Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 628 of 770
Found at i:196974976 original size:17 final size:17
Alignment explanation
Indices: 196974954--196974991 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
196974944 GAAAATTTTT
*
196974954 TTTAAAACTACCTCTTG
1 TTTAAAACTACCTCTTA
*
196974971 TTTAAAACTACTTCTTA
1 TTTAAAACTACCTCTTA
196974988 TTTA
1 TTTA
196974992 GATTAATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (17 bp):
TTTAAAACTACCTCTTA
Found at i:196979333 original size:46 final size:46
Alignment explanation
Indices: 196979283--196979548 Score: 242
Period size: 46 Copynumber: 5.7 Consensus size: 46
196979273 TGGTTGAGCA
196979283 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
196979329 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
196979374 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCCAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
196979422 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
196979467 CATCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
196979515 CCCGAGCTCTTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
196979549 GGGGCGGGTT
Statistics
Matches: 177, Mismatches: 25, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
42 4 0.02
43 8 0.05
45 5 0.03
46 88 0.50
47 56 0.32
48 5 0.03
50 7 0.04
51 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:196979398 original size:47 final size:47
Alignment explanation
Indices: 196979329--196979497 Score: 215
Period size: 47 Copynumber: 3.6 Consensus size: 47
196979319 GATGCGAATG
196979329 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
* *
196979376 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTG-GATGCCAA-T--G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C--GTGAAATG-TAACTAGGCA
196979422 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
* *
196979469 TCCGAACTCATTGAGTTGAGTCTGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
196979498 ACTTATGGAT
Statistics
Matches: 105, Mismatches: 6, Indels: 22
0.79 0.05 0.17
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 1 0.01
45 1 0.01
46 28 0.27
47 55 0.52
48 1 0.01
49 1 0.01
50 4 0.04
51 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
Found at i:196979439 original size:93 final size:93
Alignment explanation
Indices: 196979280--196979543 Score: 456
Period size: 93 Copynumber: 2.8 Consensus size: 93
196979270 GGATGGTTGA
196979280 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
196979345 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
196979373 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCCAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
196979438 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * * * *
196979466 GCATCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
196979531 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
196979544 ACTTAGGGGC
Statistics
Matches: 161, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 161 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:196982491 original size:15 final size:15
Alignment explanation
Indices: 196982468--196982523 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
196982458 GTATCTTGGG
196982468 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
196982483 TTCCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
196982498 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
196982513 TTTCTTTATTC
1 TTTCTTTATTC
196982524 AGTTTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.12, C:0.18, G:0.11, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:196983610 original size:41 final size:41
Alignment explanation
Indices: 196983543--196983846 Score: 416
Period size: 41 Copynumber: 7.4 Consensus size: 41
196983533 CGTTCCAAAA
* * * *
196983543 AAAACGCCGGTAAAAA-CATAGCATTAGCGGCGTTTTTTA-CT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCG--CTTTAGGT
* * * *
196983584 AAAATGCCACTAAAAA-CAGAGTATTAGCAGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
196983624 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
196983665 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
* * ** *
196983706 AAAACGCCGCTAATAAGCAGAGCAGCAGTGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
*
196983747 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAAGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
* **
196983788 AAAACGCCGCTAATAAGTAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
196983829 AAAACGCCGCTAAAAACC
1 AAAACGCCGCTAAAAACC
196983847 CCATAACCCC
Statistics
Matches: 231, Mismatches: 30, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 4 0.02
40 15 0.06
41 212 0.92
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
Found at i:196984025 original size:14 final size:15
Alignment explanation
Indices: 196984008--196984041 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
196983998 ATCATTATAT
196984008 TTTAAGGAT-TATGG
1 TTTAAGGATATATGG
196984022 TTTAA-GATATATGG
1 TTTAAGGATATATGG
196984036 TTTAAG
1 TTTAAG
196984042 CAGGTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (15 bp):
TTTAAGGATATATGG
Found at i:196987949 original size:134 final size:133
Alignment explanation
Indices: 196987726--196987978 Score: 470
Period size: 134 Copynumber: 1.9 Consensus size: 133
196987716 TGGTGATTCC
196987726 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTAGGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTAGGTGTTTAGTG
196987791 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCGTGTTGCTCACGTTTTATATAATAAAGTTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCGTGTTGCTCACGTTTTATATAATAAAGTTGT
196987856 TAT
131 TAT
* *
196987859 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTTCATGTTTCTATCCAACTTATGTGTTTAGT
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTG-TTTTCATGTTTCTATCCAACTTAGGTGTTTAGT
*
196987924 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
65 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCGTGTTGCTCACGTTTTATAT
196987979 TGTTGAATTC
Statistics
Matches: 116, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
133 30 0.26
134 86 0.74
ACGTcount: A:0.19, C:0.10, G:0.20, T:0.51
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTAGGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCGTGTTGCTCACGTTTTATATAATAAAGTTGT
TAT
Found at i:196989999 original size:21 final size:21
Alignment explanation
Indices: 196989970--196990009 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
196989960 GTTTTTATAT
*
196989970 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
196989991 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
196990010 GAATTAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:196991947 original size:15 final size:15
Alignment explanation
Indices: 196991904--196991956 Score: 74
Period size: 14 Copynumber: 3.7 Consensus size: 15
196991894 AACGACATGT
196991904 ATATTATTTAATTAA
1 ATATTATTTAATTAA
* *
196991919 A-ATAATTTTA-TAA
1 ATATTATTTAATTAA
196991932 ATATTATTTAATTAA
1 ATATTATTTAATTAA
196991947 ATATTATTTA
1 ATATTATTTA
196991957 TCCGCTACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 4 0.12
14 14 0.44
15 14 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:196992111 original size:14 final size:15
Alignment explanation
Indices: 196992087--196992116 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
196992077 TATAACATAT
196992087 AACATACATAACTTA
1 AACATACATAACTTA
196992102 AACA-ACATAACTTA
1 AACATACATAACTTA
196992116 A
1 A
196992117 TATAACTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (15 bp):
AACATACATAACTTA
Found at i:196992135 original size:7 final size:8
Alignment explanation
Indices: 196992069--196992147 Score: 58
Period size: 9 Copynumber: 9.8 Consensus size: 8
196992059 CATAATTTAC
196992069 ATAACTTAT
1 ATAAC-TAT
196992078 ATAAC-AT
1 ATAACTAT
*
196992085 ATAACATAC
1 ATAAC-TAT
196992094 ATAACT-T
1 ATAACTAT
* *
196992101 A-AACAAC
1 ATAACTAT
196992108 ATAACTTAAT
1 ATAAC-T-AT
196992118 ATAACTAT
1 ATAACTAT
196992126 ATAA-TAT
1 ATAACTAT
196992133 ATAACTTAT
1 ATAAC-TAT
196992142 ATAACT
1 ATAACT
196992148 TAGNNNNNNN
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
6 3 0.05
7 16 0.29
8 11 0.20
9 20 0.36
10 6 0.11
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (8 bp):
ATAACTAT
Found at i:196993213 original size:40 final size:39
Alignment explanation
Indices: 196993158--196993358 Score: 224
Period size: 40 Copynumber: 5.0 Consensus size: 39
196993148 NNNGATACCT
* * *
196993158 GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATATCCG
*
196993198 GGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATATCCG
* *
196993238 AGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATATCCG
* * *
196993278 GGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATATCCG
* * **
196993318 GGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGT-GTTATATCCG
196993358 G
1 G
196993359 TTAAATTCCG
Statistics
Matches: 140, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 135 0.96
41 2 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
GGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATATCCG
Found at i:196995375 original size:24 final size:23
Alignment explanation
Indices: 196995343--196995451 Score: 137
Period size: 24 Copynumber: 4.6 Consensus size: 23
196995333 ACCAAACGTT
* **
196995343 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
196995367 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
196995391 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
196995415 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
196995439 GCACACATAGTGC
1 GCACACATAGTGC
196995452 ATTTGAGATT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
23 2 0.03
24 68 0.89
25 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:196995417 original size:48 final size:48
Alignment explanation
Indices: 196995343--196995451 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
196995333 ACCAAACGTT
* **
196995343 GCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
196995391 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTATAATCGCACACATAGTGCCATAGTAAATC
196995439 GCACACATAGTGC
1 GCACACATAGTGC
196995452 ATTTGAGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 53 0.93
49 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (48 bp):
GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
Found at i:197008554 original size:29 final size:30
Alignment explanation
Indices: 197008471--197008554 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 30
197008461 CTATATCTGG
* *
197008471 CCCATTAAGCCC-AATCATATTCATATGGC
1 CCCATTAAGCCCAAATCACATTTATATGGC
* * * * *
197008500 CTCTTTACGCCCAAATCACCTATATAT-GC
1 CCCATTAAGCCCAAATCACATTTATATGGC
*
197008529 CCCATTAGGCCCAAATCACATTTATA
1 CCCATTAAGCCCAAATCACATTTATA
197008555 CAGGCCGTTA
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
29 32 0.76
30 10 0.24
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (30 bp):
CCCATTAAGCCCAAATCACATTTATATGGC
Found at i:197008813 original size:8 final size:8
Alignment explanation
Indices: 197008802--197008840 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
197008792 ACTTTCAGCT
197008802 TTTCGGCA
1 TTTCGGCA
*
197008810 TTTCGGCT
1 TTTCGGCA
*
197008818 TTTCGGTA
1 TTTCGGCA
197008826 TTTCGGCA
1 TTTCGGCA
197008834 TTTCGGC
1 TTTCGGC
197008841 TTTTGTCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.08, C:0.23, G:0.26, T:0.44
Consensus pattern (8 bp):
TTTCGGCA
Found at i:197008818 original size:16 final size:16
Alignment explanation
Indices: 197008794--197008840 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
197008784 GTAGCCAAAC
*
197008794 TTTCAGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
*
197008810 TTTCGGCTTTTCGGTA
1 TTTCGGCTTTTCGGCA
*
197008826 TTTCGGCATTTCGGC
1 TTTCGGCTTTTCGGC
197008841 TTTTGTCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:197014125 original size:29 final size:29
Alignment explanation
Indices: 197014086--197014160 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
197014076 GGTTGAGAGA
* *
197014086 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
197014115 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
197014144 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
197014161 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:197022022 original size:29 final size:29
Alignment explanation
Indices: 197021983--197022057 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
197021973 GGTTGAGAGA
* *
197021983 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
197022012 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
197022041 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
197022058 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:197022098 original size:2 final size:2
Alignment explanation
Indices: 197022093--197022117 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
197022083 GCGAACCCAC
197022093 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
197022118 TTTCTATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:197031415 original size:27 final size:29
Alignment explanation
Indices: 197031385--197031459 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
197031375 ATACCCTCCG
*
197031385 AGCTCGCACAC-CAGTGCCGTAT-TTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
197031412 AGCT-GCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
197031440 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
197031460 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.15
27 13 0.32
28 8 0.20
29 14 0.34
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:197031442 original size:28 final size:28
Alignment explanation
Indices: 197031331--197031458 Score: 91
Period size: 29 Copynumber: 4.5 Consensus size: 28
197031321 TACTCGATTT
* * *
197031331 CGCACACTTAGTGCCACGTAATTT-AAGCC
1 CGCACACTTAGTGCCA--TATTTTCCAGCA
** *** *
197031360 CGCACACACAGTGCCATACCCTCCGAGCT
1 CGCACACTTAGTGCCATATTTTCC-AGCA
* *
197031389 CGCACAC-CAGTGCCGTATTTTCCAGC-
1 CGCACACTTAGTGCCATATTTTCCAGCA
*
197031415 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAT-TTTCCAGCA
197031444 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
197031459 GATCTCGTCA
Statistics
Matches: 79, Mismatches: 15, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
26 6 0.08
27 15 0.19
28 20 0.25
29 38 0.48
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATTTTCCAGCA
Found at i:197039262 original size:29 final size:29
Alignment explanation
Indices: 197039230--197039307 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
197039220 ATACCCTCCG
** *
197039230 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
197039259 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
197039288 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
197039308 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:197044419 original size:49 final size:49
Alignment explanation
Indices: 197044315--197044672 Score: 553
Period size: 49 Copynumber: 7.3 Consensus size: 49
197044305 ATGCATGAGA
197044315 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
197044364 TATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
197044415 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
197044464 TGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
197044513 TATATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAGGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
197044562 TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
197044611 --TATATATGTGATAGGGCCGAGTGGCCAAAGTGATGGATGTGGAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
197044658 TATA-A-ATGTGATAAG
1 TATATATATGTGATAAG
197044673 TCCCGAAGGG
Statistics
Matches: 287, Mismatches: 18, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
47 50 0.17
48 1 0.00
49 187 0.65
51 49 0.17
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:197046842 original size:40 final size:40
Alignment explanation
Indices: 197046787--197046978 Score: 339
Period size: 40 Copynumber: 4.8 Consensus size: 40
197046777 GAGAATTGAG
*
197046787 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
197046827 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
197046867 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
197046907 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
197046947 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
197046979 ATCATGCTGG
Statistics
Matches: 146, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:197048812 original size:49 final size:49
Alignment explanation
Indices: 197048751--197049253 Score: 843
Period size: 49 Copynumber: 10.3 Consensus size: 49
197048741 ATGCATGAGA
197048751 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
197048800 TATATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
197048849 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
197048898 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
197048947 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
197048996 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
197049045 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
197049094 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAGGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
197049143 TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
197049192 --TATATATGTGATAGGGCCGAGTGGCCAAAGTGATGGATGTGGAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
197049239 TATA-A-ATGTGATAAG
1 TATATATATGTGATAAG
197049254 TCCCGAAGGT
Statistics
Matches: 432, Mismatches: 20, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
47 50 0.12
48 1 0.00
49 381 0.88
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:197051330 original size:28 final size:28
Alignment explanation
Indices: 197051284--197051352 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
197051274 TTTAAAACCC
*
197051284 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
197051311 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
197051339 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
197051353 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:197053003 original size:20 final size:20
Alignment explanation
Indices: 197052980--197053017 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
197052970 CACATCCAAA
*
197052980 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
197053000 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
197053018 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:197059304 original size:28 final size:28
Alignment explanation
Indices: 197059269--197059326 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
197059259 CTAGGGTATA
197059269 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
197059297 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
197059325 TC
1 TC
197059327 ATGATCTACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.17, C:0.12, G:0.24, T:0.47
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:197065929 original size:71 final size:71
Alignment explanation
Indices: 197065845--197066008 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
197065835 CGATTTGTCT
197065845 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
197065910 CTTTCA
66 CTTTCA
* *
197065916 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
197065981 CTTTCA
66 CTTTCA
197065987 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
197066009 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:197066046 original size:71 final size:70
Alignment explanation
Indices: 197065845--197066042 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
197065835 CGATTTGTCT
* * * * *
197065845 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
197065910 CTTTCA
65 CTTTCA
* * * *
197065916 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
197065981 CTTTCA
65 CTTTCA
* *
197065987 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
197066043 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:197067724 original size:29 final size:29
Alignment explanation
Indices: 197067691--197067811 Score: 172
Period size: 29 Copynumber: 4.2 Consensus size: 29
197067681 TGACGAGATC
*
197067691 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
*
197067720 GGCACTAAGTGTGCATGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAATATAT
197067749 GGCACTAAGTGTGCATGCTGGAAA-ATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
* * * * *
197067777 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAATATAT
197067806 GGCACT
1 GGCACT
197067812 GGGTGTGCGA
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
28 24 0.29
29 59 0.71
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAATATAT
Found at i:197067819 original size:57 final size:58
Alignment explanation
Indices: 197067690--197067811 Score: 183
Period size: 57 Copynumber: 2.1 Consensus size: 58
197067680 GTGACGAGAT
* * * *
197067690 CGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATA
1 CGGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCAAGCTGGAAAAATA
* *
197067748 AGGCACTAAGTGTGCATGCTGGAAA-ATATGACACTATGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCAAGCTGGAAAAATA
197067805 CGGCACT
1 CGGCACT
197067812 GGGTGTGCGA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 34 0.60
58 23 0.40
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (58 bp):
CGGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCAAGCTGGAAAAATA
Found at i:197072008 original size:24 final size:24
Alignment explanation
Indices: 197071976--197072024 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
197071966 CCACAAGGCT
197071976 TCATCCAACCTCACTGATC-AATCC
1 TCATCCAACCTCACTGA-CAAATCC
197072000 TCATCCAACCTCACTGACAAATCC
1 TCATCCAACCTCACTGACAAATCC
197072024 T
1 T
197072025 TATAGTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.31, C:0.41, G:0.04, T:0.24
Consensus pattern (24 bp):
TCATCCAACCTCACTGACAAATCC
Found at i:197083886 original size:30 final size:30
Alignment explanation
Indices: 197083850--197084009 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
197083840 GACAAGATTG
* * * * *
197083850 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
197083880 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
197083908 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
197083937 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
197083967 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
197083996 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
197084010 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:197083978 original size:59 final size:57
Alignment explanation
Indices: 197083850--197084009 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
197083840 GACAAGATTG
* * * * * *
197083850 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
197083908 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
197083967 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
197084010 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:197091936 original size:30 final size:30
Alignment explanation
Indices: 197091900--197092059 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
197091890 GACAAGATTG
* * * * *
197091900 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
197091930 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
197091958 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
197091987 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
197092017 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
197092046 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
197092060 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:197092028 original size:59 final size:57
Alignment explanation
Indices: 197091900--197092059 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
197091890 GACAAGATTG
* * * * * *
197091900 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
197091958 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
197092017 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
197092060 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:197095325 original size:13 final size:14
Alignment explanation
Indices: 197095309--197095344 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
197095299 CAATCTCATA
197095309 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
197095322 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
197095335 TCTC-ATTTCA
1 TCTCAATTTCA
197095345 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:197095334 original size:18 final size:19
Alignment explanation
Indices: 197095296--197095336 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
197095286 TGGTTCATGT
197095296 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
197095315 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
197095333 TTTC
1 TTTC
197095337 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:197095526 original size:39 final size:38
Alignment explanation
Indices: 197095459--197095593 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
197095449 ACCAATATGG
* * *
197095459 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
197095498 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
197095536 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
197095577 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
197095594 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:197095859 original size:18 final size:19
Alignment explanation
Indices: 197095833--197095871 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
197095823 TTTCAATTCA
197095833 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
197095852 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
197095870 AT
1 AT
197095872 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:197097199 original size:5 final size:5
Alignment explanation
Indices: 197097189--197097238 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
197097179 TTACTTATTT
* *
197097189 ATATA ATATA A-AT- ATAATA ATATA CTATA ATATA ATAATA ATTTA ATATA
1 ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA AT-ATA ATATA ATATA
197097239 TATTAACACA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 1 0.03
4 2 0.05
5 27 0.73
6 7 0.19
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:197101715 original size:13 final size:14
Alignment explanation
Indices: 197101699--197101734 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
197101689 CAATCTCATA
197101699 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
197101712 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
197101725 TCTC-ATTTCA
1 TCTCAATTTCA
197101735 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:197101724 original size:18 final size:19
Alignment explanation
Indices: 197101686--197101726 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
197101676 TGGTTCATGT
197101686 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
197101705 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
197101723 TTTC
1 TTTC
197101727 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:197101915 original size:39 final size:40
Alignment explanation
Indices: 197101872--197101983 Score: 102
Period size: 38 Copynumber: 2.8 Consensus size: 40
197101862 TCGGATAGTT
* *
197101872 CGAAGCAATATTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
* * ** ** * *
197101911 CGAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
*
197101950 CGAAGAAATATAGTGACACCCAGTGTCTCATCGA
1 CGAAGAAATAT-TTGACACCCAGTGTCTCATCGA
197101984 CTCGAGGTCG
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
38 18 0.33
39 18 0.33
40 1 0.02
41 17 0.31
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:197102248 original size:18 final size:19
Alignment explanation
Indices: 197102222--197102260 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
197102212 TTTCAATTCA
197102222 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
197102241 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
197102259 AT
1 AT
197102261 ATCTATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:197103585 original size:5 final size:5
Alignment explanation
Indices: 197103575--197103627 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
197103565 TTACTTATTT
* *
197103575 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
197103623 ATATA
1 ATATA
197103628 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:197103591 original size:12 final size:12
Alignment explanation
Indices: 197103574--197103629 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
197103564 TTTACTTATT
197103574 TATATAATATAA
1 TATATAATATAA
197103586 TATATAATATAATA
1 TATATAATAT-A-A
197103600 TACTATAATATAA
1 TA-TATAATATAA
*
197103613 TA-ATAATTTAA
1 TATATAATATAA
197103624 TATATA
1 TATATA
197103630 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:197104235 original size:13 final size:13
Alignment explanation
Indices: 197104217--197104241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
197104207 AAGGGTTGAT
197104217 TTAGGTTAGATCG
1 TTAGGTTAGATCG
197104230 TTAGGTTAGATC
1 TTAGGTTAGATC
197104242 ATACCAACTC
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:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TTAGGTTAGATCG
Found at i:197108690 original size:13 final size:13
Alignment explanation
Indices: 197108672--197108703 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
197108662 AAATTGAAGT
197108672 CACACGGCCAAGC
1 CACACGGCCAAGC
197108685 CACACGGCCAAGC
1 CACACGGCCAAGC
197108698 CACACG
1 CACACG
197108704 CCCGTGTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.47, G:0.22, T:0.00
Consensus pattern (13 bp):
CACACGGCCAAGC
Found at i:197112979 original size:17 final size:17
Alignment explanation
Indices: 197112957--197113078 Score: 85
Period size: 17 Copynumber: 6.9 Consensus size: 17
197112947 ATGGAAATAT
*
197112957 AATCTTCAATGATATGC
1 AATCTTAAATGATATGC
*
197112974 AATCTTAAAT-ATGATAC
1 AATCTTAAATGAT-ATGC
197112991 AATCTTAGATATGAT-TGC
1 AATCTTA-A-ATGATATGC
197113009 AATCTTAGATATGATA--C
1 AATCTTA-A-ATGATATGC
197113026 AATCTTAGATATGAT-TGC
1 AATCTTA-A-ATGATATGC
*
197113044 AATCTTAGATATGATATAC
1 AATCTTA-A-ATGATATGC
197113063 AATCTTAGAA-GATATG
1 AATCTTA-AATGATATG
197113079 ATTTTGTAAT
Statistics
Matches: 92, Mismatches: 5, Indels: 16
0.81 0.04 0.14
Matches are distributed among these distances:
16 2 0.02
17 40 0.43
18 35 0.38
19 13 0.14
20 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (17 bp):
AATCTTAAATGATATGC
Found at i:197113011 original size:35 final size:35
Alignment explanation
Indices: 197112965--197113071 Score: 178
Period size: 35 Copynumber: 3.0 Consensus size: 35
197112955 ATAATCTTCA
*
197112965 ATGATATGCAATCTTAAATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
197113001 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
197113036 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
197113072 AGATATGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 50 0.74
36 5 0.07
37 13 0.19
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:197113013 original size:18 final size:18
Alignment explanation
Indices: 197112973--197113071 Score: 148
Period size: 18 Copynumber: 5.6 Consensus size: 18
197112963 CAATGATATG
*
197112973 CAATCTTAAATATGA-TA
1 CAATCTTAGATATGATTA
*
197112990 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
197113008 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
197113025 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
197113043 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
197113062 CAATCTTAGA
1 CAATCTTAGA
197113072 AGATATGATT
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
17 30 0.41
18 33 0.45
19 11 0.15
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:197113578 original size:17 final size:17
Alignment explanation
Indices: 197113558--197113611 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
197113548 CTAATATATT
197113558 TTATATATTTTATATAA
1 TTATATATTTTATATAA
197113575 TTAT-TATTCTTATA-AA
1 TTATATATT-TTATATAA
197113591 -TATAT-TTTT-T-T-A
1 TTATATATTTTATATAA
197113603 TTATATATT
1 TTATATATT
197113612 ATATTTCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 13
0.71 0.00 0.29
Matches are distributed among these distances:
12 1 0.03
13 6 0.19
14 4 0.12
15 5 0.16
16 7 0.22
17 9 0.28
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATATATTTTATATAA
Found at i:197119044 original size:16 final size:15
Alignment explanation
Indices: 197119019--197119074 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
197119009 CTTCTATTTC
197119019 AAAAAAAAAAAGAAA
1 AAAAAAAAAAAGAAA
*
197119034 AGAAAAGAAAAAGAGAA
1 A-AAAAAAAAAAGA-AA
* *
197119051 AAAAATAAAGAGAAA
1 AAAAAAAAAAAGAAA
197119066 AAATAAAAA
1 AAA-AAAAA
197119075 TATGGAGAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
15 6 0.18
16 25 0.74
17 3 0.09
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (15 bp):
AAAAAAAAAAAGAAA
Found at i:197119050 original size:18 final size:17
Alignment explanation
Indices: 197119019--197119052 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
197119009 CTTCTATTTC
197119019 AAAAAAAAAAAGAAAAG
1 AAAAAAAAAAAGAAAAG
*
197119036 AAAAGAAAAAGAGAAAA
1 AAAA-AAAAAAAGAAAA
197119053 AAATAAAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAGAAAAG
Found at i:197119053 original size:14 final size:14
Alignment explanation
Indices: 197119023--197119072 Score: 61
Period size: 13 Copynumber: 3.8 Consensus size: 14
197119013 TATTTCAAAA
*
197119023 AAAAAAAGAAA-AG
1 AAAAAAATAAAGAG
*
197119036 AAAAGAA-AAAGAG
1 AAAAAAATAAAGAG
197119049 AAAAAAATAAAGAG
1 AAAAAAATAAAGAG
197119063 -AAAAAATAAA
1 AAAAAAATAAA
197119073 AATATGGAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 3 0.09
13 24 0.73
14 6 0.18
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (14 bp):
AAAAAAATAAAGAG
Found at i:197119143 original size:8 final size:8
Alignment explanation
Indices: 197119130--197119169 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
197119120 TCTATTTCAA
197119130 AAAAAAAG
1 AAAAAAAG
197119138 AAAAAAAG
1 AAAAAAAG
197119146 AAAAGAAAAG
1 -AAA-AAAAG
*
197119156 AAAAAGAG
1 AAAAAAAG
197119164 AAAAAA
1 AAAAAA
197119170 TAAAGAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 17 0.61
9 6 0.21
10 5 0.18
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:197119154 original size:18 final size:18
Alignment explanation
Indices: 197119128--197119175 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
197119118 CTTCTATTTC
197119128 AAAAAAAAAGAAAAAAAG
1 AAAAAAAAAGAAAAAAAG
* *
197119146 AAAAGAAAAGAAAAAGAG
1 AAAAAAAAAGAAAAAAAG
197119164 AAAAAATAAAGA
1 AAAAAA-AAAGA
197119176 GAAACAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAAG
Found at i:197119178 original size:26 final size:23
Alignment explanation
Indices: 197119128--197119179 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 23
197119118 CTTCTATTTC
197119128 AAAAAAAAAGAAAAAAAGAAAAG
1 AAAAAAAAAGAAAAAAAGAAAAG
*
197119151 AAAAGAAAAAGAGAAAAAATAAAGAG
1 AAAA-AAAAAGA-AAAAAAGAAA-AG
197119177 AAA
1 AAA
197119180 CAATAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 4 0.16
24 7 0.28
25 9 0.36
26 5 0.20
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAGAAAAAAAGAAAAG
Found at i:197119184 original size:13 final size:13
Alignment explanation
Indices: 197119128--197119186 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
197119118 CTTCTATTTC
197119128 AAAAAA-AAAGA-
1 AAAAAATAAAGAG
*
197119139 AAAAAAGAAA-AG
1 AAAAAATAAAGAG
197119151 AAAAGAA-AAAGAG
1 AAAA-AATAAAGAG
197119164 AAAAAATAAAGAG
1 AAAAAATAAAGAG
*
197119177 AAACAATAAA
1 AAAAAATAAA
197119187 AATATGGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
11 7 0.17
12 12 0.29
13 23 0.55
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.03
Consensus pattern (13 bp):
AAAAAATAAAGAG
Found at i:197119216 original size:114 final size:109
Alignment explanation
Indices: 197118977--197119221 Score: 411
Period size: 114 Copynumber: 2.2 Consensus size: 109
197118967 AGAAGGGAAG
197118977 CAAGGTGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTCAAAAAAAAAAAGAAAAGAAAAGA
1 CAAGGTGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTCAAAAAAAAAAAGAAAAGAAAAGA
*
197119042 AAAAGAGAAAAAAATAAAGAGAAAAAATAAAAATATGGAGAGGC
66 AAAAGAGAAAAAAATAAAGAGAAAAAATAAAAATATGGAAAGGC
197119086 CAAGGTGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTCAAAAAAAAAGAAAAAAAGAAAAG
1 CAAGGTGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTC-----AAAA-AAAAAAAGAAAAG
*
197119151 AAAAGAAAAAGAG-AAAAAATAAAGAGAAACAATAAAAATATGGAAAGGC
60 AAAAGAAAAAGAGAAAAAAATAAAGAGAAAAAATAAAAATATGGAAAGGC
197119200 CAAGGTGAAAACCCGCAAAGGG
1 CAAGGTGAAAACCCGCAAAGGG
197119222 TGCCTTGAGA
Statistics
Matches: 128, Mismatches: 2, Indels: 7
0.93 0.01 0.05
Matches are distributed among these distances:
109 42 0.33
114 60 0.47
115 26 0.20
ACGTcount: A:0.56, C:0.11, G:0.21, T:0.12
Consensus pattern (109 bp):
CAAGGTGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTCAAAAAAAAAAAGAAAAGAAAAGA
AAAAGAGAAAAAAATAAAGAGAAAAAATAAAAATATGGAAAGGC
Found at i:197121485 original size:17 final size:19
Alignment explanation
Indices: 197121462--197121507 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
197121452 AAGAAGCATG
197121462 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
197121480 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
197121498 AATCATGCTC
1 AATCATGCTC
197121508 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:197132733 original size:40 final size:39
Alignment explanation
Indices: 197132676--197132858 Score: 214
Period size: 40 Copynumber: 4.7 Consensus size: 39
197132666 TCGAATGATG
* *
197132676 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
197132716 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
197132755 TTCCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
197132794 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
197132834 ACC-GGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
197132859 AACAGTAGCT
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
38 33 0.26
39 24 0.19
40 62 0.49
41 7 0.06
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:197132811 original size:78 final size:79
Alignment explanation
Indices: 197132676--197132831 Score: 210
Period size: 78 Copynumber: 2.0 Consensus size: 79
197132666 TCGAATGATG
*
197132676 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTC
1 TCCGGGCTAAG-CCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
197132741 GTGCGAGTTACTAAT
65 GTGCGAGTTACTAAT
* * **
197132756 TCCGGGCTAAG-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
*
197132818 TGTGCGAGTTACTA
64 CGTGCGAGTTACTA
197132832 TAACCGGCTA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 49 0.72
79 7 0.10
80 11 0.16
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTCG
TGCGAGTTACTAAT
Found at i:197137435 original size:28 final size:28
Alignment explanation
Indices: 197137372--197137471 Score: 130
Period size: 27 Copynumber: 3.5 Consensus size: 28
197137362 ATAGTGAGTC
*
197137372 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATACAATCAAACT
197137399 CGCACACTTAGTGCTATACAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
* * *
197137427 CGCACACTTAGTGCTGTACAAATTTTAAACC
1 CGCACACTTAGTGCTATAC-AA--TCAAACT
197137458 CGCACACTTAGTGC
1 CGCACACTTAGTGC
197137472 CAATTTCATG
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 2 0.03
31 19 0.29
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:197145267 original size:28 final size:28
Alignment explanation
Indices: 197145204--197145303 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
197145194 ATAGTGAGTC
* *
197145204 CGCACACTTAATGCTATATAATC-AACT
1 CGCACACTTAGTGCTATACAATCAAACT
197145231 CGCACACTTAGTGCTATACAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
* * *
197145259 CGCACACTTAGTGCTGTACAAATTTTAAACC
1 CGCACACTTAGTGCTATAC-AA--TCAAACT
197145290 CGCACACTTAGTGC
1 CGCACACTTAGTGC
197145304 CAATTTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 21 0.33
28 22 0.34
29 2 0.03
31 19 0.30
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:197146421 original size:24 final size:25
Alignment explanation
Indices: 197146375--197146426 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
197146365 CACTTTTTTT
197146375 TTTCTTTTCTTTGTTTTCATCA-TA
1 TTTCTTTTCTTTGTTTTCATCATTA
**
197146399 TTTCTTTTTCTTT-TTTTTTTCATTA
1 TTTC-TTTTCTTTGTTTTCATCATTA
197146424 TTT
1 TTT
197146427 TATCACCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.10, C:0.13, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTCTTTTCTTTGTTTTCATCATTA
Found at i:197146425 original size:25 final size:29
Alignment explanation
Indices: 197146373--197146426 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
197146363 GACACTTTTT
197146373 TTTTTCTTTTCTTTGTTTTCATCATATTTC
1 TTTTTCTTTTCTTTGTTTTCAT-ATATTTC
197146403 TTTTTC-TTT-TTT-TTTTCAT-TATTT
1 TTTTTCTTTTCTTTGTTTTCATATATTT
197146427 TATCACCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 5 0.21
27 7 0.29
28 3 0.12
29 3 0.12
30 6 0.25
ACGTcount: A:0.09, C:0.13, G:0.02, T:0.76
Consensus pattern (29 bp):
TTTTTCTTTTCTTTGTTTTCATATATTTC
Found at i:197150228 original size:71 final size:71
Alignment explanation
Indices: 197150140--197150303 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
197150130 GAGATGTATC
197150140 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
197150205 AGGACA
66 AGGACA
*
197150211 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
197150276 CGGACA
66 AGGACA
197150282 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
197150304 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:197151717 original size:39 final size:39
Alignment explanation
Indices: 197151636--197151769 Score: 196
Period size: 39 Copynumber: 3.4 Consensus size: 39
197151626 TATGGTAACC
** *
197151636 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
197151676 CGCACAATTGCCTTCGGGCTTAGGCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
197151715 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
197151754 CGCACAATTGCCTTCG
1 CGCACAATTGCCTTCG
197151770 TGTAACACCC
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 68 0.81
40 16 0.19
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:197162398 original size:25 final size:27
Alignment explanation
Indices: 197162361--197162413 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
197162351 TCAAACATGC
197162361 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
197162387 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
197162413 A
1 A
197162414 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:197163927 original size:26 final size:26
Alignment explanation
Indices: 197163891--197164000 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
197163881 CATGAAATTC
197163891 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
197163917 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
197163943 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
197163969 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
197163995 TTATCA
1 TTATCA
197164001 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:197164429 original size:2 final size:2
Alignment explanation
Indices: 197164422--197164453 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
197164412 TGATCACATA
197164422 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
197164454 TGTAGCGACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:197166003 original size:2 final size:2
Alignment explanation
Indices: 197165996--197166024 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
197165986 TATGAAAAAG
197165996 AT AT 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 A
197166025 ATAGCGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:197166152 original size:2 final size:2
Alignment explanation
Indices: 197166095--197166135 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
197166085 AATATTGAAA
197166095 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT A
197166136 GAATAAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:197167245 original size:22 final size:22
Alignment explanation
Indices: 197167205--197167248 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
197167195 AGCCGGTCAC
*
197167205 CGGTCCGTCACCGGACCACCGT
1 CGGTCCGGCACCGGACCACCGT
197167227 CGGTGCCGGCACCGG-CCACCGT
1 CGGT-CCGGCACCGGACCACCGT
197167249 ACAAGGTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.11, C:0.45, G:0.32, T:0.11
Consensus pattern (22 bp):
CGGTCCGGCACCGGACCACCGT
Found at i:197167299 original size:15 final size:14
Alignment explanation
Indices: 197167262--197167303 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
197167252 AGGTAAGTTT
*
197167262 TTTATTTTTCT-T-
1 TTTATTTTTTTATA
197167274 TTTATTTTTTTATA
1 TTTATTTTTTTATA
197167288 TTTATTTGTTTTATA
1 TTTATTT-TTTTATA
197167303 T
1 T
197167304 CTTTCTATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 10 0.38
13 1 0.04
14 7 0.27
15 8 0.31
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (14 bp):
TTTATTTTTTTATA
Found at i:197167695 original size:8 final size:8
Alignment explanation
Indices: 197167682--197167706 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
197167672 ACGGGTAGGT
197167682 GCAAGTGG
1 GCAAGTGG
197167690 GCAAGTGG
1 GCAAGTGG
197167698 GCAAGTGG
1 GCAAGTGG
197167706 G
1 G
197167707 AGCTGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:197170282 original size:10 final size:10
Alignment explanation
Indices: 197170251--197170275 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
197170241 AATTTCATTA
197170251 CTGTCATTTG
1 CTGTCATTTG
197170261 CTGTCATTTG
1 CTGTCATTTG
197170271 CTGTC
1 CTGTC
197170276 CATTGCTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.24, G:0.20, T:0.48
Consensus pattern (10 bp):
CTGTCATTTG
Found at i:197172111 original size:515 final size:513
Alignment explanation
Indices: 197170591--197174267 Score: 6275
Period size: 515 Copynumber: 7.2 Consensus size: 513
197170581 TGGGTCTTAC
** * * * *
197170591 AGTATTCATGATATTCGTGATATTTTTCTAAATTTTTTTTTATTTTCCCGAATATTATATACTTC
1 AGTATTCATGATATTCGTGATATTTTTCTAAAAATATTTTTATTTTCCGGAATATTATATACCTA
197170656 TTTAGTTAATATTGTAACTTCTCTCAATGAAACCCCATTTTAATTTATTTTTCAATAAAATATTT
66 TTTAGTTAATATTGTAACTTCTCTCAATGAAACCCCATTTTAATTTATTTTTCAATAAAATATTT
*
197170721 ATTTTAACCAAAAAATACTTAAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTTCGGA
131 ATTTTAACCAAAAAATATTTAAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTTCGGA
* * * * *
197170786 AAATTATTTACCTATTTTTAAATGAAATTAAGCAAACTAA-TTTTTTTAAATAAATAACTAGTAA
196 ATATTATTTACCGATTTTTAAATGAAATTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAA
*
197170850 ACCCGATTAACACCTAGCTTTCACCCGGAACTCGATAAACTTACTCAAAACTAGTAGACCTATTT
261 ACCCGATTAACTCCTAGCTTTCACCCGGAACTCGATAAACTTACTCAAAACTAGTAGACCTATTT
197170915 TTAGGGCGTTACAAACACAACATACTTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAG
326 TTAGGGCGTTACAAACACAACATACTTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAG
* * * **
197170980 GATTGTGATCGAAGAGCTTCTATGAAAGATAAGCAGAATTTGATGGTCTAGAAAGGAGCCG-GGA
391 GATTGTGATCGAGGAGCTTCTATGAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGA-AAGAGGA
* *
197171044 AAATATTGGGCGATACTCCCATGGAAGAATTTGTGTCAGCATAAAAGGATGGGGGTATT
455 AAATATTGGGCGATACTCCCGTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATT
* *
197171103 AGTATTCATGATATTTGTGATATTTTTCTAAAAATATTTTTATTTTCCGGAATACTATATACCTA
1 AGTATTCATGATATTCGTGATATTTTTCTAAAAATATTTTTATTTTCCGGAATATTATATACCTA
*
197171168 TTTAGTTAATATTGTAACTTCTCTCAATGGAACCCCATTTTAATTTATTTTTCAATAAAATATTT
66 TTTAGTTAATATTGTAACTTCTCTCAATGAAACCCCATTTTAATTTATTTTTCAATAAAATATTT
* * * *
197171233 ATTTTAACCAAAATATATTTAAAACCATAAAATTGATTTTTCTAAAAATATTTTAATTTTCCGGA
131 ATTTTAACCAAAAAATATTTAAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTTCGGA
* * *
197171298 ATATTATTTACCTATTTTTAAATGAAATTAAGCTAACTAATTTTTTTTTATACAAATGACTAGTA
196 ATATTATTTACCGATTTTTAAATGAAATTAAGCTAACTAA-TTTTTTTTAAAGAAATGACTAGTA
*
197171363 AACACGATTAACTCCTAGCTTTCACCCGGAACTCGATAAACTTACTCAAAACTAGTAGACCTATT
260 AACCCGATTAACTCCTAGCTTTCACCCGGAACTCGATAAACTTACTCAAAACTAGTAGACCTATT
* *
197171428 TTTAGGGCATTACAAACACAACATAATTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTA
325 TTTAGGGCGTTACAAACACAACATACTTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTA
*
197171493 GGATTGTGATCGAGGAGCTTCTATCAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGA
390 GGATTGTGATCGAGGAGCTTCTATGAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGA
*
197171558 AAATATTGGGTGATACTCCCGTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATT
455 AAATATTGGGCGATACTCCCGTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATT
197171617 AGTATTCATGATATTCGTGATATTTTTCTAAAAATATTTTTATTTTCCGGAATATTATATACCTA
1 AGTATTCATGATATTCGTGATATTTTTCTAAAAATATTTTTATTTTCCGGAATATTATATACCTA
* *
197171682 TTTAGTTAATATTGTAACTTCTCTAAATGAAACCCCATTTTAATTTATTTTTCAATAAAATATTC
66 TTTAGTTAATATTGTAACTTCTCTCAATGAAACCCCATTTTAATTTATTTTTCAATAAAATATTT
197171747 ATTTTAACCAAAAAATATTTAAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTTCGGA
131 ATTTTAACCAAAAAATATTTAAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTTCGGA
*
197171812 AAATTATTTACCGATTTTTAAATGAAATTAAGCTAACTAATTTTTTTTAAAAAGAAATGACTAGT
196 ATATTATTTACCGATTTTTAAATGAAATTAAGCTAACTAATTTTTTTT--AAAGAAATGACTAGT
* *
197171877 AAACCTGATTAACTCCTAGCTTTCACCCGAAACTCGATAAACTTACTCAAAACTAGTAGACCTAT
259 AAACCCGATTAACTCCTAGCTTTCACCCGGAACTCGATAAACTTACTCAAAACTAGTAGACCTAT
*
197171942 TTTTAGGGCGTTACAAACACAACATACTTTGGAAAATTTGCGATTACAAGCAGGTTTGGACAATT
324 TTTTAGGGCGTTACAAACACAACATACTTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATT
* * * *
197172007 AGGATTGTGATCAAGGAGCTTCTATCAAAGATAAGCAGAATTTGGTGGTTTGGAAAGGAAAGGGG
389 AGGATTGTGATCGAGGAGCTTCTATGAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGG
*
197172072 AAAATATTGGGCGATACTCCCGTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGTTATT
454 AAAATATTGGGCGATACTCCCGTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATT
*
197172132 AGTATTCATGATATTAGTGATATTTTTCTAAAAATATTTTTATTTTCCGGAATATTATATACCTA
1 AGTATTCATGATATTCGTGATATTTTTCTAAAAATATTTTTATTTTCCGGAATATTATATACCTA
*
197172197 TTTAGTTAATATTGTAACTTCTCTCAATTAAACCCCATTTTAATTTATTTTTCAATAAAATATTT
66 TTTAGTTAATATTGTAACTTCTCTCAATGAAACCCCATTTTAATTTATTTTTCAATAAAATATTT
197172262 ATTTTAACCAAAAAATATTTAAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTTCGGA
131 ATTTTAACCAAAAAATATTTAAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTTCGGA
197172327 ATATTATTTACCGATTTTTAAATGAAATTAAGCTAACTAATTTTTTTTAAAAAGAAATGACTAGT
196 ATATTATTTACCGATTTTTAAATGAAATTAAGCTAACTAATTTTTTTT--AAAGAAATGACTAGT
* * *
197172392 AAACCCGATTAACACCTAGCTTTCACCCGAAACTCAATAAACTTACTCAAAACTAGTAGACCTAT
259 AAACCCGATTAACTCCTAGCTTTCACCCGGAACTCGATAAACTTACTCAAAACTAGTAGACCTAT
*
197172457 TTTTAGGGCGTTACAAACACAACATACTTTGGAAAATTTGCGATTACAAGTAGGCTTGGACAATT
324 TTTTAGGGCGTTACAAACACAACATACTTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATT
* * *
197172522 AGGATTGTGATCGAGGAGCTTGTATGAAAGATAAGTAGAATTTGGTGGTGTGGAAAGGAAAGAGG
389 AGGATTGTGATCGAGGAGCTTCTATGAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGG
*
197172587 AAAATATTGGGCGATACTCCCGTGGAAGAATTTGTGTCAGCCTAAAAGGATAGGGGTATT
454 AAAATATTGGGCGATACTCCCGTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATT
197172647 AGTATTCATGATATTCGTGATATTTTTCTAAAAATATTTTTATTTTCCGGAATATTATATACCTA
1 AGTATTCATGATATTCGTGATATTTTTCTAAAAATATTTTTATTTTCCGGAATATTATATACCTA
*
197172712 TTTAGTTAATAATGTAACTTCTCTCAATGAAACCCCATTTTAATTTATTTTTCAATAAAATATTT
66 TTTAGTTAATATTGTAACTTCTCTCAATGAAACCCCATTTTAATTTATTTTTCAATAAAATATTT
* *
197172777 ATTTTAA--AAAAAATATTTAAAACCATAAAATTGATTCCTCTAAAAATATTTTTATTTTCCGGA
131 ATTTTAACCAAAAAATATTTAAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTTCGGA
* **
197172840 ATATTATTTATCGA--TTTAAAAAAAATTAAGCTAACTAATTTTTTTTAAAAGAAATGACTAGTA
196 ATATTATTTACCGATTTTTAAATGAAATTAAGCTAACTAATTTTTTTT-AAAGAAATGACTAGTA
* * *
197172903 AACTCGATTAACTCGTAGCTTTCACCCGG-ACCCGATAAACTTACTCAAAACTAGTAGACCTATT
260 AACCCGATTAACTCCTAGCTTTCACCCGGAACTCGATAAACTTACTCAAAACTAGTAGACCTATT
* ** *
197172967 TTTAGGGCATTACAAACACAACATACTTTGGAAAATTTTTGATTACAAGTAGGTTTAGACAATTA
325 TTTAGGGCGTTACAAACACAACATACTTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTA
*
197173032 GGATTGTGATCGAGGAGCTTCTATCAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGA
390 GGATTGTGATCGAGGAGCTTCTATGAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGA
* *
197173097 AAATATTGGGCTATACTCCTGTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATT
455 AAATATTGGGCGATACTCCCGTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATT
* * *
197173156 AGTATTCATGATATTCGTGATATTTTTCTAAAAATATTTTTATTTTCCAGAATATTGTATTCCTA
1 AGTATTCATGATATTCGTGATATTTTTCTAAAAATATTTTTATTTTCCGGAATATTATATACCTA
*
197173221 TTTAGTTAATATTGTAACTTCTCTCAATTAAACCCCATTTTAATTTATTTTTCAATAAAATATTT
66 TTTAGTTAATATTGTAACTTCTCTCAATGAAACCCCATTTTAATTTATTTTTCAATAAAATATTT
*
197173286 ATTTTAACCAAAAAATATTTAAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTTCAGA
131 ATTTTAACCAAAAAATATTTAAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTTCGGA
* *
197173351 ATATTATTTATCGA-TTTTAAATAAAATTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAA
196 ATATTATTTACCGATTTTTAAATGAAATTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAA
*
197173415 ACCCGATTAACTCCTAGCTTTCACCCGGAAC-CTGATAAACTTACTCAAAACTAGTATACCTATT
261 ACCCGATTAACTCCTAGCTTTCACCCGGAACTC-GATAAACTTACTCAAAACTAGTAGACCTATT
197173479 TTTAGGGCGTTACAAACACAACATACTTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTA
325 TTTAGGGCGTTACAAACACAACATACTTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTA
* * * *
197173544 GGATTGTGATCGAGGAGCTTCTATGAAAGATAAGCAGAATTTTGTGGGCTGGAAAGGAACGGGGA
390 GGATTGTGATCGAGGAGCTTCTATGAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGA
*
197173609 AAATATTAGGCGATACTCCCGTGGAAGAATTTGTGTCAGCCTAAAAGGAT-GGGGTATT
455 AAATATTGGGCGATACTCCCGTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATT
197173667 AGTATTCATGATATTCGTGATATTTTTCTAAAAATATTTTTATTTTCCGGAATATTATA-ACCTA
1 AGTATTCATGATATTCGTGATATTTTTCTAAAAATATTTTTATTTTCCGGAATATTATATACCTA
197173731 TTTAGTTAATATTGTAACTTCTCTCAATGAAACCCCATTTTAATTTATTTTTCAATAAAATATTT
66 TTTAGTTAATATTGTAACTTCTCTCAATGAAACCCCATTTTAATTTATTTTTCAATAAAATATTT
* * * **
197173796 ATTTTAACAAAAAAAAATTTAAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTCCAAA
131 ATTTTAACCAAAAAATATTTAAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTTCGGA
* * *
197173861 ATATTATTTATCGATTTTAAAAT-AATATTAAGCTAACTAAATTTTTTTAAAGAAATGACTAGTA
196 ATATTATTTACCGATTTTTAAATGAA-ATTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTA
* *
197173925 AACCCGATTAACTCCTAGCTTTCACCCGG-ACCCGATAAACTTACTCAAAACTAGTAGACCCATT
260 AACCCGATTAACTCCTAGCTTTCACCCGGAACTCGATAAACTTACTCAAAACTAGTAGACCTATT
*
197173989 TTTAGGGCGTTACAAACACAACATACTTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAAGTA
325 TTTAGGGCGTTACAAACACAACATACTTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTA
*
197174054 GGATTGTGATCGAGGAGCTTCTATGAAAGATAAGCAAAATTTGGTGGTCTGGAAAGGAAAGAGGA
390 GGATTGTGATCGAGGAGCTTCTATGAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGA
197174119 AAATATTGGGCGATACTCCCGTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATT
455 AAATATTGGGCGATACTCCCGTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATT
* *
197174178 AGTATTCATGATATTCGTGGTACTTTTT-TAAAAATATTTTTATTTTCCGAAATATTATATACCT
1 AGTATTCATGATATTCGTGATA-TTTTTCTAAAAATATTTTTATTTTCCGGAATATTATATACCT
197174242 ATTTAGTTAATATTGTAACTTCTCTC
65 ATTTAGTTAATATTGTAACTTCTCTC
197174268 TGTAGACACT
Statistics
Matches: 3004, Mismatches: 145, Indels: 32
0.94 0.05 0.01
Matches are distributed among these distances:
509 342 0.11
510 391 0.13
511 339 0.11
512 485 0.16
513 76 0.03
514 483 0.16
515 888 0.30
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (513 bp):
AGTATTCATGATATTCGTGATATTTTTCTAAAAATATTTTTATTTTCCGGAATATTATATACCTA
TTTAGTTAATATTGTAACTTCTCTCAATGAAACCCCATTTTAATTTATTTTTCAATAAAATATTT
ATTTTAACCAAAAAATATTTAAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTTCGGA
ATATTATTTACCGATTTTTAAATGAAATTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAA
ACCCGATTAACTCCTAGCTTTCACCCGGAACTCGATAAACTTACTCAAAACTAGTAGACCTATTT
TTAGGGCGTTACAAACACAACATACTTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAG
GATTGTGATCGAGGAGCTTCTATGAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAA
AATATTGGGCGATACTCCCGTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATT
Found at i:197172789 original size:18 final size:19
Alignment explanation
Indices: 197172754--197172795 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
197172744 CCCCATTTTA
* *
197172754 ATTTATTTTTCAATAAAAT
1 ATTTATTTTTAAAAAAAAT
197172773 ATTTA-TTTTAAAAAAAAT
1 ATTTATTTTTAAAAAAAAT
197172791 ATTTA
1 ATTTA
197172796 AAACCATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTATTTTTAAAAAAAAT
Found at i:197173815 original size:20 final size:19
Alignment explanation
Indices: 197173772--197173816 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
197173762 ACCCCATTTT
* *
197173772 AATTTATTTTTCAATAAAA
1 AATTTATTTTACAAAAAAA
*
197173791 TATTTATTTTAACAAAAAAA
1 AATTTATTTT-ACAAAAAAA
197173811 AATTTA
1 AATTTA
197173817 AAACCATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTTATTTTACAAAAAAA
Found at i:197174548 original size:17 final size:19
Alignment explanation
Indices: 197174451--197174541 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
197174441 ATAATCTTCA
197174451 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
197174470 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
197174489 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
197174506 ATGAT-TACAATCTTAGAT
1 ATGATATGCAATCTTAGAT
197174524 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
197174542 AGATATGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:197174567 original size:22 final size:22
Alignment explanation
Indices: 197174451--197174564 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 22
197174441 ATAATCTTCA
197174451 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
197174470 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
197174489 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
197174506 ATGAT-TACAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
197174524 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
197174546 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
197174565 GATTTAATTT
Statistics
Matches: 85, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 33 0.39
22 8 0.09
23 12 0.14
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:197174855 original size:17 final size:17
Alignment explanation
Indices: 197174831--197174865 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
197174821 TGTTTCCCTG
*
197174831 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
197174849 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
197174866 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:197183271 original size:78 final size:78
Alignment explanation
Indices: 197183163--197183456 Score: 430
Period size: 78 Copynumber: 3.8 Consensus size: 78
197183153 CGAAGAAACA
** * * *
197183163 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCATATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
197183228 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
197183241 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
197183306 GCAGGTCCAAGAT
66 GCAGATCCAAGAT
* * * * *
197183319 GATTTGGCGTCT-TGTATTAGATGGGGAGCAGATCAAAGACATAACAAAT-TGAACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTG-ACCTTCATTGA
197183382 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
197183396 GATTTGGCATCTTTGTATTAGACTGGGAGCAGATCGAAGACGTAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
197183457 GTGTTTACAT
Statistics
Matches: 192, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
76 2 0.01
77 67 0.35
78 121 0.63
79 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:197183553 original size:45 final size:46
Alignment explanation
Indices: 197183470--197183663 Score: 247
Period size: 45 Copynumber: 4.3 Consensus size: 46
197183460 TTTACATCAA
* *
197183470 AGCAGATC-CAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* *
197183515 AGCAAATCAG-AGATAACAGATTTGGCATCTCTGCATTAGACGGGG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * *
197183560 AGCAGAT-TGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * * *
197183604 AGCAGATC-GAAGATAATAGATTTGGCGTCTTTGTTTTAGACGGGG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
197183649 AGCAGATCA-AAGATA
1 AGCAGATCAGAAGATA
197183664 GTAGGTATCG
Statistics
Matches: 131, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
44 41 0.31
45 90 0.69
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (46 bp):
AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:197183592 original size:89 final size:89
Alignment explanation
Indices: 197183486--197183655 Score: 261
Period size: 89 Copynumber: 1.9 Consensus size: 89
197183476 TCCAAGATGA
197183486 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATC-AGAGATAACAGATTTGGCATCTCTGCA
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGA-AGATAACAGATTTGGCATCTCTGCA
197183550 TTAGACGGGGAGCAGATTGAAGAAG
65 TTAGACGGGGAGCAGATTGAAGAAG
* * * * * **
197183575 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAATAGATTTGGCGTCTTTGTTT
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGCAT
197183640 TAGACGGGGAGCAGAT
66 TAGACGGGGAGCAGAT
197183656 CAAAGATAGT
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
89 72 0.99
90 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (89 bp):
CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGCAT
TAGACGGGGAGCAGATTGAAGAAG
Found at i:197184041 original size:19 final size:19
Alignment explanation
Indices: 197184017--197184176 Score: 262
Period size: 19 Copynumber: 8.8 Consensus size: 19
197184007 ATAATCTTCA
197184017 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
197184036 ATGATATACAATCTTAGAT
1 ATGATATGCAATCTTAGAT
197184055 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
197184072 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
197184090 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
197184109 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
197184126 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
197184144 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
197184162 ATGATATGCAATCTT
1 ATGATATGCAATCTT
197184177 GGGAGATATG
Statistics
Matches: 134, Mismatches: 1, Indels: 12
0.91 0.01 0.08
Matches are distributed among these distances:
17 32 0.24
18 50 0.37
19 52 0.39
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:197184049 original size:36 final size:37
Alignment explanation
Indices: 197184017--197184176 Score: 265
Period size: 36 Copynumber: 4.4 Consensus size: 37
197184007 ATAATCTTCA
197184017 ATGATATGCAATCTTAGATATGATATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGAT-TACAATCTTAGAT
*
197184055 ATGATA--CAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATTACAATCTTAGAT
197184090 ATGATATGCAATCTTAGATATGA-TACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATTACAATCTTAGAT
*
197184126 ATGAT-TGCAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATTACAATCTTAGAT
197184162 ATGATATGCAATCTT
1 ATGATATGCAATCTT
197184177 GGGAGATATG
Statistics
Matches: 115, Mismatches: 3, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
35 35 0.30
36 50 0.43
37 24 0.21
38 6 0.05
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATTACAATCTTAGAT
Found at i:197184082 original size:54 final size:54
Alignment explanation
Indices: 197184017--197184176 Score: 277
Period size: 54 Copynumber: 2.9 Consensus size: 54
197184007 ATAATCTTCA
*
197184017 ATGATATGCAATCTTAGATATGATATACAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
197184072 ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
197184126 ATGATTGCAATCTTAGATATGAT-TGCAATCTTAGATATGATATGCAATCTT
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATA--CAATCTT
197184177 GGGAGATATG
Statistics
Matches: 102, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
53 19 0.19
54 71 0.70
55 12 0.12
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (54 bp):
ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:197184111 original size:14 final size:15
Alignment explanation
Indices: 197184019--197184165 Score: 98
Period size: 18 Copynumber: 8.5 Consensus size: 15
197184009 AATCTTCAAT
197184019 GATATG-CAATCTTA
1 GATATGACAATCTTA
197184033 GATATGATATACAATCTTA
1 GATATG----ACAATCTTA
197184052 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
197184069 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
197184087 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
197184106 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
197184123 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
197184141 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
197184159 GATATGA
1 GATATGA
197184166 TATGCAATCT
Statistics
Matches: 120, Mismatches: 0, Indels: 22
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.05
15 2 0.02
17 31 0.26
18 47 0.39
19 33 0.28
20 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:197184493 original size:17 final size:17
Alignment explanation
Indices: 197184469--197184503 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
197184459 TGTTTCCCTG
*
197184469 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
197184487 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
197184504 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:197186121 original size:513 final size:513
Alignment explanation
Indices: 197185149--197186217 Score: 1898
Period size: 513 Copynumber: 2.1 Consensus size: 513
197185139 GGTTTCGACA
* *
197185149 CTCTCAATGAAACCCCATTGTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTT
1 CTCTCAATGGAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTT
* *
197185214 AAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTATCGATTTTAA
66 AAAACCATAAAATTCATTTCTCTAAAAATATTTTTATTTTCCGGAAAATTATTTATCGATTTTAA
*
197185279 AATAAAATTAAGCTAACTAATTTTTTTTCAAAGAAATGACTAGTAAACCCGATTAACTCCTAACT
131 AATAAAATTAAGCTAACTAATTTTTTTTCAAAGAAATAACTAGTAAACCCGATTAACTCCTAACT
197185344 TTCACCCGGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGACGTTACAAACACA
196 TTCACCCGGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGACGTTACAAACACA
* *
197185409 ACATACTTCAGAAACTTTGTGATTACAAGTAGGTTTGGACAATTAGGATTGTGATTGAAGAGCTT
261 ACATACTTCAGAAACTTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAAGAGCTT
*
197185474 CTATGAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCC
326 CTATCAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCC
197185539 GTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGTATTAGTATTCATGATATTCGTGATATTTTT
391 GTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGTATTAGTATTCATGATATTCGTGATATTTTT
197185604 CTAAAAATATTTTTATTTTCCCGAATATTATATACCTATTTAGTTAATATTGTAACTT
456 CTAAAAATATTTTTATTTTCCCGAATATTATATACCTATTTAGTTAATATTGTAACTT
197185662 CTCTCAATGGAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTT
1 CTCTCAATGGAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTT
* *
197185727 AAAACCATAAAATTCATTTCTCTAAAAATATTTTTATTTTCCGGAAAATTATTTATCTATTTTTA
66 AAAACCATAAAATTCATTTCTCTAAAAATATTTTTATTTTCCGGAAAATTATTTATCGATTTTAA
* * *
197185792 AATGAAATTAAGCTAACTAATTTTTTTT-AAATAAATAACTAGTAAACCCGATTAACTCCTAGCT
131 AATAAAATTAAGCTAACTAATTTTTTTTCAAAGAAATAACTAGTAAACCCGATTAACTCCTAACT
*
197185856 TTCACCCGGAACTCGATAAACTTACTCAAAACTAGTAGACCTATTTTTACGG-CGTTACAAACAC
196 TTCACCCGGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTA-GGACGTTACAAACAC
*
197185920 AACATACTTTGCA-AAA-TTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAG
260 AACATAC-TT-CAGAAACTTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAAGAG
* *
197185983 CTTCTATCAAAGATAAGCAGAATTTGGTGGTTTGGAAAGGAAAGGGGAAAATATTGGGCGATACT
323 CTTCTATCAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACT
197186048 CCCGTGGAAGAATTTGTGTCAGCCTAAAAGGATAGGGGTATTAGTATTCATGATATTCGTGATAT
388 CCCGTGGAAGAATTTGTGTCAGCCTAAAAGGAT-GGGGTATTAGTATTCATGATATTCGTGATAT
197186113 TTTTCTAAAAATATTTTTATTTTCCCGAATATTATATACCTATTTAGTTAATATTGTAACTT
452 TTTTCTAAAAATATTTTTATTTTCCCGAATATTATATACCTATTTAGTTAATATTGTAACTT
*
197186175 CTCTCAAT-GAAACCCATTTTAATTT-TTTTTCAATAAAATATTT
1 CTCTCAATGGAACCCCATTTTAATTTATTTTTCAATAAAATATTT
197186218 GTTGAAACCT
Statistics
Matches: 534, Mismatches: 18, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
511 18 0.03
512 255 0.48
513 259 0.49
514 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (513 bp):
CTCTCAATGGAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTT
AAAACCATAAAATTCATTTCTCTAAAAATATTTTTATTTTCCGGAAAATTATTTATCGATTTTAA
AATAAAATTAAGCTAACTAATTTTTTTTCAAAGAAATAACTAGTAAACCCGATTAACTCCTAACT
TTCACCCGGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGACGTTACAAACACA
ACATACTTCAGAAACTTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAAGAGCTT
CTATCAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCC
GTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGTATTAGTATTCATGATATTCGTGATATTTTT
CTAAAAATATTTTTATTTTCCCGAATATTATATACCTATTTAGTTAATATTGTAACTT
Found at i:197186193 original size:512 final size:512
Alignment explanation
Indices: 197185149--197186217 Score: 1896
Period size: 512 Copynumber: 2.1 Consensus size: 512
197185139 GGTTTCGACA
*
197185149 CTCTCAATGAAACCCCATTGTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTT
1 CTCTCAATGAAA-CCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTT
* *
197185214 AAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTATCGATTTTAA
65 AAAACCATAAAATTCATTTCTCTAAAAATATTTTTATTTTCCGGAAAATTATTTATCGATTTTAA
*
197185279 AATAAAATTAAGCTAACTAATTTTTTTTCAAAGAAATGACTAGTAAACCCGATTAACTCCTAACT
130 AATAAAATTAAGCTAACTAATTTTTTTTCAAAGAAATAACTAGTAAACCCGATTAACTCCTAACT
197185344 TTCACCCGGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGACGTTACAAACACA
195 TTCACCCGGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGACGTTACAAACACA
* *
197185409 ACATACTTCAGAAACTTTGTGATTACAAGTAGGTTTGGACAATTAGGATTGTGATTGAAGAGCTT
260 ACATACTTCAGAAACTTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAAGAGCTT
*
197185474 CTATGAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCC
325 CTATCAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCC
197185539 GTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGTATTAGTATTCATGATATTCGTGATATTTTT
390 GTGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGTATTAGTATTCATGATATTCGTGATATTTTT
197185604 CTAAAAATATTTTTATTTTCCCGAATATTATATACCTATTTAGTTAATATTGTAACTT
455 CTAAAAATATTTTTATTTTCCCGAATATTATATACCTATTTAGTTAATATTGTAACTT
*
197185662 CTCTCAATGGAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTT
1 CTCTCAAT-GAAACCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTT
* *
197185727 AAAACCATAAAATTCATTTCTCTAAAAATATTTTTATTTTCCGGAAAATTATTTATCTATTTTTA
65 AAAACCATAAAATTCATTTCTCTAAAAATATTTTTATTTTCCGGAAAATTATTTATCGATTTTAA
* * *
197185792 AATGAAATTAAGCTAACTAATTTTTTTT-AAATAAATAACTAGTAAACCCGATTAACTCCTAGCT
130 AATAAAATTAAGCTAACTAATTTTTTTTCAAAGAAATAACTAGTAAACCCGATTAACTCCTAACT
*
197185856 TTCACCCGGAACTCGATAAACTTACTCAAAACTAGTAGACCTATTTTTACGG-CGTTACAAACAC
195 TTCACCCGGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTA-GGACGTTACAAACAC
*
197185920 AACATACTTTGCA-AAA-TTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAG
259 AACATAC-TT-CAGAAACTTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAAGAG
* *
197185983 CTTCTATCAAAGATAAGCAGAATTTGGTGGTTTGGAAAGGAAAGGGGAAAATATTGGGCGATACT
322 CTTCTATCAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACT
197186048 CCCGTGGAAGAATTTGTGTCAGCCTAAAAGGATAGGGGTATTAGTATTCATGATATTCGTGATAT
387 CCCGTGGAAGAATTTGTGTCAGCCTAAAAGGAT-GGGGTATTAGTATTCATGATATTCGTGATAT
197186113 TTTTCTAAAAATATTTTTATTTTCCCGAATATTATATACCTATTTAGTTAATATTGTAACTT
451 TTTTCTAAAAATATTTTTATTTTCCCGAATATTATATACCTATTTAGTTAATATTGTAACTT
197186175 CTCTCAATGAAACCCATTTTAATTT-TTTTTCAATAAAATATTT
1 CTCTCAATGAAACCCATTTTAATTTATTTTTCAATAAAATATTT
197186218 GTTGAAACCT
Statistics
Matches: 533, Mismatches: 18, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
511 18 0.03
512 255 0.48
513 255 0.48
514 5 0.01
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (512 bp):
CTCTCAATGAAACCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTA
AAACCATAAAATTCATTTCTCTAAAAATATTTTTATTTTCCGGAAAATTATTTATCGATTTTAAA
ATAAAATTAAGCTAACTAATTTTTTTTCAAAGAAATAACTAGTAAACCCGATTAACTCCTAACTT
TCACCCGGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGACGTTACAAACACAA
CATACTTCAGAAACTTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAAGAGCTTC
TATCAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGTATTAGTATTCATGATATTCGTGATATTTTTC
TAAAAATATTTTTATTTTCCCGAATATTATATACCTATTTAGTTAATATTGTAACTT
Found at i:197187803 original size:40 final size:40
Alignment explanation
Indices: 197187660--197187822 Score: 136
Period size: 40 Copynumber: 4.1 Consensus size: 40
197187650 CGGAATACAA
**
197187660 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* **
197187700 CC-GATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
197187739 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*** * * *
197187779 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
197187819 CCGG
1 CCGG
197187823 GTATCATTCA
Statistics
Matches: 98, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
39 36 0.37
40 62 0.63
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:197198977 original size:28 final size:28
Alignment explanation
Indices: 197198912--197199010 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
197198902 CTAGTGAGTC
* *
197198912 CGCACACTTAGTGCTATATATTC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
197198939 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
197198967 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
197198997 CGCACACTTAGTGC
1 CGCACACTTAGTGC
197199011 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
30 19 0.30
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:197206740 original size:28 final size:28
Alignment explanation
Indices: 197206675--197206773 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
197206665 CTAGTGAGTC
* *
197206675 CGCACACTTAGTGCTATATATTC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
197206702 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
197206730 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
197206760 CGCACACTTAGTGC
1 CGCACACTTAGTGC
197206774 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
30 19 0.30
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:197214500 original size:28 final size:28
Alignment explanation
Indices: 197214435--197214533 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
197214425 CTAGTGAGTC
* *
197214435 CGCACACTTAGTGCTATATATTC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
197214462 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
197214490 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
197214520 CGCACACTTAGTGC
1 CGCACACTTAGTGC
197214534 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
30 19 0.30
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:197216191 original size:18 final size:19
Alignment explanation
Indices: 197216164--197216199 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
197216154 TGAAGTGTTT
*
197216164 TTGAATAAAATT-TAAAAA
1 TTGAAAAAAATTATAAAAA
197216182 TTGAAAAAAATTATAAAA
1 TTGAAAAAAATTATAAAA
197216200 TGATTATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (19 bp):
TTGAAAAAAATTATAAAAA
Found at i:197218877 original size:40 final size:39
Alignment explanation
Indices: 197218712--197218895 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
197218702 AAATTGAATG
* * *
197218712 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
197218752 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
197218792 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
197218832 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
197218871 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
197218896 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:197218920 original size:80 final size:81
Alignment explanation
Indices: 197218752--197218940 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
197218742 GCTGGAAATT
* * * *
197218752 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
197218817 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
197218833 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
197218896 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
197218912 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
197218941 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:197226990 original size:40 final size:40
Alignment explanation
Indices: 197226916--197227008 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
197226906 GCATAGTCAG
* * **
197226916 AAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCT
1 AAGACCCGAAGGCATTCGTGCAAATCATGATATCCGGGCT
* * *
197226956 AAGACCCGAAGGCATTTGTGCAAATCGTGATATCCGGGTT
1 AAGACCCGAAGGCATTCGTGCAAATCATGATATCCGGGCT
* *
197226996 AAGTCCCGTAGGC
1 AAGACCCGAAGGC
197227009 CTTGGTGCGG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
AAGACCCGAAGGCATTCGTGCAAATCATGATATCCGGGCT
Found at i:197230310 original size:45 final size:46
Alignment explanation
Indices: 197230147--197230321 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 46
197230137 GGTTGAGCAT
**
197230147 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATAC
** *
197230193 CCGAACTCGTTGAGTTGAGTCCGAGTT---TCGTGAGATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-TA--C
197230239 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-AC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATAC
* *
197230286 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
197230322 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
43 5 0.05
44 5 0.05
45 34 0.31
46 27 0.25
47 1 0.01
48 27 0.25
49 1 0.01
50 4 0.04
51 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATAC
Found at i:197237757 original size:46 final size:46
Alignment explanation
Indices: 197237707--197237882 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
197237697 TGGTTGAGCA
197237707 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
197237753 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
197237798 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
197237846 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
197237883 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:197237863 original size:93 final size:93
Alignment explanation
Indices: 197237704--197237875 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
197237694 GGATGGTTGA
* *
197237704 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
197237769 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
197237797 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
197237862 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
197237876 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:197240390 original size:15 final size:15
Alignment explanation
Indices: 197240372--197240402 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
197240362 TGAATGTTTT
197240372 TGAATCCCCTGTTCC
1 TGAATCCCCTGTTCC
197240387 TGAATCCCCTGTTCC
1 TGAATCCCCTGTTCC
197240402 T
1 T
197240403 ACTTTAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.39, G:0.13, T:0.35
Consensus pattern (15 bp):
TGAATCCCCTGTTCC
Found at i:197242242 original size:19 final size:19
Alignment explanation
Indices: 197242218--197242269 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
197242208 TGCCTCTCTT
*
197242218 TGCATT-CATTTCATACATC
1 TGCATTGCATTTCAT-CATA
*
197242237 TGCATTGTATTTCATCATA
1 TGCATTGCATTTCATCATA
*
197242256 TGCATTGAATTTCA
1 TGCATTGCATTTCA
197242270 CGAAATGACC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 22 0.76
20 7 0.24
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (19 bp):
TGCATTGCATTTCATCATA
Found at i:197242250 original size:20 final size:19
Alignment explanation
Indices: 197242225--197242269 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
197242215 CTTTGCATTC
* *
197242225 ATTTCATACATCTGCATTGT
1 ATTTCAT-CATATGCATTGA
197242245 ATTTCATCATATGCATTGA
1 ATTTCATCATATGCATTGA
197242264 ATTTCA
1 ATTTCA
197242270 CGAAATGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (19 bp):
ATTTCATCATATGCATTGA
Found at i:197246768 original size:26 final size:26
Alignment explanation
Indices: 197246739--197246820 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
197246729 TGGTACAAAT
197246739 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
197246765 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
197246791 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
197246817 TGAT
1 TGAT
197246821 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:197248326 original size:26 final size:26
Alignment explanation
Indices: 197248297--197248351 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
197248287 TTTACAGTTT
197248297 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
197248323 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
197248349 TAC
1 TAC
197248352 ATGTTTGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.24
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:197253773 original size:26 final size:26
Alignment explanation
Indices: 197253744--197253825 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
197253734 TGGTACAAAT
197253744 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
197253770 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
197253796 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
197253822 TGAT
1 TGAT
197253826 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:197255330 original size:26 final size:26
Alignment explanation
Indices: 197255301--197255353 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
197255291 TTTACAGTTT
197255301 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
197255327 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
197255353 T
1 T
197255354 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:197257420 original size:11 final size:12
Alignment explanation
Indices: 197257404--197257440 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
197257394 AAGAAAAAAA
197257404 GGAAGAGAG-AG
1 GGAAGAGAGAAG
197257415 GGAAGAGAGAAG
1 GGAAGAGAGAAG
197257427 GG-AGAGAGAAG
1 GGAAGAGAGAAG
197257438 GGA
1 GGA
197257441 GGGGAAGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (12 bp):
GGAAGAGAGAAG
Found at i:197257441 original size:11 final size:11
Alignment explanation
Indices: 197257402--197257450 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
197257392 GAAAGAAAAA
*
197257402 AAGGAAGAGAG
1 AAGGGAGAGAG
197257413 -AGGGAAGAGAG
1 AAGGG-AGAGAG
197257424 AAGGGAGAGAG
1 AAGGGAGAGAG
*
197257435 AAGGGAG-GGG
1 AAGGGAGAGAG
197257445 AAGGGA
1 AAGGGA
197257451 AATCCGGTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 11 0.32
11 19 0.56
12 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (11 bp):
AAGGGAGAGAG
Found at i:197258131 original size:35 final size:35
Alignment explanation
Indices: 197258091--197258196 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
197258081 GGGGTGTGTG
*
197258091 ATGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
*
197258126 GTGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
197258161 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
197258196 A
1 A
197258197 GAGGCAAGTG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.23, C:0.12, G:0.49, T:0.16
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
Found at i:197258978 original size:48 final size:51
Alignment explanation
Indices: 197258902--197259046 Score: 181
Period size: 54 Copynumber: 2.8 Consensus size: 51
197258892 ATATGACCTA
** *
197258902 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAA-CAA-AA-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGAAATAAC
*
197258950 AGG-TACAACTCACCTCTCGCAATATGAGTTGCTTTTTGAAAGACAGAAATTAAC
1 AGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-A-AGAAA-TAAC
*
197259004 AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
197259047 TAGGAATTGG
Statistics
Matches: 83, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
47 1 0.01
48 36 0.43
49 1 0.01
50 1 0.01
51 2 0.02
52 1 0.01
53 3 0.04
54 37 0.45
55 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (51 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGAAATAAC
Done.