGGGCTTATACCCCAGTTATGAT
1 AAAGGGCTTATGCCCTAGTTATGA-AAAGGGC-TATACCCCAGTTATGAT
* * *
14402348 AAAGGGCTTATGCCCTAGTTATTAAAAGGGCTCTGCCCCAGTTAT
1 AAAGGGCTTATGCCCTAGTTATGAAAAGGGCTATACCCCAGTTAT
14402393 TAAAAGAGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
48 12 0.29
49 7 0.17
50 23 0.55
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (48 bp):
AAAGGGCTTATGCCCTAGTTATGAAAAGGGCTATACCCCAGTTATGAT
Found at i:14402665 original size:31 final size:31
Alignment explanation
Indices: 14402611--14402671 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
14402601 CGTTTACAGT
*
14402611 AAAGGCTTCGGCCCAGTAATATGAGATATGG
1 AAAGGCTTCGGCCCAGTAATATGAAATATGG
**
14402642 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
14402672 AAATATGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGG
Found at i:14404261 original size:34 final size:34
Alignment explanation
Indices: 14404218--14404286 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
14404208 CGTATGTTTA
*
14404218 AATAATGTTTTAATGTTATTTTGATGTATATGCT
1 AATAATGTTTTAATGTTATTTTGATGCATATGCT
14404252 AATAATGTTTTAATGTTATTTTGATGCATATGCT
1 AATAATGTTTTAATGTTATTTTGATGCATATGCT
14404286 A
1 A
14404287 TTGTGATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.51
Consensus pattern (34 bp):
AATAATGTTTTAATGTTATTTTGATGCATATGCT
Found at i:14407613 original size:17 final size:17
Alignment explanation
Indices: 14407591--14407623 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14407581 TTTAAGAGAC
*
14407591 ATAACTTTTGATTTGTT
1 ATAACTTTTCATTTGTT
14407608 ATAACTTTTCATTTGT
1 ATAACTTTTCATTTGT
14407624 AATTAGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (17 bp):
ATAACTTTTCATTTGTT
Found at i:14408316 original size:21 final size:22
Alignment explanation
Indices: 14408275--14408316 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
14408265 ACATGTCACC
*
14408275 TTCATCTTAAGTATTCTCCTTA
1 TTCATCTTAAGTATTCCCCTTA
14408297 TTCA-CTTAAG-ATTCACCCTT
1 TTCATCTTAAGTATTC-CCCTT
14408317 TGAAAACATC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.24, C:0.26, G:0.05, T:0.45
Consensus pattern (22 bp):
TTCATCTTAAGTATTCCCCTTA
Found at i:14416620 original size:47 final size:47
Alignment explanation
Indices: 14416555--14416658 Score: 129
Period size: 48 Copynumber: 2.2 Consensus size: 47
14416545 GCAATTATAG
* *
14416555 ATAACATTTAACACATAT-AGTCATATTAAATTTACTCTTTTCAATAC
1 ATAACATATAACACATATAAGTCATATT-AACTTACTCTTTTCAATAC
* * *
14416602 ATAACATATATCATATATAGAGTCATATTAACTTACTTTTTTCAATAC
1 ATAACATATAACACATATA-AGTCATATTAACTTACTCTTTTCAATAC
*
14416650 ATTACATAT
1 ATAACATAT
14416659 CAGAAGAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
47 15 0.31
48 25 0.51
49 9 0.18
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.41
Consensus pattern (47 bp):
ATAACATATAACACATATAAGTCATATTAACTTACTCTTTTCAATAC
Found at i:14420139 original size:48 final size:48
Alignment explanation
Indices: 14420057--14420201 Score: 175
Period size: 48 Copynumber: 3.0 Consensus size: 48
14420047 ATCAGCAATT
* * *
14420057 ATACATAACATTTAACACATATAGAGTCATATTAATTTATTCTTTTCA
1 ATACATAACATATATCACATATAGAGTCATATTAACTTATTCTTTTCA
* * * *
14420105 ATACATAACATATATCACATACAGATTTACATTAACTTACTT-TTTTCA
1 ATACATAACATATATCACATATAGAGTCATATTAACTTA-TTCTTTTCA
* * * *
14420153 ATACATATCGTATATCTCATATAGAGTCATATTAACTTACTCTTTTCA
1 ATACATAACATATATCACATATAGAGTCATATTAACTTATTCTTTTCA
14420201 A
1 A
14420202 ATCTTTCCTT
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 1 0.01
48 77 0.96
49 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.41
Consensus pattern (48 bp):
ATACATAACATATATCACATATAGAGTCATATTAACTTATTCTTTTCA
Found at i:14424502 original size:47 final size:47
Alignment explanation
Indices: 14424439--14424935 Score: 747
Period size: 47 Copynumber: 10.6 Consensus size: 47
14424429 CCCTTCGGGA
* * * *
14424439 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
14424486 CTTATCACATATATACACTTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACAC-TTTCACATTCATCACATTGGCCATTAGGC
* * *
14424534 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
* * *
14424581 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
*
14424628 CTTATCACATATATACA-TTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
14424674 CTTATCAC--ATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
14424719 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
14424766 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
14424813 CTTATCACATATATATACACTTTCACATTCATCACA-TCGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
14424861 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
14424910 CTTATCACATATATACAC-TTCACATT
1 CTTATCACATATATACACTTTCACATT
14424936 TATTCAAATA
Statistics
Matches: 426, Mismatches: 16, Indels: 17
0.93 0.03 0.04
Matches are distributed among these distances:
44 7 0.02
45 36 0.08
46 45 0.11
47 205 0.48
48 88 0.21
49 45 0.11
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:14424753 original size:138 final size:139
Alignment explanation
Indices: 14424439--14424935 Score: 743
Period size: 138 Copynumber: 3.5 Consensus size: 139
14424429 CCCTTCGGGA
* * * *
14424439 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
*
14424504 TTTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCA-TGTTCACATTCATCACA
66 -TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA--CACT-TTCACATTCATCACA
*
14424568 TTGGCCATTCGGC
127 TTGGCCATTAGGC
* * *
14424581 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACA
14424645 -TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACACTTTCACATTCATCACATTG
65 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACACTTTCACATTCATCACATTG
14424709 GCCATTAGGC
130 GCCATTAGGC
*
14424719 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* *
14424784 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCAC----ATATACACTTTCACATTCATCACA
*
14424849 -TCGCCATTAGGC
127 TTGGCCATTAGGC
14424861 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
14424926 AC-TTCACATT
64 ACTTTCACATT
14424936 TATTCAAATA
Statistics
Matches: 330, Mismatches: 15, Indels: 19
0.91 0.04 0.05
Matches are distributed among these distances:
138 87 0.26
139 37 0.11
140 41 0.12
141 1 0.00
142 76 0.23
143 32 0.10
144 56 0.17
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (139 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACACTTTCACATTCATCACATTGG
CCATTAGGC
Found at i:14424791 original size:185 final size:187
Alignment explanation
Indices: 14424439--14424935 Score: 745
Period size: 185 Copynumber: 2.6 Consensus size: 187
14424429 CCCTTCGGGA
* * *
14424439 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACA-ATATACAC
* * *
14424504 TTTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCA-TGTTCACATTCATCACA
65 -TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACA
* * * *
14424568 TTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
128 TCGGCCATTAGGCCTTATCACACATACACATGTTCACATTCATCACATCGGCCATTAGGC
14424628 CTTATCACATATATACA-TTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATACACT
14424691 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
* *
14424756 GCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
131 GCCATTAGGCCTTATCACACATACACA-TGTTCACATTCATCACATCGGCCATTAGGC
* *
14424813 CTTATCACATATATATACACTTTCACATTCATCACA-TCGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--A-ATAT
14424877 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC-TTCACATT
61 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATT
14424936 TATTCAAATA
Statistics
Matches: 285, Mismatches: 14, Indels: 17
0.90 0.04 0.05
Matches are distributed among these distances:
185 118 0.41
186 10 0.04
187 27 0.09
188 51 0.18
189 16 0.06
190 8 0.03
191 55 0.19
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (187 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATACACT
TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACACATACACATGTTCACATTCATCACATCGGCCATTAGGC
Found at i:14426241 original size:80 final size:84
Alignment explanation
Indices: 14426145--14426318 Score: 302
Period size: 83 Copynumber: 2.1 Consensus size: 84
14426135 ATATTTTTTG
*
14426145 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTA-CCC-CATGTTTATGACATGTTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCACATGTTTATGACATGTTTTT
14426208 AGCCATAACATCTTGTCCA
66 AGCCATAACATCTTGTCCA
14426227 -CCATGCTC-TTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCC-ACATGTTTATGACATGTTTT
14426290 TAGCCATAACATCTTGTCCA
65 TAGCCATAACATCTTGTCCA
14426310 CCCATGCTC
1 CCCATGCTC
14426319 ATGGCCGGCC
Statistics
Matches: 87, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
80 30 0.34
81 10 0.11
83 39 0.45
84 8 0.09
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.38
Consensus pattern (84 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCACATGTTTATGACATGTTTTT
AGCCATAACATCTTGTCCA
Found at i:14427532 original size:40 final size:40
Alignment explanation
Indices: 14427487--14427886 Score: 635
Period size: 40 Copynumber: 10.1 Consensus size: 40
14427477 CGAATACACG
* * * *
14427487 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
14427527 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
14427567 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
14427607 TCACTAGCATGAAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATG-AATGCTCTTCGGGACTTAGCCCGGATACA
14427648 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
14427688 TCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
14427727 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
14427767 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
14427806 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
14427846 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
14427885 TC
1 TC
14427887 GTCGAGACCT
Statistics
Matches: 337, Mismatches: 20, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
39 80 0.24
40 218 0.65
41 39 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:14427751 original size:79 final size:80
Alignment explanation
Indices: 14427487--14427886 Score: 635
Period size: 79 Copynumber: 5.0 Consensus size: 80
14427477 CGAATACACG
* * * * * * * *
14427487 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
* * *
14427552 TTTAGCACGGATATA
66 CTTAGCCCGGATACA
* *
14427567 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAAATGCTCTTCGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATG-AATGCTCTTCGGG
14427632 ACTTAGCCCGGATACA
65 ACTTAGCCCGGATACA
* *
14427648 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
14427713 CTTAG-CCGGATACA
66 CTTAGCCCGGATACA
14427727 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTC-GGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
14427791 CTTAGCCCGGATACA
66 CTTAGCCCGGATACA
14427806 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
14427871 CTTAGCCCGGAT-CA
66 CTTAGCCCGGATACA
14427885 TC
1 TC
14427887 GTCGAGACCT
Statistics
Matches: 298, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
78 7 0.02
79 143 0.48
80 75 0.25
81 73 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
CTTAGCCCGGATACA
Found at i:14427841 original size:119 final size:120
Alignment explanation
Indices: 14427487--14427886 Score: 653
Period size: 119 Copynumber: 3.4 Consensus size: 120
14427477 CGAATACACG
* * * * * * * *
14427487 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
* * *
14427552 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
66 CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
14427607 TCACTAGCATGAAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGG
1 TCACTAGCATG-AATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGG
14427672 ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATACA
65 ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
14427727 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTC-GGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
* *
14427791 CTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
66 CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
14427846 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATC
14427887 GTCGAGACCT
Statistics
Matches: 265, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
118 50 0.19
119 96 0.36
120 30 0.11
121 89 0.34
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:14428009 original size:38 final size:38
Alignment explanation
Indices: 14427940--14428014 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
14427930 GAATTTTAAT
*
14427940 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
14427978 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
14428015 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:14430466 original size:25 final size:25
Alignment explanation
Indices: 14430438--14430517 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
14430428 TTCGGGACTT
14430438 ATCACATTTATACACTTCCACATCC
1 ATCACATTTATACACTTCCACATCC
*** ** * *
14430463 ATCACA-TTGGCCA-TTCGGCCT-T
1 ATCACATTTATACACTTCCACATCC
14430485 ATCACATTTATACACTTCCACATCC
1 ATCACATTTATACACTTCCACATCC
14430510 ATCACATT
1 ATCACATT
14430518 GGCCATTCGG
Statistics
Matches: 38, Mismatches: 14, Indels: 6
0.66 0.24 0.10
Matches are distributed among these distances:
22 6 0.16
23 9 0.24
24 9 0.24
25 14 0.37
ACGTcount: A:0.29, C:0.34, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATTTATACACTTCCACATCC
Found at i:14430813 original size:49 final size:47
Alignment explanation
Indices: 14430435--14431030 Score: 869
Period size: 47 Copynumber: 12.6 Consensus size: 47
14430425 CCCTTCGGGA
* * *
14430435 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
14430482 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
14430529 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
14430576 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
14430623 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
14430670 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
14430717 CTTATCACACATACACA-TGTTCAC-TTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
14430763 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
14430812 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
14430859 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
14430906 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
14430955 CTTATCACATATATATACACTTTCACATTCAACACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
14431004 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
14431031 TATTCAAATA
Statistics
Matches: 517, Mismatches: 25, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
46 31 0.06
47 350 0.68
48 12 0.02
49 124 0.24
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:14432425 original size:85 final size:85
Alignment explanation
Indices: 14432296--14432474 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
14432286 TATTTTATTG
*
14432296 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
14432361 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
14432381 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
14432446 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
14432466 CCCATGCTC
1 CCCATGCTC
14432475 ATGGCTGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:14438194 original size:13 final size:13
Alignment explanation
Indices: 14438157--14438195 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
14438147 AAGCAATCGA
**
14438157 ACACGGGCGTGGA
1 ACACGGGCGTGTC
14438170 ACACGGGCGTGTC
1 ACACGGGCGTGTC
14438183 ACACGGGCGTGTC
1 ACACGGGCGTGTC
14438196 CCTGTCGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.18, C:0.28, G:0.41, T:0.13
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:14455946 original size:16 final size:16
Alignment explanation
Indices: 14455925--14455966 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
14455915 TACAGGCTCG
14455925 CTATAGTTTTAGTTTC
1 CTATAGTTTTAGTTTC
14455941 CTATAGTTTTAGTTTC
1 CTATAGTTTTAGTTTC
14455957 CTATAGTTTT
1 CTATAGTTTT
14455967 TCAGTTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.57
Consensus pattern (16 bp):
CTATAGTTTTAGTTTC
Found at i:14458828 original size:21 final size:21
Alignment explanation
Indices: 14458804--14458847 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
14458794 TTGTTTGTTC
* *
14458804 TTTCTTTCTTTTTCTATTTTA
1 TTTCTTTATTTTTCTATTATA
*
14458825 TTTCTTTATTTTTTTATTATA
1 TTTCTTTATTTTTCTATTATA
14458846 TT
1 TT
14458848 ATTATATTAT
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:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTCTTTATTTTTCTATTATA
Found at i:14458861 original size:13 final size:13
Alignment explanation
Indices: 14458839--14458899 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
14458829 TTTATTTTTT
14458839 TATTATATTATTA
1 TATTATATTATTA
14458852 TATTATATTATTA
1 TATTATATTATTA
* *
14458865 TATTTTAGTAATTA
1 TATTATA-TTATTA
14458879 TTATTAT-TTACTTA
1 -TATTATATTA-TTA
*
14458893 TAATATA
1 TATTATA
14458900 AGTAAACATA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 26 0.67
14 8 0.21
15 5 0.13
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:14477390 original size:19 final size:19
Alignment explanation
Indices: 14477356--14477392 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14477346 ATTAATTAAG
*
14477356 TTTAATTAAATTAAACATA
1 TTTAATTAAATAAAACATA
*
14477375 TTTAATTAACTAAAACAT
1 TTTAATTAAATAAAACAT
14477393 CACCAACCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTAATTAAATAAAACATA
Found at i:14480201 original size:29 final size:29
Alignment explanation
Indices: 14480144--14480202 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
14480134 CCTTATCCAT
*
14480144 TTTTTTAATAAATGACCCAATATTTTTTA
1 TTTTTTAATAAATGACCCAATATTGTTTA
* *
14480173 TTTTTTATGTAAATGGCCCAATA-TGTTTA
1 TTTTTTA-ATAAATGACCCAATATTGTTTA
14480202 T
1 T
14480203 ACTTCTTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (29 bp):
TTTTTTAATAAATGACCCAATATTGTTTA
Found at i:14480828 original size:39 final size:39
Alignment explanation
Indices: 14480760--14480875 Score: 187
Period size: 39 Copynumber: 3.0 Consensus size: 39
14480750 TATCTAAGAG
* * *
14480760 AAAGCTCTCTAAAGTATTAGAAACACAAAGAAAAAATTA
1 AAAGCTCCCCAAAATATTAGAAACACAAAGAAAAAATTA
*
14480799 AAAGTTCCCCAAAATATTAGAAACACAAAGAAAAAATTA
1 AAAGCTCCCCAAAATATTAGAAACACAAAGAAAAAATTA
*
14480838 AAAGCTCCCCAAAATATTAGAAACAAAAAGAAAAAATT
1 AAAGCTCCCCAAAATATTAGAAACACAAAGAAAAAATT
14480876 TGAAATCAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.59, C:0.15, G:0.09, T:0.18
Consensus pattern (39 bp):
AAAGCTCCCCAAAATATTAGAAACACAAAGAAAAAATTA
Found at i:14481119 original size:3 final size:3
Alignment explanation
Indices: 14481113--14481233 Score: 151
Period size: 3 Copynumber: 41.7 Consensus size: 3
14481103 TCTCTTTTTT
14481113 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * * * * *
14481161 TTC TTC TTC CTC ATC CTC TTC TT- GTA TTC TTC TTC TTA TT- TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
14481207 TTC TTC TT- TTC TTC TTC -TC TGC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
14481234 TTTTTTTCTT
Statistics
Matches: 104, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
2 7 0.07
3 97 0.93
ACGTcount: A:0.02, C:0.31, G:0.02, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:14482788 original size:43 final size:44
Alignment explanation
Indices: 14482627--14482799 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 44
14482617 ACATAGGATT
* * * * * *
14482627 TCGATATGTGATTTCGTGTAAGACTACGTCTGGGA-TGTTGTCA
1 TCGATATTTGATTACATGTAAGACCACGTCTGGGACAGTTGGCA
* * * * *
14482670 CCGAT-TTTAGATTTACGTGTAAGACAATGTCTGAGACA-TTGGCA
1 TCGATATTT-GA-TTACATGTAAGACCACGTCTGGGACAGTTGGCA
* * * *
14482714 TC-ATATTTAATTTCATGTAGGACC-CTCTCTGGGACAG-TGGCA
1 TCGATATTTGATTACATGTAAGACCAC-GTCTGGGACAGTTGGCA
14482756 TCGATATTTGATTACATGTAAGACCACGTCTGGGAC-GTTGGCA
1 TCGATATTTGATTACATGTAAGACCACGTCTGGGACAGTTGGCA
14482799 T
1 T
14482800 TGTATGAGCT
Statistics
Matches: 100, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
42 28 0.28
43 42 0.42
44 30 0.30
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (44 bp):
TCGATATTTGATTACATGTAAGACCACGTCTGGGACAGTTGGCA
Found at i:14484499 original size:7 final size:7
Alignment explanation
Indices: 14484487--14484546 Score: 111
Period size: 7 Copynumber: 8.4 Consensus size: 7
14484477 TATGCTTTTA
14484487 TTTATTT
1 TTTATTT
14484494 TTTATTT
1 TTTATTT
14484501 TTTATTT
1 TTTATTT
14484508 TTTATTT
1 TTTATTT
14484515 TTTATTT
1 TTTATTT
14484522 TTTATTTT
1 TTTA-TTT
14484530 TTTATTT
1 TTTATTT
14484537 TTTATTT
1 TTTATTT
14484544 TTT
1 TTT
14484547 TCAAACATAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
7 45 0.87
8 7 0.13
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTATTT
Found at i:14484502 original size:1 final size:1
Alignment explanation
Indices: 14484491--14484547 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
14484481 CTTTTATTTA
* * * * * * *
14484491 TTTTTTATTTTTTATTTTTTATTTTTTATTTTTTATTTTTTTATTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14484548 CAAACATAGT
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:14484513 original size:21 final size:22
Alignment explanation
Indices: 14484482--14484546 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
14484472 CAATTTATGC
14484482 TTTTATTTATTTTTTATTTTTTA
1 TTTT-TTTATTTTTTATTTTTTA
14484505 -TTTTTTATTTTTTATTTTTTA
1 TTTTTTTATTTTTTATTTTTTA
14484526 TTTTTTTATTTTTTATTTTTT
1 TTTTTTTATTTTTTATTTTTT
14484547 TCAAACATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
21 18 0.44
22 23 0.56
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (22 bp):
TTTTTTTATTTTTTATTTTTTA
Found at i:14488127 original size:10 final size:10
Alignment explanation
Indices: 14488112--14488141 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
14488102 GGGATAAAAT
14488112 AAATTATTAA
1 AAATTATTAA
14488122 AAATTATTAA
1 AAATTATTAA
14488132 AAATTATTAA
1 AAATTATTAA
14488142 GAGAACCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTATTAA
Found at i:14489528 original size:28 final size:29
Alignment explanation
Indices: 14489486--14489597 Score: 106
Period size: 28 Copynumber: 4.0 Consensus size: 29
14489476 CATGACTGTA
* *
14489486 AATGTGGTTTTGGCCTAGT-GGCCATATG
1 AATGTGATTTGGGCCTAGTGGGCCATATG
* * *
14489514 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGATTTGGGCCTAGTGGGCCATATG
* *
14489543 AATGTGA-ATGGGCCTATTGGGCCATATG
1 AATGTGATTTGGGCCTAGTGGGCCATATG
* *
14489571 AA--AGATATTGGGTCTAGTGGGCCATAT
1 AATGTGAT-TTGGGCCTAGTGGGCCATAT
14489598 ACATAGGTAT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
26 2 0.03
28 52 0.76
29 14 0.21
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAGTGGGCCATATG
Found at i:14492917 original size:44 final size:42
Alignment explanation
Indices: 14492841--14492938 Score: 119
Period size: 44 Copynumber: 2.3 Consensus size: 42
14492831 TCCTAAATAG
*
14492841 GGTCTTACACGAAATCAAATACGATGTCAACGTCTCAGACAT
1 GGTCTTACACGAAATCAAATACGATGTCAACGTCCCAGACAT
* *
14492883 GGTCTTACACTTAAATCATAAGT-CGATG-CTAACGTCCCAGACGT
1 GGTCTTACAC-GAAATCA-AA-TACGATGTC-AACGTCCCAGACAT
14492927 GGTCTTACACGA
1 GGTCTTACACGA
14492939 TAACACATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
42 10 0.21
43 8 0.17
44 29 0.60
45 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGTCAACGTCCCAGACAT
Found at i:14495735 original size:46 final size:45
Alignment explanation
Indices: 14495668--14495842 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 45
14495658 TGTAACCCGC
*
14495668 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
14495714 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
14495760 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
14495807 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
14495843 GTGCTCAACC
Statistics
Matches: 110, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 67 0.61
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Done.