Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 299 of 352
Found at i:98044773 original size:31 final size:31
Alignment explanation
Indices: 98044735--98044798 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
98044725 CCTTTTCATA
98044735 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
98044766 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
98044797 TT
1 TT
98044799 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:98045097 original size:25 final size:24
Alignment explanation
Indices: 98044992--98045135 Score: 197
Period size: 25 Copynumber: 6.0 Consensus size: 24
98044982 GCTTTATCAT
*
98044992 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
98045017 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
98045040 ATAACT-GGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
98045063 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
*
98045088 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
98045113 ATAACT-GGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
98045136 CACTTCCTCC
Statistics
Matches: 112, Mismatches: 3, Indels: 10
0.90 0.02 0.08
Matches are distributed among these distances:
22 5 0.04
23 30 0.27
24 37 0.33
25 40 0.36
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:98045209 original size:20 final size:20
Alignment explanation
Indices: 98045184--98045250 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
98045174 TTATGAATAC
98045184 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
98045204 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
98045224 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
98045244 ACCATGT
1 ATCATGT
98045251 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:98045215 original size:11 final size:11
Alignment explanation
Indices: 98045184--98045239 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
98045174 TTATGAATAC
98045184 ATCATGTGCAT
1 ATCATGTGCAT
*
98045195 ATCA--TACAT
1 ATCATGTGCAT
98045204 ATCATGTGCAT
1 ATCATGTGCAT
*
98045215 ATCA--TACAT
1 ATCATGTGCAT
*
98045224 GTCATGTGCAT
1 ATCATGTGCAT
98045235 ATCAT
1 ATCAT
98045240 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:98048987 original size:40 final size:40
Alignment explanation
Indices: 98048943--98049169 Score: 310
Period size: 40 Copynumber: 5.7 Consensus size: 40
98048933 CCAACCCAAT
* * ** *
98048943 TGCCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
98048983 TGCCTTCGGGACTTAACCCGGAAATAGCGACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* ** *
98049023 TGCCTTCGGGGCTTAACCCAAAAATAACAACCAACACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
**
98049063 TGCCTTCGGGACTTAACCCAAAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
98049103 TACCTTCGGGACTTAACCCGGAAATAGCAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
98049143 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGAAATAA
98049170 TCCTCAATTG
Statistics
Matches: 165, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 165 1.00
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
Found at i:98051385 original size:24 final size:24
Alignment explanation
Indices: 98051354--98051403 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
98051344 ATGTCATCTC
*
98051354 ACTATATCAATAACCATTTCATGA
1 ACTATATCAATAACCATTCCATGA
98051378 ACTATATCAATAACCATTCCATGA
1 ACTATATCAATAACCATTCCATGA
98051402 AC
1 AC
98051404 CCATGGTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.24, G:0.04, T:0.30
Consensus pattern (24 bp):
ACTATATCAATAACCATTCCATGA
Found at i:98052586 original size:23 final size:23
Alignment explanation
Indices: 98052543--98052587 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
98052533 TTTCTTTTTC
*
98052543 TTTTTCTTTTATGTTTCATTATT
1 TTTTTCTTTTATGTTTAATTATT
*
98052566 TTTTTGTTTTA-GTTATAATTAT
1 TTTTTCTTTTATGTT-TAATTAT
98052588 AATTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.18, C:0.04, G:0.07, T:0.71
Consensus pattern (23 bp):
TTTTTCTTTTATGTTTAATTATT
Found at i:98058056 original size:25 final size:25
Alignment explanation
Indices: 98058023--98058109 Score: 110
Period size: 25 Copynumber: 3.5 Consensus size: 25
98058013 TTGAAAGTCC
98058023 GCACACATAGTGCTCTTACTTATTT
1 GCACACATAGTGCTCTTACTTATTT
98058048 GCACACATAGTGC-C--ACGTT-TTCT
1 GCACACATAGTGCTCTTAC-TTATT-T
*
98058071 CGCACACATAGTGCTCTTACTTATTC
1 -GCACACATAGTGCTCTTACTTATTT
98058097 GCACACATAGTGC
1 GCACACATAGTGC
98058110 CACGTTTTCT
Statistics
Matches: 54, Mismatches: 1, Indels: 14
0.78 0.01 0.20
Matches are distributed among these distances:
22 4 0.07
23 3 0.06
24 14 0.26
25 27 0.50
26 2 0.04
27 4 0.07
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (25 bp):
GCACACATAGTGCTCTTACTTATTT
Found at i:98058078 original size:49 final size:49
Alignment explanation
Indices: 98058022--98058182 Score: 222
Period size: 49 Copynumber: 3.3 Consensus size: 49
98058012 TTTGAAAGTC
*
98058022 CGCACACATAGTGCTCTTACTTATTTGCACACATAGTGCCACGTTTTCT
1 CGCACACATAGTGCTCTTACTTATTCGCACACATAGTGCCACGTTTTCT
98058071 CGCACACATAGTGCTCTTACTTATTCGCACACATAGTGCCACGTTTTCT
1 CGCACACATAGTGCTCTTACTTATTCGCACACATAGTGCCACGTTTTCT
* * *
98058120 CGCACACATAGTGC-CAT-GTAATCTCGCACACATAGTGCCACTTAGTTTT-T
1 CGCACACATAGTGCTCTTACTTAT-TCGCACACATAGTGCCAC---GTTTTCT
98058170 -GCACACATAGTGC
1 CGCACACATAGTGC
98058183 CGCATAACCT
Statistics
Matches: 104, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
47 3 0.03
48 20 0.19
49 75 0.72
50 1 0.01
51 5 0.05
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (49 bp):
CGCACACATAGTGCTCTTACTTATTCGCACACATAGTGCCACGTTTTCT
Found at i:98058080 original size:24 final size:24
Alignment explanation
Indices: 98058048--98058183 Score: 154
Period size: 24 Copynumber: 5.6 Consensus size: 24
98058038 TTACTTATTT
98058048 GCACACATAGTGCCACGTTTTCTC
1 GCACACATAGTGCCACGTTTTCTC
*
98058072 GCACACATAGTGCTCTTAC-TTAT-TC
1 GCACACATAGTGC-C--ACGTTTTCTC
98058097 GCACACATAGTGCCACGTTTTCTC
1 GCACACATAGTGCCACGTTTTCTC
* **
98058121 GCACACATAGTGCCATGTAATCTC
1 GCACACATAGTGCCACGTTTTCTC
98058145 GCACACATAGTGCCACTTAGTTTT-T-
1 GCACACATAGTGCCAC---GTTTTCTC
98058170 GCACACATAGTGCC
1 GCACACATAGTGCC
98058184 GCATAACCTT
Statistics
Matches: 96, Mismatches: 8, Indels: 15
0.81 0.07 0.13
Matches are distributed among these distances:
22 2 0.02
23 3 0.03
24 52 0.54
25 30 0.31
26 4 0.04
27 5 0.05
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.29
Consensus pattern (24 bp):
GCACACATAGTGCCACGTTTTCTC
Found at i:98058134 original size:73 final size:73
Alignment explanation
Indices: 98058048--98058183 Score: 202
Period size: 73 Copynumber: 1.9 Consensus size: 73
98058038 TTACTTATTT
** *
98058048 GCACACATAGTGCCACGTTTTCTCGCACACATAGTG-CTCTTACTTATTCGCACACATAGTGCCA
1 GCACACATAGTGCCACGTAATCTCGCACACATAGTGCCACTTACTT-TTCGCACACATAGTGCCA
98058112 CGTTTTCTC
65 CGTTTTCTC
* * *
98058121 GCACACATAGTGCCATGTAATCTCGCACACATAGTGCCACTTAGTTTTTGCACACATAGTGCC
1 GCACACATAGTGCCACGTAATCTCGCACACATAGTGCCACTTACTTTTCGCACACATAGTGCC
98058184 GCATAACCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 49 0.88
74 7 0.12
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.29
Consensus pattern (73 bp):
GCACACATAGTGCCACGTAATCTCGCACACATAGTGCCACTTACTTTTCGCACACATAGTGCCAC
GTTTTCTC
Found at i:98058198 original size:49 final size:48
Alignment explanation
Indices: 98058048--98058206 Score: 173
Period size: 49 Copynumber: 3.3 Consensus size: 48
98058038 TTACTTATTT
* *
98058048 GCACACATAGTGCCACGTTTTCTCGCACACATAGTGCTCTTAC-TTA-TTC
1 GCACACATAGTGCCACGTTTTCTCGCACACATAGTGC-C--ACATAACCTC
** *
98058097 GCACACATAGTGCCACGTTTTCTCGCACACATAGTGCCATGTAATCTC
1 GCACACATAGTGCCACGTTTTCTCGCACACATAGTGCCACATAACCTC
* *
98058145 GCACACATAGTGCCACTTAGTTTT-T-GCACACATAGTGCCGCATAACCTT
1 GCACACATAGTGCCAC---GTTTTCTCGCACACATAGTGCCACATAACCTC
98058194 GCACACATAGTGC
1 GCACACATAGTGC
98058207 TGAAATTTCT
Statistics
Matches: 97, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
46 1 0.01
47 2 0.02
48 19 0.20
49 69 0.71
50 1 0.01
51 5 0.05
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.28
Consensus pattern (48 bp):
GCACACATAGTGCCACGTTTTCTCGCACACATAGTGCCACATAACCTC
Found at i:98058198 original size:73 final size:73
Alignment explanation
Indices: 98058046--98058206 Score: 198
Period size: 73 Copynumber: 2.2 Consensus size: 73
98058036 TCTTACTTAT
** *
98058046 TTGCACACATAGTGCCACGTTTTCTCGCACACATAGTGCTCTTACTTATTCGCACACATAGTGCC
1 TTGCACACATAGTGCCACGTAATCTCGCACACATAGTGCACTTACTTATTCGCACACATAGTGCC
* ***
98058111 ACGTTTTC
66 ACATAACC
* * * *
98058119 TCGCACACATAGTGCCATGTAATCTCGCACACATAGTGCCACTTAGTT-TTTGCACACATAGTGC
1 TTGCACACATAGTGCCACGTAATCTCGCACACATAGTG-CACTTACTTATTCGCACACATAGTGC
*
98058183 CGCATAACC
65 CACATAACC
98058192 TTGCACACATAGTGC
1 TTGCACACATAGTGC
98058207 TGAAATTTCT
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
73 67 0.91
74 7 0.09
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (73 bp):
TTGCACACATAGTGCCACGTAATCTCGCACACATAGTGCACTTACTTATTCGCACACATAGTGCC
ACATAACC
Found at i:98059283 original size:20 final size:21
Alignment explanation
Indices: 98059258--98059296 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
98059248 TAATTTCTTC
*
98059258 TTTTATTCCTATT-TTTATTT
1 TTTTATTCATATTATTTATTT
98059278 TTTTATTCATATTATTTAT
1 TTTTATTCATATTATTTAT
98059297 GATATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTATTCATATTATTTATTT
Found at i:98061223 original size:21 final size:21
Alignment explanation
Indices: 98061185--98061224 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
98061175 TGTTCAACCA
*
98061185 ATTCAAAACACATTCAAATTC
1 ATTCAAAACACATCCAAATTC
98061206 ATTCAAAACA-ATGCCAAAT
1 ATTCAAAACACAT-CCAAAT
98061225 AAACAACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.50, C:0.23, G:0.03, T:0.25
Consensus pattern (21 bp):
ATTCAAAACACATCCAAATTC
Found at i:98063044 original size:42 final size:42
Alignment explanation
Indices: 98062984--98063064 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
98062974 CCAATGTGTG
* *
98062984 TATATAGCCGAATATATCTCAATCTCGCATACTAAGTGCAAA
1 TATATAACCGAATATATCTCAATCTCGCACACTAAGTGCAAA
* *
98063026 TATATAACCGAAGT-TATCTCAATTTCTCACACTAAGTGC
1 TATATAACCGAA-TATATCTCAATCTCGCACACTAAGTGC
98063065 CCATACTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.97
43 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (42 bp):
TATATAACCGAATATATCTCAATCTCGCACACTAAGTGCAAA
Found at i:98064631 original size:24 final size:24
Alignment explanation
Indices: 98064603--98064652 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
98064593 ATGTCTTCTC
*
98064603 ACTATATCAATAATCATTCCACGA
1 ACTATATCAATAACCATTCCACGA
*
98064627 ACTATATCAATAACCATTCCATGA
1 ACTATATCAATAACCATTCCACGA
98064651 AC
1 AC
98064653 CCATAGTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.26, G:0.04, T:0.28
Consensus pattern (24 bp):
ACTATATCAATAACCATTCCACGA
Found at i:98067093 original size:50 final size:51
Alignment explanation
Indices: 98067016--98067144 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
98067006 GACCATGGCA
*
98067016 ACAAGTGATAAGTGACAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
98067067 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
98067117 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
98067145 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:98067160 original size:24 final size:24
Alignment explanation
Indices: 98067133--98067181 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
98067123 GAAAAGTGGT
*
98067133 AGCTTCAGCTACCTGATCAGTGAA
1 AGCTTCAGCTACCTGATCAATGAA
*
98067157 AGCTTCTGCTACCTGATCAATGAA
1 AGCTTCAGCTACCTGATCAATGAA
98067181 A
1 A
98067182 AGTGGTAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (24 bp):
AGCTTCAGCTACCTGATCAATGAA
Found at i:98067188 original size:55 final size:56
Alignment explanation
Indices: 98067122--98067273 Score: 189
Period size: 62 Copynumber: 2.6 Consensus size: 56
98067112 AAATGACAAG
* *
98067122 TGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAA-AGCTTCTGCTACCTGATCAA
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAGAGCTTCGGCTACCTGATCAA
* *
98067177 TGAAAAGTGGTAGTTTCGGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAGTG--AA---G-AGCTTCGGCTACCTGATCAA
* *
98067239 TGAAAAATGGTAGCTCCGGCTACCTGATCAGTGAA
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAA
98067274 TAGTGGTAGC
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
55 31 0.37
57 2 0.02
60 2 0.02
62 48 0.58
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (56 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAGAGCTTCGGCTACCTGATCAA
Found at i:98067202 original size:31 final size:31
Alignment explanation
Indices: 98067157--98067292 Score: 218
Period size: 31 Copynumber: 4.4 Consensus size: 31
98067147 GATCAGTGAA
* *
98067157 AGCTTCTGCTACCTGATCAATGAAAAGTGGT
1 AGCTTCGGCTACCTGATCAGTGAAAAGTGGT
*
98067188 AGTTTCGGCTACCTGATCAGTGAAAAGTGGT
1 AGCTTCGGCTACCTGATCAGTGAAAAGTGGT
*
98067219 AGCTTCGGCTACCTGATCAGTGAAAAATGGT
1 AGCTTCGGCTACCTGATCAGTGAAAAGTGGT
* *
98067250 AGCTCCGGCTACCTGATCAGTGAATAGTGGT
1 AGCTTCGGCTACCTGATCAGTGAAAAGTGGT
98067281 AGCTTCGGCTAC
1 AGCTTCGGCTAC
98067293 AAGTGACAAG
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 96 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (31 bp):
AGCTTCGGCTACCTGATCAGTGAAAAGTGGT
Found at i:98067465 original size:42 final size:42
Alignment explanation
Indices: 98067411--98067508 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
98067401 TATGTGATTC
* *
98067411 GTGTAAAACCATAGCTAGGCTATGGCAT-AGATATATGAATAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCA-ATATATGAAGAT
* * *
98067453 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCAATATATGAAGAT
98067495 GTGTAAGACCATAG
1 GTGTAAGACCATAG
98067509 TTGAACCATG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
42 49 0.98
43 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTAGGCTATGGCATCAATATATGAAGAT
Found at i:98069193 original size:13 final size:13
Alignment explanation
Indices: 98069171--98069205 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
98069161 TAATTTTTCC
98069171 CTTTCTTTTTATTT
1 CTTTCTTTTTA-TT
98069185 CTTTCTTTTTATT
1 CTTTCTTTTTATT
98069198 CTTTCTTT
1 CTTTCTTT
98069206 CCCCTGTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (13 bp):
CTTTCTTTTTATT
Found at i:98071784 original size:22 final size:22
Alignment explanation
Indices: 98071759--98071829 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 22
98071749 ATTACATGGA
98071759 ACTATTTATTATTAATTATTAT
1 ACTATTTATTATTAATTATTAT
*
98071781 ACTAATTT-TAATTAAATTA-TAT
1 ACT-ATTTATTATT-AATTATTAT
* *
98071803 AATATTTATTATTTAATCATATAT
1 ACTATTTATTA-TTAATTAT-TAT
98071827 ACT
1 ACT
98071830 TAGTTAAGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
21 4 0.11
22 18 0.47
23 11 0.29
24 5 0.13
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (22 bp):
ACTATTTATTATTAATTATTAT
Found at i:98073062 original size:27 final size:30
Alignment explanation
Indices: 98073032--98073091 Score: 90
Period size: 27 Copynumber: 2.1 Consensus size: 30
98073022 AGTCAAGACT
98073032 AAAATTTAAAAAT-TC-AA-AAAATATAAA
1 AAAATTTAAAAATATCAAACAAAATATAAA
98073059 AAAATTTAAAAATATCAAATCAAAATATAAA
1 AAAATTTAAAAATATCAAA-CAAAATATAAA
98073090 AA
1 AA
98073092 TTAAATTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 13 0.45
28 2 0.07
29 2 0.07
31 12 0.41
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (30 bp):
AAAATTTAAAAATATCAAACAAAATATAAA
Found at i:98074260 original size:20 final size:21
Alignment explanation
Indices: 98074235--98074276 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
98074225 GTTTTTTAAT
*
98074235 AATTTT-GAAGGTTGAATTGG
1 AATTTTGGAAGGTCGAATTGG
*
98074255 AATTTTGGTAGGTCGAATTGG
1 AATTTTGGAAGGTCGAATTGG
98074276 A
1 A
98074277 CTGAATGAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.02, G:0.31, T:0.38
Consensus pattern (21 bp):
AATTTTGGAAGGTCGAATTGG
Found at i:98083959 original size:46 final size:46
Alignment explanation
Indices: 98083888--98083981 Score: 154
Period size: 46 Copynumber: 2.0 Consensus size: 46
98083878 TACGATATCC
*
98083888 TAACAATTTTATTAAATACATCATTTAAAAAAATAAAAAAT-AATTT
1 TAACAATTTTATTAAATACACCATTT-AAAAAATAAAAAATAAATTT
*
98083934 TAACAATTTTATTAAATACACCATTTTAAAAATAAAAAATAAATTT
1 TAACAATTTTATTAAATACACCATTTAAAAAATAAAAAATAAATTT
98083980 TA
1 TA
98083982 TGGAAATTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 13 0.29
46 32 0.71
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.37
Consensus pattern (46 bp):
TAACAATTTTATTAAATACACCATTTAAAAAATAAAAAATAAATTT
Found at i:98088350 original size:14 final size:14
Alignment explanation
Indices: 98088331--98088357 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
98088321 TCAACTCTAC
98088331 TAAACGATGAATGT
1 TAAACGATGAATGT
98088345 TAAACGATGAATG
1 TAAACGATGAATG
98088358 GAAACAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (14 bp):
TAAACGATGAATGT
Found at i:98093656 original size:6 final size:6
Alignment explanation
Indices: 98093641--98093684 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
98093631 ATGCTTTATT
*
98093641 TGTA-G TGTATG TGTATG TGTATG TGTATG TGTATG TGTGTG TGT
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGT
98093685 TTTGTTTGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
5 4 0.11
6 33 0.89
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (6 bp):
TGTATG
Found at i:98109093 original size:122 final size:120
Alignment explanation
Indices: 98108877--98109101 Score: 353
Period size: 122 Copynumber: 1.9 Consensus size: 120
98108867 CCAAAATAAC
* ** * *
98108877 CATGAGAATGAAAATAGTAATGTCATGGGTATGGGGTTTTCCTAATCTTGATTTAACACGGAATG
1 CATGAGAATGAAAATAGTAATGTCATGGGTATGGGGTTTTCCTAAACTCAATTTAACAAGAAATG
*
98108942 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTAGCATAGTAATAG
66 TATGATAACTAACCTAAGAATACAAATTAAATGATAGACATTAGCATAGTAATAG
*
98108997 CATGAGAAT-AAGCATAGTAATGTCATGGGTATGGGGTTTTCCTAAGAACTCAATTTAACAAGAA
1 CATGAGAATGAA-AATAGTAATGTCATGGGTATGGGGTTTTCCT-A-AACTCAATTTAACAAGAA
98109061 ATGTATGATAACTAACCTAAGAATACAAATTAAATGATAGA
63 ATGTATGATAACTAACCTAAGAATACAAATTAAATGATAGA
98109102 ATAATGAGCA
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
119 2 0.02
120 39 0.41
121 1 0.01
122 53 0.56
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (120 bp):
CATGAGAATGAAAATAGTAATGTCATGGGTATGGGGTTTTCCTAAACTCAATTTAACAAGAAATG
TATGATAACTAACCTAAGAATACAAATTAAATGATAGACATTAGCATAGTAATAG
Found at i:98113183 original size:40 final size:40
Alignment explanation
Indices: 98113128--98113425 Score: 458
Period size: 40 Copynumber: 7.5 Consensus size: 40
98113118 TTGGATGTTA
* * *
98113128 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
98113168 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
98113208 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
98113248 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
98113288 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
98113328 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
98113368 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
98113408 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
98113426 TACTTGGCTT
Statistics
Matches: 245, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 16 0.07
40 229 0.93
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:98121370 original size:40 final size:40
Alignment explanation
Indices: 98121315--98121532 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
98121305 TGGATGATAA
* * *
98121315 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
98121355 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
98121395 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
98121435 CCGGGCTAAGTCCCGAAGGCATTGGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
98121475 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
98121515 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
98121533 TACTTGGCTT
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:98129818 original size:120 final size:122
Alignment explanation
Indices: 98129654--98129878 Score: 321
Period size: 122 Copynumber: 1.9 Consensus size: 122
98129644 CCAACCTAAC
* * * * *
98129654 CATGAGAATGAAAATAGTAATGTCATGGGTGTGGGGTTTTCCT-A-ATCTTGATTTAACACGGAA
1 CATGAGAATGAAAATAGTAATGTCATGGGTATGAGGTTTTCCTAAGAACTCGATTTAACACGAAA
* * *
98129717 TGTATGGTAACTAACCTAAGAATGCAAATTAAATAATAGACATTAACATAGTAATAG
66 TGCATGATAACTAACCTAAGAATACAAATTAAATAATAGACATTAACATAGTAATAG
*
98129774 CATGAGAAT-AAGCATAGTAATGTCATGGGTATGAGGTTTTCCTAAGAACTCGATTTAACACGAA
1 CATGAGAATGAA-AATAGTAATGTCATGGGTATGAGGTTTTCCTAAGAACTCGATTTAACACGAA
* *
98129838 ATGCATGATAACTAACCTAAGAATATAAATTAAATGATAGA
65 ATGCATGATAACTAACCTAAGAATACAAATTAAATAATAGA
98129879 ATAATGAGCA
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
119 2 0.02
120 37 0.41
121 1 0.01
122 51 0.56
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (122 bp):
CATGAGAATGAAAATAGTAATGTCATGGGTATGAGGTTTTCCTAAGAACTCGATTTAACACGAAA
TGCATGATAACTAACCTAAGAATACAAATTAAATAATAGACATTAACATAGTAATAG
Found at i:98131787 original size:18 final size:18
Alignment explanation
Indices: 98131764--98131800 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
98131754 GATAGATCAA
98131764 TAAAGAGATTCAATTTTG
1 TAAAGAGATTCAATTTTG
98131782 TAAAGAGATTCAATTTTG
1 TAAAGAGATTCAATTTTG
98131800 T
1 T
98131801 GTTTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (18 bp):
TAAAGAGATTCAATTTTG
Found at i:98134438 original size:13 final size:12
Alignment explanation
Indices: 98134420--98134461 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 12
98134410 CTCTTCATGT
98134420 TTCTTTGTTTTTC
1 TTCTTT-TTTTTC
98134433 TTCTTTTCTTTTC
1 TTCTTTT-TTTTC
98134446 TTTCTTTTTTTTC
1 -TTCTTTTTTTTC
98134459 TTC
1 TTC
98134462 CCCTTTATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.15
13 16 0.59
14 7 0.26
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (12 bp):
TTCTTTTTTTTC
Found at i:98134449 original size:9 final size:9
Alignment explanation
Indices: 98134419--98134460 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
98134409 CCTCTTCATG
98134419 TTTCTTTGTT
1 TTTCTTT-TT
*
98134429 TTTC-TTCT
1 TTTCTTTTT
*
98134437 TTTCTTTTC
1 TTTCTTTTT
98134446 TTTCTTTTT
1 TTTCTTTTT
98134455 TTTCTT
1 TTTCTT
98134461 CCCCTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 5 0.19
9 18 0.67
10 4 0.15
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:98138850 original size:34 final size:33
Alignment explanation
Indices: 98138804--98138867 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
98138794 TTGAACAGTC
98138804 TGGGCTTAAGCCC-ATATCAGTAGCAATATCAATG
1 TGGGCTTAAGCCCAAT-TCAGTA-CAATATCAATG
*
98138838 TGGGCCTT-AGCCCAATTCAGTACAGTATCA
1 TGGG-CTTAAGCCCAATTCAGTACAATATCA
98138868 GTAATGCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 7 0.26
34 15 0.56
35 5 0.19
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (33 bp):
TGGGCTTAAGCCCAATTCAGTACAATATCAATG
Found at i:98151110 original size:16 final size:16
Alignment explanation
Indices: 98151067--98151112 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
98151057 TTTAGGGAAA
*
98151067 TAGAAATAAATAAAAT
1 TAGAAATAAATAAAAC
*
98151083 TA-AAAAAAATAAAAC
1 TAGAAATAAATAAAAC
*
98151098 TAGAATTAAATAAAA
1 TAGAAATAAATAAAA
98151113 AAGAATATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (16 bp):
TAGAAATAAATAAAAC
Found at i:98159244 original size:32 final size:32
Alignment explanation
Indices: 98159208--98159345 Score: 116
Period size: 33 Copynumber: 4.2 Consensus size: 32
98159198 ACTCGAGGTG
* *
98159208 TACATTTCTTTCCGAGTGGTACACACAAAGTA
1 TACATTTCTTTCCAAATGGTACACACAAAGTA
* *
98159240 TACATTTCCTTTTCAAATGGTATACACAAAGTA
1 TACATTT-CTTTCCAAATGGTACACACAAAGTA
* ** * *
98159273 TACCTAACCTTTCCAAGT-GTACACACAAAGTG
1 TACAT-TTCTTTCCAAATGGTACACACAAAGTA
** * *
98159305 TACATAAACTTTTCAAATGGTATACACAAAGTA
1 TACAT-TTCTTTCCAAATGGTACACACAAAGTA
*
98159338 TACCTTTC
1 TACATTTC
98159346 CTTTTCACAT
Statistics
Matches: 83, Mismatches: 20, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
32 34 0.41
33 49 0.59
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.32
Consensus pattern (32 bp):
TACATTTCTTTCCAAATGGTACACACAAAGTA
Found at i:98159349 original size:65 final size:66
Alignment explanation
Indices: 98159215--98159342 Score: 204
Period size: 65 Copynumber: 2.0 Consensus size: 66
98159205 GTGTACATTT
* ***
98159215 CTTTCCGAGTGGTACACACAAAGTATACATTTCCTTTTCAAATGGTATACACAAAGTATACCTAA
1 CTTTCCAAGTGGTACACACAAAGTATACATAAACTTTTCAAATGGTATACACAAAGTATACCTAA
98159280 C
66 C
*
98159281 CTTTCCAAGT-GTACACACAAAGTGTACATAAACTTTTCAAATGGTATACACAAAGTATACCT
1 CTTTCCAAGTGGTACACACAAAGTATACATAAACTTTTCAAATGGTATACACAAAGTATACCT
98159343 TTCCTTTTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
65 48 0.84
66 9 0.16
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.30
Consensus pattern (66 bp):
CTTTCCAAGTGGTACACACAAAGTATACATAAACTTTTCAAATGGTATACACAAAGTATACCTAA
C
Found at i:98159352 original size:33 final size:33
Alignment explanation
Indices: 98159224--98159340 Score: 146
Period size: 33 Copynumber: 3.6 Consensus size: 33
98159214 TCTTTCCGAG
**
98159224 TGGTACACACAAAGTATACATTTCCTTTTCAAA
1 TGGTACACACAAAGTATACATAACCTTTTCAAA
* * * *
98159257 TGGTATACACAAAGTATACCTAACCTTTCCAAG
1 TGGTACACACAAAGTATACATAACCTTTTCAAA
* *
98159290 T-GTACACACAAAGTGTACATAAACTTTTCAAA
1 TGGTACACACAAAGTATACATAACCTTTTCAAA
*
98159322 TGGTATACACAAAGTATAC
1 TGGTACACACAAAGTATAC
98159341 CTTTCCTTTT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
32 26 0.38
33 43 0.62
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (33 bp):
TGGTACACACAAAGTATACATAACCTTTTCAAA
Found at i:98159385 original size:29 final size:29
Alignment explanation
Indices: 98159345--98159443 Score: 180
Period size: 29 Copynumber: 3.4 Consensus size: 29
98159335 GTATACCTTT
98159345 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
98159374 CTTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
98159403 CCTTTTCACATTTGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
98159432 CCTTTTCACATT
1 CCTTTTCACATT
98159444 GTACACACAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.35
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:98162896 original size:22 final size:21
Alignment explanation
Indices: 98162854--98162896 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
98162844 AAATCTGTCG
**
98162854 AAAATAATCAAAATTTGATAT
1 AAAATAATCAAAATTCAATAT
*
98162875 AAAATTAATTAAAATTCAATAT
1 AAAA-TAATCAAAATTCAATAT
98162897 GTTCATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAATAATCAAAATTCAATAT
Found at i:98164874 original size:3 final size:3
Alignment explanation
Indices: 98164866--98164891 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
98164856 CTCTGTGGGA
98164866 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
98164892 AGGATCCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:98165443 original size:15 final size:16
Alignment explanation
Indices: 98165425--98165454 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
98165415 TGCTATTAAT
98165425 TTATTAAA-AAAATAC
1 TTATTAAATAAAATAC
98165440 TTATTAAATAAAATA
1 TTATTAAATAAAATA
98165455 TGATCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TTATTAAATAAAATAC
Found at i:98165533 original size:22 final size:19
Alignment explanation
Indices: 98165494--98165535 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
98165484 TGGAAAGTTG
98165494 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
98165513 ATAATACATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
98165535 A
1 A
98165536 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:98167131 original size:15 final size:13
Alignment explanation
Indices: 98167102--98167128 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
98167092 GCTCGGCAGG
98167102 GACACGCCCGTGT
1 GACACGCCCGTGT
98167115 GACACGCCCGTGT
1 GACACGCCCGTGT
98167128 G
1 G
98167129 TGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:98174332 original size:30 final size:30
Alignment explanation
Indices: 98174275--98174332 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
98174265 TTTTCGAGCA
**
98174275 TAGGGGCAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
98174305 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
98174333 ATATGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:98180532 original size:18 final size:18
Alignment explanation
Indices: 98180511--98180575 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
98180501 TCGGTTATCT
*
98180511 AGTAATAGTCAATTATTC
1 AGTAAAAGTCAATTATTC
* * *
98180529 AGTAAAAATCAAATATAC
1 AGTAAAAGTCAATTATTC
* *
98180547 AGTAACAATTAAATTATTC
1 AGTAA-AAGTCAATTATTC
*
98180566 AGTAACAGTC
1 AGTAAAAGTC
98180576 TATTTACCCC
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
18 21 0.60
19 14 0.40
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (18 bp):
AGTAAAAGTCAATTATTC
Found at i:98180570 original size:19 final size:19
Alignment explanation
Indices: 98180521--98180572 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
98180511 AGTAATAGTC
*
98180521 AATTATTCAGTAAAAATCA
1 AATTATTCAGTAACAATCA
* *
98180540 AA-TATACAGTAACAATTA
1 AATTATTCAGTAACAATCA
98180558 AATTATTCAGTAACA
1 AATTATTCAGTAACA
98180573 GTCTATTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.31
Consensus pattern (19 bp):
AATTATTCAGTAACAATCA
Found at i:98180740 original size:55 final size:52
Alignment explanation
Indices: 98180643--98180744 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 52
98180633 ACCAGTACAG
* * * * *
98180643 CACATAGTGCCTCATCGGCCAAAGCCGGAACAGTAACAGTAACAGTACGGTA
1 CACAGAGTACCTCATCGGACAAAGCCAGAACAGTAAAAGTAACAGTACGGTA
*
98180695 CACAGAGTACCTCATCGGAACAAATCCAGAACAGTAAAACGGTAACAGTA
1 CACAGAGTACCTCATCGG-ACAAAGCCAGAACAGTAAAA--GTAACAGTA
98180745 ACAATATCTG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
52 16 0.39
53 16 0.39
55 9 0.22
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.15
Consensus pattern (52 bp):
CACAGAGTACCTCATCGGACAAAGCCAGAACAGTAAAAGTAACAGTACGGTA
Found at i:98181860 original size:20 final size:18
Alignment explanation
Indices: 98181824--98181864 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 18
98181814 AAACCTTTAA
98181824 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
98181842 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
98181862 TTT
1 TTT
98181865 CACTACTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 10 0.48
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:98182077 original size:16 final size:15
Alignment explanation
Indices: 98182068--98182102 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
98182058 TATTTATTAT
98182068 ATAATATATTATTTA
1 ATAATATATTATTTA
*
98182083 ATAATATACTTATATA
1 ATAATATA-TTATTTA
98182099 ATAA
1 ATAA
98182103 GTAAATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
ATAATATATTATTTA
Found at i:98184497 original size:30 final size:30
Alignment explanation
Indices: 98184440--98184497 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
98184430 TTTTCGAGCA
**
98184440 TAGGGGCAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
98184470 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
98184498 ATGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:98185041 original size:44 final size:46
Alignment explanation
Indices: 98184842--98185053 Score: 150
Period size: 47 Copynumber: 4.6 Consensus size: 46
98184832 TGTGCGCCAA
* * * * *
98184842 TGTAAGACATGTCTGGGACATGCTTCAG-C-CACATTATTAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTCACA-GA-GATAGCTAG
* * * * * **
98184888 TGTAATACCATATCTAGGACATGGCATCGGCATC-CAGATGAGGGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCACAGA-GATAGCTAG
* *
98184936 TGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTC-ACAGAGATAGCTAG
* * *
98184983 TGTAAGACGTGTCTGGGACACGCATCAG-CT-A-AGAG-TTGTTCTAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTCACAGAGATAG--CTAG
98185027 TGTAAGACATGTCTGGGACATGCATCA
1 TGTAAGACATGTCTGGGACATGCATCA
98185054 ACACGCGTAT
Statistics
Matches: 134, Mismatches: 24, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 29 0.22
46 18 0.13
47 55 0.41
48 23 0.17
49 2 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCTCACAGAGATAGCTAG
Found at i:98199568 original size:30 final size:28
Alignment explanation
Indices: 98199533--98199607 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 28
98199523 TTTATTATCC
98199533 ATTATATTATTTTTATTATTATATATTTT
1 ATTATATTATTTTT-TTATTATATATTTT
*
98199562 ACTTATAAATTA-TATTTTATTATATATTTT
1 A-TTAT--ATTATTTTTTTATTATATATTTT
98199592 ATATATATTATTTTTT
1 AT-TATATTATTTTTT
98199608 ATTTTCTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
28 4 0.10
29 6 0.15
30 22 0.56
31 3 0.08
32 4 0.10
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (28 bp):
ATTATATTATTTTTTTATTATATATTTT
Found at i:98199596 original size:28 final size:29
Alignment explanation
Indices: 98199548--98199610 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
98199538 ATTATTTTTA
98199548 TTATTATATATTTTACTTATAAATTATATT
1 TTATTATATATTTTAC-TATAAATTATATT
* *
98199578 TTATTATATATTTTA-TATATATTATTTT
1 TTATTATATATTTTACTATAAATTATATT
98199606 TTATT
1 TTATT
98199611 TTCTATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 16 0.52
30 15 0.48
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (29 bp):
TTATTATATATTTTACTATAAATTATATT
Found at i:98199598 original size:11 final size:12
Alignment explanation
Indices: 98199572--98199600 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
98199562 ACTTATAAAT
98199572 TATATTTTATTA
1 TATATTTTATTA
98199584 TATATTTTA-TA
1 TATATTTTATTA
98199595 TATATT
1 TATATT
98199601 ATTTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:98199602 original size:21 final size:21
Alignment explanation
Indices: 98199535--98199631 Score: 62
Period size: 21 Copynumber: 4.8 Consensus size: 21
98199525 TATTATCCAT
*
98199535 TATATTATT-TTTATTATTATA
1 TATATTATTATATATT-TTATA
* *
98199556 TATTTTACTTATA-A-ATTATA
1 TATATTA-TTATATATTTTATA
98199576 T-T-TTATTATATATTTTATA
1 TATATTATTATATATTTTATA
* * *
98199595 TATATTATTTTTTATTTTCTA
1 TATATTATTATATATTTTATA
*
98199616 TAAATTATGTAT-TATT
1 TATATTAT-TATATATT
98199632 ATTCATTAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
17 5 0.08
18 4 0.07
19 7 0.12
20 7 0.12
21 31 0.52
22 5 0.08
23 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (21 bp):
TATATTATTATATATTTTATA
Found at i:98199757 original size:17 final size:17
Alignment explanation
Indices: 98199735--98199767 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
98199725 TATTTTATTT
98199735 ATATTTTATTACATATC
1 ATATTTTATTACATATC
*
98199752 ATATTTTATTATATAT
1 ATATTTTATTACATAT
98199768 TATTCCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTTTATTACATATC
Found at i:98199767 original size:12 final size:12
Alignment explanation
Indices: 98199723--98199839 Score: 64
Period size: 12 Copynumber: 9.2 Consensus size: 12
98199713 TTTATTTCAT
98199723 TATATTTTATT-
1 TATATTTTATTA
98199734 TATATTTTATTACATA
1 TATATTTTA-T---TA
98199750 TCATATTTTATTA
1 T-ATATTTTATTA
*
98199763 TATATTATTCCTTA
1 TATATT-TT-ATTA
98199777 TAGTA-TTT-TT-
1 TA-TATTTTATTA
*
98199787 TCT-TTTTATTA
1 TATATTTTATTA
98199798 TATATTTTATTA
1 TATATTTTATTA
*
98199810 TATACATCTTATTA
1 TAT--ATTTTATTA
*
98199824 TATATATTTTTTA
1 TATAT-TTTATTA
98199837 TAT
1 TAT
98199840 TACTTATCAT
Statistics
Matches: 84, Mismatches: 6, Indels: 30
0.70 0.05 0.25
Matches are distributed among these distances:
9 4 0.05
10 3 0.04
11 13 0.15
12 19 0.23
13 15 0.18
14 17 0.20
15 3 0.04
16 2 0.02
17 8 0.10
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:98199877 original size:21 final size:21
Alignment explanation
Indices: 98199818--98199878 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
98199808 TATATACATC
98199818 TTATTATATATATTT-TTTATA
1 TTATTATATAT-TTTGTTTATA
*
98199839 TTACTTATCATA--TGGTTTATA
1 TTA-TTAT-ATATTTTGTTTATA
98199860 TTATTATATATTTTGTTTA
1 TTATTATATATTTTGTTTA
98199879 CAAATTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 18 0.55
22 4 0.12
23 3 0.09
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (21 bp):
TTATTATATATTTTGTTTATA
Found at i:98211984 original size:44 final size:45
Alignment explanation
Indices: 98211927--98212161 Score: 162
Period size: 45 Copynumber: 5.3 Consensus size: 45
98211917 AATCTAAGAT
* **
98211927 GATTTGGCATCTCTATA-TTGTCATAGGGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTATATTTGTCAGAGACCAGATCAAAGATAGCA
* * * *
98211971 GATTTGGCGTCTCTGTATTTTTCAGAGACCAGATCGAAGATAGCA
1 GATTTGGCATCTCTATATTTGTCAGAGACCAGATCAAAGATAGCA
* * ** * * * * *
98212016 GATTTGGCATTTCTGTA-CGGTCAGAGAGCAAATCAGAGAAAGTA
1 GATTTGGCATCTCTATATTTGTCAGAGACCAGATCAAAGATAGCA
* * *
98212060 GATTTGGCATCTTCGTAT-TTTGACGAGGAGA--AAATCCAAGA-AGCA
1 GATTTGGCATC-TC-TATATTTGTC-A-GAGACCAGATCAAAGATAGCA
* * * * *
98212105 GATTTGGCATCCCTGTA-TTGTCAG-GAGCAGATCGAGGATAGCA
1 GATTTGGCATCTCTATATTTGTCAGAGACCAGATCAAAGATAGCA
98212148 GATTTGGCATCTCT
1 GATTTGGCATCTCT
98212162 GTATGGTTAG
Statistics
Matches: 148, Mismatches: 33, Indels: 21
0.73 0.16 0.10
Matches are distributed among these distances:
40 2 0.01
41 1 0.01
42 8 0.05
43 23 0.16
44 44 0.30
45 53 0.36
46 12 0.08
47 1 0.01
48 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (45 bp):
GATTTGGCATCTCTATATTTGTCAGAGACCAGATCAAAGATAGCA
Found at i:98212013 original size:45 final size:45
Alignment explanation
Indices: 98211927--98212229 Score: 230
Period size: 44 Copynumber: 6.8 Consensus size: 45
98211917 AATCTAAGAT
* * * *
98211927 GATTTGGCATCTCTATA-TTGTCATAGGGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTTGTCAGAGAGCAGATCGAAGATAGCA
* * *
98211971 GATTTGGCGTCTCTGTATTTTTCAGAGACCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTTGTCAGAGAGCAGATCGAAGATAGCA
* ** * * *
98212016 GATTTGGCATTTCTGTA-CGGTCAGAGAGCAAATC-AGAGAAAGTA
1 GATTTGGCATCTCTGTATTTGTCAGAGAGCAGATCGA-AGATAGCA
* * * *
98212060 GATTTGGCATCT-TCGTATTT-TGACGAGGAGAAAATCCAAGA-AGCA
1 GATTTGGCATCTCT-GTATTTGTCA-GA-GAGCAGATCGAAGATAGCA
* *
98212105 GATTTGGCATCCCTGTA-TTGTCAG-GAGCAGATCGAGGATAGCA
1 GATTTGGCATCTCTGTATTTGTCAGAGAGCAGATCGAAGATAGCA
* * * *
98212148 GATTTGGCATCTCTGTA-TGGTTAGAGAGCAAATCAGAA-ATAGTA
1 GATTTGGCATCTCTGTATTTGTCAGAGAGCAGATC-GAAGATAGCA
* * * * * *
98212192 GATTTGACATCTTTGTGTTCGACGGAGAGCAGATCGAA
1 GATTTGGCATCTCTGTATTTGTCAGAGAGCAGATCGAA
98212230 ATATCAGCAT
Statistics
Matches: 204, Mismatches: 42, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
42 10 0.05
43 27 0.13
44 82 0.40
45 72 0.35
46 12 0.06
47 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTTGTCAGAGAGCAGATCGAAGATAGCA
Found at i:98212139 original size:132 final size:135
Alignment explanation
Indices: 98211962--98212204 Score: 368
Period size: 132 Copynumber: 1.8 Consensus size: 135
98211952 GGGCAGATCA
* * * *
98211962 AAGATAGCAGATTTGGCGTCTCTGTATTTTTCAGAGACCAGATCGAAGATAGCAGATTTGGCATT
1 AAGATAGCAGATTTGGCATCCCTGTATTTGTCAGAGACCAGATCGAAGATAGCAGATTTGGCATC
*
98212027 TCTGTACGGTCAGAGAGCAAATCAGAGAA-AGTAGATTTGGCATCTTCGTATTTTGACGAGGAGA
66 TCTGTACGGTCAGAGAGCAAATCAGA-AATAGTAGATTTGACATCTTCGTATTTTGACGAGGAGA
98212091 AAATCC
130 AAATCC
* *
98212097 AAGA-AGCAGATTTGGCATCCCTGTA-TTGTCAG-GAGCAGATCGAGGATAGCAGATTTGGCATC
1 AAGATAGCAGATTTGGCATCCCTGTATTTGTCAGAGACCAGATCGAAGATAGCAGATTTGGCATC
* *
98212159 TCTGTATGGTTAGAGAGCAAATCAGAAATAGTAGATTTGACATCTT
66 TCTGTACGGTCAGAGAGCAAATCAGAAATAGTAGATTTGACATCTT
98212205 TGTGTTCGAC
Statistics
Matches: 98, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
131 2 0.02
132 67 0.68
133 6 0.06
134 19 0.19
135 4 0.04
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (135 bp):
AAGATAGCAGATTTGGCATCCCTGTATTTGTCAGAGACCAGATCGAAGATAGCAGATTTGGCATC
TCTGTACGGTCAGAGAGCAAATCAGAAATAGTAGATTTGACATCTTCGTATTTTGACGAGGAGAA
AATCC
Found at i:98234651 original size:13 final size:13
Alignment explanation
Indices: 98234633--98234664 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
98234623 CGATAGGGAT
*
98234633 ACGCCCGTGTGAC
1 ACGCCCATGTGAC
98234646 ACGCCCATGTGAC
1 ACGCCCATGTGAC
98234659 ACGCCC
1 ACGCCC
98234665 TTGTACGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.44, G:0.25, T:0.12
Consensus pattern (13 bp):
ACGCCCATGTGAC
Found at i:98247190 original size:13 final size:13
Alignment explanation
Indices: 98247172--98247196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98247162 GGTTGTTTAT
98247172 TAAACTAATTAAC
1 TAAACTAATTAAC
98247185 TAAACTAATTAA
1 TAAACTAATTAA
98247197 GTAATTAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:98250210 original size:16 final size:16
Alignment explanation
Indices: 98250189--98250222 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
98250179 TTAAACTTAC
98250189 TTTTTTTATTTTATTT
1 TTTTTTTATTTTATTT
98250205 TTTTTTTATTTTATTT
1 TTTTTTTATTTTATTT
98250221 TT
1 TT
98250223 ACTACATCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTTATTTTATTT
Found at i:98250211 original size:11 final size:11
Alignment explanation
Indices: 98250190--98250223 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
98250180 TAAACTTACT
98250190 TTTTTTATTTTA
1 TTTTTT-TTTTA
98250202 TTTTTTTTTTA
1 TTTTTTTTTTA
*
98250213 TTTTATTTTTA
1 TTTTTTTTTTA
98250224 CTACATCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:98251763 original size:15 final size:15
Alignment explanation
Indices: 98251743--98251771 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
98251733 ATATTTTGAA
98251743 TCAAAGGTAATCACT
1 TCAAAGGTAATCACT
98251758 TCAAAGGTAATCAC
1 TCAAAGGTAATCAC
98251772 GTAAATGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (15 bp):
TCAAAGGTAATCACT
Found at i:98262516 original size:10 final size:10
Alignment explanation
Indices: 98262503--98262537 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
98262493 AATTTTCCCT
98262503 TTTCTTTTTC
1 TTTCTTTTTC
*
98262513 TTTCTTTTTT
1 TTTCTTTTTC
98262523 TTTCTTCTTTC
1 TTTCTT-TTTC
98262534 TTTC
1 TTTC
98262538 CCTACTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.68
11 7 0.32
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:98269481 original size:70 final size:70
Alignment explanation
Indices: 98269362--98269510 Score: 221
Period size: 70 Copynumber: 2.1 Consensus size: 70
98269352 GGGGAATCAT
* *
98269362 CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGGA
1 CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGGA
98269427 TATCG
66 TATCG
***
98269432 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
98269495 GATATCG
64 GATATCG
98269502 CACTTAGCA
1 CACTTAGCA
98269511 CCACCAATGA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
69 7 0.10
70 60 0.83
71 5 0.07
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (70 bp):
CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGGA
TATCG
Found at i:98269614 original size:104 final size:102
Alignment explanation
Indices: 98269431--98269652 Score: 356
Period size: 104 Copynumber: 2.2 Consensus size: 102
98269421 AATGGATATC
98269431 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTGG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTGG
* *
98269496 ATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 ATATCGCACATAGCACCACCAATAAACCGGGGAATCA
98269533 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATATGGT
* *
98269598 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
64 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
98269637 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
98269653 TTTATATACA
Statistics
Matches: 111, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
102 17 0.15
103 20 0.18
104 73 0.66
105 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.18
Consensus pattern (102 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTGG
ATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:98270014 original size:29 final size:29
Alignment explanation
Indices: 98269981--98270044 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
98269971 TAATCCACCA
98269981 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
98270010 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
98270040 CCCAA
1 CCCAA
98270045 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:98270018 original size:30 final size:30
Alignment explanation
Indices: 98269988--98270044 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
98269978 CCACCCAACT
98269988 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
98270017 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
98270045 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:98277974 original size:5 final size:5
Alignment explanation
Indices: 98277964--98278000 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
98277954 AGTTTGAATA
*
98277964 AAAAT AAAAT AAAAT AAAAT AACAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
98278001 TAAATAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:98286392 original size:46 final size:46
Alignment explanation
Indices: 98286339--98286429 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
98286329 TATATATACA
* * *
98286339 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* ** *
98286385 CATCTCATACACATTTTGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
98286430 ATACACATCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.31, G:0.07, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:98286472 original size:22 final size:22
Alignment explanation
Indices: 98286446--98286521 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
98286436 ATCCACGTTC
98286446 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
98286468 ATCACATGTATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
98286493 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
98286515 ATCACAT
1 ATCACAT
98286522 ATATGCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 7 0.17
25 10 0.24
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.36
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:98286566 original size:22 final size:22
Alignment explanation
Indices: 98286541--98286615 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
98286531 TTCATATTCT
98286541 TCACATTGGCCATTCAGCCTTA
1 TCACATTGGCCATTCAGCCTTA
*
98286563 TCACACATAT-G-CATGTTCA-CATTCA
1 T--CACAT-TGGCCA--TTCAGCCTT-A
*
98286588 TCACATTGGCCATTCGGCCTTA
1 TCACATTGGCCATTCAGCCTTA
98286610 TCACAT
1 TCACAT
98286616 ATATACATGT
Statistics
Matches: 41, Mismatches: 3, Indels: 18
0.66 0.05 0.29
Matches are distributed among these distances:
22 12 0.29
23 11 0.27
24 11 0.27
25 7 0.17
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.32
Consensus pattern (22 bp):
TCACATTGGCCATTCAGCCTTA
Found at i:98286827 original size:23 final size:23
Alignment explanation
Indices: 98286754--98286827 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
98286744 GGTCTTATCA
98286754 CACAAATGCATGTTCACATTCAT
1 CACAAATGCATGTTCACATTCAT
** * *
98286777 CACATTTGCCA--TTCGGCCTTAGCA-
1 CACAAATG-CATGTTC-ACATT--CAT
98286801 CACAAATGCATGTTCACATTCAT
1 CACAAATGCATGTTCACATTCAT
98286824 CACA
1 CACA
98286828 TTTGCCATCC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 15 0.42
24 11 0.31
25 5 0.14
ACGTcount: A:0.31, C:0.30, G:0.11, T:0.28
Consensus pattern (23 bp):
CACAAATGCATGTTCACATTCAT
Found at i:98286846 original size:47 final size:47
Alignment explanation
Indices: 98286443--98286840 Score: 607
Period size: 47 Copynumber: 8.5 Consensus size: 47
98286433 CACATCCACG
* **
98286443 TTCATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* * *
98286490 TTTATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* *
98286537 TTCTTCACATTGGCCATTCAGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* *
98286584 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* * *
98286631 GTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
98286678 TTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* *
98286725 TTCATCACATTGGCCATTCGGTCTTATCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* * *
98286772 TTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* *
98286819 TTCATCACATTTGCCATCCGGC
1 TTCATCACATTGGCCATTCGGC
98286841 ATTAGCTCAT
Statistics
Matches: 324, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 324 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
Found at i:98286864 original size:141 final size:141
Alignment explanation
Indices: 98286409--98286875 Score: 628
Period size: 141 Copynumber: 3.3 Consensus size: 141
98286399 TTTGCATTAA
* ** * * * *
98286409 CCATTCGGCTTTCCCACATATATACACATCCACGTTCATCACATTGGCCATTCTGCCTTATCACA
1 CCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGGCCATTCGGCCTTATCACA
* *
98286474 TGTATGCATGTTCACATTTATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATT
66 TATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATT
*
98286539 CTTCACATTGG
131 CATCACATTGG
* * **
98286550 CCATTCAGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGGCCATTCGGCCTTATCACA
* *
98286615 TATATACATGTTCACAGTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATT
66 TATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATT
98286680 CATCACATTGG
131 CATCACATTGG
** *
98286691 CCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGTCTTATCACA
1 CCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGGCCATTCGGCCTTATCACA
* * * * * * *
98286756 CAAATGCATGTTCACATTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACATT
66 TATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATT
*
98286821 CATCACATTTG
131 CATCACATTGG
* * * * ** *
98286832 CCATCCGGCATTAGCTCATGTATACACATTCACATCCATCACAT
1 CCATTCGGCCTTATCACACATATACACATTCACATTCATCACAT
98286876 AAAATCCTAA
Statistics
Matches: 288, Mismatches: 38, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
141 288 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (141 bp):
CCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGGCCATTCGGCCTTATCACA
TATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATT
CATCACATTGG
Found at i:98292756 original size:63 final size:64
Alignment explanation
Indices: 98292676--98292825 Score: 155
Period size: 67 Copynumber: 2.3 Consensus size: 64
98292666 ATATAGTTCG
* * * *
98292676 GCTCTCTTGTAC-ACATGGTG-AACA-TTGAGTACCACACATGTGACCTAGC-CAGTTTATCTCG
1 GCTCTCTTGT-CTACATGGTGCAACACTTG-GAACCACACATGCGACCTAGCACA-TATATCCCG
98292737 TA
63 TA
** *
98292739 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG--CAACACTTGGAACCACACATGCGACCTAGC-ACATATATCCCG
98292804 TA
63 TA
98292806 GCTCTCTTGTCTACATGGTG
1 GCTCTCTTGTCTACATGGTG
98292826 TAAACATAGT
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
62 1 0.01
63 18 0.25
66 20 0.27
67 32 0.44
68 2 0.03
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGCAACACTTGGAACCACACATGCGACCTAGCACATATATCCCGTA
Found at i:98295225 original size:6 final size:6
Alignment explanation
Indices: 98295216--98295254 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
98295206 CACCGTAAGG
* *
98295216 GTAATA GTAACA GTAACA GTAACA GTAATA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
98295255 GCGGTACACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.23
Consensus pattern (6 bp):
GTAACA
Found at i:98295231 original size:12 final size:12
Alignment explanation
Indices: 98295216--98295254 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
98295206 CACCGTAAGG
98295216 GTAATAGTAACA
1 GTAATAGTAACA
*
98295228 GTAACAGTAACA
1 GTAATAGTAACA
98295240 GTAATAGTAACA
1 GTAATAGTAACA
98295252 GTA
1 GTA
98295255 GCGGTACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.23
Consensus pattern (12 bp):
GTAATAGTAACA
Found at i:98296247 original size:16 final size:17
Alignment explanation
Indices: 98296194--98296247 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 17
98296184 ATTAATATAT
* *
98296194 TATAATTATATAATTTA
1 TATAATTATTTACTTTA
* *
98296211 -AT-ATAATTTACTTTT
1 TATAATTATTTACTTTA
98296226 TATAATTATTTAC-TTA
1 TATAATTATTTACTTTA
98296242 TATAAT
1 TATAAT
98296248 AAGTAAATTC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 9 0.31
16 12 0.41
17 8 0.28
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (17 bp):
TATAATTATTTACTTTA
Found at i:98298379 original size:4 final size:4
Alignment explanation
Indices: 98298370--98298417 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
98298360 ATGAGTTTAC
98298370 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
98298418 TTCCGTTGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:98302975 original size:27 final size:27
Alignment explanation
Indices: 98302941--98303118 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
98302931 TAAATTGTAC
98302941 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
98302968 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
98302994 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
98303022 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
98303050 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
98303077 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
98303104 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
98303119 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:98303055 original size:82 final size:81
Alignment explanation
Indices: 98302942--98303097 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
98302932 AAATTGTACA
* *
98302942 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
98303006 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
98303023 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
98303088 TGCGAGTTGA
65 TGCGAATTGA
98303098 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:98303109 original size:82 final size:81
Alignment explanation
Indices: 98302938--98303118 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
98302928 GAGTAAATTG
* *
98302938 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
98303003 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
98303019 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
98303083 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
98303101 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
98303119 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:98311021 original size:27 final size:27
Alignment explanation
Indices: 98310987--98311164 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
98310977 TAAATTGTAC
98310987 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
98311014 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
98311040 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
98311068 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
98311096 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
98311123 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
98311150 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
98311165 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:98311101 original size:82 final size:81
Alignment explanation
Indices: 98310988--98311143 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
98310978 AAATTGTACA
* *
98310988 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
98311052 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
98311069 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
98311134 TGCGAGTTGA
65 TGCGAATTGA
98311144 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:98311155 original size:82 final size:81
Alignment explanation
Indices: 98310984--98311164 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
98310974 GAGTAAATTG
* *
98310984 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
98311049 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
98311065 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
98311129 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
98311147 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
98311165 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:98312555 original size:13 final size:13
Alignment explanation
Indices: 98312537--98312563 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
98312527 GAAGAAATCG
98312537 CACACGGGCGTGT
1 CACACGGGCGTGT
98312550 CACACGGGCGTGT
1 CACACGGGCGTGT
98312563 C
1 C
98312564 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:98322384 original size:49 final size:49
Alignment explanation
Indices: 98322327--98322426 Score: 148
Period size: 49 Copynumber: 2.0 Consensus size: 49
98322317 AGAAGAAGAG
* *
98322327 AATTAAACATG-AAGTAATTCATATATAAAATAAAACGAAACGAAATGAC
1 AATTAAACATGAAAG-AATTCATATAAAAAATAAAACAAAACGAAATGAC
* *
98322376 AATTAAACATGAAAGAATTCATATAAAAAATAAGACAAAACGAATTGAC
1 AATTAAACATGAAAGAATTCATATAAAAAATAAAACAAAACGAAATGAC
98322425 AA
1 AA
98322427 GTAGTAGAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 43 0.93
50 3 0.07
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.21
Consensus pattern (49 bp):
AATTAAACATGAAAGAATTCATATAAAAAATAAAACAAAACGAAATGAC
Found at i:98325112 original size:21 final size:21
Alignment explanation
Indices: 98325088--98325136 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
98325078 GAATCTTTAG
*
98325088 TATTTATTGTATTATTT-TATT
1 TATTTATT-TATCATTTCTATT
*
98325109 TATTTAATTATCATTTCTATT
1 TATTTATTTATCATTTCTATT
*
98325130 TAATTAT
1 TATTTAT
98325137 GTTGTCAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
TATTTATTTATCATTTCTATT
Found at i:98325803 original size:7 final size:7
Alignment explanation
Indices: 98325782--98325826 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
98325772 TATTCAGTTC
98325782 ACTCTCA
1 ACTCTCA
98325789 ACAT-TCA
1 AC-TCTCA
98325796 ACTCTCA
1 ACTCTCA
*
98325803 AGTCTCA
1 ACTCTCA
98325810 ACTCTCA
1 ACTCTCA
98325817 ACTCTCA
1 ACTCTCA
98325824 ACT
1 ACT
98325827 TATTGTTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 1 0.03
7 32 0.94
8 1 0.03
ACGTcount: A:0.31, C:0.38, G:0.02, T:0.29
Consensus pattern (7 bp):
ACTCTCA
Found at i:98326478 original size:16 final size:17
Alignment explanation
Indices: 98326457--98326502 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
98326447 GGTATTTACT
98326457 TATATTTTA-AGT-ATAA
1 TATATTTTATA-TAATAA
98326473 TATATTTTATATAATAA
1 TATATTTTATATAATAA
98326490 TATATTATTATAT
1 TATATT-TTATAT
98326503 TAATTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.37
17 11 0.41
18 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TATATTTTATATAATAA
Found at i:98326515 original size:16 final size:16
Alignment explanation
Indices: 98326469--98326511 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
98326459 TATTTTAAGT
*
98326469 ATAATATATTTTATATA
1 ATAATATATTAT-TATA
98326486 ATAATATATTATTATA
1 ATAATATATTATTATA
*
98326502 TTAAT-TATTA
1 ATAATATATTA
98326512 ATTAACTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 5 0.21
16 8 0.33
17 11 0.46
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATAATATATTATTATA
Found at i:98329260 original size:25 final size:23
Alignment explanation
Indices: 98329218--98329270 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
98329208 AAATTTATTT
*
98329218 TTATTATTAATTCTATTATTACTA
1 TTATTATTAATTCCATTATT-CTA
98329242 CTTATTATT-ATTGCCATTATTCTA
1 -TTATTATTAATT-CCATTATTCTA
98329266 TTATT
1 TTATT
98329271 TCTTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 6 0.23
25 15 0.58
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTATTAATTCCATTATTCTA
Found at i:98329310 original size:21 final size:22
Alignment explanation
Indices: 98329279--98329319 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
98329269 TTTCTTATAT
98329279 TTTATCATCATTGTTGTTACTA
1 TTTATCATCATTGTTGTTACTA
*
98329301 TTTAT-ATCATTGTTTTTAC
1 TTTATCATCATTGTTGTTAC
98329320 ATTATAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.22, C:0.12, G:0.07, T:0.59
Consensus pattern (22 bp):
TTTATCATCATTGTTGTTACTA
Found at i:98331757 original size:46 final size:46
Alignment explanation
Indices: 98331641--98331759 Score: 177
Period size: 46 Copynumber: 2.6 Consensus size: 46
98331631 CCATAGTGTG
* * *
98331641 TTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCA-TTTCATGTCACGCTGCCATGGTATC
*
98331687 TTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTCATGTCACGCTGCCATGGTATC
*
98331733 TTTCAACCATGGTCTTACACATTTCAT
1 TTTCAACCATGGTCTTACTCATTTCAT
98331760 ATCAGAGAGC
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 4 0.06
46 62 0.94
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.42
Consensus pattern (46 bp):
TTTCAACCATGGTCTTACTCATTTCATGTCACGCTGCCATGGTATC
Found at i:98348131 original size:42 final size:42
Alignment explanation
Indices: 98348072--98348222 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
98348062 ATAAGAATAT
* * *
98348072 GTGTAAGACCATATCTGGGATATGGCATCGGTATGATATTAT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAAATTAC
* *
98348114 GTGTAAGACCATGTCTGGGACATGGCATCGATACT-AAACTT-C
1 GTGTAAGACCATATCTGGGATATGGCATCGATA-TGAAA-TTAC
* * *
98348156 GTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATTAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAAATTAC
* * *
98348199 ATGTAAAACTATATCTGGGATATG
1 GTGTAAGACCATATCTGGGATATG
98348223 ACATTGTACG
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
42 55 0.62
43 34 0.38
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAAATTAC
Found at i:98350519 original size:47 final size:47
Alignment explanation
Indices: 98350465--98350594 Score: 183
Period size: 47 Copynumber: 2.8 Consensus size: 47
98350455 CTCTATCGAT
*
98350465 AGTACCTATACCATGGCCCATAACCAAATCAAGGTAACT-TATC-CCGG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCT-TCTCC-G
* *
98350512 AGTACCTATACCATGGCCTATAGCCAAATCAAGGTAACTCTTCTTCG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCTTCTCCG
* *
98350559 AATACCTATACCATGGCTCATAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTA
98350595 TCATTCGCAT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
47 73 0.97
48 2 0.03
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.24
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCTTCTCCG
Found at i:98366751 original size:42 final size:42
Alignment explanation
Indices: 98366704--98366855 Score: 171
Period size: 42 Copynumber: 3.6 Consensus size: 42
98366694 ATGAGAATAC
* * *
98366704 GTGTAAGACCATATCTGGGATATGGCATCGGTATGATATCAT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAAATTAT
* * *
98366746 GTGTAAGCCCATGTCTGGGACT-TGGCATCGATATGAAATTTT
1 GTGTAAGACCATATCTGGGA-TATGGCATCGATATGAAATTAT
* * * *
98366788 GTGTAAGACCATAACTGGGCTATTGGCATCGATATGAGATTAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAAATTAT
* *
98366831 ATGTAAGACCATATCCGGGATATGG
1 GTGTAAGACCATATCTGGGATATGG
98366856 AATTGTACGA
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.01
42 53 0.59
43 36 0.40
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAAATTAT
Found at i:98380468 original size:23 final size:23
Alignment explanation
Indices: 98380442--98380487 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
98380432 CATTCTCTTG
*
98380442 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
98380465 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
98380488 CAATGTCACG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.35
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:98393849 original size:27 final size:27
Alignment explanation
Indices: 98393819--98393870 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
98393809 CCTAATTTGA
**
98393819 TAAAATGACTGTTATACCCCTATGAGG
1 TAAAATGACTGACATACCCCTATGAGG
*
98393846 TAAAATGACTGACATGCCCCTATGA
1 TAAAATGACTGACATACCCCTATGA
98393871 TATATATGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (27 bp):
TAAAATGACTGACATACCCCTATGAGG
Found at i:98407481 original size:19 final size:18
Alignment explanation
Indices: 98407410--98407481 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 18
98407400 TATATTTAAT
98407410 AAAAAATATTAAAACTT-TGA
1 AAAAAATA-TAAAA-TTGT-A
*
98407430 AAAAATTATAAAAATTGTA
1 AAAAAATAT-AAAATTGTA
* *
98407449 AAAAAATGTAAAATTTTA
1 AAAAAATATAAAATTGTA
*
98407467 TAAAAATCATAAAAT
1 AAAAAAT-ATAAAAT
98407482 ACATCAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
18 14 0.33
19 17 0.40
20 12 0.28
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (18 bp):
AAAAAATATAAAATTGTA
Found at i:98407836 original size:16 final size:16
Alignment explanation
Indices: 98407794--98407847 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
98407784 ATATTGGATC
98407794 TTTTTTAT-ATTATTTA
1 TTTTTTATAATTA-TTA
*
98407810 TTATTAATATAATTATTA
1 TT-TT-TTATAATTATTA
*
98407828 TTTTTTATAATTATTC
1 TTTTTTATAATTATTA
98407844 TTTT
1 TTTT
98407848 ATTTGTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 16 0.50
17 4 0.12
18 8 0.25
19 4 0.12
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTATAATTATTA
Found at i:98411239 original size:8 final size:8
Alignment explanation
Indices: 98411218--98411251 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
98411208 ATTATTACAA
98411218 AAAAATAT
1 AAAAATAT
98411226 AAAAAATTAT
1 -AAAAA-TAT
98411236 AAAAATAT
1 AAAAATAT
98411244 AAAAATAT
1 AAAAATAT
98411252 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 11 0.46
9 10 0.42
10 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAATAT
Found at i:98411293 original size:23 final size:23
Alignment explanation
Indices: 98411232--98411301 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 23
98411222 ATATAAAAAA
*
98411232 TTATAAAAATATAAAAATATTTTT
1 TTAT-AAAATTTAAAAATATTTTT
* *
98411256 TTAAAAAAGTTTAAAGAT-TTTTT
1 TTATAAAA-TTTAAAAATATTTTT
98411279 TTATAAAATTCTAAAAAGTATTT
1 TTATAAAATT-TAAAAA-TATTT
98411302 AAATTTCTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 2 0.05
23 21 0.57
24 11 0.30
25 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (23 bp):
TTATAAAATTTAAAAATATTTTT
Found at i:98411624 original size:15 final size:14
Alignment explanation
Indices: 98411603--98411655 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 14
98411593 CCAATAATTT
98411603 TTTTAATATTTAAA
1 TTTTAATATTTAAA
*
98411617 TATTTAATATTTTAA
1 T-TTTAATATTTAAA
*
98411632 TTTT-ATATTTTAA
1 TTTTAATATTTAAA
98411645 -TTTAA-ATTTAA
1 TTTTAATATTTAA
98411656 TAATTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 8 0.23
13 10 0.29
14 4 0.11
15 13 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAATATTTAAA
Found at i:98411625 original size:7 final size:7
Alignment explanation
Indices: 98411604--98411657 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 7
98411594 CAATAATTTT
98411604 TTTAATA
1 TTTAATA
98411611 TTTAAATA
1 TTT-AATA
98411619 TTTAATA
1 TTTAATA
98411626 TTTTAAT-
1 -TTTAATA
98411633 TTT-ATA
1 TTTAATA
*
98411639 TTTTA-A
1 TTTAATA
98411645 TTTAA-A
1 TTTAATA
98411651 TTTAATA
1 TTTAATA
98411658 ATTTTATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
5 2 0.05
6 17 0.41
7 9 0.22
8 13 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTAATA
Found at i:98411639 original size:13 final size:14
Alignment explanation
Indices: 98411603--98411647 Score: 65
Period size: 15 Copynumber: 3.2 Consensus size: 14
98411593 CCAATAATTT
*
98411603 TTTTAATATTTAAA
1 TTTTAATATTTTAA
98411617 TATTTAATATTTTAA
1 T-TTTAATATTTTAA
98411632 TTTT-ATATTTTAA
1 TTTTAATATTTTAA
98411645 TTT
1 TTT
98411648 AAATTTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 12 0.41
14 4 0.14
15 13 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTAATATTTTAA
Found at i:98411652 original size:19 final size:19
Alignment explanation
Indices: 98411595--98411670 Score: 68
Period size: 19 Copynumber: 3.9 Consensus size: 19
98411585 GGTCAAAGCC
98411595 AATAATTTT-TTTAATATTT
1 AATAATTTTATTTAA-ATTT
*
98411614 AA-ATATTTAATATTTTAATTT
1 AATA-ATTT--TATTTAAATTT
*
98411635 TAT-ATTTTAATTTAAATTT
1 AATAATTTT-ATTTAAATTT
98411654 AATAATTTTATTTAAAT
1 AATAATTTTATTTAAAT
98411671 AAATCTAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
18 2 0.04
19 25 0.54
20 9 0.20
21 6 0.13
22 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATAATTTTATTTAAATTT
Found at i:98417443 original size:32 final size:32
Alignment explanation
Indices: 98417407--98417470 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
98417397 AACTTCTTCA
**
98417407 ACACCCAAGCCTAGCCGAACCATTTTCATACT
1 ACACCCAAGCCTAGCAAAACCATTTTCATACT
98417439 ACACCCAAGCCTAGCAAAACCATTTTCATACT
1 ACACCCAAGCCTAGCAAAACCATTTTCATACT
98417471 CATAACAGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.34, C:0.36, G:0.08, T:0.22
Consensus pattern (32 bp):
ACACCCAAGCCTAGCAAAACCATTTTCATACT
Found at i:98426816 original size:21 final size:23
Alignment explanation
Indices: 98426792--98426834 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
98426782 TTAATGCACA
*
98426792 CACCTACACAA-CATA-ACATAG
1 CACCAACACAAGCATATACATAG
*
98426813 CACCAACCCAAGCATATACATA
1 CACCAACACAAGCATATACATA
98426835 CATCCAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 4 0.22
23 5 0.28
ACGTcount: A:0.47, C:0.35, G:0.05, T:0.14
Consensus pattern (23 bp):
CACCAACACAAGCATATACATAG
Found at i:98430946 original size:70 final size:70
Alignment explanation
Indices: 98430863--98431164 Score: 374
Period size: 70 Copynumber: 4.3 Consensus size: 70
98430853 TCCTCATTGA
* * * **
98430863 AATACCATACCTACATTTCACAACTCGGTATGGGA-AATGCCATACCTATGTTTCTTAACTCAGT
1 AATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACGTTTCACAACTCAGT
98430927 ATGGAT
65 ATGGAT
* * * * * **
98430933 AATACCATACCTACTTTTCACAACTCGGTATGGTTAATACCATACGTACGTTTCACAAATTGGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACGTTTCACAACTCAGTA
*
98430998 TGGTT
66 TGGAT
* *
98431003 AATACCATACCTACGTTTCACAACTCAGTATGGATGATACCATACCTACGTTTCACAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACGTTTCACAACTCAGTA
*
98431068 TGGTT
66 TGGAT
** * * *
98431073 AATACCATACCTA-AGTTTTGCAACTCAGTATGGATAATATCATACCTACGTTTCACAACTTATT
1 AATACCATACCTACA-TTTCACAACTCAGTATGGATAATACCATACCTACGTTTCACAACTCAGT
98431137 ATGGAT
65 ATGGAT
*
98431143 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
98431165 CTTTGCCATG
Statistics
Matches: 199, Mismatches: 30, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
69 2 0.01
70 196 0.98
71 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (70 bp):
AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACGTTTCACAACTCAGTA
TGGAT
Found at i:98431045 original size:105 final size:105
Alignment explanation
Indices: 98430863--98431164 Score: 408
Period size: 105 Copynumber: 2.9 Consensus size: 105
98430853 TCCTCATTGA
* * * **
98430863 AATACCATACCTACATTTCACAACTCGGTATGGGA-AATGCCATACCTATGTTTCTTAACTCAGT
1 AATACCATACCTACGTTTCACAACTCGGTAT-GGATAATACCATACCTACGTTTCACAACTCAGT
* * *
98430927 ATGGATAATACCATACCTACTTTTCACAACTCGGTATGGTT
65 ATGGATGATACCATACCTACATTTCACAACTCAGTATGGTT
* * * *
98430968 AATACCATACGTACGTTTCACAAATTGGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACAACTCAGTA
*
98431033 TGGATGATACCATACCTACGTTTCACAACTCAGTATGGTT
66 TGGATGATACCATACCTACATTTCACAACTCAGTATGGTT
* ** * * * *
98431073 AATACCATACCTAAGTTTTGCAACTCAGTATGGATAATATCATACCTACGTTTCACAACTTATTA
1 AATACCATACCTACGTTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACAACTCAGTA
98431138 TGGATGATACCATACCTACATTTCACA
66 TGGATGATACCATACCTACATTTCACA
98431165 CTTTGCCATG
Statistics
Matches: 172, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
104 2 0.01
105 170 0.99
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (105 bp):
AATACCATACCTACGTTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACAACTCAGTA
TGGATGATACCATACCTACATTTCACAACTCAGTATGGTT
Found at i:98431177 original size:35 final size:35
Alignment explanation
Indices: 98430863--98431164 Score: 336
Period size: 35 Copynumber: 8.6 Consensus size: 35
98430853 TCCTCATTGA
* **
98430863 AATACCATACCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCACAACTTAGTAT-GGAT
* * ** *
98430898 AATGCCATACCTATGTTTCTTAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTTAGTATGGAT
* ** *
98430933 AATACCATACCTACTTTTCACAACTCGGTATGGTT
1 AATACCATACCTACGTTTCACAACTTAGTATGGAT
* * * *
98430968 AATACCATACGTACGTTTCACAAATTGGTATGGTT
1 AATACCATACCTACGTTTCACAACTTAGTATGGAT
*
98431003 AATACCATACCTACGTTTCACAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTTAGTATGGAT
* * *
98431038 GATACCATACCTACGTTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTTAGTATGGAT
* ** *
98431073 AATACCATACCTAAGTTTTGCAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTTAGTATGGAT
* *
98431108 AATATCATACCTACGTTTCACAACTTATTATGGAT
1 AATACCATACCTACGTTTCACAACTTAGTATGGAT
* *
98431143 GATACCATACCTACATTTCACA
1 AATACCATACCTACGTTTCACA
98431165 CTTTGCCATG
Statistics
Matches: 228, Mismatches: 38, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
34 3 0.01
35 225 0.99
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTTAGTATGGAT
Done.