Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 259 of 297
Found at i:88454717 original size:18 final size:19
Alignment explanation
Indices: 88454688--88454737 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
88454678 TGACAGTCGC
* *
88454688 AACAATAAAAAAAAATTGAA
1 AACAA-AAAAAAACACTGAA
88454708 AA-AGAAAAAAAACACTGAA
1 AACA-AAAAAAAACACTGAA
88454727 AACAAAAAAAA
1 AACAAAAAAAA
88454738 TAAAAAAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.78, C:0.08, G:0.06, T:0.08
Consensus pattern (19 bp):
AACAAAAAAAAACACTGAA
Found at i:88454900 original size:19 final size:20
Alignment explanation
Indices: 88454876--88454923 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
88454866 AATAAAGGGA
*
88454876 AAGAAAGGAGAA-GAGAAGG
1 AAGAAAGAAGAAGGAGAAGG
88454895 AAGAAA-AAGAAGGAGAAGG
1 AAGAAAGAAGAAGGAGAAGG
*
88454914 AAAAAAGAAG
1 AAGAAAGAAG
88454924 GTATAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.16
19 18 0.72
20 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (20 bp):
AAGAAAGAAGAAGGAGAAGG
Found at i:88455064 original size:38 final size:39
Alignment explanation
Indices: 88455013--88455104 Score: 123
Period size: 38 Copynumber: 2.4 Consensus size: 39
88455003 TTTTGTTGTG
* ** **
88455013 AGTTATTAATATTGTTAGTAAAAAATTATTGTTATTATT
1 AGTTATTATTATTGTTAGTAAAAAACCATAATTATTATT
*
88455052 -GTTATTATTATTGTTAGTAAAAAACCATAATTATTGTT
1 AGTTATTATTATTGTTAGTAAAAAACCATAATTATTATT
88455090 AGTTATTATTATTGT
1 AGTTATTATTATTGT
88455105 AAAAAAAACC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 32 0.70
39 14 0.30
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (39 bp):
AGTTATTATTATTGTTAGTAAAAAACCATAATTATTATT
Found at i:88460333 original size:72 final size:72
Alignment explanation
Indices: 88460216--88460355 Score: 228
Period size: 72 Copynumber: 1.9 Consensus size: 72
88460206 GCCCCCCGAT
* *
88460216 GAGCCCGGGAAATTGTCATTGCCCGCCAAATCCAGATGATAAGAAGTATCAG-CTGAATGTGAAT
1 GAGCCCAGGAAATAGTCATTGCCCGCCAAATCCAGATGATAAGAAGTATCAGTC-GAATGTGAAT
88460280 GCGACGAC
65 GCGACGAC
* *
88460288 GAGCCCAGGAAATAGTCATTGCCTGCCAAATCCGGATGATAAGAAGTATCAGTCGAATGTGAATG
1 GAGCCCAGGAAATAGTCATTGCCCGCCAAATCCAGATGATAAGAAGTATCAGTCGAATGTGAATG
88460353 CGA
66 CGA
88460356 TCGCTCGGAC
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
72 62 0.98
73 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (72 bp):
GAGCCCAGGAAATAGTCATTGCCCGCCAAATCCAGATGATAAGAAGTATCAGTCGAATGTGAATG
CGACGAC
Found at i:88463236 original size:45 final size:45
Alignment explanation
Indices: 88463171--88463313 Score: 189
Period size: 45 Copynumber: 3.1 Consensus size: 45
88463161 TTATCACAGC
* *
88463171 TATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTTTCATA
1 TATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTTTCATA
* *
88463216 TATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTT-T-TCATA
* * *
88463263 CATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTTTCATA
88463308 TATACA
1 TATACA
88463314 TATCTTGTAC
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
45 41 0.48
46 3 0.04
47 41 0.48
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (45 bp):
TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTTTCATA
Found at i:88463286 original size:47 final size:47
Alignment explanation
Indices: 88463172--88463309 Score: 201
Period size: 47 Copynumber: 3.0 Consensus size: 47
88463162 TATCACAGCT
* * * *
88463172 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTT-T-TCATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATAC
*
88463217 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
88463264 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA
88463310 TACATATCTT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
45 32 0.38
46 3 0.04
47 49 0.58
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:88467963 original size:142 final size:144
Alignment explanation
Indices: 88467601--88468239 Score: 853
Period size: 142 Copynumber: 4.4 Consensus size: 144
88467591 ATAAGTAAAA
* * **
88467601 TATTTTCGTATATTATTT-TTTATATTATTTTAGCA-AAAATGTTTCAAATGTATTATGGAAGTG
1 TATTTTCGTAT-TTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
** * * *
88467664 TTTTTTATATTAATTTAATAAATAACACTGATTTTGGCACTTTTTTCGTATTTTTTTATTTTCAT
65 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA-----TT-TTTTCAT
*
88467729 ATCTTATTTTTTAAAATATAT
124 ATATTATTTTTTAAAATATAT
* * *
88467750 TACTTTCGTA-TTATTTTATTTTAAAACCCTTATTTTAGTACATAATGTTTCAAATGTATTATTT
1 TATTTTCGTATTTA-TTT-CTTT-ATA---TTATTTTAGTACATAATGTTTCAAATGTATTATTT
*
88467814 AAGTGTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTCGTA
60 AAGTGTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTCATA
88467879 -ATT-TTTTTTAAAATATAT
125 TATTATTTTTTAAAATATAT
*
88467897 TATTTTCGTATTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAATTGT
1 TATTTTCGTATTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGT
** *
88467962 TTTTT-TATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTTATATTTTTTCGTA-ATT-
66 TTTTTATAT-TTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTCATATATTA
*
88468024 TTTTTAAAAATATAT
130 TTTTTTAAAATATAT
*
88468039 TATTTTTGTATTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGT
1 TATTTTCGTATTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGT
*
88468104 TTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTCATATATTGT
66 TTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTCATATATTAT
88468169 TTTTTAAAATATAT
131 TTTTTAAAATATAT
* * * * *
88468183 TATTTTCTTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTA
1 TATTTTCGTA-TTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTA
88468240 GGTATATTAT
Statistics
Matches: 444, Mismatches: 32, Indels: 32
0.87 0.06 0.06
Matches are distributed among these distances:
141 3 0.01
142 225 0.51
143 6 0.01
144 22 0.05
145 44 0.10
146 3 0.01
147 30 0.07
148 8 0.02
149 16 0.04
150 5 0.01
151 2 0.00
154 10 0.02
155 70 0.16
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (144 bp):
TATTTTCGTATTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGT
TTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTCATATATTAT
TTTTTAAAATATAT
Found at i:88468200 original size:13 final size:13
Alignment explanation
Indices: 88468178--88468214 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
88468168 TTTTTTAAAA
88468178 TATATTATTTTCT
1 TATATTATTTTCT
* *
88468191 TATTTTATTTTTT
1 TATATTATTTTCT
88468204 TATATTATTTT
1 TATATTATTTT
88468215 AGCAAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TATATTATTTTCT
Found at i:88468337 original size:13 final size:13
Alignment explanation
Indices: 88468298--88468339 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
88468288 ATTTTGACAC
88468298 TTTCTTCATATTA
1 TTTCTTCATATTA
* *
88468311 TTTTCGT-ATTTTA
1 -TTTCTTCATATTA
88468324 TTTCTTCATATTA
1 TTTCTTCATATTA
88468337 TTT
1 TTT
88468340 TAGTACATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 5 0.22
13 13 0.57
14 5 0.22
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (13 bp):
TTTCTTCATATTA
Found at i:88468508 original size:133 final size:130
Alignment explanation
Indices: 88468365--88468844 Score: 389
Period size: 133 Copynumber: 3.5 Consensus size: 130
88468355 CAAATGTATT
88468365 ATTTAAGTATTTTTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTT
1 ATTTAAGTATTTTTTATATTTTTT-AATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTT
* * ** * **
88468430 TCGTATATTATTTTTAAAAATATATTATTTTCTTATTTTATTTT-TATATTAT-TTTAGCAAA-A
65 TCGTATATTATTTTTTAAAATATGTTATTTTGGTATTTTATTTTACATAAAATCTTT--CAAAGA
88468492 AAA
128 AAA
* * * *
88468495 ATTTCAAATGTATTACTTAAGTGTTTCGTTATATTAGTTTACTAAATAACTCTGATTTT-GATAC
1 ATTT--AA-G-------T-A-T-TTT--TTATATT-TTTTAATAAATAACCCTGATTTTAG-CAC
**
88468559 TTTCGTCGTAAGTTTTTTATGTTCGTATATTATTTTTTAAAATATGTTATTTTGGTATTTTATTT
49 TTTATTCGT-A---TTTT-T-TTCGTATATTATTTTTTAAAATATGTTATTTTGGTATTTTATTT
* **
88468624 TAGCATAAAATCTTTCAAATGTATT
108 TA-CATAAAATCTTTCAAA-GAAAA
*
88468649 ATTTAAGTGTTTTTTATATTTGTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTT
1 ATTTAAGTATTTTTTATATTT-TTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTT
*
88468714 TCGTATATTATTTTTTAAAATATGTTATTTTGGTATTTTATTTTAGCATAAAATCTTTCAAATGT
65 TCGTATATTATTTTTTAAAATATGTTATTTTGGTATTTTATTTTA-CATAAAATCTTTCAAA-GA
**
88468779 ATT
128 AAA
* * * * * *
88468782 ATTTAAG--TTTTTTATATTAATTTAATAAATAA-CCTGACTTTGGCACCTTGTTCATATTTTTT
1 ATTTAAGTATTTTTTATATT-TTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTT
88468844 T
65 T
88468845 ATTTTCGGTT
Statistics
Matches: 290, Mismatches: 29, Indels: 62
0.76 0.08 0.16
Matches are distributed among these distances:
130 30 0.10
131 23 0.08
132 2 0.01
133 77 0.27
134 1 0.00
135 4 0.01
138 1 0.00
139 36 0.12
140 2 0.01
141 4 0.01
142 2 0.01
143 3 0.01
144 2 0.01
145 33 0.11
146 4 0.01
149 4 0.01
150 1 0.00
151 42 0.14
152 6 0.02
153 5 0.02
154 8 0.03
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.54
Consensus pattern (130 bp):
ATTTAAGTATTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTT
CGTATATTATTTTTTAAAATATGTTATTTTGGTATTTTATTTTACATAAAATCTTTCAAAGAAAA
Found at i:88468861 original size:133 final size:132
Alignment explanation
Indices: 88468478--88468889 Score: 454
Period size: 133 Copynumber: 3.1 Consensus size: 132
88468468 TATTTTTATA
* ** * *
88468478 TTATTTTAGCAAAAAAAATTTCAAATGTATTACTTAAGTGTTTCGTTATATTAGTTTACTAAATA
1 TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAAGT-TTT--TTATATTAGTTTAATAAATA
** * *
88468543 ACTCTGATTTTGATACTTTCG-TCGTAAGTTTTTTATGTTCGTATATTATTTTTTAAAATATGTT
63 AC-CTGATTTTGGCACTTT-GTTCGT-ATTTTTTTATTTTCGT-T-TT-TTTTTTAAAATATGTT
88468607 ATTTTGGTATT
122 ATTTTGGTATT
*
88468618 TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAAGTGTTTTTTATATTTGTTTAATAAATAA
1 TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAA--GTTTTTTATATTAGTTTAATAAATAA
* * ** * * *
88468683 CCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTAT--ATTATTTTTTAAAATATGTTATTTTG
64 -CCTGATTTTGGCACTTTGTTCGTATTTTTTTATTTTCGTTTTTTTTTTAAAATATGTTATTTTG
88468746 GTATT
128 GTATT
*
88468751 TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAAGTTTTTTATATTAATTTAATAAATAACC
1 TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAAGTTTTTTATATTAGTTTAATAAATAACC
* * * ** **
88468816 TGACTTTGGCACCTTGTTCATATTTTTTTATTTTCGGTTTTTTTTTT-AAATATACTATTTTCAT
66 TGATTTTGGCACTTTGTTCGTATTTTTTTATTTTC-GTTTTTTTTTTAAAATATGTTATTTTGGT
88468880 ATT
130 ATT
88468883 TTATTTT
1 TTATTTT
88468890 TTATATTATT
Statistics
Matches: 232, Mismatches: 33, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
130 28 0.12
131 24 0.10
132 23 0.10
133 72 0.31
134 1 0.00
135 1 0.00
138 8 0.03
139 36 0.16
140 34 0.15
141 3 0.01
142 2 0.01
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.54
Consensus pattern (132 bp):
TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAAGTTTTTTATATTAGTTTAATAAATAACC
TGATTTTGGCACTTTGTTCGTATTTTTTTATTTTCGTTTTTTTTTTAAAATATGTTATTTTGGTA
TT
Found at i:88469016 original size:16 final size:14
Alignment explanation
Indices: 88468964--88469007 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
88468954 ATTTTTTCTC
88468964 ATATTTTATTTTTTA
1 ATATTTTA-TTTTTA
* *
88468979 ATTAATATATTTTTA
1 A-TATTTTATTTTTA
88468994 ATATTTTATTTTTA
1 ATATTTTATTTTTA
88469008 TACTATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 11 0.46
15 8 0.33
16 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATATTTTATTTTTA
Found at i:88469362 original size:14 final size:14
Alignment explanation
Indices: 88469343--88469405 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
88469333 AAAAAAATAC
88469343 CTTTTTCTTTCCTT
1 CTTTTTCTTTCCTT
* *
88469357 CTTTTTCCTTCCCT
1 CTTTTTCTTTCCTT
*
88469371 CTTCTTCTTCTCCTTCT
1 CTTTTTCTT-TCC-T-T
88469388 CTTTTTCTTT--TT
1 CTTTTTCTTTCCTT
88469400 CTTTTT
1 CTTTTT
88469406 TCTTCTCTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 7 0.17
13 1 0.03
14 19 0.47
15 3 0.08
16 1 0.03
17 9 0.22
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (14 bp):
CTTTTTCTTTCCTT
Found at i:88469376 original size:17 final size:18
Alignment explanation
Indices: 88469354--88469400 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
88469344 TTTTTCTTTC
88469354 CTTCTTTTTCCTTC-CCT
1 CTTCTTTTTCCTTCTCCT
*
88469371 CTTCTTCTTCTCCTTCTCTT
1 CTTCTT-TT-TCCTTCTCCT
*
88469391 TTTCTTTTTC
1 CTTCTTTTTC
88469401 TTTTTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 8 0.32
20 7 0.28
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTCTTTTTCCTTCTCCT
Found at i:88469458 original size:27 final size:27
Alignment explanation
Indices: 88469428--88469516 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
88469418 CGCCAGCCTC
*
88469428 CTTCTCCTCCTCTCCTTTTTTTTCTTT
1 CTTCTCCTCCTCTCCTTTTTCTTCTTT
* * *
88469455 CTTCTTCTTCTCTTCTTTCCTTCTTCTCTT
1 CTTCTCCTCCTCTCCTTT--TTCTTCT-TT
*
88469485 CTT-TCCTTCTTCTCTCTTTTTCTTC-TT
1 CTTCTCC-TCCTCTC-CTTTTTCTTCTTT
88469512 CTTCT
1 CTTCT
88469517 TTGTTCCCGA
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
27 20 0.42
28 1 0.02
29 14 0.29
30 9 0.19
31 4 0.08
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (27 bp):
CTTCTCCTCCTCTCCTTTTTCTTCTTT
Found at i:88469459 original size:3 final size:3
Alignment explanation
Indices: 88469453--88469517 Score: 66
Period size: 3 Copynumber: 22.7 Consensus size: 3
88469443 TTTTTTTTCT
* *
88469453 TTC TTC TTC TTC -TC TTC TT- TCC TTC TTC -TC TTC TT- TCC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
88469497 TCTC TTT TTC TTC TTC TTC TT
1 T-TC TTC TTC TTC TTC TTC TT
88469518 TGTTCCCGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 6 0.12
3 42 0.82
4 3 0.06
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:88469470 original size:8 final size:8
Alignment explanation
Indices: 88469457--88469517 Score: 60
Period size: 8 Copynumber: 7.9 Consensus size: 8
88469447 TTTTCTTTCT
88469457 TCTTCTTC
1 TCTTCTTC
88469465 TCTTCTT-
1 TCTTCTTC
88469472 TCCTTCTTC
1 T-CTTCTTC
88469481 TCTTCTT-
1 TCTTCTTC
88469488 TCCTTCTTC
1 T-CTTCTTC
88469497 TC-TCTT-
1 TCTTCTTC
88469503 T-TTCTTC
1 TCTTCTTC
88469510 TTCTTCTT
1 -TCTTCTT
88469518 TGTTCCCGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
6 5 0.11
7 6 0.13
8 27 0.60
9 7 0.16
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (8 bp):
TCTTCTTC
Found at i:88469479 original size:19 final size:18
Alignment explanation
Indices: 88469449--88469516 Score: 99
Period size: 16 Copynumber: 3.9 Consensus size: 18
88469439 CTCCTTTTTT
88469449 TTCTTTCTTCTTCTTCTC
1 TTCTTTCTTCTTCTTCTC
88469467 TTCTTTC--CTTCTTCTC
1 TTCTTTCTTCTTCTTCTC
88469483 TTCTTTCCTTCTTC-TCTC
1 TTCTTT-CTTCTTCTTCTC
88469501 TT-TTTCTTCTTCTTCT
1 TTCTTTCTTCTTCTTCT
88469517 TTGTTCCCGA
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
16 22 0.48
17 7 0.15
18 13 0.28
19 4 0.09
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTCTTTCTTCTTCTTCTC
Found at i:88469723 original size:19 final size:18
Alignment explanation
Indices: 88469677--88469723 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
88469667 ACATGACCCC
*
88469677 TTTTTTATTTTTTTTTCAG
1 TTTTTT-TTTTTTTTTCAA
*
88469696 TATTTTTTTTCTTTTTCAA
1 T-TTTTTTTTTTTTTTCAA
88469715 TTTTTTTTT
1 TTTTTTTTT
88469724 ACTGTTTCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.32
19 12 0.48
20 5 0.20
ACGTcount: A:0.11, C:0.06, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTCAA
Found at i:88475098 original size:16 final size:17
Alignment explanation
Indices: 88475066--88475104 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
88475056 ATTTAGAATC
*
88475066 ATTTACTTGTCTTATTT
1 ATTTATTTGTCTTATTT
88475083 ATTTATTTGT-TTATTT
1 ATTTATTTGTCTTATTT
*
88475099 TTTTAT
1 ATTTAT
88475105 GTTATTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (17 bp):
ATTTATTTGTCTTATTT
Found at i:88475256 original size:16 final size:16
Alignment explanation
Indices: 88475237--88475267 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88475227 GTTTATTATG
88475237 TATTCTATTCATTTTT
1 TATTCTATTCATTTTT
*
88475253 TATTTTATTCATTTT
1 TATTCTATTCATTTT
88475268 ATATATTTTT
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:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTCTATTCATTTTT
Found at i:88479452 original size:74 final size:74
Alignment explanation
Indices: 88479299--88479471 Score: 197
Period size: 74 Copynumber: 2.3 Consensus size: 74
88479289 TTGCGCTCTG
* ** * * * *
88479299 CAGATCCGTTTAATTCCTTTCCCTTCAATTAGGTTTTTGAATTTAAGATTTGCGTATTTTCATAG
1 CAGATCCGTTTAATTCTTTTTTCTCCAATTAGGGTTTCGAATTTAAGATTTGCGTATTCTCATAG
*
88479364 CTCTTGTTT
66 ATCTTGTTT
* *
88479373 CAGATCCGTTTAATTCTTTTTTCTCCAATTAGGGTTTCGAATTTATGATTTGCGTATTCTCATGG
1 CAGATCCGTTTAATTCTTTTTTCTCCAATTAGGGTTTCGAATTTAAGATTTGCGTATTCTCATAG
*
88479438 ATTTTGCTTT
66 ATCTTG-TTT
88479448 -AGATCCGCTGTTAATT-TGTTTTTC
1 CAGATCCG-T-TTAATTCT-TTTTTC
88479472 ATCTTTATTT
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
74 67 0.80
75 5 0.06
76 12 0.14
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (74 bp):
CAGATCCGTTTAATTCTTTTTTCTCCAATTAGGGTTTCGAATTTAAGATTTGCGTATTCTCATAG
ATCTTGTTT
Found at i:88479536 original size:20 final size:20
Alignment explanation
Indices: 88479499--88479539 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
88479489 ATATGATTTA
88479499 TTTTAAAAATAATTTTTCCTT
1 TTTTAAAAATAA-TTTTCCTT
88479520 TTTTAGAAAATAA-TTTCCTT
1 TTTTA-AAAATAATTTTCCTT
88479540 GGATTGGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 5 0.26
22 7 0.37
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTTAAAAATAATTTTCCTT
Found at i:88489589 original size:19 final size:20
Alignment explanation
Indices: 88489549--88489590 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
88489539 TTCTTTAGAT
*
88489549 TTTTTTAAAAAAAATTATAA
1 TTTTTTAAAAAAAATTAAAA
*
88489569 TTTTTTAAAAAATA-TAAAA
1 TTTTTTAAAAAAAATTAAAA
88489588 TTT
1 TTT
88489591 AGAATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTTTTAAAAAAAATTAAAA
Found at i:88489604 original size:18 final size:19
Alignment explanation
Indices: 88489581--88489617 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
88489571 TTTTAAAAAA
88489581 TATAAA-ATTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
88489599 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
88489618 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:88489637 original size:20 final size:21
Alignment explanation
Indices: 88489596--88489658 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 21
88489586 AATTTAGAAT
*
88489596 TTTTATAAA-TATTTTG--AA
1 TTTTAAAAATTATTTTGAAAA
88489614 TTTTAAAAATTATTTT-AAAA
1 TTTTAAAAATTATTTTGAAAA
*
88489634 TTTTGAAAATTATTTTGAAAA
1 TTTTAAAAATTATTTTGAAAA
88489655 TTTT
1 TTTT
88489659 TTATTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.21
19 6 0.15
20 17 0.44
21 8 0.21
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (21 bp):
TTTTAAAAATTATTTTGAAAA
Found at i:88496345 original size:3 final size:3
Alignment explanation
Indices: 88496337--88496361 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
88496327 ACTATTACTG
88496337 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
88496362 AATTTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:88501967 original size:26 final size:26
Alignment explanation
Indices: 88501938--88502045 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
88501928 TGGTACAAAT
88501938 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
88501964 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88501990 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
88502016 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88502042 TGAT
1 TGAT
88502046 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:88504597 original size:30 final size:30
Alignment explanation
Indices: 88504563--88504620 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
88504553 CACGGACTGG
* *
88504563 CACATGGGCATGTGGCTAGCCCGTGTGGCT
1 CACATGGCCATGTGGCCAGCCCGTGTGGCT
* *
88504593 CACATGGCCGTGTGGCCAGCCTGTGTGG
1 CACATGGCCATGTGGCCAGCCCGTGTGG
88504621 AAATGCCCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.28, G:0.38, T:0.22
Consensus pattern (30 bp):
CACATGGCCATGTGGCCAGCCCGTGTGGCT
Found at i:88507337 original size:27 final size:27
Alignment explanation
Indices: 88507293--88507354 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
88507283 TTTTATCCCA
88507293 ATAAAA-TTTTGACAATTTTGCCAC-TG
1 ATAAAATTTTTGACAATTTTGCC-CGTG
**
88507319 ATAAAATTTTTGATGATTTTGCCCGTG
1 ATAAAATTTTTGACAATTTTGCCCGTG
*
88507346 GTAAAATTT
1 ATAAAATTT
88507355 CAAGAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.23
27 24 0.77
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (27 bp):
ATAAAATTTTTGACAATTTTGCCCGTG
Found at i:88514925 original size:12 final size:12
Alignment explanation
Indices: 88514893--88514927 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
88514883 ATGTTATAAT
88514893 ATTAATATTTTA
1 ATTAATATTTTA
*
88514905 ATT-AGATTTTA
1 ATTAATATTTTA
88514916 ATTAATATTTTA
1 ATTAATATTTTA
88514928 TTATGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (12 bp):
ATTAATATTTTA
Found at i:88515081 original size:11 final size:11
Alignment explanation
Indices: 88515065--88515091 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
88515055 AATCTCACTT
88515065 TTTCTCTCAAA
1 TTTCTCTCAAA
88515076 TTTCTCTCAAA
1 TTTCTCTCAAA
88515087 TTTCT
1 TTTCT
88515092 ATAGCCACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.26, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTCTCTCAAA
Found at i:88517312 original size:31 final size:31
Alignment explanation
Indices: 88517277--88517338 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
88517267 CCAAACCAAG
**
88517277 ATTCAATCAAATACAAGATTTTAGGATGAAT
1 ATTCAATCAAATACAAGATTCAAGGATGAAT
88517308 ATTCAATCAAATACAAGATTCAAGGATGAAT
1 ATTCAATCAAATACAAGATTCAAGGATGAAT
88517339 CTTTTCGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (31 bp):
ATTCAATCAAATACAAGATTCAAGGATGAAT
Found at i:88521290 original size:43 final size:42
Alignment explanation
Indices: 88521224--88521383 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 42
88521214 ATCTCGTACA
* * * *
88521224 ATGCCAAGGTCCCAGATGTGGTCTTACATGTAATCAAATATTG
1 ATGCCAATGTCCCAGATGTGGTCTTACACGAAATCAAATA-CG
*
88521267 ATGCCACTGTCCCAGATAG-GGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGAT-GTGGTCTTACACGAAATCAAATACG
* ** *
88521309 ATGCCAATGTCCCAGACGTCATCTTACACATAAATCATAAGT-CG
1 ATGCCAATGTCCCAGATGTGGTCTTACAC-GAAATCA-AA-TACG
*
88521353 ATGCCAACGTCCCAGATGTGGTCTTACACGA
1 ATGCCAATGTCCCAGATGTGGTCTTACACGA
88521384 TAACGCATAT
Statistics
Matches: 97, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 24 0.25
43 41 0.42
44 30 0.31
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGATGTGGTCTTACACGAAATCAAATACG
Found at i:88526687 original size:21 final size:22
Alignment explanation
Indices: 88526651--88526703 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
88526641 TGAGAGTGGA
*
88526651 AAAAGAAAGTGAAAATGA-AGA-
1 AAAAGAAA-AGAAAATGAGAGAG
88526672 AGAAAGAAAAGAAAATGAGAGAG
1 A-AAAGAAAAGAAAATGAGAGAG
88526695 AAAAGAAAA
1 AAAAGAAAA
88526704 AGAGTTGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 9 0.32
22 18 0.64
23 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.06
Consensus pattern (22 bp):
AAAAGAAAAGAAAATGAGAGAG
Found at i:88535945 original size:6 final size:6
Alignment explanation
Indices: 88535919--88536005 Score: 113
Period size: 6 Copynumber: 14.5 Consensus size: 6
88535909 TAAGTCTAAG
* * *
88535919 AAAATA AAACTA ACACTA AAAGA-A AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAA-ATA AAAATA AAAATA AAAATA AAAATA
* *
88535967 AAAATA AAAACA AAAATA AAAATA AAAATA AAACTA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
88536006 TCAATGGTCT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
5 1 0.01
6 71 0.99
ACGTcount: A:0.79, C:0.06, G:0.01, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:88542931 original size:3 final size:3
Alignment explanation
Indices: 88542923--88543005 Score: 51
Period size: 4 Copynumber: 24.3 Consensus size: 3
88542913 AAAGAAATGG
88542923 TAA TAA TAA TAA TAA TAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAA TAA TAA TAA TAA TAA T-AA T-AA T-AA T-AA T-AA T-AA T-AA T-AA
*
88542973 TAAA TAA TAGA -AA TAA TAA TAAA GAA TAA TAA T
1 T-AA TAA TA-A TAA TAA TAA T-AA TAA TAA TAA T
88543006 TAAAGAAAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
2 1 0.01
3 35 0.47
4 38 0.51
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:88542940 original size:12 final size:14
Alignment explanation
Indices: 88542924--88543005 Score: 75
Period size: 16 Copynumber: 5.9 Consensus size: 14
88542914 AAGAAATGGT
88542924 AATAAT-AATAAT-
1 AATAATAAATAATA
88542936 AATAATAAATAAATA
1 AATAATAAAT-AATA
88542951 AATAAATAAATAAATA
1 AAT-AATAAAT-AATA
88542967 AATAAATAAATAATA
1 AAT-AATAAATAATA
*
88542982 GA-AAT-AATAATA
1 AATAATAAATAATA
*
88542994 AAGAAT-AATAAT
1 AATAATAAATAAT
88543006 TAAAGAAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
12 14 0.22
13 15 0.24
14 3 0.05
15 8 0.13
16 23 0.37
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (14 bp):
AATAATAAATAATA
Found at i:88542948 original size:4 final size:4
Alignment explanation
Indices: 88542939--88542979 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
88542929 TAATAATAAT
88542939 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA A
88542980 TAGAAATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:88543016 original size:16 final size:15
Alignment explanation
Indices: 88542936--88543013 Score: 88
Period size: 16 Copynumber: 5.1 Consensus size: 15
88542926 TAATAATAAT
*
88542936 AATAATAAATAAATA
1 AATAATAAATAAAGA
*
88542951 AATAAATAAATAAATA
1 AAT-AATAAATAAAGA
88542967 AATAAATAAATAATAGA
1 AAT-AATAAATAA-AGA
88542984 AATAAT-AATAAAG-
1 AATAATAAATAAAGA
*
88542997 AATAATAATTAAAGA
1 AATAATAAATAAAGA
88543012 AA
1 AA
88543014 ATAGGGGAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
13 6 0.11
14 8 0.14
15 10 0.18
16 28 0.49
17 5 0.09
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (15 bp):
AATAATAAATAAAGA
Found at i:88545539 original size:47 final size:47
Alignment explanation
Indices: 88545485--88545580 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
88545475 GTTGAATTTA
*
88545485 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
88545532 AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
88545579 AA
1 AA
88545581 AGAAAATTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.43
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:88546451 original size:45 final size:44
Alignment explanation
Indices: 88546387--88546558 Score: 210
Period size: 45 Copynumber: 3.9 Consensus size: 44
88546377 CGCACAGTAT
88546387 TATTCGGGCCTTTGAGCCTAGCAAGCTATAATGCCGGTGAGATAC
1 TATTCGGG-CTTTGAGCCTAGCAAGCTATAATGCCGGTGAGATAC
* *
88546432 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATAC
1 TATTCGGG-CTTTGAGCCTAGCAAGCTATAATGCCGGTGAGATAC
*
88546477 TATTCGGGCTTTCGAGCCTAG-AAGGCTATAATGCCGGTGAAATGA-
1 TATTCGGGCTTT-GAGCCTAGCAA-GCTATAATGCCGGTGAGAT-AC
* *
88546522 TA-TCGGGCTTCGAGCCTAGC-AGGTGA-AATGCCGGTGA
1 TATTCGGGCTTTGAGCCTAGCAAGCT-ATAATGCCGGTGA
88546559 ATGAATTCAG
Statistics
Matches: 115, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
42 13 0.11
43 10 0.09
44 13 0.11
45 78 0.68
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (44 bp):
TATTCGGGCTTTGAGCCTAGCAAGCTATAATGCCGGTGAGATAC
Found at i:88550236 original size:23 final size:23
Alignment explanation
Indices: 88550204--88550251 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
88550194 AGAACTTACA
*
88550204 ATTAAGAATAAGAACAAGTATTT
1 ATTAAAAATAAGAACAAGTATTT
88550227 ATTAAAAATAAGAACAAGTATTT
1 ATTAAAAATAAGAACAAGTATTT
88550250 AT
1 AT
88550252 CATATAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.31
Consensus pattern (23 bp):
ATTAAAAATAAGAACAAGTATTT
Found at i:88553167 original size:8 final size:8
Alignment explanation
Indices: 88553154--88553190 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
88553144 ATAAACTAAG
88553154 AATAAAAA
1 AATAAAAA
88553162 AATAAAGAA
1 AATAAA-AA
*
88553171 AATATAAA
1 AATAAAAA
88553179 AATAAAAA
1 AATAAAAA
88553187 AATA
1 AATA
88553191 TTAATAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (8 bp):
AATAAAAA
Found at i:88553188 original size:16 final size:16
Alignment explanation
Indices: 88553154--88553224 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 16
88553144 ATAAACTAAG
*
88553154 AATAAAAAAATAAAGAA
1 AATATAAAAATAAA-AA
88553171 AATATAAAAATAAAAA
1 AATATAAAAATAAAAA
* *
88553187 AATATTAATAAGAAAAA
1 AATA-TAAAAATAAAAA
88553204 ATATGAAATAAAAATAAAAA
1 A-AT---ATAAAAATAAAAA
88553224 A
1 A
88553225 GAACAGAGGA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
16 6 0.14
17 24 0.55
18 2 0.05
20 11 0.25
21 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.18
Consensus pattern (16 bp):
AATATAAAAATAAAAA
Found at i:88553196 original size:14 final size:15
Alignment explanation
Indices: 88553161--88553217 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 15
88553151 AAGAATAAAA
*
88553161 AAATAAAGAAAATATAA
1 AAATAAA-AAAATAT-G
88553178 AAATAAAAAAATAT-
1 AAATAAAAAAATATG
*
88553192 TAATAAGAAAAAATATG
1 AAAT-A-AAAAAATATG
88553209 AAATAAAAA
1 AAATAAAAA
88553218 TAAAAAAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 3 0.09
15 5 0.14
16 17 0.49
17 10 0.29
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.19
Consensus pattern (15 bp):
AAATAAAAAAATATG
Found at i:88553485 original size:14 final size:14
Alignment explanation
Indices: 88553466--88553496 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
88553456 GGAACAAGAA
88553466 AGAGGGGAAAGGGG
1 AGAGGGGAAAGGGG
88553480 AGAGGGGAAAGGGG
1 AGAGGGGAAAGGGG
88553494 AGA
1 AGA
88553497 AGGTGTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (14 bp):
AGAGGGGAAAGGGG
Found at i:88555108 original size:49 final size:45
Alignment explanation
Indices: 88555055--88555181 Score: 130
Period size: 49 Copynumber: 2.8 Consensus size: 45
88555045 ATATCAAGGC
* * *
88555055 CGATGCCATGTCCCAGATAGGTCTTACACTAGCTCTCATCTATTGGTGT
1 CGATGCCATGTCCCAGATAGGTCTTACACTAGCTCACAAC-A--AGT-T
* * * * *
88555104 CGATGCCATGTCCTAGATATGTGTTACACTAACACACAACAAGTT
1 CGATGCCATGTCCCAGATAGGTCTTACACTAGCTCACAACAAGTT
*
88555149 -AATGCCATGTCCCAGATAGGTCTTACACTAGCT
1 CGATGCCATGTCCCAGATAGGTCTTACACTAGCT
88555182 TGTATATCTC
Statistics
Matches: 64, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
44 27 0.42
45 1 0.02
46 2 0.03
48 1 0.02
49 33 0.52
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (45 bp):
CGATGCCATGTCCCAGATAGGTCTTACACTAGCTCACAACAAGTT
Found at i:88555260 original size:46 final size:46
Alignment explanation
Indices: 88555198--88555327 Score: 138
Period size: 46 Copynumber: 2.8 Consensus size: 46
88555188 TCTCGAGGTT
* * *
88555198 GATGCATGTCCTAGACATATCTTACACTGACTCTCGTCTAA-AT-GTC
1 GATGCATGTCCCAGACATATCTTACACTGACTCTC--ATAATATGGCC
* *
88555244 GATGCATGTCCCAGACATCTCTTACACTGGCTCTCATAATATGGCC
1 GATGCATGTCCCAGACATATCTTACACTGACTCTCATAATATGGCC
* * * * *
88555290 GATGCATGTCTCAGACATGTTTTACACTGGCTCACATA
1 GATGCATGTCCCAGACATATCTTACACTGACTCTCATA
88555328 CCACCCAATG
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
44 3 0.04
45 2 0.03
46 68 0.93
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (46 bp):
GATGCATGTCCCAGACATATCTTACACTGACTCTCATAATATGGCC
Found at i:88556313 original size:530 final size:529
Alignment explanation
Indices: 88555305--88556366 Score: 1962
Period size: 530 Copynumber: 2.0 Consensus size: 529
88555295 ATGTCTCAGA
88555305 CATGTTTTACACTGGCTCACATACCACCCAATGTCATGGTACGAATATCCAAGTCTATTCCAAAT
1 CATGTTTTACACTGGCTCACATACCACCCAATGTCATGGTACGAATATCCAAGTCTATTCCAAAT
* *
88555370 GTTCAACCGGAAGTCTTTATTACATTAATTTCTCGACATGCATTCTCATAATCATAATCCAACAA
66 GTTCAACCGGAAGTCTTTACTACATTAATTTCTCGACATGCATTCTCATAATCACAATCCAACAA
* *
88555435 TTCATGCAATATCAATTCAATCATACATCATAGCAATATAGTTGCACTATTAACATACAACTTAC
131 TTCATGCAATATCAATTCAATCATACATCATAGCAATATAGTTACACTATTAAAATACAACTTAC
88555500 CTCGGATTACAAAATGTAGGCGACTAGACGATTTAATCTACTTACTTGGCCTTCCCTCAATCTAG
196 CTCGGATTACAAAATGTAGGCGACTAGACGATTTAATCTACTTACTTGGCCTTCCCTCAATCTAG
*
88555565 GTTCGGATTTTGTATTTCTTGATTTGTGAGGGTTACAAGCTGCTGAAATTTTCAAGCTTTCAAAC
261 GTTCGGATTTTGTATTTCTTGATTTGTGACGGTTACAAGCTGCTGAAATTTTCAAGCTTTCAAAC
*
88555630 CTCTATTTTGCTAGTGTTTTTCGGTGGAGAAGAAGATGAAAAAGTGATGATAACATCTTTCTTTT
326 CTCTATTTTGCTAGTGTTTTTCGGTGGAGAAGAAGATGAAAAAGGGATGATAACATCTTTCTTTT
88555695 CTTTTATTTTCTTTTTGGCCAAATAAGTCACCAAACTTCACCTAACATTTGACTATTTTAATTTC
391 CTTTTATTTTCTTTTTGGCCAAATAAGTCACCAAACTTCACCTAACATTTGACTATTTTAATTTC
*
88555760 CTTGTCTCATGGCCGGCCAAGCACCATCCTAGGGTCTATTTTCACTTTAAATACCCCTACTTTAT
456 CTTGTCTCATGGCCGGCCAAGCACCATCCTAGGGTCTATTTGCACTTTAAATACCCCTA-TTTAT
88555825 AATCCATGGC
520 AATCCATGGC
*
88555835 CATGTTTTACACTGGCTCACATACCACTCAATGTCATGGTACGAATATCCAAGTCTATTCCAAAT
1 CATGTTTTACACTGGCTCACATACCACCCAATGTCATGGTACGAATATCCAAGTCTATTCCAAAT
*
88555900 GTTCAATCGGAAGTCTTTACTACATTAATTTCTCGACATGCATTCTCATAATCACAATCCAACAA
66 GTTCAACCGGAAGTCTTTACTACATTAATTTCTCGACATGCATTCTCATAATCACAATCCAACAA
88555965 TTCATGCAATATCAATTCAATCATACATCATAGCAATATAGTTACACTATTAAAATACAACTTAC
131 TTCATGCAATATCAATTCAATCATACATCATAGCAATATAGTTACACTATTAAAATACAACTTAC
*
88556030 CTCGGATTACAAAATGTAGGCGACTAGACGATTTAATCTACTTGCTTGGCCTTCCCTCAATCTAG
196 CTCGGATTACAAAATGTAGGCGACTAGACGATTTAATCTACTTACTTGGCCTTCCCTCAATCTAG
*
88556095 GTTCGGATTTTGTATTTCTTGATTTGTGACGGTTACAAGCTGCTGAAATTTTTAAGCTTTCAAAC
261 GTTCGGATTTTGTATTTCTTGATTTGTGACGGTTACAAGCTGCTGAAATTTTCAAGCTTTCAAAC
*
88556160 CTCTATTTTGCTAGTGTTTTTCGGTGGAGAAGAAGATGAAAAAGGGATGATATCATCTTTCTTTT
326 CTCTATTTTGCTAGTGTTTTTCGGTGGAGAAGAAGATGAAAAAGGGATGATAACATCTTTCTTTT
*
88556225 CTTTTATTTTCTTTTTGTCCAAATAAGTCACCAAACTTCACCTAACATTTGACTATTTTAATTTC
391 CTTTTATTTTCTTTTTGGCCAAATAAGTCACCAAACTTCACCTAACATTTGACTATTTTAATTTC
** * *
88556290 CTTGTCTCATGGTTGGTCAAGCACCATCCTATGGTCTATTTGCACTTTAAATACCCCTATTTATA
456 CTTGTCTCATGGCCGGCCAAGCACCATCCTAGGGTCTATTTGCACTTTAAATACCCCTATTTATA
88556355 ATCCATGGC
521 ATCCATGGC
88556364 CAT
1 CAT
88556367 TTAACACTAT
Statistics
Matches: 515, Mismatches: 17, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
529 18 0.03
530 497 0.97
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.36
Consensus pattern (529 bp):
CATGTTTTACACTGGCTCACATACCACCCAATGTCATGGTACGAATATCCAAGTCTATTCCAAAT
GTTCAACCGGAAGTCTTTACTACATTAATTTCTCGACATGCATTCTCATAATCACAATCCAACAA
TTCATGCAATATCAATTCAATCATACATCATAGCAATATAGTTACACTATTAAAATACAACTTAC
CTCGGATTACAAAATGTAGGCGACTAGACGATTTAATCTACTTACTTGGCCTTCCCTCAATCTAG
GTTCGGATTTTGTATTTCTTGATTTGTGACGGTTACAAGCTGCTGAAATTTTCAAGCTTTCAAAC
CTCTATTTTGCTAGTGTTTTTCGGTGGAGAAGAAGATGAAAAAGGGATGATAACATCTTTCTTTT
CTTTTATTTTCTTTTTGGCCAAATAAGTCACCAAACTTCACCTAACATTTGACTATTTTAATTTC
CTTGTCTCATGGCCGGCCAAGCACCATCCTAGGGTCTATTTGCACTTTAAATACCCCTATTTATA
ATCCATGGC
Found at i:88562863 original size:21 final size:21
Alignment explanation
Indices: 88562838--88562906 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
88562828 TATAATGATT
88562838 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
88562859 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
88562879 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
88562899 ATTATTAT
1 ATTATTAT
88562907 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:88562919 original size:15 final size:14
Alignment explanation
Indices: 88562893--88562923 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
88562883 TATGGTTTTA
88562893 TATTAGATTATTAT
1 TATTAGATTATTAT
88562907 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
88562922 TA
1 TA
88562924 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:88569768 original size:39 final size:41
Alignment explanation
Indices: 88569673--88569856 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
88569663 TTGAATGATG
*
88569673 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
88569712 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
88569752 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* * *
88569791 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
88569831 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88569857 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
39 53 0.43
40 60 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:88569878 original size:79 final size:79
Alignment explanation
Indices: 88569725--88569889 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
88569715 GGACTAAGAT
* ** *
88569725 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
* *
88569790 ATTCGGGTTAAGTC
66 ATTCCGGTTAAATC
*
88569804 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
88569866 CTATA-TCCGGTTAAATT
62 CTAAATTCCGGTTAAATC
88569883 CCGAAGG
1 CCGAAGG
88569890 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 48 0.66
80 22 0.30
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATTCCGGTTAAATC
Found at i:88577376 original size:28 final size:27
Alignment explanation
Indices: 88577335--88577388 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
88577325 ACATTTTGCA
* *
88577335 ATCATTTCAGAGTCAAATTTCATACATC
1 ATCATATCAGAGTCAAATATCA-ACATC
*
88577363 ATCATATCATAGTCAAATATCAACAT
1 ATCATATCAGAGTCAAATATCAACAT
88577389 AAAGTCCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (27 bp):
ATCATATCAGAGTCAAATATCAACATC
Found at i:88577874 original size:20 final size:20
Alignment explanation
Indices: 88577849--88577890 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
88577839 ATACATTTGC
88577849 ATAGTTATTTGTTTCCTGAA
1 ATAGTTATTTGTTTCCTGAA
88577869 ATAGTTATTTGTTTCCTGAA
1 ATAGTTATTTGTTTCCTGAA
88577889 AT
1 AT
88577891 GCCCGTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (20 bp):
ATAGTTATTTGTTTCCTGAA
Found at i:88578015 original size:43 final size:43
Alignment explanation
Indices: 88577949--88578105 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 43
88577939 AGCTCATACA
* * * *
88577949 ATGCCAACGTCCTAGACGTGGTCTTATATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATATCG
* * *
88577992 ATGCCATTGTCCCAGACAAGGTCTTACATGAAATCAAATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATATCG
* * * *
88578034 ATGCCAATGTCCTAAACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGT-AATC-AAATATCG
* *
88578078 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
88578106 CAAAATCACA
Statistics
Matches: 93, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
42 26 0.28
43 40 0.43
44 27 0.29
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATATCG
Found at i:88578101 original size:86 final size:85
Alignment explanation
Indices: 88577949--88578105 Score: 199
Period size: 86 Copynumber: 1.8 Consensus size: 85
88577939 AGCTCATACA
* * * * **
88577949 ATGCCAACGTCCTAGACGTGGTCTTATATGTAATCAAATATCGATGCCATTGTCCCAGACAAGGT
1 ATGCCAACGTCCTAAACATGGTCTTACACGTAATCAAATATCGATGCCAACGTCCCAGACAAGGT
88578014 CTTACATGAAATCAAATATG
66 CTTACATGAAATCAAATATG
* * **
88578034 ATGCCAATGTCCTAAACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAACGTCCCAGACGTG
1 ATGCCAACGTCCTAAACATGGTCTTACACGT-AATC-AAATATCGATGCCAACGTCCCAGACAAG
88578098 GTCTTACA
64 GTCTTACA
88578106 CAAAATCACA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 26 0.43
86 32 0.53
87 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (85 bp):
ATGCCAACGTCCTAAACATGGTCTTACACGTAATCAAATATCGATGCCAACGTCCCAGACAAGGT
CTTACATGAAATCAAATATG
Found at i:88581244 original size:30 final size:30
Alignment explanation
Indices: 88581208--88581267 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
88581198 TTCGAAATTC
88581208 ATCTTAGGAAAATAATCCAGTTAATCCTTT
1 ATCTTAGGAAAATAATCCAGTTAATCCTTT
88581238 ATCTTAGGAAAATAATCCAGTTAATCCTTT
1 ATCTTAGGAAAATAATCCAGTTAATCCTTT
88581268 CTTTTGATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (30 bp):
ATCTTAGGAAAATAATCCAGTTAATCCTTT
Found at i:88581578 original size:25 final size:25
Alignment explanation
Indices: 88581544--88581591 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
88581534 GAGCCACAGG
88581544 ATTGACTCTCATATATGCTTTAAGC
1 ATTGACTCTCATATATGCTTTAAGC
88581569 ATTGACTCTCATATATGCTTTAA
1 ATTGACTCTCATATATGCTTTAA
88581592 ACATATCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (25 bp):
ATTGACTCTCATATATGCTTTAAGC
Found at i:88582265 original size:26 final size:26
Alignment explanation
Indices: 88582236--88582343 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
88582226 TGATACAAAT
88582236 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
88582262 TGATAATGGATTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88582288 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
88582314 TGATAATGGGTTAGGTAAATGTTCGA
1 TGATAATGGGTTAGGTAAATGTTCCA
88582340 TGAT
1 TGAT
88582344 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:88586479 original size:20 final size:20
Alignment explanation
Indices: 88586454--88586517 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
88586444 TCAAATGCAT
88586454 TACATATATATATTATCATA
1 TACATATATATATTATCATA
*
88586474 TACATAAATATCA-TATCA-A
1 TACATATATAT-ATTATCATA
*
88586493 AACAT-TATATACTTATACATA
1 TACATATATATA-TTAT-CATA
88586514 TACA
1 TACA
88586518 AATGCCGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
17 1 0.03
18 4 0.11
19 8 0.23
20 17 0.49
21 5 0.14
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (20 bp):
TACATATATATATTATCATA
Found at i:88587766 original size:45 final size:45
Alignment explanation
Indices: 88587657--88588498 Score: 1568
Period size: 45 Copynumber: 18.8 Consensus size: 45
88587647 ATGCTATCTC
** *
88587657 ATATCGATGCCATTGTCCCAGACA-GTGTCTTACACG-AATCA-A-
1 ATATCGATGCCAACGTCCCAGACATG-GTCTTACACGTAACCACAT
* * *
88587699 ATAT-GATGTCGATGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88587743 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88587788 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88587833 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88587878 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88587923 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88587968 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88588013 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88588058 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88588103 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88588148 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88588193 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88588238 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88588283 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88588328 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88588373 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
88588418 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
**
88588463 ATATCGATGCCAACGTCCCAGATGTGGTCTTACACG
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACG
88588499 AGAACACAAA
Statistics
Matches: 786, Mismatches: 9, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
41 26 0.03
42 9 0.01
43 1 0.00
44 4 0.01
45 746 0.95
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (45 bp):
ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAACCACAT
Found at i:88589088 original size:13 final size:15
Alignment explanation
Indices: 88589061--88589091 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
88589051 TAAAAAATTC
88589061 CAATCCAAAACATAT
1 CAATCCAAAACATAT
*
88589076 CAATCCAAAATATAT
1 CAATCCAAAACATAT
88589091 C
1 C
88589092 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (15 bp):
CAATCCAAAACATAT
Found at i:88596593 original size:20 final size:20
Alignment explanation
Indices: 88596568--88596631 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
88596558 TCAAATGCAT
88596568 TACATATATATATTATCATA
1 TACATATATATATTATCATA
*
88596588 TACATAAATATCA-TATCA-A
1 TACATATATAT-ATTATCATA
*
88596607 AACAT-TATATACTTATACATA
1 TACATATATATA-TTAT-CATA
88596628 TACA
1 TACA
88596632 AATGCCGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
17 1 0.03
18 4 0.11
19 8 0.23
20 17 0.49
21 5 0.14
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (20 bp):
TACATATATATATTATCATA
Found at i:88597844 original size:41 final size:44
Alignment explanation
Indices: 88597773--88597895 Score: 137
Period size: 41 Copynumber: 2.8 Consensus size: 44
88597763 ATGCTATCTC
* *
88597773 ATATCGATGCCATTGTCCCAGACA-GTGTCTTACACGAATCA-A-
1 ATATCGATGCCAATGTCCCAGACATG-GTCTTACACGAACCACAT
* *
88597815 ATAT-GATGTCGATGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACG-AACCACAT
* **
88597859 ATATCGATGCCAACGTCCCAGATGTGGTCTTACACGA
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGA
88597896 GAACACAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
41 26 0.39
42 9 0.13
43 1 0.01
44 5 0.07
45 26 0.39
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (44 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAACCACAT
Found at i:88598484 original size:13 final size:15
Alignment explanation
Indices: 88598457--88598487 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
88598447 TAAAAAATTC
88598457 CAATCCAAAACATAT
1 CAATCCAAAACATAT
*
88598472 CAATCCAAAATATAT
1 CAATCCAAAACATAT
88598487 C
1 C
88598488 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (15 bp):
CAATCCAAAACATAT
Found at i:88604832 original size:33 final size:34
Alignment explanation
Indices: 88604790--88604861 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
88604780 GACAGCCTAG
*
88604790 TATCAGTGT-GGCCTTAGCCTATTACAGTAACAA
1 TATCAGTGTGGGCCTTAGCCCATTACAGTAACAA
88604823 TATCAGTGTGGGCCTTAGCCCATTACAGTAACAA
1 TATCAGTGTGGGCCTTAGCCCATTACAGTAACAA
88604857 TATCA
1 TATCA
88604862 TAAATACGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 9 0.24
34 28 0.76
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (34 bp):
TATCAGTGTGGGCCTTAGCCCATTACAGTAACAA
Found at i:88608264 original size:54 final size:55
Alignment explanation
Indices: 88608143--88608277 Score: 141
Period size: 54 Copynumber: 2.5 Consensus size: 55
88608133 CAATTTGATG
* *** **
88608143 AAATGACTATTTTGCCCTTATG-AGGTAAAATGACTGTTTTGCCCCTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTAGGTAAAATAACTGAAATGCCCCTACATGGTA
** * *
88608197 AAAAAATTGTTTTGCCCTTATGTA-GTAAAATAACTGAAATGCCCCTACATGGTA
1 AAATGACTATTTTGCCCTTATGTAGGTAAAATAACTGAAATGCCCCTACATGGTA
* *
88608251 AATTGACTATTTTGCCCCTATGT-GGTA
1 AAATGACTATTTTGCCCTTATGTAGGTA
88608278 TATGTTTAGA
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
54 62 0.98
55 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (55 bp):
AAATGACTATTTTGCCCTTATGTAGGTAAAATAACTGAAATGCCCCTACATGGTA
Found at i:88608276 original size:27 final size:27
Alignment explanation
Indices: 88608143--88608277 Score: 119
Period size: 27 Copynumber: 5.0 Consensus size: 27
88608133 CAATTTGATG
* *
88608143 AAATGACTATTTTGCCCTTATGAGGTA
1 AAATGACTATTTTGCCCCTATGTGGTA
*
88608170 AAATGACTGTTTTGCCCCTATGTGGTA
1 AAATGACTATTTTGCCCCTATGTGGTA
** * * * *
88608197 AAAAAATTGTTTTGCCCTTATGTAGTA
1 AAATGACTATTTTGCCCCTATGTGGTA
* ** **
88608224 AAATAACTGA-AATGCCCCTACATGGTA
1 AAATGACT-ATTTTGCCCCTATGTGGTA
*
88608251 AATTGACTATTTTGCCCCTATGTGGTA
1 AAATGACTATTTTGCCCCTATGTGGTA
88608278 TATGTTTAGA
Statistics
Matches: 83, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
26 1 0.01
27 82 0.99
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (27 bp):
AAATGACTATTTTGCCCCTATGTGGTA
Found at i:88614668 original size:29 final size:29
Alignment explanation
Indices: 88614626--88614681 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
88614616 TCTCTTTACT
88614626 AGTAACTTTACTAGTAGTGGTTTCAACAC
1 AGTAACTTTACTAGTAGTGGTTTCAACAC
88614655 AGTAACTTTACTAGTAGTGGTTTCAAC
1 AGTAACTTTACTAGTAGTGGTTTCAAC
88614682 CATAATACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (29 bp):
AGTAACTTTACTAGTAGTGGTTTCAACAC
Found at i:88627704 original size:33 final size:34
Alignment explanation
Indices: 88627659--88627733 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
88627649 AGTGACAGCC
*
88627659 CAGTATCAGTAT-GGCCTTAGCCCATTACAGTAA
1 CAGTATCAGTATGGGCCTGAGCCCATTACAGTAA
*
88627692 CATTATCAGTATGGGCCTGAGCCCATTACAGTAA
1 CAGTATCAGTATGGGCCTGAGCCCATTACAGTAA
88627726 CAGTATCA
1 CAGTATCA
88627734 TAAATGCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 11 0.29
34 27 0.71
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (34 bp):
CAGTATCAGTATGGGCCTGAGCCCATTACAGTAA
Found at i:88635479 original size:45 final size:45
Alignment explanation
Indices: 88635396--88635482 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
88635386 ATATCGTACA
* *
88635396 ATGCCAACGTCCCAAACGTGGTCTTACACGTAACCACATATATCG
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAAACACATATATCG
*
88635441 ATGCCAACGTCCCAGACATGGTCTTACACG-AGAACACATATA
1 ATGCCAACGTCCCAAACATGGTCTTACACGTA-AACACATATA
88635483 AGAAATCCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 1 0.03
45 37 0.97
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (45 bp):
ATGCCAACGTCCCAAACATGGTCTTACACGTAAACACATATATCG
Found at i:88638167 original size:27 final size:26
Alignment explanation
Indices: 88638120--88638170 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
88638110 CAAGGCTGCC
*
88638120 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
88638146 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
88638171 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:88638224 original size:67 final size:67
Alignment explanation
Indices: 88638103--88638237 Score: 218
Period size: 67 Copynumber: 2.0 Consensus size: 67
88638093 TACCACAGAA
*
88638103 ATTGCAGCAAGGCTGCCAGATATTGTGACGAAGTCACCAGAATAGATATATGTGGCGAGGCCACC
1 ATTGCAGCAAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACC
88638168 AG
66 AG
* * *
88638170 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGTTAT-TGTGGCTAGGCCAC
1 ATTGCAGCAAGGCTGCCAGATATTGTGACGAAGTCACCAGA-ACAGATATATGTGGCGAGGCCAC
88638234 CAG
65 CAG
88638237 A
1 A
88638238 ACAGATATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 57 0.90
68 6 0.10
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (67 bp):
ATTGCAGCAAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACC
AG
Found at i:88638288 original size:98 final size:98
Alignment explanation
Indices: 88638148--88638335 Score: 324
Period size: 98 Copynumber: 1.9 Consensus size: 98
88638138 ACCAGAATAG
*
88638148 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATA
1 ATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGA-A
* *
88638213 CAGTTAT-TGTGGCTAGGCCACCAGAACAGATAT
65 CAGATATATGTGGCGAGGCCACCAGAACAGATAT
*
88638246 ATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAT
1 ATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
88638311 AGATATATGTGGCGAGGCCACCAGA
66 AGATATATGTGGCGAGGCCACCAGA
88638336 TTGCAGCGAG
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
97 6 0.07
98 79 0.93
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.20
Consensus pattern (98 bp):
ATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
AGATATATGTGGCGAGGCCACCAGAACAGATAT
Found at i:88638295 original size:165 final size:165
Alignment explanation
Indices: 88638103--88638402 Score: 548
Period size: 165 Copynumber: 1.8 Consensus size: 165
88638093 TACCACAGAA
88638103 ATTGCAGCAAGGCTGCCAGATATTGTGACGAAGTCACCAGAATAGATATATGTGGCGAGGCCACC
1 ATTGCAGCAAGGCTGCCAGATATTGTGACGAAGTCACCAGAATAGATATATGTGGCGAGGCCACC
* *
88638168 AGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGTTAT-TGTGGCTAGGCC
66 AGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGA-ACAGATATATGTGGCGAGGCC
88638232 ACCAGAACAGATATATATATGTGGCGAAGCCACCAG
130 ACCAGAACAGATATATATATGTGGCGAAGCCACCAG
*
88638268 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAATAGATATATGTGGCGAGGCCACC
1 ATTGCAGCAAGGCTGCCAGATATTGTGACGAAGTCACCAGAATAGATATATGTGGCGAGGCCACC
*
88638333 AGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAATAGATATATGTGGCGAGGCCA
66 AGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCA
88638398 CCAGA
131 CCAGA
88638403 TTGCAGCGAG
Statistics
Matches: 130, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
164 6 0.05
165 124 0.95
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (165 bp):
ATTGCAGCAAGGCTGCCAGATATTGTGACGAAGTCACCAGAATAGATATATGTGGCGAGGCCACC
AGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCA
CCAGAACAGATATATATATGTGGCGAAGCCACCAG
Found at i:88638332 original size:27 final size:26
Alignment explanation
Indices: 88638285--88638335 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
88638275 CGAGGCTGCC
*
88638285 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
88638311 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
88638336 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:88638336 original size:67 final size:67
Alignment explanation
Indices: 88638246--88638421 Score: 343
Period size: 67 Copynumber: 2.6 Consensus size: 67
88638236 GAACAGATAT
*
88638246 ATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAT
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAT
88638311 AG
66 AG
88638313 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAT
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAT
88638378 AG
66 AG
88638380 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGA
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGA
88638422 ATGCTTCCCC
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 108 1.00
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.19
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAT
AG
Found at i:88638399 original size:27 final size:26
Alignment explanation
Indices: 88638352--88638402 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
88638342 CGAGGCTGCC
*
88638352 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
88638378 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
88638403 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:88639100 original size:27 final size:27
Alignment explanation
Indices: 88639081--88639251 Score: 236
Period size: 27 Copynumber: 6.3 Consensus size: 27
88639071 GGTATCTTGA
**
88639081 TAATTCTACCTTACAGGGGTATTTCAA
1 TAATTCTACCTTACAGGGGTATTTCGG
*
88639108 TAATTCTACCTTACAAGGGTATTTCGG
1 TAATTCTACCTTACAGGGGTATTTCGG
88639135 TAATTCTATCC-TACAGGGGTATTTCGG
1 TAATTCTA-CCTTACAGGGGTATTTCGG
* * **
88639162 TAATTCTACCCTATAGGGGTATTTCAA
1 TAATTCTACCTTACAGGGGTATTTCGG
* *
88639189 TAAATCTACCTTACAGGGGTATTTTGG
1 TAATTCTACCTTACAGGGGTATTTCGG
*
88639216 TAATTCGACCTTACAGGGGTATTTCGG
1 TAATTCTACCTTACAGGGGTATTTCGG
88639243 TAATTCTAC
1 TAATTCTAC
88639252 AACTTATCCA
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 121 0.97
28 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
TAATTCTACCTTACAGGGGTATTTCGG
Found at i:88639125 original size:54 final size:54
Alignment explanation
Indices: 88639052--88639251 Score: 233
Period size: 54 Copynumber: 3.7 Consensus size: 54
88639042 GGGGAAAAAT
* **
88639052 GGTAATTTTACCCCACAAGGGTATCTT-GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTAT-TTCGATAATTCTACCTTACAGGGGTATTTC
** *
88639106 AATAATTCTACCTTACAAGGGTATTTCGGTAATTCTATCC-TACAGGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTCGATAATTCTA-CCTTACAGGGGTATTTC
* * * * * *
88639160 GGTAATTCTACCCTATAGGGGTATTTCAATAAATCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCTTACAAGGGTATTTCGATAATTCTACCTTACAGGGGTATTTC
* * *
88639214 GGTAATTCGACCTTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCTTACAAGGGTATTTCGATAATTCTAC
88639252 AACTTATCCA
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 4 0.03
54 116 0.95
55 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCTTACAAGGGTATTTCGATAATTCTACCTTACAGGGGTATTTC
Found at i:88639187 original size:81 final size:81
Alignment explanation
Indices: 88639081--88639251 Score: 272
Period size: 81 Copynumber: 2.1 Consensus size: 81
88639071 GGTATCTTGA
* * *
88639081 TAATTCTACCTTACAGGGGTATTTCAATAATTCTACCTTACAAGGGTATTTCGGTAATTCTATCC
1 TAATTCTACCCTACAGGGGTATTTCAATAAATCTACCTTACAAGGGTATTTCGGTAATTCGA-CC
88639146 -TACAGGGGTATTTCGG
65 TTACAGGGGTATTTCGG
* * *
88639162 TAATTCTACCCTATAGGGGTATTTCAATAAATCTACCTTACAGGGGTATTTTGGTAATTCGACCT
1 TAATTCTACCCTACAGGGGTATTTCAATAAATCTACCTTACAAGGGTATTTCGGTAATTCGACCT
88639227 TACAGGGGTATTTCGG
66 TACAGGGGTATTTCGG
88639243 TAATTCTAC
1 TAATTCTAC
88639252 AACTTATCCA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 2 0.02
81 81 0.98
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCAATAAATCTACCTTACAAGGGTATTTCGGTAATTCGACCT
TACAGGGGTATTTCGG
Found at i:88640948 original size:39 final size:39
Alignment explanation
Indices: 88640896--88641031 Score: 139
Period size: 39 Copynumber: 3.5 Consensus size: 39
88640886 CCGGACATAT
* * *
88640896 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCTGTTATAA
1 TTCCAGCATGTAGCCTGCGGACCTTAAGTCCGGGTATAA
* * *
88640935 TTTCGGCATGTAGCCTACGGACCTTAAGTCCGGGTATAA
1 TTCCAGCATGTAGCCTGCGGACCTTAAGTCCGGGTATAA
* * * * *
88640974 TTCCAGCATATAGCCTGCGGGTCTTTAAG-CCTGGATGTAA
1 TTCCAGCATGTAGCCTGC-GGACCTTAAGTCC-GGGTATAA
*
88641014 TTCCAGCATATAGCCTGC
1 TTCCAGCATGTAGCCTGC
88641032 AGGTCTTTAA
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 49 0.60
40 32 0.40
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (39 bp):
TTCCAGCATGTAGCCTGCGGACCTTAAGTCCGGGTATAA
Found at i:88641015 original size:40 final size:40
Alignment explanation
Indices: 88640971--88641049 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
88640961 AGTCCGGGTA
* *
88640971 TAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCTGGATG
1 TAATTCCAGCATATAGCCTGCAGGTCTTTAAGCCCGGATG
88641011 TAATTCCAGCATATAGCCTGCAGGTCTTTAAGCCCGGAT
1 TAATTCCAGCATATAGCCTGCAGGTCTTTAAGCCCGGAT
88641050 ACACATCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (40 bp):
TAATTCCAGCATATAGCCTGCAGGTCTTTAAGCCCGGATG
Found at i:88643524 original size:36 final size:36
Alignment explanation
Indices: 88643477--88643626 Score: 300
Period size: 36 Copynumber: 4.2 Consensus size: 36
88643467 TTCGTCTCAT
88643477 ACTTTTCTTTTTCCTTGTTCGGTTCTCCCTTTTCTA
1 ACTTTTCTTTTTCCTTGTTCGGTTCTCCCTTTTCTA
88643513 ACTTTTCTTTTTCCTTGTTCGGTTCTCCCTTTTCTA
1 ACTTTTCTTTTTCCTTGTTCGGTTCTCCCTTTTCTA
88643549 ACTTTTCTTTTTCCTTGTTCGGTTCTCCCTTTTCTA
1 ACTTTTCTTTTTCCTTGTTCGGTTCTCCCTTTTCTA
88643585 ACTTTTCTTTTTCCTTGTTCGGTTCTCCCTTTTCTA
1 ACTTTTCTTTTTCCTTGTTCGGTTCTCCCTTTTCTA
88643621 ACTTTT
1 ACTTTT
88643627 TTCCCTTAAC
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 114 1.00
ACGTcount: A:0.06, C:0.27, G:0.08, T:0.59
Consensus pattern (36 bp):
ACTTTTCTTTTTCCTTGTTCGGTTCTCCCTTTTCTA
Found at i:88643653 original size:72 final size:71
Alignment explanation
Indices: 88643499--88643642 Score: 202
Period size: 72 Copynumber: 2.0 Consensus size: 71
88643489 CCTTGTTCGG
*
88643499 TTCTCCCTTTTCTAACTTTTCTTTTTCCTTGTTCGGTTCTCCCTTTTCTAACTTTTCTTTTTCCT
1 TTCTCCCTTTTCTAACTTTTCTTTTTCCTTGTTCGGTTCTCCCTTTTCTAAC-TTTCTTTTCCCT
*** *
88643564 TGTTCGG
65 TCACCGA
88643571 TTCTCCCTTTTCTAACTTTTCTTTTTCCTTGTTCGGTTCTCCCTTTTCTAAC-TT-TTTTCCCTT
1 TTCTCCCTTTTCTAACTTTTCTTTTTCCTTGTTCGGTTCTCCCTTTTCTAACTTTCTTTTCCCTT
88643634 AACACCGA
66 --CACCGA
88643642 T
1 T
88643643 ATTCTCCTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
69 8 0.12
70 2 0.03
71 3 0.05
72 52 0.80
ACGTcount: A:0.08, C:0.29, G:0.07, T:0.56
Consensus pattern (71 bp):
TTCTCCCTTTTCTAACTTTTCTTTTTCCTTGTTCGGTTCTCCCTTTTCTAACTTTCTTTTCCCTT
CACCGA
Found at i:88643994 original size:37 final size:36
Alignment explanation
Indices: 88643952--88644036 Score: 118
Period size: 37 Copynumber: 2.4 Consensus size: 36
88643942 GGTTTATACT
* *
88643952 GATTTATCTTGAGGAAGGGAAAGTATTCGGAGCGTG
1 GATTTATCTTCAGGAAGGGAAAGTATTCGCAGCGTG
*
88643988 GNATTTATCTTCAGGTAGGGAAAGTATTCGCAGCGTG
1 G-ATTTATCTTCAGGAAGGGAAAGTATTCGCAGCGTG
*
88644025 GA-TTAACTTCAG
1 GATTTATCTTCAG
88644037 TCGCATAATG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
35 9 0.20
36 2 0.05
37 33 0.75
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.29
Consensus pattern (36 bp):
GATTTATCTTCAGGAAGGGAAAGTATTCGCAGCGTG
Found at i:88657101 original size:25 final size:25
Alignment explanation
Indices: 88657067--88657119 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
88657057 ATCAAGTGCA
88657067 TTCGCAATGACACAAACCAACTTAC
1 TTCGCAATGACACAAACCAACTTAC
88657092 TTCGCAATGACACAAACCAACTTAC
1 TTCGCAATGACACAAACCAACTTAC
88657117 TTC
1 TTC
88657120 AATATTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.32, G:0.08, T:0.23
Consensus pattern (25 bp):
TTCGCAATGACACAAACCAACTTAC
Found at i:88659658 original size:20 final size:20
Alignment explanation
Indices: 88659633--88659674 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
88659623 ATACATTCGC
88659633 ATAGTTATTTGTTTCCTGAA
1 ATAGTTATTTGTTTCCTGAA
88659653 ATAGTTATTTGTTTCCTGAA
1 ATAGTTATTTGTTTCCTGAA
88659673 AT
1 AT
88659675 GCCCGTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (20 bp):
ATAGTTATTTGTTTCCTGAA
Found at i:88659799 original size:43 final size:42
Alignment explanation
Indices: 88659764--88659853 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
88659754 TCTTATATGT
* *
88659764 AATCAAATATCGATGCCATTGTCCCAGACAAGGTCTTACACGA
1 AATCAAATAT-GATGCCAATGTCCCAAACAAGGTCTTACACGA
* *
88659807 AATCAAATATGATGCCAATGTCCTAAACATGGTCTTACACGTA
1 AATCAAATATGATGCCAATGTCCCAAACAAGGTCTTACACG-A
88659850 AATC
1 AATC
88659854 TCAAATCGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 27 0.64
43 15 0.36
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (42 bp):
AATCAAATATGATGCCAATGTCCCAAACAAGGTCTTACACGA
Found at i:88659841 original size:42 final size:43
Alignment explanation
Indices: 88659733--88659905 Score: 161
Period size: 43 Copynumber: 4.0 Consensus size: 43
88659723 AGCTCATACA
* * * * *
88659733 ATGCCAACGTCCTAGACGTGGTCTTATATGTAATCAAATATCG
1 ATGCCAATGTCCTAGACATGGTCTTACACGAAATCAAATATCG
* * *
88659776 ATGCCATTGTCCCAGACAAGGTCTTACACGAAATCAAATAT-G
1 ATGCCAATGTCCTAGACATGGTCTTACACGAAATCAAATATCG
* *
88659818 ATGCCAATGTCCTAAACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAATGTCCTAGACATGGTCTTACACG-AAATC-AAATATCG
* ** * * * *
88659862 ATACCAACATCCCAGACGTGGTCTTACACAAAATCACATATCG
1 ATGCCAATGTCCTAGACATGGTCTTACACGAAATCAAATATCG
88659905 A
1 A
88659906 AATCCTATGT
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 28 0.27
43 50 0.48
44 26 0.25
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACATGGTCTTACACGAAATCAAATATCG
Found at i:88663330 original size:25 final size:25
Alignment explanation
Indices: 88663296--88663344 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
88663286 TGAGCCACAA
*
88663296 GATTGACTCTCATATATGTTTTAAG
1 GATTGACTCTCATATATGCTTTAAG
88663321 GATTGACTCTCATATATGCTTTAA
1 GATTGACTCTCATATATGCTTTAA
88663345 ACATATCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (25 bp):
GATTGACTCTCATATATGCTTTAAG
Found at i:88664018 original size:26 final size:26
Alignment explanation
Indices: 88663989--88664096 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
88663979 TGATACAAAT
88663989 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
88664015 TGATAATGGATTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88664041 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
88664067 TGATAATGGGTTAGGTAAATGTTCGA
1 TGATAATGGGTTAGGTAAATGTTCCA
88664093 TGAT
1 TGAT
88664097 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:88669007 original size:43 final size:42
Alignment explanation
Indices: 88668873--88669024 Score: 128
Period size: 43 Copynumber: 3.6 Consensus size: 42
88668863 ACATCGTACA
* * * * * * *
88668873 ATGCCAACGTCCTAGGCGTGGTCTTACATGCTATCTCATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AATCACATATCG
* * * * *
88668916 ATGCCATTGTGCCAAACAGGGTCTTACACGAATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATCACATATCG
* *
88668957 ATGCCAATGTTCTAGACATGGTCTTACAC-ATGATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGA--ATCACATATCG
*
88669000 ATGCCAATGTCCCAGACGTGGTCTT
1 ATGCCAATGTCCCAGACATGGTCTT
88669025 GCATGATAAC
Statistics
Matches: 85, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
40 1 0.01
41 26 0.31
42 13 0.15
43 45 0.53
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAATCACATATCG
Found at i:88677064 original size:43 final size:43
Alignment explanation
Indices: 88676898--88677066 Score: 164
Period size: 43 Copynumber: 4.0 Consensus size: 43
88676888 ATATCGTACA
* * ** * *
88676898 ATGCCAATGTCCTAGACGTGGTCTTACATGCTATCTCATATCA
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAGATCACATATCG
* * *
88676941 ATGCCACTGTCCCAGACAG-GGTCTTACCCGA-ATCAAATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAGATCACATATCG
* * * * *
88676982 ATGCCGATGTCCCAAACATGGTCTTACACGTGATTACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAGATCACATATCG
* *
88677025 ATGCTAATGTCCCAGACGTGGTCTTACACGAGAACACATATC
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAGATCACATATC
88677067 AAAAACCCTA
Statistics
Matches: 99, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
41 25 0.25
42 12 0.12
43 61 0.62
44 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAGATCACATATCG
Found at i:88678142 original size:14 final size:14
Alignment explanation
Indices: 88678123--88678149 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88678113 ATCGGCACTC
88678123 AAACGATAAAATTA
1 AAACGATAAAATTA
88678137 AAACGATAAAATT
1 AAACGATAAAATT
88678150 TCACAGATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (14 bp):
AAACGATAAAATTA
Found at i:88679218 original size:40 final size:40
Alignment explanation
Indices: 88679160--88679313 Score: 172
Period size: 40 Copynumber: 3.9 Consensus size: 40
88679150 GGATATAGCT
* *
88679160 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
** *
88679199 ACTCGCACAAATGCCTTCGGGACTTAATCCGAATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG-GTTATAGTA
* * *
88679239 ACTCGCACCAATGCCTTCGGGACTT-GCCCGG-AACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* *
88679278 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
88679314 CATCCAAATA
Statistics
Matches: 94, Mismatches: 15, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
39 36 0.38
40 55 0.59
41 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:88682945 original size:39 final size:40
Alignment explanation
Indices: 88682848--88683029 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 40
88682838 AATGATGTCC
* * * *
88682848 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCT
*
88682888 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCT
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCT
* * *
88682928 GGGCTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCT
* * *
88682967 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCT
*
88683007 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
88683030 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 17, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
39 35 0.29
40 74 0.62
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCT
Found at i:88683051 original size:79 final size:79
Alignment explanation
Indices: 88682898--88683062 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
88682888 GGACTAAGAT
* * ***
88682898 CCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
88682963 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* *
88682977 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
88683040 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
88683056 CCGAAGG
1 CCGAAGG
88683063 TACGTGATTC
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.67
80 22 0.31
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:88700305 original size:15 final size:15
Alignment explanation
Indices: 88700267--88700310 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
88700257 CATAGTATCG
* *
88700267 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
88700282 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
88700297 TATCTTGGATTTCT
1 TATCTTGGATTTCT
88700311 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:88702767 original size:46 final size:46
Alignment explanation
Indices: 88702717--88702892 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
88702707 TGGTTGAGCA
88702717 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
88702763 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
88702808 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
88702856 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88702893 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:88702873 original size:93 final size:93
Alignment explanation
Indices: 88702714--88702884 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
88702704 GGATGGTTGA
* *
88702714 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88702779 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
88702807 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88702872 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
88702885 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:88712614 original size:16 final size:17
Alignment explanation
Indices: 88712593--88712628 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
88712583 GTAACACCCC
88712593 AAAAATCCCGAAA-CCT
1 AAAAATCCCGAAATCCT
*
88712609 AAAAATCTCGAAATCCT
1 AAAAATCCCGAAATCCT
88712626 AAA
1 AAA
88712629 CTTTCTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.53, C:0.25, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAAATCCCGAAATCCT
Found at i:88717586 original size:16 final size:16
Alignment explanation
Indices: 88717565--88717607 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
88717555 ATGTATCGGC
*
88717565 AAAAGCCGAAATGCCG
1 AAAAGCCAAAATGCCG
88717581 AAAAGCCAAAATGCCG
1 AAAAGCCAAAATGCCG
*
88717597 AAAAGTCAAAA
1 AAAAGCCAAAA
88717608 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.53, C:0.21, G:0.19, T:0.07
Consensus pattern (16 bp):
AAAAGCCAAAATGCCG
Found at i:88717899 original size:28 final size:28
Alignment explanation
Indices: 88717818--88717903 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
88717808 GTGAGCATGA
* *
88717818 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
88717846 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
88717875 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
88717903 A
1 A
88717904 GATACAGGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 27 0.53
29 24 0.47
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:88718214 original size:25 final size:26
Alignment explanation
Indices: 88718186--88718239 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
88718176 AAACTGTAAT
* *
88718186 TAAGGG-AAAATTACCAAAATGCCCC
1 TAAGGGAAAAATGACCAAAATACCCC
88718211 TAAGGGAAAAAATGACCAAAATACCCC
1 TAAGGG-AAAAATGACCAAAATACCCC
88718238 TA
1 TA
88718240 GGTGTTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.24
27 19 0.76
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (26 bp):
TAAGGGAAAAATGACCAAAATACCCC
Found at i:88731373 original size:23 final size:23
Alignment explanation
Indices: 88731347--88731390 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
88731337 TATGTTTATC
*
88731347 CACTTCGACGGTGTTCTATTAGT
1 CACTTCGACGATGTTCTATTAGT
* *
88731370 CACTTTGGCGATGTTCTATTA
1 CACTTCGACGATGTTCTATTA
88731391 TTTGCTTTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.41
Consensus pattern (23 bp):
CACTTCGACGATGTTCTATTAGT
Found at i:88731398 original size:23 final size:22
Alignment explanation
Indices: 88731358--88731408 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
88731348 ACTTCGACGG
88731358 TGTTCTATTAGTCACTTTGGCGA
1 TGTTCTATTAGTCACTTTGG-GA
* ** *
88731381 TGTTCTATTATTTGCTTTGGGG
1 TGTTCTATTAGTCACTTTGGGA
88731403 TGTTCT
1 TGTTCT
88731409 GTTTCGTTCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.12, C:0.14, G:0.24, T:0.51
Consensus pattern (22 bp):
TGTTCTATTAGTCACTTTGGGA
Found at i:88734453 original size:25 final size:25
Alignment explanation
Indices: 88734425--88734494 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
88734415 CTCTTTTAAT
*
88734425 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
88734450 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
88734475 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
88734495 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:88734727 original size:27 final size:27
Alignment explanation
Indices: 88734697--88735092 Score: 429
Period size: 27 Copynumber: 14.7 Consensus size: 27
88734687 GGGGCAAAAT
* * * *
88734697 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
88734724 GGTAATTCTACTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
88734751 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
88734778 GGTATTTCTACCCTACAATGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
88734805 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
88734832 GATAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
88734859 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
88734886 GGTAATTCTACCTTATAGGGGTACTTT-
1 GGTAATTCTACCCTACAGGGGTA-TTTC
* * *
88734913 AGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
88734940 GGTAATTCTACCTTATAGGGGTACTTT-
1 GGTAATTCTACCCTACAGGGGTA-TTTC
* * *
88734967 AGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
88734994 GGTAATTCTACCTTATAGGGGTACTTT-
1 GGTAATTCTACCCTACAGGGGTA-TTTC
* * *
88735021 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
88735048 GGTAATTCTACCTTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
88735075 GGCAATGCTAGCCTACAG
1 GGTAATTCTACCCTACAG
88735093 ATATGAGATT
Statistics
Matches: 321, Mismatches: 42, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
26 9 0.03
27 303 0.94
28 9 0.03
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:88734755 original size:54 final size:53
Alignment explanation
Indices: 88734698--88735073 Score: 484
Period size: 54 Copynumber: 7.0 Consensus size: 53
88734688 GGGCAAAATG
* * * * *
88734698 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTA-CTCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT-TACAGGGGTATTT-A
* * * **
88734752 GTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTACAATGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTT-A
*
88734806 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTA-TTTA
* *
88734860 GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTATAGGGGTACTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTA-TTTA
* * *
88734914 GTAATTCTACCTTACAGGGGTATTTTGGTAATTCTACCTTATAGGGGTACTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTA-TTTA
* * *
88734968 GTAATTCTACCTTACAGGGGTATTTTGGTAATTCTACCTTATAGGGGTACTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTA-TTTA
* * *
88735022 GTAATTCTACCTTATAGGGGTATTTCGGTAATTCTACCTTACAGGGATATTT
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTT
88735074 CGGCAATGCT
Statistics
Matches: 293, Mismatches: 27, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
53 3 0.01
54 286 0.98
55 4 0.01
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (53 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTA
Found at i:88734790 original size:81 final size:81
Alignment explanation
Indices: 88734696--88735076 Score: 498
Period size: 81 Copynumber: 4.7 Consensus size: 81
88734686 AGGGGCAAAA
* * * * *
88734696 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTA-CTCTACAGGGGTATTTCGGTAATTCT
1 TGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCT-TACAGGGGTATTTCGGTAATTCT
*
88734760 ACCCTACAGGGGTATTT
65 ACCTTACAGGGGTATTT
* * ** * * *
88734777 TGGTATTTCTACCCTACAATGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
1 TGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTA
88734842 CCTTACAGGGGTATTT
66 CCTTACAGGGGTATTT
* * *
88734858 TAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTATAGGGGTACTTT-AGTAATTCT
1 TGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTACAGGGGTA-TTTCGGTAATTCT
88734922 ACCTTACAGGGGTATTT
65 ACCTTACAGGGGTATTT
* * *
88734939 TGGTAATTCTACCTTATAGGGGTACTTT-AGTAATTCTACCTTACAGGGGTATTTTGGTAATTCT
1 TGGTAATTCTACCCTATAGGGGTA-TTTCGGTAATTCTACCTTACAGGGGTATTTCGGTAATTCT
* *
88735003 ACCTTATAGGGGTACTT
65 ACCTTACAGGGGTATTT
* * *
88735020 TAGTAATTCTACCTTATAGGGGTATTTCGGTAATTCTACCTTACAGGGATATTTCGG
1 TGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGG
88735077 CAATGCTAGC
Statistics
Matches: 265, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
80 6 0.02
81 252 0.95
82 7 0.03
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (81 bp):
TGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTA
CCTTACAGGGGTATTT
Found at i:88735847 original size:390 final size:390
Alignment explanation
Indices: 88735128--88735908 Score: 1535
Period size: 390 Copynumber: 2.0 Consensus size: 390
88735118 AATATTTACT
88735128 ACACAATCAAACAACTTATCCAATTGGGCCCGAAAGCCCATTGGGCCCACATGGCCCCTTTTGGC
1 ACACAATCAAACAACTTATCCAATTGGGCCCGAAAGCCCATTGGGCCCACATGGCCCCTTTTGGC
88735193 CCATCGTGGCCCAAAGTAGCCATCCTACAGCTAGAGTAGTGAGAAATACACAACTGATTGGAGAC
66 CCATCGTGGCCCAAAGTAGCCATCCTACAGCTAGAGTAGTGAGAAATACACAACTGATTGGAGAC
88735258 TGGAGTTAATCCACGCTCCGAGCACTCTTAGCCGTCGCCCAACCCAAATGAGCACGCCATAAAGC
131 TGGAGTTAATCCACGCTCCGAGCACTCTTAGCCGTCGCCCAACCCAAATGAGCACGCCATAAAGC
88735323 GAAAGGGATCAGCCAAGAAAGGTACCTTTACTCTCCTCGTGGTTCTCTCTATTTAAAGCCAGCTT
196 GAAAGGGATCAGCCAAGAAAGGTACCTTTACTCTCCTCGTGGTTCTCTCTATTTAAAGCCAGCTT
*
88735388 CGCATCCACTCTTATGTTAGCTTCCCGATATGGGATTACTCCCAACCAATAGGAAAATTCCTCAT
261 CGCATCCACTCTTATGTTAGCTTCCCGATATGGGATTACTCCCAACCAACAGGAAAATTCCTCAT
88735453 TCTTATGATCACTTCAACCACAGAGTTTCAGTCCAACTCCACCTCCTACGCCGCTCAAATAGAAA
326 TCTTATGATCACTTCAACCACAGAGTTTCAGTCCAACTCCACCTCCTACGCCGCTCAAATAGAAA
88735518 ACACAATCAAACAACTTATCCAATTGGGCCCGAAAGCCCATTGGGCCCACATGGCCCCTTTTGGC
1 ACACAATCAAACAACTTATCCAATTGGGCCCGAAAGCCCATTGGGCCCACATGGCCCCTTTTGGC
*
88735583 CTATCGTGGCCCAAAGTAGCCATCCTACAGCTAGAGTAGTGAGAAATACACAACTGATTGGAGAC
66 CCATCGTGGCCCAAAGTAGCCATCCTACAGCTAGAGTAGTGAGAAATACACAACTGATTGGAGAC
88735648 TGGAGTTAATCCACGCTCCGAGCACTCTTAGCCGTCGCCCAACCCAAATGAGCACGCCATAAAGC
131 TGGAGTTAATCCACGCTCCGAGCACTCTTAGCCGTCGCCCAACCCAAATGAGCACGCCATAAAGC
88735713 GAAAGGGATCAGCCAAGAAAGGTACCTTTACTCTCCTCGTGGTTCTCTCTATTTAAAGCCAGCTT
196 GAAAGGGATCAGCCAAGAAAGGTACCTTTACTCTCCTCGTGGTTCTCTCTATTTAAAGCCAGCTT
88735778 CGCATCCACTCTTATGTTAGCTTCCCGATATGGGATTACTCCCAACCAACAGGAAAATTCCTCAT
261 CGCATCCACTCTTATGTTAGCTTCCCGATATGGGATTACTCCCAACCAACAGGAAAATTCCTCAT
*
88735843 TCTTATGATCACTTCAACCATAGAGTTTCAGTCCAACTCCACCTCCTACGCCGCTCAAATAGAAA
326 TCTTATGATCACTTCAACCACAGAGTTTCAGTCCAACTCCACCTCCTACGCCGCTCAAATAGAAA
88735908 A
1 A
88735909 ATAAATAGTC
Statistics
Matches: 388, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
390 388 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (390 bp):
ACACAATCAAACAACTTATCCAATTGGGCCCGAAAGCCCATTGGGCCCACATGGCCCCTTTTGGC
CCATCGTGGCCCAAAGTAGCCATCCTACAGCTAGAGTAGTGAGAAATACACAACTGATTGGAGAC
TGGAGTTAATCCACGCTCCGAGCACTCTTAGCCGTCGCCCAACCCAAATGAGCACGCCATAAAGC
GAAAGGGATCAGCCAAGAAAGGTACCTTTACTCTCCTCGTGGTTCTCTCTATTTAAAGCCAGCTT
CGCATCCACTCTTATGTTAGCTTCCCGATATGGGATTACTCCCAACCAACAGGAAAATTCCTCAT
TCTTATGATCACTTCAACCACAGAGTTTCAGTCCAACTCCACCTCCTACGCCGCTCAAATAGAAA
Found at i:88738120 original size:27 final size:27
Alignment explanation
Indices: 88738027--88738123 Score: 69
Period size: 26 Copynumber: 3.6 Consensus size: 27
88738017 TTAAAAATAA
*
88738027 ATAATATAAAAAATT--TAATATATATT
1 ATAAT-TAAAAAATTAAAAATATATATT
* * *
88738053 ATATTTATAAAAATTTATAAATA-GT-TT
1 ATAATTA-AAAAA-TTAAAAATATATATT
*
88738080 -TAATAAAATTAAATTAAAAATATATATT
1 ATAATTAAA--AAATTAAAAATATATATT
88738108 ATAATTAAAAAATTAA
1 ATAATTAAAAAATTAA
88738124 TAATTTATGA
Statistics
Matches: 54, Mismatches: 8, Indels: 17
0.68 0.10 0.22
Matches are distributed among these distances:
25 4 0.07
26 21 0.39
27 15 0.28
28 3 0.06
29 11 0.20
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (27 bp):
ATAATTAAAAAATTAAAAATATATATT
Found at i:88738746 original size:22 final size:21
Alignment explanation
Indices: 88738721--88738764 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
88738711 TATTTATATG
*
88738721 ATATGTTATAAAAAAACCAAAA
1 ATATATTA-AAAAAAACCAAAA
* *
88738743 ATATATTAAAAAATACTAAAA
1 ATATATTAAAAAAAACCAAAA
88738764 A
1 A
88738765 ATCATGACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (21 bp):
ATATATTAAAAAAAACCAAAA
Found at i:88741524 original size:68 final size:64
Alignment explanation
Indices: 88741452--88741598 Score: 159
Period size: 64 Copynumber: 2.2 Consensus size: 64
88741442 CATCATGTGT
** * * *
88741452 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGAATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGAATGCATGATACCAAGTGGACACCATG
88741517 TAG
62 TAG
** * * *
88741520 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCATGGTTCCAAGTGGACACCATGTAG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGAATGCATGATACCAAGTGGACACCATGTAG
*
88741584 ACAAAAGAGCTACGA
1 ACAAGAGAGCTACGA
88741599 GATAAACTGG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
64 49 0.73
65 3 0.04
66 2 0.03
68 13 0.19
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGAATGCATGATACCAAGTGGACACCATGTAG
Found at i:88741644 original size:63 final size:63
Alignment explanation
Indices: 88741480--88741656 Score: 189
Period size: 64 Copynumber: 2.8 Consensus size: 63
88741470 ATTATGATGT
* * * * *
88741480 AGCTAGGTCGA-ATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATATATG
1 AGCTAGGTC-ACATGGGTGGTACTAAGTGTACACCATGTAGACAAAAGAGCTACGAGATAAATG
* ** * * *
88741543 TAGCTAGGTCGCATGCATGGTTCCAAGTGGACACCATGTAGACAAAAGAGCTACGAGATAAACTG
1 -AGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAGACAAAAGAGCTACGAGATAAA-TG
*
88741608 -GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAAAGAGC
1 AGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAG-ACAAAAGAGC
88741657 CAAACTATAT
Statistics
Matches: 92, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
62 1 0.01
63 40 0.43
64 49 0.53
65 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.23
Consensus pattern (63 bp):
AGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAGACAAAAGAGCTACGAGATAAATG
Found at i:88746004 original size:25 final size:25
Alignment explanation
Indices: 88745976--88746027 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
88745966 TGGGACATGT
88745976 GATAGCTAGAGGGACTGTGGTTATG
1 GATAGCTAGAGGGACTGTGGTTATG
88746001 GATAGCTAGAGGGACTGTGGTTATG
1 GATAGCTAGAGGGACTGTGGTTATG
88746026 GA
1 GA
88746028 CAAGAGCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.40, T:0.27
Consensus pattern (25 bp):
GATAGCTAGAGGGACTGTGGTTATG
Found at i:88748802 original size:29 final size:29
Alignment explanation
Indices: 88748736--88748802 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 29
88748726 TAAAATGTCC
* *
88748736 AAATAGGGATTAAATTGTGAAATGTGTAA
1 AAATATGGATTAAATTGTGAAATATGTAA
*
88748765 AATTCATGG-TTAAATTGTGAAATAAATG-AA
1 AAAT-ATGGATTAAATTGTGAAAT--ATGTAA
88748795 AAATATGG
1 AAATATGG
88748803 GCTGCTAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
29 21 0.68
30 8 0.26
31 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.21, T:0.31
Consensus pattern (29 bp):
AAATATGGATTAAATTGTGAAATATGTAA
Done.