Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2292
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: 332330
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
File 2 of 3
Found at i:112600 original size:17 final size:17
Alignment explanation
Indices: 112547--112603 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
112537 GATTGGATCG
112547 TTTTAATTTTAAGA-TAT
1 TTTTAATTTTAA-ATTAT
* *
112564 TTTGAA-TTT-AGTTA-
1 TTTTAATTTTAAATTAT
112578 TTTTAATTTTAAATTAT
1 TTTTAATTTTAAATTAT
112595 TTTTAATTT
1 TTTTAATTT
112604 AAGTTACTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 5 0.16
15 6 0.19
16 7 0.22
17 14 0.44
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
TTTTAATTTTAAATTAT
Found at i:112604 original size:16 final size:16
Alignment explanation
Indices: 112547--112635 Score: 60
Period size: 16 Copynumber: 5.6 Consensus size: 16
112537 GATTGGATCG
112547 TTTTAATTTTAAGA-TAT
1 TTTTAA-TTTAA-ATTAT
* *
112564 TTTGAATTT-AGTTA-
1 TTTTAATTTAAATTAT
112578 TTTTAATTTTAAATTAT
1 TTTTAA-TTTAAATTAT
*
112595 TTTTAATTTAAGTTACT
1 TTTTAATTTAAATTA-T
* *
112612 ATGT-ATTTAAATTAT
1 TTTTAATTTAAATTAT
*
112627 TTTTGATTT
1 TTTTAATTT
112636 GACATTCGAA
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
14 5 0.09
15 9 0.16
16 28 0.50
17 14 0.25
ACGTcount: A:0.31, C:0.01, G:0.07, T:0.61
Consensus pattern (16 bp):
TTTTAATTTAAATTAT
Found at i:112795 original size:15 final size:15
Alignment explanation
Indices: 112762--112801 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
112752 TTTATTGAGT
*
112762 TTAATTATTTTAAAT
1 TTAATTATTTTAAAG
112777 TTAAATTATTTT-AAG
1 TT-AATTATTTTAAAG
112792 TTAATTATTT
1 TTAATTATTT
112802 AGTTTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 8 0.35
15 6 0.26
16 9 0.39
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TTAATTATTTTAAAG
Found at i:113484 original size:25 final size:25
Alignment explanation
Indices: 113451--113526 Score: 71
Period size: 30 Copynumber: 2.8 Consensus size: 25
113441 AAAACTATTA
113451 TAACATAAAATATATAGTAATATAG
1 TAACATAAAATATATAGTAATATAG
* **
113476 TAACCTAAATATATTTATATAGTAATATTT
1 TAACAT-AA-A-A--TATATAGTAATATAG
*
113506 TAACGTAAAATATATAGTAAT
1 TAACATAAAATATATAGTAAT
113527 TTTATAAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
25 16 0.38
26 2 0.05
27 2 0.05
28 2 0.05
29 2 0.05
30 18 0.43
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (25 bp):
TAACATAAAATATATAGTAATATAG
Found at i:113733 original size:17 final size:17
Alignment explanation
Indices: 113713--113746 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
113703 TTACAGAATA
113713 TAAT-GTATTAATATTGT
1 TAATAGTATT-ATATTGT
113730 TAATAGTATTATATTGT
1 TAATAGTATTATATTGT
113747 GGGTATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (17 bp):
TAATAGTATTATATTGT
Found at i:114189 original size:20 final size:19
Alignment explanation
Indices: 114164--114214 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
114154 TTGTATTATA
114164 ATTATATTATATCAAATAAT
1 ATTATATTATATCAAA-AAT
* *
114184 ATTATATAATATTAAAAAT
1 ATTATATTATATCAAAAAT
114203 A-TATATTTATAT
1 ATTATA-TTATAT
114215 ATAAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.15
19 9 0.33
20 14 0.52
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTATATTATATCAAAAAT
Found at i:114221 original size:20 final size:22
Alignment explanation
Indices: 114177--114243 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
114167 ATATTATATC
114177 AAATAATATTATATAATATTAA
1 AAATAATATTATATAATATTAA
114199 AAATATATATT-TAT-ATA-TAA
1 AAATA-ATATTATATAATATTAA
114219 AAATAAAATAATTATATAAATATTA
1 AAAT--AAT-ATTATAT-AATATTA
114244 TTTATTCTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
20 7 0.19
21 5 0.14
22 12 0.32
23 8 0.22
25 3 0.08
26 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATAATATTATATAATATTAA
Found at i:114233 original size:21 final size:20
Alignment explanation
Indices: 114192--114236 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
114182 ATATTATATA
* *
114192 ATAT-TAAAAATATATATTT
1 ATATATAAAAATAAATAATT
114211 ATATATAAAAATAAAATAATT
1 ATATATAAAAAT-AAATAATT
114232 ATATA
1 ATATA
114237 AATATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 7 0.32
21 11 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATATAAAAATAAATAATT
Found at i:114373 original size:5 final size:5
Alignment explanation
Indices: 114361--114436 Score: 50
Period size: 5 Copynumber: 15.4 Consensus size: 5
114351 ATTTTAATTT
* * * *
114361 TATT- TATTA TATTA TA-TA TAATA TGCTTG TATTA TATTA TAATA TA-TA
1 TATTA TATTA TATTA TATTA TATTA T-ATTA TATTA TATTA TATTA TATTA
* * *
114409 TAAATA AAATA TATTA TATTA TATTA TA
1 T-ATTA TATTA TATTA TATTA TATTA TA
114437 GGATAAGTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
4 11 0.19
5 43 0.74
6 4 0.07
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (5 bp):
TATTA
Found at i:114852 original size:17 final size:18
Alignment explanation
Indices: 114830--114865 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
114820 ATAATTATAA
114830 TATTTAAATTTA-AATAT
1 TATTTAAATTTATAATAT
114847 TATTTAAATTTATAATAT
1 TATTTAAATTTATAATAT
114865 T
1 T
114866 TAAATTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTAAATTTATAATAT
Found at i:114867 original size:15 final size:15
Alignment explanation
Indices: 114824--114876 Score: 70
Period size: 15 Copynumber: 3.4 Consensus size: 15
114814 TAAATAATAA
114824 TTATAATATTTAAAT
1 TTATAATATTTAAAT
*
114839 TTAAATATTATTTAAAT
1 TT--ATAATATTTAAAT
114856 TTATAATATTTAAAT
1 TTATAATATTTAAAT
*
114871 TAATAA
1 TTATAA
114877 AAATATCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 19 0.58
17 14 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTATAATATTTAAAT
Found at i:116140 original size:21 final size:21
Alignment explanation
Indices: 116112--116176 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
116102 TAGAGATTTG
*
116112 AATC-CCTTTATCAAGGTTCA
1 AATCTCCTTTATCAAGATTCA
*
116132 AATCTCCTTTATCGAGATTCA
1 AATCTCCTTTATCAAGATTCA
116153 AATCTCCTTTATCGAA-ATTCA
1 AATCTCCTTTATC-AAGATTCA
116174 AAT
1 AAT
116177 TTTATAGTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
20 4 0.10
21 35 0.88
22 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (21 bp):
AATCTCCTTTATCAAGATTCA
Found at i:124335 original size:15 final size:16
Alignment explanation
Indices: 124307--124345 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
124297 TTTTTAAAAA
*
124307 AATTTTTATTTAATTT
1 AATTTTTATATAATTT
124323 AATTTTTA-ATAATTT
1 AATTTTTATATAATTT
124338 AATATTTT
1 AAT-TTTT
124346 TTATTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTTTTATATAATTT
Found at i:126464 original size:2 final size:2
Alignment explanation
Indices: 126457--126487 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
126447 CAATATTCTT
*
126457 TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
126488 TTTTCTTCGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:126488 original size:12 final size:12
Alignment explanation
Indices: 126452--126489 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
126442 CTTTCCAATA
*
126452 TTCTTTCTCTCT
1 TTCTCTCTCTCT
*
126464 CTCTCTCTCTCT
1 TTCTCTCTCTCT
126476 TTCTCTCTCTCT
1 TTCTCTCTCTCT
126488 TT
1 TT
126490 TTCTTCGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (12 bp):
TTCTCTCTCTCT
Found at i:132217 original size:186 final size:178
Alignment explanation
Indices: 131867--132222 Score: 444
Period size: 186 Copynumber: 2.0 Consensus size: 178
131857 CAAGAATCAG
* * *
131867 TAATTTAAATTATGATCATAAACATATTTTTGATTATATCACGTTATGATAAATATTGATTGTTA
1 TAATTTAAATTATGATCATAAACATATTTTTAATTATATCACATTATGATAAATATTGATTGTAA
* * *
131932 ATATCAATAAAAAAATCAAAATTATTAAATAATAATTATAATATCATATGATTACTATTTAAATT
66 ATATCAATAAAAAAATAAAAATTACTAAATAATAATTATAATATCATATAATTACTATTTAAATT
* * *
131997 TTATTTAATACTATACATGAAATACGACCTAATATAAAAAAATATTAA
131 TCATTCAATACCATACATGAAATACGACCTAATATAAAAAAATATTAA
* * ** *
132045 TAATTTAAATTATGATCAT-AACGTATTTTTAATTATATCATATTATGATACCTATTGGTTGTAA
1 TAATTTAAATTATGATCATAAACATATTTTTAATTATATCACATTATGATAAATATTGATTGTAA
* *
132109 ATATCAATAATAAAATTTTTTTAAAAATTACTAAATAATAATTATAATATTATATTATAATTACT
66 ATATCAATAA-AAAA-----ATAAAAATTACTAAATAATAATTATAATA-T-CA-TATAATTACT
* * * *
132174 ATTTAAATTTCGTTCAATACCATGCATGAAATAGGACCTAATATCAAAA
122 ATTTAAATTTCATTCAATACCATACATGAAATACGACCTAATATAAAAA
132223 GAAAGAAAAA
Statistics
Matches: 149, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
177 47 0.32
178 23 0.15
183 26 0.17
184 1 0.01
185 1 0.01
186 51 0.34
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.41
Consensus pattern (178 bp):
TAATTTAAATTATGATCATAAACATATTTTTAATTATATCACATTATGATAAATATTGATTGTAA
ATATCAATAAAAAAATAAAAATTACTAAATAATAATTATAATATCATATAATTACTATTTAAATT
TCATTCAATACCATACATGAAATACGACCTAATATAAAAAAATATTAA
Found at i:133901 original size:22 final size:22
Alignment explanation
Indices: 133875--133916 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
133865 ATATTTTCTT
133875 TAAAT-TTAATTATAAAAATAAA
1 TAAATATTAA-TATAAAAATAAA
*
133897 TAAATATTAATATTAAAATA
1 TAAATATTAATATAAAAATA
133917 GCCCAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATTAATATAAAAATAAA
Found at i:136613 original size:22 final size:21
Alignment explanation
Indices: 136588--136629 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
136578 TACGCTCGTG
136588 TTTTTGTGATGTGT-TCATATTA
1 TTTTTGT-AT-TGTATCATATTA
136610 TTTTTGTATTGTATCATATT
1 TTTTTGTATTGTATCATATT
136630 TTAATTAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.16
21 9 0.47
22 7 0.37
ACGTcount: A:0.19, C:0.05, G:0.14, T:0.62
Consensus pattern (21 bp):
TTTTTGTATTGTATCATATTA
Found at i:140850 original size:20 final size:20
Alignment explanation
Indices: 140819--140893 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
140809 TTTTACCCAG
*
140819 ATGTATCCATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
140839 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
140859 ATGTATCAATATATTCTTCA
1 ATGTATCGATACATTTTTCA
*
140879 ATGTATTGATACATT
1 ATGTATCGATACATT
140894 CTGTCTTTTT
Statistics
Matches: 40, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:145143 original size:21 final size:21
Alignment explanation
Indices: 145117--145158 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
145107 GGCCACTCTT
145117 TTTTTTGATTGATATTCATTC
1 TTTTTTGATTGATATTCATTC
**
145138 TTTTTTTCTTGATATTCATTC
1 TTTTTTGATTGATATTCATTC
145159 CCATTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.12, G:0.07, T:0.64
Consensus pattern (21 bp):
TTTTTTGATTGATATTCATTC
Found at i:145506 original size:18 final size:18
Alignment explanation
Indices: 145483--145518 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
145473 CATTGCTCTC
145483 TTGCTCCAAGTAGAGATA
1 TTGCTCCAAGTAGAGATA
145501 TTGCTCCAAGTAGAGATA
1 TTGCTCCAAGTAGAGATA
145519 GATAAGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (18 bp):
TTGCTCCAAGTAGAGATA
Found at i:152526 original size:52 final size:52
Alignment explanation
Indices: 152378--152506 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
152368 GGAAATATGA
*
152378 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
152430 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
152482 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
152507 AAGATCAATG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
Found at i:152530 original size:13 final size:13
Alignment explanation
Indices: 152512--152539 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
152502 ATACAAAGAT
152512 CAATGTATCGATA
1 CAATGTATCGATA
152525 CAATGTATCGATA
1 CAATGTATCGATA
152538 CA
1 CA
152540 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:152606 original size:19 final size:19
Alignment explanation
Indices: 152582--152679 Score: 76
Period size: 19 Copynumber: 5.7 Consensus size: 19
152572 TAGCTTAAAT
152582 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
152601 TGTATCGAT---ATA--T-
1 TGTATCGATACAAAACTTA
*
152614 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
152633 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
152646 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
152666 TGTATCGATACAAA
1 TGTATCGATACAAA
152680 TCGTTGAATT
Statistics
Matches: 63, Mismatches: 3, Indels: 25
0.69 0.03 0.27
Matches are distributed among these distances:
13 20 0.32
14 2 0.03
16 6 0.10
18 1 0.02
19 21 0.33
20 13 0.21
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:152620 original size:32 final size:32
Alignment explanation
Indices: 152580--152677 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
152570 AGTAGCTTAA
* *
152580 ATTGTATCGATACAAAACTTATGTATCGATAT
1 ATTGTATCGATACAACACTTATGTATCGATAC
152612 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
152644 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
152677 A
1 A
152678 AATCGTTGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 48 0.76
33 15 0.24
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:152651 original size:13 final size:13
Alignment explanation
Indices: 152601--152657 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
152591 ACAAAACTTA
*
152601 TGTATCGATATAT
1 TGTATCGATACAT
152614 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
152632 ATGTATCGATACAT
1 -TGTATCGATACAT
152646 TGTATCGATACA
1 TGTATCGATACA
152658 ACACTTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 21 0.57
14 1 0.03
16 5 0.14
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:155828 original size:42 final size:42
Alignment explanation
Indices: 155782--155900 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
155772 TTCTTCTCTC
* * * *
155782 CTCCTCCTATCATCCCTCCTCTCTTTATTATCTTTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
155824 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
* * *
155866 CGCCTCCTATCATCCCTCCTATCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCT
155901 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.12, C:0.44, G:0.01, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
Found at i:155833 original size:12 final size:12
Alignment explanation
Indices: 155816--155891 Score: 60
Period size: 12 Copynumber: 6.8 Consensus size: 12
155806 TTATTATCTT
155816 TCCTATCTCTCC
1 TCCTATCTCTCC
155828 TCCTATCATC-CC
1 TCCTATC-TCTCC
155840 TCCTA--TCT-C
1 TCCTATCTCTCC
*
155849 TACTA--TCT-C
1 TCCTATCTCTCC
*
155858 TCCTATCTCGCC
1 TCCTATCTCTCC
155870 TCCTATCATC-CC
1 TCCTATC-TCTCC
155882 TCCTATCTCT
1 TCCTATCTCT
155892 TCTTTCTCTT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
9 15 0.28
11 4 0.07
12 31 0.57
13 4 0.07
ACGTcount: A:0.13, C:0.46, G:0.01, T:0.39
Consensus pattern (12 bp):
TCCTATCTCTCC
Found at i:166322 original size:28 final size:28
Alignment explanation
Indices: 166218--166677 Score: 515
Period size: 28 Copynumber: 15.9 Consensus size: 28
166208 CGTTCATCTC
* **
166218 TTCAAAGCCCACAAGTCAGTGACACTATT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
166247 TTCAAAGCTCACAAATCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
166276 TTCAAAGCCCACAAGTCAGTGGCGCCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
166304 TTCAAAGCCCATAAATCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
166333 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
166361 TTCAAAGCCCACAAGTCAATGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
166389 TTCAAAACCCATAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
166417 TTCAAAGCCCACGCAAGTCAGTGGCACCCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCT
* **
166447 TTCAAAGCCCACAAGTTAGTGGCACTATT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
166476 TTCAAAGTCTACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
166504 TTCAAAGCCTACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
166533 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
166561 TTCAAAGTCCACAAGTCAGTAGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
166589 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
166618 TTCAAAGCCCACACGAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
*
166650 TTCAAAGCCCACACAAGTTAGTGGCACC
1 TTCAAAG-CC-CACAAGTCAGTGGCACC
166678 ATTTTTTAAA
Statistics
Matches: 371, Mismatches: 49, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
28 171 0.46
29 133 0.36
30 27 0.07
31 12 0.03
32 22 0.06
33 2 0.01
34 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:166327 original size:57 final size:58
Alignment explanation
Indices: 166218--166676 Score: 547
Period size: 57 Copynumber: 7.9 Consensus size: 58
166208 CGTTCATCTC
* ** * *
166218 TTCAAAGCCCACAAGTCAGTGACACTATTTTCAAAGCTCACAAATCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
166276 TTCAAAGCCCACAAGTCAGTGGCGC-CCTTTCAAAGCCCATAAATCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
166333 TTCAAAGCCCACAAGTCAATGGCAC-CCTTTCAAAGCCCACAAGTCAATGGCA-TCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
166389 TTCAAAACCCATAAGTTAGTGGCAC-CCTTTCAAAGCCCACGCAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCACTCTT
* ** * * *
166447 TTCAAAGCCCACAAGTTAGTGGCACTATTTTCAAAGTCTACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
166504 TTCAAAGCCTACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
166561 TTCAAAGTCCACAAGTCAGTAGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
166618 TTCAAAGCCCACACGAGTCAGTGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCAC
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCCTTTCAAAG-CC-CACAAGTCAGTGGCAC
166677 CATTTTTTAA
Statistics
Matches: 350, Mismatches: 39, Indels: 19
0.86 0.10 0.05
Matches are distributed among these distances:
56 64 0.18
57 179 0.51
58 60 0.17
59 19 0.05
60 2 0.01
61 9 0.03
62 2 0.01
63 15 0.04
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (58 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:166594 original size:200 final size:201
Alignment explanation
Indices: 166218--166682 Score: 621
Period size: 200 Copynumber: 2.3 Consensus size: 201
166208 CGTTCATCTC
* * * * * *
166218 TTCAAAGCCCA-CAAGTCAGTGACACTATTTTCAAAGCTCACAAATCAGTGGCACTCTTTTCAAA
1 TTCAAAGCCCACCAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACTATTTTCAAA
* *
166282 GCCCACAAGTCAGTGGCGCCCTTTCAAAGCCCATAAATCAGTGGCACTCTTTTCAAAGCCCACAA
66 GCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAA
* * * * *
166347 GTCAATGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCTTTTCAAAACCCATAAGTTAGTGGC
131 GTCAATGGCACCCTTTCAAAGCCCACAAGTCAATAGCACCCTTTCAAAACCCACAAGTCAGTGGC
166412 AC-CCT
196 ACTCCT
*
166417 TTCAAAGCCCACGCAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACTATTTTCAA
1 TTCAAAGCCCAC-CAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACTATTTTCAA
* * * *
166481 AGTCTACAAGTCAGTGGCACCCTTTCAAAGCCTACAAGTCAGTGGCACTCTTTTCAAAGCCCACA
65 AGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACA
* * * * * *
166546 AGTTAGTGGCATCCTTTCAAAGTCCACAAGTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGG
130 AGTCAATGGCACCCTTTCAAAGCCCACAAGTCAATAGCACCCTTTCAAAACCCACAAGTCAGTGG
*
166611 CACTCTT
195 CACTCCT
* *
166618 TTCAAAGCCCACACGAGTCAGTGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCACCATTTT
1 TTCAAAGCCCAC-CAAGTCAGTGGC-ACTCTTTTCAAAG-CC-CACAAGTTAGTGGCACTATTTT
166683 TTAAAAAAAA
Statistics
Matches: 230, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
199 11 0.05
200 147 0.64
201 38 0.17
202 2 0.01
203 9 0.04
204 2 0.01
205 21 0.09
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (201 bp):
TTCAAAGCCCACCAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACTATTTTCAAA
GCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAA
GTCAATGGCACCCTTTCAAAGCCCACAAGTCAATAGCACCCTTTCAAAACCCACAAGTCAGTGGC
ACTCCT
Found at i:166819 original size:33 final size:33
Alignment explanation
Indices: 166776--166844 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
166766 TGGCAACTTT
166776 ATTAGCCCAATGTCGCTGGCCTTGAATCAGCAC
1 ATTAGCCCAATGTCGCTGGCCTTGAATCAGCAC
* * **
166809 ATTAGTCCAATGTTGCTGGCCTTGAATTGGCAC
1 ATTAGCCCAATGTCGCTGGCCTTGAATCAGCAC
166842 ATT
1 ATT
166845 GGCAATCCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (33 bp):
ATTAGCCCAATGTCGCTGGCCTTGAATCAGCAC
Found at i:167256 original size:20 final size:20
Alignment explanation
Indices: 167227--167298 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
167217 TACCGAGATG
167227 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* * * * *
167247 TATTGATACATGTATGAATG
1 TATCGATACATTTTTCAATA
* *
167267 TATCGATACATTCTTCAATC
1 TATCGATACATTTTTCAATA
167287 TATCGATACATT
1 TATCGATACATT
167299 CTATCTTTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:172336 original size:23 final size:20
Alignment explanation
Indices: 172292--172338 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
172282 ATATAAATTT
172292 TAATAAATTAATAATTCATA
1 TAATAAATTAATAATTCATA
172312 TAATAAATTAATAATTCATA
1 TAATAAATTAATAATTCATA
*
172332 TTATAAA
1 TAATAAA
172339 ATTTTTAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
TAATAAATTAATAATTCATA
Found at i:173843 original size:5 final size:5
Alignment explanation
Indices: 173828--173856 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
173818 TCCAGGTAAA
173828 AAAAT -AAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
173857 TCAGGCAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:173891 original size:18 final size:20
Alignment explanation
Indices: 173854--173891 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
173844 AATAAAATAA
*
173854 AATTCAGGCAGGCTAAATTC
1 AATTCAGGCAGGCCAAATTC
173874 AATTC-GGCA-GCCAAATTC
1 AATTCAGGCAGGCCAAATTC
173892 CTTTCCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 4 0.24
20 5 0.29
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
AATTCAGGCAGGCCAAATTC
Found at i:174852 original size:15 final size:15
Alignment explanation
Indices: 174832--174882 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
174822 GACTATTTTA
174832 TTTAATTTGATAATT
1 TTTAATTTGATAATT
**
174847 TTTAATTT-ATATAAA
1 TTTAATTTGATA-ATT
*
174862 TTAAATTTGATAATT
1 TTTAATTTGATAATT
*
174877 TATAAT
1 TTTAAT
174883 ATGTTTTGAA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
14 3 0.11
15 21 0.78
16 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (15 bp):
TTTAATTTGATAATT
Found at i:174950 original size:22 final size:22
Alignment explanation
Indices: 174920--174967 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
174910 AAAATAATTT
*
174920 TTATTTAAAT-TTAATTATAAAA
1 TTATATAAATATTAA-TATAAAA
174942 TTATATAAATATTAATATAAAA
1 TTATATAAATATTAATATAAAA
174964 TTAT
1 TTAT
174968 TTTTTAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTATATAAATATTAATATAAAA
Found at i:176523 original size:21 final size:21
Alignment explanation
Indices: 176498--176547 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
176488 GCAAAAGGTT
176498 TTTTTTATTATAATAA-TAATA
1 TTTTTTATTATAATAATTAA-A
* *
176519 TTTTTTATTTTCATAATTAAA
1 TTTTTTATTATAATAATTAAA
176540 TTTTTTAT
1 TTTTTTAT
176548 AAAATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTTATTATAATAATTAAA
Found at i:176980 original size:39 final size:39
Alignment explanation
Indices: 176898--177036 Score: 127
Period size: 39 Copynumber: 3.6 Consensus size: 39
176888 AAGTTTAAGG
* * * * *
176898 TTTATTAAAATCCAAAATATGTAAGTAATGCATGGA-TTC
1 TTTATTGAAATCTAAAAGATGTAAGTAATGCAT-AATTTA
* * *
176937 TTTATTGGAATCTAAAAGATGTTAGTAATGTATAATTTA
1 TTTATTGAAATCTAAAAGATGTAAGTAATGCATAATTTA
* * * * *
176976 TTTATTAAAATCTAACAGATATAATTAATGCATAATTTT
1 TTTATTGAAATCTAAAAGATGTAAGTAATGCATAATTTA
* *
177015 TTTATTGAAATTTGAAAGATGT
1 TTTATTGAAATCTAAAAGATGT
177037 GACCAATACA
Statistics
Matches: 78, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
38 1 0.01
39 77 0.99
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (39 bp):
TTTATTGAAATCTAAAAGATGTAAGTAATGCATAATTTA
Found at i:186489 original size:27 final size:27
Alignment explanation
Indices: 186445--186496 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
186435 TCCAATACTC
* * *
186445 TATTAATAGATAGTTAGCAAGTTAATT
1 TATTAATAAATAGGTAGCAACTTAATT
*
186472 TATTAATAAATTGGTAGCAACTTAA
1 TATTAATAAATAGGTAGCAACTTAA
186497 CGTAAATGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.38
Consensus pattern (27 bp):
TATTAATAAATAGGTAGCAACTTAATT
Found at i:186745 original size:21 final size:21
Alignment explanation
Indices: 186721--186788 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
186711 AATAAGATCT
186721 TTTAATAATTAAAATTAATTA
1 TTTAATAATTAAAATTAATTA
*
186742 TTTAATAAATAAAA--AATTA
1 TTTAATAATTAAAATTAATTA
* *
186761 TTT-TTAATTAAATTTAATTA
1 TTTAATAATTAAAATTAATTA
*
186781 TTAAATAA
1 TTTAATAA
186789 AATATTAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.18
19 8 0.21
20 7 0.18
21 16 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTAATAATTAAAATTAATTA
Found at i:186756 original size:22 final size:21
Alignment explanation
Indices: 186731--186773 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 21
186721 TTTAATAATT
186731 AAAATTAATTATTTAATAAATAA
1 AAAATT-ATT-TTTAATAAATAA
186754 AAAATTATTTTTAATTAAAT
1 AAAATTATTTTTAA-TAAAT
186774 TTAATTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 8 0.42
23 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAATTATTTTTAATAAATAA
Found at i:188109 original size:228 final size:226
Alignment explanation
Indices: 187710--188840 Score: 1059
Period size: 228 Copynumber: 5.0 Consensus size: 226
187700 TCCACCGCGG
* * ** * * * * * *
187710 AGGCGAAGGACCAAGTGTAAAGTTGATTCCTTCTGGATATTGTAGTCTGCGAGGGTCCTCCCATC
1 AGGCGAAGCACCAAGTGGAGGGTGGACTCCTTTTGGATGTTGTAGTCAGCAAGGGTCCTCCCATC
* * * * * * *
187775 TTCGAGTTGCTTCCCAGCAAAGATCAGCCTTTGTTGGTCCGGAGGGATTCCTTCCTTATCCTGGA
66 CTCAAGTTGCTTACCAGCAAAGATCAGCCTCTGCTGGTCCGG-GGGATACCTTCCTTGTCCTGGA
* * * * * * * * * *
187840 TCTTGGCCTTGACGTTATCAATTGTGTCGGAGCTCTCAACTTCCAGAGTGATGGTCTTTCCTGTC
130 TCTTGGCCTTCACATTGTCAATGGTATCAGAACTCTCAACCTCCAGAGTAATGGTCTTTCCAGT-
* * * *
187905 AAGGTCTTCACAAAAATTTGCATCCCCCCGCGC
194 AAGGTCTTAACGAAAATTTGCATCCCCCCACGA
* * * *
187938 AGGCGAAGCACCAAGTGGAGGGTTGACTCCTTTTGGATGTTATAATCTGCAAGGGTCCTCCCATC
1 AGGCGAAGCACCAAGTGGAGGGTGGACTCCTTTTGGATGTTGTAGTCAGCAAGGGTCCTCCCATC
* * * * * *
188003 CTCAAGCTGCTTACCAGCAAAAATCAGCCTCTGCTGGTCTGGAGGGATACCTTCCTTATCTTGAA
66 CTCAAGTTGCTTACCAGCAAAGATCAGCCTCTGCTGGTCCGG-GGGATACCTTCCTTGTCCTGGA
* * * * * * * * *
188068 TTTTGGCCTTGACGTTGTCAATTGTGTCAGAGCTTTCAACTTCCA-AGGTAATGGTCTTCCCAGT
130 TCTTGGCCTTCACATTGTCAATGGTATCAGAACTCTCAACCTCCAGA-GTAATGGTCTTTCCAGT
* * * *
188132 TAGTGTCTTAACGAAAATCTGCATACCACCACGA
194 AAG-GTCTTAACGAAAATTTGCATCCCCCCACGA
* * * * * * **
188166 AGACGGAGCACCAAATGGAGGGTCGACTCCTTTTGGATGTTGTAGTCAGCCAGGGTGCGGCCATC
1 AGGCGAAGCACCAAGTGGAGGGTGGACTCCTTTTGGATGTTGTAGTCAGCAAGGGTCCTCCCATC
* * *
188231 CTCAAGTTGCTTACCAGCGAAGATCAACCTCTGCTGGTCCGGGGGAATACCCTCCTTGTCCTGGA
66 CTCAAGTTGCTTACCAGCAAAGATCAGCCTCTGCTGGTCCGGGGG-ATACCTTCCTTGTCCTGGA
* * * * *
188296 TCTTCGCCTTAACATTGTCAATGGTATCTGAACTCTCTACCTCCAGTGTAATGGTCTTTCCAGTC
130 TCTTGGCCTTCACATTGTCAATGGTATCAGAACTCTCAACCTCCAGAGTAATGGTCTTTCCAGT-
* * *
188361 AAGGTCTTGACAAAAATTTGCATCCCTCCACGA
194 AAGGTCTTAACGAAAATTTGCATCCCCCCACGA
* * *
188394 AGGCGAAGCACCAAGTGGAGTGTGGACTCCTTTTGGATGTTGTAATCAGCCAA-GGTGCGT-CCA
1 AGGCGAAGCACCAAGTGGAGGGTGGACTCCTTTTGGATGTTGTAGTCAG-CAAGGGT-CCTCCCA
* * * * *
188457 TCTTCAAGTTGCTTACCAGCGAAGATCAACCTCTGCTGGTCCGGGGGAATGCCTTCTTTGTCCTG
64 TCCTCAAGTTGCTTACCAGCAAAGATCAGCCTCTGCTGGTCCGGGGG-ATACCTTCCTTGTCCTG
* * * * * *
188522 AATCTTAGCCTTCACATTGTCAATAGTATCAGAACTCTCCACCTCCA-ATGTTATGGTCTTTCCG
128 GATCTTGGCCTTCACATTGTCAATGGTATCAGAACTCTCAACCTCCAGA-GTAATGGTCTTTCCA
* * *
188586 GTGAGTGTCTTCACGAAAATTTGCATTCCACCCCTC-A
192 GTAAG-GTCTTAACGAAAATTTGCA-TCC-CCCCACGA
* * * * * * **
188623 A-ACGAAGGACCAAGTGGAGTGTGGACTCCTTCTGAATGTTGTAGTCAGCAAGGGTACGGCCATC
1 AGGCGAAGCACCAAGTGGAGGGTGGACTCCTTTTGGATGTTGTAGTCAGCAAGGGTCCTCCCATC
* * * * * * *
188687 CTCAAGCTGTTTACCGGCAAAGATCAGCCTTTGCTGGTCTGGCGGGATTCCTTCCTTGTCTTGGA
66 CTCAAGTTGCTTACCAGCAAAGATCAGCCTCTGCTGGTCCGG-GGGATACCTTCCTTGTCCTGGA
* * * * * * *
188752 TCTTGGCCTTCACATTATCAATGGTATCAGAACTTTCCACCTCAAGGGTGATGGTCTTGCCAGTG
130 TCTTGGCCTTCACATTGTCAATGGTATCAGAACTCTCAACCTCCAGAGTAATGGTCTTTCCAGT-
*
188817 AGGGTCTTAACGAAAATTTGCATC
194 AAGGTCTTAACGAAAATTTGCATC
188841 TATTTTGAAT
Statistics
Matches: 752, Mismatches: 135, Indels: 33
0.82 0.15 0.04
Matches are distributed among these distances:
227 13 0.02
228 722 0.96
229 13 0.02
230 4 0.01
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.29
Consensus pattern (226 bp):
AGGCGAAGCACCAAGTGGAGGGTGGACTCCTTTTGGATGTTGTAGTCAGCAAGGGTCCTCCCATC
CTCAAGTTGCTTACCAGCAAAGATCAGCCTCTGCTGGTCCGGGGGATACCTTCCTTGTCCTGGAT
CTTGGCCTTCACATTGTCAATGGTATCAGAACTCTCAACCTCCAGAGTAATGGTCTTTCCAGTAA
GGTCTTAACGAAAATTTGCATCCCCCCACGA
Found at i:188604 original size:456 final size:456
Alignment explanation
Indices: 187737--188840 Score: 1282
Period size: 456 Copynumber: 2.4 Consensus size: 456
187727 TAAAGTTGAT
* * * * ** * * *
187737 TCCTTCTGGATATTGTAGTCTGCGAGGGTCCTCCCATCTTCGAGTTGCTTCCCAGCAAAGATCAG
1 TCCTTCTGGATGTTGTAGTCAGCAAGGGTACGGCCATCCTCAAGTTGCTTACCAGCAAAGATCAG
* * * * * *
187802 CCTTTGTTGGTCCGGAGGGATTCCTTCCTTATCCTGGATCTTGGCCTTGACGTTATCAATTGTGT
66 CCTTTGCTGGTCCGGAGGGATTCCTTCCTTGTCCTGGATCTTGGCCTTAACATTATCAATGGTAT
* * * * *
187867 CGGAGCTCTCAACTTCCAGAGTGATGGTCTTTCCTGTCAAGGTCTTCACAAAAATTTGCATCCCC
131 CAGAACTCTCAACCTCCAGAGTGATGGTCTTTCCAGTCAAGGTCTTAACAAAAATTTGCATCCCC
* * * *
187932 CCGCGCAGGCGAAGCACCAAGTGGAGGGTTGACTCCTTTTGGATGTTATAATCTGCAAGGGTCCT
196 CCACGAAGGCGAAGCACCAAGTGGAGGGTGGACTCCTTTTGGATGTTATAATCAGCAAGGGTCCT
* *
187997 CCCATCCTCAAGCTGCTTACCAGCAAAAATCAGCCTCTGCTGGTCTGGAGGGATACCTTCCTTAT
261 CCCATCCTCAAGCTGCTTACCAGCAAAAATCAACCTCTGCTGGTCCGGAGGGATACCTTCCTTAT
* * * * * * * * * *
188062 CTTGAATTTTGGCCTTGACGTTGTCAATTGTGTCAGAGCTTTCAACTTCCAAGGTAATGGTCTTC
326 CCTGAATCTTAGCCTTCACATTGTCAATAGTATCAGAACTCTCAACCTCCAAGGTAATGGTCTTC
* * *
188127 CCAGTTAGTGTCTTAACGAAAATCTGCATACCACCAC-GAAGACGGAGCACCAAATGGAGGGTCG
391 CCAGTGAGTGTCTTAACGAAAATCTGCATACCACCACTCAA-ACGAAGCACCAAATGGAGGGTCG
188191 AC
455 AC
* * * * *
188193 TCCTTTTGGATGTTGTAGTCAGCCAGGGTGCGGCCATCCTCAAGTTGCTTACCAGCGAAGATCAA
1 TCCTTCTGGATGTTGTAGTCAGCAAGGGTACGGCCATCCTCAAGTTGCTTACCAGCAAAGATCAG
* * * * *
188258 CCTCTGCTGGTCCGG-GGGAATACCCTCCTTGTCCTGGATCTTCGCCTTAACATTGTCAATGGTA
66 CCTTTGCTGGTCCGGAGGG-ATTCCTTCCTTGTCCTGGATCTTGGCCTTAACATTATCAATGGTA
* * * * *
188322 TCTGAACTCTCTACCTCCAGTGTAATGGTCTTTCCAGTCAAGGTCTTGACAAAAATTTGCATCCC
130 TCAGAACTCTCAACCTCCAGAGTGATGGTCTTTCCAGTCAAGGTCTTAACAAAAATTTGCATCCC
* * *
188387 TCCACGAAGGCGAAGCACCAAGTGGAGTGTGGACTCCTTTTGGATGTTGTAATCAGCCAA-GGTG
195 CCCACGAAGGCGAAGCACCAAGTGGAGGGTGGACTCCTTTTGGATGTTATAATCAG-CAAGGGT-
* * * * * * *
188451 CGT-CCATCTTCAAGTTGCTTACCAGCGAAGATCAACCTCTGCTGGTCCGG-GGGAATGCCTTCT
258 CCTCCCATCCTCAAGCTGCTTACCAGCAAAAATCAACCTCTGCTGGTCCGGAGGG-ATACCTTCC
* * * *
188514 TTGTCCTGAATCTTAGCCTTCACATTGTCAATAGTATCAGAACTCTCCACCTCCAATGTTATGGT
322 TTATCCTGAATCTTAGCCTTCACATTGTCAATAGTATCAGAACTCTCAACCTCCAAGGTAATGGT
* * * * * * * * *
188579 CTTTCCGGTGAGTGTCTTCACGAAAATTTGCATTCCACCCCTCAAACGAAGGACCAAGTGGAGTG
387 CTTCCCAGTGAGTGTCTTAACGAAAATCTGCATACCACCACTCAAACGAAGCACCAAATGGAGGG
*
188644 TGGAC
452 TCGAC
* * * *
188649 TCCTTCTGAATGTTGTAGTCAGCAAGGGTACGGCCATCCTCAAGCTGTTTACCGGCAAAGATCAG
1 TCCTTCTGGATGTTGTAGTCAGCAAGGGTACGGCCATCCTCAAGTTGCTTACCAGCAAAGATCAG
* * * *
188714 CCTTTGCTGGTCTGGCGGGATTCCTTCCTTGTCTTGGATCTTGGCCTTCACATTATCAATGGTAT
66 CCTTTGCTGGTCCGGAGGGATTCCTTCCTTGTCCTGGATCTTGGCCTTAACATTATCAATGGTAT
* * * * * * * *
188779 CAGAACTTTCCACCTCAAGGGTGATGGTCTTGCCAGTGAGGGTCTTAACGAAAATTTGCATC
131 CAGAACTCTCAACCTCCAGAGTGATGGTCTTTCCAGTCAAGGTCTTAACAAAAATTTGCATC
188841 TATTTTGAAT
Statistics
Matches: 540, Mismatches: 102, Indels: 12
0.83 0.16 0.02
Matches are distributed among these distances:
455 6 0.01
456 524 0.97
457 10 0.02
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (456 bp):
TCCTTCTGGATGTTGTAGTCAGCAAGGGTACGGCCATCCTCAAGTTGCTTACCAGCAAAGATCAG
CCTTTGCTGGTCCGGAGGGATTCCTTCCTTGTCCTGGATCTTGGCCTTAACATTATCAATGGTAT
CAGAACTCTCAACCTCCAGAGTGATGGTCTTTCCAGTCAAGGTCTTAACAAAAATTTGCATCCCC
CCACGAAGGCGAAGCACCAAGTGGAGGGTGGACTCCTTTTGGATGTTATAATCAGCAAGGGTCCT
CCCATCCTCAAGCTGCTTACCAGCAAAAATCAACCTCTGCTGGTCCGGAGGGATACCTTCCTTAT
CCTGAATCTTAGCCTTCACATTGTCAATAGTATCAGAACTCTCAACCTCCAAGGTAATGGTCTTC
CCAGTGAGTGTCTTAACGAAAATCTGCATACCACCACTCAAACGAAGCACCAAATGGAGGGTCGA
C
Found at i:190113 original size:17 final size:18
Alignment explanation
Indices: 190088--190126 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
190078 TAATTTAATA
*
190088 ATATCAAATAAAAAT-TT
1 ATATAAAATAAAAATCTT
*
190105 ATATAAAATAATAATCTT
1 ATATAAAATAAAAATCTT
190123 ATAT
1 ATAT
190127 GTTGAAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATAAAATAAAAATCTT
Found at i:190263 original size:14 final size:16
Alignment explanation
Indices: 190234--190266 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
190224 AAATATTTTT
190234 AATATTATTATTTAAA
1 AATATTATTATTTAAA
190250 AATATT-TT-TTTAAA
1 AATATTATTATTTAAA
190264 AAT
1 AAT
190267 TATGAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATATTATTATTTAAA
Found at i:190644 original size:19 final size:17
Alignment explanation
Indices: 190620--190678 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
190610 TATAAAGTAA
*
190620 TTAAAATTTAAATATATTT
1 TTAAAATTT-AATATA-AT
190639 TTAAAATTT-ATATAAT
1 TTAAAATTTAATATAAT
190655 TTAAAATTT-ATATTAAT
1 TTAAAATTTAATA-TAAT
*
190672 ATAAAAT
1 TTAAAAT
190679 ATTTTAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
16 13 0.35
17 15 0.41
19 9 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAAATTTAATATAAT
Found at i:190659 original size:16 final size:17
Alignment explanation
Indices: 190638--190678 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
190628 TAAATATATT
190638 TTTAAAATTTATA-TAA
1 TTTAAAATTTATATTAA
190654 TTTAAAATTTATATTAA
1 TTTAAAATTTATATTAA
*
190671 TATAAAAT
1 TTTAAAAT
190679 ATTTTAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTAAAATTTATATTAA
Found at i:190733 original size:19 final size:19
Alignment explanation
Indices: 190670--190739 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
190660 ATTTATATTA
*
190670 ATATAAA-ATATTTTAAAT
1 ATATAAATATATTATAAAT
*
190688 ATA-ATAATAATATAATAAAT
1 ATATA-AAT-ATATTATAAAT
190708 ATATAAATATATTATAAAT
1 ATATAAATATATTATAAAT
190727 -TATTAAAT-TATTA
1 ATA-TAAATATATTA
190740 AATTTATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
17 1 0.02
18 12 0.27
19 15 0.34
20 15 0.34
21 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATAAATATATTATAAAT
Found at i:190945 original size:22 final size:22
Alignment explanation
Indices: 190912--191001 Score: 60
Period size: 21 Copynumber: 3.9 Consensus size: 22
190902 AAAATTATTA
190912 AAATATTATTTT-ATATAAATAT
1 AAATATTATTTTAAT-TAAATAT
190934 AAATA-TATTTTTAATTAAATTTAAAT
1 AAATATTA-TTTTAATTAAA--T--AT
* *
190960 AAAAACTTATTTTTATTAAATAT
1 AAATA-TTATTTTAATTAAATAT
* *
190983 AAA-ATAATTTAAATTAAAT
1 AAATATTATTTTAATTAAAT
191002 TAATTTGAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
21 14 0.25
22 14 0.25
23 7 0.13
24 1 0.02
25 1 0.02
26 6 0.11
27 10 0.18
28 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATATTATTTTAATTAAATAT
Found at i:191005 original size:15 final size:15
Alignment explanation
Indices: 190975--191023 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
190965 CTTATTTTTA
190975 TTAAATATAAAATAAT
1 TTAAAT-TAAAATAAT
*
190991 TTAAATTAAATTAAT
1 TTAAATTAAAATAAT
*
191006 TTGAATTATAAA-AAT
1 TTAAATTA-AAATAAT
191021 TTA
1 TTA
191024 TATTTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 20 0.71
16 8 0.29
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
TTAAATTAAAATAAT
Found at i:191564 original size:24 final size:25
Alignment explanation
Indices: 191534--191597 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
191524 ATATATATTT
191534 TTATATAATAAAAATACATTATATA
1 TTATATAATAAAAATACATTATATA
* **
191559 -TATATAA-ATAATATATGTTATATA
1 TTATATAATA-AAAATACATTATATA
191583 TTATATAATTAAAAA
1 TTATATAA-TAAAAA
191598 AGAGATCGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
23 1 0.03
24 19 0.61
25 7 0.23
26 3 0.10
27 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
TTATATAATAAAAATACATTATATA
Found at i:191580 original size:22 final size:21
Alignment explanation
Indices: 191533--191591 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
191523 TATATATATT
191533 TTTATATA-ATAAA-AATACA
1 TTTATATATATAAATAATACA
*
191552 TTATATATATATAAATAATATA
1 TT-TATATATATAAATAATACA
*
191574 TGTTATATAT-TATATAAT
1 T-TTATATATATAAATAAT
191592 TAAAAAAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 2 0.06
20 6 0.18
21 12 0.35
22 13 0.38
23 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TTTATATATATAAATAATACA
Found at i:192284 original size:16 final size:15
Alignment explanation
Indices: 192263--192308 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
192253 CATGCTTTAA
*
192263 ATAAATAATTTAATTT
1 ATAAATAATTTAA-AT
192279 ATAAATAAATTTAAAT
1 ATAAAT-AATTTAAAT
*
192295 ACAAATAATTTAAA
1 ATAAATAATTTAAA
192309 ATACCGATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 8 0.30
16 12 0.44
17 7 0.26
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAAATAATTTAAAT
Found at i:192874 original size:28 final size:29
Alignment explanation
Indices: 192811--192866 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
192801 TTTAATTTAT
* *
192811 AAATTTAAATAAATTATTTATTTTATTAA
1 AAATATAAATAAATTATTTATTATATTAA
192840 AAATATAAA-AAATTATTT-TTATATTAA
1 AAATATAAATAAATTATTTATTATATTAA
192867 TATTTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.32
28 9 0.36
29 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AAATATAAATAAATTATTTATTATATTAA
Found at i:193015 original size:2 final size:2
Alignment explanation
Indices: 193008--193061 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
192998 CAAATAATTC
*
193008 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
193050 TA TG TA T- TA TA T
1 TA TA TA TA TA TA T
193062 CATGCTTTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (2 bp):
TA
Found at i:193619 original size:43 final size:49
Alignment explanation
Indices: 193564--193656 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 49
193554 TGATTAAATT
193564 TATTATAATGTT-AT-TTATTT-TT-AT-TTAT-ATTCTTAATTTTATA
1 TATTATAATGTTAATATTATTTATTGATATTATCATTCTTAATTTTATA
* *
193607 TATTATAATGTTAATATTTTTTATTGATATTATCATTGTTAATTTTATA
1 TATTATAATGTTAATATTATTTATTGATATTATCATTCTTAATTTTATA
193656 T
1 T
193657 TACTATTGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
43 12 0.29
44 2 0.05
45 5 0.12
46 2 0.05
47 2 0.05
48 4 0.10
49 15 0.36
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (49 bp):
TATTATAATGTTAATATTATTTATTGATATTATCATTCTTAATTTTATA
Found at i:193631 original size:21 final size:20
Alignment explanation
Indices: 193562--193631 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 20
193552 TTTGATTAAA
*
193562 TTTATTATAATGTTATTTATT
1 TTTATTATAATGTTAATT-TT
* *
193583 TTTATTTATATTCTTAATTTT
1 TTTA-TTATAATGTTAATTTT
*
193604 ATATATTATAATGTTAATATTT
1 -TTTATTATAATGTTAAT-TTT
193626 TTTATT
1 TTTATT
193632 GATATTATCA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
21 22 0.56
22 17 0.44
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTATTATAATGTTAATTTT
Found at i:194404 original size:20 final size:20
Alignment explanation
Indices: 194379--194427 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
194369 GTAAGCTTTA
194379 GGAATGAATGAACCAAGAGG
1 GGAATGAATGAACCAAGAGG
*
194399 GGAATGAATGAATCAAGAGG
1 GGAATGAATGAACCAAGAGG
*
194419 AGAATGAAT
1 GGAATGAAT
194428 TGGTTCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.47, C:0.06, G:0.33, T:0.14
Consensus pattern (20 bp):
GGAATGAATGAACCAAGAGG
Found at i:197783 original size:21 final size:21
Alignment explanation
Indices: 197757--197832 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
197747 CTGCCAAGAA
197757 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
197778 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
197798 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
197819 ATGTATCGATACAT
1 ATGTATCGATACAT
197833 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:197802 original size:20 final size:20
Alignment explanation
Indices: 197777--197850 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
197767 ACATCTTTTT
197777 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
197797 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
197818 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
197838 CATGTATCGATAC
1 CATGTATCGATAC
197851 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:197814 original size:41 final size:41
Alignment explanation
Indices: 197757--197850 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
197747 CTGCCAAGAA
197757 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
197798 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
197839 ATGTATCGATAC
1 ATGTATCGATAC
197851 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:203050 original size:79 final size:80
Alignment explanation
Indices: 202901--203088 Score: 222
Period size: 79 Copynumber: 2.4 Consensus size: 80
202891 ATTGGTGTTC
* * * * *
202901 TGAAAATAAAATTGAGGTTGGAGTATCCCTTCGGAAATAACAGGGTTGGAGTATCCCTTATTATA
1 TGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTATA
*
202966 GAAAATCG-ATATTT
66 GAAAATCGAAGATTT
*
202980 TGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAAC-GAGGTTGGAGTATCCCTGATTGT
1 TGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAG-GGTTGGAGTATCCCTGATTAT
203044 -GAAAAATCGAAGATTT
65 AG-AAAATCGAAGATTT
* *** *
203060 AG-AAATAAGGCCGGGGTTGAAGTATCCCC
1 TGAAAATAAAATCGGGGTTGGAGTATCCCC
203089 GATTGTGAGA
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 2 0.02
79 86 0.91
80 6 0.06
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (80 bp):
TGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTATA
GAAAATCGAAGATTT
Found at i:203087 original size:51 final size:51
Alignment explanation
Indices: 203023--203187 Score: 183
Period size: 51 Copynumber: 3.2 Consensus size: 51
203013 AAAATAACGA
*
203023 GGTTGGAGTATCCCTGATTGTGAAAAATCGAAGATTTAGAAATAAGGCCGG
1 GGTTAGAGTATCCCTGATTGTGAAAAATCGAAGATTTAGAAATAAGGCCGG
* * * * * * *
203074 GGTT-GAAGTATCCCCGATTGTGAGAAAT-TAATATTTTGAAAATAAAGCTGG
1 GGTTAG-AGTATCCCTGATTGTGAAAAATCGAAGATTTAG-AAATAAGGCCGG
* * *
203125 GGTTAGAGTAT-CCTCATTTGTGAAAAATCGATGCTTTAGAAATAAGGCCGG
1 GGTTAGAGTATCCCTGA-TTGTGAAAAATCGAAGATTTAGAAATAAGGCCGG
203176 GGTTAGAGTATC
1 GGTTAGAGTATC
203188 TCCGCGAAAA
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
50 11 0.12
51 74 0.81
52 6 0.07
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTTAGAGTATCCCTGATTGTGAAAAATCGAAGATTTAGAAATAAGGCCGG
Found at i:203264 original size:79 final size:78
Alignment explanation
Indices: 203159--203423 Score: 234
Period size: 79 Copynumber: 3.4 Consensus size: 78
203149 AAATCGATGC
* * * *
203159 TTTAGAAATAAGGCCGGGGTTAGAGTATCTCCGCGAAAATAACAGGGTTGGAGCATTCCCGATTG
1 TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGCGAAAATAACAGGGTTGGAGAATT-CCGATTG
203224 TGAGAAATCAATAT
65 TGAGAAATCAATAT
* * * * * * * *
203238 TTTAGGAATAAAGCCGAGGTTGGAGTATCCCCGATTGTGAAAA-ATCGATGCTT-TAGAAAT---
1 TTTAGAAATAAAGCCGGGGTTGGAGTATCCCC----GCGAAAATAAC-AGGGTTGGAGAATTCCG
** * * *
203298 AAGGTGAAAAATCGATAC
61 ATTGTGAGAAATCAATAT
* * *
203316 TTTAGAAATAAGGCTGGGGTTGGAGTATCCCCGCGAAAATAACAGGGTTGGAGTATTCTCGATTG
1 TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGCGAAAATAACAGGGTTGGAGAATTC-CGATTG
203381 TGAGAAATCAATAT
65 TGAGAAATCAATAT
* *
203395 TTTAGGAATAAAGTCGGGGTTGGAGTATC
1 TTTAGAAATAAAGCCGGGGTTGGAGTATC
203424 TCCGATTATG
Statistics
Matches: 138, Mismatches: 37, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
74 10 0.07
75 6 0.04
78 41 0.30
79 65 0.47
82 6 0.04
83 10 0.07
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (78 bp):
TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGCGAAAATAACAGGGTTGGAGAATTCCGATTGT
GAGAAATCAATAT
Found at i:203312 original size:27 final size:27
Alignment explanation
Indices: 203274--203328 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
203264 ATCCCCGATT
*
203274 GTGAAAAATCGATGCTTTAGAAATAAG
1 GTGAAAAATCGATACTTTAGAAATAAG
203301 GTGAAAAATCGATACTTTAGAAATAAG
1 GTGAAAAATCGATACTTTAGAAATAAG
203328 G
1 G
203329 CTGGGGTTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.25
Consensus pattern (27 bp):
GTGAAAAATCGATACTTTAGAAATAAG
Found at i:203430 original size:157 final size:157
Alignment explanation
Indices: 203144--203458 Score: 540
Period size: 157 Copynumber: 2.0 Consensus size: 157
203134 ATCCTCATTT
* *
203144 GTGAAAAATCGATGCTTTAGAAATAAGGCCGGGGTTAGAGTATCTCCGCGAAAATAACAGGGTTG
1 GTGAAAAATCGATACTTTAGAAATAAGGCCGGGGTTAGAGTATCCCCGCGAAAATAACAGGGTTG
203209 GAGCATTCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGCCGAGGTTGGAGTATCCCCGATT
66 GAGCATTCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGCCGAGGTTGGAGTATCCCCGATT
*
203274 GTGAAAAATCGATGCTTTAGAAATAAG
131 ATGAAAAATCGATGCTTTAGAAATAAG
* *
203301 GTGAAAAATCGATACTTTAGAAATAAGGCTGGGGTTGGAGTATCCCCGCGAAAATAACAGGGTTG
1 GTGAAAAATCGATACTTTAGAAATAAGGCCGGGGTTAGAGTATCCCCGCGAAAATAACAGGGTTG
* * * * *
203366 GAGTATTCTCGATTGTGAGAAATCAATATTTTAGGAATAAAGTCGGGGTTGGAGTATCTCCGATT
66 GAGCATTCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGCCGAGGTTGGAGTATCCCCGATT
203431 ATGAAAAATCGATGCTTTAGAAATAAG
131 ATGAAAAATCGATGCTTTAGAAATAAG
203458 G
1 G
203459 CCGGGGTTAA
Statistics
Matches: 148, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 148 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (157 bp):
GTGAAAAATCGATACTTTAGAAATAAGGCCGGGGTTAGAGTATCCCCGCGAAAATAACAGGGTTG
GAGCATTCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGCCGAGGTTGGAGTATCCCCGATT
ATGAAAAATCGATGCTTTAGAAATAAG
Found at i:203450 original size:51 final size:51
Alignment explanation
Indices: 203360--203466 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 51
203350 GAAAATAACA
* * * * *
203360 GGGTTGGAGTATTCTCGATTGTGAGAAATCAATATTTTAGGAATAAAGTCG
1 GGGTTGGAGTATTCTCGATTATGAAAAATCAATACTTTAGAAATAAAGCCG
* * *
203411 GGGTTGGAGTA-TCTCCGATTATGAAAAATCGATGCTTTAGAAATAAGGCCG
1 GGGTTGGAGTATTCT-CGATTATGAAAAATCAATACTTTAGAAATAAAGCCG
203462 GGGTT
1 GGGTT
203467 AAAGTATCCC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 3 0.06
51 44 0.94
ACGTcount: A:0.30, C:0.10, G:0.29, T:0.31
Consensus pattern (51 bp):
GGGTTGGAGTATTCTCGATTATGAAAAATCAATACTTTAGAAATAAAGCCG
Found at i:203494 original size:79 final size:79
Alignment explanation
Indices: 203411--203588 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 79
203401 AATAAAGTCG
* * *
203411 GGGTTGGAGTATCTCCGATTATGAAAAATCGATGCTTT-AGAAATAAGGCCGGGGTTAAAGTAT-
1 GGGTTGGAGTATCCCCGATTATGAAAAATCAATGCTTTAAG-AATAAAGCCGGGGTTAAAGTATC
*
203474 CCCTGCGAATATAACA
65 CCCT-CGAAAATAACA
* * ** * **
203490 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATTTTTTAAGAATAAAGTCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATCAATGCTTTAAGAATAAAGCCGGGGTTAAAGTAT-C
*
203555 CCCTCGAAAATAACG
65 CCCTCGAAAATAACA
*
203570 GGGTTGGAGTATCCTCGAT
1 GGGTTGGAGTATCCCCGAT
203589 GAAATACCGG
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 50 0.60
80 29 0.35
81 4 0.05
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATCAATGCTTTAAGAATAAAGCCGGGGTTAAAGTATCC
CCTCGAAAATAACA
Found at i:203535 original size:130 final size:130
Alignment explanation
Indices: 203302--203553 Score: 414
Period size: 130 Copynumber: 1.9 Consensus size: 130
203292 AGAAATAAGG
* **
203302 TGAAAAATCGATACTTTAGAAATAAGGCTGGGGTTGGAGTATCCCCGCGAAAATAACAGGGTTGG
1 TGAAAAATCGATACTTTAGAAATAAGGCCGGGGTTAAAGTATCCCCGCGAAAATAACAGGGTTGG
* * *
203367 AGTATTCTCGATTGTGAGAAATCAATATTTTAGGAATAAAGTCGGGGTTGGAGTATCTCCGATTA
66 AGTATCCCCGATTGTGAGAAATCAATATTTTAAGAATAAAGTCGGGGTTGGAGTATCTCCGATTA
* * *
203432 TGAAAAATCGATGCTTTAGAAATAAGGCCGGGGTTAAAGTATCCCTGCGAATATAACAGGGTTGG
1 TGAAAAATCGATACTTTAGAAATAAGGCCGGGGTTAAAGTATCCCCGCGAAAATAACAGGGTTGG
*
203497 AGTATCCCCGATTGTGAGAAATCAATTTTTTAAGAATAAAGTCGGGGTTGGAGTATC
66 AGTATCCCCGATTGTGAGAAATCAATATTTTAAGAATAAAGTCGGGGTTGGAGTATC
203554 CCCCTCGAAA
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 112 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.28
Consensus pattern (130 bp):
TGAAAAATCGATACTTTAGAAATAAGGCCGGGGTTAAAGTATCCCCGCGAAAATAACAGGGTTGG
AGTATCCCCGATTGTGAGAAATCAATATTTTAAGAATAAAGTCGGGGTTGGAGTATCTCCGATTA
Found at i:203602 original size:28 final size:27
Alignment explanation
Indices: 203539--203616 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 27
203529 AGAATAAAGT
203539 CGGGGTTGGAGTATCCCCCTCGA-AAATAA
1 CGGGGTTGGAGTAT---CCTCGATAAATAA
*
203568 CGGGGTTGGAGTATCCTCGATGAAATAC
1 CGGGGTTGGAGTATCCTCGAT-AAATAA
203596 CGGGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCTCGAT
203617 TGTGAAAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 6 0.13
28 26 0.57
29 14 0.30
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCTCGATAAATAA
Found at i:203668 original size:51 final size:51
Alignment explanation
Indices: 203600--203767 Score: 212
Period size: 51 Copynumber: 3.3 Consensus size: 51
203590 AAATACCGGG
* *
203600 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATTGGA
* * ** *
203651 GTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTATAAATAAAA-TCGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATTGGA
** * * * *
203701 GTTGGAGTATCTTCGATTGTGAAAAATTGATGTTGTGGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATTGGA
203752 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
203768 GATGAAGAAT
Statistics
Matches: 96, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
50 41 0.43
51 55 0.57
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATTGGA
Found at i:206155 original size:20 final size:19
Alignment explanation
Indices: 206122--206178 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
206112 ATGTATCGAT
* * *
206122 ACAATATATGGATACAATGA
1 ACAATGTATCGATACAA-CA
206142 ACAATGTATCGATACAACA
1 ACAATGTATCGATACAACA
206161 AGCAATGTATCGATACAA
1 A-CAATGTATCGATACAA
206179 AATATATCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (19 bp):
ACAATGTATCGATACAACA
Found at i:206253 original size:20 final size:20
Alignment explanation
Indices: 206230--206268 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
206220 CAATGAACAA
206230 TGTATCGATACAAATTGTGT
1 TGTATCGATACAAATTGTGT
*
206250 TGTATCGATGCAAATTGTG
1 TGTATCGATACAAATTGTG
206269 AAAATTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAAATTGTGT
Found at i:209053 original size:37 final size:36
Alignment explanation
Indices: 208984--209059 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
208974 TAAATATAAT
*
208984 ATAAATTATTAAATATTTTAAAATTTTAAATTAAAA
1 ATAAATTATTAAATATTTTAAAATTATAAATTAAAA
209020 ATAAA-TATTAAATATATTTAATTAATTAT-AATTAAAA
1 ATAAATTATTAAATAT-TTTAA--AATTATAAATTAAAA
209057 ATA
1 ATA
209060 TCATATTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
35 10 0.28
36 10 0.28
37 11 0.31
38 5 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (36 bp):
ATAAATTATTAAATATTTTAAAATTATAAATTAAAA
Found at i:211016 original size:2 final size:2
Alignment explanation
Indices: 211009--211053 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
210999 AGATTTGCTT
211009 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
211050 TA TA
1 TA TA
211054 CACAAAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:211748 original size:11 final size:11
Alignment explanation
Indices: 211729--211761 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
211719 GAGCAAGGGT
211729 TTTTC-TTTTC
1 TTTTCTTTTTC
211739 TTTTCTTTTTC
1 TTTTCTTTTTC
*
211750 TTTTTTTTTTC
1 TTTTCTTTTTC
211761 T
1 T
211762 GCATGTCAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:211758 original size:16 final size:16
Alignment explanation
Indices: 211728--211757 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
211718 TGAGCAAGGG
211728 TTTTTCTTTTCTTTTC
1 TTTTTCTTTTCTTTTC
211744 TTTTTCTTTT-TTTT
1 TTTTTCTTTTCTTTT
211758 TTCTGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTCTTTTCTTTTC
Found at i:212137 original size:24 final size:22
Alignment explanation
Indices: 212110--212160 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 22
212100 TTAAATTTTT
212110 TATATATTTAAAAAGTTATATTTA
1 TATATATTTAAAAA--TATATTTA
212134 TATATATTTAAAAATATATTTA
1 TATATATTTAAAAATATATTTA
212156 -ATATA
1 TATATA
212161 AATATTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.19
22 8 0.30
24 14 0.52
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TATATATTTAAAAATATATTTA
Found at i:212187 original size:11 final size:12
Alignment explanation
Indices: 212111--212188 Score: 56
Period size: 12 Copynumber: 6.2 Consensus size: 12
212101 TAAATTTTTT
212111 ATATATTTAAAA
1 ATATATTTAAAA
*
212123 AGTTATATTT--AT
1 A--TATATTTAAAA
212135 ATATATTTAAAA
1 ATATATTTAAAA
212147 ATATATTTAATATA
1 ATATATTTAA-A-A
212161 A-ATATTATATACAA
1 ATATATT-TA-A-AA
212175 ATAT-TTTAAAA
1 ATATATTTAAAA
212186 ATA
1 ATA
212189 AAAATAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
10 7 0.13
11 5 0.09
12 15 0.28
13 8 0.15
14 15 0.28
15 4 0.07
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (12 bp):
ATATATTTAAAA
Found at i:222318 original size:2 final size:2
Alignment explanation
Indices: 222311--222343 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
222301 TAATGTATTT
222311 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
222344 TCAGAAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:223603 original size:13 final size:14
Alignment explanation
Indices: 223585--223641 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 14
223575 AGATAGTTCG
223585 ATATAAAAAATAT-
1 ATATAAAAAATATA
223598 ATAT-AAAAATATA
1 ATATAAAAAATATA
*
223611 ATATAAATATGATATAA
1 ATATAAA-A-AATAT-A
223628 ATATATAAAAATAT
1 ATATA-AAAAATAT
223642 TAAATTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 8 0.22
13 8 0.22
14 2 0.06
15 1 0.03
16 8 0.22
17 7 0.19
18 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
ATATAAAAAATATA
Found at i:223605 original size:11 final size:11
Alignment explanation
Indices: 223585--223641 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
223575 AGATAGTTCG
*
223585 ATATAAAAAAT
1 ATATATAAAAT
223596 ATATATAAAA-
1 ATATATAAAAT
223606 ATATAATATAAAT
1 ATAT-ATA-AAAT
223619 ATGATAT-AAAT
1 AT-ATATAAAAT
223630 ATATA-AAAAT
1 ATATATAAAAT
223640 AT
1 AT
223642 TAAATTTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
10 13 0.32
11 18 0.45
12 3 0.08
13 4 0.10
14 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
ATATATAAAAT
Found at i:223645 original size:28 final size:27
Alignment explanation
Indices: 223610--223663 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
223600 ATAAAAATAT
223610 AATATAAATATGATATAAATATATAAA
1 AATATAAATATGATATAAATATATAAA
* *
223637 AATATTAAATTTTATATAAATATATAA
1 AATA-TAAATATGATATAAATATATAA
223664 TATTTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (27 bp):
AATATAAATATGATATAAATATATAAA
Found at i:223654 original size:20 final size:20
Alignment explanation
Indices: 223629--223670 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
223619 ATGATATAAA
223629 TATATAAAAATATTAA-ATTT
1 TATATAAAAATA-TAATATTT
*
223649 TATATAAATATATAATATTT
1 TATATAAAAATATAATATTT
223669 TA
1 TA
223671 AATATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TATATAAAAATATAATATTT
Found at i:223657 original size:18 final size:20
Alignment explanation
Indices: 223631--223670 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
223621 GATATAAATA
223631 TATAAAAATAT-TAA-ATTT
1 TATAAAAATATATAATATTT
*
223649 TATATAAATATATAATATTT
1 TATAAAAATATATAATATTT
223669 TA
1 TA
223671 AATATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 3 0.16
20 6 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATAAAAATATATAATATTT
Found at i:224037 original size:22 final size:22
Alignment explanation
Indices: 224012--224059 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
224002 TATTTTTAAT
224012 TAAAT-TTAATCATAAAAAT-ACA
1 TAAATATTAAT-A-AAAAATAACA
224034 TAAATATTAATAAAAAATAACA
1 TAAATATTAATAAAAAATAACA
224056 TAAA
1 TAAA
224060 AACAGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.25
22 13 0.54
23 5 0.21
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAATATTAATAAAAAATAACA
Found at i:226840 original size:20 final size:20
Alignment explanation
Indices: 226790--226840 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
226780 GTTGGGCTTA
*
226790 ATGTATCGATACATTTCACC
1 ATGTATCGATACAATTCACC
* *
226810 ATATATCGATACAATTCATC
1 ATGTATCGATACAATTCACC
*
226830 ATGTATAGATA
1 ATGTATCGATA
226841 TAATGTATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:227501 original size:29 final size:28
Alignment explanation
Indices: 227440--227501 Score: 65
Period size: 29 Copynumber: 2.1 Consensus size: 28
227430 ATATATGATT
*
227440 ATATAAAAAAATAATTAAAATATAATATG
1 ATATAAAAAAATAATTAAAATATAAGA-G
227469 ATATAAAAAATATAAATCT-AAATATAAGA-
1 ATATAAAAAA-AT-AAT-TAAAATATAAGAG
227498 ATAT
1 ATAT
227502 CTCAAAACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
29 14 0.48
30 2 0.07
31 12 0.41
32 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (28 bp):
ATATAAAAAAATAATTAAAATATAAGAG
Found at i:227798 original size:11 final size:11
Alignment explanation
Indices: 227766--227799 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
227756 TTTTAGATCG
227766 TGTTATTTTTA
1 TGTTATTTTTA
* *
227777 TGTTGTATTTA
1 TGTTATTTTTA
227788 TGTTATTTTTA
1 TGTTATTTTTA
227799 T
1 T
227800 ATCATATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.71
Consensus pattern (11 bp):
TGTTATTTTTA
Found at i:227807 original size:22 final size:22
Alignment explanation
Indices: 227766--227807 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
227756 TTTTAGATCG
* **
227766 TGTTATTTTTATGTTGTATTTA
1 TGTTATTTTTATATCATATTTA
227788 TGTTATTTTTATATCATATT
1 TGTTATTTTTATATCATATT
227808 ATATAAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.02, G:0.10, T:0.67
Consensus pattern (22 bp):
TGTTATTTTTATATCATATTTA
Found at i:227835 original size:18 final size:19
Alignment explanation
Indices: 227803--227838 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
227793 TTTTTATATC
227803 ATATTATATAAATTTTAAA
1 ATATTATATAAATTTTAAA
*
227822 ATATT-TATATATTTTAA
1 ATATTATATAAATTTTAA
227839 TTTATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTATATAAATTTTAAA
Found at i:227870 original size:17 final size:18
Alignment explanation
Indices: 227826--227872 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
227816 TTTAAAATAT
227826 TTATATATTTTAATTTATA
1 TTAT-TATTTTAATTTATA
227845 TTATT-TTTT-ATATTATA
1 TTATTATTTTAAT-TTATA
227862 TT-TTATTTTAA
1 TTATTATTTTAA
227873 ACTGCATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 4 0.16
17 15 0.60
18 2 0.08
19 4 0.16
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTATTTTAATTTATA
Found at i:229259 original size:22 final size:22
Alignment explanation
Indices: 229234--229291 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
229224 TAAATTTAAT
229234 TATAAATATATAAAAAT-ATCAA
1 TATAAATATATAAAAATAAT-AA
* * *
229256 TATAAAAATATTATAATAATAA
1 TATAAATATATAAAAATAATAA
229278 TATAAATA-ATAAAA
1 TATAAATATATAAAA
229292 TAGACTTTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 4 0.14
22 23 0.79
23 2 0.07
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TATAAATATATAAAAATAATAA
Found at i:229274 original size:14 final size:14
Alignment explanation
Indices: 229238--229291 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
229228 TTTAATTATA
229238 AATATATAAAAATAT
1 AATA-ATAAAAATAT
229253 CAAT-ATAAAAATAT
1 -AATAATAAAAATAT
* *
229267 TATAATAATAATAT
1 AATAATAAAAATAT
229281 AAATAATAAAA
1 -AATAATAAAA
229292 TAGACTTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 2 0.06
14 19 0.59
15 8 0.25
16 3 0.09
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (14 bp):
AATAATAAAAATAT
Found at i:232648 original size:17 final size:18
Alignment explanation
Indices: 232626--232691 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
232616 AAAGATAAAG
232626 ATATAATTTTTAAATA-A
1 ATATAATTTTTAAATATA
*
232643 ATATAAAATTTTAAA-ATA
1 ATAT-AATTTTTAAATATA
*
232661 ATAAAATATATTTAAATATA
1 ATATAAT-T-TTTAAATATA
*
232681 ACATAATTTTT
1 ATATAATTTTT
232692 TATATTTGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
17 7 0.18
18 17 0.44
19 7 0.18
20 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATAATTTTTAAATATA
Found at i:232652 original size:19 final size:19
Alignment explanation
Indices: 232620--232678 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
232610 AAATATAAAG
* *
232620 ATAAAGATATAATTTTTAA
1 ATAAATATAAAATTTTTAA
*
232639 ATAAATATAAAATTTTAAA
1 ATAAATATAAAATTTTTAA
*
232658 AT-AATA-AAATATATTTAA
1 ATAAATATAAA-ATTTTTAA
232676 ATA
1 ATA
232679 TAACATAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 3 0.09
18 12 0.36
19 18 0.55
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
ATAAATATAAAATTTTTAA
Found at i:233482 original size:61 final size:63
Alignment explanation
Indices: 233355--233483 Score: 190
Period size: 61 Copynumber: 2.1 Consensus size: 63
233345 TTTTTAAAAA
* *
233355 TTAAATTACTAAATCAATTTTTATTTTATTTTTAAAATTTTTACTTTTCATTAAAATTTTATT
1 TTAAATTACTAAATCAATTTTTATTTTATTTTTAAAATTCTTACTTTTCATTAAAATTTCATT
* ** *
233418 TTAATTTA-TAAATCAATTTTTATTTTATTTTT-ATGTTCTTACTTTTCATTGAAATTTCATT
1 TTAAATTACTAAATCAATTTTTATTTTATTTTTAAAATTCTTACTTTTCATTAAAATTTCATT
233479 TTAAA
1 TTAAA
233484 CTTATAATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
61 28 0.47
62 24 0.41
63 7 0.12
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (63 bp):
TTAAATTACTAAATCAATTTTTATTTTATTTTTAAAATTCTTACTTTTCATTAAAATTTCATT
Found at i:233489 original size:62 final size:62
Alignment explanation
Indices: 233355--233490 Score: 193
Period size: 62 Copynumber: 2.2 Consensus size: 62
233345 TTTTTAAAAA
* *
233355 TTAAATTACTAAATCAATTTTTATTTTATTTTTAAAATTTTTACTTTTCATTAAAATTTTATT
1 TTAAATTA-TAAATCAATTTTTATTTTATTTTTAAAATTCTTACTTTTCATTAAAATTTCATT
* ** *
233418 TTAATTTATAAATCAATTTTTATTTTATTTTT-ATGTTCTTACTTTTCATTGAAATTTCATT
1 TTAAATTATAAATCAATTTTTATTTTATTTTTAAAATTCTTACTTTTCATTAAAATTTCATT
233479 TTAAACTTATAA
1 TTAAA-TTATAA
233491 TAAGTTAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 28 0.43
62 30 0.46
63 7 0.11
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.58
Consensus pattern (62 bp):
TTAAATTATAAATCAATTTTTATTTTATTTTTAAAATTCTTACTTTTCATTAAAATTTCATT
Found at i:233936 original size:18 final size:18
Alignment explanation
Indices: 233913--233949 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
233903 ATTTTTTCAA
233913 AATTTAATA-ATTTATTTT
1 AATTT-ATACATTTATTTT
233931 AATTTATACATTTATTTT
1 AATTTATACATTTATTTT
233949 A
1 A
233950 TATTCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTATACATTTATTTT
Found at i:233967 original size:23 final size:23
Alignment explanation
Indices: 233941--233993 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
233931 AATTTATACA
*
233941 TTTATTTTATATTCAT-ATTATTT
1 TTTATCTTATA-TCATAATTATTT
*
233964 TTTATCTTATATCTTAATTATTT
1 TTTATCTTATATCATAATTATTT
233987 TTATATC
1 TT-TATC
233994 ATATTTGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 3 0.12
23 19 0.73
24 4 0.15
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTATCTTATATCATAATTATTT
Found at i:235157 original size:23 final size:23
Alignment explanation
Indices: 235119--235184 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
235109 TTATTTAATT
235119 TTAAT-TAAAAAT-ATATAAATA
1 TTAATATAAAAATAATATAAATA
**
235140 TTAATATAAAAATAATAT-TTTA
1 TTAATATAAAAATAATATAAATA
*
235162 ATAATATAATAAATAATA-AAATA
1 TTAATATAA-AAATAATATAAATA
235185 AAATTTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
21 5 0.14
22 17 0.47
23 14 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TTAATATAAAAATAATATAAATA
Found at i:235186 original size:49 final size:50
Alignment explanation
Indices: 235090--235186 Score: 112
Period size: 49 Copynumber: 2.0 Consensus size: 50
235080 AAATTATTAT
* * *
235090 TTAATAATAAAAATAAATTTTATTTAATTTTAATTAAAAATATATAAATA
1 TTAATAATAAAAATAAATTTTATATAATTATAATTAAAAATAAATAAATA
235140 TTAAT-ATAAAAATAATATTTTA-ATAA-TATAA-TAAATAATAAAATAAA
1 TTAATAATAAAAATAA-ATTTTATATAATTATAATTAAA-AAT-AAATAAA
235187 ATTTTAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
47 4 0.10
48 7 0.17
49 19 0.46
50 11 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (50 bp):
TTAATAATAAAAATAAATTTTATATAATTATAATTAAAAATAAATAAATA
Found at i:235378 original size:18 final size:19
Alignment explanation
Indices: 235333--235393 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 19
235323 TTATGTTAGA
235333 TTTATCA-ATTTATATATT
1 TTTATCATATTTATATATT
** *
235351 AATATTATATTTAT-TATT
1 TTTATCATATTTATATATT
*
235369 TTTATCATATTTTAAATATT
1 TTTATCATA-TTTATATATT
235389 TTTAT
1 TTTAT
235394 ATTTATAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
18 14 0.42
19 10 0.30
20 9 0.27
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATCATATTTATATATT
Found at i:235397 original size:17 final size:17
Alignment explanation
Indices: 235375--235408 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
235365 TATTTTTATC
235375 ATATTT-TAAATATTTTT
1 ATATTTATAAA-ATTTTT
235392 ATATTTATAAAATTTTT
1 ATATTTATAAAATTTTT
235409 GATACATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATTTATAAAATTTTT
Found at i:235406 original size:26 final size:27
Alignment explanation
Indices: 235357--235407 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
235347 TATTAATATT
* * *
235357 ATATTTATTATTTTTATCATATTTTAA
1 ATATTTATTATATTTATAAAATTTTAA
235384 ATATTT-TTATATTTATAAAATTTT
1 ATATTTATTATATTTATAAAATTTT
235408 TGATACATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (27 bp):
ATATTTATTATATTTATAAAATTTTAA
Found at i:235584 original size:17 final size:19
Alignment explanation
Indices: 235567--235608 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
235557 ATTATTAATT
235567 TTTAAGTCAATGTAATTTA
1 TTTAAGTCAATGTAATTTA
* * *
235586 TTTGAGTCAATGTCACTTA
1 TTTAAGTCAATGTAATTTA
235605 TTTA
1 TTTA
235609 TTTCCTGATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.48
Consensus pattern (19 bp):
TTTAAGTCAATGTAATTTA
Found at i:239349 original size:2 final size:2
Alignment explanation
Indices: 239339--239371 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
239329 TATATATATA
*
239339 TG TG CG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
239372 ATATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.48, T:0.48
Consensus pattern (2 bp):
TG
Found at i:240503 original size:14 final size:14
Alignment explanation
Indices: 240474--240522 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
240464 ATTTTTATTT
*
240474 AAAAATTTAA-TAA
1 AAAAATTAAATTAA
*
240487 AAATATTAAATTAA
1 AAAAATTAAATTAA
* *
240501 AAAAATGATATTAA
1 AAAAATTAAATTAA
240515 AAAAATTA
1 AAAAATTA
240523 GAAAAAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
13 8 0.28
14 21 0.72
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
AAAAATTAAATTAA
Found at i:243631 original size:4 final size:4
Alignment explanation
Indices: 243624--243654 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
243614 TTCTCATATA
*
243624 TATG TATG TATA TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
243655 ATGTATATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:243663 original size:12 final size:12
Alignment explanation
Indices: 243620--243654 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
243610 ATCCTTCTCA
243620 TATATATGTATG
1 TATATATGTATG
243632 TATATATGTATG
1 TATATATGTATG
*
243644 TATGTATGTAT
1 TATATATGTAT
243655 ATGTATATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (12 bp):
TATATATGTATG
Found at i:246617 original size:20 final size:20
Alignment explanation
Indices: 246592--246630 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
246582 AAAATCCCTT
246592 TTTTAATATTTAAA-AAATAG
1 TTTTAATA-TTAAATAAATAG
246612 TTTTAATATTAAATAAATA
1 TTTTAATATTAAATAAATA
246631 TTAAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTTAATATTAAATAAATAG
Found at i:249821 original size:20 final size:20
Alignment explanation
Indices: 249792--249829 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
249782 AGGATTTCTC
249792 TTTTTATTTTT-ATTTTTAT
1 TTTTTATTTTTAATTTTTAT
249811 TTTTATATTTTTAATTTTT
1 TTTT-TATTTTTAATTTTT
249830 TGTCTTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTATTTTTAATTTTTAT
Found at i:249828 original size:6 final size:6
Alignment explanation
Indices: 249792--249821 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
249782 AGGATTTCTC
249792 TTTTTA TTTTTA TTTTTA TTTTTA TATTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA T-TTTT
249822 TAATTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:251215 original size:1 final size:1
Alignment explanation
Indices: 251209--251233 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
251199 CCAATGGCAG
251209 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
251234 GTGTTTCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:251720 original size:14 final size:12
Alignment explanation
Indices: 251695--251805 Score: 56
Period size: 12 Copynumber: 9.3 Consensus size: 12
251685 TAATTTAACG
251695 ATTTAAATTATT
1 ATTTAAATTATT
*
251707 ATTTAAAATA-T
1 ATTTAAATTATT
*
251718 A-TTAAAATATT
1 ATTTAAATTATT
*
251729 A--AAAATTATT
1 ATTTAAATTATT
* *
251739 -TTTATATTAAT
1 ATTTAAATTATT
251750 ATTTATATATTATT
1 ATTTA-A-ATTATT
*
251764 A-TTATTATTATT
1 ATTTA-AATTATT
*
251776 AAATTTAAATT-TAA
1 --ATTTAAATTAT-T
251790 ATTTAAATTATT
1 ATTTAAATTATT
251802 ATTT
1 ATTT
251806 TATTTAATAT
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
10 15 0.20
11 10 0.13
12 32 0.42
13 6 0.08
14 10 0.13
15 3 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTTAAATTATT
Found at i:251783 original size:6 final size:6
Alignment explanation
Indices: 251774--251798 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
251764 ATTATTATTA
251774 TTAAAT TTAAAT TTAAAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT T
251799 ATTATTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:256548 original size:14 final size:15
Alignment explanation
Indices: 256518--256549 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
256508 TTTAATTTAA
256518 TTAAATAAAATAAAT
1 TTAAATAAAATAAAT
256533 TTAAAT-AAATAAAT
1 TTAAATAAAATAAAT
256547 TTA
1 TTA
256550 TAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAAATAAAATAAAT
Found at i:258197 original size:20 final size:20
Alignment explanation
Indices: 258172--258240 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 20
258162 AATTCGTGTA
258172 TTTATTTTATATTTATATAT
1 TTTATTTTATATTTATATAT
* *
258192 TTTATTATATTATAATCTTATTTAA
1 TTTA-T-T-TTAT-AT-TTATATAT
*
258217 TATATTTTATATTTATATAAT
1 TTTATTTTATATTTATAT-AT
258238 TTT
1 TTT
258241 TTATAAATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
20 9 0.24
21 6 0.16
22 5 0.14
23 5 0.14
24 3 0.08
25 9 0.24
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTATTTTATATTTATATAT
Done.