Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 183 of 349
Found at i:59322924 original size:157 final size:160
Alignment explanation
Indices: 59322638--59322986 Score: 551
Period size: 157 Copynumber: 2.2 Consensus size: 160
59322628 GAGAATTGAG
** * *
59322638 AGTGATATATCCGGGCTAAACCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCA
59322703 AAGAGCATTCGTGCTAGTGACGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
66 AAGAGCATTCGTGCTAGTGACGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
* *
59322768 CCG-GCT-AA-CCCGAAGAGCATTCGTGCT
131 CCGTGCTAAACCCCAAAGAGCATTCATGCT
* * * *
59322795 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGTTAAGTCCCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCA
59322860 AAGAGCATTCGTGCTAGTGACGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
66 AAGAGCATTCGTGCTAGTGACGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
59322925 CCGTGCTAAACCCCAAAGAGCATTCATGCT
131 CCGTGCTAAACCCCAAAGAGCATTCATGCT
* * * *
59322955 GGTGTTATATCTGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
59322987 ATCATGCTGG
Statistics
Matches: 173, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
157 125 0.72
158 3 0.02
159 2 0.01
160 43 0.25
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (160 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCA
AAGAGCATTCGTGCTAGTGACGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
CCGTGCTAAACCCCAAAGAGCATTCATGCT
Found at i:59322997 original size:40 final size:40
Alignment explanation
Indices: 59322638--59322986 Score: 470
Period size: 40 Copynumber: 8.8 Consensus size: 40
59322628 GAGAATTGAG
**
59322638 AGTGATATATCCGGGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
59322678 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
** *
59322718 AGTGACGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
59322758 AGTGATATATCC-GGCTAA--CCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
59322795 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
59322835 AGTGATATATCCGTGTTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
** *
59322875 AGTGACGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* ** * *
59322915 AGTGATATATCCGTGCTAAACCCCAAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
59322955 GGTGTTATATCTGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
59322987 ATCATGCTGG
Statistics
Matches: 269, Mismatches: 37, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
37 29 0.11
38 6 0.02
39 6 0.02
40 228 0.85
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:59327086 original size:47 final size:47
Alignment explanation
Indices: 59327031--59327222 Score: 269
Period size: 47 Copynumber: 4.1 Consensus size: 47
59327021 TTAGGATTTT
* * *
59327031 AATGTGATGAATGTGAATATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
59327078 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
59327125 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAAGGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
59327172 GATGTGATGAATGTGAACATGTATATATGTGGA-AAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGT-GATAAGGCCGAATGGCC
59327219 AATG
1 AATG
59327223 CGAAATGTGT
Statistics
Matches: 132, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
47 130 0.98
48 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.25
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:59327332 original size:46 final size:46
Alignment explanation
Indices: 59327196--59327332 Score: 186
Period size: 46 Copynumber: 3.0 Consensus size: 46
59327186 GAACATGTAT
* *
59327196 ATATGTGG-AAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAA-GCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
59327242 ATATGAGATAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
59327288 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATG
59327333 TGTATATATA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 76 0.96
47 3 0.04
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:59336726 original size:16 final size:16
Alignment explanation
Indices: 59336689--59336726 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
59336679 AAATGCTTGA
59336689 AAAAAGTACAAAAAAT
1 AAAAAGTACAAAAAAT
59336705 AGAAAA-TACAAAAACAT
1 A-AAAAGTACAAAAA-AT
59336722 AAAAA
1 AAAAA
59336727 AAATATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.76, C:0.08, G:0.05, T:0.11
Consensus pattern (16 bp):
AAAAAGTACAAAAAAT
Found at i:59337675 original size:24 final size:24
Alignment explanation
Indices: 59337647--59337695 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
59337637 GACAACAAAG
59337647 TAAGCATTTCTATGCTTAGTAAGT
1 TAAGCATTTCTATGCTTAGTAAGT
59337671 TAAGCATTTCTATGCTTAGTAAGT
1 TAAGCATTTCTATGCTTAGTAAGT
59337695 T
1 T
59337696 GTAAGCAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (24 bp):
TAAGCATTTCTATGCTTAGTAAGT
Found at i:59339902 original size:40 final size:40
Alignment explanation
Indices: 59339858--59339982 Score: 155
Period size: 40 Copynumber: 3.1 Consensus size: 40
59339848 GGACTAAGAT
* * * *
59339858 CCGAAGGCATTCGTGCGAGTTGCTATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGTC
* * *
59339898 CCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGAC
1 CCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGTC
*
59339938 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGTC
59339977 CCGAAG
1 CCGAAG
59339983 ATACTTGGGT
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.21
40 55 0.76
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGTC
Found at i:59341421 original size:39 final size:39
Alignment explanation
Indices: 59341365--59341626 Score: 379
Period size: 39 Copynumber: 6.7 Consensus size: 39
59341355 TTCCAACACA
* *
59341365 AATGCCTTTGAGG-CTTAGCCCAGATATAACACCAGCACG
1 AATGCCTTCG-GGACTTAGCCCGGATATAACACCAGCACG
59341404 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
59341443 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
59341482 AATGCCTTCGGGACTTAGCCCGGACATAACACTAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
59341521 AATGCCTTCGGGACGTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
59341560 AATGCCTCCGGGACTTAGCCCGGATATAA-ATCTCA-CAC-
1 AATGCCTTCGGGACTTAGCCCGGATATAACA-C-CAGCACG
* * * *
59341598 AAGGCCTGCGGGTCTTAGCCCGGTTATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
59341627 TCCTCAATTA
Statistics
Matches: 207, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
38 28 0.14
39 177 0.86
40 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:59342097 original size:19 final size:19
Alignment explanation
Indices: 59342059--59342097 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59342049 TTATTCATAC
*
59342059 CTCTCATTCAATAATTACA
1 CTCTCATTCAATAATGACA
59342078 CTCTCATTCCAAT-ATGACA
1 CTCTCATT-CAATAATGACA
59342097 C
1 C
59342098 ACACACACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.31, G:0.03, T:0.33
Consensus pattern (19 bp):
CTCTCATTCAATAATGACA
Found at i:59348280 original size:197 final size:197
Alignment explanation
Indices: 59347945--59348313 Score: 702
Period size: 197 Copynumber: 1.9 Consensus size: 197
59347935 TTTGCTTCAC
59347945 CTAAATAGATACATGGTGTAAGGTTGGTACGGGGGTGTATACGACAGGACATGGGTTGGGTTTTC
1 CTAAATAGATACATGGTGTAAGGTTGGTACGGGGGTGTATACGACAGGACATGGGTTGGGTTTTC
*
59348010 TGCATACATGAAATATCTGTTCAGTATCTGTTATGGACCTATGGGCTTCATTCTAAATTTGATTC
66 TGCATACATGAAATATATGTTCAGTATCTGTTATGGACCTATGGGCTTCATTCTAAATTTGATTC
59348075 TGCGGTTTGATTCTGATTCTCATTTTGATTCTAGTTCTGATACTGCTACAAGATAGTTCATCGAA
131 TGCGGTTTGATTCTGATTCTCATTTTGATTCTAGTTCTGATACTGCTACAAGATAGTTCATCGAA
59348140 TA
196 TA
*
59348142 CTAAATAGATACATGGTGTAAGGTTGGTACGGGGGTGTATACGACTGGACATGGGTTGGGTTTTC
1 CTAAATAGATACATGGTGTAAGGTTGGTACGGGGGTGTATACGACAGGACATGGGTTGGGTTTTC
* *
59348207 TGCATACATGAAATATATGTTCGGTATCTGTTATGGGCCTATGGGCTTCATTCTAAATTTGATTC
66 TGCATACATGAAATATATGTTCAGTATCTGTTATGGACCTATGGGCTTCATTCTAAATTTGATTC
59348272 TGCGGTTTGATTCTGATTCTCATTTTGATTCTAGTTCTGATA
131 TGCGGTTTGATTCTGATTCTCATTTTGATTCTAGTTCTGATA
59348314 ATGTTTCTTA
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
197 168 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (197 bp):
CTAAATAGATACATGGTGTAAGGTTGGTACGGGGGTGTATACGACAGGACATGGGTTGGGTTTTC
TGCATACATGAAATATATGTTCAGTATCTGTTATGGACCTATGGGCTTCATTCTAAATTTGATTC
TGCGGTTTGATTCTGATTCTCATTTTGATTCTAGTTCTGATACTGCTACAAGATAGTTCATCGAA
TA
Found at i:59350462 original size:30 final size:30
Alignment explanation
Indices: 59350428--59350487 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
59350418 ATTTAATACG
59350428 AACTTTAAAAAAATTACACTTTTACCCCTA
1 AACTTTAAAAAAATTACACTTTTACCCCTA
*** * *
59350458 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTACCCCTA
59350488 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTACCCCTA
Found at i:59356988 original size:20 final size:20
Alignment explanation
Indices: 59356959--59357003 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
59356949 AGCACATGTA
* *
59356959 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
59356979 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
59356999 TTCAT
1 TTCAT
59357004 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:59358774 original size:17 final size:17
Alignment explanation
Indices: 59358728--59358773 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
59358718 TAAATAAAAT
59358728 AATAATTTAAATATTTA
1 AATAATTTAAATATTTA
**
59358745 AATAAAAT-AATAATTTA
1 AATAATTTAAAT-ATTTA
59358762 AAT-ATTTAAATA
1 AATAATTTAAATA
59358774 AAATAATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAATTTAAATATTTA
Found at i:59358792 original size:25 final size:25
Alignment explanation
Indices: 59358712--59358785 Score: 139
Period size: 25 Copynumber: 3.0 Consensus size: 25
59358702 ATTTTATATT
*
59358712 AATATATAAATAAAATAATAATTTA
1 AATATTTAAATAAAATAATAATTTA
59358737 AATATTTAAATAAAATAATAATTTA
1 AATATTTAAATAAAATAATAATTTA
59358762 AATATTTAAATAAAATAATAATTT
1 AATATTTAAATAAAATAATAATTT
59358786 TATTATTGAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
AATATTTAAATAAAATAATAATTTA
Found at i:59359195 original size:18 final size:18
Alignment explanation
Indices: 59359164--59359198 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59359154 CAAATTTTAA
*
59359164 ATTTGAACATTAAAAAGG
1 ATTTGAACAATAAAAAGG
*
59359182 ATTTGCACAATAAAAAG
1 ATTTGAACAATAAAAAG
59359199 AGTTACGGTA
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:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (18 bp):
ATTTGAACAATAAAAAGG
Found at i:59361643 original size:17 final size:16
Alignment explanation
Indices: 59361601--59361647 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
59361591 AATTGATTCA
*
59361601 AATTTAG-ATTATTTC
1 AATTTAGAATTATTTT
* *
59361616 AATTCAAAATTGATTTT
1 AATTTAGAATT-ATTTT
59361633 AATTTAGAATTATTT
1 AATTTAGAATTATTT
59361648 AAATAAATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 5 0.20
16 7 0.28
17 13 0.52
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (16 bp):
AATTTAGAATTATTTT
Found at i:59362475 original size:22 final size:21
Alignment explanation
Indices: 59362437--59362493 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
59362427 ATTTTAAGTA
*
59362437 TTAAAATATAACCATTACAAAT
1 TTAAAATATAA-TATTACAAAT
* *
59362459 TTAAATATATAATATTATATAT
1 TTAAA-ATATAATATTACAAAT
59362481 TTAAAATA-AATAT
1 TTAAAATATAATAT
59362494 CAGTAGGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 5 0.16
21 3 0.10
22 17 0.55
23 6 0.19
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAAATATAATATTACAAAT
Found at i:59362694 original size:13 final size:13
Alignment explanation
Indices: 59362678--59362707 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
59362668 AATTGATTCT
59362678 ATTAACTGATTTG
1 ATTAACTGATTTG
*
59362691 ATTAACTGATTTT
1 ATTAACTGATTTG
59362704 ATTA
1 ATTA
59362708 TCTGTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (13 bp):
ATTAACTGATTTG
Found at i:59366138 original size:46 final size:46
Alignment explanation
Indices: 59366071--59366196 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
59366061 AACCCGCCCC
* * *
59366071 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
59366117 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
59366163 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
59366197 TGCTCAACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:59368320 original size:39 final size:39
Alignment explanation
Indices: 59368246--59368504 Score: 330
Period size: 39 Copynumber: 6.6 Consensus size: 39
59368236 GCTACTCGTT
* *
59368246 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
*
59368286 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
59368325 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
59368364 CAAATGCCTTCGGATCTTAGCCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
*
59368403 CAAATGCCTTCGGGCTTA-CCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
59368440 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
59368481 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGA
59368505 CATCATTCGA
Statistics
Matches: 196, Mismatches: 17, Indels: 13
0.87 0.08 0.06
Matches are distributed among these distances:
37 32 0.16
38 8 0.04
39 110 0.56
40 38 0.19
41 8 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:59376435 original size:40 final size:40
Alignment explanation
Indices: 59376364--59376627 Score: 315
Period size: 40 Copynumber: 6.7 Consensus size: 40
59376354 GCTACTCGTT
*
59376364 CAAATGCCTT-GGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
59376403 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
59376443 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
59376482 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
59376522 CAAGTGCTTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
59376562 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
59376603 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59376628 CATCATTCGA
Statistics
Matches: 192, Mismatches: 25, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.01
39 46 0.24
40 128 0.67
41 16 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:59376578 original size:80 final size:78
Alignment explanation
Indices: 59376345--59376625 Score: 329
Period size: 79 Copynumber: 3.5 Consensus size: 78
59376335 CGGAATTTAA
* **
59376345 CCGGATATAGCT-ACTCGTTCA-AATGCCTT-GGGACATAGCCCGGTTATAGTAACTCGCACAAA
1 CCGGATATAG-TAACTCG--CACAATGCCTTCGGGACTTAGCCCGAAT-TAGTAACTCGCACAAA
**
59376407 TGCCTTCGGGA-CTTAAC
62 TGCCTTC-GGATCTTAGT
*
59376424 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATG
1 CCGGATATAGTAACTCGCA-CAATGCCTTCGGGACTTAGCCC-GAATTAGTAACTCGCACAAATG
59376488 CCTTCGGATCTTAGT
64 CCTTCGGATCTTAGT
* *
59376503 CCGGATATAGTAACTCGCACAAGTGCTTTCGGGACTTAACCCGAATTTAGTAACTCGCACAAATG
1 CCGGATATAGTAACTCGCACAA-TGCCTTCGGGACTTAGCCCGAA-TTAGTAACTCGCACAAATG
59376568 CCTTCGGATCTTAGT
64 CCTTCGGATCTTAGT
* * * *
59376583 CCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CCGGATATAGTAAC-TCGCACAATGCCTTCGGGACTTAGCCCG
59376626 GACATCATTC
Statistics
Matches: 177, Mismatches: 15, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
77 2 0.01
78 7 0.04
79 86 0.49
80 75 0.42
81 7 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGAATTAGTAACTCGCACAAATGCC
TTCGGATCTTAGT
Found at i:59381399 original size:41 final size:41
Alignment explanation
Indices: 59381316--59381438 Score: 147
Period size: 41 Copynumber: 3.0 Consensus size: 41
59381306 TAAAAGCCAC
* * * * * * * *
59381316 CGGTAGATTCACGGTCATCAAGCCACTATGCAATTCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
* *
59381357 CGGTGGATCCATGGTTGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
*
59381398 CGGTGGATCCACGGTCGTCAGGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
59381439 TTCTTCCTCC
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (41 bp):
CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
Found at i:59381728 original size:27 final size:27
Alignment explanation
Indices: 59381698--59382019 Score: 159
Period size: 27 Copynumber: 12.0 Consensus size: 27
59381688 GGTAAATCTA
* *
59381698 CAAACTAAGGGTATTTCTTTAATTTTG
1 CAAACTAAGGGTATTTCTGTAATTTTC
* *
59381725 CAAACCAATGGTATTTCTGTAATTTTC
1 CAAACTAAGGGTATTTCTGTAATTTTC
* *
59381752 CAAA-TCAAGGGTATTTCGGTAACTTTC
1 CAAACT-AAGGGTATTTCTGTAATTTTC
* *
59381779 CAAA-TCAGGGGTATTT-TGGTAATTTTA
1 CAAACT-AAGGGTATTTCT-GTAATTTTC
* *
59381806 CAAA-TCAAGGGTATTTCAGTAATTTTA
1 CAAACT-AAGGGTATTTCTGTAATTTTC
* * * * * *
59381833 C-AAGTCGAGAGTATTTCGGTAAATTTA
1 CAAACT-AAGGGTATTTCTGTAATTTTC
* * *
59381860 C-AAGTCGAGGGTATTT-TGGTAATTTTA
1 CAAACT-AAGGGTATTTCT-GTAATTTTC
* * *
59381887 CAAA-TAGGGGTATTTCAGTAATTTTG
1 CAAACTAAGGGTATTTCTGTAATTTTC
* * *
59381913 C-AAGTCGAGGGTATTT-TAGTAATTTTA
1 CAAACT-AAGGGTATTTCT-GTAATTTTC
* *
59381940 CAAA-TCAGGGGTATTTCTGTAATTTTA
1 CAAACT-AAGGGTATTTCTGTAATTTTC
*
59381967 CAAAGC-AAGGGTATTTCAGTAA-TTTC
1 CAAA-CTAAGGGTATTTCTGTAATTTTC
* *
59381993 ACAAACCAGGGGTATTT-TGGTAATTTT
1 -CAAACTAAGGGTATTTCT-GTAATTTT
59382020 GCTAATCGAG
Statistics
Matches: 241, Mismatches: 36, Indels: 35
0.77 0.12 0.11
Matches are distributed among these distances:
25 2 0.01
26 24 0.10
27 207 0.86
28 8 0.03
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAACTAAGGGTATTTCTGTAATTTTC
Found at i:59381765 original size:54 final size:54
Alignment explanation
Indices: 59381696--59382071 Score: 320
Period size: 54 Copynumber: 7.0 Consensus size: 54
59381686 TTGGTAAATC
* * **
59381696 TACAAA-CTAAGGGTATTTCTTTAATTTTGCAAACCAATGGTATTTCTGTAATTT
1 TACAAATC-AAGGGTATTTCTGTAATTTTACAAACCAGGGGTATTTCTGTAATTT
* * * * *
59381750 TCCAAATCAAGGGTATTTCGGTAACTTTCCAAATCAGGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTTTACAAACCAGGGGTATTTCT-GTAATTT
* ** * * *
59381804 TACAAATCAAGGGTATTTCAGTAATTTTACAAGTC-GAGAGTATTTCGGTAAATT
1 TACAAATCAAGGGTATTTCTGTAATTTTACAAACCAG-GGGTATTTCTGTAATTT
* * * *
59381858 TACAAGTCGAGGGTATTT-TGGTAATTTTACAAA-TAGGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTTTACAAACCAGGGGTATTTCTGTAATTT
* * * *
59381911 TGCAAGTCGAGGGTATTT-TAGTAATTTTACAAATCAGGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTTTACAAACCAGGGGTATTTCTGTAATTT
* * *
59381965 TACAAAGCAAGGGTATTTCAGTAATTTCACAAACCAGGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTTTACAAACCAGGGGTATTTCT-GTAATTT
* * * * ** *
59382019 TGCTAATCGAGGGTATTT-TGGTAACTTTGTAAACCAAGGGTATTT-TAGTAATT
1 TACAAATCAAGGGTATTTCT-GTAATTTTACAAACCAGGGGTATTTCT-GTAATT
59382072 CTACCTTACA
Statistics
Matches: 266, Mismatches: 46, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
53 48 0.18
54 217 0.82
55 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCTGTAATTTTACAAACCAGGGGTATTTCTGTAATTT
Found at i:59381791 original size:81 final size:81
Alignment explanation
Indices: 59381717--59382071 Score: 378
Period size: 81 Copynumber: 4.4 Consensus size: 81
59381707 GGTATTTCTT
* * * * *
59381717 TAATTTTGCAAACCAATGGTATTTCTGTAATTTTCCAAATCAAGGGTATTTCGGTAACTTTCCAA
1 TAATTTTACAAACCAAGGGTATTTCAGTAATTTTCCAAATCAAGGGTATTTCGGTAATTTTACAA
59381782 ATC-AGGGGTATTTTGG
66 ATCGA-GGGTATTTTGG
* * * * * *
59381798 TAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAGTCGAGAGTATTTCGGTAAATTTACAA
1 TAATTTTACAAACCAAGGGTATTTCAGTAATTTTCCAAATCAAGGGTATTTCGGTAATTTTACAA
*
59381863 GTCGAGGGTATTTTGG
66 ATCGAGGGTATTTTGG
* * * * * **
59381879 TAATTTTACAAA-TAGGGGTATTTCAGTAATTTTGCAAGTCGAGGGTATTTTAGTAATTTTACAA
1 TAATTTTACAAACCAAGGGTATTTCAGTAATTTTCCAAATCAAGGGTATTTCGGTAATTTTACAA
59381943 ATC-AGGGGTATTTCT-G
66 ATCGA-GGGTATTT-TGG
* * * * * *
59381959 TAATTTTACAAAGCAAGGGTATTTCAGTAA-TTTCACAAACCAGGGGTATTTTGGTAATTTTGCT
1 TAATTTTACAAACCAAGGGTATTTCAGTAATTTTC-CAAATCAAGGGTATTTCGGTAATTTTACA
59382023 AATCGAGGGTATTTTGG
65 AATCGAGGGTATTTTGG
* ** *
59382040 TAACTTTGTAAACCAAGGGTATTTTAGTAATT
1 TAATTTTACAAACCAAGGGTATTTCAGTAATT
59382072 CTACCTTACA
Statistics
Matches: 232, Mismatches: 34, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
79 1 0.00
80 72 0.31
81 156 0.67
82 3 0.01
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.38
Consensus pattern (81 bp):
TAATTTTACAAACCAAGGGTATTTCAGTAATTTTCCAAATCAAGGGTATTTCGGTAATTTTACAA
ATCGAGGGTATTTTGG
Found at i:59382032 original size:27 final size:27
Alignment explanation
Indices: 59381734--59382071 Score: 292
Period size: 27 Copynumber: 12.6 Consensus size: 27
59381724 GCAAACCAAT
* *
59381734 GGTATTTCT-GTAATTTTCCAAATCAAG
1 GGTATTT-TGGTAATTTTACAAATCGAG
* * *
59381761 GGTATTTCGGTAACTTTCCAAATC-AGG
1 GGTATTTTGGTAATTTTACAAATCGA-G
*
59381788 GGTATTTTGGTAATTTTACAAATCAAG
1 GGTATTTTGGTAATTTTACAAATCGAG
** *
59381815 GGTATTTCAGTAATTTTACAAGTCGAG
1 GGTATTTTGGTAATTTTACAAATCGAG
* * * *
59381842 AGTATTTCGGTAAATTTACAAGTCGAG
1 GGTATTTTGGTAATTTTACAAATCGAG
*
59381869 GGTATTTTGGTAATTTTACAAATAG-G
1 GGTATTTTGGTAATTTTACAAATCGAG
** * *
59381895 GGTATTTCAGTAATTTTGCAAGTCGAG
1 GGTATTTTGGTAATTTTACAAATCGAG
*
59381922 GGTATTTTAGTAATTTTACAAATC-AGG
1 GGTATTTTGGTAATTTTACAAATCGA-G
* *
59381949 GGTATTTCT-GTAATTTTACAAAGCAAG
1 GGTATTT-TGGTAATTTTACAAATCGAG
** * *
59381976 GGTATTTCAGTAATTTCACAAA-CCAGG
1 GGTATTTTGGTAATTTTACAAATCGA-G
* *
59382003 GGTATTTTGGTAATTTTGCTAATCGAG
1 GGTATTTTGGTAATTTTACAAATCGAG
* ** * *
59382030 GGTATTTTGGTAACTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAATCGAG
*
59382057 GGTATTTTAGTAATT
1 GGTATTTTGGTAATT
59382072 CTACCTTACA
Statistics
Matches: 259, Mismatches: 42, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
26 25 0.10
27 229 0.88
28 5 0.02
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATCGAG
Found at i:59382090 original size:27 final size:27
Alignment explanation
Indices: 59382060--59382136 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
59382050 AACCAAGGGT
*
59382060 ATTTTAGTAATTCTACCTTACAGGGGC
1 ATTTTAGTAATTCTACCCTACAGGGGC
* *
59382087 ATTTTAGTAATTCTACCCTATAGGGGT
1 ATTTTAGTAATTCTACCCTACAGGGGC
* * *
59382114 ATTTCAGTAATACTAGCCTACAG
1 ATTTTAGTAATTCTACCCTACAG
59382137 ATATGAGATT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (27 bp):
ATTTTAGTAATTCTACCCTACAGGGGC
Found at i:59382220 original size:17 final size:19
Alignment explanation
Indices: 59382198--59382240 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
59382188 TATCCACTTG
59382198 GGCCCAT-AGGCCTA-CAT
1 GGCCCATCAGGCCTATCAT
*
59382215 GGCCCATCCCGGCCTATCAT
1 GGCCCAT-CAGGCCTATCAT
59382235 GGCCCA
1 GGCCCA
59382241 AAGTAACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.19, C:0.42, G:0.23, T:0.16
Consensus pattern (19 bp):
GGCCCATCAGGCCTATCAT
Found at i:59384460 original size:24 final size:24
Alignment explanation
Indices: 59384432--59384489 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
59384422 CATCCTTCTC
*
59384432 TATCTCTAAATTCAATTGGATCTT
1 TATCTCTAAATTCAATTAGATCTT
*
59384456 TATCTCTAATTTCAATTAGATCTT
1 TATCTCTAAATTCAATTAGATCTT
* *
59384480 TGTATCTAAA
1 TATCTCTAAA
59384490 AGCTCTGCCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.47
Consensus pattern (24 bp):
TATCTCTAAATTCAATTAGATCTT
Found at i:59391942 original size:45 final size:45
Alignment explanation
Indices: 59391892--59392122 Score: 160
Period size: 47 Copynumber: 5.0 Consensus size: 45
59391882 ATTGACAGTT
59391892 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTC
* **** * *
59391937 AAGGATCCCATGTAAGACCATGTCAAGACATGGCATCAACATTGATT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTA-AG-TC
** * ** *
59391984 AAGGACT-CCATGTAAGACCACATTAAGATGTGGCATTGGCACTAAGAC
1 AAGGA-TACCATGTAAGACCATGTCAAGACATGGCATTGG---TAAGTC
***
59392032 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAT-
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGTAAG-TC
* * * ** * *
59392079 AATGATATCATGTAAGACTATACCAAGGCATGGCATTGATAAGT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGT
59392123 TCTATAAGGC
Statistics
Matches: 140, Mismatches: 36, Indels: 21
0.71 0.18 0.11
Matches are distributed among these distances:
44 1 0.01
45 43 0.31
46 8 0.06
47 54 0.39
48 22 0.16
49 7 0.05
50 5 0.04
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (45 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTC
Found at i:59392286 original size:53 final size:54
Alignment explanation
Indices: 59392082--59392285 Score: 207
Period size: 53 Copynumber: 3.8 Consensus size: 54
59392072 GTAAGATAAT
* * ** *
59392082 GATATCATGTAAGACTATACCAAGGCATGGCATTGATAAGTTCTATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGCAAA
* * * *
59392136 GAAATCATGTAAGACC-TGTTAAGACATGGCATTGATGAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-CTATAAGGCAAA
* * * * * *
59392190 GATCCCATGTAAGACGATG-CTAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAG
1 GATACCATGTAAGACCATGTC-AAGACATGGCATTGATAAGTTCTATAAGGCAAA
* * *
59392243 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTC
59392286 AAAAAGGAAA
Statistics
Matches: 125, Mismatches: 21, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
53 64 0.51
54 40 0.32
55 21 0.17
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (54 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGCAAA
Found at i:59395371 original size:23 final size:25
Alignment explanation
Indices: 59395340--59395385 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
59395330 TTATATGAAA
59395340 ATATACTCATTAAG-CTCTAATTTG
1 ATATACTCATTAAGTCTCTAATTTG
*
59395364 ATAT-CTCATTCAGTCTCTAATT
1 ATATACTCATTAAGTCTCTAATT
59395386 CAATTTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (25 bp):
ATATACTCATTAAGTCTCTAATTTG
Found at i:59400573 original size:30 final size:31
Alignment explanation
Indices: 59400525--59400582 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
59400515 TTTTCGAGCC
59400525 TAGGGGAAAAATCATAATTCTG-CAAAGGTT
1 TAGGGGAAAAATCATAATTCTGCCAAAGGTT
* ** *
59400555 TAGGGGCAAAATTGTAATTTTGCCAAAG
1 TAGGGGAAAAATCATAATTCTGCCAAAG
59400583 TTTGAGTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (31 bp):
TAGGGGAAAAATCATAATTCTGCCAAAGGTT
Found at i:59401260 original size:45 final size:45
Alignment explanation
Indices: 59401210--59401439 Score: 183
Period size: 47 Copynumber: 5.0 Consensus size: 45
59401200 ATTGACGGTT
*
59401210 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGAC
* * * * * *
59401255 AAGGATCCCGTGTAAGACCATGTCAAGACATGGCATCGGCATTGATT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTA-AGA-C
** **
59401302 AAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGAC
1 AAGGA-TACCATGTAAGACCATGTCAAGACATGGCATTGG---TAAGAC
* *** *
59401350 AGGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAT
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGTAAGAC
* * * * * *
59401397 AATGATATCATGTAAGACCATGCCAAGGCATGACATTGATAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
59401440 TTCTATAAGG
Statistics
Matches: 141, Mismatches: 35, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
45 44 0.31
46 7 0.05
47 57 0.40
48 20 0.14
49 8 0.06
50 5 0.04
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (45 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGAC
Found at i:59401521 original size:55 final size:53
Alignment explanation
Indices: 59401400--59401590 Score: 213
Period size: 55 Copynumber: 3.5 Consensus size: 53
59401390 GTAAGATAAT
* * *
59401400 GATATCATGTAAGACCATGCCAAGGCATGACATTGATAAGTTCTATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGACATTGATGAGTTC-ATAAGGCAAG
* * * *
59401454 GAAATCATGTAAGGCCATGTCAAGACATGACATTGATGAGTTACGATAAGGCAAAG
1 GATACCATGTAAGACCATGCCAAGACATGACATTGATGAGTT-C-ATAAGGC-AAG
* * * * *
59401510 G-TCCCATGTAAGACAATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGACATTGATGAGTTCATAAGGCAAG
* *
59401562 GATACCACGTAAGACCATGTCAAGACATG
1 GATACCATGTAAGACCATGCCAAGACATG
59401591 GCAATGGTAA
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 4 0.04
53 29 0.25
54 38 0.33
55 39 0.34
56 4 0.04
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGACATTGATGAGTTCATAAGGCAAG
Found at i:59401604 original size:108 final size:109
Alignment explanation
Indices: 59401405--59401604 Score: 285
Period size: 108 Copynumber: 1.8 Consensus size: 109
59401395 ATAATGATAT
* * * *
59401405 CATGTAAGACCATGCCAAGGCATGACATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGGCC
1 CATGTAAGACAATGCCAAGGCATGACATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* *
59401470 ATGTCAAGACATGACATTGATGAGTTACGATAAGGCAAAGGTCC
66 ATGTCAAGACATGACAATGATAAGTTACGATAAGGCAAAGGTCC
* * * *
59401514 CATGTAAGACAATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACAATGCCAAGGCATGACATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* *
59401578 ATGTCAAGACATGGCAATGGTAAGTTA
66 ATGTCAAGACATGACAATGATAAGTTA
59401605 AAAAGGAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
108 45 0.57
109 34 0.43
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (109 bp):
CATGTAAGACAATGCCAAGGCATGACATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATGTCAAGACATGACAATGATAAGTTACGATAAGGCAAAGGTCC
Found at i:59406299 original size:76 final size:74
Alignment explanation
Indices: 59406179--59406341 Score: 202
Period size: 76 Copynumber: 2.2 Consensus size: 74
59406169 TGATCTACTT
* * * *
59406179 CATTATGTTTTTTTTTGTTAAATGCATCTTTATTTAATGTTTTGCATTAATACATCTA-CATCTT
1 CATTATGTTTTTGTTTATTAAATGCATCTTTAGTTAATGCTTTGCATTAATACAT-TAGCATCTT
59406243 TTAAAAATGTG
65 TT-AAAATGTG
* **
59406254 CATTATGTTTCTTGTTTATTGAATGTGTCTTTAGTTAATGCTTTGCATTAATACATTAGCATCTT
1 CATTATGTTT-TTGTTTATTAAATGCATCTTTAGTTAATGCTTTGCATTAATACATTAGCATCTT
* *
59406319 TTAAGATTTG
65 TTAAAATGTG
59406329 CATTATGTGTTTT
1 CATTATGT-TTTT
59406342 TTTCATATTT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
75 28 0.37
76 48 0.63
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.52
Consensus pattern (74 bp):
CATTATGTTTTTGTTTATTAAATGCATCTTTAGTTAATGCTTTGCATTAATACATTAGCATCTTT
TAAAATGTG
Found at i:59407486 original size:21 final size:21
Alignment explanation
Indices: 59407460--59407526 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
59407450 AGAGGGGAGA
*
59407460 CCACAACGAGGTCGTTCACCT
1 CCACAACGAGGCCGTTCACCT
* * **
59407481 CCACAACGA-GCCTATTTACAA
1 CCACAACGAGGCC-GTTCACCT
59407502 CCACAACGAGGCCGTTCACCT
1 CCACAACGAGGCCGTTCACCT
59407523 CCAC
1 CCAC
59407527 CTCGAGATCA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
20 2 0.06
21 30 0.86
22 3 0.09
ACGTcount: A:0.28, C:0.40, G:0.15, T:0.16
Consensus pattern (21 bp):
CCACAACGAGGCCGTTCACCT
Found at i:59411617 original size:50 final size:49
Alignment explanation
Indices: 59411510--59411639 Score: 165
Period size: 50 Copynumber: 2.6 Consensus size: 49
59411500 CTGGTACGCA
* * **
59411510 TAGTAGCCT-ACACTTAGTACTACACATGAGACCAACAGTCTGGTACACG
1 TAGTAGCCTGA-ACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
59411559 TAGTAGCCTGAACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGAACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
*
59411609 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGAACTTAGTACTACACACGTGA
59411640 TCACAGTTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
49 27 0.38
50 41 0.57
51 4 0.06
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGAACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:59411693 original size:101 final size:99
Alignment explanation
Indices: 59411510--59411696 Score: 241
Period size: 101 Copynumber: 1.9 Consensus size: 99
59411500 CTGGTACGCA
* * *
59411510 TAGTAGCCTACACTTAGTACTACACATGAGACCAACAGTCTGGTACACGTAGTAGCCTGAACTTA
1 TAGTAGCCTACACTTAGTACTACACACGAGACCAACAGTCGGGTACACATAGTAGCCTGAACTTA
*
59411575 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * * * *
59411609 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTACACTTAGTACTACACACGAGACCAACAG---TCGGGTACACATAGTAGCCTGAAC
* *
59411673 TTAGTACTACATATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
59411697 AATAGATCAT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
98 4 0.05
99 29 0.39
101 41 0.55
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACACGAGACCAACAGTCGGGTACACATAGTAGCCTGAACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:59423571 original size:47 final size:46
Alignment explanation
Indices: 59423510--59423647 Score: 142
Period size: 47 Copynumber: 2.9 Consensus size: 46
59423500 GATGGTTGAG
59423510 CATG-CCGAAACTCGTTGAGTTGAGGTCCGAGTTCCTTATGGATGCAA
1 CATGTCCG-AACTCGTTGAGTTGA-GTCCGAGTTCCTTATGGATGCAA
* *
59423557 CATGTCCGAACTCGTTGAGTTGAGTCCGAG-T--TTGTGAGATGTAA
1 CATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATG-GATGCAA
*
59423601 CTAGGCATCCGAACTCGTTGAG-TGAGTCCGAGTTCTACTTATGGATG
1 C-ATG--TCCGAACTCGTTGAGTTGAGTCCGAGTTC--CTTATGGATG
59423648 TGAACACCCG
Statistics
Matches: 77, Mismatches: 4, Indels: 17
0.79 0.04 0.17
Matches are distributed among these distances:
43 4 0.05
44 7 0.09
45 3 0.04
46 17 0.22
47 35 0.45
48 3 0.04
50 4 0.05
51 4 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGCAA
Found at i:59429098 original size:48 final size:47
Alignment explanation
Indices: 59429028--59429205 Score: 163
Period size: 48 Copynumber: 3.8 Consensus size: 47
59429018 TGGTTGAGCA
*
59429028 TCCG-ACTCGTTGAGTTGAGTCCGAGTTCACTTTATGGAATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TTATGGAATGCAAACG
* * *
59429075 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTTA--GAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAATGCAA--A--CG
* *
59429123 TCCCGAACTCGTTGAGTTGAGGTCCGAGTTCACTTATGG-AT-CGAACA
1 T-CCGAACTCGTTGAGTTGA-GTCCGAGTTCACTTATGGAATGCAAACG
* * *
59429170 CCCGAGCTCG-TGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59429206 TCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 23
0.77 0.07 0.16
Matches are distributed among these distances:
44 24 0.22
45 8 0.07
46 12 0.11
47 6 0.05
48 25 0.23
49 19 0.17
50 10 0.09
51 4 0.04
52 2 0.02
53 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAATGCAAACG
Found at i:59434558 original size:46 final size:46
Alignment explanation
Indices: 59434502--59434677 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
59434492 TGGTTGAGCA
*
59434502 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
59434548 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
59434595 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
59434641 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59434678 TCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 65 0.59
47 29 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:59434658 original size:93 final size:93
Alignment explanation
Indices: 59434499--59434670 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
59434489 GGATGGTTGA
***
59434499 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
59434564 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
59434592 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
59434657 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
59434671 CTTATGGTCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59439961 original size:46 final size:46
Alignment explanation
Indices: 59439905--59440079 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
59439895 TGGTTGAGCA
*
59439905 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
59439951 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
59439998 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
59440043 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59440080 TCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 24 0.22
46 50 0.46
47 24 0.22
49 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:59440060 original size:92 final size:93
Alignment explanation
Indices: 59439902--59440072 Score: 290
Period size: 92 Copynumber: 1.8 Consensus size: 93
59439892 GGATGGTTGA
***
59439902 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
59439967 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
59439995 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
59440059 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
59440073 CTTATGGTCG
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 49 0.67
93 24 0.33
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59450487 original size:37 final size:37
Alignment explanation
Indices: 59450427--59450502 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
59450417 TATTACGAAA
* * *
59450427 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
59450464 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
59450501 TC
1 TC
59450503 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:59450701 original size:47 final size:47
Alignment explanation
Indices: 59450623--59451171 Score: 837
Period size: 47 Copynumber: 11.6 Consensus size: 47
59450613 CCCTTCGGGA
* * * * * *
59450623 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
59450670 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* ** *
59450717 CTTCTCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
59450764 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59450811 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59450860 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59450907 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
59450954 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59451001 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59451050 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59451097 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59451144 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
59451172 ATGGGTTTAA
Statistics
Matches: 465, Mismatches: 31, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
47 361 0.78
49 104 0.22
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59450879 original size:143 final size:142
Alignment explanation
Indices: 59450623--59451171 Score: 841
Period size: 143 Copynumber: 3.9 Consensus size: 142
59450613 CCCTTCGGGA
** * * * * * * *
59450623 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
59450688 TTTCACATTCATCACATCGGCCATTAAGCCTTCTCAC-GCATATACACTTTCACATTCATCACAT
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACAACATATACACTTTCACATTCATCACAT
*
59450752 CGGCCATTAAGC
131 CGGCCATTAGGC
* *
59450764 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
59450829 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC-ACATATACACTTTCACATTCATCAC
64 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAACATATACACTTTCACATTCATCAC
59450893 ATCGGCCATTAGGC
129 ATCGGCCATTAGGC
* **
59450907 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGCATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
59450972 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACA-ACATATACACTTTCACATTCATCACA
*
59451037 TCGGCTATTAGGC
130 TCGGCCATTAGGC
59451050 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
59451115 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACA-ACATATACACTTTCACAT
59451172 ATGGGTTTAA
Statistics
Matches: 375, Mismatches: 29, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
141 87 0.23
143 288 0.77
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (142 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAAGCCTTATCACAACATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:59450961 original size:190 final size:190
Alignment explanation
Indices: 59450623--59451171 Score: 922
Period size: 190 Copynumber: 2.9 Consensus size: 190
59450613 CCCTTCGGGA
* * * * * * * * *
59450623 CTTATCACAT-T-TATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
* * **
59450686 ACTTTCACATTCATCACATCGGCCATTAAGCCTTCTCACGCATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
59450751 TCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
131 TCGGCCATTAGGCCTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
59450811 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
59450876 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
59450941 TCGGCCATTAGGCCTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
131 TCGGCCATTAGGCCTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
59451001 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
59451066 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
**
59451131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
131 TCGGCCATTAGGCCTTATCAC--GCATATACACTTTCACAT
59451172 ATGGGTTTAA
Statistics
Matches: 341, Mismatches: 16, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
188 10 0.03
189 1 0.00
190 314 0.92
192 16 0.05
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:59468053 original size:27 final size:27
Alignment explanation
Indices: 59467991--59468081 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
59467981 ATTACATGAC
* **
59467991 TATGAATGTGATTGGGCTTGACGGGCCA
1 TATGAATGTGATTGGGC-CGATAGGCCA
*
59468019 TATCAATGTGATTGGGCCGATAGGCCA
1 TATGAATGTGATTGGGCCGATAGGCCA
* *
59468046 TATGAATGAGATTGGGCCTAAATAGGCCA
1 TATGAATGTGATTGGGCC--GATAGGCCA
*
59468075 AATGAAT
1 TATGAAT
59468082 AAGTGTGGGT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 23 0.43
28 16 0.30
29 14 0.26
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (27 bp):
TATGAATGTGATTGGGCCGATAGGCCA
Found at i:59470394 original size:71 final size:70
Alignment explanation
Indices: 59470257--59470395 Score: 163
Period size: 71 Copynumber: 2.0 Consensus size: 70
59470247 CATAGGTGAG
* * * * * *
59470257 TACATGTCAGCTTATATTGAACTAGTATATTTGGTTGCATGTGAGATTATATTGAATTTTAGTAT
1 TACATGTCAGCTTATATTGAACTAGTACACTTGGTTACATGTGAGATTATATTGAATATGAATAT
59470322 TCGAT
66 TCGAT
* * * *
59470327 TACATGTGAGCTTATATTTGAACTTGTACACTTGGTTATATGTGA-AGTTATTTTGAATATGAAT
1 TACATGTCAGCTTATA-TTGAACTAGTACACTTGGTTACATGTGAGA-TTATATTGAATATGAAT
59470391 ATTCG
64 ATTCG
59470396 GCTATATGTG
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
70 16 0.28
71 41 0.72
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.44
Consensus pattern (70 bp):
TACATGTCAGCTTATATTGAACTAGTACACTTGGTTACATGTGAGATTATATTGAATATGAATAT
TCGAT
Found at i:59473141 original size:39 final size:39
Alignment explanation
Indices: 59473082--59473162 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
59473072 TCCGCAACTT
59473082 AATTTTTAAATGACAAGTTTTCATAGATCATCTGTTTTA
1 AATTTTTAAATGACAAGTTTTCATAGATCATCTGTTTTA
* **
59473121 AATTTTTAAGTGACGTGTTTTCATAGATCATCTGTTTTA
1 AATTTTTAAATGACAAGTTTTCATAGATCATCTGTTTTA
59473160 AAT
1 AAT
59473163 AAAGCTTCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (39 bp):
AATTTTTAAATGACAAGTTTTCATAGATCATCTGTTTTA
Found at i:59473326 original size:19 final size:18
Alignment explanation
Indices: 59473279--59473335 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 18
59473269 GGGATTTTAC
* *
59473279 ACAAGGTTTTTATTGTAA
1 ACAAGGTTTTTAATGAAA
* *
59473297 AGAAGGGTTTTCAATGAAA
1 ACAA-GGTTTTTAATGAAA
*
59473316 ACAAGGTTTTTGAT-AAA
1 ACAAGGTTTTTAATGAAA
59473333 ACA
1 ACA
59473336 CTTCAATGTG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
17 6 0.19
18 11 0.35
19 14 0.45
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (18 bp):
ACAAGGTTTTTAATGAAA
Found at i:59477907 original size:40 final size:40
Alignment explanation
Indices: 59477813--59477957 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
59477803 TACTCGAATG
*
59477813 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* ** *
59477854 ACATCCGAACTAAGAT-CCAAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
59477894 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
59477934 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
59477958 CTTGTGCGAG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.68
41 26 0.30
42 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:59482181 original size:93 final size:93
Alignment explanation
Indices: 59482069--59482240 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
59482059 CGCCCATAAG
* *
59482069 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
59482134 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGAATGCCTAGTTACATTTCA
*
59482162 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
59482227 ACGAGTTCGAATGC
66 ACGAGCTCGAATGC
59482241 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGAATGCCTAGTTACATTTCA
Found at i:59482235 original size:46 final size:46
Alignment explanation
Indices: 59482062--59482231 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
59482052 TGTAACCCGC
* *
59482062 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
59482108 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
59482158 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
59482201 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
59482232 TTCGAATGCT
Statistics
Matches: 103, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:59485632 original size:93 final size:93
Alignment explanation
Indices: 59485520--59485691 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
59485510 CGCCCATAAG
* *
59485520 CGAACTCGGACTCAACTCAACGA-TCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
59485584 AACGAGCTCGGATGCCTAGTTACATTTCA
65 AACGAGCTCGGATGCCTAGTTACATTTCA
59485613 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
59485678 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
59485692 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 74 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:59485682 original size:46 final size:46
Alignment explanation
Indices: 59485513--59485688 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
59485503 TGTAACCCGC
* *
59485513 CCATAAGCGAACTCGGACTCAACTCAACGA-TCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCAT
* * *
59485559 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
59485609 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59485652 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59485689 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 62 0.58
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59485707 original size:46 final size:46
Alignment explanation
Indices: 59485562--59485700 Score: 126
Period size: 47 Copynumber: 3.0 Consensus size: 46
59485552 TTCGCATCCA
* *
59485562 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
59485610 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
59485655 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
59485701 CTAGTGACAT
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.38
47 29 0.39
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:59487472 original size:17 final size:18
Alignment explanation
Indices: 59487439--59487472 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59487429 TTTAAAGAGG
59487439 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
59487457 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
59487473 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:59490107 original size:18 final size:17
Alignment explanation
Indices: 59490086--59490137 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
59490076 ACAATTCTTT
59490086 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTT-TCC
* *
59490104 TCTCTTCATCTATTTCC
1 TCTCTTCTTCTTTTTCC
59490121 TCTTCTTCTTCTTTTTC
1 TC-TCTTCTTCTTTTTC
59490138 TCTATAGCCG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 5 0.17
18 24 0.83
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.62
Consensus pattern (17 bp):
TCTCTTCTTCTTTTTCC
Found at i:59492524 original size:79 final size:82
Alignment explanation
Indices: 59492413--59492597 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
59492403 GCTACTCGTT
* * *
59492413 CAAATGCCTTCGGGTCATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
59492476 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
59492493 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
59492556 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
59492573 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59492598 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:59492597 original size:40 final size:40
Alignment explanation
Indices: 59492394--59492597 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
59492384 CGGAATTTAA
** * *
59492394 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGTCATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59492434 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
59492474 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59492513 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
59492553 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59492593 CCGGA
1 CCGGA
59492598 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59493792 original size:56 final size:56
Alignment explanation
Indices: 59493725--59493844 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
59493715 TATTAGTTTA
59493725 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
59493781 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
59493837 TTGCCCAT
1 TTGCCCAT
59493845 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:59499633 original size:40 final size:40
Alignment explanation
Indices: 59499596--59499778 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
59499586 GCTACTCGTT
*
59499596 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
59499636 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
59499676 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
59499715 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
59499756 CAAA-GCCTTC-GGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
59499779 ACATCATTCG
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.02
39 40 0.32
40 71 0.57
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:59499707 original size:79 final size:81
Alignment explanation
Indices: 59499596--59499779 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
59499586 GCTACTCGTT
* *
59499596 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
59499659 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
59499676 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
59499740 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
*
59499756 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGA
59499780 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
78 3 0.03
79 65 0.71
80 23 0.25
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:59500956 original size:55 final size:55
Alignment explanation
Indices: 59500890--59501007 Score: 220
Period size: 55 Copynumber: 2.1 Consensus size: 55
59500880 TATTAGTTTA
59500890 TTGCCCATGCTTCTTATTTTATTCTTCC-TTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATT-TTCCATTAACACAACATGTTTCATGACATGTT
59500945 TTGCCCATGCTTCTTATTTTATTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTCCATTAACACAACATGTTTCATGACATGTT
59501000 TTGCCCAT
1 TTGCCCAT
59501008 CATCCTTGTC
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
54 4 0.06
55 58 0.94
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.45
Consensus pattern (55 bp):
TTGCCCATGCTTCTTATTTTATTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:59508034 original size:46 final size:46
Alignment explanation
Indices: 59507984--59508156 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
59507974 TGTTTGGGCA
59507984 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
59508030 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
59508077 TCC-AAGCTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCAAATG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
59508123 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59508157 CGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 64 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59508139 original size:93 final size:93
Alignment explanation
Indices: 59507980--59508151 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
59507970 AGGATGTTTG
* * *
59507980 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
59508045 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
59508073 GGCATCC-AAGCTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCAAATGCCCGAGCTCGTTGA
1 GGCATCCGAA-CTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGA
59508137 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
59508152 ACTTACGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:59512954 original size:46 final size:46
Alignment explanation
Indices: 59512904--59513079 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
59512894 TGTTTGGGCA
59512904 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
59512950 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
59512997 TCC-AAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCACAATG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-GAATG
* *
59513043 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59513080 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 2 0.02
45 4 0.04
46 55 0.52
47 38 0.36
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59513059 original size:93 final size:93
Alignment explanation
Indices: 59512900--59513071 Score: 285
Period size: 93 Copynumber: 1.8 Consensus size: 93
59512890 AGGATGTTTG
* *
59512900 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAATGCCCGAACTCGTTGAG
59512965 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
59512993 GGCATCC-AAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCACAATGCCCGAGCTCGTTG
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-CAATGCCCGAACTCGTTG
59513056 AGTTGAGTCCGAGTTC
64 AGTTGAGTCCGAGTTC
59513072 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
92 21 0.28
93 53 0.72
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:59515993 original size:15 final size:15
Alignment explanation
Indices: 59515969--59516023 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
59515959 GTATCTTGGG
59515969 TTTC-TTATTCTGGA
1 TTTCTTTATTCTGGA
59515983 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
59515998 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
59516013 TTTCTTTATTC
1 TTTCTTTATTC
59516024 GGTTTCCTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
14 6 0.17
15 28 0.78
16 2 0.06
ACGTcount: A:0.13, C:0.16, G:0.11, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:59519332 original size:16 final size:15
Alignment explanation
Indices: 59519311--59519408 Score: 53
Period size: 16 Copynumber: 6.5 Consensus size: 15
59519301 TCAAATTCTA
* *
59519311 AAAAATCATAAAAAT
1 AAAAATAATAAACAT
59519326 AATAAATAATAAACAT
1 AA-AAATAATAAACAT
59519342 AAAAA-AATAAA-AT
1 AAAAATAATAAACAT
**
59519355 --TGAT-ATAAACTAT
1 AAAAATAATAAAC-AT
* *
59519368 AAAAATTATAAAAATATT
1 AAAAA-TA-ATAAACA-T
59519386 AAAAATAATAAACAT
1 AAAAATAATAAACAT
59519401 ATAAAATA
1 A-AAAATA
59519409 CTTAAAATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 21
0.67 0.11 0.23
Matches are distributed among these distances:
11 6 0.10
13 4 0.06
14 6 0.10
15 8 0.13
16 25 0.40
17 3 0.05
18 10 0.16
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.26
Consensus pattern (15 bp):
AAAAATAATAAACAT
Found at i:59519336 original size:10 final size:9
Alignment explanation
Indices: 59519311--59519406 Score: 63
Period size: 9 Copynumber: 10.4 Consensus size: 9
59519301 TCAAATTCTA
*
59519311 AAAAATCAT
1 AAAAATAAT
59519320 AAAAATAAT
1 AAAAATAAT
59519329 AAATAATAAACAT
1 AAA-AAT--A-AT
59519342 AAAAA-AAT
1 AAAAATAAT
* *
59519350 AAAATTGAT
1 AAAAATAAT
*
59519359 ATAAACT-AT
1 A-AAAATAAT
*
59519368 AAAAATTAT
1 AAAAATAAT
*
59519377 AAAAATATT
1 AAAAATAAT
59519386 AAAAATAAT
1 AAAAATAAT
*
59519395 AAACAT-AT
1 AAAAATAAT
59519403 AAAA
1 AAAA
59519407 TACTTAAAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 15
0.74 0.11 0.16
Matches are distributed among these distances:
8 15 0.21
9 40 0.57
10 7 0.10
12 3 0.04
13 5 0.07
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (9 bp):
AAAAATAAT
Found at i:59519371 original size:24 final size:24
Alignment explanation
Indices: 59519318--59519383 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
59519308 CTAAAAAATC
59519318 ATAAAAATAATAAATAATAAACAT
1 ATAAAAATAATAAATAATAAACAT
* *
59519342 AAAAAAATAA-AATTGATATAAAC-T
1 ATAAAAATAATAAAT-A-ATAAACAT
*
59519366 ATAAAAATTATAAA-AATA
1 ATAAAAATAATAAATAATA
59519384 TTAAAAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
22 3 0.09
23 4 0.12
24 19 0.56
25 8 0.24
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.26
Consensus pattern (24 bp):
ATAAAAATAATAAATAATAAACAT
Found at i:59519388 original size:18 final size:17
Alignment explanation
Indices: 59519311--59519406 Score: 74
Period size: 18 Copynumber: 5.7 Consensus size: 17
59519301 TCAAATTCTA
59519311 AAAAATCATAAAAATAAT
1 AAAAAT-ATAAAAATAAT
* *
59519329 AAATA-ATAAACAT-A-
1 AAAAATATAAAAATAAT
* *
59519343 AAAAA-ATAAAATTGAT
1 AAAAATATAAAAATAAT
* *
59519359 ATAAACTATAAAAATTAT
1 A-AAAATATAAAAATAAT
59519377 AAAAATATTAAAAATAAT
1 AAAAATA-TAAAAATAAT
*
59519395 AAACATATAAAA
1 AAAAATATAAAA
59519407 TACTTAAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
14 10 0.16
15 2 0.03
16 8 0.13
17 13 0.21
18 29 0.47
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (17 bp):
AAAAATATAAAAATAAT
Found at i:59528288 original size:15 final size:15
Alignment explanation
Indices: 59528270--59528306 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
59528260 ATCTTGGGTT
59528270 TCTTTATCCTGGATC
1 TCTTTATCCTGGATC
* *
59528285 TCTTTATTCTGGATT
1 TCTTTATCCTGGATC
59528300 TCTTTAT
1 TCTTTAT
59528307 ATGTTTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.19, G:0.11, T:0.57
Consensus pattern (15 bp):
TCTTTATCCTGGATC
Found at i:59530233 original size:30 final size:29
Alignment explanation
Indices: 59530193--59530250 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
59530183 ATTTACGAGC
*
59530193 TTTAGGGCAAAAGTGTAAATATGCAAAAG
1 TTTAGGGCAAAACTGTAAATATGCAAAAG
* *
59530222 TTTAGGGGCAAAACTGTAATTTTGCAAAA
1 TTTA-GGGCAAAACTGTAAATATGCAAAA
59530251 ATATGATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (29 bp):
TTTAGGGCAAAACTGTAAATATGCAAAAG
Found at i:59532731 original size:15 final size:15
Alignment explanation
Indices: 59532681--59532731 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
59532671 ATAAAGAAAT
*
59532681 AAGATAGAGAAACCC
1 AAGATAAAGAAACCC
* *
59532696 -AGAATAAAGAGATCC
1 AAG-ATAAAGAAACCC
*
59532711 AGGATAAAGAAACCC
1 AAGATAAAGAAACCC
59532726 AAGATA
1 AAGATA
59532732 CGATACTATG
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.89
16 1 0.04
ACGTcount: A:0.55, C:0.16, G:0.20, T:0.10
Consensus pattern (15 bp):
AAGATAAAGAAACCC
Found at i:59535768 original size:46 final size:45
Alignment explanation
Indices: 59535627--59535792 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 45
59535617 CCGCCCATAA
* * *
59535627 GAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCAT-AGT
* * *
59535672 GAACTCGGA-TCAACTCAACGAGCTCGGATGCCTAGTTACATCTC-T--C
1 GAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATC-CATAGT
*
59535718 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCAT-AGT
*
59535764 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
59535793 TGCCAAACAT
Statistics
Matches: 100, Mismatches: 10, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
45 24 0.24
46 40 0.40
47 18 0.18
48 1 0.01
49 6 0.06
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAGT
Found at i:59541649 original size:9 final size:9
Alignment explanation
Indices: 59541637--59541728 Score: 59
Period size: 9 Copynumber: 10.4 Consensus size: 9
59541627 TTTAAATATG
59541637 TTTTATTAT
1 TTTTATTAT
*
59541646 TTTTATAAT
1 TTTTATTAT
*
59541655 TTTTATAATT
1 TTTTATTA-T
*
59541665 TTTTATAAGT
1 TTTTATTA-T
* * *
59541675 TTATATCAA
1 TTTTATTAT
59541684 TTTTATT-T
1 TTTTATTAT
59541692 TTTTA--AT
1 TTTTATTAT
59541699 TGTTTATTA-
1 T-TTTATTAT
59541708 -TTTATTAT
1 TTTTATTAT
*
59541716 TTTTATGAT
1 TTTTATTAT
59541725 TTTT
1 TTTT
59541729 TAGAATTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
7 9 0.13
8 9 0.13
9 32 0.48
10 17 0.25
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (9 bp):
TTTTATTAT
Found at i:59541667 original size:10 final size:10
Alignment explanation
Indices: 59541645--59541687 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
59541635 TGTTTTATTA
59541645 TTTTTATAA-
1 TTTTTATAAT
59541654 TTTTTATAAT
1 TTTTTATAAT
*
59541664 TTTTTATAAG
1 TTTTTATAAT
*
59541674 TTTATATCAAT
1 TTTTTAT-AAT
59541685 TTT
1 TTT
59541688 ATTTTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 9 0.31
10 15 0.52
11 5 0.17
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:59541667 original size:19 final size:21
Alignment explanation
Indices: 59541645--59541687 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
59541635 TGTTTTATTA
*
59541645 TTTTTATAA-TTTTTAT-AAT
1 TTTTTATAAGTTTATATCAAT
59541664 TTTTTATAAGTTTATATCAAT
1 TTTTTATAAGTTTATATCAAT
59541685 TTT
1 TTT
59541688 ATTTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 6 0.29
21 6 0.29
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTTATAAGTTTATATCAAT
Found at i:59542310 original size:30 final size:30
Alignment explanation
Indices: 59542274--59542336 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
59542264 AACTTTTTTA
59542274 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
59542304 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
59542334 TTG
1 TTG
59542337 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:59544402 original size:10 final size:10
Alignment explanation
Indices: 59544387--59544412 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
59544377 TAAGTTACTA
59544387 ATGAAAAACT
1 ATGAAAAACT
59544397 ATGAAAAACT
1 ATGAAAAACT
59544407 ATGAAA
1 ATGAAA
59544413 TTCTTCCCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.19
Consensus pattern (10 bp):
ATGAAAAACT
Found at i:59549647 original size:39 final size:40
Alignment explanation
Indices: 59549552--59549774 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
59549542 TTGAATGATG
*
59549552 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
59549590 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
59549631 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59549670 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
59549709 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
59549748 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
59549775 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
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:59549738 original size:79 final size:81
Alignment explanation
Indices: 59549552--59549774 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
59549542 TTGAATGATG
* * *
59549552 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
59549614 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
59549631 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
59549692 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
59549709 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
59549773 TG
66 TG
59549775 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:59549796 original size:79 final size:79
Alignment explanation
Indices: 59549552--59549807 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
59549542 TTGAATGATG
* * * *
59549552 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
59549613 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
59549631 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
59549695 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
59549709 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
59549772 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
59549789 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59549808 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:59551510 original size:31 final size:33
Alignment explanation
Indices: 59551453--59551513 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
59551443 CTATCTATAA
59551453 AAATAATAATACATAAAATACTTTTAAAAACTT
1 AAATAATAATACATAAAATACTTTTAAAAACTT
*
59551486 AAAT-ATAATA-ATAAATTA-TATTTAAAAA
1 AAATAATAATACATAAAATACT-TTTAAAAA
59551514 GATTTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 1 0.04
31 15 0.58
32 6 0.23
33 4 0.15
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (33 bp):
AAATAATAATACATAAAATACTTTTAAAAACTT
Found at i:59552099 original size:34 final size:35
Alignment explanation
Indices: 59552060--59552134 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
59552050 TTTTTAGGGT
59552060 TTTTAG-GGTTACGG-TTTTACTAAAATAAGTTAGG
1 TTTTAGTGGTTA-GGTTTTTACTAAAATAAGTTAGG
* **
59552094 TTTTAGTGTTTAGGTTTTTGTTAAAATAAGTTAGG
1 TTTTAGTGGTTAGGTTTTTACTAAAATAAGTTAGG
*
59552129 GTTTAG
1 TTTTAG
59552135 AGTTTTAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 8 0.23
35 27 0.77
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.47
Consensus pattern (35 bp):
TTTTAGTGGTTAGGTTTTTACTAAAATAAGTTAGG
Found at i:59552335 original size:57 final size:52
Alignment explanation
Indices: 59552217--59552343 Score: 138
Period size: 48 Copynumber: 2.4 Consensus size: 52
59552207 GGTTGTTAAA
*
59552217 TAAATTAAGTAAATTAGGGTTTTTAAAGTTTTAAATAAATTAAGTTAGGATTT
1 TAAA-TAAGTAAATTAGGGTTTTTAAAGTTTTAAATAAATTAAATTAGGATTT
*
59552270 T--A-AA-TAAATTAGGGTTTTTAAGGTTTTAAATAAATTAAATAAATTAGTG-TTT
1 TAAATAAGTAAATTAGGGTTTTTAAAGTTTTAAATAAA-T---TAAATTAG-GATTT
59552322 TAAATAAGTTAAATTAGGGTTT
1 TAAATAAG-TAAATTAGGGTTT
59552344 ATGGTTTTTA
Statistics
Matches: 62, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
48 29 0.47
49 3 0.05
51 1 0.02
52 11 0.18
53 2 0.03
54 1 0.02
55 2 0.03
57 13 0.21
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (52 bp):
TAAATAAGTAAATTAGGGTTTTTAAAGTTTTAAATAAATTAAATTAGGATTT
Found at i:59552369 original size:34 final size:34
Alignment explanation
Indices: 59552331--59552395 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
59552321 TTAAATAAGT
* * *
59552331 TAAATTAGGGTT-TATGGTTTTTAGATAAATTGAG
1 TAAATTAGAGTTCTA-GGGTTTTAAATAAATTGAG
59552365 TAAATTAGAGTTCTAGGGTTTTAAATAAATT
1 TAAATTAGAGTTCTAGGGTTTTAAATAAATT
59552396 AAATTAGGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 25 0.93
35 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (34 bp):
TAAATTAGAGTTCTAGGGTTTTAAATAAATTGAG
Found at i:59556285 original size:18 final size:18
Alignment explanation
Indices: 59556262--59556299 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
59556252 GGACAATGAA
*
59556262 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
59556280 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
59556298 AC
1 AC
59556300 GCACCTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:59556892 original size:7 final size:7
Alignment explanation
Indices: 59556882--59556906 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
59556872 TTATATACAT
59556882 AATACTA
1 AATACTA
59556889 AATACTA
1 AATACTA
59556896 AATACTA
1 AATACTA
59556903 AATA
1 AATA
59556907 TGAAACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:59560691 original size:20 final size:21
Alignment explanation
Indices: 59560657--59560695 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
59560647 TCTATATATT
59560657 CTTTATAATTTTTTAAAAAAA
1 CTTTATAATTTTTTAAAAAAA
59560678 CTTTATAA-TTTTTAAAAA
1 CTTTATAATTTTTTAAAAA
59560696 TTATAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
CTTTATAATTTTTTAAAAAAA
Found at i:59560719 original size:18 final size:19
Alignment explanation
Indices: 59560696--59560733 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
59560686 TTTTTAAAAA
59560696 TTATAAAT-TTTATAATTT
1 TTATAAATATTTATAATTT
*
59560714 TTATAAATATTTTTAATTT
1 TTATAAATATTTATAATTT
59560733 T
1 T
59560734 AAAAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATAAATATTTATAATTT
Found at i:59560734 original size:18 final size:18
Alignment explanation
Indices: 59560696--59560750 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
59560686 TTTTTAAAAA
*
59560696 TTATAAAT-TTTATAATTT
1 TTATAAATATTTTTAA-TT
59560714 TTATAAATATTTTTAATT
1 TTATAAATATTTTTAATT
* *
59560732 TTAAAAATTATTTTGAATT
1 TTATAAA-TATTTTTAATT
59560751 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TTATAAATATTTTTAATT
Found at i:59560743 original size:19 final size:18
Alignment explanation
Indices: 59560702--59560750 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
59560692 AAAATTATAA
*
59560702 ATTTTATAATTTTTATAAAT
1 ATTTT-TAA-TTTTAAAAAT
59560722 ATTTTTAATTTTAAAAATT
1 ATTTTTAATTTTAAAAA-T
*
59560741 ATTTTGAATT
1 ATTTTTAATT
59560751 ATTTTGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 8 0.31
19 13 0.50
20 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTTTTAATTTTAAAAAT
Found at i:59561311 original size:19 final size:19
Alignment explanation
Indices: 59561279--59561326 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
59561269 GTACAAAATG
*
59561279 AAAT-TTAAATAATTTACA
1 AAATATTAAAAAATTTACA
*
59561297 AAATATTAAAAAATTTATA
1 AAATATTAAAAAATTTACA
*
59561316 ATATA-TAAAAA
1 AAATATTAAAAA
59561327 TAAATATACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATTAAAAAATTTACA
Found at i:59562660 original size:3 final size:3
Alignment explanation
Indices: 59562654--59562685 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
59562644 AAAATTTCTA
59562654 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
59562686 GTATGCGTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:59563059 original size:18 final size:18
Alignment explanation
Indices: 59563018--59563059 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
59563008 TACATAATTT
*
59563018 TTAAATATATAAAATATA
1 TTAAAAATATAAAATATA
*
59563036 TCAAAAATACTAAAA-ATA
1 TTAAAAATA-TAAAATATA
59563054 TTAAAA
1 TTAAAA
59563060 TAAATATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAAAATATAAAATATA
Found at i:59563656 original size:10 final size:10
Alignment explanation
Indices: 59563641--59563778 Score: 56
Period size: 10 Copynumber: 14.2 Consensus size: 10
59563631 ACAATTAATT
59563641 AATTTTTAAA
1 AATTTTTAAA
59563651 AA-TTTTAAA
1 AATTTTTAAA
* *
59563660 AATATTAAAA
1 AATTTTTAAA
* *
59563670 AATATATAAA
1 AATTTTTAAA
* * *
59563680 TATATATT-AT
1 AAT-TTTTAAA
59563690 AATTTTT--A
1 AATTTTTAAA
* *
59563698 TATTTTTAAT
1 AATTTTTAAA
59563708 AATTTTT-AA
1 AATTTTTAAA
59563717 AATTTTT-AA
1 AATTTTTAAA
**
59563726 AATTTCAAAA
1 AATTTTTAAA
59563736 TAATTTTTATAA
1 -AATTTTTA-AA
* * **
59563748 TATTCTTCTA
1 AATTTTTAAA
59563758 AA-TTTTAAA
1 AATTTTTAAA
*
59563767 ATTTTTTAAA
1 AATTTTTAAA
59563777 AA
1 AA
59563779 ATTAATTAAT
Statistics
Matches: 90, Mismatches: 30, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
8 6 0.07
9 32 0.36
10 38 0.42
11 12 0.13
12 2 0.02
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:59563704 original size:9 final size:9
Alignment explanation
Indices: 59563686--59563772 Score: 59
Period size: 9 Copynumber: 9.2 Consensus size: 9
59563676 TAAATATATA
59563686 TTATAATTT
1 TTATAATTT
59563695 TTAT-ATTT
1 TTATAATTT
59563703 TTAATAATTT
1 TT-ATAATTT
*
59563713 TTAAAATTT
1 TTATAATTT
*
59563722 TTAAAATTT
1 TTATAATTT
**
59563731 CAAAATAATTT
1 --TTATAATTT
59563742 TTATAATATT
1 TTATAAT-TT
* *
59563752 CTTCTAAATT
1 -TTATAATTT
*
59563762 TTAAAATTT
1 TTATAATTT
59563771 TT
1 TT
59563773 TAAAAAATTA
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
8 6 0.10
9 34 0.56
10 10 0.16
11 11 0.18
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (9 bp):
TTATAATTT
Found at i:59563741 original size:29 final size:30
Alignment explanation
Indices: 59563705--59563777 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
59563695 TTATATTTTT
59563705 AATAATTTTTAAAATT-TT-TAAAATTTCAA
1 AATAATTTTTAAAATTCTTCT-AAATTTCAA
*
59563734 AATAATTTTTATAATATTCTTCTAAATTTTAA
1 AATAATTTTTA-AA-ATTCTTCTAAATTTCAA
59563766 AAT--TTTTTAAAA
1 AATAATTTTTAAAA
59563778 AATTAATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
28 1 0.03
29 13 0.33
30 8 0.21
31 3 0.08
32 13 0.33
33 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (30 bp):
AATAATTTTTAAAATTCTTCTAAATTTCAA
Found at i:59563921 original size:13 final size:13
Alignment explanation
Indices: 59563905--59563930 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59563895 AAATTTGAAA
59563905 CATTAAATTTATT
1 CATTAAATTTATT
59563918 CATTAAATTTATT
1 CATTAAATTTATT
59563931 AGAAAAACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
CATTAAATTTATT
Found at i:59568572 original size:36 final size:36
Alignment explanation
Indices: 59568532--59568604 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
59568522 AATAGTTTTC
59568532 TATATTATAGAAAGTAGAAGGCGAA-TAGGAGTAGTT
1 TATATTATAGAAAGTAGAAGGC-AATTAGGAGTAGTT
* *
59568568 TATATTATAGGAAGTAGAGGGCAATTAGGAGTAGTT
1 TATATTATAGAAAGTAGAAGGCAATTAGGAGTAGTT
59568604 T
1 T
59568605 TCCTATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 2 0.06
36 32 0.94
ACGTcount: A:0.38, C:0.03, G:0.29, T:0.30
Consensus pattern (36 bp):
TATATTATAGAAAGTAGAAGGCAATTAGGAGTAGTT
Found at i:59579914 original size:34 final size:34
Alignment explanation
Indices: 59579832--59579938 Score: 115
Period size: 34 Copynumber: 3.1 Consensus size: 34
59579822 CCCATGCAAT
* *
59579832 GCAATATGACATGCTTATAACAGACCAAGACGGTA
1 GCAATAT-ACATGCTTATAACAGATCAATACGGTA
* * **
59579867 GCAAGAAACATGCTTATAACAGATCAATACATTA
1 GCAATATACATGCTTATAACAGATCAATACGGTA
* * * *
59579901 GCAATATATATGCTTCTAATAAATCAATACGGTA
1 GCAATATACATGCTTATAACAGATCAATACGGTA
59579935 GCAA
1 GCAA
59579939 AAGATATGCT
Statistics
Matches: 58, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
34 53 0.91
35 5 0.09
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (34 bp):
GCAATATACATGCTTATAACAGATCAATACGGTA
Found at i:59579946 original size:34 final size:33
Alignment explanation
Indices: 59579842--59579951 Score: 103
Period size: 34 Copynumber: 3.2 Consensus size: 33
59579832 GCAATATGAC
* * * *
59579842 ATGCTTATAACAGACCAAGACGGTAGCAAGAAAC
1 ATGCTTATAACAAATCAATACGGTAGCAA-AAAT
* ** *
59579876 ATGCTTATAACAGATCAATACATTAGCAATATAT
1 ATGCTTATAACAAATCAATACGGTAGCAA-AAAT
* *
59579910 ATGCTTCTAATAAATCAATACGGTAGCAAAAGAT
1 ATGCTTATAACAAATCAATACGGTAGCAAAA-AT
59579944 ATGCTTAT
1 ATGCTTAT
59579952 CATATATTTG
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
33 1 0.02
34 60 0.98
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (33 bp):
ATGCTTATAACAAATCAATACGGTAGCAAAAAT
Found at i:59581529 original size:34 final size:34
Alignment explanation
Indices: 59581484--59581560 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 34
59581474 AGATACTGTC
*
59581484 TAGTATCAGTGTGGGCCTTAGCCCATTACAATAA
1 TAGTATCAGTGTAGGCCTTAGCCCATTACAATAA
* *
59581518 TAGTATTAGTGTAGGCTTTAGCCCATTACAATAA
1 TAGTATCAGTGTAGGCCTTAGCCCATTACAATAA
*
59581552 CAGTATCAG
1 TAGTATCAG
59581561 AAAATGCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (34 bp):
TAGTATCAGTGTAGGCCTTAGCCCATTACAATAA
Found at i:59584684 original size:41 final size:40
Alignment explanation
Indices: 59584551--59584774 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
59584541 AACCCAAGTA
* * * *
59584551 CCTTCGGGATTTA-ACCGGATATAG-CAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
59584590 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59584630 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
* * * *
59584671 CCTTCAGGTCTTAGCCCGGATATTGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
59584711 CCTTCGGGACTTAACCCGGGTATAGTCACTAGCACAAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TG
*
59584752 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
59584775 CATCCGAATA
Statistics
Matches: 162, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 12 0.07
40 92 0.57
41 58 0.36
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:59584686 original size:81 final size:80
Alignment explanation
Indices: 59584551--59584774 Score: 299
Period size: 81 Copynumber: 2.8 Consensus size: 80
59584541 AACCCAAGTA
* * * * *
59584551 CCTTCGGGATTTAACCGGATATAG-CAAATCGCAC-AAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTACCCGGATATAGTC-ACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATA
*
59584614 GTAACTCGCACAAATG
65 GTAACTAGCACAAATG
* *
59584630 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGCCTTCAGGTCTTAGCCCGGATATT
1 CCTTCGGGACTTA-CCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATA
* *
59584695 GTCACTAGCGCAAATG
65 GTAACTAGCACAAATG
* *
59584711 CCTTCGGGACTTAACCCGGGTATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTT-ACCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATAT
59584775 CATCCGAATA
Statistics
Matches: 128, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 12 0.09
80 16 0.12
81 99 0.77
82 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTACCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:59587073 original size:40 final size:40
Alignment explanation
Indices: 59587029--59587232 Score: 304
Period size: 40 Copynumber: 5.1 Consensus size: 40
59587019 CAGGATTTAA
* *
59587029 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACGAATGCCTTCGGGACTTAGC
59587069 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
*
59587109 CCGGGTATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
*
59587149 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
* * * *
59587189 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACGAATGCCTTCGGGACTTAGC
59587229 CCGG
1 CCGG
59587233 TTATCATCCA
Statistics
Matches: 154, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 2 0.01
40 152 0.99
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
Found at i:59592896 original size:27 final size:28
Alignment explanation
Indices: 59592781--59592906 Score: 164
Period size: 28 Copynumber: 4.5 Consensus size: 28
59592771 CATGAGATTG
* * * *
59592781 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
59592810 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
59592838 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
59592866 GCACTAGGTGTGCGAG-TTGATTATATG
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
59592893 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
59592907 GACTTAATAT
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 22 0.25
28 47 0.54
29 18 0.21
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:59592903 original size:55 final size:57
Alignment explanation
Indices: 59592779--59592906 Score: 170
Period size: 55 Copynumber: 2.3 Consensus size: 57
59592769 ATCATGAGAT
* * *
59592779 TGGCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATG
1 TGGCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATA
* * * *
59592836 TAGCACTAAGTGTGCGAGTTT-GATTATATAGCACTAGGTGTGCGAG-TTGATTATA
1 TGGCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATA
*
59592891 TGGCACTGAGTGTGCG
1 TGGCACTAAGTGTGCG
59592907 GACTTAATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 22 0.35
56 21 0.34
57 19 0.31
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.33
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATA
Found at i:59600886 original size:76 final size:75
Alignment explanation
Indices: 59600780--59600943 Score: 190
Period size: 76 Copynumber: 2.2 Consensus size: 75
59600770 TGATCTACTT
* * *
59600780 CATTATGTATTTTGTTTGTTAAATGCATCTTTA-TTAAATGTTTTGCATTAATACATCTA-CATC
1 CATTATGTATTTTGTTTATTAAATGCATCTTTAGTT-AATGCTTTGAATTAATACAT-TAGCATC
*
59600843 TTTTAAAAATGTG
64 ATTTAAAAAT-TG
* *
59600856 CATTATGT-TTCTTGTTTATTGAATGTATCTTTAGTTAATGCTTTGAATTAATACATTAGCATCA
1 CATTATGTATT-TTGTTTATTAAATGCATCTTTAGTTAATGCTTTGAATTAATACATTAGCATCA
* *
59600920 TTTAAGACTTG
65 TTTAAAAATTG
*
59600931 CATTATGTGTTTT
1 CATTATGTATTTT
59600944 TCCATATTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
75 16 0.21
76 58 0.76
77 2 0.03
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.49
Consensus pattern (75 bp):
CATTATGTATTTTGTTTATTAAATGCATCTTTAGTTAATGCTTTGAATTAATACATTAGCATCAT
TTAAAAATTG
Found at i:59602120 original size:34 final size:35
Alignment explanation
Indices: 59602077--59602193 Score: 164
Period size: 35 Copynumber: 3.3 Consensus size: 35
59602067 ACTCTCTATT
* * *
59602077 TTGGTGTGTTTTGGATGGA-TAGCTCTTATGTGTA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
*
59602111 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
* *
59602146 TTGATGTGTTCCGGATGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
59602181 TCTGGTGTGTTTC
1 T-TGGTGTGTTTC
59602194 AATTGGATTA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
34 17 0.24
35 46 0.64
36 9 0.12
ACGTcount: A:0.16, C:0.11, G:0.30, T:0.43
Consensus pattern (35 bp):
TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
Found at i:59605594 original size:41 final size:41
Alignment explanation
Indices: 59605506--59605602 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 41
59605496 GATACTTGTT
*
59605506 AGCTTGTGTGAGTAGCACCATGTAGCTTCGTCATGACCATC
1 AGCTTGTGTGAGCAGCACCATGTAGCTTCGTCATGACCATC
* * **
59605547 AACTTGTGTGAGCAGCACCATGTGGCTTCGTCATGACTGTC
1 AGCTTGTGTGAGCAGCACCATGTAGCTTCGTCATGACCATC
*
59605588 GGCTTGTGTGAGCAG
1 AGCTTGTGTGAGCAG
59605603 ACCTCTTGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (41 bp):
AGCTTGTGTGAGCAGCACCATGTAGCTTCGTCATGACCATC
Found at i:59607879 original size:27 final size:27
Alignment explanation
Indices: 59607849--59608026 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
59607839 ATATCGAGTC
* *
59607849 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
59607876 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
59607903 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
59607931 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
59607958 CGCACACTTAGTGC-ATCATGTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
59607985 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
59608012 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59608027 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Done.