Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 23 of 204
Found at i:6617729 original size:20 final size:20
Alignment explanation
Indices: 6617699--6617756 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
6617689 AAAGTATATT
*
6617699 TTGTAAAAAGTATAGATA-C
1 TTGTGAAAAGTATAGATACC
6617718 TTGGTGAAAAGTATAGATACC
1 TT-GTGAAAAGTATAGATACC
*
6617739 TTGTGTAAAGTATAGATA
1 TTGTGAAAAGTATAGATA
6617757 TCAAATTGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.86
21 3 0.09
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (20 bp):
TTGTGAAAAGTATAGATACC
Found at i:6624214 original size:29 final size:28
Alignment explanation
Indices: 6624180--6624255 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
6624170 AAGTTGTGGG
* *
6624180 TTTAGTCCCTATACTTTAATTTTGTCACT
1 TTTAGTCCCTATACTTTAATTTGGTCA-A
*
6624209 TTTAGTCCCTGTACTTTTTAATTTGGTCAA
1 TTTAGTCCCTATAC--TTTAATTTGGTCAA
*
6624239 TTTAATCCCTATACTTT
1 TTTAGTCCCTATACTTT
6624256 TTAAATTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 3 0.08
29 13 0.32
30 12 0.30
31 12 0.30
ACGTcount: A:0.21, C:0.20, G:0.08, T:0.51
Consensus pattern (28 bp):
TTTAGTCCCTATACTTTAATTTGGTCAA
Found at i:6624254 original size:30 final size:31
Alignment explanation
Indices: 6624180--6624259 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 31
6624170 AAGTTGTGGG
* *
6624180 TTTAGTCCCTATAC--TTTAATTTTGTCACT
1 TTTAGTCCCTATACTTTTTAATTTGGTCACA
*
6624209 TTTAGTCCCTGTACTTTTTAATTTGGTCA-A
1 TTTAGTCCCTATACTTTTTAATTTGGTCACA
*
6624239 TTTAATCCCTATACTTTTTAA
1 TTTAGTCCCTATACTTTTTAA
6624260 ATTTAAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 13 0.30
30 19 0.43
31 12 0.27
ACGTcount: A:0.23, C:0.19, G:0.07, T:0.51
Consensus pattern (31 bp):
TTTAGTCCCTATACTTTTTAATTTGGTCACA
Found at i:6625021 original size:23 final size:23
Alignment explanation
Indices: 6624977--6625022 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6624967 AGGACAAAAG
**
6624977 AAAACTCAAGTACCAATTTGAAA
1 AAAACTCAAGTACCAAGGTGAAA
* *
6625000 AAAACTTAGGTACCAAGGTGAAA
1 AAAACTCAAGTACCAAGGTGAAA
6625023 CTTGAAGCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (23 bp):
AAAACTCAAGTACCAAGGTGAAA
Found at i:6628074 original size:13 final size:13
Alignment explanation
Indices: 6628056--6628083 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6628046 ATTCTAAACA
6628056 AAATTTAGTATTT
1 AAATTTAGTATTT
6628069 AAATTTAGTATTT
1 AAATTTAGTATTT
6628082 AA
1 AA
6628084 TTTTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (13 bp):
AAATTTAGTATTT
Found at i:6629113 original size:23 final size:25
Alignment explanation
Indices: 6629076--6629125 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
6629066 TTATGAAAAT
*
6629076 TAAATCAAATCAAAATTTTA-TTTA
1 TAAATCAAATCAAAATTATAGTTTA
*
6629100 TAAATTAAA-CAAAATTATAGTTTA
1 TAAATCAAATCAAAATTATAGTTTA
6629124 TA
1 TA
6629126 TATAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (25 bp):
TAAATCAAATCAAAATTATAGTTTA
Found at i:6634100 original size:68 final size:66
Alignment explanation
Indices: 6633991--6634185 Score: 229
Period size: 64 Copynumber: 2.9 Consensus size: 66
6633981 CGGAATCGAA
*
6633991 AGTCCTCCAGGACAATAAACATAAGATCATATTGTGTAAGACCATAACTAGGCTATGGCAACATA
1 AGTCCGCCAGGACAATAAACAT-AGATCATATTGTGTAAGACCATAA-TAGGCTATGGCAACATA
6634056 TGG
64 TGG
* *
6634059 AGTCCGCTAGGACAATAAACATGAGATCATATTGTGTAAGACC---ATAGGCTAT-GAAGACATA
1 AGTCCGCCAGGACAATAAACAT-AGATCATATTGTGTAAGACCATAATAGGCTATGGCA-ACATA
6634120 TGG
64 TGG
* * * *
6634123 AGTCTGCCAAGACGATAAACATAGGATCACATTGTGTAAGACCATAGAT-GAGCTATGGCAACA
1 AGTCCGCCAGGACAATAAACATA-GATCATATTGTGTAAGACCATA-ATAG-GCTATGGCAACA
6634186 AATGAAGTTT
Statistics
Matches: 109, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
63 3 0.03
64 52 0.48
65 1 0.01
67 1 0.01
68 50 0.46
69 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.23
Consensus pattern (66 bp):
AGTCCGCCAGGACAATAAACATAGATCATATTGTGTAAGACCATAATAGGCTATGGCAACATATG
G
Found at i:6634512 original size:30 final size:30
Alignment explanation
Indices: 6634478--6634542 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
6634468 ACTTATTTTA
* *
6634478 TTGTTAATTTTGTTATTATTTTCA-AGGCAT
1 TTGTTAACTTTGTTATTATTTT-AGAGACAT
6634508 TTGTTAACTTTGTTATTATTTTAGAGACAT
1 TTGTTAACTTTGTTATTATTTTAGAGACAT
6634538 TTGTT
1 TTGTT
6634543 TGTTAAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.23, C:0.06, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAACTTTGTTATTATTTTAGAGACAT
Found at i:6635543 original size:25 final size:23
Alignment explanation
Indices: 6635515--6635571 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
6635505 ATCAAAAATA
6635515 CTAAAAATATCAAAATAAATATTT
1 CTAAAAATATCAAAATAAA-ATTT
*
6635539 CCTAACAAAT-TGAAAATAAAATTT
1 -CTAA-AAATATCAAAATAAAATTT
6635563 -TAAAAATAT
1 CTAAAAATAT
6635572 GGATACTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.14
22 4 0.14
24 4 0.14
25 13 0.45
26 4 0.14
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.32
Consensus pattern (23 bp):
CTAAAAATATCAAAATAAAATTT
Found at i:6635648 original size:30 final size:30
Alignment explanation
Indices: 6635612--6635674 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
6635602 ACTTAACAAG
6635612 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
6635642 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
6635672 CAA
1 CAA
6635675 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:6636328 original size:69 final size:69
Alignment explanation
Indices: 6636249--6636386 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
6636239 AATTATCAAA
*
6636249 GAAAATTATTGTCTTTATTAGTTGTCTAGAAATCCAATTTTTTTATTATATTATTTTGAATCTTT
1 GAAAATTATTGTCTTTATTAGTTGTCTAGAAACCCAATTTTTTTATTATATTATTTTGAATCTTT
6636314 CACG
66 CACG
6636318 GAAAATTATTGTCTTTATTAGTTGTCTAGAAACCCAATTTTTTTATTATATTATTTTGAATCTTT
1 GAAAATTATTGTCTTTATTAGTTGTCTAGAAACCCAATTTTTTTATTATATTATTTTGAATCTTT
6636383 CACG
66 CACG
6636387 CTAAGCTAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.50
Consensus pattern (69 bp):
GAAAATTATTGTCTTTATTAGTTGTCTAGAAACCCAATTTTTTTATTATATTATTTTGAATCTTT
CACG
Found at i:6638411 original size:7 final size:7
Alignment explanation
Indices: 6638399--6638423 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6638389 TGCTGCAAAT
6638399 TTTATTA
1 TTTATTA
6638406 TTTATTA
1 TTTATTA
6638413 TTTATTA
1 TTTATTA
6638420 TTTA
1 TTTA
6638424 CGATCTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:6645690 original size:227 final size:227
Alignment explanation
Indices: 6645295--6645752 Score: 916
Period size: 227 Copynumber: 2.0 Consensus size: 227
6645285 CCTCAAGAGT
6645295 GTTTTGAAATTCATGAGCATTTTGCTCAAATAACTTAGAATCAAACGGCAAATCAAAATTTGAAG
1 GTTTTGAAATTCATGAGCATTTTGCTCAAATAACTTAGAATCAAACGGCAAATCAAAATTTGAAG
6645360 ATGGATCCATGGACCATTTAGGCAGCTCTAAGGCATTGTCAGCCAAAGGAGTCTGAAAGATGTAC
66 ATGGATCCATGGACCATTTAGGCAGCTCTAAGGCATTGTCAGCCAAAGGAGTCTGAAAGATGTAC
6645425 TTGAATTAGAACATCTATAAATCATGATTTCGACAAAAGATCCAAATAAGACCAAACATCAAAAG
131 TTGAATTAGAACATCTATAAATCATGATTTCGACAAAAGATCCAAATAAGACCAAACATCAAAAG
6645490 TACAGAAAGAGAAAACCAATCTATTAAGAGAA
196 TACAGAAAGAGAAAACCAATCTATTAAGAGAA
6645522 GTTTTGAAATTCATGAGCATTTTGCTCAAATAACTTAGAATCAAACGGCAAATCAAAATTTGAAG
1 GTTTTGAAATTCATGAGCATTTTGCTCAAATAACTTAGAATCAAACGGCAAATCAAAATTTGAAG
6645587 ATGGATCCATGGACCATTTAGGCAGCTCTAAGGCATTGTCAGCCAAAGGAGTCTGAAAGATGTAC
66 ATGGATCCATGGACCATTTAGGCAGCTCTAAGGCATTGTCAGCCAAAGGAGTCTGAAAGATGTAC
6645652 TTGAATTAGAACATCTATAAATCATGATTTCGACAAAAGATCCAAATAAGACCAAACATCAAAAG
131 TTGAATTAGAACATCTATAAATCATGATTTCGACAAAAGATCCAAATAAGACCAAACATCAAAAG
6645717 TACAGAAAGAGAAAACCAATCTATTAAGAGAA
196 TACAGAAAGAGAAAACCAATCTATTAAGAGAA
6645749 GTTT
1 GTTT
6645753 GGTTAAATTT
Statistics
Matches: 231, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 231 1.00
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (227 bp):
GTTTTGAAATTCATGAGCATTTTGCTCAAATAACTTAGAATCAAACGGCAAATCAAAATTTGAAG
ATGGATCCATGGACCATTTAGGCAGCTCTAAGGCATTGTCAGCCAAAGGAGTCTGAAAGATGTAC
TTGAATTAGAACATCTATAAATCATGATTTCGACAAAAGATCCAAATAAGACCAAACATCAAAAG
TACAGAAAGAGAAAACCAATCTATTAAGAGAA
Found at i:6651286 original size:21 final size:21
Alignment explanation
Indices: 6651257--6651296 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6651247 TTATTTGAAC
6651257 ACCTCCAAACACATCCTACTT
1 ACCTCCAAACACATCCTACTT
* * *
6651278 ACCTTCAAACTCCTCCTAC
1 ACCTCCAAACACATCCTAC
6651297 CCGTATAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.45, G:0.00, T:0.25
Consensus pattern (21 bp):
ACCTCCAAACACATCCTACTT
Found at i:6661490 original size:20 final size:22
Alignment explanation
Indices: 6661451--6661495 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
6661441 GTTTAAATGG
*
6661451 TTTTAAACTTAAAGATAATT-A
1 TTTTAAAATTAAAGATAATTCA
*
6661472 TTTTAAAATT-AATATAATTCA
1 TTTTAAAATTAAAGATAATTCA
6661493 TTT
1 TTT
6661496 CGATATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTTAAAATTAAAGATAATTCA
Found at i:6663518 original size:15 final size:15
Alignment explanation
Indices: 6663493--6663527 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
6663483 GACTCTATTT
*
6663493 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
6663507 TAATTAATATTAAGA
1 TAATTAATATTAAGA
6663522 TAATTA
1 TAATTA
6663528 TTAAGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:6666054 original size:20 final size:18
Alignment explanation
Indices: 6666009--6666046 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
6665999 ACTTAATGTT
6666009 ATATATGTGAATTATATA
1 ATATATGTGAATTATATA
6666027 ATATATGTGAATTATATA
1 ATATATGTGAATTATATA
6666045 AT
1 AT
6666047 TGTCATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (18 bp):
ATATATGTGAATTATATA
Found at i:6666423 original size:25 final size:26
Alignment explanation
Indices: 6666332--6666424 Score: 84
Period size: 25 Copynumber: 3.7 Consensus size: 26
6666322 GTCCCGTTAT
**
6666332 ATGGCTCTTCGTGAGCTTCCCGATTA
1 ATGGCTCTTCGTGAGCTTCATGATTA
** * *
6666358 AAAGCTATTTGTGAGCTTCATGATTA
1 ATGGCTCTTCGTGAGCTTCATGATTA
* *
6666384 ATGGCTC-AC-TAGAGCTTCTTGATTA
1 ATGGCTCTTCGT-GAGCTTCATGATTA
6666409 ATGGCTCTTCG-GAGCT
1 ATGGCTCTTCGTGAGCT
6666425 ACCCGTTATT
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.49
26 25 0.49
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (26 bp):
ATGGCTCTTCGTGAGCTTCATGATTA
Found at i:6671029 original size:20 final size:20
Alignment explanation
Indices: 6670978--6671029 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
6670968 TTCAATTATG
6670978 ATTAAACTTAATCACTTTAAT
1 ATTAAA-TTAATCACTTTAAT
*
6670999 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAATCACTTTAAT
6671019 ATTAAATTAAT
1 ATTAAATTAAT
6671030 AAAATACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 21 0.75
21 5 0.18
22 1 0.04
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTAAATTAATCACTTTAAT
Found at i:6673839 original size:21 final size:21
Alignment explanation
Indices: 6673773--6673850 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
6673763 CTTGGGGCAA
* *
6673773 CTTCTTGGTGAGTTGATGTAG
1 CTTCTTGATGAGTTGAAGTAG
* * * *
6673794 CTTGTTGATGAGTTG-GGACAA
1 CTTCTTGATGAGTTGAAG-TAG
*
6673815 CTTCTTGGTGAGTTGAAGTAG
1 CTTCTTGATGAGTTGAAGTAG
*
6673836 CTTCTTAATGAGTTG
1 CTTCTTGATGAGTTG
6673851 GGGCAACCAC
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.19, C:0.10, G:0.31, T:0.40
Consensus pattern (21 bp):
CTTCTTGATGAGTTGAAGTAG
Found at i:6673865 original size:42 final size:42
Alignment explanation
Indices: 6673764--6673857 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
6673754 AGTTTTTCTC
* * *
6673764 TTGGGGCAACTTCTTGGTGAGTTGATGTAGCTTGTTGATGAG
1 TTGGGGCAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
*
6673806 TTGGGACAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
1 TTGGGGCAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
6673848 TTGGGGCAAC
1 TTGGGGCAAC
6673858 CACTTGGTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.20, C:0.12, G:0.33, T:0.35
Consensus pattern (42 bp):
TTGGGGCAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
Found at i:6675968 original size:15 final size:15
Alignment explanation
Indices: 6675950--6675979 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6675940 CTCTCAGAAT
6675950 TATCACTATCAGACA
1 TATCACTATCAGACA
*
6675965 TATCACTATTAGACA
1 TATCACTATCAGACA
6675980 CATTAAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (15 bp):
TATCACTATCAGACA
Found at i:6676187 original size:44 final size:44
Alignment explanation
Indices: 6676134--6676335 Score: 176
Period size: 44 Copynumber: 4.8 Consensus size: 44
6676124 ACAAAAACAA
6676134 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
1 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
* * * *
6676178 TTTAATACAAAGAAATCCA---TT-TC-TGC-TATG-TATA-A-
1 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
* * *
6676213 --TAA-CCAAACAAATTCGTTTATGTCATGCACATGCCATACAC
1 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
* * * * * * *
6676254 TTTAATACAAAGAAATCCATTTATGTCATGTACAATAACCAAACAA
1 TTTAATACAAACAAATTCATTTTTGTCATGCAC-AT-GCCATACAC
6676300 TTTAATACAAACAAATTCATTTTTGTCATGCACATG
1 TTTAATACAAACAAATTCATTTTTGTCATGCACATG
6676336 GTAGACAATA
Statistics
Matches: 120, Mismatches: 24, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
32 9 0.08
33 3 0.03
35 1 0.01
36 3 0.03
37 6 0.05
38 6 0.05
39 6 0.05
40 3 0.03
41 2 0.02
43 3 0.03
44 39 0.32
45 4 0.03
46 35 0.29
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (44 bp):
TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
Found at i:6676237 original size:76 final size:76
Alignment explanation
Indices: 6676141--6676299 Score: 266
Period size: 76 Copynumber: 2.1 Consensus size: 76
6676131 CAATTTAATA
* *
6676141 CAAACAAATTCATTTTTGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTCTG-CT
1 CAAACAAATTCATTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTC-
*
6676205 ATGTATAATAAC
65 ATGTACAATAAC
*
6676217 CAAACAAATTCGTTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTCA
1 CAAACAAATTCATTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTCA
6676282 TGTACAATAAC
66 TGTACAATAAC
6676293 CAAACAA
1 CAAACAA
6676300 TTTAATACAA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
76 77 0.99
77 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (76 bp):
CAAACAAATTCATTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTCA
TGTACAATAAC
Found at i:6676321 original size:46 final size:44
Alignment explanation
Indices: 6676217--6676334 Score: 146
Period size: 46 Copynumber: 2.6 Consensus size: 44
6676207 GTATAATAAC
* * * *
6676217 CAAACAAATTCGTTTATGTCATGCACATGCCATACACTTTAATA
1 CAAACAAATTCATTTATGTCATGCACATACCAAACAATTTAATA
* * *
6676261 CAAAGAAATCCATTTATGTCATGTACAATAACCAAACAATTTAATA
1 CAAACAAATTCATTTATGTCATGCAC-AT-ACCAAACAATTTAATA
*
6676307 CAAACAAATTCATTTTTGTCATGCACAT
1 CAAACAAATTCATTTATGTCATGCACAT
6676335 GGTAGACAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
44 22 0.36
45 4 0.07
46 35 0.57
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (44 bp):
CAAACAAATTCATTTATGTCATGCACATACCAAACAATTTAATA
Found at i:6676740 original size:11 final size:11
Alignment explanation
Indices: 6676724--6676759 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
6676714 CATACACAAT
6676724 TTTGAATCATA
1 TTTGAATCATA
6676735 TTTGAATCATA
1 TTTGAATCATA
6676746 TGTTTGAATCATA
1 --TTTGAATCATA
6676759 T
1 T
6676760 GTAACCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 12 0.52
13 11 0.48
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.47
Consensus pattern (11 bp):
TTTGAATCATA
Found at i:6676753 original size:13 final size:13
Alignment explanation
Indices: 6676724--6676761 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
6676714 CATACACAAT
6676724 TTTGAATCATA--
1 TTTGAATCATATG
6676735 TTTGAATCATATG
1 TTTGAATCATATG
6676748 TTTGAATCATATG
1 TTTGAATCATATG
6676761 T
1 T
6676762 AACCTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
13 14 0.56
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (13 bp):
TTTGAATCATATG
Found at i:6679571 original size:18 final size:18
Alignment explanation
Indices: 6679540--6679584 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
6679530 ATTCCCACTC
6679540 ATAATAATAATAATACTA
1 ATAATAATAATAATACTA
* *
6679558 ATAATTATATTAATACTA
1 ATAATAATAATAATACTA
*
6679576 ATATTAATA
1 ATAATAATA
6679585 CTTACTTCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAATAATAATAATACTA
Found at i:6679586 original size:12 final size:12
Alignment explanation
Indices: 6679544--6679584 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
6679534 CCACTCATAA
*
6679544 TAATAATAATAC
1 TAATAATAATAT
*
6679556 TAATAATTATAT
1 TAATAATAATAT
*
6679568 TAATACTAATAT
1 TAATAATAATAT
6679580 TAATA
1 TAATA
6679585 CTTACTTCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:6680333 original size:18 final size:17
Alignment explanation
Indices: 6680304--6680337 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
6680294 TTTGTTTTGT
6680304 TTTTATTTCTTTACTTC
1 TTTTATTTCTTTACTTC
6680321 TTTTATTTACTTTACTT
1 TTTTATTT-CTTTACTT
6680338 TATTTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATTTCTTTACTTC
Found at i:6680338 original size:23 final size:21
Alignment explanation
Indices: 6680305--6680350 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
6680295 TTGTTTTGTT
6680305 TTTATTTCTTTACTTCTTTTA
1 TTTATTTCTTTACTTCTTTTA
*
6680326 TTTACTTTACTTTATTTCTTTTA
1 TTTA-TTT-CTTTACTTCTTTTA
6680349 TT
1 TT
6680351 ATAACTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 3 0.14
23 15 0.68
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTATTTCTTTACTTCTTTTA
Found at i:6680519 original size:24 final size:27
Alignment explanation
Indices: 6680477--6680525 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
6680467 CATCTATTTA
6680477 ATTTATATAAAAATAAATA-ATATATT
1 ATTTATATAAAAATAAATACATATATT
6680503 ATTTATA-AAAAAT-AATACATATA
1 ATTTATATAAAAATAAATACATATA
6680526 AAACATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 11 0.50
26 7 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
ATTTATATAAAAATAAATACATATATT
Found at i:6681918 original size:7 final size:7
Alignment explanation
Indices: 6681908--6681970 Score: 108
Period size: 7 Copynumber: 8.7 Consensus size: 7
6681898 TTATATATAT
6681908 TTTAGGG
1 TTTAGGG
6681915 TTTAGGG
1 TTTAGGG
6681922 TTTAGGG
1 TTTAGGG
6681929 TTTTAGGG
1 -TTTAGGG
6681937 TTTTAGGG
1 -TTTAGGG
6681945 TTTAGGG
1 TTTAGGG
6681952 TTTAGGG
1 TTTAGGG
6681959 TTTAGGG
1 TTTAGGG
6681966 TTTAG
1 TTTAG
6681971 ACTTTTAATT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
7 40 0.73
8 15 0.27
ACGTcount: A:0.14, C:0.00, G:0.40, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:6681942 original size:30 final size:29
Alignment explanation
Indices: 6681907--6681968 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 29
6681897 ATTATATATA
6681907 TTTTAGGGTTTAGGGTTTAGGGTTTTAGGG
1 TTTTAGGGTTTAGGGTTTAGGG-TTTAGGG
6681937 TTTTAGGGTTTAGGGTTTAGGGTTTAGGG
1 TTTTAGGGTTTAGGGTTTAGGGTTTAGGG
6681966 TTT
1 TTT
6681969 AGACTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (29 bp):
TTTTAGGGTTTAGGGTTTAGGGTTTAGGG
Found at i:6695642 original size:26 final size:25
Alignment explanation
Indices: 6695610--6695662 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
6695600 AATATGATTT
*
6695610 AATAAATTGTATATTTATTGTATAAA
1 AATAAATTGTATATTTATT-CATAAA
*
6695636 AATAAATTTTATATTTATTCATAAA
1 AATAAATTGTATATTTATTCATAAA
6695661 AA
1 AA
6695663 ATATTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (25 bp):
AATAAATTGTATATTTATTCATAAA
Found at i:6696265 original size:22 final size:22
Alignment explanation
Indices: 6696240--6696286 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
6696230 TTTTTCTTCC
* *
6696240 GTGCGATGCATGGGTTTATCGT
1 GTGCGACGCATGAGTTTATCGT
6696262 GTGCGACGCATGAGTTTATCGT
1 GTGCGACGCATGAGTTTATCGT
6696284 GTG
1 GTG
6696287 TATAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.15, G:0.36, T:0.34
Consensus pattern (22 bp):
GTGCGACGCATGAGTTTATCGT
Found at i:6708408 original size:9 final size:9
Alignment explanation
Indices: 6708394--6708478 Score: 111
Period size: 9 Copynumber: 9.4 Consensus size: 9
6708384 TTTGGTTAAA
*
6708394 AATTAACTG
1 AATTAACCG
6708403 AATTAACCG
1 AATTAACCG
6708412 AATT-ACCTG
1 AATTAACC-G
6708421 AATTAACCG
1 AATTAACCG
6708430 AATTAACCG
1 AATTAACCG
*
6708439 GATT-ACCTG
1 AATTAACC-G
6708448 AATTAACCG
1 AATTAACCG
*
6708457 AATTACCCG
1 AATTAACCG
6708466 AATTAACCG
1 AATTAACCG
6708475 AATT
1 AATT
6708479 GAATCACTAC
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
8 6 0.09
9 55 0.82
10 6 0.09
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:6708432 original size:27 final size:27
Alignment explanation
Indices: 6708394--6708478 Score: 127
Period size: 27 Copynumber: 3.1 Consensus size: 27
6708384 TTTGGTTAAA
*
6708394 AATTAACTGAATTAACCGAATTACCTG
1 AATTAACCGAATTAACCGAATTACCTG
*
6708421 AATTAACCGAATTAACCGGATTACCTG
1 AATTAACCGAATTAACCGAATTACCTG
*
6708448 AATTAACCGAATTACCCGAATTAACC-G
1 AATTAACCGAATTAACCGAATT-ACCTG
6708475 AATT
1 AATT
6708479 GAATCACTAC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 50 0.94
28 3 0.06
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACCTG
Found at i:6708529 original size:6 final size:6
Alignment explanation
Indices: 6708518--6708551 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
6708508 ACTTTTAGAC
6708518 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGAT TTT
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG-T TTT
6708552 TATTTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 23 0.85
7 4 0.15
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.68
Consensus pattern (6 bp):
TTTAGT
Found at i:6708627 original size:18 final size:18
Alignment explanation
Indices: 6708587--6708630 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6708577 AATTTTTATG
**
6708587 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
6708605 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
6708623 CTTGGGTT
1 ATTGGGTT
6708631 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:6712050 original size:37 final size:37
Alignment explanation
Indices: 6712000--6712078 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
6711990 TTATTACGAA
* *
6712000 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
6712037 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
6712074 GTCTT
1 GTCTT
6712079 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:6712270 original size:47 final size:47
Alignment explanation
Indices: 6712197--6712687 Score: 820
Period size: 47 Copynumber: 10.4 Consensus size: 47
6712187 CCCTTCGAGA
* * * * * * *
6712197 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
6712244 CCTGTCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6712291 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
6712338 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6712385 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6712432 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6712479 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6712528 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6712575 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6712622 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6712669 CTTATCACATATATACACT
1 CTTATCACATATATACACT
6712688 GTCTTGGCTG
Statistics
Matches: 421, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 375 0.89
49 46 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:6712553 original size:190 final size:190
Alignment explanation
Indices: 6712197--6712683 Score: 834
Period size: 190 Copynumber: 2.6 Consensus size: 190
6712187 CCCTTCGAGA
* * * * * * * * * * *
6712197 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
*
6712262 TTTCACATCCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
6712325 TCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6712385 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
6712450 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
6712515 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6712575 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
6712640 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
6712684 CACTGTCTTG
Statistics
Matches: 283, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
188 90 0.32
190 193 0.68
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:6717066 original size:18 final size:18
Alignment explanation
Indices: 6717040--6717074 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6717030 ACATAAGAAT
*
6717040 ATATGTATGTATATGAAA
1 ATATATATGTATATGAAA
*
6717058 ATATATATGTATGTGAA
1 ATATATATGTATATGAA
6717075 TTATAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (18 bp):
ATATATATGTATATGAAA
Found at i:6717129 original size:23 final size:22
Alignment explanation
Indices: 6717103--6717145 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
6717093 CAAAAAAAAA
*
6717103 TAATATAGATAATATACATATTT
1 TAATATAGATAA-AAACATATTT
*
6717126 TAATATATATAAAAACATAT
1 TAATATAGATAAAAACATAT
6717146 ATAGATATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (22 bp):
TAATATAGATAAAAACATATTT
Found at i:6717304 original size:3 final size:3
Alignment explanation
Indices: 6717270--6717369 Score: 94
Period size: 3 Copynumber: 33.0 Consensus size: 3
6717260 TTATAAAAAC
* ** * * ** *
6717270 ATA ACA ATA ATA ACC ATA ATA TTA AAA ATA ATA ATA ATA ATA GCA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
6717318 A-A GATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA GATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
6717364 ATA ATA
1 ATA ATA
6717370 CATTAAGATA
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
2 1 0.01
3 74 0.95
4 3 0.04
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:6719760 original size:24 final size:26
Alignment explanation
Indices: 6719702--6719761 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
6719692 GCTTATCTAG
6719702 GCAATATAACGAGAAGCTCACAAAGA
1 GCAATATAACGAGAAGCTCACAAAGA
* * *
6719728 GC-CTGTAACGAGTAGCTC-CAAAGA
1 GCAATATAACGAGAAGCTCACAAAGA
6719752 GCAAT-TAACG
1 GCAATATAACG
6719762 GGTGCACCGG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 13 0.45
25 14 0.48
26 2 0.07
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.15
Consensus pattern (26 bp):
GCAATATAACGAGAAGCTCACAAAGA
Found at i:6719837 original size:26 final size:26
Alignment explanation
Indices: 6719808--6719869 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
6719798 GAGCACTAAA
*
6719808 GGGAAGCTCACAAAGAGCC-TTTAATC
1 GGGAAGCTCACAAAGAGCCATATAA-C
*
6719834 GGGAAGCTCACGAAGAGCCATATAAC
1 GGGAAGCTCACAAAGAGCCATATAAC
*
6719860 GGGATGCTCA
1 GGGAAGCTCA
6719870 TAAGAGTTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.34, C:0.23, G:0.27, T:0.16
Consensus pattern (26 bp):
GGGAAGCTCACAAAGAGCCATATAAC
Found at i:6724828 original size:3 final size:3
Alignment explanation
Indices: 6724815--6724856 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
6724805 CCTCATGCAA
6724815 CAT CA- CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
6724857 TGCAAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:6730666 original size:18 final size:17
Alignment explanation
Indices: 6730645--6730687 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
6730635 TAACAAAAAA
*
6730645 AAAAATTATAAATTAATT
1 AAAAATTATAAA-TAAAT
*
6730663 AAAAACATATAAATAAAT
1 AAAAA-TTATAAATAAAT
6730681 AAAAATT
1 AAAAATT
6730688 CTTAGATCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 14 0.67
19 6 0.29
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATTATAAATAAAT
Found at i:6731070 original size:31 final size:30
Alignment explanation
Indices: 6731008--6731079 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
6730998 TTAGACATCT
6731008 TTTAAATAATAATATTTAATTTAAATTTAAA
1 TTTAAATAATAATATTTAA-TTAAATTTAAA
*
6731039 TTTAGATAATAATATTTAGA-TAAATTATAAA
1 TTTAAATAATAATATTTA-ATTAAATT-TAAA
*
6731070 TAATAAATAA
1 T-TTAAATAA
6731080 GTTGTATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 6 0.17
31 22 0.63
32 7 0.20
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (30 bp):
TTTAAATAATAATATTTAATTAAATTTAAA
Found at i:6731665 original size:18 final size:18
Alignment explanation
Indices: 6731642--6731676 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6731632 TTACATATAA
6731642 AAATAATAATGACATTTG
1 AAATAATAATGACATTTG
* *
6731660 AAATAATTATTACATTT
1 AAATAATAATGACATTT
6731677 TATAATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (18 bp):
AAATAATAATGACATTTG
Found at i:6732645 original size:20 final size:20
Alignment explanation
Indices: 6732595--6732647 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
6732585 ATTTAATCCT
*
6732595 ATTTTAAAAAATTCAAAAAA
1 ATTTTAAAAAATACAAAAAA
* *
6732615 ATATTT-AAAAATACATAAAC
1 AT-TTTAAAAAATACAAAAAA
6732635 ATTTTAAAAAATA
1 ATTTTAAAAAATA
6732648 TAATAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.11
20 22 0.79
21 3 0.11
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (20 bp):
ATTTTAAAAAATACAAAAAA
Found at i:6732678 original size:5 final size:5
Alignment explanation
Indices: 6732670--6732699 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
6732660 TAAATTATAT
6732670 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
6732700 AGCCTCTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:6732774 original size:47 final size:47
Alignment explanation
Indices: 6732707--6732803 Score: 124
Period size: 47 Copynumber: 2.1 Consensus size: 47
6732697 AAAAGCCTCT
* * *
6732707 ACCACCCCGTACCCATCCCTCTCCTCCTCCCCCACTGGAGCTCCCCC
1 ACCACCCCGTACCCATCCCTCTCCCCCTCCCCCACCGGACCTCCCCC
* * *
6732754 ACCACCCTGT-CCCTATCCCTCTCCCCCTCCTCCACCGGACCTCCCGC
1 ACCACCCCGTACCC-ATCCCTCTCCCCCTCCCCCACCGGACCTCCCCC
6732801 ACC
1 ACC
6732804 TCCGTCCCTC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 3 0.07
47 40 0.93
ACGTcount: A:0.12, C:0.62, G:0.08, T:0.18
Consensus pattern (47 bp):
ACCACCCCGTACCCATCCCTCTCCCCCTCCCCCACCGGACCTCCCCC
Found at i:6747086 original size:17 final size:19
Alignment explanation
Indices: 6747051--6747087 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6747041 GTAATAATAA
6747051 TATTTA-ATATCAAATTTT
1 TATTTATATATCAAATTTT
6747069 TATTTATATAT-AAATTTT
1 TATTTATATATCAAATTTT
6747087 T
1 T
6747088 TTATTATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTATATATCAAATTTT
Found at i:6748528 original size:56 final size:55
Alignment explanation
Indices: 6748442--6748551 Score: 202
Period size: 56 Copynumber: 2.0 Consensus size: 55
6748432 GTATCCATTG
*
6748442 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATGAATAATTAAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATT-AATTTGTAA
6748498 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTA
6748552 TTCTATAATT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
55 8 0.15
56 45 0.85
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTAA
Found at i:6754458 original size:3 final size:3
Alignment explanation
Indices: 6754450--6754497 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
6754440 TCACATTTTA
* * * *
6754450 TAT TAT TAT TAC TAT TAT TAT TAT TAT TGT TAG TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6754498 ATATCAATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6756081 original size:56 final size:55
Alignment explanation
Indices: 6755985--6756092 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 55
6755975 GTATCCATTG
* * *
6755985 GATGATAAATCATCACTTTTAATTTGAACAGTGTTTATGAATAATTAAATTTGTAA
1 GATGATAAATCACCACTTTTAATTTGAACAGTGCTCATGAATAATT-AATTTGTAA
*
6756041 GATGATAAATCACCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 GATGATAAATCACCACTTTTAATTTGAACAGTGCTCATGAATAATTAATTTG
6756093 CAATCTATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
55 6 0.12
56 42 0.88
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (55 bp):
GATGATAAATCACCACTTTTAATTTGAACAGTGCTCATGAATAATTAATTTGTAA
Found at i:6759871 original size:124 final size:123
Alignment explanation
Indices: 6759570--6759871 Score: 407
Period size: 124 Copynumber: 2.5 Consensus size: 123
6759560 TTTGAAGTGT
* * * *
6759570 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAAT-A--CAAAAAAAGGGGTGAT
1 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAGGGAAAAAAAGGGCTAAA
* *
6759632 ATGTAAGTAAAGGATTAAAGTAAATAATGTAAATTTTGTTTTGAAGTGTTTCAAAAAA
66 ATGTAAGTAAAGGACTAAAGTAAATAATGTAAATTTTGTTTTGAAGTATTTCAAAAAA
* ** * *
6759690 TTGGAAAACTGTGATAGAATCTTTTGGTACAATCATTTAACAAATGAAGGGGAAAAAAGGGCTAA
1 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAAT-AAGGGAAAAAAAGGGCTAA
* * *
6759755 AATGTAAGTAAATGG-CTAAAGTAAACT-GTGTAAATTTTGTTTTGAAGTATTTGAAAACA
65 AATGTAAGTAAA-GGACTAAAGTAAA-TAATGTAAATTTTGTTTTGAAGTATTTCAAAAAA
6759814 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGGGAAAAAAA
1 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAAT-AAGGGAAAAAAA
6759872 TTGAGTATGA
Statistics
Matches: 156, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
120 41 0.26
122 1 0.01
124 111 0.71
125 3 0.02
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.29
Consensus pattern (123 bp):
TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAGGGAAAAAAAGGGCTAAA
ATGTAAGTAAAGGACTAAAGTAAATAATGTAAATTTTGTTTTGAAGTATTTCAAAAAA
Found at i:6760780 original size:19 final size:17
Alignment explanation
Indices: 6760741--6760780 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 17
6760731 TGTGAAGCAA
6760741 AGGAGGAAAGAAAAATT
1 AGGAGGAAAGAAAAATT
6760758 -GGAGGAAAGAATAAGATT
1 AGGAGGAAAGAA-AA-ATT
6760776 AGGAG
1 AGGAG
6760781 ATCATGGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 11 0.55
17 2 0.10
18 3 0.15
19 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (17 bp):
AGGAGGAAAGAAAAATT
Found at i:6770844 original size:25 final size:25
Alignment explanation
Indices: 6770810--6770859 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
6770800 CATTTGTTAC
*
6770810 AATTCAATTTATTTTATAATATAAT
1 AATTCAATTTAATTTATAATATAAT
*
6770835 AATTTAATTTAATTTATAATATAAT
1 AATTCAATTTAATTTATAATATAAT
6770860 TTTTAGCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
AATTCAATTTAATTTATAATATAAT
Found at i:6775839 original size:24 final size:24
Alignment explanation
Indices: 6775807--6775876 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
6775797 CAGATTGAAA
*
6775807 GAGCATCCCGTTATTAGCTCTCAT
1 GAGCTTCCCGTTATTAGCTCTCAT
* * **
6775831 GAGCTTCCCGTTATATGGTTCTTGT
1 GAGCTTCCCGTTAT-TAGCTCTCAT
* *
6775856 AAGCTTCCCGTTAATAGCTCT
1 GAGCTTCCCGTTATTAGCTCT
6775877 TTGGAGCATC
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
24 18 0.50
25 18 0.50
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (24 bp):
GAGCTTCCCGTTATTAGCTCTCAT
Found at i:6775888 original size:24 final size:24
Alignment explanation
Indices: 6775807--6775889 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
6775797 CAGATTGAAA
* *
6775807 GAGCATCCCGTTATTAGCTCTCAT-
1 GAGCATCCCGTTAATAGCTCT-TTG
* * *
6775831 GAGCTTCCCGTTATATGGTTC-TTG
1 GAGCATCCCGTTA-ATAGCTCTTTG
* *
6775855 TAAGCTTCCCGTTAATAGCTCTTTG
1 -GAGCATCCCGTTAATAGCTCTTTG
6775880 GAGCATCCCG
1 GAGCATCCCG
6775890 ATTGGTTATG
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
23 1 0.02
24 25 0.56
25 19 0.42
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (24 bp):
GAGCATCCCGTTAATAGCTCTTTG
Found at i:6775994 original size:27 final size:25
Alignment explanation
Indices: 6775952--6776021 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 25
6775942 CCCGATATAT
6775952 GGCTCTTCAGAGCTTC-CTGATTAAA
1 GGCTCTTCAGAGCTTCTC-GATTAAA
*
6775977 GGCTCTTTCATGAGCTTCTCGATTAATT
1 GGCTC-TTCA-GAGCTTCTCGATTAA-A
* *
6776005 GGCTCTCCGGAGCTTCT
1 GGCTCTTCAGAGCTTCT
6776022 TGATATTGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
25 5 0.13
26 12 0.32
27 15 0.39
28 6 0.16
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (25 bp):
GGCTCTTCAGAGCTTCTCGATTAAA
Found at i:6776115 original size:25 final size:24
Alignment explanation
Indices: 6776028--6776147 Score: 91
Period size: 25 Copynumber: 4.8 Consensus size: 24
6776018 TTCTTGATAT
* * * *
6776028 TGGCTCACTTGAACCTTCCCGATAT
1 TGGCTCACATG-AGCTTCCCGTTAA
** *
6776053 TGGCTCGTATGAGCTTCTCGTTAA
1 TGGCTCACATGAGCTTCCCGTTAA
*
6776077 TGGCTC-CCTGGAGCTTCCCGTTACA
1 TGGCTCACAT-GAGCTTCCCGTTA-A
*
6776102 TGGCTCACATGAGCTTCCTGTTTATA
1 TGGCTCACATGAGCTTCCCG-TTA-A
6776128 T-GCTCACATGAGCATTCCCG
1 TGGCTCACATGAGC-TTCCCG
6776148 AATATGAATT
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
23 1 0.01
24 27 0.36
25 36 0.47
26 12 0.16
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (24 bp):
TGGCTCACATGAGCTTCCCGTTAA
Found at i:6780191 original size:3 final size:3
Alignment explanation
Indices: 6780183--6780214 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6780173 CTTATATGAA
6780183 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6780215 ATCAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6792028 original size:42 final size:42
Alignment explanation
Indices: 6791979--6792125 Score: 158
Period size: 42 Copynumber: 3.5 Consensus size: 42
6791969 AGCTCTCACA
* * * *
6791979 AGCTTCTGTTTAACTCATGTGAGTTTCCGTTCAGCTCTATTG
1 AGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTATTG
* *
6792021 AGCTTCTGTTTAACCCTTATGGGTTTCCATTCAGCTCT-TACG
1 AGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTAT-TG
* * * *
6792063 AGCTTCTATTCAACCCTTATGGGTTTCTGTTTAGCTCTCA-TG
1 AGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCT-ATTG
6792105 AGCTTCTGTTT-ACCCTT-TGGG
1 AGCTTCTGTTTAACCCTTATGGG
6792126 CTTCTGAAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 4 0.05
41 7 0.08
42 77 0.88
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (42 bp):
AGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTATTG
Found at i:6792081 original size:21 final size:21
Alignment explanation
Indices: 6792020--6792081 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 21
6792010 CAGCTCTATT
* * *
6792020 GAGCTTCTGTTTAACCCTTAT
1 GAGCTTCTATTCAACCCTTAC
* * * * *
6792041 GGGTTTCCATTCAGCTCTTAC
1 GAGCTTCTATTCAACCCTTAC
6792062 GAGCTTCTATTCAACCCTTA
1 GAGCTTCTATTCAACCCTTA
6792082 TGGGTTTCTG
Statistics
Matches: 28, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.39
Consensus pattern (21 bp):
GAGCTTCTATTCAACCCTTAC
Found at i:6792090 original size:21 final size:21
Alignment explanation
Indices: 6792032--6792090 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
6792022 GCTTCTGTTT
*
6792032 AACCCTTATGGGTTTCCATTC
1 AACCCTTATGGGTTTCTATTC
* * * * *
6792053 AGCTCTTACGAGCTTCTATTC
1 AACCCTTATGGGTTTCTATTC
6792074 AACCCTTATGGGTTTCT
1 AACCCTTATGGGTTTCT
6792091 GTTTAGCTCT
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.39
Consensus pattern (21 bp):
AACCCTTATGGGTTTCTATTC
Found at i:6800153 original size:13 final size:14
Alignment explanation
Indices: 6800134--6800171 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
6800124 CAATGGCATA
6800134 GAAATAATATAAAC
1 GAAATAATATAAAC
6800148 -AAATAA-ATAAAC
1 GAAATAATATAAAC
6800160 GAAATGAATATA
1 GAAAT-AATATA
6800172 TATAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:6802074 original size:18 final size:18
Alignment explanation
Indices: 6802051--6802089 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
6802041 TTTTTTCTTA
6802051 TTAAGGGCCGGGTAAAAT
1 TTAAGGGCCGGGTAAAAT
*
6802069 TTAAGGGCCGGGTTAAAT
1 TTAAGGGCCGGGTAAAAT
6802087 TTA
1 TTA
6802090 GGTATTACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (18 bp):
TTAAGGGCCGGGTAAAAT
Found at i:6804700 original size:19 final size:20
Alignment explanation
Indices: 6804665--6804703 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
6804655 CTATCTTTCA
6804665 AATTTTATAATTTTGCTCAG
1 AATTTTATAATTTTGCTCAG
*
6804685 AATTTTATGA-TTTGCTCAG
1 AATTTTATAATTTTGCTCAG
6804704 TTTAGTCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (20 bp):
AATTTTATAATTTTGCTCAG
Found at i:6804797 original size:80 final size:80
Alignment explanation
Indices: 6804710--6804869 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
6804700 TCAGTTTAGT
*
6804710 CCCTAAATGATTCTTAAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCTGATGATATGA
1 CCCTAAATGATTCTTAAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
6804775 ATAATGTTATAAGTC
66 ATAATGTTATAAGTC
*
6804790 CCCTAAATGATTCTTGAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
1 CCCTAAATGATTCTTAAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
6804855 ATAATGTTATAAGTC
66 ATAATGTTATAAGTC
6804870 ATGATCTGGT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (80 bp):
CCCTAAATGATTCTTAAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
ATAATGTTATAAGTC
Found at i:6808959 original size:6 final size:6
Alignment explanation
Indices: 6808948--6808974 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6808938 CGCCGTCTTC
6808948 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
6808975 CCCAACCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:6809412 original size:32 final size:33
Alignment explanation
Indices: 6809376--6809443 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
6809366 TGAACATTAC
* *
6809376 AATTTTG-GGTTGTTCTTATATTTATATATGCA
1 AATTTTGAGGTTGATCTTATATTTACATATGCA
* *
6809408 AA-TTTGAGGTTGATCTTATTTTTGCATATGCA
1 AATTTTGAGGTTGATCTTATATTTACATATGCA
6809440 AATT
1 AATT
6809444 CGGGTCGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 4 0.13
32 25 0.83
33 1 0.03
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.50
Consensus pattern (33 bp):
AATTTTGAGGTTGATCTTATATTTACATATGCA
Found at i:6813209 original size:47 final size:48
Alignment explanation
Indices: 6813132--6813230 Score: 191
Period size: 47 Copynumber: 2.1 Consensus size: 48
6813122 GAATCAGTTT
6813132 TGGAAAAGAATGAAAAAAATTTTAGAGTATTGATATCTCTCACATACA
1 TGGAAAAGAATGAAAAAAATTTTAGAGTATTGATATCTCTCACATACA
6813180 TGGAAAAGAATG-AAAAAATTTTAGAGTATTGATATCTCTCACATACA
1 TGGAAAAGAATGAAAAAAATTTTAGAGTATTGATATCTCTCACATACA
6813227 TGGA
1 TGGA
6813231 GCCAATGCAC
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 39 0.76
48 12 0.24
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.29
Consensus pattern (48 bp):
TGGAAAAGAATGAAAAAAATTTTAGAGTATTGATATCTCTCACATACA
Found at i:6820403 original size:29 final size:30
Alignment explanation
Indices: 6820362--6820424 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
6820352 AATTGAACTT
6820362 AATTTTTAAAATAAAAAAATATAA-GCACTA
1 AATTTTTAAAATAAAAAAATA-AATGCACTA
* * *
6820392 AATTTTT-GAATATAAAAATAAATGGACTA
1 AATTTTTAAAATAAAAAAATAAATGCACTA
6820421 AATT
1 AATT
6820425 CTAAATGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 20 0.69
30 7 0.24
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (30 bp):
AATTTTTAAAATAAAAAAATAAATGCACTA
Found at i:6821311 original size:15 final size:15
Alignment explanation
Indices: 6821302--6821334 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6821292 CAAATGCTAT
6821302 AATAATAAATACAAC
1 AATAATAAATACAAC
*
6821317 AATAATAAATACATC
1 AATAATAAATACAAC
6821332 AAT
1 AAT
6821335 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:6821710 original size:40 final size:43
Alignment explanation
Indices: 6821649--6821728 Score: 103
Period size: 40 Copynumber: 1.9 Consensus size: 43
6821639 GAGCTTTTTT
* *
6821649 TTAAAGAATAAATATCCATATG-GATATAAATAA-AATATTTG
1 TTAAAGAATAAATATACATATGACATATAAATAATAATATTTG
*
6821690 TTAAA-AATATATATACATATGTACATATAAATAATAATA
1 TTAAAGAATAAATATACATATG-ACATATAAATAATAATA
6821729 ATAATTCCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 14 0.42
41 5 0.15
42 10 0.30
43 4 0.12
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (43 bp):
TTAAAGAATAAATATACATATGACATATAAATAATAATATTTG
Found at i:6823535 original size:44 final size:43
Alignment explanation
Indices: 6823438--6824065 Score: 378
Period size: 44 Copynumber: 14.7 Consensus size: 43
6823428 CTAGGGTCTA
* * ***
6823438 CTCCACTGCAACTTCAGGGAGATAAGACT-A-GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTAATCTG
* * *
6823479 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTAATCTG
* * * * *
6823522 CTCCACTGCAACTTCAGAGAAATATGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA-AGGTTTTAATCTG
* * * * *
6823566 CTCCACTACAACTTCAGGGAGATGAGATT-A-GATGTGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTAATCTG
* * * * ** * *
6823607 CT-CTCTGCAACTTTAGAGAAATAAGATCTGTGATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTAATCTG
* * *
6823650 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA-AGGTTTTAATCTG
* * * *
6823694 CTCCACTGCAACTTCAGGGAGATAAGATT-TGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAAG--GT-TTTAATCTG
* *
6823739 C-CTCACTGCAACTTCA-GGAGGATAAGACTT--GCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTAAGGTT--TTAATCTG
* * * ***
6823783 CTCCACTGCAACTTTAGGGAGATAAGACT-A-GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTAATCTG
* * * **
6823824 CT-CTCTGCAACTTCAGAGAGATAAGATCTAA--TTTTAGTCCA
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTAATCTG
*
6823865 CTCCACTGCAACTTCAGGGAGATAAGATTATCA-GCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA--AGGTTTTAATCTG
* * * ***
6823909 TTCCACTGCAACTTAAGGGAGATAAGATT-A-GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTAATCTG
* * * ** * *
6823950 CT-CTCTGTAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTAATCTG
* * *
6823993 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA-AGGTTTTAATCTG
* *
6824037 CTCCACTGTAACTTTAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
6824066 TGCCATCTTC
Statistics
Matches: 447, Mismatches: 108, Indels: 61
0.73 0.18 0.10
Matches are distributed among these distances:
40 83 0.19
41 37 0.08
42 27 0.06
43 31 0.07
44 234 0.52
45 33 0.07
46 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTAATCTG
Found at i:6823666 original size:128 final size:128
Alignment explanation
Indices: 6823438--6823722 Score: 444
Period size: 128 Copynumber: 2.2 Consensus size: 128
6823428 CTAGGGTCTA
* *
6823438 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAAATAA
* * *
6823503 GATCCAAGGTTTTAATCTGCTCCACTGCAACTTCAGAGAAATATGATTATCGGCTTTAATCTG
66 GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGAGAAATAGGATTATCGGCTTTAATCTG
* * * *
6823566 CTCCACTACAACTTCAGGGAGATGAGATTAGATGTGATCTGCTCTCTGCAACTTTAGAGAAATAA
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAAATAA
*** * *
6823631 GATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTG
66 GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGAGAAATAGGATTATCGGCTTTAATCTG
6823694 CTCCACTGCAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
6823723 TGCCATCTTC
Statistics
Matches: 141, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
128 141 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (128 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAAATAA
GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGAGAAATAGGATTATCGGCTTTAATCTG
Found at i:6823976 original size:343 final size:344
Alignment explanation
Indices: 6823433--6824163 Score: 1239
Period size: 343 Copynumber: 2.1 Consensus size: 344
6823423 TATTTCTAGG
6823433 GTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
1 GTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
** * *
6823498 GATAAGATCCAAGGTTTTAATCTGCTCCACTGCAACTTCAGAGAAATATGATTATCGGCTTTAAT
66 GATAAGATCCAA-GTTTTAATCCACTCCACTGCAACTTCAGAGAAATAAGATTATCAGCTTTAAT
* * * *
6823563 CTGCTCCACTACAACTTCAGGGAGATGAGATTAGATGTGATCTGCTCTCTGCAACTTTAGAGAAA
130 CTGCTCCACTACAACTTAAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAAA
6823628 TAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCT
195 TAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCT
6823693 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGA
260 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGA
*
6823758 GGATAAGACTTGCTTACTTA
325 GGATAAAACTTGCTTACTTA
* *
6823778 GTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
1 GTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
* * * *
6823843 GATAAGATCTAA-TTTTAGTCCACTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTTAATC
66 GATAAGATCCAAGTTTTAATCCACTCCACTGCAACTTCAGAGAAATAAGATTATCAGCTTTAATC
* * * *
6823907 TGTTCCACTGCAACTTAAGGGAGATAAGATTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGAT
131 TGCTCCACTACAACTTAAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAAAT
*
6823972 AAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTG
196 AAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTG
* * *
6824037 CTCCACTGTAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCATGAG
261 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
6824102 GATAAAACTTGCTTACTTA
326 GATAAAACTTGCTTACTTA
6824121 GTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGAT
1 GTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGAT
6824164 ATTCAATCTG
Statistics
Matches: 361, Mismatches: 25, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
343 287 0.80
345 74 0.20
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (344 bp):
GTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
GATAAGATCCAAGTTTTAATCCACTCCACTGCAACTTCAGAGAAATAAGATTATCAGCTTTAATC
TGCTCCACTACAACTTAAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAAAT
AAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTG
CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
GATAAAACTTGCTTACTTA
Found at i:6824016 original size:84 final size:84
Alignment explanation
Indices: 6823438--6824064 Score: 385
Period size: 84 Copynumber: 7.3 Consensus size: 84
6823428 CTAGGGTCTA
* * *
6823438 CTCCACTGCAACTTCAGGGAGATAAGA-CTAGATGC---GATCTGCT-CTCTGCAACTTCAGAGA
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-G-TGCTTTAATCTGCTCCACTGCAACTTCAGGGA
* * * *
6823498 GATAAGATCCAAGGTTTTAATCTG
64 GATAAGAT--TA-GATGTGATCTG
* * * * *
6823522 CTCCACTGCAACTTCAGAGAAATATGAT-TATCGGCTTTAATCTGCTCCACTACAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGT--GCTTTAATCTGCTCCACTGCAACTTCAGGGA
*
6823586 GATGAGATTAGATGTGATCTG
64 GATAAGATTAGATGTGATCTG
* * * * * *
6823607 CT-CTCTGCAACTTTAGAGAAATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTG-CTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
6823671 ATAGGATTATCGGCTTTAATCTG
65 ATAAGATTA---GATGTGATCTG
*
6823694 CTCCACTGCAACTTCAGGGAGATAAGAT-T-TGCCATCTTCAGTCTGC-CTCACTGCAACTTCA-
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTG-C-T-TT-AATCTGCTC-CACTGCAACTTCAG
* * *
6823755 GGAGGATAAGACTT-GCTTACTTAGTCTG
61 GGA-GATAAGA-TTAG-AT-GTGA-TCTG
* * * *
6823783 CTCCACTGCAACTTTAGGGAGATAAGA-CTAGATGC---GATCTGCT-CTCTGCAACTTCAGAGA
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-G-TGCTTTAATCTGCTCCACTGCAACTTCAGGGA
* * **
6823843 GATAAGATCTA-ATTTTAGTCCA
64 GATAAGAT-TAGATGTGA-TCTG
* * *
6823865 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTTAATCTGTTCCACTGCAACTTAAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGT--GCTTTAATCTGCTCCACTGCAACTTCAGGGA
*
6823929 GATAAGATTAGATGCGATCTG
64 GATAAGATTAGATGTGATCTG
* * * * *
6823950 CT-CTCTGTAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTG-CTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
6824014 ATAGGATTATCGGCTTTAATCTG
65 ATAAGATTA---GATGTGATCTG
* *
6824037 CTCCACTGTAACTTTAGGGAGATAAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGAT
6824065 TTGCCATCTT
Statistics
Matches: 425, Mismatches: 74, Indels: 84
0.73 0.13 0.14
Matches are distributed among these distances:
80 1 0.00
82 36 0.08
83 4 0.01
84 161 0.38
85 33 0.08
86 29 0.07
87 29 0.07
88 72 0.17
89 55 0.13
90 2 0.00
91 1 0.00
92 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (84 bp):
CTCCACTGCAACTTCAGGGAGATAAGATCTGTGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
TAAGATTAGATGTGATCTG
Found at i:6824050 original size:128 final size:126
Alignment explanation
Indices: 6823779--6824065 Score: 457
Period size: 128 Copynumber: 2.3 Consensus size: 126
6823769 GCTTACTTAG
*
6823779 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
*
6823844 ATAAGATCTAATTTTAGTCCACTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTTAA
66 ATAAGATCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTTAA
* * *
6823905 TCTGTTCCACTGCAACTTAAGGGAGATAAGATTAGATGCGATCTGCTCTCTGTAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
** * * *
6823970 ATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
66 ATAAGATC--TAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTTAA
*
6824033 TCTGCTCCACTGTAACTTTAGGGAGATAAGATT
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATT
6824066 TGCCATCTTC
Statistics
Matches: 146, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
126 69 0.47
128 77 0.53
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (126 bp):
TCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTTAA
Found at i:6824150 original size:44 final size:45
Alignment explanation
Indices: 6823993--6824150 Score: 110
Period size: 44 Copynumber: 3.6 Consensus size: 45
6823983 TTTTAATCCG
** ** ** * * *
6823993 CTCCACTGCAACTTCAGGGAGATAGGA-TTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAAACTTGCCATCTTCAGTCTA
* * * * *
6824037 CTCCACTGTAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAAACTTGCCATCTTCAGTCTA
* *
6824082 C-CTCACTGCAACTTCA-TGAGGATAAAACTTG-CTTACTT-AGTCTA
1 CTC-CACTGCAACTTCAGGGA-GATAAAACTTGCCAT-CTTCAGTCTA
6824126 CTCCACTGCAACTTCAGGGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAA
6824151 GACTAGATGC
Statistics
Matches: 91, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
44 53 0.58
45 38 0.42
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAAACTTGCCATCTTCAGTCTA
Found at i:6836054 original size:15 final size:15
Alignment explanation
Indices: 6836045--6836077 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6836035 CAAATGCTAT
6836045 AATAATAAATACAAC
1 AATAATAAATACAAC
*
6836060 AATAATAAATACATC
1 AATAATAAATACAAC
6836075 AAT
1 AAT
6836078 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:6836454 original size:40 final size:43
Alignment explanation
Indices: 6836393--6836472 Score: 103
Period size: 40 Copynumber: 1.9 Consensus size: 43
6836383 GAGCTTTTTT
* *
6836393 TTAAAGAATAAATATCCATATG-GATATAAATAA-AATATTTG
1 TTAAAGAATAAATATACATATGACATATAAATAATAATATTTG
*
6836434 TTAAA-AATATATATACATATGTACATATAAATAATAATA
1 TTAAAGAATAAATATACATATG-ACATATAAATAATAATA
6836473 ATAATTCCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 14 0.42
41 5 0.15
42 10 0.30
43 4 0.12
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (43 bp):
TTAAAGAATAAATATACATATGACATATAAATAATAATATTTG
Found at i:6840077 original size:4 final size:4
Alignment explanation
Indices: 6840063--6840108 Score: 60
Period size: 4 Copynumber: 11.8 Consensus size: 4
6840053 GATGATGTGT
*
6840063 TAAA AAAA TAAA TAAA TATAA TAAA TAAA T-AA -AAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TA-AA TAAA TAAA TAAA TAAA TAAA TAAA TAA
6840109 TATAGAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 4 0.11
4 29 0.78
5 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:6840090 original size:17 final size:18
Alignment explanation
Indices: 6840063--6840121 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
6840053 GATGATGTGT
* *
6840063 TAAAAAAATAAATAAATA
1 TAAATAAATAAATAAAAA
6840081 T-AATAAATAAATAAAAA
1 TAAATAAATAAATAAAAA
6840098 TAAATAAATAATATAGAAAA
1 TAAATAAATAA-ATA-AAAA
6840118 -AAAT
1 TAAAT
6840122 TGAAATCGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 15 0.42
18 10 0.28
19 7 0.19
20 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
TAAATAAATAAATAAAAA
Found at i:6840102 original size:23 final size:23
Alignment explanation
Indices: 6840067--6840121 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 23
6840057 ATGTGTTAAA
6840067 AAAATAAATAAATATAATAA-ATA-
1 AAAA-AAATAAATA-AATAATATAG
6840090 AATAAAAATAAATAAATAATATAG
1 AA-AAAAATAAATAAATAATATAG
6840114 AAAAAAAT
1 AAAAAAAT
6840122 TGAAATCGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.17
23 20 0.69
24 4 0.14
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAAAAATAAATAAATAATATAG
Found at i:6841026 original size:58 final size:58
Alignment explanation
Indices: 6840960--6841075 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
6840950 TAATAAATGA
*
6840960 AAGTTATCAAGAAGGAGAAGTCAATATATAAGATATTATTTTGTTACTCCATGTTATG
1 AAGTTATCAAGAAGGAAAAGTCAATATATAAGATATTATTTTGTTACTCCATGTTATG
*
6841018 AAGTTATCAAGAAGGAAAAGTCAATATATAAGATATTATTTTGTTACTCTATGTTATG
1 AAGTTATCAAGAAGGAAAAGTCAATATATAAGATATTATTTTGTTACTCCATGTTATG
6841076 TATTGTATAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (58 bp):
AAGTTATCAAGAAGGAAAAGTCAATATATAAGATATTATTTTGTTACTCCATGTTATG
Found at i:6844366 original size:33 final size:33
Alignment explanation
Indices: 6844328--6844509 Score: 145
Period size: 33 Copynumber: 5.5 Consensus size: 33
6844318 TCTGCCTCAG
* *
6844328 CTTGTACACCTTCTACATCACCCTCCCCATCAG
1 CTTGTACCCCTTCTACATCACCCTCCCCATCAA
* * *
6844361 CTTGTATCCCTTCTATATCACCCTCCCCATAAA
1 CTTGTACCCCTTCTACATCACCCTCCCCATCAA
* * ** * *
6844394 CTTCTACCCCTTCAACATCACATTTCCCAAT-AG
1 CTTGTACCCCTTCTACATCAC-CCTCCCCATCAA
* * *
6844427 CTTGTACCCCTTCTACAAT-GCCATCCCTATCTAA
1 CTTGTACCCCTTCTAC-ATCACCCTCCCCATC-AA
* * * *
6844461 ATT-TACCCCTTCAACATCACCCTCCCTAACAA
1 CTTGTACCCCTTCTACATCACCCTCCCCATCAA
*
6844493 CTTGTACTCCTTCTACA
1 CTTGTACCCCTTCTACA
6844510 ATGCCATCTT
Statistics
Matches: 115, Mismatches: 28, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
32 12 0.10
33 92 0.80
34 11 0.10
ACGTcount: A:0.25, C:0.41, G:0.04, T:0.31
Consensus pattern (33 bp):
CTTGTACCCCTTCTACATCACCCTCCCCATCAA
Found at i:6844567 original size:66 final size:67
Alignment explanation
Indices: 6844396--6844571 Score: 218
Period size: 66 Copynumber: 2.7 Consensus size: 67
6844386 CCCATAAACT
** *
6844396 TCTACCCCTTCAACATCACATTTCCCAAT-AGCTTGTACCCCTTCTACAATGCCATCCCTATCTA
1 TCTACCCCTTCAACATCACCCTTCCCAATCAGCTTGTACTCCTTCTACAATGCCATCCCTATCTA
6844460 AA
66 AA
* * *
6844462 TTTACCCCTTCAACATCACCC-TCCCTAA-CAACTTGTACTCCTTCTACAATGCCAT-CTTCATC
1 TCTACCCCTTCAACATCACCCTTCCC-AATCAGCTTGTACTCCTTCTACAATGCCATCCCT-ATC
6844524 TAAA
64 TAAA
* * *
6844528 TCTACCCTTTCAACATCACCCTTCTC-ATCAGCTTCTACTCCTTC
1 TCTACCCCTTCAACATCACCCTTCCCAATCAGCTTGTACTCCTTC
6844572 AACATCACTT
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
65 7 0.07
66 84 0.89
67 3 0.03
ACGTcount: A:0.25, C:0.39, G:0.03, T:0.32
Consensus pattern (67 bp):
TCTACCCCTTCAACATCACCCTTCCCAATCAGCTTGTACTCCTTCTACAATGCCATCCCTATCTA
AA
Found at i:6849050 original size:16 final size:16
Alignment explanation
Indices: 6849029--6849071 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
6849019 AATTACAATT
*
6849029 TTTAGGGATTTCATAA
1 TTTAGGGATTTCAAAA
*
6849045 TTTAGGGTTTTCAAAA
1 TTTAGGGATTTCAAAA
* *
6849061 ATTAGGAATTT
1 TTTAGGGATTT
6849072 TAGTTTTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.44
Consensus pattern (16 bp):
TTTAGGGATTTCAAAA
Found at i:6851083 original size:24 final size:22
Alignment explanation
Indices: 6851025--6851085 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
6851015 TTTTTTAAAT
6851025 TTTTTAAAAAATATTTATATTA
1 TTTTTAAAAAATATTTATATTA
**
6851047 -TTTTAATTTAATATTTAATAATTA
1 TTTTTAA-AAAATATTT-AT-ATTA
6851071 TTTTTAAAAAATATT
1 TTTTTAAAAAATATT
6851086 ATTATTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 6 0.19
22 7 0.23
23 2 0.06
24 10 0.32
25 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTTAAAAAATATTTATATTA
Found at i:6861788 original size:18 final size:16
Alignment explanation
Indices: 6861763--6861801 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
6861753 AAAATAAATG
6861763 AAAAATAAAAAAAACAT
1 AAAAATAAAAAAAAC-T
*
6861780 AAAAGATAACAAAAACT
1 AAAA-ATAAAAAAAACT
6861797 AAAAA
1 AAAAA
6861802 CCGGATTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 9 0.45
18 10 0.50
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAAATAAAAAAAACT
Found at i:6864196 original size:25 final size:25
Alignment explanation
Indices: 6864151--6864198 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6864141 CTTTACTGTT
6864151 TAAAAATAATAATAAAATAATAAAA
1 TAAAAATAATAATAAAATAATAAAA
* * *
6864176 TAAAAATTATATTAATATAATAA
1 TAAAAATAATAATAAAATAATAA
6864199 TAATTAAATA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
TAAAAATAATAATAAAATAATAAAA
Found at i:6868127 original size:20 final size:20
Alignment explanation
Indices: 6868104--6868143 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6868094 AATTTTAAAA
*
6868104 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTT
6868124 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTT
6868144 GGTGTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:6868151 original size:20 final size:20
Alignment explanation
Indices: 6868108--6868151 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
6868098 TTAAAATATT
* * *
6868108 TTTAAAATACTTTTTTTATT
1 TTTAAAATAATTTTTTGATG
*
6868128 TTTAAAATAATTTTTTGGTG
1 TTTAAAATAATTTTTTGATG
6868148 TTTA
1 TTTA
6868152 TTAAAAAATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (20 bp):
TTTAAAATAATTTTTTGATG
Found at i:6872480 original size:22 final size:22
Alignment explanation
Indices: 6872455--6872499 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6872445 TACTCATATA
6872455 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
6872477 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
6872499 A
1 A
6872500 ATTTAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:6872558 original size:16 final size:15
Alignment explanation
Indices: 6872518--6872558 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
6872508 TTTCAATTTT
6872518 ATTTT-AATAATAAA
1 ATTTTAAATAATAAA
6872532 A-TTTAAA-AATAATA
1 ATTTTAAATAATAA-A
6872546 ATTTTAAATAATA
1 ATTTTAAATAATA
6872559 TTATTCACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.35
14 5 0.22
15 6 0.26
16 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAAATAATAAA
Found at i:6877802 original size:11 final size:11
Alignment explanation
Indices: 6877784--6877825 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
6877774 ACAATAACAA
6877784 CAAAATAATAG
1 CAAAATAATAG
*
6877795 CAATATAATAG
1 CAAAATAATAG
*
6877806 CAAAATGATAG
1 CAAAATAATAG
6877817 CAAAATAAT
1 CAAAATAAT
6877826 GAAAAAATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.21
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:6877802 original size:22 final size:22
Alignment explanation
Indices: 6877776--6877824 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
6877766 ATATCCAAAC
6877776 AATAACAACAAAATAATAGCAA
1 AATAACAACAAAATAATAGCAA
* * * *
6877798 TATAATAGCAAAATGATAGCAA
1 AATAACAACAAAATAATAGCAA
6877820 AATAA
1 AATAA
6877825 TGAAAAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.63, C:0.10, G:0.08, T:0.18
Consensus pattern (22 bp):
AATAACAACAAAATAATAGCAA
Found at i:6877833 original size:22 final size:22
Alignment explanation
Indices: 6877785--6877831 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
6877775 CAATAACAAC
* *
6877785 AAAATAATAGCAATATAATAGC
1 AAAATAATAGCAAAATAATAGA
*
6877807 AAAATGATAGCAAAATAAT-GA
1 AAAATAATAGCAAAATAATAGA
6877828 AAAA
1 AAAA
6877832 ATAGTGAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.64, C:0.06, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAATAATAGCAAAATAATAGA
Found at i:6883225 original size:18 final size:18
Alignment explanation
Indices: 6883188--6883238 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
6883178 CAATTTGAAT
*
6883188 GAAA-AAAAAGCAA-AAA
1 GAAAGAAAAAGAAAGAAA
6883204 -AAAGAAAAAGAAAGAAA
1 GAAAGAAAAAGAAAGAAA
6883221 GAAAG-AAAAGAAAAGAAA
1 GAAAGAAAAAG-AAAGAAA
6883239 AGCTAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 3 0.10
16 8 0.27
17 8 0.27
18 11 0.37
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (18 bp):
GAAAGAAAAAGAAAGAAA
Found at i:6883230 original size:5 final size:5
Alignment explanation
Indices: 6883188--6883240 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
6883178 CAATTTGAAT
6883188 GAAAA -AAAA GCAAAA -AAAA GAAAA -AGAAA G-AAA G-AAA GAAAA GAAAA
1 GAAAA GAAAA G-AAAA GAAAA GAAAA GA-AAA GAAAA GAAAA GAAAA GAAAA
6883235 GAAAA G
1 GAAAA G
6883241 CTAAAATTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
4 17 0.40
5 21 0.50
6 4 0.10
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:6883240 original size:10 final size:9
Alignment explanation
Indices: 6883188--6883239 Score: 61
Period size: 10 Copynumber: 5.6 Consensus size: 9
6883178 CAATTTGAAT
6883188 GAAAAAAAA
1 GAAAAAAAA
6883197 GCAAAAAAAA
1 G-AAAAAAAA
6883207 GAAAAAGAAA
1 GAAAAA-AAA
*
6883217 G-AAAGAAA
1 GAAAAAAAA
6883225 GAAAAGAAAA
1 GAAAA-AAAA
6883235 GAAAA
1 GAAAA
6883240 GCTAAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 4 0.11
9 12 0.32
10 21 0.57
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:6886540 original size:47 final size:46
Alignment explanation
Indices: 6886479--6886574 Score: 131
Period size: 47 Copynumber: 2.1 Consensus size: 46
6886469 GTAATAAGGC
* * *
6886479 GAATCATTGTTCAATGAGATCGTTTGGGATTATGA-TCAATATGTGTA
1 GAATAATTGTTCAATGAAATCGTTTGAGATTAT-ATTCAATATGTG-A
*
6886526 GAATAATTGTTCAATGAAATCGTTTGAGATTATATTGAATATGTGA
1 GAATAATTGTTCAATGAAATCGTTTGAGATTATATTCAATATGTGA
6886572 GAA
1 GAA
6886575 CTGATTAACA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
46 5 0.11
47 39 0.89
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (46 bp):
GAATAATTGTTCAATGAAATCGTTTGAGATTATATTCAATATGTGA
Found at i:6888330 original size:3 final size:3
Alignment explanation
Indices: 6888322--6888376 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
6888312 AACTAATACA
*
6888322 AAT AAT AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6888370 AAT AAT A
1 AAT AAT A
6888377 GTTAAGTAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:6891713 original size:25 final size:25
Alignment explanation
Indices: 6891670--6891751 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 25
6891660 TAAAAATATA
*
6891670 TATATATATATATTTTAAAAAAATGCG
1 TATATAT-TATA-TATAAAAAAATGCG
* *
6891697 TATATATTATATATAAAAATATGTG
1 TATATATTATATATAAAAAAATGCG
* * * *
6891722 TGT-T-TAATACATAAAAAAATGCA
1 TATATATTATATATAAAAAAATGCG
6891745 TATATAT
1 TATATAT
6891752 ATTGTAAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
23 16 0.37
24 2 0.05
25 14 0.33
26 4 0.09
27 7 0.16
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (25 bp):
TATATATTATATATAAAAAAATGCG
Found at i:6891802 original size:15 final size:14
Alignment explanation
Indices: 6891784--6891831 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
6891774 GAATATAGAA
*
6891784 ATAATGATAATAACC
1 ATAATAATAATAA-C
*
6891799 ATAATAATAAATAAT
1 ATAATAAT-AATAAC
6891814 ATAATAATAATAA-
1 ATAATAATAATAAC
6891827 ATAAT
1 ATAAT
6891832 GGTATAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 5 0.17
14 5 0.17
15 15 0.50
16 5 0.17
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (14 bp):
ATAATAATAATAAC
Found at i:6893412 original size:44 final size:46
Alignment explanation
Indices: 6893315--6893412 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 46
6893305 AAGACTTGTA
* ** *
6893315 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTCT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAAATCTGCTCT
* * *
6893361 T-TCCGATCTACTTCA-CGCCAATACATGAAGACAAAATCTGCT-T
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAAATCTGCTCT
6893404 TCTTCGATC
1 TCTTCGATC
6893413 GATTCCACTG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
43 2 0.05
44 27 0.63
45 13 0.30
46 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.30
Consensus pattern (46 bp):
TCTTCGATCTACTTCACCACCAATACAGGAAGACAAAATCTGCTCT
Found at i:6893612 original size:44 final size:45
Alignment explanation
Indices: 6893516--6893612 Score: 101
Period size: 44 Copynumber: 2.2 Consensus size: 45
6893506 CACTAGTGCT
* * * *
6893516 TAGGGAGATAAGATCTGTAATCTTCAATCTACTTCGCCACCACTA
1 TAGGAAGATAAAATCTGTAATATTCAATCCACTTCGCCACCACTA
* *
6893561 T-GAGAAGATAAAATCTGT-ATATTCGATCCACTTCGCTACCGA-TA
1 TAG-GAAGATAAAATCTGTAATATTCAATCCACTTCGCCACC-ACTA
6893605 TAGGAAGA
1 TAGGAAGA
6893613 CAGGACCTGC
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
44 27 0.63
45 16 0.37
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (45 bp):
TAGGAAGATAAAATCTGTAATATTCAATCCACTTCGCCACCACTA
Found at i:6893680 original size:133 final size:133
Alignment explanation
Indices: 6893521--6894085 Score: 374
Period size: 133 Copynumber: 4.2 Consensus size: 133
6893511 GTGCTTAGGG
** * * * * *
6893521 AGATAAGATCTGTAATCTTCAATCTACTTCGCCACCACTATGAGAAGATAAAATCTGTATATTCG
1 AGATAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGAGAAGACAAAATCTGTATATTCG
* *
6893586 ATCCACTTCGCTACC-GATAT-AGGAAGACAGGACCTGCTATCTTTGATATACTCCACGCCAGTA
66 ATCCACTTCGCCACCAG-TATGA-GAAGACAAGACCTGCTATCTTTGATATACTCCACGCCAGTA
6893649 CATGA
129 CATGA
* * * * * * *
6893654 AGATAAGATCTATTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTG
1 AGATAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGAGAAGACAAAATCTGTATATTCG
** * * * * *
6893719 ATCTGCTTCGCCACCAGTATGAGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACA
66 ATCCACTTCGCCACCAGTATGAGAAGACAAGACCTGCTATCTTTGATATACTCCACGCCAGTACA
6893784 TGA
131 TGA
* * * * * * *
6893787 AGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTG
1 AGATAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGAGAAGACAAAATCTGTATATTCG
* * * * * * * * * * *
6893852 ATCTACTTC-ACGCCAGTA-CATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGC-CACCGGT
66 ATCCACTTCGCCACCAGTATGA-GAAGACAAGACCTGCTATCTTTGATATAC-TC-CACGCCAGT
* *
6893914 ATAGGA
128 ACATGA
** * * * * * * * *
6893920 AGGCAAGATCTAGTATTTC-T-GATCTATTTCA-CGCCAGTA-CATGAAGGCAAGATCTGTTTTC
1 AGATAAGATCT-GT-TTTCTTCGATCTACTCCACCACCAGTATGA-GAAGACAAAATCTG-TATA
* ** * * * * * * *
6893981 TTTGATCTGCTTCGCCACCGGTATGAGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAG
62 TTCGATCCACTTCGCCACCAGTATGAGAAGACAAGACCTGCTATCTTTGATATACTCCACGCCAG
6894046 TACATGA
127 TACATGA
* * * *
6894053 AGACAAGATCTGTTATCTTTCAACCTACTCCAC
1 AGATAAGATCTGTTTTC-TTCGATCTACTCCAC
6894086 TGCTGCTCAG
Statistics
Matches: 349, Mismatches: 67, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
131 4 0.01
132 54 0.15
133 243 0.70
134 43 0.12
135 5 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (133 bp):
AGATAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGAGAAGACAAAATCTGTATATTCG
ATCCACTTCGCCACCAGTATGAGAAGACAAGACCTGCTATCTTTGATATACTCCACGCCAGTACA
TGA
Found at i:6893684 original size:44 final size:44
Alignment explanation
Indices: 6893625--6894072 Score: 347
Period size: 44 Copynumber: 10.1 Consensus size: 44
6893615 GGACCTGCTA
* * * *
6893625 TCTTTGATATACTCCACGCCAGTACATGAAGATAAGATCTATTT
1 TCTTTGATCTACTCCACACCAGTACATGAAGACAAGATCTGTTT
* *** *
6893669 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TT
1 TCTTTGATCTACTCCA-CACCAGTACATGAAGACAAGATCTGTTT
* * * * *
6893713 TCTTTGATCTGCTTCGC-CACCAGTATGA-GAAGGCAAGATCTGGTA
1 TCTTTGATCTAC-TC-CACACCAGTA-CATGAAGACAAGATCTGTTT
* *
6893758 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
1 TCTTTGATCTACTCCACACCAGTACATGAAGACAAGATCTGTTT
* *** *
6893802 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TT
1 TCTTTGATCTACTCCA-CACCAGTACATGAAGACAAGATCTGTTT
* *
6893846 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
1 TCTTTGATCTACTCCACACCAGTACATGAAGACAAGATCTGTTT
* * * * *
6893890 TCTTTGATCTGCTTCGC-CACCGGTATAGGAAGGCAAGATCTAGTATT
1 TCTTTGATCTAC-TC-CACACCAGTACATGAAGACAAGATCT-GT-TT
* * * *
6893937 TC--TGATCTATTTCACGCCAGTACATGAAGGCAAGATCTGTTT
1 TCTTTGATCTACTCCACACCAGTACATGAAGACAAGATCTGTTT
* * * * * *
6893979 TCTTTGATCTGCTTCGC-CACCGGTATGA-GAAGGCAAGATCTGGTA
1 TCTTTGATCTAC-TC-CACACCAGTA-CATGAAGACAAGATCTGTTT
* * * *
6894024 TCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTA
1 TCTTTGATCTACTCCACACCAGTACATGAAGACAAGATCTGTTT
6894068 TCTTT
1 TCTTT
6894073 CAACCTACTC
Statistics
Matches: 315, Mismatches: 68, Indels: 42
0.74 0.16 0.10
Matches are distributed among these distances:
42 4 0.01
43 27 0.09
44 164 0.52
45 110 0.35
46 6 0.02
47 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTTTGATCTACTCCACACCAGTACATGAAGACAAGATCTGTTT
Found at i:6893736 original size:89 final size:89
Alignment explanation
Indices: 6893643--6894072 Score: 510
Period size: 89 Copynumber: 4.8 Consensus size: 89
6893633 ATACTCCACG
* * * * * * * *** *
6893643 CCAGTACATGAAGATAAGATCTATTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGAT
1 CCAGTATAGGAAGACAAGATCTAGTTTCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGAT
6893708 CTG-TTTCTTTGATCTGCTTCGCCA
65 CTGTTTTCTTTGATCTGCTTCGCCA
* * *
6893732 CCAGTAT-GAGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGAT
1 CCAGTATAG-GAAGACAAGATCTAGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGAT
* * * *
6893796 CTGTTTTCTTCGATCTACTCCACCA
65 CTGTTTTCTTTGATCTGCTTCGCCA
* *
6893821 CCAGTATGGGGAGACAAGATCT-GTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATC
1 CCAGTATAGGAAGACAAGATCTAGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATC
6893885 TGTTTTCTTTGATCTGCTTCGCCA
66 TGTTTTCTTTGATCTGCTTCGCCA
* * * * *
6893909 CCGGTATAGGAAGGCAAGATCTAGTATT-TCTGATCTATTTCACGCCAGTACATGAAGGCAAGAT
1 CCAGTATAGGAAGACAAGATCTAGT-TTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGAT
6893973 CTGTTTTCTTTGATCTGCTTCGCCA
65 CTGTTTTCTTTGATCTGCTTCGCCA
* * * * *
6893998 CCGGTAT-GAGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGAT
1 CCAGTATAG-GAAGACAAGATCTAGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGAT
*
6894062 CTGTTATCTTT
65 CTGTTTTCTTT
6894073 CAACCTACTC
Statistics
Matches: 297, Mismatches: 37, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
88 101 0.34
89 193 0.65
90 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (89 bp):
CCAGTATAGGAAGACAAGATCTAGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATC
TGTTTTCTTTGATCTGCTTCGCCA
Found at i:6893817 original size:177 final size:177
Alignment explanation
Indices: 6893625--6894072 Score: 512
Period size: 177 Copynumber: 2.5 Consensus size: 177
6893615 GGACCTGCTA
* * * * *
6893625 TCTTTGATATACTCCA-CGCCAGTACATGAAGATAAGATCTATTTTCTTCGATCTACTCCACCAC
1 TCTTTGATCTACTCCACCACCAGTACAGGAAGACAAGATCT-GTTTCTTCGATCTACTCCA-CAC
** *
6893689 CAGTATGGGGAGACAAGATCTG-TTTCTTTGATCTGCTTCGCCACCAGTAT-GAGAAGGCAAGAT
64 CAGTACAGGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATAG-GAAGGCAAGAT
*
6893752 CTGGTATCTT-TGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
128 CTAGTAT-TTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
* ** * * * *
6893802 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCA
1 TCTTTGATCTACTCCACCACCAGTACAGGAAGACAAGATCTGTTTCTTCGATCTACTCCACACCA
* *
6893867 GTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCGGTATAGGAAGGCAAGATCTA
66 GTACAGGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATAGGAAGGCAAGATCTA
* *
6893932 GTATTTCTGATCTATTTCACGCCAGTACATGAAGGCAAGATCTGTTT
131 GTATTTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
* * * * * * * * *
6893979 TCTTTGATCTGCTTCGCCACCGGTA-TGAGAAGGCAAGATCTGGTATC-TCTGATCTACTTCACG
1 TCTTTGATCTACTCCACCACCAGTACAG-GAAGACAAGATCT-GTTTCTTC-GATCTACTCCACA
* *
6894042 CCAGTACATGAAGACAAGATCTGTTATCTTT
63 CCAGTACAGGAAGACAAGATCTGTTTTCTTT
6894073 CAACCTACTC
Statistics
Matches: 233, Mismatches: 31, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
176 23 0.10
177 144 0.62
178 66 0.28
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (177 bp):
TCTTTGATCTACTCCACCACCAGTACAGGAAGACAAGATCTGTTTCTTCGATCTACTCCACACCA
GTACAGGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATAGGAAGGCAAGATCTA
GTATTTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
Found at i:6904756 original size:14 final size:13
Alignment explanation
Indices: 6904737--6904766 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
6904727 ACTTAAGGGT
6904737 AAAATGCAAAATGC
1 AAAATGC-AAATGC
6904751 AAAATGCAAATGC
1 AAAATGCAAATGC
6904764 AAA
1 AAA
6904767 GTTACCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (13 bp):
AAAATGCAAATGC
Found at i:6904763 original size:6 final size:7
Alignment explanation
Indices: 6904737--6904766 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
6904727 ACTTAAGGGT
6904737 AAAATGC
1 AAAATGC
6904744 AAAATGC
1 AAAATGC
6904751 AAAATGC
1 AAAATGC
6904758 -AAATGC
1 AAAATGC
6904764 AAA
1 AAA
6904767 GTTACCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (7 bp):
AAAATGC
Done.