Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008217.1 Hibiscus syriacus cultivar Beakdansim tig00110847_pilon, whole genome shotgun sequence
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: 2417150
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 14
Found at i:1100887 original size:17 final size:18
Alignment explanation
Indices: 1100854--1100889 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1100844 ATATATACGT
*
1100854 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
1100872 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
1100889 A
1 A
1100890 AATATCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:1106914 original size:23 final size:22
Alignment explanation
Indices: 1106862--1106919 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 22
1106852 TTTGGTGCAG
*
1106862 AGGGAATCGA-TCCCCCCTTGA
1 AGGGAACCGATTCCCCCCTTGA
*
1106883 A-GGAACCGATTCCCCCTTTGA
1 AGGGAACCGATTCCCCCCTTGA
1106904 AGGGGAACCGATTCCC
1 A-GGGAACCGATTCCC
1106920 TCCATAGGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 7 0.22
21 12 0.38
23 13 0.41
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.19
Consensus pattern (22 bp):
AGGGAACCGATTCCCCCCTTGA
Found at i:1110593 original size:106 final size:106
Alignment explanation
Indices: 1110426--1110732 Score: 456
Period size: 106 Copynumber: 2.9 Consensus size: 106
1110416 ATACTCCGCC
* * *
1110426 GTGAAGTTGAAATTGGCTCTGGAACTGGAAAATTGTTTGTTGACAGCCAACCGTCCCTTCGTTGT
1 GTGAAGTTGAAATTGGCTCTGAAACTGGAAAATTGTTTGTTGACAACCATCCGTCCCTTCGTTGT
1110491 GAAGTTGAACTTGTGTTGTCCCGAGTCCAACATCCTTCGAT
66 GAAGTTGAACTTGTGTTGTCCCGAGTCCAACATCCTTCGAT
* * *
1110532 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCATCCATCCCTTCGTTGT
1 GTGAAGTTGAAATTGGCTCTGAAACTGGAAAATTGTTTGTTGACAACCATCCGTCCCTTCGTTGT
* *
1110597 GAAGTTGAACTTGTGTTGTCCCGAGTCCAATATCCTTCGCT
66 GAAGTTGAACTTGTGTTGTCCCGAGTCCAACATCCTTCGAT
*
1110638 GTGAAGTTGAAATTGGCTCTGAATGAAACT-GAAAAGTGGTTTGTTGACAACCAGT-CGTCCCTT
1 GTGAAGTTGAAATTGGCTC----TGAAACTGGAAAA-TTGTTTGTTGACAACCA-TCCGTCCCTT
*
1110701 CGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
60 CGTTGTGAAGTTGAACTTGTGTTGTCCCGAGT
1110733 GGTGTGATAT
Statistics
Matches: 182, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
106 117 0.64
109 4 0.02
110 60 0.33
111 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
GTGAAGTTGAAATTGGCTCTGAAACTGGAAAATTGTTTGTTGACAACCATCCGTCCCTTCGTTGT
GAAGTTGAACTTGTGTTGTCCCGAGTCCAACATCCTTCGAT
Found at i:1118689 original size:38 final size:40
Alignment explanation
Indices: 1118620--1118699 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
1118610 GGAATATATA
* *
1118620 TATATATATATACATCAAAATATTAATAAAATAAATAAGC
1 TATATATATATACAACAAAATATTAATAAAATAAAAAAGC
*
1118660 TATATATATATACAAC-AAATATTTA-AAAATAAAAAAGC
1 TATATATATATACAACAAAATATTAATAAAATAAAAAAGC
1118698 TA
1 TA
1118700 CCCTTTCACT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 14 0.38
39 8 0.22
40 15 0.41
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (40 bp):
TATATATATATACAACAAAATATTAATAAAATAAAAAAGC
Found at i:1119118 original size:2 final size:2
Alignment explanation
Indices: 1119111--1119235 Score: 75
Period size: 2 Copynumber: 64.5 Consensus size: 2
1119101 TATTAAAGAA
*
1119111 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT A- AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
1119151 AT AGT AA AA AA AT CAA AT GA- AA AT A- AT TT AA AT AT AT AT AT
1 AT A-T AT AT AT AT -AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
* * *
1119192 AC GT AT A- AT A- AT AA AT A- 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 AT AT AT AT AT AT AT AT
1119231 AT AT A
1 AT AT A
1119236 AAAATATAGT
Statistics
Matches: 97, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
1 7 0.07
2 86 0.89
3 4 0.04
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (2 bp):
AT
Found at i:1119303 original size:90 final size:92
Alignment explanation
Indices: 1119117--1119292 Score: 338
Period size: 90 Copynumber: 1.9 Consensus size: 92
1119107 AGAAATATAT
1119117 ATATATATATATATATATATATATATAATAAAATATAGTAAAAAAATCAAATGAAAATAATTTAA
1 ATATATATATATATATATATATATATAATAAAATATAGTAAAAAAATCAAATGAAAATAATTTAA
1119182 ATATATATATACGTATAATAATAAATA
66 ATATATATATACGTATAATAATAAATA
1119209 ATATATATATATATATATATATATAT-A-AAAATATAGTAAAAAAATCAAATGAAAATAATTTAA
1 ATATATATATATATATATATATATATAATAAAATATAGTAAAAAAATCAAATGAAAATAATTTAA
1119272 ATATATATATACGTATAATAA
66 ATATATATATACGTATAATAA
1119293 ACATGAATAT
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
90 57 0.68
91 1 0.01
92 26 0.31
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (92 bp):
ATATATATATATATATATATATATATAATAAAATATAGTAAAAAAATCAAATGAAAATAATTTAA
ATATATATATACGTATAATAATAAATA
Found at i:1119736 original size:35 final size:35
Alignment explanation
Indices: 1119697--1119763 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
1119687 TAAAAGATCT
* *
1119697 TATTTTAGACTAGTATTTGAGTCCTAATCCAATTC
1 TATTTTAGACTAGTATTTAAGTCATAATCCAATTC
1119732 TATTTTAGACTAGTATTTAAGTCATAATCCAA
1 TATTTTAGACTAGTATTTAAGTCATAATCCAA
1119764 CTCTTCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (35 bp):
TATTTTAGACTAGTATTTAAGTCATAATCCAATTC
Found at i:1127882 original size:36 final size:36
Alignment explanation
Indices: 1127763--1128230 Score: 352
Period size: 36 Copynumber: 12.8 Consensus size: 36
1127753 AATTTAAACG
* * *
1127763 TTTTTTAAAGCATATAATATATAATTTTAAAAA-AA
1 TTTTTGAAAACATATAATATATAGTTTTAAAAACAA
*
1127798 TCCGTTTTTGAAAATATAT-A-ATATAGTTTTGAAAATAC-A
1 ----TTTTTGAAAACATATAATATATAGTTTT-AAAA-ACAA
* * * *
1127837 -TTTTAAAAACGTATAATATATAATTTTAAAATCAA
1 TTTTTGAAAACATATAATATATAGTTTTAAAAACAA
** * *
1127872 TTTTTGAAAACGCATAATATCTAATTTTAAAAACAA
1 TTTTTGAAAACATATAATATATAGTTTTAAAAACAA
* * *
1127908 ATTTTGAAAACATATATTATATAGTTTTGAAAAC-A
1 TTTTTGAAAACATATAATATATAGTTTTAAAAACAA
* * **
1127943 ----T----ATATATTATATAGTAGTTTCGAAAACAA
1 TTTTTGAAAACATATAATATA-TAGTTTTAAAAACAA
* **
1127972 TTTTTGAAAGCATATATATTATATAGTTTCGAAAACACA
1 TTTTTGAAAACATATA-A-TATATAGTTTTAAAAACA-A
* * *
1128011 TATTTGAAAACGTATAATAAATAGTTTTAAAAACAA
1 TTTTTGAAAACATATAATATATAGTTTTAAAAACAA
*
1128047 TTTTTGAAAACATACAATATATAGTTTTAAAAACAA
1 TTTTTGAAAACATATAATATATAGTTTTAAAAACAA
1128083 TTTTTTGAAAACATATATATTATATAGTTTTGAAAAACAA
1 -TTTTTGAAAACATATA-A-TATATAGTTTT-AAAAACAA
* *
1128123 TTTTTTAAAACATATATATTATATAGTTTTGAAAACAA
1 TTTTTGAAAACATATA-A-TATATAGTTTTAAAAACAA
* *
1128161 TTTTTGAAAGCATGTATAATATATAGTTTTAAAAACGATT
1 TTTTTGAAAACA--TATAATATATAGTTTTAAAAAC-A-A
* *
1128201 TTTTTGGAAACATATATAATATATAATTTT
1 TTTTT-GAAA-ACATATAATATATAGTTTT
1128231 TGAAAATATA
Statistics
Matches: 352, Mismatches: 47, Indels: 59
0.77 0.10 0.13
Matches are distributed among these distances:
27 9 0.03
28 12 0.03
29 1 0.00
31 1 0.00
33 1 0.00
34 12 0.03
35 7 0.02
36 100 0.28
37 43 0.12
38 55 0.16
39 74 0.21
40 32 0.09
41 4 0.01
42 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.40
Consensus pattern (36 bp):
TTTTTGAAAACATATAATATATAGTTTTAAAAACAA
Found at i:1127939 original size:23 final size:24
Alignment explanation
Indices: 1127909--1127972 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 24
1127899 TAAAAACAAA
1127909 TTTTGAAAAC-ATATATTATATAG
1 TTTTGAAAACAATATATTATATAG
1127932 TTTTGAAAACATATATATTATATAG
1 TTTTGAAAACA-ATATATTATATAG
1127957 TAGTTTCGAAAACAAT
1 T--TTT-GAAAACAAT
1127973 TTTTGAAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
23 10 0.28
25 14 0.39
27 5 0.14
28 7 0.19
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (24 bp):
TTTTGAAAACAATATATTATATAG
Found at i:1128017 original size:39 final size:38
Alignment explanation
Indices: 1127932--1128236 Score: 348
Period size: 39 Copynumber: 7.9 Consensus size: 38
1127922 TATTATATAG
1127932 TTTTGAAAACATATATATTATATAGTAGTTTCGAAAACAAT
1 TTTTGAAAACATATATATTATATAGT--TTT-GAAAACAAT
* *
1127973 TTTTGAAAGCATATATATTATATAGTTTCGAAAACACAT
1 TTTTGAAAACATATATATTATATAGTTTTGAAAACA-AT
* * * *
1128012 ATTTGAAAACGTATA-A-TAAATAGTTTTAAAAACAAT
1 TTTTGAAAACATATATATTATATAGTTTTGAAAACAAT
* *
1128048 TTTTGAAAACATACA-A-TATATAGTTTTAAAAACAATT
1 TTTTGAAAACATATATATTATATAGTTTTGAAAACAA-T
1128085 TTTTGAAAACATATATATTATATAGTTTTGAAAAACAAT
1 TTTTGAAAACATATATATTATATAGTTTTG-AAAACAAT
*
1128124 TTTTTAAAACATATATATTATATAGTTTTGAAAACAAT
1 TTTTGAAAACATATATATTATATAGTTTTGAAAACAAT
* * * * *
1128162 TTTTGAAAGCATGTATAATATATAGTTTTAAAAACGATTT
1 TTTTGAAAACATATATATTATATAGTTTTGAAAAC-A-AT
* * *
1128202 TTTTGGAAACATATATAATATATAATTTTTGAAAA
1 TTTTGAAAACATATATATTATAT-AGTTTTGAAAA
1128237 TATAATATTA
Statistics
Matches: 230, Mismatches: 26, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
36 33 0.14
37 30 0.13
38 47 0.20
39 58 0.25
40 28 0.12
41 34 0.15
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (38 bp):
TTTTGAAAACATATATATTATATAGTTTTGAAAACAAT
Found at i:1128235 original size:25 final size:26
Alignment explanation
Indices: 1128201--1128256 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
1128191 AAAAACGATT
1128201 TTTTTGGAAACATAT-ATAATATATAA
1 TTTTTGGAAA-ATATAATAATATATAA
* *
1128227 TTTTT-GAAAATATAATATTATATAG
1 TTTTTGGAAAATATAATAATATATAA
1128252 TTTTT
1 TTTTT
1128257 TATTATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 4 0.15
25 18 0.67
26 5 0.19
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (26 bp):
TTTTTGGAAAATATAATAATATATAA
Found at i:1128276 original size:3 final size:3
Alignment explanation
Indices: 1128256--1128307 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
1128246 ATATAGTTTT
*
1128256 TTA TTA TATA TTA ATA TTA TTTA TT- TTA TTTA TTA TT- TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA
1128302 TTA TTA
1 TTA TTA
1128308 ATTTTGTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 4 0.10
3 29 0.69
4 9 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1128278 original size:20 final size:20
Alignment explanation
Indices: 1128241--1128309 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
1128231 TGAAAATATA
1128241 ATATTATATAGTTTTTTATTAT
1 ATATTA-ATA-TTTTTTATTAT
* *
1128263 ATATTAATATTATTTATTTT
1 ATATTAATATTTTTTATTAT
*
1128283 AT-TTATTATTTTATTATTAT
1 ATATTAATATTTT-TTATTAT
1128303 -TATTAAT
1 ATATTAAT
1128310 TTTGTATTCG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 9 0.23
20 21 0.54
21 3 0.08
22 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (20 bp):
ATATTAATATTTTTTATTAT
Found at i:1128304 original size:30 final size:28
Alignment explanation
Indices: 1128239--1128312 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 28
1128229 TTTGAAAATA
* *
1128239 TAATATTATATAGTTTTTTATTATATAT
1 TAATATTATTTATTTTTTTATTATATAT
*
1128267 TAATATTATTTATTTTATTTATTATTTTAT
1 TAATATTATTTATTTT-TTTATTA-TATAT
* *
1128297 TATTATTATTAATTTT
1 TAATATTATTTATTTT
1128313 GTATTCGGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 14 0.36
29 7 0.18
30 18 0.46
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (28 bp):
TAATATTATTTATTTTTTTATTATATAT
Found at i:1128317 original size:20 final size:20
Alignment explanation
Indices: 1128256--1128317 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
1128246 ATATAGTTTT
*
1128256 TTATTATATATTAATATTAT-
1 TTATTAT-TATTAATTTTATA
* *
1128276 TTATT-TTATTTATTATTTTA
1 TTATTATTATTAATT-TTATA
*
1128296 TTATTATTATTAATTTTGTA
1 TTATTATTATTAATTTTATA
1128316 TT
1 TT
1128318 CGGTTTTTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 6 0.18
19 4 0.12
20 16 0.47
21 8 0.24
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TTATTATTATTAATTTTATA
Found at i:1129448 original size:5 final size:5
Alignment explanation
Indices: 1129440--1129488 Score: 98
Period size: 5 Copynumber: 9.8 Consensus size: 5
1129430 TATAATATAT
1129440 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
1129489 ATTTAACATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (5 bp):
TTTTG
Found at i:1131564 original size:19 final size:19
Alignment explanation
Indices: 1131540--1131578 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1131530 TCGAATGCAT
1131540 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
* *
1131559 TCCATGTATCGATGCACTC
1 TCCATGCACCGATGCACTC
1131578 T
1 T
1131579 GATTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.15, T:0.28
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1131611 original size:64 final size:63
Alignment explanation
Indices: 1131528--1131687 Score: 189
Period size: 64 Copynumber: 2.5 Consensus size: 63
1131518 CAATAACATG
* * * *
1131528 CATCGAATGCATTCCATGCACCGATGCACTCTCCATGTATCGATGCACTC-TG-ATTTAATTAAA
1 CATCGAATGCATTTCATGCATCGATGCACTCTCCATGCATCGATGCAC-CAGGCATTT--TTAAA
1131591 A
63 A
* ** *
1131592 CATCGAATGCATTTGATGCATCGATGCACAATCCATGCATCGATGCACCAGGCTATTTTTCAAA
1 CATCGAATGCATTTCATGCATCGATGCACTCTCCATGCATCGATGCACCAGGC-ATTTTTAAAA
*
1131656 CATCGAATGCACTTCATGCATCGATGCACTCT
1 CATCGAATGCATTTCATGCATCGATGCACTCT
1131688 TAGTGCACCG
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
63 1 0.01
64 76 0.94
66 4 0.05
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (63 bp):
CATCGAATGCATTTCATGCATCGATGCACTCTCCATGCATCGATGCACCAGGCATTTTTAAAA
Found at i:1131684 original size:17 final size:19
Alignment explanation
Indices: 1131656--1131704 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1131646 ATTTTTCAAA
1131656 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
1131674 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
1131693 CACCGATGCACT
1 CATCGATGCACT
1131705 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:1137431 original size:24 final size:23
Alignment explanation
Indices: 1137404--1137483 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 23
1137394 CACTTAACAA
1137404 TGCATCGATGCATTCCTTTGAATG
1 TGCATCGATGCATTCC-TTGAATG
*
1137428 TGCATCGATGCA-TCC--GCATG
1 TGCATCGATGCATTCCTTGAATG
* *
1137448 ATGCACCGATGCATGCCTTGAATG
1 -TGCATCGATGCATTCCTTGAATG
1137472 TGCATCGATGCA
1 TGCATCGATGCA
1137484 CAAGACCATG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.09
21 11 0.23
22 2 0.04
23 14 0.30
24 16 0.34
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.29
Consensus pattern (23 bp):
TGCATCGATGCATTCCTTGAATG
Found at i:1139440 original size:23 final size:23
Alignment explanation
Indices: 1139398--1139441 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1139388 TGGTTGTTGA
* * *
1139398 ATGTTTGGACTTATTTTATATGG
1 ATGTTTGAACTTAATATATATGG
1139421 ATGTTTGAACTTAATATATAT
1 ATGTTTGAACTTAATATATAT
1139442 ATTTGGTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.50
Consensus pattern (23 bp):
ATGTTTGAACTTAATATATATGG
Found at i:1140046 original size:21 final size:21
Alignment explanation
Indices: 1140022--1140061 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1140012 TTTTCAAAGG
*
1140022 CATGCATCGATGTATCAATAC
1 CATGCATCGATGCATCAATAC
1140043 CATGCATCGATGCATCAAT
1 CATGCATCGATGCATCAAT
1140062 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (21 bp):
CATGCATCGATGCATCAATAC
Found at i:1140111 original size:19 final size:19
Alignment explanation
Indices: 1140087--1140125 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1140077 TCGAATGCAT
1140087 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1140106 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1140125 T
1 T
1140126 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1140204 original size:64 final size:63
Alignment explanation
Indices: 1140022--1140228 Score: 202
Period size: 64 Copynumber: 3.2 Consensus size: 63
1140012 TTTTCAAAGG
* ** ** *
1140022 CATGCATCGATGTATCAATACCATGCATCGATGCATCAATGAATAAATTGAAACATCGAATGCAT
1 CATGCATCGATGCA-CAAT-CCATGCATCGATGCA-CGCTG-ATTTATTAAAACATCGAATGCAT
*
1140087 TC
62 TT
* ** *
1140089 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGATTTAATTAAAACATCGAATGCATTT
1 CATGCATCGATGCACAATCCATGCATCGATGCACGCTGATTT-ATTAAAACATCGAATGCATTT
* * *
1140153 GATGCATCGATGCACAATCCATGCATCGATGCACCAGGCT-ATTT-TTCAAACATCGAATGCACT
1 CATGCATCGATGCACAATCCATGCATCGATGCA-C--GCTGATTTATTAAAACATCGAATGCATT
1140216 T
63 T
1140217 CATGCATCGATG
1 CATGCATCGATG
1140229 AACTCTTAGT
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
63 2 0.02
64 80 0.68
65 16 0.14
66 6 0.05
67 14 0.12
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (63 bp):
CATGCATCGATGCACAATCCATGCATCGATGCACGCTGATTTATTAAAACATCGAATGCATTT
Found at i:1142055 original size:31 final size:31
Alignment explanation
Indices: 1142019--1142080 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
1142009 TTGACTTAGG
1142019 ATGAAGTTTGTCTTCACACTCCAAGAATCAA
1 ATGAAGTTTGTCTTCACACTCCAAGAATCAA
1142050 ATGAAGTTTGTCTTCACACTCCAAGAATCAA
1 ATGAAGTTTGTCTTCACACTCCAAGAATCAA
1142081 GAATGAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (31 bp):
ATGAAGTTTGTCTTCACACTCCAAGAATCAA
Found at i:1142390 original size:22 final size:22
Alignment explanation
Indices: 1142362--1142438 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
1142352 ATCTACATGC
*
1142362 TTCAAAGATAATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
1142384 TTCAAAGATGATATATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1142406 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1142428 TTCAAAGATGA
1 TTCAAAGATGA
1142439 AAGCTTTATC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1142982 original size:20 final size:20
Alignment explanation
Indices: 1142951--1143036 Score: 136
Period size: 20 Copynumber: 4.3 Consensus size: 20
1142941 TCTCATTTAA
* *
1142951 GTAAAGCCTTCGGGTCATTT
1 GTAAATCCTTCGGGTAATTT
*
1142971 GTAAATCATTCGGGTAATTT
1 GTAAATCCTTCGGGTAATTT
*
1142991 GTAAATCCTTCGGGTCATTT
1 GTAAATCCTTCGGGTAATTT
1143011 GTAAATCCTTCGGGTAATTT
1 GTAAATCCTTCGGGTAATTT
1143031 GTAAAT
1 GTAAAT
1143037 TGTTTGAGTC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (20 bp):
GTAAATCCTTCGGGTAATTT
Found at i:1143006 original size:40 final size:40
Alignment explanation
Indices: 1142951--1143036 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
1142941 TCTCATTTAA
*
1142951 GTAAAGCCTTCGGGTCATTTGTAAATCATTCGGGTAATTT
1 GTAAATCCTTCGGGTCATTTGTAAATCATTCGGGTAATTT
*
1142991 GTAAATCCTTCGGGTCATTTGTAAATCCTTCGGGTAATTT
1 GTAAATCCTTCGGGTCATTTGTAAATCATTCGGGTAATTT
1143031 GTAAAT
1 GTAAAT
1143037 TGTTTGAGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (40 bp):
GTAAATCCTTCGGGTCATTTGTAAATCATTCGGGTAATTT
Found at i:1143724 original size:14 final size:14
Alignment explanation
Indices: 1143705--1143731 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1143695 TTGAGTGACA
1143705 ATTATTATATATAC
1 ATTATTATATATAC
1143719 ATTATTATATATA
1 ATTATTATATATA
1143732 TAATAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTATTATATATAC
Found at i:1143741 original size:17 final size:17
Alignment explanation
Indices: 1143707--1143760 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
1143697 GAGTGACAAT
*
1143707 TATTATATATACATTATTA
1 TATTATAAATA-A-TATTA
1143726 TA-TATATAATAATATTA
1 TATTATA-AATAATATTA
*
1143743 TATTATAAATATTATTA
1 TATTATAAATAATATTA
1143760 T
1 T
1143761 TTGTAAAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 17 0.55
18 9 0.29
19 5 0.16
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTATAAATAATATTA
Found at i:1143755 original size:14 final size:15
Alignment explanation
Indices: 1143702--1143757 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
1143692 TGTTTGAGTG
1143702 ACAATTATTATA-TAT
1 ACAA-TATTATATTAT
*
1143717 ACATTATTATATATAT
1 ACAATATTATAT-TAT
*
1143733 AATAATATTATATTAT
1 -ACAATATTATATTAT
1143749 A-AATATTAT
1 ACAATATTAT
1143758 TATTTGTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
14 15 0.43
15 4 0.11
16 6 0.17
17 10 0.29
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (15 bp):
ACAATATTATATTAT
Found at i:1146602 original size:14 final size:14
Alignment explanation
Indices: 1146583--1146618 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
1146573 ATATTATTTT
1146583 TCTTCTTCTCGACC
1 TCTTCTTCTCGACC
1146597 TCTTCTTCTCGACC
1 TCTTCTTCTCGACC
1146611 TCTTCTTC
1 TCTTCTTC
1146619 CTTCATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.06, C:0.42, G:0.06, T:0.47
Consensus pattern (14 bp):
TCTTCTTCTCGACC
Found at i:1146863 original size:68 final size:68
Alignment explanation
Indices: 1146783--1146918 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
1146773 AAATTGAAAA
1146783 TTTTAAAGGTTGAATGACTAAAGTAAAAAAGAGAGTAAAATTAAGTAATCGATGTAGTTTATCCA
1 TTTTAAAGGTTGAATGACTAAAGTAAAAAAGAGAGTAAAATTAAGTAATCGATGTAGTTTATCCA
1146848 AAG
66 AAG
1146851 TTTTAAAGGTTGAATGACTAAAGTAAAAAAGAGAGTAAAATTAAGTAATCGATGTAGTTTATCCA
1 TTTTAAAGGTTGAATGACTAAAGTAAAAAAGAGAGTAAAATTAAGTAATCGATGTAGTTTATCCA
1146916 AAG
66 AAG
1146919 AAGAAAAAGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (68 bp):
TTTTAAAGGTTGAATGACTAAAGTAAAAAAGAGAGTAAAATTAAGTAATCGATGTAGTTTATCCA
AAG
Found at i:1147735 original size:50 final size:51
Alignment explanation
Indices: 1147631--1147743 Score: 167
Period size: 51 Copynumber: 2.2 Consensus size: 51
1147621 TTAGCAGTAA
* **
1147631 AGCGCGTCCCC-TGCACCGCGCTATACGATGATTTGGCGCCACGTGGGGTAT
1 AGCGCG-CCCCTTACACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
1147682 AGCGCGCCCCTTACACCGCGCTATACGATGAGCTGGCGCCACGT-GGGTAT
1 AGCGCGCCCCTTACACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
1147732 AGCGCGGCCCCT
1 AGCGC-GCCCCT
1147744 GTAGCGCACT
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
50 15 0.26
51 42 0.74
ACGTcount: A:0.16, C:0.35, G:0.31, T:0.19
Consensus pattern (51 bp):
AGCGCGCCCCTTACACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
Found at i:1147756 original size:50 final size:51
Alignment explanation
Indices: 1147631--1147757 Score: 161
Period size: 51 Copynumber: 2.5 Consensus size: 51
1147621 TTAGCAGTAA
* * **
1147631 AGCGCGTCCCCTGCACCGCGCTATACGATGATTTGGCGCCACGTGGGGTAT
1 AGCGCGGCCCCTGTACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
1147682 AGCGC-GCCCCT-TACACCGCGCTATACGATGAGCTGGCGCCACGT-GGGTAT
1 AGCGCGGCCCCTGT--ACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
* *
1147732 AGCGCGGCCCCTGTAGCGCACTATAC
1 AGCGCGGCCCCTGTACCGCGCTATAC
1147758 CTGTATATCT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
50 26 0.39
51 39 0.59
52 1 0.02
ACGTcount: A:0.17, C:0.34, G:0.30, T:0.19
Consensus pattern (51 bp):
AGCGCGGCCCCTGTACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
Found at i:1147882 original size:10 final size:10
Alignment explanation
Indices: 1147867--1147901 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
1147857 TTTATCACAC
1147867 CAAATTCTCT
1 CAAATTCTCT
1147877 CAAATTCTCT
1 CAAATTCTCT
1147887 -AAATTTCTCT
1 CAAA-TTCTCT
1147897 CAAAT
1 CAAAT
1147902 ATTCTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 3 0.13
10 17 0.74
11 3 0.13
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:1147906 original size:12 final size:12
Alignment explanation
Indices: 1147870--1147908 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 12
1147860 ATCACACCAA
1147870 ATTCTCTC-AA-
1 ATTCTCTCAAAT
1147880 ATTCTCT-AAAT
1 ATTCTCTCAAAT
1147891 -TTCTCTCAAAT
1 ATTCTCTCAAAT
1147902 ATTCTCT
1 ATTCTCT
1147909 TTTTAAGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 15 0.60
11 4 0.16
12 6 0.24
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (12 bp):
ATTCTCTCAAAT
Found at i:1151638 original size:17 final size:19
Alignment explanation
Indices: 1151612--1151652 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1151602 AATGACACAG
*
1151612 ATGTTTTCC-CGTGATAAC
1 ATGTTTCCCTCGTGATAAC
1151630 ATGTTTCCCTCGTGATAAC
1 ATGTTTCCCTCGTGATAAC
1151649 ATGT
1 ATGT
1151653 GTACGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (19 bp):
ATGTTTCCCTCGTGATAAC
Found at i:1153941 original size:49 final size:51
Alignment explanation
Indices: 1153834--1153957 Score: 173
Period size: 49 Copynumber: 2.5 Consensus size: 51
1153824 TTATACAAAA
* *
1153834 CGCGGTACCTGCCCCGCGCTATATAAATTTATGTCAGGAGTAAAGGTATGT
1 CGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAAGTATGT
*
1153885 CGCGGTACCTCCCCCGCGCTATATAAAATTAT-T-AGGAGTAAAAGTATAG-
1 CGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAAGTAT-GT
**
1153934 CGCGGTACCTGATCCGCGCTATAT
1 CGCGGTACCTGCCCCGCGCTATAT
1153958 CCCTACGTGG
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
49 34 0.52
50 2 0.03
51 30 0.45
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (51 bp):
CGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAAGTATGT
Found at i:1154073 original size:51 final size:50
Alignment explanation
Indices: 1153989--1154095 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 50
1153979 CTGCAGGGGC
** *
1153989 CGCGCTATACCCACGTGGCGTCAGCTCACCGTATAACGCGGTACAGAGGG
1 CGCGCTATACCCACGTGGCGTCAAATCACCGTATAACGCGATACAGAGGG
* * *
1154039 CGCGCTATACCCCACGTGGCG-CTAAATCATCGTATAACGCGATGCAGGGGG
1 CGCGCTATA-CCCACGTGGCGTC-AAATCACCGTATAACGCGATACAGAGGG
1154090 CGCGCT
1 CGCGCT
1154096 TTACTGCTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
50 10 0.20
51 39 0.80
ACGTcount: A:0.21, C:0.32, G:0.30, T:0.17
Consensus pattern (50 bp):
CGCGCTATACCCACGTGGCGTCAAATCACCGTATAACGCGATACAGAGGG
Found at i:1158177 original size:55 final size:55
Alignment explanation
Indices: 1158112--1158221 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
1158102 AAGACATACT
1158112 TGGATCTATTTTTTGCAAAACAAGTCTCAAGTTGTCATATTGTTTCGGTTGTTTC
1 TGGATCTATTTTTTGCAAAACAAGTCTCAAGTTGTCATATTGTTTCGGTTGTTTC
1158167 TGGATCTATTTTTTGCAAAACAAGTCTCAAGTTGTCATATTGTTTCGGTTGTTTC
1 TGGATCTATTTTTTGCAAAACAAGTCTCAAGTTGTCATATTGTTTCGGTTGTTTC
1158222 AAAAATTAGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.45
Consensus pattern (55 bp):
TGGATCTATTTTTTGCAAAACAAGTCTCAAGTTGTCATATTGTTTCGGTTGTTTC
Found at i:1163287 original size:15 final size:14
Alignment explanation
Indices: 1163258--1163313 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
1163248 GGGTCTGTTT
1163258 AACCCGATC-GAGTC
1 AACCCG-TCTGAGTC
1163272 AACCCAGTCTGAGTC
1 AACCC-GTCTGAGTC
* *
1163287 AACTCGTCTGATTC
1 AACCCGTCTGAGTC
* *
1163301 AACTCGTCCGAGT
1 AACCCGTCTGAGT
1163314 TAATATATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
14 26 0.72
15 10 0.28
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (14 bp):
AACCCGTCTGAGTC
Found at i:1163295 original size:14 final size:14
Alignment explanation
Indices: 1163267--1163313 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
1163257 TAACCCGATC
*
1163267 GAGTCAACCCAGTCT
1 GAGTCAACTC-GTCT
1163282 GAGTCAACTCGTCT
1 GAGTCAACTCGTCT
* *
1163296 GATTCAACTCGTCC
1 GAGTCAACTCGTCT
1163310 GAGT
1 GAGT
1163314 TAATATATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 19 0.68
15 9 0.32
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (14 bp):
GAGTCAACTCGTCT
Found at i:1166794 original size:105 final size:105
Alignment explanation
Indices: 1166606--1166803 Score: 240
Period size: 105 Copynumber: 1.9 Consensus size: 105
1166596 TAAAGAGATC
* * * *
1166606 AGGCTCAATCCCTTGCTTTATCATTATGTCAATAATATCCTCAGCTTTAGAAATCATTCATTCCT
1 AGGCTCAATCCCATGCTTTATCATTATGTCAACAATATCCTCAGCTTTAAAAATCATCCATTCCT
* *
1166671 TGCAATATGCATCAATCAATGTATTATATATGACAACATT
66 TGCAATATGAATCAATCAATATATTATATATGACAACATT
* * *
1166711 AGGCTCAATGCCATGCTTTATCATTGA-GTCAACAATATGCTCAG-TTTCAAAAA-CTATCCCTT
1 AGGCTCAATCCCATGCTTTATCATT-ATGTCAACAATATCCTCAGCTTT-AAAAATC-ATCCATT
* **
1166773 CCTTGCAATGTGAATTGATCAATATATTATA
63 CCTTGCAATATGAATCAATCAATATATTATA
1166804 CGTGAAAATA
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
104 4 0.05
105 73 0.94
106 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (105 bp):
AGGCTCAATCCCATGCTTTATCATTATGTCAACAATATCCTCAGCTTTAAAAATCATCCATTCCT
TGCAATATGAATCAATCAATATATTATATATGACAACATT
Found at i:1167451 original size:59 final size:59
Alignment explanation
Indices: 1167386--1167792 Score: 627
Period size: 59 Copynumber: 6.9 Consensus size: 59
1167376 AAATTCAATA
* * * *
1167386 GGAAATTCATACAATTATTATGATTTCCTTATCATTTTTGCACACGAAGTGCCCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
* *
1167445 GGAAATTCATACACTTAGTATGATTT-CTCTATCATTATAGCATACAAAGTGCCCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCT-TATCATTTTAGCACACAAAGTGCCCTATCT
* * *
1167504 GGAATTTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGTCATATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
* * * * *
1167563 AGAAATTCATACACTTGGTATGATTTCCCTATCATTTTAGAACACAAAGTGCCATATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
1167622 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
*
1167681 GGAAATTCATACACTTAGTATGATTTCCTTATAATTTTAGCACACAAAGTGCCCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
* * * *
1167740 GGAAATTCATACACTTAGTATAATTTCCTTCTTATTTTAGCGCACAAAGTGCC
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCC
1167793 ATTTGGTAAT
Statistics
Matches: 319, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
58 2 0.01
59 315 0.99
60 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCT
Found at i:1168154 original size:22 final size:20
Alignment explanation
Indices: 1168114--1168169 Score: 85
Period size: 22 Copynumber: 2.7 Consensus size: 20
1168104 TGGCCCTTCA
*
1168114 GTATCGATACCCCTTCTATG
1 GTATCGATACCCCTACTATG
1168134 GTATCGATACTACCCTACTATG
1 GTATCGATAC--CCCTACTATG
1168156 GTATCGATACCCCT
1 GTATCGATACCCCT
1168170 TCCAGTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 14 0.42
22 19 0.58
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.32
Consensus pattern (20 bp):
GTATCGATACCCCTACTATG
Found at i:1168389 original size:20 final size:20
Alignment explanation
Indices: 1168360--1168415 Score: 85
Period size: 22 Copynumber: 2.7 Consensus size: 20
1168350 TGACCCTTCA
*
1168360 GTATCAATACCCCTACTATG
1 GTATCGATACCCCTACTATG
1168380 GTATCGATACTACCCTACTATG
1 GTATCGATAC--CCCTACTATG
1168402 GTATCGATACCCCT
1 GTATCGATACCCCT
1168416 TCCAGTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 13 0.39
22 20 0.61
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (20 bp):
GTATCGATACCCCTACTATG
Found at i:1168484 original size:94 final size:94
Alignment explanation
Indices: 1168360--1168580 Score: 318
Period size: 94 Copynumber: 2.4 Consensus size: 94
1168350 TGACCCTTCA
* * * *
1168360 GTATCAATACCC-CTACTATGGTATCGATACTACCCTACTATGGTATCGATACCCCTTCCAGTAT
1 GTATCGATACCCTC-ACCATGGTATCGATACTACCATACTATGGTATCGATACCCCCTCCAGTAT
*
1168424 CGATACCAAAATTAGCTTCGATGTTTCTTG
65 CGATACCAAAATTAGATTCGATGTTTCTTG
* * * * *
1168454 GTATCGATACCCTCACCATGGTATCGATACTACTATATTTTGGTATTGATACCCCCTCCGGTATC
1 GTATCGATACCCTCACCATGGTATCGATACTACCATACTATGGTATCGATACCCCCTCCAGTATC
1168519 GATACCAAAATTAGATTCGATGTTTCTTG
66 GATACCAAAATTAGATTCGATGTTTCTTG
* *
1168548 GTATCGATACCCTTACCATGGTATAGATACTAC
1 GTATCGATACCCTCACCATGGTATCGATACTAC
1168581 ATAGTTCGAT
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 113 0.99
95 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (94 bp):
GTATCGATACCCTCACCATGGTATCGATACTACCATACTATGGTATCGATACCCCCTCCAGTATC
GATACCAAAATTAGATTCGATGTTTCTTG
Found at i:1173769 original size:28 final size:29
Alignment explanation
Indices: 1173729--1173794 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
1173719 GGTTCAATTT
* *
1173729 ATTTC-TTTAGTTTCAATTTATTGTTTAAC
1 ATTTCATTT-GTTTCAATTTAGTGTCTAAC
* *
1173758 GTTT-ATTTGTTTTAATTTAGTGTCTAAC
1 ATTTCATTTGTTTCAATTTAGTGTCTAAC
1173786 ATTTCATTT
1 ATTTCATTT
1173795 CATATCTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 20 0.67
29 10 0.33
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.59
Consensus pattern (29 bp):
ATTTCATTTGTTTCAATTTAGTGTCTAAC
Found at i:1174958 original size:6 final size:7
Alignment explanation
Indices: 1174941--1174966 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1174931 TTTTAAAAAG
1174941 TTTTTAA
1 TTTTTAA
1174948 TTTTTAA
1 TTTTTAA
1174955 TTTTTAA
1 TTTTTAA
1174962 TTTTT
1 TTTTT
1174967 TTCAATTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:1179384 original size:8 final size:7
Alignment explanation
Indices: 1179365--1179395 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
1179355 TTAAATATAT
1179365 AATTTTA
1 AATTTTA
*
1179372 ATTTTTA
1 AATTTTA
1179379 AATTTTA
1 AATTTTA
1179386 AATTTTA
1 AATTTTA
1179393 AAT
1 AAT
1179396 AAAGTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:1179550 original size:15 final size:16
Alignment explanation
Indices: 1179522--1179551 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1179512 AAAATAGTTT
1179522 AAATATATATTTAAAA
1 AAATATATATTTAAAA
1179538 AAATATA-ATTTAAA
1 AAATATATATTTAAA
1179552 CATTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATATATATTTAAAA
Found at i:1180349 original size:20 final size:21
Alignment explanation
Indices: 1180303--1180349 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
1180293 TTTATCTCTG
1180303 TCTTTTGGTAGTTTTCGATTT
1 TCTTTTGGTAGTTTTCGATTT
* *
1180324 T-TTTTTGTTGTTTTCG-TTT
1 TCTTTTGGTAGTTTTCGATTT
1180343 ATCTTTT
1 -TCTTTT
1180350 TTCTCAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 14 0.64
21 5 0.23
ACGTcount: A:0.06, C:0.09, G:0.15, T:0.70
Consensus pattern (21 bp):
TCTTTTGGTAGTTTTCGATTT
Found at i:1180452 original size:18 final size:18
Alignment explanation
Indices: 1180429--1180463 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1180419 CCCTGCTTTA
*
1180429 GACCCTCGGATTGATTTG
1 GACCCTCAGATTGATTTG
1180447 GACCCTCAGATTGATTT
1 GACCCTCAGATTGATTT
1180464 AGATACATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (18 bp):
GACCCTCAGATTGATTTG
Found at i:1191688 original size:170 final size:170
Alignment explanation
Indices: 1191406--1191748 Score: 686
Period size: 170 Copynumber: 2.0 Consensus size: 170
1191396 GGTAAGAACC
1191406 TATCACTTTGAACTCGAAAATAAGACTTTCCGTTGTTTATGATTTAATCTTCATTTTTGCTGAGA
1 TATCACTTTGAACTCGAAAATAAGACTTTCCGTTGTTTATGATTTAATCTTCATTTTTGCTGAGA
1191471 AATATGGCATAATCCCTCTTTATCTTTTTGTTTTGTGCATATGAGTGGACAAACATAAAGTTGGT
66 AATATGGCATAATCCCTCTTTATCTTTTTGTTTTGTGCATATGAGTGGACAAACATAAAGTTGGT
1191536 ACATGACATGGAAAATATGGCTATGAATTATTTCTCTATG
131 ACATGACATGGAAAATATGGCTATGAATTATTTCTCTATG
1191576 TATCACTTTGAACTCGAAAATAAGACTTTCCGTTGTTTATGATTTAATCTTCATTTTTGCTGAGA
1 TATCACTTTGAACTCGAAAATAAGACTTTCCGTTGTTTATGATTTAATCTTCATTTTTGCTGAGA
1191641 AATATGGCATAATCCCTCTTTATCTTTTTGTTTTGTGCATATGAGTGGACAAACATAAAGTTGGT
66 AATATGGCATAATCCCTCTTTATCTTTTTGTTTTGTGCATATGAGTGGACAAACATAAAGTTGGT
1191706 ACATGACATGGAAAATATGGCTATGAATTATTTCTCTATG
131 ACATGACATGGAAAATATGGCTATGAATTATTTCTCTATG
1191746 TAT
1 TAT
1191749 AGACTTTTTA
Statistics
Matches: 173, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
170 173 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.40
Consensus pattern (170 bp):
TATCACTTTGAACTCGAAAATAAGACTTTCCGTTGTTTATGATTTAATCTTCATTTTTGCTGAGA
AATATGGCATAATCCCTCTTTATCTTTTTGTTTTGTGCATATGAGTGGACAAACATAAAGTTGGT
ACATGACATGGAAAATATGGCTATGAATTATTTCTCTATG
Found at i:1221265 original size:21 final size:20
Alignment explanation
Indices: 1221215--1221274 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 20
1221205 ATACTATATG
*
1221215 ATATATATTATTCATAAATT
1 ATATATATTATTAATAAATT
*
1221235 ATATCATATTATTAATAAGTT
1 ATAT-ATATTATTAATAAATT
*
1221256 -TATAT-TTATT-GTAAATT
1 ATATATATTATTAATAAATT
1221273 AT
1 AT
1221275 TCTTATTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 5 0.15
18 6 0.18
19 2 0.06
20 7 0.21
21 14 0.41
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (20 bp):
ATATATATTATTAATAAATT
Found at i:1225287 original size:20 final size:23
Alignment explanation
Indices: 1225227--1225273 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
1225217 CCAATAGAGG
*
1225227 CTATGAATTTGTCCCGAATGACCA
1 CTATGAA-ATGTCCCGAATGACCA
*
1225251 CTATGAAATATCCCGAATGACCA
1 CTATGAAATGTCCCGAATGACCA
1225274 TTGTATGTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (23 bp):
CTATGAAATGTCCCGAATGACCA
Found at i:1225977 original size:24 final size:24
Alignment explanation
Indices: 1225891--1225971 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
1225881 TACCCTTGAA
*
1225891 GTGCATCGATGCAT---TCTACA-
1 GTGCATCGATGCATCCCTTTACAT
* *
1225911 GTGTATCTATGCATCCCTTTACAT
1 GTGCATCGATGCATCCCTTTACAT
*
1225935 GTGCATCGATGTATCCCTTTACAT
1 GTGCATCGATGCATCCCTTTACAT
1225959 GTGCATCGATGCA
1 GTGCATCGATGCA
1225972 CTCCTTATGC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 12 0.24
23 5 0.10
24 33 0.66
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.35
Consensus pattern (24 bp):
GTGCATCGATGCATCCCTTTACAT
Found at i:1227406 original size:46 final size:47
Alignment explanation
Indices: 1227314--1227406 Score: 111
Period size: 46 Copynumber: 2.0 Consensus size: 47
1227304 TTAGTATTGC
* **
1227314 TTTATTTTCCTAATAAATGCATGTGAACTAGAAATCATACTGTTAGG
1 TTTATTTTCCAAATAAATGCATGTGAACTAGAAATCATAAGGTTAGG
*
1227361 TTTATTTCTCCAAATAAA-GCATG-GAACTA-AATTGCATAAGGTTAGG
1 TTTATTT-TCCAAATAAATGCATGTGAACTAGAAAT-CATAAGGTTAGG
1227407 ATTTTTATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
45 3 0.08
46 16 0.40
47 12 0.30
48 9 0.22
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (47 bp):
TTTATTTTCCAAATAAATGCATGTGAACTAGAAATCATAAGGTTAGG
Found at i:1231671 original size:15 final size:15
Alignment explanation
Indices: 1231653--1231697 Score: 60
Period size: 12 Copynumber: 3.1 Consensus size: 15
1231643 CATAATACAT
1231653 ATCATTTCATCATAC
1 ATCATTTCATCATAC
1231668 ATCA-TT--TCATAC
1 ATCATTTCATCATAC
1231680 ATCATTTCATACATAC
1 ATCATTTCAT-CATAC
1231696 AT
1 AT
1231698 GATACATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 10 0.38
13 2 0.08
14 2 0.08
15 5 0.19
16 7 0.27
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (15 bp):
ATCATTTCATCATAC
Found at i:1231679 original size:12 final size:12
Alignment explanation
Indices: 1231662--1231693 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
1231652 TATCATTTCA
1231662 TCATACATCATT
1 TCATACATCATT
1231674 TCATACATCATT
1 TCATACATCATT
1231686 TCATACAT
1 TCATACAT
1231694 ACATGATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.25, G:0.00, T:0.41
Consensus pattern (12 bp):
TCATACATCATT
Found at i:1231917 original size:62 final size:61
Alignment explanation
Indices: 1231809--1231966 Score: 183
Period size: 62 Copynumber: 2.6 Consensus size: 61
1231799 TATTGTTTCC
* *
1231809 TAGAGTCAATCTTTGACTTCCTCGTGAAGAGAAAACAACCTTTATTATTTCTGACTTCCCAG
1 TAGAGTCAATCTTTGACTTCCTCGTGAAGAGAAAACAACATATATTATTTCTGA-TTCCCAG
* ***
1231871 TAGAGTCAATTTTTGACTTCCTCGTGAAGAGAAGTTAACATATATTATTTCTGATTCCCTAG
1 TAGAGTCAATCTTTGACTTCCTCGTGAAGAGAAAACAACATATATTATTTCTGATTCCC-AG
* * * * *
1231933 -AGGAGCCAATCCTTGATTTTCTCGTAAAGAGAAA
1 TA-GAGTCAATCTTTGACTTCCTCGTGAAGAGAAA
1231967 TCAGTCTTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
61 6 0.07
62 75 0.93
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (61 bp):
TAGAGTCAATCTTTGACTTCCTCGTGAAGAGAAAACAACATATATTATTTCTGATTCCCAG
Found at i:1232154 original size:47 final size:47
Alignment explanation
Indices: 1232085--1232192 Score: 162
Period size: 47 Copynumber: 2.3 Consensus size: 47
1232075 TTCACAGAAT
* * * *
1232085 AGTAGTGGAACAAATTCTTCTTATTTCAGATTTGGTCTCTACGGAAG
1 AGTAGTGGAACAAATTCTTCTTATTTCAAATTTAGCCTCCACGGAAG
*
1232132 AGTAGTGGAACAAATTCTTCTTATTTCAAATTTAGCCTCCATGGAAG
1 AGTAGTGGAACAAATTCTTCTTATTTCAAATTTAGCCTCCACGGAAG
*
1232179 AGTAGTGAAACAAA
1 AGTAGTGGAACAAA
1232193 GTCATCGTAG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.32
Consensus pattern (47 bp):
AGTAGTGGAACAAATTCTTCTTATTTCAAATTTAGCCTCCACGGAAG
Found at i:1232204 original size:36 final size:36
Alignment explanation
Indices: 1232163--1233025 Score: 979
Period size: 36 Copynumber: 23.8 Consensus size: 36
1232153 TATTTCAAAT
* *
1232163 TTAGCCTCCATGGAAGAGTAGTGAAACAAAGTCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
* *
1232199 GTAGCCTTCACGGAAGAGTAGTGAAGCAAAGTCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
* *
1232235 TTAGCCTTCACGGAAAAGTAGTGAAGCAAAGTCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
* * *
1232271 TTAGCCTCCACGGAAAAGTAGTGAAGAAAAGTCATA
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
** *
1232307 TTAGCCTCCATTGAAGAGTAGTGAAACAAA-TCCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGT-CATC
* * * *
1232343 TTATCCTTCACGGAAGAGTAATGAAGCAAAGCCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
* * *
1232379 TTAGCCTCCATGAAAGAGTAGTGAAGCAAAGCCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
* * *
1232415 TTAGCCTCCACGGAAGAGTAGTGAAGTAAAGCCATT
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
* * *
1232451 TTAGCCTTCACGGAAGAGTGGTAAAGCAAAGTCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
*
1232487 TTAGCCTCCACGAAAGAGTAGTGAAGCAAAGTCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
1232523 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
** *
1232559 TTAGCCTCCATAGAAGAGTAGTGAAGTAAA-TCCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGT-CATC
* * * *
1232595 TTAGCATTCACGGAAGAGTAATGAAGTAAA-TCCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGT-CATC
* *
1232631 TTAGCCTCTACGGAAGATTAGTGAAGCAAAGTCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
**
1232667 TTAG--TCCATAGAAGAGTAGTGAAGCAAAGTCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
* * *
1232701 TTAGCCTCCACAGAAGAGTAATGAAGCAAA-TAAATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGT-CATC
** *
1232737 TTAGTGTTCACGGAAGAGTAGTGAAGCAAA-TCCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGT-CATC
*
1232773 TTAGCCTCCACGGAAAAGTAGTGAAGCAAAGTCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
* *
1232809 TTAGCCTTCACGGAAGAGTAGTGAAGC-AAGAACATATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAG-TC--ATC
* * * * *
1232847 AAATTTCGATCTTCATGGAAGAGTAGTGAAGTAAAGTCATC
1 ----TTAG-CCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
*
1232888 TTAGCCTCCACGGAAGAGTAGTAAAGCAAA-TCCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGT-CATC
* *
1232924 TTAGCCTTCACGGAAGAGTAGTGAAGCAAAGCCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
* * *
1232960 TTAGCCTTCACGGAAGAGTACTGAAGCAAAGCCATC
1 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
* * **
1232996 ATAGCCTTCACAAAAAGAGTAGTGAAGCAA
1 TTAGCCTCCAC-GGAAGAGTAGTGAAGCAA
1233026 GAACAGATCA
Statistics
Matches: 711, Mismatches: 96, Indels: 39
0.84 0.11 0.05
Matches are distributed among these distances:
34 30 0.04
35 7 0.01
36 621 0.87
37 20 0.03
38 3 0.00
41 3 0.00
42 3 0.00
43 21 0.03
44 3 0.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (36 bp):
TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC
Found at i:1232937 original size:187 final size:188
Alignment explanation
Indices: 1232677--1233062 Score: 571
Period size: 187 Copynumber: 2.1 Consensus size: 188
1232667 TTAGTCCATA
* *
1232677 GAAGAGTAGTGAAGCAAAGTCATCTTAGCCTCCACAGAAGAGTAATGAAGCAAATAAATCTTAGT
1 GAAGAGTAGTGAAGCAAAGTCATCTTAGCCTCCACAGAAGAGTAATAAAGCAAATAAATCTTAGC
* * * *
1232742 GTTCACGGAAGAGTAGTGAAGCAAATCCATCTTAGCCTCCACGGAAAAGTAGTGAAGCAAAGTCA
66 CTTCACGGAAGAGTAGTGAAGCAAAGCCATCTTAGCCTCCACGGAAAAGTACTGAAGCAAAGCCA
* ** * *
1232807 TCTTAGCCTTCAC-GGAAGAGTAGTGAAGCAAGAACATATCAAA-TTTCGATCT-TCATG
131 TCATAGCCTTCACAAAAAGAGTAGTGAAGCAAGAACAGATCAAAGTTT-GATCTCT-ACG
* * * **
1232864 GAAGAGTAGTGAAGTAAAGTCATCTTAGCCTCCACGGAAGAGTAGTAAAGCAAATCCATCTTAGC
1 GAAGAGTAGTGAAGCAAAGTCATCTTAGCCTCCACAGAAGAGTAATAAAGCAAATAAATCTTAGC
* *
1232929 CTTCACGGAAGAGTAGTGAAGCAAAGCCATCTTAGCCTTCACGGAAGAGTACTGAAGCAAAGCCA
66 CTTCACGGAAGAGTAGTGAAGCAAAGCCATCTTAGCCTCCACGGAAAAGTACTGAAGCAAAGCCA
1232994 TCATAGCCTTCACAAAAAGAGTAGTGAAGCAAGAACAGATCAAAGTTTGATCTCTACG
131 TCATAGCCTTCACAAAAAGAGTAGTGAAGCAAGAACAGATCAAAGTTTGATCTCTACG
1233052 GAAGAGTAGTG
1 GAAGAGTAGTG
1233063 GAACGAATTT
Statistics
Matches: 178, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
187 129 0.72
188 45 0.25
189 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (188 bp):
GAAGAGTAGTGAAGCAAAGTCATCTTAGCCTCCACAGAAGAGTAATAAAGCAAATAAATCTTAGC
CTTCACGGAAGAGTAGTGAAGCAAAGCCATCTTAGCCTCCACGGAAAAGTACTGAAGCAAAGCCA
TCATAGCCTTCACAAAAAGAGTAGTGAAGCAAGAACAGATCAAAGTTTGATCTCTACG
Found at i:1233203 original size:3 final size:3
Alignment explanation
Indices: 1233190--1233235 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
1233180 TTTCGTCCCG
* *
1233190 TAT TTT TAT TAT TAT ATAT TAT TAT TA- TAT TAA TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1233234 TA
1 TA
1233236 CAATTAATAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 29 0.81
4 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1233220 original size:11 final size:11
Alignment explanation
Indices: 1233196--1233228 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1233186 CCCGTATTTT
1233196 TATTATTA-TA
1 TATTATTATTA
1233206 TATTATTATTA
1 TATTATTATTA
*
1233217 TATTAATATTA
1 TATTATTATTA
1233228 T
1 T
1233229 TATATTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTATTATTA
Found at i:1233931 original size:2 final size:2
Alignment explanation
Indices: 1233924--1233948 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1233914 AAATTTATTA
1233924 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
1233949 ATAATTACTT
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:1238484 original size:23 final size:23
Alignment explanation
Indices: 1238450--1238514 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
1238440 CACCACAGCT
*
1238450 CGTATAAATGCACCGAAGTGCCA-
1 CGTAGAAATGCACCGAAGTG-CAG
* *
1238473 CGTATG-ATTGCACCTAAGTGCAG
1 CGTA-GAAATGCACCGAAGTGCAG
1238496 CGTAGAAATGCACCGAAGT
1 CGTAGAAATGCACCGAAGT
1238515 ACCATATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 3 0.09
23 31 0.91
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCAG
Found at i:1238553 original size:23 final size:24
Alignment explanation
Indices: 1238517--1238563 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
1238507 ACCGAAGTAC
*
1238517 CATATAAAATGTCCATAAGGACCA
1 CATATAAAATGTCCATAAGAACCA
1238541 CATAT-AAATGTCCATAAGAACCA
1 CATATAAAATGTCCATAAGAACCA
1238564 TATACATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.21
Consensus pattern (24 bp):
CATATAAAATGTCCATAAGAACCA
Found at i:1241152 original size:16 final size:17
Alignment explanation
Indices: 1241131--1241164 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
1241121 TACTATTCAT
1241131 GTGAATAGTG-AATTTC
1 GTGAATAGTGAAATTTC
1241147 GTGAATAGTGAAATTTC
1 GTGAATAGTGAAATTTC
1241164 G
1 G
1241165 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (17 bp):
GTGAATAGTGAAATTTC
Found at i:1241932 original size:15 final size:16
Alignment explanation
Indices: 1241914--1241946 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1241904 GTGGCAGATC
1241914 AAAATCCAG-ACGGGA
1 AAAATCCAGAACGGGA
*
1241929 AAAATCTAGAACGGGA
1 AAAATCCAGAACGGGA
1241945 AA
1 AA
1241947 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.15, G:0.24, T:0.09
Consensus pattern (16 bp):
AAAATCCAGAACGGGA
Found at i:1249163 original size:18 final size:18
Alignment explanation
Indices: 1249142--1249180 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1249132 TTTTATTTAA
* *
1249142 TTTATTTTTAATAATTAT
1 TTTATATTTAATAATAAT
*
1249160 TTTATATTTATTAATAAT
1 TTTATATTTAATAATAAT
1249178 TTT
1 TTT
1249181 TCTAATTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATATTTAATAATAAT
Found at i:1249172 original size:14 final size:13
Alignment explanation
Indices: 1249117--1249172 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 13
1249107 TTGCAGATTA
1249117 ATTTTTATTATATT
1 ATTTTTATT-TATT
1249131 -TTTTTATTTAATTT
1 ATTTTTATTT-A-TT
* *
1249145 ATTTTTAATAATT
1 ATTTTTATTTATT
1249158 ATTTTATATTTATT
1 ATTTT-TATTTATT
1249172 A
1 A
1249173 ATAATTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 1 0.03
13 16 0.47
14 10 0.29
15 7 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTTTATTTATT
Found at i:1249194 original size:20 final size:20
Alignment explanation
Indices: 1249144--1249196 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
1249134 TTATTTAATT
1249144 TATTTTTAATAATTATTTTA
1 TATTTTTAATAATTATTTTA
1249164 TATTTATTAATAATT-TTTCTA
1 TATTT-TTAATAATTATTT-TA
1249185 -ATTTTCTAATAA
1 TATTTT-TAATAA
1249197 AATAAATCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.03
20 18 0.60
21 11 0.37
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTAATAATTATTTTA
Found at i:1249233 original size:2 final size:2
Alignment explanation
Indices: 1249226--1249267 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1249216 ATTCAGTGAA
1249226 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
1249268 TGACATGGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1249703 original size:17 final size:18
Alignment explanation
Indices: 1249670--1249703 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1249660 CCGTTATTAG
1249670 TGAACCGGTCAGAACCGT
1 TGAACCGGTCAGAACCGT
*
1249688 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
1249704 GACCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.18
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGT
Found at i:1249962 original size:16 final size:16
Alignment explanation
Indices: 1249941--1249971 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1249931 TAATATTGAA
1249941 ACTTGAACTCAAAAAG
1 ACTTGAACTCAAAAAG
1249957 ACTTGAACTCAAAAA
1 ACTTGAACTCAAAAA
1249972 ATAATTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (16 bp):
ACTTGAACTCAAAAAG
Found at i:1251409 original size:14 final size:14
Alignment explanation
Indices: 1251390--1251416 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1251380 GATAAAAGTT
1251390 TTGTTGATTTTGAG
1 TTGTTGATTTTGAG
1251404 TTGTTGATTTTGA
1 TTGTTGATTTTGA
1251417 TTAGACTCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (14 bp):
TTGTTGATTTTGAG
Found at i:1252412 original size:15 final size:15
Alignment explanation
Indices: 1252392--1252440 Score: 98
Period size: 15 Copynumber: 3.3 Consensus size: 15
1252382 CATGTTGATA
1252392 TTTACATCAAACTTT
1 TTTACATCAAACTTT
1252407 TTTACATCAAACTTT
1 TTTACATCAAACTTT
1252422 TTTACATCAAACTTT
1 TTTACATCAAACTTT
1252437 TTTA
1 TTTA
1252441 AAACTCTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTACATCAAACTTT
Found at i:1264025 original size:20 final size:20
Alignment explanation
Indices: 1264002--1264040 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1263992 CATTTTTAAA
*
1264002 AATATTCGTCTTATTATTTG
1 AATATTCATCTTATTATTTG
*
1264022 AATATTCATTTTATTATTT
1 AATATTCATCTTATTATTT
1264041 ATATTTAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (20 bp):
AATATTCATCTTATTATTTG
Found at i:1265285 original size:17 final size:16
Alignment explanation
Indices: 1265265--1265300 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
1265255 ATTATCGTCA
*
1265265 TATTTATATTTTATATG
1 TATTTATATATT-TATG
1265282 TATTTATATATTTATG
1 TATTTATATATTTATG
1265298 TAT
1 TAT
1265301 ATATTCCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (16 bp):
TATTTATATATTTATG
Found at i:1269846 original size:28 final size:28
Alignment explanation
Indices: 1269771--1269831 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
1269761 TGGGTGGCAA
* * * *
1269771 TGGCAATAGCAAGTGGGTATAGGATGGC
1 TGGCAACAACAAGTGGGCATAGGATGAC
1269799 TGGCAACAACAAGTGGGCATAGGATGAC
1 TGGCAACAACAAGTGGGCATAGGATGAC
1269827 TGGCA
1 TGGCA
1269832 GCTTCACGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.15, G:0.36, T:0.18
Consensus pattern (28 bp):
TGGCAACAACAAGTGGGCATAGGATGAC
Found at i:1270158 original size:32 final size:32
Alignment explanation
Indices: 1270122--1270191 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
1270112 TTGATCTAAA
*
1270122 AGTTGACGCTGATCTAACTCTTTCTACGATGG
1 AGTTGACGCTGATCCAACTCTTTCTACGATGG
* * *
1270154 AGTTGACGTTGATCCAACTTTTTCTGCGATGG
1 AGTTGACGCTGATCCAACTCTTTCTACGATGG
*
1270186 ATTTGA
1 AGTTGA
1270192 GTAAAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (32 bp):
AGTTGACGCTGATCCAACTCTTTCTACGATGG
Found at i:1270534 original size:133 final size:133
Alignment explanation
Indices: 1270154--1271164 Score: 1295
Period size: 133 Copynumber: 7.6 Consensus size: 133
1270144 TCTACGATGG
* ** ** *
1270154 AGTTGACGTTGATCCAACTTTTTCTGCGATGGATTTGAGTAAAAATAAAAATGACGATCCACCTC
1 AGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTC
* * * *
1270219 CTTCTGTGATGGAATCGAACGAGATGTTGTTGTTGATCTACCTCCTTCTGCGATAGAATCGAGCT
66 ATTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCT
1270284 AAA
131 AAA
* * * * *
1270287 AGTTTATGCTGATCCAACTCATTCTGCGATGGATTTGAGCG-AAGT--AAATGTCGATCCACATT
1 AGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCAC-CT
* * * * *
1270349 C-TTCTATGATGGAATCGAACGAGATGTC-AGTGTTGACCTACCTCATTTTGTGATAGAATCAAG
65 CATTCTGTGATGGAATCGAACGAGATGTCGA-TGTTGATCTACCTCCTTCTGTGATAGAATCGAG
1270412 CTAAA
129 CTAAA
* * * *
1270417 AGTTGACGATGATCCAACTCCTTCTGTGATGGATTTGAGCAAAAATTAAAATGTCGATCCACCTC
1 AGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTC
* * * * * * *
1270482 CTTCTATGATGTAATCGAATGAGATGTCGATGTTGATCTATCTCTTTCTGTGATAGAATCAAG-T
66 ATTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCT
1270546 AAAA
131 -AAA
* * * *
1270550 AGTTGACGCTGATCTAAATCCTTCTGCGATGAATTTGAGTGAAAATAAAAATGTCGATCCACCTC
1 AGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTC
* * * * *
1270615 CTTCTGTGATGAAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGATAAAATCGAGCA
66 ATTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCT
1270680 AAA
131 AAA
* *
1270683 AGTTGACGTTGATCCAACTCCTTCTACGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTC
1 AGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTC
* * ** * *
1270748 ATTCTATGATGAAAATTAAACGAGATGTCGGTGTTGATCTACCTCATTCTGTGATAGAATCGAGC
66 ATTCTGTGATG-GAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATCGAGC
*
1270813 AAAA
130 TAAA
* *
1270817 AGTTGACGCTGATCCAACTCTTTCTGCGATGGATTTGACCGAAAATAAAAATGTCGATCCACCTC
1 AGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTC
* *
1270882 ATTTTTTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATCGAGC-
66 ATTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCT
1270946 AAA
131 AAA
* * * *
1270949 CAGTTGACACTGATCCAACTCCTTCTGCGATGGATTTGAGCG-AAGT--AAATATCAATCCACCT
1 -AGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCT
* * * * * ** *
1271011 CATTCTGTGATGGAATCAAATGAGATGTCGGTGTTGATCTACCTCATTCTGTGGTAGAATAAAGA
65 CATTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATCGAGC
1271076 TAAA
130 TAAA
* *
1271080 AGTTGACGCTGATCCAACTTCTTCTGTGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTC
1 AGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTC
*
1271145 ATTCTGTGATAGAATCGAAC
66 ATTCTGTGATGGAATCGAAC
1271165 CAATGTTGAA
Statistics
Matches: 764, Mismatches: 99, Indels: 30
0.86 0.11 0.03
Matches are distributed among these distances:
130 213 0.28
131 11 0.01
132 12 0.02
133 406 0.53
134 122 0.16
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (133 bp):
AGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTC
ATTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCT
AAA
Found at i:1270943 original size:44 final size:44
Alignment explanation
Indices: 1270209--1270943 Score: 205
Period size: 44 Copynumber: 16.6 Consensus size: 44
1270199 TAAAAATGAC
* * *
1270209 GATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGTTGTT
1 GATCCACCTCCTTCTGTGATAGAATCGAACGAAATGTTGATGTT
* * * * * * *
1270253 GATCTACCTCCTTCTGCGATAGAATCGAGCTAAAAGTTTATGCT
1 GATCCACCTCCTTCTGTGATAGAATCGAACGAAATGTTGATGTT
* * * * * * * ** *
1270297 GATCCAACTCATTCTGCGATGGATTTGAGCG-AA-GTAAATGTC
1 GATCCACCTCCTTCTGTGATAGAATCGAACGAAATGTTGATGTT
* * * * * *
1270339 GATCCACATTCTTCTATGATGGAATCGAACGAGATG-TCAGTGTT
1 GATCCACCTCCTTCTGTGATAGAATCGAACGAAATGTTGA-TGTT
* * * * * *
1270383 GA-CCTACCTCATTTTGTGATAGAATC-AAGCTAAAAGTTGACGAT
1 GATCC-ACCTCCTTCTGTGATAGAATCGAA-CGAAATGTTGATGTT
* * * * * * ** *
1270427 GATCCAACTCCTTCTGTGATGGATTTGAGCAAAAAT-TAAAATGTC
1 GATCCACCTCCTTCTGTGATAGAATCGAAC-GAAATGT-TGATGTT
* * * *
1270472 GATCCACCTCCTTCTATGAT-GTAATCGAATGAGATGTCGATGTT
1 GATCCACCTCCTTCTGTGATAG-AATCGAACGAAATGTTGATGTT
* * * * * *
1270516 GATCTATCTCTTTCTGTGATAGAATC-AA-GTAAAAAGTTGACGCT
1 GATCCACCTCCTTCTGTGATAGAATCGAACG--AAATGTTGATGTT
* ** * * ** **** *
1270560 GATCTAAATCCTTCTGCGAT-GAATTTGAGTGAAAATAAAAATGTC
1 GATCCACCTCCTTCTGTGATAGAA-TCGAACG-AAATGTTGATGTT
* * *
1270605 GATCCACCTCCTTCTGTGAT-GAAATCGAACGAGATGTCGATGCT
1 GATCCACCTCCTTCTGTGATAG-AATCGAACGAAATGTTGATGTT
* * * * * *
1270649 GATCTACCTCCTTCTGTGATAAAATCGAGCAAAAAGTTGACGTT
1 GATCCACCTCCTTCTGTGATAGAATCGAACGAAATGTTGATGTT
* ** * * * * **** *
1270693 GATCCAACTCCTTCTACGATGGATTTGAGCGAAAATAAAAATGTC
1 GATCCACCTCCTTCTGTGATAGAATCGAACG-AAATGTTGATGTT
* * * ** * * *
1270738 GATCCACCTCATTCTATGATGAAAATTAAACGAGATGTCGGTGTT
1 GATCCACCTCCTTCTGTGAT-AGAATCGAACGAAATGTTGATGTT
* * * * * * *
1270783 GATCTACCTCATTCTGTGATAGAATCGAGCAAAAAGTTGACGCT
1 GATCCACCTCCTTCTGTGATAGAATCGAACGAAATGTTGATGTT
* * * * * * * **** *
1270827 GATCCAACTCTTTCTGCGATGGATTTGACCGAAAATAAAAATGTC
1 GATCCACCTCCTTCTGTGATAGAATCGAACG-AAATGTTGATGTT
* * * * * *
1270872 GATCCACCTCATTTTTTGATGGAATCGAACGAGATGTCGATGTT
1 GATCCACCTCCTTCTGTGATAGAATCGAACGAAATGTTGATGTT
*
1270916 GATCTACCTCCTTCTGTGATAGAATCGA
1 GATCCACCTCCTTCTGTGATAGAATCGA
1270944 GCAAACAGTT
Statistics
Matches: 471, Mismatches: 197, Indels: 46
0.66 0.28 0.06
Matches are distributed among these distances:
42 28 0.06
43 13 0.03
44 284 0.60
45 137 0.29
46 9 0.02
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (44 bp):
GATCCACCTCCTTCTGTGATAGAATCGAACGAAATGTTGATGTT
Found at i:1271162 original size:263 final size:263
Alignment explanation
Indices: 1270154--1271164 Score: 1252
Period size: 263 Copynumber: 3.8 Consensus size: 263
1270144 TCTACGATGG
* ** *
1270154 AGTTGACGTTGATCCAACTTTTTCTGCGATGGATTTGAGTAAAAATAAAA-ATGACGATCCACCT
1 AGTTGACATTGATCCAACTCCTTCTGCGATGGATTTGAG-CAAAATAAAATAT--CGATCCACCT
* * * * * * * * *
1270218 CCTTCTGTGATGGAATCGAACGAGATGTTGTTGTTGATCTACCTCCTTCTGCGATAGAATCGAGC
63 CATTCTATGATGGAATCAAACGAGATGTCGGTGTTGATCTACCTCATTCTGTGATAGAATCAAGA
* * *
1270283 TAAAAGTTTATGCTGATCCAACTCATTCTGCGATGGATTTGAGCG-AAGT--AAATGTCGATCCA
128 TAAAAGTTGACGCTGATCCAACTCATTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCA
* * * * *
1270345 CATTC-TTCTATGATGGAATCGAACGAGATGTC-AGTGTTGACCTACCTCATTTTGTGATAGAAT
193 C-CTCATTCTGTGATGGAATCGAACGAGATGTCGA-TGTTGATCTACCTCCTTCTGTGATAGAAT
*
1270408 CAAGCTAAA
256 CGAGC-AAA
* *
1270417 AGTTGACGA-TGATCCAACTCCTTCTGTGATGGATTTGAGCAAAAATTAAAATGTCGATCCACCT
1 AGTTGAC-ATTGATCCAACTCCTTCTGCGATGGATTTGAGC-AAAA-TAAAATATCGATCCACCT
* * * * * * *
1270481 CCTTCTATGATGTAATCGAATGAGATGTCGATGTTGATCTATCTCTTTCTGTGATAGAATCAAG-
63 CATTCTATGATGGAATCAAACGAGATGTCGGTGTTGATCTACCTCATTCTGTGATAGAATCAAGA
* * * * *
1270545 TAAAAAGTTGACGCTGATCTAAATCCTTCTGCGATGAATTTGAGTGAAAATAAAAATGTCGATCC
128 T-AAAAGTTGACGCTGATCCAACTCATTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCC
* * * *
1270610 ACCTCCTTCTGTGATGAAATCGAACGAGATGTCGATGCTGATCTACCTCCTTCTGTGATAAAATC
192 ACCTCATTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATC
1270675 GAGCAAAA
257 GAGC-AAA
* * *
1270683 AGTTGACGTTGATCCAACTCCTTCTACGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTC
1 AGTTGACATTGATCCAACTCCTTCTGCGATGGATTTGAGC-AAAAT-AAAATATCGATCCACCTC
* * *
1270748 ATTCTATGATGAAAATTAAACGAGATGTCGGTGTTGATCTACCTCATTCTGTGATAGAATCGAGC
64 ATTCTATGATG-GAATCAAACGAGATGTCGGTGTTGATCTACCTCATTCTGTGATAGAATCAAG-
* *
1270813 A-AAAAGTTGACGCTGATCCAACTCTTTCTGCGATGGATTTGACCGAAAATAAAAATGTCGATCC
127 ATAAAAGTTGACGCTGATCCAACTCATTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCC
* *
1270877 ACCTCATTTTTTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATC
192 ACCTCATTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATC
1270942 GAGCAAA
257 GAGCAAA
* * * *
1270949 CAGTTGACACTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAGT-AAATATCAATCCACCTCA
1 -AGTTGACATTGATCCAACTCCTTCTGCGATGGATTTGAGCAAAATAAAATATCGATCCACCTCA
* * * *
1271013 TTCTGTGATGGAATCAAATGAGATGTCGGTGTTGATCTACCTCATTCTGTGGTAGAATAAAGATA
65 TTCTATGATGGAATCAAACGAGATGTCGGTGTTGATCTACCTCATTCTGTGATAGAATCAAGATA
*
1271078 AAAGTTGACGCTGATCCAACTTC-TTCTGTGATGGATTTGAGCGAAAATAAAAATGTCGATCCAC
130 AAAGTTGACGCTGATCCAAC-TCATTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCAC
*
1271142 CTCATTCTGTGATAGAATCGAAC
194 CTCATTCTGTGATGGAATCGAAC
1271165 CAATGTTGAA
Statistics
Matches: 653, Mismatches: 77, Indels: 36
0.85 0.10 0.05
Matches are distributed among these distances:
262 2 0.00
263 266 0.41
264 35 0.05
265 4 0.01
266 144 0.22
267 202 0.31
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (263 bp):
AGTTGACATTGATCCAACTCCTTCTGCGATGGATTTGAGCAAAATAAAATATCGATCCACCTCAT
TCTATGATGGAATCAAACGAGATGTCGGTGTTGATCTACCTCATTCTGTGATAGAATCAAGATAA
AAGTTGACGCTGATCCAACTCATTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCT
CATTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATCGAGC
AAA
Found at i:1271347 original size:91 final size:91
Alignment explanation
Indices: 1271164--1271517 Score: 514
Period size: 91 Copynumber: 3.9 Consensus size: 91
1271154 TAGAATCGAA
*
1271164 CCAATGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTC-TGTCGGATGAGTTCTTCTCA
1 CCAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCAT-T-GGATGAGTTCTTCTCA
* * * *
1271228 TTATGAACTCTCAACTGGAAATA-CTGAG
64 TTATGAACTATCCACTAGAAA-AGATGAG
* * * *
1271256 CCAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCATTGGATGAGTTCTTCTCATT
1 CCAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATT
1271321 ATGAACTATCCACTAGAAAAGATGAG
66 ATGAACTATCCACTAGAAAAGATGAG
* * *
1271347 CCAAGATTGAACAAGTTATTCTCATTATAAACTTCTTCTCCCTCATTGGATGAATTCTTCTCATT
1 CCAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATT
* * *
1271412 ATGAACTTTCCACTAGAAATGTTGAG
66 ATGAACTATCCACTAGAAAAGATGAG
* *
1271438 CCAAGGTTGAACAAGTTATTCTCATTATGAAATTATTCTCCCTCATTGGATGAGTTCTTCTCATT
1 CCAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATT
1271503 ATGAACTATCCACTA
66 ATGAACTATCCACTA
1271518 ACAATGTTGA
Statistics
Matches: 235, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
90 1 0.00
91 193 0.82
92 40 0.17
93 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (91 bp):
CCAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATT
ATGAACTATCCACTAGAAAAGATGAG
Found at i:1272004 original size:66 final size:66
Alignment explanation
Indices: 1271955--1272112 Score: 178
Period size: 67 Copynumber: 2.4 Consensus size: 66
1271945 TGTCTATAGG
* *
1271955 GAGACAAAATTCAG-TTCAAGGGAAACGATCTCAAAGATCAGTGTTTCAAGGAAAACTGTCTCAA
1 GAGACAAAACTC-GTTTCAAGGGAAACGACCTCAAAGATCAGTGTTTCAAGGAAAACTGTCTCAA
1272019 GA
65 GA
***
1272021 GAGACAAAACTCGTTTCAAGGGAAACGACCTCAAAGATTTTCTGTTTCAAGAGAAAA-TGTCTCA
1 GAGACAAAACTCGTTTCAAGGGAAACGACCTCAAAGA-TCAGTGTTTCAAG-GAAAACTGTCTCA
*
1272085 AGG
64 AGA
* * *
1272088 GATG-CAAAATTTGTTTCAAGAGAAA
1 GA-GACAAAACTCGTTTCAAGGGAAA
1272113 TATATTCAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
65 1 0.01
66 33 0.42
67 39 0.49
68 6 0.08
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (66 bp):
GAGACAAAACTCGTTTCAAGGGAAACGACCTCAAAGATCAGTGTTTCAAGGAAAACTGTCTCAAG
A
Found at i:1272096 original size:67 final size:67
Alignment explanation
Indices: 1271918--1272112 Score: 220
Period size: 66 Copynumber: 2.9 Consensus size: 67
1271908 GAAAACATAA
* * *
1271918 TCAAAGGTTTTGTGTTTCAAGAGGAATTGTCT-ATAGGGAGACAAAATTCAG-TTCAAGGGAAAC
1 TCAAAGATTTTGTGTTTCAAGAGAAAATGTCTCA-AGGGAGACAAAATTC-GTTTCAAGGGAAAC
*
1271981 GATC
64 GACC
** * *
1271985 TCAAAGA-TCAGTGTTTCAAG-GAAAACTGTCTCAAGAGAGACAAAACTCGTTTCAAGGGAAACG
1 TCAAAGATTTTGTGTTTCAAGAGAAAA-TGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACG
1272048 ACC
65 ACC
* * *
1272051 TCAAAGATTTTCTGTTTCAAGAGAAAATGTCTCAAGGGATG-CAAAATTTGTTTCAAGAGAAA
1 TCAAAGATTTTGTGTTTCAAGAGAAAATGTCTCAAGGGA-GACAAAATTCGTTTCAAGGGAAA
1272113 TATATTCAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
65 4 0.04
66 51 0.48
67 46 0.43
68 6 0.06
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (67 bp):
TCAAAGATTTTGTGTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACGA
CC
Found at i:1272295 original size:37 final size:37
Alignment explanation
Indices: 1272229--1272338 Score: 141
Period size: 37 Copynumber: 3.0 Consensus size: 37
1272219 CAAAGGTTGG
* * *
1272229 TGTTTCAAGTAAAAA-TGTCTCAAACGAGACGAAATT
1 TGTTTTAAGTAAAAATTGTCTCAAAAGAGACAAAATT
* * *
1272265 TGTTTTAAGAAAAAATTATCTCAAAAGAGACAAAACT
1 TGTTTTAAGTAAAAATTGTCTCAAAAGAGACAAAATT
* *
1272302 TGTTTTGAGTAAAAATTGTCTCAAATGAGACAAAATT
1 TGTTTTAAGTAAAAATTGTCTCAAAAGAGACAAAATT
1272339 CATTTTTTTG
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
36 13 0.21
37 49 0.79
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.30
Consensus pattern (37 bp):
TGTTTTAAGTAAAAATTGTCTCAAAAGAGACAAAATT
Found at i:1272532 original size:90 final size:90
Alignment explanation
Indices: 1272377--1272864 Score: 715
Period size: 90 Copynumber: 5.4 Consensus size: 90
1272367 CCTAAAAATC
* * * * * * *
1272377 AGGCTTAATTTTTAAAAACACATTTAAAAACATCATGCACTGAAGGTATTACGGATGGCCCGAAG
1 AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAG
*
1272442 GACTTACAAATCAAGAAACCCCCAA
66 GACTTACAAATCAAGAAACCCCCGA
* * * * *
1272467 AGGCTTAGTTTCTAAAATCTAATTTGAAAACATCCTACACTGAAGGTCTTATGGATAGCCTGAAG
1 AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAG
*
1272532 GACTTACAAATCAAGAAACCCCCAA
66 GACTTACAAATCAAGAAACCCCCGA
* * * * *
1272557 AGGCTTAGTTTATAAAATCTCATTTGAAAAACATCCTGCATTGAAGGTTTTATGGATGGTCCGAA
1 AGGCTTAGTTTCTAAAATCTCATTTG-AAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAA
*
1272622 GGACTTACAAATGAAGAAACCCCCGA
65 GGACTTACAAATCAAGAAACCCCCGA
* *
1272648 AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGAATGGCCTGAAG
1 AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAG
* *
1272713 GACTTACAAATGAAGAAATCCCCGA
66 GACTTACAAATCAAGAAACCCCCGA
* *
1272738 AGGCTTAGTATCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCAAAG
1 AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAG
*
1272803 GACTTACAAATCATGAAACCCCCGA
66 GACTTACAAATCAAGAAACCCCCGA
*
1272828 AGGCTTAATTTCTAAAATCTCATTTGAAAACATCATG
1 AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCATG
1272865 TTGTTTGAGT
Statistics
Matches: 358, Mismatches: 39, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
90 277 0.77
91 81 0.23
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (90 bp):
AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAG
GACTTACAAATCAAGAAACCCCCGA
Found at i:1272711 original size:181 final size:181
Alignment explanation
Indices: 1272377--1272864 Score: 737
Period size: 181 Copynumber: 2.7 Consensus size: 181
1272367 CCTAAAAATC
* * * * *
1272377 AGGCTTAATTTTTAAAAACACATTT-AAAAACATCATGCACTGAAGGTATTACGGATGGCCCGAA
1 AGGCTTAGTTTATAAAATCTCATTTGAAAAACATCATGCACTGAAGGTATTATGGATGGCCCGAA
* * * *
1272441 GGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATCTAATTTGAAAACATCCTACA
66 GGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCATGCA
*
1272506 CTGAAGGTCTTATGGATAGCCTGAAGGACTTACAAATCAAGAAACCCCCAA
131 CTGAAGGTCTTATGAATAGCCTGAAGGACTTACAAATCAAGAAACCCCCAA
* * * *
1272557 AGGCTTAGTTTATAAAATCTCATTTGAAAAACATCCTGCATTGAAGGTTTTATGGATGGTCCGAA
1 AGGCTTAGTTTATAAAATCTCATTTGAAAAACATCATGCACTGAAGGTATTATGGATGGCCCGAA
*
1272622 GGACTTACAAATGAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCATGCA
66 GGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCATGCA
* * * *
1272687 CTGAAGGTCTTATGAATGGCCTGAAGGACTTACAAATGAAGAAATCCCCGA
131 CTGAAGGTCTTATGAATAGCCTGAAGGACTTACAAATCAAGAAACCCCCAA
* * * *
1272738 AGGCTTAGTATCTAAAATCTCATTTG-AAAACATCATGCACTGAAGGTCTTATGGATGGCCCAAA
1 AGGCTTAGTTTATAAAATCTCATTTGAAAAACATCATGCACTGAAGGTATTATGGATGGCCCGAA
* *
1272802 GGACTTACAAATCATGAAACCCCCGAAGGCTTAATTTCTAAAATCTCATTTGAAAACATCATG
66 GGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCATG
1272865 TTGTTTGAGT
Statistics
Matches: 278, Mismatches: 29, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
180 114 0.41
181 164 0.59
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (181 bp):
AGGCTTAGTTTATAAAATCTCATTTGAAAAACATCATGCACTGAAGGTATTATGGATGGCCCGAA
GGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCATGCA
CTGAAGGTCTTATGAATAGCCTGAAGGACTTACAAATCAAGAAACCCCCAA
Found at i:1274866 original size:15 final size:15
Alignment explanation
Indices: 1274848--1274876 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1274838 ATTTTTTTTC
1274848 TTTTTTATTTATTTA
1 TTTTTTATTTATTTA
1274863 TTTTTTATTTATTT
1 TTTTTTATTTATTT
1274877 TTTCTTTTTT
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:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTATTTATTTA
Found at i:1274869 original size:11 final size:10
Alignment explanation
Indices: 1274839--1274888 Score: 55
Period size: 11 Copynumber: 4.7 Consensus size: 10
1274829 TTTCTCTCTA
*
1274839 TTTTTTTTCT
1 TTTTTTTTAT
1274849 TTTTTATTTAT
1 TTTTT-TTTAT
1274860 TTATTTTTTAT
1 TT-TTTTTTAT
*
1274871 TTATTTTTTCT
1 TT-TTTTTTAT
1274882 TTTTTTT
1 TTTTTTT
1274889 CTTTTCTCTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
10 10 0.28
11 23 0.64
12 3 0.08
ACGTcount: A:0.10, C:0.04, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:1275310 original size:3 final size:3
Alignment explanation
Indices: 1275302--1275348 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
1275292 TTTCATTTAT
*
1275302 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TAC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1275349 GCCTCCAGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:1276151 original size:15 final size:15
Alignment explanation
Indices: 1276130--1276166 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
1276120 CAATATGGGT
1276130 ATGCAAAAATGCGAG
1 ATGCAAAAATGCGAG
*
1276145 GTGCAAAAATGCGAG
1 ATGCAAAAATGCGAG
1276160 ATGCAAA
1 ATGCAAA
1276167 TGCAACCCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.14, G:0.27, T:0.14
Consensus pattern (15 bp):
ATGCAAAAATGCGAG
Found at i:1280093 original size:28 final size:28
Alignment explanation
Indices: 1280048--1280101 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
1280038 TGGGTGGCAA
1280048 TGGCAACAACAAGGGGACATAGGATGGC
1 TGGCAACAACAAGGGGACATAGGATGGC
** *
1280076 TGGCAACAGTAAGTGGACATAGGATG
1 TGGCAACAACAAGGGGACATAGGATG
1280102 CCTGACAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.35, C:0.15, G:0.35, T:0.15
Consensus pattern (28 bp):
TGGCAACAACAAGGGGACATAGGATGGC
Found at i:1283510 original size:67 final size:67
Alignment explanation
Indices: 1283427--1283560 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
1283417 GTTCATATGG
1283427 AAAGCTGCATGTTTTTTCTTTTGGTTTCAGGGGACGTCACTCGTGTTGACGGTCAGTTAGCGGTG
1 AAAGCTGCATGTTTTTTCTTTTGGTTTCAGGGGACGTCACTCGTGTTGACGGTCAGTTAGCGGTG
1283492 GC
66 GC
1283494 AAAGCTGCATGTTTTTTCTTTTGGTTTCAGGGGACGTCACTCGTGTTGACGGTCAGTTAGCGGTG
1 AAAGCTGCATGTTTTTTCTTTTGGTTTCAGGGGACGTCACTCGTGTTGACGGTCAGTTAGCGGTG
1283559 GC
66 GC
1283561 CAGGGCATTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.15, C:0.18, G:0.31, T:0.36
Consensus pattern (67 bp):
AAAGCTGCATGTTTTTTCTTTTGGTTTCAGGGGACGTCACTCGTGTTGACGGTCAGTTAGCGGTG
GC
Found at i:1287106 original size:20 final size:19
Alignment explanation
Indices: 1287083--1287222 Score: 122
Period size: 20 Copynumber: 7.0 Consensus size: 19
1287073 AATATGTAAA
*
1287083 TCGCAATACAGAAGTCAAAT
1 TCGCAACAC-GAAGTCAAAT
**
1287103 TCGCAACGTGAAAGTCAAAT
1 TCGCAACACG-AAGTCAAAT
*
1287123 TCGCAACGCGATAGTCAAAT
1 TCGCAACACGA-AGTCAAAT
*
1287143 TCGCAATACGAATTTGT-AAA-
1 TCGCAACACGAA---GTCAAAT
*
1287163 TCGCAACACAGGAGTCAAAT
1 TCGCAACAC-GAAGTCAAAT
*
1287183 TCGCAACACGGTAGTCAAAT
1 TCGCAACAC-GAAGTCAAAT
1287203 TCGCAACACGAAAGTCAAAT
1 TCGCAACACG-AAGTCAAAT
1287223 GTTTTTACGC
Statistics
Matches: 100, Mismatches: 11, Indels: 18
0.78 0.09 0.14
Matches are distributed among these distances:
18 2 0.02
19 7 0.07
20 84 0.84
21 5 0.05
22 2 0.02
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (19 bp):
TCGCAACACGAAGTCAAAT
Found at i:1287106 original size:40 final size:40
Alignment explanation
Indices: 1287062--1287222 Score: 140
Period size: 40 Copynumber: 4.0 Consensus size: 40
1287052 AGTTTCCAAT
*
1287062 TTCGCAACTCGAATATGTAAATCGCAATACAGAAGTCAAA
1 TTCGCAACTCGAATATGTAAATCGCAACACAGAAGTCAAA
*
1287102 TTCGCAACGT-GAA-A-GTCAAATTCGCAACGC-GATAGTCAAA
1 TTCGCAAC-TCGAATATGT-AAA-TCGCAACACAGA-AGTCAAA
* *
1287142 TTCGCAA-TACGAATTTGTAAATCGCAACACAGGAGTCAAA
1 TTCGCAACT-CGAATATGTAAATCGCAACACAGAAGTCAAA
* *
1287182 TTCGCAACACG-GTA-GTCAAATTCGCAACAC-GAAAGTCAAA
1 TTCGCAACTCGAATATGT-AAA-TCGCAACACAG-AAGTCAAA
1287222 T
1 T
1287223 GTTTTTACGC
Statistics
Matches: 99, Mismatches: 9, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
38 5 0.05
39 11 0.11
40 76 0.77
41 5 0.05
42 2 0.02
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (40 bp):
TTCGCAACTCGAATATGTAAATCGCAACACAGAAGTCAAA
Found at i:1287155 original size:80 final size:80
Alignment explanation
Indices: 1287062--1287222 Score: 225
Period size: 80 Copynumber: 2.0 Consensus size: 80
1287052 AGTTTCCAAT
* **
1287062 TTCGCAACTCGAATATGTAAATCGCAATACAGAAGTCAAATTCGCAACGTGAAAGTCAAATTCGC
1 TTCGCAACTCGAATATGTAAATCGCAACACAGAAGTCAAATTCGCAACACGAAAGTCAAATTCGC
* *
1287127 AACGCGATAGTCAAA
66 AACACGAAAGTCAAA
* * **
1287142 TTCGCAA-TACGAATTTGTAAATCGCAACACAGGAGTCAAATTCGCAACACGGTAGTCAAATTCG
1 TTCGCAACT-CGAATATGTAAATCGCAACACAGAAGTCAAATTCGCAACACGAAAGTCAAATTCG
1287206 CAACACGAAAGTCAAA
65 CAACACGAAAGTCAAA
1287222 T
1 T
1287223 GTTTTTACGC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
79 1 0.01
80 70 0.99
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (80 bp):
TTCGCAACTCGAATATGTAAATCGCAACACAGAAGTCAAATTCGCAACACGAAAGTCAAATTCGC
AACACGAAAGTCAAA
Found at i:1287812 original size:20 final size:20
Alignment explanation
Indices: 1287700--1287801 Score: 170
Period size: 20 Copynumber: 5.2 Consensus size: 20
1287690 AATCACAACA
* *
1287700 CGATTTT-AGTTTCGCGTTG
1 CGATTTTCATTTTCGCATTG
1287719 CGATTTTCATTTTCGCATTG
1 CGATTTTCATTTTCGCATTG
1287739 CGATTTTCATTTTCGCATTG
1 CGATTTTCATTTTCGCATTG
1287759 CGATTTTCATTTTCGCATTG
1 CGATTTTCATTTTCGCATTG
*
1287779 CGATTTTCATTTTCGCGTTG
1 CGATTTTCATTTTCGCATTG
1287799 CGA
1 CGA
1287802 ATTTAAGTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
19 7 0.09
20 72 0.91
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.48
Consensus pattern (20 bp):
CGATTTTCATTTTCGCATTG
Found at i:1289946 original size:21 final size:21
Alignment explanation
Indices: 1289905--1290003 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
1289895 GATGCACCTA
* **
1289905 TCATCATTCAAGAGGTGCCTC
1 TCATCGTTCAAGAGGCCCCTC
1289926 -CTATCGTTCAAGAGGCCCCTC
1 TC-ATCGTTCAAGAGGCCCCTC
* *
1289947 TCATC-ATCGAAGAAGCCCCTC
1 TCATCGTTC-AAGAGGCCCCTC
* * * *
1289968 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
1289989 TCATCGTTCAAGAGG
1 TCATCGTTCAAGAGG
1290004 TCCCGCCCGC
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
20 3 0.05
21 55 0.90
22 3 0.05
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:1289952 original size:42 final size:42
Alignment explanation
Indices: 1289905--1290023 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 42
1289895 GATGCACCTA
* * * *
1289905 TCATCATTCAAGAGGTGCCTCCTATCGTTCAAGAGGCCCCTC
1 TCATCATTCAAGAGGTCCCTCCCACCGTTCAAGAGGCCACTC
* * *
1289947 TCATCA-TCGAAGAAGCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATCATTC-AAGAGGTCCCTCCCACCGTTCAAGAGGCCACTC
* * * *
1289989 TCATCGTTCAAGAGGTCCCGCCCGCCGTTTAAGAG
1 TCATCATTCAAGAGGTCCCTCCCACCGTTCAAGAG
1290024 CCCGATTAAC
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
41 2 0.03
42 58 0.94
43 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.22
Consensus pattern (42 bp):
TCATCATTCAAGAGGTCCCTCCCACCGTTCAAGAGGCCACTC
Found at i:1291481 original size:61 final size:62
Alignment explanation
Indices: 1291381--1291520 Score: 194
Period size: 66 Copynumber: 2.2 Consensus size: 62
1291371 TTTTACATTG
*
1291381 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGATTTA-TTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTA
* * *
1291441 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTA--TTTTT-CTTGATTAATTGATTTGT
1291506 A
62 A
1291507 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
1291521 GTTTCTAAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
60 17 0.24
61 18 0.26
64 4 0.06
66 31 0.44
ACGTcount: A:0.31, C:0.01, G:0.18, T:0.51
Consensus pattern (62 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTA
Found at i:1291688 original size:20 final size:20
Alignment explanation
Indices: 1291637--1291688 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
1291627 GATTTTCGGT
* *
1291637 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGGCTTTCGCA
1291657 TTGCGAATTTGGCTTTCGCA
1 TTGCGAATTTGGCTTTCGCA
1291677 TTGCGAATTTGG
1 TTGCGAATTTGG
1291689 TTATCGCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.15, C:0.17, G:0.27, T:0.40
Consensus pattern (20 bp):
TTGCGAATTTGGCTTTCGCA
Found at i:1291695 original size:20 final size:19
Alignment explanation
Indices: 1291637--1291696 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 19
1291627 GATTTTCGGT
* *
1291637 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTG-GTTTCGCA
1291657 TTGCGAATTTGGCTTTCGCA
1 TTGCGAATTTGG-TTTCGCA
1291677 TTGCGAATTTGGTTATCGCA
1 TTGCGAATTTGGTT-TCGCA
1291697 ACGCTTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.06
20 34 0.94
ACGTcount: A:0.17, C:0.18, G:0.25, T:0.40
Consensus pattern (19 bp):
TTGCGAATTTGGTTTCGCA
Found at i:1291963 original size:39 final size:39
Alignment explanation
Indices: 1291909--1291995 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
1291899 TCAAGTTGTA
*
1291909 GATTTTGATTTCCTTTTGCTTGGCACCATATGATAATTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGAATTG
**
1291948 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGAATTG
1291987 GATTTTGAT
1 GATTTTGAT
1291996 GAGCATCGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.18, C:0.15, G:0.20, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGAATTG
Found at i:1292329 original size:18 final size:18
Alignment explanation
Indices: 1292306--1292342 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1292296 CTAAATTTAT
1292306 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1292324 ATTGAAATTGAAATTCAA
1 ATTGAAATTCAAACTCAA
1292342 A
1 A
1292343 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1292848 original size:20 final size:20
Alignment explanation
Indices: 1292825--1292897 Score: 68
Period size: 20 Copynumber: 4.0 Consensus size: 20
1292815 TTTTCGGTTT
1292825 GCGAATTTGACTTTCGCGTC
1 GCGAATTTGACTTTCGCGTC
* **
1292845 GCGAATTTGACTATCGCAAC
1 GCGAATTTGACTTTCGCGTC
*
1292865 GC----TT-A-TTTCGCGTT
1 GCGAATTTGACTTTCGCGTC
1292879 GCGAATTTGACTTTCGCGT
1 GCGAATTTGACTTTCGCGT
1292898 TGATCGCAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
14 7 0.17
15 1 0.03
16 2 0.05
18 2 0.05
19 1 0.03
20 27 0.68
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (20 bp):
GCGAATTTGACTTTCGCGTC
Found at i:1293208 original size:18 final size:18
Alignment explanation
Indices: 1293185--1293220 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1293175 AAGCCGGTTG
*
1293185 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
1293203 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
1293221 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:1296476 original size:19 final size:19
Alignment explanation
Indices: 1296429--1296518 Score: 83
Period size: 19 Copynumber: 4.7 Consensus size: 19
1296419 AACTAAAACA
* *
1296429 TGTTGCGAAATTAAATTCG
1 TGTTGCGAATTTAACTTCG
* *
1296448 CGTTGCGAATTTAACTTTG
1 TGTTGCGAATTTAACTTCG
*
1296467 TGTTGCGAATTTGACTATCG
1 TGTTGCGAATTTAACT-TCG
* * *
1296487 CGTTGCGGATTTGACTTCTG
1 TGTTGCGAATTTAACTTC-G
1296507 TGTTGC-AATTTA
1 TGTTGCGAATTTA
1296519 CAGATTCGCG
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
19 35 0.61
20 22 0.39
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.41
Consensus pattern (19 bp):
TGTTGCGAATTTAACTTCG
Found at i:1296493 original size:20 final size:19
Alignment explanation
Indices: 1296430--1296539 Score: 80
Period size: 19 Copynumber: 5.6 Consensus size: 19
1296420 ACTAAAACAT
* * *
1296430 GTTGCGAAATTAAATTCGC
1 GTTGCGAATTTGACTTCGC
* * *
1296449 GTTGCGAATTTAACTTTGT
1 GTTGCGAATTTGACTTCGC
1296468 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACT-TCGC
* *
1296488 GTTGCGGATTTGACTTCTGT
1 GTTGCGAATTTGACTTC-GC
1296508 GTTGC-AATTT-ACAGATTCGC
1 GTTGCGAATTTGAC---TTCGC
*
1296528 GTTGTGAATTTG
1 GTTGCGAATTTG
1296540 GAAACTAGGT
Statistics
Matches: 72, Mismatches: 12, Indels: 11
0.76 0.13 0.12
Matches are distributed among these distances:
18 2 0.03
19 35 0.49
20 27 0.38
21 8 0.11
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.40
Consensus pattern (19 bp):
GTTGCGAATTTGACTTCGC
Found at i:1296539 original size:40 final size:40
Alignment explanation
Indices: 1296443--1296539 Score: 119
Period size: 39 Copynumber: 2.5 Consensus size: 40
1296433 GCGAAATTAA
* *
1296443 ATTCGCGTTGCGAATTTAACTTTGTGTTGCGAATTTGACT
1 ATTCGCGTTGCGAATTTGACTTTGTGTTGCGAATTTGACG
*
1296483 A-TCGCGTTGCGGATTTGACTTCTGTGTTGC-AATTT-ACAG
1 ATTCGCGTTGCGAATTTGACTT-TGTGTTGCGAATTTGAC-G
*
1296522 ATTCGCGTTGTGAATTTG
1 ATTCGCGTTGCGAATTTG
1296540 GAAACTAGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.04
39 24 0.49
40 23 0.47
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.41
Consensus pattern (40 bp):
ATTCGCGTTGCGAATTTGACTTTGTGTTGCGAATTTGACG
Found at i:1297534 original size:23 final size:20
Alignment explanation
Indices: 1297508--1297559 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 20
1297498 CATTTATAAT
1297508 TTAATGATTTTATATAATCTTAA
1 TTAATGATTTT-T-TAAT-TTAA
1297531 TTAAT--TCTTTTTAATTTAA
1 TTAATGAT-TTTTTAATTTAA
1297550 TTAATGATTT
1 TTAATGATTT
1297560 CATTTTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
19 9 0.35
20 6 0.23
21 3 0.12
22 3 0.12
23 5 0.19
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (20 bp):
TTAATGATTTTTTAATTTAA
Found at i:1298832 original size:11 final size:11
Alignment explanation
Indices: 1298816--1298891 Score: 66
Period size: 11 Copynumber: 6.6 Consensus size: 11
1298806 AAAAATTAGG
1298816 AGCTCGATTGA
1 AGCTCGATTGA
*
1298827 AGCTCGAGACTCG-
1 AGCTC--GA-TTGA
1298840 AGCTCGATTGA
1 AGCTCGATTGA
1298851 AGCTCGATTTTG-
1 AGCTCGA--TTGA
1298863 AGCTCGATTGA
1 AGCTCGATTGA
* *
1298874 AGCTTGATTCA
1 AGCTCGATTGA
1298885 AGCTCGA
1 AGCTCGA
1298892 ATTCAAACTC
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
10 5 0.09
11 29 0.55
12 7 0.13
13 10 0.19
14 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (11 bp):
AGCTCGATTGA
Found at i:1298844 original size:24 final size:23
Alignment explanation
Indices: 1298815--1298877 Score: 90
Period size: 24 Copynumber: 2.7 Consensus size: 23
1298805 AAAAAATTAG
1298815 GAGCTCGATTGAAGCTCGAGACTC
1 GAGCTCGATTGAAGCTCGA-ACTC
** *
1298839 GAGCTCGATTGAAGCTCGATTTT
1 GAGCTCGATTGAAGCTCGAACTC
1298862 GAGCTCGATTGAAGCT
1 GAGCTCGATTGAAGCT
1298878 TGATTCAAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
23 17 0.47
24 19 0.53
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (23 bp):
GAGCTCGATTGAAGCTCGAACTC
Found at i:1301867 original size:14 final size:14
Alignment explanation
Indices: 1301848--1301877 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1301838 TATAATTATC
*
1301848 AATAATGTATTTTT
1 AATAATGTAATTTT
1301862 AATAATGTAATTTT
1 AATAATGTAATTTT
1301876 AA
1 AA
1301878 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:1303021 original size:53 final size:53
Alignment explanation
Indices: 1302958--1303062 Score: 210
Period size: 53 Copynumber: 2.0 Consensus size: 53
1302948 AGAGTAGAGC
1302958 ATATAGAGGTCCGCATCACTCTAATTGTATTGTTGGAGAAGAAGATTTTGGTG
1 ATATAGAGGTCCGCATCACTCTAATTGTATTGTTGGAGAAGAAGATTTTGGTG
1303011 ATATAGAGGTCCGCATCACTCTAATTGTATTGTTGGAGAAGAAGATTTTGGT
1 ATATAGAGGTCCGCATCACTCTAATTGTATTGTTGGAGAAGAAGATTTTGGT
1303063 CTTACTCCTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (53 bp):
ATATAGAGGTCCGCATCACTCTAATTGTATTGTTGGAGAAGAAGATTTTGGTG
Done.