Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 318 of 333
Found at i:103929497 original size:18 final size:19
Alignment explanation
Indices: 103929474--103929516 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
103929464 TGTTTTTCAA
*
103929474 TTTTTAAGGGTCC-AATTT
1 TTTTTAAGGATCCAAATTT
103929492 TTTTTAAGGATCCAAATTT
1 TTTTTAAGGATCCAAATTT
103929511 TTTTTA
1 TTTTTA
103929517 CTAACTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (19 bp):
TTTTTAAGGATCCAAATTT
Found at i:103931298 original size:16 final size:15
Alignment explanation
Indices: 103931277--103931324 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
103931267 GATGGGAATA
103931277 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
103931293 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
103931308 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
103931324 A
1 A
103931325 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:103931307 original size:8 final size:8
Alignment explanation
Indices: 103931273--103931324 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
103931263 CAATGATGGG
*
103931273 AATAATAA
1 AATATTAA
103931281 AATATATAA
1 AATAT-TAA
103931290 AATA-TAA
1 AATATTAA
103931297 AATATTAA
1 AATATTAA
*
103931305 AATATCAA
1 AATATTAA
*
103931313 AATATTAG
1 AATATTAA
103931321 AATA
1 AATA
103931325 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:103931324 original size:24 final size:24
Alignment explanation
Indices: 103931272--103931328 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
103931262 ACAATGATGG
*
103931272 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
103931296 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
103931320 GAATAATAA
1 GAATAATAA
103931329 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:103931487 original size:23 final size:22
Alignment explanation
Indices: 103931436--103931489 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
103931426 ATACTACATC
103931436 AATATGTACATAT-ATA--AAA
1 AATATGTACATATAATATTAAA
**
103931455 AATAAATACATGATAATATTAAA
1 AATATGTACAT-ATAATATTAAA
103931478 AATATGTACATA
1 AATATGTACATA
103931490 ATATAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 3 0.11
22 1 0.04
23 12 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (22 bp):
AATATGTACATATAATATTAAA
Found at i:103931536 original size:22 final size:24
Alignment explanation
Indices: 103931452--103931537 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 24
103931442 TACATATATA
* *
103931452 AAAAATAAATACATGATAATA--TT
1 AAAAATATATACATAAT-ATAGGTT
*
103931475 AAAAATATGTACATAATATAGTGTT
1 AAAAATATATACATAATATAG-GTT
*
103931500 AAAAATACATACATAATATA-GTT
1 AAAAATATATACATAATATAGGTT
*
103931523 -AAGATATATACATAA
1 AAAAATATATACATAA
103931538 GATAACATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 17 0.32
25 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAGGTT
Found at i:103931588 original size:25 final size:24
Alignment explanation
Indices: 103931558--103931690 Score: 96
Period size: 25 Copynumber: 5.5 Consensus size: 24
103931548 AGAAAAAAAA
103931558 AATATAAATAATATAATATTAAAG
1 AATATAAATAATATAATATTAAAG
* * * *
103931582 ATATATAAATAAAATAGTATAAAAT
1 A-ATATAAATAATATAATATTAAAG
* * *
103931607 ATATATATACGTAATATAAAATTTAA-
1 A-ATATA-A-ATAATATAATATTAAAG
* *
103931633 AATATACATAATAT-AT-TAAAAG
1 AATATAAATAATATAATATTAAAG
*
103931655 AATATATATAATATAATATT-AAG
1 AATATAAATAATATAATATTAAAG
103931678 AA-ATATAATAATA
1 AATATA-AATAATA
103931691 ACAAAAAAAA
Statistics
Matches: 84, Mismatches: 18, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
21 3 0.04
22 17 0.20
23 19 0.23
24 2 0.02
25 31 0.37
26 2 0.02
27 10 0.12
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (24 bp):
AATATAAATAATATAATATTAAAG
Found at i:103932208 original size:30 final size:30
Alignment explanation
Indices: 103932171--103932346 Score: 271
Period size: 30 Copynumber: 5.8 Consensus size: 30
103932161 TAGGTACAAG
* *
103932171 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
103932201 TAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
103932231 TGGTGGTGGACAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
103932261 TGGTGGTGGAAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGG-AAAAGGAGTGGCTAGTGGAGT
*
103932292 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
103932322 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
103932347 TGAGAAAAGT
Statistics
Matches: 131, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
30 104 0.79
31 27 0.21
ACGTcount: A:0.23, C:0.04, G:0.48, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:103932307 original size:61 final size:60
Alignment explanation
Indices: 103932171--103932346 Score: 307
Period size: 61 Copynumber: 2.9 Consensus size: 60
103932161 TAGGTACAAG
* *
103932171 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
*
103932231 TGGTGGTGGACAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGG-AAAAAGAGTGGCTAGTGGAGT
*
103932292 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
103932347 TGAGAAAAGT
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
60 52 0.47
61 59 0.53
ACGTcount: A:0.23, C:0.04, G:0.48, T:0.25
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:103933087 original size:14 final size:14
Alignment explanation
Indices: 103933054--103933087 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
103933044 ATAAATTGAA
*
103933054 AAAAAACAGAAATT
1 AAAAAGCAGAAATT
*
103933068 GAAAAGCAGAAATT
1 AAAAAGCAGAAATT
103933082 AAAAAG
1 AAAAAG
103933088 ACCTCAGCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.15, T:0.12
Consensus pattern (14 bp):
AAAAAGCAGAAATT
Found at i:103933135 original size:106 final size:106
Alignment explanation
Indices: 103932950--103933160 Score: 298
Period size: 106 Copynumber: 2.0 Consensus size: 106
103932940 TTGACTCTGT
* * * *
103932950 AAAACTAGACATTAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACAT
1 AAAACTAGAAATTAAAAACAGAAATTAAAAAGACCTCAGCACGTGAGCCAAGGCTCAACTCACAT
* * *
103933015 CTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAA
66 CTCGCAATATGAGTTAATTTTTGAAAAACAGAAATTGAAAA
* * * *
103933056 AAAAC-AGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACC
1 AAAACTAGAAATT-AAAAACAGAAATTAAAAAGACCTCAGCACGTGAGCCAAGGCTCAACTCACA
*
103933120 TCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAA
65 TCTCGCAATATGAGTTAATTTTTGAAAAACAGAAATTGAAA
103933161 TTACCTCAGC
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
105 6 0.07
106 86 0.93
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.22
Consensus pattern (106 bp):
AAAACTAGAAATTAAAAACAGAAATTAAAAAGACCTCAGCACGTGAGCCAAGGCTCAACTCACAT
CTCGCAATATGAGTTAATTTTTGAAAAACAGAAATTGAAAA
Found at i:103933201 original size:73 final size:73
Alignment explanation
Indices: 103933103--103933456 Score: 440
Period size: 73 Copynumber: 4.7 Consensus size: 73
103933093 AGCATGTGAG
103933103 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
103933168 AGCGTGTC
66 AGCGTGTC
* * * * * * *
103933176 CCGAGGCTCAACTCACCTTTTGCAATATGAGTTGATTTTTTGAAAAACATAAATTTAAAAATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTGACAAACAGAAA-TTGAAATTACC
*
103933241 TCAGCGTATC
64 TCAGCGTGTC
* * * * *
103933251 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTACGAACAGAAATTGAAGA-G
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A---ATTTTTGACAAACAGAAATTGAA-ATT
**
103933315 ACCTCAGCATGTGAG
61 ACCTCAGC--GTGTC
* * *
103933330 CCGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTTTAAAAAACAGAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
*
103933395 AGTGTGTC
66 AGCGTGTC
*
103933403 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATT
103933457 AAAAGGCTTA
Statistics
Matches: 238, Mismatches: 34, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
73 84 0.35
74 17 0.07
75 76 0.32
77 12 0.05
78 16 0.07
79 33 0.14
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (73 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
AGCGTGTC
Found at i:103933266 original size:75 final size:73
Alignment explanation
Indices: 103933066--103933460 Score: 418
Period size: 75 Copynumber: 5.3 Consensus size: 73
103933056 AAAACAGAAA
* * *
103933066 TTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTAAAAATACCTCAGC--GT-ATCCGAGGCTCAACTCACCTCTCGCAATAT
103933131 GAGTT-AATTT
63 GAGTTGAATTT
* * * * * *
103933141 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTTGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTAT-CCGAGGCTCAACTCACCTCTCGCAATATGA
*
103933206 GTTGATTTT
65 GTTGAATTT
*
103933215 TTGAAAAACATAAATTTAAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTAAAAATACCTCAGCGTATCC-GAGGCTCAACTCACCTCTCGCAATATG
*
103933280 AGTTGATTTTTTT
64 AGTTGA---ATTT
* ** * * * * *
103933293 TTTACGAACAGAAATTGAAGAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTAAAAATACCTCAGC--GT-ATCCGAGGCTCAACTCACCTCTCGCAATAT
103933358 GAGTT-AATTT
63 GAGTTGAATTT
* * * * *
103933368 TTAAAAAACAGAAATTGAAATTACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTAT-CCGAGGCTCAACTCACCTCTCGCAATATGA
103933433 GTTG-ATTT
65 GTTGAATTT
*
103933441 TTGACAAACAGAAATTAAAA
1 TTGAAAAACAGAAATTAAAA
103933461 GGCTTAACTC
Statistics
Matches: 268, Mismatches: 40, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
73 88 0.33
74 18 0.07
75 99 0.37
77 13 0.05
78 15 0.06
79 32 0.12
80 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (73 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTATCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGAATTT
Found at i:103933394 original size:152 final size:152
Alignment explanation
Indices: 103933069--103933456 Score: 451
Period size: 152 Copynumber: 2.6 Consensus size: 152
103933059 ACAGAAATTG
* * *
103933069 AAAAGCAGAAA-TTAAAAAGACCTCAGCATGTGA-GCCGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTTAAAAATACCTCAGC--GT-ATCCCGAGGCTCAACTCACCTCTCGCAATATG
* * * *
103933132 AGTT-A---ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACC
63 AGTTGATTTTTTTTTGACAAACAGAAATTGAAATGACCTCAGCGTGACCCGAGACTCAACTCACC
* * * *
103933193 TTTTGCAATATGAGTTGATTTTTTG
128 TCTCGCAATATGAGTTGAATTTTTA
* *
103933218 AAAAACATAAATTTAAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAATTTAAAAATACCTCAGCGTATCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
103933283 TGATTTTTTTTTTACGAACAGAAATTGAAGA-GACCTCAGCATGTGAGCCGAGACTCAACTCACC
66 TGATTTTTTTTTGACAAACAGAAATTGAA-ATGACCTCAGC--GTGACCCGAGACTCAACTCACC
103933347 TCTCGCAATATGAGTT-AATTTTTA
128 TCTCGCAATATGAGTTGAATTTTTA
* * * *
103933371 AAAAACAGAAA-TTGAAATTACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAATTTAAAAATACCTCAGCGTATCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
103933435 TGA----TTTTTGACAAACAGAAATT
66 TGATTTTTTTTTGACAAACAGAAATT
103933457 AAAAGGCTTA
Statistics
Matches: 206, Mismatches: 24, Indels: 19
0.83 0.10 0.08
Matches are distributed among these distances:
147 1 0.00
148 51 0.25
149 10 0.05
150 15 0.07
152 79 0.38
153 17 0.08
154 33 0.16
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (152 bp):
AAAAACAGAAATTTAAAAATACCTCAGCGTATCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTTTGACAAACAGAAATTGAAATGACCTCAGCGTGACCCGAGACTCAACTCACCTCT
CGCAATATGAGTTGAATTTTTA
Found at i:103933488 original size:54 final size:55
Alignment explanation
Indices: 103933406--103933513 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 55
103933396 GTGTGTCCCG
* * *
103933406 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA-AACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTGAAACAACAAAAATTAAA
* *
103933460 AGGCTTAACTCACTTCTCGCAACATGAGTTGATTTTTGAAACAACAAAAATTAA
1 AGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTGAAACAACAAAAATTAA
103933514 GAATACCTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
54 37 0.77
55 11 0.23
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (55 bp):
AGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTGAAACAACAAAAATTAAA
Found at i:103933567 original size:128 final size:127
Alignment explanation
Indices: 103933337--103933717 Score: 525
Period size: 128 Copynumber: 3.0 Consensus size: 127
103933327 GAGCCGAGAC
* * *
103933337 TCAACTCACCTCTCGCAATATGAGTTAATTTTTAAAAAACAGAAATTGAAATTACCTCAGTGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGT
* *
103933402 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTAAAAGGCT
66 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGG-T
* * * *
103933465 T-AACTCACTTCTCGCAACATGAGTTGATTTTTGAAACAACAAAAATT-AAGAATACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-AACAGAAATTGAA-ATTACCTCAGCGT
* * *
103933528 GACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTGAAAAAGTAGAAATTAAAAGGT
64 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-CAGAAATTAAAAGGT
* * * *
103933592 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGT
* *
103933657 CCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTTAAAA
66 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAA-TTAAAA
103933718 ATACCTCAGC
Statistics
Matches: 220, Mismatches: 25, Indels: 15
0.85 0.10 0.06
Matches are distributed among these distances:
127 99 0.45
128 105 0.48
129 16 0.07
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.29
Consensus pattern (127 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGT
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
Found at i:103933687 original size:73 final size:74
Alignment explanation
Indices: 103933592--103933769 Score: 259
Period size: 75 Copynumber: 2.4 Consensus size: 74
103933582 ATTAAAAGGT
* * * * * *
103933592 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAA-TTGAAATTACCTCATCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAAAACAAAAATTTAAAAATACCTCAGCGTG
103933656 TCCTGAGGC
66 TCCTGAGGC
* *
103933665 TCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTTAAAAATACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTCTTGAAAAACAAAAATTTAAAAATACCTCAGCGT
*
103933730 GTCTTGAGGC
65 GTCCTGAGGC
103933740 TCAACTCACCTCTCGCAATATGAGTTGATT
1 TCAACTCACCTCTCGCAATATGAGTTGATT
103933770 TTTTTTTACG
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
73 26 0.28
74 16 0.17
75 51 0.55
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (74 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAAAACAAAAATTTAAAAATACCTCAGCGTG
TCCTGAGGC
Found at i:103933742 original size:75 final size:74
Alignment explanation
Indices: 103933592--103934158 Score: 551
Period size: 73 Copynumber: 7.5 Consensus size: 74
103933582 ATTAAAAGGT
* * * *
103933592 TCAACCCACCTCTCGCAATATGAGTTGA-TTCTTGACAAACAGAAATTGAAATTACCTCATCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTG
*
103933656 TCCTGAGGC
66 TCTTGAGGC
* * * *
103933665 TCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTTAAAAATACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAA-TTGAAAATACCTCAGCGT
103933730 GTCTTGAGGC
65 GTCTTGAGGC
* * * **
103933740 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGAAATTG
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGACAAACAGAAATTG-A-AA-A-TACCT-
* *
103933805 AAAAGACCTCAG-CATGTGA-GC
59 --CAG-CGT--GTC-T-TGAGGC
* * *
103933826 -CGAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTGACAAACAGAAATTGAAATTACCT
1 TC-A-ACTC-----ACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAATACCT
**
103933889 CAGCGTGTCCCGAGGC
59 CAGCGTGTCTTGAGGC
* * *
103933905 TCAACTCACCTTTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAA-TTGAAAATACCTCAGCGT
*
103933969 GTCCTGAGGC
65 GTCTTGAGGC
* * *
103933979 TCAACTCACCTCTCACAATATGAGTTGA-TTTTTGACAAACAAAAATTGAAATTACCTCAGC--G
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTG
*
103934041 TCTTGAGGT
66 TCTTGAGGC
* *
103934050 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACG
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGACAA-ACAGAAATTGAAAATACCTCAGCG
103934114 TGTCTTGAGGC
64 TGTCTTGAGGC
*
103934125 TCAACTCACTTCTCGCAATATGAGTTGATTTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
103934159 TTTGAAACAT
Statistics
Matches: 407, Mismatches: 54, Indels: 65
0.77 0.10 0.12
Matches are distributed among these distances:
71 34 0.08
72 2 0.00
73 101 0.25
74 87 0.21
75 86 0.21
76 2 0.00
77 15 0.04
78 7 0.02
79 5 0.01
80 4 0.01
81 2 0.00
82 2 0.00
83 2 0.00
84 2 0.00
85 4 0.01
86 5 0.01
87 8 0.02
88 1 0.00
89 18 0.04
91 1 0.00
92 19 0.05
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (74 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTG
TCTTGAGGC
Found at i:103933798 original size:14 final size:14
Alignment explanation
Indices: 103933779--103933806 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
103933769 TTTTTTTTAC
103933779 GAACAGAAATTGAA
1 GAACAGAAATTGAA
103933793 GAACAGAAATTGAA
1 GAACAGAAATTGAA
103933807 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:103934004 original size:147 final size:145
Alignment explanation
Indices: 103933788--103934157 Score: 519
Period size: 147 Copynumber: 2.5 Consensus size: 145
103933778 CGAACAGAAA
* * *
103933788 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATA
* * *
103933852 TGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTT
63 TGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC--GTCCCGAGGCTCAACTCACCTC
*
103933917 TCGCAATATGAGTTGA-TTT
126 TCGCAATATGAGCTGATTTT
* *
103933936 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATG
1 TTGAAAAACAGAAA-TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
** *
103934001 AGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGC
65 AGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGC
103934066 AATATGAGCTGATTTTT
130 AATATGAGCTGA-TTTT
* * * *
103934083 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
103934148 GTTGATTTTT
66 GTTGATTTTT
103934158 TTTTGAAACA
Statistics
Matches: 200, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
145 33 0.17
146 58 0.29
147 82 0.41
148 13 0.06
149 14 0.07
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (145 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCA
ATATGAGCTGATTTT
Found at i:103934293 original size:99 final size:99
Alignment explanation
Indices: 103934176--103934392 Score: 330
Period size: 99 Copynumber: 2.2 Consensus size: 99
103934166 CATAAATTAA
*
103934176 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
103934240 TGA-TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTGAAAAACAGAAATT-AAAAGCAAAAATTG
103934275 AAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
103934340 GATTTTTGAAAAACAGAAATTAAAAGCAGAAATTG
66 GA-TTTTGAAAAACAGAAATTAAAAGCAAAAATTG
*
103934375 AAAAGCAGAAATTGAAAA
1 AAAAACAGAAATTGAAAA
103934393 ACAGAAATTA
Statistics
Matches: 108, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
99 64 0.59
100 29 0.27
101 15 0.14
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (99 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTGAAAAACAGAAATTAAAAGCAAAAATTG
Found at i:103934380 original size:14 final size:14
Alignment explanation
Indices: 103934345--103934406 Score: 92
Period size: 14 Copynumber: 4.6 Consensus size: 14
103934335 GAGTTGATTT
103934345 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
103934359 TT-AAAAGCAGAAA
1 TTGAAAAACAGAAA
*
103934372 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
103934386 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
103934400 TT-AAAAA
1 TTGAAAAA
103934407 TACCTCGGCG
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
13 17 0.38
14 28 0.62
ACGTcount: A:0.63, C:0.06, G:0.15, T:0.16
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:103934383 original size:27 final size:28
Alignment explanation
Indices: 103934345--103934406 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
103934335 GAGTTGATTT
*
103934345 TTGAAAAACAGAAATT-AAAAGCAGAAA
1 TTGAAAAACAGAAATTGAAAAACAGAAA
*
103934372 TTGAAAAGCAGAAATTGAAAAACAGAAA
1 TTGAAAAACAGAAATTGAAAAACAGAAA
103934400 TT-AAAAA
1 TTGAAAAA
103934407 TACCTCGGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 19 0.61
28 12 0.39
ACGTcount: A:0.63, C:0.06, G:0.15, T:0.16
Consensus pattern (28 bp):
TTGAAAAACAGAAATTGAAAAACAGAAA
Found at i:103934447 original size:114 final size:114
Alignment explanation
Indices: 103934247--103934474 Score: 339
Period size: 114 Copynumber: 2.0 Consensus size: 114
103934237 AGTTGATTTG
* * * * * *
103934247 AAAAGCAGAATTTGTAAGGCAAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAG
1 AAAAGCAGAAATTGAAAAGCAAAAATTGAAAAACAGAAATTAAAAATACCTCAGCGTACCCCGAG
*
103934312 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
66 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATT
* * *
103934361 AAAAGCAGAAATTGAAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAG
1 AAAAGCAGAAATTGAAAAGCAAAAATTGAAAAACAGAAATTAAAAATACCTCAGCGTACCCCGAG
* * *
103934426 GCTCAGCTCACCTCTCACAATATGAGTTGATTTTTGAAAAGCATAAATT
66 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATT
103934475 GAAATTACCT
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (114 bp):
AAAAGCAGAAATTGAAAAGCAAAAATTGAAAAACAGAAATTAAAAATACCTCAGCGTACCCCGAG
GCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATT
Found at i:103934509 original size:73 final size:74
Alignment explanation
Indices: 103934386--103934554 Score: 223
Period size: 73 Copynumber: 2.3 Consensus size: 74
103934376 AAAGCAGAAA
* * * * *
103934386 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCACAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
103934451 GTTGA-TTT
66 GTTGATTTT
* * ** * *
103934459 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGG
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
103934524 GTTGATTTTT
66 GTTGA-TTTT
103934534 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
103934555 AAAAGGAAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
73 59 0.72
75 23 0.28
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
GTTGATTTT
Found at i:103956715 original size:14 final size:14
Alignment explanation
Indices: 103956696--103956726 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
103956686 CTATTTGAAC
103956696 CTTTCTTAACCTTT
1 CTTTCTTAACCTTT
103956710 CTTTCTTAACCTTT
1 CTTTCTTAACCTTT
103956724 CTT
1 CTT
103956727 CAACTATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.29, G:0.00, T:0.58
Consensus pattern (14 bp):
CTTTCTTAACCTTT
Found at i:103961119 original size:18 final size:18
Alignment explanation
Indices: 103961098--103961132 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
103961088 TTTTTCTTTT
103961098 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
103961116 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
103961133 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:103965132 original size:30 final size:30
Alignment explanation
Indices: 103965098--103965194 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
103965088 TAAACTAAAA
*
103965098 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
103965128 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
103965158 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
103965187 ATGAGCTA
1 -TGAGCTA
103965195 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:103967069 original size:12 final size:12
Alignment explanation
Indices: 103967054--103967084 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
103967044 TTCTTTTTGC
103967054 TTTTCAAAGGCT
1 TTTTCAAAGGCT
103967066 TTTTCAAAGGCT
1 TTTTCAAAGGCT
103967078 TTTTCAA
1 TTTTCAA
103967085 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:103967155 original size:6 final size:6
Alignment explanation
Indices: 103967144--103967193 Score: 59
Period size: 6 Copynumber: 8.2 Consensus size: 6
103967134 TTTCTTTTTA
103967144 TTTCTT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
103967193 T
1 T
103967194 GTTTTCTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 10 0.25
6 21 0.52
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTCTT
Found at i:103967163 original size:15 final size:15
Alignment explanation
Indices: 103967130--103967176 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
103967120 GCCTCTTGCC
*
103967130 TCTCTTTCTTTTTATT
1 TCTCTTTCTTTTT-CT
*
103967146 TCTTTTTCTTTTTCT
1 TCTCTTTCTTTTTCT
*
103967161 TCTCTTGCTTTTTCT
1 TCTCTTTCTTTTTCT
103967176 T
1 T
103967177 TTTCTTTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.74
Consensus pattern (15 bp):
TCTCTTTCTTTTTCT
Found at i:103967165 original size:31 final size:32
Alignment explanation
Indices: 103967130--103967189 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
103967120 GCCTCTTGCC
*
103967130 TCTCTTTCTTTTTATTTCT-TTTTCTTTTTCT
1 TCTCTTGCTTTTTATTTCTCTTTTCTTTTTCT
* *
103967161 TCTCTTGCTTTTTCTTTTTCTTTTCTTTT
1 TCTCTTGCTTTTTATTTCTCTTTTCTTTT
103967190 CTTTGTTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.77
Consensus pattern (32 bp):
TCTCTTGCTTTTTATTTCTCTTTTCTTTTTCT
Found at i:103967173 original size:21 final size:21
Alignment explanation
Indices: 103967147--103967187 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
103967137 CTTTTTATTT
103967147 CTTTTTCTTTTTCTTCTCTTG
1 CTTTTTCTTTTTCTTCTCTTG
*
103967168 CTTTTTCTTTTTCTTTTCTT
1 CTTTTTCTTTTTCTTCTCTT
103967188 TTCTTTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (21 bp):
CTTTTTCTTTTTCTTCTCTTG
Found at i:103967204 original size:16 final size:16
Alignment explanation
Indices: 103967129--103967189 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
103967119 TGCCTCTTGC
*
103967129 CTCTCTTTCTTTTTATT
1 CTCT-TTTCTTTTTCTT
103967146 -TCTTTTTCTTTTTCTT
1 CTC-TTTTCTTTTTCTT
*
103967162 CTC-TTGCTTTTTCTTT
1 CTCTTTTCTTTTTC-TT
*
103967178 TTCTTTTCTTTT
1 CTCTTTTCTTTT
103967190 CTTTGTTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
15 9 0.25
16 17 0.47
17 10 0.28
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (16 bp):
CTCTTTTCTTTTTCTT
Found at i:103970768 original size:33 final size:33
Alignment explanation
Indices: 103970730--103970792 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
103970720 GATTACTCAC
103970730 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
103970763 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
103970793 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:103970816 original size:6 final size:6
Alignment explanation
Indices: 103970807--103970914 Score: 67
Period size: 6 Copynumber: 17.7 Consensus size: 6
103970797 TCTTTTTTCG
* * * **
103970807 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * **
103970858 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT -TGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CT-TTTT CTTTTT
*
103970906 -GTTTT CTTT
1 CTTTTT CTTT
103970915 CAATTTATTT
Statistics
Matches: 74, Mismatches: 23, Indels: 10
0.69 0.21 0.09
Matches are distributed among these distances:
5 5 0.07
6 56 0.76
7 10 0.14
8 3 0.04
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (6 bp):
CTTTTT
Found at i:103970819 original size:21 final size:21
Alignment explanation
Indices: 103970790--103970845 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
103970780 CAAGCTCTCT
*
103970790 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
103970811 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
103970832 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
103970846 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:103970838 original size:14 final size:14
Alignment explanation
Indices: 103970789--103970845 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
103970779 TCAAGCTCTC
103970789 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
103970802 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
103970816 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
103970830 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
103970844 TT
1 TT
103970846 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:103970899 original size:12 final size:12
Alignment explanation
Indices: 103970884--103970914 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
103970874 TGCAATTTCT
103970884 TTTTCTTTTTTG
1 TTTTCTTTTTTG
103970896 TTTTC-TTTTTG
1 TTTTCTTTTTTG
103970907 TTTTCTTT
1 TTTTCTTT
103970915 CAATTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (12 bp):
TTTTCTTTTTTG
Found at i:103972058 original size:10 final size:11
Alignment explanation
Indices: 103972032--103972064 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
103972022 TTTTCAATCA
103972032 AATTTTTTTTCG
1 AATTTTTTTT-G
103972044 AATTTTTTTTG
1 AATTTTTTTTG
103972055 -ATTTTTTTTG
1 AATTTTTTTTG
103972065 TTACTCCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 1 0.05
12 10 0.48
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.73
Consensus pattern (11 bp):
AATTTTTTTTG
Found at i:103974259 original size:12 final size:11
Alignment explanation
Indices: 103974231--103974258 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
103974221 AAAAAAAAAA
103974231 TTTTTTGAATT
1 TTTTTTGAATT
103974242 TTTTTTGAATT
1 TTTTTTGAATT
103974253 TTTTTT
1 TTTTTT
103974259 TCAAATTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (11 bp):
TTTTTTGAATT
Found at i:103975999 original size:30 final size:30
Alignment explanation
Indices: 103975965--103976061 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
103975955 TAAACTAAAA
*
103975965 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
103975995 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
103976025 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
103976054 ATGAGCTA
1 -TGAGCTA
103976062 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:103978625 original size:24 final size:24
Alignment explanation
Indices: 103978598--103978653 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
103978588 TCTTCTCACA
*
103978598 TTCTTTTTCGC-TCTCGATCTCTTT
1 TTCTTTTTC-CTTCTCGATCTCTAT
**
103978622 TTCTTTTTCCTTCTCTTTCTCTAT
1 TTCTTTTTCCTTCTCGATCTCTAT
103978646 TTCTTTTT
1 TTCTTTTT
103978654 TTCTTTCACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.04, C:0.27, G:0.04, T:0.66
Consensus pattern (24 bp):
TTCTTTTTCCTTCTCGATCTCTAT
Found at i:103981422 original size:20 final size:21
Alignment explanation
Indices: 103981399--103981444 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
103981389 AGCTCCAACC
*
103981399 AGCTCACTTGATCTTG-TTTT
1 AGCTCACTTGAGCTTGATTTT
**
103981419 AGCTCGTTTGAGCTTGATTTT
1 AGCTCACTTGAGCTTGATTTT
103981440 AGCTC
1 AGCTC
103981445 GTTTCAGCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (21 bp):
AGCTCACTTGAGCTTGATTTT
Found at i:103981441 original size:21 final size:20
Alignment explanation
Indices: 103981406--103981453 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
103981396 ACCAGCTCAC
*
103981406 TTGATCTTGTTTTAGCTCGT
1 TTGAGCTTGTTTTAGCTCGT
103981426 TTGAGCTTGATTTTAGCTCGT
1 TTGAGCTTG-TTTTAGCTCGT
*
103981447 TTCAGCT
1 TTGAGCT
103981454 CATTTCATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.50
Consensus pattern (20 bp):
TTGAGCTTGTTTTAGCTCGT
Found at i:103982013 original size:20 final size:20
Alignment explanation
Indices: 103981967--103982013 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
103981957 AGCTTGTTTC
*
103981967 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
103981987 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
103982007 CAGCTCA
1 CAGCTCA
103982014 ATCTTAACCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:103983600 original size:31 final size:31
Alignment explanation
Indices: 103983519--103983602 Score: 78
Period size: 32 Copynumber: 2.6 Consensus size: 31
103983509 AATCGAAATT
* ** ** *
103983519 CAAAAAAAAATTCGAAAAAAAAAAGAAGTGAG
1 CAAAAAAAAAGT-GAAAAGTAAAAGAAAAGAA
**
103983551 CAAAAAAAAAGAAAAAAAGTAAAAGAAAAGAA
1 CAAAAAAAAAG-TGAAAAGTAAAAGAAAAGAA
103983583 CAAAAAAAAAGTGAAAAGTA
1 CAAAAAAAAAGTGAAAAGTA
103983603 TTGCGAGTTT
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
31 7 0.17
32 34 0.83
ACGTcount: A:0.74, C:0.05, G:0.14, T:0.07
Consensus pattern (31 bp):
CAAAAAAAAAGTGAAAAGTAAAAGAAAAGAA
Found at i:103984696 original size:48 final size:47
Alignment explanation
Indices: 103984617--103984722 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
103984607 GAGTGTCATG
*
103984617 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
103984665 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
103984713 GAAAAAGAAA
1 GAAAAAGAAA
103984723 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:103987998 original size:20 final size:20
Alignment explanation
Indices: 103987952--103987998 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
103987942 AGCTTGTTTC
*
103987952 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
103987972 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
103987992 CAGCTCA
1 CAGCTCA
103987999 ATCTTAACCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:103990132 original size:20 final size:19
Alignment explanation
Indices: 103990107--103990146 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
103990097 CTTATCACTA
*
103990107 CCCTTTACATTTCTTTGAAC
1 CCCTTT-CATTTATTTGAAC
*
103990127 CCCTTTCGTTTATTTGAAC
1 CCCTTTCATTTATTTGAAC
103990146 C
1 C
103990147 TATCCATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (19 bp):
CCCTTTCATTTATTTGAAC
Found at i:103990947 original size:27 final size:26
Alignment explanation
Indices: 103990896--103990948 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
103990886 ATGCATTCAG
*
103990896 CTAGGACACATTAAAACAAGTAATAA
1 CTAGGACACATTAAAACAAATAATAA
* *
103990922 CTAGGACATATTGAACACAAATAATAA
1 CTAGGACACATT-AAAACAAATAATAA
103990949 ATTAAGACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.53, C:0.15, G:0.11, T:0.21
Consensus pattern (26 bp):
CTAGGACACATTAAAACAAATAATAA
Found at i:103994939 original size:14 final size:14
Alignment explanation
Indices: 103994916--103994959 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
103994906 TTGTTCATAT
*
103994916 CCTTTTATTCCTAC
1 CCTTTCATTCCTAC
103994930 CCTTTCATTCCTAC
1 CCTTTCATTCCTAC
* * *
103994944 CATTCCATTCGTAC
1 CCTTTCATTCCTAC
103994958 CC
1 CC
103994960 CTCTTTCTAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.16, C:0.41, G:0.02, T:0.41
Consensus pattern (14 bp):
CCTTTCATTCCTAC
Found at i:104000577 original size:19 final size:19
Alignment explanation
Indices: 104000553--104000592 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
104000543 AGCTCCCATG
104000553 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
104000572 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
104000591 TA
1 TA
104000593 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:104006670 original size:14 final size:14
Alignment explanation
Indices: 104006647--104006690 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
104006637 TTGTTCATAT
*
104006647 CCTTTTATTCCTAC
1 CCTTTCATTCCTAC
104006661 CCTTTCATTCCTAC
1 CCTTTCATTCCTAC
* * *
104006675 CATTCCATTCGTAC
1 CCTTTCATTCCTAC
104006689 CC
1 CC
104006691 CTCTTTCTAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.16, C:0.41, G:0.02, T:0.41
Consensus pattern (14 bp):
CCTTTCATTCCTAC
Found at i:104008351 original size:14 final size:14
Alignment explanation
Indices: 104008332--104008379 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
104008322 CAATCCATTG
104008332 AAAGAGAAAAAGAA
1 AAAGAGAAAAAGAA
* *
104008346 AAAGAGCAAAATAA
1 AAAGAGAAAAAGAA
104008360 AAAGA-ATGAAAAGAA
1 AAAGAGA--AAAAGAA
104008375 AAAGA
1 AAAGA
104008380 ATGGAAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (14 bp):
AAAGAGAAAAAGAA
Found at i:104008371 original size:15 final size:16
Alignment explanation
Indices: 104008339--104008387 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
104008329 TTGAAAGAGA
*
104008339 AAAAGAAAAAG-A-GC
1 AAAAGAAAAAGAATGG
*
104008353 AAAATAAAAAGAAT-G
1 AAAAGAAAAAGAATGG
104008368 AAAAGAAAAAGAATGG
1 AAAAGAAAAAGAATGG
104008384 AAAA
1 AAAA
104008388 AGTGAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 10 0.34
15 14 0.48
16 5 0.17
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.06
Consensus pattern (16 bp):
AAAAGAAAAAGAATGG
Found at i:104016761 original size:14 final size:14
Alignment explanation
Indices: 104016714--104016761 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
104016704 GTACGAATGG
*
104016714 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
104016728 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
104016742 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
104016756 ATTGGT
1 AATGGT
104016762 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:104020798 original size:10 final size:10
Alignment explanation
Indices: 104020785--104020819 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
104020775 AAGCTCGGTT
104020785 GAGCTCAAAC
1 GAGCTCAAAC
* *
104020795 GAGCTGAAAT
1 GAGCTCAAAC
104020805 GAGCTCAAAC
1 GAGCTCAAAC
104020815 GAGCT
1 GAGCT
104020820 GAATTGATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:104020807 original size:20 final size:20
Alignment explanation
Indices: 104020784--104020822 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
104020774 TAAGCTCGGT
104020784 TGAGCTCAAACGAGCTGAAA
1 TGAGCTCAAACGAGCTGAAA
104020804 TGAGCTCAAACGAGCTGAA
1 TGAGCTCAAACGAGCTGAA
104020823 TTGATGATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTGAAA
Found at i:104024231 original size:10 final size:11
Alignment explanation
Indices: 104024180--104024232 Score: 70
Period size: 11 Copynumber: 4.6 Consensus size: 11
104024170 ACGGTATTGT
**
104024180 AAAAAAATAAA
1 AAAAAAATTCA
104024191 AAAAAAACTTCAA
1 AAAAAAA-TTC-A
104024204 AAAAAAATTCA
1 AAAAAAATTCA
104024215 AAAAAAATTCA
1 AAAAAAATTCA
104024226 AAAAAAA
1 AAAAAAA
104024233 GTTTGTATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
11 26 0.68
12 4 0.11
13 8 0.21
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:104024317 original size:29 final size:31
Alignment explanation
Indices: 104024277--104024344 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 31
104024267 GTATTGAAGG
* *
104024277 AAAAAAAGAAG-AAAAAAATTCGGAATT-AA
1 AAAAAAAGAAGAAAAAAAAATCGAAATTGAA
104024306 AAAAAAAGAAGAAAAAAAAATCGAAATTGAA
1 AAAAAAAGAAGAAAAAAAAATCGAAATTGAA
104024337 AAAAAAAG
1 AAAAAAAG
104024345 TGATTGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 11 0.31
30 14 0.40
31 10 0.29
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (31 bp):
AAAAAAAGAAGAAAAAAAAATCGAAATTGAA
Found at i:104025215 original size:15 final size:16
Alignment explanation
Indices: 104025195--104025226 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
104025185 AGAAAATGAA
104025195 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
104025210 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
104025226 A
1 A
104025227 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:104025359 original size:21 final size:18
Alignment explanation
Indices: 104025335--104025379 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
104025325 ATGAGAGTAC
104025335 AAAAGAAATGAGTGATGTGA
1 AAAAGAAA-GAG-GATGTGA
*
104025355 TAAAAGAAAGAGGATTTGA
1 -AAAAGAAAGAGGATGTGA
104025374 AAAAGA
1 AAAAGA
104025380 GTTTGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 6 0.26
20 3 0.13
21 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.18
Consensus pattern (18 bp):
AAAAGAAAGAGGATGTGA
Found at i:104028602 original size:32 final size:30
Alignment explanation
Indices: 104028536--104028607 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 30
104028526 GTATTGAAGG
104028536 AAAAAAAAGAAGAAAAAAAATTCAGAAATTA
1 AAAAAAAAGAAGAAAAAAAATT-AGAAATTA
*
104028567 AAAAAAGAAGAAGAAAAAAAATT-GAAATTGG
1 AAAAAA-AAGAAGAAAAAAAATTAGAAATT-A
104028598 AAAAAAAAGA
1 AAAAAAAAGA
104028608 GTGATTGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
30 10 0.26
31 12 0.32
32 16 0.42
ACGTcount: A:0.74, C:0.01, G:0.14, T:0.11
Consensus pattern (30 bp):
AAAAAAAAGAAGAAAAAAAATTAGAAATTA
Found at i:104029479 original size:15 final size:16
Alignment explanation
Indices: 104029459--104029490 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
104029449 AGAAAATGAA
104029459 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
104029474 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
104029490 A
1 A
104029491 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:104029623 original size:21 final size:18
Alignment explanation
Indices: 104029599--104029643 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
104029589 ATGAGAGTAC
104029599 AAAAGAAATGAGTGATGTGA
1 AAAAGAAA-GAG-GATGTGA
*
104029619 TAAAAGAAAGAGGATTTGA
1 -AAAAGAAAGAGGATGTGA
104029638 AAAAGA
1 AAAAGA
104029644 GTTTGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 6 0.26
20 3 0.13
21 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.18
Consensus pattern (18 bp):
AAAAGAAAGAGGATGTGA
Found at i:104033052 original size:10 final size:10
Alignment explanation
Indices: 104033039--104033084 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
104033029 AGCTCACTTG
104033039 AGCTCGTTTT
1 AGCTCGTTTT
*
104033049 AGCTCGTTTG
1 AGCTCGTTTT
*
104033059 AGCTCGAATTT
1 AGCTCG-TTTT
*
104033070 AGCTCGTTTC
1 AGCTCGTTTT
104033080 AGCTC
1 AGCTC
104033085 ATTCCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (10 bp):
AGCTCGTTTT
Found at i:104033072 original size:21 final size:20
Alignment explanation
Indices: 104033036--104033084 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
104033026 ATCAGCTCAC
*
104033036 TTGAGCTCGTTTTAGCTCGT
1 TTGAGCTCGATTTAGCTCGT
104033056 TTGAGCTCGAATTTAGCTCGT
1 TTGAGCTCG-ATTTAGCTCGT
*
104033077 TTCAGCTC
1 TTGAGCTC
104033085 ATTCCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.41
Consensus pattern (20 bp):
TTGAGCTCGATTTAGCTCGT
Found at i:104033328 original size:13 final size:13
Alignment explanation
Indices: 104033310--104033338 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
104033300 AATAGTTGTG
104033310 TGTTATTTAATTA
1 TGTTATTTAATTA
104033323 TGTTATTTAATTA
1 TGTTATTTAATTA
104033336 TGT
1 TGT
104033339 AGGTTAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:104037997 original size:40 final size:40
Alignment explanation
Indices: 104037952--104038299 Score: 608
Period size: 40 Copynumber: 8.7 Consensus size: 40
104037942 GCAAACACAT
*
104037952 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
104037992 TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
104038032 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
104038072 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
104038112 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
104038152 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
104038192 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
104038232 TTGCCTTC-GGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
104038271 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCTTAGCCCGGATATATC
104038300 CCAATGCTCA
Statistics
Matches: 302, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
39 39 0.13
40 263 0.87
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:104046742 original size:39 final size:40
Alignment explanation
Indices: 104046647--104046966 Score: 535
Period size: 40 Copynumber: 8.2 Consensus size: 40
104046637 GCAAACACAT
*
104046647 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
104046687 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
104046727 -TGCCTTCGGGTCTTAGCCCGGA-ATAT-ATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
104046764 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
104046804 TTGCCTTC-GGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
104046843 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
104046883 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
104046923 TTGCCTTCGGGTC-TAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
104046962 -TGCCT
1 TTGCCT
104046967 CGGTAGCCGG
Statistics
Matches: 272, Mismatches: 4, Indels: 10
0.95 0.01 0.03
Matches are distributed among these distances:
37 11 0.04
38 31 0.11
39 89 0.33
40 141 0.52
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:104046881 original size:79 final size:80
Alignment explanation
Indices: 104046647--104046966 Score: 535
Period size: 79 Copynumber: 4.1 Consensus size: 80
104046637 GCAAACACAT
* *
104046647 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
*
104046712 TATCATCTCGCATAA
66 TATCAACTCGCATAA
* *
104046727 -TGCCTTCGGGTCTTAGCCCGGA-ATAT-ATCTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
*
104046789 TATCATCTCGCATAA
66 TATCAACTCGCATAA
*
104046804 TTGCCTTC-GGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGATA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
104046868 TATCAACTCGCATAA
66 TATCAACTCGCATAA
104046883 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTC-TAGCCCGGATA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
104046947 TATCAACTCGCATAA
66 TATCAACTCGCATAA
104046962 -TGCCT
1 TTGCCT
104046967 CGGTAGCCGG
Statistics
Matches: 231, Mismatches: 5, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
77 63 0.27
78 20 0.09
79 104 0.45
80 44 0.19
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (80 bp):
TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATCAACTCGCATAA
Found at i:104059289 original size:74 final size:72
Alignment explanation
Indices: 104059127--104059367 Score: 265
Period size: 81 Copynumber: 3.2 Consensus size: 72
104059117 NNNNNNNNNN
* *
104059127 CAATATGAGTTGA--TTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAATCA
1 CAATATGAGTTGATTTTTTTGACAAACAAAAATTGAAAATACCTCAGCGTCTTGAGGCTCAATCA
104059190 CCTCTCG
66 CCTCTCG
* * *
104059197 CAATATGAGTTGATTTTTTTGA-AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAAC
1 CAATATGAGTTGATTTTTTTGACAAACAAAAATTGAAAATACCTC-A-GCGTCTTGAGGCTCAA-
*
104059261 TCACTTCTCG
63 TCACCTCTCG
* *
104059271 CAATATGAG-TGATTTTTTTGAACAAATTAAAAACGAAATTGAAAATACCTCAGCGTGTCCTGAG
1 CAATATGAGTTGATTTTTTTG-AC--A--AACAA--AAATTGAAAATACCTCAGC--GTCTTGAG
104059335 GCTCAACTCACCTCTCG
57 GCTCAA-TCACCTCTCG
104059352 CAATATGAGTTGATTT
1 CAATATGAGTTGATTT
104059368 GAAAAGAGAT
Statistics
Matches: 143, Mismatches: 12, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
70 13 0.09
71 19 0.13
72 8 0.06
73 25 0.17
74 19 0.13
77 1 0.01
79 3 0.02
80 1 0.01
81 48 0.34
82 6 0.04
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (72 bp):
CAATATGAGTTGATTTTTTTGACAAACAAAAATTGAAAATACCTCAGCGTCTTGAGGCTCAATCA
CCTCTCG
Found at i:104059414 original size:96 final size:96
Alignment explanation
Indices: 104059294--104059506 Score: 335
Period size: 96 Copynumber: 2.2 Consensus size: 96
104059284 TTTTTTGAAC
*
104059294 AAATT-AAAAAC-GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
1 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATA
* * *
104059357 TGAGTTGA-TTTGAAAAGAGATTTTAAGGCAA
66 TGAGTTGATTTTGAAAACAGA-ATTAAAGCAA
104059388 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATA
1 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATA
*
104059453 TGAGTTGATTTTGAAAACAGAATTAAAGCAG
66 TGAGTTGATTTTGAAAACAGAATTAAAGCAA
*
104059484 AAATTG-AAAGCAGAAATTGAAAA
1 AAATTGAAAAACAGAAATTGAAAA
104059507 ACAGAAATTA
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
94 5 0.05
95 22 0.20
96 72 0.65
97 11 0.10
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (96 bp):
AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTGAAAACAGAATTAAAGCAA
Found at i:104059495 original size:13 final size:13
Alignment explanation
Indices: 104059463--104059519 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
104059453 TGAGTTGATT
104059463 TTGAAAACAG-AA
1 TTGAAAACAGAAA
*
104059475 TT-AAAGCAGAAA
1 TTGAAAACAGAAA
*
104059487 TTGAAAGCAGAAA
1 TTGAAAACAGAAA
104059500 TTGAAAAACAGAAA
1 TTG-AAAACAGAAA
104059514 TT-AAAA
1 TTGAAAA
104059520 TACCTCGGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
11 6 0.15
12 10 0.25
13 13 0.32
14 11 0.28
ACGTcount: A:0.60, C:0.07, G:0.16, T:0.18
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:104067971 original size:12 final size:12
Alignment explanation
Indices: 104067951--104067986 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
104067941 TGGGATATGC
*
104067951 AATGTATGAATG
1 AATGCATGAATG
104067963 AATGCATGAATG
1 AATGCATGAATG
104067975 AATGCATGAATG
1 AATGCATGAATG
104067987 TCAAAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:104069580 original size:16 final size:15
Alignment explanation
Indices: 104069559--104069606 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
104069549 GATGGGAATA
104069559 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
104069575 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
104069590 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
104069606 A
1 A
104069607 ATAATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:104069589 original size:8 final size:8
Alignment explanation
Indices: 104069555--104069606 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
104069545 CAATGATGGG
*
104069555 AATAATAA
1 AATATTAA
104069563 AATATATAA
1 AATAT-TAA
104069572 AATA-TAA
1 AATATTAA
104069579 AATATTAA
1 AATATTAA
*
104069587 AATATCAA
1 AATATTAA
*
104069595 AATATTAG
1 AATATTAA
104069603 AATA
1 AATA
104069607 ATAATTAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:104069606 original size:24 final size:24
Alignment explanation
Indices: 104069554--104069610 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
104069544 ACAATGATGG
*
104069554 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
104069578 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
104069602 GAATAATAA
1 GAATAATAA
104069611 TTAATATTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:104069767 original size:23 final size:22
Alignment explanation
Indices: 104069716--104069769 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
104069706 ATACTACATC
104069716 AATATGTACATAT-ATA--AAA
1 AATATGTACATATAATATTAAA
**
104069735 AATAAATACATGATAATATTAAA
1 AATATGTACAT-ATAATATTAAA
104069758 AATATGTACATA
1 AATATGTACATA
104069770 ATATAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 3 0.11
22 1 0.04
23 12 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (22 bp):
AATATGTACATATAATATTAAA
Found at i:104069816 original size:22 final size:24
Alignment explanation
Indices: 104069732--104069817 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 24
104069722 TACATATATA
* *
104069732 AAAAATAAATACATGATAATA--TT
1 AAAAATATATACATAAT-ATAGGTT
*
104069755 AAAAATATGTACATAATATAGTGTT
1 AAAAATATATACATAATATAG-GTT
*
104069780 AAAAATACATACATAATATA-GTT
1 AAAAATATATACATAATATAGGTT
*
104069803 -AAGATATATACATAA
1 AAAAATATATACATAA
104069818 GATAACATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 17 0.32
25 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAGGTT
Found at i:104069866 original size:25 final size:25
Alignment explanation
Indices: 104069838--104069971 Score: 91
Period size: 25 Copynumber: 5.5 Consensus size: 25
104069828 AGAAAAAAAA
104069838 ATATAAATAATATAATATTAAAGAT
1 ATATAAATAATATAATATTAAAGAT
* * * *
104069863 ATATAAATAAAATAGTATAAAATAT
1 ATATAAATAATATAATATTAAAGAT
* * *
104069888 ATATATACGTAATATAAAATTTAA-A-
1 ATATA-A-ATAATATAATATTAAAGAT
** *
104069913 ATATACCTAATAT-AT-TAAAAGAAT
1 ATATAAATAATATAATATTAAAG-AT
* *
104069937 ATATATATAATATAATATT-AAGAA
1 ATATAAATAATATAATATTAAAGAT
104069961 ATAT-AATAATA
1 ATATAAATAATA
104069972 ACAAAAAAAA
Statistics
Matches: 82, Mismatches: 20, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
21 3 0.04
22 1 0.01
23 13 0.16
24 16 0.20
25 36 0.44
26 3 0.04
27 10 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATAAATAATATAATATTAAAGAT
Found at i:104069947 original size:24 final size:23
Alignment explanation
Indices: 104069911--104069971 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
104069901 ATAAAATTTA
* *
104069911 AAATATACCTAATATATTA-AAAG
1 AAATATA-ATAATATAATATAAAG
*
104069934 AATATATATATAATATAATATTAAG
1 AA-ATATA-ATAATATAATATAAAG
104069959 AAATATAATAATA
1 AAATATAATAATA
104069972 ACAAAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 8 0.25
24 19 0.59
25 5 0.16
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (23 bp):
AAATATAATAATATAATATAAAG
Found at i:104070505 original size:30 final size:30
Alignment explanation
Indices: 104070453--104070567 Score: 176
Period size: 30 Copynumber: 3.8 Consensus size: 30
104070443 TAGGTACAAG
* * *
104070453 TGGTGGCGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
104070483 TAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
104070513 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
104070543 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
104070568 TGAGAAAAGT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 76 1.00
ACGTcount: A:0.23, C:0.04, G:0.49, T:0.24
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:104070549 original size:60 final size:60
Alignment explanation
Indices: 104070453--104070567 Score: 194
Period size: 60 Copynumber: 1.9 Consensus size: 60
104070443 TAGGTACAAG
*
104070453 TGGTGGCGGAGAAGGTGTGGCTAGTGGAGTTAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGCGGAAAAGGTGTGGCTAGTGGAGTTAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
* * *
104070513 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGCGGAAAAGGTGTGGCTAGTGGAGTTAGTGGTGGAAAAAGAGTGGCTAGT
104070568 TGAGAAAAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.23, C:0.04, G:0.49, T:0.24
Consensus pattern (60 bp):
TGGTGGCGGAAAAGGTGTGGCTAGTGGAGTTAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:104073917 original size:14 final size:13
Alignment explanation
Indices: 104073900--104073999 Score: 53
Period size: 15 Copynumber: 7.0 Consensus size: 13
104073890 TATTCTAATA
104073900 CTATTATTATTTAT
1 CTATTATTATTT-T
104073914 CTATT-TATATTTCT
1 CTATTAT-TATTT-T
104073928 ACTATTATTATATTT
1 -CTATTATTAT-TTT
104073943 CTATTTATTATATTT
1 CTA-TTATTAT-TTT
*
104073958 TTATT-TCTATTTATAT
1 CTATTAT-TA-TT-T-T
*
104073974 ACTAATATTATTTT
1 -CTATTATTATTTT
104073988 C-ATTATTATTTT
1 CTATTATTATTTT
104074000 TCTTATATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 24
0.71 0.05 0.24
Matches are distributed among these distances:
12 10 0.14
13 3 0.04
14 20 0.29
15 25 0.36
16 6 0.09
17 5 0.07
18 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (13 bp):
CTATTATTATTTT
Found at i:104073921 original size:29 final size:28
Alignment explanation
Indices: 104073889--104073951 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
104073879 ATTTATTTTG
104073889 TTATTCTAATACTATTATTAT-TTATCTAT
1 TTATT-TAATACTATTATTATATT-TCTAT
**
104073918 TTATATTTCTACTATTATTATATTTCTAT
1 TTAT-TTAATACTATTATTATATTTCTAT
104073947 TTATT
1 TTATT
104073952 ATATTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 1 0.03
29 26 0.87
30 3 0.10
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (28 bp):
TTATTTAATACTATTATTATATTTCTAT
Found at i:104073950 original size:15 final size:15
Alignment explanation
Indices: 104073918--104073963 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
104073908 ATTTATCTAT
104073918 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
104073935 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
104073950 TTATATTTTTATTT
1 TTATATTTCTATTT
104073964 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:104073956 original size:23 final size:23
Alignment explanation
Indices: 104073930--104073996 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
104073920 ATATTTCTAC
104073930 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
104073953 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
104073975 CTAATATTAT-TTTC-A-TTATTA
1 -TATTATTATATTTCTATTTATTA
104073996 T
1 T
104073997 TTTTCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 8 0.21
24 6 0.15
25 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:104075193 original size:35 final size:35
Alignment explanation
Indices: 104075113--104075296 Score: 289
Period size: 35 Copynumber: 5.3 Consensus size: 35
104075103 GGTTTCGACA
*
104075113 GTAGGTATGGTATCATCCATACCGAGTTATGAAA-
1 GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
104075147 GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
1 GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
* *
104075182 GTAGGTATGGTATCATCTATACCGAGTTGTGAAAT
1 GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
* * * *
104075217 GTAGGTATGGTATTAACCACATCGAGTTGTGAAAC
1 GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
*
104075252 GTAGGTATGGTATCATCCATACCGAGTTGTGGAAC
1 GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
104075287 GTAGGTATGG
1 GTAGGTATGG
104075297 CATCCGAATC
Statistics
Matches: 135, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
34 33 0.24
35 102 0.76
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (35 bp):
GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
Found at i:104075559 original size:35 final size:35
Alignment explanation
Indices: 104075480--104075771 Score: 354
Period size: 35 Copynumber: 8.4 Consensus size: 35
104075470 GTTTCGACAA
* *
104075480 TAGGTATGGTATCATCCATACCGAGTTATGAAA-G
1 TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
* *
104075514 TAGGTATGGTATTAACCATATCGAGTTGTGAAACG
1 TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
* *
104075549 TAGGTATGGTATTAACCATATCGAGTTGTGAAACG
1 TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
* * * *
104075584 TAGGTATGGTATCATCCATTCTGAGTTGTGGAACG
1 TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
* * *
104075619 TAGGTATGGCATCATCCATACCGAGTTGTGGAACG
1 TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
** * *
104075654 TAGGTATTTTATCATCTATACCGAGTTGTGAAACG
1 TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
* * **
104075689 TAGGTATGTTATTATCCATACTGAGTTAAGAAACG
1 TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
* *
104075724 TAGGTATGGCATT-TCCCATACCGAGTTGTGAAATG
1 TAGGTATGGTATTAT-CCATACCGAGTTGTGAAACG
104075759 TAGGTATGGTATT
1 TAGGTATGGTATT
104075772 TTCAATGAGG
Statistics
Matches: 225, Mismatches: 31, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
34 30 0.13
35 195 0.87
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.33
Consensus pattern (35 bp):
TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
Found at i:104075621 original size:366 final size:366
Alignment explanation
Indices: 104074942--104075660 Score: 1233
Period size: 366 Copynumber: 2.0 Consensus size: 366
104074932 TCTCAAATTC
* * *
104074942 GTCTTCTAATTTTTTGTAGACCAAAAACGTTGTTTTAATAAACCAAAATGTTTTATTAAAATGAT
1 GTCTTCTAATTTTTCGTAAACCAAAAACATTGTTTTAATAAACCAAAATGTTTTATTAAAATGAT
* *
104075007 CGACCACAGTGTGACCCGATCACACCTAAACAAAAAGGATTGGTGGCGACTCTATGCCTTGTTTA
66 CGACCACAGGGTGACCCGATCACACCTAAACAAAAAGGATTGGTGGCGACTCTATACCTTGTTTA
*
104075072 AAAGTCGATCCCCATTTTCCAAAATAAAAATGGTTTCGACAGTAGGTATGGTATCATCCATACCG
131 AAAGTCGATCCCCATTTTCCAAAATAAAAATGGTTTCGACAATAGGTATGGTATCATCCATACCG
* * *
104075137 AGTTATGAAAGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATCATCTAT
196 AGTTATGAAAGTAGGTATGGTATCAACCATACCGAGTTGTGAAACGTAGGTATGGTATCAACCAT
* * *
104075202 ACCGAGTTGTGAAATGTAGGTATGGTATTAACCACATCGAGTTGTGAAACGTAGGTATGGTATCA
261 ACCGAGTTGTGAAACGTAGGTATGGTATCAACCACATCGAGTTGTGAAACGTAGGTATGGCATCA
104075267 TCCATACCGAGTTGTGGAACGTAGGTATGGCATCCGAATCT
326 TCCATACCGAGTTGTGGAACGTAGGTATGGCATCCGAATCT
*
104075308 GTCTTCTAGTTTTTCGTAAACCAAAAACATTGTTTTAATAAACCAAAATGTTTTATTAAAATGAT
1 GTCTTCTAATTTTTCGTAAACCAAAAACATTGTTTTAATAAACCAAAATGTTTTATTAAAATGAT
104075373 CGACCACAGGGTGACCCGATCACACCTAAACAAAAAGGATTGGTGGCGACTCTATACCTTGTTTA
66 CGACCACAGGGTGACCCGATCACACCTAAACAAAAAGGATTGGTGGCGACTCTATACCTTGTTTA
*
104075438 AAAGTCGATCCCCGTTTTCCAAAATAAAAATGGTTTCGACAATAGGTATGGTATCATCCATACCG
131 AAAGTCGATCCCCATTTTCCAAAATAAAAATGGTTTCGACAATAGGTATGGTATCATCCATACCG
* * *
104075503 AGTTATGAAAGTAGGTATGGTATTAACCATATCGAGTTGTGAAACGTAGGTATGGTATTAACCAT
196 AGTTATGAAAGTAGGTATGGTATCAACCATACCGAGTTGTGAAACGTAGGTATGGTATCAACCAT
* * * *
104075568 ATCGAGTTGTGAAACGTAGGTATGGTATCATCCA-TTCTGAGTTGTGGAACGTAGGTATGGCATC
261 ACCGAGTTGTGAAACGTAGGTATGGTATCAACCACATC-GAGTTGTGAAACGTAGGTATGGCATC
104075632 ATCCATACCGAGTTGTGGAACGTAGGTAT
325 ATCCATACCGAGTTGTGGAACGTAGGTAT
104075661 TTTATCATCT
Statistics
Matches: 331, Mismatches: 21, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
365 2 0.01
366 329 0.99
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (366 bp):
GTCTTCTAATTTTTCGTAAACCAAAAACATTGTTTTAATAAACCAAAATGTTTTATTAAAATGAT
CGACCACAGGGTGACCCGATCACACCTAAACAAAAAGGATTGGTGGCGACTCTATACCTTGTTTA
AAAGTCGATCCCCATTTTCCAAAATAAAAATGGTTTCGACAATAGGTATGGTATCATCCATACCG
AGTTATGAAAGTAGGTATGGTATCAACCATACCGAGTTGTGAAACGTAGGTATGGTATCAACCAT
ACCGAGTTGTGAAACGTAGGTATGGTATCAACCACATCGAGTTGTGAAACGTAGGTATGGCATCA
TCCATACCGAGTTGTGGAACGTAGGTATGGCATCCGAATCT
Found at i:104076435 original size:22 final size:22
Alignment explanation
Indices: 104076392--104076445 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
104076382 GAGAAAGACT
* * *
104076392 TGTTATTGTTTCCATTATTTTGG
1 TGTTATT-TTACCACTATTTTGC
104076415 TGTTATTTTACCACTATTTTGC
1 TGTTATTTTACCACTATTTTGC
*
104076437 TGTCATTTT
1 TGTTATTTT
104076446 GCAATTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.59
Consensus pattern (22 bp):
TGTTATTTTACCACTATTTTGC
Found at i:104078394 original size:11 final size:11
Alignment explanation
Indices: 104078380--104078462 Score: 67
Period size: 11 Copynumber: 7.5 Consensus size: 11
104078370 AAAAAAAATT
104078380 TATTTTATTAC
1 TATTTTATTAC
**
104078391 TATTTTGCTAC
1 TATTTTATTAC
* *
104078402 TATTTTCTTAT
1 TATTTTATTAC
* * *
104078413 TGTTTTCTCAC
1 TATTTTATTAC
*
104078424 TATTTTACTAC
1 TATTTTATTAC
* *
104078435 TATTTTACTAT
1 TATTTTATTAC
*
104078446 TATGTTATTAC
1 TATTTTATTAC
104078457 TATTTT
1 TATTTT
104078463 CTTGTTGTTT
Statistics
Matches: 55, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 55 1.00
ACGTcount: A:0.22, C:0.13, G:0.04, T:0.61
Consensus pattern (11 bp):
TATTTTATTAC
Found at i:104078459 original size:33 final size:33
Alignment explanation
Indices: 104078379--104078462 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 33
104078369 CAAAAAAAAT
*
104078379 TTATTTTATTACTATTTTGCTACTATTTTCTTA
1 TTATTTTATTACTATTTTACTACTATTTTCTTA
* * *
104078412 TTGTTTTCTCACTATTTTACTACTATTTTAC-TA
1 TTATTTTATTACTATTTTACTACTATTTT-CTTA
*
104078445 TTATGTTATTACTATTTT
1 TTATTTTATTACTATTTT
104078463 CTTGTTGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 41 0.98
34 1 0.02
ACGTcount: A:0.21, C:0.13, G:0.04, T:0.62
Consensus pattern (33 bp):
TTATTTTATTACTATTTTACTACTATTTTCTTA
Found at i:104080287 original size:15 final size:15
Alignment explanation
Indices: 104080250--104080287 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
104080240 GACTGAGCTG
*
104080250 CAAAATGCTACATTA
1 CAAAATGGTACATTA
104080265 CAAAATGGTACATTA
1 CAAAATGGTACATTA
104080280 CAAAATGG
1 CAAAATGG
104080288 AACAGTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.24
Consensus pattern (15 bp):
CAAAATGGTACATTA
Found at i:104086799 original size:20 final size:19
Alignment explanation
Indices: 104086774--104086819 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
104086764 TATAATTTTT
*
104086774 AAATATATATAATACATCAA
1 AAATATATA-AAAACATCAA
104086794 AAATAT-TAAAAACATCAA
1 AAATATATAAAAACATCAA
*
104086812 AAAAATAT
1 AAATATAT
104086820 TTTTTAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 14 0.61
19 3 0.13
20 6 0.26
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATATATAAAAACATCAA
Found at i:104086930 original size:30 final size:30
Alignment explanation
Indices: 104086895--104086957 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
104086885 AATTAATAAG
*
104086895 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
104086925 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
104086955 CAA
1 CAA
104086958 TAAAATAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:104087012 original size:22 final size:22
Alignment explanation
Indices: 104086987--104087029 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
104086977 TATCTAAATA
104086987 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGTAGCAAC
* *
104087009 ATAATAGTAAAATGGTAGCAA
1 ATAATAATAAAATAGTAGCAA
104087030 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
ATAATAATAAAATAGTAGCAAC
Found at i:104087458 original size:30 final size:31
Alignment explanation
Indices: 104087422--104087479 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
104087412 GTTATTAATA
104087422 TTTTAGATCATTTCTA-TTTGGTCACTTACG
1 TTTTAGATCATTTCTATTTTGGTCACTTACG
*
104087452 TTTTAGATCGTTTCTATTTTGGTCACTT
1 TTTTAGATCATTTCTATTTTGGTCACTT
104087480 TTCGTCAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.17, C:0.16, G:0.14, T:0.53
Consensus pattern (31 bp):
TTTTAGATCATTTCTATTTTGGTCACTTACG
Found at i:104090829 original size:40 final size:41
Alignment explanation
Indices: 104090770--104091001 Score: 303
Period size: 40 Copynumber: 5.8 Consensus size: 41
104090760 CATTTGAATG
* * *
104090770 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* *
104090810 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
104090850 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
104090890 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
104090930 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
104090970 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
104091002 TTGTGGTTAT
Statistics
Matches: 168, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 161 0.96
41 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:104090984 original size:120 final size:120
Alignment explanation
Indices: 104090770--104091021 Score: 418
Period size: 120 Copynumber: 2.1 Consensus size: 120
104090760 CATTTGAATG
* * *
104090770 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
104090835 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
66 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
104090890 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
* *
104090954 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
65 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
104091010 ATATCC-GGCTAA
1 ATATCCGGGCTAA
104091022 ATTCCGAAGA
Statistics
Matches: 123, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
119 6 0.05
120 114 0.93
121 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:104091017 original size:80 final size:80
Alignment explanation
Indices: 104090770--104091001 Score: 340
Period size: 80 Copynumber: 2.9 Consensus size: 80
104090760 CATTTGAATG
* *
104090770 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
104090835 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* * *
104090850 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
104090915 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* * * * *
104090930 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
*
104090994 AATTGTGC
65 ATTTGTGC
104091002 TTGTGGTTAT
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
80 134 0.99
81 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:104092706 original size:14 final size:14
Alignment explanation
Indices: 104092687--104092716 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
104092677 GTTACCATTT
104092687 TACTATTATGTTGC
1 TACTATTATGTTGC
*
104092701 TACTATTTTGTTGC
1 TACTATTATGTTGC
104092715 TA
1 TA
104092717 TTGTTAGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (14 bp):
TACTATTATGTTGC
Found at i:104093367 original size:16 final size:16
Alignment explanation
Indices: 104093346--104093410 Score: 96
Period size: 16 Copynumber: 4.1 Consensus size: 16
104093336 GTAGGTTTGG
*
104093346 TTGAATA-AGGCTATAA
1 TTGAATAGA-GCTGTAA
*
104093362 TTGAATAGAGCTGCAA
1 TTGAATAGAGCTGTAA
104093378 TTGAATAGAGCTGTAA
1 TTGAATAGAGCTGTAA
104093394 TTGAATAGAGCTGTAA
1 TTGAATAGAGCTGTAA
104093410 T
1 T
104093411 CAGTAATTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
16 44 0.98
17 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (16 bp):
TTGAATAGAGCTGTAA
Found at i:104093478 original size:44 final size:46
Alignment explanation
Indices: 104093392--104093484 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
104093382 ATAGAGCTGT
*
104093392 AATTGAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
1 AATTGAATAGAGCTGTAATCAGAAATTCAATTGTTTGGTTGAATGG
*
104093438 AATTGAATAGAGCTGTAAT-A-AAATTC-TTGTGTTTGGTTGAATGG
1 AATTGAATAGAGCTGTAATCAGAAATTCAAT-TGTTTGGTTGAATGG
104093482 AAT
1 AAT
104093485 AGATGTTGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 1 0.02
46 19 0.43
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (46 bp):
AATTGAATAGAGCTGTAATCAGAAATTCAATTGTTTGGTTGAATGG
Found at i:104093587 original size:25 final size:26
Alignment explanation
Indices: 104093558--104093607 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
104093548 TAGGTAAATA
*
104093558 ATTATTGTT-ATTAAATTTTAATAAG
1 ATTATTGTTAAATAAATTTTAATAAG
*
104093583 ATTATTGTTAAATATATTTTAATAA
1 ATTATTGTTAAATAAATTTTAATAA
104093608 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (26 bp):
ATTATTGTTAAATAAATTTTAATAAG
Found at i:104098613 original size:2 final size:2
Alignment explanation
Indices: 104098608--104098641 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
104098598 TCTTTGGTCA
104098608 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
104098642 CAAAGCTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:104108279 original size:15 final size:15
Alignment explanation
Indices: 104108259--104108297 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
104108249 AATACGAGAG
*
104108259 AAAGAAGAAGAAGAA
1 AAAGAAAAAGAAGAA
104108274 AAAGAAAAAGAAGAA
1 AAAGAAAAAGAAGAA
*
104108289 AAGGAAAAA
1 AAAGAAAAA
104108298 AACTTTATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAGAA
Found at i:104109051 original size:5 final size:5
Alignment explanation
Indices: 104109041--104109069 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
104109031 GTAACTGTGA
104109041 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
104109070 AACACAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:104111949 original size:43 final size:43
Alignment explanation
Indices: 104111867--104111950 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
104111857 AGTAAGACCA
* *
104111867 TGGCATCGATATGTGTTTACGAATAAGACCCTGTTTGGGACAG
1 TGGCATCGATATGTGGTTACGAATAAGACCCTGTCTGGGACAG
*
104111910 TGGCATCGATATGTGGTTAC-ATGTAAGACCAC-GTCTGGGAC
1 TGGCATCGATATGTGGTTACGA-ATAAGACC-CTGTCTGGGAC
104111951 GTTCGCATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 34 0.94
44 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
TGGCATCGATATGTGGTTACGAATAAGACCCTGTCTGGGACAG
Found at i:104114401 original size:39 final size:37
Alignment explanation
Indices: 104114312--104114406 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 37
104114302 GATATTTTTT
*
104114312 TATATAA-A-AATATATTATATATTATATTAATTTAA
1 TATATAATATAATATATAATATATTATATTAATTTAA
*
104114347 TATTTAAGTATTAATATATAATATATTATATT-ATTATATTA
1 TATATAA-TA-TAATATATAATATATTATATTAATT-TA--A
104114388 TATATAATATAATATATAA
1 TATATAATATAATATATAA
104114407 AACGTAAGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
35 6 0.12
37 1 0.02
38 3 0.06
39 31 0.62
40 2 0.04
41 7 0.14
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (37 bp):
TATATAATATAATATATAATATATTATATTAATTTAA
Found at i:104114406 original size:7 final size:7
Alignment explanation
Indices: 104114320--104114406 Score: 62
Period size: 7 Copynumber: 13.3 Consensus size: 7
104114310 TTTATATAAA
104114320 AATATAT
1 AATATAT
*
104114327 TATATAT
1 AATATAT
*
104114334 TATAT-T
1 AATATAT
104114340 AAT-T-T
1 AATATAT
*
104114345 AATATTT
1 AATATAT
104114352 AAGTAT-T
1 AA-TATAT
104114359 AATATAT
1 AATATAT
104114366 AATATAT
1 AATATAT
*
104114373 TATAT-T
1 AATATAT
*
104114379 ATTATAT
1 AATATAT
*
104114386 TATATAT
1 AATATAT
104114393 -A-ATAT
1 AATATAT
104114398 AATATAT
1 AATATAT
104114405 AA
1 AA
104114407 AACGTAAGAA
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
5 9 0.14
6 13 0.20
7 41 0.62
8 3 0.05
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (7 bp):
AATATAT
Found at i:104115576 original size:29 final size:30
Alignment explanation
Indices: 104115544--104115600 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
104115534 GCGCTCTCTG
104115544 ATTATTAGCACATT-AGTGCTCTATGTTCT
1 ATTATTAGCACATTAAGTGCTCTATGTTCT
* *
104115573 ATTATTAGCACGTTAAGTGCTCTCTGTT
1 ATTATTAGCACATTAAGTGCTCTATGTT
104115601 TAGCACATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.44
Consensus pattern (30 bp):
ATTATTAGCACATTAAGTGCTCTATGTTCT
Found at i:104115636 original size:22 final size:23
Alignment explanation
Indices: 104115588--104115639 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
104115578 TAGCACGTTA
*
104115588 AGTGCTCTCTGTTTAGCACATCT
1 AGTGCTCTCTGTATAGCACATCT
* *
104115611 -GTGCTCTCTGTATATCAC-TTT
1 AGTGCTCTCTGTATAGCACATCT
104115632 AGTGCTCT
1 AGTGCTCT
104115640 TTGTTCGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.42
Consensus pattern (23 bp):
AGTGCTCTCTGTATAGCACATCT
Found at i:104120418 original size:11 final size:11
Alignment explanation
Indices: 104120402--104120427 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
104120392 GAGAAGAGAC
104120402 GAAACAGGGGA
1 GAAACAGGGGA
104120413 GAAACAGGGGA
1 GAAACAGGGGA
104120424 GAAA
1 GAAA
104120428 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:104121105 original size:12 final size:12
Alignment explanation
Indices: 104121090--104121144 Score: 83
Period size: 12 Copynumber: 4.6 Consensus size: 12
104121080 GTGAGGTAAG
* *
104121090 TATTAATATTAG
1 TATTAGTATTAT
104121102 TATTAGTATTAT
1 TATTAGTATTAT
104121114 TATTAGTATTAT
1 TATTAGTATTAT
*
104121126 TATTATTATTAT
1 TATTAGTATTAT
104121138 TATTAGT
1 TATTAGT
104121145 GGGAATTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:104121111 original size:18 final size:18
Alignment explanation
Indices: 104121088--104121144 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
104121078 ATGTGAGGTA
*
104121088 AGTATTAATATTAGTATT
1 AGTATTATTATTAGTATT
104121106 AGTATTATTATTAGTATT
1 AGTATTATTATTAGTATT
* *
104121124 ATTATTATTATTATTATT
1 AGTATTATTATTAGTATT
104121142 AGT
1 AGT
104121145 GGGAATTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (18 bp):
AGTATTATTATTAGTATT
Found at i:104121116 original size:3 final size:3
Alignment explanation
Indices: 104121090--104121142 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
104121080 GTGAGGTAAG
* * * *
104121090 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
104121138 TAT TA
1 TAT TA
104121143 GTGGGAATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:104121335 original size:24 final size:24
Alignment explanation
Indices: 104121281--104121352 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 24
104121271 TGTGTGAAGT
*
104121281 TGTGAAATAATTATTG-ATTGAAAG
1 TGTGAAA-AATGATTGAATTGAAAG
104121305 -GTGGAAAAATGATTGAATTGAAAG
1 TGT-GAAAAATGATTGAATTGAAAG
104121329 TGTGAAAAATTGTAATTGAATTGA
1 TGTGAAAAA-TG--ATTGAATTGA
104121353 GAATATATGT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
23 9 0.22
24 18 0.44
25 4 0.10
27 10 0.24
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.33
Consensus pattern (24 bp):
TGTGAAAAATGATTGAATTGAAAG
Done.