Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold17
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: 1562583
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.27
Warning! 255143 characters in sequence are not A, C, G, or T
File 7 of 9
Found at i:1163091 original size:13 final size:13
Alignment explanation
Indices: 1163073--1163098 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1163063 ACATGCTGCT
1163073 TTGTATCGATACA
1 TTGTATCGATACA
1163086 TTGTATCGATACA
1 TTGTATCGATACA
1163099 GGTTCATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1163206 original size:13 final size:13
Alignment explanation
Indices: 1163185--1163215 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1163175 CAATACATGG
*
1163185 TACAATGTATCGA
1 TACATTGTATCGA
1163198 TACATTGTATCGA
1 TACATTGTATCGA
1163211 TACAT
1 TACAT
1163216 GAACAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1163214 original size:33 final size:33
Alignment explanation
Indices: 1163169--1163235 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
1163159 CTATCACTAT
*
1163169 TTGTATCAATACATGGTAC-AATGTATCGATACA
1 TTGTATCAATACAT-GAACAAATGTATCGATACA
*
1163202 TTGTATCGATACATGAACAAATGTATCGATACA
1 TTGTATCAATACATGAACAAATGTATCGATACA
1163235 T
1 T
1163236 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (33 bp):
TTGTATCAATACATGAACAAATGTATCGATACA
Found at i:1164652 original size:13 final size:13
Alignment explanation
Indices: 1164634--1164659 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1164624 CACCTTCAGA
1164634 TGTATCGATACAT
1 TGTATCGATACAT
1164647 TGTATCGATACAT
1 TGTATCGATACAT
1164660 GACCACTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1164764 original size:13 final size:13
Alignment explanation
Indices: 1164746--1164771 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1164736 ACATACAAGA
1164746 TGTATCGATACAT
1 TGTATCGATACAT
1164759 TGTATCGATACAT
1 TGTATCGATACAT
1164772 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1164787 original size:33 final size:32
Alignment explanation
Indices: 1164726--1164793 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
1164716 CCTTAACTAT
1164726 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
1164758 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
1164791 TTG
1 TTG
1164794 GGTTATAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 17 0.50
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:1166915 original size:34 final size:35
Alignment explanation
Indices: 1166877--1166943 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1166867 CCTTACAACA
1166877 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1166911 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1166944 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1167419 original size:13 final size:13
Alignment explanation
Indices: 1167401--1167426 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1167391 CAATTTTTTG
1167401 TGTATCGATACAT
1 TGTATCGATACAT
1167414 TGTATCGATACAT
1 TGTATCGATACAT
1167427 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1167491 original size:21 final size:21
Alignment explanation
Indices: 1167465--1167540 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1167455 CTGCCAAGAA
1167465 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1167486 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1167506 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1167527 ATGTATCGATACAT
1 ATGTATCGATACAT
1167541 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1167510 original size:20 final size:20
Alignment explanation
Indices: 1167485--1167558 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1167475 ACATCTTTTT
1167485 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
1167505 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
1167526 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1167546 CATGTATCGATAC
1 CATGTATCGATAC
1167559 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1167522 original size:41 final size:41
Alignment explanation
Indices: 1167465--1167558 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1167455 CTGCCAAGAA
1167465 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1167506 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1167547 ATGTATCGATAC
1 ATGTATCGATAC
1167559 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1168216 original size:21 final size:21
Alignment explanation
Indices: 1168175--1168218 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1168165 CTCCCCTTTA
* *
1168175 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1168196 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1168217 TC
1 TC
1168219 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1169388 original size:13 final size:13
Alignment explanation
Indices: 1169370--1169394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1169360 ACTGAAGCAA
1169370 TGTATCGATACAT
1 TGTATCGATACAT
1169383 TGTATCGATACA
1 TGTATCGATACA
1169395 ATCTGGAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1170007 original size:23 final size:24
Alignment explanation
Indices: 1169962--1170008 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1169952 CAAAGAATTG
*
1169962 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
1169986 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
1170009 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:1172592 original size:34 final size:35
Alignment explanation
Indices: 1172554--1172620 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1172544 CCTTACAACA
1172554 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1172588 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1172621 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1173096 original size:13 final size:13
Alignment explanation
Indices: 1173078--1173103 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1173068 CAATTTTTTG
1173078 TGTATCGATACAT
1 TGTATCGATACAT
1173091 TGTATCGATACAT
1 TGTATCGATACAT
1173104 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1173168 original size:21 final size:21
Alignment explanation
Indices: 1173142--1173217 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1173132 CTGCCAAGAA
1173142 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1173163 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1173183 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1173204 ATGTATCGATACAT
1 ATGTATCGATACAT
1173218 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1173187 original size:20 final size:20
Alignment explanation
Indices: 1173162--1173235 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1173152 ACATCTTTTT
1173162 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
1173182 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
1173203 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1173223 CATGTATCGATAC
1 CATGTATCGATAC
1173236 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1173199 original size:41 final size:41
Alignment explanation
Indices: 1173142--1173235 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1173132 CTGCCAAGAA
1173142 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1173183 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1173224 ATGTATCGATAC
1 ATGTATCGATAC
1173236 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1177876 original size:13 final size:13
Alignment explanation
Indices: 1177858--1177882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1177848 CAGCATTCTC
1177858 TGTATCGATACAG
1 TGTATCGATACAG
1177871 TGTATCGATACA
1 TGTATCGATACA
1177883 AAGGGTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1179806 original size:22 final size:24
Alignment explanation
Indices: 1179774--1179821 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
1179764 GTGATTAAAG
*
1179774 GAAA-TTGTTTT-ATTATGGGGGA
1 GAAATTTGTTTTGATTAAGGGGGA
*
1179796 GAAATTTTTTTTGATTAAGGGGGA
1 GAAATTTGTTTTGATTAAGGGGGA
1179820 GA
1 GA
1179822 GAAAAGGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 6 0.27
24 12 0.55
ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40
Consensus pattern (24 bp):
GAAATTTGTTTTGATTAAGGGGGA
Found at i:1180508 original size:13 final size:13
Alignment explanation
Indices: 1180490--1180514 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1180480 CATACAAGAC
1180490 GTATCGATACATT
1 GTATCGATACATT
1180503 GTATCGATACAT
1 GTATCGATACAT
1180515 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1180510 original size:32 final size:33
Alignment explanation
Indices: 1180469--1180536 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1180459 CCTTAACTGT
1180469 TTGTATCGATACAT-A-CAAGACGTATCGATACA
1 TTGTATCGATACATGACCAA-ACGTATCGATACA
*
1180501 TTGTATCGATACATGACCAAATGTATCGATACA
1 TTGTATCGATACATGACCAAACGTATCGATACA
1180534 TTG
1 TTG
1180537 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 16 0.48
34 3 0.09
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (33 bp):
TTGTATCGATACATGACCAAACGTATCGATACA
Found at i:1183873 original size:32 final size:33
Alignment explanation
Indices: 1183810--1183877 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1183800 CGTTACAAGC
* **
1183810 CAATGTATCGATACATTTTGTGGTGTATCGATA
1 CAATGTATCAATACATACTGTGGTGTATCGATA
1183843 CAATGTATCAATACATACTGT-GTGTATCGATA
1 CAATGTATCAATACATACTGTGGTGTATCGATA
1183875 CAA
1 CAA
1183878 ATTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCAATACATACTGTGGTGTATCGATA
Found at i:1183956 original size:20 final size:21
Alignment explanation
Indices: 1183909--1183961 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1183899 GCCAGTGACC
**
1183909 TGTATCGATACATTTTTTTCA
1 TGTATCGATACATTTTGGTCA
*
1183930 AGTATCGATACA-TTTGGTCA
1 TGTATCGATACATTTTGGTCA
1183950 TGTATCGATACA
1 TGTATCGATACA
1183962 ATGTATCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTTTGGTCA
Found at i:1183988 original size:20 final size:20
Alignment explanation
Indices: 1183963--1184013 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1183953 ATCGATACAA
*
1183963 TGTATCAATACAATGCAATC
1 TGTATCAATACAATGAAATC
* * * *
1183983 TGTATCGATACATTTAAATG
1 TGTATCAATACAATGAAATC
1184003 TGTATCAATAC
1 TGTATCAATAC
1184014 TTTTCAGGGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (20 bp):
TGTATCAATACAATGAAATC
Found at i:1185967 original size:20 final size:21
Alignment explanation
Indices: 1185928--1185970 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
1185918 TGCTAGTGTG
*
1185928 GGGGCTGCCTGGTTGCGACCT
1 GGGGCTGCCTGGTCGCGACCT
*
1185949 GGGGTTGCC-GGTCGCGACCT
1 GGGGCTGCCTGGTCGCGACCT
1185969 GG
1 GG
1185971 TGGGTGCTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.05, C:0.28, G:0.47, T:0.21
Consensus pattern (21 bp):
GGGGCTGCCTGGTCGCGACCT
Found at i:1186248 original size:20 final size:21
Alignment explanation
Indices: 1186219--1186259 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1186209 TATTTTTGTT
1186219 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
1186238 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
1186260 AAGAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:1186409 original size:13 final size:13
Alignment explanation
Indices: 1186391--1186429 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1186381 ATAATCCCCT
1186391 TGTATCGATACAG
1 TGTATCGATACAG
*
1186404 TGTATCGATACAA
1 TGTATCGATACAG
1186417 TGTATCGATACAG
1 TGTATCGATACAG
1186430 AGAATGCTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1186644 original size:8 final size:8
Alignment explanation
Indices: 1186631--1186660 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
1186621 AACATCATTC
1186631 ATCACAAA
1 ATCACAAA
1186639 ATCACAAA
1 ATCACAAA
1186647 ATCACAAA
1 ATCACAAA
1186655 ATCACA
1 ATCACA
1186661 CAATTAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (8 bp):
ATCACAAA
Found at i:1188644 original size:20 final size:20
Alignment explanation
Indices: 1188619--1188670 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
1188609 TACAAGCCAA
**
1188619 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
1188639 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
1188658 TGTATCGATACAA
1 TGTATCGATACAA
1188671 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:1189219 original size:40 final size:39
Alignment explanation
Indices: 1189173--1189253 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 39
1189163 TTTTCTTTCT
* *
1189173 CCCTTAACAAAAGTAATTTTAATAAATTCATACATTCTCC
1 CCCTTAACAAAA-TAAATTTAATAAATTCACACATTCTCC
* * * *
1189213 CCCTTAATAAGATAAATTTAGTAAATTTACACATTCTCC
1 CCCTTAACAAAATAAATTTAATAAATTCACACATTCTCC
1189252 CC
1 CC
1189254 TTTTAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
39 25 0.71
40 10 0.29
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (39 bp):
CCCTTAACAAAATAAATTTAATAAATTCACACATTCTCC
Found at i:1193198 original size:15 final size:15
Alignment explanation
Indices: 1193178--1193208 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1193168 ATTTCGTTTG
*
1193178 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1193193 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1193208 G
1 G
1193209 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1200791 original size:3 final size:3
Alignment explanation
Indices: 1200783--1200828 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
1200773 TCTGAGTCAC
* * *
1200783 CAT CAT CAT CAT CAT CAT CAT CTT CAT CAT CTT CAT CAT CTT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1200829 GTCCTTGATG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.39
Consensus pattern (3 bp):
CAT
Found at i:1200797 original size:9 final size:9
Alignment explanation
Indices: 1200783--1200828 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
1200773 TCTGAGTCAC
*
1200783 CATCATCAT
1 CATCTTCAT
*
1200792 CATCATCAT
1 CATCTTCAT
1200801 CATCTTCAT
1 CATCTTCAT
1200810 CATCTTCAT
1 CATCTTCAT
1200819 CATCTTCAT
1 CATCTTCAT
1200828 C
1 C
1200829 GTCCTTGATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.39
Consensus pattern (9 bp):
CATCTTCAT
Found at i:1202455 original size:13 final size:13
Alignment explanation
Indices: 1202437--1202462 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1202427 ACATTTTATG
1202437 ATGTATCGATACA
1 ATGTATCGATACA
1202450 ATGTATCGATACA
1 ATGTATCGATACA
1202463 TACTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1202457 original size:33 final size:32
Alignment explanation
Indices: 1202415--1202482 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
1202405 CGTTACAAGC
**
1202415 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATACTATG-TGTATCGATA
*
1202448 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
1202480 CAA
1 CAA
1202483 ATTGGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:1202561 original size:20 final size:21
Alignment explanation
Indices: 1202514--1202566 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1202504 GCCAATGACC
**
1202514 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
1202535 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
1202555 TGTATCGATACA
1 TGTATCGATACA
1202567 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:1202572 original size:13 final size:13
Alignment explanation
Indices: 1202554--1202582 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1202544 ACATTTGGTC
1202554 ATGTATCGATACA
1 ATGTATCGATACA
1202567 ATGTATCGATACA
1 ATGTATCGATACA
1202580 ATG
1 ATG
1202583 CAATCTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1202593 original size:20 final size:20
Alignment explanation
Indices: 1202568--1202618 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1202558 ATCGATACAA
*
1202568 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * * *
1202588 TGTATCAATACATTTAAATG
1 TGTATCGATACAATGAAATC
1202608 TGTATCGATAC
1 TGTATCGATAC
1202619 TTTTCAGGGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:1203341 original size:34 final size:34
Alignment explanation
Indices: 1203303--1203368 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
1203293 CTAAGGTACA
*
1203303 ATACTATCTTTTTGAAGGTTAAGATAAAACCTCT
1 ATACTATCTTTTTGAAGGCTAAGATAAAACCTCT
*
1203337 ATACTATCTTTTTGAAGGCTAAGATAGAACCT
1 ATACTATCTTTTTGAAGGCTAAGATAAAACCT
1203369 TTCAATTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (34 bp):
ATACTATCTTTTTGAAGGCTAAGATAAAACCTCT
Found at i:1203806 original size:20 final size:20
Alignment explanation
Indices: 1203780--1203858 Score: 88
Period size: 22 Copynumber: 3.8 Consensus size: 20
1203770 CTTTTGGGCT
1203780 AATGTATTGATACAATTCTGG
1 AATGTATTGATAC-ATTCTGG
*
1203801 -ATGTATCGATACATTCTGG
1 AATGTATTGATACATTCTGG
*
1203820 AATTGTATTGATACATTCTTATG
1 AA-TGTATTGATACATTC-T-GG
*
1203843 TATGTATTGATACATT
1 AATGTATTGATACATT
1203859 TGAAAGGTAG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
19 7 0.14
20 12 0.24
21 14 0.28
22 15 0.30
23 2 0.04
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.43
Consensus pattern (20 bp):
AATGTATTGATACATTCTGG
Found at i:1203832 original size:21 final size:19
Alignment explanation
Indices: 1203781--1203858 Score: 84
Period size: 21 Copynumber: 3.8 Consensus size: 19
1203771 TTTTGGGCTA
1203781 ATGTATTGATACAATTCTGG
1 ATGTATTGATAC-ATTCTGG
*
1203801 ATGTATCGATACATTCTGG
1 ATGTATTGATACATTCTGG
*
1203820 AATTGTATTGATACATTCTTATGT
1 -A-TGTATTGATACATTC---TGG
1203844 ATGTATTGATACATT
1 ATGTATTGATACATT
1203859 TGAAAGGTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
19 7 0.14
20 12 0.24
21 14 0.28
22 14 0.28
23 1 0.02
24 2 0.04
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (19 bp):
ATGTATTGATACATTCTGG
Found at i:1203927 original size:20 final size:20
Alignment explanation
Indices: 1203904--1203953 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
1203894 CTTTCTATAA
*
1203904 TGTATCGATACATTACAATT
1 TGTATCGATACATTACAACT
*
1203924 TGTATCGATACATTGCAACT
1 TGTATCGATACATTACAACT
1203944 TGTATCGATA
1 TGTATCGATA
1203954 TATCTGCATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTACAACT
Found at i:1206599 original size:28 final size:28
Alignment explanation
Indices: 1206567--1206620 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
1206557 ATACCAAATT
**
1206567 TTATTCATCAGAGATACTCCAACCTCCA
1 TTATTCAGAAGAGATACTCCAACCTCCA
*
1206595 TTATTCCGAAGAGATACTCCAACCTC
1 TTATTCAGAAGAGATACTCCAACCTC
1206621 GTTTTTAAAC
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:0.31, C:0.31, G:0.09, T:0.28
Consensus pattern (28 bp):
TTATTCAGAAGAGATACTCCAACCTCCA
Found at i:1208236 original size:37 final size:36
Alignment explanation
Indices: 1208161--1208327 Score: 154
Period size: 37 Copynumber: 4.5 Consensus size: 36
1208151 AGGTTAGAAT
* * * *
1208161 AAAAACTACTATTCTAATCCGGTGGCACGGTTTAGAAC
1 AAAAACCACTATTCTTA-CCGATGGCACAGTTT-GAAC
*
1208199 AAAAACCACTATTCTTACCGATGGCACAATTTGGAAC
1 AAAAACCACTATTCTTACCGATGGCACAGTTT-GAAC
* * * * *
1208236 AAATACCACTATTCTTATCGGTGGCACAGGTCTGAAT
1 AAAAACCACTATTCTTACCGATGGCACA-GTTTGAAC
* * *
1208273 AAAAACCACTATTCTTATCGATGGCACGGATTGAGAC
1 AAAAACCACTATTCTTACCGATGGCACAGTTTGA-AC
* *
1208310 AAAAGCTACTATTCTTAC
1 AAAAACCACTATTCTTAC
1208328 TAGTAGCACG
Statistics
Matches: 106, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
36 4 0.04
37 85 0.80
38 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (36 bp):
AAAAACCACTATTCTTACCGATGGCACAGTTTGAAC
Found at i:1208312 original size:74 final size:75
Alignment explanation
Indices: 1208168--1208359 Score: 200
Period size: 74 Copynumber: 2.6 Consensus size: 75
1208158 AATAAAAACT
* *
1208168 ACTATTCTAATCCGGTGGCACGGTTTAGAACAAAAACCACTATTCTTACCGATGGCACAATTTGG
1 ACTATTCTTATCCGGTGGCACGGTCTAGAACAAAAACCACTATTCTTACCGATGGCACAATTTGG
1208233 AACAAATA-CC
66 AACAAA-AGCC
* * *
1208243 ACTATTCTTAT-CGGTGGCACAGGTCT-GAATAAAAACCACTATTCTTATCGATGGCACGGA-TT
1 ACTATTCTTATCCGGTGGCAC-GGTCTAGAACAAAAACCACTATTCTTACCGATGGCAC-AATTT
*
1208305 -GAGACAAAAGCT
64 GGA-ACAAAAGCC
** * *
1208317 ACTATTCTTA-CTAGTAGCACGGATCGA-AACAAAAACCACTATT
1 ACTATTCTTATCCGGTGGCACGG-TCTAGAACAAAAACCACTATT
1208360 TTTATCGGTA
Statistics
Matches: 99, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
73 5 0.05
74 79 0.80
75 15 0.15
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (75 bp):
ACTATTCTTATCCGGTGGCACGGTCTAGAACAAAAACCACTATTCTTACCGATGGCACAATTTGG
AACAAAAGCC
Found at i:1210954 original size:13 final size:13
Alignment explanation
Indices: 1210936--1210961 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1210926 TACACACAAG
1210936 ATGTATCGATACA
1 ATGTATCGATACA
1210949 ATGTATCGATACA
1 ATGTATCGATACA
1210962 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1210978 original size:33 final size:32
Alignment explanation
Indices: 1210918--1210981 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
1210908 CTTAACTGTT
*
1210918 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
1210950 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
1210982 TTGCCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:1217125 original size:13 final size:13
Alignment explanation
Indices: 1217107--1217144 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1217097 CAGCATTCTC
*
1217107 TGTATCGATACAT
1 TGTATCGATACAG
1217120 TGTATCGATACAG
1 TGTATCGATACAG
1217133 TGTATCGATACA
1 TGTATCGATACA
1217145 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1219022 original size:16 final size:16
Alignment explanation
Indices: 1219001--1219031 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1218991 TGATTAAAAG
*
1219001 AAATTGTTAATTTGCA
1 AAATTGTTAAATTGCA
1219017 AAATTGTTAAATTGC
1 AAATTGTTAAATTGC
1219032 TTTATTAAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (16 bp):
AAATTGTTAAATTGCA
Found at i:1219383 original size:13 final size:13
Alignment explanation
Indices: 1219365--1219390 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1219355 TACACACAAG
1219365 ATGTATCGATACA
1 ATGTATCGATACA
1219378 ATGTATCGATACA
1 ATGTATCGATACA
1219391 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1220370 original size:20 final size:20
Alignment explanation
Indices: 1220295--1220371 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
1220285 GCCAAGGAAA
* * *
1220295 TGTATCGATACATATGTAAA
1 TGTATCGATACATTTTTAAT
**
1220315 TGTATCGATACATTTATTGTT
1 TGTATCGATACATTT-TTAAT
* *
1220336 TGTATCAATATATTTTTAAT
1 TGTATCGATACATTTTTAAT
*
1220356 TATATCGATACATTTT
1 TGTATCGATACATTTT
1220372 GGGTTTTAAC
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
20 30 0.68
21 14 0.32
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.48
Consensus pattern (20 bp):
TGTATCGATACATTTTTAAT
Found at i:1220423 original size:51 final size:50
Alignment explanation
Indices: 1220347--1220450 Score: 172
Period size: 51 Copynumber: 2.1 Consensus size: 50
1220337 GTATCAATAT
1220347 ATTTTTAATTATATCGATACATTTTGGGTTTTAACCTAGATGCATCGATAC
1 ATTTTTAATTATATCGATACATTTTGGGTTTTAA-CTAGATGCATCGATAC
* * *
1220398 ATTTTTCATTGTATCGATACATTTTGGGTTTTAACTAGATGTATCGATAC
1 ATTTTTAATTATATCGATACATTTTGGGTTTTAACTAGATGCATCGATAC
1220448 ATT
1 ATT
1220451 CAGGCATTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
50 18 0.36
51 32 0.64
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.45
Consensus pattern (50 bp):
ATTTTTAATTATATCGATACATTTTGGGTTTTAACTAGATGCATCGATAC
Found at i:1222960 original size:79 final size:77
Alignment explanation
Indices: 1222800--1223638 Score: 697
Period size: 79 Copynumber: 10.6 Consensus size: 77
1222790 TCATTGATGA
* * * * * * *
1222800 TTTTATTTCTAAAACA-CCAATTTTCTACCATC-AGGGATACTCCAA-CCTATTATTTCTGAGGG
1 TTTTATTTCTAAAATATCGATTTTTC-ACTATCGA-GGATACTCCAACCCTGTTATTTTTAAGGG
*
1222862 AATACTCCAACCCTGG
64 -ATACTCCAACCC-CG
* * * * * *
1222878 TTTTATTTCTAAAATATTGATTTTTCACTGTTGAGGATATTTCAACCCTATTATTTTTAAAGGGA
1 TTTTATTTCTAAAATATCGATTTTTCACTATCGAGGATACTCCAACCCTGTTATTTTT-AAGGGA
1222943 TACTCCAACCCCAG
65 TACTCCAACCCC-G
* * * **
1222957 TTTTATTTCTAAAATATCGATTTTTCACTATCTAGGACACTCCAA-TCTCGTTATTTTCGAGGGT
1 TTTTATTTCTAAAATATCGATTTTTCACTATCGAGGATACTCCAACCCT-GTTATTTTTAAGGG-
* *
1223021 ATACTCTAACCTCG
64 ATACTCCAACCCCG
* * ** *
1223035 ATTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACCCCATTATTTTCTAGGGG
1 -TTTTATTTCTAAAATATCGATTTTTCACTATCGAGGATACTCCAACCCTGTTATTTT-TAAGGG
*
1223100 ATACTCCAACCTCGG
64 ATACTCCAACC-CCG
** * * *
1223115 TTTTATTTCTAAAATATTAATTTTCCACCATCGAAGATACTCCAACCCTGTTATTTTTAAGGGGA
1 TTTTATTTCTAAAATATCGATTTTTCACTATCGAGGATACTCCAACCCTGTTATTTTTAA-GGGA
*
1223180 TACTCAAACCCCG
65 TACTCCAACCCCG
* * * *
1223193 ATTTTATTTCTAAAATATCGATTTTTCA-TCCTCTG-GGACACTCCAA-TCTCGTTATTTTTGAG
1 -TTTTATTTCTAAAATATCGATTTTTCACT-ATC-GAGGATACTCCAACCCT-GTTATTTTTAAG
* * *
1223255 AAGATACTCTAACCCCAA
62 -GGATACTCCAACCCC-G
* * * * ** * *
1223273 TTTTATTTCTAAAACATCGATTTTCCACTATCGGGGATACTCTAACCCCATTATTTCTGAGGAGA
1 TTTTATTTCTAAAATATCGATTTTTCACTATCGAGGATACTCCAACCCTGTTATTTTTAAGG-GA
*
1223338 TACTCCAACCCCAA
65 TACTCCAACCCC-G
* * * * *
1223352 TTTTATTTCTAAAACA-CTAATTTTTCACTATCGAGGATACTCCAACTCTGTTATTTCTGAGGGG
1 TTTTATTTCTAAAATATC-GATTTTTCACTATCGAGGATACTCCAACCCTGTTATTT-TTAAGGG
*
1223416 ATACTCCAACCTCG
64 ATACTCCAACCCCG
* * **
1223430 ATTTTATTTCTAAAATATCGATTTTTCACTATCGGGGAATACTCCAACCCCGTTATTTTCGAGGA
1 -TTTTATTTCTAAAATATCGATTTTTCACTATCGAGG-ATACTCCAACCCTGTTATTTTTAAGG-
1223495 GATACTCCAACCCCG
63 GATACTCCAACCCCG
* * * * * * *
1223510 ATTTTATTCCTAAAATATTGATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTCTGAGGAG
1 -TTTTATTTCTAAAATATCGATTTTTCACTATCGAGGATACTCCAACCCTGTTATTTTTAAGG-G
**
1223575 ATACTCCAACCTCAA
64 ATACTCCAACC-CCG
* * * * *
1223590 TTTTATTTCCAAAATATCAACTTTTT-ACCATCGGGGATACTTCAACCCT
1 TTTTATTTCTAAAATATCGA-TTTTTCACTATCGAGGATACTCCAACCCT
1223639 ATTTTTAATT
Statistics
Matches: 619, Mismatches: 112, Indels: 59
0.78 0.14 0.07
Matches are distributed among these distances:
78 43 0.07
79 492 0.79
80 84 0.14
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (77 bp):
TTTTATTTCTAAAATATCGATTTTTCACTATCGAGGATACTCCAACCCTGTTATTTTTAAGGGAT
ACTCCAACCCCG
Found at i:1223089 original size:158 final size:156
Alignment explanation
Indices: 1222800--1223607 Score: 795
Period size: 158 Copynumber: 5.1 Consensus size: 156
1222790 TCATTGATGA
* * * * * **
1222800 TTTTATTTCTAAAACACCAATTTTCTACCATC-AGGGATACTCCAA-CCTATTA-TTTCTGAGGG
1 TTTTATTTCTAAAATATCGATTTTCCACTATCGA-GGATACTCCAACCCCGTTATTTTC-GAGGG
* * * * * * * *
1222862 AATACTCCAACCCTGGTTTTATTTCTAAAATATTGATTTTTCACTGTTGAGGATATTTCAACCCT
64 -ATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACTATCGAGGATACTCCAACCCC
* *
1222927 ATTATTTTTAAAGGGATACTCCAACCCCAG
128 GTTATTTTT-AAGGGATACTCCAACCTCAG
* * * * *
1222957 TTTTATTTCTAAAATATCGATTTTTCACTATCTAGGACACTCCAATCTCGTTATTTTCGAGGGTA
1 TTTTATTTCTAAAATATCGATTTTCCACTATCGAGGATACTCCAACCCCGTTATTTTCGAGGG-A
* * * * *
1223022 TACTCTAACCTCGATTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACCCCAT
65 TACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACTATCGAGGATACTCCAACCCCGT
* *
1223087 TATTTTCTAGGGGATACTCCAACCTCGG
130 TATTTT-TAAGGGATACTCCAACCTCAG
** * * * **
1223115 TTTTATTTCTAAAATATTAATTTTCCACCATCGAAGATACTCCAACCCTGTTATTTTTAAGGGGA
1 TTTTATTTCTAAAATATCGATTTTCCACTATCGAGGATACTCCAACCCCGTTATTTTCGA-GGGA
* * * * *
1223180 TACTCAAACCCCGATTTTATTTCTAAAATATCGATTTTTCA-TCCTCTG-GGACACTCCAATCTC
65 TACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACT-ATC-GAGGATACTCCAACCCC
* * * * *
1223243 GTTATTTTTGAGAAGATACTCTAACCCCAA
128 GTTATTTTTAAG-GGATACTCCAACCTCAG
* * * *
1223273 TTTTATTTCTAAAACATCGATTTTCCACTATCGGGGATACTCTAACCCCATTA-TTTCTGAGGAG
1 TTTTATTTCTAAAATATCGATTTTCCACTATCGAGGATACTCCAACCCCGTTATTTTC-GAGG-G
* * * * *
1223337 ATACTCCAACCCCAATTTTATTTCTAAAACA-CTAATTTTTCACTATCGAGGATACTCCAACTCT
64 ATACTCCAACCCCGATTTTATTTCTAAAATATC-GATTTTTCACTATCGAGGATACTCCAACCCC
* *
1223401 GTTATTTCTGAGGGGATACTCCAACCTC-G
128 GTTATTT-TTAAGGGATACTCCAACCTCAG
* *
1223430 ATTTTATTTCTAAAATATCGATTTTTCACTATCGGGGAATACTCCAACCCCGTTATTTTCGAGGA
1 -TTTTATTTCTAAAATATCGATTTTCCACTATCGAGG-ATACTCCAACCCCGTTATTTTCGAGG-
* * * *
1223495 GATACTCCAACCCCGATTTTATTCCTAAAATATTGATTTTCCACCATCGAGGATACTCCAACCCC
63 GATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACTATCGAGGATACTCCAACCCC
* * *
1223560 GTTATTTCTGAGGAGATACTCCAACCTCAA
128 GTTATTTTTAAGG-GATACTCCAACCTCAG
*
1223590 TTTTATTTCCAAAATATC
1 TTTTATTTCTAAAATATC
1223608 AACTTTTTAC
Statistics
Matches: 531, Mismatches: 100, Indels: 38
0.79 0.15 0.06
Matches are distributed among these distances:
157 46 0.09
158 356 0.67
159 125 0.24
160 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.37
Consensus pattern (156 bp):
TTTTATTTCTAAAATATCGATTTTCCACTATCGAGGATACTCCAACCCCGTTATTTTCGAGGGAT
ACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACTATCGAGGATACTCCAACCCCGTT
ATTTTTAAGGGATACTCCAACCTCAG
Found at i:1223212 original size:237 final size:236
Alignment explanation
Indices: 1222798--1223638 Score: 1066
Period size: 237 Copynumber: 3.6 Consensus size: 236
1222788 TTTCATTGAT
* * * * *
1222798 GATTTTATTTCTAAAACACCAATTTTCTACCATCAGGGATACTCCAA-CCTATTATTTCTGAGG-
1 GATTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTCTGAGGA
** * ** * * *
1222861 GAATACTCCAACC-CTGGTTTTATTTCTAAAATATTGATTTTTCACTGTTGAGGATATTTCAACC
66 G-ATACTCCAACCTC-AATTTTATTTCTAAAATATTAATTTTTCACCATCGAGGATACTCCAACC
* *
1222925 CTATTATTTTTAAAGGGATACTCCAACCCC-AGTTTTATTTCTAAAATATCGATTTTTCACTATC
129 CTGTTATTTTTAAGGGGATACTCCAACCCCGA-TTTTATTTCTAAAATATCGATTTTTCACTATC
* *
1222989 TAGGACACTCCAATCTCGTTATTTTCGAGGGTATACTCTAACCTC
193 TGGGACACTCCAATCTCGTTATTTTCGAGGG-ATACTCTAACCCC
* *
1223034 GATTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACCCCATTATTTTCT-AGG
1 GATTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCCATTA-TTTCTGAGG
* ** * *
1223098 GGATACTCCAACCTCGGTTTTATTTCTAAAATATTAATTTTCCACCATCGAAGATACTCCAACCC
65 AGATACTCCAACCTCAATTTTATTTCTAAAATATTAATTTTTCACCATCGAGGATACTCCAACCC
* *
1223163 TGTTATTTTTAAGGGGATACTCAAACCCCGATTTTATTTCTAAAATATCGATTTTTCA-TCCTCT
130 TGTTATTTTTAAGGGGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACT-ATCT
* *
1223227 GGGACACTCCAATCTCGTTATTTTTGAGAAGATACTCTAACCCC
194 GGGACACTCCAATCTCGTTATTTTCGAG-GGATACTCTAACCCC
* * *
1223271 AATTTTATTTCTAAAACATCGATTTTCCACTATCGGGGATACTCTAACCCCATTATTTCTGAGGA
1 GATTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTCTGAGGA
* * * * *
1223336 GATACTCCAACCCCAATTTTATTTCTAAAACACTAATTTTTCACTATCGAGGATACTCCAACTCT
66 GATACTCCAACCTCAATTTTATTTCTAAAATATTAATTTTTCACCATCGAGGATACTCCAACCCT
* * * *
1223401 GTTATTTCTGAGGGGATACTCCAACCTCGATTTTATTTCTAAAATATCGATTTTTCACTATCGGG
131 GTTATTTTTAAGGGGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACTATCTGG
* * * *
1223466 GAATACTCCAACCCCGTTATTTTCGAGGAGATACTCCAACCCC
196 G-ACACTCCAATCTCGTTATTTTCGAGG-GATACTCTAACCCC
* * * * *
1223509 GATTTTATTCCTAAAATATTGATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTCTGAGGA
1 GATTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTCTGAGGA
* * * *
1223574 GATACTCCAACCTCAATTTTATTTCCAAAATATCAACTTTTT-ACCATCGGGGATACTTCAACCC
66 GATACTCCAACCTCAATTTTATTTCTAAAATATTAA-TTTTTCACCATCGAGGATACTCCAACCC
1223638 T
130 T
1223639 ATTTTTAATT
Statistics
Matches: 528, Mismatches: 65, Indels: 22
0.86 0.11 0.04
Matches are distributed among these distances:
236 47 0.09
237 325 0.62
238 151 0.29
239 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (236 bp):
GATTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTCTGAGGA
GATACTCCAACCTCAATTTTATTTCTAAAATATTAATTTTTCACCATCGAGGATACTCCAACCCT
GTTATTTTTAAGGGGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACTATCTGG
GACACTCCAATCTCGTTATTTTCGAGGGATACTCTAACCCC
Found at i:1223636 original size:51 final size:51
Alignment explanation
Indices: 1223574--1223689 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
1223564 TTTCTGAGGA
*
1223574 GATACTCCAA-CCTCAATTTTATTTCCAAAATATCAACTTTTT-ACCATCGGG
1 GATACTCCAACCCT-AATTTTAATTCCAAAATATCAA-TTTTTCACCATCGGG
* * *
1223625 GATACTTCAACCCTATTTTTAATTCCAAAATATCGATTTTTCACCATCGGG
1 GATACTCCAACCCTAATTTTAATTCCAAAATATCAATTTTTCACCATCGGG
1223676 GATACTCCAACCCT
1 GATACTCCAACCCT
1223690 GTTGTTTTCA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 5 0.09
51 50 0.86
52 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (51 bp):
GATACTCCAACCCTAATTTTAATTCCAAAATATCAATTTTTCACCATCGGG
Found at i:1223655 original size:130 final size:130
Alignment explanation
Indices: 1223511--1223745 Score: 330
Period size: 130 Copynumber: 1.8 Consensus size: 130
1223501 CCAACCCCGA
* *
1223511 TTTTATTCCTAAAATATTGATTTTCCACCATCGAGGATACTCCAACCCCGTTA-TTTCTGAGGAG
1 TTTTATTCCTAAAATATCGATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTTC-AAGGAG
* * *
1223575 ATACTCCAACCTCAATTTTATTTCCAAAATATCAACTTTTTACCATCGGGGATACTTCAACCCTA
65 ATACTCCAACCCCAATTTTATCTCCAAAATATCAAATTTTTACCATCGGGGATACTTCAACCCTA
1223640 T
130 T
* * * * *
1223641 TTTTAATTCC-AAAATATCGATTTTTCACCATCGGGGATACTCCAACCCTGTTGTTTTCAAGGGG
1 TTTT-ATTCCTAAAATATCGATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTTCAAGGAG
* *
1223705 ATACTCCAACCCCATTTTTATCTCCAAAATATTAAATTTTT
65 ATACTCCAACCCCAATTTTATCTCCAAAATATCAAATTTTT
1223746 CTTTAGGGAG
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
130 82 0.90
131 9 0.10
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (130 bp):
TTTTATTCCTAAAATATCGATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTTCAAGGAGA
TACTCCAACCCCAATTTTATCTCCAAAATATCAAATTTTTACCATCGGGGATACTTCAACCCTAT
Found at i:1224202 original size:10 final size:10
Alignment explanation
Indices: 1224176--1224208 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1224166 AAAGAAATTT
*
1224176 AAATTCAAAG
1 AAATTCAAAA
1224186 AAA-TCAAAA
1 AAATTCAAAA
1224195 AAATTCAAAA
1 AAATTCAAAA
1224205 AAAT
1 AAAT
1224209 AATAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.70, C:0.09, G:0.03, T:0.18
Consensus pattern (10 bp):
AAATTCAAAA
Found at i:1225497 original size:55 final size:56
Alignment explanation
Indices: 1225392--1225513 Score: 131
Period size: 55 Copynumber: 2.2 Consensus size: 56
1225382 CTTTATTGTT
* *
1225392 TTTCTTCATGCCGTGAGCTTATTTTCATTGCTTGATCTTCCTTTATTGCA-TTTTC
1 TTTCTTCATGCCATGAGCTTATTTTCATTGCTTGATCTTCCTTTACTGCAGTTTTC
* * ** * * *
1225447 -TTCTTCATGCCATGGAGTTTGTTTTCATTTTTTGATTTTTCTTTGCTGCATGTTTTC
1 TTTCTTCATGCCAT-GAGCTTATTTTCATTGCTTGATCTTCCTTTACTGCA-GTTTTC
1225504 TTTCTTCATG
1 TTTCTTCATG
1225514 TCTTACATGT
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
54 12 0.22
55 28 0.52
57 5 0.09
58 9 0.17
ACGTcount: A:0.11, C:0.19, G:0.14, T:0.56
Consensus pattern (56 bp):
TTTCTTCATGCCATGAGCTTATTTTCATTGCTTGATCTTCCTTTACTGCAGTTTTC
Found at i:1240622 original size:42 final size:43
Alignment explanation
Indices: 1240571--1240655 Score: 104
Period size: 42 Copynumber: 2.0 Consensus size: 43
1240561 GCATCCTCCG
1240571 CAAAAAAAAAAAGAAGAAA-AATAAAAAAAAAC-AACAA-AAAAA
1 CAAAAAAAAAAAGAA-AAAGAA-AAAAAAAAACAAACAATAAAAA
* * *
1240613 CAAATAAAAAATGAAAAAGAAGAAAAAAAACAAACAATAAAAA
1 CAAAAAAAAAAAGAAAAAGAAAAAAAAAAACAAACAATAAAAA
1240656 AGGTCCGGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
41 12 0.32
42 20 0.54
43 5 0.14
ACGTcount: A:0.82, C:0.07, G:0.06, T:0.05
Consensus pattern (43 bp):
CAAAAAAAAAAAGAAAAAGAAAAAAAAAAACAAACAATAAAAA
Found at i:1240630 original size:33 final size:32
Alignment explanation
Indices: 1240587--1240656 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
1240577 AAAAAAGAAG
1240587 AAAAATAAAAA-AA-AACAACAAAA-AAACAAATA
1 AAAAATAAAAAGAAGAA-AA-AAAACAAAC-AATA
1240619 AAAAATGAAAAAGAAGAAAAAAAACAAACAATA
1 AAAAAT-AAAAAGAAGAAAAAAAACAAACAATA
1240652 AAAAA
1 AAAAA
1240657 GGTCCGGATG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
32 6 0.18
33 18 0.53
34 8 0.24
35 2 0.06
ACGTcount: A:0.83, C:0.07, G:0.04, T:0.06
Consensus pattern (32 bp):
AAAAATAAAAAGAAGAAAAAAAACAAACAATA
Found at i:1242122 original size:28 final size:28
Alignment explanation
Indices: 1242082--1242224 Score: 173
Period size: 28 Copynumber: 5.0 Consensus size: 28
1242072 CCTCACCCTG
1242082 TCAAAAGCCCACAAGTCAGTGGCAACCT
1 TCAAAAGCCCACAAGTCAGTGGCAACCT
*
1242110 TCAAAAGCCCACAAGTCAGTGGCATCCTTTT
1 TCAAAAGCCCACAAGTCAGTGGCAACC---T
* *
1242141 TC-GAAGCCCACAAGTCAGTGGCATCTCT
1 TCAAAAGCCCACAAGTCAGTGGCAAC-CT
* *
1242169 TCTAAAGCCCACAAGCCAGTGGCAACCT
1 TCAAAAGCCCACAAGTCAGTGGCAACCT
* *
1242197 TCAAAAGCCCACAACTCCGTGGC-ACCT
1 TCAAAAGCCCACAAGTCAGTGGCAACCT
1242224 T
1 T
1242225 TTTTCTTTTT
Statistics
Matches: 101, Mismatches: 9, Indels: 11
0.83 0.07 0.09
Matches are distributed among these distances:
27 5 0.05
28 50 0.50
29 20 0.20
30 22 0.22
31 4 0.04
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (28 bp):
TCAAAAGCCCACAAGTCAGTGGCAACCT
Found at i:1242192 original size:59 final size:58
Alignment explanation
Indices: 1242086--1242197 Score: 179
Period size: 59 Copynumber: 1.9 Consensus size: 58
1242076 ACCCTGTCAA
* *
1242086 AAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCCTTTTTCG
1 AAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGCCAGTGGCAACCTTTTTCG
* *
1242144 AAGCCCACAAGTCAGTGGCATCTCTTCTAAAGCCCACAAGCCAGTGGCAACCTT
1 AAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGCCAGTGGCAACCTT
1242198 CAAAAGCCCA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 21 0.43
59 28 0.57
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.20
Consensus pattern (58 bp):
AAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGCCAGTGGCAACCTTTTTCG
Found at i:1242289 original size:34 final size:34
Alignment explanation
Indices: 1242201--1242467 Score: 340
Period size: 34 Copynumber: 7.8 Consensus size: 34
1242191 CAACCTTCAA
*
1242201 AAGCCCACAACTCCGTGGCAC-CTTTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACTC-TTTTTCCTTTT
*
1242235 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTT
1 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* ** * *
1242270 GAGTACACAACTCCATGGCAC-CTTTCTTCTTTTT
1 AAGCCCACAACTCCGTGGCACTCTTT-TTCCTTTT
*
1242304 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTT
1 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
**
1242339 AAGCCCACAACTTTGTGGCACTCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * *
1242373 AAGCCTACAACTCCATGGCACTCTTTTACCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1242407 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * *
1242441 AAGTCCACAACTCCATGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTT
1242468 AAGCCCACAA
Statistics
Matches: 202, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
33 4 0.02
34 140 0.69
35 53 0.26
36 5 0.02
ACGTcount: A:0.20, C:0.32, G:0.11, T:0.36
Consensus pattern (34 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
Found at i:1242432 original size:27 final size:29
Alignment explanation
Indices: 1242300--1242494 Score: 99
Period size: 34 Copynumber: 6.1 Consensus size: 29
1242290 CCTTTCTTCT
*
1242300 TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 TTTT-AAGCCCACAACTCCGTGGCACTC-----CC
**
1242335 TTTTAAGCCCACAACTTTGTGGCACTCTTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCACTC-----CC
* *
1242369 TTTTAAGCCTACAACTCCATGGCACTCTTTTACC
1 TTTTAAGCCCACAACTCCGTGGCACTC-----CC
1242403 TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCACTC-----CC
* *
1242437 TTTTAAGTCCACAACTCCATGGCA--CCC
1 TTTTAAGCCCACAACTCCGTGGCACTCCC
* *
1242464 TTTTAAGCCCACAAGTCGGTGGCAC-CCC
1 TTTTAAGCCCACAACTCCGTGGCACTCCC
1242492 TTT
1 TTT
1242495 CAAAGCCAAC
Statistics
Matches: 144, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
27 22 0.15
28 6 0.04
32 1 0.01
34 111 0.77
35 4 0.03
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (29 bp):
TTTTAAGCCCACAACTCCGTGGCACTCCC
Found at i:1242506 original size:29 final size:27
Alignment explanation
Indices: 1242456--1242521 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 27
1242446 CACAACTCCA
* * *
1242456 TGGCACCCTTTTAAGCCCACAAGTCGG
1 TGGCACCCTTTAAAGCCAACAAGTCAG
1242483 TGGCACCCCTTTCAAAGCCAACAAGTCAG
1 TGGCA-CCCTTT-AAAGCCAACAAGTCAG
*
1242512 TGGCAACCTT
1 TGGCACCCTT
1242522 CAAAAGCACA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.15
28 10 0.30
29 18 0.55
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (27 bp):
TGGCACCCTTTAAAGCCAACAAGTCAG
Found at i:1242534 original size:28 final size:28
Alignment explanation
Indices: 1242456--1242536 Score: 71
Period size: 28 Copynumber: 2.9 Consensus size: 28
1242446 CACAACTCCA
* *
1242456 TGGCAC-CCTTT-TAAGCCCACAAGTCGG
1 TGGCACACCTTTCAAAG-CCACAAGTCAG
*
1242483 TGGCACCCCTTTCAAAGCCAACAAGTCAG
1 TGGCACACCTTTCAAAGCC-ACAAGTCAG
1242512 TGGCA-ACC-TTCAAAAGCACACAAGT
1 TGGCACACCTTTC-AAAGC-CACAAGT
1242537 TGATGCAACC
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
27 9 0.20
28 20 0.43
29 17 0.37
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.19
Consensus pattern (28 bp):
TGGCACACCTTTCAAAGCCACAAGTCAG
Found at i:1242544 original size:27 final size:30
Alignment explanation
Indices: 1242489--1242569 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 30
1242479 TCGGTGGCAC
*
1242489 CCCTTTC-AAAGCCA-ACAAG-TCAGTGGCAA
1 CCCTTTCAAAAGCCACACAAGTTGA-T-GCAA
1242518 -CC-TTCAAAAG-CACACAAGTTGATGCAA
1 CCCTTTCAAAAGCCACACAAGTTGATGCAA
1242545 CCCTTTCAAAAGCCCACACAAGTTG
1 CCCTTTCAAAAG-CCACACAAGTTG
1242570 GTGGCGTCTT
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
27 9 0.20
28 14 0.32
29 10 0.23
31 11 0.25
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.19
Consensus pattern (30 bp):
CCCTTTCAAAAGCCACACAAGTTGATGCAA
Found at i:1242562 original size:29 final size:30
Alignment explanation
Indices: 1242468--1242562 Score: 92
Period size: 29 Copynumber: 3.3 Consensus size: 30
1242458 GCACCCTTTT
* * *
1242468 AAGCCCACAAGTCGGTGGCACCCCTTTC-A
1 AAGCCCACAAGTTGATGGCAACCCTTTCAA
* *
1242497 AAGCCAACAAG-TCAGTGGCAA-CC-TTCAA
1 AAGCCCACAAGTTGA-TGGCAACCCTTTCAA
*
1242525 AAGCACACAAGTTGAT-GCAACCCTTTCAA
1 AAGCCCACAAGTTGATGGCAACCCTTTCAA
1242554 AAGCCCACA
1 AAGCCCACA
1242563 CAAGTTGGTG
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
27 7 0.13
28 15 0.29
29 30 0.58
ACGTcount: A:0.35, C:0.33, G:0.17, T:0.16
Consensus pattern (30 bp):
AAGCCCACAAGTTGATGGCAACCCTTTCAA
Found at i:1242713 original size:93 final size:89
Alignment explanation
Indices: 1242583--1242898 Score: 343
Period size: 87 Copynumber: 3.5 Consensus size: 89
1242573 GCGTCTTCTT
* *
1242583 CTAAGTCCAATATCACTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCG
1 CTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAA-CCAATGTCG
* *
1242648 CTGGCCTTGAATCAGCATATTGACA
65 CTGGCCTTGAATCAGCACATTGGCA
* * * *** *
1242673 CCTTGAAGTCCGATATCATTGGCCTTAAATCAGCATATTGGCACCGGCATCTTTAAGACCAATGT
1 -C-T-AAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATGT
*
1242738 TGCTGGCCTTGAATCAGCACATTGGCA
63 CGCTGGCCTTGAATCAGCACATTGGCA
* * * * * * **
1242765 -TAAGCCCAATATCGCTGGCTTTGAATCGGCGTATTGGCACC-TTGTCTTTAAGTCCAATGTCGC
1 CTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATGTCGC
*
1242828 TGGCCTTGAATCAGCACATCGGCA
66 TGGCCTTGAATCAGCACATTGGCA
* * *
1242852 C-AAGTCCAATATTATTGGCCGTGAATCAGCATATTGGC-CTCTTTATC
1 CTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCAC-CTTTATC
1242899 ACTTTTCTCA
Statistics
Matches: 185, Mismatches: 35, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
86 1 0.01
87 70 0.38
88 36 0.19
89 1 0.01
91 1 0.01
92 31 0.17
93 45 0.24
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (89 bp):
CTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATGTCGC
TGGCCTTGAATCAGCACATTGGCA
Found at i:1243717 original size:13 final size:13
Alignment explanation
Indices: 1243699--1243755 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
1243689 TTCAACAATT
1243699 TGTATCGATACAA
1 TGTATCGATACAA
1243712 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
1243727 GTGTTGTGTCGATACAA
1 ----TGTATCGATACAA
1243744 TGTATCGATACA
1 TGTATCGATACA
1243756 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1243744 original size:32 final size:32
Alignment explanation
Indices: 1243698--1243782 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
1243688 TTTCAACAAT
1243698 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
* *
1243730 TTGTGTCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
1243762 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
1243783 CTATGAAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:1243768 original size:19 final size:18
Alignment explanation
Indices: 1243712--1243774 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
1243702 ATCGATACAA
1243712 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
*
1243731 TGTGTCGATAC--AA---
1 TGTATCGATACATAAGTT
1243744 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
1243763 TGTATCGATACA
1 TGTATCGATACA
1243775 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:1249136 original size:21 final size:21
Alignment explanation
Indices: 1249112--1249160 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1249102 TAAAATTATG
*
1249112 AAAAAGTCAAAACAAAAGCACA
1 AAAAAGTCAAAACAAAAACA-A
* *
1249134 AAAAA-TGAAAAGAAAAACAA
1 AAAAAGTCAAAACAAAAACAA
1249154 AAAAAGT
1 AAAAAGT
1249161 GTGTCGCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 6 0.26
21 12 0.52
22 5 0.22
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.06
Consensus pattern (21 bp):
AAAAAGTCAAAACAAAAACAA
Found at i:1251509 original size:51 final size:51
Alignment explanation
Indices: 1251442--1251561 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 51
1251432 GTGAAAATAA
*
1251442 TGGGGTTGGAGTATCCCCAATTATGAGAAATCAAAATTTTAGAAAT-AAGG
1 TGGGGTTGGAGTATCCCCAATTATGAGAAATCAAAATTTTAGAAATAAAGC
* * * *
1251492 TCGGGGTTGAAGTATCCCTAATTATGAGAAATCAATATTTTGGAAATAAAGC
1 T-GGGGTTGGAGTATCCCCAATTATGAGAAATCAAAATTTTAGAAATAAAGC
1251544 TGGGGTTGGAGTATCCCC
1 TGGGGTTGGAGTATCCCC
1251562 GATGAAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 1 0.02
51 56 0.92
52 4 0.07
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (51 bp):
TGGGGTTGGAGTATCCCCAATTATGAGAAATCAAAATTTTAGAAATAAAGC
Found at i:1251588 original size:79 final size:79
Alignment explanation
Indices: 1251493--1251643 Score: 187
Period size: 79 Copynumber: 1.9 Consensus size: 79
1251483 GAAATAAGGT
* * * * *
1251493 CGGGGTTGAAGTATCCCTAATTATGAGAAATCAATATTTTGGAAAT-AAAGCTGGGGTTGGAGTA
1 CGGGGTTGAAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAATC-GGAGTTGGAATA
1251557 TCCCCGATGAAATAA
65 TCCCCGATGAAATAA
* * * * * *
1251572 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGAGTTGGAATAT
1 CGGGGTTGAAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAATCGGAGTTGGAATAT
1251637 CCCCGAT
66 CCCCGAT
1251644 TGTAGAGAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
79 56 0.93
80 4 0.07
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (79 bp):
CGGGGTTGAAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAATCGGAGTTGGAATAT
CCCCGATGAAATAA
Found at i:1251617 original size:130 final size:130
Alignment explanation
Indices: 1251257--1251749 Score: 441
Period size: 130 Copynumber: 3.8 Consensus size: 130
1251247 TCTCCCGATG
* * * *
1251257 AGAAATTTAATATTTTGGAGATAATAAC-GGGGTTGGAGTATCCCC-TCAAAAATAACGGGATTG
1 AGAAA-TTAATATTTTAGAAATAA-AACTGGGGTTGGAGTATCCCCGT-GAAAATAACGGGGTTG
* * * * * *
1251320 GAGTATCCTCGATTGTGAAAAA-TCGATGATTTAGAAATAAGG-CAAGGGTTGAAGTGTCCCCGA
63 GAGTATCCCCGATTATGAAAAATTAGATGTTTTAGAAATAAGGTC-GGGGTTGAAGTATCCCCGA
1251383 TTAT
127 TTAT
* * * * * ** * * *
1251387 AGAAAATAGATGTTTCAAAAATAAAA-TCAGGACTGGAGTATTCTCGTGAAAATAATGGGGTTGG
1 AGAAATTA-ATATTTTAGAAATAAAACT-GGGGTTGGAGTATCCCCGTGAAAATAACGGGGTTGG
* * * ** **
1251451 AGTATCCCCAATTATGAGAAATCA-AAATTTTAGAAATAAGGTCGGGGTTGAAGTATCCCTAATT
64 AGTATCCCCGATTATGAAAAATTAGATGTTTTAGAAATAAGGTCGGGGTTGAAGTATCCCCGATT
1251515 AT
129 AT
* * *
1251517 GAGAAATCAATATTTTGGAAATAAAGCTGGGGTTGGAGTATCCCCGATG-AAATAACGGGGTTGG
1 -AGAAATTAATATTTTAGAAATAAAACTGGGGTTGGAGTATCCCCG-TGAAAATAACGGGGTTGG
* * ** *
1251581 AGTATCCCCGATTGTGAAAAATTAG-TGTTTTGGAAATAAAATCGGAGTTGGAA-TATCCCCGAT
64 AGTATCCCCGATTATGAAAAATTAGATGTTTTAGAAATAAGGTCGGGGTT-GAAGTATCCCCGAT
*
1251644 TGT
128 TAT
** * * *
1251647 AGAGAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC-TCGAAAATAACGGAGTTAG
1 AGA-AATTAATATTTTAGAAATAAAACTGGGGTTGGAGTATCCCCGT-GAAAATAACGGGGTTGG
1251711 AGTATCCCCGATTATGAAAAATT-GATGTTTTAGAAATAA
64 AGTATCCCCGATTATGAAAAATTAGATGTTTTAGAAATAA
1251750 AAAAGAGGTT
Statistics
Matches: 285, Mismatches: 63, Indels: 30
0.75 0.17 0.08
Matches are distributed among these distances:
128 1 0.00
129 9 0.03
130 261 0.92
131 14 0.05
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (130 bp):
AGAAATTAATATTTTAGAAATAAAACTGGGGTTGGAGTATCCCCGTGAAAATAACGGGGTTGGAG
TATCCCCGATTATGAAAAATTAGATGTTTTAGAAATAAGGTCGGGGTTGAAGTATCCCCGATTAT
Found at i:1251638 original size:51 final size:51
Alignment explanation
Indices: 1251576--1251691 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
1251566 AAATAACGGG
* * *
1251576 GTTGGAGTATCCCCGATTGT-GAAAAATTAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTAG-AAAATTAGTATTTTAGAAATAAAACCGGA
* * * *
1251627 GTTGGAATATCCCCGATTGTAGAGAATTGGTATTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTAGAAAATTAGTATTTTAGAAATAAAACCGGA
1251678 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
1251692 TCGAAAATAA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 55 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTAGAAAATTAGTATTTTAGAAATAAAACCGGA
Found at i:1251706 original size:79 final size:80
Alignment explanation
Indices: 1251620--1251809 Score: 235
Period size: 79 Copynumber: 2.4 Consensus size: 80
1251610 TTGGAAATAA
* * * * ** *
1251620 AATCGGAGTTGGAATATCCCCGATTGT-AGAGAATTGGTATTTTAGAAATAAAACCGGGGTTGGA
1 AATCGGAGTTGGAGTATCCCCGATTATGA-AAAATTGATATTTTAGAAATAAAAAAGAGGTTGGA
*
1251684 GTATCCCCTCGAAAAT
65 GTATCCCCCCGAAAAT
* *
1251700 AA-CGGAGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAAAGAGGTTGGAG
1 AATCGGAGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAAAGAGGTTGGAG
1251764 TATCCCCCCGAAAAT
66 TATCCCCCCGAAAAT
* *
1251779 AATAGG-GTTGGAGTATCCCCGA-GATGAAAAA
1 AATCGGAGTTGGAGTATCCCCGATTATGAAAAA
1251810 ACTAGAAATT
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
78 8 0.08
79 82 0.86
80 5 0.05
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (80 bp):
AATCGGAGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAAAGAGGTTGGAG
TATCCCCCCGAAAAT
Found at i:1251749 original size:260 final size:259
Alignment explanation
Indices: 1251254--1251732 Score: 558
Period size: 260 Copynumber: 1.8 Consensus size: 259
1251244 ACATCTCCCG
* *
1251254 ATGAGAAATTTAATATTTTGGAGATAATAACGGGGTTGGAGTATCCCCTCAAAAATAACGGGATT
1 ATGAGAAATTCAATATTTTGGAAATAATAACGGGGTTGGAGTATCCCCTCAAAAATAACGGGATT
* * *
1251319 GGAGTATCCTCGATTGTGAAAAATCGATGATTTAGAAATAAGGCAAGGGTTGAAGTGTCCCCGAT
66 GGAGTATCCCCGATTGTGAAAAATAGATGATTTAGAAATAA-G-AAGGGTTGAAGTATCCCCGAT
* * * * * *
1251384 TATAGAAAATAGATGTTTCAAAAATAAAATCAGGACTGGAGTATTCTCGTGAAAATAATGGGGTT
129 TATAGAAAATAGATATTTCAAAAATAAAACCAGGACTGGAGTATTCCCCTGAAAATAACGGAGTT
* *
1251449 GGAGTATCCCCAATTATGAGAAATCAAAATTTTAGAAATAAGGTCGGGGTTGAAGTATCCCTAAT
194 AGAGTATCCCCAATTATGAAAAATCAAAATTTTAGAAATAAGGTCGGGGTTGAAGTATCCCTAAT
1251514 T
259 T
* * * *
1251515 ATGAGAAA-TCAATATTTTGGAAATAA-AGCTGGGGTTGGAGTATCCCC-GATGAAATAACGGGG
1 ATGAGAAATTCAATATTTTGGAAATAATAAC-GGGGTTGGAGTATCCCCTCA-AAAATAACGGGA
* *
1251577 TTGGAGTATCCCCGATTGTGAAAAATTAG-TGTTTTGGAAATAA-AATCGGAGTTGGAA-TATCC
64 TTGGAGTATCCCCGATTGTGAAAAA-TAGATGATTTAGAAATAAGAA--GG-GTT-GAAGTATCC
* * * * * * * **
1251639 CCGATTGTAGAGAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTA-TCCCCTCGAAAATAAC
124 CCGATTATAGAAAATAGATATTTCAAAAATAAAACCAGGACTGGAGTATTCCCCT-GAAAATAAC
*
1251703 GGAGTTAGAGTATCCCCGATTATGAAAAAT
188 GGAGTTAGAGTATCCCCAATTATGAAAAAT
1251733 TGATGTTTTA
Statistics
Matches: 181, Mismatches: 29, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
257 2 0.01
259 9 0.05
260 157 0.87
261 13 0.07
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (259 bp):
ATGAGAAATTCAATATTTTGGAAATAATAACGGGGTTGGAGTATCCCCTCAAAAATAACGGGATT
GGAGTATCCCCGATTGTGAAAAATAGATGATTTAGAAATAAGAAGGGTTGAAGTATCCCCGATTA
TAGAAAATAGATATTTCAAAAATAAAACCAGGACTGGAGTATTCCCCTGAAAATAACGGAGTTAG
AGTATCCCCAATTATGAAAAATCAAAATTTTAGAAATAAGGTCGGGGTTGAAGTATCCCTAATT
Found at i:1254135 original size:20 final size:19
Alignment explanation
Indices: 1254106--1254179 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
1254096 AAAATGCTTG
*
1254106 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
* *
1254126 AATATATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
1254146 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
1254166 AATGTATCGATACA
1 AATGTATCGATACA
1254180 TATGGGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1256153 original size:20 final size:19
Alignment explanation
Indices: 1256128--1256201 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
1256118 AAAATGCCAG
*
1256128 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
1256148 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
1256168 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
*
1256188 AATATATCGATACA
1 AATGTATCGATACA
1256202 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1256892 original size:60 final size:60
Alignment explanation
Indices: 1256772--1257038 Score: 317
Period size: 55 Copynumber: 4.6 Consensus size: 60
1256762 CAAAAAGGCG
*
1256772 AAAGAAGAAAGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTA
1 AAAGAAGAAGGCGTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTA
* * * *
1256833 AAAGGAGAAGGCGTCCTGCTCTTAGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTA
1 AAAGAAGAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTA
* *
1256893 AAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTCGTGTGGGCTTT-
1 AAAGAAGAAGGCGTCCTGCTCTTTGAGGACTGAA-GGTGCCACCAACTTGTGTGGGCTTTA
*
1256953 ----AA-AAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-
1 AAAGAAGAAGGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTA
* *
1257008 ---G-A-AAGGCGTCCTGCTCTTTAAGGACTAAAGG
1 AAAGAAGAAGGCGTCCTGCTCTTTGAGGACTGAAGG
1257039 GTGAAAGGAA
Statistics
Matches: 186, Mismatches: 16, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
54 4 0.02
55 71 0.38
56 4 0.02
59 3 0.02
60 54 0.29
61 50 0.27
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (60 bp):
AAAGAAGAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTA
Found at i:1257133 original size:270 final size:272
Alignment explanation
Indices: 1256643--1257136 Score: 755
Period size: 270 Copynumber: 1.8 Consensus size: 272
1256633 GGTGTCTACA
*
1256643 AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGGAGGTGTCCTGCTCTTTGAGGA
1 AGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTT--AAGAA-GAGGTGTCCTGCTCTTTGAGGA
**
1256708 CTGAAGGTGCCACCTGCTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTAAGGACAAAAAGGCGA
63 CTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTAAGGACAAAAAGGCGA
*
1256773 AAGAAGAAAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
128 AAGAAGAAAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAG
* *
1256838 AGAAGGCGTCCTGCTCTTAGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAG
193 AAAAGGCATCCTGCTCTTAGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAG
1256903 GCGTCCTGCTCTTTG
258 GCGTCCTGCTCTTTG
**
1256918 AGGACTGAAGGGTGCCACCAACTCGTGTGGGCTTT-A-AA-AGGTGTCCTGCTCTTTGAGGACTG
1 AGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAGAAGAGGTGTCCTGCTCTTTGAGGACTG
* * * * * *
1256980 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAAAGGGTGAAA
66 -AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTAAGGACAAAAAGGCGAAA
*
1257045 GGAA-AGAGCGTCCTGCTCTTTGAGGACTA-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
130 -GAAGAAAGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAG
*
1257108 AAAAGGCATCCTGCTCTTTGAGGACTGAA
193 AAAAGGCATCCTGCTCTTAGAGGACTGAA
1257137 AAGTGGAAGG
Statistics
Matches: 200, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
269 27 0.14
270 135 0.68
271 5 0.03
272 1 0.00
275 32 0.16
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (272 bp):
AGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAGAAGAGGTGTCCTGCTCTTTGAGGACTG
AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTAAGGACAAAAAGGCGAAAG
AAGAAAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
AGGCATCCTGCTCTTAGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAGGCG
TCCTGCTCTTTG
Found at i:1258120 original size:1 final size:1
Alignment explanation
Indices: 1258100--1258187 Score: 77
Period size: 1 Copynumber: 88.0 Consensus size: 1
1258090 CTTTTCTCTC
* * * * * * * *
1258100 TTTTTTCTTTGTTTTGTTTTTTTTTTGTTTTTTGTTTTTGTTTTTTTTTTGTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
1258165 TTGTTTTTGTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
1258188 AGAAGAGAAG
Statistics
Matches: 65, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.00, C:0.01, G:0.11, T:0.88
Consensus pattern (1 bp):
T
Found at i:1258122 original size:17 final size:17
Alignment explanation
Indices: 1258107--1258187 Score: 112
Period size: 17 Copynumber: 4.8 Consensus size: 17
1258097 CTCTTTTTTC
1258107 TTTGTTTTGTTTTT-TT
1 TTTGTTTTGTTTTTGTT
1258123 TTTGTTTTTTGTTTTTGTT
1 TTTG--TTTTGTTTTTGTT
*
1258142 TTTTTTTTGTTTTTGTT
1 TTTGTTTTGTTTTTGTT
*
1258159 TTTTTTTTGTTTTTGTT
1 TTTGTTTTGTTTTTGTT
1258176 TTTGTTTT-TTTT
1 TTTGTTTTGTTTT
1258188 AGAAGAGAAG
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
16 8 0.13
17 37 0.62
18 10 0.17
19 5 0.08
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (17 bp):
TTTGTTTTGTTTTTGTT
Found at i:1258137 original size:23 final size:22
Alignment explanation
Indices: 1258107--1258187 Score: 119
Period size: 23 Copynumber: 3.6 Consensus size: 22
1258097 CTCTTTTTTC
1258107 TTTGTTTTGTTTTTTTTTTGTTT
1 TTTGTTTTGTTTTTTTTTTG-TT
1258130 TTTGTTTTTGTTTTTTTTTTGTT
1 TTTG-TTTTGTTTTTTTTTTGTT
*
1258153 TTTGTTTTTTTTTTGTTTTTGTT
1 TTTGTTTTGTTTTT-TTTTTGTT
1258176 TTTGTTTT-TTTT
1 TTTGTTTTGTTTT
1258188 AGAAGAGAAG
Statistics
Matches: 55, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
22 13 0.24
23 26 0.47
24 16 0.29
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (22 bp):
TTTGTTTTGTTTTTTTTTTGTT
Found at i:1258161 original size:40 final size:40
Alignment explanation
Indices: 1258100--1258187 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
1258090 CTTTTCTCTC
*
1258100 TTTTTTCTTTGTTTTG-TTTTTTTTTTGTTTTTTGTTTTTG
1 TTTTTTTTTTGTTTTGTTTTTTTTTTTG-TTTTTGTTTTTG
1258140 TTTTTTTTTTGTTTT-TGTTTTTTTTTTGTTTTTGTTTTTG
1 TTTTTTTTTTGTTTTGT-TTTTTTTTTTGTTTTTGTTTTTG
1258180 TTTTTTTT
1 TTTTTTTT
1258188 AGAAGAGAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
40 34 0.76
41 11 0.24
ACGTcount: A:0.00, C:0.01, G:0.11, T:0.88
Consensus pattern (40 bp):
TTTTTTTTTTGTTTTGTTTTTTTTTTTGTTTTTGTTTTTG
Found at i:1268480 original size:4 final size:4
Alignment explanation
Indices: 1268458--1268494 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
1268448 CTGTACGATA
* *
1268458 AAAT GAAT AAAT CAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1268495 CCTCAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1269073 original size:19 final size:19
Alignment explanation
Indices: 1269049--1269116 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1269039 AATTCAACGA
1269049 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1269068 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1269083 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1269100 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1269117 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1269087 original size:32 final size:32
Alignment explanation
Indices: 1269051--1269113 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1269041 TTCAACGATT
*
1269051 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1269083 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1269114 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1269088 original size:13 final size:13
Alignment explanation
Indices: 1269070--1269094 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1269060 ACATAAGTTT
1269070 TGTATCGATACAA
1 TGTATCGATACAA
1269083 TGTATCGATACA
1 TGTATCGATACA
1269095 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1269193 original size:33 final size:33
Alignment explanation
Indices: 1269136--1269198 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
1269126 GCCAAGGAAA
***
1269136 TGTATCGATACATTTTTCTGTGTATCGATAAAT
1 TGTATCGATACATGGATCTGTGTATCGATAAAT
*
1269169 TGTATCGATACATGGATCTTTGTATCGATA
1 TGTATCGATACATGGATCTGTGTATCGATA
1269199 CATTTGGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATAAAT
Found at i:1271805 original size:52 final size:53
Alignment explanation
Indices: 1271720--1271881 Score: 156
Period size: 52 Copynumber: 3.1 Consensus size: 53
1271710 TTATTTTCGA
* * * *
1271720 GGGGGTACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTTCCACAATC
* * * **
1271772 GGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAATTTTTCC-ACAATC
*
1271824 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCCACAATC
*
1271876 GAGGAT
1 GGGGAT
1271882 GCTTCGACCT
Statistics
Matches: 90, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
51 9 0.10
52 63 0.70
53 13 0.14
54 5 0.06
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.33
Consensus pattern (53 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCCACAATC
Found at i:1271943 original size:212 final size:212
Alignment explanation
Indices: 1271550--1271956 Score: 577
Period size: 212 Copynumber: 1.9 Consensus size: 212
1271540 TTATCAATTC
* *
1271550 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
1271615 TACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
* * * * *
1271680 CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGGTACTCCAACTCCGGTTTTAT
130 CCGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTAT
1271745 CGCTAAAACACTAATTTT
195 CGCTAAAACACTAATTTT
* * * *
1271763 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
* * * *
1271827 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATGCTTCGAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * *
1271890 CTCGTTATTGCATTGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTAAT-CATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
1271955 AT
193 AT
1271957 TCCCAAAATA
Statistics
Matches: 171, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
211 26 0.15
212 67 0.39
213 43 0.25
214 35 0.20
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:1278840 original size:17 final size:17
Alignment explanation
Indices: 1278818--1278851 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1278808 CAGAGGTAAG
*
1278818 AAGGAAGGCAAAGTCAA
1 AAGGAAGCCAAAGTCAA
*
1278835 AAGGAAGCCACAGTCAA
1 AAGGAAGCCAAAGTCAA
1278852 GAATCGATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.18, G:0.26, T:0.06
Consensus pattern (17 bp):
AAGGAAGCCAAAGTCAA
Found at i:1284355 original size:16 final size:15
Alignment explanation
Indices: 1284315--1284387 Score: 65
Period size: 15 Copynumber: 4.5 Consensus size: 15
1284305 CCTTCTCTTC
*
1284315 AAAAAAAAAAGGCAA
1 AAAAAAAAAAGGAAA
1284330 AAAAAAAAAAGGAAA
1 AAAAAAAAAAGGAAA
**
1284345 AAAACAAAAAAACAAA
1 AAAA-AAAAAAGGAAA
1284361 ACAAAGAAAAAGAGAGAAA
1 A-AAA-AAAAA-AG-GAAA
1284380 AGAAAAAA
1 A-AAAAAA
1284388 CCTACTTAAG
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
15 18 0.38
16 10 0.21
17 8 0.17
18 4 0.09
19 7 0.15
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGGAAA
Found at i:1284370 original size:22 final size:22
Alignment explanation
Indices: 1284318--1284370 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
1284308 TCTCTTCAAA
*
1284318 AAAAAAAGGCAAAAAAAAAAAAGG
1 AAAAAAA--CAAAAAAAAAAAAGC
*
1284342 AAAAAAACAAAAAAACAAAA-C
1 AAAAAAACAAAAAAAAAAAAGC
1284363 AAAGAAAA
1 AAA-AAAA
1284371 AGAGAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 3 0.12
22 16 0.62
24 7 0.27
ACGTcount: A:0.83, C:0.08, G:0.09, T:0.00
Consensus pattern (22 bp):
AAAAAAACAAAAAAAAAAAAGC
Found at i:1285439 original size:55 final size:55
Alignment explanation
Indices: 1285353--1286580 Score: 1507
Period size: 55 Copynumber: 21.9 Consensus size: 55
1285343 TTCCACCTTT
* ***
1285353 CAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCGCCTTC
1 CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTC
*
1285408 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACATAAGTTGGTGGCATTTTC
1 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
*
1285463 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCATTTTC
1 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
*
1285518 CAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-
1 CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
*
1285573 CAGTCC-CTAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-
1 CAGTCCTC-AAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
* * * *
1285628 CAATCCCCAAAGAGGAGGACACCTTTCAAAGCCCACATAAGTTGGTGGCATTTTC
1 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
1285683 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
1 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
*
1285738 CAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTCGGTGGCATTTTC
1 CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTC
* * * * *
1285793 CAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTTGTGGCATTTTT
1 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
* * * *
1285848 CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCGTCTTC
1 CAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
***
1285909 CAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCGCCTTC
1 CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTC
1285964 CAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTC
1 CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTC
* * * *
1286019 CAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTT
1 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
* * *
1286074 CAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT-
1 CAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA--TTTTC
* * ***
1286136 -AGTCCTCAAAGAGCAGGATGCTTTGTCTTTTCAAAGCCCACACAAGTTGGTGGCGCCTTC
1 CAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
* *
1286196 CAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACAAAAGTTGGTGGCACCTTT-
1 CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
* * *
1286251 CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCATTTTT
1 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
*
1286306 CAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTC
1 CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTC
* * * *
1286361 CAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTT
1 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
* * *
1286416 CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-
1 CAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
* *
1286477 CAGTCCTCAAAGAGGAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTC
1 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
* *
1286531 CAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTAGTGGCA
1 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1286581 AACCTTCCCA
Statistics
Matches: 1051, Mismatches: 81, Indels: 83
0.87 0.07 0.07
Matches are distributed among these distances:
53 3 0.00
54 65 0.06
55 766 0.73
56 17 0.02
57 3 0.00
59 5 0.00
61 185 0.18
62 3 0.00
63 4 0.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (55 bp):
CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
Found at i:1285489 original size:27 final size:27
Alignment explanation
Indices: 1285405--1285489 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
1285395 TGGTGGCGCC
1285405 TTCCAGTCCTCAAAGAGCAGGACACCT
1 TTCCAGTCCTCAAAGAGCAGGACACCT
* * * * ** *
1285432 TTCAAAGCCCACATAAGTTGGTGG-CA-TT
1 TTC-CAGTCCTCA-AAG-AGCAGGACACCT
1285460 TTCCAGTCCTCAAAGAGCAGGACACCT
1 TTCCAGTCCTCAAAGAGCAGGACACCT
1285487 TTC
1 TTC
1285490 AAAGCCCACC
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.13
27 13 0.33
28 10 0.26
29 5 0.13
30 3 0.08
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (27 bp):
TTCCAGTCCTCAAAGAGCAGGACACCT
Found at i:1285654 original size:26 final size:26
Alignment explanation
Indices: 1285566--1285656 Score: 76
Period size: 26 Copynumber: 3.4 Consensus size: 26
1285556 AAGTTGGTGG
* * *
1285566 CACCTTTCAGTCCCTAAAGAGCAGGA
1 CACCTTTCAATCCCCAAAGAGGAGGA
* * * *
1285592 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TTCAATCCC-CA-AAG-AGGAGGA
1285621 CACCTTTCAATCCCCAAAGAGGAGGA
1 CACCTTTCAATCCCCAAAGAGGAGGA
1285647 CACCTTTCAA
1 CACCTTTCAA
1285657 AGCCCACATA
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
25 4 0.08
26 18 0.37
27 8 0.16
28 8 0.16
29 8 0.16
30 3 0.06
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.20
Consensus pattern (26 bp):
CACCTTTCAATCCCCAAAGAGGAGGA
Found at i:1285709 original size:27 final size:27
Alignment explanation
Indices: 1285679--1285761 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
1285669 TTGGTGGCAT
1285679 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
1285706 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
1285734 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
1285761 T
1 T
1285762 CTTAAAGCCC
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:1286285 original size:26 final size:26
Alignment explanation
Indices: 1286203--1286285 Score: 60
Period size: 26 Copynumber: 3.1 Consensus size: 26
1286193 TTCCAGTCCT
1286203 CAAAGAGCAGGACACCTCTT-AAAGCC
1 CAAAGAGCAGGACACCT-TTCAAAGCC
* ** * ***
1286229 CACAAAAGTTGGTGGCACCTTTCAGTCCC
1 CA-AAGAG-CAG-GACACCTTTCAAAGCC
1286258 CAAAGAGCAGGACACCTTTCAAAGCC
1 CAAAGAGCAGGACACCTTTCAAAGCC
1286284 CA
1 CA
1286286 CCCAAGTTGG
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
26 16 0.41
27 5 0.13
28 7 0.18
29 11 0.28
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (26 bp):
CAAAGAGCAGGACACCTTTCAAAGCC
Found at i:1287165 original size:32 final size:32
Alignment explanation
Indices: 1287129--1287191 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1287119 TTCAACGATT
*
1287129 TGTATCGATAAATAAGTTTTGTATCGATACAA
1 TGTATCGATAAATAAGTATTGTATCGATACAA
*
1287161 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATAAATAAGTATTGTATCGATACA
1287192 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATAAATAAGTATTGTATCGATACAA
Found at i:1287166 original size:13 final size:13
Alignment explanation
Indices: 1287148--1287172 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1287138 AAATAAGTTT
1287148 TGTATCGATACAA
1 TGTATCGATACAA
1287161 TGTATCGATACA
1 TGTATCGATACA
1287173 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1287185 original size:19 final size:19
Alignment explanation
Indices: 1287128--1287194 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
1287118 ATTCAACGAT
* *
1287128 TTGTATCGATAAATAAGTT
1 TTGTATCGATACATAAGTA
1287147 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
1287161 -TGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
1287179 TTGTATCGATACATAA
1 TTGTATCGATACATAA
1287195 TTAGCTACTG
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
13 11 0.28
16 2 0.05
18 1 0.03
19 26 0.65
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:1287271 original size:33 final size:33
Alignment explanation
Indices: 1287214--1287276 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
1287204 GCCAAGGAAA
***
1287214 TGTATCGATACATTTTTCTGTGTATCGATAAAT
1 TGTATCGATACATGGATCTGTGTATCGATAAAT
*
1287247 TGTATCGATACATGGATCTTTGTATCGATA
1 TGTATCGATACATGGATCTGTGTATCGATA
1287277 CATTTGGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATAAAT
Found at i:1289806 original size:28 final size:27
Alignment explanation
Indices: 1289739--1289807 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
1289729 CTTCACAATC
**
1289739 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
1289766 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
1289794 GGGGATACTCCAAC
1 GGGGATACTCCAAC
1289808 TCCGGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:1289923 original size:52 final size:52
Alignment explanation
Indices: 1289794--1289960 Score: 178
Period size: 52 Copynumber: 3.2 Consensus size: 52
1289784 TTATTTCCGA
** * *
1289794 GGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTTTCCATAATC
1 GGGGATACTCCAACTCCGGTTTTATTTCCAAAACACCAATTTTTCCATAATC
* * *
1289846 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATTTCCAAAACACCAATTTTTCC-ATAATC
* * *
1289898 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTCC-AAAACACCAATTTTTCCATAATC
* *
1289950 GAGGATGCTCC
1 GGGGATACTCC
1289961 GACCTCGTTA
Statistics
Matches: 95, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
51 9 0.09
52 70 0.74
53 12 0.13
54 4 0.04
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (52 bp):
GGGGATACTCCAACTCCGGTTTTATTTCCAAAACACCAATTTTTCCATAATC
Found at i:1290126 original size:79 final size:79
Alignment explanation
Indices: 1289975--1290179 Score: 234
Period size: 79 Copynumber: 2.6 Consensus size: 79
1289965 TCGTTATTGC
* * * *
1289975 ATTGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAAT
1 ATTGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT
* *
1290040 ATTGATTTCTCATA
66 ATCGATTTCTCACA
* * * ** *
1290054 ATTGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTC-TAAT
1 ATTGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT
1290118 CATCGATTTCTCACA
66 -ATCGATTTCTCACA
** * *
1290133 ACCGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 ATTGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
1290180 TGTTATTATC
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
78 8 0.07
79 99 0.93
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (79 bp):
ATTGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT
ATCGATTTCTCACA
Found at i:1294569 original size:20 final size:19
Alignment explanation
Indices: 1294544--1294617 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
1294534 AAAATGGCTG
*
1294544 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
* *
1294564 AATGTATCGATATAATGAGC
1 AATGTATCGATACAATGA-A
1294584 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
1294604 AATGTATCGATACA
1 AATGTATCGATACA
1294618 TCTGGGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1294674 original size:13 final size:13
Alignment explanation
Indices: 1294656--1294681 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1294646 ACAAAGATCG
1294656 ATGTATCGATACA
1 ATGTATCGATACA
1294669 ATGTATCGATACA
1 ATGTATCGATACA
1294682 TTGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1294757 original size:19 final size:21
Alignment explanation
Indices: 1294733--1294782 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
1294723 AGCGATACAC
1294733 TGTATCGATACA-ACACT-TT
1 TGTATCGATACATACACTATT
**
1294752 TGTATCGATACATTTACTATT
1 TGTATCGATACATACACTATT
1294773 TGTATCGATA
1 TGTATCGATA
1294783 TAAATTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 12 0.44
20 3 0.11
21 12 0.44
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATACACTATT
Found at i:1295434 original size:16 final size:16
Alignment explanation
Indices: 1295409--1295440 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1295399 GATGAAAAGA
*
1295409 ATTTTTTTATTATTTT
1 ATTTTGTTATTATTTT
1295425 ATTTTGTTATTATTTT
1 ATTTTGTTATTATTTT
1295441 TTTAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (16 bp):
ATTTTGTTATTATTTT
Found at i:1296332 original size:21 final size:23
Alignment explanation
Indices: 1296306--1296356 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
1296296 AGAGGCTCGA
*
1296306 GCTACTAC-C-GTGTTCGTGGAT
1 GCTACTACGCGGTGTTCATGGAT
*
1296327 GCTACTGCTGCGGTGTTCATGGAT
1 GCTACTAC-GCGGTGTTCATGGAT
1296351 GCTACT
1 GCTACT
1296357 GCTGCCGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.28
23 1 0.04
24 17 0.68
ACGTcount: A:0.14, C:0.24, G:0.29, T:0.33
Consensus pattern (23 bp):
GCTACTACGCGGTGTTCATGGAT
Found at i:1296344 original size:24 final size:24
Alignment explanation
Indices: 1296313--1296373 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
1296303 CGAGCTACTA
1296313 CCGTGTTCGTGGATGCTACTGCTG
1 CCGTGTTCGTGGATGCTACTGCTG
* *
1296337 CGGTGTTCATGGATGCTACTGCTG
1 CCGTGTTCGTGGATGCTACTGCTG
1296361 CCGTGTTCGTGGA
1 CCGTGTTCGTGGA
1296374 AGCTGAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.10, C:0.23, G:0.34, T:0.33
Consensus pattern (24 bp):
CCGTGTTCGTGGATGCTACTGCTG
Found at i:1296683 original size:42 final size:42
Alignment explanation
Indices: 1296637--1297390 Score: 682
Period size: 42 Copynumber: 18.0 Consensus size: 42
1296627 CAATCATCAA
* * *
1296637 GGTCAAAGTCGATAGGCAGACTGAGGGTA-AAATAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAA-AGTCTCCAG
* * *
1296679 GGTC-AAGACCGACAGGCAGGCTAAAGGTAGAAAAGTCTCTAG
1 GGTCAAAG-CCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAG
* * * * *
1296721 GATCAAAGCTGACAGGTAGACTAAGGGTAGAAAAATCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAG
* * * * * * *
1296763 GGT-TAAGCCAACGGGCAGACTGAGGGAAGAAAAGTCTCTAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAG
* * * *
1296804 GGTCAAAGCCGACTGGCAGTCTAAGGGTAGGAAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAG
*
1296846 GGTCAAAGCCGACGGGCAGACTAAGGGTAGAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAG
* * * *
1296888 GGTCAAAGTCGACAGGCAGATTAAGGGCAGGAAAA-TATCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTA-GAAAAGTCTCCAG
* * * *
1296930 GGTCAAAGCCGATAGGCAGACTAAAGGAATG-AAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTA-GAAAAGTCTCCAG
* * *
1296972 GGTCAAAGTCGATAGGCAGACTAAGGG-AAAGAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGA-AAAGTCTCCAG
* * * * * *
1297014 GGTCAATGTCGACAGGCAAACTAAGGGAAGGAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAG
* * * ** * *
1297056 GGTCAAAGCTGACAAGCAAACTAAGGAAAGGAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAG
* * * *
1297098 GGTCAAAGCCGACAGGTAGACTAAGGGTAGGAAAGTTTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAG
* * * * * *
1297140 GGTCAAACCCGCCAAGCAGACTAAGGGAAGGAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAG
* * * * * *
1297182 GGTCAAAGCCGCCAAGCAGACTAAAGGAAGGAAAA-TCTCTAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGTA-GAAAAGTCTCCAG
* *
1297224 GTTCAAAGCTGACAGGCAGACTAAGGGATAG-AAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGG-TAGAAAAGTCTCCAG
* * *
1297266 GGTCAAAGCTGACAAGCAGA-TAAGGGAAGAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAG
* * * *
1297307 GGTCAAAGTCGACAGGTAGTCTAAGGG-AAAGAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGA-AAAGTCTCCAG
* * * *
1297349 GGTCAAACCCGACAAGCAGTCTAAGGGAAGAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAG
1297391 AAGTTTAATG
Statistics
Matches: 591, Mismatches: 105, Indels: 32
0.81 0.14 0.04
Matches are distributed among these distances:
40 2 0.00
41 76 0.13
42 494 0.84
43 19 0.03
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.15
Consensus pattern (42 bp):
GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAG
Found at i:1305049 original size:38 final size:38
Alignment explanation
Indices: 1304998--1305074 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
1304988 GATCAGGTAC
1304998 CAAATTCAAATCTTCAACATCTACACTACTATACAGCT
1 CAAATTCAAATCTTCAACATCTACACTACTATACAGCT
1305036 CAAATTCAAATCTTCAACATCTACACTACTATACAGCT
1 CAAATTCAAATCTTCAACATCTACACTACTATACAGCT
1305074 C
1 C
1305075 GACCCCTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.30, G:0.03, T:0.29
Consensus pattern (38 bp):
CAAATTCAAATCTTCAACATCTACACTACTATACAGCT
Done.