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 341 of 349
Found at i:112688028 original size:100 final size:100
Alignment explanation
Indices: 112687570--112687978 Score: 601
Period size: 100 Copynumber: 4.1 Consensus size: 100
112687560 CTGACAGCGG
* * *
112687570 ATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTC-CAG
1 ATCTTACTTCCCTGACATTGCAATGAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTA-
* *
112687634 GCAATGCAGTGGAACAGATTGAAGTCACAACGACGA
65 GCATTGCAGAGGAACAGATTGAAGTCACAACGACGA
* * *
112687670 ATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTC-CAG
1 ATCTTACTTCCCTGACATTGCAATGAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTA-
* *
112687734 GCAATGCAGTGGAACAGATTGAAGTCACAACGACGA
65 GCATTGCAGAGGAACAGATTGAAGTCACAACGACGA
**
112687770 ATCTTACTTCCCTGACATTGCAATTTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
1 ATCTTACTTCCCTGACATTGCAATGAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
*
112687835 CATTGCAGTGGAACAGATTGAAGTCACAACGACGA
66 CATTGCAGAGGAACAGATTGAAGTCACAACGACGA
*
112687870 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
1 ATCTTACTTCCCTGACATTGCAATGAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
* * *
112687935 CGTTGCAGAGGAATAGATTGAAG-CTACAAC-AGCGG
66 CATTGCAGAGGAACAGATTGAAGTC-ACAACGA-CGA
112687970 ATCTTACTT
1 ATCTTACTT
112687979 TCTTAGCGTT
Statistics
Matches: 297, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
99 2 0.01
100 294 0.99
101 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (100 bp):
ATCTTACTTCCCTGACATTGCAATGAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
CATTGCAGAGGAACAGATTGAAGTCACAACGACGA
Found at i:112689632 original size:3 final size:3
Alignment explanation
Indices: 112689624--112689649 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
112689614 CTTAATAAAT
112689624 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
112689650 TCTTCCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:112690156 original size:24 final size:23
Alignment explanation
Indices: 112690119--112690163 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
112690109 TATATATACG
*
112690119 TATATTTATTTATTTTATTAAAA
1 TATATTTATATATTTTATTAAAA
112690142 TATACTTTATATATTTTATTAA
1 TATA-TTTATATATTTTATTAA
112690164 TTCATGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TATATTTATATATTTTATTAAAA
Found at i:112690202 original size:22 final size:23
Alignment explanation
Indices: 112690149--112690202 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
112690139 AAATATACTT
*
112690149 TATATATTTTATTAATTCATGTA
1 TATATATATTATTAATTCATGTA
* * * *
112690172 TACACATATT-TTAGTTCATGTC
1 TATATATATTATTAATTCATGTA
112690194 TATATATAT
1 TATATATAT
112690203 CTTTTTATAC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (23 bp):
TATATATATTATTAATTCATGTA
Found at i:112703398 original size:10 final size:10
Alignment explanation
Indices: 112703383--112703418 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
112703373 TTTTTTCAAC
112703383 AAAAAAAATT
1 AAAAAAAATT
*
112703393 AAAAAAATTT
1 AAAAAAAATT
112703403 AAAAAAAAATT
1 -AAAAAAAATT
112703414 AAAAA
1 AAAAA
112703419 TATATAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAAAAATT
Found at i:112703408 original size:12 final size:11
Alignment explanation
Indices: 112703383--112703418 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
112703373 TTTTTTCAAC
112703383 AAAAAAAATT-
1 AAAAAAAATTA
*
112703393 AAAAAAATTTA
1 AAAAAAAATTA
112703404 AAAAAAAATTA
1 AAAAAAAATTA
112703415 AAAA
1 AAAA
112703419 TATATAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAAAAAATTA
Found at i:112703426 original size:21 final size:21
Alignment explanation
Indices: 112703383--112703439 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
112703373 TTTTTTCAAC
*
112703383 AAAAAAAATTAAAAAAATTTA
1 AAAAAAAATTAAAAAAATATA
*
112703404 AAAAAAAATTAAAAATATAT-
1 AAAAAAAATTAAAAAAATATA
* *
112703424 AAAGAAAGTTAAAAAA
1 AAAAAAAATTAAAAAA
112703440 TTTCTAGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (21 bp):
AAAAAAAATTAAAAAAATATA
Found at i:112709465 original size:3 final size:3
Alignment explanation
Indices: 112709459--112709492 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
112709449 TACTAGTAGT
112709459 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
112709493 AAGCTTGGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:112710044 original size:20 final size:22
Alignment explanation
Indices: 112710021--112710060 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
112710011 TTTATTTAAA
112710021 TTTTAAATT-TTT-TAAACAAG
1 TTTTAAATTATTTATAAACAAG
112710041 TTTTAAATTATTTATAAACA
1 TTTTAAATTATTTATAAACA
112710061 TGATACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (22 bp):
TTTTAAATTATTTATAAACAAG
Found at i:112711117 original size:3 final size:3
Alignment explanation
Indices: 112711048--112711098 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
112711038 AATGTAAGAG
* * * * *
112711048 AAT AAT AA- AAG ATT AAT AAT AAT TAT AAT AGT AAA AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
112711095 AAT A
1 AAT A
112711099 GCTAAGTAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:112711184 original size:3 final size:3
Alignment explanation
Indices: 112711178--112711466 Score: 57
Period size: 3 Copynumber: 96.7 Consensus size: 3
112711168 AAAAAAGTAT
* * * * *
112711178 TAA TAA TAG TAA TAA -ATA CAA TAG TAA TAAA TAGA AAA TAA TAG TACA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA T-AA TA-A TAA TAA TAA TA-A
* *
112711226 TTAA TAA TAA TAA TATA TAA -AA AAA TAGGA -AA TAA TAA T-A TGA TAA
1 -TAA TAA TAA TAA TA-A TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA
** * * * * * *
112711272 -AA -AA TAA T-A TGT TAA TAA AAA TAA CAG TAG TAG TAA TAA TAA -AG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
112711316 TAA TAG TAA TAA AAA TAA AAA TAA AAA TAA TAG TAA TAA T-G TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
112711363 TAA GAA TGA TAA TAA TGAA -AC GAGA TTA TAA TAA TAA T-A TAA AAA
1 TAA TAA TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * * * * *
112711408 AAA TAGA -CA TAA -AA GAAA TAG TAA TAA TAG TAA TAA TAA TAG TAA
1 TAA TA-A TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
112711453 TAA T-A TAAA TAA TA
1 TAA TAA T-AA TAA TA
112711467 TATGTATGAA
Statistics
Matches: 205, Mismatches: 55, Indels: 52
0.66 0.18 0.17
Matches are distributed among these distances:
2 22 0.11
3 162 0.79
4 18 0.09
5 3 0.01
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:112711353 original size:15 final size:15
Alignment explanation
Indices: 112711179--112711354 Score: 69
Period size: 17 Copynumber: 10.9 Consensus size: 15
112711169 AAAAAGTATT
112711179 AATAATAGTAATAAATA
1 AATAATAGTAAT-AA-A
* *
112711196 CAATAGTAATAAATAGAA
1 -AATAATAGT-AATA-AA
*
112711214 AATAATAGTACATTAAT
1 AATAATAGTA-A-TAAA
*
112711231 AATAATAATATATAAA
1 AATAATAGTA-ATAAA
* *
112711247 AA-AATAG-GA-AAT
1 AATAATAGTAATAAA
*
112711259 AATAATA-TGATAAAA
1 AATAATAGTAAT-AAA
112711274 AATAATATGTTAATAAA
1 AATAATA-G-TAATAAA
112711291 AATAACAGTAGTAGTAATAATA
1 AAT---A--A-TAGTAATAA-A
112711313 AAGTAATAGTAATAAA
1 AA-TAATAGTAATAAA
112711329 AATAA-A--AATAAA
1 AATAATAGTAATAAA
112711341 AATAATAGTAATAA
1 AATAATAGTAATAA
112711355 TGTATTAATA
Statistics
Matches: 123, Mismatches: 13, Indels: 47
0.67 0.07 0.26
Matches are distributed among these distances:
12 15 0.12
13 8 0.07
14 1 0.01
15 21 0.17
16 9 0.07
17 34 0.28
18 15 0.12
19 4 0.03
20 2 0.02
21 6 0.05
22 5 0.04
23 3 0.02
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (15 bp):
AATAATAGTAATAAA
Found at i:112711448 original size:21 final size:21
Alignment explanation
Indices: 112711424--112711466 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
112711414 ACATAAAAGA
112711424 AATAGTAATAATAGT-AATAAT
1 AATAGTAATAATA-TAAATAAT
112711445 AATAGTAATAATATAAATAAT
1 AATAGTAATAATATAAATAAT
112711466 A
1 A
112711467 TATGTATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
AATAGTAATAATATAAATAAT
Found at i:112714843 original size:20 final size:20
Alignment explanation
Indices: 112714803--112714843 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
112714793 TTTAAAGTAG
**
112714803 AATTAACTAGAAATATGCAA
1 AATTAACTAGAAATAAACAA
*
112714823 AATTAACTAGAATTAAACAA
1 AATTAACTAGAAATAAACAA
112714843 A
1 A
112714844 TAACACTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.24
Consensus pattern (20 bp):
AATTAACTAGAAATAAACAA
Found at i:112715275 original size:19 final size:18
Alignment explanation
Indices: 112715220--112715268 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 18
112715210 TATTTTAGAT
*
112715220 TTTTTAAAATTTTTATATA
1 TTTTTAGAATTTTTA-ATA
112715239 TTCTTTAGAATTTTTAATA
1 TT-TTTAGAATTTTTAATA
112715258 TTTTTA-AATTT
1 TTTTTAGAATTT
112715269 CTGTAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 5 0.18
18 4 0.14
19 7 0.25
20 12 0.43
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTTAGAATTTTTAATA
Found at i:112716139 original size:69 final size:69
Alignment explanation
Indices: 112716047--112716182 Score: 200
Period size: 69 Copynumber: 2.0 Consensus size: 69
112716037 TGGTCCGAAA
* * * * *
112716047 TTAAATTCGAATTTTAATAAAAGATTTGATTCCGATTTTAATTCGACTCGATTTGAATATAATTT
1 TTAAATCCAAATTTTAATAAAAGATTTGATTCCGACTTTAATTCGACCCGATCTGAATATAATTT
112716112 AAAT
66 AAAT
** *
112716116 TTAAATCCAAATTTTAATAAAAGATTTGATTTTGACTTTAATTCGTCCCGATCTGAATATAATTT
1 TTAAATCCAAATTTTAATAAAAGATTTGATTCCGACTTTAATTCGACCCGATCTGAATATAATTT
112716181 AA
66 AA
112716183 TTGTTTTATT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (69 bp):
TTAAATCCAAATTTTAATAAAAGATTTGATTCCGACTTTAATTCGACCCGATCTGAATATAATTT
AAAT
Found at i:112719106 original size:19 final size:20
Alignment explanation
Indices: 112719053--112719108 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 20
112719043 GAAACTATTC
* *
112719053 TGTTGTTGTTTTACTGTTAT
1 TGTTATTGTTTTATTGTTAT
* **
112719073 T-TTATTATTACATTGTTAT
1 TGTTATTGTTTTATTGTTAT
112719092 TGTT-TTGTTTTATTGTT
1 TGTTATTGTTTTATTGTT
112719109 TAGAGATTGT
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.14, C:0.04, G:0.14, T:0.68
Consensus pattern (20 bp):
TGTTATTGTTTTATTGTTAT
Found at i:112720178 original size:12 final size:12
Alignment explanation
Indices: 112720163--112720194 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
112720153 TTTTGAGATC
112720163 AATTTTTTTTAT
1 AATTTTTTTTAT
112720175 AATTTTTTTTAT
1 AATTTTTTTTAT
112720187 --TTTTTTTT
1 AATTTTTTTT
112720195 CATCCACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 8 0.40
12 12 0.60
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
AATTTTTTTTAT
Found at i:112721355 original size:14 final size:15
Alignment explanation
Indices: 112721333--112721409 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
112721323 CAATCAAACA
112721333 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
112721347 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
112721362 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
112721382 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
112721396 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
112721410 ACTCTCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:112721374 original size:20 final size:20
Alignment explanation
Indices: 112721349--112721388 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
112721339 AATATTTTCC
*
112721349 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
112721369 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
112721389 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:112721394 original size:34 final size:35
Alignment explanation
Indices: 112721337--112721403 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
112721327 CAAACACCAG
*
112721337 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
112721372 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
112721404 TATTTTACTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:112725136 original size:3 final size:3
Alignment explanation
Indices: 112725128--112725161 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
112725118 TAAATGGAGT
* *
112725128 TGA TGA TGA TGA TGA TGA TGA TGG TGA CGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
112725162 AGTTGCAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.35, T:0.32
Consensus pattern (3 bp):
TGA
Found at i:112725668 original size:20 final size:19
Alignment explanation
Indices: 112725643--112725692 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
112725633 AGTACAAAAT
*
112725643 AATTCAAACTAATCTTCAAA
1 AATTCAAAATAAT-TTCAAA
**
112725663 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTCAAA
112725682 AATTCAAAATA
1 AATTCAAAATA
112725693 TTTATATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (19 bp):
AATTCAAAATAATTTCAAA
Found at i:112735306 original size:12 final size:13
Alignment explanation
Indices: 112735285--112735314 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
112735275 AAAACACATT
112735285 AAAAATTTAATAG
1 AAAAATTTAATAG
112735298 AAAAA-TTAATAG
1 AAAAATTTAATAG
112735310 AAAAA
1 AAAAA
112735315 ACCGTCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (13 bp):
AAAAATTTAATAG
Found at i:112736875 original size:29 final size:30
Alignment explanation
Indices: 112736824--112736880 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
112736814 AGAATTGGAG
* *
112736824 CAAATTAAGATTTCATGTCTAAAATTATCC
1 CAAATTAAGAATTCATCTCTAAAATTATCC
*
112736854 CAAATTAA-AATTCATCTTTAAAATTAT
1 CAAATTAAGAATTCATCTCTAAAATTAT
112736881 ACATTAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.39
Consensus pattern (30 bp):
CAAATTAAGAATTCATCTCTAAAATTATCC
Found at i:112747249 original size:17 final size:18
Alignment explanation
Indices: 112747221--112747260 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
112747211 TTGATTTGAT
112747221 TAAATAAAATAAAATTTA
1 TAAATAAAATAAAATTTA
*
112747239 TAAAT-AAATAAATTTTA
1 TAAATAAAATAAAATTTA
*
112747256 AAAAT
1 TAAAT
112747261 TAGTACTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAATAAAATAAAATTTA
Found at i:112750103 original size:29 final size:30
Alignment explanation
Indices: 112750042--112750116 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
112750032 AAAATTATAT
* *
112750042 ATGAATTTTGATTTGTTGTGTAATTTGATAC
1 ATGAATTTTGATTTG-TATGTAATTTGACAC
112750073 ATGAATTTTGATTTG-ATGTAA-TTGCACAC
1 ATGAATTTTGATTTGTATGTAATTTG-ACAC
*
112750102 ATGAAACTTTGATTT
1 ATG-AATTTTGATTT
112750117 TTGATTCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
28 3 0.08
29 11 0.28
30 10 0.26
31 15 0.38
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (30 bp):
ATGAATTTTGATTTGTATGTAATTTGACAC
Found at i:112750164 original size:31 final size:32
Alignment explanation
Indices: 112750105--112750164 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
112750095 TGCACACATG
* *
112750105 AAACTTTGATTTTTGATTCAAATGTACACGTC
1 AAACTTTGAATTTTGATTCAAATATACACGTC
*
112750137 AAACTTT-AATTTTGATTCAATTATACAC
1 AAACTTTGAATTTTGATTCAAATATACAC
112750165 ATTTAATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (32 bp):
AAACTTTGAATTTTGATTCAAATATACACGTC
Found at i:112750641 original size:18 final size:20
Alignment explanation
Indices: 112750609--112750647 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
112750599 ATAAAATTCT
*
112750609 ATTTTTTAAAGAAAT-ATAA
1 ATTTGTTAAAGAAATCATAA
112750628 ATTTGTTAAA-AAATCATAA
1 ATTTGTTAAAGAAATCATAA
112750647 A
1 A
112750648 AATTATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
ATTTGTTAAAGAAATCATAA
Found at i:112761417 original size:24 final size:24
Alignment explanation
Indices: 112761385--112761433 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
112761375 CACCAATTCG
112761385 TTCTATCCAACTGCTATATTTTAT
1 TTCTATCCAACTGCTATATTTTAT
112761409 TTCTATCCAACTGCTATATTTTAT
1 TTCTATCCAACTGCTATATTTTAT
112761433 T
1 T
112761434 ATATTATATG
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:0.24, C:0.20, G:0.04, T:0.51
Consensus pattern (24 bp):
TTCTATCCAACTGCTATATTTTAT
Found at i:112762080 original size:31 final size:31
Alignment explanation
Indices: 112762042--112762114 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
112762032 ATTTACAGTC
112762042 GGTACC-AATTCAAACTAAAAAGCCAAGTTTA
1 GGTACCAAATTCAAACT-AAAAGCCAAGTTTA
* * *
112762073 GGTACCAAATTGAACCTTAAAGCCAAGTTTA
1 GGTACCAAATTCAAACTAAAAGCCAAGTTTA
* *
112762104 AGTACCTAATT
1 GGTACCAAATT
112762115 GGAACCAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 28 0.78
32 8 0.22
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (31 bp):
GGTACCAAATTCAAACTAAAAGCCAAGTTTA
Found at i:112762115 original size:31 final size:32
Alignment explanation
Indices: 112762060--112762120 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
112762050 TTCAAACTAA
*
112762060 AAAGCCAAGTTTAGGTACCAAATT-GAACCTT
1 AAAGCCAAGTTTAAGTACCAAATTGGAACCTT
*
112762091 AAAGCCAAGTTTAAGTACCTAATTGGAACC
1 AAAGCCAAGTTTAAGTACCAAATTGGAACC
112762121 AAAAAAACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (32 bp):
AAAGCCAAGTTTAAGTACCAAATTGGAACCTT
Found at i:112766642 original size:18 final size:16
Alignment explanation
Indices: 112766619--112766663 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
112766609 CTAATCAAAT
112766619 AAATTATAAAAATTTACA
1 AAATTATAAAAA-TTA-A
*
112766637 AAATTAGAAAAATTAA
1 AAATTATAAAAATTAA
*
112766653 AAATTTTAAAA
1 AAATTATAAAA
112766664 TCGGATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 3 0.12
18 11 0.46
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (16 bp):
AAATTATAAAAATTAA
Found at i:112767764 original size:24 final size:23
Alignment explanation
Indices: 112767706--112767767 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
112767696 ATTTAATCAT
112767706 ATAATAAATTATTAATATAATTTA
1 ATAATAAATT-TTAATATAATTTA
* * *
112767730 TTAA-AATATTTTAATTTTATTTTA
1 ATAATAA-ATTTTAA-TATAATTTA
112767754 ATAATAAATTTTAA
1 ATAATAAATTTTAA
112767768 AAATAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 6 0.19
24 23 0.74
25 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATAATAAATTTTAATATAATTTA
Found at i:112767774 original size:16 final size:16
Alignment explanation
Indices: 112767752--112767788 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
112767742 AATTTTATTT
112767752 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
112767769 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
112767784 TAATA
1 TAATA
112767789 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:112767835 original size:15 final size:15
Alignment explanation
Indices: 112767747--112767871 Score: 61
Period size: 13 Copynumber: 8.4 Consensus size: 15
112767737 ATTTTAATTT
112767747 TATTTTAATAAT-AA
1 TATTTTAATAATAAA
*
112767761 -ATTTTAAAAAT-AA
1 TATTTTAATAATAAA
112767774 TAATTTT-A-AAT-AA
1 T-ATTTTAATAATAAA
*
112767787 TATTATTCACATGA-AAA
1 TATT-TT-A-ATAATAAA
* *
112767804 TA-TTCAAT-ATTAA
1 TATTTTAATAATAAA
112767817 TATTTTAATAATAAA
1 TATTTTAATAATAAA
*
112767832 TATTTATTACAATTATAAA
1 TA-TT-TT--AATAATAAA
*
112767851 TATATTAATAATAAA
1 TATTTTAATAATAAA
112767866 TATTTT
1 TATTTT
112767872 GTAGTATAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
12 4 0.05
13 26 0.30
14 7 0.08
15 25 0.29
16 4 0.05
17 9 0.10
18 1 0.01
19 10 0.12
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
TATTTTAATAATAAA
Found at i:112769091 original size:25 final size:25
Alignment explanation
Indices: 112769063--112769111 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
112769053 ACAATGATGA
112769063 ATGTATATAATTTGCAGTGCTCCTT
1 ATGTATATAATTTGCAGTGCTCCTT
* *
112769088 ATGTATATATTTTGCAGTTCTCCT
1 ATGTATATAATTTGCAGTGCTCCT
112769112 ATCAGTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.47
Consensus pattern (25 bp):
ATGTATATAATTTGCAGTGCTCCTT
Found at i:112770647 original size:22 final size:23
Alignment explanation
Indices: 112770611--112770653 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
112770601 CTTCTAATTC
*
112770611 AACCATGTAGAAACT-ACAAAAG
1 AACCATCTAGAAACTGACAAAAG
*
112770633 AACCATCTAGGAACTGACAAA
1 AACCATCTAGAAACTGACAAA
112770654 CAATCGCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.51, C:0.21, G:0.14, T:0.14
Consensus pattern (23 bp):
AACCATCTAGAAACTGACAAAAG
Found at i:112773097 original size:16 final size:16
Alignment explanation
Indices: 112773076--112773106 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
112773066 CTCACCCCAA
*
112773076 TAAATTATTTTTAATT
1 TAAATTAATTTTAATT
112773092 TAAATTAATTTTAAT
1 TAAATTAATTTTAAT
112773107 AGAGTTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAAATTAATTTTAATT
Found at i:112775328 original size:159 final size:157
Alignment explanation
Indices: 112774909--112775653 Score: 676
Period size: 154 Copynumber: 4.8 Consensus size: 157
112774899 ATAGTACTTG
** * * * * * * * **
112774909 ATAAAACAGAATGATCAGAGTAACTTGATCATGAATTATATCTAATATTGACGCAAATAGAAAAC
1 ATAAAACAGAACCATCCGA-TAGCTTGATCATGAA-TAAATCAAATAGTCATGCAAATAGATGAC
* * *
112774974 AATGAAGAAGGTAAAATCCTATTTCAAGCCCTCAAACGAA-CTTA---TCTTCTATCTTATGTGG
64 AATGAAGAAGGTAAAATCCTATTTCAAGTCCTCAAAC-AAGTTTATCTTCTTCTATCTTAAGTGG
* *
112775035 ACCCCTGATTCAGGTACGTGTTTCTACTCA
128 ACCCTTGATTCAGGTACATGTTTCTACTCA
* ** * * * * * *
112775065 ATAAAA-TGAACCATTGGATAGCTTGATGATGAATAAAACTAATAGTCAAGTAAA-A-A-GATAA
1 ATAAAACAGAACCATCCGATAGCTTGATCATGAATAAATCAAATAGTCATGCAAATAGATGACAA
* * *
112775126 TGAAGAAGGAAAAAGCCTATTTCAAGTCCTCAAACAAGTTTATCTTCTTCTATCTTAAGTGGACT
66 TGAAGAAGGTAAAATCCTATTTCAAGTCCTCAAACAAGTTTATCTTCTTCTATCTTAAGTGGACC
* *
112775191 CTTGATT-AGGGTACATGATTGTACTCA
131 CTTGATTCA-GGTACATGTTTCTACTCA
* * * * *
112775218 ATAAAACAAAATCATCCGACTAGCTTGATCATTAATGAAATCAAATATTCATGCAAATAGGTGAC
1 ATAAAACAGAACCATCCGA-TAGCTTGATCATGAAT-AAATCAAATAGTCATGCAAATAGATGAC
* * * *
112775283 GATGAAGAAGGTAAAATCCCATTTCAAGCCCTCAAACAAGTTTA---TC-T-TATCTTACGTGGA
64 AATGAAGAAGGTAAAATCCTATTTCAAGTCCTCAAACAAGTTTATCTTCTTCTATCTTAAGTGGA
* * * * *
112775343 CCCATAATTCAAGTCCGTGTTTCTACTCA
129 CCCTTGATTCAGGTACATGTTTCTACTCA
* * * *
112775372 ATAAAACAGAACCATCCGGATAGCTTGATAATGAATTAAATCTAATAGTCATGCAGAGAGATGAC
1 ATAAAACAGAACCATCC-GATAGCTTGATCATGAA-TAAATCAAATAGTCATGCAAATAGATGAC
* * * * *
112775437 AATGAAAAAGGGAAAAGCCTATTGCAAGTCCTCAAACAAGTTTATCTTCTTCTACCTTAAGTGGA
64 AATGAAGAAGGTAAAATCCTATTTCAAGTCCTCAAACAAGTTTATCTTCTTCTATCTTAAGTGGA
** * *
112775502 -TTTGTGATT-AGGGTACATGTTTGTACTCG
129 CCCT-TGATTCA-GGTACATGTTTCTACTCA
* ** * * * *
112775531 ATAAAACGGAACCATGCAAATAGCTAGATCATGAATAAATCAAATATTCATGCAAATAGGTGATA
1 ATAAAACAGAACCAT-CCGATAGCTTGATCATGAATAAATCAAATAGTCATGCAAATAGATGACA
* * *
112775596 ATGAAGAAGGTAAATTCCCATTTCACGTCCTCAAACAAGTTTATCTTCTTCTATCTTA
65 ATGAAGAAGGTAAAATCCTATTTCAAGTCCTCAAACAAGTTTATCTTCTTCTATCTTA
112775654 CTCAGGCTCA
Statistics
Matches: 468, Mismatches: 99, Indels: 42
0.77 0.16 0.07
Matches are distributed among these distances:
149 2 0.00
150 38 0.08
151 1 0.00
152 2 0.00
153 60 0.13
154 139 0.30
155 26 0.06
156 23 0.05
157 3 0.01
158 76 0.16
159 97 0.21
160 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (157 bp):
ATAAAACAGAACCATCCGATAGCTTGATCATGAATAAATCAAATAGTCATGCAAATAGATGACAA
TGAAGAAGGTAAAATCCTATTTCAAGTCCTCAAACAAGTTTATCTTCTTCTATCTTAAGTGGACC
CTTGATTCAGGTACATGTTTCTACTCA
Found at i:112775537 original size:313 final size:306
Alignment explanation
Indices: 112774902--112775642 Score: 937
Period size: 313 Copynumber: 2.4 Consensus size: 306
112774892 CAACAACATA
* * * * * * * * *
112774902 GTACTTGATAAAACAGAATGATCAGAGTAACTTGATCATGAATTATATCTAATATTGACGCAAAT
1 GTACTCGATAAAACAGAATCATCCGAATAGCTTGATCATGAA-TAAATCAAATATTCATGCAAAT
*** * * *
112774967 AGAAAACAATGAAGAAGGTAAAATCCTATTTCAAGCCCTCAAACGAA-CTTATCTTCTATCTTAT
65 AGGTGACAATGAAGAAGGTAAAATCCCATTTCAAGCCCTCAAAC-AAGTTTATC-T-TATCTTAC
* * * * * *
112775031 GTGGACCCCTGATTCAGGTACGTGTTTCTACTCAATAAAATGAACCATTGGATAGCTTGATGATG
127 GTGGACCCATAATTCAAGTACGTGTTTCTACTCAATAAAAAGAACCATCGGATAGCTTGATAATG
* * * *
112775096 AATAAAACTAATAGTCAAGTAAAAAGATAATGAAGAAGGAAAAAGCCTATTTCAAGTCCTCAAAC
192 AATAAAACTAATAGTCAAGCAAAAAGACAATGAAAAAGGAAAAAGCCTATTGCAAGTCCTCAAAC
*
112775161 AAGTTTATCTTCTTCTATCTTAAGTGGACTCTTGATTAGGGTACATGATT
257 AAGTTTATCTTCTTCTACCTTAAGTGGACTCTTGATTAGGGTACATGATT
* * * *
112775211 GTACTCAATAAAACAAAATCATCCGACTAGCTTGATCATTAATGAAATCAAATATTCATGCAAAT
1 GTACTCGATAAAACAGAATCATCCGAATAGCTTGATCATGAAT-AAATCAAATATTCATGCAAAT
*
112775276 AGGTGACGATGAAGAAGGTAAAATCCCATTTCAAGCCCTCAAACAAGTTTATCTTATCTTACGTG
65 AGGTGACAATGAAGAAGGTAAAATCCCATTTCAAGCCCTCAAACAAGTTTATCTTATCTTACGTG
*
112775341 GACCCATAATTCAAGTCCGTGTTTCTACTCAATAAAACAGAACCATCCGGATAGCTTGATAATGA
130 GACCCATAATTCAAGTACGTGTTTCTACTCAATAAAA-AGAACCAT-CGGATAGCTTGATAATGA
* * * *
112775406 ATTAAATCTAATAGTCATGCAGAGAGATGACAATGAAAAAGGGAAAAGCCTATTGCAAGTCCTCA
193 A-TAAAACTAATAGTCAAGCA-A-A-AAGACAATGAAAAAGGAAAAAGCCTATTGCAAGTCCTCA
* *
112775471 AACAAGTTTATCTTCTTCTACCTTAAGTGGA-TTTGTGATTAGGGTACATGTTT
254 AACAAGTTTATCTTCTTCTACCTTAAGTGGACTCT-TGATTAGGGTACATGATT
* * * * *
112775524 GTACTCGATAAAACGGAACCATGCAAATAGCTAGATCATGAATAAATCAAATATTCATGCAAATA
1 GTACTCGATAAAACAGAATCATCCGAATAGCTTGATCATGAATAAATCAAATATTCATGCAAATA
* * * *
112775589 GGTGATAATGAAGAAGGTAAATTCCCATTTCACGTCCTCAAACAAGTTTATCTT
66 GGTGACAATGAAGAAGGTAAAATCCCATTTCAAGCCCTCAAACAAGTTTATCTT
112775643 CTTCTATCTT
Statistics
Matches: 372, Mismatches: 51, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
307 43 0.12
308 11 0.03
309 112 0.30
310 16 0.04
311 1 0.00
312 74 0.20
313 115 0.31
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (306 bp):
GTACTCGATAAAACAGAATCATCCGAATAGCTTGATCATGAATAAATCAAATATTCATGCAAATA
GGTGACAATGAAGAAGGTAAAATCCCATTTCAAGCCCTCAAACAAGTTTATCTTATCTTACGTGG
ACCCATAATTCAAGTACGTGTTTCTACTCAATAAAAAGAACCATCGGATAGCTTGATAATGAATA
AAACTAATAGTCAAGCAAAAAGACAATGAAAAAGGAAAAAGCCTATTGCAAGTCCTCAAACAAGT
TTATCTTCTTCTACCTTAAGTGGACTCTTGATTAGGGTACATGATT
Found at i:112780648 original size:2 final size:2
Alignment explanation
Indices: 112780641--112780671 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
112780631 AAATCAAGCA
112780641 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112780672 ACACTTCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:112784735 original size:29 final size:30
Alignment explanation
Indices: 112784700--112784758 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
112784690 AACAAGCCAA
*
112784700 TGACTTAAAT-AAACTTTCGAATAGTTCAG
1 TGACTTAAATAAAACTTTCGAATAATTCAG
*
112784729 TGACTTAAATGAAAATTTTCGAATAATTCA
1 TGACTTAAAT-AAAACTTTCGAATAATTCA
112784759 ATGATCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 10 0.38
31 16 0.62
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (30 bp):
TGACTTAAATAAAACTTTCGAATAATTCAG
Found at i:112786781 original size:3 final size:3
Alignment explanation
Indices: 112786768--112786817 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
112786758 CACCGAGTCG
* * * * *
112786768 GTT GCT GTT GTT GTT GTT GTT GTT GTT GCT GCT GTT GCT GTT GCT GTT
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
112786816 GT
1 GT
112786818 GGTTTCTGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.10, G:0.34, T:0.56
Consensus pattern (3 bp):
GTT
Found at i:112788561 original size:17 final size:18
Alignment explanation
Indices: 112788536--112788590 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 18
112788526 TTATATATTA
112788536 TATTAAATTAACACATTT
1 TATTAAATTAACACATTT
**
112788554 TATT-AATT-ACAGTTTT
1 TATTAAATTAACACATTT
112788570 TATTAAATTAA-ACATGTT
1 TATTAAATTAACACAT-TT
112788588 TAT
1 TAT
112788591 CCAAACTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 10 0.33
17 10 0.33
18 10 0.33
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (18 bp):
TATTAAATTAACACATTT
Found at i:112792565 original size:48 final size:47
Alignment explanation
Indices: 112792447--112792614 Score: 194
Period size: 47 Copynumber: 3.5 Consensus size: 47
112792437 AATCGATAAG
* * ** *
112792447 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGGAGA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAAC-TCTCACTAAAA
*
112792495 -ACCTATACCATGGTCCGTAGCCAAATCAAGGTAACTCCTCACTAAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACT-CTCACTAAAA
*
112792542 TACCTATACCATGGCCCGTAGCCAAATCAAGGTATCACTCTCACCTAAAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA--ACTCTCA-CTAAAA
* * *
112792592 TGCCTATATCATGGCCCGAAGCC
1 TACCTATACCATGGCCCGTAGCC
112792615 TACACAATAG
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
46 1 0.01
47 39 0.38
48 32 0.31
49 4 0.04
50 28 0.27
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCTCACTAAAA
Found at i:112801428 original size:31 final size:31
Alignment explanation
Indices: 112801393--112801455 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
112801383 CTAGTCCTTT
112801393 GAATGAGTTTAGGCCTATTAGCCTTAATTAG
1 GAATGAGTTTAGGCCTATTAGCCTTAATTAG
112801424 GAATGAGTTTAGGCCTATTAGCCTTAATTAG
1 GAATGAGTTTAGGCCTATTAGCCTTAATTAG
112801455 G
1 G
112801456 GTGCTGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.35
Consensus pattern (31 bp):
GAATGAGTTTAGGCCTATTAGCCTTAATTAG
Found at i:112803216 original size:49 final size:49
Alignment explanation
Indices: 112803160--112803255 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
112803150 TCAATTAAGT
*
112803160 AAAAAATAAATAAATTTAAGTATCAACTACATATTTTTAGACAAATTCA
1 AAAAAATAAATAAATTTAAGTATCAACTACATACTTTTAGACAAATTCA
*
112803209 AAAAAATAAATAAATTTAAGTATCAACTAGATACTTTTAGACAAATT
1 AAAAAATAAATAAATTTAAGTATCAACTACATACTTTTAGACAAATT
112803256 TAGAGGCCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.32
Consensus pattern (49 bp):
AAAAAATAAATAAATTTAAGTATCAACTACATACTTTTAGACAAATTCA
Found at i:112803715 original size:66 final size:66
Alignment explanation
Indices: 112803632--112803762 Score: 210
Period size: 66 Copynumber: 2.0 Consensus size: 66
112803622 CATTTTTTCA
* *
112803632 ACTATGATTTAGATTCTAATTTGAT-TATAAATTTTAAAGAATTTTAACCGAGTCTTCAATGTAT
1 ACTATGATTCAGATTCTAATTTGATCT-CAAATTTTAAAGAATTTTAACCGAGTCTTCAATGTAT
112803696 CT
65 CT
* *
112803698 ACTATGATTCAGATTCTAATTTGATCTCAAATTTTAAAGAATTTTAATCGAGTCTTTAATGTATC
1 ACTATGATTCAGATTCTAATTTGATCTCAAATTTTAAAGAATTTTAACCGAGTCTTCAATGTATC
112803763 AATATCTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 59 0.98
67 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (66 bp):
ACTATGATTCAGATTCTAATTTGATCTCAAATTTTAAAGAATTTTAACCGAGTCTTCAATGTATC
T
Found at i:112816082 original size:22 final size:21
Alignment explanation
Indices: 112816057--112816097 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
112816047 CTTGCGTTTG
*
112816057 TTCATTTTTTCACTCTATTTTC
1 TTCATTCTTTCACT-TATTTTC
112816079 TTCATTCTTTCACTTATTT
1 TTCATTCTTTCACTTATTT
112816098 CATGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.63
Consensus pattern (21 bp):
TTCATTCTTTCACTTATTTTC
Found at i:112817507 original size:26 final size:26
Alignment explanation
Indices: 112817478--112817527 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
112817468 GACCAATTCC
*
112817478 TATAAACATTTCACACAACCATTTTG
1 TATAAACAATTCACACAACCATTTTG
* * *
112817504 TATAACCAATTCATATAACCATTT
1 TATAAACAATTCACACAACCATTT
112817528 GTCATCTGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (26 bp):
TATAAACAATTCACACAACCATTTTG
Found at i:112817510 original size:13 final size:13
Alignment explanation
Indices: 112817458--112817527 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 13
112817448 TTGTACATAT
*
112817458 ATTTCCATATGACC
1 ATTT-CATATAACC
* * *
112817472 AATTCCTATAAAC
1 ATTTCATATAACC
* *
112817485 ATTTCACACAACC
1 ATTTCATATAACC
**
112817498 ATTTTGTATAACC
1 ATTTCATATAACC
*
112817511 AATTCATATAACC
1 ATTTCATATAACC
112817524 ATTT
1 ATTT
112817528 GTCATCTGGT
Statistics
Matches: 39, Mismatches: 17, Indels: 1
0.68 0.30 0.02
Matches are distributed among these distances:
13 36 0.92
14 3 0.08
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:112818186 original size:23 final size:24
Alignment explanation
Indices: 112818155--112818205 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
112818145 AAGTTCAAGC
*
112818155 GAGCACTATC-AGGAGGCTCACAAA
1 GAGCACTATCGA-GAAGCTCACAAA
*
112818179 GAGC-CTATCGAGAAGCTCACGAA
1 GAGCACTATCGAGAAGCTCACAAA
112818202 GAGC
1 GAGC
112818206 TTTATTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.35, C:0.25, G:0.27, T:0.12
Consensus pattern (24 bp):
GAGCACTATCGAGAAGCTCACAAA
Found at i:112820322 original size:18 final size:18
Alignment explanation
Indices: 112820274--112820322 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 18
112820264 ATAATATAAT
112820274 TATTTAATTAATAAATATC
1 TATTTAA-TAATAAATATC
*
112820293 TTTTATAAAATAATAAATATC
1 TATT-T--AATAATAAATATC
112820314 TATTTAATA
1 TATTTAATA
112820323 TCTAATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 4 0.16
19 3 0.12
20 2 0.08
21 14 0.56
22 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTAATAATAAATATC
Found at i:112821987 original size:22 final size:22
Alignment explanation
Indices: 112821941--112821987 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
112821931 TATTAGATAT
**
112821941 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
112821963 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
112821985 TAA
1 TAA
112821988 TTATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:112834430 original size:21 final size:21
Alignment explanation
Indices: 112834400--112834451 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
112834390 TCGAAACCCA
112834400 AAAACC-AAAACCTAATATCT
1 AAAACCTAAAACCTAATATCT
* *
112834420 AAAACCTAAAACTTGATATCT
1 AAAACCTAAAACCTAATATCT
112834441 AAAACCTAAAA
1 AAAACCTAAAA
112834452 AAAAACAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 6 0.21
21 23 0.79
ACGTcount: A:0.56, C:0.21, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAACCTAAAACCTAATATCT
Found at i:112836533 original size:46 final size:46
Alignment explanation
Indices: 112836352--112836533 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
112836342 TTTGACATGA
* * * * *
112836352 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
112836398 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
112836444 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
112836490 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
112836534 AGAGCACACT
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
45 4 0.03
46 121 0.97
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:112838707 original size:11 final size:11
Alignment explanation
Indices: 112838666--112838708 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
112838656 TTATATACTA
* *
112838666 ATAAAATAATA
1 ATAAAATATTT
112838677 ATAAAATATCTT
1 ATAAAATAT-TT
112838689 ATTAAAATATTT
1 A-TAAAATATTT
112838701 ATAAAATA
1 ATAAAATA
112838709 ATATTTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 15 0.54
12 5 0.18
13 8 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAAAATATTT
Found at i:112838749 original size:31 final size:30
Alignment explanation
Indices: 112838671--112838749 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 30
112838661 TACTAATAAA
* *
112838671 ATAATAAT-AAAATATCTTATTAAAATATTT
1 ATAA-AATAAAAATATCTAATTAAAATAATT
**
112838701 ATAAAATAATATTTATCTAATT-AAATAATT
1 ATAAAATAA-AAATATCTAATTAAAATAATT
112838731 ATAAAATATCAAAATATCT
1 ATAAAATA--AAAATATCT
112838750 CTAGCATCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
29 3 0.08
30 20 0.51
31 15 0.38
32 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (30 bp):
ATAAAATAAAAATATCTAATTAAAATAATT
Found at i:112841193 original size:25 final size:25
Alignment explanation
Indices: 112841146--112841193 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
112841136 TTCCATGTAC
* ** *
112841146 TCATACTTATTTCATTTATCTATCT
1 TCATAATTATTTCATACAACTATCT
112841171 TCATAATTATTTCATACAACTAT
1 TCATAATTATTTCATACAACTAT
112841194 TTTGTACATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (25 bp):
TCATAATTATTTCATACAACTATCT
Found at i:112841530 original size:46 final size:46
Alignment explanation
Indices: 112841349--112841530 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
112841339 TTTGACATGA
* * * * *
112841349 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
112841395 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
112841441 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
112841487 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
112841531 AGAGCACACT
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
45 4 0.03
46 121 0.97
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:112843694 original size:11 final size:11
Alignment explanation
Indices: 112843653--112843695 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
112843643 TTATATACTA
* *
112843653 ATAAAATAATA
1 ATAAAATATTT
112843664 ATAAAATATCTT
1 ATAAAATAT-TT
112843676 ATTAAAATATTT
1 A-TAAAATATTT
112843688 ATAAAATA
1 ATAAAATA
112843696 ATATTTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 15 0.54
12 5 0.18
13 8 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAAAATATTT
Found at i:112843736 original size:31 final size:30
Alignment explanation
Indices: 112843658--112843736 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 30
112843648 TACTAATAAA
* *
112843658 ATAATAAT-AAAATATCTTATTAAAATATTT
1 ATAA-AATAAAAATATCTAATTAAAATAATT
**
112843688 ATAAAATAATATTTATCTAATT-AAATAATT
1 ATAAAATAA-AAATATCTAATTAAAATAATT
112843718 ATAAAATATCAAAATATCT
1 ATAAAATA--AAAATATCT
112843737 CTAGCATCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
29 3 0.08
30 20 0.51
31 15 0.38
32 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (30 bp):
ATAAAATAAAAATATCTAATTAAAATAATT
Found at i:112845147 original size:53 final size:53
Alignment explanation
Indices: 112845067--112845174 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
112845057 GATAAGTTAG
*
112845067 TTAGCATAGTAGTTTCATCAAAAACAATATCTCCGCTAATCACATCTTTTCTA
1 TTAGCATAGTAGTTTCATCAAAAACAATATCTCCGCTAATCACAACTTTTCTA
*
112845120 TTAGCATATTAGTTTCATCAAAAACAATATCTCCGCTAATCACAACTTTTCTA
1 TTAGCATAGTAGTTTCATCAAAAACAATATCTCCGCTAATCACAACTTTTCTA
112845173 TT
1 TT
112845175 TTCAGGACAC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.37
Consensus pattern (53 bp):
TTAGCATAGTAGTTTCATCAAAAACAATATCTCCGCTAATCACAACTTTTCTA
Found at i:112852648 original size:15 final size:16
Alignment explanation
Indices: 112852616--112852648 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
112852606 TTAATCGTTG
112852616 ATTATTTTAAATTAAA
1 ATTATTTTAAATTAAA
*
112852632 ATTATTTTTAA-TAAA
1 ATTATTTTAAATTAAA
112852647 AT
1 AT
112852649 ACCGGACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATTTTAAATTAAA
Found at i:112857776 original size:34 final size:34
Alignment explanation
Indices: 112857733--112857800 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
112857723 ATTGTGGTCA
*
112857733 AAAGATAGAAACGGAAAAATTGTAGCCATTTGAT
1 AAAGATAGAAACAGAAAAATTGTAGCCATTTGAT
* * *
112857767 AAAGGTAGAAACAGAAAGATTGTTGCCATTTGAT
1 AAAGATAGAAACAGAAAAATTGTAGCCATTTGAT
112857801 CAAGTCACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (34 bp):
AAAGATAGAAACAGAAAAATTGTAGCCATTTGAT
Found at i:112859872 original size:23 final size:22
Alignment explanation
Indices: 112859844--112859888 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
112859834 AAACTAAATC
112859844 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
112859867 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
112859889 AAGATTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:112859948 original size:17 final size:19
Alignment explanation
Indices: 112859867--112859937 Score: 135
Period size: 19 Copynumber: 3.8 Consensus size: 19
112859857 AATCATATCT
112859867 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
112859886 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
112859904 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
112859923 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
112859938 AATTGAAGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.35
19 33 0.65
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:112860381 original size:29 final size:30
Alignment explanation
Indices: 112860334--112860395 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
112860324 AGAGACACCA
* *
112860334 AATCTGTTATCTTCGATCTGCTCCTCGCCT
1 AATCTGCTATCTTCAATCTGCTCCTCGCCT
*
112860364 AATCTGCT-TCTTCAATCTGCTCCTCGTCT
1 AATCTGCTATCTTCAATCTGCTCCTCGCCT
112860393 AAT
1 AAT
112860396 ACAGAGATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.40
Consensus pattern (30 bp):
AATCTGCTATCTTCAATCTGCTCCTCGCCT
Found at i:112860622 original size:78 final size:78
Alignment explanation
Indices: 112860493--112860863 Score: 595
Period size: 78 Copynumber: 4.8 Consensus size: 78
112860483 GAAAACATCC
* *
112860493 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
*
112860558 GATCTACTTCAAT
66 GATCTGCTTCAAT
*
112860571 GAAGGTCCA-ATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTT
1 GAAGGT-CAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTT
112860635 GGATCTGCTTCAAT
65 GGATCTGCTTCAAT
* *
112860649 GAAGGTCCA-ATCTGTTATGTCTTCGATCCACTCCCCGTCTAATACAGAGATGCCAAATCATCTT
1 GAAGGT-CAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTT
112860713 GGATCTGCTTCAAT
65 GGATCTGCTTCAAT
*
112860727 GAAGGTCAGATCTGCTGTGTCTTCGATC-AGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
1 GAAGGTCAGATCTGCTATGTCTTCGATCTA-CTCCCCGTCTAATACAGAGATGCCAAATCATCTT
112860791 GGATCTGCTTCAAT
65 GGATCTGCTTCAAT
* * **
112860805 GAAGGTCAGATCTGCTATGTCTTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATC
1 GAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATC
112860864 TATTTCTTCG
Statistics
Matches: 277, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
77 3 0.01
78 272 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (78 bp):
GAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
GATCTGCTTCAAT
Found at i:112869481 original size:35 final size:37
Alignment explanation
Indices: 112869418--112869496 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
112869408 ATTATAAAAT
112869418 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
112869454 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
112869489 CATATCAT
1 CATATCAT
112869497 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:112869494 original size:14 final size:15
Alignment explanation
Indices: 112869439--112869494 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
112869429 AGATTGCATA
112869439 TCATATCTAAGATTG
1 TCATATCTAAGATTG
112869454 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
112869472 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
112869489 -CATATC
1 TCATATC
112869495 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:112869504 original size:17 final size:19
Alignment explanation
Indices: 112869425--112869496 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
112869415 AATCATATCT
112869425 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
112869444 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
112869462 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
112869479 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
112869497 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:112870183 original size:12 final size:12
Alignment explanation
Indices: 112870150--112870187 Score: 58
Period size: 12 Copynumber: 3.0 Consensus size: 12
112870140 CTAAATTTGA
112870150 TCAAATTAAAGT
1 TCAAATTAAAGT
112870162 TCAAGGATTAAAGT
1 TCAA--ATTAAAGT
112870176 TCAAATTAAAGT
1 TCAAATTAAAGT
112870188 ACATTTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.50
14 12 0.50
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (12 bp):
TCAAATTAAAGT
Found at i:112874292 original size:23 final size:23
Alignment explanation
Indices: 112874265--112874308 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
112874255 AGTGGAAACT
112874265 AATAATA-TAATATAAAATAAAGA
1 AATAATAGTAATA-AAAATAAAGA
*
112874288 AATAATAGTAATAATAATAAA
1 AATAATAGTAATAAAAATAAA
112874309 TAAAATATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (23 bp):
AATAATAGTAATAAAAATAAAGA
Found at i:112874516 original size:9 final size:10
Alignment explanation
Indices: 112874493--112874530 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
112874483 ATACATTAAG
112874493 AATATATACA
1 AATATATACA
112874503 TAATATATACA
1 -AATATATACA
112874514 ATATATATAC-
1 A-ATATATACA
112874524 AATATAT
1 AATATAT
112874531 GCTTATACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 6 0.23
10 2 0.08
11 18 0.69
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (10 bp):
AATATATACA
Found at i:112874516 original size:20 final size:20
Alignment explanation
Indices: 112874493--112874530 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
112874483 ATACATTAAG
*
112874493 AATATATACATAATATATAC
1 AATATATACACAATATATAC
*
112874513 AATATATATACAATATAT
1 AATATATACACAATATAT
112874531 GCTTATACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (20 bp):
AATATATACACAATATATAC
Found at i:112874954 original size:17 final size:18
Alignment explanation
Indices: 112874918--112874958 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
112874908 ATAATAACAG
*
112874918 AATATTGATAATAGATAT
1 AATAATGATAATAGATAT
*
112874936 AATAATGATATTA-ATAT
1 AATAATGATAATAGATAT
112874953 AATAAT
1 AATAAT
112874959 ATTAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (18 bp):
AATAATGATAATAGATAT
Found at i:112876854 original size:89 final size:87
Alignment explanation
Indices: 112876697--112876860 Score: 229
Period size: 89 Copynumber: 1.9 Consensus size: 87
112876687 GAGTTGATTC
* * ** * * * *
112876697 TTGACAAACAGAAACTTAAAATACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGTAATATGA
1 TTGAAAAACAGAAACTGAAAATACCTCAGCGTGAGCCGAGGCCCAACTCACCTCTCGCAATATAA
112876762 GTTGACTTTTGACAAAAGAAAT
66 GTTGACTTTTGACAAAAGAAAT
112876784 TTGAAAAACAGAAACTGAAAATACCTCAGCATGTGAGCCGAGGCCCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAACTGAAAATACCTCAGC--GTGAGCCGAGGCCCAACTCACCTCTCGCAATAT
*
112876849 AAGTTGATTTTT
64 AAGTTGACTTTT
112876861 TTTTGAAACT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
87 28 0.42
89 38 0.58
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (87 bp):
TTGAAAAACAGAAACTGAAAATACCTCAGCGTGAGCCGAGGCCCAACTCACCTCTCGCAATATAA
GTTGACTTTTGACAAAAGAAAT
Found at i:112876964 original size:88 final size:87
Alignment explanation
Indices: 112876799--112876969 Score: 220
Period size: 88 Copynumber: 1.9 Consensus size: 87
112876789 AAACAGAAAC
* *
112876799 TGAAAATACCTCAGCATGTGAGCCGAGGCCCAACTCACCTCTCGCAATATAAGTTGATTTTTTTT
1 TGAAAATACCTCAGCATGTGACCCGAGGCCCAACTCACCTCTCACAATATAAGTTGA-TTTTTTT
* *
112876864 TGAAACTTAATTTGAAAAGATTT
65 TGAAAATGAATTTGAAAAGATTT
* * * *
112876887 TGAAAATACCTC-GTCATGTGACCCGGGGCTCAACTCACTTCTCACAATATGAGTTGA-TTTTTT
1 TGAAAATACCTCAG-CATGTGACCCGAGGCCCAACTCACCTCTCACAATATAAGTTGATTTTTTT
112876950 TGAAAAATAGAATTTGAAAA
65 TG-AAAAT-GAATTTGAAAA
112876970 TACCTCAGCG
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
86 8 0.11
87 5 0.07
88 59 0.82
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (87 bp):
TGAAAATACCTCAGCATGTGACCCGAGGCCCAACTCACCTCTCACAATATAAGTTGATTTTTTTT
GAAAATGAATTTGAAAAGATTT
Found at i:112877042 original size:252 final size:251
Alignment explanation
Indices: 112876626--112877222 Score: 688
Period size: 252 Copynumber: 2.4 Consensus size: 251
112876616 AAAAAACATT
* * * * * *
112876626 AAAACAGAAACTGAAAATAGCTCAGCGCATGAGCCAAGGCTTAACTCACTTCTCGTAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCG--TGACCCGAGGCTCAACTCACTTCTCGCAATATGAGT
* * * ** * *
112876691 TGATTCTTGACAAACAGAAACTT-AAAATACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGT
64 TGATTTTTGAAAAATAGAAA-TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACATCTCGC
* *
112876755 AATATGAGTTGACTTTTGACAAAAGAAATTTG-AAAAACAGAAACTGAAAATACCTCAGCATGTG
128 AATATGAGTTGACTTTTGACAAAAGAAAATTGAAAAAACAGAAACTGAAAATACCTCAGCACGTG
* * * *
112876819 AGCCGAGGCCCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTG-AAACT-TAATTTG
193 AACCAAGGCCCAACTCACCTCTCGCAATATAAGTTGA--CTTTTTTGAAAACTAGAATTTG
** * *
112876878 -AAA-AGATTTTGAAAATACCTC-GTCATGTGACCCGGGGCTCAACTCACTTCTCACAATATGAG
1 AAAACAGAAATTGAAAATACCTCAG-C--GTGACCCGAGGCTCAACTCACTTCTCGCAATATGAG
* *
112876940 TTGATTTTTTTGAAAAATAGAATTTGAAAATACCTCAGCGTGCCCTGAGGTTCAACTCACATCTC
63 TTGA--TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACATCTC
* * * *
112877005 GCAATATGAGTTGATTTTTGA-AAAATATAAATTGAAAAAAACAGAAATTGAAAATACCTCAGTA
126 GCAATATGAGTTGACTTTTGACAAAAGA-AAATTG-AAAAAACAGAAACTGAAAATACCTCAGCA
** * *
112877069 CGTGAACCAAGGTTCAACTCACCTCTCGCAATATGAGTTGACTTTTTTGAAAAGTAGAATTTG
189 CGTGAACCAAGGCCCAACTCACCTCTCGCAATATAAGTTGACTTTTTTGAAAACTAGAATTTG
* * *
112877132 AAAATCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTT
*
112877197 GATTTTTGAAAAATATAAATTGAAAA
65 GATTTTTGAAAAATAGAAATTGAAAA
112877223 GCAGAAATGG
Statistics
Matches: 288, Mismatches: 42, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
249 1 0.00
250 48 0.17
251 10 0.03
252 80 0.28
253 26 0.09
254 67 0.23
255 38 0.13
257 17 0.06
258 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (251 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
ATTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACATCTCGCAAT
ATGAGTTGACTTTTGACAAAAGAAAATTGAAAAAACAGAAACTGAAAATACCTCAGCACGTGAAC
CAAGGCCCAACTCACCTCTCGCAATATAAGTTGACTTTTTTGAAAACTAGAATTTG
Found at i:112877100 original size:91 final size:89
Alignment explanation
Indices: 112876952--112877222 Score: 377
Period size: 89 Copynumber: 3.0 Consensus size: 89
112876942 GATTTTTTTG
* * * *
112876952 AAAAATAGAATTTGAAAATACCTCAGCGTGCCCTGAGGTTCAACTCACATCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGTT
112877017 GATTTTTGAAAAATATAAATTGAA
66 GATTTTTGAAAAATATAAATTGAA
*
112877041 AAAAACAGAAATTGAAAATACCTCAGTACGTGAACC-AAGGTTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAG--CGTG-ACCTGAGGTTCAACTCACCTCTCGCAATATGA
* * *
112877105 GTTGACTTTTTTGAAAAGTAGAATTTG--
63 GTTGA--TTTTTGAAAAATATAAATTGAA
* * *
112877132 AAAATCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGTT
112877197 GATTTTTGAAAAATATAAATTGAA
66 GATTTTTGAAAAATATAAATTGAA
112877221 AA
1 AA
112877223 GCAGAAATGG
Statistics
Matches: 159, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
87 17 0.11
88 2 0.01
89 61 0.38
91 60 0.38
92 2 0.01
93 17 0.11
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (89 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAATATAAATTGAA
Found at i:112877221 original size:14 final size:14
Alignment explanation
Indices: 112877213--112877264 Score: 86
Period size: 14 Copynumber: 3.7 Consensus size: 14
112877203 TGAAAAATAT
112877213 AAATTGAAAAGCAG
1 AAATTGAAAAGCAG
* *
112877227 AAATGGAAAAGTAG
1 AAATTGAAAAGCAG
112877241 AAATTGAAAAGCAG
1 AAATTGAAAAGCAG
112877255 AAATTGAAAA
1 AAATTGAAAA
112877265 TACCTCAGCG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.60, C:0.04, G:0.21, T:0.15
Consensus pattern (14 bp):
AAATTGAAAAGCAG
Found at i:112877244 original size:28 final size:28
Alignment explanation
Indices: 112877204--112877264 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
112877194 GTTGATTTTT
*
112877204 GAAAAATATAAATTGAAAAGCAGAAATG
1 GAAAAATAGAAATTGAAAAGCAGAAATG
* *
112877232 GAAAAGTAGAAATTGAAAAGCAGAAATT
1 GAAAAATAGAAATTGAAAAGCAGAAATG
112877260 GAAAA
1 GAAAA
112877265 TACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.61, C:0.03, G:0.20, T:0.16
Consensus pattern (28 bp):
GAAAAATAGAAATTGAAAAGCAGAAATG
Found at i:112877383 original size:89 final size:88
Alignment explanation
Indices: 112877230--112877434 Score: 342
Period size: 89 Copynumber: 2.3 Consensus size: 88
112877220 AAAGCAGAAA
*
112877230 TGGAAAAGTAGAAATTGAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
1 TGGAAAAGTAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
112877295 CTCTCGCAATATGAGTTGATTTTT
66 CTCTCGCAATATGAGTTGA-TTTT
* * * *
112877319 TTGAAAAGTAGAATTTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
1 TGGAAAAGTAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
112877384 CTCTCGCAATATGAGTTGATTTT
66 CTCTCGCAATATGAGTTGATTTT
112877407 TGGAAAAGTAGAAATT-AAAAACA-AAATT
1 TGGAAAAGTAGAAATTGAAAAACAGAAATT
112877435 TTGAACAACA
Statistics
Matches: 108, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
86 5 0.05
87 6 0.06
88 18 0.17
89 79 0.73
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (88 bp):
TGGAAAAGTAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTT
Found at i:112877398 original size:204 final size:206
Alignment explanation
Indices: 112877041--112877427 Score: 645
Period size: 204 Copynumber: 1.9 Consensus size: 206
112877031 ATAAATTGAA
*
112877041 AAAAACAGAAATTGAAAATACCTCAGTACGTGAACCAAGGTTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAG-ACGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAG
*
112877106 TTGACTTTTTTGAAAAGTAGAATTTGAAAATCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGC
65 TTGACTTTTTTGAAAAGTAGAATTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGC
* *
112877171 TCAACTCACCTCTCGCAATATGAGTTGATTTTT-GAAAAATATAAATTGAAAAGCAGAAATGGAA
130 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAAATTAAAAAGCAGAAATGGAA
112877235 AAGTAGAAATTG
195 AAGTAGAAATTG
* * *
112877247 AAAAGCAGAAATTGAAAATACCTCAG-CGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGACGTGAACC-AAGGCTCAACTCACCTCTCGCAATATGAG
* *
112877310 TTGATTTTTTTGAAAAGTAGAATTTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGC
65 TTGACTTTTTTGAAAAGTAGAATTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGC
*
112877375 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAGTAGAAATTAAAAA
130 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAAATTAAAAA
112877428 CAAAATTTTG
Statistics
Matches: 169, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
203 2 0.01
204 126 0.75
205 16 0.09
206 25 0.15
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (206 bp):
AAAAACAGAAATTGAAAATACCTCAGACGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGACTTTTTTGAAAAGTAGAATTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCT
CAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAAATTAAAAAGCAGAAATGGAAA
AGTAGAAATTG
Found at i:112890028 original size:23 final size:23
Alignment explanation
Indices: 112890001--112890044 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
112889991 AGTGGAAACT
112890001 AATAATA-TAATATAAAATAAAGA
1 AATAATAGTAATA-AAAATAAAGA
*
112890024 AATAATAGTAATAATAATAAA
1 AATAATAGTAATAAAAATAAA
112890045 TAAAATATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (23 bp):
AATAATAGTAATAAAAATAAAGA
Found at i:112890255 original size:11 final size:11
Alignment explanation
Indices: 112890241--112890266 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
112890231 TATATGCATA
112890241 ATATATACAAT
1 ATATATACAAT
112890252 ATATATACAAT
1 ATATATACAAT
112890263 ATAT
1 ATAT
112890267 GCTTATACTA
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:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (11 bp):
ATATATACAAT
Found at i:112890360 original size:19 final size:19
Alignment explanation
Indices: 112890332--112890379 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
112890322 ATGTACCTAT
* *
112890332 ATATATTAAAGATATA-TA
1 ATATAATAAACATATACTA
112890350 CATATAATAAACATATACTA
1 -ATATAATAAACATATACTA
112890370 ATATTAATAA
1 ATA-TAATAA
112890380 TAATAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.35
Consensus pattern (19 bp):
ATATAATAAACATATACTA
Found at i:112890474 original size:22 final size:22
Alignment explanation
Indices: 112890397--112890481 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 22
112890387 AATAAAGATA
*
112890397 ATATA-AAAATACATACATGAA-
1 ATATATAAAATATATACAT-AAC
*
112890418 ATAGTATAAAA-ATATATATAAC
1 ATA-TATAAAATATATACATAAC
*
112890440 TAATAACATTAAAATATATACATAAC
1 --AT-ATA-TAAAATATATACATAAC
112890466 ATATATAAAATATATA
1 ATATATAAAATATATA
112890482 ATTGATAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
21 5 0.10
22 19 0.37
23 6 0.12
24 5 0.10
25 6 0.12
26 10 0.20
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
ATATATAAAATATATACATAAC
Found at i:112890480 original size:24 final size:22
Alignment explanation
Indices: 112890397--112890481 Score: 66
Period size: 24 Copynumber: 3.7 Consensus size: 22
112890387 AATAAAGATA
*
112890397 ATATAAAAATACATACATGAAAT
1 ATATAAAAATATATACAT-AAAT
*
112890420 AGTATAAAAATATATATA-ACTAAT
1 A-TATAAAAATATATACATA--AAT
* *
112890444 AACATTAAAATATATACATAACAT
1 -ATATAAAAATATATACATAA-AT
112890468 ATAT-AAAATATATA
1 ATATAAAAATATATA
112890482 ATTGATAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
22 11 0.22
23 5 0.10
24 32 0.64
25 2 0.04
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
ATATAAAAATATATACATAAAT
Found at i:112898094 original size:26 final size:26
Alignment explanation
Indices: 112898057--112898138 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
112898047 TGATACAAAT
112898057 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
112898083 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
112898109 TGATAATAGTTTAGGTAAATGTTCCG
1 TGATAATAGGTTAGGTAAATGTTCCA
112898135 TGAT
1 TGAT
112898139 GGGCATTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:112900804 original size:67 final size:67
Alignment explanation
Indices: 112900696--112900828 Score: 239
Period size: 67 Copynumber: 2.0 Consensus size: 67
112900686 ACTAAGTAAG
* *
112900696 TTTTTCTGGTTCAACAATATAAAATGTTTTGAATGCTTCGATGTGGCATGCCGGATCCGGCCATA
1 TTTTTCTGGTTCAACAATATAAAACGTTTTGAATGCTTCGATGTGGCATGCCGGATCCGACCATA
112900761 AA
66 AA
*
112900763 TTTTTCTGGTTCAACAATATAAAACGTTTTGAATGCTTCGATGTGGCATGCCGGATTCGACCATA
1 TTTTTCTGGTTCAACAATATAAAACGTTTTGAATGCTTCGATGTGGCATGCCGGATCCGACCATA
112900828 A
66 A
112900829 CTTCTGGGCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (67 bp):
TTTTTCTGGTTCAACAATATAAAACGTTTTGAATGCTTCGATGTGGCATGCCGGATCCGACCATA
AA
Found at i:112907428 original size:32 final size:32
Alignment explanation
Indices: 112907392--112907461 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
112907382 ATTACATTCG
112907392 ATCATTGAGTTTTTAAGCATTCAAGTTTAAGT
1 ATCATTGAGTTTTTAAGCATTCAAGTTTAAGT
112907424 ATCATTGAGTTTTTAAGCATTCAAGTTTAAGT
1 ATCATTGAGTTTTTAAGCATTCAAGTTTAAGT
*
112907456 TTCATT
1 ATCATT
112907462 ATATGTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (32 bp):
ATCATTGAGTTTTTAAGCATTCAAGTTTAAGT
Found at i:112908785 original size:3 final size:3
Alignment explanation
Indices: 112908777--112909062 Score: 108
Period size: 3 Copynumber: 95.3 Consensus size: 3
112908767 TATTTTGCTA
* * * *
112908777 TAT TAT TAT TAA AAT TGATT TAT T-T TAT T-T TAT TGT TAAT TCT -AT
1 TAT TAT TAT TAT TAT T-A-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT
** * * *
112908822 TAT TAT TGC TAT TAT TAT TGT TAT TACT T-T TAT TCT T-T TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * * * * *
112908866 TAT TGT TGT TGT TAT T-T CTCT TGT TGT TTT TAT TAT TAT T-T ATAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT
** * * *
112908911 TAT CGT TAT TAT TAT TAT TAT TCCT TAG T-T TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
** * * * * *
112908956 T-T TAT CGT TAT TTT CTAT CAT TGT TAT TAT TAA TA- TAC TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
112909000 TAT TTT TAT TAAT GTAT TAT TAT TAT TAT TAT TTT CTAC T-T TAT TAT
1 TAT TAT TAT T-AT -TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
*
112909047 TAT TAT TAT TAC TAT T
1 TAT TAT TAT TAT TAT T
112909063 GCTATCATCA
Statistics
Matches: 209, Mismatches: 52, Indels: 44
0.69 0.17 0.14
Matches are distributed among these distances:
2 16 0.08
3 173 0.83
4 17 0.08
5 3 0.01
ACGTcount: A:0.26, C:0.06, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:112908996 original size:23 final size:23
Alignment explanation
Indices: 112908970--112909062 Score: 95
Period size: 23 Copynumber: 4.2 Consensus size: 23
112908960 TCGTTATTTT
* *
112908970 CTATCATTGTTATTATTAATATA
1 CTATTATTATTATTATTAATATA
* *
112908993 CTATTATTATTTTTATTAATGTA
1 CTATTATTATTATTATTAATATA
* * *
112909016 TTATTATTATTATTATT-TTCTA
1 CTATTATTATTATTATTAATATA
112909038 CT-TTATTATTATTATT-AT-TA
1 CTATTATTATTATTATTAATATA
112909058 CTATT
1 CTATT
112909063 GCTATCATCA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
20 4 0.07
21 17 0.29
22 4 0.07
23 34 0.58
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.61
Consensus pattern (23 bp):
CTATTATTATTATTATTAATATA
Found at i:112911948 original size:48 final size:48
Alignment explanation
Indices: 112911872--112911973 Score: 186
Period size: 48 Copynumber: 2.1 Consensus size: 48
112911862 ATGAACATTG
* *
112911872 CAAGGATAAGTGAGCAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
1 CAAGTATAAGTGAGAAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
112911920 CAAGTATAAGTGAGAAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
1 CAAGTATAAGTGAGAAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
112911968 CAAGTA
1 CAAGTA
112911974 GAAGCATTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.45, C:0.16, G:0.25, T:0.14
Consensus pattern (48 bp):
CAAGTATAAGTGAGAAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
Found at i:112914078 original size:47 final size:48
Alignment explanation
Indices: 112914004--112914104 Score: 186
Period size: 47 Copynumber: 2.1 Consensus size: 48
112913994 ATGAACATTG
*
112914004 CAAGGATAAGTGAGCAATGAGTCGCAACCT-GATCGAGCAAAAAGAAA
1 CAAGTATAAGTGAGCAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
112914051 CAAGTATAAGTGAGCAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
1 CAAGTATAAGTGAGCAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
112914099 CAAGTA
1 CAAGTA
112914105 GAAGCATTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 29 0.56
48 23 0.44
ACGTcount: A:0.45, C:0.17, G:0.25, T:0.14
Consensus pattern (48 bp):
CAAGTATAAGTGAGCAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
Found at i:112916211 original size:48 final size:48
Alignment explanation
Indices: 112916135--112916236 Score: 177
Period size: 48 Copynumber: 2.1 Consensus size: 48
112916125 ATGAACATTG
*
112916135 CAAGGATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
1 CAAGTATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
* *
112916183 TAAGTATAAGTGAGCAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
1 CAAGTATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
112916231 CAAGTA
1 CAAGTA
112916237 GAAGCATTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.45, C:0.16, G:0.25, T:0.15
Consensus pattern (48 bp):
CAAGTATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
Found at i:112918364 original size:47 final size:48
Alignment explanation
Indices: 112918264--112918364 Score: 186
Period size: 48 Copynumber: 2.1 Consensus size: 48
112918254 ATGAACATTG
*
112918264 CAAGGATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
1 CAAGTATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
112918312 CAAGTATAAGTGAGCAATGAGTCGCAACCT-GATCGAGCAAAAAGAAA
1 CAAGTATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
112918359 CAAGTA
1 CAAGTA
112918365 GAAGCATTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 23 0.44
48 29 0.56
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.14
Consensus pattern (48 bp):
CAAGTATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
Found at i:112920431 original size:24 final size:24
Alignment explanation
Indices: 112920404--112920481 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
112920394 AAGGATAAGT
112920404 GAGCAATGAGTCGCAACCTAGATC
1 GAGCAATGAGTCGCAACCTAGATC
** *** * *
112920428 GAGCAAAAAGAAACAA-GTATAAGT-
1 GAGCAATGAGTCGCAACCTA-GA-TC
112920452 GAGCAATGAGTCGCAACCTAGATC
1 GAGCAATGAGTCGCAACCTAGATC
112920476 GAGCAA
1 GAGCAA
112920482 AAAGAAACAA
Statistics
Matches: 36, Mismatches: 14, Indels: 8
0.62 0.24 0.14
Matches are distributed among these distances:
23 3 0.08
24 30 0.83
25 3 0.08
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.14
Consensus pattern (24 bp):
GAGCAATGAGTCGCAACCTAGATC
Found at i:112920469 original size:48 final size:48
Alignment explanation
Indices: 112920393--112920494 Score: 195
Period size: 48 Copynumber: 2.1 Consensus size: 48
112920383 ATGAACATTG
*
112920393 CAAGGATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
1 CAAGTATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
112920441 CAAGTATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
1 CAAGTATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
112920489 CAAGTA
1 CAAGTA
112920495 GAAGCATTCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.14
Consensus pattern (48 bp):
CAAGTATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
Found at i:112922602 original size:48 final size:48
Alignment explanation
Indices: 112922526--112922627 Score: 186
Period size: 48 Copynumber: 2.1 Consensus size: 48
112922516 ATGAACATTG
*
112922526 CAAGGATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
1 CAAGTATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
*
112922574 CAAGTATAAGTGAGCAATGAGTCGCAACCTGGATCGAGCAAAAAGAAA
1 CAAGTATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
112922622 CAAGTA
1 CAAGTA
112922628 GAAGCATTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.45, C:0.17, G:0.25, T:0.14
Consensus pattern (48 bp):
CAAGTATAAGTGAGCAATGAGTCGCAACCTAGATCGAGCAAAAAGAAA
Found at i:112926005 original size:44 final size:45
Alignment explanation
Indices: 112925956--112926070 Score: 146
Period size: 44 Copynumber: 2.6 Consensus size: 45
112925946 TTCACCCAGC
*
112925956 CTTATCTCCCTGAAGTAGCAATGGAGCAGACCGAAGATTGTAG-T
1 CTTATCTCCCTGAAGTAGCAATGGAGCAGACCGAAGATTGAAGAT
* * * *
112926000 CTTATCTTCTTGAGGTAGCAA-GGAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCCCTGAAGTAGCAATGG-AGCAGACCGAAGATTGAAGAT
112926045 CTTATCTCCCTG-AGATAGCAATGGAG
1 CTTATCTCCCTGAAG-TAGCAATGGAG
112926071 TAGATCAAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
43 2 0.03
44 36 0.61
45 19 0.32
46 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTAGCAATGGAGCAGACCGAAGATTGAAGAT
Found at i:112926265 original size:187 final size:178
Alignment explanation
Indices: 112925951--112926456 Score: 640
Period size: 187 Copynumber: 2.8 Consensus size: 178
112925941 GTGGATTCAC
* * * ***
112925951 CCAGCCTTATCTCCCTGAAGTAGCAATG-GAGCAGACCGAAGATTGTAGTCTTATCTTCTTGAGG
1 CCAGCCTTATCTCTCTGAGGTAGCAA-GAGAGTAGGTTGAAGATTGTAGTCTTATCTTCTTGAGG
* * * *
112926015 TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTGAGATAGCAATGGAGTAGATCAAA
65 TAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCTTGAGATAGTAGTGGAGCAGATCAAA
* *
112926080 GATGGCGAATCTTATCTTCTCAAGGTAGCAGGGAAACTGATTTTAGCCA
130 GATGGCGAATCTTATCTTCTCAAGGTAACAGGGAAACAGATTTTAGCCA
*
112926129 CCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGCCGAAGATTGTTGAAGATTGTTGTCTTATC
1 CCAGCCTTATCTCTCTGAGGTAGCAAGAGAGT-------AG---GTTGAAGATTGTAGTCTTATC
* * *
112926194 TTCTTGAGGTAGC-AGGAAGCAAACTAAAGATTGAAGATCTTATCTCCTTGAGATAATAGTGGAG
56 TTCTTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCTTGAGATAGTAGTGGAG
* * *
112926258 CAGATCAAAGATGGTGAATCTTATCTTCTCGAGGTAACAGGGAAGCAGATTTTAGCCA
121 CAGATCAAAGATGGCGAATCTTATCTTCTCAAGGTAACAGGGAAACAGATTTTAGCCA
* * *
112926316 CCAGCCTTATCTTTCTGAGGTAGCAAGAGAGTAGGTTGAAGATTGTAGTCTTATCTTCCTGAGAT
1 CCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGATTGTAGTCTTATCTTCTTGAGGT
* * * *
112926381 AGCAAGGAAGCAGACTGATGA-TGTAGATCTTGTCTCCTTGAGATAGTAGTGAAGCAGATCAAAG
66 AGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCTTGAGATAGTAGTGGAGCAGATCAAAG
* *
112926445 ACGGCAAATCTT
131 ATGGCGAATCTT
112926457 GTCTCCTTAA
Statistics
Matches: 283, Mismatches: 33, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
177 80 0.28
178 41 0.14
180 2 0.01
185 2 0.01
187 128 0.45
188 30 0.11
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (178 bp):
CCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGATTGTAGTCTTATCTTCTTGAGGT
AGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCTTGAGATAGTAGTGGAGCAGATCAAAG
ATGGCGAATCTTATCTTCTCAAGGTAACAGGGAAACAGATTTTAGCCA
Found at i:112926305 original size:45 final size:46
Alignment explanation
Indices: 112926187--112926307 Score: 119
Period size: 45 Copynumber: 2.7 Consensus size: 46
112926177 AAGATTGTTG
* *
112926187 TCTTATCTTCTTGAGGTAGCA-GGAAGCA-AACTAAAGATTGAAGA
1 TCTTATCTTCTTGAGGTAACAGGGAAGCAGATCTAAAGATTGAAGA
* * *
112926231 TCTTATCTCCTTGAGATAATAGTGG-AGCAGATC-AAAGATGGTG-A-A
1 TCTTATCTTCTTGAGGTAACAG-GGAAGCAGATCTAAAGAT--TGAAGA
*
112926276 TCTTATCTTCTCGAGGTAACAGGGAAGCAGAT
1 TCTTATCTTCTTGAGGTAACAGGGAAGCAGAT
112926308 TTTAGCCACC
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
44 19 0.31
45 36 0.58
46 5 0.08
47 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (46 bp):
TCTTATCTTCTTGAGGTAACAGGGAAGCAGATCTAAAGATTGAAGA
Found at i:112926561 original size:44 final size:44
Alignment explanation
Indices: 112926498--112926661 Score: 197
Period size: 44 Copynumber: 3.7 Consensus size: 44
112926488 GCCACTATCC
112926498 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAAATCT
* * * *
112926542 TATCTCCCTAAACAATAGTGGAGTAGGCTGAAGATTACAGATTT
1 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAAATCT
* * * **
112926586 TATCTCCCTAAGCAGTAGTGGAGCA-GATCGAAGA-CAGTGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGGCT-GAAGATTA-CAAATCT
* *
112926630 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAA
1 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
112926662 ATCAATAGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.03
44 98 0.95
45 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAAATCT
Found at i:112926675 original size:44 final size:44
Alignment explanation
Indices: 112926453--112926680 Score: 182
Period size: 44 Copynumber: 5.2 Consensus size: 44
112926443 AGACGGCAAA
* * * * * *
112926453 TCTTGTCTCCTTAAGCAGTAGTGGAGCAGATTTAAG-CCACTA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATCAATAG
* * *
112926495 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAA-A-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGA-T-CAATAG
* * * * * *
112926539 TCTTATCTCCCTAAACAATAGTGGAGTAGGCTGAAGAT-TACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATCAATAG
* * * * *
112926582 ATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CAGTGAA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATCAAT-AG
112926627 TCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAA-ATCAATAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATCAATAG
112926670 TTCTTATCTCC
1 -TCTTATCTCC
112926681 TTGAAGTTCC
Statistics
Matches: 147, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 30 0.20
43 3 0.02
44 110 0.75
45 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATCAATAG
Found at i:112926677 original size:88 final size:88
Alignment explanation
Indices: 112926425--112926680 Score: 236
Period size: 88 Copynumber: 2.9 Consensus size: 88
112926415 TCCTTGAGAT
* * * * * * * **
112926425 AGTAGTGAAGCAGATCAAAGACGGCAAATCTTGTCTCCTTAAGCAGTAGTGGAGCAGATTTAAGC
1 AGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAAT
* *
112926490 CACTA--TCCTATCTCCCTAAGC
66 CAATAGTTCTTATCTCCCTAAGC
* * * * * * *
112926511 AGTAGTGGAGTAG-GCTGAAGATTA-CAAATCTTATCTCCCTAAACAATAGTGGAGTAGGCTGAA
1 AGTAGTGGAGCAGATC-GAAGA-CAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAA
* *
112926574 GAT-TACAGATT-TTATCTCCCTAAGC
64 -ATCAATAG-TTCTTATCTCCCTAAGC
**
112926599 AGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAAT
1 AGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAAT
112926664 CAATAGTTCTTATCTCC
66 CAATAGTTCTTATCTCC
112926681 TTGAAGTTCC
Statistics
Matches: 129, Mismatches: 31, Indels: 18
0.72 0.17 0.10
Matches are distributed among these distances:
85 1 0.01
86 47 0.36
87 5 0.04
88 74 0.57
89 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (88 bp):
AGTAGTGGAGCAGATCGAAGACAGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAAT
CAATAGTTCTTATCTCCCTAAGC
Found at i:112926724 original size:88 final size:87
Alignment explanation
Indices: 112926674--112927711 Score: 1206
Period size: 88 Copynumber: 11.8 Consensus size: 87
112926664 CAATAGTTCT
* * * *
112926674 TATCTCCTTGAAGTTCCAGCGGAGTTGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCATTG
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTG-AATAGCATTG
*
112926739 GAGCGGCTCGAAGCCACAATTCT
65 GAGCGGCTCGAAGCCACAATTCG
* * * * * * * *
112926762 TATGTCCTTGAAGTTTCAGCGGAATAGATTGAAACTACAAATCTCTTCTCCCTAAATTGGTATTA
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA-TAGCATTG
*
112926827 GAGCGGCTCGAAGCCACAATTCT
65 GAGCGGCTCGAAGCCACAATTCG
* * * * * *
112926850 TATCTCTTTGAAGTTTCAGCGGAATAGATCGAAACTACAAATCTCTCCTCCTTGAATTGGCATTG
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA-TAGCATTG
112926915 GAGCGGCTCGAAGCCACAATTCG
65 GAGCGGCTCGAAGCCACAATTCG
* *
112926938 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA-ATGACACT
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAATA-G-CATT
* *
112927002 GGAGCAGCTCGAAGCCACAATCCG
64 GGAGCGGCTCGAAGCCACAATTCG
* * * * * *
112927026 TATCTCCTTAAAGTTTTAGCGGAGTAGATTGAAGCTACAAATCTCTTCT-CCTTAAAATGACACT
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAATA-G-CATT
112927090 -GACGCGGCTCGAAGCCACAATTCG
64 GGA-GCGGCTCGAAGCCACAATTCG
* * * * * *
112927114 TATCTTCTTAAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTATTTTCCCTGAA-ATGACACT
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAATA-G-CATT
* *
112927178 AGAGCGGCTCGAAGCCACAATCCG
64 GGAGCGGCTCGAAGCCACAATTCG
* * *
112927202 TATCTCCTTGAAGTTTCAACAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA-ACGACACT
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAATA-G-CATT
* *
112927266 AGAGCGGCCCGAAGCCACAA-TCTG
64 GGAGCGGCTCGAAGCCACAATTC-G
* * * * * *
112927290 TATCTCCTTGAAGTTTCAACAGAGTAGATCGAAGCTACAAATATCTTCTCCCTAAAATGGTATTG
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCT-GAATAGCATTG
*
112927355 GAGCGGCTCGAAGTCACAATTCG
65 GAGCGGCTCGAAGCCACAATTCG
* * * *
112927378 TATCTCCTTGAAGTTTCAGCGGAATAGATCGAAACTACAAATCTTTTCTCCCTGAATTGTCATTG
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAATAG-CATTG
* * *
112927443 AAGCAGCTCGAAGCCACAATTCT
65 GAGCGGCTCGAAGCCACAATTCG
* * * * *
112927466 TATCTCCTTGAAGTTTCAACGGAATAGATCGAAACTACAAATCTCTTCTCCCTGAAATGGCGTTG
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTG-AATAGCATTG
*
112927531 GAGCGGCTCAAAGCCACAATTCG
65 GAGCGGCTCGAAGCCACAATTCG
* * * * *
112927554 TATCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTTCCTGAAATGGCACTG
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTG-AATAGCATTG
* * * * *
112927619 GCGTGGCTCAAAGCTATAATTCG
65 GAGCGGCTCGAAGCCACAATTCG
*
112927642 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATAACATTG
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTG-AATAGCATTG
112927707 GAGCG
65 GAGCG
112927712 ATTAAAACCA
Statistics
Matches: 834, Mismatches: 103, Indels: 26
0.87 0.11 0.03
Matches are distributed among these distances:
87 15 0.02
88 803 0.96
89 16 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (87 bp):
TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAATAGCATTGG
AGCGGCTCGAAGCCACAATTCG
Found at i:112926882 original size:176 final size:176
Alignment explanation
Indices: 112926674--112927711 Score: 1355
Period size: 176 Copynumber: 5.9 Consensus size: 176
112926664 CAATAGTTCT
* * *
112926674 TATCTCCTTGAAGTTCCAGCGGAGTTGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCATTG
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCACTG
* * * * *
112926739 GAGCGGCTCGAAGCCACAATTCTTATGTCCTTGAAGTTTCAGCGGAATAGATTGAAACTACAAAT
66 GAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAAT
* * *
112926804 CTCTTCTCCCT-AAATTGGTATTAGAGCGGCTCGAAGCCACAATTCT
131 CTCTTCTCCCTGAAA-TGGCATTGGAGCGGCTCGAAGCCACAATTCG
* * * * * *
112926850 TATCTCTTTGAAGTTTCAGCGGAATAGATCGAAACTACAAATCTCTCCTCCTTGAATTGGCATTG
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCACTG
*
112926915 GAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAAT
66 GAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAAT
* * * *
112926980 CTCTTCTCCCTGAAATGACACTGGAGCAGCTCGAAGCCACAATCCG
131 CTCTTCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCCACAATTCG
* * * * *
112927026 TATCTCCTTAAAGTTTTAGCGGAGTAGATTGAAGCTACAAATCTCTTCTCCTTAAAATGACACT-
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCACTG
* * *
112927090 GACGCGGCTCGAAGCCACAATTCGTATCTTCTTAAAGTTTCAGTGGAGTAGATCGAAGCTACAAA
66 GA-GCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAA
* * * * * *
112927155 TCTATTTTCCCTGAAATGACACTAGAGCGGCTCGAAGCCACAATCCG
130 TCTCTTCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCCACAATTCG
* * * * * *
112927202 TATCTCCTTGAAGTTTCAACAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAACGACACTA
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCACTG
* * *
112927267 GAGCGGCCCGAAGCCACAA-TCTGTATCTCCTTGAAGTTTCAACAGAGTAGATCGAAGCTACAAA
66 GAGCGGCTCGAAGCCACAATTC-GTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAA
* * * *
112927331 TATCTTCTCCCTAAAATGGTATTGGAGCGGCTCGAAGTCACAATTCG
130 TCTCTTCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCCACAATTCG
* * * * * * *
112927378 TATCTCCTTGAAGTTTCAGCGGAATAGATCGAAACTACAAATCTTTTCTCCCTGAATTGTCATTG
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCACTG
* * * * * *
112927443 AAGCAGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAACGGAATAGATCGAAACTACAAAT
66 GAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAAT
* *
112927508 CTCTTCTCCCTGAAATGGCGTTGGAGCGGCTCAAAGCCACAATTCG
131 CTCTTCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCCACAATTCG
* *
112927554 TATCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTTCC-TGAAATGGCACT
1 TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTC-TCCTTGAAATGGCACT
* * * * *
112927618 GGCGTGGCTCAAAGCTATAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAA
65 GGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAA
**
112927683 TCTCTTCTCCCTGAAATAACATTGGAGCG
130 TCTCTTCTCCCTGAAATGGCATTGGAGCG
112927712 ATTAAAACCA
Statistics
Matches: 748, Mismatches: 108, Indels: 12
0.86 0.12 0.01
Matches are distributed among these distances:
175 4 0.01
176 734 0.98
177 10 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (176 bp):
TATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCACTG
GAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAAT
CTCTTCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCCACAATTCG
Found at i:112927014 original size:264 final size:264
Alignment explanation
Indices: 112926674--112927711 Score: 1378
Period size: 264 Copynumber: 3.9 Consensus size: 264
112926664 CAATAGTTCT
* * * * *
112926674 TATCTCCTTGAAGTTCCAGCGGAGTTGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCATTG
1 TATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGACACTG
* * * * *
112926739 GAGCGGCTCGAAGCCACAATTCTTATGTCCTTGAAGTTTCAGCGGAATAGATTGAAACTACAAAT
66 GAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAAT
* * * * * *
112926804 CTCTTCTCCCTAAATTGGTATTAGAGCGGCTCGAAGCCACAATTCTTATCTCTTTGAAGTTTCAG
131 CTCTTCTCCCTAAAATGGCACTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAG
* * * *
112926869 CGGAATAGATCGAAACTACAAATCTCTCCTCCTTGAATTGGCATTGGAGCGGCTCGAAGCCACAA
196 CGGAATAGATCGAAACTACAAATCTCTTCTCCCTGAAATGACATTGGAGCGGCTCGAAGCCACAA
112926934 TTCG
261 TTCG
*
112926938 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGACACTG
1 TATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGACACTG
* * * * *
112927003 GAGCAGCTCGAAGCCACAATCCGTATCTCCTTAAAGTTTTAGCGGAGTAGATTGAAGCTACAAAT
66 GAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAAT
* * * *
112927068 CTCTTCTCCTTAAAATGACACT-GACGCGGCTCGAAGCCACAATTCGTATCTTCTTAAAGTTTCA
131 CTCTTCTCCCTAAAATGGCACTGGA-GCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCA
* * * * * * *
112927132 GTGGAGTAGATCGAAGCTACAAATCTATTTTCCCTGAAATGACACTAGAGCGGCTCGAAGCCACA
195 GCGGAATAGATCGAAACTACAAATCTCTTCTCCCTGAAATGACATTGGAGCGGCTCGAAGCCACA
*
112927197 ATCCG
260 ATTCG
* * * *
112927202 TATCTCCTTGAAGTTTCAACAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAACGACACTA
1 TATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGACACTG
* * *
112927267 GAGCGGCCCGAAGCCACAA-TCTGTATCTCCTTGAAGTTTCAACAGAGTAGATCGAAGCTACAAA
66 GAGCGGCTCGAAGCCACAATTC-GTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAA
* * * *
112927331 TATCTTCTCCCTAAAATGGTATTGGAGCGGCTCGAAGTCACAATTCGTATCTCCTTGAAGTTTCA
130 TCTCTTCTCCCTAAAATGGCACTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCA
* * * * *
112927396 GCGGAATAGATCGAAACTACAAATCTTTTCTCCCTGAATTGTCATTGAAGCAGCTCGAAGCCACA
195 GCGGAATAGATCGAAACTACAAATCTCTTCTCCCTGAAATGACATTGGAGCGGCTCGAAGCCACA
*
112927461 ATTCT
260 ATTCG
* * * * **
112927466 TATCTCCTTGAAGTTTCAACGGAATAGATCGAAACTACAAATCTCTTCTCCCTGAAATGGCGTTG
1 TATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGACACTG
* * *
112927531 GAGCGGCTCAAAGCCACAATTCGTATCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAAT
66 GAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAAT
* * * * * * *
112927596 CTCTTCTTCCTGAAATGGCACTGGCGTGGCTCAAAGCTATAATTCGTATCTCCTTGAAGTTTCAG
131 CTCTTCTCCCTAAAATGGCACTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAG
* * *
112927661 CGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATAACATTGGAGCG
196 CGGAATAGATCGAAACTACAAATCTCTTCTCCCTGAAATGACATTGGAGCG
112927712 ATTAAAACCA
Statistics
Matches: 670, Mismatches: 100, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
263 3 0.00
264 663 0.99
265 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (264 bp):
TATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGACACTG
GAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAAT
CTCTTCTCCCTAAAATGGCACTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAG
CGGAATAGATCGAAACTACAAATCTCTTCTCCCTGAAATGACATTGGAGCGGCTCGAAGCCACAA
TTCG
Found at i:112928064 original size:45 final size:43
Alignment explanation
Indices: 112928005--112928157 Score: 146
Period size: 45 Copynumber: 3.4 Consensus size: 43
112927995 CCTTTTCCCC
* *
112928005 CTGAAGTTGTAGTGGGGCAAGTTGAAATCAACAATTCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAAGTTGAAAT-AACAA-TCTTATCTCT
* * * * *
112928050 ATGAAGTTGCAGTGGAGC-AGACTGAAGATAGAAAACCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAAG-TTGAA-ATA-ACAATCTTATCTCT
* *
112928095 CTGAAGTTGCAGTGGAGCAGGTTGAAATGACAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAAGTTGAAATAACA-ATCTTATCTCT
* *
112928139 CTGAAGTTGTAGTAGAGCA
1 CTGAAGTTGCAGTGGAGCA
112928158 GATCATAGCA
Statistics
Matches: 87, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
43 2 0.02
44 30 0.34
45 49 0.56
46 6 0.07
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (43 bp):
CTGAAGTTGCAGTGGAGCAAGTTGAAATAACAATCTTATCTCT
Found at i:112928076 original size:89 final size:89
Alignment explanation
Indices: 112927949--112928159 Score: 248
Period size: 89 Copynumber: 2.4 Consensus size: 89
112927939 TACCATGCTG
* * * * * *
112927949 AATT-TTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCA-TAAACCTTTTCCCCCTGAAGT
1 AATTCTTATCTCTCTGAAGTTGTAGTGGAGCAGACTGAAGACAGAAAACCTTATCCCCCTGAAGT
* *
112928012 TGTAGTGGGGCAAGTTGAAATCAAC
66 TGCAGTGGAGCAAGTTGAAAT-AAC
* * * *
112928037 AATTCTTATCTCTATGAAGTTGCAGTGGAGCAGACTGAAGATAGAAAACCTTATCTCCCTGAAGT
1 AATTCTTATCTCTCTGAAGTTGTAGTGGAGCAGACTGAAGACAGAAAACCTTATCCCCCTGAAGT
* *
112928102 TGCAGTGGAGCAGGTTGAAATGAC
66 TGCAGTGGAGCAAGTTGAAATAAC
*
112928126 AGA-TCTTATCTCTCTGAAGTTGTAGTAGAGCAGA
1 A-ATTCTTATCTCTCTGAAGTTGTAGTGGAGCAGA
112928160 TCATAGCAAA
Statistics
Matches: 103, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
88 4 0.04
89 62 0.60
90 37 0.36
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (89 bp):
AATTCTTATCTCTCTGAAGTTGTAGTGGAGCAGACTGAAGACAGAAAACCTTATCCCCCTGAAGT
TGCAGTGGAGCAAGTTGAAATAAC
Found at i:112928157 original size:44 final size:44
Alignment explanation
Indices: 112927727--112928158 Score: 188
Period size: 44 Copynumber: 9.7 Consensus size: 44
112927717 AACCACACAC
* * * *
112927727 CTTATCTCCCTAAAGTTGCAGTGGAGCAGGTT-AAAGT-TACAAAC
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAA-TAGAC-AAT
* * * *
112927771 CTTATCTCCCTGAAATTGCAGTGGAGCAGGTTGAAGT-TACAAGT
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAATAGACAA-T
* * * **
112927815 CTTATCTCCCTGAAGTTGTAGTGGAGTAGACTG-AATAG-CAAAT
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAATAGAC-AAT
* * * *
112927858 CTTATCTCTCTGAAGTTGCAGTAGAGTAGATT-AAAGCTATA-AAT
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAA--TAGACAAT
* * * * *
112927902 CCTATAC-CTCTGAAGTTGCAGTAGG-TC-GGATCAAACCTACCATGCTGAAT
1 CTTAT-CTCTCTGAAGTTGCAGT-GGAGCAGGTTGAAA--TA-GA--C--AAT
* * * * * ** * *
112927952 TTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCATA-AAC
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAA-ATAGACAAT
* * * * * *
112927996 CTTTTCCCCCTGAAGTTGTAGTGGGGCAAGTTGAAATCA-ACAATT
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAAT-AGACAA-T
* ** * *
112928041 CTTATCTCTATGAAGTTGCAGTGGAGCAGACTGAAGATAGAAAAC
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAA-ATAGACAAT
*
112928086 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAT-GACAGAT
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAATAGACA-AT
* *
112928130 CTTATCTCTCTGAAGTTGTAGTAGAGCAG
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAG
112928159 ATCATAGCAA
Statistics
Matches: 294, Mismatches: 67, Indels: 54
0.71 0.16 0.13
Matches are distributed among these distances:
43 42 0.14
44 154 0.52
45 65 0.22
46 5 0.02
49 4 0.01
50 20 0.07
51 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAATAGACAAT
Found at i:112928202 original size:85 final size:87
Alignment explanation
Indices: 112928040--112928205 Score: 210
Period size: 85 Copynumber: 1.9 Consensus size: 87
112928030 AATCAACAAT
* * *
112928040 TCTTATCTCTATGAAGTTGCAGTGGAGCAGACTGAAGATAGAAAACCTTATCTCCCTGAAGTTGC
1 TCTTATCTCTATGAAGTTGCAGTAGAGCAGACT--ACATAGAAAACCTTATCTCCCTGAAGTAGC
* *
112928105 AGTGGAGCAGGTTGAAATGACAGA
64 AGTAGAACAGGTTGAAATGACAGA
* * * *
112928129 TCTTATCTCTCTGAAGTTGTAGTAGAGCAGA-T-CATAGCAAACCTTATCTTCCTGAAGTAGCAG
1 TCTTATCTCTATGAAGTTGCAGTAGAGCAGACTACATAGAAAACCTTATCTCCCTGAAGTAGCAG
*
112928192 TAGAATAGGTTGAA
66 TAGAACAGGTTGAA
112928206 GTTCAAATCT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 38 0.57
88 1 0.01
89 28 0.42
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (87 bp):
TCTTATCTCTATGAAGTTGCAGTAGAGCAGACTACATAGAAAACCTTATCTCCCTGAAGTAGCAG
TAGAACAGGTTGAAATGACAGA
Found at i:112929777 original size:3 final size:3
Alignment explanation
Indices: 112929769--112929901 Score: 60
Period size: 3 Copynumber: 44.7 Consensus size: 3
112929759 TTGTTAATTC
** * *
112929769 TAT TAT TAT TGC TAT TAT TAT TTT TAT TACT T-T TAT TCT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * * * *
112929813 TAC TAT TGT TGT TAT TAT T-T CTCT TGT TGT TAT TAT TAT T-T ATAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT
** * * *
112929858 TAT CGT TAG TAT TAT TAT TAT TCCT TAG T-T TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TA
112929902 CTTTATCGTT
Statistics
Matches: 98, Mismatches: 23, Indels: 18
0.71 0.17 0.13
Matches are distributed among these distances:
2 7 0.07
3 85 0.87
4 6 0.06
ACGTcount: A:0.23, C:0.07, G:0.06, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:112931864 original size:93 final size:93
Alignment explanation
Indices: 112931756--112931926 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
112931746 GCCCATAAGT
* * *
112931756 GAACTCGGACTCAACTCAACGAGCTC-AGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTCGA-ACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
112931820 ATGAGCTCGGATGCCTAGTTACATCTCAC
65 ACGAGCTCGGATGCCTAGTTACATCTCAC
*
112931849 GAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
112931914 CGAGTTCGGATGC
66 CGAGCTCGGATGC
112931927 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:112931921 original size:46 final size:47
Alignment explanation
Indices: 112931748--112931917 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 47
112931738 TGTAACCCGC
* *
112931748 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-AGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGACATTCGCAT
* * *
112931794 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-GAC-A-TTCGCAT
* * * *
112931844 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGA-ACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGACATTCGCAT
112931887 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
112931918 TTCGGATGCT
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 57 0.56
47 23 0.23
48 3 0.03
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGACATTCGCAT
Found at i:112932513 original size:20 final size:18
Alignment explanation
Indices: 112932479--112932515 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
112932469 GCAACTCATA
112932479 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
112932497 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
112932516 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Done.