Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold41
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: 2798036
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Warning! 10448 characters in sequence are not A, C, G, or T
File 11 of 21
Found at i:1124882 original size:3 final size:3
Alignment explanation
Indices: 1124874--1124927 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
1124864 TAAACACATG
1124874 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1124922 ATA ATA
1 ATA ATA
1124928 TATTATTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1124934 original size:3 final size:3
Alignment explanation
Indices: 1124928--1124952 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1124918 AATAATAATA
1124928 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
1124953 TTAAAATTTT
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):
TAT
Found at i:1125837 original size:15 final size:15
Alignment explanation
Indices: 1125817--1125845 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1125807 AAATTAATTT
1125817 AATTTATTTTTATTA
1 AATTTATTTTTATTA
1125832 AATTTATTTTTATT
1 AATTTATTTTTATT
1125846 TGATTATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
AATTTATTTTTATTA
Found at i:1126377 original size:70 final size:68
Alignment explanation
Indices: 1126233--1126466 Score: 193
Period size: 70 Copynumber: 3.2 Consensus size: 68
1126223 GAAAATATGA
* * * * * *
1126233 TTTATTTTTATT-TATAAGATTAATTTGATTAGAGTTATTATTTCTTTTTATTTGTAAAAATTTA
1 TTTATTTTGATTATATGAGTTTAATTT--TTAGAG-TATAATTT-ATTTTATTTATAAAAATTT-
1126297 AATTTATT
61 AATTTATT
1126305 TTTATTTTGATTATATGAGTTTAATTTTTAGAGTATAATTTATTTTAATTTATAAAAATTTAATT
1 TTTATTTTGATTATATGAGTTTAATTTTTAGAGTATAATTTATTTT-ATTTATAAAAATTTAATT
*
1126370 GTCTT
65 -TATT
* * *
1126375 TTT-TTATTAAGTATGATATGAGTTTAAATTTTTAATAGTGTAATTTAATTTTATTTATAAAAAT
1 TTTATT-TT--G-ATTATATGAGTTT-AATTTTT-AGAGTATAATTT-ATTTTATTTATAAAAAT
*
1126439 TTAAGATTTGTT
59 TT-A-ATTTATT
*
1126451 TTTCAATTTGATTATA
1 TTT-ATTTTGATTATA
1126467 AAACTTAAAA
Statistics
Matches: 135, Mismatches: 13, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
69 10 0.07
70 28 0.21
71 6 0.04
72 12 0.09
73 24 0.18
74 12 0.09
75 25 0.19
76 12 0.09
77 5 0.04
78 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.09, T:0.57
Consensus pattern (68 bp):
TTTATTTTGATTATATGAGTTTAATTTTTAGAGTATAATTTATTTTATTTATAAAAATTTAATTT
ATT
Found at i:1126437 original size:75 final size:69
Alignment explanation
Indices: 1126278--1126453 Score: 199
Period size: 75 Copynumber: 2.4 Consensus size: 69
1126268 TATTATTTCT
* ** *
1126278 TTTTATTTGTAAAAATTTAAATTTATTTTTATTTTGATTATATGAGTTTAATTTTTAGAGTATAA
1 TTTTATTTATAAAAATTTAAATTTATTTTTATTAAGATGATATGAGTTTAATTTTTAGAGTATAA
1126343 TTTA
66 TTTA
* * *
1126347 TTTTAATTTATAAAAATTTAATTGTCTTTTTTTATTAAGTATGATATGAGTTTAAATTTTTAATA
1 TTTT-ATTTATAAAAATTTAAAT-T-TATTTTTATTAAG-ATGATATGAGTTT-AATTTTT-AGA
*
1126412 GTGTAATTTAA
60 GTATAATTT-A
*
1126423 TTTTATTTATAAAAATTTAAGATTTGTTTTT
1 TTTTATTTATAAAAATTTAA-ATTTATTTTT
1126454 CAATTTGATT
Statistics
Matches: 89, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
69 4 0.04
70 16 0.18
71 1 0.01
72 10 0.11
73 12 0.13
74 13 0.15
75 27 0.30
76 6 0.07
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.57
Consensus pattern (69 bp):
TTTTATTTATAAAAATTTAAATTTATTTTTATTAAGATGATATGAGTTTAATTTTTAGAGTATAA
TTTA
Found at i:1127585 original size:21 final size:21
Alignment explanation
Indices: 1127536--1127590 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
1127526 AAATAAAATA
*
1127536 AAAATAAATTAAATTAATTTT
1 AAAATAAAATAAATTAATTTT
*
1127557 ATAAATAAAATAAA-TCATCTTT
1 A-AAATAAAATAAATTAAT-TTT
1127579 AAAATAAAATAA
1 AAAATAAAATAA
1127591 TTTTAAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATAAAATAAATTAATTTT
Found at i:1128238 original size:22 final size:21
Alignment explanation
Indices: 1128206--1128254 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
1128196 AAAAAAACAT
*
1128206 ATTT-TTTAAAAAAATTTAAAA
1 ATTTATTT-AAAAAATTAAAAA
1128227 ATTTATTTAAAAAATTAAAAA
1 ATTTATTTAAAAAATTAAAAA
*
1128248 AATTATT
1 ATTTATT
1128255 ATTATTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTTATTTAAAAAATTAAAAA
Found at i:1131245 original size:59 final size:59
Alignment explanation
Indices: 1131179--1131298 Score: 231
Period size: 59 Copynumber: 2.0 Consensus size: 59
1131169 TTTACGGAAG
*
1131179 ATCCATAGAAATAGGAAAATATGATTGAGTGAATAGCTGACCACATTTTTTATAAAAAT
1 ATCCATAGAAATAGGAAAATATGACTGAGTGAATAGCTGACCACATTTTTTATAAAAAT
1131238 ATCCATAGAAATAGGAAAATATGACTGAGTGAATAGCTGACCACATTTTTTATAAAAAT
1 ATCCATAGAAATAGGAAAATATGACTGAGTGAATAGCTGACCACATTTTTTATAAAAAT
1131297 AT
1 AT
1131299 TAATTTAGGG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (59 bp):
ATCCATAGAAATAGGAAAATATGACTGAGTGAATAGCTGACCACATTTTTTATAAAAAT
Found at i:1132415 original size:28 final size:28
Alignment explanation
Indices: 1132375--1132431 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
1132365 TCATACATTA
1132375 ACATTTAAACTACTTAAAAGATTTCAGC
1 ACATTTAAACTACTTAAAAGATTTCAGC
1132403 ACATTTAAACTACTTAAAAGATTTCAGC
1 ACATTTAAACTACTTAAAAGATTTCAGC
1132431 A
1 A
1132432 ACATGATACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.32
Consensus pattern (28 bp):
ACATTTAAACTACTTAAAAGATTTCAGC
Found at i:1133182 original size:20 final size:19
Alignment explanation
Indices: 1133157--1133247 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 19
1133147 CATTTCATAC
*
1133157 TTGCATCCACGTTACATGCT
1 TTGCATCCAC-TTTCATGCT
1133177 TTGCAT-CATCATTTCATGCT
1 TTGCATCCA-C-TTTCATGCT
*
1133197 TT-CA-CAACTTTCATGCT
1 TTGCATCCACTTTCATGCT
1133214 TTGCATCTTCA-TTTCATGCT
1 TTGCATC--CACTTTCATGCT
*
1133234 TT-CA-CAACTTTCAT
1 TTGCATCCACTTTCAT
1133248 TCATTCATCA
Statistics
Matches: 59, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
16 1 0.02
17 17 0.29
18 4 0.07
19 8 0.14
20 28 0.47
21 1 0.02
ACGTcount: A:0.21, C:0.27, G:0.09, T:0.43
Consensus pattern (19 bp):
TTGCATCCACTTTCATGCT
Found at i:1133210 original size:17 final size:17
Alignment explanation
Indices: 1133188--1133247 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
1133178 TGCATCATCA
1133188 TTTCATGCTTTCACAAC
1 TTTCATGCTTTCACAAC
**
1133205 TTTCATGCTTTGCATCTTC
1 TTTCATGCTTT-CA-CAAC
1133224 ATTTCATGCTTTCACAAC
1 -TTTCATGCTTTCACAAC
1133242 TTTCAT
1 TTTCAT
1133248 TCATTCATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 17 0.47
18 4 0.11
19 4 0.11
20 11 0.31
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.47
Consensus pattern (17 bp):
TTTCATGCTTTCACAAC
Found at i:1133219 original size:37 final size:37
Alignment explanation
Indices: 1133144--1133247 Score: 145
Period size: 37 Copynumber: 2.8 Consensus size: 37
1133134 TTGTTTGCTG
* * * *
1133144 CATCATTTCATACTTGCATCCACGTTACATGCTTTGCAT
1 CATCATTTCATGCTTTCA-CAAC-TTTCATGCTTTGCAT
1133183 CATCATTTCATGCTTTCACAACTTTCATGCTTTGCAT
1 CATCATTTCATGCTTTCACAACTTTCATGCTTTGCAT
*
1133220 CTTCATTTCATGCTTTCACAACTTTCAT
1 CATCATTTCATGCTTTCACAACTTTCAT
1133248 TCATTCATCA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 41 0.68
38 3 0.05
39 16 0.27
ACGTcount: A:0.22, C:0.28, G:0.08, T:0.42
Consensus pattern (37 bp):
CATCATTTCATGCTTTCACAACTTTCATGCTTTGCAT
Found at i:1134299 original size:21 final size:21
Alignment explanation
Indices: 1134274--1134313 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1134264 TATAAAATAT
1134274 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
1134295 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
1134314 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:1134482 original size:22 final size:24
Alignment explanation
Indices: 1134451--1134496 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
1134441 TTTTATCATA
1134451 TTATAATTATATT-TA-AAATTTT
1 TTATAATTATATTATATAAATTTT
*
1134473 TTATATTTATATTATATAAATTTT
1 TTATAATTATATTATATAAATTTT
1134497 AAAAACATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 2 0.10
24 7 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TTATAATTATATTATATAAATTTT
Found at i:1134490 original size:29 final size:27
Alignment explanation
Indices: 1134413--1134490 Score: 63
Period size: 29 Copynumber: 2.7 Consensus size: 27
1134403 ACATTTTACG
*
1134413 ATTTATATATTTATATA-ATATTTATTT
1 ATTT-TATATTTATATATATATTTAATT
1134440 ATTTTATCATATTATA-ATTATATTTAAAATT
1 ATTTTAT-AT-TTATATA-TATATTT--AATT
1134471 -TTTTATATTTATATTATATA
1 ATTTTATATTTATA-TATATA
1134491 AATTTTAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
26 3 0.07
27 7 0.17
28 10 0.24
29 12 0.29
30 7 0.17
31 3 0.07
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (27 bp):
ATTTTATATTTATATATATATTTAATT
Found at i:1138629 original size:15 final size:16
Alignment explanation
Indices: 1138609--1138642 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1138599 TAACATGTAC
1138609 ATTAA-TTAAAATATA
1 ATTAATTTAAAATATA
*
1138624 ATTAATTTAAAATTTA
1 ATTAATTTAAAATATA
1138640 ATT
1 ATT
1138643 TCATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTAATTTAAAATATA
Found at i:1139781 original size:13 final size:12
Alignment explanation
Indices: 1139759--1139798 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
1139749 AAGACATGAA
1139759 TAATTTATTATT
1 TAATTTATTATT
*
1139771 TCATATTATTATT
1 TAAT-TTATTATT
1139784 TAATTTAATTATT
1 TAATTT-ATTATT
1139797 TA
1 TA
1139799 TAATAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (12 bp):
TAATTTATTATT
Found at i:1139807 original size:26 final size:25
Alignment explanation
Indices: 1139759--1139809 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
1139749 AAGACATGAA
*
1139759 TAATTTATTATTTCATATTATTATT
1 TAATTTATTATTTCATATAATTATT
1139784 TAATTTAATTATTT-ATAATAATTATT
1 TAATTT-ATTATTTCAT-ATAATTATT
1139810 ATTAAGTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (25 bp):
TAATTTATTATTTCATATAATTATT
Found at i:1146203 original size:15 final size:15
Alignment explanation
Indices: 1146165--1146209 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
1146155 TGATCCTATC
*
1146165 CATCCACCACCTATT
1 CATCCACCACCTGTT
**
1146180 CATTTACCACCTGTT
1 CATCCACCACCTGTT
*
1146195 CATCCACCACATGTT
1 CATCCACCACCTGTT
1146210 TACCCAGCTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.24, C:0.40, G:0.04, T:0.31
Consensus pattern (15 bp):
CATCCACCACCTGTT
Found at i:1147348 original size:17 final size:16
Alignment explanation
Indices: 1147320--1147351 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1147310 TACGTTTTTT
1147320 AAAATATAATAATAAA
1 AAAATATAATAATAAA
1147336 AAAATATTAATAATAA
1 AAAATA-TAATAATAA
1147352 TAATTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATATAATAATAAA
Found at i:1147387 original size:18 final size:20
Alignment explanation
Indices: 1147345--1147387 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
1147335 AAAAATATTA
1147345 ATAATAATAATTTTAAAAAT
1 ATAATAATAATTTTAAAAAT
1147365 ATAATAA-AATTTTAAAAAT
1 ATAATAATAATTTTAAAAAT
1147384 -TAAT
1 ATAAT
1147388 TAGCATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 12 0.52
20 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAATAATAATTTTAAAAAT
Found at i:1150073 original size:20 final size:20
Alignment explanation
Indices: 1150048--1150086 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1150038 ATTAAAAACT
*
1150048 TAAAAA-ATTATAAATATATA
1 TAAAAATATT-TAAAAATATA
1150068 TAAAAATATTTAAAAATAT
1 TAAAAATATTTAAAAATAT
1150087 TAATTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAATATTTAAAAATATA
Found at i:1150931 original size:15 final size:15
Alignment explanation
Indices: 1150911--1150946 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
1150901 TTATAATTGA
*
1150911 ATATGAATTATAAGT
1 ATATGAATTATAAAT
1150926 ATATGAATTATAAAT
1 ATATGAATTATAAAT
1150941 ATATGA
1 ATATGA
1150947 TTTTAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (15 bp):
ATATGAATTATAAAT
Found at i:1152976 original size:23 final size:23
Alignment explanation
Indices: 1152949--1153004 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
1152939 CAGATATAAA
1152949 ATAATTTAAATTCAAAAAATTTT
1 ATAATTTAAATTCAAAAAATTTT
* **
1152972 ATAATTTAAAATTTAAAATTTTTT
1 ATAATTT-AAATTCAAAAAATTTT
1152996 AT-ATTTAAA
1 ATAATTTAAA
1153005 ATAATTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.10
23 11 0.38
24 15 0.52
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAATTTAAATTCAAAAAATTTT
Found at i:1152989 original size:24 final size:24
Alignment explanation
Indices: 1152949--1153006 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
1152939 CAGATATAAA
1152949 ATAATTT-AAATTCAAAAAATTTT
1 ATAATTTAAAATTCAAAAAATTTT
* **
1152972 ATAATTTAAAATTTAAAATTTTTT
1 ATAATTTAAAATTCAAAAAATTTT
1152996 AT-ATTTAAAAT
1 ATAATTTAAAAT
1153007 AATTTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 16 0.52
24 15 0.48
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
ATAATTTAAAATTCAAAAAATTTT
Found at i:1153005 original size:23 final size:22
Alignment explanation
Indices: 1152964--1153006 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
1152954 TTAAATTCAA
1152964 AAAATTTTATAATTTAAAATTT
1 AAAATTTTATAATTTAAAATTT
*
1152986 AAAATTTTTTATATTTAAAAT
1 AAAATTTTATA-ATTTAAAAT
1153007 AATTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAAATTTTATAATTTAAAATTT
Found at i:1153569 original size:41 final size:40
Alignment explanation
Indices: 1153507--1153597 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 40
1153497 AATTTGATTA
* * *
1153507 AAATTGAATGATTTTTTTTATAAT-TAATTAAATATATTAAT
1 AAATTAAATAATTTTTATTATAATAT-ATTAAATATA-TAAT
1153548 AAATTAAATAATTTTTATTATAATATATTAAATATATAAT
1 AAATTAAATAATTTTTATTATAATATATTAAATATATAAT
**
1153588 ATTTTAAATA
1 AAATTAAATA
1153598 TTGATAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
40 12 0.27
41 31 0.70
42 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (40 bp):
AAATTAAATAATTTTTATTATAATATATTAAATATATAAT
Found at i:1153587 original size:16 final size:16
Alignment explanation
Indices: 1153566--1153626 Score: 59
Period size: 16 Copynumber: 3.4 Consensus size: 16
1153556 TAATTTTTAT
1153566 TATAATATATTAAATA
1 TATAATATATTAAATA
*
1153582 TATAATATTTTAAATA
1 TATAATATATTAAATA
1153598 TTGATAAAATGATATTTAAATA
1 -T-AT--AAT-ATA-TTAAATA
1153620 TATAATA
1 TATAATA
1153627 GGAAACGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
16 15 0.41
17 2 0.05
18 5 0.14
20 5 0.14
21 3 0.08
22 7 0.19
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TATAATATATTAAATA
Found at i:1154798 original size:9 final size:9
Alignment explanation
Indices: 1154784--1154808 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1154774 ATTTATAATT
1154784 TAAAATATA
1 TAAAATATA
1154793 TAAAATATA
1 TAAAATATA
1154802 TAAAATA
1 TAAAATA
1154809 AGATACATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TAAAATATA
Found at i:1159298 original size:33 final size:33
Alignment explanation
Indices: 1159230--1159298 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1159220 CTAAAATAAG
* *
1159230 TTTTAGATATAAATTTTTTTAATACGATCTTAA
1 TTTTAAATATAAATTTTTTTAATACGATCTGAA
* *
1159263 TTTTAAATATATATTTTTTTAATTCGAGT-TGAA
1 TTTTAAATATAAATTTTTTTAATACGA-TCTGAA
1159296 TTT
1 TTT
1159299 AATAGATCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.55
Consensus pattern (33 bp):
TTTTAAATATAAATTTTTTTAATACGATCTGAA
Found at i:1159581 original size:24 final size:23
Alignment explanation
Indices: 1159554--1159682 Score: 95
Period size: 22 Copynumber: 5.5 Consensus size: 23
1159544 TGATAAATTG
*
1159554 AAATATAATATAAGTATAAAATAA
1 AAATATAATATAA-AATAAAATAA
**
1159578 AAATATAATA-AAAATATTATAA
1 AAATATAATATAAAATAAAATAA
*
1159600 AAATATAATATAAAA-AATAATAT
1 AAATATAATATAAAATAA-AATAA
*
1159623 AAATATGATA-AAAAT-AAATAA
1 AAATATAATATAAAATAAAATAA
* * * *
1159644 ACATATTAAAATTTATATAAAATAA
1 AAATA-TAATA-TAAAATAAAATAA
1159669 AAATTATTAATATA
1 AAA-TA-TAATATA
1159683 TAAAATTTTA
Statistics
Matches: 81, Mismatches: 16, Indels: 15
0.72 0.14 0.13
Matches are distributed among these distances:
21 8 0.10
22 26 0.32
23 18 0.22
24 13 0.16
25 9 0.11
26 7 0.09
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.32
Consensus pattern (23 bp):
AAATATAATATAAAATAAAATAA
Found at i:1159587 original size:11 final size:11
Alignment explanation
Indices: 1159554--1159649 Score: 95
Period size: 11 Copynumber: 8.5 Consensus size: 11
1159544 TGATAAATTG
1159554 AAATATAATATA
1 AAATATAATA-A
* *
1159566 AGTATAAAATAA
1 A-AATATAATAA
1159578 AAATATAATAA
1 AAATATAATAA
*
1159589 AAATATTATAA
1 AAATATAATAA
1159600 AAATATAATATA
1 AAATATAATA-A
* *
1159612 AAAAATAATAT
1 AAATATAATAA
*
1159623 AAATATGATAA
1 AAATATAATAA
1159634 AAATA-AATAA
1 AAATATAATAA
*
1159644 ACATAT
1 AAATAT
1159650 TAAAATTTAT
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
10 8 0.12
11 40 0.59
12 13 0.19
13 7 0.10
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (11 bp):
AAATATAATAA
Found at i:1159598 original size:27 final size:27
Alignment explanation
Indices: 1159568--1159651 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
1159558 ATAATATAAG
1159568 TATAAAATAAAAATATAATAAAAATAT
1 TATAAAATAAAAATATAATAAAAATAT
* *
1159595 TATAAAA-ATATAATATAAAAAATAATAT
1 TATAAAATA-AAAATATAATAAA-AATAT
* ** *
1159623 AAATATGATAAAAATA-AATAAACATAT
1 -TATAAAATAAAAATATAATAAAAATAT
1159650 TA
1 TA
1159652 AAATTTATAT
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
26 2 0.05
27 22 0.50
28 10 0.23
29 9 0.20
30 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (27 bp):
TATAAAATAAAAATATAATAAAAATAT
Found at i:1159602 original size:12 final size:12
Alignment explanation
Indices: 1159563--1159625 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 12
1159553 GAAATATAAT
1159563 ATAAGTATAAAATA
1 ATAA-TATAAAA-A
*
1159577 AAAATATAATAAAA
1 ATAATAT-A-AAAA
*
1159591 ATATTATAAAAA
1 ATAATATAAAAA
1159603 TATAATATAAAAA
1 -ATAATATAAAAA
1159616 ATAATATAAA
1 ATAATATAAA
1159626 TATGATAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
12 14 0.33
13 15 0.36
14 10 0.24
15 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
ATAATATAAAAA
Found at i:1159673 original size:17 final size:18
Alignment explanation
Indices: 1159602--1159699 Score: 62
Period size: 17 Copynumber: 5.4 Consensus size: 18
1159592 TATTATAAAA
* *
1159602 ATAT-AATATAAAAAATA
1 ATATAAATATAAAAATTT
*
1159619 ATATAAATATGATAAAA-AT
1 ATATAAATAT-A-AAAATTT
* *
1159638 AAATAAACATATTAAAATTT
1 ATAT-AA-ATATAAAAATTT
1159658 ATATAAA-ATAAAAA-TT
1 ATATAAATATAAAAATTT
*
1159674 AT-TAATATATAAAATTTT
1 ATATAA-ATATAAAAATTT
1159692 ATATAAAT
1 ATATAAAT
1159700 TTATAATATT
Statistics
Matches: 63, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
15 3 0.05
16 5 0.08
17 16 0.25
18 12 0.19
19 13 0.21
20 10 0.16
21 4 0.06
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (18 bp):
ATATAAATATAAAAATTT
Found at i:1159887 original size:21 final size:21
Alignment explanation
Indices: 1159844--1159888 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1159834 AATCAGAATT
*
1159844 ATAAATTATATAAAATATGAA
1 ATAAATTAAATAAAATATGAA
*
1159865 ATAAATTAAAATATAATAT-AA
1 ATAAATT-AAATAAAATATGAA
1159886 ATA
1 ATA
1159889 TAAGATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAATTAAATAAAATATGAA
Found at i:1159901 original size:16 final size:16
Alignment explanation
Indices: 1159854--1159930 Score: 74
Period size: 17 Copynumber: 4.9 Consensus size: 16
1159844 ATAAATTATA
1159854 TAAAATATGAAATAAAT
1 TAAAATAT-AAATAAAT
1159871 TAAAATATAATATAAAT
1 TAAAATATAA-ATAAAT
*
1159888 ATAAGATA-AAATAAAT
1 -TAAAATATAAATAAAT
*
1159904 TAAAA-ATTAA-AAAT
1 TAAAATATAAATAAAT
1159918 TAAAA-AT-AATAAA
1 TAAAATATAAATAAA
1159931 AATATAACAA
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
13 2 0.04
14 15 0.28
15 6 0.11
16 8 0.15
17 16 0.30
18 6 0.11
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAAATATAAATAAAT
Found at i:1159922 original size:6 final size:7
Alignment explanation
Indices: 1159900--1159924 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1159890 AAGATAAAAT
1159900 AAATTAA
1 AAATTAA
1159907 AAATTAA
1 AAATTAA
1159914 AAATTAA
1 AAATTAA
1159921 AAAT
1 AAAT
1159925 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATTAA
Found at i:1159932 original size:16 final size:16
Alignment explanation
Indices: 1159867--1159933 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 16
1159857 AATATGAAAT
*
1159867 AAATTAAAATATAATAT
1 AAATTAAAA-ATAATAA
*
1159884 AAA-TATAAGATAA-AA
1 AAATTA-AAAATAATAA
1159899 TAAATTAAAAAT--TAA
1 -AAATTAAAAATAATAA
1159914 AAATTAAAAATAATAA
1 AAATTAAAAATAATAA
1159930 AAAT
1 AAAT
1159934 ATAACAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
14 11 0.27
15 3 0.07
16 20 0.49
17 7 0.17
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (16 bp):
AAATTAAAAATAATAA
Found at i:1160375 original size:32 final size:32
Alignment explanation
Indices: 1160335--1160414 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
1160325 GATTATAATA
1160335 TTTTAAGTTTAAA-TTATTATAAATTTAAATTT
1 TTTTAAGTTTAAATTTATT-TAAATTTAAATTT
* *
1160367 TTTTAAGTTTAAATTTATTTAAGTTTGAATTT
1 TTTTAAGTTTAAATTTATTTAAATTTAAATTT
* *
1160399 TTTCAA-TTTGAATTTA
1 TTTTAAGTTTAAATTTA
1160415 AATTTGAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 9 0.21
32 29 0.67
33 5 0.12
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.57
Consensus pattern (32 bp):
TTTTAAGTTTAAATTTATTTAAATTTAAATTT
Found at i:1160382 original size:16 final size:16
Alignment explanation
Indices: 1160335--1160401 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
1160325 GATTATAATA
*
1160335 TTTTAAGTTTAAATTA
1 TTTTAAGTTTAAATTT
* *
1160351 TTATAAATTTAAATTT
1 TTTTAAGTTTAAATTT
1160367 TTTTAAGTTTAAATTT
1 TTTTAAGTTTAAATTT
* *
1160383 ATTTAAGTTTGAATTT
1 TTTTAAGTTTAAATTT
1160399 TTT
1 TTT
1160402 CAATTTGAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (16 bp):
TTTTAAGTTTAAATTT
Found at i:1160462 original size:26 final size:29
Alignment explanation
Indices: 1160433--1160493 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 29
1160423 TATATTTTAT
* *
1160433 ATTATTTTTAT-T-TTATTTTAAATAT-A
1 ATTATTTTTATATATAATTTAAAATATAA
1160459 ATTATTTTTATATATAATTTAAAATATAA
1 ATTATTTTTATATATAATTTAAAATATAA
1160488 ATTATT
1 ATTATT
1160494 AAATTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 11 0.37
27 1 0.03
28 11 0.37
29 7 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
ATTATTTTTATATATAATTTAAAATATAA
Found at i:1160467 original size:16 final size:16
Alignment explanation
Indices: 1160448--1160557 Score: 64
Period size: 14 Copynumber: 7.4 Consensus size: 16
1160438 TTTTATTTTA
1160448 TTTTAAATATAATTAT
1 TTTTAAATATAATTAT
*
1160464 TTTT--ATAT-A-TAA
1 TTTTAAATATAATTAT
*
1160476 TTTAAAATATAA--AT
1 TTTTAAATATAATTAT
*
1160490 TATTAAAT-T-ATTAT
1 TTTTAAATATAATTAT
1160504 TTTTAAATA-AATT-T
1 TTTTAAATATAATTAT
*
1160518 TTATTATAATATGA-TAT
1 TT-TTA-AATATAATTAT
*
1160535 TTTT-AATATATTTAT
1 TTTTAAATATAATTAT
1160550 TTATTAAA
1 TT-TTAAA
1160558 ATTTATATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 27
0.66 0.08 0.25
Matches are distributed among these distances:
12 6 0.08
13 2 0.03
14 32 0.45
15 12 0.17
16 13 0.18
17 6 0.08
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (16 bp):
TTTTAAATATAATTAT
Found at i:1161623 original size:18 final size:16
Alignment explanation
Indices: 1161600--1161635 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
1161590 CCTTGCGTTA
1161600 ATATTTTTAAAATTATAT
1 ATATTTTT--AATTATAT
1161618 ATATTTTTAATTATAT
1 ATATTTTTAATTATAT
1161634 AT
1 AT
1161636 TATCTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
18 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATATTTTTAATTATAT
Found at i:1161643 original size:19 final size:18
Alignment explanation
Indices: 1161610--1161669 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 18
1161600 ATATTTTTAA
1161610 AATTATATA-TAT-TTTT
1 AATTATATATTATCTTTT
1161626 AATTATATATTATCTTTT
1 AATTATATATTATCTTTT
*
1161644 -ATTTTATATTATTCACTTTT
1 AATTATATATTA-T--CTTTT
1161664 AATTAT
1 AATTAT
1161670 CTTTTAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
16 9 0.25
17 13 0.36
18 5 0.14
20 5 0.14
21 4 0.11
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTATATATTATCTTTT
Found at i:1161652 original size:31 final size:31
Alignment explanation
Indices: 1161617--1161675 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
1161607 TAAAATTATA
*
1161617 TATATT-TTTAATTATATATTATCTTTTATTT
1 TATATTATTCAATTATA-ATTATCTTTTATTT
* *
1161648 TATATTATTCACTTTTAATTATCTTTTA
1 TATATTATTCAATTATAATTATCTTTTA
1161676 AATTATCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 17 0.71
32 7 0.29
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (31 bp):
TATATTATTCAATTATAATTATCTTTTATTT
Found at i:1161653 original size:17 final size:17
Alignment explanation
Indices: 1161601--1161656 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
1161591 CTTGCGTTAA
**
1161601 TATTTTTAAAATTATAT
1 TATTTTTAATTTTATAT
*
1161618 ATATTTTTAATTATATAT
1 -TATTTTTAATTTTATAT
1161636 TATCTTTT-ATTTTATAT
1 TAT-TTTTAATTTTATAT
1161653 TATT
1 TATT
1161657 CACTTTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 1 0.03
17 14 0.42
18 18 0.55
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTTTTAATTTTATAT
Found at i:1164170 original size:21 final size:20
Alignment explanation
Indices: 1164144--1164217 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 20
1164134 AATTTAATAA
1164144 TATTAAATTAATT-AATAAAAT
1 TATTAAATT--TTAAATAAAAT
1164165 TATTAAAATTTTAAATAAAAT
1 TATT-AAATTTTAAATAAAAT
*
1164186 TATATAAA-TTTAAAT-ATAT
1 TAT-TAAATTTTAAATAAAAT
*
1164205 TATTATATTTTAA
1 TATTAAATTTTAA
1164218 TAACTTTTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.06
19 11 0.23
20 9 0.19
21 18 0.38
22 6 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTAAATTTTAAATAAAAT
Found at i:1164201 original size:20 final size:19
Alignment explanation
Indices: 1164125--1164198 Score: 71
Period size: 21 Copynumber: 3.8 Consensus size: 19
1164115 CGATTGAGTT
*
1164125 ATTATCATAAATTTAATAAT
1 ATTAT-ATAAATTTAATAAA
* *
1164145 ATTAAATTAA-TTAATAAA
1 ATTATATAAATTTAATAAA
1164163 ATTAT-TAAAATTTTAAATAAA
1 ATTATAT-AAA-TTT-AATAAA
1164184 ATTATATAAATTTAA
1 ATTATATAAATTTAA
1164199 ATATATTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
17 1 0.02
18 13 0.30
19 6 0.14
20 9 0.20
21 14 0.32
22 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTATATAAATTTAATAAA
Found at i:1164211 original size:20 final size:22
Alignment explanation
Indices: 1164157--1164211 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 22
1164147 TAAATTAATT
1164157 AATAAAATTATTA-AAATTTTA
1 AATAAAATTATTATAAATTTTA
1164178 AATAAAATTA-TATAAA-TTTA
1 AATAAAATTATTATAAATTTTA
*
1164198 AAT-ATATTATTATA
1 AATAAAATTATTATA
1164212 TTTTAATAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 5 0.16
20 13 0.42
21 13 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AATAAAATTATTATAAATTTTA
Found at i:1164511 original size:13 final size:11
Alignment explanation
Indices: 1164469--1164514 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
1164459 TAATAATATT
*
1164469 ATATAATATAA
1 ATATAATTTAA
1164480 A-A-AATTTAA
1 ATATAATTTAA
1164489 ATATAATTTAA
1 ATATAATTTAA
*
1164500 ATATATATTTTA
1 ATATA-ATTTAA
1164512 ATA
1 ATA
1164515 CATTAACTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 7 0.23
10 2 0.07
11 13 0.43
12 8 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
ATATAATTTAA
Found at i:1164823 original size:22 final size:22
Alignment explanation
Indices: 1164789--1164837 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
1164779 TATTATATTT
* *
1164789 TTATATTTGTATAATA-TTTATA
1 TTATTTTTATATAATATTTTA-A
1164811 TTATTTTTATATAATATTTTAA
1 TTATTTTTATATAATATTTTAA
1164833 TTATT
1 TTATT
1164838 ATATTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TTATTTTTATATAATATTTTAA
Found at i:1164868 original size:19 final size:18
Alignment explanation
Indices: 1164820--1164874 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 18
1164810 ATTATTTTTA
*
1164820 TATAATAT-TTTAATTAT
1 TATAATATATTTAATAAT
*
1164837 TAT-ATTTATTTTATATAAT
1 TATAATATA-TTTA-ATAAT
*
1164856 TATAATATATTTAAAAAT
1 TATAATATATTTAATAAT
1164874 T
1 T
1164875 TAAAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.10
17 3 0.10
18 9 0.30
19 11 0.37
20 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATAATATATTTAATAAT
Found at i:1173440 original size:33 final size:33
Alignment explanation
Indices: 1173398--1173466 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
1173388 AACTACTGTG
1173398 TAAATGGAAGCTAAAGAATCTAAGATTTAGGTT
1 TAAATGGAAGCTAAAGAATCTAAGATTTAGGTT
*
1173431 TAAATGGAAGCTAAAGATTCTAAGATTTAGGTT
1 TAAATGGAAGCTAAAGAATCTAAGATTTAGGTT
1173464 TAA
1 TAA
1173467 CAGGACATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (33 bp):
TAAATGGAAGCTAAAGAATCTAAGATTTAGGTT
Found at i:1174667 original size:21 final size:21
Alignment explanation
Indices: 1174641--1174681 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1174631 TAGTACAAGT
1174641 GCTGAGCACATGGCTTTCTTA
1 GCTGAGCACATGGCTTTCTTA
1174662 GCTGAGCACATGGCTTTCTT
1 GCTGAGCACATGGCTTTCTT
1174682 TAGTTGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.34
Consensus pattern (21 bp):
GCTGAGCACATGGCTTTCTTA
Found at i:1175974 original size:2 final size:2
Alignment explanation
Indices: 1175967--1175992 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1175957 TCATGAAACC
1175967 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1175993 CATAAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1177025 original size:17 final size:18
Alignment explanation
Indices: 1177003--1177039 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
1176993 CATATATTTT
1177003 TAAAAT-ATTTTTAAAAA
1 TAAAATAATTTTTAAAAA
1177020 TAAAATCAATTTTTAAAAA
1 TAAAAT-AATTTTTAAAAA
1177039 T
1 T
1177040 TTTTTAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAATAATTTTTAAAAA
Found at i:1177062 original size:29 final size:30
Alignment explanation
Indices: 1176998--1177062 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
1176988 AGTCACATAT
*
1176998 ATTTTTAAAATATTTTTAAAAATAAAATCA
1 ATTTTAAAAATATTTTTAAAAATAAAATCA
1177028 ATTTTTAAAAAT-TTTTTAACATAA-AAAAT-A
1 A-TTTTAAAAATATTTTTAA-A-AATAAAATCA
1177058 ATTTT
1 ATTTT
1177063 TTTCGACAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
29 4 0.13
30 10 0.32
31 15 0.48
32 2 0.06
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (30 bp):
ATTTTAAAAATATTTTTAAAAATAAAATCA
Found at i:1177063 original size:30 final size:30
Alignment explanation
Indices: 1176998--1177053 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 30
1176988 AGTCACATAT
1176998 ATTTTTAAAATATTTTTAAAAATAAAATCA
1 ATTTTTAAAATATTTTTAAAAATAAAATCA
* *
1177028 ATTTTTAAAA-ATTTTTTAACATAAAA
1 ATTTTTAAAATATTTTTAAAAATAAAA
1177054 AATAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (30 bp):
ATTTTTAAAATATTTTTAAAAATAAAATCA
Found at i:1177203 original size:2 final size:2
Alignment explanation
Indices: 1177161--1177185 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1177151 AATTTCATTC
1177161 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1177186 GAAGTGCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1177543 original size:22 final size:22
Alignment explanation
Indices: 1177502--1177543 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1177492 AAATAATGTT
*
1177502 ATTAAATTTTTATTATTAATAA
1 ATTAAATTTTTATTACTAATAA
1177524 ATTAAATTATTTA-TACTAAT
1 ATTAAATT-TTTATTACTAAT
1177544 TTTGTCAAGT
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:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTAAATTTTTATTACTAATAA
Found at i:1178252 original size:20 final size:20
Alignment explanation
Indices: 1178227--1178264 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1178217 TTATTAATTT
1178227 TTAAAAAATATTTA-ATTACG
1 TTAAAAAA-ATTTATATTACG
1178247 TTAAAAAAATTTATATTA
1 TTAAAAAAATTTATATTA
1178265 ATAAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
TTAAAAAAATTTATATTACG
Found at i:1178310 original size:13 final size:13
Alignment explanation
Indices: 1178292--1178316 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1178282 TTATTTTTTA
1178292 AAATAAAAAATGT
1 AAATAAAAAATGT
1178305 AAATAAAAAATG
1 AAATAAAAAATG
1178317 AAAAGAGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (13 bp):
AAATAAAAAATGT
Found at i:1178400 original size:125 final size:122
Alignment explanation
Indices: 1178236--1178538 Score: 339
Period size: 127 Copynumber: 2.4 Consensus size: 122
1178226 TTTAAAAAAT
* * *
1178236 ATTTAATTACG-TTAAAAAAATTTATATTAATAAATTAAAATATTAATTATT-TTTTAAAATAAA
1 ATTTAATTAAGTTTAAAAAAA-TTACATTAACAAATTAAAATATTAATTATTGTTTT--AAT-AA
* * *
1178299 AAATGTAAATAA-AAAATGAA-AA-GAGT-TTATTATTATTATTTTTTAATAAAATTAAAAATAA
62 AAAT-TAAAAAATAAAAT-AAGAAGGA-TATT-TTATTA-TAATTTTTAATAAAATAAAAAATAA
1178360 G
122 G
* *
1178361 ATTTAATTAAGTTTAAAAAAATTACATTAACAAACTAAAATATTAATTATCATGTTTTTATAAAA
1 ATTTAATTAAGTTTAAAAAAATTACATTAACAAATTAAAATATTAATTAT--TGTTTTAATAAAA
*
1178426 ATTAAAAAATTTTAAAATAAGAAGGATATTTTATTATAATTTTTAATAAAATAAAAAATAAT
64 ATTAAAAAA---TAAAATAAGAAGGATATTTTATTATAATTTTTAATAAAATAAAAAATAAG
* *
1178488 ATTTAATTAAATTTAAAAAATTTACATTAACAAATTAAAATATTAATTATT
1 ATTTAATTAAGTTTAAAAAAATTACATTAACAAATTAAAATATTAATTATT
1178539 ATGTTTTTAA
Statistics
Matches: 155, Mismatches: 12, Indels: 22
0.82 0.06 0.12
Matches are distributed among these distances:
124 6 0.04
125 43 0.28
126 11 0.07
127 73 0.47
128 18 0.12
129 4 0.03
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (122 bp):
ATTTAATTAAGTTTAAAAAAATTACATTAACAAATTAAAATATTAATTATTGTTTTAATAAAAAT
TAAAAAATAAAATAAGAAGGATATTTTATTATAATTTTTAATAAAATAAAAAATAAG
Found at i:1178492 original size:22 final size:24
Alignment explanation
Indices: 1178461--1178508 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
1178451 ATATTTTATT
*
1178461 ATAATTTTTAA-TAAA-ATAAAAA
1 ATAATATTTAATTAAATATAAAAA
*
1178483 ATAATATTTAATTAAATTTAAAAA
1 ATAATATTTAATTAAATATAAAAA
1178507 AT
1 AT
1178509 TTACATTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
23 4 0.18
24 8 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAATATTTAATTAAATATAAAAA
Found at i:1178945 original size:103 final size:104
Alignment explanation
Indices: 1178815--1179126 Score: 384
Period size: 103 Copynumber: 2.9 Consensus size: 104
1178805 TAAATTTAAT
* *
1178815 TTTTTTA-TTTTA-AAAATCATAATAATTAATATTTTAATTAGTTAATGTAAATTTTTTAAACTT
1 TTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAATTTTTTAAACTT
*
1178878 AATTAAATATTATTTTATTAAAAATTATAATAAAAAACC
66 AATTAAATATTATTTTATTAAAAATAATAATAAAAAACC
*
1178917 -TTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGT-AATTTTTTAAATTT
1 TTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAATTTTTTAAACTT
*
1178980 AATTAAATATTATTTTTAATTTTATTAAAAAATAATAATAATAAACC
66 AATT-AA-A-TA---TT-ATTTTATT-AAAAATAATAATAAAAAACC
** *
1179027 TTTTTTATTTTTTATTTTGAAA-A-AATACTTAATATTTTAATTTGTTAATGTAAATTTTTTTAA
1 TTTTTTA-TTTTTA--TAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAA-TTTTTTAA
1179090 ACTTAATTAAATATTATTTTTTATTAAAAATAATAAT
62 ACTTAATTAAATATTA--TTTTATTAAAAATAATAAT
1179127 TAATACATTA
Statistics
Matches: 183, Mismatches: 9, Indels: 30
0.82 0.04 0.14
Matches are distributed among these distances:
101 6 0.03
102 22 0.12
103 36 0.20
104 1 0.01
105 2 0.01
107 1 0.01
108 16 0.09
109 15 0.08
110 18 0.10
111 8 0.04
112 34 0.19
113 5 0.03
114 19 0.10
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (104 bp):
TTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAATTTTTTAAACTT
AATTAAATATTATTTTATTAAAAATAATAATAAAAAACC
Found at i:1179131 original size:112 final size:108
Alignment explanation
Indices: 1178816--1179131 Score: 393
Period size: 112 Copynumber: 2.9 Consensus size: 108
1178806 AAATTTAATT
* *
1178816 TTTTTA-TTTTA-AAAATCATAATAATTAATATTTTAATTAGTTAATGTAAATTTTTTAAACTTA
1 TTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAATTTTTTAAACTTA
1178879 ATTAAATATTA--TTTTATTAAAAAT--T-ATAATAAAAAACC
66 ATTAAATATTATTTTTTATTAAAAATAATAATAATAAAAAACC
*
1178917 TTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGT-AATTTTTTAAATTTA
1 TTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAATTTTTTAAACTTA
* *
1178981 ATTAAATATTATTTTTAATTTTATTAAAA-AATAATAATAATAAACC
66 ATTAAATATTATTTTT--TATTA--AAAATAATAATAATAAAAAACC
** *
1179027 TTTTTTATTTTTTATTTTGAAA-A-AATACTTAATATTTTAATTTGTTAATGTAAATTTTTTTAA
1 -TTTTTA-TTTTTA--TAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAA-TTTTTTAA
1179090 ACTTAATTAAATATTATTTTTTATTAAAAATAATAATTAATA
61 ACTTAATTAAATATTATTTTTTATTAAAAATAATAA-TAATA
1179132 CATTATTATT
Statistics
Matches: 186, Mismatches: 10, Indels: 27
0.83 0.04 0.12
Matches are distributed among these distances:
101 6 0.03
102 30 0.16
103 34 0.18
104 3 0.02
106 4 0.02
108 4 0.02
109 1 0.01
110 16 0.09
111 11 0.06
112 42 0.23
113 3 0.02
114 32 0.17
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (108 bp):
TTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAATTTTTTAAACTTA
ATTAAATATTATTTTTTATTAAAAATAATAATAATAAAAAACC
Found at i:1179144 original size:31 final size:30
Alignment explanation
Indices: 1179093--1179151 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
1179083 TTTTTAAACT
* * *
1179093 TAATTAAATATTATTTTTTATTAAAAATAA
1 TAATTAAACATTATTATTTATAAAAAATAA
1179123 TAATTAATACATTATTATTTATAAAAAAT
1 TAATTAA-ACATTATTATTTATAAAAAAT
1179152 TTTTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
TAATTAAACATTATTATTTATAAAAAATAA
Found at i:1179605 original size:2 final size:2
Alignment explanation
Indices: 1179600--1179757 Score: 78
Period size: 2 Copynumber: 85.0 Consensus size: 2
1179590 TTTTATATTC
* * *
1179600 TA TA TA TA TA TA TA TA TA T- TG TA T- TA TA TG T- TG 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
* * **
1179638 TA TA TA TA T- TA TA TA T- TA -A TA TA AA TA TA TA TGA -A CA GC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* *
1179677 TA AA TA GTA TA -A TA -A TA TA TA -A TG TA TA -A TA TA -A TA -A
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1179714 TA TA TA GTA TA TA GTA TA TA TA TT TA TA TA -A TA TA -A TA TA TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1179756 TA
1 TA
1179758 ACATATAATA
Statistics
Matches: 121, Mismatches: 15, Indels: 40
0.69 0.09 0.23
Matches are distributed among these distances:
1 16 0.13
2 98 0.81
3 7 0.06
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1179650 original size:14 final size:14
Alignment explanation
Indices: 1179592--1179651 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
1179582 AGTCTTTTTT
*
1179592 TTATATTCTATATA
1 TTATATTATATATA
1179606 -TATA-TATATATA
1 TTATATTATATATA
* *
1179618 TTGTATTATATGT-
1 TTATATTATATATA
1179631 TGTATATTATATATA
1 T-TATATTATATATA
1179646 TTATAT
1 TTATAT
1179652 ATTAATATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
12 7 0.19
13 8 0.22
14 21 0.57
15 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (14 bp):
TTATATTATATATA
Found at i:1179704 original size:7 final size:7
Alignment explanation
Indices: 1179688--1179768 Score: 74
Period size: 7 Copynumber: 11.0 Consensus size: 7
1179678 AAATAGTATA
1179688 ATAATAT
1 ATAATAT
*
1179695 ATAATGT
1 ATAATAT
1179702 ATAATAT
1 ATAATAT
1179709 AATAATAT
1 -ATAATAT
*
1179717 ATAGTAT
1 ATAATAT
1179724 ATAGTATAT
1 ATA--ATAT
*
1179733 ATATTTAT
1 ATA-ATAT
1179741 ATAATAT
1 ATAATAT
1179748 A-ATATAT
1 ATA-ATAT
*
1179755 ATAACAT
1 ATAATAT
1179762 ATAATAT
1 ATAATAT
1179769 TTTGTTTATT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
6 1 0.02
7 39 0.64
8 15 0.25
9 6 0.10
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (7 bp):
ATAATAT
Found at i:1179712 original size:22 final size:22
Alignment explanation
Indices: 1179684--1179766 Score: 82
Period size: 22 Copynumber: 3.8 Consensus size: 22
1179674 AGCTAAATAG
1179684 TATA-ATAATATATAATGTATAA
1 TATATATAATATATAAT-TATAA
* *
1179706 TATA-ATAATATATAGTATATAG
1 TATATATAATATATAAT-TATAA
*
1179728 TATATATATTTATATAA-TATAA
1 TATATATA-ATATATAATTATAA
*
1179750 TATATATAACATATAAT
1 TATATATAATATATAAT
1179767 ATTTTGTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
21 6 0.12
22 35 0.70
23 3 0.06
24 6 0.12
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (22 bp):
TATATATAATATATAATTATAA
Found at i:1183464 original size:89 final size:89
Alignment explanation
Indices: 1183249--1183735 Score: 685
Period size: 89 Copynumber: 5.5 Consensus size: 89
1183239 CATTCTGTCA
** * * * *
1183249 TATATTAGTCAAATATTTTTCGT-T-GTGTTGGAAGGAATATGACACCCGCATGCATTTGTCATA
1 TATATTAGTCAAATA-TTTTC-TATCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACA
* *
1183312 TCTTTCGAGTTTCAAGAATTTTA-TT
64 TCTTTTGGGTTTCAAGAATTTTATTT
* * *
1183337 TATATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACTCGCATGCATCTATCACATC
1 TATATTAGTCAAATATTTTCTATCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACATC
*
1183402 TTTCGGGTTTCAAGAATTTTATTT
66 TTTTGGGTTTCAAGAATTTTATTT
*
1183426 TATATTAGTCAAATATTTTCTATCGTGTTAGAAGGAATCTGATACCCGCATGCATCTGTCACATC
1 TATATTAGTCAAATATTTTCTATCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACATC
*
1183491 TTTTGGGTTCCAAGAATTTTATTT
66 TTTTGGGTTTCAAGAATTTTATTT
* * * * * *
1183515 TATATTCGTCAAATATTTTATGTCGTATCAGAAGGAATCTGCTACCCGCATGCATCTGCCACATC
1 TATATTAGTCAAATATTTTCTATCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACATC
*
1183580 TTTTGGGTTTCAAGAATTTTCTTT
66 TTTTGGGTTTCAAGAATTTTATTT
* *
1183604 TATATTAGTCAAATATTTTATATCGTGTCAGAAGGAATCTAATACCCGCATGCATCTGTCACATC
1 TATATTAGTCAAATATTTTCTATCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACATC
*
1183669 TTTTAGG-TTCGAAGAATTTTATTT
66 TTTTGGGTTTC-AAGAATTTTATTT
* *
1183693 TATATTAGTCAAATATTTTCTTTCGTTTCAGAAGGAATCTGAT
1 TATATTAGTCAAATATTTTCTATCGTGTCAGAAGGAATCTGAT
1183736 CTAATAATTT
Statistics
Matches: 358, Mismatches: 37, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
86 1 0.00
87 6 0.02
88 70 0.20
89 281 0.78
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (89 bp):
TATATTAGTCAAATATTTTCTATCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACATC
TTTTGGGTTTCAAGAATTTTATTT
Found at i:1183784 original size:22 final size:22
Alignment explanation
Indices: 1183759--1183812 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
1183749 AATTTTATAT
1183759 AAATAATATTAAAAAAAATAAA
1 AAATAATATTAAAAAAAATAAA
*
1183781 AAATAACT-TTTAAAAAAATAAA
1 AAATAA-TATTAAAAAAAATAAA
*
1183803 TAA-AATATTA
1 AAATAATATTA
1183813 TATGTTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.04
21 4 0.15
22 21 0.78
23 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
AAATAATATTAAAAAAAATAAA
Found at i:1183822 original size:7 final size:7
Alignment explanation
Indices: 1183807--1183927 Score: 109
Period size: 7 Copynumber: 18.6 Consensus size: 7
1183797 AATAAATAAA
1183807 ATATTAT
1 ATATTAT
*
1183814 ATGTTAT
1 ATATTAT
1183821 ATATTAT
1 ATATTAT
1183828 ATATTAT
1 ATATTAT
*
1183835 ATGTTAT
1 ATATTAT
1183842 -TA-TAT
1 ATATTAT
*
1183847 -TATTAA
1 ATATTAT
1183853 ATATTAT
1 ATATTAT
1183860 ATA-TAT
1 ATATTAT
*
1183866 CTATTAT
1 ATATTAT
1183873 ATA-TAT
1 ATATTAT
*
1183879 TTA-TAT
1 ATATTAT
*
1183885 -TAATAT
1 ATATTAT
1183891 ATATTAT
1 ATATTAT
1183898 ATATTAT
1 ATATTAT
1183905 ATATGT-T
1 ATAT-TAT
1183912 ATA-TAT
1 ATATTAT
1183918 ATA-TAT
1 ATATTAT
1183924 ATAT
1 ATAT
1183928 AACATATAAT
Statistics
Matches: 96, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
5 8 0.08
6 29 0.30
7 58 0.60
8 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (7 bp):
ATATTAT
Found at i:1183830 original size:2 final size:2
Alignment explanation
Indices: 1183818--1183928 Score: 86
Period size: 2 Copynumber: 62.0 Consensus size: 2
1183808 TATTATATGT
* *
1183818 TA TA TA T- TA TA TA T- TA TA TG T- TA T- TA TA T- TA T- TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1183854 TA T- TA TA TA TA TC TA T- TA TA TA TA TT TA TA T- TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1183892 TA T- TA TA TA T- TA TA TA TG T- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1183929 ACATATAATG
Statistics
Matches: 88, Mismatches: 8, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
1 13 0.15
2 75 0.85
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:1184900 original size:19 final size:18
Alignment explanation
Indices: 1184878--1184929 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
1184868 TTTATACATT
1184878 AAAAATTAAAAAAAATTA
1 AAAAATTAAAAAAAATTA
* *
1184896 AAAAATTTTAAATAAATTA
1 AAAAA-TTAAAAAAAATTA
*
1184915 AAAACTTAAAAAAAA
1 AAAAATTAAAAAAAA
1184930 AAAACAAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 13 0.46
19 15 0.54
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAATTAAAAAAAATTA
Found at i:1185010 original size:2 final size:2
Alignment explanation
Indices: 1185003--1185136 Score: 107
Period size: 2 Copynumber: 73.0 Consensus size: 2
1184993 TTATACGTTT
*
1185003 TA TA TA TA TA TA TA T- TA TA TG T- TA TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1185042 T- TA TA TA T- TA -A TA TA AA TA TA TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1185080 TA -A TA TA TA AA TCC TA T- TA TA -A TA -A TA TC TA GTA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
1185120 TA -A TA T- TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
1185137 ACATCATAAT
Statistics
Matches: 107, Mismatches: 9, Indels: 32
0.72 0.06 0.22
Matches are distributed among these distances:
1 14 0.13
2 90 0.84
3 3 0.03
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1185027 original size:7 final size:7
Alignment explanation
Indices: 1185002--1185087 Score: 79
Period size: 7 Copynumber: 12.1 Consensus size: 7
1184992 ATTATACGTT
1185002 TTATATA
1 TTATATA
1185009 TATATATA
1 T-TATATA
*
1185017 TTATATG
1 TTATATA
1185024 TTATATA
1 TTATATA
1185031 -TATA-A
1 TTATATA
1185036 -TATATA
1 TTATATA
1185042 TTATATA
1 TTATATA
1185049 TTAATATAA
1 TT-ATAT-A
*
1185058 ATATATA
1 TTATATA
*
1185065 TAATATA
1 TTATATA
1185072 TATATATA
1 T-TATATA
*
1185080 TAATATA
1 TTATATA
1185087 T
1 T
1185088 AAATCCTATT
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
5 5 0.08
6 5 0.08
7 33 0.50
8 21 0.32
9 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (7 bp):
TTATATA
Found at i:1185100 original size:29 final size:28
Alignment explanation
Indices: 1185026--1185130 Score: 51
Period size: 31 Copynumber: 3.6 Consensus size: 28
1185016 ATTATATGTT
*
1185026 ATATATATAATATAT--ATTATA-TATTA
1 ATATATATAATATATAAATAATATTA-TA
*
1185052 ATATAAAT-ATATATAATATATATATATATA
1 ATATATATAATATATAA-ATA-ATAT-TATA
*
1185082 ATATATA-AATCCTATTATAATAATATCTAGT-
1 ATATATATAAT-ATA-TA-AATAATAT-TA-TA
1185113 ATATATATAATATTATAA
1 ATATATATAATA-TATAA
1185131 TATATAACAT
Statistics
Matches: 60, Mismatches: 6, Indels: 22
0.68 0.07 0.25
Matches are distributed among these distances:
25 6 0.10
26 7 0.12
28 2 0.03
29 3 0.05
30 11 0.18
31 19 0.32
32 11 0.18
33 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (28 bp):
ATATATATAATATATAAATAATATTATA
Found at i:1185137 original size:15 final size:16
Alignment explanation
Indices: 1185003--1185137 Score: 127
Period size: 15 Copynumber: 8.4 Consensus size: 16
1184993 TTATACGTTT
*
1185003 TATATATATATATATTA
1 TATATA-ATATATATAA
* *
1185020 TATGTTATATATATAA
1 TATATAATATATATAA
*
1185036 TATATATTATATATTAA
1 TATATAATATATA-TAA
1185053 TATA-AATATATATAA
1 TATATAATATATATAA
1185068 TATAT-ATATATATAA
1 TATATAATATATATAA
* *
1185083 TATATAA-ATCCTATTA
1 TATATAATAT-ATATAA
*
1185099 TA-ATAATATCTAGTATA
1 TATATAATATATA-TA-A
1185116 TATATAATAT-TATAA
1 TATATAATATATATAA
1185131 TATATAA
1 TATATAA
1185138 CATCATAATA
Statistics
Matches: 100, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
15 39 0.39
16 38 0.38
17 16 0.16
18 7 0.07
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (16 bp):
TATATAATATATATAA
Found at i:1185368 original size:89 final size:89
Alignment explanation
Indices: 1185216--1185785 Score: 722
Period size: 89 Copynumber: 6.4 Consensus size: 89
1185206 TCTATAAATT
* * *
1185216 GATTCCTTCTGACACGATA-AAAATATTTGAATAATATAAAATAAAATTCTTGAAACCCGAAAGA
1 GATTCCTTCTGACACGACAGAAAATATTTGACTAATATAAAATAAAATTCTTGGAACCCGAAAGA
1185280 TGTGACAGATGTATGCAGGTATCA
66 TGTGACAGATGTATGCAGGTATCA
* * *
1185304 GATTCCTTCTGACACGACATAAAATATTTGACTAATATAAAATAAAATTCTTGGAAGCCAAAAGA
1 GATTCCTTCTGACACGACAGAAAATATTTGACTAATATAAAATAAAATTCTTGGAACCCGAAAGA
1185369 TGTGACAGATGTATGCAGGTATCA
66 TGTGACAGATGTATGCAGGTATCA
* * *
1185393 GATTCTTTCTAACACGACAGAAAATATTTGAGTAATATAAAATAAAATTCTTGGAACCCGAAAGA
1 GATTCCTTCTGACACGACAGAAAATATTTGACTAATATAAAATAAAATTCTTGGAACCCGAAAGA
*
1185458 TGTGACAGATGGATGC-GAGTATCA
66 TGTGACAGATGTATGCAG-GTATCA
* * * *
1185482 GATTCCTTCTGACAAGACAAAAAATATTTGACTAATATAAAATAAAATTTTTGAAACCCGAAAGA
1 GATTCCTTCTGACACGACAGAAAATATTTGACTAATATAAAATAAAATTCTTGGAACCCGAAAGA
* * *
1185547 TTTGACAGATGCATGCTGGTATCA
66 TGTGACAGATGTATGCAGGTATCA
* * * * * *
1185571 AATTCTTTCTGACACGATAGAAAATATTTAACTAATATAAAACAAAATTCTTAGAA-CCGAAAAG
1 GATTCCTTCTGACACGACAGAAAATATTTGACTAATATAAAATAAAATTCTTGGAACCCG-AAAG
*
1185635 ATGTGACAGATGCATGC-GGATATCA
65 ATGTGACAGATGTATGCAGG-TATCA
* * * * * *
1185660 GATTCCTTCTGACACGACAAAAAATATTTGGCTAATGCT-TAATAAATTTTTTGGAACCCGAAAG
1 GATTCCTTCTGACACGACAGAAAATATTTGACTAAT-ATAAAATAAAATTCTTGGAACCCGAAAG
*
1185724 ATGTGACAGATGCATATG-A-ATATCA
65 ATGTGACAGATG--TATGCAGGTATCA
* * **
1185749 GATTCCTTTTGGCACGATGGAAAATATTTGACTAATA
1 GATTCCTTCTGACACGACAGAAAATATTTGACTAATA
1185786 ATACGGCAAA
Statistics
Matches: 419, Mismatches: 53, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
88 24 0.06
89 387 0.92
90 5 0.01
91 3 0.01
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (89 bp):
GATTCCTTCTGACACGACAGAAAATATTTGACTAATATAAAATAAAATTCTTGGAACCCGAAAGA
TGTGACAGATGTATGCAGGTATCA
Found at i:1188948 original size:33 final size:33
Alignment explanation
Indices: 1188911--1189010 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
1188901 TTCAACGATT
*** *
1188911 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATATTTTTTTGTATCGATACAA
*
1188944 TGTATCAATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATATTTTTTTGTATCGATACAA
1188977 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATATTTTTTTGTATCGATACAA
1189010 T
1 T
1189011 TTAAGCTACT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATATTTTTTTGTATCGATACAA
Found at i:1188982 original size:13 final size:13
Alignment explanation
Indices: 1188964--1188988 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1188954 CATATTTTTT
1188964 TGTATCGATACAA
1 TGTATCGATACAA
1188977 TGTATCGATACA
1 TGTATCGATACA
1188989 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1189002 original size:20 final size:19
Alignment explanation
Indices: 1188944--1189012 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
1188934 ATCGATACAA
*
1188944 TGTATCAATACATATTTTTT
1 TGTATCGATACA-ATTTTTT
1188964 TGTATCGATACAA------
1 TGTATCGATACAATTTTTT
1188977 TGTATCGATACATATTTTTT
1 TGTATCGATACA-ATTTTTT
1188997 TGTATCGATACAATTT
1 TGTATCGATACAATTT
1189013 AAGCTACTGC
Statistics
Matches: 41, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
13 12 0.29
14 1 0.02
19 5 0.12
20 23 0.56
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (19 bp):
TGTATCGATACAATTTTTT
Found at i:1189069 original size:13 final size:13
Alignment explanation
Indices: 1189051--1189075 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1189041 ATTACTCAAA
1189051 TGTATCGATACAT
1 TGTATCGATACAT
1189064 TGTATCGATACA
1 TGTATCGATACA
1189076 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1189140 original size:52 final size:52
Alignment explanation
Indices: 1189084--1189203 Score: 195
Period size: 52 Copynumber: 2.3 Consensus size: 52
1189074 CACTGATCTT
* *
1189084 TGTATCGATACATGTAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1189136 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1189188 TGTTTCGATACATGCA
1 TGTATCGATACATGCA
1189204 AGCAACTTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1192872 original size:22 final size:22
Alignment explanation
Indices: 1192847--1192895 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
1192837 AATTTTATAT
1192847 AAATAATATTAAAAAAATAAA-A
1 AAATAATATT-AAAAAATAAACA
** *
1192869 AAATCTTCTTAAAAAATAAACA
1 AAATAATATTAAAAAATAAACA
1192891 AAATA
1 AAATA
1192896 TTATATGTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAATATTAAAAAATAAACA
Found at i:1192911 original size:2 final size:2
Alignment explanation
Indices: 1192904--1193027 Score: 92
Period size: 2 Copynumber: 67.0 Consensus size: 2
1192894 TATTATATGT
* * *
1192904 TA TA TA TA T- TT TA TG TA TA TA T- TA TA T- TT TA TA TA TA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* *
1192944 TA TA TA T- TA T- TA TA T- TA T- TA TA TA TA TA -A CTG TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
*
1192982 TA TA -A TA TA TA TA -A CA TA TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1193021 TA -A TA TA
1 TA TA TA TA
1193028 AAAAAAATTA
Statistics
Matches: 100, Mismatches: 8, Indels: 28
0.74 0.06 0.21
Matches are distributed among these distances:
1 12 0.12
2 86 0.86
3 2 0.02
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1192929 original size:18 final size:18
Alignment explanation
Indices: 1192893--1192957 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
1192883 AATAAACAAA
*
1192893 ATATTATATGT-TA-TAT
1 ATATTTTATGTATACTAT
1192909 ATATTTTATGTATA-TATT
1 ATATTTTATGTATACTA-T
*
1192927 ATATTTTATATATACTAT
1 ATATTTTATGTATACTAT
*
1192945 ATATATTAT-TATA
1 ATATTTTATGTATA
1192958 TTATTATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
16 10 0.23
17 8 0.19
18 23 0.53
19 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (18 bp):
ATATTTTATGTATACTAT
Found at i:1192935 original size:7 final size:7
Alignment explanation
Indices: 1192893--1193027 Score: 68
Period size: 7 Copynumber: 19.4 Consensus size: 7
1192883 AATAAACAAA
1192893 ATATTAT
1 ATATTAT
*
1192900 ATGTTAT
1 ATATTAT
1192907 ATA-TATT
1 ATATTA-T
*
1192914 TTATGTAT
1 ATAT-TAT
1192922 ATATTAT
1 ATATTAT
*
1192929 ATTTTAT
1 ATATTAT
1192936 ATA-TACT
1 ATATTA-T
1192943 ATA-TAT
1 ATATTAT
1192949 ATTATTAT
1 A-TATTAT
1192957 ATTATTAT
1 A-TATTAT
1192965 ATA-TAT
1 ATATTAT
* *
1192971 A-ACTGT
1 ATATTAT
*
1192977 TTA-TAT
1 ATATTAT
*
1192983 ATAATAT
1 ATATTAT
* *
1192990 ATATAAC
1 ATATTAT
*
1192997 ATATAAT
1 ATATTAT
1193004 ATA-TAT
1 ATATTAT
1193010 ATATATAT
1 ATAT-TAT
*
1193018 ATATAAT
1 ATATTAT
1193025 ATA
1 ATA
1193028 AAAAAAATTA
Statistics
Matches: 101, Mismatches: 16, Indels: 22
0.73 0.12 0.16
Matches are distributed among these distances:
5 1 0.01
6 21 0.21
7 54 0.53
8 23 0.23
9 2 0.02
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (7 bp):
ATATTAT
Found at i:1192935 original size:29 final size:29
Alignment explanation
Indices: 1192893--1193021 Score: 107
Period size: 29 Copynumber: 4.3 Consensus size: 29
1192883 AATAAACAAA
* * *
1192893 ATATTATATGTTATATATATTTTATGTAT
1 ATATTATATTTTATATATATTATATATAT
*
1192922 ATATTATATTTTATATATACTATATATAT
1 ATATTATATTTTATATATATTATATATAT
* *
1192951 -TATTATATTATTATATATATAACTGTTTATAT
1 ATATTATATT-TTATATATAT---TATATATAT
* * * * *
1192983 ATAATATATATAACATATAATATATATAT
1 ATATTATATTTTATATATATTATATATAT
1193012 ATATATATAT
1 ATAT-TATAT
1193022 AATATAAAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
28 9 0.11
29 44 0.56
30 5 0.06
32 14 0.18
33 7 0.09
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (29 bp):
ATATTATATTTTATATATATTATATATAT
Found at i:1192968 original size:45 final size:46
Alignment explanation
Indices: 1192892--1193021 Score: 99
Period size: 45 Copynumber: 2.8 Consensus size: 46
1192882 AAATAAACAA
* * *
1192892 AATATTATATGTTATATATATT-TTATGTATA-TATTATATTTTATATAT
1 AATA-TATATATTAT-TATATTATTATATATATTA-TAT-GTTTATATAT
*
1192940 ACTATATATATTATTATATTATTATATATA-TA-ACTGTTTATATAT
1 AATATATATATTATTATATTATTATATATATTATA-TGTTTATATAT
** *
1192985 AATATATATAACA-TATAATATATATATATATATATAT
1 AATATATATATTATTATATTAT-TATATATAT-TATAT
1193022 AATATAAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
44 7 0.10
45 28 0.41
46 7 0.10
47 22 0.32
48 4 0.06
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (46 bp):
AATATATATATTATTATATTATTATATATATTATATGTTTATATAT
Found at i:1193112 original size:20 final size:21
Alignment explanation
Indices: 1193087--1193137 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
1193077 TATGAAGAGA
1193087 ACTCGCCCTC-TTATGAGGAC
1 ACTCGCCCTCTTTATGAGGAC
*
1193107 ACTCGCCC-CTTTATGCGGAC
1 ACTCGCCCTCTTTATGAGGAC
*
1193127 ATCTTGCCCTC
1 A-CTCGCCCTC
1193138 ATAAGAGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 18 0.69
21 6 0.23
22 1 0.04
ACGTcount: A:0.16, C:0.39, G:0.18, T:0.27
Consensus pattern (21 bp):
ACTCGCCCTCTTTATGAGGAC
Found at i:1193808 original size:16 final size:16
Alignment explanation
Indices: 1193784--1193817 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1193774 TTTGAGCTTA
1193784 TTCAGATTCGAACCTT
1 TTCAGATTCGAACCTT
* *
1193800 TTCATATTCGAGCCTT
1 TTCAGATTCGAACCTT
1193816 TT
1 TT
1193818 TTAGTTTAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.44
Consensus pattern (16 bp):
TTCAGATTCGAACCTT
Found at i:1194024 original size:20 final size:19
Alignment explanation
Indices: 1193999--1194037 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1193989 TTATTTTTAA
*
1193999 TATATTTATTTATTAAAATT
1 TATATTTATAT-TTAAAATT
1194019 TATATTTATATTTAAAATT
1 TATATTTATATTTAAAATT
1194038 AATTTGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATATTTATATTTAAAATT
Found at i:1197400 original size:19 final size:19
Alignment explanation
Indices: 1197376--1197413 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1197366 TTAATATTTA
1197376 TTTTTTGAAATTTGAGTTT
1 TTTTTTGAAATTTGAGTTT
*
1197395 TTTTTTGAATTTTGAGTTT
1 TTTTTTGAAATTTGAGTTT
1197414 AGATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.16, T:0.66
Consensus pattern (19 bp):
TTTTTTGAAATTTGAGTTT
Found at i:1197438 original size:32 final size:31
Alignment explanation
Indices: 1197402--1197483 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 31
1197392 TTTTTTTTTG
*
1197402 AATTTTGAGTTTAGATTTTTTAAAGTTTAAAT
1 AATTTTGAATTTAGATTTTTTAAA-TTTAAAT
* *
1197434 AATTTTAGATTTTA-ATTTTTTTAAATTTAAGT
1 AATTTT-GAATTTAGA-TTTTTTAAATTTAAAT
* *
1197466 TATTTTAAATTTAGATTT
1 AATTTTGAATTTAGATTT
1197484 AAGTATATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
31 8 0.19
32 19 0.45
33 15 0.36
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (31 bp):
AATTTTGAATTTAGATTTTTTAAATTTAAAT
Found at i:1197462 original size:15 final size:15
Alignment explanation
Indices: 1197444--1197483 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
1197434 AATTTTAGAT
1197444 TTTAATTTTTTTAAA
1 TTTAATTTTTTTAAA
*
1197459 TTTAAGTTATTTTAAA
1 TTTAA-TTTTTTTAAA
1197475 TTTAGATTT
1 TTTA-ATTT
1197484 AAGTATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 5 0.24
16 15 0.71
17 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (15 bp):
TTTAATTTTTTTAAA
Found at i:1197478 original size:22 final size:23
Alignment explanation
Indices: 1197453--1197503 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
1197443 TTTTAATTTT
1197453 TTTAAATTTAAGT-TATTTTAAA
1 TTTAAATTTAAGTATATTTTAAA
* *
1197475 TTTAGATTTAAGTATATTTTATA
1 TTTAAATTTAAGTATATTTTAAA
1197498 TTTAAA
1 TTTAAA
1197504 AATAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (23 bp):
TTTAAATTTAAGTATATTTTAAA
Found at i:1201644 original size:33 final size:33
Alignment explanation
Indices: 1201607--1201676 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1201597 TTCAACGATT
1201607 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1201640 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1201673 TGTA
1 TGTA
1201677 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1201645 original size:13 final size:13
Alignment explanation
Indices: 1201627--1201651 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1201617 CATAAAATGT
1201627 TGTATCGATACAA
1 TGTATCGATACAA
1201640 TGTATCGATACA
1 TGTATCGATACA
1201652 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1201734 original size:13 final size:13
Alignment explanation
Indices: 1201716--1201740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1201706 ATTACTCACA
1201716 TGTATCGATACAT
1 TGTATCGATACAT
1201729 TGTATCGATACA
1 TGTATCGATACA
1201741 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1201805 original size:52 final size:52
Alignment explanation
Indices: 1201749--1201873 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
1201739 CACTGATCTT
*
1201749 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1201801 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1201853 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1201874 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1206054 original size:247 final size:247
Alignment explanation
Indices: 1205618--1206115 Score: 969
Period size: 247 Copynumber: 2.0 Consensus size: 247
1205608 AGTTTCATAA
*
1205618 TGATATTGGGCACACCACTAAGGAGTGCGTTAGCTTGAAGAACACCATAAAGGCATCGATTAGAA
1 TGATATTGGGCACACCACCAAGGAGTGCGTTAGCTTGAAGAACACCATAAAGGCATCGATTAGAA
1205683 ATGGAGAAATAAGGCAGTTTGTAAAGAAATAAGGTAAAAGATCTGAAGTACCATCATTCCCAGCT
66 ATGGAGAAATAAGGCAGTTTGTAAAGAAATAAGGTAAAAGATCTGAAGTACCATCATTCCCAGCT
*
1205748 AGGCAACTAGACAAAGCAGCAGGAAAGTTCCCAGTAATTGGCACCATCAATGTTATAGTAGGTGC
131 AGGCAACTAGACAAAGCAGCAGGAAAATTCCCAGTAATTGGCACCATCAATGTTATAGTAGGTGC
*
1205813 AATAGAGTGTGGGCGACCAATAGGTCCAAGAGAAAATCCCACCTACGCAGCG
196 AATAGAGTGTGGACGACCAATAGGTCCAAGAGAAAATCCCACCTACGCAGCG
1205865 TGATATTGGGCACACCACCAAGGAGTGCGTTAGCTTGAAGAACACCATAAAGGCATCGATTAGAA
1 TGATATTGGGCACACCACCAAGGAGTGCGTTAGCTTGAAGAACACCATAAAGGCATCGATTAGAA
1205930 ATGGAGAAATAAGGCAGTTTGTAAAGAAATAAGGTAAAAGATCTGAAGTACCATCATTCCCAGCT
66 ATGGAGAAATAAGGCAGTTTGTAAAGAAATAAGGTAAAAGATCTGAAGTACCATCATTCCCAGCT
1205995 AGGCAACTAGACAAAGCAGCAGGAAAATTCCCAGTAATTGGCACCATCAATGTTATAGTAGGTGC
131 AGGCAACTAGACAAAGCAGCAGGAAAATTCCCAGTAATTGGCACCATCAATGTTATAGTAGGTGC
1206060 AATAGAGTGTGGACGACCAATAGGTCCAAGAGAAAATCCCACCTACGCAGCG
196 AATAGAGTGTGGACGACCAATAGGTCCAAGAGAAAATCCCACCTACGCAGCG
1206112 TGAT
1 TGAT
1206116 TGCAGTAGAT
Statistics
Matches: 248, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
247 248 1.00
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (247 bp):
TGATATTGGGCACACCACCAAGGAGTGCGTTAGCTTGAAGAACACCATAAAGGCATCGATTAGAA
ATGGAGAAATAAGGCAGTTTGTAAAGAAATAAGGTAAAAGATCTGAAGTACCATCATTCCCAGCT
AGGCAACTAGACAAAGCAGCAGGAAAATTCCCAGTAATTGGCACCATCAATGTTATAGTAGGTGC
AATAGAGTGTGGACGACCAATAGGTCCAAGAGAAAATCCCACCTACGCAGCG
Found at i:1209682 original size:55 final size:53
Alignment explanation
Indices: 1209552--1209674 Score: 149
Period size: 55 Copynumber: 2.2 Consensus size: 53
1209542 ATCATTGCAA
* *
1209552 CACTAAGTGATACCAAGTCACTCTAAATCTGATCACCACCATGGCATCATAGT
1 CACTAAGTGACACCAAGTCACTCTAAATCTGATCACCACCATGGCATCATAGC
* * *
1209605 AACATAAAGTGACACCAAGTCACTCTAAATCTTATCACCACTGA-GGCATCATCATGC
1 CAC-T-AAGTGACACCAAGTCACTCTAAATCTGATCACCAC-CATGGCATCAT-A-GC
1209662 CACTAAGTGACAC
1 CACTAAGTGACAC
1209675 TGAGTCACCC
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
53 2 0.03
54 1 0.02
55 50 0.85
56 3 0.05
57 3 0.05
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (53 bp):
CACTAAGTGACACCAAGTCACTCTAAATCTGATCACCACCATGGCATCATAGC
Found at i:1209701 original size:55 final size:55
Alignment explanation
Indices: 1209611--1209766 Score: 147
Period size: 55 Copynumber: 2.8 Consensus size: 55
1209601 TAGTAACATA
* * * ** * *
1209611 AAGTGACACCAAGTCACTCTAAATCTTATCACCACTGAGGCATCATCA-TGCCAC
1 AAGTGACACCTAGTCACTCCAAACCTGGTCGCCACTAAGGCATCATCACTGCCAC
* * **
1209665 TAAGTGACA-CTGAGTCAC-CCTAGACCTGGTCGCCACTAAGGCATTATCACTGCTTC
1 -AAGTGACACCT-AGTCACTCC-AAACCTGGTCGCCACTAAGGCATCATCACTGCCAC
* *
1209721 AAGTGACACCTAGTCACTCCAAACTTGGTCGCCACCAAGGCATCAT
1 AAGTGACACCTAGTCACTCCAAACCTGGTCGCCACTAAGGCATCAT
1209767 TACAACTTTG
Statistics
Matches: 81, Mismatches: 15, Indels: 10
0.76 0.14 0.09
Matches are distributed among these distances:
54 2 0.02
55 71 0.88
56 8 0.10
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (55 bp):
AAGTGACACCTAGTCACTCCAAACCTGGTCGCCACTAAGGCATCATCACTGCCAC
Found at i:1210038 original size:15 final size:16
Alignment explanation
Indices: 1210020--1210067 Score: 66
Period size: 15 Copynumber: 3.2 Consensus size: 16
1210010 TTTATTCATT
*
1210020 AAAAG-GTTATGTCCA
1 AAAAGAGTTATGTACA
1210035 AAAAGAGTT-TGTACA
1 AAAAGAGTTATGTACA
1210050 AAAAGAGTTAT-TACA
1 AAAAGAGTTATGTACA
1210065 AAA
1 AAA
1210068 CATACCTACG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 26 0.87
16 4 0.13
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.25
Consensus pattern (16 bp):
AAAAGAGTTATGTACA
Found at i:1213950 original size:21 final size:21
Alignment explanation
Indices: 1213926--1213966 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1213916 TGAAGGAGAT
*
1213926 GAAAAT-AAATCGAAGAAAATA
1 GAAAATGAAAT-GAAAAAAATA
1213947 GAAAATGAAATGAAAAAAAT
1 GAAAATGAAATGAAAAAAAT
1213967 GAATTTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.68, C:0.02, G:0.15, T:0.15
Consensus pattern (21 bp):
GAAAATGAAATGAAAAAAATA
Found at i:1214533 original size:69 final size:69
Alignment explanation
Indices: 1214422--1214559 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
1214412 AGCATATGAT
1214422 GGCTATGGTGTATTTCTTTGCCTAATGTAATAGAATTAGTTAGGATGAAACCAAATTAGTTGGGA
1 GGCTATGGTGTATTTCTTTGCCTAATGTAATAGAATTAGTTAGGATGAAACCAAATTAGTTGGGA
1214487 ATAC
66 ATAC
1214491 GGCTATGGTGTATTTCTTTGCCTAATGTAATAGAATTAGTTAGGATGAAACCAAATTAGTTGGGA
1 GGCTATGGTGTATTTCTTTGCCTAATGTAATAGAATTAGTTAGGATGAAACCAAATTAGTTGGGA
1214556 ATAC
66 ATAC
1214560 AATTTAATTT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (69 bp):
GGCTATGGTGTATTTCTTTGCCTAATGTAATAGAATTAGTTAGGATGAAACCAAATTAGTTGGGA
ATAC
Found at i:1216514 original size:16 final size:16
Alignment explanation
Indices: 1216493--1216532 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
1216483 ATTAGTTGAT
1216493 TAATAATTTATAA-ATA
1 TAATAATTT-TAATATA
*
1216509 TAATAATTTTAATATG
1 TAATAATTTTAATATA
1216525 TAATAATT
1 TAATAATT
1216533 ACATAAGACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TAATAATTTTAATATA
Found at i:1220946 original size:46 final size:46
Alignment explanation
Indices: 1220879--1220972 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
1220869 TTTTACCAGC
1220879 AAGTTAGGCAGAGATCTAAATCGATCTACGAGTTAATATATAAATT
1 AAGTTAGGCAGAGATCTAAATCGATCTACGAGTTAATATATAAATT
1220925 AAGTTAGGCAGAGATCTAAATCGATCTACGAGTTAATATATAAATT
1 AAGTTAGGCAGAGATCTAAATCGATCTACGAGTTAATATATAAATT
1220971 AA
1 AA
1220973 CTCTTTTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.30
Consensus pattern (46 bp):
AAGTTAGGCAGAGATCTAAATCGATCTACGAGTTAATATATAAATT
Found at i:1221111 original size:11 final size:11
Alignment explanation
Indices: 1221080--1221113 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1221070 TTTTAAATAT
1221080 ATAATTTAAAA
1 ATAATTTAAAA
**
1221091 ATAAAATAAAA
1 ATAATTTAAAA
1221102 ATAATTTAAAA
1 ATAATTTAAAA
1221113 A
1 A
1221114 ACAAAATCTT
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAATTTAAAA
Found at i:1221177 original size:23 final size:24
Alignment explanation
Indices: 1221151--1221195 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1221141 GAGTAATCAA
*
1221151 ATATAAAT-TTTAAATTAATTTAT
1 ATATAAATATTTAAATGAATTTAT
*
1221174 ATATTAATATTTAAATGAATTT
1 ATATAAATATTTAAATGAATTT
1221196 TTTTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
ATATAAATATTTAAATGAATTTAT
Found at i:1222945 original size:20 final size:19
Alignment explanation
Indices: 1222907--1223031 Score: 56
Period size: 19 Copynumber: 7.1 Consensus size: 19
1222897 TCACCATATA
1222907 ATTTACATATTTATATTAT
1 ATTTACATATTTATATTAT
* *
1222926 ATTTATATATTT-TATTTT
1 ATTTACATATTTATATTAT
* * *
1222944 ATATAAATTATTT-TAATAT
1 ATTTACA-TATTTATATTAT
* * *
1222963 ATATA-AAATTTTTA-TA-
1 ATTTACATATTTATATTAT
*
1222979 AATTA-ATAATTTATATTAT
1 ATTTACAT-ATTTATATTAT
*
1222998 A-TTA-AT-TTTA-A-AAT
1 ATTTACATATTTATATTAT
*
1223012 ATTTATATATTTATATTAT
1 ATTTACATATTTATATTAT
1223031 A
1 A
1223032 ATATACATTA
Statistics
Matches: 83, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
14 3 0.04
15 4 0.05
16 10 0.12
17 16 0.19
18 21 0.25
19 29 0.35
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTACATATTTATATTAT
Found at i:1222946 original size:14 final size:14
Alignment explanation
Indices: 1222918--1222964 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
1222908 TTTACATATT
*
1222918 TATATTATA-TTTA
1 TATATTTTATTTTA
1222931 TATATTTTATTTTA
1 TATATTTTATTTTA
**
1222945 TATAAATTATTTTAA
1 TATATTTTATTTT-A
1222960 TATAT
1 TATAT
1222965 ATAAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 8 0.29
14 15 0.54
15 5 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATATTTTATTTTA
Found at i:1222999 original size:33 final size:31
Alignment explanation
Indices: 1222939--1223031 Score: 77
Period size: 33 Copynumber: 2.9 Consensus size: 31
1222929 TATATATTTT
1222939 ATTTTATATAAATTAT--TTTA-ATATATATAAA
1 ATTTT-TATAAATTATAATTTATAT-TATAT-AA
*
1222970 ATTTTTATAAATTAATAATTTATATTATATTA
1 ATTTTTATAAATT-ATAATTTATATTATATAA
*
1223002 A-TTTTAAAATATTTATATATTTATATTATA
1 ATTTTTATAA-A-TTATA-ATTTATATTATA
1223032 ATATACATTA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
30 8 0.15
31 14 0.26
32 6 0.11
33 23 0.43
34 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
ATTTTTATAAATTATAATTTATATTATATAA
Found at i:1224605 original size:19 final size:19
Alignment explanation
Indices: 1224504--1224611 Score: 52
Period size: 19 Copynumber: 5.7 Consensus size: 19
1224494 TATATATTTA
*
1224504 TATATATATTTTTAATATAT
1 TATATTTATTTTTAA-ATAT
*
1224524 AATAATTTATTTTATATAA-AT
1 TAT-ATTTATTTT-TA-AATAT
* *
1224545 T-TATTATATTTATACATAT
1 TATATT-TATTTTTAAATAT
1224564 TATA--T-TTTTT--ATAT
1 TATATTTATTTTTAAATAT
*
1224578 TAGGA-TTATTTTTAAATAT
1 TA-TATTTATTTTTAAATAT
1224597 TATATTTATATTTTA
1 TATATTTAT-TTTTA
1224612 TAATCATAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 26
0.66 0.08 0.26
Matches are distributed among these distances:
14 6 0.09
15 1 0.01
16 5 0.07
17 6 0.09
18 2 0.03
19 18 0.27
20 15 0.22
21 10 0.15
22 3 0.04
23 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (19 bp):
TATATTTATTTTTAAATAT
Found at i:1224871 original size:16 final size:15
Alignment explanation
Indices: 1224846--1224875 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1224836 CTATTATGAA
1224846 AATATAATTTTTTTT
1 AATATAATTTTTTTT
1224861 AATATTAATTTTTTT
1 AATA-TAATTTTTTT
1224876 ATTTATAAAA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
AATATAATTTTTTTT
Found at i:1225289 original size:16 final size:16
Alignment explanation
Indices: 1225270--1225338 Score: 56
Period size: 16 Copynumber: 4.6 Consensus size: 16
1225260 GATGCTGAAT
1225270 TTATTTTAAATTTAAA
1 TTATTTTAAATTTAAA
1225286 TTA-TTTAAA--T-AA
1 TTATTTTAAATTTAAA
* *
1225298 TAATTTTTAATTTAAA
1 TTATTTTAAATTTAAA
* * *
1225314 ATATTTAAAATATAAA
1 TTATTTTAAATTTAAA
*
1225330 TAATTTTAA
1 TTATTTTAA
1225339 TTTTTTATTA
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
12 4 0.10
13 6 0.15
15 7 0.18
16 22 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTATTTTAAATTTAAA
Done.