Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 160 of 344
Found at i:53450793 original size:49 final size:47
Alignment explanation
Indices: 53450709--53451213 Score: 794
Period size: 47 Copynumber: 10.6 Consensus size: 47
53450699 TATTTGAATA
* *
53450709 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53450756 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53450805 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53450852 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
53450901 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
53450950 ATTGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCCATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53450997 AATGTGAAAGTGTATATATATGTCATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53451046 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53451093 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
53451140 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53451187 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53451214 TCCCGAAGGG
Statistics
Matches: 428, Mismatches: 24, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
47 245 0.57
49 183 0.43
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53450817 original size:96 final size:94
Alignment explanation
Indices: 53450709--53451213 Score: 794
Period size: 96 Copynumber: 5.3 Consensus size: 94
53450699 TATTTGAATA
* *
53450709 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
53450774 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
53450805 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
53450870 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
53450901 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
53450966 TATGTGATAAGGCCGAATGGCCCATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
53450997 AATGTGAAAGTGTATATATATGTCATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53451062 TATGTGATAAGGCCTAATAGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
53451093 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
53451158 TGTGACAGGGCCGAGTGGCCAACGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* *
53451187 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53451214 TCCCGAAGGG
Statistics
Matches: 387, Mismatches: 20, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
94 99 0.26
96 243 0.63
98 45 0.12
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53455088 original size:85 final size:86
Alignment explanation
Indices: 53454931--53455088 Score: 239
Period size: 85 Copynumber: 1.8 Consensus size: 86
53454921 CTAGATTATC
** * *
53454931 GTATAAGACTGTGTCTGGGACACTGGCATCGATTTGAAATTTACATGTAAGACCATGTCTAGGAC
1 GTATAAGACCCTGTCTGGGACACAGGCATCGATCTGAAATTTACATGTAAGACCATGTCTAGGAC
53454996 ATCGGCATCGTATCTGTTTTT
66 ATCGGCATCGTATCTGTTTTT
*
53455017 GTATAAGACCCTGTCTGGGACAGAGGCATCGATACTG-AA-TTACATGTAAGACCATGTCTAGGA
1 GTATAAGACCCTGTCTGGGACACAGGCATCGAT-CTGAAATTTACATGTAAGACCATGTCTAGGA
*
53455080 CATTGGCAT
65 CATCGGCAT
53455089 TGTGCTTGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
85 32 0.49
86 31 0.48
87 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (86 bp):
GTATAAGACCCTGTCTGGGACACAGGCATCGATCTGAAATTTACATGTAAGACCATGTCTAGGAC
ATCGGCATCGTATCTGTTTTT
Found at i:53456423 original size:45 final size:45
Alignment explanation
Indices: 53456364--53456519 Score: 179
Period size: 45 Copynumber: 3.4 Consensus size: 45
53456354 CAATGTCGAT
* * * * **
53456364 GTCCCAGACATGGTCTTACATGTAACCAAATATATCGATGCCAAC
1 GTCCCAAACGTGGTCTTACATGAAAACACTTATATCGATGCCAAC
*
53456409 GTCCCAAACGTGGTCTTACACGAAAACACTTATATCGATGCCAAC
1 GTCCCAAACGTGGTCTTACATGAAAACACTTATATCGATGCCAAC
* * *
53456454 GTCCAAAAACGTGGTCTTCCACT-AAAACACTTATATCGATGCTAAC
1 GTCC-CAAACGTGGTCTTACA-TGAAAACACTTATATCGATGCCAAC
* *
53456500 ATCCCAGACGTGGTCTTACA
1 GTCCCAAACGTGGTCTTACA
53456520 CGAAGGCACA
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
45 55 0.59
46 39 0.41
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (45 bp):
GTCCCAAACGTGGTCTTACATGAAAACACTTATATCGATGCCAAC
Found at i:53456481 original size:46 final size:45
Alignment explanation
Indices: 53456394--53456523 Score: 188
Period size: 46 Copynumber: 2.9 Consensus size: 45
53456384 TGTAACCAAA
*
53456394 TATATCGATGCCAACGTCCCAAACGTGGTCTTACACGAAAACACT
1 TATATCGATGCCAACGTCCAAAACGTGGTCTTACACGAAAACACT
* *
53456439 TATATCGATGCCAACGTCCAAAAACGTGGTCTTCCACTAAAACACT
1 TATATCGATGCCAACGTCC-AAAACGTGGTCTTACACGAAAACACT
* * * *
53456485 TATATCGATGCTAACATCCCAGACGTGGTCTTACACGAA
1 TATATCGATGCCAACGTCCAAAACGTGGTCTTACACGAA
53456524 GGCACATATC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
45 35 0.47
46 40 0.53
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (45 bp):
TATATCGATGCCAACGTCCAAAACGTGGTCTTACACGAAAACACT
Found at i:53457081 original size:15 final size:15
Alignment explanation
Indices: 53457058--53457088 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53457048 TCAAAAATTC
53457058 CAATACAAAACATAT
1 CAATACAAAACATAT
*
53457073 CAATCCAAAACATAT
1 CAATACAAAACATAT
53457088 C
1 C
53457089 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:53457452 original size:23 final size:23
Alignment explanation
Indices: 53457382--53457460 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 23
53457372 TTACAAATAT
*
53457382 AACCTTTATAATTAAATAACTAA
1 AACCTTTATAATTAAGTAACTAA
* * * * *
53457405 AACATATAT-ATCAAG-GA-TAT
1 AACCTTTATAATTAAGTAACTAA
53457425 AACCTTTATAATTAAGTAACTAA
1 AACCTTTATAATTAAGTAACTAA
53457448 AACCTTTATAATT
1 AACCTTTATAATT
53457461 TAACCACCAA
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
20 9 0.21
21 6 0.14
22 5 0.12
23 22 0.52
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (23 bp):
AACCTTTATAATTAAGTAACTAA
Found at i:53460155 original size:15 final size:15
Alignment explanation
Indices: 53460123--53460165 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
53460113 TATTTTTTTC
53460123 ATTTTCTCTTCTTC-T
1 ATTTT-TCTTCTTCTT
53460138 ATTTTTCTTCTTCTT
1 ATTTTTCTTCTTCTT
53460153 ATTTTTCTT-TTCT
1 ATTTTTCTTCTTCT
53460166 CCCCTATAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTTTTCTTCTTCTT
Found at i:53463521 original size:43 final size:41
Alignment explanation
Indices: 53463425--53463579 Score: 130
Period size: 43 Copynumber: 3.6 Consensus size: 41
53463415 ATCGAGATGA
* * * * *
53463425 GATTACATGTAAGACCATGTTTGGGACATTGACATTGTATT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATC
* *
53463466 GTAATTAAGTGTAATACCATGTCTGGGACATTGGCATCGTTAATC
1 G--ATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-T-ATC
* * * *
53463511 GATTACGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAT-C
* * *
53463554 GATAACATGTAAGACCATATCTGGGA
1 GATTACGTGTAAGACCATGTCTGGGA
53463580 TATGGAATTG
Statistics
Matches: 91, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 84 0.92
44 1 0.01
45 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (41 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATC
Found at i:53464560 original size:45 final size:45
Alignment explanation
Indices: 53464459--53464585 Score: 156
Period size: 45 Copynumber: 2.9 Consensus size: 45
53464449 TTTTCTCAAA
* *
53464459 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
*
53464501 TCACCAGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
* *
53464545 CTCACCGGCATTATAGTCTGCTAGGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
53464586 ATCAAGTCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
42 10 0.14
43 14 0.19
44 8 0.11
45 41 0.55
46 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:53464963 original size:43 final size:43
Alignment explanation
Indices: 53464915--53465112 Score: 279
Period size: 43 Copynumber: 4.6 Consensus size: 43
53464905 CCGGCATTAC
** *
53464915 GCCTGCTAGGCACGAAATCCCGAATACACATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
53464958 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * * * * *
53465001 GCCTACTAGGCATGAAGGCCCCAATACACATCCCCGACACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* **
53465044 GCCTGCAAGGCACGAAGGCCCGAATACACATCACCGGCATTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
53465087 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
53465113 TAATACCAGC
Statistics
Matches: 136, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 136 1.00
ACGTcount: A:0.31, C:0.33, G:0.23, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:53480207 original size:21 final size:19
Alignment explanation
Indices: 53480174--53480227 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
53480164 TAACATGCGT
53480174 ATGTATGATATGCAAATGAC
1 ATGTATGA-ATGCAAATGAC
* *
53480194 ATGTCATGACATGCACATGAT
1 ATGT-ATGA-ATGCAAATGAC
53480215 ATGTATGAATGCA
1 ATGTATGAATGCA
53480228 CAGATGTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.17
20 8 0.27
21 17 0.57
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (19 bp):
ATGTATGAATGCAAATGAC
Found at i:53480436 original size:1 final size:1
Alignment explanation
Indices: 53480432--53480459 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
53480422 AAAAACCCCC
53480432 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
53480460 ACCCCCCCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:53487113 original size:25 final size:25
Alignment explanation
Indices: 53487084--53487131 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53487074 TTATAATATG
* * *
53487084 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
53487109 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
53487132 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:53487200 original size:20 final size:20
Alignment explanation
Indices: 53487177--53487214 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
53487167 AACATGGTAT
53487177 GTATGATATGCACATGATAC
1 GTATGATATGCACATGATAC
53487197 GTATGATATGCACATGAT
1 GTATGATATGCACATGAT
53487215 GTATTCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
GTATGATATGCACATGATAC
Found at i:53487347 original size:24 final size:24
Alignment explanation
Indices: 53487263--53487408 Score: 188
Period size: 25 Copynumber: 6.0 Consensus size: 24
53487253 GGAGGAAGTG
53487263 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
53487287 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
* *
53487312 GATAAAGGGCTTATGCCCTAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
53487337 TAAAAGGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
53487361 TAAAAGGGCTT-TGCTCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
53487384 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
53487409 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
23 17 0.15
24 39 0.35
25 55 0.50
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:53487360 original size:49 final size:47
Alignment explanation
Indices: 53487264--53487408 Score: 177
Period size: 49 Copynumber: 3.0 Consensus size: 47
53487254 GAGGAAGTGT
*
53487264 AAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATG-CCCAGTTATTA-AAAGGGCTTATGCCCCAGTTATG
* *
53487313 ATAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTATGCCCTAGTTATT
1 A-AAAGGGCTTATGCCC-AGTTATTAAAAGGGCTTATGCCCCAGTTATG
*
53487362 AAAAGGGCTT-TGCTCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGC-CCAGTTATTAAAAG-GGCTTATGCC-CCAGTTAT
53487409 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
47 20 0.23
48 21 0.24
49 26 0.30
50 19 0.22
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATG
Found at i:53487916 original size:23 final size:24
Alignment explanation
Indices: 53487828--53487931 Score: 183
Period size: 24 Copynumber: 4.3 Consensus size: 24
53487818 CCACGATGAT
53487828 AAAGGGCTTATGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
*
53487852 AAATGGCTTATGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
53487876 AAAGGGCTTATGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
53487900 AAAGGGCTT-TGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
53487923 AAAGAGGCT
1 AAAG-GGCT
53487932 AGGCCTCTAG
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
23 18 0.23
24 59 0.77
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATTA
Found at i:53487944 original size:48 final size:48
Alignment explanation
Indices: 53487828--53487945 Score: 168
Period size: 48 Copynumber: 2.5 Consensus size: 48
53487818 CCACGATGAT
* *
53487828 AAAGGGCTTATGCCCCAGTTATTAAAATGGCTTATGCCCCAGTTATTA
1 AAAGGGCTTAGGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTA
*
53487876 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTT-TGCCCCAGTTATTA
1 AAAGGGCTTAGGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTA
*
53487923 AAAGAGGC-TAGGCCTCTAGTTAT
1 AAAG-GGCTTAGGCC-CCAGTTAT
53487946 ATGATATAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
47 23 0.35
48 42 0.65
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (48 bp):
AAAGGGCTTAGGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTA
Found at i:53488173 original size:31 final size:31
Alignment explanation
Indices: 53488138--53488201 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
53488128 CATTCATAGT
*
53488138 AAAGGCTTCGGCCCAGTAATATGACATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
53488169 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
53488200 AA
1 AA
53488202 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:53489836 original size:22 final size:22
Alignment explanation
Indices: 53489808--53489880 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
53489798 TCTGCTCCTT
*
53489808 ATGTTGCGACATCGATCATACC
1 ATGTTGCAACATCGATCATACC
*
53489830 ATGTTGCAACATTGATCATACC
1 ATGTTGCAACATCGATCATACC
*
53489852 ATGTTGCAACATCAATCATACC
1 ATGTTGCAACATCGATCATACC
53489874 ATGTTGC
1 ATGTTGC
53489881 GATTTAGTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (22 bp):
ATGTTGCAACATCGATCATACC
Found at i:53495052 original size:33 final size:33
Alignment explanation
Indices: 53495010--53495074 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
53495000 ACTAAGTTTG
53495010 ACGAATTCACGCTCGTACTCCAAAATGGACATT
1 ACGAATTCACGCTCGTACTCCAAAATGGACATT
*
53495043 ACGAATTCACGTTCGTACTCCAAAATGGACAT
1 ACGAATTCACGCTCGTACTCCAAAATGGACAT
53495075 CTTGCCTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (33 bp):
ACGAATTCACGCTCGTACTCCAAAATGGACATT
Found at i:53500651 original size:47 final size:47
Alignment explanation
Indices: 53500574--53500929 Score: 491
Period size: 47 Copynumber: 7.6 Consensus size: 47
53500564 TAATTGAATA
*
53500574 AATGTGAA-AGTGTATATGTGTGATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
53500621 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
53500668 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
53500715 AAAGTGAACACGTATACGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
53500762 AAAGTGAACATGTATATGTGTGATAAAGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
53500809 AAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * * *
53500856 AATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
**
53500903 AATGTGAA-AGTGTATAAATGTGATAAG
1 AATGTGAACA-TGTATATGTGTGATAAG
53500930 TTCCGAAGGG
Statistics
Matches: 276, Mismatches: 31, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
46 1 0.00
47 274 0.99
48 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:53501104 original size:37 final size:37
Alignment explanation
Indices: 53501048--53501127 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
53501038 CCGGGCTCTA
* * *
53501048 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
53501085 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
53501122 AAGACT
1 AAGACT
53501128 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:53504324 original size:40 final size:39
Alignment explanation
Indices: 53504226--53504324 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
53504216 GGATTAAGAT
* * *
53504226 CCGAAGGCATTTGTACGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTACGAGTTACTAATACCGGGCTAAGC
* * *
53504265 TCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTACGAGTTACTAAT-ACCGGGCTAAG-C
*
53504305 CCGAAGGCATTTGAACGAGT
1 CCGAAGGCATTTGTACGAGT
53504325 AGCTATATCT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
38 2 0.04
39 29 0.59
40 18 0.37
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGTACGAGTTACTAATACCGGGCTAAGC
Found at i:53504611 original size:47 final size:47
Alignment explanation
Indices: 53504542--53504709 Score: 264
Period size: 47 Copynumber: 3.6 Consensus size: 47
53504532 AAGGGTTGGT
53504542 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53504589 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
53504636 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53504683 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53504710 TCCCGAAGGG
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 111 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53507624 original size:110 final size:110
Alignment explanation
Indices: 53507419--53507876 Score: 616
Period size: 110 Copynumber: 4.2 Consensus size: 110
53507409 CTAACCAGAT
* * * * *
53507419 TGGCAGATTATGATACATGAATGTGTGTAAGACCATGTGGTTAGGACCCATGGCGTGATATGTTT
1 TGGCAGATCACGATACATGAATGTGTGTAAGACCATGTGGTTAAGACCCATGGCATGATATGTCT
* * *
53507484 GTATTTATATTCATGGTGTAGCCTTTGATAGTGTATGAATCGAAA
66 ATATTTATATTCATGGTGTAGCCTTCGATAGTGTATGAATCAAAA
* * * * *
53507529 TGGAAAATCAGGATACATGAATGTTTGTAAG-CTCATGTGGTTAAGACTCATGGCATGATATGTC
1 TGGCAGATCACGATACATGAATGTGTGTAAGAC-CATGTGGTTAAGACCCATGGCATGATATGTC
* * * **
53507593 TATATTAATATTCATGGTGTAGTCTTCGATAGTGTACGAATTGAAA
65 TATATTTATATTCATGGTGTAGCCTTCGATAGTGTATGAATCAAAA
* * *
53507639 TGGCAGATTAGGGTACATGAATGTGTGTAAGACCATGTGGTTATA-ACCCATGGCATGATATGTC
1 TGGCAGATCACGATACATGAATGTGTGTAAGACCATGTGGTTA-AGACCCATGGCATGATATGTC
53507703 TATATTTATATTCATGGTGTAGCCTTCGATAGTGTATGAATCAAAA
65 TATATTTATATTCATGGTGTAGCCTTCGATAGTGTATGAATCAAAA
* * * * *
53507749 TGGTATATCACGATACAAGAATGTGTGTAAAACCATGTGGTTAAGACCCATGGCATAATATGTCT
1 TGGCAGATCACGATACATGAATGTGTGTAAGACCATGTGGTTAAGACCCATGGCATGATATGTCT
* *
53507814 AT-TTTCATATTCATGGTGTAGTCTTCGATAGTGTATGGATCAAAA
66 ATATTT-ATATTCATGGTGTAGCCTTCGATAGTGTATGAATCAAAA
53507859 TGGCAGATCACGATACAT
1 TGGCAGATCACGATACAT
53507877 AAAATTATGT
Statistics
Matches: 304, Mismatches: 39, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
109 5 0.02
110 297 0.98
111 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (110 bp):
TGGCAGATCACGATACATGAATGTGTGTAAGACCATGTGGTTAAGACCCATGGCATGATATGTCT
ATATTTATATTCATGGTGTAGCCTTCGATAGTGTATGAATCAAAA
Found at i:53513513 original size:42 final size:42
Alignment explanation
Indices: 53513454--53513615 Score: 191
Period size: 42 Copynumber: 3.8 Consensus size: 42
53513444 AGGGTTACTA
* *
53513454 AGACTACGTGTAAGACCATATCTGGGTTGTGGCATC-ACTATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGA-TATG
*
53513496 AGACTACGTGTAAGACCATATCTAGGATATGGCATCGATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
* * * *
53513538 AGACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATACG
1 AGACTACGTGTAAGACCATATCTGGGATA-TGGCATCGATATG
* * * * *
53513581 AGATTACATGTAAAACTATATCTAGGATATGGCAT
1 AGACTACGTGTAAGACCATATCTGGGATATGGCAT
53513616 TGGTACGGTA
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
42 68 0.67
43 34 0.33
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
Found at i:53513609 original size:85 final size:84
Alignment explanation
Indices: 53513454--53513615 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 84
53513444 AGGGTTACTA
* * * *
53513454 AGACTACGTGTAAGACCATATCTGGGTTGTGGCATCACTATGAGACTACGTGTAAGACCATATCT
1 AGACTACGTGTAAGACCATAGCTGGGTTGTGGCATCACTACGAGACTACATGTAAAACCATATCT
53513519 AGGATATGGCATCGATATG
66 AGGATATGGCATCGATATG
* * *
53513538 AGACTTCGTGTAAGACCATAGCTGGGCTAT-TGGCATCGA-TACGAGATTACATGTAAAACTATA
1 AGACTACGTGTAAGACCATAGCTGGG-T-TGTGGCATC-ACTACGAGACTACATGTAAAACCATA
53513601 TCTAGGATATGGCAT
63 TCTAGGATATGGCAT
53513616 TGGTACGGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
84 24 0.35
85 42 0.62
86 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (84 bp):
AGACTACGTGTAAGACCATAGCTGGGTTGTGGCATCACTACGAGACTACATGTAAAACCATATCT
AGGATATGGCATCGATATG
Found at i:53520414 original size:47 final size:47
Alignment explanation
Indices: 53520346--53520512 Score: 168
Period size: 46 Copynumber: 3.6 Consensus size: 47
53520336 GTGTTAGCTG
* * *
53520346 GTGTAAGAAATGTCTGGGACATGCATCGGCCATATTATGA-GAGC-C-A
1 GTGTAAGACATGTCTGGGACATGCATCGGCCAT-TGA-GATAAGCGCTA
* * *
53520392 GTGTAAGGCCATGTCTAGGACATGGCATCAG-CATTGAGATAAGCGCTA
1 GTGTAA-GACATGTCTGGGACAT-GCATCGGCCATTGAGATAAGCGCTA
*
53520440 GTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAGACGTAAGC-C-A
1 GTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGA--TAAGCGCTA
53520486 GTGTAAGACATGTCTGGGACATGCATC
1 GTGTAAGACATGTCTGGGACATGCATC
53520513 AGCTACGAGA
Statistics
Matches: 103, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
45 2 0.02
46 50 0.49
47 33 0.32
48 18 0.17
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGATAAGCGCTA
Found at i:53520522 original size:46 final size:45
Alignment explanation
Indices: 53520346--53520553 Score: 160
Period size: 46 Copynumber: 4.5 Consensus size: 45
53520336 GTGTTAGCTG
* * **
53520346 GTGTAAGAAATGTCTGGGACATGCATCGGCCATATTATGAG--AGCCA
1 GTGTAAGACATGTCTGGGACATGCATCAG-C-TACGA-GAGTAAGCCA
* * *
53520392 GTGTAAGGCCATGTCTAGGACATGGCATCAGC-ATTGAGA-TAAGCGCTA
1 GTGTAA-GACATGTCTGGGACAT-GCATCAGCTA-CGAGAGTAAGC-C-A
*
53520440 GTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTAAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGA-GTAAGCCA
*
53520486 GTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGT--GTCA
1 GTGTAAGACATGTCTGGGACATGCATCAGCTACGAGA-GTAAGCCA
* *
53520530 GTGTAAGACCATTTCTCGGACATG
1 GTGTAAGA-CATGTCTGGGACATG
53520554 GTATTCAGCA
Statistics
Matches: 135, Mismatches: 14, Indels: 27
0.77 0.08 0.15
Matches are distributed among these distances:
44 11 0.08
45 18 0.13
46 57 0.42
47 31 0.23
48 18 0.13
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCATCAGCTACGAGAGTAAGCCA
Found at i:53534618 original size:36 final size:36
Alignment explanation
Indices: 53534570--53534647 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 36
53534560 CTTATTACGA
* *
53534570 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTC-TACCCGGACAAAATTC-CCACACGAAGTCATCG
*
53534607 AGTCTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTACCCGGACAAAATTCCCACACGAAGTCATCG
*
53534643 GGTCT
1 AGTCT
53534648 TTAGAGCCCG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 30 0.83
37 6 0.17
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (36 bp):
AGTCTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:53534962 original size:89 final size:92
Alignment explanation
Indices: 53534767--53535092 Score: 438
Period size: 89 Copynumber: 3.6 Consensus size: 92
53534757 CCCTTCGGAC
* * * * * *
53534767 TATCACATTATACA-CTTCAC-ATCATCACATCGGCCATTAGGCTTATCTCACATACACATGCTC
1 TATCACACTATACATGTTCACTTTCATCACATTGGCCATTCGGCTTATCACACATACACATGCTC
*
53534830 ACATTCATCACA-TGGCCACTCGGCCT
66 ACATTCATCACATTGGCCATTCGGCCT
*
53534856 TATCACAC-ATACATGTTCACTTTCATCACATTGG-CATTCGGCTTATCACACATATACATG-TC
1 TATCACACTATACATGTTCACTTTCATCACATTGGCCATTCGGCTTATCACACATACACATGCTC
53534918 AC-TTCATCACATTGGCCATTCGGCCT
66 ACATTCATCACATTGGCCATTCGGCCT
*
53534944 TATCACACGTATAC-TGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATACACATGT
1 TATCACAC-TATACATGTTCACTTTCATCACATTGGCCATTCGG-CTTATCACACATACACATGC
53535008 TCACATTCATCACATTGGCCATTCGGCCT
64 TCACATTCATCACATTGGCCATTCGGCCT
* * *
53535037 TATCTCA-TATATGCATGTTCACATTCATCACATTGGCCATTC-GCCTATCACACATA
1 TATCACACTATA--CATGTTCACTTTCATCACATTGGCCATTCGGCTTATCACACATA
53535093 TACACTTTCA
Statistics
Matches: 213, Mismatches: 12, Indels: 21
0.87 0.05 0.09
Matches are distributed among these distances:
87 9 0.04
88 30 0.14
89 56 0.26
90 22 0.10
91 22 0.10
92 16 0.08
93 32 0.15
94 26 0.12
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (92 bp):
TATCACACTATACATGTTCACTTTCATCACATTGGCCATTCGGCTTATCACACATACACATGCTC
ACATTCATCACATTGGCCATTCGGCCT
Found at i:53535027 original size:47 final size:47
Alignment explanation
Indices: 53534782--53535106 Score: 433
Period size: 47 Copynumber: 7.2 Consensus size: 47
53534772 CATTATACAC
* * * *
53534782 TTCACA-TCATCACATCGGCCATTAGG-CTTATCTCACATACACATG
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATG
* *
53534827 CTCACATTCATCACA-TGGCCACTCGGCCTTATCACAC--ATACATG
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATG
*
53534871 TTCACTTTCATCACATTGG-CATTCGG-CTTATCACACATATACATG
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATG
*
53534916 -TCAC-TTCATCACATTGGCCATTCGGCCTTATCACACGTATAC-TG
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATG
* *
53534960 TTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATACACATG
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATG
* * *
53535007 TTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATG
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATG
53535054 TTCACATTCATCACATTGGCCATTC-GCC-TATCACACATATACACT-
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACA-TG
53535099 TTCACATT
1 TTCACATT
53535107 TATTCAATTA
Statistics
Matches: 249, Mismatches: 20, Indels: 22
0.86 0.07 0.08
Matches are distributed among these distances:
43 23 0.09
44 38 0.15
45 62 0.25
46 57 0.23
47 69 0.28
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (47 bp):
TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATG
Found at i:53540626 original size:33 final size:33
Alignment explanation
Indices: 53540584--53540648 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
53540574 ACAAGGCAAG
53540584 ATGTCCATTTTGGAGTACGAACGTGAATTCGTA
1 ATGTCCATTTTGGAGTACGAACGTGAATTCGTA
*
53540617 ATGTCCATTTTGGAGTACGAGCGTGAATTCGT
1 ATGTCCATTTTGGAGTACGAACGTGAATTCGT
53540649 CAAACTTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (33 bp):
ATGTCCATTTTGGAGTACGAACGTGAATTCGTA
Found at i:53545805 original size:22 final size:22
Alignment explanation
Indices: 53545777--53545849 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
53545767 TCACTAAATC
*
53545777 GCAACATGGTATGATTGATGTT
1 GCAACATGGTATGATCGATGTT
*
53545799 GCAACATGGTATGATCAATGTT
1 GCAACATGGTATGATCGATGTT
*
53545821 GCAACATGGTATGATCGATGTC
1 GCAACATGGTATGATCGATGTT
53545843 GCAACAT
1 GCAACAT
53545850 AAGGAGCAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (22 bp):
GCAACATGGTATGATCGATGTT
Found at i:53547491 original size:31 final size:31
Alignment explanation
Indices: 53547453--53547516 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
53547443 CCTTTTCATA
*
53547453 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATGTCATAACACTGGGCCGAAGCCT
**
53547484 TTTCATATGTCATATTACTGGGCCGAAGCCT
1 TTTCATATGTCATAACACTGGGCCGAAGCCT
53547515 TT
1 TT
53547517 ACTATGAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (31 bp):
TTTCATATGTCATAACACTGGGCCGAAGCCT
Found at i:53547796 original size:24 final size:23
Alignment explanation
Indices: 53547724--53547825 Score: 161
Period size: 23 Copynumber: 4.3 Consensus size: 23
53547714 CTAGAGGCCT
53547724 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACT-GGGCATA
53547748 AGCCCTTTTAATAACTGGGCATA
1 AGCCCTTTTAATAACTGGGCATA
53547771 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACT-GGGCATA
*
53547795 AGCCATTTTAATAACTGGGCATA
1 AGCCCTTTTAATAACTGGGCATA
53547818 AGCCCTTT
1 AGCCCTTT
53547826 ATCATCGTGG
Statistics
Matches: 74, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
22 5 0.07
23 43 0.58
24 26 0.35
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (23 bp):
AGCCCTTTTAATAACTGGGCATA
Found at i:53547812 original size:47 final size:46
Alignment explanation
Indices: 53547724--53547825 Score: 177
Period size: 47 Copynumber: 2.2 Consensus size: 46
53547714 CTAGAGGCCT
*
53547724 AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTAATAACTGGGCATA
1 AGCC-CTTTTAATAACTGGGGCAAAGCCATTTTAATAACTGGGCATA
53547771 AGCCCTTTTAATAACTGGGGCATAAGCCATTTTAATAACTGGGCATA
1 AGCCCTTTTAATAACTGGGGCA-AAGCCATTTTAATAACTGGGCATA
53547818 AGCCCTTT
1 AGCCCTTT
53547826 ATCATCGTGG
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
46 18 0.34
47 35 0.66
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (46 bp):
AGCCCTTTTAATAACTGGGGCAAAGCCATTTTAATAACTGGGCATA
Found at i:53548343 original size:25 final size:25
Alignment explanation
Indices: 53548228--53548379 Score: 172
Period size: 25 Copynumber: 6.2 Consensus size: 25
53548218 AGCATAGCTG
*
53548228 CTTTATCATATAACTGGAGGCCT-AGCC
1 CTTTATC--ATAACTGG-GGCATAAGCC
* *
53548255 TCTTT-TAATAACTGGAGCA-AAGCC
1 -CTTTATCATAACTGGGGCATAAGCC
*
53548279 CTTTA--ATAACTAGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
* *
53548302 CTTT-TAATAACTAGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
53548326 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
53548351 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
53548376 CTTT
1 CTTT
53548380 TACACTTCCT
Statistics
Matches: 111, Mismatches: 7, Indels: 15
0.83 0.05 0.11
Matches are distributed among these distances:
22 10 0.09
23 13 0.12
24 28 0.25
25 55 0.50
27 1 0.01
28 4 0.04
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (25 bp):
CTTTATCATAACTGGGGCATAAGCC
Found at i:53548345 original size:49 final size:48
Alignment explanation
Indices: 53548228--53548379 Score: 177
Period size: 47 Copynumber: 3.1 Consensus size: 48
53548218 AGCATAGCTG
*
53548228 CTTTATCATATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGAGCA-AAGCC
1 CTTTATC--ATAACTGG-GGCATAAGCC-CTTTTAATAACTGG-GCATAAGCC
*
53548279 CTTTA--ATAACTAGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACT-GGGCATAAGCC
*
53548326 CTTTATCATAACTGGGGCATAAGCCCTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCCCTTT-TAATAACT-GGGCATAAGCC
53548376 CTTT
1 CTTT
53548380 TACACTTCCT
Statistics
Matches: 90, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
46 19 0.21
47 23 0.26
49 21 0.23
50 22 0.24
51 5 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (48 bp):
CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGGGCATAAGCC
Found at i:53548455 original size:20 final size:20
Alignment explanation
Indices: 53548430--53548467 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
53548420 TTATGAATAC
53548430 ATCATGTGCATATCATACGT
1 ATCATGTGCATATCATACGT
53548450 ATCATGTGCATATCATAC
1 ATCATGTGCATATCATAC
53548468 ATACCATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACGT
Found at i:53548475 original size:20 final size:20
Alignment explanation
Indices: 53548432--53548476 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
53548422 ATGAATACAT
* *
53548432 CATGTGCATATCATACGTAT
1 CATGTGCATATCATACATAC
53548452 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
53548472 CATGT
1 CATGT
53548477 TTCTCACAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:53548554 original size:25 final size:25
Alignment explanation
Indices: 53548512--53548559 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53548502 CATATATAAC
* * *
53548512 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
53548537 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
53548560 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:53555708 original size:24 final size:24
Alignment explanation
Indices: 53555658--53555789 Score: 169
Period size: 25 Copynumber: 5.4 Consensus size: 24
53555648 CTGGAGGCCT
53555658 AGCCTCTTTTAATAACT-GGAGCA-A
1 AGCC-CTTTTAATAACTAGG-GCATA
53555682 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
*
53555706 AGCCCTTTTAATAACTAGGGCAGA
1 AGCCCTTTTAATAACTAGGGCATA
* *
53555730 AGCCCTTTATCATAACTGGGGCATA
1 AGCCCTTT-TAATAACTAGGGCATA
* *
53555755 AGCCCTTTATCATAACTGGGGCATA
1 AGCCCTTT-TAATAACTAGGGCATA
53555780 AGCCCTTTTA
1 AGCCCTTTTA
53555790 CACTTCATCC
Statistics
Matches: 100, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
23 15 0.15
24 39 0.39
25 46 0.46
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTAGGGCATA
Found at i:53555753 original size:49 final size:47
Alignment explanation
Indices: 53555635--53555787 Score: 166
Period size: 48 Copynumber: 3.1 Consensus size: 47
53555625 AGCATAGCTG
*
53555635 CTTTATCATATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGAGCAAAGCC
1 CTTTATC--ATAACTGG-GGCATAAGCC-CTTTTAATAACTGG-GCAAAGCC
* *
53555686 CTTT-TAATAACTAGGGCATAAGCCCTTTTAATAACTAGGGCAGAAGCC
1 CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACT-GGGCA-AAGCC
*
53555734 CTTTATCATAACTGGGGCATAAGCCCTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCCCTTT-TAATAACT-GGGCA-AAGCC
53555784 CTTT
1 CTTT
53555788 TACACTTCAT
Statistics
Matches: 89, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
47 19 0.21
48 22 0.25
49 22 0.25
50 22 0.25
51 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (47 bp):
CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGGGCAAAGCC
Found at i:53555859 original size:20 final size:20
Alignment explanation
Indices: 53555834--53555900 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
53555824 TTATGAATAC
53555834 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
53555854 ATCATGTGCATGTCATACAT
1 ATCATGTGCATATCATACAT
*
53555874 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
53555894 ACCATGT
1 ATCATGT
53555901 TTATCACAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:53562211 original size:68 final size:68
Alignment explanation
Indices: 53562064--53562219 Score: 165
Period size: 68 Copynumber: 2.2 Consensus size: 68
53562054 AGCCAATTTG
* * * **
53562064 TCTCGTAGCTCTCTTGTCTACATGGTGTTCTTCACTTGGAATCACGCATGTGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACGCATGTGACCTAGCTACACA
*
53562129 TATC
65 TATA
*
53562133 TCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACGCATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACGCATGTGACCTAGCTAC-
53562195 ACATAGTA
62 ACATA-TA
*
53562203 TCTCGTAGCTTTCTTGT
1 TCTCGTAGCTCTCTTGT
53562220 ACACATGATG
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
68 36 0.49
69 6 0.08
70 6 0.08
71 26 0.35
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACGCATGTGACCTAGCTACACAT
ATA
Found at i:53570643 original size:14 final size:15
Alignment explanation
Indices: 53570610--53570647 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
53570600 ATATTATTAC
53570610 AATTATAATAATAAAT
1 AATT-TAATAATAAAT
*
53570626 AATTTAAT-ATATAT
1 AATTTAATAATAAAT
53570640 AATTTAAT
1 AATTTAAT
53570648 GCTTAATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 4 0.19
16 4 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTAATAATAAAT
Found at i:53573684 original size:29 final size:29
Alignment explanation
Indices: 53573642--53573698 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
53573632 AAAGTTAGAC
*
53573642 AAACTAATGAACCAAAAACATAGACGATA
1 AAACTAATGAACCAAAAACATAAACGATA
53573671 AAACTAATGAACCAAAAACATAAACGAT
1 AAACTAATGAACCAAAAACATAAACGAT
53573699 TCCAAATCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.60, C:0.18, G:0.09, T:0.14
Consensus pattern (29 bp):
AAACTAATGAACCAAAAACATAAACGATA
Found at i:53574756 original size:17 final size:17
Alignment explanation
Indices: 53574723--53574756 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
53574713 ATTGAGACTA
53574723 GTCATATATATATACAT
1 GTCATATATATATACAT
53574740 GTCATGATATATA-ACAT
1 GTCAT-ATATATATACAT
53574757 TCTCTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (17 bp):
GTCATATATATATACAT
Found at i:53576773 original size:30 final size:30
Alignment explanation
Indices: 53576739--53576799 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
53576729 TCCTTAACTC
53576739 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
53576769 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
53576799 A
1 A
53576800 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:53581178 original size:30 final size:30
Alignment explanation
Indices: 53581144--53581204 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
53581134 TCCTTAACTC
53581144 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
53581174 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
53581204 A
1 A
53581205 GGCTTGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:53586886 original size:12 final size:12
Alignment explanation
Indices: 53586869--53586893 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53586859 ACCCAAACAC
53586869 AAAAAAAAAACT
1 AAAAAAAAAACT
53586881 AAAAAAAAAACT
1 AAAAAAAAAACT
53586893 A
1 A
53586894 GCCACCAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (12 bp):
AAAAAAAAAACT
Found at i:53587234 original size:12 final size:11
Alignment explanation
Indices: 53587210--53587239 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
53587200 CATTTTGTTC
53587210 TTTAGTTTCTTT
1 TTTA-TTTCTTT
53587222 TTTATTTCTTT
1 TTTATTTCTTT
53587233 TTTATTT
1 TTTATTT
53587240 TTGTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTATTTCTTT
Found at i:53591091 original size:19 final size:21
Alignment explanation
Indices: 53591046--53591084 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
53591036 TTTCTCTTAA
53591046 ATTTTTATTATTATTTTATAT
1 ATTTTTATTATTATTTTATAT
53591067 ATTTTTA-TA-TATTTTATA
1 ATTTTTATTATTATTTTATA
53591085 GTTTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
ATTTTTATTATTATTTTATAT
Found at i:53594554 original size:21 final size:21
Alignment explanation
Indices: 53594515--53594582 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
53594505 GTTGTATAGA
*
53594515 GTTTA-TGGTTTTAGTGTTTAG
1 GTTTAGTGG-TTTAGAGTTTAG
53594536 GATTTAG-GGTTTAGAGTTTAG
1 G-TTTAGTGGTTTAGAGTTTAG
* *
53594557 GGTTAGTGG-TTGGAGTTTAGG
1 GTTTAGTGGTTTAGAGTTTA-G
53594578 GTTTA
1 GTTTA
53594583 AGGTGTAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 13 0.33
21 20 0.51
22 6 0.15
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (21 bp):
GTTTAGTGGTTTAGAGTTTAG
Found at i:53594581 original size:7 final size:7
Alignment explanation
Indices: 53594524--53594582 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
53594514 AGTTTATGGT
*
53594524 TTTAGTG
1 TTTAGGG
*
53594531 TTTAGGA
1 TTTAGGG
53594538 TTTAGGG
1 TTTAGGG
*
53594545 TTTAGAG
1 TTTAGGG
53594552 TTTAGGG
1 TTTAGGG
53594559 -TTAGTGG
1 TTTAG-GG
53594566 -TT-GGAG
1 TTTAGG-G
53594572 TTTAGGG
1 TTTAGGG
53594579 TTTA
1 TTTA
53594583 AGGTGTAAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 1 0.02
6 6 0.14
7 34 0.79
8 2 0.05
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:53594595 original size:34 final size:34
Alignment explanation
Indices: 53594525--53594595 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
53594515 GTTTATGGTT
* * *
53594525 TTAGTGTTTAGGATTTAGGGTTTAGAGTTTAGGG
1 TTAGTGGTTAGGATTTAGGGTTTAGAGTGTAAGG
53594559 TTAGTGGTT-GGAGTTTAGGGTTTA-AGGTGTAAGG
1 TTAGTGGTTAGGA-TTTAGGGTTTAGA-GTGTAAGG
53594593 TTA
1 TTA
53594596 ATGATTCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 4 0.12
34 28 0.88
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (34 bp):
TTAGTGGTTAGGATTTAGGGTTTAGAGTGTAAGG
Found at i:53598940 original size:93 final size:93
Alignment explanation
Indices: 53598817--53599087 Score: 261
Period size: 93 Copynumber: 2.9 Consensus size: 93
53598807 ATATATTGAG
* *
53598817 GCCGATGCCATGTCCCAAGCAGGTTTTACACTGGCTCTCATCTATCG-GTGCCAATGCCATGTCC
1 GCCGATGCCATGTCCCAA-CAGGTCTTACACTGGCTCTCATATATCGAG-GCCAATG-CATGTCC
*
53598881 TAGATAGGTCTTACACT-GACAC-ATGTC-AA-
63 TAGACAGGTCTTACACTAG-CACTA-GTCTAAT
* * * *
53598910 GCCGATTCCATGTCCCAGACAGGTCTTACACTAGCT-TGCATATCTCGAGGCCGATGCATGTCCT
1 GCCGATGCCATGTCCCA-ACAGGTCTTACACTGGCTCT-CATATATCGAGGCCAATGCATGTCCT
* *
53598974 AGACATGTCTTACACTAGCTCTAGTCTTAAT
64 AGACAGGTCTTACACTAGCACTAGTC-TAAT
* * * * *
53599005 GCCGATGCCATGTCCCAAACATGGTCTTACACTGCCTCTCATA-AT-GTGGTCGATGCATGTCCC
1 GCCGATGCCATGTCCC-AACA-GGTCTTACACTGGCTCTCATATATCGAGGCCAATGCATGTCCT
*
53599068 AGACATGTCTTACACTAGCA
64 AGACAGGTCTTACACTAGCA
53599088 TACATCCATA
Statistics
Matches: 150, Mismatches: 17, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
92 28 0.19
93 46 0.31
94 38 0.25
95 19 0.13
96 18 0.12
97 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAACAGGTCTTACACTGGCTCTCATATATCGAGGCCAATGCATGTCCTAG
ACAGGTCTTACACTAGCACTAGTCTAAT
Found at i:53598978 original size:48 final size:47
Alignment explanation
Indices: 53598770--53599083 Score: 218
Period size: 49 Copynumber: 6.6 Consensus size: 47
53598760 ACATCTAAGT
* * *
53598770 CGATGTCATGTCCCAGTCAGGTCTTACACTGACTTTCATATATTGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTG-C-TTCATATATCGAGGC
* *
53598819 CGATGCCATGTCCCA-AGCAGGTTTTACACTGGCTCTCATCTATCG-GTGC
1 CGATGCCATGTCCCAGA-CAGGTCTTACACT-GCT-TCATATATCGAG-GC
* * * * * * *
53598868 CAATGCCATGTCCTAGATAGGTCTTACACTG--ACACATGTC-AAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGCTTCATATATCGAGGC
* *
53598912 CGATTCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACT-GCTT-CATATATCGAGGC
* * * ** *
53598961 CGATG-CATGTCCTAGACATGTCTTACACTAGC-TC-TAGTCTTAATGC
1 CGATGCCATGTCCCAGACAGGTCTTACACT-GCTTCATA-TATCGAGGC
* * *
53599007 CGATGCCATGTCCCAAACATGGTCTTACACTGCCTCTCATA-AT-GTGGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTG-CT-TCATATATCGAGGC
*
53599055 CGATG-CATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
53599084 AGCATACATC
Statistics
Matches: 209, Mismatches: 38, Indels: 39
0.73 0.13 0.14
Matches are distributed among these distances:
44 28 0.13
45 8 0.04
46 22 0.11
47 25 0.12
48 51 0.24
49 69 0.33
50 4 0.02
51 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGCTTCATATATCGAGGC
Found at i:53601474 original size:24 final size:24
Alignment explanation
Indices: 53601447--53601544 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
53601437 AAGGCTGTCA
*
53601447 GGAGAATATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
53601471 GGAGACGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
53601495 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
*
53601519 GGAGAAGATTTAGAAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
53601544 G
1 G
53601545 AGCAAGAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
24 63 0.95
25 3 0.05
ACGTcount: A:0.37, C:0.06, G:0.36, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:53602971 original size:27 final size:27
Alignment explanation
Indices: 53602931--53603008 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 27
53602921 AGGAAGCGTC
53602931 CTGGTGGCTA-TGCCACAATTATCTGA-T
1 CTGGTGGC-ACTGCCAC-ATTATCTGATT
*
53602958 CTGGTGGCACTGCCACGTATATCT-ATT
1 CTGGTGGCACTGCCACAT-TATCTGATT
*
53602985 CTGGTGGCTCTGCCACATTATCTG
1 CTGGTGGCACTGCCACATTATCTG
53603009 TTATGGCAGC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
26 8 0.18
27 36 0.82
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACATTATCTGATT
Found at i:53605858 original size:47 final size:47
Alignment explanation
Indices: 53605780--53606188 Score: 640
Period size: 47 Copynumber: 8.6 Consensus size: 47
53605770 CCCTTCGGGA
* * * * * *
53605780 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53605827 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53605874 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53605921 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53605968 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
53606017 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53606064 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53606113 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53606160 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
53606189 TATTCAAATA
Statistics
Matches: 336, Mismatches: 18, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 226 0.67
49 108 0.32
50 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53606019 original size:96 final size:96
Alignment explanation
Indices: 53605780--53606188 Score: 693
Period size: 96 Copynumber: 4.3 Consensus size: 96
53605770 CCCTTCGGGA
* * * * * *
53605780 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
53605843 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
53605874 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATT-AGGCCTTATCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATA
53605936 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
53605968 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
53606033 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
53606064 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
53606129 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
53606160 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
53606189 TATTCAAATA
Statistics
Matches: 298, Mismatches: 11, Indels: 10
0.93 0.03 0.03
Matches are distributed among these distances:
93 1 0.00
94 90 0.30
96 206 0.69
97 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53606036 original size:143 final size:141
Alignment explanation
Indices: 53605780--53606188 Score: 658
Period size: 143 Copynumber: 2.9 Consensus size: 141
53605770 CCCTTCGGGA
* * * * * *
53605780 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
53605845 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
53605910 GGCTATTAGGC
131 GGCCATTAGGC
* *
53605921 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
*
53605986 ACTTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATACACTTTCACATTCATCAC
64 ACTTTCACATTCATCACATCGGCCATT-AGGCCTTATCACATATATACACTTTCACATTCATCAC
53606050 ATCGGCCATTAGGC
128 ATCGGCCATTAGGC
53606064 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
53606129 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATT
53606189 TATTCAAATA
Statistics
Matches: 247, Mismatches: 13, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
141 47 0.19
142 1 0.00
143 134 0.54
144 1 0.00
145 64 0.26
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:53609747 original size:6 final size:6
Alignment explanation
Indices: 53609736--53609764 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
53609726 CATAGTAAAA
53609736 TATATT TATATT TATATT TATATT TATAT
1 TATATT TATATT TATATT TATATT TATAT
53609765 AAATATCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATATT
Found at i:53609770 original size:18 final size:18
Alignment explanation
Indices: 53609736--53609770 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53609726 CATAGTAAAA
**
53609736 TATATTTATATTTATATT
1 TATATTTATATAAATATT
53609754 TATATTTATATAAATAT
1 TATATTTATATAAATAT
53609771 CATAATCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATTTATATAAATATT
Found at i:53610335 original size:9 final size:9
Alignment explanation
Indices: 53610318--53610486 Score: 196
Period size: 9 Copynumber: 18.1 Consensus size: 9
53610308 AAAATCTAAC
*
53610318 CATAGCTTA
1 CATAACTTA
53610327 CATAACTTA
1 CATAACTTA
*
53610336 CATAGCTTA
1 CATAACTTA
53610345 CATAACTTA
1 CATAACTTA
*
53610354 TATAACATT-
1 CATAAC-TTA
53610363 CATAACTTA
1 CATAACTTA
*
53610372 CATAGCTTA
1 CATAACTTA
53610381 CATAACTTA
1 CATAACTTA
53610390 CATAACTTA
1 CATAACTTA
* *
53610399 TATAAGTTA
1 CATAACTTA
53610408 CATAACATTTA
1 CATAAC--TTA
53610419 CATAACTTA
1 CATAACTTA
*
53610428 CATAGCTTA
1 CATAACTTA
53610437 CATAACTTA
1 CATAACTTA
*
53610446 CATAAATATATA
1 CAT-AA-CT-TA
53610458 TCATAACTTA
1 -CATAACTTA
53610468 CATAACTTA
1 CATAACTTA
53610477 CATAACTTA
1 CATAACTTA
53610486 C
1 C
53610487 GTAATACATA
Statistics
Matches: 137, Mismatches: 15, Indels: 16
0.82 0.09 0.10
Matches are distributed among these distances:
8 2 0.01
9 111 0.81
10 6 0.04
11 11 0.08
12 4 0.03
13 3 0.02
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:53612735 original size:32 final size:32
Alignment explanation
Indices: 53612694--53612756 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
53612684 CCCAGATGTG
53612694 TATGCATCAAATTTATCTTGATATGTGAGTCA
1 TATGCATCAAATTTATCTTGATATGTGAGTCA
53612726 TATGCATCAAATTTATCTTGATATGTGAGTC
1 TATGCATCAAATTTATCTTGATATGTGAGTC
53612757 TTAAAGATCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (32 bp):
TATGCATCAAATTTATCTTGATATGTGAGTCA
Found at i:53623021 original size:38 final size:40
Alignment explanation
Indices: 53622954--53623058 Score: 114
Period size: 38 Copynumber: 2.7 Consensus size: 40
53622944 GTAATTAATT
53622954 AATTTTAAAAAATAAATTTT-TATATATTTTTAATAATTTCT-A
1 AATTTT-AAAAATAAATTTTATATAT-TTTTTAA-AATTT-TAA
*
53622996 AATTTTAAAAATAAATTTTA-A-ATTTTTTAAGATTTTAA
1 AATTTTAAAAATAAATTTTATATATTTTTTAAAATTTTAA
*
53623034 AATTTTAAAAATTAA-TTTAT-TATTT
1 AATTTTAAAAATAAATTTTATATATTT
53623059 GACATTTACA
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
37 5 0.09
38 23 0.40
39 7 0.12
40 2 0.04
41 14 0.25
42 6 0.11
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (40 bp):
AATTTTAAAAATAAATTTTATATATTTTTTAAAATTTTAA
Found at i:53624782 original size:13 final size:12
Alignment explanation
Indices: 53624743--53624783 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
53624733 ACCCACATTT
53624743 AATTAAAAAATA
1 AATTAAAAAATA
53624755 TAATTACAAAAATA
1 -AATTA-AAAAATA
53624769 AATTAAAACAATA
1 AATTAAAA-AATA
53624782 AA
1 AA
53624784 AAATTATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.12
13 16 0.62
14 7 0.27
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (12 bp):
AATTAAAAAATA
Found at i:53629733 original size:6 final size:6
Alignment explanation
Indices: 53629724--53629751 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
53629714 TATTATTATT
53629724 ATTTTA ATTTTA ATTTTA ATTTTA ATTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTT
53629752 ATTTATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTTA
Found at i:53629763 original size:18 final size:17
Alignment explanation
Indices: 53629703--53629764 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
53629693 CTTTGAGTTC
*
53629703 ATTTATTTTATTATTATT
1 ATTTATTTTAAT-TTATT
53629721 A-TTATTTTAATTTTAATT
1 ATTTATTTTAA-TTT-ATT
*
53629739 -TTAATTTTAATTTATTT
1 ATTTATTTTAATTTA-TT
53629756 ATTTATTTT
1 ATTTATTTT
53629765 TGAAGACTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
16 1 0.03
17 15 0.42
18 20 0.56
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTATTTTAATTTATT
Found at i:53637223 original size:25 final size:25
Alignment explanation
Indices: 53637191--53637277 Score: 111
Period size: 25 Copynumber: 3.5 Consensus size: 25
53637181 TATTCTGATT
* *
53637191 ATGGCTTTGTGTCGATATGCTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* *
53637216 AAGGCTTTATGCCGATATGTTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* * *
53637241 ATCGTTTTGTGCCGGTATGTTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
53637266 ATGGCTTTGTGC
1 ATGGCTTTGTGC
53637278 TGCCACTGAA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.16, C:0.13, G:0.28, T:0.44
Consensus pattern (25 bp):
ATGGCTTTGTGCCGATATGTTATTG
Found at i:53637324 original size:20 final size:20
Alignment explanation
Indices: 53637261--53637391 Score: 145
Period size: 20 Copynumber: 6.5 Consensus size: 20
53637251 GCCGGTATGT
*
53637261 TATTGATGGCTTTGTGCTGC
1 TATTGATGGCTTTGTGCCGC
* * *
53637281 CACTGAAGGCTTTGTGCCGC
1 TATTGATGGCTTTGTGCCGC
*
53637301 TATTGATGGCTTTGTGCCGT
1 TATTGATGGCTTTGTGCCGC
* *
53637321 TATTAATGGCTTTGTGCCGA
1 TATTGATGGCTTTGTGCCGC
* * * *
53637341 TATTGACGGCTTTATACTGC
1 TATTGATGGCTTTGTGCCGC
*
53637361 TATTGATGGCTTCGTGCCGC
1 TATTGATGGCTTTGTGCCGC
*
53637381 TATTCATGGCT
1 TATTGATGGCT
53637392 GTGTACCATA
Statistics
Matches: 89, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 89 1.00
ACGTcount: A:0.15, C:0.20, G:0.27, T:0.39
Consensus pattern (20 bp):
TATTGATGGCTTTGTGCCGC
Found at i:53637431 original size:26 final size:26
Alignment explanation
Indices: 53637401--53637483 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
53637391 TGTGTACCAT
*
53637401 ATACTTATACTGGCAGCTTTGCTGCG
1 ATACTTATACTGGCAGCTATGCTGCG
* * * * *
53637427 TTACTGATACTGGCAACTCTGTTGCG
1 ATACTTATACTGGCAGCTATGCTGCG
53637453 ATA-TTATTACTGGCAGCTATGCTGCG
1 ATACTTA-TACTGGCAGCTATGCTGCG
53637479 ATACT
1 ATACT
53637484 GGTATGTTGG
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
25 2 0.04
26 42 0.93
27 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTTATACTGGCAGCTATGCTGCG
Found at i:53642348 original size:39 final size:40
Alignment explanation
Indices: 53642251--53642473 Score: 230
Period size: 39 Copynumber: 5.7 Consensus size: 40
53642241 TTGAATGCTG
*
53642251 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
53642289 ATCCGGACTAAGAT-CTGAAGGCAGTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
53642330 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
53642369 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
53642408 TCCGGGTTAAGTCCCGAAGGCATTTGTACGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
53642447 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
53642474 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 88 0.56
40 58 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:53642495 original size:79 final size:79
Alignment explanation
Indices: 53642324--53642506 Score: 187
Period size: 79 Copynumber: 2.3 Consensus size: 79
53642314 TGTGCGAGAT
* * * *
53642324 ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGATACTAATTCCGGGCTAAGCCCGAAGG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACAAGATACTAATACCGGGCTAAGCCCGAAGG
** *
53642388 CATTTGTGCGAGTT
66 CATTTGAACGAGTG
* *
53642402 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGAA-TTACT-ATAACCGGGCTATGTCCCGA
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTAC-AAGATACTAAT-ACCGGGCTAAG-CCCGA
53642465 AGGCATTTGAACGAG-G
63 AGGCATTTGAACGAGTG
* * *
53642481 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
53642507 TACGTGATTT
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 17 0.19
79 44 0.50
80 27 0.31
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACAAGATACTAATACCGGGCTAAGCCCGAAGG
CATTTGAACGAGTG
Found at i:53649301 original size:39 final size:39
Alignment explanation
Indices: 53649247--53649369 Score: 174
Period size: 39 Copynumber: 3.2 Consensus size: 39
53649237 TTGATTTTTT
* *
53649247 TGATATATTTTTGAATGCTATGTGATTATATGAGTATTG
1 TGATATATTCTTGAATGTTATGTGATTATATGAGTATTG
*
53649286 TGATATATTCTTGAATGTTATGTGATTATATGAATATTG
1 TGATATATTCTTGAATGTTATGTGATTATATGAGTATTG
* * * * *
53649325 TGATATATGCTTAAATGTTATGTGATTTTATGTGTAATG
1 TGATATATTCTTGAATGTTATGTGATTATATGAGTATTG
53649364 TGATAT
1 TGATAT
53649370 GTAACAGTCT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (39 bp):
TGATATATTCTTGAATGTTATGTGATTATATGAGTATTG
Found at i:53652386 original size:27 final size:27
Alignment explanation
Indices: 53652355--53652532 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
53652345 TAAATTGTAC
53652355 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
53652382 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
53652408 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
53652436 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
53652464 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
53652491 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
53652518 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
53652533 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:53652469 original size:82 final size:81
Alignment explanation
Indices: 53652356--53652511 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
53652346 AAATTGTACA
* *
53652356 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
53652420 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
53652437 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
53652502 TGCGAGTTGA
65 TGCGAATTGA
53652512 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:53652523 original size:82 final size:81
Alignment explanation
Indices: 53652352--53652532 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
53652342 GATTAAATTG
* *
53652352 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
53652417 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
53652433 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
53652497 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
53652515 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
53652533 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:53660287 original size:27 final size:27
Alignment explanation
Indices: 53660239--53660412 Score: 188
Period size: 27 Copynumber: 6.4 Consensus size: 27
53660229 GAGATTGGAG
* *
53660239 CTAAGTGTACGATTTGACTATGTTGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
** *
53660266 CTAAGTGTGCGAAATGAATATG-ATGCA
1 CTAAGTGTGCGATTTGACTATGTA-GCA
* * **
53660293 CTAAGTGTGCGAATTGACCATGCGGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
53660320 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGA-TTTGACTATGTAGCA
* *
53660348 CTAAGTGTGCGATTTGATTACGTAGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
* * *
53660375 CTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
*
53660402 CTGAGTGTGCG
1 CTAAGTGTGCG
53660413 GACTCAATAT
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
CTAAGTGTGCGATTTGACTATGTAGCA
Found at i:53660403 original size:82 final size:81
Alignment explanation
Indices: 53660239--53660412 Score: 206
Period size: 82 Copynumber: 2.1 Consensus size: 81
53660229 GAGATTGGAG
* * *
53660239 CTAAGTGTACGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCG
1 CTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCG
* *
53660304 AATTGACCATGCGGCA
66 AATTGACCATACAGCA
** *
53660320 CTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTGTG
1 CTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTGTG
* ** *
53660384 CGAGTTGATTATATAGCA
64 CGAATTGACCATACAGCA
*
53660402 CTGAGTGTGCG
1 CTAAGTGTGCG
53660413 GACTCAATAT
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 12 0.15
82 66 0.85
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
CTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCG
AATTGACCATACAGCA
Found at i:53662613 original size:15 final size:15
Alignment explanation
Indices: 53662594--53662628 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
53662584 AGCCGTGTGT
*
53662594 GACACACGACTTGGC
1 GACACACGACCTGGC
*
53662609 TACACACGACCTGGC
1 GACACACGACCTGGC
53662624 GACAC
1 GACAC
53662629 GACTGTGTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.37, G:0.23, T:0.11
Consensus pattern (15 bp):
GACACACGACCTGGC
Found at i:53672118 original size:5 final size:5
Alignment explanation
Indices: 53672082--53672109 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
53672072 GACTTCTTCT
53672082 AATAA AATAA AATAA AATAA AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AAT
53672110 TACAATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:53674640 original size:31 final size:31
Alignment explanation
Indices: 53674597--53674660 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
53674587 CCTTTTCATA
53674597 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
53674628 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
53674659 TT
1 TT
53674661 ATTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:53674928 original size:23 final size:23
Alignment explanation
Indices: 53674874--53675039 Score: 287
Period size: 23 Copynumber: 7.1 Consensus size: 23
53674864 CCTAGCCTCT
*
53674874 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
53674897 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
53674921 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
53674944 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
53674968 TTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
53674991 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
53675014 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
53675037 TTT
1 TTT
53675040 TGCACTTCCT
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
23 94 0.68
24 44 0.32
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:53675016 original size:46 final size:47
Alignment explanation
Indices: 53674874--53675040 Score: 300
Period size: 47 Copynumber: 3.6 Consensus size: 47
53674864 CCTAGCCTCT
*
53674874 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
53674921 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
53674968 TTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
53675014 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
53675041 GCACTTCCTC
Statistics
Matches: 114, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
46 44 0.39
47 70 0.61
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:53675112 original size:9 final size:9
Alignment explanation
Indices: 53675098--53675154 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
53675088 ATTTCATGTG
53675098 CATATCATA
1 CATATCATA
*
53675107 CATATCATGTG
1 CATATCA--TA
53675118 CATATCATA
1 CATATCATA
* *
53675127 CATGTCATGTG
1 CATATCA--TA
53675138 CATATCATA
1 CATATCATA
53675147 CATATCAT
1 CATATCAT
53675155 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:53675114 original size:20 final size:20
Alignment explanation
Indices: 53675086--53675156 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
53675076 GCATTTATGA
*
53675086 ACATTTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
53675106 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
53675126 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
53675146 ACATATCATGT
1 ACATATCATGT
53675157 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:53675121 original size:11 final size:11
Alignment explanation
Indices: 53675091--53675145 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
53675081 TATGAACATT
53675091 TCATGTGCATA
1 TCATGTGCATA
*
53675102 TCA--TACATA
1 TCATGTGCATA
53675111 TCATGTGCATA
1 TCATGTGCATA
* *
53675122 TCA--TACATG
1 TCATGTGCATA
53675131 TCATGTGCATA
1 TCATGTGCATA
53675142 TCAT
1 TCAT
53675146 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:53675232 original size:25 final size:24
Alignment explanation
Indices: 53675193--53675240 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
53675183 ATATATAAAC
* *
53675193 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAATGGTCA-TTTTA
53675218 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
53675241 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (24 bp):
CCTAGGGGCAAAATGGTCATTTTA
Found at i:53676438 original size:27 final size:27
Alignment explanation
Indices: 53676401--53676473 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
53676391 TATTTGTTAT
* *
53676401 TTTACCATACAGGGGTATTACGGTCAC
1 TTTACCCTACAGGGGTATTACAGTCAC
*
53676428 TTTACCCTACAAGGGCT-TTACAGTCAC
1 TTTACCCTAC-AGGGGTATTACAGTCAC
*
53676455 TTTA-CCTAATAGGGGTATT
1 TTTACCCT-ACAGGGGTATT
53676474 TTAGTCATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 8 0.21
27 25 0.66
28 5 0.13
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
TTTACCCTACAGGGGTATTACAGTCAC
Found at i:53676627 original size:27 final size:27
Alignment explanation
Indices: 53676491--53676716 Score: 118
Period size: 27 Copynumber: 8.3 Consensus size: 27
53676481 TTTCATCCTA
* * * *
53676491 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * ** ** *
53676518 CAAAGGCATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
53676545 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-T
* **
53676574 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
*
53676601 C-AGTTGTATTTTGGTAATTTTACAAAT
1 CAAG-GGTATTTTGGTAATTTTACAAAT
** * * *
53676628 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
53676655 CAAGGGTATTTTGGTAATTTTA-AAAA
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
53676681 CTAGGGGTATTTTGGTAATTTTGTAAAT
1 C-AAGGGTATTTTGGTAATTTTACAAAT
*
53676709 CGAGGGTA
1 CAAGGGTA
53676717 AAATAGTAAT
Statistics
Matches: 151, Mismatches: 40, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
26 7 0.05
27 110 0.73
28 19 0.13
29 15 0.10
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:53676715 original size:54 final size:53
Alignment explanation
Indices: 53676576--53676716 Score: 142
Period size: 54 Copynumber: 2.6 Consensus size: 53
53676566 TAGAAAGTCA
* * * *
53676576 AGGGTATTTCT-GTAACTTTGTAAATCAGTTGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTT-TGGTAATTTTGTAAATCAG-GGTATTTTGGTAATTTTAAAAATAG
* *** *
53676630 AGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTAAAAACTAG
1 AGGGTATTTTGGTAATTTTGTAAATC-AGGGTATTTTGGTAATTTTAAAAA-TAG
53676685 -GGGTATTTTGGTAATTTTGTAAATCGAGGGTA
1 AGGGTATTTTGGTAATTTTGTAAATC-AGGGTA
53676717 AAATAGTAAT
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
54 65 0.94
55 4 0.06
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTGTAAATCAGGGTATTTTGGTAATTTTAAAAATAG
Found at i:53676725 original size:27 final size:27
Alignment explanation
Indices: 53676695--53676826 Score: 176
Period size: 27 Copynumber: 4.9 Consensus size: 27
53676685 GGGTATTTTG
*
53676695 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
53676722 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * *
53676749 GTAATTCTATAAATCAAGGGTAAAA-C
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
53676775 GATACTTCTGTAAATCGAGGGTAAAATA
1 G-TAATTCTGTAAATCGAGGGTAAAATA
*
53676803 GTAATTCTGTAAGTCGAGGGTAAA
1 GTAATTCTGTAAATCGAGGGTAAA
53676827 GCGATAATTA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 90 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATA
Found at i:53676743 original size:54 final size:54
Alignment explanation
Indices: 53676695--53676851 Score: 190
Period size: 54 Copynumber: 2.9 Consensus size: 54
53676685 GGGTATTTTG
* * * * *
53676695 GTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAATA
* *
53676749 GTAATTCTATAAATCAAGGGTAAAACGATACTTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATA
* * * * *
53676803 GTAATTCTGTAAGTCGAGGGTAAAGCGATAATTATGTAAATCGGGGGTA
1 GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
53676852 CTTTGGTAAT
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 87 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATA
Found at i:53676834 original size:27 final size:27
Alignment explanation
Indices: 53676695--53676851 Score: 158
Period size: 27 Copynumber: 5.8 Consensus size: 27
53676685 GGGTATTTTG
* **
53676695 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAACGA
*
53676722 GTAATTCTGTAAATCAAGGGTAAAAC-A
1 GTAATTCTGTAAATCGAGGGT-AAACGA
* *
53676749 GTAATTCTATAAATCAAGGGTAAAACGA
1 GTAATTCTGTAAATCGAGGGT-AAACGA
* **
53676777 -TACTTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAACGA
*
53676803 GTAATTCTGTAAGTCGAGGGTAAAGCGA
1 GTAATTCTGTAAATCGAGGGTAAA-CGA
* *
53676831 -TAATTATGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
53676852 CTTTGGTAAT
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.04
27 101 0.92
28 5 0.05
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAACGA
Found at i:53676861 original size:54 final size:54
Alignment explanation
Indices: 53676708--53676878 Score: 173
Period size: 54 Copynumber: 3.2 Consensus size: 54
53676698 ATTTTGTAAA
* * * * *
53676708 TCGAGGGTAAAA-TAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAA
1 TCGAGGGTAAAACGA-TAATTATGTAAATCGAGGGTAAAATAGTAATTCTATAAG
* * * *
53676762 TCAAGGGTAAAACGATACTTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAG
1 TCGAGGGTAAAACGATAATTATGTAAATCGAGGGTAAAATAGTAATTCTATAAG
* * *** * * *
53676816 TCGAGGGTAAAGCGATAATTATGTAAATCGGGGGTACTTTGGTAATTTTACAAG
1 TCGAGGGTAAAACGATAATTATGTAAATCGAGGGTAAAATAGTAATTCTATAAG
53676870 TCGAGGGTA
1 TCGAGGGTA
53676879 TTTCAATAAT
Statistics
Matches: 97, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
54 96 0.99
55 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (54 bp):
TCGAGGGTAAAACGATAATTATGTAAATCGAGGGTAAAATAGTAATTCTATAAG
Found at i:53676874 original size:81 final size:79
Alignment explanation
Indices: 53676683--53676878 Score: 196
Period size: 81 Copynumber: 2.4 Consensus size: 79
53676673 TTTAAAAACT
*
53676683 AGGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAC
1 AGGGGTAATTTGGTAA-TTT-TAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAC
*
53676748 AGTAATTCTATAAATC
64 AGTAATTATATAAATC
* *** * * * * *
53676764 AAGGGTAAAACGATACTTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAGTCGAGGGTAAAGC
1 AGGGGTAATTTGGTAATT-T-TAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAC
*
53676829 -GATAATTATGTAAATC
64 AG-TAATTATATAAATC
* *
53676845 GGGGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 AGGGGTAATTTGGTAATTTTA-AA-TCGAGGGTA
53676879 TTTCAATAAT
Statistics
Matches: 91, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
79 2 0.02
80 6 0.07
81 83 0.91
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (79 bp):
AGGGGTAATTTGGTAATTTTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAG
TAATTATATAAATC
Found at i:53678413 original size:20 final size:20
Alignment explanation
Indices: 53678388--53678426 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
53678378 ATCTAAAAAG
53678388 AAAAGATATATAATTTACTA
1 AAAAGATATATAATTTACTA
53678408 AAAAGATATATAATTTACT
1 AAAAGATATATAATTTACT
53678427 GTTGACGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAAGATATATAATTTACTA
Found at i:53685640 original size:40 final size:40
Alignment explanation
Indices: 53685542--53685804 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
53685532 TCCTCGTTCA
* * * * *
53685542 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
53685581 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
53685621 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
53685661 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
** * *
53685701 AATGCCTTCGGGACTTAACCCGGATTTCGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
53685741 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
53685781 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
53685805 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:53685813 original size:41 final size:41
Alignment explanation
Indices: 53685736--53685813 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
53685726 TTCGTATCTC
* * *
53685736 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
53685777 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
53685814 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:53701525 original size:40 final size:40
Alignment explanation
Indices: 53701370--53701592 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 40
53701360 TCCTCGTTCA
** * * * * *
53701370 AATGCCTTCGAAACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
53701409 AATGCCTTCGGAACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
53701449 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
** * *
53701489 AATGCCTTCGGGACTTAACCCGGATTTCGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
53701529 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
53701569 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
53701593 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 36 0.23
40 112 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:53701601 original size:41 final size:41
Alignment explanation
Indices: 53701524--53701601 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
53701514 TTCGTATCTC
* * *
53701524 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
53701565 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
53701602 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:53709908 original size:42 final size:42
Alignment explanation
Indices: 53709862--53709944 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
53709852 GCTTGTATGC
* * *
53709862 CTCACACGGCTTGGACACATGCCAATGTCTTTGCCCATGTGT
1 CTCACACAGCTTGGACACACGCCAATGTCCTTGCCCATGTGT
* * * *
53709904 CTCACATAGCTTGGGCACACGCCCATGTCCTTGGCCATGTG
1 CTCACACAGCTTGGACACACGCCAATGTCCTTGCCCATGTG
53709945 GTCCTAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.18, C:0.33, G:0.23, T:0.27
Consensus pattern (42 bp):
CTCACACAGCTTGGACACACGCCAATGTCCTTGCCCATGTGT
Found at i:53712431 original size:14 final size:15
Alignment explanation
Indices: 53712404--53712440 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
53712394 TTAGGCGTAT
53712404 GTGACACACGGCCTG
1 GTGACACACGGCCTG
53712419 GTGACAC-CGGCCTG
1 GTGACACACGGCCTG
53712433 GTGACACA
1 GTGACACA
53712441 GTTGTGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.22, C:0.32, G:0.32, T:0.14
Consensus pattern (15 bp):
GTGACACACGGCCTG
Found at i:53712497 original size:62 final size:63
Alignment explanation
Indices: 53712426--53712557 Score: 185
Period size: 63 Copynumber: 2.1 Consensus size: 63
53712416 CTGGTGACAC
* * * * * *
53712426 CGGCCTGGTGACACAGTTGTGTGTTCCCTGTA-GTTCCATTGTATACAAGTTAGGTAGTTAGA
1 CGGCCTGGTGACACAGCTATGTGTCCCCTATAGGTTCCATTGCATACAAGTTAGGTAGTTACA
* *
53712488 CGGCCTGGTGACACAGCTATGTGTCCCCTATAGGTTCCGTTGCATACTAGTTAGGTAGTTACA
1 CGGCCTGGTGACACAGCTATGTGTCCCCTATAGGTTCCATTGCATACAAGTTAGGTAGTTACA
53712551 CGGCCTG
1 CGGCCTG
53712558 CCACACGGGC
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
62 28 0.46
63 33 0.54
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (63 bp):
CGGCCTGGTGACACAGCTATGTGTCCCCTATAGGTTCCATTGCATACAAGTTAGGTAGTTACA
Found at i:53719034 original size:142 final size:142
Alignment explanation
Indices: 53718778--53719044 Score: 358
Period size: 142 Copynumber: 1.9 Consensus size: 142
53718768 GCGTGCTAAA
* * * * * *
53718778 GTAAGACCTGTTTGGGACATGGCATCGGCACCGATAGATGAGAGCCAATGTAAGACCTTTCTGGG
1 GTAAGACCTGTCTAGGACATGGCATCGACACAGATAAATGAGAGCCAATATAAGACCTTTCTGGG
* * *
53718843 ACACGGCATCAGCCTCAAGATATGCAAGCTAGTGTAAAACCTTTCTGGGACATGGCATCGGCTTG
66 ACACGGCATCAGCCTCAACATATGCAAGCTAGTATAAAACCTATCTGGGACATGGCATCGGCTTG
53718908 AGGTGTGTTAGT
131 AGGTGTGTTAGT
* * *
53718920 GTAAGACCTGTCTAGGATATGGCATCGATACAGATAAATGAGAGCCAGTATAAGA-CTTGTCTGG
1 GTAAGACCTGTCTAGGACATGGCATCGACACAGATAAATGAGAGCCAATATAAGACCTT-TCTGG
* * * *
53718984 GACATGGCATC-GACCTCAACTTATGCAAGTTAGTATAAGACCTATCTGGGACATGGCATCG
65 GACACGGCATCAG-CCTCAACATATGCAAGCTAGTATAAAACCTATCTGGGACATGGCATCG
53719045 ACTTAGATAT
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
141 4 0.04
142 103 0.96
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (142 bp):
GTAAGACCTGTCTAGGACATGGCATCGACACAGATAAATGAGAGCCAATATAAGACCTTTCTGGG
ACACGGCATCAGCCTCAACATATGCAAGCTAGTATAAAACCTATCTGGGACATGGCATCGGCTTG
AGGTGTGTTAGT
Found at i:53726695 original size:49 final size:48
Alignment explanation
Indices: 53726498--53726767 Score: 193
Period size: 49 Copynumber: 5.6 Consensus size: 48
53726488 GATGTGTGTA
* * *
53726498 CTAGTGTAAGACCTGTCTGGGACACGACATCGGCCTCAAGATATGCAAG
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTC-AGATATGCAAG
* * * * ** *
53726547 CTAGTGTAAGACCTGTCTGAGACATGGCAACG-GCT-TGAGGT-C-TG
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAGATATGCAAG
* * * *
53726591 TTAGTGTAAGACCTGTCTAGGACATGGCATTGA-CACAGATAAGTG-AGAG
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAGAT-A-TGCA-AG
*
53726640 CTAGTGTAAGACCTGTCTGGGACATGGCATTGACCTC-GACGTATGCAAG
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAGA--TATGCAAG
* * *
53726689 -TCAGTGTAAGACCTGTTTGGGACATGGCATCGA-CTTAGATGTG-AGAG
1 CT-AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAGATATGCA-AG
* *
53726736 CCAGTGTAAGACCATGT-TTGGAGCATGGCATC
1 CTAGTGTAAGACC-TGTCTGGGA-CATGGCATC
53726768 AGAATTGCAC
Statistics
Matches: 176, Mismatches: 28, Indels: 35
0.74 0.12 0.15
Matches are distributed among these distances:
44 29 0.16
45 3 0.02
46 4 0.02
47 21 0.12
48 17 0.10
49 97 0.55
50 4 0.02
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
CTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAGATATGCAAG
Found at i:53728896 original size:27 final size:27
Alignment explanation
Indices: 53728855--53729027 Score: 238
Period size: 27 Copynumber: 6.4 Consensus size: 27
53728845 TGGTTAAGTT
53728855 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
53728882 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
53728909 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
53728936 ATAGAATTACCAAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
53728963 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* ** *
53728990 GTAGAATTACCGAGATACCTTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
53729017 GTAAAATTACC
1 GTAGAATTACC
53729028 ATTTTGGCCC
Statistics
Matches: 127, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 127 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:53732026 original size:22 final size:23
Alignment explanation
Indices: 53731971--53732050 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 23
53731961 TGAGCTGATG
**
53731971 AACAGTAAGCTCTATTGAGATAA
1 AACAGTAAGCTCTATCAAGATAA
* * *
53731994 AACGGTAAGCTCTATCAAGCT-T
1 AACAGTAAGCTCTATCAAGATAA
*
53732016 AACAGTAAGCTC-ATACGAA-CTAA
1 AACAGTAAGCTCTAT-C-AAGATAA
53732039 AACAGTAAGCTC
1 AACAGTAAGCTC
53732051 CAATGAGTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 2 0.04
22 14 0.30
23 31 0.66
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (23 bp):
AACAGTAAGCTCTATCAAGATAA
Found at i:53734444 original size:9 final size:9
Alignment explanation
Indices: 53734430--53734527 Score: 62
Period size: 9 Copynumber: 12.3 Consensus size: 9
53734420 GCAAAAGATT
53734430 TTAAAATTA
1 TTAAAATTA
53734439 TTAAAATTA
1 TTAAAATTA
53734448 TTAAAATTA
1 TTAAAATTA
53734457 TT----TT-
1 TTAAAATTA
53734461 TTAAAA-TA
1 TTAAAATTA
53734469 -TAAAATTAA
1 TTAAAATT-A
*
53734478 TTTAAATTA
1 TTAAAATTA
53734487 TT-AAATTA
1 TTAAAATTA
*
53734495 TT----TTT
1 TTAAAATTA
*
53734500 TTGAAA-TA
1 TTAAAATTA
53734508 -TAAAATTA
1 TTAAAATTA
53734516 TTAAAATTA
1 TTAAAATTA
53734525 TTA
1 TTA
53734528 TATTAAAATA
Statistics
Matches: 71, Mismatches: 4, Indels: 28
0.69 0.04 0.27
Matches are distributed among these distances:
4 2 0.03
5 6 0.08
7 10 0.14
8 12 0.17
9 35 0.49
10 6 0.08
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (9 bp):
TTAAAATTA
Found at i:53734487 original size:30 final size:31
Alignment explanation
Indices: 53734428--53734488 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
53734418 GAGCAAAAGA
53734428 TTTTAAAATTATTAAAATTATTAAAATTATT
1 TTTTAAAATTATTAAAATTATTAAAATTATT
*
53734459 TTTTAAAA-TA-TAAAATTAATTTAAATTATT
1 TTTTAAAATTATTAAAATT-ATTAAAATTATT
53734489 AAATTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 7 0.25
30 13 0.46
31 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
TTTTAAAATTATTAAAATTATTAAAATTATT
Found at i:53734488 original size:39 final size:39
Alignment explanation
Indices: 53734431--53734527 Score: 153
Period size: 39 Copynumber: 2.5 Consensus size: 39
53734421 CAAAAGATTT
53734431 TAAAATTATTAAAATTATTAAAATTA-TTTTTTAAAATA
1 TAAAATTATTAAAATTATTAAAATTATTTTTTTAAAATA
* *
53734469 TAAAATTAATTTAAATTATT-AAATTATTTTTTTGAAATA
1 TAAAATT-ATTAAAATTATTAAAATTATTTTTTTAAAATA
53734508 TAAAATTATTAAAATTATTA
1 TAAAATTATTAAAATTATTA
53734528 TATTAAAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
38 24 0.45
39 29 0.55
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (39 bp):
TAAAATTATTAAAATTATTAAAATTATTTTTTTAAAATA
Found at i:53734493 original size:38 final size:38
Alignment explanation
Indices: 53734431--53734532 Score: 152
Period size: 38 Copynumber: 2.7 Consensus size: 38
53734421 CAAAAGATTT
53734431 TAAAATTATTAAAATTATTAAAATTA-TTTTTTAAAATA
1 TAAAATTATTAAAATTATT-AAATTATTTTTTTAAAATA
* *
53734469 TAAAATTAATTTAAATTATTAAATTATTTTTTTGAAATA
1 TAAAATT-ATTAAAATTATTAAATTATTTTTTTAAAATA
*
53734508 TAAAATTATTAAAATTATTATATTA
1 TAAAATTATTAAAATTATTAAATTA
53734533 AAATATTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
38 29 0.50
39 29 0.50
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (38 bp):
TAAAATTATTAAAATTATTAAATTATTTTTTTAAAATA
Found at i:53734514 original size:21 final size:19
Alignment explanation
Indices: 53734449--53734517 Score: 70
Period size: 18 Copynumber: 3.5 Consensus size: 19
53734439 TTAAAATTAT
53734449 TAAAATTATTTTTTAAAATA
1 TAAAATTATTTTTT-AAATA
*
53734469 TAAAATTA--ATTTAAATTA
1 TAAAATTATTTTTTAAA-TA
*
53734487 TTAAATTATTTTTTTGAAATA
1 TAAAATTA-TTTTTT-AAATA
53734508 TAAAATTATT
1 TAAAATTATT
53734518 AAAATTATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
17 3 0.08
18 12 0.30
20 10 0.25
21 12 0.30
22 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (19 bp):
TAAAATTATTTTTTAAATA
Found at i:53734537 original size:30 final size:29
Alignment explanation
Indices: 53734481--53734538 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
53734471 AAATTAATTT
* * *
53734481 AAATTATTAAATTATTTTTTTGAAATATA
1 AAATTATTAAATTATTATATTAAAATATA
53734510 AAATTATTAAAATTATTATATTAAAATAT
1 AAATTATT-AAATTATTATATTAAAATAT
53734539 TTTTTTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
AAATTATTAAATTATTATATTAAAATATA
Done.