Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold124
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: 1034113
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 25 characters in sequence are not A, C, G, or T
File 3 of 7
Found at i:289365 original size:758 final size:758
Alignment explanation
Indices: 287910--289420 Score: 3022
Period size: 758 Copynumber: 2.0 Consensus size: 758
287900 ATTTTGAAGG
287910 GATACTCCAACCTTGCCTCTTTTTGAATTTCTTTTAAATTTCAAACTTCTCTCTAGGACATCCCT
1 GATACTCCAACCTTGCCTCTTTTTGAATTTCTTTTAAATTTCAAACTTCTCTCTAGGACATCCCT
287975 AGATCATTAATCATAATCCTTTTTTCTAAAATCTTACAGAATCCTATCAAGTCTCAACATTGTTA
66 AGATCATTAATCATAATCCTTTTTTCTAAAATCTTACAGAATCCTATCAAGTCTCAACATTGTTA
288040 ACATGATTACGCATCAATAATCAAAGATAATCACGAGACACACTTCGATCGTCCCTCCTTCTTAT
131 ACATGATTACGCATCAATAATCAAAGATAATCACGAGACACACTTCGATCGTCCCTCCTTCTTAT
288105 GTATTTTTGTGCGTTTATTTTGCGTAAATTTGTTTGTTATTTTCTTATTCGCTTTACTAACATGT
196 GTATTTTTGTGCGTTTATTTTGCGTAAATTTGTTTGTTATTTTCTTATTCGCTTTACTAACATGT
288170 TTCCTTTCATAGGGAACTTATGCATTTATGCTTCAAAAAATATTTTTAAAAATCACAAAATGATA
261 TTCCTTTCATAGGGAACTTATGCATTTATGCTTCAAAAAATATTTTTAAAAATCACAAAATGATA
288235 TTCCATGTCGGTATCTCTCAAGTGCTTAACATAAAATATTTGATTTTTCCAAACCCTATCCGAAA
326 TTCCATGTCGGTATCTCTCAAGTGCTTAACATAAAATATTTGATTTTTCCAAACCCTATCCGAAA
288300 ACCTTTTCTATGAAAAACTCCTATGTTCCTCACTTTTCTGAGGCGCATAGGCAATACAAGTTTTT
391 ACCTTTTCTATGAAAAACTCCTATGTTCCTCACTTTTCTGAGGCGCATAGGCAATACAAGTTTTT
288365 CATGCTAGACCCGAATTCACAGTTTCTATAAAACTCCATGCATTAGAGGGAATTATATTTAAATA
456 CATGCTAGACCCGAATTCACAGTTTCTATAAAACTCCATGCATTAGAGGGAATTATATTTAAATA
288430 ATAATAAAGAATGGAACTGAGAAAACCAAGATCTAAGTGGGACATAGTTAGAAGATACCGATTTC
521 ATAATAAAGAATGGAACTGAGAAAACCAAGATCTAAGTGGGACATAGTTAGAAGATACCGATTTC
288495 GGGCATCGTGGGGGTGCTAATCCTTCCTTCCCCATGCATAACCAACTCCCGAACCCAAACGATGA
586 GGGCATCGTGGGGGTGCTAATCCTTCCTTCCCCATGCATAACCAACTCCCGAACCCAAACGATGA
288560 ATCTTGAATTATGTAGACCACGAGATTAATGGTTCAAATTTCGTGACTCAAAACATAGGTTTCAA
651 ATCTTGAATTATGTAGACCACGAGATTAATGGTTCAAATTTCGTGACTCAAAACATAGGTTTCAA
288625 TAGGCATCCGATCATGCCTAGCCCGAAATGATCAGTGGTTGGT
716 TAGGCATCCGATCATGCCTAGCCCGAAATGATCAGTGGTTGGT
288668 GATACTCCAACCTTGCCTCTTTTTGAATTTCTTTTAAATTTCAAACTTCTCTCTAGGACATCCCT
1 GATACTCCAACCTTGCCTCTTTTTGAATTTCTTTTAAATTTCAAACTTCTCTCTAGGACATCCCT
288733 AGATCATTAATCATAATCCTTTTTTCTAAAATCTTACAGAATCCTATCAAGTCTCAACATTGTTA
66 AGATCATTAATCATAATCCTTTTTTCTAAAATCTTACAGAATCCTATCAAGTCTCAACATTGTTA
288798 ACATGATTACGCATCAATAATCAAAGATAATCACGAGACACACTTCGATCGTCCCTCCTTCTTAT
131 ACATGATTACGCATCAATAATCAAAGATAATCACGAGACACACTTCGATCGTCCCTCCTTCTTAT
288863 GTATTTTTGTGCGTTTATTTTGCGTAAATTTGTTTGTTATTTTCTTATTCGCTTTACTAACATGT
196 GTATTTTTGTGCGTTTATTTTGCGTAAATTTGTTTGTTATTTTCTTATTCGCTTTACTAACATGT
288928 TTCCTTTCATAGGGAACTTATGCATTTATGCTTCAAAAAATATTTTTAAAAATCACAAAATGATA
261 TTCCTTTCATAGGGAACTTATGCATTTATGCTTCAAAAAATATTTTTAAAAATCACAAAATGATA
288993 TTCCATGTCGGTATCTCTCAAGTGCTTAACATAAAATATTTGATTTTTCCAAACCCTATCCGAAA
326 TTCCATGTCGGTATCTCTCAAGTGCTTAACATAAAATATTTGATTTTTCCAAACCCTATCCGAAA
289058 ACCTTTTCTATGAAAAACTCCTATGTTCCTCACTTTTCTGAGGCGCATAGGCAATACAAGTTTTT
391 ACCTTTTCTATGAAAAACTCCTATGTTCCTCACTTTTCTGAGGCGCATAGGCAATACAAGTTTTT
289123 CATGCTAGACCCGAATTCACAGTTTCTATAAAACTCCATGCATTAGAGGGAATTATATTTAAATA
456 CATGCTAGACCCGAATTCACAGTTTCTATAAAACTCCATGCATTAGAGGGAATTATATTTAAATA
289188 ATAATAAAGAATGGAACTGAGAAAACCAAGATCTAAGTGGGACATAGTTAGAAGATACCGATTTC
521 ATAATAAAGAATGGAACTGAGAAAACCAAGATCTAAGTGGGACATAGTTAGAAGATACCGATTTC
289253 GGGCATCGTGGGGGTGCTAATCCTTCCTTCCCCATGCATAACCAACTCCCGAACCCAAACGATGA
586 GGGCATCGTGGGGGTGCTAATCCTTCCTTCCCCATGCATAACCAACTCCCGAACCCAAACGATGA
289318 ATCTTGAATTATGTAGACCACGAGATTAATGGTTCAAATTTCGTGACTCAAAACATAGGTTTCAA
651 ATCTTGAATTATGTAGACCACGAGATTAATGGTTCAAATTTCGTGACTCAAAACATAGGTTTCAA
289383 TAGGCATCCGATCATGCCTAGCCCGAAATGATCAGTGG
716 TAGGCATCCGATCATGCCTAGCCCGAAATGATCAGTGG
289421 CGACTCCAAG
Statistics
Matches: 753, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
758 753 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (758 bp):
GATACTCCAACCTTGCCTCTTTTTGAATTTCTTTTAAATTTCAAACTTCTCTCTAGGACATCCCT
AGATCATTAATCATAATCCTTTTTTCTAAAATCTTACAGAATCCTATCAAGTCTCAACATTGTTA
ACATGATTACGCATCAATAATCAAAGATAATCACGAGACACACTTCGATCGTCCCTCCTTCTTAT
GTATTTTTGTGCGTTTATTTTGCGTAAATTTGTTTGTTATTTTCTTATTCGCTTTACTAACATGT
TTCCTTTCATAGGGAACTTATGCATTTATGCTTCAAAAAATATTTTTAAAAATCACAAAATGATA
TTCCATGTCGGTATCTCTCAAGTGCTTAACATAAAATATTTGATTTTTCCAAACCCTATCCGAAA
ACCTTTTCTATGAAAAACTCCTATGTTCCTCACTTTTCTGAGGCGCATAGGCAATACAAGTTTTT
CATGCTAGACCCGAATTCACAGTTTCTATAAAACTCCATGCATTAGAGGGAATTATATTTAAATA
ATAATAAAGAATGGAACTGAGAAAACCAAGATCTAAGTGGGACATAGTTAGAAGATACCGATTTC
GGGCATCGTGGGGGTGCTAATCCTTCCTTCCCCATGCATAACCAACTCCCGAACCCAAACGATGA
ATCTTGAATTATGTAGACCACGAGATTAATGGTTCAAATTTCGTGACTCAAAACATAGGTTTCAA
TAGGCATCCGATCATGCCTAGCCCGAAATGATCAGTGGTTGGT
Found at i:293085 original size:9 final size:9
Alignment explanation
Indices: 293071--293095 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
293061 CCTAAACCAA
293071 AAAAAAAAC
1 AAAAAAAAC
293080 AAAAAAAAC
1 AAAAAAAAC
293089 AAAAAAA
1 AAAAAAA
293096 GAAAAAAAGA
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:294075 original size:33 final size:33
Alignment explanation
Indices: 294038--294104 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
294028 TTCAACGATT
294038 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
294071 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
294104 T
1 T
294105 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:294076 original size:13 final size:13
Alignment explanation
Indices: 294058--294082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
294048 CATAAAATGT
294058 TGTATCGATACAA
1 TGTATCGATACAA
294071 TGTATCGATACA
1 TGTATCGATACA
294083 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:294163 original size:13 final size:13
Alignment explanation
Indices: 294145--294169 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
294135 ATTACTCAAA
294145 TGTATCGATACAT
1 TGTATCGATACAT
294158 TGTATCGATACA
1 TGTATCGATACA
294170 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:294271 original size:52 final size:52
Alignment explanation
Indices: 294178--294305 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
294168 CACTGATCTT
*
294178 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
294229 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
294281 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
294306 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:296917 original size:22 final size:23
Alignment explanation
Indices: 296889--296944 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
296879 TGGACATGTT
296889 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
296911 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
296934 AAAAATGCATG
1 AAAAATGCATG
296945 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:297903 original size:20 final size:19
Alignment explanation
Indices: 297856--297930 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
297846 AAAAAGACAT
*
297856 AATGTATCGATACATTGTAG
1 AATGTATCGATACATT-TAA
*
297876 AATATATCGATACATTTATA
1 AATGTATCGATACATTTA-A
* * *
297896 CATGTATCGATATATTGAAA
1 AATGTATCGATACATT-TAA
*
297916 AATGCATCGATACAT
1 AATGTATCGATACAT
297931 CAGGGTATGA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 2 0.05
20 41 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (19 bp):
AATGTATCGATACATTTAA
Found at i:301699 original size:38 final size:38
Alignment explanation
Indices: 301580--301711 Score: 108
Period size: 38 Copynumber: 3.4 Consensus size: 38
301570 GACACAGTTC
* * *
301580 TTTTCCCTTGGTCCTCAAGGAGCAAGACGCACTTCATTTCCG
1 TTTTCCCTTTGTCCTCAAGGAGCAAGATGCA-TTC-TTT--T
* * *
301622 TTTT-CCTTTGTCCTCGAA-GAGTAAGGATGTA-TCTCTT
1 TTTTCCCTTTGTCCTC-AAGGAGCAA-GATGCATTCTTTT
*
301659 TTTTCCCTTTGTCCTCAAGGAGCATGATGCATTCTTTT
1 TTTTCCCTTTGTCCTCAAGGAGCAAGATGCATTCTTTT
* *
301697 TTTTTCCTTTTTCCT
1 TTTTCCCTTTGTCCT
301712 TGTCCCGGTC
Statistics
Matches: 73, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
37 11 0.15
38 33 0.45
39 2 0.03
40 2 0.03
41 15 0.21
42 10 0.14
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.43
Consensus pattern (38 bp):
TTTTCCCTTTGTCCTCAAGGAGCAAGATGCATTCTTTT
Found at i:301894 original size:38 final size:36
Alignment explanation
Indices: 301817--301924 Score: 119
Period size: 38 Copynumber: 2.8 Consensus size: 36
301807 CCATTTCAGT
*
301817 CATCTTATATTCCCTTTGTCCCTCAAAGAGCAGGACATA
1 CATCTT-T-TTCCCTTTGT-CCTCAAAGAGTAGGACATA
*
301856 CATCTTTTTCCCTTTTGTCCTTAAAGAGTAGGATCATA
1 CATCTTTTTCCC-TTTGTCCTCAAAGAGTAGGA-CATA
*
301894 C-TCCTTTTTTCCCTTTGTCCCCAAAGAGTAG
1 CAT-C-TTTTTCCCTTTGTCCTCAAAGAGTAG
301925 AACGCCACTC
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
37 19 0.31
38 28 0.46
39 14 0.23
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (36 bp):
CATCTTTTTCCCTTTGTCCTCAAAGAGTAGGACATA
Found at i:308013 original size:13 final size:15
Alignment explanation
Indices: 307983--308076 Score: 71
Period size: 14 Copynumber: 6.7 Consensus size: 15
307973 GGTATATTTA
307983 AATTATTATAATAAT
1 AATTATTATAATAAT
307998 AATT-TTATAA-AAT
1 AATTATTATAATAAT
308011 AATTATT-T-ATAAT
1 AATTATTATAATAAT
308024 -ATTA--ATAATTAAT
1 AATTATTATAA-TAAT
308037 AATTAATT-TAAT-AT
1 AATT-ATTATAATAAT
* *
308051 TATATATTATAATTAT
1 AAT-TATTATAATAAT
*
308067 AATTAGTATA
1 AATTATTATA
308077 TTAAATATTT
Statistics
Matches: 64, Mismatches: 3, Indels: 24
0.70 0.03 0.26
Matches are distributed among these distances:
11 1 0.02
12 6 0.09
13 15 0.23
14 18 0.28
15 17 0.27
16 7 0.11
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (15 bp):
AATTATTATAATAAT
Found at i:308013 original size:16 final size:17
Alignment explanation
Indices: 307985--308033 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
307975 TATATTTAAA
*
307985 TTATTATAATAATAATT
1 TTATAATAATAATAATT
*
308002 TTATAA-AATAATTA-T
1 TTATAATAATAATAATT
*
308017 TTATAATATTAATAATT
1 TTATAATAATAATAATT
308034 AATAATTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 7 0.27
16 13 0.50
17 6 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATAATAATAATAATT
Found at i:308121 original size:1 final size:1
Alignment explanation
Indices: 308115--308152 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
308105 TAATTATGAC
308115 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
308153 CGAATTATCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:313796 original size:13 final size:13
Alignment explanation
Indices: 313778--313802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
313768 ATAATCACCC
313778 TGTATCGATACAT
1 TGTATCGATACAT
313791 TGTATCGATACA
1 TGTATCGATACA
313803 AAGAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:315905 original size:15 final size:15
Alignment explanation
Indices: 315885--315915 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
315875 ATTTTGTTTG
*
315885 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
315900 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
315915 G
1 G
315916 GACATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:319984 original size:13 final size:13
Alignment explanation
Indices: 319966--319991 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
319956 CAATTTTTTG
319966 TGTATCGATACAT
1 TGTATCGATACAT
319979 TGTATCGATACAT
1 TGTATCGATACAT
319992 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:322413 original size:20 final size:21
Alignment explanation
Indices: 322369--322422 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
322359 TTTTACAATT
* *
322369 TGTATCGATATAAATAGTAAA
1 TGTATCGATACATATAGTAAA
*
322390 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATATAGTAAA
*
322410 TGTATTGATACAT
1 TGTATCGATACAT
322423 GCCTGAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:322536 original size:42 final size:42
Alignment explanation
Indices: 322466--322545 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
322456 TTCTAGAAAG
*
322466 AAATTGTATCAATACATAAGTGAATGTATCGATACATTGCTT
1 AAATTGTATCAATACATAAGTCAATGTATCGATACATTGCTT
* * * * *
322508 AAATTGTATCAATACGTTATTCATTGTATCGATCCATT
1 AAATTGTATCAATACATAAGTCAATGTATCGATACATT
322546 TTGGGTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (42 bp):
AAATTGTATCAATACATAAGTCAATGTATCGATACATTGCTT
Found at i:327045 original size:26 final size:26
Alignment explanation
Indices: 327016--327068 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
327006 AATATGAAGA
327016 TATTGCACTTTTGCTTTATGTTCAAG
1 TATTGCACTTTTGCTTTATGTTCAAG
327042 TATTGCACTTTTGCTTTATGTTCAAG
1 TATTGCACTTTTGCTTTATGTTCAAG
327068 T
1 T
327069 CAATGATCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (26 bp):
TATTGCACTTTTGCTTTATGTTCAAG
Found at i:330480 original size:20 final size:21
Alignment explanation
Indices: 330436--330489 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
330426 TTCTACAATT
*
330436 TGTATCGATACAAATAATAAA
1 TGTATCGATACATATAATAAA
*
330457 TGTATCGATACATA-AATGAA
1 TGTATCGATACATATAATAAA
330477 TGTATCGATACAT
1 TGTATCGATACAT
330490 GCTTAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATATAATAAA
Found at i:330557 original size:20 final size:20
Alignment explanation
Indices: 330529--330566 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
330519 TACTTACTGT
330529 TAAGGAAATGTATCGATACA
1 TAAGGAAATGTATCGATACA
*
330549 TAAGTAAATGTATCGATA
1 TAAGGAAATGTATCGATA
330567 AATGCTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (20 bp):
TAAGGAAATGTATCGATACA
Found at i:333091 original size:50 final size:51
Alignment explanation
Indices: 332982--333099 Score: 157
Period size: 50 Copynumber: 2.3 Consensus size: 51
332972 TGATTTCTGA
* * * * *
332982 GGGGATACTCTAACCCCTTTTTTATTTCAAAAATATTAAATTTTTCATCTC
1 GGGGATACTCCAACCTCGTTTTTACTTCAAAAATATTAAATTTTTAATCTC
* * *
333033 GGGAATACTCCAACCTCGTTTTTACTTCCAAAATA-TCAATTTTTAATCTC
1 GGGGATACTCCAACCTCGTTTTTACTTCAAAAATATTAAATTTTTAATCTC
333083 GGGGATACTCCAACCTC
1 GGGGATACTCCAACCTC
333100 ATCAATTCCA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
50 29 0.50
51 29 0.50
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGTTTTTACTTCAAAAATATTAAATTTTTAATCTC
Found at i:333182 original size:79 final size:79
Alignment explanation
Indices: 333037--333255 Score: 284
Period size: 79 Copynumber: 2.8 Consensus size: 79
333027 CATCTCGGGA
* * * * *
333037 ATACTCCAACCTCGTTTTTACTTCCAAAATA-TCAATTTTTAATCTCGGGGATACTCCAACCTCA
1 ATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTAATCTCGGGGATACTCCAACCCCA
333101 TCAATTCC-AAGGGG
66 TCAATTCCGAA-GGG
*
333115 ATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCCAACCCCA
1 ATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTAATCTCGGGGATACTCCAACCCCA
*
333180 TCACTTCCGAAGGG
66 TCAATTCCGAAGGG
** * *
333194 ATACTCCAA--CCATGTTTTCATTTCCAAAGCATTAAATTTTTTATCTCGGGGATACTCTAACC
1 ATACTCCAACCCCAT-TTTT-ATTTCCAAAATATTAAATTTTTAATCTCGGGGATACTCCAACC
333256 TCGATTTTCA
Statistics
Matches: 126, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
77 4 0.03
78 32 0.25
79 88 0.70
80 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (79 bp):
ATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTAATCTCGGGGATACTCCAACCCCA
TCAATTCCGAAGGG
Found at i:337781 original size:9 final size:10
Alignment explanation
Indices: 337765--337792 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
337755 ATGCCTAAAC
337765 CAAAAAAAAA
1 CAAAAAAAAA
337775 CAAAAAAAAA
1 CAAAAAAAAA
337785 CAAAAAAA
1 CAAAAAAA
337793 GAAAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:339078 original size:36 final size:36
Alignment explanation
Indices: 338960--339089 Score: 111
Period size: 36 Copynumber: 3.5 Consensus size: 36
338950 AGGACACAGT
* * *
338960 TTTTTTCCCTTTGTCTTCAAGGAGCAAGACGCACTTC
1 TTTTTTCCCTTTGTCCTCAAGGAGTAAGATGCA-TTC
* *
338997 ATTTCCTTTTTCCTTTGTCCTCGAA-GAGTAAGATGTA-TC
1 --TT--TTTTCCCTTTGTCCTC-AAGGAGTAAGATGCATTC
*
339036 TCTTTTTCCCTTTGTCCTCAAGGAGTAGGATGCATTC
1 T-TTTTTCCCTTTGTCCTCAAGGAGTAAGATGCATTC
* *
339073 TTTTTTTCCTTTTTCCT
1 TTTTTTCCCTTTGTCCT
339090 TTGTCTTCAA
Statistics
Matches: 75, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
35 2 0.03
36 39 0.52
37 4 0.05
38 1 0.01
39 4 0.05
41 23 0.31
42 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.15, T:0.45
Consensus pattern (36 bp):
TTTTTTCCCTTTGTCCTCAAGGAGTAAGATGCATTC
Found at i:339169 original size:120 final size:121
Alignment explanation
Indices: 338961--339180 Score: 284
Period size: 120 Copynumber: 1.8 Consensus size: 121
338951 GGACACAGTT
* * * *
338961 TTTTTCCCTTTGTCTTCAAGGAGCAAGACGCACTTCATTTCCTTTTTCCTTTGTCCTCGAAGAGT
1 TTTTTCCCTTTGTCTTCAAGGAGCAAGACCCACTTCATTTCCTTTTCCCTTTGTCCTCAAAGAAT
** *
339026 AAGATGTATCTCTTTTTCCCTTTGTCCTCAAGGAGTAGGATGCATTCTTTTTTTCC
66 AAGACATATCTCTTTTTCACTTTGTCCTCAAGGAGTAGGATGCATTCTTTTTTTCC
** * * *
339082 TTTTT-CCTTTGTCTTCAAGGAGCTGGACCCATTTCATTCTTCTTTTCCCTTTGTCCTTAAAGAA
1 TTTTTCCCTTTGTCTTCAAGGAGCAAGACCCACTTCATT-TCCTTTTCCCTTTGTCCTCAAAGAA
*
339146 TCAGACATA-CTCATTTTT-ACTTTGTCCTCAAGGAG
65 TAAGACATATCTC-TTTTTCACTTTGTCCTCAAGGAG
339181 CAAGACCCAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
120 48 0.57
121 36 0.43
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.43
Consensus pattern (121 bp):
TTTTTCCCTTTGTCTTCAAGGAGCAAGACCCACTTCATTTCCTTTTCCCTTTGTCCTCAAAGAAT
AAGACATATCTCTTTTTCACTTTGTCCTCAAGGAGTAGGATGCATTCTTTTTTTCC
Found at i:339209 original size:77 final size:76
Alignment explanation
Indices: 339081--339249 Score: 232
Period size: 77 Copynumber: 2.2 Consensus size: 76
339071 TCTTTTTTTC
* ** * * *
339081 CTTTTTCCTTTGTCTTCAAGGAGCTGGACCCATTTCATTCTTCTTTTCCCTTTGTCCTTAAAGAA
1 CTTTTTCCTTTGTCCTCAAGGAGCAAGACCCATTTCATTCTTATATTCCCTTTGTCCTCAAAG-A
*
339146 TCA-GACATACT
65 GCAGGACATACT
*
339157 CATTTTTACTTTGTCCTCAAGGAGCAAGACCCATTTCATTCTTATATTCCCTTTGTCCTCAAAGA
1 C-TTTTTCCTTTGTCCTCAAGGAGCAAGACCCATTTCATTCTTATATTCCCTTTGTCCTCAAAGA
*
339222 GCAGGACGTACT
65 GCAGGACATACT
339234 CTTTTTCCTTTGTCCT
1 CTTTTTCCTTTGTCCT
339250 TAAAGAGTAG
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
76 18 0.22
77 63 0.78
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (76 bp):
CTTTTTCCTTTGTCCTCAAGGAGCAAGACCCATTTCATTCTTATATTCCCTTTGTCCTCAAAGAG
CAGGACATACT
Found at i:339283 original size:37 final size:37
Alignment explanation
Indices: 339203--339312 Score: 145
Period size: 37 Copynumber: 3.1 Consensus size: 37
339193 CATTCTTATA
* *
339203 TTCCCTTTGTCCTCAAAGAGCAGGA--CGTACT-CTT
1 TTCCCTTTGTCCTCAAAGAGTAGGATGCCTACTCCTT
* *
339237 TTTCCTTTGTCCTTAAAGAGTAGGATGCCTACTCCTT
1 TTCCCTTTGTCCTCAAAGAGTAGGATGCCTACTCCTT
* *
339274 TTCCCTTTGTCCCCAAAGAGTAGGATGCCCACTCCTT
1 TTCCCTTTGTCCTCAAAGAGTAGGATGCCTACTCCTT
339311 TT
1 TT
339313 TCTTTCTCTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
34 22 0.34
36 5 0.08
37 38 0.58
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.35
Consensus pattern (37 bp):
TTCCCTTTGTCCTCAAAGAGTAGGATGCCTACTCCTT
Found at i:339479 original size:31 final size:31
Alignment explanation
Indices: 339441--339561 Score: 118
Period size: 31 Copynumber: 3.9 Consensus size: 31
339431 GCCTTAGAAT
* * *
339441 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
1 GTCAAAGCCCACACAAGCTAGTGGCACCCTA
* **
339472 GTCAAAGCCCGCACAAGCTAGCAGCA-CCTGA
1 GTCAAAGCCCACACAAGCTAGTGGCACCCT-A
* * ** * *
339503 GTCTAAGCTCGTACAAGTTGGTGGCACCCTA
1 GTCAAAGCCCACACAAGCTAGTGGCACCCTA
339534 GTCAAAGCCCACACAAGCTAGTGGCACC
1 GTCAAAGCCCACACAAGCTAGTGGCACC
339562 TAAGTTCAAG
Statistics
Matches: 69, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
30 3 0.04
31 63 0.91
32 3 0.04
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (31 bp):
GTCAAAGCCCACACAAGCTAGTGGCACCCTA
Found at i:339643 original size:180 final size:180
Alignment explanation
Indices: 339341--339810 Score: 682
Period size: 180 Copynumber: 2.6 Consensus size: 180
339331 CTACACGAGC
* * * * *
339341 TGGTGGCACCCAAGTTAAAGCCCACACAAGTTGGTGGCATCTATGTTCAAGTCAAGTCCAAATTA
1 TGGTGGCACCCTAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTTCAAGTCAAGTCCAAATTA
*
339406 GTTGGCACCTATCTAAGGAGGCCAAGCCTTAGAATGTCAAAGCCCACACGAGTTGGTGGCACCCT
66 GTTGGCACCTATCTAAGGAGGTCAAGCCTTAGAATGTCAAAGCCCACACGAGTTGGTGGCACCCT
* *
339471 AGTCAAAGCCCGCACAAGCTAGCAGCACCTGAGTCTAAGCTCGTACAAGT
131 AGTCAAAGCCCGCACAAGCTAGCAGCACCCGAGTCTAAGCTCGCACAAGT
* * *
339521 TGGTGGCACCCTAGTCAAAGCCCACACAAGCTAGTGGCACCTAAGTTCAAGTCGAGTCTAAATTA
1 TGGTGGCACCCTAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTTCAAGTCAAGTCCAAATTA
* *
339586 GTTGGCACCTATCTAAGGAGGTCAAGCCTTAGAATGTCAAAGCCCACATGAGTTGGTGGTACCCT
66 GTTGGCACCTATCTAAGGAGGTCAAGCCTTAGAATGTCAAAGCCCACACGAGTTGGTGGCACCCT
* * **
339651 AGTCAAAGCTCGCACAAGCTGGCAGCACCCGAGTCTAAGCTCGCATGAGT
131 AGTCAAAGCCCGCACAAGCTAGCAGCACCCGAGTCTAAGCTCGCACAAGT
* * * *
339701 TGGCT-GCA-CTTGAGTC--ATCCCACACACGCTGGTGGCACCTAAGTTCGAGTCAAGTCCAAAT
1 TGG-TGGCACCCT-AGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTTCAAGTCAAGTCCAAAT
*
339762 T--TTGGCACCTATCTAAGGAGGTCAAGCTTTAGAATGTCAAAGCCCACAC
64 TAGTTGGCACCTATCTAAGGAGGTCAAGCCTTAGAATGTCAAAGCCCACAC
339811 AAGCTGATGA
Statistics
Matches: 262, Mismatches: 26, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
176 46 0.18
178 40 0.15
179 2 0.01
180 173 0.66
181 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (180 bp):
TGGTGGCACCCTAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTTCAAGTCAAGTCCAAATTA
GTTGGCACCTATCTAAGGAGGTCAAGCCTTAGAATGTCAAAGCCCACACGAGTTGGTGGCACCCT
AGTCAAAGCCCGCACAAGCTAGCAGCACCCGAGTCTAAGCTCGCACAAGT
Found at i:340515 original size:22 final size:21
Alignment explanation
Indices: 340463--340534 Score: 94
Period size: 20 Copynumber: 3.5 Consensus size: 21
340453 TTTTGGAAAG
* *
340463 AAATTGTATCGATACATAAGT
1 AAATTGTATCGATACATTATT
*
340484 GAA-TGTATCGATACATTACTT
1 AAATTGTATCGATACATTA-TT
340505 AAATTGTATCGATACATTATT
1 AAATTGTATCGATACATTATT
340526 -AATTGTATC
1 AAATTGTATC
340535 AATATATTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
20 23 0.51
21 7 0.16
22 15 0.33
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (21 bp):
AAATTGTATCGATACATTATT
Found at i:342715 original size:2 final size:2
Alignment explanation
Indices: 342703--342732 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
342693 GTTTCTTAGA
342703 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
342733 ATGCCTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:346570 original size:31 final size:31
Alignment explanation
Indices: 346526--346606 Score: 78
Period size: 31 Copynumber: 2.6 Consensus size: 31
346516 CTATAATTTT
*
346526 AATTAACTCAAATTATTATTTAAATAATAAAA
1 AATT-ACTTAAATTATTATTTAAATAATAAAA
* * *
346558 AATTACTTAAATT-TAATTATAAATATTAATA
1 AATTACTTAAATTATTATT-TAAATAATAAAA
*
346589 AATTA-TT-TATTATTATTT
1 AATTACTTAAATTATTATTT
346607 TTAATAGTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
29 4 0.10
30 10 0.24
31 23 0.56
32 4 0.10
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (31 bp):
AATTACTTAAATTATTATTTAAATAATAAAA
Found at i:349188 original size:28 final size:27
Alignment explanation
Indices: 349157--349390 Score: 87
Period size: 28 Copynumber: 8.5 Consensus size: 27
349147 TCACAAATAA
349157 AATTTCTAATTAAACCCTTTACATGTAG
1 AATTTCTAATTAAA-CCTTTACATGTAG
* * *
349185 AATTTTTAATTATA-CTTT-CATGTGTGG
1 AATTTCTAATTAAACCTTTACA--TGTAG
* * *
349212 AATTTCTAATGAAACATTTCACATTTAG
1 AATTTCTAATTAAACCTTT-ACATGTAG
* * * * *
349240 AATTTTTAATTAGACATCTTCCTTGTAG
1 AATTTCTAATTAAACCT-TTACATGTAG
* * ** ** *
349268 AATTTTTTATTAAAATTTTTAGTTATAG
1 AATTTCTAATT-AAACCTTTACATGTAG
* * * *
349296 AATTTTTAATTAAACATTTTACCTATAG
1 AATTTCTAATTAAAC-CTTTACATGTAG
* * ** * *
349324 GATTTTTAATTAAATTTTTACATATAA
1 AATTTCTAATTAAACCTTTACATGTAG
* * *
349351 AATTTTTAATTAAA-ATTTTCATGTAG
1 AATTTCTAATTAAACCTTTACATGTAG
* *
349377 AATTTTTAGTTAAA
1 AATTTCTAATTAAA
349391 ATGCTTTAAA
Statistics
Matches: 162, Mismatches: 36, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
25 2 0.01
26 25 0.15
27 41 0.25
28 87 0.54
29 5 0.03
30 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.48
Consensus pattern (27 bp):
AATTTCTAATTAAACCTTTACATGTAG
Found at i:349329 original size:27 final size:27
Alignment explanation
Indices: 349268--349418 Score: 142
Period size: 28 Copynumber: 5.5 Consensus size: 27
349258 TTCCTTGTAG
* ** *
349268 AATTTTTTATTAAAATTTTTAGTTATAG
1 AATTTTTAATTAAAA-TTTTACATATAA
* *
349296 AATTTTTAATTAAACATTTTACCTATAG
1 AATTTTTAATTAAA-ATTTTACATATAA
* *
349324 GATTTTTAATTAAATTTTTACATATAA
1 AATTTTTAATTAAAATTTTACATATAA
* *
349351 AATTTTTAATTAAAATTTT-CATGTAG
1 AATTTTTAATTAAAATTTTACATATAA
* *
349377 AATTTTTAGTTAAAATGCTTTAAATATAA
1 AATTTTTAATTAAAAT--TTTACATATAA
*
349406 ATTTTTTAATTAA
1 AATTTTTAATTAA
349419 TCTTTAACAC
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
26 20 0.20
27 27 0.26
28 39 0.38
29 16 0.16
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (27 bp):
AATTTTTAATTAAAATTTTACATATAA
Found at i:349355 original size:55 final size:55
Alignment explanation
Indices: 349240--349418 Score: 200
Period size: 55 Copynumber: 3.2 Consensus size: 55
349230 TCACATTTAG
* * * ** *
349240 AATTTTTAATTAGACATCTTCCTTGTAGAATTTTTTATTAAAATTTTTAGTTATAG
1 AATTTTTAATTAAACATTTTCC-TGTAGAATTTTTAATTAAAATTTTTAAATATAA
* * *
349296 AATTTTTAATTAAACATTTTACCTATAGGATTTTTAATT-AAATTTTTACATATAA
1 AATTTTTAATTAAACATTTT-CCTGTAGAATTTTTAATTAAAATTTTTAAATATAA
* * *
349351 AATTTTTAATTAAA-ATTTTCATGTAGAATTTTTAGTTAAAATGCTTTAAATATAA
1 AATTTTTAATTAAACATTTTCCTGTAGAATTTTTAATTAAAAT-TTTTAAATATAA
*
349406 ATTTTTTAATTAA
1 AATTTTTAATTAA
349419 TCTTTAACAC
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
53 14 0.13
54 9 0.09
55 49 0.47
56 31 0.30
57 2 0.02
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (55 bp):
AATTTTTAATTAAACATTTTCCTGTAGAATTTTTAATTAAAATTTTTAAATATAA
Found at i:351813 original size:142 final size:142
Alignment explanation
Indices: 351642--352052 Score: 562
Period size: 141 Copynumber: 2.9 Consensus size: 142
351632 TATAAATTTC
*
351642 GAAAATCTCATTTCGTATCTTAATAGAGAACTGAAAAGATACGAAAAGTTTTGAAAGATTTCTAT
1 GAAAAT-TCATTTCGTATCTTAATGGAGAACTGAAAAGATACGAAAAGTTTTG-AAGATTTCTAT
*
351707 ACCCCTAAGGAAAAA-CGTAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTA
64 ACCCCTAA-GAAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTA
351771 ATTTCTAATTTCCAA
128 ATTTCTAATTTCCAA
* * *
351786 -AAAATTCATTTCATACCTTAATGGAGAA-TCGAAAAGATATGAAAAGTTTTGAAGATTTCTATA
1 GAAAATTCATTTCGTATCTTAATGGAGAACT-GAAAAGATACGAAAAGTTTTGAAGATTTCTATA
* * ** *
351849 CCCCTACA-AAAAACCATAGGAATATTAAAAATCTTTAAAAAAAAAGATAATAATTTTTATTTGA
65 CCCCTA-AGAAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAA
* **
351913 TTTTTAATTTTTAA
129 TTTCTAATTTCCAA
* *
351927 GAAAATTCATTTCGTATCTTAATGGAG-ACAGAAAATATACGAAAAGTTTTGAAGATTTCTATAC
1 GAAAATTCATTTCGTATCTTAATGGAGAACTGAAAAGATACGAAAAGTTTTGAAGATTTCTATAC
* * * * *
351991 TCCTATGAAAAACCATAAGAATATTAGAAGTCTTGAAAAATTAAGATGATAATTTTTATTTA
66 CCCTAAGAAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTA
352053 GTGATAAATA
Statistics
Matches: 233, Mismatches: 28, Indels: 15
0.84 0.10 0.05
Matches are distributed among these distances:
140 5 0.02
141 158 0.68
142 65 0.28
143 5 0.02
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (142 bp):
GAAAATTCATTTCGTATCTTAATGGAGAACTGAAAAGATACGAAAAGTTTTGAAGATTTCTATAC
CCCTAAGAAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATT
TCTAATTTCCAA
Found at i:353662 original size:40 final size:40
Alignment explanation
Indices: 353602--353766 Score: 132
Period size: 40 Copynumber: 3.9 Consensus size: 40
353592 TTTTACCTAG
* * *
353602 ATGTACCGGTACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACATGTATGA
* **
353642 ATGTATCGATACATTCTTCAATATGTCGATACATTCTGTCTTTTTACCCA
1 ATGTATCGATACATTCTTCAATATATCGATACA---TG------TA-TGA
* * *
353692 TATGTATCGATACATTTTTCAATGTATCGATATATGTATGA
1 -ATGTATCGATACATTCTTCAATATATCGATACATGTATGA
* *
353733 ATGTATCGATACATTCTTCAATGTATCGGTACAT
1 ATGTATCGATACATTCTTCAATATATCGATACAT
353767 TTTATCTTTT
Statistics
Matches: 99, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
40 60 0.61
41 1 0.01
42 2 0.02
43 2 0.02
48 2 0.02
49 2 0.02
50 1 0.01
51 29 0.29
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (40 bp):
ATGTATCGATACATTCTTCAATATATCGATACATGTATGA
Found at i:353670 original size:20 final size:20
Alignment explanation
Indices: 353611--353678 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
353601 GATGTACCGG
*
353611 TACATTTTTCAATATATCGA
1 TACATTCTTCAATATATCGA
* * *
353631 TACATGT-ATGAATGTATCGA
1 TACAT-TCTTCAATATATCGA
*
353651 TACATTCTTCAATATGTCGA
1 TACATTCTTCAATATATCGA
353671 TACATTCT
1 TACATTCT
353679 GTCTTTTTAC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 1 0.03
20 37 0.95
21 1 0.03
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.41
Consensus pattern (20 bp):
TACATTCTTCAATATATCGA
Found at i:353718 original size:20 final size:20
Alignment explanation
Indices: 353693--353769 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 20
353683 TTTTACCCAT
353693 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
353713 ATGTATCGATATATGTATGA
1 ATGTATCGATACATTTTTCA
*
353733 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
353753 ATGTATCGGTACATTTT
1 ATGTATCGATACATTTT
353770 ATCTTTTTAC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:353746 original size:91 final size:91
Alignment explanation
Indices: 353591--353798 Score: 292
Period size: 91 Copynumber: 2.3 Consensus size: 91
353581 AAAAGTCACA
* * *
353591 TTTTTACCTAGATGTACCGGTACATTTTTCAATATATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCTATATGTATCGATACATTTTTCAATATATCGATACATGTATGAATGTATCGATACAT
* *
353656 TCTTCAATATGTCGATACATTCTGTC
66 TCTTCAATATATCGATACATTCTATC
* * *
353682 TTTTTACCCATATGTATCGATACATTTTTCAATGTATCGATATATGTATGAATGTATCGATACAT
1 TTTTTACCTATATGTATCGATACATTTTTCAATATATCGATACATGTATGAATGTATCGATACAT
* * *
353747 TCTTCAATGTATCGGTACATTTTATC
66 TCTTCAATATATCGATACATTCTATC
*
353773 TTTTTACCTAGT-TATATCGATACATT
1 TTTTTACCTA-TATGTATCGATACATT
353799 GAATAATGCA
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
91 102 0.99
92 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.43
Consensus pattern (91 bp):
TTTTTACCTATATGTATCGATACATTTTTCAATATATCGATACATGTATGAATGTATCGATACAT
TCTTCAATATATCGATACATTCTATC
Found at i:365526 original size:19 final size:18
Alignment explanation
Indices: 365501--365563 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
365491 ATTTCAACGA
365501 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
365519 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
365535 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
365551 TTTTGTATCGATA
1 -TTTGTATCGATA
365564 TAATGTATCG
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:365539 original size:32 final size:32
Alignment explanation
Indices: 365503--365573 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
365493 TTCAACGATT
365503 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
365535 TGTATCGATACATAAGTTTTGTATCGATATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
365567 TGTATCG
1 TGTATCG
365574 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:365540 original size:13 final size:13
Alignment explanation
Indices: 365522--365546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
365512 ACATAAGTGT
365522 TGTATCGATACAA
1 TGTATCGATACAA
365535 TGTATCGATACA
1 TGTATCGATACA
365547 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:365694 original size:52 final size:52
Alignment explanation
Indices: 365651--365776 Score: 225
Period size: 52 Copynumber: 2.4 Consensus size: 52
365641 CACTGATCTT
365651 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATGAAA
* * *
365703 TGTATCGATACATACAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATGAAA
365755 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATGCAGGCAAA
365777 ATTTCATATT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATGAAA
Found at i:371238 original size:1 final size:1
Alignment explanation
Indices: 371232--371339 Score: 72
Period size: 1 Copynumber: 108.0 Consensus size: 1
371222 ATTCGTACCG
* * * * ** * * *
371232 AAAAAAACAAAAAAAAAACAAAAACAAAAAAAACAAAAAACCAAGAAAAAAACAAAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * * * * *
371297 AAAAACCAAAAGAAAAAAAAACAAAAAACAAACAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
371340 TGGGTCCAGA
Statistics
Matches: 79, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:371262 original size:15 final size:14
Alignment explanation
Indices: 371232--371339 Score: 94
Period size: 15 Copynumber: 7.3 Consensus size: 14
371222 ATTCGTACCG
*
371232 AAAAAAACAAA-AA
1 AAAAAAAAAAACAA
*
371245 AAAAACAAAAACAAA
1 AAAAAAAAAAAC-AA
371260 AAAAACAAAAAACCAA
1 AAAAA-AAAAAA-CAA
371276 GAAAAAAACAAAA-AA
1 -AAAAAAA-AAAACAA
*
371291 AAACAAAAAAACCAA
1 AAA-AAAAAAAACAA
371306 AAGAAAAAAAAACAA
1 AA-AAAAAAAAACAA
*
371321 AAAACAAACAAACAA
1 AAAA-AAAAAAACAA
371336 AAAA
1 AAAA
371340 TGGGTCCAGA
Statistics
Matches: 79, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
13 9 0.11
14 8 0.10
15 42 0.53
16 10 0.13
17 10 0.13
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAACAA
Found at i:371282 original size:45 final size:44
Alignment explanation
Indices: 371231--371339 Score: 141
Period size: 45 Copynumber: 2.4 Consensus size: 44
371221 CATTCGTACC
*
371231 GAAAAAAACAAAAAAAAAACAAAAA-CAAAAAAAACAAAAAACCAA
1 GAAAAAAACAAAAAAAAAAAAAAAACCAAAAAAAA-AAAAAA-CAA
*
371276 GAAAAAAACAAAAAAAAACAAAAAAACCAAAAGAAAAAAAAACAA
1 GAAAAAAACAAAAAAAAA-AAAAAAACCAAAAAAAAAAAAAACAA
*
371321 -AAAACAAACAAACAAAAAA
1 GAAAA-AAACAAAAAAAAAA
371340 TGGGTCCAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
44 5 0.09
45 33 0.57
46 12 0.21
47 8 0.14
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (44 bp):
GAAAAAAACAAAAAAAAAAAAAAAACCAAAAAAAAAAAAAACAA
Found at i:372552 original size:20 final size:20
Alignment explanation
Indices: 372527--372694 Score: 120
Period size: 20 Copynumber: 7.8 Consensus size: 20
372517 TTTTACCCAG
372527 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
372547 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
372567 ATGTATCGATACGTTCTTCA
1 ATGTATCGATACATTTTTCA
*
372587 ATGTGTCGATACATTCCATCTTTCTACCCAA
1 ATGTATCGAT--A---CAT-TTT-T---C-A
*
372618 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
372638 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
372658 ATGTATGGATAAATTCTTCA
1 ATGTATCGATACATTTTTCA
372678 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
372695 ATTTTTTTAC
Statistics
Matches: 111, Mismatches: 26, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
20 86 0.77
21 1 0.01
22 1 0.01
24 1 0.01
25 5 0.05
26 5 0.05
27 1 0.01
29 1 0.01
30 1 0.01
31 9 0.08
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:372675 original size:91 final size:91
Alignment explanation
Indices: 372515--372722 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 91
372505 GAAAAAGTTA
**
372515 CTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACG
1 CTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATAAA
*
372580 TTCTTCAATGTGTCGATACATTCCAT
66 TTCTTCAATGTATCGATACATTCCAT
* * * *
372606 CTTTCTACCCAAATGTATTGATACATTTTTCAATGTATCGATACATGTATGAATGTATGGATAAA
1 CTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATAAA
**
372671 TTCTTCAATGTATCGATACATTTTAT
66 TTCTTCAATGTATCGATACATTCCAT
*
372697 TTTTTTACCCAGATGTATCGATACAT
1 CTTTTTACCCAGATGTATCGATACAT
372723 CTAGTTAAAA
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
91 104 1.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (91 bp):
CTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATAAA
TTCTTCAATGTATCGATACATTCCAT
Found at i:375032 original size:69 final size:70
Alignment explanation
Indices: 374881--375102 Score: 401
Period size: 70 Copynumber: 3.2 Consensus size: 70
374871 TTTATCAGAG
* *
374881 ATACTCCAACCCCGCTTTTAAACCTATCAAAGTTTAATTCTTCTTCTTACTTAAATTGTCATTAT
1 ATACTCCAACCCCGCTTTTAAACCCATCAAAGTTTAATTCTTCTTCTTGCTTAAATTGTCATTAT
374946 CGGGA
66 CGGGA
*
374951 ATACTCCTACCCCGCTTTTAAACCCATCAAAGTTTAATTCTT-TTCTTGCTTAAATTGTCATTAT
1 ATACTCCAACCCCGCTTTTAAACCCATCAAAGTTTAATTCTTCTTCTTGCTTAAATTGTCATTAT
375015 CGGGA
66 CGGGA
*
375020 ATACTCCAACCCCACTTTTAAACCCATCAAAGTTTAATTCTTCTTCTTGCTTAAATTGTCATTAT
1 ATACTCCAACCCCGCTTTTAAACCCATCAAAGTTTAATTCTTCTTCTTGCTTAAATTGTCATTAT
375085 CGGGA
66 CGGGA
375090 ATACTCCAACCCC
1 ATACTCCAACCCC
375103 ATTCCTCCGA
Statistics
Matches: 146, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
69 66 0.45
70 80 0.55
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.37
Consensus pattern (70 bp):
ATACTCCAACCCCGCTTTTAAACCCATCAAAGTTTAATTCTTCTTCTTGCTTAAATTGTCATTAT
CGGGA
Found at i:376175 original size:51 final size:52
Alignment explanation
Indices: 376118--376235 Score: 166
Period size: 52 Copynumber: 2.3 Consensus size: 52
376108 CTGGAAAGAA
* *
376118 AATGTATCGATACATTTT-GGTTTTTAACCCAAATGTATCGATACATTATTT
1 AATGTATCGATACATTTTGGGCTTTTAACCCAAATGTATCGATACATTATTC
* ** * *
376169 ATTGTATTAATACATTTTGGGCTTTTGACCCAAATGTATCGATACATTCTTC
1 AATGTATCGATACATTTTGGGCTTTTAACCCAAATGTATCGATACATTATTC
376221 AATGTATCGATACAT
1 AATGTATCGATACAT
376236 GTAGGCAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 15 0.27
52 41 0.73
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (52 bp):
AATGTATCGATACATTTTGGGCTTTTAACCCAAATGTATCGATACATTATTC
Found at i:378860 original size:79 final size:78
Alignment explanation
Indices: 378759--378962 Score: 234
Period size: 79 Copynumber: 2.6 Consensus size: 78
378749 GATAATAATG
* * * *
378759 GGGTTGGAGTAT-CCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTAAAAAATCGATGA-T
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATAAAAAATCAAT-ATT
378822 TAGGAAATAAAATC-
65 TA-GAAATAAAATCA
* * * *
378836 GGGATTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATT
1 GGG-TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATAAAAAATCAATA-T
*
378901 TTAGAAATAAAGTCA
64 TTAGAAATAAAATCA
* ** *
378916 GGGTTGGAGTATCCCCTCGGAGGTAATGGGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
378963 GAAATAACGA
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
77 3 0.03
78 10 0.09
79 88 0.82
80 6 0.06
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATAAAAAATCAATATTT
AGAAATAAAATCA
Found at i:379039 original size:52 final size:51
Alignment explanation
Indices: 378973--379369 Score: 280
Period size: 52 Copynumber: 7.6 Consensus size: 51
378963 GAAATAACGA
*
378973 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCTCGATTATGAAAAATTGGTG-TTTTGGAAATAAAATCGG
* * * * *
379025 AGTTGGAGCATCCTCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCTCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAATCGG
* * * * *
379077 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAATCCGG
1 GGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGGAAATAAAAT-CGG
* * *** * **
379129 GGTTAGAGTATACC-CGATTATGAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTAT-CCTCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGG
* **** * * ** * *
379180 GGTTGGAGTATCCCCTCGGAGGTA--ACGGGGTTGGAGTATCT-CCAATGAAATAACGA
1 GGTTGGAGTAT--CCTC-GA-TTATGA-AAAATTGGTGT-TTTGGAAAT-AAA-ATCGG
*
379236 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCTCGATTATGAAAAATTGGTG-TTTTGGAAATAAAATCGG
* * * * * *
379288 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCTCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAATCGG
* * *
379340 GGTTGGAATATCCACGATTATGAACAATTG
1 GGTTGGAGTATCCTCGATTATGAAAAATTG
379370 AGAAACTTAA
Statistics
Matches: 263, Mismatches: 66, Indels: 33
0.73 0.18 0.09
Matches are distributed among these distances:
51 45 0.17
52 143 0.54
53 38 0.14
54 17 0.06
55 7 0.03
56 13 0.05
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGG
Found at i:379195 original size:263 final size:263
Alignment explanation
Indices: 378863--379358 Score: 866
Period size: 263 Copynumber: 1.9 Consensus size: 263
378853 TCAAAAATAA
* * *
378863 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGTCAGGGTTGGAGTAT
1 CGGGGTTAGAGTATACCCAATTATGAGAAATCAATATTTTAGAAATAAAGCCAGGGTTGGAGTAT
* *
378928 CCCCTCGGAGGTAATGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCTCGATTG
*
378993 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGCATCCTCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGCATCCCCGATTAAAGGAAAATTGGT
* * *
379058 GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAA
196 GTTTTGAAAATAAAACCGGGGTTGGAATATCCACGATTGTGGAAAATTAGTGTTTTAGAAATAAA
379123 ATC
261 ATC
* * *
379126 CGGGGTTAGAGTATACCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTAGAGTATACCCAATTATGAGAAATCAATATTTTAGAAATAAAGCCAGGGTTGGAGTAT
*
379191 CCCCTCGGAGGTAACGGGGTTGGAGTATCTCCAATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCTCGATTG
*
379256 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGCATCCCCGATTAAAGGAAAATTGGT
379321 GTTTTGAAAATAAAACCGGGGTTGGAATATCCACGATT
196 GTTTTGAAAATAAAACCGGGGTTGGAATATCCACGATT
379359 ATGAACAATT
Statistics
Matches: 219, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
263 219 1.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (263 bp):
CGGGGTTAGAGTATACCCAATTATGAGAAATCAATATTTTAGAAATAAAGCCAGGGTTGGAGTAT
CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCTCGATTG
TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGCATCCCCGATTAAAGGAAAATTGGT
GTTTTGAAAATAAAACCGGGGTTGGAATATCCACGATTGTGGAAAATTAGTGTTTTAGAAATAAA
ATC
Found at i:381741 original size:21 final size:21
Alignment explanation
Indices: 381692--381741 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
381682 ATCTGGGTAA
381692 ACTTCC-TAGATGTATCGATAC
1 ACTTCCTTA-ATGTATCGATAC
381713 ACTTCCTTAATGTATCGATAC
1 ACTTCCTTAATGTATCGATAC
*
381734 ATTTCCTT
1 ACTTCCTT
381742 GGCAGTAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (21 bp):
ACTTCCTTAATGTATCGATAC
Found at i:382921 original size:55 final size:55
Alignment explanation
Indices: 382654--383283 Score: 478
Period size: 55 Copynumber: 11.0 Consensus size: 55
382644 AAAATAGAGT
* * **
382654 GCATCTTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT----A--AAAG
* * ** ** * *
382715 GCGTCCTGCTCTTTGAGGACTGAAAGGTTTCATCAACTCGTGTGGGCTTTGCAAAGAG
1 GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT--AAA-AG
* *
382773 AAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGCGGGCTTTGAAAA-
1 ---GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT-AAAAG
* * * * * * *
382831 ACATCCTACTCTTTAAGG-C-AGAAAATGCCACCAACTTGCGTAGGCTTTAAGAG
1 GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
382884 GCATCCTGCTTTTTGAGGACTAAAAAATGCCACCAACTCGTGTGGGCTTTGAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* * *** *
382939 GCGTCCTGCTATTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* * ** * *
382994 GCATCCTACTCTTTGAGGACTGAAAGGTGCCCCCAACTTGTGTGGGCTTCGAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTT-TAAAAG
* * * * *
383050 CGC--CCTACTCTTTGAGGACTGAAAAATTCCACCACCTTGTATGGGCTTTGAAAGGAAAAG
1 -GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT------AAAAG
** * * *
383110 GTGTCCCGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAA
1 GCATCCTGCTCTTTGAGGACTA-AAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* **
383166 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT------AAAAG
* * * * *
383227 GCGTCCCGCTCTTTGAGGACTAGAAAAGTACCACCAACTTGTGTGGGATTTAAAAG
1 GCATCCTGCTCTTTGAGGACTA-AAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
383283 G
1 G
383284 AAAAGGCATC
Statistics
Matches: 462, Mismatches: 82, Indels: 55
0.77 0.14 0.09
Matches are distributed among these distances:
52 3 0.01
53 40 0.09
54 2 0.00
55 197 0.43
56 34 0.07
57 4 0.01
58 2 0.00
59 3 0.01
60 8 0.02
61 121 0.26
62 48 0.10
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (55 bp):
GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:383179 original size:117 final size:116
Alignment explanation
Indices: 382654--383281 Score: 644
Period size: 117 Copynumber: 5.5 Consensus size: 116
382644 AAAATAGAGT
* **
382654 GCATCTTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGCG
1 GCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT---AA--AAA-GCG
** ** * *
382718 TCCTGCTCTTTGAGGACTGAAAGGTTTCATCAACTCGTGTGGGCTTTGCAAAGAGAAA-
60 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGA-AAAG
* * *
382776 GCATCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGCGGGCTTTGAAAAA-CATCCTA
1 GCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAAGCGTCCTG
* * * *
382839 CTCTTTAAGG-CAG-AAAATGCCACCAACTTGCGTAGGCTTT--AAG---AG
65 CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAG
* * * * *
382884 GCATCCTGCTTTTTGAGGACTA-AAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGC
1 GCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGC
* ** *
382948 TATTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAG
66 TCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAG
* * * ** * *
382994 GCATCCTACTCTTTGAGGACT-GAAAGGTGCCCCCAACTTGTGTGGGCTTCGAAAAGCGCCCTAC
1 GCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGC
* * *
383058 TCTTTGAGGACTGAAAAATTCCACCACCTTGTATGGGCTTTGAAAGGAAAAG
66 TCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAG
** *
383110 GTGTCCCGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGC
1 GCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGC
*
383175 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
66 TCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAG
* * * *
383227 GCGTCCCGCTCTTTGAGGACTAGAAAAGTACCACCAACTTGTGTGGGATTTAAAA
1 GCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
383282 GGAAAAGGCA
Statistics
Matches: 424, Mismatches: 65, Indels: 39
0.80 0.12 0.07
Matches are distributed among these distances:
107 8 0.02
108 55 0.13
109 2 0.00
110 112 0.26
111 3 0.01
114 19 0.04
115 2 0.00
116 36 0.08
117 137 0.32
118 3 0.01
120 2 0.00
122 41 0.10
123 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (116 bp):
GCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGC
TCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAG
Found at i:383396 original size:217 final size:217
Alignment explanation
Indices: 383112--383731 Score: 990
Period size: 217 Copynumber: 2.9 Consensus size: 217
383102 AGGAAAAGGT
* *
383112 GTCCCGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTC
1 GTCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTC
383177 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCCGCTCTTTG
65 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCCGCTCTTTG
*
383242 AGGACTAGAAAAGTACCACCAACTTGTGTGGGATTTAAAAGGAAAAGGCATCCTGCTCTTTGACG
130 AGGACTAGAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGACG
383307 ACAAAAAGGCGAAAGGAGAGAGC
195 ACAAAAAGGCGAAAGGAGAGAGC
383330 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCT
* *
383395 TTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCGTCCCACTCTTTGA
66 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCCGCTCTTTGA
* *
383460 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGA
131 GGACTAGAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGACGA
383525 CAAAAAGGCGAAAGGAGAGAGC
196 CAAAAAGGCGAAAGGAGAGAGC
* * *
383547 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCT
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCT
* * *
383612 TTGACGACT-GAAAGGTGCCCCCAACTTGTGTGGGCTTT-----GAAAA-GCG-CCCTGCTCTTT
66 TTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCC-GCTCTTT
* * *
383669 GAGGACTGGAAAA-TTCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCAT-CTCGCTCTTTGA
129 GAGGACTAGAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT-GCTCTTTGA
383732 GGACTAGAAA
Statistics
Matches: 381, Mismatches: 18, Indels: 14
0.92 0.04 0.03
Matches are distributed among these distances:
209 2 0.01
210 48 0.13
211 21 0.06
212 5 0.01
216 4 0.01
217 281 0.74
218 20 0.05
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (217 bp):
GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCT
TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCCGCTCTTTGA
GGACTAGAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGACGA
CAAAAAGGCGAAAGGAGAGAGC
Found at i:383414 original size:55 final size:55
Alignment explanation
Indices: 383327--383498 Score: 220
Period size: 55 Copynumber: 3.0 Consensus size: 55
383317 GAAAGGAGAG
*
383327 AGCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AGCGTCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAA
*
383382 AGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGAAA
1 AGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT---A--AAA
** *
383442 AGGCGTCCCACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 A-GCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAA
383499 GGAAAAGGCA
Statistics
Matches: 103, Mismatches: 6, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
54 2 0.02
55 46 0.45
57 3 0.03
58 1 0.01
59 1 0.01
60 4 0.04
61 24 0.23
62 22 0.21
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (55 bp):
AGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAA
Found at i:383500 original size:62 final size:61
Alignment explanation
Indices: 383328--383525 Score: 275
Period size: 62 Copynumber: 3.3 Consensus size: 61
383318 AAAGGAGAGA
*
383328 GCGTCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTT--A--AAAA-
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAG
* *
383383 GCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTATGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAG
**
383444 GCGTCCCACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAG
*
383506 GCATCCTGCTCTTTGAGGAC
1 GCGTCCTGCTCTTTGAGGAC
383526 AAAAAGGCGA
Statistics
Matches: 124, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
55 44 0.35
56 2 0.02
58 1 0.01
60 4 0.03
61 24 0.19
62 49 0.40
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (61 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAG
Found at i:383657 original size:272 final size:272
Alignment explanation
Indices: 383327--384014 Score: 1090
Period size: 272 Copynumber: 2.5 Consensus size: 272
383317 GAAAGGAGAG
* *
383327 AGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGC
1 AGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCGTCCTGC
* * * *
383392 TCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCGTCCCACTCTT
66 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCTCGCTCTT
383457 TGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
131 TGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
383522 GGACAAAAAGGCGAAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTG
196 GGACAAAAAGGCGAAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTG
383587 TGGGCTTTAAAA
261 TGGGCTTTAAAA
* * * * *
383599 GGCGTCCTACTCTTTGACGACT-GAAAGGTGCCCCCAACTTGTGTGGGCTTTGAAAAGCGCCCTG
1 AGCGTCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGCGTCCTG
*
383663 CTCTTTGAGGACTGGAAAATTCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCTCGCTCT
65 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCTCGCTCT
383728 TTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTG
130 TTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTG
* * *
383793 AGGACAAAAAGGCTAAAGGGGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGT
195 AGGACAAAAAGGCGAAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGT
383858 GTGGGCTTTAAAA
260 GTGGGCTTTAAAA
* * *
383871 AGCGTCCTGCTCTTTAAGGAGTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
1 AGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT-----GAAAA-GCG
* * * *
383936 TCCCGCTCTTTGAGGAGTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCT
60 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCT
*
384001 TGCTCTTTGAGGAC
124 CGCTCTTTGAGGAC
384015 AAAAAGGCGA
Statistics
Matches: 378, Mismatches: 29, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
271 3 0.01
272 292 0.77
273 4 0.01
277 5 0.01
278 23 0.06
279 51 0.13
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (272 bp):
AGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCGTCCTGC
TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCTCGCTCTT
TGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
GGACAAAAAGGCGAAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTG
TGGGCTTTAAAA
Found at i:383764 original size:62 final size:57
Alignment explanation
Indices: 383545--383797 Score: 277
Period size: 55 Copynumber: 4.4 Consensus size: 57
383535 AAAGGAGAGA
*
383545 GCATCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG
1 GCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
* * * * *
383600 GCGTCCTACTCTTTGACGACT-GAAAGGTGCCCCCAACTTGTGTGGGCTTTGAAAAG
1 GCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
* *
383656 CGC--CCTGCTCTTTGAGGACTGGAAAA-TTCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 -GCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-----GAAAAG
383716 GCAT-CTCGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCATCCT-GCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-----GAAAAG
383778 GCATCCTGCTCTTTGAGGAC
1 GCATCCTGCTCTTTGAGGAC
383798 AAAAAGGCTA
Statistics
Matches: 170, Mismatches: 14, Indels: 21
0.83 0.07 0.10
Matches are distributed among these distances:
54 1 0.01
55 78 0.46
56 9 0.05
57 2 0.01
59 2 0.01
60 8 0.05
61 19 0.11
62 49 0.29
63 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (57 bp):
GCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
Found at i:383784 original size:489 final size:488
Alignment explanation
Indices: 383118--384240 Score: 1858
Period size: 489 Copynumber: 2.3 Consensus size: 488
383108 AGGTGTCCCG
* * *
383118 CTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCTTTGAG
1 CTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCGCCCTGCTCTTTGAG
*
383183 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCCGCTCTTTGAGGACT
65 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCAT-CCGCTCTTTGAGGACT
*
383248 AGAAAAGTACCACCAACTTGTGTGGGATTTAAAAGGAAAAGGCATCCTGCTCTTTGACGACAAAA
129 AGAAAAGTGCCACCAACTTGTGTGGGATTTAAAAGGAAAAGGCATCCTGCTCTTTGACGACAAAA
383313 AGGCGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT
194 AGGCGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT
* *
383378 AAAAAGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGAAAA
259 AAAAAGCGTCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGAAAA
383443 GGCGTCCCACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
324 GGCGTCCCACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
383508 ATCCTGCTCTTTGAGGACAAAAAGGCGAAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGT
389 ATCCTGCTCTTTGAGGACAAAAAGGCGAAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGT
**
383573 GCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTA
454 GCCACCAACTTGTGTGGGCTTTAAAAAACGTCCTA
* *
383608 CTCTTTGACGACT-GAAAGGTGCCCCCAACTTGTGTGGGCTTTGAAAAGCGCCCTGCTCTTTGAG
1 CTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGCGCCCTGCTCTTTGAG
*
383672 GACTGGAAAATTCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCTCGCTCTTTGAGGACT
65 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATC-CGCTCTTTGAGGACT
* *
383737 AGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACAAAA
129 AGAAAAGTGCCACCAACTTGTGTGGGATTTAAAAGGAAAAGGCATCCTGCTCTTTGACGACAAAA
* *
383802 AGGCTAAAGGGGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT
194 AGGCGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT
* *
383867 AAAAAGCGTCCTGCTCTTTAAGGAGTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
259 AAAAAGCGTCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGAAAA
* *
383932 GGCGTCCCGCTCTTTGAGGAGTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
324 GGCGTCCCACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
383997 ATCTTGCTCTTTGAGGACAAAAAGGCGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGT
389 ATCCTGCTCTTTGAGGACAAAAAGGCGAAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGT
*
384062 GCCACCAACTTGTGTGGGCTTTAAAAAACGTCCTG
454 GCCACCAACTTGTGTGGGCTTTAAAAAACGTCCTA
384097 CTCTTTGAGGACTGGGAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCC-GCT
1 CTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTT-----GAAAA-GCG-CCCTGCT
* *
384160 CTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTT
58 CTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCC-GCTCTT
*
384225 TGAGGA-TTGAAAAGTG
121 TGAGGACTAGAAAAGTG
384241 GAAGGAGAAG
Statistics
Matches: 591, Mismatches: 29, Indels: 21
0.92 0.05 0.03
Matches are distributed among these distances:
488 4 0.01
489 482 0.82
490 12 0.02
491 4 0.01
494 5 0.01
495 32 0.05
496 52 0.09
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (488 bp):
CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCGCCCTGCTCTTTGAGG
ACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCGCTCTTTGAGGACTAG
AAAAGTGCCACCAACTTGTGTGGGATTTAAAAGGAAAAGGCATCCTGCTCTTTGACGACAAAAAG
GCGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAA
AAAGCGTCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGAAAAGG
CGTCCCACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
CCTGCTCTTTGAGGACAAAAAGGCGAAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGTGC
CACCAACTTGTGTGGGCTTTAAAAAACGTCCTA
Found at i:383884 original size:217 final size:217
Alignment explanation
Indices: 383600--384230 Score: 1084
Period size: 217 Copynumber: 2.9 Consensus size: 217
383590 GCTTTAAAAG
* * * * * *
383600 GCGTCCTACTCTTTGACGACT-GAAAGGTGCCCCCAACTTGTGTGGGCTTTGAAAAGCGCCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGC
* * *
383664 TCTTTGAGGACTGGAAAATTCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCTCGCTCTT
65 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCCGCTCTT
383729 TGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
130 TGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
* *
383794 GGACAAAAAGGCTAAAGGGGAGA
195 GGACAAAAAGGCGAAAGGAGAGA
383817 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCT
* * *
383882 CTTTAAGGAGTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCCGCTCTTT
66 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCCGCTCTTT
* *
383947 GAGGAGTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCTTGCTCTTTGAG
131 GAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAG
384012 GACAAAAAGGCGAAAGGAGAGA
196 GACAAAAAGGCGAAAGGAGAGA
*
384034 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAACGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCT
*
384099 CTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCCGCTCTTT
66 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCCGCTCTTT
384164 GAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAG
131 GAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAG
384229 GA
196 GA
384231 TTGAAAAGTG
Statistics
Matches: 390, Mismatches: 23, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
217 387 0.99
218 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (217 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCT
CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCCGCTCTTT
GAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAG
GACAAAAAGGCGAAAGGAGAGA
Found at i:383903 original size:55 final size:55
Alignment explanation
Indices: 383816--383987 Score: 236
Period size: 55 Copynumber: 3.0 Consensus size: 55
383806 TAAAGGGGAG
* * *
383816 AGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AGCGTCCTGCTCTTTGAGGAGTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAA
*
383871 AGCGTCCTGCTCTTTAAGGAGTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAA
1 AGCGTCCTGCTCTTTGAGGAGTAGAAAATGCCACCAACTTGTGTGGGCTTT---A--AAA
*
383931 AGGCGTCCCGCTCTTTGAGGAGTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 A-GCGTCCTGCTCTTTGAGGAGTAGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAA
383988 GGAAAAGGCA
Statistics
Matches: 104, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
55 47 0.45
57 3 0.03
58 1 0.01
59 1 0.01
60 4 0.04
61 25 0.24
62 23 0.22
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (55 bp):
AGCGTCCTGCTCTTTGAGGAGTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAA
Found at i:383948 original size:155 final size:159
Alignment explanation
Indices: 383654--383951 Score: 428
Period size: 155 Copynumber: 1.9 Consensus size: 159
383644 GGCTTTGAAA
*
383654 AGCGCCCTGCTCTTTGAGGACTGGAAAATTCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
1 AGCGCCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AA-GAAAAGGCA
*
383719 TCTCGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
63 TCTCGCTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
*
383784 TGCTCTTTGAGGACAAAAAGGCTAAAGGGGAG
128 CGCTCTTTGAGGACAAAAAGGCTAAAGGGGAG
* * *
383816 AGCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTT-A-AAAA-GCGTC
1 AGCGCCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAAAGGCATC
* * *
383877 -CTGCTCTTTAAGGAGTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCC
65 TC-GCTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCC
383940 GCTCTTTGAGGA
129 GCTCTTTGAGGA
383952 GTAGAAAAGT
Statistics
Matches: 125, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
155 51 0.41
156 22 0.18
157 4 0.03
159 1 0.01
162 45 0.36
163 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (159 bp):
AGCGCCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAAAGGCATCT
CGCTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCCGC
TCTTTGAGGACAAAAAGGCTAAAGGGGAG
Found at i:383989 original size:62 final size:61
Alignment explanation
Indices: 383817--384013 Score: 273
Period size: 62 Copynumber: 3.3 Consensus size: 61
383807 AAAGGGGAGA
* *
383817 GCGTCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTT--A--AAAA-
1 GCGTCCTGCTCTTTGAGGAGTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAG
*
383872 GCGTCCTGCTCTTTAAGGAGTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGAGTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAG
*
383933 GCGTCCCGCTCTTTGAGGAGTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGAGTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAG
* *
383995 GCATCTTGCTCTTTGAGGA
1 GCGTCCTGCTCTTTGAGGA
384014 CAAAAAGGCG
Statistics
Matches: 125, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
55 44 0.35
56 2 0.02
58 1 0.01
60 4 0.03
61 25 0.20
62 49 0.39
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (61 bp):
GCGTCCTGCTCTTTGAGGAGTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAG
Found at i:384120 original size:55 final size:56
Alignment explanation
Indices: 384033--384204 Score: 247
Period size: 55 Copynumber: 3.0 Consensus size: 56
384023 GAAAGGAGAG
*
384033 AGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAA
1 AGCGTCCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAA
*
384089 A-CGTCCTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAA
1 AGCGTCCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTT--AA--AAA
* *
384148 AGGCGTCCCGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 A-GCGTCCTGCTCTTTGAGGACTAGGAAA-TGCCACCAACTTGTGTGGGCTTTAAAA
384205 GGAAAAGGCA
Statistics
Matches: 104, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
55 47 0.45
56 1 0.01
57 2 0.02
58 2 0.02
59 4 0.04
60 2 0.02
61 23 0.22
62 23 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (56 bp):
AGCGTCCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAA
Found at i:384161 original size:155 final size:159
Alignment explanation
Indices: 383871--384169 Score: 435
Period size: 155 Copynumber: 1.9 Consensus size: 159
383861 GGCTTTAAAA
*
383871 AGCGTCCTGCTCTTTAAGGAGTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
1 AGCGTCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAA-GAAAA-GCG
* *
383936 TCCCGCTCTTTGAGGAGTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCT
63 TCCCGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
*
384001 TGCTCTTTGAGGACAAAAAGGCGAAAGGAGAG
128 CGCTCTTTGAGGACAAAAAGGCGAAAGGAGAG
* * *
384033 AGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-AA-AAAA-CGTCC
1 AGCGTCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAAGCGTCC
* * * * *
384095 TGCTCTTTGAGGACTGGGAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCCGC
66 CGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCCGC
384159 TCTTTGAGGAC
131 TCTTTGAGGAC
384170 TAGAAAAGTG
Statistics
Matches: 125, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
155 50 0.40
156 22 0.18
158 4 0.03
160 2 0.02
162 47 0.38
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (159 bp):
AGCGTCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAAGCGTCC
CGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCCGC
TCTTTGAGGACAAAAAGGCGAAAGGAGAG
Found at i:384196 original size:62 final size:61
Alignment explanation
Indices: 384034--384240 Score: 286
Period size: 62 Copynumber: 3.5 Consensus size: 61
384024 AAAGGAGAGA
*
384034 GCGTCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTT-AA--AAAA-
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAG
* *
384090 -CGTCCTGCTCTTTGAGGACTGGGAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAG
*
384150 GCGTCCCGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAG
* *
384212 GCATCCTGCTCTTTGAGGA-TTGAAAAGTG
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTG
384241 GAAGGAGAAG
Statistics
Matches: 134, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
55 44 0.33
56 2 0.01
57 2 0.01
59 4 0.03
61 32 0.24
62 50 0.37
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (61 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAG
Found at i:385232 original size:11 final size:11
Alignment explanation
Indices: 385198--385254 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
385188 CTTAAGCAGA
385198 TTCTTCTTTTTT
1 TTCTT-TTTTTT
* *
385210 TCTCTCTCTTTT
1 T-TCTTTTTTTT
385222 TTCTTTTTTTT
1 TTCTTTTTTTT
*
385233 TTGTTTTTTTT
1 TTCTTTTTTTT
* *
385244 GTGTTTTTTTT
1 TTCTTTTTTTT
385255 AAAAAGAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
11 28 0.74
12 7 0.18
13 3 0.08
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.82
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:397780 original size:78 final size:79
Alignment explanation
Indices: 397651--397830 Score: 222
Period size: 78 Copynumber: 2.3 Consensus size: 79
397641 TTTTGGAGAT
** * ** *
397651 AATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATTGATGATTAGGAAATAAAATCGGGATTGG
1 AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAAAACCGGGATTGG
397716 AGTATCCCCTC-GA
66 AGTATCCCCTCGGA
* * *
397729 AATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTTA-GAAATAAAGCCGGGGTT
1 AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGA--TTAGGAAATAAAACCGGGATT
397792 GGAGTATCCCCTCGGA
64 GGAGTATCCCCTCGGA
**
397808 CGTAACGGGGTTGGAGTATCCCC
1 AATAACGGGGTTGGAGTATCCCC
397831 GATGAAATAA
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
77 1 0.01
78 61 0.69
79 26 0.30
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (79 bp):
AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAAAACCGGGATTGG
AGTATCCCCTCGGA
Found at i:397994 original size:51 final size:51
Alignment explanation
Indices: 397844--398064 Score: 255
Period size: 52 Copynumber: 4.3 Consensus size: 51
397834 GAAATAATGA
* * * * * *
397844 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGATATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTG-TTTTGGAAATAAAACCAG
* * * *
397896 AGTTGGAGTATCCCCGATTAAAGGAAAATTAGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAATTAGTGTTTTGGAAATAAAACCAG
* *
397948 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCAG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGGAAATAAAACCAG
* * * *
397999 GGTTGGAGTATCCCCGAATTAT-GAGAAATCAATATTTTGGAAATAAAGCCAG
1 GGTTGGAGTATCCCCG-ATTATGGA-AAATTAGTGTTTTGGAAATAAAACCAG
398051 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
398065 TTCGGAGGTA
Statistics
Matches: 144, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
51 45 0.31
52 89 0.62
53 10 0.07
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGGAAATAAAACCAG
Found at i:398045 original size:103 final size:104
Alignment explanation
Indices: 397844--398064 Score: 277
Period size: 103 Copynumber: 2.1 Consensus size: 104
397834 GAAATAATGA
* * * * *
397844 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGATATAAAATCAGAGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTAGAAATAAAACCAGAGTTGGAGTATCC
* * * *
397909 CCGATTAAAGGAAAATTAGTGTTTTGAAAATAAAACCGG
66 CCGATTAAAGGAAAATCAATATTTTGAAAATAAAACCAG
* *
397948 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTG-TTTTAGAAATAAAACCAGGGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTAGAAATAAAACCAGAGTTGGAGTATCC
* * *
398012 CCGAATT--ATGAGAAATCAATATTTTGGAAATAAAGCCAG
66 CCG-ATTAAAGGA-AAATCAATATTTTGAAAATAAAACCAG
398051 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
398065 TTCGGAGGTA
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
102 3 0.03
103 65 0.64
104 33 0.33
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (104 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTAGAAATAAAACCAGAGTTGGAGTATCC
CCGATTAAAGGAAAATCAATATTTTGAAAATAAAACCAG
Found at i:398173 original size:52 final size:51
Alignment explanation
Indices: 398109--398241 Score: 158
Period size: 52 Copynumber: 2.6 Consensus size: 51
398099 AAATAACGAG
* * *
398109 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAACCGGA
* * * * *
398161 GTTGGAGTATCCTCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGC
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAACCGGA
* *
398213 GTTGGAATATCCCCGATTATGAACAATTG
1 GTTGGAGTATCCCCGATTATGAAAAATTG
398242 AGAAAGTTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
51 8 0.12
52 50 0.72
53 11 0.16
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGGA
Found at i:398226 original size:264 final size:262
Alignment explanation
Indices: 397736--398230 Score: 873
Period size: 264 Copynumber: 1.9 Consensus size: 262
397726 CGAAATAACG
*
397736 GGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCCAGGGTTGGAGTATCC
*
397801 CCTCGGACGTAACGGGGTTGGAGTATCCCCGATGAAATAATGAGGTTGGAGTATCCTCGATTGTG
66 CCTCGGACGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTG
*
397866 AAAAATTGGTGTTTTTGGATATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGTGT
131 AAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGTGT
* *
397931 TTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
196 TTTGAAAATAAAACCGGCGTTGGAATATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
397996 CA
261 CA
*
397998 GGGTTGGAGTATCCCCGAATTATGAGAAATCAATATTTTGGAAATAAAGCCAGGGTTGGAGTATC
1 GGGTTGGAGTATCCCC-AATTATGAGAAATCAATATTTTAGAAATAAAGCCAGGGTTGGAGTATC
* *
398063 CCTTCGGAGGTAACAGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
65 CCCTCGGACGTAAC-GGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
* * *
398128 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCTCGATTAAAGGAAAATTGGT
129 TGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGT
398193 GTTTTGAAAATAAAACCGGCGTTGGAATATCCCCGATT
194 GTTTTGAAAATAAAACCGGCGTTGGAATATCCCCGATT
398231 ATGAACAATT
Statistics
Matches: 220, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
262 16 0.07
263 58 0.26
264 146 0.66
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (262 bp):
GGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCCAGGGTTGGAGTATCC
CCTCGGACGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTG
AAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGTGT
TTTGAAAATAAAACCGGCGTTGGAATATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
CA
Found at i:400592 original size:13 final size:13
Alignment explanation
Indices: 400574--400599 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
400564 AACTTCCTAG
400574 ATGTATCGATACA
1 ATGTATCGATACA
400587 ATGTATCGATACA
1 ATGTATCGATACA
400600 CTTCCTTAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:400612 original size:21 final size:21
Alignment explanation
Indices: 400586--400627 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
400576 GTATCGATAC
400586 AATGTATCGATACACTTCCTT
1 AATGTATCGATACACTTCCTT
*
400607 AATGTATCGATACATTTCCTT
1 AATGTATCGATACACTTCCTT
400628 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACACTTCCTT
Found at i:400676 original size:19 final size:20
Alignment explanation
Indices: 400652--400705 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
400642 AGCTATACAT
*
400652 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGAA
**
400671 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACTGAA
400692 TGTATCGATACAAA
1 TGTATCGATACAAA
400706 TTATTGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAAACTGAA
Found at i:403674 original size:32 final size:32
Alignment explanation
Indices: 403631--403710 Score: 151
Period size: 32 Copynumber: 2.5 Consensus size: 32
403621 GATACATTGA
403631 AAAATGTATCGATACATTTGGGTTAAAAACCC
1 AAAATGTATCGATACATTTGGGTTAAAAACCC
*
403663 AGAATGTATCGATACATTTGGGTTAAAAACCC
1 AAAATGTATCGATACATTTGGGTTAAAAACCC
403695 AAAATGTATCGATACA
1 AAAATGTATCGATACA
403711 ATTAAGATTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (32 bp):
AAAATGTATCGATACATTTGGGTTAAAAACCC
Found at i:403723 original size:52 final size:52
Alignment explanation
Indices: 403665--403835 Score: 177
Period size: 52 Copynumber: 3.3 Consensus size: 52
403655 AAAAACCCAG
* * *
403665 AATGTATCGATACATTTGGGTTAAAAACCCAAAATGTATCGATACAATTAAG
1 AATGTATCGATACATTTGGGTTAAAAACCCAGAATGTATCGATACAATGAAA
* * * ** * *
403717 ATTGTATCAATACATTTGAGACAAAAACCCAGAATGTATCAATATAATGAAA
1 AATGTATCGATACATTTGGGTTAAAAACCCAGAATGTATCGATACAATGAAA
* * *
403769 AATGTATCGATATATTTGGATT--AAACCCAGAATGTATCGACACAAAT-AAA
1 AATGTATCGATACATTTGGGTTAAAAACCCAGAATGTATCGATAC-AATGAAA
* *
403819 AATATATCAATACATTT
1 AATGTATCGATACATTT
403836 TCTTTTCAGA
Statistics
Matches: 95, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
50 35 0.37
51 3 0.03
52 57 0.60
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.29
Consensus pattern (52 bp):
AATGTATCGATACATTTGGGTTAAAAACCCAGAATGTATCGATACAATGAAA
Found at i:403900 original size:21 final size:21
Alignment explanation
Indices: 403874--403945 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 21
403864 ACGGTCCTAG
403874 ATCGATACATTTCAAACATGT
1 ATCGATACATTTCAAACATGT
* ***
403895 ATCGATACA-TCCACTTATGT
1 ATCGATACATTTCAAACATGT
403915 ATCGATACATTTCAAACATGT
1 ATCGATACATTTCAAACATGT
*
403936 ATCAATACAT
1 ATCGATACAT
403946 CCACTTATGT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 16 0.39
21 25 0.61
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (21 bp):
ATCGATACATTTCAAACATGT
Found at i:403916 original size:20 final size:20
Alignment explanation
Indices: 403891--403971 Score: 90
Period size: 20 Copynumber: 4.0 Consensus size: 20
403881 CATTTCAAAC
403891 ATGTATCGATACATCCACTT
1 ATGTATCGATACATCCACTT
* ***
403911 ATGTATCGATACATTTCAAAC
1 ATGTATCGATACA-TCCACTT
*
403932 ATGTATCAATACATCCACTT
1 ATGTATCGATACATCCACTT
* *
403952 ATGTATTGATACATTCACTT
1 ATGTATCGATACATCCACTT
403972 GTTATATCAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
20 33 0.69
21 15 0.31
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATCCACTT
Found at i:403919 original size:41 final size:41
Alignment explanation
Indices: 403874--403966 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
403864 ACGGTCCTAG
*
403874 ATCGATACATTTCAAACATGTATCGATACATCCACTTATGT
1 ATCGATACATTTCAAACATGTATCAATACATCCACTTATGT
403915 ATCGATACATTTCAAACATGTATCAATACATCCACTTATGT
1 ATCGATACATTTCAAACATGTATCAATACATCCACTTATGT
*
403956 ATTGATACATT
1 ATCGATACATT
403967 CACTTGTTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.35
Consensus pattern (41 bp):
ATCGATACATTTCAAACATGTATCAATACATCCACTTATGT
Found at i:407012 original size:19 final size:19
Alignment explanation
Indices: 406990--407026 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
406980 AAATAAATAT
406990 AAAATTAAATAAAATTTTG
1 AAAATTAAATAAAATTTTG
* *
407009 AAAATTAATTATAATTTT
1 AAAATTAAATAAAATTTT
407027 TGCTAATTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
AAAATTAAATAAAATTTTG
Found at i:407516 original size:168 final size:164
Alignment explanation
Indices: 407145--407728 Score: 525
Period size: 167 Copynumber: 3.5 Consensus size: 164
407135 TAACATATAC
** * * * ** *
407145 AAAAAAAATTCAAATTTTATG-AAATAAATTGAATTTTTTAAAACTGATTTAATGGGAGTCT-AA
1 AAAAAAAATGAAAAATTTATGAAAATAAA-GGAATTTTTCAAAACTGATTTAAT-ATAAT-TAAA
* * * ** ** * *
407208 TGA-GAATATTAGATGAATTTTAAAAAATT-TAAACTAAAAAAAATTCTTCTAAAAAATATTTAT
63 TGATG-ATATTTGATGAATTTT-AAAAATTATAAACCAAGAAAAA-TCCCCCCAAAAACATTTAC
* * * * * *
407271 GGAATAGAAAACT-TGATTTTTCAGAAACAAGGAAATTTTA
125 GGAGTAGAAAACTCCG-TATTTCAAAAACAAGAAAATTTCA
* * * *
407311 AAGGAAAAATGAAAAACTTATGAAAATAAATGAATTTTTCAAAACTGATTTACTATCAATTAAAT
1 AA-AAAAAATGAAAAATTTATGAAAATAAAGGAATTTTTCAAAACTGATTTAATAT-AATTAAAT
*
407376 GATGGTATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCCCCAAAAACATTTACGGA
64 GATGATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAAT-CCCCCCAAAAACATTTACGGA
* * * *
407441 GTAGGAAACTTCGTATTTCGAAAACAGGAAAATTTCAA
128 GTAGAAAACTCCGTATTTCAAAAACAAGAAAATTTC-A
* * ** * *
407479 AGAAAAAAATGAAAAATTTATGAAAATATAA-GAATTTTTCAAAACTAATTAAAGGGTGATTAGA
1 A-AAAAAAATGAAAAATTTATGAAAATA-AAGGAATTTTTCAAAACTGATTTAA-TATAATTAAA
* * * * * * *
407543 TAATAATATTGGATGAATTTTAAAAATTTTAAACCAAGAAAAGTCCCCCCGAAAACATTTATGGA
63 TGATGATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCCCAAAAACATTTACGGA
407608 GTAGAAAACTCCGTATTTCAAAAACAAGAAAATTTCA
128 GTAGAAAACTCCGTATTTCAAAAACAAGAAAATTTCA
* * *
407645 AAAAAAAATGAAAAATTCAT-AAAATAAAAGGAAATTTTCAAAACTGATTTAATAAGAATTAAAT
1 AAAAAAAATGAAAAATTTATGAAAAT-AAAGGAATTTTTCAAAACTGATTTAAT-ATAATTAAAT
* *
407709 GATGATATTTAAAGAATTTT
64 GATGATATTTGATGAATTTT
407729 GATATTAAAA
Statistics
Matches: 339, Mismatches: 64, Indels: 31
0.78 0.15 0.07
Matches are distributed among these distances:
164 7 0.02
165 59 0.17
166 13 0.04
167 160 0.47
168 96 0.28
169 4 0.01
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (164 bp):
AAAAAAAATGAAAAATTTATGAAAATAAAGGAATTTTTCAAAACTGATTTAATATAATTAAATGA
TGATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCCCAAAAACATTTACGGAGTA
GAAAACTCCGTATTTCAAAAACAAGAAAATTTCA
Found at i:407684 original size:21 final size:19
Alignment explanation
Indices: 407622--407687 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 19
407612 AAAACTCCGT
*
407622 ATTTC-AAAAACAA-GAAA
1 ATTTCAAAAAAAAAGGAAA
*
407639 ATTTCAAAAAAAAATGAAA
1 ATTTCAAAAAAAAAGGAAA
*
407658 AATTCATAAAATAAAAGGAAA
1 ATTTCA-AAAA-AAAAGGAAA
*
407679 TTTTCAAAA
1 ATTTCAAAA
407688 CTGATTTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 5 0.12
18 7 0.17
19 9 0.22
20 7 0.17
21 12 0.30
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.23
Consensus pattern (19 bp):
ATTTCAAAAAAAAAGGAAA
Found at i:409499 original size:13 final size:13
Alignment explanation
Indices: 409481--409506 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
409471 CAATTTTTTG
409481 TGTATCGATACAT
1 TGTATCGATACAT
409494 TGTATCGATACAT
1 TGTATCGATACAT
409507 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:409571 original size:21 final size:21
Alignment explanation
Indices: 409545--409620 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
409535 CTGCCAAGAA
*
409545 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
409566 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
409586 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
409607 ATGTATCGATACAT
1 ATGTATCGATACAT
409621 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:409591 original size:20 final size:20
Alignment explanation
Indices: 409566--409638 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
409556 CATCTTTTTT
409566 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
409586 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
409607 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
409627 ATGTATCGATAC
1 ATGTATCGATAC
409639 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:409602 original size:41 final size:41
Alignment explanation
Indices: 409545--409638 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
409535 CTGCCAAGAA
*
409545 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
409586 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
409627 ATGTATCGATAC
1 ATGTATCGATAC
409639 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:412103 original size:13 final size:13
Alignment explanation
Indices: 412085--412123 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
412075 ATAATCACCC
*
412085 TGTATCGATACAG
1 TGTATCGATACAA
412098 TGTATCGATACAA
1 TGTATCGATACAA
412111 TGTATCGATACAA
1 TGTATCGATACAA
412124 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:412134 original size:20 final size:20
Alignment explanation
Indices: 412109--412187 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
412099 GTATCGATAC
412109 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
412129 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
412154 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
412174 CATGTATCGATACA
1 AATGTATCGATACA
412188 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:414222 original size:15 final size:15
Alignment explanation
Indices: 414202--414232 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
414192 ATTTCGTTTG
*
414202 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
414217 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
414232 G
1 G
414233 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:418312 original size:13 final size:13
Alignment explanation
Indices: 418294--418319 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
418284 CAATTTTTTG
418294 TGTATCGATACAT
1 TGTATCGATACAT
418307 TGTATCGATACAT
1 TGTATCGATACAT
418320 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:418384 original size:21 final size:21
Alignment explanation
Indices: 418358--418433 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
418348 CTGCCAAGAA
*
418358 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
418379 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
418399 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
418420 ATGTATCGATACAT
1 ATGTATCGATACAT
418434 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:418404 original size:20 final size:20
Alignment explanation
Indices: 418379--418451 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
418369 CATCTTTTTT
418379 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
418399 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
418420 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
418440 ATGTATCGATAC
1 ATGTATCGATAC
418452 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:418415 original size:41 final size:41
Alignment explanation
Indices: 418358--418451 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
418348 CTGCCAAGAA
*
418358 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
418399 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
418440 ATGTATCGATAC
1 ATGTATCGATAC
418452 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:418987 original size:47 final size:47
Alignment explanation
Indices: 418865--419653 Score: 310
Period size: 47 Copynumber: 17.4 Consensus size: 47
418855 GACTATTGCT
* * * * * * *
418865 AATATAGTCAAACAATGGTGAAAAGAGTTTAACCAGG-ACTAATGCC
1 AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
* * * * ** * *
418911 AATACAG-CTAAATGAGGGTGAGAGGAGTTTGACTAGGTTCTAACGCC
1 AATATAGTC-AAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
* * *
418958 AATATAGTCAGACGAGGGTAAAAAAAGTTTGACCAGGTCATAATGCC
1 AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
** * * *
419005 -A-ATA--C--A-GTTGGTAAAAAGAGTTTGACCAGGTCCAAACGCT
1 AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
* * * * *
419045 AATATAATCAAACGAGGATAGAAAGAGTTTGACCAGGAT--TGA-GCC
1 AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGG-TCCTAACGCC
* * * * * *
419090 AATATAGCCAAATGAAGG----AAGAGTTTGACCAGGTTCTAATGCC
1 AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
* * *
419133 AATAGAGTCAAACGAGGGTAAAAAAAGTTTGACTAGGTCCTAATGCC
1 AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
* ***** * * *
419180 AATACAGTCAAACGAGAACGGAAAAAGTTTGACTAGG-ACTAACGCT
1 AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
* ** * *
419226 AATACAACCAAACGA----AAAAAAGAGTATGACCAGGTCCTAATGCC
1 AATATAGTCAAACGAGGGTAAAAAA-AGTTTGACCAGGTCCTAACGCC
* * * *
419270 AATATAGTTAAACGAGGGTAAAAAGAGTTTGACTAGCTCCTAACGCC
1 AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
* * * ** * * * * *
419317 AATACAGTCAAATGAGAGTGGAAAGAGTTTGACCAAG-ACTAATGCT
1 AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
* ** * * * * * * *
419363 AA-ACAACCAAATGAAGG----AAGAGTTTGACCAAGTCTTGATGCC
1 AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
* * * * * * * **
419405 AATATAATTAAATGAGGGTACAAAGAGTTTGACCAAGTCTTAACGTT
1 AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
** * * * *
419452 AATATAGTCAAACGAGGGTGGAAAGAGTGTGACCAGG-ACTAATGCC
1 AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
** ** * *
419498 AATATAGTCAAACGAGGGTGGAAGGAGTTTCACCAGGTCCTAATGCC
1 AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
* * * * *
419545 AATATAGTTAAACGAAGG----AAGAGTTTGACCAAGTCCTAATGCC
1 AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
* * * *** * * *
419588 AATACAATCAAACAAAAATGAAAAAGGTTTGACCAGGTCCTAACACC
1 AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
* * *
419635 AATAGAGTGAAACAAGGGT
1 AATATAGTCAAACGAGGGT
419654 GGAAGGAGTT
Statistics
Matches: 567, Mismatches: 141, Indels: 69
0.73 0.18 0.09
Matches are distributed among these distances:
40 28 0.05
41 32 0.06
42 16 0.03
43 73 0.13
44 18 0.03
45 30 0.05
46 95 0.17
47 268 0.47
48 7 0.01
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (47 bp):
AATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGTCCTAACGCC
Found at i:419060 original size:87 final size:89
Alignment explanation
Indices: 418838--419600 Score: 334
Period size: 93 Copynumber: 8.4 Consensus size: 89
418828 AACAAGGTGC
* ** * * * * * *
418838 GAAAGGAGTTTGACCAGG-ACTATTGCTAATATAGTCAAACAATGGTGAAAAGAGTTTAACCAGG
1 GAAA-GAGTTTGACCAGGTTCTAACGCCAATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGG
* *
418902 AC-TAATGCCAATACAGCTAAATGAGGGT
65 TCATAATGCCAATACAG-TAAATGA---A
* * *
418930 GAGAGGAGTTTGACTAGGTTCTAACGCCAATATAGTCAGACGAGGGTAAAAAAAGTTTGACCAGG
1 GA-AAGAGTTTGACCAGGTTCTAACGCCAATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGG
***
418995 TCATAATGCCAATACAGTTGGT-AA
65 TCATAATGCCAATACAGTAAATGAA
* * * * * * *
419019 -AAAGAGTTTGACCAGGTCCAAACGCTAATATAATCAAACGAGGATAGAAAGAGTTTGACCAGG-
1 GAAAGAGTTTGACCAGGTTCTAACGCCAATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGT
* * *
419082 -ATTGA-GCCAATATAGCCAAATGAA
66 CA-TAATGCCAATACAG-TAAATGAA
* * * *
419106 GGAAGAGTTTGACCAGGTTCTAATGCCAATAGAGTCAAACGAGGGTAAAAAAAGTTTGACTAGGT
1 GAAAGAGTTTGACCAGGTTCTAACGCCAATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGT
* *
419171 CCTAATGCCAATACAGTCAAACGAGAA
66 CATAATGCCAATACAGT-AAA--TGAA
* * * * * ** *
419198 CGGAAAAAGTTTGACTAGG-ACTAACGCTAATACAACCAAACGA----AAAAAAGAGTATGACCA
1 --GAAAGAGTTTGACCAGGTTCTAACGCCAATATAGTCAAACGAGGGTAAAAAA-AGTTTGACCA
* * *
419258 GGTCCTAATGCCAATATAGTTAAACGAGGGTA
63 GGTCATAATGCCAATACAG-TAAATGA----A
* * * * * * * ** * * *
419290 AAAAGAGTTTGACTAGCTCCTAACGCCAATACAGTCAAATGAGAGTGGAAAGAGTTTGACCAAGA
1 GAAAGAGTTTGACCAGGTTCTAACGCCAATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGT
* **
419355 C-TAATGCTAA-ACAACCAAATGAA
66 CATAATGCCAATAC-AGTAAATGAA
* * * * * * * * * *
419378 GGAAGAGTTTGACCAAG-TCTTGATGCCAATATAATTAAATGAGGGTACAAAGAGTTTGACCAAG
1 GAAAGAGTTTGACCAGGTTC-TAACGCCAATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGG
* * ** * * *
419442 TCTTAACGTTAATATAGTCAAACGAGGGTG
65 TCATAATGCCAATACAGT-AAATGA----A
* * * ** ** *
419472 GAAAGAGTGTGACCAGG-ACTAATGCCAATATAGTCAAACGAGGGTGGAAGGAGTTTCACCAGGT
1 GAAAGAGTTTGACCAGGTTCTAACGCCAATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGT
* * *
419536 CCTAATGCCAATATAGTTAAACGAA
66 CATAATGCCAATACAG-TAAATGAA
* * * * * *
419561 GGAAGAGTTTGACCAAGTCCTAATGCCAATACAATCAAAC
1 GAAAGAGTTTGACCAGGTTCTAACGCCAATATAGTCAAAC
419601 AAAAATGAAA
Statistics
Matches: 507, Mismatches: 127, Indels: 76
0.71 0.18 0.11
Matches are distributed among these distances:
85 10 0.02
86 3 0.01
87 55 0.11
88 105 0.21
89 30 0.06
90 80 0.16
91 20 0.04
92 25 0.05
93 121 0.24
94 55 0.11
95 3 0.01
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (89 bp):
GAAAGAGTTTGACCAGGTTCTAACGCCAATATAGTCAAACGAGGGTAAAAAAAGTTTGACCAGGT
CATAATGCCAATACAGTAAATGAA
Found at i:419191 original size:135 final size:136
Alignment explanation
Indices: 419014--419600 Score: 594
Period size: 135 Copynumber: 4.3 Consensus size: 136
419004 CAATACAGTT
* * * * *
419014 GGTAAAAAGAGTTTGACCAGGTCCAAACGCTAATATAATCAAACGAGGATAGAAAGAGTTTGACC
1 GGTAAAAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAGGATGGAAAGAGTTTGACC
* * * * * * * *
419079 AGGATTGA-GCCAATATAGCCAAATGAAGGAAGAGTTTGACCAGGTTCTAATGCCAATAGAGTCA
66 AGGACTAATGCCAATACAACCAAACGAAGGAAGAGTTTGACCAGGTCCTAATGCCAATATAGTTA
419143 AACGAG
131 AACGAG
* * * * * * *
419149 GGTAAAAAAAGTTTGACTAGGTCCTAATGCCAATACAGTCAAACGAGAACGGAAAAAGTTTGACT
1 GGTAAAAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAGGATGGAAAGAGTTTGACC
* * ** *
419214 AGGACTAACGCTAATACAACCAAACGAAAAAAAGAGTATGACCAGGTCCTAATGCCAATATAGTT
66 AGGACTAATGCCAATACAACCAAACG-AAGGAAGAGTTTGACCAGGTCCTAATGCCAATATAGTT
419279 AAACGAG
130 AAACGAG
* * *
419286 GGTAAAAAGAGTTTGACTAGCTCCTAACGCCAATACAGTCAAATGA-GAGTGGAAAGAGTTTGAC
1 GGTAAAAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAGGA-TGGAAAGAGTTTGAC
* * * * * * *
419350 CAAGACTAATGCTAA-ACAACCAAATGAAGGAAGAGTTTGACCAAGTCTTGATGCCAATATAATT
65 CAGGACTAATGCCAATACAACCAAACGAAGGAAGAGTTTGACCAGGTCCTAATGCCAATATAGTT
*
419414 AAATGAG
130 AAACGAG
* * * ** * * *
419421 GGTACAAAGAGTTTGACCAAGTCTTAACGTTAATATAGTCAAACGAGGGTGGAAAGAGTGTGACC
1 GGTAAAAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAGGATGGAAAGAGTTTGACC
* ** * *
419486 AGGACTAATGCCAATATAGTCAAACGAGGGTGGAAGGAGTTTCACCAGGTCCTAATGCCAATATA
66 AGGACTAATGCCAATACAACCAAACGA---AGGAA-GAGTTTGACCAGGTCCTAATGCCAATATA
*
419551 GTTAAACGAA
127 GTTAAACGAG
* * *
419561 GG----AAGAGTTTGACCAAGTCCTAATGCCAATACAATCAAAC
1 GGTAAAAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAAC
419601 AAAAATGAAA
Statistics
Matches: 369, Mismatches: 74, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
135 160 0.43
136 65 0.18
137 106 0.29
139 4 0.01
140 34 0.09
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (136 bp):
GGTAAAAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAGGATGGAAAGAGTTTGACC
AGGACTAATGCCAATACAACCAAACGAAGGAAGAGTTTGACCAGGTCCTAATGCCAATATAGTTA
AACGAG
Found at i:419346 original size:272 final size:272
Alignment explanation
Indices: 419014--419600 Score: 614
Period size: 272 Copynumber: 2.2 Consensus size: 272
419004 CAATACAGTT
* * * *
419014 GGTAAAAAGAGTTTGACCAGGTCCAAACGCTAATATAATCAAACGAGGATAGAAAGAGTTTGACC
1 GGTAAAAAGAGTTTGA-CAAGTCCTAACGCCAATACAATCAAACGAGGATAGAAAGAGTTTGACC
* * * * * * *
419079 AGGATTGA-GCCAATATAGCCAAATGAAGGAAGAGTTTGACCAGGT-TCTAATGCCAATAGAGTC
65 AAGACTAATGCCAA-ACAACCAAATGAAGGAAGAGTTTGACCAAGTCT-TAATGCCAATAGAATC
* * *
419142 AAACGAGGGTAAAAAAAGTTTGACTAGGTCCTAATGCCAATACAGTCAAACGAGAACGGAAAAAG
128 AAACGAGGGTAAAAAAAGTTTGACCAAGTCCTAACGCCAATACAGTCAAACGAGAACGGAAAAAG
* * * *
419207 TTTGACTAGGACTAACGCTAATACAACCAAACGA-AAAAAAGAGTATGACCAGGTCCTAATGCCA
193 TGTGACCAGGACTAACGCCAATACAACCAAACGAGAAAAAAGAGTATCACCAGGTCCTAATGCCA
*
419271 ATATAGTTAAACGAG
258 ATATAGTTAAACGAA
* * * *
419286 GGTAAAAAGAGTTTGACTAGCTCCTAACGCCAATACAGTCAAATGA-GAGTGGAAAGAGTTTGAC
1 GGTAAAAAGAGTTTGACAAG-TCCTAACGCCAATACAATCAAACGAGGA-TAGAAAGAGTTTGAC
* * * *
419350 CAAGACTAATGCTAAACAACCAAATGAAGGAAGAGTTTGACCAAGTCTTGATGCCAATATAATTA
64 CAAGACTAATGCCAAACAACCAAATGAAGGAAGAGTTTGACCAAGTCTTAATGCCAATAGAATCA
* * * * ** * *** *
419415 AATGAGGGTACAAAGAGTTTGACCAAGTCTTAACGTTAATATAGTCAAACGAGGGTGGAAAGAGT
129 AACGAGGGTAAAAAAAGTTTGACCAAGTCCTAACGCCAATACAGTCAAACGAGAACGGAAAAAGT
* * ** *** * *
419480 GTGACCAGGACTAATGCCAATATAGTCAAACGAGGGTGGAAGGAGTTTCACCAGGTCCTAATGCC
194 GTGACCAGGACTAACGCCAATACAACCAAACGA--GAAAAAAGAGTATCACCAGGTCCTAATGCC
419545 AATATAGTTAAACGAA
257 AATATAGTTAAACGAA
*
419561 GG----AAGAGTTTGACCAAGTCCTAATGCCAATACAATCAAAC
1 GGTAAAAAGAGTTTGA-CAAGTCCTAACGCCAATACAATCAAAC
419601 AAAAATGAAA
Statistics
Matches: 256, Mismatches: 51, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
271 34 0.13
272 177 0.69
273 5 0.02
275 40 0.16
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (272 bp):
GGTAAAAAGAGTTTGACAAGTCCTAACGCCAATACAATCAAACGAGGATAGAAAGAGTTTGACCA
AGACTAATGCCAAACAACCAAATGAAGGAAGAGTTTGACCAAGTCTTAATGCCAATAGAATCAAA
CGAGGGTAAAAAAAGTTTGACCAAGTCCTAACGCCAATACAGTCAAACGAGAACGGAAAAAGTGT
GACCAGGACTAACGCCAATACAACCAAACGAGAAAAAAGAGTATCACCAGGTCCTAATGCCAATA
TAGTTAAACGAA
Found at i:421393 original size:24 final size:26
Alignment explanation
Indices: 421352--421399 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
421342 TGTTGCACTT
421352 AATTTCTCAATTTTC-TTTCTTTTTC
1 AATTTCTCAATTTTCTTTTCTTTTTC
*
421377 AATTTCTC-TTTTTCTTTTCTTTT
1 AATTTCTCAATTTTCTTTTCTTTT
421400 CTTTTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (26 bp):
AATTTCTCAATTTTCTTTTCTTTTTC
Found at i:424480 original size:141 final size:140
Alignment explanation
Indices: 424300--424597 Score: 397
Period size: 141 Copynumber: 2.1 Consensus size: 140
424290 AGGAGATATG
*
424300 AAAAGTTTTAAAAATTTCTATCTCCCTACGAAAAGCCATAGGAATATTAAAAAT-TTTGAAAAAC
1 AAAAGTTTTAAAAATTTCTATCTCCCTACGAAAAGCCATAGGAATATTAAAAATCTAT-AAAAAC
* * *
424364 TAAGATAATAATTTTTATTTAATTTCTTGATTT-CAAAAAATTCATTTCGTACCTTAATAGAGAA
65 TAAGATAATAATTTTTATTTAATTTCTTAATTTCCAAAAAATTCATTTC--ACCTTAACAAAGAA
*
424428 TCGAAAAGATACA
128 CCGAAAAGATACA
* * * *
424441 AAAAGTTTTAAAAATTTCTATACT-TCTATG-GAAGACCATAGGAATATTAGAAATCTATAAAAA
1 AAAAGTTTTAAAAATTTCTAT-CTCCCTACGAAAAG-CCATAGGAATATTAAAAATCTATAAAAA
* *
424504 TTAAGATAATAATTTTTATTTAATTTTTTAATTTCCAAAAAATTCATTTCACCTTAACAAAGAAC
64 CTAAGATAATAATTTTTATTTAATTTCTTAATTTCCAAAAAATTCATTTCACCTTAACAAAGAAC
**
424569 CGAGTAGATACA
129 CGAAAAGATACA
*
424581 AAAATTTTTAAAAATTT
1 AAAAGTTTTAAAAATTT
424598 TCATACCCCT
Statistics
Matches: 139, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
140 41 0.29
141 79 0.57
142 19 0.14
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (140 bp):
AAAAGTTTTAAAAATTTCTATCTCCCTACGAAAAGCCATAGGAATATTAAAAATCTATAAAAACT
AAGATAATAATTTTTATTTAATTTCTTAATTTCCAAAAAATTCATTTCACCTTAACAAAGAACCG
AAAAGATACA
Found at i:424630 original size:140 final size:140
Alignment explanation
Indices: 424300--424663 Score: 400
Period size: 140 Copynumber: 2.6 Consensus size: 140
424290 AGGAGATATG
* * * * ***
424300 AAAAGTTTTAAAAATTTCTAT-CTCCCTA-CGAAAAGCCATAGGAATATTAAAAATTTTGAAAAA
1 AAAAGTTTTAAAAATTTCTATAC-CCCTATGGAAGA-CCATAGAAATATTAGAAATTCCAAAAAA
* * * *
424363 CTAAGATAATAATTTTTATTTAATTTCTTGATTTCAAAAAATTCATTTCGTACCTTAATAGAGAA
64 TTAAGATAATAATTTTTATTTAATTTCTTAATTTCAAAAAATTCATTTCG-ACCTTAACAAAGAA
*
424428 TCGAAAAGATACA
128 CCGAAAAGATACA
** * *
424441 AAAAGTTTTAAAAATTTCTATACTTCTATGGAAGACCATAGGAATATTAGAAA-TCTATAAAAAT
1 AAAAGTTTTAAAAATTTCTATACCCCTATGGAAGACCATAGAAATATTAGAAATTCCA-AAAAAT
*
424505 TAAGATAATAATTTTTATTTAATTTTTTAATTTCCAAAAAATTCATTTC-ACCTTAACAAAGAAC
65 TAAGATAATAATTTTTATTTAATTTCTTAATTT-CAAAAAATTCATTTCGACCTTAACAAAGAAC
**
424569 CGAGTAGATACA
129 CGAAAAGATACA
* *
424581 AAAATTTTTAAAAATTT-TCATACCCCTATGGATA-CCCAT-GAAAATATTAGAAATTCCAAAAA
1 AAAAGTTTTAAAAATTTCT-ATACCCCTATGGA-AGACCATAG-AAATATTAGAAATTCCAAAAA
* *
424643 ATTAAGGTGATAATTTTTATT
63 ATTAAGATAATAATTTTTATT
424664 GGATAAAATA
Statistics
Matches: 192, Mismatches: 23, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
139 2 0.01
140 89 0.46
141 81 0.42
142 20 0.10
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (140 bp):
AAAAGTTTTAAAAATTTCTATACCCCTATGGAAGACCATAGAAATATTAGAAATTCCAAAAAATT
AAGATAATAATTTTTATTTAATTTCTTAATTTCAAAAAATTCATTTCGACCTTAACAAAGAACCG
AAAAGATACA
Found at i:424699 original size:17 final size:19
Alignment explanation
Indices: 424677--424715 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
424667 TAAAATATTA
424677 TTTA-TTTATTGTTT-TAT
1 TTTATTTTATTGTTTCTAT
*
424694 TTTATTTTATTTTTTCTAT
1 TTTATTTTATTGTTTCTAT
424713 TTT
1 TTT
424716 CAAAAATTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 9 0.47
19 6 0.32
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTATTTTATTGTTTCTAT
Found at i:425560 original size:10 final size:10
Alignment explanation
Indices: 425547--425596 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 10
425537 TTCTAACTAG
425547 TTTTTTTCT-
1 TTTTTTTCTC
*
425556 ATTTTTTCT-
1 TTTTTTTCTC
425565 TTTTTCTTCTC
1 TTTTT-TTCTC
*
425576 TTTTTCTCTC
1 TTTTTTTCTC
425586 TTTTGTTTCTC
1 TTTT-TTTCTC
425597 ACTTGCTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 12 0.35
10 12 0.35
11 10 0.29
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTTTTTCTC
Found at i:426448 original size:164 final size:163
Alignment explanation
Indices: 426155--426592 Score: 467
Period size: 164 Copynumber: 2.7 Consensus size: 163
426145 GACAATGTTA
* * *
426155 GATGAATTTTAAAAATTTTAAATCGAGAAAAATCCCCTCGAAAATATTTATGGAA-TAGAAAAA-
1 GATGAATTTTAAAAATTTTAAATCAAGAAAAATCCCC-CTAAAA-ATTTA-CGAAGTA-AAAAAC
* * * * * *
426218 T-TAATTTTTTGAAAATAGGGAAATTTCAAAGAAAAAATAAAAAACTTATGAAAATAAATGAATT
62 TCT-GTATTTCGAAAATAGGAAAATTTAAAAG-AAAAATAAAAAACTTATGAAAATAAATAAATT
* *
426282 TTTCAAAAATAATTTACTATGAATCAAATGATAATATTT
125 TTTCAAAAATAATTTAATATGAATCAAATAATAATATTT
* *
426321 GATGAATTTTAAAAATTATAAATCAAGAAAAATCCCCCTAAAACGTTTACGAAGTAAAAAACTCT
1 GATGAATTTTAAAAATTTTAAATCAAGAAAAATCCCCCTAAAA-ATTTACGAAGTAAAAAACTCT
* * *
426386 GTATTTCGAAAATAAGAAAATTTTAAAGAAAAATAAAAAACTTATGAAAATAAATAAATTTTTTA
65 GTATTTCGAAAATAGGAAAATTTAAAAGAAAAATAAAAAACTTATGAAAATAAATAAATTTTTCA
* * * *
426451 CAACTAATTTAATGTGAATTAAATAATAATATTT
130 AAAATAATTTAATATGAATCAAATAATAATATTT
* * ** * * *
426485 AATAAATTTTAAAAATTTTAACCCGATGAAAAA-CCTCCTGAAAAAATTACGAAG-AAGAAAACT
1 GATGAATTTTAAAAATTTTAAATC-AAGAAAAATCCCCCT-AAAAATTTACGAAGTAA-AAAACT
* *
426548 CCGTA-TTCGAAAATAGGAGAAATTCAAAAG-AAAATAAAAAACTTA
63 CTGTATTTCGAAAATAGGA-AAATTTAAAAGAAAAATAAAAAACTTA
426593 CGGAACAAGA
Statistics
Matches: 232, Mismatches: 33, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
163 29 0.12
164 122 0.53
165 45 0.19
166 36 0.16
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.30
Consensus pattern (163 bp):
GATGAATTTTAAAAATTTTAAATCAAGAAAAATCCCCCTAAAAATTTACGAAGTAAAAAACTCTG
TATTTCGAAAATAGGAAAATTTAAAAGAAAAATAAAAAACTTATGAAAATAAATAAATTTTTCAA
AAATAATTTAATATGAATCAAATAATAATATTT
Found at i:426612 original size:164 final size:164
Alignment explanation
Indices: 426093--426657 Score: 465
Period size: 164 Copynumber: 3.4 Consensus size: 164
426083 AAAAAATTCC
* * * * * * * *
426093 AAACTCAT-AAAATAAATTGAATTTCTAAAAACTGATTTAATGAGAATTCAATGACAAT-GTTAG
1 AAACTTATGAAAATAAA-TGAATTTTTTAAAACTAATTTAATGTGAATTAAATGATAATATTTA-
* * * * * * * *
426156 ATGAATTTTAAAAATTTTAAATCGAGAAAAATCCCCTCGAAAATATTTATGGAA-TAGAAAAA-T
64 ATAAATTTTAAAAATTATAAACCAAGAAAAATCCCC-CTAAAACAATTA-CGAAGTA-AAAAACT
*** * * *
426219 TAATTTTTTGAAAATAGG-GAAATTTCAAAGAAAAAATAAA
126 CCGTATTTCGAAAATAGGAGAAA-TTCAAA-AGAAAATAAA
* * * * * *
426259 AAACTTATGAAAATAAATGAATTTTTCAAAAATAATTTACTATGAATCAAATGATAATATTTGAT
1 AAACTTATGAAAATAAATGAATTTTTTAAAACTAATTTAATGTGAATTAAATGATAATATTTAAT
* * ** *
426324 GAATTTTAAAAATTATAAATCAAGAAAAATCCCCCTAAAACGTTTACGAAGTAAAAAACTCTGTA
66 AAATTTTAAAAATTATAAACCAAGAAAAATCCCCCTAAAACAATTACGAAGTAAAAAACTCCGTA
* **
426389 TTTCGAAAATAAGA-AAATTTTAAAGAAAAATAAA
131 TTTCGAAAATAGGAGAAATTCAAAAG-AAAATAAA
* * *
426423 AAACTTATGAAAATAAATAAATTTTTTACAACTAATTTAATGTGAATTAAATAATAATATTTAAT
1 AAACTTATGAAAATAAATGAATTTTTTAAAACTAATTTAATGTGAATTAAATGATAATATTTAAT
* * * *
426488 AAATTTTAAAAATTTTAACCCGATGAAAAA-CCTCCTGAAAA-AATTACGAAG-AAGAAAACTCC
66 AAATTTTAAAAATTATAAACC-AAGAAAAATCCCCCT-AAAACAATTACGAAGTAA-AAAACTCC
426550 GTA-TTCGAAAATAGGAGAAATTCAAAAGAAAATAAA
128 GTATTTCGAAAATAGGAGAAATTCAAAAGAAAATAAA
* * * * *
426586 AAACTTACGGAACAA-GAATGAATTTTTTAAAACTGATTTGATG-GTAACTAAA-GATAATATTT
1 AAACTTA-TGAA-AATAAATGAATTTTTTAAAACTAATTTAATGTG-AATTAAATGATAATATTT
426648 AA-AGAATTTT
63 AATA-AATTTT
426658 GATGCTTAAA
Statistics
Matches: 328, Mismatches: 57, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
162 1 0.00
163 48 0.15
164 157 0.48
165 40 0.12
166 72 0.22
167 10 0.03
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (164 bp):
AAACTTATGAAAATAAATGAATTTTTTAAAACTAATTTAATGTGAATTAAATGATAATATTTAAT
AAATTTTAAAAATTATAAACCAAGAAAAATCCCCCTAAAACAATTACGAAGTAAAAAACTCCGTA
TTTCGAAAATAGGAGAAATTCAAAAGAAAATAAA
Found at i:427080 original size:10 final size:11
Alignment explanation
Indices: 427051--427079 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
427041 CTCGAGTTTT
427051 TCAAAAAATTC
1 TCAAAAAATTC
427062 TCAAAAAATTC
1 TCAAAAAATTC
427073 TCAAAAA
1 TCAAAAA
427080 TAGAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.59, C:0.17, G:0.00, T:0.24
Consensus pattern (11 bp):
TCAAAAAATTC
Found at i:427860 original size:84 final size:84
Alignment explanation
Indices: 427684--427868 Score: 194
Period size: 84 Copynumber: 2.2 Consensus size: 84
427674 CCGTTAGGCT
* * * * * * *
427684 AACAAGGGATAAAAGAGTTAACCGAGATTAAACCAATAAGTTAACAAAGGATAAAAGGATTTACC
1 AACAAAGGATAAAAGGGTT-ACTGGGATTAAACCAAGAAGTCAACAAAAGATAAAAGGATTTACC
* * *
427749 TGAGTCTAAGCTAACAGGTA
65 AGAGACTAAGCTAACAAGTA
* * * *
427769 AATAAAGGATGAAAGGGTTACTGGGATTGAACCAAGAAGTCAGCAAAAGATAAAAGGATTTACCC
1 AACAAAGGATAAAAGGGTTACTGGGATTAAACCAAGAAGTCAACAAAAGATAAAAGGATTTA-CC
*
427834 AG-GACTAAG-TCAACAAGTC
65 AGAGACTAAGCT-AACAAGTA
427853 AACAAAGGATAAAAGG
1 AACAAAGGATAAAAGG
427869 ATTTACCTAG
Statistics
Matches: 81, Mismatches: 17, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
83 1 0.01
84 62 0.77
85 18 0.22
ACGTcount: A:0.47, C:0.13, G:0.22, T:0.18
Consensus pattern (84 bp):
AACAAAGGATAAAAGGGTTACTGGGATTAAACCAAGAAGTCAACAAAAGATAAAAGGATTTACCA
GAGACTAAGCTAACAAGTA
Found at i:427875 original size:127 final size:128
Alignment explanation
Indices: 427721--427956 Score: 332
Period size: 127 Copynumber: 1.9 Consensus size: 128
427711 TTAAACCAAT
* * * *
427721 AAGTTAACAAAGGATAAAAGGATTTACCT-GAGTCTAAGCTAACAGGTAAATAAAGGATGAAAGG
1 AAGTCAACAAAGGATAAAAGGATTTACCTAG-GTCTAAGCCAACAGGTAAACAAAGGATGAAAAG
* * *
427785 GTT-ACTGGGATTGAACCAAGAAGTCAGCAAAAGATAAAAGGATTTACCCAGGACTAAGTCAAC
65 GTTGACCGGGATTGAACCAACAAGTCAACAAAAGATAAAAGGATTTACCCAGGACTAAGTCAAC
* *
427848 AAGTCAACAAAGGATAAAAGGATTTACCTAGGTCTAAGCCGATAGGTAAACAAAGGATGAAAAGG
1 AAGTCAACAAAGGATAAAAGGATTTACCTAGGTCTAAGCCAACAGGTAAACAAAGGATGAAAAGG
* * * *
427913 TTGACCGGGATTGAATCGACAAGTCAATAAAGGATAAAAGGATT
66 TTGACCGGGATTGAACCAACAAGTCAACAAAAGATAAAAGGATT
427957 GACTTAGGTC
Statistics
Matches: 94, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
127 59 0.63
128 35 0.37
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (128 bp):
AAGTCAACAAAGGATAAAAGGATTTACCTAGGTCTAAGCCAACAGGTAAACAAAGGATGAAAAGG
TTGACCGGGATTGAACCAACAAGTCAACAAAAGATAAAAGGATTTACCCAGGACTAAGTCAAC
Found at i:427900 original size:43 final size:42
Alignment explanation
Indices: 427643--428334 Score: 163
Period size: 43 Copynumber: 16.3 Consensus size: 42
427633 ACAAGCCAAT
* * *
427643 CAAAGGATAAAAGGATTTACCTAAGGCTAAACCGTTAGGCT-AA
1 CAAAGGATAAAAGGATTTACCT-AGGTTAAGCCGATAGG-TAAA
* * * * * * * *
427686 CAAGGGATAAAA-GAGTTAACCGAGATTAAACCAATAAGTTAA
1 CAAAGGATAAAAGGA-TTTACCTAGGTTAAGCCGATAGGTAAA
** *
427728 CAAAGGATAAAAGGATTTACCT-GAGTCTAAGCTAACAGGTAAA
1 CAAAGGATAAAAGGATTTACCTAG-GT-TAAGCCGATAGGTAAA
* * * * * * * * *
427771 TAAAGGATGAAAGG-GTTA-CTGGGATTGAA-CCAAGAAGTCAG
1 CAAAGGATAAAAGGATTTACCTAGG-TT-AAGCCGATAGGTAAA
* * * * * * * *
427812 CAAAAGATAAAAGGATTTACCCAGGACTAAGTCAACAAGTCAA
1 CAAAGGATAAAAGGATTTACCTAGG-TTAAGCCGATAGGTAAA
427855 CAAAGGATAAAAGGATTTACCTAGGTCTAAGCCGATAGGTAAA
1 CAAAGGATAAAAGGATTTACCTAGGT-TAAGCCGATAGGTAAA
* * * * * *
427898 CAAAGGATGAAAAGG-TTGACC-GGGATTGAA-TCGACAAGTCAA
1 CAAAGGAT-AAAAGGATTTACCTAGG-TT-AAGCCGATAGGTAAA
* * * *
427940 TAAAGGATAAAAGGATTGACTTAGGTCTAAGCCAATAGGTAAA
1 CAAAGGATAAAAGGATTTACCTAGGT-TAAGCCGATAGGTAAA
* *** * * * * *
427983 CAAATGG-TGAAATGG-TTGGTC-GGGATTGAA-TCAATAAGTCAA
1 CAAA-GGAT-AAAAGGATTTACCTAGG-TT-AAGCCGATAGGTAAA
* * *
428025 CAAAGGATAAAAGAATTTACTTAGGACTAAGCCGATAGGTAAA
1 CAAAGGATAAAAGGATTTACCTAGG-TTAAGCCGATAGGTAAA
* * * * * * ** *
428068 CTAAGGATAAGAGG-CTGA-CTAGGATTGAA-CTGACAAGCCAAT
1 CAAAGGATAAAAGGATTTACCTAGG-TT-AAGCCGA-TAGGTAAA
* * * ***
428110 CAAAAGATAAATGGATTTACCTGGGATTAAATTG-TCAGGTAAA
1 CAAAGGATAAAAGGATTTACCTAGG-TTAAGCCGAT-AGGTAAA
* * * * * * *
428153 CAAAGGATGAAAAGG-TTGACCAAGATTGAA-CTGACAAGTCAA
1 CAAAGGAT-AAAAGGATTTACCTAGGTT-AAGCCGATAGGTAAA
* * * *
428195 CAAAGGATAAAAGGATTTACTTGGGACTAAGCCGACAGGTAAA
1 CAAAGGATAAAAGGATTTACCTAGG-TTAAGCCGATAGGTAAA
* * * *
428238 CAAAGGATAAAAGG--TTAACTAAGATTGAA-CCGACAAGTCAAA
1 CAAAGGATAAAAGGATTTACCT-AGGTT-AAGCCGATAGGT-AAA
* * * *
428280 -AAAAGATAAAAAGATTTACCTAGGACTAAGTCGATAGGTAAA
1 CAAAGGATAAAAGGATTTACCTAGG-TTAAGCCGATAGGTAAA
428322 CAAAGG-TAAAAGG
1 CAAAGGATAAAAGG
428335 TTGACTAGGA
Statistics
Matches: 465, Mismatches: 137, Indels: 95
0.67 0.20 0.14
Matches are distributed among these distances:
41 75 0.16
42 152 0.33
43 211 0.45
44 27 0.06
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (42 bp):
CAAAGGATAAAAGGATTTACCTAGGTTAAGCCGATAGGTAAA
Found at i:427945 original size:85 final size:83
Alignment explanation
Indices: 427846--428350 Score: 539
Period size: 85 Copynumber: 6.0 Consensus size: 83
427836 GACTAAGTCA
*
427846 ACAAGTCAACAAAGGATAAAAGGATTTACCTAGGTCTAAGCCGATAGGTAAACAAAGGATGAAAA
1 ACAAGTCAACAAAGGATAAAAGGATTTACCTAGGACTAAGCCGATAGGTAAACAAAGGAT-AAAA
*
427911 GGTTGACCGGGATTGAATCG
65 GGTTGACCAGGATTGAA-CG
* * * * *
427931 ACAAGTCAATAAAGGATAAAAGGATTGACTTAGGTCTAAGCCAATAGGTAAACAAATGG-TGAAA
1 ACAAGTCAACAAAGGATAAAAGGATTTACCTAGGACTAAGCCGATAGGTAAACAAA-GGAT-AAA
* ** * *
427995 TGGTTGGTCGGGATTGAATCA
64 AGGTTGACCAGGATTGAA-CG
* * * * *
428016 ATAAGTCAACAAAGGATAAAAGAATTTACTTAGGACTAAGCCGATAGGTAAACTAAGGATAAGAG
1 ACAAGTCAACAAAGGATAAAAGGATTTACCTAGGACTAAGCCGATAGGTAAACAAAGGATAAAAG
* *
428081 GCTGACTAGGATTGAACTG
66 GTTGACCAGGATTGAAC-G
* * * * * ***
428100 ACAAGCCAATCAAAAGATAAATGGATTTACCTGGGATTAAATTG-TCAGGTAAACAAAGGATGAA
1 ACAAGTCAA-CAAAGGATAAAAGGATTTACCTAGGACTAAGCCGAT-AGGTAAACAAAGGAT-AA
*
428164 AAGGTTGACCAAGATTGAACTG
63 AAGGTTGACCAGGATTGAAC-G
* * *
428186 ACAAGTCAACAAAGGATAAAAGGATTTACTTGGGACTAAGCCGACAGGTAAACAAAGGATAAAAG
1 ACAAGTCAACAAAGGATAAAAGGATTTACCTAGGACTAAGCCGATAGGTAAACAAAGGATAAAAG
* * *
428251 GTTAACTAAGATTGAACCG
66 GTTGACCAGGATTGAA-CG
* * * *
428270 ACAAGTCAAAAAAAGATAAAAAGATTTACCTAGGACTAAGTCGATAGGTAAACAAAGG-TAAAAG
1 ACAAGTCAACAAAGGATAAAAGGATTTACCTAGGACTAAGCCGATAGGTAAACAAAGGATAAAAG
*
428334 GTTGACTAGGATTGAAC
66 GTTGACCAGGATTGAAC
428351 CGATAAGTTG
Statistics
Matches: 353, Mismatches: 59, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
82 1 0.00
83 21 0.06
84 95 0.27
85 206 0.58
86 30 0.08
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (83 bp):
ACAAGTCAACAAAGGATAAAAGGATTTACCTAGGACTAAGCCGATAGGTAAACAAAGGATAAAAG
GTTGACCAGGATTGAACG
Found at i:428288 original size:41 final size:41
Alignment explanation
Indices: 428154--428290 Score: 125
Period size: 41 Copynumber: 3.3 Consensus size: 41
428144 TCAGGTAAAC
* * * *
428154 AAAGGATGAAAAGGTTGACCAAGATTGAACTGACAAGTCAAC
1 AAAGGAT-AAAAGGTTAACTAAGATTGAACCGACAAGTCAAA
* ** * *
428196 AAAGGATAAAAGGATTTACTTGGGACT-AAGCCGACAGGT-AAA
1 AAAGGATAAAAGG-TTAAC-TAAGATTGAA-CCGACAAGTCAAA
428238 CAAAGGATAAAAGGTTAACTAAGATTGAACCGACAAGTCAAA
1 -AAAGGATAAAAGGTTAACTAAGATTGAACCGACAAGTCAAA
*
428280 AAAAGATAAAA
1 AAAGGATAAAA
428291 AGATTTACCT
Statistics
Matches: 75, Mismatches: 14, Indels: 13
0.74 0.14 0.13
Matches are distributed among these distances:
41 28 0.37
42 24 0.32
43 23 0.31
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.17
Consensus pattern (41 bp):
AAAGGATAAAAGGTTAACTAAGATTGAACCGACAAGTCAAA
Found at i:428431 original size:41 final size:41
Alignment explanation
Indices: 428386--428523 Score: 136
Period size: 41 Copynumber: 3.4 Consensus size: 41
428376 GGCCAGGGAG
* *
428386 AAATCGATAAAGTCAACAGGTTAGAAGGGTTGACCAACGCA
1 AAATCGATAAAGTCAACAGATTAGAAGGGTTGACCAAGGCA
* * **
428427 AAATCGATAAAGTCAACCA-ATTAGAAGGG-TGGCCAGGGTG
1 AAATCGATAAAGTCAA-CAGATTAGAAGGGTTGACCAAGGCA
* * * * * *
428467 AAACCGATAAAGCCAATAGATTAAAAAGTTTGACCAAGGCA
1 AAATCGATAAAGTCAACAGATTAGAAGGGTTGACCAAGGCA
*
428508 AAATCAATAAAGTCAA
1 AAATCGATAAAGTCAA
428524 TGAGAATGAA
Statistics
Matches: 75, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
39 1 0.01
40 27 0.36
41 45 0.60
42 2 0.03
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.17
Consensus pattern (41 bp):
AAATCGATAAAGTCAACAGATTAGAAGGGTTGACCAAGGCA
Found at i:428460 original size:81 final size:81
Alignment explanation
Indices: 428361--428523 Score: 218
Period size: 81 Copynumber: 2.0 Consensus size: 81
428351 CGATAAGTTG
* * * * * *
428361 ACCAATTAAAAGGTTGGCCAGGGAGAAATCGATAAAGTCAACAGGTTAGAAGGGTTGACCAACGC
1 ACCAATTAAAAGGGTGGCCAGGGAGAAACCGATAAAGCCAACAGATTAAAAAGGTTGACCAACGC
*
428426 AAAATCGATAAAGTCA
66 AAAATCAATAAAGTCA
* * * * *
428442 ACCAATTAGAAGGGTGGCCAGGGTGAAACCGATAAAGCCAATAGATTAAAAAGTTTGACCAAGGC
1 ACCAATTAAAAGGGTGGCCAGGGAGAAACCGATAAAGCCAACAGATTAAAAAGGTTGACCAACGC
428507 AAAATCAATAAAGTCA
66 AAAATCAATAAAGTCA
428523 A
1 A
428524 TGAGAATGAA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.17
Consensus pattern (81 bp):
ACCAATTAAAAGGGTGGCCAGGGAGAAACCGATAAAGCCAACAGATTAAAAAGGTTGACCAACGC
AAAATCAATAAAGTCA
Found at i:428581 original size:46 final size:46
Alignment explanation
Indices: 428512--428633 Score: 129
Period size: 46 Copynumber: 2.7 Consensus size: 46
428502 AAGGCAAAAT
* * * * * *
428512 CAATAAAGTC-AATGAGAATGAAAAAGTTTTGACCAAGGTGGTAAT
1 CAATACAGTCAAACGAGAATGAAAAAGGTTTAACCAAGGTGATAAC
* *
428557 CGATACAGTCAAACGAGAATGAAAAGGGTTTAACCAAGGTGATAAC
1 CAATACAGTCAAACGAGAATGAAAAAGGTTTAACCAAGGTGATAAC
* * * *
428603 CAATGCAGTCAAACAAGGATGAAAAGGGTTT
1 CAATACAGTCAAACGAGAATGAAAAAGGTTT
428634 GTTTGGTAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
45 8 0.12
46 56 0.88
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.20
Consensus pattern (46 bp):
CAATACAGTCAAACGAGAATGAAAAAGGTTTAACCAAGGTGATAAC
Found at i:430102 original size:15 final size:15
Alignment explanation
Indices: 430068--430101 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
430058 TTTATTTTTT
430068 ATTTTGATTTCTGTA
1 ATTTTGATTTCTGTA
*
430083 ATTTTGATTTTTG-A
1 ATTTTGATTTCTGTA
430097 ATTTT
1 ATTTT
430102 TTACACATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.65
Consensus pattern (15 bp):
ATTTTGATTTCTGTA
Done.