Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 54
Found at i:544646 original size:40 final size:40
Alignment explanation
Indices: 544591--544672 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
544581 TGCAGGTTTA
544591 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
544631 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
544671 TA
1 TA
544673 GCACTACGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:544870 original size:47 final size:45
Alignment explanation
Indices: 544776--544901 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 45
544766 GTAACCATGC
* *
544776 AAATAAGCTTATGAGCTTACGGAAT-AATGGCAAGTATATTGGAA
1 AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATATTGGAA
* * * *
544820 AAATAAGCTTACGAGCTTATGAAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTATGAGCTTATGGAA--TAAATGGTAAGTATATTGGAA
544867 AAATAAGCTTATGAGCTTATGGAATAAATGGTAAG
1 AAATAAGCTTATGAGCTTATGGAATAAATGGTAAG
544902 AGATTTTATA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
44 21 0.30
45 11 0.15
46 1 0.01
47 38 0.54
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATATTGGAA
Found at i:550160 original size:53 final size:54
Alignment explanation
Indices: 550052--550162 Score: 154
Period size: 55 Copynumber: 2.1 Consensus size: 54
550042 AAAGCTCTTT
* * * *
550052 TTATGTTTCCCAAAAAATATGAAACATAAAAGTTATTTATTTTTGTTTTTGCAC
1 TTATATTTCCAAAAAAATATGAAACATAAAAGTTACTTATTATTGTTTTTGCAC
*
550106 TTATATTTCCAAATAAAATATGAAACATAAAAGTTCCTT-TTATT-TTTTTGCAC
1 TTATATTTCCAAA-AAAATATGAAACATAAAAGTTACTTATTATTGTTTTTGCAC
550159 TTAT
1 TTAT
550163 GTTTATTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
53 13 0.25
54 15 0.29
55 23 0.45
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (54 bp):
TTATATTTCCAAAAAAATATGAAACATAAAAGTTACTTATTATTGTTTTTGCAC
Found at i:551637 original size:24 final size:24
Alignment explanation
Indices: 551584--551638 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
551574 TATTTCCTTT
* *
551584 CATTAATTTTATTAATAAAAAATT
1 CATTATTTTTATTAATAAAAAATA
551608 CAATTATTTTTA-TAATAAATAAATA
1 C-ATTATTTTTATTAATAAA-AAATA
551633 CATTAT
1 CATTAT
551639 AAAATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.45
Consensus pattern (24 bp):
CATTATTTTTATTAATAAAAAATA
Found at i:553917 original size:19 final size:20
Alignment explanation
Indices: 553893--553934 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
553883 TAAAAGTGTC
* *
553893 AAATTATTATT-ATTTTTTA
1 AAATTAATATTAATTTTCTA
553912 AAATTAATATTAATTTTCTA
1 AAATTAATATTAATTTTCTA
553932 AAA
1 AAA
553935 ATTTAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATTAATATTAATTTTCTA
Found at i:560431 original size:18 final size:18
Alignment explanation
Indices: 560405--560448 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
560395 CTGAAGTATG
*
560405 AATGGTGTTGTCGTGGAA
1 AATGTTGTTGTCGTGGAA
*
560423 AATGTTGTTGTCGTGGTA
1 AATGTTGTTGTCGTGGAA
*
560441 AGTGTTGT
1 AATGTTGT
560449 AAGGTTAAAG
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:0.18, C:0.05, G:0.36, T:0.41
Consensus pattern (18 bp):
AATGTTGTTGTCGTGGAA
Found at i:561733 original size:183 final size:184
Alignment explanation
Indices: 561425--561791 Score: 727
Period size: 183 Copynumber: 2.0 Consensus size: 184
561415 AATCCGATAT
561425 CGGGAGCTTGAGATATGATCGATTTATTGAAGACAGTGAAGGCTGGAATTGTTACGGGAATTTTA
1 CGGGAGCTTGAGATATGATCGATTTATTGAAGACAGTGAAGGCTGGAATTGTTACGGGAATTTTA
561490 TGAATGGATGATTTGGATGAGTTTGAGACAAGGGAGAGTCTTTTCAACTTCAGCCAAGTGACAAG
66 TGAATGGATGATTTGGATGAGTTTGAGACAAGGGAGAGTCTTTTCAACTTCAGCCAAGTGACAAG
561555 CCATTGAAGGACTCTTAATTCACCTATTAAAGGCATTC-AATCTGATTATTATC
131 CCATTGAAGGACTCTTAATTCACCTATTAAAGGCATTCAAATCTGATTATTATC
561608 CGGGAGCTTGAGATATGATCGATTTATTGAAGACAGTGAAGGCTGGAATTGTTACGGGAATTTTA
1 CGGGAGCTTGAGATATGATCGATTTATTGAAGACAGTGAAGGCTGGAATTGTTACGGGAATTTTA
561673 TGAATGGATGATTTGGATGAGTTTGAGACAAGGGAGAGTCTTTTCAACTTCAGCCAAGTGACAAG
66 TGAATGGATGATTTGGATGAGTTTGAGACAAGGGAGAGTCTTTTCAACTTCAGCCAAGTGACAAG
561738 CCATTGAAGGACTCTTAATTCACCTATTAAAGGCATTCAAATCTGATTATTATC
131 CCATTGAAGGACTCTTAATTCACCTATTAAAGGCATTCAAATCTGATTATTATC
561792 ATCTAAGTTC
Statistics
Matches: 183, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
183 168 0.92
184 15 0.08
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (184 bp):
CGGGAGCTTGAGATATGATCGATTTATTGAAGACAGTGAAGGCTGGAATTGTTACGGGAATTTTA
TGAATGGATGATTTGGATGAGTTTGAGACAAGGGAGAGTCTTTTCAACTTCAGCCAAGTGACAAG
CCATTGAAGGACTCTTAATTCACCTATTAAAGGCATTCAAATCTGATTATTATC
Found at i:562950 original size:18 final size:18
Alignment explanation
Indices: 562927--562978 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
562917 GTGAAGTATG
562927 AATGGTGTTGTCGTGGCA
1 AATGGTGTTGTCGTGGCA
562945 AATGGTGTTGTCGTGGCA
1 AATGGTGTTGTCGTGGCA
*
562963 AATGTTGTTGTCGTGG
1 AATGGTGTTGTCGTGG
562979 TAAGTGTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.15, C:0.10, G:0.38, T:0.37
Consensus pattern (18 bp):
AATGGTGTTGTCGTGGCA
Found at i:562986 original size:18 final size:18
Alignment explanation
Indices: 562927--562988 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
562917 GTGAAGTATG
*
562927 AATGGTGTTGTCGTGGCA
1 AATGTTGTTGTCGTGGCA
*
562945 AATGGTGTTGTCGTGGCA
1 AATGTTGTTGTCGTGGCA
*
562963 AATGTTGTTGTCGTGGTA
1 AATGTTGTTGTCGTGGCA
*
562981 AGTGTTGT
1 AATGTTGT
562989 AAGGTTAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.16, C:0.08, G:0.37, T:0.39
Consensus pattern (18 bp):
AATGTTGTTGTCGTGGCA
Found at i:564948 original size:16 final size:16
Alignment explanation
Indices: 564905--564956 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
564895 TATTAAATAA
*
564905 AATAAATGCTTAAAATG
1 AATACATGCTT-AAATG
564922 CAATACATGCTTAAATG
1 -AATACATGCTTAAATG
*
564939 AATTCATGCTTAAATG
1 AATACATGCTTAAATG
564955 AA
1 AA
564957 GTAGCATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 17 0.53
17 5 0.16
18 10 0.31
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (16 bp):
AATACATGCTTAAATG
Found at i:567311 original size:19 final size:19
Alignment explanation
Indices: 567287--567326 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
567277 ACTCTATATA
* *
567287 TTAAACTTAGTATTTTATT
1 TTAAACTAAGTATATTATT
*
567306 TTAAACTAAGTGTATTATT
1 TTAAACTAAGTATATTATT
567325 TT
1 TT
567327 GAGATGCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (19 bp):
TTAAACTAAGTATATTATT
Found at i:567607 original size:32 final size:32
Alignment explanation
Indices: 567566--567629 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
567556 CTGCGGGTTA
*
567566 GAGTTAATTAACATCTATATATGTACATGCCT
1 GAGTTAATTAACATCTATACATGTACATGCCT
567598 GAGTTAATTAACATCTATACATGTACATGCCT
1 GAGTTAATTAACATCTATACATGTACATGCCT
567630 ATAGGGAGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (32 bp):
GAGTTAATTAACATCTATACATGTACATGCCT
Found at i:571396 original size:18 final size:18
Alignment explanation
Indices: 571373--571429 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
571363 AATTAATTAT
571373 TAATATTTAAAATATATA
1 TAATATTTAAAATATATA
571391 TAATATTTAATAA-ATATA
1 TAATATTTAA-AATATATA
* *
571409 TTATATTTTGAAATATA-A
1 TAATA-TTTAAAATATATA
571427 TAA
1 TAA
571430 ATAATAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 24 0.73
19 9 0.27
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TAATATTTAAAATATATA
Found at i:571411 original size:37 final size:35
Alignment explanation
Indices: 571357--571448 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 35
571347 ATATCATTTT
571357 AATAA-AAATTAATTATTAATA-TTTAAAATATATATA
1 AATAATAAATT-A-TATTAATATTTTAAAATATA-ATA
*
571393 ATATTTAATAAA-TATATT-ATATTTTGAAATATAATA
1 A-A--TAATAAATTATATTAATATTTTAAAATATAATA
571429 AATAATAAATTATATTAATA
1 AATAATAAATTATATTAATA
571449 ATATAAGATA
Statistics
Matches: 48, Mismatches: 1, Indels: 15
0.75 0.02 0.23
Matches are distributed among these distances:
33 7 0.15
34 6 0.12
35 4 0.08
36 8 0.17
37 15 0.31
38 1 0.02
39 4 0.08
40 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (35 bp):
AATAATAAATTATATTAATATTTTAAAATATAATA
Found at i:571492 original size:20 final size:20
Alignment explanation
Indices: 571467--571511 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
571457 TATTTTTATT
571467 TTAATAATAATA-ATAAATTA
1 TTAATAA-AATATATAAATTA
* *
571487 TTAATAAAATATATTATTTA
1 TTAATAAAATATATAAATTA
571507 TTAAT
1 TTAAT
571512 TTCATAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAATAAAATATATAAATTA
Found at i:571502 original size:16 final size:17
Alignment explanation
Indices: 571471--571504 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
571461 TTTATTTTAA
571471 TAATAATAATAAATTAT
1 TAATAATAATAAATTAT
*
571488 TAATAA-AATATATTAT
1 TAATAATAATAAATTAT
571504 T
1 T
571505 TATTAATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATAATAAATTAT
Found at i:571633 original size:58 final size:57
Alignment explanation
Indices: 571571--571684 Score: 142
Period size: 58 Copynumber: 2.0 Consensus size: 57
571561 TATTAATATT
* *
571571 AATATAATA-ATCTAATAATATTTTAATAAATATTAA-ATATACTAATTAATATTTTTAA
1 AATATAATATAAC-AATAATACTTTAATAAATATTAATATA-ACTAA-TAATATTTTTAA
* * *
571629 AATATAATATAACACTATTACTTTAATAAATATTAATATAATTAATAATATTTTTA
1 AATATAATATAACAATAATACTTTAATAAATATTAATATAACTAATAATATTTTTA
571685 TTTCAATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
57 11 0.22
58 33 0.67
59 5 0.10
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (57 bp):
AATATAATATAACAATAATACTTTAATAAATATTAATATAACTAATAATATTTTTAA
Found at i:571995 original size:14 final size:14
Alignment explanation
Indices: 571976--572020 Score: 72
Period size: 14 Copynumber: 3.1 Consensus size: 14
571966 CCAGAAATGT
*
571976 AATTCATTTTCCAG
1 AATTCAATTTCCAG
571990 AATTCAATTTCCAG
1 AATTCAATTTCCAG
572004 TAATTCAATTTCCAG
1 -AATTCAATTTCCAG
572019 AA
1 AA
572021 AACCAATTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 15 0.52
15 14 0.48
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.38
Consensus pattern (14 bp):
AATTCAATTTCCAG
Found at i:572008 original size:15 final size:15
Alignment explanation
Indices: 571974--572018 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
571964 TTCCAGAAAT
*
571974 GTAATTCATTTTCCA
1 GTAATTCAATTTCCA
571989 G-AATTCAATTTCCA
1 GTAATTCAATTTCCA
572003 GTAATTCAATTTCCA
1 GTAATTCAATTTCCA
572018 G
1 G
572019 AAAACCAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (15 bp):
GTAATTCAATTTCCA
Found at i:572865 original size:14 final size:13
Alignment explanation
Indices: 572840--572865 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
572830 CTGTCTCAAC
572840 GAGGGTAAAAAAA
1 GAGGGTAAAAAAA
572853 GAGGGTAAAAAAA
1 GAGGGTAAAAAAA
572866 TTAAAAGGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.08
Consensus pattern (13 bp):
GAGGGTAAAAAAA
Found at i:578211 original size:698 final size:698
Alignment explanation
Indices: 577176--578489 Score: 2141
Period size: 698 Copynumber: 1.9 Consensus size: 698
577166 TACAAGGCTC
* *
577176 CAACGGCTAGTTAATTTGAATTTAATAAAGGTAGTACTGATACCCCATAGTAGAGTACCGATACT
1 CAACGGCTAGTTAATTTGAATTTAACAAAGGTAGTACCGATACCCCATAGTAGAGTACCGATACT
* * * * *
577241 TCTAGTTTTGGATAACTTTATTTTATAGAAAATTAATCCCCAACTGCTATATACAACTTCAAACT
66 TCTAGTTCTGGAAAACTTTATTTTACAAAAAATTAATCCCCAACGGCTATATACAACTTCAAACT
* *
577306 CATTTCAAGCTATAAAAACAAGCTGAGGAGACTTGAAGAAAAAAGAGAACAACTATCCAAGCAAT
131 CATTTCAAGCTATAAAAACAAGCCGAGGACACTTGAAGAAAAAAGAGAACAACTATCCAAGCAAT
* * *
577371 CAAATACAAGAGAAGAGTTTTTCAATCTTATTTCATTTTTCTCTTGTAAATATTTCTATTCTTGT
196 CAAACACAAGAGAAGAGTTTTTCAATATTATTTCATCTTTCTCTTGTAAATATTTCTATTCTTGT
* * * *
577436 GAGCTTTATTCTTGTAAACACCTACCTTAGAGAGGTTTTCTTGTTTACATTTGCTTTCATTGTAA
261 GAGCTTAATTCTTGTAAACACCTACCTTAAAGAGGTTTTCGTGTTTACATTTCCTTTCATTGTAA
* * * * *
577501 AGGGGTTTTGGTTCTAGCTAAGCCTGCTAAAAGCTAGGGAAAGGTTATAGTTTAACCCGTGTAAA
326 AGGGGTTTTGGTTCTAACTAAGCCTACTAAAAGCTAGGGAAAGGTTATAGTTCAACCCATGAAAA
* *
577566 ACTAGGGAGTTTTTAAAGGTTACTCTTTATCCTTAAAAAAGAAAGAACAAATTAGTGAATTTGTT
391 ACTAGGGAGTTTGTAAAGGTTACTCTTGATCCTTAAAAAAGAAAGAACAAATTAGTGAATTTGTT
* * *
577631 GGAAAATCCTTGGTGAAG-AGCTAAGGTAGTGGATGTAGACTTGGTTGAGAAGTTGAACCAGTAT
456 GGAAAATCCTTGGTG-AGCAGCTAAGGTAGTGGATGTAGACTTAGTTGAGAAGTCGAACCACTAT
*
577695 AAATCGCTGCGCAATATTT-TATCTTTCAATCTTCTTACTCTCTAAACACAAAAACCAACCCGAC
520 AAATCGCTGCGCAAT-TTTCTATCTTTCAATCTCCTTACTCTCTAAACACAAAAACCAACCCG-C
*** *
577759 CCCTCTTGGCGAACCCCTTCGGTTGTCGATTCGATCTTCCACAAAATCCCAATAATTGGTATCAG
583 CCCTCTTAAAGAACCCATTCGGTTGTCGATTCGATCTTCCACAAAATCCCAATAATTGGTATCAG
577824 AGCTTGACTCGTTCTGAGACAGCATCAATACTACATGGCTCCAACGGCTAG
648 AGCTTGACTCGTTCTGAGACAGCATCAATACTACATGGCTCCAACGGCTAG
*
577875 CAACGGCTAGTTAATTTGAATTTAACAAA-GTAGTACCGATACCCCATAGTGGAGTACCGATACT
1 CAACGGCTAGTTAATTTGAATTTAACAAAGGTAGTACCGATACCCCATAGTAGAGTACCGATACT
* *
577939 TCTAGTTCTGGAAAACTTTATTTTGCAAAAAATTAATCCCCAACGGCTATATACGACTTCAAACT
66 TCTAGTTCTGGAAAACTTTATTTTACAAAAAATTAATCCCCAACGGCTATATACAACTTCAAACT
*
578004 CATTTCAAGCTATAGAAACAAGCCGAGGACACTTGAAGAAAAAAGAGAACAACTATCCAAGCAAT
131 CATTTCAAGCTATAAAAACAAGCCGAGGACACTTGAAGAAAAAAGAGAACAACTATCCAAGCAAT
* *
578069 CAAACACAAGAGAATG-GTTTTTCAATATTATTTCATCTTTCTCTTGTAAATATTTGTGTTCTTG
196 CAAACACAAGAGAA-GAGTTTTTCAATATTATTTCATCTTTCTCTTGTAAATATTTCTATTCTTG
578133 TGAGCTTAATTCTTGTAAACACCTACCTTAAAGAGGTTTTCGTGTTTACATTTCCTTTCATTGTA
260 TGAGCTTAATTCTTGTAAACACCTACCTTAAAGAGGTTTTCGTGTTTACATTTCCTTTCATTGTA
*
578198 AAGGGGTTTTGGTTCTAACTAAGCCTACTAAAAGCTAGGGAAAGGTTCTAGTTCAACCCATGAAA
325 AAGGGGTTTTGGTTCTAACTAAGCCTACTAAAAGCTAGGGAAAGGTTATAGTTCAACCCATGAAA
*
578263 AACTAGGGAGTTTGTAAAGGTTACTCTTGATCCTTGAAAAAGAAAGAACAAATTAGTGAATTTGT
390 AACTAGGGAGTTTGTAAAGGTTACTCTTGATCCTTAAAAAAGAAAGAACAAATTAGTGAATTTGT
*
578328 TGGAAAATCCTTGGTGAGCAGCTAAGGTAGTGGATGTAGACTTAGTTGGGAAGTCGAACCACTAT
455 TGGAAAATCCTTGGTGAGCAGCTAAGGTAGTGGATGTAGACTTAGTTGAGAAGTCGAACCACTAT
* * * * **
578393 AAATTGTTGTGCAATTTTCTATCTTTCAATCTCCTTACTCTCTAAACATAAAAACTGACCCGCCC
520 AAATCGCTGCGCAATTTTCTATCTTTCAATCTCCTTACTCTCTAAACACAAAAACCAACCCGCCC
*
578458 CTCTTAAAGAACCCATTCGGTTGTTGATTCGA
585 CTCTTAAAGAACCCATTCGGTTGTCGATTCGA
578490 GTTCCGTAAA
Statistics
Matches: 565, Mismatches: 47, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
697 35 0.06
698 501 0.89
699 29 0.05
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (698 bp):
CAACGGCTAGTTAATTTGAATTTAACAAAGGTAGTACCGATACCCCATAGTAGAGTACCGATACT
TCTAGTTCTGGAAAACTTTATTTTACAAAAAATTAATCCCCAACGGCTATATACAACTTCAAACT
CATTTCAAGCTATAAAAACAAGCCGAGGACACTTGAAGAAAAAAGAGAACAACTATCCAAGCAAT
CAAACACAAGAGAAGAGTTTTTCAATATTATTTCATCTTTCTCTTGTAAATATTTCTATTCTTGT
GAGCTTAATTCTTGTAAACACCTACCTTAAAGAGGTTTTCGTGTTTACATTTCCTTTCATTGTAA
AGGGGTTTTGGTTCTAACTAAGCCTACTAAAAGCTAGGGAAAGGTTATAGTTCAACCCATGAAAA
ACTAGGGAGTTTGTAAAGGTTACTCTTGATCCTTAAAAAAGAAAGAACAAATTAGTGAATTTGTT
GGAAAATCCTTGGTGAGCAGCTAAGGTAGTGGATGTAGACTTAGTTGAGAAGTCGAACCACTATA
AATCGCTGCGCAATTTTCTATCTTTCAATCTCCTTACTCTCTAAACACAAAAACCAACCCGCCCC
TCTTAAAGAACCCATTCGGTTGTCGATTCGATCTTCCACAAAATCCCAATAATTGGTATCAGAGC
TTGACTCGTTCTGAGACAGCATCAATACTACATGGCTCCAACGGCTAG
Found at i:579131 original size:20 final size:20
Alignment explanation
Indices: 579103--579141 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
579093 ATTTTAATAA
579103 TTATCTTTA-AGAATTATCTC
1 TTATCTTTAGA-AATTATCTC
*
579123 TTATTTTTAGAAATTATCT
1 TTATCTTTAGAAATTATCT
579142 TTTCGTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.54
Consensus pattern (20 bp):
TTATCTTTAGAAATTATCTC
Found at i:595668 original size:20 final size:20
Alignment explanation
Indices: 595639--595681 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
595629 TGAGAAAGCA
*
595639 CACTCATCGCACGACTGCTG
1 CACTCATCGCACGACCGCTG
* *
595659 CACTCGTCGCGCGACCGCTG
1 CACTCATCGCACGACCGCTG
595679 CAC
1 CAC
595682 CACCACCTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.44, G:0.23, T:0.16
Consensus pattern (20 bp):
CACTCATCGCACGACCGCTG
Found at i:605942 original size:23 final size:23
Alignment explanation
Indices: 605911--605966 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
605901 CGATACCTAG
605911 GTATAGATACCCCCTCTCTCTAT
1 GTATAGATACCCCCTCTCTCTAT
*
605934 GTATTGATACCCCCTCTCTCTAT
1 GTATAGATACCCCCTCTCTCTAT
*
605957 GTATCGATAC
1 GTATAGATAC
605967 ACTATAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.36
Consensus pattern (23 bp):
GTATAGATACCCCCTCTCTCTAT
Found at i:606463 original size:21 final size:20
Alignment explanation
Indices: 606437--606480 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
606427 ATAAAAAATG
606437 TTTTGATTTTAA-AATTGTTGT
1 TTTTGA-TTTAATAA-TGTTGT
606458 TTTTGATTTAATAATGTTGT
1 TTTTGATTTAATAATGTTGT
606478 TTT
1 TTT
606481 CATGAAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.64
Consensus pattern (20 bp):
TTTTGATTTAATAATGTTGT
Found at i:608303 original size:13 final size:13
Alignment explanation
Indices: 608281--608314 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
608271 AGGGGGAGTA
*
608281 ATTTTCAAAATTG
1 ATTTTCAAAAATG
608294 A-TTTCAAAAATG
1 ATTTTCAAAAATG
608306 ATTTTCAAA
1 ATTTTCAAA
608315 GAAAATCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:608446 original size:19 final size:19
Alignment explanation
Indices: 608414--608453 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
608404 ACTTTTGAAT
* *
608414 TTTAAGATTTTATATTCGA
1 TTTAAAATTATATATTCGA
*
608433 TTTAAAATTATATATTTGA
1 TTTAAAATTATATATTCGA
608452 TT
1 TT
608454 AAATTATTCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
TTTAAAATTATATATTCGA
Found at i:616711 original size:157 final size:158
Alignment explanation
Indices: 616503--616818 Score: 609
Period size: 157 Copynumber: 2.0 Consensus size: 158
616493 ATTTATTACC
616503 TAAAATATCAGTGGAACTTCAGCTAATTACGAAAATCTGTAGATGATTGAGTCAATAAGGAAAAT
1 TAAAATATCAGTGGAACTTCAGCTAATTACGAAAATCTGTAGATGATTGAGTCAATAAGGAAAAT
616568 TTATGATGTTCCTTTTATCTGCATGTTCTTTAGCATCACTTGGTAG-TCTGTATTATTGAGCTTC
66 TTATGATGTTCCTTTTATCTGCATGTTCTTTAGCATCACTTGGTAGTTCTGTATTATTGAGCTTC
616632 TCAAAAGCTCAC-CTTTTACTCACCATTT
131 TC-AAAGCTCACTCTTTTACTCACCATTT
616660 TAAAATATCAGTGGAACTTCAGCTAATTACGAAAATCTGTAGATGATTGAGTCAATAAGGAAAAT
1 TAAAATATCAGTGGAACTTCAGCTAATTACGAAAATCTGTAGATGATTGAGTCAATAAGGAAAAT
616725 TTATGATGTTCCTTTTATCTGCATGTTCTTTAGCATCACTTGGTAGTTCTGTATTATTGAGCTTC
66 TTATGATGTTCCTTTTATCTGCATGTTCTTTAGCATCACTTGGTAGTTCTGTATTATTGAGCTTC
616790 TCAAAGCTCACTCTTTTACTCACCATTT
131 TCAAAGCTCACTCTTTTACTCACCATTT
616818 T
1 T
616819 TGGTTAAAAG
Statistics
Matches: 157, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
157 120 0.76
158 37 0.24
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (158 bp):
TAAAATATCAGTGGAACTTCAGCTAATTACGAAAATCTGTAGATGATTGAGTCAATAAGGAAAAT
TTATGATGTTCCTTTTATCTGCATGTTCTTTAGCATCACTTGGTAGTTCTGTATTATTGAGCTTC
TCAAAGCTCACTCTTTTACTCACCATTT
Found at i:620339 original size:12 final size:12
Alignment explanation
Indices: 620322--620353 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
620312 TTATGGATAT
620322 GATGATGTAAGG
1 GATGATGTAAGG
620334 GATGATGTAAGG
1 GATGATGTAAGG
*
620346 GATCATGT
1 GATGATGT
620354 CATGGATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.38, T:0.28
Consensus pattern (12 bp):
GATGATGTAAGG
Found at i:629887 original size:63 final size:64
Alignment explanation
Indices: 629819--629958 Score: 219
Period size: 64 Copynumber: 2.2 Consensus size: 64
629809 TTAAATTGAT
* *
629819 TTTTTCAAAATAAATTCAT-AATAATGTCTTATTCTTCTTTTTCTTTAAGTCACTAAATAATTA
1 TTTTTCAAAATAAATTCATAAATAATATCTTATTATTCTTTTTCTTTAAGTCACTAAATAATTA
* * * *
629882 TTTTTCAAAATAAATTCATAAATCATATCTTCTTATTTTTTTTCTTTAAGTTACTAAATAATTA
1 TTTTTCAAAATAAATTCATAAATAATATCTTATTATTCTTTTTCTTTAAGTCACTAAATAATTA
629946 TTTTTCAAAATAA
1 TTTTTCAAAATAA
629959 GTACTATTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
63 19 0.27
64 51 0.73
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.50
Consensus pattern (64 bp):
TTTTTCAAAATAAATTCATAAATAATATCTTATTATTCTTTTTCTTTAAGTCACTAAATAATTA
Found at i:632410 original size:31 final size:31
Alignment explanation
Indices: 632375--632459 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 31
632365 ATAAAATATT
632375 CAATATATAAATATTAAATAAATTTAATAGA
1 CAATATATAAATATTAAATAAATTTAATAGA
* * **
632406 CAATATGT-GAT-TT-AAT-AA--TAATATT
1 CAATATATAAATATTAAATAAATTTAATAGA
* *
632431 CAATATATAAATATGAAATAAATTGAATA
1 CAATATATAAATATTAAATAAATTTAATA
632460 TAAAATATTA
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
25 12 0.30
26 2 0.05
27 3 0.08
28 6 0.15
29 4 0.10
30 2 0.05
31 11 0.28
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (31 bp):
CAATATATAAATATTAAATAAATTTAATAGA
Found at i:632467 original size:56 final size:53
Alignment explanation
Indices: 632365--632479 Score: 158
Period size: 56 Copynumber: 2.1 Consensus size: 53
632355 GGTCATGGGT
* * *
632365 ATAAAATATTCAATATATAAATATTAAATAAATTTAATAGACAATATGTGATTTA
1 ATAAAATATTCAATATATAAATATGAAATAAATTGAATAGAAAATAT-T-ATTTA
*
632420 ATAATAATATTCAATATATAAATATGAAATAAATTGAATATAAAATATTATTTAA
1 ATAA-AATATTCAATATATAAATATGAAATAAATTGAATAGAAAATATTATTT-A
632475 ATAAA
1 ATAAA
632480 CAATAATATT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
54 5 0.09
55 10 0.19
56 39 0.72
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (53 bp):
ATAAAATATTCAATATATAAATATGAAATAAATTGAATAGAAAATATTATTTA
Found at i:633507 original size:20 final size:20
Alignment explanation
Indices: 633484--633528 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
633474 GTTTCAAACT
* *
633484 GGTTTTACCGGTTTTCAGCC
1 GGTTCTACCAGTTTTCAGCC
* *
633504 GGTTCTATCAGTTTTCAGCT
1 GGTTCTACCAGTTTTCAGCC
633524 GGTTC
1 GGTTC
633529 ATTGCCATAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.22, G:0.24, T:0.42
Consensus pattern (20 bp):
GGTTCTACCAGTTTTCAGCC
Found at i:659459 original size:61 final size:61
Alignment explanation
Indices: 659382--659546 Score: 285
Period size: 61 Copynumber: 2.7 Consensus size: 61
659372 CAAGTGGTGG
659382 GCACGACCTTATGTGTCATATACGGATTAGCACTAGAGTGTAAACCTAGTGTAGGTGGAGT
1 GCACGACCTTATGTGTCATATACGGATTAGCACTAGAGTGTAAACCTAGTGTAGGTGGAGT
*
659443 GCACGACCTTATGTGTCATATACGAATTAGCACTAGAGTGTAAACCTAGTGTAGGTGGAGT
1 GCACGACCTTATGTGTCATATACGGATTAGCACTAGAGTGTAAACCTAGTGTAGGTGGAGT
* * * *
659504 GCACGACCATATGTGTCATATATGGATTAACACTAGAGCGTAA
1 GCACGACCTTATGTGTCATATACGGATTAGCACTAGAGTGTAA
659547 GCTTAGTACA
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 98 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (61 bp):
GCACGACCTTATGTGTCATATACGGATTAGCACTAGAGTGTAAACCTAGTGTAGGTGGAGT
Found at i:660039 original size:16 final size:15
Alignment explanation
Indices: 660014--660047 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
660004 CTACAAATTC
*
660014 TTAATATAGTTAGTA
1 TTAATATAGTTAATA
660029 TTAATTATAGTTAATA
1 TTAA-TATAGTTAATA
660045 TTA
1 TTA
660048 TGATATCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (15 bp):
TTAATATAGTTAATA
Found at i:665346 original size:14 final size:14
Alignment explanation
Indices: 665329--665361 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
665319 TTCTCTCTCT
*
665329 CTTTCTCTCTTCAA
1 CTTTCTCTCTTAAA
665343 CTTTCTCTCTTAAA
1 CTTTCTCTCTTAAA
665357 CTTTC
1 CTTTC
665362 CTGTTTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (14 bp):
CTTTCTCTCTTAAA
Found at i:665812 original size:14 final size:14
Alignment explanation
Indices: 665788--665821 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
665778 ATCCAACCAA
*
665788 ACCATTGATTGTTG
1 ACCATTAATTGTTG
*
665802 ATCATTAATTGTTG
1 ACCATTAATTGTTG
665816 ACCATT
1 ACCATT
665822 GACTGACATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (14 bp):
ACCATTAATTGTTG
Found at i:670687 original size:13 final size:13
Alignment explanation
Indices: 670669--670702 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
670659 TAACTAGACC
670669 CGCTGACCTGACT
1 CGCTGACCTGACT
670682 CGCTGACCTGACT
1 CGCTGACCTGACT
670695 CGCTGACC
1 CGCTGACC
670703 CGTGTTCGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.15, C:0.41, G:0.24, T:0.21
Consensus pattern (13 bp):
CGCTGACCTGACT
Found at i:670913 original size:21 final size:21
Alignment explanation
Indices: 670889--670929 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
670879 AATCTAAAAA
670889 TGCTTA-ATATTTTAGCATTTT
1 TGCTTATATATTTTAG-ATTTT
*
670910 TGCTTATTTATTTTAGATTT
1 TGCTTATATATTTTAGATTT
670930 ATTTATGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.22, C:0.07, G:0.10, T:0.61
Consensus pattern (21 bp):
TGCTTATATATTTTAGATTTT
Found at i:671612 original size:39 final size:39
Alignment explanation
Indices: 671541--671653 Score: 111
Period size: 39 Copynumber: 2.9 Consensus size: 39
671531 TTTCCGCAGG
* * * *
671541 CTCCTCAGCTTTATGCTCAGGGTAAGTA-CTTACTGCAAC
1 CTCCTCGGCTTTGTGCACAGGATAAG-ACCTTACTGCAAC
* **
671580 CTCCTCGGCTTTGTGTACAGGATAAGACCTTACTGCAGG
1 CTCCTCGGCTTTGTGCACAGGATAAGACCTTACTGCAAC
** * *
671619 CTCCTCTTCTTTGTGCACAGGGTAAGCCCTTACTG
1 CTCCTCGGCTTTGTGCACAGGATAAGACCTTACTG
671654 GGTGCACATG
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
38 1 0.02
39 60 0.98
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.31
Consensus pattern (39 bp):
CTCCTCGGCTTTGTGCACAGGATAAGACCTTACTGCAAC
Found at i:677615 original size:39 final size:39
Alignment explanation
Indices: 677436--677612 Score: 232
Period size: 39 Copynumber: 4.5 Consensus size: 39
677426 ACCGCTTTCC
* *
677436 GCAGGCTCCTCAGCTTTGTGCTTAGGGTAAGTCCTTACT
1 GCAGGCTCCTCTGCTTTGTGCTCAGGGTAAGTCCTTACT
*
677475 GCAGGCTCCT-TGGCTTTGTGCTCAAGGTAAGTCCTTACT
1 GCAGGCTCCTCT-GCTTTGTGCTCAGGGTAAGTCCTTACT
*
677514 GCAGGCTCCT-TGGCTTTGTGCTTAGGGTAAGTCCTTACT
1 GCAGGCTCCTCT-GCTTTGTGCTCAGGGTAAGTCCTTACT
* * * * *
677553 GCAGGCTCTTCTTCTTTGTGCACAGGATAAGACCTTACT
1 GCAGGCTCCTCTGCTTTGTGCTCAGGGTAAGTCCTTACT
*
677592 GCAGACTCCTCTGCTTTGTGC
1 GCAGGCTCCTCTGCTTTGTGC
677613 ACAAAGTAAG
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 121 0.99
40 1 0.01
ACGTcount: A:0.15, C:0.26, G:0.25, T:0.34
Consensus pattern (39 bp):
GCAGGCTCCTCTGCTTTGTGCTCAGGGTAAGTCCTTACT
Found at i:677622 original size:78 final size:77
Alignment explanation
Indices: 677462--677631 Score: 195
Period size: 78 Copynumber: 2.2 Consensus size: 77
677452 TGTGCTTAGG
* * *
677462 GTAAGTCCTTACTGCAGGCTCCTTGGCTTTGTGCTCAAGGTAAGTCCTTACTGCAGGCTCCTTGG
1 GTAAGTCCTTACTGCAGGCTCCTT-GCTTTGTGCACAAGGTAAGACCTTACTGCAGACTCCTTGG
** **
677527 CTTTGTGCTTAGG
65 CTTTGTGCACAAA
677540 GTAAGTCCTTACTGCAGGCTCTTCTT-CTTTGTGCAC-AGGATAAGACCTTACTGCAGACTCCTC
1 GTAAGTCCTTACTGCAGGCTC--CTTGCTTTGTGCACAAGG-TAAGACCTTACTGCAGACTCCT-
677603 T-GCTTTGTGCACAAA
62 TGGCTTTGTGCACAAA
677618 GTAAG-CTCTTACTG
1 GTAAGTC-CTTACTG
677632 GTGTACAAGT
Statistics
Matches: 80, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
77 4 0.05
78 72 0.90
79 1 0.01
80 3 0.04
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (77 bp):
GTAAGTCCTTACTGCAGGCTCCTTGCTTTGTGCACAAGGTAAGACCTTACTGCAGACTCCTTGGC
TTTGTGCACAAA
Found at i:678410 original size:21 final size:22
Alignment explanation
Indices: 678372--678415 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
678362 AAGATATATA
678372 ATTTTTATATCTATAGTTATGT
1 ATTTTTATATCTATAGTTATGT
* *
678394 ATTTTTTTTTCTA-AGTTATGT
1 ATTTTTATATCTATAGTTATGT
678415 A
1 A
678416 AAATGAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.25, C:0.05, G:0.09, T:0.61
Consensus pattern (22 bp):
ATTTTTATATCTATAGTTATGT
Found at i:678572 original size:20 final size:19
Alignment explanation
Indices: 678522--678575 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
678512 ATGGTTTATA
678522 TTTATTTTT-AA-TAAATT
1 TTTATTTTTAAATTAAATT
* *
678539 TTTATCTATGAAATTAAATT
1 TTTAT-TTTTAAATTAAATT
*
678559 TTTATTTTTAAAATAAA
1 TTTATTTTTAAATTAAA
678576 ATATTAAAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 5 0.17
18 2 0.07
19 11 0.38
20 11 0.38
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTATTTTTAAATTAAATT
Found at i:678577 original size:20 final size:18
Alignment explanation
Indices: 678522--678575 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 18
678512 ATGGTTTATA
678522 TTTATTTTT-AATAAATT
1 TTTATTTTTAAATAAATT
* *
678539 TTTATCTATGAAATTAAATT
1 TTTAT-TTTTAAA-TAAATT
678559 TTTATTTTTAAAATAAA
1 TTTATTTTT-AAATAAA
678576 ATATTAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 5 0.17
18 2 0.07
19 8 0.28
20 14 0.48
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
TTTATTTTTAAATAAATT
Found at i:678584 original size:13 final size:13
Alignment explanation
Indices: 678566--678611 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
678556 ATTTTTATTT
*
678566 TTAAAATAAAATA
1 TTAAAATAATATA
*
678579 TTAAAAGAATATA
1 TTAAAATAATATA
*
678592 TTAATATTAATATA
1 TTAA-AATAATATA
678606 TTAAAA
1 TTAAAA
678612 GATAAATGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (13 bp):
TTAAAATAATATA
Found at i:683084 original size:24 final size:24
Alignment explanation
Indices: 683057--683104 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
683047 TGCATGACAT
683057 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
*
683081 TGTACTTAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
683105 CTAGGAAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:686403 original size:16 final size:15
Alignment explanation
Indices: 686384--686447 Score: 62
Period size: 15 Copynumber: 4.3 Consensus size: 15
686374 CATAAGAGCT
686384 AAAAAATAGAAGAAAG
1 AAAAAA-AGAAGAAAG
*
686400 AAAAAAAGAAGGAAG
1 AAAAAAAGAAGAAAG
*
686415 AAAAAAATAA-AAAG
1 AAAAAAAGAAGAAAG
*
686429 AAGAAGAA-AA-AAAG
1 AA-AAAAAGAAGAAAG
686443 AAAAA
1 AAAAA
686448 TAATGAGAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
13 2 0.05
14 13 0.31
15 21 0.50
16 6 0.14
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (15 bp):
AAAAAAAGAAGAAAG
Found at i:686418 original size:12 final size:12
Alignment explanation
Indices: 686393--686445 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
686383 TAAAAAATAG
686393 AAGAAAGAAAAA
1 AAGAAAGAAAAA
* *
686405 AAGAAGGAAGAA
1 AAGAAAGAAAAA
*
686417 AA-AAATAAAAA
1 AAGAAAGAAAAA
686428 GAAG-AAGAAAAA
1 -AAGAAAGAAAAA
686440 AAGAAA
1 AAGAAA
686446 AATAATGAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
11 9 0.28
12 23 0.72
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (12 bp):
AAGAAAGAAAAA
Found at i:686434 original size:20 final size:21
Alignment explanation
Indices: 686402--686447 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
686392 GAAGAAAGAA
*
686402 AAAAAGAAGGAAGAAAAAAAT
1 AAAAAGAAGGAAGAAAAAAAG
686423 AAAAAGAA-GAAGAAAAAAAG
1 AAAAAGAAGGAAGAAAAAAAG
686443 AAAAA
1 AAAAA
686448 TAATGAGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (21 bp):
AAAAAGAAGGAAGAAAAAAAG
Found at i:709787 original size:21 final size:21
Alignment explanation
Indices: 709754--709793 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
709744 TATAGTAAAA
*
709754 AAAATAGAAAATACATTAACT
1 AAAATAGAAAATAAATTAACT
* *
709775 AAAATATATAATAAATTAA
1 AAAATAGAAAATAAATTAA
709794 ATTAAGGGTT
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:0.65, C:0.05, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAATAGAAAATAAATTAACT
Found at i:710772 original size:13 final size:13
Alignment explanation
Indices: 710754--710778 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
710744 TGATAGGCTC
710754 TTTAGGGTTAGGG
1 TTTAGGGTTAGGG
710767 TTTAGGGTTAGG
1 TTTAGGGTTAGG
710779 TTAGGTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (13 bp):
TTTAGGGTTAGGG
Found at i:712868 original size:25 final size:25
Alignment explanation
Indices: 712802--712856 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
712792 AAATTACTTT
*
712802 ATGAAAGAATTTTAAAAAATGTTTG
1 ATGAAAGAATTTTAAAAAATGATTG
712827 ATGAAAGAATTTTAAAAAATGATTG
1 ATGAAAGAATTTTAAAAAATGATTG
712852 ATGAA
1 ATGAA
712857 GTTTTTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (25 bp):
ATGAAAGAATTTTAAAAAATGATTG
Found at i:718534 original size:19 final size:20
Alignment explanation
Indices: 718492--718538 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
718482 TTAAATCCTT
* * *
718492 TTTCAAAATTTCATTTTGGT
1 TTTCAAAATCTCATTTTAGC
718512 TTTCAAAATCT-ATTTTAGC
1 TTTCAAAATCTCATTTTAGC
718531 TTTCAAAA
1 TTTCAAAA
718539 GAAAATCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.49
Consensus pattern (20 bp):
TTTCAAAATCTCATTTTAGC
Found at i:719581 original size:326 final size:325
Alignment explanation
Indices: 718986--719636 Score: 1277
Period size: 326 Copynumber: 2.0 Consensus size: 325
718976 TTCTTCCAAT
718986 ATTGGTAGTTGGATCTATTGAAGTATGGAGGCTTGTTGATTGGTTGGGAGTCTTTCATATGGAAC
1 ATTGGTAGTTGGATCTATTGAAGTATGGAGGCTTGTTGATTGGTTGGGAGTCTTTCATATGGAAC
719051 GAGCCGGAGGTGGAAGCCATATTCTCGATTATGTCAGGAATCGGTAGACTTCTTCTAGGATTGTC
66 GAGCCGGAGGTGGAAGCCATATTCTCGATTATGTCAGGAATCGGTAGACTTCTTCTAGGATTGTC
719116 TCAAGGTTGTTAAACCTTCTAATGAGTAAGCTCTTATATGAATTTTTAGGATTTGAAGAGGCTCA
131 TCAAGGTTGTTAAACCTTCTAATGAGTAAGCTCTTATATGAATTTTTAGGATTTGAAGAGGCTCA
719181 ATTGAACAACTGAAAATACGTAAAGGAGGTTAATTGACAATAATTTAATTAGGGAGTAAGGAGAG
196 ATTGAACAACTGAAAATACGTAAAGGAGGTTAATTGACAATAATTTAATTAGGGAGTAAGGAGAG
719246 CAAAAGATATAAAAATTTGGCACAAGGA-TTAAAGTGGTTCGACTTATCAACCAAGCTACATCCA
261 CAAAAGATATAAAAATTTGGCACAAGGATTTAAAGTGGTTCGACTTATCAACCAAGCTACATCCA
719310 ATTGGTAGTTGGATCTATTGAAGTATGGAGGCTTGTTGATTGGTTGGGAGTCTTTCATATGGAAC
1 ATTGGTAGTTGGATCTATTGAAGTATGGAGGCTTGTTGATTGGTTGGGAGTCTTTCATATGGAAC
719375 GAGCCGGAGGTGGAAGCCATATTCTCGATTATGTCAGGAATCGGTAGAACTTCTTCTAGGATTGT
66 GAGCCGGAGGTGGAAGCCATATTCTCGATTATGTCAGGAATCGGTAG-ACTTCTTCTAGGATTGT
719440 CTCAAGGTTGTTAAACCTTCTAATGAGTAAAGCTCTTATATGAATTTTTAGGATTTGAAGAGGCT
130 CTCAAGGTTGTTAAACCTTCTAATGAGT-AAGCTCTTATATGAATTTTTAGGATTTGAAGAGGCT
719505 CAATTGAACAACTGAAAATACGTAAAGGAGGTTAATTGACAATAATTTAATTAGGGAGTAAGGAG
194 CAATTGAACAACTGAAAATACGTAAAGGAGGTTAATTGACAATAATTTAATTAGGGAGTAAGGAG
719570 AGCAAAAGATATAAAAATTTGGCACAAGGATTTAAAGTGGTTCGACTTATCAACCAAGCTACATC
259 AGCAAAAGATATAAAAATTTGGCACAAGGATTTAAAGTGGTTCGACTTATCAACCAAGCTACATC
719635 CA
324 CA
719637 CTACCTTAGC
Statistics
Matches: 324, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
324 112 0.35
325 45 0.14
326 131 0.40
327 36 0.11
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.31
Consensus pattern (325 bp):
ATTGGTAGTTGGATCTATTGAAGTATGGAGGCTTGTTGATTGGTTGGGAGTCTTTCATATGGAAC
GAGCCGGAGGTGGAAGCCATATTCTCGATTATGTCAGGAATCGGTAGACTTCTTCTAGGATTGTC
TCAAGGTTGTTAAACCTTCTAATGAGTAAGCTCTTATATGAATTTTTAGGATTTGAAGAGGCTCA
ATTGAACAACTGAAAATACGTAAAGGAGGTTAATTGACAATAATTTAATTAGGGAGTAAGGAGAG
CAAAAGATATAAAAATTTGGCACAAGGATTTAAAGTGGTTCGACTTATCAACCAAGCTACATCCA
Found at i:720080 original size:20 final size:20
Alignment explanation
Indices: 720055--720098 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
720045 AGGGTATCGG
720055 TACTATGCCTATGGCATCAA
1 TACTATGCCTATGGCATCAA
* * *
720075 TACTATGTCTATGGTATCGA
1 TACTATGCCTATGGCATCAA
720095 TACT
1 TACT
720099 CCTATGTACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (20 bp):
TACTATGCCTATGGCATCAA
Found at i:723956 original size:17 final size:17
Alignment explanation
Indices: 723934--723990 Score: 96
Period size: 17 Copynumber: 3.4 Consensus size: 17
723924 TGTAACTCCT
723934 CTTTTTGGTGAACAACC
1 CTTTTTGGTGAACAACC
*
723951 CTTTTTGGTGAATAACC
1 CTTTTTGGTGAACAACC
*
723968 CTTTTTGGTAAACAACC
1 CTTTTTGGTGAACAACC
723985 CTTTTT
1 CTTTTT
723991 CAAATCATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (17 bp):
CTTTTTGGTGAACAACC
Found at i:725984 original size:18 final size:18
Alignment explanation
Indices: 725961--726027 Score: 109
Period size: 18 Copynumber: 3.7 Consensus size: 18
725951 CCTTTATATC
725961 TAGAAT-GGTCACAAATCT
1 TAGAATAGG-CACAAATCT
725979 TAGAATAGGCACAAATCT
1 TAGAATAGGCACAAATCT
725997 TAGAATAGGCACAAATCT
1 TAGAATAGGCACAAATCT
*
726015 TAGAATAGTCACA
1 TAGAATAGGCACA
726028 CTTGTATAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
18 45 0.96
19 2 0.04
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (18 bp):
TAGAATAGGCACAAATCT
Found at i:728526 original size:19 final size:21
Alignment explanation
Indices: 728502--728540 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
728492 TTGAAGAAAT
728502 ATGATG-AA-CAGTATCGATA
1 ATGATGCAAGCAGTATCGATA
*
728521 ATGATGCAAGTAGTATCGAT
1 ATGATGCAAGCAGTATCGAT
728541 GTTGTTGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.28
Consensus pattern (21 bp):
ATGATGCAAGCAGTATCGATA
Found at i:729416 original size:111 final size:110
Alignment explanation
Indices: 729221--729758 Score: 783
Period size: 111 Copynumber: 4.9 Consensus size: 110
729211 GCCACTAATT
* * *
729221 AAAGTTATCGATCGATCTTGATTAATGCATAACGGTGGATTTT-GGCATAAAAGGTGCCACCCAT
1 AAAGTTATCGATC-ATTTTGTTTAATGCATAACGGTGCATTTTCGGCATAAAAGGTGCCACCCAT
* *
729285 GGTATTCATAAAAGGTGAATTACCATTTCGACATACTTCATGTATA
65 GGTATTCATAAAAGGTGAATTACCATTTCGACATACTTCGTGTATG
** * *
729331 AAAGTTATCGATCATTTTTGTTTAATGCATAACGGTGCATTTTCGAAATAAATGGTGCCACCCGT
1 AAAGTTATCGATCA-TTTTGTTTAATGCATAACGGTGCATTTTCGGCATAAAAGGTGCCACCCAT
**
729396 ATTATTCATAAAAGGTGAATTACCATTTCGACATACTTCGTGTATG
65 GGTATTCATAAAAGGTGAATTACCATTTCGACATACTTCGTGTATG
* * *
729442 AAAGTTATCGATCGCTTTTGTTTAATGCATAACGGTGCATTTTTGGAATAAAAGGTGCCACCCAT
1 AAAGTTATCGATC-ATTTTGTTTAATGCATAACGGTGCATTTTCGGCATAAAAGGTGCCACCCAT
*
729507 GGTATTCATAAAACGTGAATTACCATTTCGACATACTTCGTGTATG
65 GGTATTCATAAAAGGTGAATTACCATTTCGACATACTTCGTGTATG
* *
729553 AAAGTTATGGATCAATTTTGTTTAATGCATAACGGTG-ATTTTCGACATAAAAAGGTGCCACCCA
1 AAAGTTATCGATC-ATTTTGTTTAATGCATAACGGTGCATTTTCGGCAT-AAAAGGTGCCACCCA
*
729617 TGGTATTCATAAAATGTGAATTACCATTTCGACATACTTCGTGTATG
64 TGGTATTCATAAAAGGTGAATTACCATTTCGACATACTTCGTGTATG
* * * * *
729664 AAAGTTATTGATTGATTTTGTTTAATGCATAACGGTGCTTTTTTGGCATAAATGGTGCCACCCAT
1 AAAGTTATCGA-TCATTTTGTTTAATGCATAACGGTGCATTTTCGGCATAAAAGGTGCCACCCAT
* *
729729 GGTATTCATAAAATGTGAATGACCATTTCG
65 GGTATTCATAAAAGGTGAATTACCATTTCG
729759 GTACTTTGGT
Statistics
Matches: 389, Mismatches: 33, Indels: 11
0.90 0.08 0.03
Matches are distributed among these distances:
109 1 0.00
110 46 0.12
111 333 0.86
112 9 0.02
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (110 bp):
AAAGTTATCGATCATTTTGTTTAATGCATAACGGTGCATTTTCGGCATAAAAGGTGCCACCCATG
GTATTCATAAAAGGTGAATTACCATTTCGACATACTTCGTGTATG
Found at i:736620 original size:111 final size:111
Alignment explanation
Indices: 736426--736745 Score: 498
Period size: 111 Copynumber: 2.9 Consensus size: 111
736416 TGTGTCACTA
* * * *
736426 ATGAAAGTTATCAATCGATTTTGTTTAATGCATAATGGTGCATTTTCAGCATAAAAGGTGCCACC
1 ATGAAAGTTATCGATCGATTTTGTTTAATGCATAAAGGTGCATTTTCGGCATAAAAGGTGTCACC
* * *
736491 AATGTTATTCATAAAAGGTGAATTACGATTTCGACATACTTCGTGT
66 CATGGTATTCATAAAAGGTGAATTACCATTTCGACATACTTCGTGT
* *
736537 ATGAAAGTTATCGATCGATTTTGTTTAATGTATAAAGGTGCATTTTCGGCGTAAAAGGTGTCACC
1 ATGAAAGTTATCGATCGATTTTGTTTAATGCATAAAGGTGCATTTTCGGCATAAAAGGTGTCACC
736602 CATGGTATTCATAAAAGGTGAATTACCATTTCGACATACTTCGTGT
66 CATGGTATTCATAAAAGGTGAATTACCATTTCGACATACTTCGTGT
* * *
736648 ATGAAAGTTATCGATCGATTTTGTTTAATGCATAACGGTGGATTTTTGGCATAAAAGGT-TCCAC
1 ATGAAAGTTATCGATCGATTTTGTTTAATGCATAAAGGTGCATTTTCGGCATAAAAGGTGT-CAC
* *
736712 ACATGGTATTCATAAAAGGTGAATGACCATTTCG
65 CCATGGTATTCATAAAAGGTGAATTACCATTTCG
736746 GTACTTCGGT
Statistics
Matches: 192, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
110 1 0.01
111 191 0.99
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (111 bp):
ATGAAAGTTATCGATCGATTTTGTTTAATGCATAAAGGTGCATTTTCGGCATAAAAGGTGTCACC
CATGGTATTCATAAAAGGTGAATTACCATTTCGACATACTTCGTGT
Found at i:743967 original size:19 final size:19
Alignment explanation
Indices: 743935--743980 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
743925 TTTGTTTCTT
* *
743935 TTTTTCTTTTATTTTTTCGA
1 TTTTT-TTTAATTTTTTCAA
*
743955 TTTTTTTTAATTTTTTTAA
1 TTTTTTTTAATTTTTTCAA
743974 TTTTTTT
1 TTTTTTT
743981 CACTAACATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTTTTAATTTTTTCAA
Found at i:743968 original size:9 final size:9
Alignment explanation
Indices: 743956--743980 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
743946 TTTTTTCGAT
743956 TTTTTTTAA
1 TTTTTTTAA
743965 TTTTTTTAA
1 TTTTTTTAA
743974 TTTTTTT
1 TTTTTTT
743981 CACTAACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:745471 original size:17 final size:17
Alignment explanation
Indices: 745449--745503 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
745439 AATTAAGAGT
*
745449 TAGTTTAATAAATGAAC
1 TAGTTTAATTAATGAAC
745466 TAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
* *
745483 TAACTTTATTTAATGAAC
1 T-AGTTTAATTAATGAAC
745501 TAG
1 TAG
745504 ATGCATGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 18 0.55
18 15 0.45
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:745495 original size:18 final size:18
Alignment explanation
Indices: 745452--745502 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
745442 TAAGAGTTAG
* *
745452 TTTAATAAATGAACT-AG
1 TTTAATTAATGAACTAAC
745469 TTTAATTAATGAACTAAC
1 TTTAATTAATGAACTAAC
*
745487 TTTATTTAATGAACTA
1 TTTAATTAATGAACTA
745503 GATGCATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (18 bp):
TTTAATTAATGAACTAAC
Found at i:748974 original size:3 final size:3
Alignment explanation
Indices: 748968--749009 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
748958 GAATAAAAAA
* *
748968 AAT AAT AAT AAT AAT AAT GAAT AAA AAT AAA AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA
749010 GGATGAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:748990 original size:28 final size:27
Alignment explanation
Indices: 748957--749025 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 27
748947 AATTAAGTGC
*
748957 TGAATAAAAAAAATAATAATAATAATAA
1 TGAATAAAAAAAA-AATAATAATAAGAA
*
748985 TGAATAAAAATAAAAATAATAATAAGGA
1 TGAATAAAAA-AAAAATAATAATAAGAA
*
749013 TGAATATAAAAAA
1 TGAATAAAAAAAA
749026 GGGAATCATG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.08
28 31 0.84
29 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (27 bp):
TGAATAAAAAAAAAATAATAATAAGAA
Found at i:749421 original size:61 final size:61
Alignment explanation
Indices: 749356--749480 Score: 223
Period size: 61 Copynumber: 2.0 Consensus size: 61
749346 ATTTAGTGGC
* *
749356 CAAAATAAAATATTACAAAACCAGTATGGCTCATCAAACAATTAGGCCAAGCGTTGATTTT
1 CAAAATAAAATATTACAAAACCAATATGGCTCATCAAACAATTAGACCAAGCGTTGATTTT
*
749417 CAAAATAAAATATTACAAAACCAATATGTCTCATCAAACAATTAGACCAAGCGTTGATTTT
1 CAAAATAAAATATTACAAAACCAATATGGCTCATCAAACAATTAGACCAAGCGTTGATTTT
749478 CAA
1 CAA
749481 CAAACCCTAG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.26
Consensus pattern (61 bp):
CAAAATAAAATATTACAAAACCAATATGGCTCATCAAACAATTAGACCAAGCGTTGATTTT
Found at i:750116 original size:3 final size:3
Alignment explanation
Indices: 750108--750137 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
750098 AAAATATTAT
750108 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
750138 GCCCGAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:751004 original size:7 final size:7
Alignment explanation
Indices: 750989--751031 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
750979 TATTTCATAT
750989 TATAGTA
1 TATAGTA
750996 TA-A-TA
1 TATAGTA
751001 TATAGTA
1 TATAGTA
751008 TATAGTA
1 TATAGTA
751015 TATAGTA
1 TATAGTA
751022 TATAGTA
1 TATAGTA
751029 TAT
1 TAT
751032 TATGCACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 4 0.12
6 2 0.06
7 28 0.82
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
TATAGTA
Found at i:756700 original size:3 final size:3
Alignment explanation
Indices: 756692--756723 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
756682 TGTAAGAAAT
756692 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
756724 CGGGTCCAAA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:760097 original size:95 final size:99
Alignment explanation
Indices: 759998--760184 Score: 337
Period size: 98 Copynumber: 1.9 Consensus size: 99
759988 TTACAATAAA
*
759998 TAAGTTTACACCTGCAGTTTCTGCA-A-A-AAAAAAAAAAAAGGATTCTATTTCTCAAATTATAT
1 TAAGTTTACACCTGCAGTTTCTGCACACACAAAAAAAAAAAAGGATTCTATTTCTCAAACTATAT
760060 CTCTTAATTGTACAT-ATTTGTCAAGAAAAGGGG
66 CTCTTAATTGTACATAATTTGTCAAGAAAAGGGG
760093 TAAGTTTACACCTGCAGTTTCTGCACACACAAAAAAAAAAAAGGATTCTATTTCTCAAACTATAT
1 TAAGTTTACACCTGCAGTTTCTGCACACACAAAAAAAAAAAAGGATTCTATTTCTCAAACTATAT
760158 CTCTTAATTGTACATAATTTGTCAAGA
66 CTCTTAATTGTACATAATTTGTCAAGA
760185 GGGGGTGGGG
Statistics
Matches: 87, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
95 25 0.29
96 1 0.01
97 1 0.01
98 49 0.56
99 11 0.13
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (99 bp):
TAAGTTTACACCTGCAGTTTCTGCACACACAAAAAAAAAAAAGGATTCTATTTCTCAAACTATAT
CTCTTAATTGTACATAATTTGTCAAGAAAAGGGG
Found at i:762974 original size:157 final size:158
Alignment explanation
Indices: 762767--763082 Score: 616
Period size: 157 Copynumber: 2.0 Consensus size: 158
762757 AATGATAAAG
762767 TCATTCTCAATATTTAAAAAATAGTTATTTTTAATTTTTATTTGAGTAATTTTGTTTTAATATTA
1 TCATTCTCAATATTTAAAAAATAGTTATTTTTAATTTTTATTTGAGTAATTTTGTTTTAATATTA
762832 TAATTTTTTTATTAAAATAGTTCTTATTAGAAGGAAACTATCAGTTAATTAACGATCAATACATG
66 TAATTTTTTTATTAAAATAGTTCTTATTAGAAGGAAACTATCAGTTAATTAACGATCAATACATG
762897 TTGA-TGTGTGATATTTTTATATATACT
131 TTGATTGTGTGATATTTTTATATATACT
*
762924 TCATTCTCAATATTTAAAAAATAGTTATTTTTATTTTTTATTTGAGTAATTTTGTTTTAATATTA
1 TCATTCTCAATATTTAAAAAATAGTTATTTTTAATTTTTATTTGAGTAATTTTGTTTTAATATTA
762989 TAATTTTTTTATTAAAATAGTTCTTATTAGAAGGAAACTATCAGTTAATTAACGATCAATACATG
66 TAATTTTTTTATTAAAATAGTTCTTATTAGAAGGAAACTATCAGTTAATTAACGATCAATACATG
763054 TTGATTGTGTGATATTTTTATATATACT
131 TTGATTGTGTGATATTTTTATATATACT
763082 T
1 T
763083 AATTAGGGGT
Statistics
Matches: 157, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
157 133 0.85
158 24 0.15
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.50
Consensus pattern (158 bp):
TCATTCTCAATATTTAAAAAATAGTTATTTTTAATTTTTATTTGAGTAATTTTGTTTTAATATTA
TAATTTTTTTATTAAAATAGTTCTTATTAGAAGGAAACTATCAGTTAATTAACGATCAATACATG
TTGATTGTGTGATATTTTTATATATACT
Found at i:764942 original size:20 final size:20
Alignment explanation
Indices: 764917--764985 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
764907 GCCTCCGATT
764917 AGTTTTTATTCCCAAATATA
1 AGTTTTTATTCCCAAATATA
** **
764937 AGTTTTCTAGAGCCTCCGAT-T-
1 AGTTTT-TA-TTCC-CAAATATA
764958 AGTTTTTATTCCCAAATATA
1 AGTTTTTATTCCCAAATATA
764978 AGTTTTTA
1 AGTTTTTA
764986 GTCAACTATA
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 16 0.44
21 8 0.22
22 3 0.08
23 3 0.08
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (20 bp):
AGTTTTTATTCCCAAATATA
Found at i:764959 original size:41 final size:41
Alignment explanation
Indices: 764902--764983 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
764892 TGTTCATACA
764902 CTAGAGCCTCCGATTAGTTTTTATTCCCAAATATAAGTTTT
1 CTAGAGCCTCCGATTAGTTTTTATTCCCAAATATAAGTTTT
764943 CTAGAGCCTCCGATTAGTTTTTATTCCCAAATATAAGTTTT
1 CTAGAGCCTCCGATTAGTTTTTATTCCCAAATATAAGTTTT
764984 TAGTCAACTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (41 bp):
CTAGAGCCTCCGATTAGTTTTTATTCCCAAATATAAGTTTT
Found at i:769530 original size:18 final size:18
Alignment explanation
Indices: 769490--769522 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
769480 TTCAGATTTA
769490 TATTATAAGAAATATAAT
1 TATTATAAGAAATATAAT
769508 TATTAT-AGAAA-ATAA
1 TATTATAAGAAATATAA
769523 ATTTATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (18 bp):
TATTATAAGAAATATAAT
Found at i:769742 original size:16 final size:16
Alignment explanation
Indices: 769721--769751 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
769711 TCAATTATAG
769721 GTCAGATTCATAACAT
1 GTCAGATTCATAACAT
769737 GTCAGATTCATAACA
1 GTCAGATTCATAACA
769752 AGTCGGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (16 bp):
GTCAGATTCATAACAT
Found at i:770253 original size:45 final size:46
Alignment explanation
Indices: 770167--770262 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 46
770157 TACACATATA
* * **
770167 CAAAATGAAATTTAATAAAAATATAAATTAAATATTTTTATACAAT
1 CAAAATAAAATTCAATAAAAATATAAATTAAATATGATTATACAAT
* * *
770213 CAAAATAAAATTCAAT-AATATTTAAATTAAATATGATTATATAAT
1 CAAAATAAAATTCAATAAAAATATAAATTAAATATGATTATACAAT
770258 CAAAA
1 CAAAA
770263 ACATGAATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 29 0.67
46 14 0.33
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.35
Consensus pattern (46 bp):
CAAAATAAAATTCAATAAAAATATAAATTAAATATGATTATACAAT
Found at i:782907 original size:21 final size:21
Alignment explanation
Indices: 782881--782933 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
782871 ATGAACTATG
* *
782881 GCTTTGTAATAGAGCTGCTCA
1 GCTTTGTAACAGAACTGCTCA
* *
782902 GCTTTGTAACAGAACTGTTTA
1 GCTTTGTAACAGAACTGCTCA
782923 GCTTTGTAACA
1 GCTTTGTAACA
782934 TAGCTCCTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (21 bp):
GCTTTGTAACAGAACTGCTCA
Found at i:788931 original size:16 final size:15
Alignment explanation
Indices: 788886--788936 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
788876 TACTGAAGGT
*
788886 AACCTGAATACAAATT
1 AACCTGAATA-AAATC
788902 AACCTGAATCAAAATC
1 AACCTGAAT-AAAATC
*
788918 AACCTGAACTAAAAAC
1 AACCTGAA-TAAAATC
788934 AAC
1 AAC
788937 TCGAATCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 29 0.94
17 2 0.06
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.18
Consensus pattern (15 bp):
AACCTGAATAAAATC
Found at i:789246 original size:2 final size:2
Alignment explanation
Indices: 789239--789276 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
789229 AAGTGTGACA
789239 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
789277 TCACATAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:789491 original size:21 final size:20
Alignment explanation
Indices: 789447--789492 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
789437 CGATTGATGT
*
789447 AAAAATATAAAGGTTGACCC
1 AAAAATATAAAGGTTAACCC
*
789467 AAAAATCTAAAGGTTAACCC
1 AAAAATATAAAGGTTAACCC
789487 AAAAAT
1 AAAAAT
789493 TTAATGATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.54, C:0.15, G:0.11, T:0.20
Consensus pattern (20 bp):
AAAAATATAAAGGTTAACCC
Found at i:793951 original size:40 final size:40
Alignment explanation
Indices: 793907--793988 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
793897 AATGTCATGC
793907 ATGTATTGCACTCACCTTGACACTTTATATCTATCAAAAT
1 ATGTATTGCACTCACCTTGACACTTTATATCTATCAAAAT
*
793947 ATGTATTGCACTCACCTTGACACTTTATATCTATTAAAAT
1 ATGTATTGCACTCACCTTGACACTTTATATCTATCAAAAT
793987 AT
1 AT
793989 CATACTAGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (40 bp):
ATGTATTGCACTCACCTTGACACTTTATATCTATCAAAAT
Found at i:802905 original size:18 final size:18
Alignment explanation
Indices: 802884--802922 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
802874 GTTGAATATT
*
802884 TTTG-GAATGTCATGATTG
1 TTTGAGAATG-CATAATTG
802902 TTTGAGAATGCATAATTG
1 TTTGAGAATGCATAATTG
802920 TTT
1 TTT
802923 AGGTTAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.46
Consensus pattern (18 bp):
TTTGAGAATGCATAATTG
Found at i:804083 original size:27 final size:28
Alignment explanation
Indices: 804053--804128 Score: 113
Period size: 27 Copynumber: 2.8 Consensus size: 28
804043 AACGTGGAAG
*
804053 TTTCTAGAAGGTTC-AGTCAGCGACAAT
1 TTTCTAGAAGGATCTAGTCAGCGACAAT
*
804080 TTTCTAGAA-GATCTAGTCAGCGACAGT
1 TTTCTAGAAGGATCTAGTCAGCGACAAT
804107 TTTCTAGAA-GATCTAGTCAGCG
1 TTTCTAGAAGGATCTAGTCAGCG
804129 CACCTTCTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 3 0.07
27 43 0.93
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (28 bp):
TTTCTAGAAGGATCTAGTCAGCGACAAT
Found at i:804142 original size:25 final size:27
Alignment explanation
Indices: 804054--804143 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
804044 ACGTGGAAGT
* ***
804054 TTCTAGAAGGT-TCAGTCAGCGACAATT
1 TTCTAGAAGATCT-AGTCAGCGACAGCC
**
804081 TTCTAGAAGATCTAGTCAGCGACAGTT
1 TTCTAGAAGATCTAGTCAGCGACAGCC
804108 TTCTAGAAGATCTAGTCAGCG-CA-CC
1 TTCTAGAAGATCTAGTCAGCGACAGCC
804133 TTCTAGAAGAT
1 TTCTAGAAGAT
804144 GGAAGGGCAG
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
25 11 0.19
26 2 0.03
27 44 0.76
28 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (27 bp):
TTCTAGAAGATCTAGTCAGCGACAGCC
Found at i:805025 original size:22 final size:23
Alignment explanation
Indices: 804963--805026 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 23
804953 TCCATTTTCA
* *
804963 ACTTTAAAATATTTTATTTATTTTT
1 ACTTT-AAATATCTT-TTTATTATT
804988 ACTTTAAATCA-C-TTTTATTATT
1 ACTTTAAAT-ATCTTTTTATTATT
805010 A-TTTAAATATCTTTTTA
1 ACTTTAAATATCTTTTTA
805027 CCAAAACCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 1 0.03
21 8 0.24
22 14 0.41
23 1 0.03
24 4 0.12
25 6 0.18
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (23 bp):
ACTTTAAATATCTTTTTATTATT
Found at i:813082 original size:11 final size:10
Alignment explanation
Indices: 813065--813103 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
813055 GCAGCCAATC
813065 ACCAAAAACA
1 ACCAAAAACA
*
813075 ACCCAAAACA
1 ACCAAAAACA
813085 ATCCAAAAATCA
1 A-CCAAAAA-CA
813097 ACCAAAA
1 ACCAAAA
813104 TTCATGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 10 0.40
11 12 0.48
12 3 0.12
ACGTcount: A:0.64, C:0.31, G:0.00, T:0.05
Consensus pattern (10 bp):
ACCAAAAACA
Found at i:817191 original size:22 final size:22
Alignment explanation
Indices: 817163--817212 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
817153 TGACTACTTT
*
817163 GGTCAAAGTCAACGGTCAGACC
1 GGTCAAAGTCAACGATCAGACC
* *
817185 GGTCAAAGTTAACGATCAGTCC
1 GGTCAAAGTCAACGATCAGACC
817207 GGTCAA
1 GGTCAA
817213 CAGGTCATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (22 bp):
GGTCAAAGTCAACGATCAGACC
Found at i:817267 original size:20 final size:20
Alignment explanation
Indices: 817244--817297 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
817234 GGTCGGGTAG
817244 GGTTGACTCAGTTTGGGTCA
1 GGTTGACTCAGTTTGGGTCA
* *
817264 GGTTAACTCAGTTTGGGTTA
1 GGTTGACTCAGTTTGGGTCA
* *
817284 GGCTGACTCGGTTT
1 GGTTGACTCAGTTT
817298 AGGCTGGTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.37
Consensus pattern (20 bp):
GGTTGACTCAGTTTGGGTCA
Found at i:821509 original size:224 final size:224
Alignment explanation
Indices: 821119--821567 Score: 866
Period size: 224 Copynumber: 2.0 Consensus size: 224
821109 TTTTAGGTGA
821119 AAATAACCTCATATATGGGTTTAAGAGAGAAAAAGGATTATTTTTGGGCTCTTTTAGATTTCTCG
1 AAATAACCTCATATATGGGTTTAAGAGAGAAAAAGGATTATTTTTGGGCTCTTTTAGATTTCTCG
821184 ACCACCGACGACGGTGGCCGATGGTGGTTGTCGACGTCGAGGATTGGTGGCCATGCGCTGGCAAG
66 ACCACCGACGACGGTGGCCGATGGTGGTTGTCGACGTCGAGGATTGGTGGCCATGCGCTGGCAAG
821249 AGACCAAGTGAGGCTTTAAGATTTTCTCTCAAATTGGTTTTAAGAATAAAGTGAAAATGAGAAAG
131 AGACCAAGTGAGGCTTTAAGATTTTCTCTCAAATTGGTTTTAAGAATAAAGTGAAAATGAGAAAG
821314 GCTTGGAAAATAAGCTTTAGTTTCGGGTT
196 GCTTGGAAAATAAGCTTTAGTTTCGGGTT
821343 AAATAACCTCATATATGGGTTTAAGAGAGAGAAAAAGGATTATTTTTGGGCTCTTTTAGATTTCT
1 AAATAACCTCATATATGGGTTT-A-AGAGAGAAAAAGGATTATTTTTGGGCTCTTTTAGATTTCT
821408 CGACCACCGACGAC-GTGGCCG-TGGTGGTTGTCGACGTCGAGGATTGGTGGCCATGCGCTGGCA
64 CGACCACCGACGACGGTGGCCGATGGTGGTTGTCGACGTCGAGGATTGGTGGCCATGCGCTGGCA
821471 AGAGACCAAGTGAGGCTTTAAGATTTTCTCTCAAATTGGTTTTAAGAATAAAGTGAAAATGAGAA
129 AGAGACCAAGTGAGGCTTTAAGATTTTCTCTCAAATTGGTTTTAAGAATAAAGTGAAAATGAGAA
821536 AGGCTTGGAAAATAAGCTTTAGTTTCGGGTT
194 AGGCTTGGAAAATAAGCTTTAGTTTCGGGTT
821567 A
1 A
821568 TATATCAAAC
Statistics
Matches: 223, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
224 161 0.72
225 8 0.04
226 54 0.24
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (224 bp):
AAATAACCTCATATATGGGTTTAAGAGAGAAAAAGGATTATTTTTGGGCTCTTTTAGATTTCTCG
ACCACCGACGACGGTGGCCGATGGTGGTTGTCGACGTCGAGGATTGGTGGCCATGCGCTGGCAAG
AGACCAAGTGAGGCTTTAAGATTTTCTCTCAAATTGGTTTTAAGAATAAAGTGAAAATGAGAAAG
GCTTGGAAAATAAGCTTTAGTTTCGGGTT
Found at i:827784 original size:21 final size:21
Alignment explanation
Indices: 827759--827798 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
827749 AAGACTTTAT
827759 TTTCAAAATAAAAAAATGATA
1 TTTCAAAATAAAAAAATGATA
*
827780 TTTCAAAATTAAAAAATGA
1 TTTCAAAATAAAAAAATGA
827799 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (21 bp):
TTTCAAAATAAAAAAATGATA
Found at i:832639 original size:23 final size:22
Alignment explanation
Indices: 832594--832654 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 22
832584 ATGGTGTAGA
* * *
832594 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATTCCCCCTTAAAG
*
832616 GGGAACTGATTCCCCCTTTAAAG
1 GGGAACCGATTCCCCC-TTAAAG
832639 GGGAACCGATTCCCCC
1 GGGAACCGATTCCCCC
832655 CAGGGGAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
22 13 0.39
23 20 0.61
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.20
Consensus pattern (22 bp):
GGGAACCGATTCCCCCTTAAAG
Found at i:832661 original size:19 final size:19
Alignment explanation
Indices: 832637--832694 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
832627 CCCCCTTTAA
* *
832637 AGGGGAACCGATTCCCCCC
1 AGGGGAATCGATACCCCCC
*
832656 AGGGGAATCGGTACCCCCC
1 AGGGGAATCGATACCCCCC
*
832675 AGAGGAATCGATACCCCCC
1 AGGGGAATCGATACCCCCC
832694 A
1 A
832695 CGGGTTCTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.26, C:0.38, G:0.26, T:0.10
Consensus pattern (19 bp):
AGGGGAATCGATACCCCCC
Found at i:837984 original size:45 final size:45
Alignment explanation
Indices: 837468--837972 Score: 457
Period size: 45 Copynumber: 11.3 Consensus size: 45
837458 TAAACCTCAA
* * * * *
837468 CTTGACTTTCGCGTGAAGAAGAGTCGATCTTTTAGTATTGTCTTT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
** * * * * *
837513 CTTGACTTTCTCGAAAAGAGGAGTCAAACTCTTAATTTTATTC-TT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTT-GTCATT
* * * *
837558 CTTGACTTTCTCGTGATGAGGATTAAATCTTTTAGTGTTGT--TGA
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCAT-T
* * **
837602 CTTGACTTTCTCGTGAAGAAGAGTCAACCTTTTAGTGTTG-CCCT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* *
837646 CTTAACTTTCTCGTGAAGATGAGTCAATCTTTTAGTGTTGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* *
837691 CTTGACTTTCTCGTGAAGAGTAGTAAATC-TTTAGTGTTGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * **
837735 CTTGGCTTTCTTGTGAAGAGGAATCAATCTTTTAGCATTGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * ** * * *
837780 CTTGACTTTATTGTGAAGATAAGTCAATCTTTCAGTGTTATAATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * * * * *
837825 TTTAACTTTCTTGAGAAGAGGAGTCGATCTTTTCGTGTTATCCTT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * *
837870 TTTGACTTTCTCGTGAAGAGGAGTCAACCTCTTAGTGATGCCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * *
837915 CTT-ATCTTTCTC-TCGAAGAGGAGTCAACCTTTTAGTGATGTGATT
1 CTTGA-CTTTCTCGT-GAAGAGGAGTCAATCTTTTAGTGTTGTCATT
837960 CTTGACTTTCTCG
1 CTTGACTTTCTCG
837973 CAGAGAGGAG
Statistics
Matches: 370, Mismatches: 80, Indels: 19
0.79 0.17 0.04
Matches are distributed among these distances:
43 1 0.00
44 114 0.31
45 252 0.68
46 3 0.01
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.42
Consensus pattern (45 bp):
CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
Found at i:839308 original size:131 final size:129
Alignment explanation
Indices: 838988--839453 Score: 517
Period size: 130 Copynumber: 3.6 Consensus size: 129
838978 TCATATACCA
* * * * **
838988 TTTTTTAGATCTGATCTTCCCTGAAGAGAAGTAAAGCAAATCTACCTCGATTCAATCTTCCCCGA
1 TTTTTTAGATTTGATCTTCCCTGAAGAGCAGTGAAGCAAATCAACCTCGATTCAATCTTCCTTGA
* * * * * * * * ** *
839053 AGAACAGTTAAGTAAATCAAAATTTCTAGATCAGATTTACCCTGAAGAGAAGTAGAGCAGCT-CA
66 AGAA-AGTGAAGTGAATCAAAGTTTCTAGATCTGATCTACCCTAAAAAGTAGT-GAGCAAATCCC
839117 T
129 T
* * *
839118 TTTTTCAGATTTGATCTTCCCTGAAAAGCAATGAAGCAAATCAACCTCGATTCAATCTTCCTTGA
1 TTTTTTAGATTTGATCTTCCCTGAAGAGCAGTGAAGCAAATCAACCTCGATTCAATCTTCCTTGA
* * * *
839183 AGAACAGTGAATTGGATCAATGTTTCTAGATTTGATCTACCCTAAAAAGTAGTGTAGCAAATCCC
66 AGAA-AGTGAAGTGAATCAAAGTTTCTAGATCTGATCTACCCTAAAAAGTAGTG-AGCAAATCCC
839248 T
129 T
* * * * *
839249 TTTTTTAGATTTGATATTCCATGAAGAGTAGTGAAGCAAATCAACCTCGGTTTAATCTTCCTTGA
1 TTTTTTAGATTTGATCTTCCCTGAAGAGCAGTGAAGCAAATCAACCTCGATTCAATCTTCCTTGA
* *
839314 AGAGAAGTGAAGTGAATCAACGTTTCTAGATCTGATCTACCCTGAAAAA-TAGTGAAGCATATCC
66 AGA-AAGTGAAGTGAATCAAAGTTTCTAGATCTGATCTACCCT-AAAAAGTAGTG-AGCAAATCC
839378 CT
128 CT
* * * *
839380 TTTTCT-GATTTGATCTTCCCTGAAGAGCAGTAGAA-CAAATCCACCTCTATTCAATCTTCCATG
1 TTTTTTAGATTTGATCTTCCCTGAAGAGCAGT-GAAGCAAATCAACCTCGATTCAATCTTCCTTG
839443 AAGAAAGTGAA
65 AAGAAAGTGAA
839454 TCCATGTTTC
Statistics
Matches: 284, Mismatches: 47, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
129 8 0.03
130 151 0.53
131 119 0.42
132 6 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (129 bp):
TTTTTTAGATTTGATCTTCCCTGAAGAGCAGTGAAGCAAATCAACCTCGATTCAATCTTCCTTGA
AGAAAGTGAAGTGAATCAAAGTTTCTAGATCTGATCTACCCTAAAAAGTAGTGAGCAAATCCCT
Found at i:840201 original size:7 final size:7
Alignment explanation
Indices: 840189--840218 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
840179 AGAGTTTTTG
840189 AAATAAA
1 AAATAAA
840196 AAATAAA
1 AAATAAA
*
840203 AAGTAAA
1 AAATAAA
840210 AAATAAA
1 AAATAAA
840217 AA
1 AA
840219 GAAAGGAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:848556 original size:29 final size:28
Alignment explanation
Indices: 848523--848594 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
848513 TTTGACTTTT
848523 TTGGTCAAAGTCAACGGTCAAC-GGTCAGA
1 TTGGTCAAAGTCAACGGTCAACGGGTC--A
* *
848552 TTGGTCAGAA-TTAACAGTCAACGGGTCA
1 TTGGTCA-AAGTCAACGGTCAACGGGTCA
848580 --GGTCAAAGTCAACGG
1 TTGGTCAAAGTCAACGG
848595 GTCTAGAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
25 2 0.06
26 10 0.28
28 1 0.03
29 17 0.47
30 6 0.17
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (28 bp):
TTGGTCAAAGTCAACGGTCAACGGGTCA
Found at i:850198 original size:113 final size:113
Alignment explanation
Indices: 850029--850254 Score: 398
Period size: 113 Copynumber: 2.0 Consensus size: 113
850019 AAATACAGAA
* *
850029 CTACCAAGTGATGCTGAATGACACGTAGATAATAGGTAAGCATAAATTTTCCTTGTCGATCCAGA
1 CTACCAAGTGATGCTGAATGACACATAGATAATAGGTAAGCATAAATTTTCCTTGTCAATCCAGA
*
850094 CGTCTACTGGTTTTTAGGATGAGCTGAGGTTCTACTGATATTTCTTCG
66 CGTCTACTGGTTTTTAGGATGAGCTGAGGTTCCACTGATATTTCTTCG
* *
850142 CTACCAAGTGATGCTGAATGACACATAGATAATAGGTAAGTATAAATTTTCCTTGTCAATCCATA
1 CTACCAAGTGATGCTGAATGACACATAGATAATAGGTAAGCATAAATTTTCCTTGTCAATCCAGA
*
850207 CGTCTACTGGTTTTTAGGATGAGCTGAGGTTCCATTGATATTTCTTCG
66 CGTCTACTGGTTTTTAGGATGAGCTGAGGTTCCACTGATATTTCTTCG
850255 AATAAAAGAC
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 107 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (113 bp):
CTACCAAGTGATGCTGAATGACACATAGATAATAGGTAAGCATAAATTTTCCTTGTCAATCCAGA
CGTCTACTGGTTTTTAGGATGAGCTGAGGTTCCACTGATATTTCTTCG
Found at i:856017 original size:19 final size:19
Alignment explanation
Indices: 855981--856018 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
855971 ATGTGCAAGT
855981 ATACATAATCGAACGAGTA
1 ATACATAATCGAACGAGTA
*
856000 ATACAGTAAT-GAATGAGTA
1 ATACA-TAATCGAACGAGTA
856019 TCGTATCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (19 bp):
ATACATAATCGAACGAGTA
Found at i:860683 original size:96 final size:96
Alignment explanation
Indices: 860512--860702 Score: 258
Period size: 96 Copynumber: 2.0 Consensus size: 96
860502 CAAGTAGTAA
* * * * *
860512 CCAATAGATTTCATGATCCATAAGTCAAGAACGATCATATTTTCCAATGAAAATAGGAAACCATA
1 CCAATAGATTCCATGATCCATAAATCAAGAACGATCATATTTTACAATGAAAACAGGAAACCAGA
* *
860577 TAACACATTTAACGTAACCATAATTCATAAT
66 GAACACATTTAAAGTAACCATAATTCATAAT
** *
860608 CCAATAGATTCCATGATCCATAAATCTGGAATGATCATATTTTACAATGAAAACA-GATAACCAG
1 CCAATAGATTCCATGATCCATAAATCAAGAACGATCATATTTTACAATGAAAACAGGA-AACCAG
* *
860672 AGAACATATTTAAAGTAACCATAGTTCATAA
65 AGAACACATTTAAAGTAACCATAATTCATAA
860703 ACTAGTAAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
95 2 0.02
96 80 0.98
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (96 bp):
CCAATAGATTCCATGATCCATAAATCAAGAACGATCATATTTTACAATGAAAACAGGAAACCAGA
GAACACATTTAAAGTAACCATAATTCATAAT
Found at i:864393 original size:20 final size:19
Alignment explanation
Indices: 864346--864395 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
864336 AAAGTTAAGT
*
864346 TCAAAGTCAAAGGTCAAAA
1 TCAAAGTCAAAGGTAAAAA
864365 TCAATAGTCAAA-GTAAACAA
1 TCAA-AGTCAAAGGTAAA-AA
864385 GTCAAAGTCAA
1 -TCAAAGTCAA
864396 CGGGTTGACT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.30
20 15 0.56
21 4 0.15
ACGTcount: A:0.52, C:0.16, G:0.14, T:0.18
Consensus pattern (19 bp):
TCAAAGTCAAAGGTAAAAA
Found at i:864469 original size:28 final size:28
Alignment explanation
Indices: 864399--864477 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
864389 AAGTCAACGG
**
864399 GTTGACTCGGATGAACTAACTCAGATGA
1 GTTGACTCGGATGAGTTAACTCAGATGA
* * *
864427 GTTGACTTGGATGAGTTAACTTATATGA
1 GTTGACTCGGATGAGTTAACTCAGATGA
* *
864455 GTTGACTCAGATGAGTTGACTCA
1 GTTGACTCGGATGAGTTAACTCA
864478 TTTTGGGTTG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (28 bp):
GTTGACTCGGATGAGTTAACTCAGATGA
Found at i:864476 original size:14 final size:14
Alignment explanation
Indices: 864417--864477 Score: 77
Period size: 14 Copynumber: 4.4 Consensus size: 14
864407 GGATGAACTA
864417 ACTCAGATGAGTTG
1 ACTCAGATGAGTTG
** *
864431 ACTTGGATGAGTTA
1 ACTCAGATGAGTTG
* *
864445 ACTTATATGAGTTG
1 ACTCAGATGAGTTG
864459 ACTCAGATGAGTTG
1 ACTCAGATGAGTTG
864473 ACTCA
1 ACTCA
864478 TTTTGGGTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (14 bp):
ACTCAGATGAGTTG
Found at i:867172 original size:327 final size:320
Alignment explanation
Indices: 866561--867531 Score: 1176
Period size: 327 Copynumber: 3.0 Consensus size: 320
866551 CAAATCGAGT
*
866561 AAAAATATATTTGTGGAGAAACCTTAGCACCGCTTTGGCATTGCTTGCAGGCATTGCTACAACTT
1 AAAAATATATTTATGGAGAAACCTTAGCACCGCTTTGGCATTGCTTGCAGGCATT-CT--AACTT
** * * *
866626 CCATTCATTTGGATATATAGTCAACAACAACTATAATAAAAAGG-TTCCTATATGATGAATGATA
63 CCACCCATTTTGATATATAGTCAACAACAACTAGAATAAAAAGGTTTCC-ACATGATGAATGATA
* * ** *
866690 TGATTACATTAAATCCAACCCACATACATCAAACAATTCGATCTTGAAAATAGGTTGCATTGGTA
127 TGATCACATTAAATCCAA-CC-CATACATCAAACAATTCAATCTCCAAAATAGGATGCATTGGTA
* * * **
866755 TTTCATTTCAATGAGAAATGCTGCCAATTCTTTGGCAACAGTCACATTATTTGAAAAAATCATTA
190 TTTCATTACAATGAGAAATGCTGCC-ATTCTTTGGCAAGA-TCGCATTGCTTGAAAAAATCATTA
* * * ** *
866820 TCATCATTGAATAGGGACA-ACCAATAGTAGCCACATTGTAGGATGTTTGTTGCAGTCTGAATTC
253 GCATCCTTGAACAGGGA-AGACCAATAGTAGCCACATTACAGGATCTTTGTTGCAGTCTGAATTC
866884 CTTC
317 CTTC
* *
866888 AAAAATATATTTTTGGAGAAACCTTAGCACCTCTTTGGCATTGCTTGCAGGCATTTCTATAGCTT
1 AAAAATATATTTATGGAGAAACCTTAGCACCGCTTTGGCATTGCTTGCAGGCA-TTCTA-A-CTT
* * *
866953 CCACCCATTTTTATATATAGTTAACAACAACTAGAATAAAAAGGTTTCCACACGATGAATGATAT
63 CCACCCATTTTGATATATAGTCAACAACAACTAGAATAAAAAGGTTTCCACATGATGAATGATAT
* *
867018 GGTCACATTAAATCCAACCCATGTACATCAAACAATTCAATCTCCAAAATAGGATGTATTGGTAT
128 GATCACATTAAATCCAACCCA--TACATCAAACAATTCAATCTCCAAAATAGGATGCATTGGTAT
* ** * *
867083 TTTATTACAACAAGAAATGTTGTCAGTTCTTTGGCAATGATCGCATTGCTTGAAAAAATCATTAG
191 TTCATTACAATGAGAAATGCTGCCA-TTCTTTGGCAA-GATCGCATTGCTTGAAAAAATCATTAG
*
867148 CATCCTTGAACATGGAAGACCAATAGTAGCCACATTACAGGATCTTTGTTGCAGTCTGAATTCCT
254 CATCCTTGAACAGGGAAGACCAATAGTAGCCACATTACAGGATCTTTGTTGCAGTCTGAATTCCT
867213 TC
319 TC
* *
867215 AAAAATATATTTATGGAGAAACCTTAGCATCGCTTTGGCATTGC-T------A--C-AACTTTCA
1 AAAAATATATTTATGGAGAAACCTTAGCACCGCTTTGGCATTGCTTGCAGGCATTCTAACTTCCA
** * * *
867270 CCCATTTTGATACGTAGTCAACAACAACTAGAATAAAAAGGTTTCCACATGATTAAGGATATGCT
66 CCCATTTTGATATATAGTCAACAACAACTAGAATAAAAAGGTTTCCACATGATGAATGATATGAT
* *
867335 CACATTAAATCCAACCACATACATCAAACAATTCTATCTCCAAAATA-GACTGCATTGGTGTTTC
131 CACATTAAATCCAACC-CATACATCAAACAATTCAATCTCCAAAATAGGA-TGCATTGGTATTTC
* **
867399 ATTACAATGAGAAATGCTGCCTATTCTTTGGCAACGATCGTATTGCTTGACGAAATCATTAGCAT
194 ATTACAATGAGAAATGCTGCC-ATTCTTTGGCAA-GATCGCATTGCTTGAAAAAATCATTAGCAT
* * * * * ** *
867464 CCTTTAACAGGGATGACTAATAGTAGCCACATTACAGGATCTGTGCTATAGTTTGAATTCCTTC
257 CCTTGAACAGGGAAGACCAATAGTAGCCACATTACAGGATCTTTGTTGCAGTCTGAATTCCTTC
867528 AAAA
1 AAAA
867532 TGACCATCAT
Statistics
Matches: 565, Mismatches: 67, Indels: 38
0.84 0.10 0.06
Matches are distributed among these distances:
312 2 0.00
313 152 0.27
314 79 0.14
315 3 0.01
316 1 0.00
317 1 0.00
320 1 0.00
325 3 0.01
326 6 0.01
327 310 0.55
328 7 0.01
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (320 bp):
AAAAATATATTTATGGAGAAACCTTAGCACCGCTTTGGCATTGCTTGCAGGCATTCTAACTTCCA
CCCATTTTGATATATAGTCAACAACAACTAGAATAAAAAGGTTTCCACATGATGAATGATATGAT
CACATTAAATCCAACCCATACATCAAACAATTCAATCTCCAAAATAGGATGCATTGGTATTTCAT
TACAATGAGAAATGCTGCCATTCTTTGGCAAGATCGCATTGCTTGAAAAAATCATTAGCATCCTT
GAACAGGGAAGACCAATAGTAGCCACATTACAGGATCTTTGTTGCAGTCTGAATTCCTTC
Found at i:869023 original size:14 final size:14
Alignment explanation
Indices: 868996--869041 Score: 83
Period size: 14 Copynumber: 3.2 Consensus size: 14
868986 AATGGTCAGT
868996 TTTCTCATTTCTCTC
1 TTTCTCA-TTCTCTC
869011 TTTCTCATTCTCTC
1 TTTCTCATTCTCTC
869025 TTTCTCATTCTCTC
1 TTTCTCATTCTCTC
869039 TTT
1 TTT
869042 AATAGAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 24 0.77
15 7 0.23
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTCTCATTCTCTC
Found at i:869749 original size:3 final size:3
Alignment explanation
Indices: 869670--869729 Score: 86
Period size: 3 Copynumber: 20.3 Consensus size: 3
869660 TATTTGTAAT
* * *
869670 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA CAA TAA TAA TAA TAT TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
869717 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
869730 TATTATTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:870243 original size:43 final size:43
Alignment explanation
Indices: 870195--870282 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
870185 CTCATTTGAA
* * *
870195 AACATCCTACATTGAAGGTCTTATAGATGGCCCGAAGGACTTT
1 AACATCCTACACTGAAGGTCTTACAGATGACCCGAAGGACTTT
* * * *
870238 AACATCTTGCACTGGAGGTCTTACAGATGACCCGAAGGATTTT
1 AACATCCTACACTGAAGGTCTTACAGATGACCCGAAGGACTTT
870281 AA
1 AA
870283 ATTAAGAAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
AACATCCTACACTGAAGGTCTTACAGATGACCCGAAGGACTTT
Found at i:870484 original size:130 final size:131
Alignment explanation
Indices: 870027--870631 Score: 953
Period size: 131 Copynumber: 4.6 Consensus size: 131
870017 GATAATTAGT
* * * * * ** * *
870027 AAACCCCCGAAGGCTTGGTTTCTAAAATCTAATTTGCAAGCATCCAACATTGAAGGTCTTATAGA
1 AAACTCCCGAAGGCTTAGTTTCT-AAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGA
* * *
870092 TGGCCCGAAGGAC-TTAACATCTTGCACTGAAGGTCTTATAGATGACCCGAAGGATCTTAAATTA
65 TGGCCCGAAGGACTTTAACATCTTGCACTGAAGGTCTTACAAATGACCCGAAGGATTTTAAATTA
870156 AG
130 AG
* * *
870158 AAACTCCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTACATTGAAGGTCTTATAGAT
1 AAACTCCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGAT
* *
870223 GGCCCGAAGGACTTTAACATCTTGCACTGGAGGTCTTACAGATGACCCGAAGGATTTTAAATTAA
66 GGCCCGAAGGACTTTAACATCTTGCACTGAAGGTCTTACAAATGACCCGAAGGATTTTAAATTAA
870288 G
131 G
*
870289 AAACTCCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGAACTGAAGGTCTTATGGAT
1 AAACTCCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGAT
* * *
870354 GGCCCAAAGGACTTTAACATCTTGCACTGAAGGTCTTACAAATGACCTGAAGGATTTTATATTAA
66 GGCCCGAAGGACTTTAACATCTTGCACTGAAGGTCTTACAAATGACCCGAAGGATTTTAAATTAA
870419 -
131 G
* *
870419 AAACTCCTGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAATGTCTTATGGAT
1 AAACTCCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGAT
* *
870484 GGCCTGAAGGACTTTAACATCTTGCACTGAAGGTCTTACAAATGACCCAAAGGATTTTAAATTAA
66 GGCCCGAAGGACTTTAACATCTTGCACTGAAGGTCTTACAAATGACCCGAAGGATTTTAAATTAA
870549 G
131 G
*
870550 AAACTCCCAAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGAT
1 AAACTCCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGAT
870615 GGCCCGAAGGACTTTAA
66 GGCCCGAAGGACTTTAA
870632 ATTAAGAAAC
Statistics
Matches: 442, Mismatches: 30, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
130 172 0.39
131 270 0.61
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (131 bp):
AAACTCCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGAT
GGCCCGAAGGACTTTAACATCTTGCACTGAAGGTCTTACAAATGACCCGAAGGATTTTAAATTAA
G
Found at i:870497 original size:261 final size:262
Alignment explanation
Indices: 870027--870631 Score: 948
Period size: 261 Copynumber: 2.3 Consensus size: 262
870017 GATAATTAGT
* * * * * *
870027 AAACCCCCGAAGGCTTGGTTTCTAAAATCTAATTTGCAAGCATCC--AACATTGAAGGTCTTATA
1 AAACTCCCGAAGGCTTAGTTTCT-AAATCTCATTTGAAAACATCCTGAAC--TGAAGGTCTTATG
* *
870090 GATGGCCCGAAGGAC-TTAACATCTTGCACTGAAGGTCTTATAGATGACCCGAAGGATCTTAAAT
63 GATGGCCCGAAGGACTTTAACATCTTGCACTGAAGGTCTTACAAATGACCCGAAGGATCTTAAAT
*
870154 TAAGAAACTCCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTACATTGAAGGTCTTAT
128 TAAGAAACTCCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTACACTGAAGGTCTTAT
* * *
870219 AGATGGCCCGAAGGACTTTAACATCTTGCACTGGAGGTCTTACAGATGACCCGAAGGATTTTAAA
193 AGATGGCCCGAAGGACTTTAACATCTTGCACTGAAGGTCTTACAAATGACCCAAAGGATTTTAAA
870284 TTAAG
258 TTAAG
870289 AAACTCCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGAACTGAAGGTCTTATGGAT
1 AAACTCCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGAACTGAAGGTCTTATGGAT
* * * *
870354 GGCCCAAAGGACTTTAACATCTTGCACTGAAGGTCTTACAAATGACCTGAAGGATTTTATATTAA
66 GGCCCGAAGGACTTTAACATCTTGCACTGAAGGTCTTACAAATGACCCGAAGGATCTTAAATTAA
* * * *
870419 -AAACTCCTGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAATGTCTTATGGA
131 GAAACTCCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTACACTGAAGGTCTTATAGA
*
870483 TGGCCTGAAGGACTTTAACATCTTGCACTGAAGGTCTTACAAATGACCCAAAGGATTTTAAATTA
196 TGGCCCGAAGGACTTTAACATCTTGCACTGAAGGTCTTACAAATGACCCAAAGGATTTTAAATTA
870548 AG
261 AG
* *
870550 AAACTCCCAAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGAT
1 AAACTCCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGAACTGAAGGTCTTATGGAT
870615 GGCCCGAAGGACTTTAA
66 GGCCCGAAGGACTTTAA
870632 ATTAAGAAAC
Statistics
Matches: 316, Mismatches: 24, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
261 245 0.78
262 68 0.22
263 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (262 bp):
AAACTCCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTGAACTGAAGGTCTTATGGAT
GGCCCGAAGGACTTTAACATCTTGCACTGAAGGTCTTACAAATGACCCGAAGGATCTTAAATTAA
GAAACTCCCGAAGGCTTAGTTTCTAAATCTCATTTGAAAACATCCTACACTGAAGGTCTTATAGA
TGGCCCGAAGGACTTTAACATCTTGCACTGAAGGTCTTACAAATGACCCAAAGGATTTTAAATTA
AG
Found at i:870651 original size:88 final size:88
Alignment explanation
Indices: 870499--870719 Score: 343
Period size: 88 Copynumber: 2.5 Consensus size: 88
870489 GAAGGACTTT
* *** * * *
870499 AACATCTTGCACTGAAGGTCTTACAAATGACCCAAAGGATTTTAAATTAAGAAACTCCCAAAGGC
1 AACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTTAAATTAAGAAACTCCCAAAGGC
*
870564 TTAGTTTCTAAATCTCATTTGAA
66 TTAGTTTCTAAATCGCATTTGAA
*
870587 AACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTTAAATTAAGAAACTCCCGAAGGC
1 AACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTTAAATTAAGAAACTCCCAAAGGC
870652 TTAGTTTCTAAATCGCATTTGAA
66 TTAGTTTCTAAATCGCATTTGAA
* *
870675 AACGTCCTGCACTGAAGGTCTTATGGATGGTCCGAAGGACTTTAA
1 AACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTTAA
870720 CATCTTGCAC
Statistics
Matches: 122, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 122 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (88 bp):
AACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTTAAATTAAGAAACTCCCAAAGGC
TTAGTTTCTAAATCGCATTTGAA
Found at i:870722 original size:131 final size:131
Alignment explanation
Indices: 870587--870850 Score: 438
Period size: 131 Copynumber: 2.0 Consensus size: 131
870577 CTCATTTGAA
** **
870587 AACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTTAAATTAAGAAACTCCCGAAGGC
1 AACATCCTGCACTGAAGGTCTTACAGATAACCCGAAGGACTTTAAATTAAGAAACTCCCGAAGGC
* **
870652 TTAGTTTCTAAATCGCATTTGAAAACGTCCTGCACTGAAGGTCTTATGGATGGTCCGAAGGACTT
66 TTAGTTTCTAAATCGCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTT
870717 T
131 T
* *
870718 AACATCTTGCACTGAAGGTCTTACAGATAACCCGAAGGATTTTAAATTAAGAAACTCCCGAAGGC
1 AACATCCTGCACTGAAGGTCTTACAGATAACCCGAAGGACTTTAAATTAAGAAACTCCCGAAGGC
*
870783 TTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTT
66 TTAGTTTCTAAATCGCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTT
870848 T
131 T
870849 AA
1 AA
870851 ATTAAGAAAC
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 123 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (131 bp):
AACATCCTGCACTGAAGGTCTTACAGATAACCCGAAGGACTTTAAATTAAGAAACTCCCGAAGGC
TTAGTTTCTAAATCGCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTT
T
Found at i:870867 original size:88 final size:88
Alignment explanation
Indices: 870718--870938 Score: 352
Period size: 88 Copynumber: 2.5 Consensus size: 88
870708 GAAGGACTTT
** * *
870718 AACATCTTGCACTGAAGGTCTTACAGATAACCCGAAGGATTTTAAATTAAGAAACTCCCGAAGGC
1 AACATCTTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTTAAATTAAGAAACTCCCGAAGGC
*
870783 TTAGTTTCTAAATCTCATTTGAA
66 TTAGTTTCTAAATCGCATTTGAA
*
870806 AACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTTAAATTAAGAAACTCCCGAAGGC
1 AACATCTTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTTAAATTAAGAAACTCCCGAAGGC
870871 TTAGTTTCTAAATCGCATTTGAA
66 TTAGTTTCTAAATCGCATTTGAA
* * **
870894 AACATCTTGCATTGAAGGTCTTATGGATGGCCTAAAGGACTTTAA
1 AACATCTTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTTAA
870939 CATCTTGCAC
Statistics
Matches: 122, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 122 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (88 bp):
AACATCTTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTTAAATTAAGAAACTCCCGAAGGC
TTAGTTTCTAAATCGCATTTGAA
Found at i:870962 original size:219 final size:219
Alignment explanation
Indices: 870369--870964 Score: 998
Period size: 219 Copynumber: 2.7 Consensus size: 219
870359 AAAGGACTTT
* *** * * * *
870369 AACATCTTGCACTGAAGGTCTTACAAATGACCTGAAGGATTTTATATTAA-AAACTCCTGAAGGC
1 AACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTTAAATTAAGAAACTCCCGAAGGC
* *
870433 TTAGTTTCTAAATCTCATTTGAAAACATCCTGCACTGAATGTCTTATGGATGGCCTGAAGGACTT
66 TTAGTTTCTAAATCGCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCTGAAGGACTT
* *
870498 TAACATCTTGCACTGAAGGTCTTACAAATGACCCAAAGGATTTTAAATTAAGAAACTCCCAAAGG
131 TAACATCTTGCACTGAAGGTCTTACAGATAACCCAAAGGATTTTAAATTAAGAAACTCCCAAAGG
870563 CTTAGTTTCTAAATCTCATTTGAA
196 CTTAGTTTCTAAATCTCATTTGAA
*
870587 AACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTTAAATTAAGAAACTCCCGAAGGC
1 AACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTTAAATTAAGAAACTCCCGAAGGC
*
870652 TTAGTTTCTAAATCGCATTTGAAAACGTCCTGCACTGAAGGTCTTATGGATGGTCC-GAAGGACT
66 TTAGTTTCTAAATCGCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGG-CCTGAAGGACT
* *
870716 TTAACATCTTGCACTGAAGGTCTTACAGATAACCCGAAGGATTTTAAATTAAGAAACTCCCGAAG
130 TTAACATCTTGCACTGAAGGTCTTACAGATAACCCAAAGGATTTTAAATTAAGAAACTCCCAAAG
870781 GCTTAGTTTCTAAATCTCATTTGAA
195 GCTTAGTTTCTAAATCTCATTTGAA
870806 AACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTTAAATTAAGAAACTCCCGAAGGC
1 AACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTTAAATTAAGAAACTCCCGAAGGC
* * *
870871 TTAGTTTCTAAATCGCATTTGAAAACATCTTGCATTGAAGGTCTTATGGATGGCCTAAAGGACTT
66 TTAGTTTCTAAATCGCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCTGAAGGACTT
870936 TAACATCTTGCACTGAAGGTCTTACAGAT
131 TAACATCTTGCACTGAAGGTCTTACAGAT
870965 GCAGGAAATA
Statistics
Matches: 354, Mismatches: 21, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
218 44 0.12
219 308 0.87
220 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (219 bp):
AACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTTAAATTAAGAAACTCCCGAAGGC
TTAGTTTCTAAATCGCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCTGAAGGACTT
TAACATCTTGCACTGAAGGTCTTACAGATAACCCAAAGGATTTTAAATTAAGAAACTCCCAAAGG
CTTAGTTTCTAAATCTCATTTGAA
Found at i:872217 original size:53 final size:54
Alignment explanation
Indices: 872021--872240 Score: 307
Period size: 54 Copynumber: 4.1 Consensus size: 54
872011 ATAATAATTG
* *
872021 GTTCGTAAAACATTTGACAATACATTCATCCTTTCCTATGGCTTCTGCACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCACAGAT
* * * * *
872075 GTTCATAAAACATTTGACAACACATTCATCCTTTCCTGTTGCTTTTGCCCATAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCACAGAT
* * * * *
872129 GCTCGTAAAACATTTGACAACATATTCATCATTTCCTGTGGTTTCTGCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCACAGAT
* *
872183 GTTCGT-AAACATTTAACAACACATTAATCCTTTCCTGTGGCTTCTGCACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCACAGAT
872236 GTTCG
1 GTTCG
872241 CCAGTGAAGC
Statistics
Matches: 144, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 46 0.32
54 98 0.68
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCACAGAT
Found at i:873390 original size:75 final size:74
Alignment explanation
Indices: 873301--873470 Score: 259
Period size: 75 Copynumber: 2.3 Consensus size: 74
873291 GATATAGGCC
* * * * *
873301 TTCAGCATCCCCCAACATTTGCTGATACGAACGTTCAAAATGCTTCAACATTCCTGTTTCTGATT
1 TTCAGCAT-CCCCAACATTTGCTGATACAAACGTTCAAAATGCATCAACATTCCTATTTATGATA
873366 GAAATGGGCT
65 GAAATGGGCT
*
873376 TTCAGCATGCCCCAACATTTGCTGATACAAACGTTCAAAATGCATCAACATTCCTATTTATTATA
1 TTCAGCAT-CCCCAACATTTGCTGATACAAACGTTCAAAATGCATCAACATTCCTATTTATGATA
873441 GAAATGGGCT
65 GAAATGGGCT
873451 TTCAGCAATCCCCAACATTT
1 TTCAGC-ATCCCCAACATTT
873471 TCTTCTTGTT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
75 85 0.98
76 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (74 bp):
TTCAGCATCCCCAACATTTGCTGATACAAACGTTCAAAATGCATCAACATTCCTATTTATGATAG
AAATGGGCT
Found at i:875155 original size:20 final size:20
Alignment explanation
Indices: 875130--875201 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
875120 TTGATTCATT
875130 TTTTTTCCT-TTTCTTTTTCA
1 TTTTTTCCTCTTT-TTTTTCA
875150 TTTTTTCCTCTTTTTTTT--
1 TTTTTTCCTCTTTTTTTTCA
* *
875168 TTCTTTT-CTC-TTATTTTCT
1 TT-TTTTCCTCTTTTTTTTCA
875187 TTTTTTCCT-TTTTTT
1 TTTTTTCCTCTTTTTT
875202 CCTTATGATA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
17 6 0.14
18 9 0.20
19 12 0.27
20 14 0.32
21 3 0.07
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTCCTCTTTTTTTTCA
Found at i:875162 original size:22 final size:22
Alignment explanation
Indices: 875124--875190 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
875114 CCCATCTTGA
875124 TTCATTTTTT-TTCCTTTTCTTT
1 TTCATTTTTTCTT-CTTTTCTTT
* *
875146 TTCATTTTTTCCTCTTTTTTTT
1 TTCATTTTTTCTTCTTTTCTTT
* *
875168 TTC-TTTTCTCTTATTTTCTTT
1 TTCATTTTTTCTTCTTTTCTTT
875189 TT
1 TT
875191 TTCCTTTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 16 0.42
22 21 0.55
23 1 0.03
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (22 bp):
TTCATTTTTTCTTCTTTTCTTT
Found at i:875164 original size:18 final size:18
Alignment explanation
Indices: 875129--875202 Score: 71
Period size: 18 Copynumber: 4.0 Consensus size: 18
875119 CTTGATTCAT
*
875129 TTTTTTTCCTTTTCTTTTTC
1 TTTTTTTCC-TCT-TTTTTC
*
875149 ATTTTTTCCTCTTTTTT-
1 TTTTTTTCCTCTTTTTTC
*
875166 TTTTCTTTTCTCTTATTTTC
1 TTTT-TTTCCTCTT-TTTTC
875186 TTTTTTTCCT-TTTTTTC
1 TTTTTTTCCTCTTTTTTC
875203 CTTATGATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
17 8 0.17
18 15 0.33
19 11 0.24
20 12 0.26
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTTCCTCTTTTTTC
Found at i:875198 original size:35 final size:34
Alignment explanation
Indices: 875128--875201 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 34
875118 TCTTGATTCA
875128 TTTTTTTTCCTTTTCTTTTTCATTTTTTCCTCTT
1 TTTTTTTTCCTTTTCTTTTTCATTTTTTCCTCTT
* *
875162 TTTTTTTTCTTTTCTCTTATTTTCTTTTTTTCCT-TT
1 TTTTTTTTCCTTT-TC-T-TTTTCATTTTTTCCTCTT
875198 TTTT
1 TTTT
875202 CCTTATGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 12 0.34
35 2 0.06
36 7 0.20
37 14 0.40
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.80
Consensus pattern (34 bp):
TTTTTTTTCCTTTTCTTTTTCATTTTTTCCTCTT
Done.