Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007816.1 Hibiscus syriacus cultivar Beakdansim tig00110151_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: 3994936
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 14
Found at i:796599 original size:9 final size:9
Alignment explanation
Indices: 796575--796603 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
796565 ACTTTCTTTC
796575 TTTCTTCTT
1 TTTCTTCTT
796584 TTT-TTCTT
1 TTTCTTCTT
796592 TTTCTTCTT
1 TTTCTTCTT
796601 TTT
1 TTT
796604 TAGTGCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTCTTCTT
Found at i:796618 original size:24 final size:24
Alignment explanation
Indices: 796591--796645 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
796581 CTTTTTTTCT
**
796591 TTTTCTTCTTTTTTAGTGCTTAAC
1 TTTTCTTCTTTTGGAGTGCTTAAC
*
796615 TTTTCTTCTTTTGGAGTGCTTGAC
1 TTTTCTTCTTTTGGAGTGCTTAAC
796639 TTTTCTT
1 TTTTCTT
796646 TGCTGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.09, C:0.16, G:0.13, T:0.62
Consensus pattern (24 bp):
TTTTCTTCTTTTGGAGTGCTTAAC
Found at i:807341 original size:14 final size:14
Alignment explanation
Indices: 807322--807352 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
807312 GCAAGCACTC
807322 AAAAGAAGAAAAGA
1 AAAAGAAGAAAAGA
807336 AAAAGAAGAAAAGA
1 AAAAGAAGAAAAGA
807350 AAA
1 AAA
807353 GAAAATAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAGAAGAAAAGA
Found at i:824964 original size:28 final size:28
Alignment explanation
Indices: 824924--824988 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
824914 TCATGTTTTT
824924 CATATCATTCATATCTATGCTATGATTA
1 CATATCATTCATATCTATGCTATGATTA
*
824952 CATATCATTCATATCTATGCTATTATTA
1 CATATCATTCATATCTATGCTATGATTA
824980 CATATCATT
1 CATATCATT
824989 TATTGGGATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (28 bp):
CATATCATTCATATCTATGCTATGATTA
Found at i:826712 original size:23 final size:25
Alignment explanation
Indices: 826677--826731 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 25
826667 AAATCCAGCA
826677 AAGAAAATCAAAGCACTC-AAAA-G
1 AAGAAAATCAAAGCACTCAAAAAGG
* *
826700 AAGAAATTGAAAGCACTCAAAAAGG
1 AAGAAAATCAAAGCACTCAAAAAGG
826725 AAGAAAA
1 AAGAAAA
826732 AGAAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 16 0.59
24 4 0.15
25 7 0.26
ACGTcount: A:0.62, C:0.13, G:0.16, T:0.09
Consensus pattern (25 bp):
AAGAAAATCAAAGCACTCAAAAAGG
Found at i:832844 original size:13 final size:13
Alignment explanation
Indices: 832826--832851 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
832816 ATTCGGCCAA
832826 GGGTTATTACCCT
1 GGGTTATTACCCT
832839 GGGTTATTACCCT
1 GGGTTATTACCCT
832852 CCATTTAAAC
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:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (13 bp):
GGGTTATTACCCT
Found at i:833572 original size:24 final size:23
Alignment explanation
Indices: 833545--833607 Score: 56
Period size: 24 Copynumber: 2.7 Consensus size: 23
833535 CAAAGAAATC
833545 AAGAAAAAAAATAAAGCACTCCAA
1 AAGAAAAAAAATAAAGCACT-CAA
* ** *
833569 AAGAAGAAATTTACAGCACTCAA
1 AAGAAAAAAAATAAAGCACTCAA
*
833592 AA-AAAAAGAAAGAAAG
1 AAGAAAAA-AAATAAAG
833608 AAAGAAAGTT
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
22 4 0.14
23 9 0.31
24 16 0.55
ACGTcount: A:0.65, C:0.13, G:0.13, T:0.10
Consensus pattern (23 bp):
AAGAAAAAAAATAAAGCACTCAA
Found at i:834598 original size:15 final size:15
Alignment explanation
Indices: 834574--834611 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
834564 GAAATGGAAG
834574 AAGAAATGAAATGAT
1 AAGAAATGAAATGAT
*
834589 AAGAACTGAAATGA-
1 AAGAAATGAAATGAT
834603 ATAGAAATG
1 A-AGAAATG
834612 TTATCAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 1 0.05
15 19 0.95
ACGTcount: A:0.58, C:0.03, G:0.21, T:0.18
Consensus pattern (15 bp):
AAGAAATGAAATGAT
Found at i:835489 original size:231 final size:231
Alignment explanation
Indices: 835086--835506 Score: 815
Period size: 231 Copynumber: 1.8 Consensus size: 231
835076 TAGTTTTCAA
835086 AAGGTTGAAACCCCTTTGAAAACACATGTTTTTTTAATGAAAATACATAATTTTAATGAAGATAA
1 AAGGTTGAAACCCCTTTGAAAACACATGTTTTTTTAATGAAAATACATAATTTTAATGAAGATAA
835151 ATGCACTTGGCCAAATGGTTATGTGTTGGTTCGGCCCTAAAGATGTTTTGAATGCATTTGAAAGT
66 ATGCACTTGGCCAAATGGTTATGTGTTGGTTCGGCCCTAAAGATGTTTTGAATGCATTTGAAAGT
835216 TATATGGGCGCCAAAATGAAGAGGAAAGAGTCTTTGGCCGAATAAGAAGCATCCCTTGGTTTCAA
131 TATATGGGCGCCAAAATGAAGAGGAAAGAGTCTTTGGCCGAATAAGAAGCATCCCTTGGTTTCAA
835281 AGGGTTTAGGCCGAATAGACACATGATGGTTCGGCT
196 AGGGTTTAGGCCGAATAGACACATGATGGTTCGGCT
835317 AAGGTTGAAACCCCTTTGAAAACACATGTTTTTTTAATGAAAATACATAATTTTAATGAAGATAA
1 AAGGTTGAAACCCCTTTGAAAACACATGTTTTTTTAATGAAAATACATAATTTTAATGAAGATAA
* *
835382 ATGCACTTGGCCAAATGGTTATGTGTTGGTTCGGTCCTAAGGATGTTTTGAATGCATTTGAAAGT
66 ATGCACTTGGCCAAATGGTTATGTGTTGGTTCGGCCCTAAAGATGTTTTGAATGCATTTGAAAGT
*
835447 TATATGGGCTCCAAAATGAAGAGGAAAGAGTCTTTGGCCGAATAAGAAGCATCCCTTGGT
131 TATATGGGCGCCAAAATGAAGAGGAAAGAGTCTTTGGCCGAATAAGAAGCATCCCTTGGT
835507 GTTTTGGCGC
Statistics
Matches: 187, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
231 187 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.31
Consensus pattern (231 bp):
AAGGTTGAAACCCCTTTGAAAACACATGTTTTTTTAATGAAAATACATAATTTTAATGAAGATAA
ATGCACTTGGCCAAATGGTTATGTGTTGGTTCGGCCCTAAAGATGTTTTGAATGCATTTGAAAGT
TATATGGGCGCCAAAATGAAGAGGAAAGAGTCTTTGGCCGAATAAGAAGCATCCCTTGGTTTCAA
AGGGTTTAGGCCGAATAGACACATGATGGTTCGGCT
Found at i:841207 original size:19 final size:17
Alignment explanation
Indices: 841176--841210 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
841166 TTTCCAACAC
841176 TCAAAAAAAAAAGAAAA
1 TCAAAAAAAAAAGAAAA
841193 TCAAAGAAAAGAAAGAAA
1 TCAAA-AAAA-AAAGAAA
841211 GAAAGTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.77, C:0.06, G:0.11, T:0.06
Consensus pattern (17 bp):
TCAAAAAAAAAAGAAAA
Found at i:846025 original size:28 final size:27
Alignment explanation
Indices: 845994--846047 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
845984 TTTGAATGTA
845994 CTTTGCAA-CTTTCTTCACTTTTCTTTTT
1 CTTTG-AATCTTTCTTC-CTTTTCTTTTT
* *
846022 CTTTGAATTTTTCTTCTTTTTCTTTT
1 CTTTGAATCTTTCTTCCTTTTCTTTT
846048 ATTTTTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.09, C:0.20, G:0.04, T:0.67
Consensus pattern (27 bp):
CTTTGAATCTTTCTTCCTTTTCTTTTT
Found at i:846041 original size:20 final size:21
Alignment explanation
Indices: 846013--846062 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
846003 TTTCTTCACT
846013 TTTCTTTTTCTTTGAATTTTTC
1 TTTCTTTTTCTTT-AATTTTTC
*
846035 -TTCTTTTTCTTTTATTTTTC
1 TTTCTTTTTCTTTAATTTTTC
846055 TTTCTTTT
1 TTTCTTTT
846063 GAACTCCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTCTTTTTCTTTAATTTTTC
Found at i:852341 original size:14 final size:14
Alignment explanation
Indices: 852318--852358 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
852308 TGACTATTCT
* *
852318 CAGTTCATCCCGTC
1 CAGTTAATCCCCTC
852332 CAGTTAATCCCCTC
1 CAGTTAATCCCCTC
852346 CAGTTAATCCCCT
1 CAGTTAATCCCCT
852359 TATATGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.20, C:0.41, G:0.10, T:0.29
Consensus pattern (14 bp):
CAGTTAATCCCCTC
Found at i:855995 original size:22 final size:20
Alignment explanation
Indices: 855946--855997 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
855936 ATTAAAAAAA
855946 TATT-TTAAAATATTTATTT
1 TATTATTAAAATATTTATTT
*
855965 TATTTTTAAAATAATATTATTT
1 TATTATTAAAAT-AT-TTATTT
855987 GT-TTATTAAAA
1 -TATTATTAAAA
855998 GTGTTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.14
20 7 0.25
21 2 0.07
22 14 0.50
23 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTATTAAAATATTTATTT
Found at i:859160 original size:21 final size:21
Alignment explanation
Indices: 859132--859189 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 21
859122 AATATTTTTT
*
859132 ACTC-CAATTTCTTTTTCTTC
1 ACTCTCAATTTCTTTTTCTTA
*
859152 ACTCTCAATGTC-TTTT-TTA
1 ACTCTCAATTTCTTTTTCTTA
*
859171 ACTCTC-GTTTCTTTTTCTT
1 ACTCTCAATTTCTTTTTCTT
859190 TTTTACAGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 3 0.10
19 12 0.39
20 10 0.32
21 6 0.19
ACGTcount: A:0.14, C:0.26, G:0.03, T:0.57
Consensus pattern (21 bp):
ACTCTCAATTTCTTTTTCTTA
Found at i:859176 original size:19 final size:19
Alignment explanation
Indices: 859126--859176 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
859116 ACATTCAATA
*
859126 TTTTTTACTC-CAATTTCT
1 TTTTTTACTCTCAATGTCT
859144 TTTTCTTCACTCTCAATGTCT
1 TTTT-TT-ACTCTCAATGTCT
*
859165 TTTTTAACTCTC
1 TTTTTTACTCTC
859177 GTTTCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 4 0.14
19 8 0.29
20 5 0.18
21 11 0.39
ACGTcount: A:0.16, C:0.25, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTTTACTCTCAATGTCT
Found at i:863823 original size:20 final size:20
Alignment explanation
Indices: 863795--863897 Score: 75
Period size: 20 Copynumber: 5.0 Consensus size: 20
863785 CATTTTGTGT
*
863795 ACATGGTATCGATACTACTC
1 ACATAGTATCGATACTACTC
*
863815 ACATAGTATCTATACTACT-
1 ACATAGTATCGATACTACTC
* *
863834 AGGATAGTATCGATACTGCT-
1 A-CATAGTATCGATACTACTC
*
863854 ATCATCGAGTATCGATACTATTC
1 A-CAT--AGTATCGATACTACTC
** * *
863877 TTACAGTATCGATACTCCTC
1 ACATAGTATCGATACTACTC
863897 A
1 A
863898 AGGAGTATTA
Statistics
Matches: 64, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
19 1 0.02
20 49 0.77
22 14 0.22
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (20 bp):
ACATAGTATCGATACTACTC
Found at i:869500 original size:22 final size:21
Alignment explanation
Indices: 869475--869529 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
869465 TTTTTAACTC
869475 CAATTTATTTTTTCTTCAATCT
1 CAATTT-TTTTTTCTTCAATCT
* *
869497 CAATTTCTTTTTCTTCGATCT
1 CAATTTTTTTTTCTTCAATCT
*
869518 CAATTTCTTTTT
1 CAATTTTTTTTT
869530 AAACTCTCGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 25 0.81
22 6 0.19
ACGTcount: A:0.18, C:0.20, G:0.02, T:0.60
Consensus pattern (21 bp):
CAATTTTTTTTTCTTCAATCT
Found at i:869509 original size:21 final size:21
Alignment explanation
Indices: 869483--869529 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
869473 TCCAATTTAT
869483 TTTTTCTTCAATCTCAATTTC
1 TTTTTCTTCAATCTCAATTTC
*
869504 TTTTTCTTCGATCTCAATTTC
1 TTTTTCTTCAATCTCAATTTC
869525 TTTTT
1 TTTTT
869530 AAACTCTCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.21, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTTCTTCAATCTCAATTTC
Found at i:871875 original size:17 final size:17
Alignment explanation
Indices: 871853--871899 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
871843 ATATAAAGAG
871853 CTAGTTTAATTAATGAA
1 CTAGTTTAATTAATGAA
* *
871870 CTAGTTTAAATGAATTAA
1 CTAGTTT-AATTAATGAA
871888 CTAGTTTAATTA
1 CTAGTTTAATTA
871900 GTCAACTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (17 bp):
CTAGTTTAATTAATGAA
Found at i:873878 original size:13 final size:13
Alignment explanation
Indices: 873860--873884 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
873850 AATCGTAAAG
873860 ATAATGAAAAAAA
1 ATAATGAAAAAAA
873873 ATAATGAAAAAA
1 ATAATGAAAAAA
873885 TACGAAACCT
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:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
ATAATGAAAAAAA
Found at i:882363 original size:18 final size:19
Alignment explanation
Indices: 882337--882389 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
882327 GGATTATCAA
882337 TGGTCCTTCGGGACA-TAG
1 TGGTCCTTCGGGACATTAG
* *
882355 TGGTTCTTCGGAACAATTAG
1 TGGTCCTTCGGGAC-ATTAG
882375 TGGTCCTTCGGGACA
1 TGGTCCTTCGGGACA
882390 AATATTCAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 12 0.41
19 2 0.07
20 15 0.52
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (19 bp):
TGGTCCTTCGGGACATTAG
Found at i:883574 original size:20 final size:20
Alignment explanation
Indices: 883536--883574 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
883526 CAACTTAATG
* *
883536 TCATGCAAATTTATTAACAC
1 TCATGCAAATTCATGAACAC
883556 TCATGCAAATTCATGAACA
1 TCATGCAAATTCATGAACA
883575 AGTAAAAGAT
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:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (20 bp):
TCATGCAAATTCATGAACAC
Found at i:886452 original size:28 final size:28
Alignment explanation
Indices: 886408--886476 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
886398 TTATACGAGT
* *
886408 CACTTTCGAGTGTGGATTACTGATGAGA
1 CACTTTCGAGTGCGGATCACTGATGAGA
* *
886436 CACTTTTGAGTGCGGATCACTGATGAGG
1 CACTTTCGAGTGCGGATCACTGATGAGA
886464 CACTTTCGAGTGC
1 CACTTTCGAGTGC
886477 ATATTGCATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (28 bp):
CACTTTCGAGTGCGGATCACTGATGAGA
Found at i:886608 original size:29 final size:27
Alignment explanation
Indices: 886571--886629 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
886561 TATGTTGATC
* *
886571 AATATG-AAAGTACGAATTATATGAGTTG
1 AATATGAAAAGCAC-AATTACATGA-TTG
886599 AATATGGAAAAGCACAATTACATGATTG
1 AATAT-GAAAAGCACAATTACATGATTG
886627 AAT
1 AAT
886630 GACAATAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 11 0.41
29 10 0.37
30 6 0.22
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.29
Consensus pattern (27 bp):
AATATGAAAAGCACAATTACATGATTG
Found at i:887168 original size:27 final size:26
Alignment explanation
Indices: 887121--887172 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
887111 AAAATAAACA
887121 TATGTTTGTAAATTTTGATTTTATTT
1 TATGTTTGTAAATTTTGATTTTATTT
887147 TATGTTTTGATAAATTTT-ATTTTATT
1 TATG-TTTG-TAAATTTTGATTTTATT
887173 AGCACAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 4 0.17
27 12 0.50
28 8 0.33
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (26 bp):
TATGTTTGTAAATTTTGATTTTATTT
Found at i:888013 original size:15 final size:14
Alignment explanation
Indices: 887982--888034 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
887972 AACTTTTATT
887982 ATTATTTTTAATAA
1 ATTATTTTTAATAA
*
887996 ATTATTTTGTATTAA
1 ATTATTTT-TAATAA
888011 ATTATTTTT-A-AA
1 ATTATTTTTAATAA
888023 ATTACTTTTTAA
1 ATTA-TTTTTAA
888035 ATTTAAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 6 0.18
13 5 0.15
14 10 0.29
15 13 0.38
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (14 bp):
ATTATTTTTAATAA
Found at i:888165 original size:18 final size:18
Alignment explanation
Indices: 888142--888177 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
888132 AGTTTTAAAT
888142 TCCTAAGGAACTTATCAC
1 TCCTAAGGAACTTATCAC
888160 TCCTAAGGAACTTATCAC
1 TCCTAAGGAACTTATCAC
888178 ATCAACGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (18 bp):
TCCTAAGGAACTTATCAC
Found at i:890792 original size:19 final size:19
Alignment explanation
Indices: 890765--890805 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
890755 CGAAAGTTGA
* *
890765 AAATCTATCATTATTCTTG
1 AAATCTATCATGAGTCTTG
*
890784 AAATGTATCATGAGTCTTG
1 AAATCTATCATGAGTCTTG
890803 AAA
1 AAA
890806 GAAGGCAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (19 bp):
AAATCTATCATGAGTCTTG
Found at i:892793 original size:2 final size:2
Alignment explanation
Indices: 892786--892810 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
892776 AGTTAAGCCG
892786 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
892811 TAATATACCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:893463 original size:31 final size:29
Alignment explanation
Indices: 893398--893464 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
893388 AACTTGACTT
* ** *
893398 TTAAATTTTAGATAAAATATTTTTTGATC
1 TTAAATTTTACATAAAATATAATTTAATC
893427 TTAAATTTTACATAAAATACTAATTTAACTC
1 TTAAATTTTACATAAAATA-TAATTTAA-TC
893458 TTAAATT
1 TTAAATT
893465 ATATATACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 18 0.56
30 5 0.16
31 9 0.28
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (29 bp):
TTAAATTTTACATAAAATATAATTTAATC
Found at i:894177 original size:6 final size:6
Alignment explanation
Indices: 894166--894213 Score: 87
Period size: 6 Copynumber: 7.8 Consensus size: 6
894156 TATTTACCAA
894166 GAAAGG GAAAGG GAAAGG GAAAAGG GAAAGG GAAAGG GAAAGG GAAAG
1 GAAAGG GAAAGG GAAAGG G-AAAGG GAAAGG GAAAGG GAAAGG GAAAG
894214 ATACTTGAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (6 bp):
GAAAGG
Found at i:894191 original size:19 final size:18
Alignment explanation
Indices: 894166--894213 Score: 87
Period size: 19 Copynumber: 2.6 Consensus size: 18
894156 TATTTACCAA
894166 GAAAGGGAAAGGGAAAGG
1 GAAAGGGAAAGGGAAAGG
894184 GAAAAGGGAAAGGGAAAGG
1 G-AAAGGGAAAGGGAAAGG
894203 GAAAGGGAAAG
1 GAAAGGGAAAG
894214 ATACTTGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.38
19 18 0.62
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (18 bp):
GAAAGGGAAAGGGAAAGG
Found at i:896294 original size:50 final size:51
Alignment explanation
Indices: 896216--896314 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 51
896206 TGCACATGAA
* *
896216 GACTTTGGTGCCAAGATGAACAAGCATATCACCATTCGGCC-AAGGGAGAT
1 GACTTTGGCGCCAAGATGAACAAACATATCACCATTCGGCCAAAGGGAGAT
896266 GACTTTGGCGCCAAGATGAACAAACATATCACCATTCGGCCAAAGGGAG
1 GACTTTGGCGCCAAGATGAACAAACATATCACCATTCGGCCAAAGGGAG
896315 GTTGATTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 39 0.85
51 7 0.15
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.18
Consensus pattern (51 bp):
GACTTTGGCGCCAAGATGAACAAACATATCACCATTCGGCCAAAGGGAGAT
Found at i:908334 original size:25 final size:25
Alignment explanation
Indices: 908306--908355 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
908296 ATTTCGTAGC
*
908306 CATC-TCTATCCTTATTCTTTCATTT
1 CATCATCTAT-CTTATTATTTCATTT
*
908331 CATCATTTATCTTATTATTTCATTT
1 CATCATCTATCTTATTATTTCATTT
908356 TTTATTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.20, C:0.22, G:0.00, T:0.58
Consensus pattern (25 bp):
CATCATCTATCTTATTATTTCATTT
Found at i:908625 original size:17 final size:17
Alignment explanation
Indices: 908593--908624 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
908583 AAATTGGAGT
908593 ACAAAAAGAAAGAAAAG
1 ACAAAAAGAAAGAAAAG
908610 ACAAAAAG-AAGAAAA
1 ACAAAAAGAAAGAAAA
908625 AAATTCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (17 bp):
ACAAAAAGAAAGAAAAG
Found at i:915187 original size:22 final size:22
Alignment explanation
Indices: 915132--915189 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
915122 TTAGTTACTC
*
915132 AAAACAAT-TTTTCATTATAAT
1 AAAACAATGTTTTAATTATAAT
*
915153 AAAATC--TGATTTTAATTATATT
1 AAAA-CAATG-TTTTAATTATAAT
915175 AAAACAATGTTTTAA
1 AAAACAATGTTTTAA
915190 AATCTGCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
20 1 0.03
21 5 0.17
22 22 0.73
23 2 0.07
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (22 bp):
AAAACAATGTTTTAATTATAAT
Found at i:918273 original size:17 final size:18
Alignment explanation
Indices: 918218--918301 Score: 73
Period size: 17 Copynumber: 4.8 Consensus size: 18
918208 GAATAAATAT
918218 GCATGATAGTTCATTTAA
1 GCATGATAGTTCATTTAA
* * * *
918236 ACTTG-TGGTTCATTAAA
1 GCATGATAGTTCATTTAA
*
918253 GCATG-TAGTTTATTTAA
1 GCATGATAGTTCATTTAA
* *
918270 GCATGTTAGTTTATTTAA
1 GCATGATAGTTCATTTAA
* *
918288 GTATGCTAGTTCAT
1 GCATGATAGTTCAT
918302 CTAATAAAGC
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
17 27 0.51
18 26 0.49
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.44
Consensus pattern (18 bp):
GCATGATAGTTCATTTAA
Found at i:925553 original size:108 final size:108
Alignment explanation
Indices: 925364--925581 Score: 346
Period size: 108 Copynumber: 2.0 Consensus size: 108
925354 ATAATTGCAA
* * *
925364 AGAAAATACGAATGCAAAATTCATGATACAAATGTAAAAGGTGCTAATTCTAAAAGTGACCTCCA
1 AGAAAATACGAATGCAAAATGCATGATACAAATGTAAAAGGTGCTAATTCCAAAAGTGACCGCCA
* *
925429 TAAAAAAACTTTCATTAGACAATAAGGTTTCATTACACTAGGT
66 TAAAAAAACTTTCATTAGACAACAAGGTTTCATTACACCAGGT
* * * *
925472 AGAAAATATGAATGCATAATGCATGATGCAAATGTAAAAGGTTCTAATTCCAAAAGTGACCGCCA
1 AGAAAATACGAATGCAAAATGCATGATACAAATGTAAAAGGTGCTAATTCCAAAAGTGACCGCCA
*
925537 TAAAAAAACTTTCATTATACAACAAGGTTTCATTACACCAGGT
66 TAAAAAAACTTTCATTAGACAACAAGGTTTCATTACACCAGGT
925580 AG
1 AG
925582 TCAAAATAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 100 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.26
Consensus pattern (108 bp):
AGAAAATACGAATGCAAAATGCATGATACAAATGTAAAAGGTGCTAATTCCAAAAGTGACCGCCA
TAAAAAAACTTTCATTAGACAACAAGGTTTCATTACACCAGGT
Found at i:931205 original size:44 final size:44
Alignment explanation
Indices: 931152--931284 Score: 160
Period size: 44 Copynumber: 3.0 Consensus size: 44
931142 ACACAAAGTG
* * * *
931152 CCATAGTACACAAACTATTACTACAAGTACGCAAAGTAATCTTA
1 CCATAGTACACAAACTACTACTTCAAGTACACAAAGTACTCTTA
* * * *
931196 CCGTAGTACACTAAGTACTACTTCAAGTACACAAACTACTCTTA
1 CCATAGTACACAAACTACTACTTCAAGTACACAAAGTACTCTTA
* *
931240 CCATAATACACTAAGC-ACTACTTCAAGTACACAAAGTACTCTTA
1 CCATAGTACAC-AAACTACTACTTCAAGTACACAAAGTACTCTTA
931284 C
1 C
931285 GAAAATGCAA
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
44 73 0.99
45 1 0.01
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (44 bp):
CCATAGTACACAAACTACTACTTCAAGTACACAAAGTACTCTTA
Found at i:931226 original size:21 final size:21
Alignment explanation
Indices: 931156--931279 Score: 81
Period size: 21 Copynumber: 5.7 Consensus size: 21
931146 AAAGTGCCAT
* * *
931156 AGTACACAAACTATTACTACA
1 AGTACACAAAGTACTACTTCA
* * *
931177 AGTACGCAAAGTAAT-CTTACCGT
1 AGTACACAAAGTACTACTT--C-A
*
931200 AGTACACTAAGTACTACTTCA
1 AGTACACAAAGTACTACTTCA
*
931221 AGTACACAAACTACT-CTTACCA
1 AGTACACAAAGTACTACTT--CA
* * *
931243 TAATACACTAAGCACTACTTCA
1 -AGTACACAAAGTACTACTTCA
931265 AGTACACAAAGTACT
1 AGTACACAAAGTACT
931280 CTTACGAAAA
Statistics
Matches: 77, Mismatches: 18, Indels: 16
0.69 0.16 0.14
Matches are distributed among these distances:
20 5 0.06
21 37 0.48
22 6 0.08
23 23 0.30
24 6 0.08
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (21 bp):
AGTACACAAAGTACTACTTCA
Found at i:944685 original size:81 final size:80
Alignment explanation
Indices: 944591--945078 Score: 582
Period size: 81 Copynumber: 6.1 Consensus size: 80
944581 AAGCATTTAG
* * * * *
944591 TCTTTTAAC-CAAAGGCATTTAGCCTTTCATCTAACAT-GCATAATTGACACTTTTCTACCGATT
1 TCTTTT-ACTCAAAGGTATTTAACCTTTCATCTAAC-TGGCATAATTGACACATTTCT-CCAAAT
* * *
944654 GCATAGCTAGGCAAATAA
63 GCACAGCTAGGCCATTAA
* *
944672 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACATATCTCTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTC-CAAATGC
944737 ACAGCTAGGCCATTAA
65 ACAGCTAGGCCATTAA
* * *
944753 TCTTTTACTCAAAGGTATTTAACCTTTCATCAAACTAGCATAATTGACACCTTTCAAT-CAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTC--TCCAAATG
*
944817 CACAACTAGGCCATTAA
64 CACAGCTAGGCCATTAA
* * * *
944834 TATTTTACTCAAAGGTATTTATCATTTCATCTAACT-GCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCT-CCAAATGC
*
944898 ACTA-TTAGGCCATTAA
65 AC-AGCTAGGCCATTAA
*
944914 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTC-AA---
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCT-CCAAATGC
944975 ACAGCTAGGCCATTAA
65 ACAGCTAGGCCATTAA
* *
944991 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTAACACA-TTCTTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTC-T-CCAAATG
* * *
945055 CACAACTAGGCAAATAA
64 CACAGCTAGGCCATTAA
945072 TCTTTTA
1 TCTTTTA
945079 TTTAAAACAA
Statistics
Matches: 362, Mismatches: 30, Indels: 30
0.86 0.07 0.07
Matches are distributed among these distances:
76 4 0.01
77 67 0.19
78 3 0.01
80 76 0.21
81 211 0.58
83 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (80 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTCCAAATGCA
CAGCTAGGCCATTAA
Found at i:954742 original size:24 final size:24
Alignment explanation
Indices: 954697--954742 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
954687 TTGGCTTTGC
*
954697 TTTTCTCTTTTTGTTTGAAATTCT
1 TTTTCTCTTTTTGTTTCAAATTCT
*
954721 TTTTCTTCTTTTT-TTTCTAATT
1 TTTTC-TCTTTTTGTTTCAAATT
954743 TTTCTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.11, C:0.13, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTCTCTTTTTGTTTCAAATTCT
Found at i:956363 original size:44 final size:44
Alignment explanation
Indices: 956315--956403 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
956305 AGATTTGTAC
956315 TATAAGTTATTTAATATTTAATATGTATTATATTAAACAACCTA
1 TATAAGTTATTTAATATTTAATATGTATTATATTAAACAACCTA
956359 TATAAGTTATTTAATATTTAATATGTATTATATTAAACAACCTA
1 TATAAGTTATTTAATATTTAATATGTATTATATTAAACAACCTA
956403 T
1 T
956404 TATCTAATGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (44 bp):
TATAAGTTATTTAATATTTAATATGTATTATATTAAACAACCTA
Found at i:958619 original size:23 final size:23
Alignment explanation
Indices: 958556--958612 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
958546 ATTAGGTAGT
958556 GCTTATATAATGTAATAGATGGC
1 GCTTATATAATGTAATAGATGGC
* *
958579 GATTATATATTGTAATAGATGGC
1 GCTTATATAATGTAATAGATGGC
958602 GCTTATATAAT
1 GCTTATATAAT
958613 AAAATAGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.39
Consensus pattern (23 bp):
GCTTATATAATGTAATAGATGGC
Found at i:959457 original size:198 final size:199
Alignment explanation
Indices: 958958--959664 Score: 1037
Period size: 199 Copynumber: 3.6 Consensus size: 199
958948 ATTAGGTTTT
* * * * ** * * *
958958 GATACATTATGTTGACCTATTTTCTAATTATAGGGGTATATTTCTATCGGTTTCATTGTAAAGTT
1 GATACATTATGTAGACCTATTTTCTCATAAAACCGGTATATTTCTACCGGTTACATTGTAAATTT
* *
959023 ACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACAATTTTAAATGTATCGAA
66 ACCTATTACATTATAATTATAGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATC-AA
959088 -ACTTTAT-ACGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAA
130 CACTTTATGA-GTGCACCTCGTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAA
*
959151 AGTGTT
194 AGTGTC
* * **
959157 GATACCTTATGTAGACCTATTTTCACATAAAACTAGTATATTTCTACCGGTTACATTGTAAATTT
1 GATACATTATGTAGACCTATTTTCTCATAAAACCGGTATATTTCTACCGGTTACATTGTAAATTT
* *
959222 ACCTATTACATTATAATTATAGGTTTCGATG-TTTTGGGATCGATATAATTTTAAATGTATCCAC
66 ACCTATTACATTATAATTATAGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCAAC
* * * *
959286 ACGTTATGAGTACACCTCGTTGGGCATTCATTCTGG-CAAAAAGTATCGACATAAATTTATAAAG
131 ACTTTATGAGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAG
*
959350 CGTC
196 TGTC
* *
959354 GATACATTATGTTGACCTATTTTGTCATAAAACCGGTATATTTCTACCGGTTACATTGTAAATTT
1 GATACATTATGTAGACCTATTTTCTCATAAAACCGGTATATTTCTACCGGTTACATTGTAAATTT
*
959419 ACCTATTACATTATAATTATAGGTTTCAATGTTTTTGGGATCGATACAATTTTAAATGTATCAAC
66 ACCTATTACATTATAATTATAGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCAAC
* * * *
959484 ACTTTATGAGTGCACCTCGTTTGGCATTCATTCTGGACAAAACGTATCGATACAAATTTAGAAAG
131 ACTTTATGAGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAG
*
959549 TTTTC
196 -TGTC
* *
959554 -ATACATTATGTAGACCTATTTTCTCATAAAACCGGTATATTTCTACCGGTTATATTGTAAATAT
1 GATACATTATGTAGACCTATTTTCTCATAAAACCGGTATATTTCTACCGGTTACATTGTAAATTT
* *
959618 ACCTATTACATTGTAATTATAGGTTTCGATGTTTTTGGGATTGATAC
66 ACCTATTACATTATAATTATAGGTTTCGATGTTTTTGGGATCGATAC
959665 TTTTAACAAA
Statistics
Matches: 456, Mismatches: 47, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
197 118 0.26
198 125 0.27
199 211 0.46
200 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (199 bp):
GATACATTATGTAGACCTATTTTCTCATAAAACCGGTATATTTCTACCGGTTACATTGTAAATTT
ACCTATTACATTATAATTATAGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCAAC
ACTTTATGAGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAG
TGTC
Found at i:963717 original size:18 final size:17
Alignment explanation
Indices: 963696--963754 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
963686 TGATTTGCTT
963696 AGAAGAAGCGATTGGTTG
1 AGAAGAAGCG-TTGGTTG
*
963714 AGAAGGAG-GTTGTCGTTG
1 AGAAGAAGCGTTG--GTTG
963732 AGAAG-AGC-TTGGTTG
1 AGAAGAAGCGTTGGTTG
963747 AGAAGAAG
1 AGAAGAAG
963755 TTTGAACAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
15 9 0.25
16 5 0.14
17 6 0.17
18 16 0.44
ACGTcount: A:0.32, C:0.05, G:0.41, T:0.22
Consensus pattern (17 bp):
AGAAGAAGCGTTGGTTG
Found at i:963748 original size:15 final size:15
Alignment explanation
Indices: 963707--963752 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
963697 GAAGAAGCGA
*
963707 TTGGTTGAGAAGGAGG
1 TTGGTTGAGAA-GAGC
963723 TTGTCGTTGAGAAGAGC
1 TTG--GTTGAGAAGAGC
963740 TTGGTTGAGAAGA
1 TTGGTTGAGAAGA
963753 AGTTTGAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 10 0.37
16 3 0.11
17 6 0.22
18 8 0.30
ACGTcount: A:0.26, C:0.04, G:0.41, T:0.28
Consensus pattern (15 bp):
TTGGTTGAGAAGAGC
Found at i:964506 original size:200 final size:200
Alignment explanation
Indices: 964142--965211 Score: 1427
Period size: 200 Copynumber: 5.4 Consensus size: 200
964132 GGTTACATTA
* * * *
964142 TAAATTTACCTATTATATTATAATTATAGG-TTTAGATGTTTTTGGGATCGATACAATTT--TAA
1 TAAATTTACCTATTACATTGTAATTATCGGTTTTA-ATGTTTTTGGGATCGATAC-TTTTAATAA
* * * *
964204 ATGTATCGATACTTTATGTGTGCACCTCGTTGGGAATTCATTCTGGACAAAAAGTATCGACACAA
64 ATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAATATCGACACAA
* * * *
964269 ATTTAAAAAGTGTCGATACATTATGTAGACTTATTTTCTCATAAAACCGGCATATTTATACTGGT
129 ATTTAAAAAGTATCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTATATTTATACCGGT
964334 TACATTG
194 TACATTG
*
964341 TAAATTTACCTATTACATTGTAATTATCGGTTTTAATGTTTTTGGGATCGATACTTTTAAAAAAT
1 TAAATTTACCTATTACATTGTAATTATCGGTTTTAATGTTTTTGGGATCGATACTTTTAATAAAT
* * ** * *
964406 TTATCGACACTTTATGTGTGCACCTCGTCAGGCATTCATTCTGGACAAAAAATATCAACACATAT
66 GTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAATATCGACACAAAT
* * * *
964471 TTAAAAAGTATTGATACATTATGTAGACGTATTTTCTCATAAAACTGCTATATTTATACCGGTTA
131 TTAAAAAGTATCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTA
964536 CATTG
196 CATTG
* * *
964541 TAAATTTACCTATTATATTGTAATTATCGGTTTCT-ATGTTTCTGGGATAGATACTTTTAATAAA
1 TAAATTTACCTATTACATTGTAATTATCGGTTT-TAATGTTTTTGGGATCGATACTTTTAATAAA
* * * * *
964605 TGTATCAAAACATTATGCGTGCACCTCGTTGGGCATTCATTCTGGAGAACAAATATCGACACAAA
65 TGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAATATCGACACAAA
* * * * * *
964670 TATAGAAAGTGTTGATACGTTATGTAGACCTATTTTCTCATAAAACCGATATATTTATACCGGTT
130 TTTAAAAAGTATCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTT
964735 ACATTG
195 ACATTG
* *
964741 TAAATTTACCTATTACATTGTAATTATTGGCTTTAATGTTTTTGGGATCGATACTTTTAATAAAT
1 TAAATTTACCTATTACATTGTAATTATCGGTTTTAATGTTTTTGGGATCGATACTTTTAATAAAT
* *
964806 GTATAGACAATTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAAGTATCGACACAAA
66 GTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAA-TATCGACACAAA
* * *
964871 TTTAGAAAA-TGTCGATACATTATGTAGACCTATTTTCTCATAAAATCGGTATATTTTTACCGGT
130 TTTA-AAAAGTATCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTATATTTATACCGGT
964935 TACATTG
194 TACATTG
* * *
964942 TAAATTTACCTATTACATTGTAATTATCGGTTTTGATGTTTTTGTGATCGATACTTTTAATAACT
1 TAAATTTACCTATTACATTGTAATTATCGGTTTTAATGTTTTTGGGATCGATACTTTTAATAAAT
* * * * * * *
965007 ATATCGACACTTTGTGCGTACAACTCGTTGGGCATTCATTCTGGACAAAAAGTATCGAAAAAAAT
66 GTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAATATCGACACAAAT
* *
965072 TTAAAAAGTATCGATACATTATGTAGACTTCTTTTCTCATAAAACCGG------TATA-----TA
131 TTAAAAAGTATCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTA
965126 CATTG
196 CATTG
* ** *
965131 TAAATTTACCTATTACATTGTAATTATCAGTTTCGATGTTTTTGAGATCGATACTTTTAA-AAGA
1 TAAATTTACCTATTACATTGTAATTATCGGTTTTAATGTTTTTGGGATCGATACTTTTAATAA-A
965195 TGTATCGACACTTTATG
65 TGTATCGACACTTTATG
965212 TTGACCTATT
Statistics
Matches: 776, Mismatches: 86, Indels: 28
0.87 0.10 0.03
Matches are distributed among these distances:
188 2 0.00
189 79 0.10
194 3 0.00
198 3 0.00
199 51 0.07
200 457 0.59
201 178 0.23
202 3 0.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (200 bp):
TAAATTTACCTATTACATTGTAATTATCGGTTTTAATGTTTTTGGGATCGATACTTTTAATAAAT
GTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACAAAAAATATCGACACAAAT
TTAAAAAGTATCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTA
CATTG
Found at i:964951 original size:20 final size:20
Alignment explanation
Indices: 964926--964964 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
964916 TCGGTATATT
*
964926 TTTACCGGTTACATTGTAAA
1 TTTACCGATTACATTGTAAA
*
964946 TTTACCTATTACATTGTAA
1 TTTACCGATTACATTGTAA
964965 TTATCGGTTT
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:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (20 bp):
TTTACCGATTACATTGTAAA
Found at i:965371 original size:128 final size:128
Alignment explanation
Indices: 965124--965398 Score: 326
Period size: 128 Copynumber: 2.1 Consensus size: 128
965114 AACCGGTATA
* *
965124 TACATTGTAAATTTACCTATTACATTGTAATTATCAGTTTCGATGTTTTTGAGATCGATACTTTT
1 TACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTCTTGAGATCGATACTTTT
* * * * *
965189 AAAAGATGTATCGACACTTTATGTTGACCTATTTTCTAATTAAACAGGTATATTTCT-ACCAGT
66 AAAAGATATATCGACACATTATGTTGACCTATTTTCTAATTAAAAAAGTATATTT-TAACCACT
* ** *
965252 TACATTGTAAATTTACCTATTACATTATAATTATCGGTTTTTATGTTCTTGGGATCGATACAATT
1 TACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTCTTGAGATCGATAC--TT
* * * * *
965317 TT-AAA-ATATCTCGATACATTATGTTTA-CTAATTTTGTCAA-TAAAAAAGTGTATTTTAACCA
64 TTAAAAGATATATCGACACATTATGTTGACCT-ATTTTCT-AATTAAAAAAGTATATTTTAACCA
965378 CT
127 CT
965380 TACATTGTAAATTTACCTA
1 TACATTGTAAATTTACCTA
965399 ATACTTTAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
127 3 0.02
128 114 0.90
129 5 0.04
130 4 0.03
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.43
Consensus pattern (128 bp):
TACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTCTTGAGATCGATACTTTT
AAAAGATATATCGACACATTATGTTGACCTATTTTCTAATTAAAAAAGTATATTTTAACCACT
Found at i:968129 original size:25 final size:25
Alignment explanation
Indices: 968095--968144 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
968085 ATCATCGCTT
968095 CCTTTTGTTATTCTTGTGTCTCATG
1 CCTTTTGTTATTCTTGTGTCTCATG
968120 CCTTTTGTTATTCTTGTGTCTCATG
1 CCTTTTGTTATTCTTGTGTCTCATG
968145 GAAGCTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.08, C:0.20, G:0.16, T:0.56
Consensus pattern (25 bp):
CCTTTTGTTATTCTTGTGTCTCATG
Found at i:971325 original size:20 final size:20
Alignment explanation
Indices: 971279--971330 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
971269 CTGGTAGCAC
*
971279 TTTACCGGTTTTGTCATAAT
1 TTTACCAGTTTTGTCATAAT
*** *
971299 GAAACCAGTTTTGTCATATT
1 TTTACCAGTTTTGTCATAAT
971319 TTTACCAGTTTT
1 TTTACCAGTTTT
971331 ATTACTATGG
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.48
Consensus pattern (20 bp):
TTTACCAGTTTTGTCATAAT
Found at i:971369 original size:183 final size:181
Alignment explanation
Indices: 970694--971354 Score: 857
Period size: 182 Copynumber: 3.6 Consensus size: 181
970684 TACGCGTACT
* * * * *
970694 TATTAAAGTATCGACACTTTCAACATATCCAGCAGCGCTTTACCGATTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATATCGAGACCA
*
970759 GTTTTGTCATATCTTTA-CATGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCGACAC
66 GTTTTGTCATATTTTTACCA-GTTATATTGTTATAGATCGATACATTTTTATAAAGTATCGACAC
* * *
970823 TTTATAGGAGCTATTACTCCTTCTCTTTTAAATTTCAAAAGTGTCGATACTTA
130 TTTATAGGCGCTATTACTGCTTCTCTTTTAAA-TTCAAAAATGTCGATACTTA
* * *
970876 TATTAAAGTATCGACACTTTCAACATATTCGGTAGCTCTTTACCGGTTTTGTCATAAT-GATA-C
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCAT-ATCGAGACC
* ** *
970939 ATGTTTTGTGATATTTTTACTTGTTATACTGTTATAGATCGATACATTTTTATAAAGTATCGACA
65 A-GTTTTGTCATATTTTTACCAGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCGACA
*
971004 CTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCAAAAAGTGTCTATACTTA
129 CTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCAAAAA-TGTCGATACTTA
* * *
971058 TAATAAAGTATTGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACC-
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATATCGAGACCA
* * *
971122 GATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAACGTATCGACAC
66 G-TTTTGTCATATTTTTACCAGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCGACAC
** *
971187 TTTATAGGCGCTATTGTTGGTTCTCTTTTAAATTCCAAAAATGTCGATACTTA
130 TTTATAGGCGCTATTACTGCTTCTCTTTTAAATT-CAAAAATGTCGATACTTA
** * * * *
971240 T-TTCAATCTAATCGATACTTTCAACATATCTGGTAGCACTTTACCGGTTTTGTCATAAT-GAAA
1 TATT-AAAGT-ATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCAT-ATCGAGA
* ** * *
971303 CCAGTTTTGTCATATTTTTACCAGTTTTATTACTATGGATCGATAAATTTTT
63 CCAGTTTTGTCATATTTTTACCAGTTATATTGTTATAGATCGATACATTTTT
971355 TATTTGTATC
Statistics
Matches: 421, Mismatches: 46, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
181 11 0.03
182 310 0.74
183 98 0.23
184 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.42
Consensus pattern (181 bp):
TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATATCGAGACCA
GTTTTGTCATATTTTTACCAGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCGACACT
TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCAAAAATGTCGATACTTA
Found at i:975754 original size:20 final size:20
Alignment explanation
Indices: 975725--975762 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
975715 CATCATTTTA
* *
975725 CTCTTTAAAATAAAATAATC
1 CTCTTCAAAACAAAATAATC
975745 CTCTTCAAAACAAAATAA
1 CTCTTCAAAACAAAATAA
975763 ATAAAATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (20 bp):
CTCTTCAAAACAAAATAATC
Found at i:978519 original size:19 final size:21
Alignment explanation
Indices: 978483--978525 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
978473 GTCAAACACC
978483 GTTATAGAACTGAAAAATGTT
1 GTTATAGAACTGAAAAATGTT
978504 GTTATAG-ACT-AAAAATGTT
1 GTTATAGAACTGAAAAATGTT
978523 GTT
1 GTT
978526 TGTTTACATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 12 0.55
20 3 0.14
21 7 0.32
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.37
Consensus pattern (21 bp):
GTTATAGAACTGAAAAATGTT
Found at i:982432 original size:18 final size:19
Alignment explanation
Indices: 982406--982445 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
982396 ATCGAGCAAC
*
982406 TTTAATAAAATA-TTTTAT
1 TTTAATAAAATACCTTTAT
*
982424 TTTATTAAAATACCTTTAT
1 TTTAATAAAATACCTTTAT
982443 TTT
1 TTT
982446 GGTCTGTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAATAAAATACCTTTAT
Found at i:984056 original size:14 final size:14
Alignment explanation
Indices: 984037--984067 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
984027 ATATAAAAGC
*
984037 ATAAATTAAAATAA
1 ATAAATAAAAATAA
984051 ATAAATAAAAATAA
1 ATAAATAAAAATAA
984065 ATA
1 ATA
984068 CGATAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAA
Found at i:986695 original size:20 final size:19
Alignment explanation
Indices: 986659--986697 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
986649 ATATTTGTTA
**
986659 TAAACATGCTTTTATATTC
1 TAAACATGCTTGAATATTC
986678 TAAACTATGCTTGAATATTC
1 TAAAC-ATGCTTGAATATTC
986698 ATATATTGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (19 bp):
TAAACATGCTTGAATATTC
Found at i:998235 original size:15 final size:15
Alignment explanation
Indices: 998210--998249 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
998200 AGAGTATTGG
998210 TATTG-TACTCACAA
1 TATTGATACTCACAA
*
998224 TATTGATACTCACAG
1 TATTGATACTCACAA
*
998239 TGTTGATACTC
1 TATTGATACTC
998250 GTAGTATTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (15 bp):
TATTGATACTCACAA
Found at i:1002726 original size:22 final size:21
Alignment explanation
Indices: 1002693--1002735 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1002683 ATATACAAAT
*
1002693 TTTCGACATGAAGAAATTATAA
1 TTTCGACATGAA-AAAATATAA
1002715 TTTCAGAC-TGAAAAAATATAA
1 TTTC-GACATGAAAAAATATAA
1002736 ATTGAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 8 0.42
23 3 0.16
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (21 bp):
TTTCGACATGAAAAAATATAA
Found at i:1005505 original size:16 final size:16
Alignment explanation
Indices: 1005484--1005514 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1005474 CGACCGCGTA
*
1005484 GGGCCCCCAAAAAGTG
1 GGGCCCCAAAAAAGTG
1005500 GGGCCCCAAAAAAGT
1 GGGCCCCAAAAAAGT
1005515 ATATATATAT
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:0.35, C:0.29, G:0.29, T:0.06
Consensus pattern (16 bp):
GGGCCCCAAAAAAGTG
Found at i:1005635 original size:108 final size:111
Alignment explanation
Indices: 1005502--1005705 Score: 299
Period size: 109 Copynumber: 1.8 Consensus size: 111
1005492 AAAAAGTGGG
* * * **
1005502 GCCCCAAAAAAGTATATATATATAGTGGC-TTTTTCTAATAAATGCCACTATAGATAGACCTATT
1 GCCCAAAAAAAG-ATATATATATAGTGGCGTTTTCCCAATAAACACCACTATAGATAGACCTATT
1005566 GCGACG-GTTTTT-AAAAAACTGCCACTATTATTGTGCAGGCCCCAAT
65 GCGACGTGTTTTTAAAAAAAC-GCCACTATTATTGTGCAGGCCCCAAT
*
1005612 GCCCAAAAAAAG-TATATATATAGTGGCGTTTTCCCAATAAACACCACTATAGATGGACCTATTG
1 GCCCAAAAAAAGATATATATATAGTGGCGTTTTCCCAATAAACACCACTATAGATAGACCTATTG
1005676 CGACGTGTTTTTCAAAAAAACGCCACTATT
66 CGACGTGTTTTT-AAAAAAACGCCACTATT
1005706 GTTACCTCGA
Statistics
Matches: 84, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
108 15 0.18
109 36 0.43
110 17 0.20
111 9 0.11
112 7 0.08
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (111 bp):
GCCCAAAAAAAGATATATATATAGTGGCGTTTTCCCAATAAACACCACTATAGATAGACCTATTG
CGACGTGTTTTTAAAAAAACGCCACTATTATTGTGCAGGCCCCAAT
Found at i:1009434 original size:32 final size:31
Alignment explanation
Indices: 1009398--1009520 Score: 185
Period size: 32 Copynumber: 3.9 Consensus size: 31
1009388 AATAGTCGAG
1009398 GATTACCTATGTTCTTCGGAACATATGGACA
1 GATTACCTATGTTCTTCGGAACATATGGACA
*
1009429 TGATTACCTATGTTCTTCGAAACATATGGACA
1 -GATTACCTATGTTCTTCGGAACATATGGACA
* *
1009461 GGATTACCTATGTTCTCCAGAACATATGGACA
1 -GATTACCTATGTTCTTCGGAACATATGGACA
*
1009493 G-TTACCTATGTTATTCGGAACATATGGA
1 GATTACCTATGTTCTTCGGAACATATGGA
1009521 TAGGTCCTTG
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
30 24 0.29
31 1 0.01
32 58 0.70
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (31 bp):
GATTACCTATGTTCTTCGGAACATATGGACA
Found at i:1014090 original size:2 final size:2
Alignment explanation
Indices: 1014083--1014107 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1014073 TGTTGTGTAA
1014083 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
1014108 AATGTGATAA
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:1014341 original size:32 final size:31
Alignment explanation
Indices: 1014298--1014420 Score: 176
Period size: 32 Copynumber: 3.9 Consensus size: 31
1014288 AAGAGTCGAG
*
1014298 GATTACATATGTTCTTCGGAACATATGGACA
1 GATTACCTATGTTCTTCGGAACATATGGACA
*
1014329 TGATTACCTATGTTCTTCAGAACATATGGACA
1 -GATTACCTATGTTCTTCGGAACATATGGACA
* *
1014361 GGATTACCTTTGTTCTCCGGAACATATGGACA
1 -GATTACCTATGTTCTTCGGAACATATGGACA
*
1014393 G-TTACCTATGTTCTTTGGAACATATGGA
1 GATTACCTATGTTCTTCGGAACATATGGA
1014421 TAGGTCATTC
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
30 24 0.29
31 1 0.01
32 57 0.70
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (31 bp):
GATTACCTATGTTCTTCGGAACATATGGACA
Found at i:1019240 original size:32 final size:31
Alignment explanation
Indices: 1019199--1019321 Score: 176
Period size: 32 Copynumber: 3.9 Consensus size: 31
1019189 AAGAGTCGAG
1019199 GATTACCTATGTTCTTCGGAACATATGGACA
1 GATTACCTATGTTCTTCGGAACATATGGACA
*
1019230 TGATTACCTATGTTCTTCGAAACATATGGACA
1 -GATTACCTATGTTCTTCGGAACATATGGACA
* **
1019262 GGATTACCTAAGTTCACCGGAACATATGGACA
1 -GATTACCTATGTTCTTCGGAACATATGGACA
*
1019294 G-TTATCTATGTTCTTCGGAACATATGGA
1 GATTACCTATGTTCTTCGGAACATATGGA
1019322 TAGGTCCTTC
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
30 23 0.28
31 1 0.01
32 57 0.70
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (31 bp):
GATTACCTATGTTCTTCGGAACATATGGACA
Found at i:1023841 original size:2 final size:2
Alignment explanation
Indices: 1023834--1023864 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1023824 AGTTGTGTAA
1023834 AT AT AT 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 AT AT AT A
1023865 AATGTGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1024096 original size:32 final size:31
Alignment explanation
Indices: 1024055--1024177 Score: 169
Period size: 32 Copynumber: 3.9 Consensus size: 31
1024045 AAGAGTCGAG
*
1024055 GATTACCTATGTTCTTCGGAATATATGGACA
1 GATTACCTATGTTCTTCGGAACATATGGACA
*
1024086 TGATTACCTATGTTCTTCGAAACATATGGACA
1 -GATTACCTATGTTCTTCGGAACATATGGACA
* *
1024118 GGATTACATAAGTTC-TCTGGAACATATGGACA
1 -GATTACCTATGTTCTTC-GGAACATATGGACA
1024150 G-TTACCTATGTTCTTCGGAACATATGGA
1 GATTACCTATGTTCTTCGGAACATATGGA
1024178 TAGGTCATTC
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
30 22 0.27
31 5 0.06
32 54 0.67
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (31 bp):
GATTACCTATGTTCTTCGGAACATATGGACA
Found at i:1024827 original size:23 final size:22
Alignment explanation
Indices: 1024796--1024891 Score: 77
Period size: 23 Copynumber: 4.3 Consensus size: 22
1024786 GTGTTACAGT
*
1024796 CCTTTGGGACAATTCTATGTGGC
1 CCTTCGGGAC-ATTCTATGTGGC
* * * *
1024819 CCTTCGGGATATTTCTACGCGGT
1 CCTTCGGGACA-TTCTATGTGGC
** *
1024842 CCTTTTGGACA-TCTATGTGGT
1 CCTTCGGGACATTCTATGTGGC
*
1024863 CTTTCGGGACATTCTATGTGGC
1 CCTTCGGGACATTCTATGTGGC
*
1024885 ACTTCGG
1 CCTTCGG
1024892 TGCATTTTAT
Statistics
Matches: 55, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
21 16 0.29
22 15 0.27
23 24 0.44
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (22 bp):
CCTTCGGGACATTCTATGTGGC
Found at i:1027927 original size:32 final size:32
Alignment explanation
Indices: 1027866--1027927 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
1027856 ATTAAAAAAA
*
1027866 TCACAACCTTTCTTTAAGCTTCTCAGGTGAAT
1 TCACAACCTTTCTTTAAGCTGCTCAGGTGAAT
* * * *
1027898 TCACAAGCTTTTTTTAAGGTGCTCGGGTGA
1 TCACAACCTTTCTTTAAGCTGCTCAGGTGA
1027928 GGAAATTAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (32 bp):
TCACAACCTTTCTTTAAGCTGCTCAGGTGAAT
Found at i:1028817 original size:21 final size:20
Alignment explanation
Indices: 1028793--1028846 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
1028783 TTCTTAAAAA
1028793 TATAATATTATGAATATATTT
1 TATAATATTAT-AATATATTT
* * *
1028814 TATAATTTTATATTGTATTT
1 TATAATATTATAATATATTT
1028834 TAT-ATATTA-AATA
1 TATAATATTATAATA
1028847 ACATTATAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
18 2 0.07
19 5 0.19
20 10 0.37
21 10 0.37
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (20 bp):
TATAATATTATAATATATTT
Found at i:1028874 original size:2 final size:2
Alignment explanation
Indices: 1028867--1028893 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1028857 GTGAAAAATA
1028867 AT 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 AT A
1028894 AGTCTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1036300 original size:18 final size:18
Alignment explanation
Indices: 1036277--1036313 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1036267 ATTTAGCATC
1036277 TCTGTCTTATCAATTACG
1 TCTGTCTTATCAATTACG
1036295 TCTGTCTTATCAATTACG
1 TCTGTCTTATCAATTACG
1036313 T
1 T
1036314 AAGTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.46
Consensus pattern (18 bp):
TCTGTCTTATCAATTACG
Found at i:1036411 original size:29 final size:28
Alignment explanation
Indices: 1036373--1036434 Score: 106
Period size: 29 Copynumber: 2.2 Consensus size: 28
1036363 CCCACCACTA
1036373 CAGCAAAATAAATATATGCAGCACTACCC
1 CAGCAAAATAAATATATGCAGC-CTACCC
*
1036402 CAGCAGAATAAATATATGCAGCCTACCC
1 CAGCAAAATAAATATATGCAGCCTACCC
1036430 CAGCA
1 CAGCA
1036435 TGTTAACATG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.42, C:0.29, G:0.13, T:0.16
Consensus pattern (28 bp):
CAGCAAAATAAATATATGCAGCCTACCC
Found at i:1049299 original size:16 final size:15
Alignment explanation
Indices: 1049278--1049309 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
1049268 CAGCCATCTC
1049278 TTTCATTACTTTCTAT
1 TTTCATTACTTT-TAT
1049294 TTTCATTACTTTTAT
1 TTTCATTACTTTTAT
1049309 T
1 T
1049310 ATTTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTCATTACTTTTAT
Found at i:1052437 original size:17 final size:18
Alignment explanation
Indices: 1052408--1052441 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1052398 AATAACAGAA
1052408 TCAAAAAGAAAAAGAAAT
1 TCAAAAAGAAAAAGAAAT
1052426 TCAAAAAG-AAAAGAAA
1 TCAAAAAGAAAAAGAAA
1052442 GACTACTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.74, C:0.06, G:0.12, T:0.09
Consensus pattern (18 bp):
TCAAAAAGAAAAAGAAAT
Found at i:1057669 original size:22 final size:24
Alignment explanation
Indices: 1057641--1057687 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
1057631 TTATTATCAT
*
1057641 AATAACTATA-TAT-ATATATGAA
1 AATAACTATATTATAACATATGAA
1057663 AATAACTATATTATAACATATGAA
1 AATAACTATATTATAACATATGAA
1057687 A
1 A
1057688 TAAGCATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.45
23 3 0.14
24 9 0.41
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.34
Consensus pattern (24 bp):
AATAACTATATTATAACATATGAA
Found at i:1059795 original size:2 final size:2
Alignment explanation
Indices: 1059778--1059825 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
1059768 TCATAATAAC
*
1059778 TA TA AA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1059819 TA TA TA T
1 TA TA TA T
1059826 GAAAAAACTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1060088 original size:22 final size:22
Alignment explanation
Indices: 1060048--1060089 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1060038 TCCATTTCAA
*
1060048 CATCAACACCATTAACATCCTT
1 CATCAACACCATCAACATCCTT
* *
1060070 CATCAAGACCATCATCATCC
1 CATCAACACCATCAACATCC
1060090 ACTTAATTCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.38, G:0.02, T:0.24
Consensus pattern (22 bp):
CATCAACACCATCAACATCCTT
Found at i:1060182 original size:14 final size:14
Alignment explanation
Indices: 1060136--1060184 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
1060126 TTTTCATTAC
*
1060136 TTTTATTATTATCA
1 TTTTCTTATTATCA
*
1060150 TTTTCTTAAGTCCATCA
1 TTTTCTT-A-T-TATCA
1060167 TTTTCTTATTATCA
1 TTTTCTTATTATCA
1060181 TTTT
1 TTTT
1060185 ATCCATCTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 14 0.48
15 2 0.07
16 2 0.07
17 11 0.38
ACGTcount: A:0.22, C:0.14, G:0.02, T:0.61
Consensus pattern (14 bp):
TTTTCTTATTATCA
Found at i:1068051 original size:44 final size:43
Alignment explanation
Indices: 1068001--1068533 Score: 464
Period size: 44 Copynumber: 12.3 Consensus size: 43
1067991 ATTTCATGAA
* * *
1068001 ATTGAAAAAATTTGAGGGCCTAAATTATAAAAGTAGAAATTGAG
1 ATTGAAAAAACTT-AGGGCCTCAATTATAAAGGTAGAAATTGAG
** *
1068045 ATTGAAAAAAAGTAGGGCCTCAATTATAAAGGTA-TAATTGAG
1 ATTGAAAAAACTTAGGGCCTCAATTATAAAGGTAGAAATTGAG
* * *
1068087 TTTTAAAAAACTTAGGGGCCTCAATTATAAAGGTAGAAAGTGAG
1 ATTGAAAAAACTTA-GGGCCTCAATTATAAAGGTAGAAATTGAG
* * * *
1068131 ATTGAAAAAACTTAGGGGCCACAATTATAAA-GTAAAAAAGTGGG
1 ATTGAAAAAACTTA-GGGCCTCAATTATAAAGGT-AGAAATTGAG
*
1068175 ATT-AAAAAA-TTAGGGGCCTCAATTATAAAGGTA-TAATTGAG
1 ATTGAAAAAACTTA-GGGCCTCAATTATAAAGGTAGAAATTGAG
* * * *
1068216 ATTG-AAAAACTTAGGAGTCTCGATTATAAAGGTAAAAAGTGAG
1 ATTGAAAAAACTTAGG-GCCTCAATTATAAAGGTAGAAATTGAG
* * * * * *
1068259 ATTGAAAAAACATAAGGGCTTCAGTTATAAAGTTA-AAAGGTGGG
1 ATTGAAAAAAC-TTAGGGCCTCAATTATAAAGGTAGAAA-TTGAG
* * * * *
1068303 ATT-AAAAAA-TGAGAGGCATCAATTATAAATGTA-TAATCGAG
1 ATTGAAAAAACTTAG-GGCCTCAATTATAAAGGTAGAAATTGAG
* * *
1068344 ATTGAAAAAACTTAGGAGCCTCAA-TAGTAAAGG-CGGAATTCAG
1 ATTGAAAAAACTTAGG-GCCTCAATTA-TAAAGGTAGAAATTGAG
*
1068387 ATTGAAAAAAACTTATGAGCCTCAATTATAAAGGTAGAAAATT-AG
1 ATTG-AAAAAACTTA-GGGCCTCAATTATAAAGGTAG-AAATTGAG
* **
1068432 ATTGAAAAAACATAGGGGCCAT-AATTATAAAGGTAGAAAACGAG
1 ATTGAAAAAACTTA-GGGCC-TCAATTATAAAGGTAGAAATTGAG
* *
1068476 ATTGAAAAAACTTGGGGGCCTCAATTATAAAGGTAGAAAGTGAG
1 ATTGAAAAAACTT-AGGGCCTCAATTATAAAGGTAGAAATTGAG
*
1068520 ACTGAAAAAACTTA
1 ATTGAAAAAACTTA
1068534 ATTCAATTAT
Statistics
Matches: 402, Mismatches: 61, Indels: 53
0.78 0.12 0.10
Matches are distributed among these distances:
41 23 0.06
42 82 0.20
43 95 0.24
44 183 0.46
45 15 0.04
46 4 0.01
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (43 bp):
ATTGAAAAAACTTAGGGCCTCAATTATAAAGGTAGAAATTGAG
Found at i:1068062 original size:43 final size:43
Alignment explanation
Indices: 1068001--1068662 Score: 423
Period size: 44 Copynumber: 15.3 Consensus size: 43
1067991 ATTTCATGAA
* * *
1068001 ATTGAAAAAATTTGAGGGCCTAAATTATAAAAGTAGAAATTGAG
1 ATTGAAAAAAATT-AGGGCCTCAATTATAAAGGTAGAAATTGAG
* *
1068045 ATTGAAAAAAAGTAGGGCCTCAATTATAAAGGTA-TAATTGAG
1 ATTGAAAAAAATTAGGGCCTCAATTATAAAGGTAGAAATTGAG
* * * *
1068087 TTTTAAAAAACTTAGGGGCCTCAATTATAAAGGTAGAAAGTGAG
1 ATTGAAAAAAATTA-GGGCCTCAATTATAAAGGTAGAAATTGAG
* * * * *
1068131 ATTGAAAAAACTTAGGGGCCACAATTATAAA-GTAAAAAAGTGGG
1 ATTGAAAAAAATTA-GGGCCTCAATTATAAAGGT-AGAAATTGAG
*
1068175 ATT--AAAAAATTAGGGGCCTCAATTATAAAGGTA-TAATTGAG
1 ATTGAAAAAAATTA-GGGCCTCAATTATAAAGGTAGAAATTGAG
* * * * *
1068216 ATTG-AAAAACTTAGGAGTCTCGATTATAAAGGTAAAAAGTGAG
1 ATTGAAAAAAATTAGG-GCCTCAATTATAAAGGTAGAAATTGAG
* * * * * *
1068259 ATTGAAAAAACATAAGGGCTTCAGTTATAAAGTTA-AAAGGTGGG
1 ATTGAAAAAA-ATTAGGGCCTCAATTATAAAGGTAGAAA-TTGAG
* * * * *
1068303 ATT--AAAAAATGAGAGGCATCAATTATAAATGTA-TAATCGAG
1 ATTGAAAAAAATTAG-GGCCTCAATTATAAAGGTAGAAATTGAG
* * * *
1068344 ATTGAAAAAACTTAGGAGCCTCAA-TAGTAAAGG-CGGAATTCAG
1 ATTGAAAAAAATTAGG-GCCTCAATTA-TAAAGGTAGAAATTGAG
*
1068387 ATTGAAAAAAACTTATGAGCCTCAATTATAAAGGTAGAAAATT-AG
1 ATTGAAAAAAA-TTA-GGGCCTCAATTATAAAGGTAG-AAATTGAG
**
1068432 ATTGAAAAAACA-TAGGGGCCAT-AATTATAAAGGTAGAAAACGAG
1 ATTGAAAAAA-ATTA-GGGCC-TCAATTATAAAGGTAGAAATTGAG
* * *
1068476 ATTGAAAAAACTTGGGGGCCTCAATTATAAAGGTAGAAAGTGAG
1 ATTGAAAAAAATT-AGGGCCTCAATTATAAAGGTAGAAATTGAG
* * ** * * *
1068520 ACTGAAAAAACTTA---ATTCAATTATAAAGTTA-AAAGGTGGG
1 ATTGAAAAAAATTAGGGCCTCAATTATAAAGGTAGAAA-TTGAG
* * * * * *
1068560 ATT---AAACATTACAGGCCTCAATTATAAAGATAAAAAAGATGGG
1 ATTGAAAAAAATTA-GGGCCTCAATTATAAAGGT-AGAAA-TTGAG
* * * *
1068603 ATTGAAAAAAATTAGGGACTTCAATTATAAAGATAAAAAAGTGAG
1 ATTGAAAAAAATTAGGG-CCTCAATTATAAAGGT-AGAAATTGAG
*
1068648 ATTGAATAAAATTAG
1 ATTGAAAAAAATTAG
1068663 TACATCAATT
Statistics
Matches: 498, Mismatches: 82, Indels: 75
0.76 0.13 0.11
Matches are distributed among these distances:
37 6 0.01
39 3 0.01
40 20 0.04
41 32 0.06
42 92 0.18
43 105 0.21
44 167 0.34
45 40 0.08
46 33 0.07
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (43 bp):
ATTGAAAAAAATTAGGGCCTCAATTATAAAGGTAGAAATTGAG
Found at i:1068266 original size:128 final size:128
Alignment explanation
Indices: 1068001--1068662 Score: 576
Period size: 128 Copynumber: 5.1 Consensus size: 128
1067991 ATTTCATGAA
* * * * * *
1068001 ATTGAAAAAATTTGAGGGCCTAAATTATAAAAGT-AGAAATTGAGATTGAAAAAAAGTA-GGGCC
1 ATTGAAAAAACTT-AGGGCCTCAATTAT-AAAGTAAAAAAGTGGGATT--AAAAAATTAGGGGCC
* * * *
1068064 TCAATTATAAAGGTATAATTGAGTTTTAAAAAACTTAGGGGCCTCAATTATAAAGGTAGAAAGTG
62 TCAATTATAAAGGTATAATCGAGATTGAAAAAACTTAGGAGCCTCAATTATAAAGGTAGAAAGTG
1068129 AG
127 AG
*
1068131 ATTGAAAAAACTTAGGGGCCACAATTATAAAGTAAAAAAGTGGGATTAAAAAATTAGGGGCCTCA
1 ATTGAAAAAACTTA-GGGCCTCAATTATAAAGTAAAAAAGTGGGATTAAAAAATTAGGGGCCTCA
* * * *
1068196 ATTATAAAGGTATAATTGAGATTG-AAAAACTTAGGAGTCTCGATTATAAAGGTAAAAAGTGAG
65 ATTATAAAGGTATAATCGAGATTGAAAAAACTTAGGAGCCTCAATTATAAAGGTAGAAAGTGAG
* * * * * * * *
1068259 ATTGAAAAAACATAAGGGCTTCAGTTATAAAGTTAAAAGGTGGGATTAAAAAATGAGAGGCATCA
1 ATTGAAAAAAC-TTAGGGCCTCAATTATAAAGTAAAAAAGTGGGATTAAAAAATTAGGGGCCTCA
* * * * *
1068324 ATTATAAATGTATAATCGAGATTGAAAAAACTTAGGAGCCTCAA-TAGTAAAGG-CGGAATTCAG
65 ATTATAAAGGTATAATCGAGATTGAAAAAACTTAGGAGCCTCAATTA-TAAAGGTAGAAAGTGAG
* * ** *
1068387 ATTGAAAAAAACTTATGAGCCTCAATTATAAAGGTAGAAAA-TTAGATTGAAAAAACATAGGGGC
1 ATTG-AAAAAACTTA-GGGCCTCAATTATAAA-GTAAAAAAGTGGGATT-AAAAAA-TTAGGGGC
* * * *
1068451 CAT-AATTATAAAGGTAGAAAACGAGATTGAAAAAACTTGGGGGCCTCAATTATAAAGGTAGAAA
61 C-TCAATTATAAAGGTA-TAATCGAGATTGAAAAAACTTAGGAGCCTCAATTATAAAGGTAGAAA
1068515 GTGAG
124 GTGAG
* ** * * * **
1068520 ACTGAAAAAACTTA---ATTCAATTATAAAGTTAAAAGGTGGGATT-AAACATTACAGGCCTCAA
1 ATTGAAAAAACTTAGGGCCTCAATTATAAAGTAAAAAAGTGGGATTAAAAAATTAGGGGCCTCAA
* * ** * * * *
1068581 TTATAAAGATAAAAAAGATGGGATTGAAAAAAATTAGG-GACTTCAATTATAAAGATAAAAAAGT
66 TTATAAAGGTATAATCGA---GATTGAAAAAACTTAGGAG-CCTCAATTATAAAGGT-AGAAAGT
1068645 GAG
126 GAG
1068648 ATTGAATAAAA-TTAG
1 ATTGAA-AAAACTTAG
1068663 TACATCAATT
Statistics
Matches: 435, Mismatches: 73, Indels: 49
0.78 0.13 0.09
Matches are distributed among these distances:
124 7 0.02
125 18 0.04
126 5 0.01
127 34 0.08
128 164 0.38
129 90 0.21
130 44 0.10
131 17 0.04
132 45 0.10
133 11 0.03
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (128 bp):
ATTGAAAAAACTTAGGGCCTCAATTATAAAGTAAAAAAGTGGGATTAAAAAATTAGGGGCCTCAA
TTATAAAGGTATAATCGAGATTGAAAAAACTTAGGAGCCTCAATTATAAAGGTAGAAAGTGAG
Found at i:1068367 original size:257 final size:254
Alignment explanation
Indices: 1068064--1068662 Score: 631
Period size: 257 Copynumber: 2.3 Consensus size: 254
1068054 AAGTAGGGCC
* * *
1068064 TCAATTATAAAGGTATAATTGAGTTTTAAAAAACTTAGGGGCCTCAATTATAAAGGTAGAAAGTG
1 TCAATTATAAA-GTATAATAGAGATTGAAAAAACTTA-GGGCCTCAATTATAAAGGTAGAAAGTG
* * *
1068129 AGATTGAAAAAACTTAGGGGCCACAATTATAAA-GTAAAAAAGTGGGATT-AAAAAA-TTAGGGG
64 AGATTGAAAAAACTTAGGAGCCACAATTATAAAGGTAAAAAA-TGAGATTGAAAAAACATAGGGG
* ** * *
1068191 CC-TCAATTATAAAGGTA-TAATTGAGATTG-AAAAACTTAGGAGTCTCGATTATAAAGGTAAAA
128 CCAT-AATTATAAAGGTAGAAAACGAGATTGAAAAAACTTAGGAGCCTCAATTATAAAGGTAAAA
* * *
1068253 AGTGAGATTGAAAAAACATAAGGGCTTCAGTTATAAAGTTAAAAGGTGGGATTAAAAAATGAGAG
192 AGTGAGACTGAAAAAACATAA----TTCAATTATAAAGTTAAAAGGTGGGATT-AAAAATGACAG
1068318 GCA
252 GCA
* * * *
1068321 TCAATTATAAATGTATAATCGAGATTGAAAAAACTTAGGAGCCTCAA-TAGTAAAGG-CGGAATT
1 TCAATTATAAA-GTATAATAGAGATTGAAAAAACTTAGG-GCCTCAATTA-TAAAGGTAGAAAGT
* * * * *
1068384 CAGATTGAAAAAAACTTATGAGCCTCAATTATAAAGGTAGAAAATTAGATTGAAAAAACATAGGG
63 GAGATTG-AAAAAACTTAGGAGCCACAATTATAAAGGTAAAAAATGAGATTGAAAAAACATAGGG
* * *
1068449 GCCATAATTATAAAGGTAGAAAACGAGATTGAAAAAACTTGGGGGCCTCAATTATAAAGGTAGAA
127 GCCATAATTATAAAGGTAGAAAACGAGATTGAAAAAACTTAGGAGCCTCAATTATAAAGGTAAAA
* * * *
1068514 AGTGAGACTGAAAAAACTTAATTCAATTATAAAGTTAAAAGGTGGGATTAAACATTACAGGCC
192 AGTGAGACTGAAAAAACATAATTCAATTATAAAGTTAAAAGGTGGGATTAAAAATGACAGGCA
* * * * * *
1068577 TCAATTATAAAGATAAAAAAGATGGGATTGAAAAAAATTAGGGACTTCAATTATAAAGATAAAAA
1 TCAATTATAAAG-TATAATAGA---GATTGAAAAAACTTAGGG-CCTCAATTATAAAGGT-AGAA
1068642 AGTGAGATTGAATAAAA-TTAG
60 AGTGAGATTGAA-AAAACTTAG
1068663 TACATCAATT
Statistics
Matches: 282, Mismatches: 42, Indels: 33
0.79 0.12 0.09
Matches are distributed among these distances:
255 1 0.00
256 41 0.15
257 102 0.36
258 14 0.05
259 47 0.17
260 17 0.06
261 60 0.21
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (254 bp):
TCAATTATAAAGTATAATAGAGATTGAAAAAACTTAGGGCCTCAATTATAAAGGTAGAAAGTGAG
ATTGAAAAAACTTAGGAGCCACAATTATAAAGGTAAAAAATGAGATTGAAAAAACATAGGGGCCA
TAATTATAAAGGTAGAAAACGAGATTGAAAAAACTTAGGAGCCTCAATTATAAAGGTAAAAAGTG
AGACTGAAAAAACATAATTCAATTATAAAGTTAAAAGGTGGGATTAAAAATGACAGGCA
Found at i:1068440 original size:88 final size:88
Alignment explanation
Indices: 1067996--1068533 Score: 330
Period size: 86 Copynumber: 6.2 Consensus size: 88
1067986 TGAGAATTTC
* * * * ** **
1067996 ATGAAATTGAAAAAATTTGAGG-GCC-TAAATTATAAAAGTAGAAATTGAGATTGAAAAAAAGTA
1 ATGAGATTGAAAAAACTT-AGGAGCCAT-AATTATAAAGGCAGAAAACGAGATTGAAAAAACTTA
*
1068059 GG-GCCTCAATTATAAAGGTA-TAA
64 GGAGCCTCAATTATAAAGGTAGAAA
* * * * * **
1068082 TTGAGTTTTAAAAAACTTAGGGGCC-TCAATTATAAAGGTAGAAAGTGAGATTGAAAAAACTTAG
1 ATGAGATTGAAAAAACTTAGGAGCCAT-AATTATAAAGGCAGAAAACGAGATTGAAAAAACTTAG
* * *
1068146 GGGCCACAATTATAAA-GTAAAAA
65 GAGCCTCAATTATAAAGGTAGAAA
* * * * **
1068169 AGTGGGATT-AAAAAA-TTAGGGGCC-TCAATTATAAAGGTA-TAATTGAGATTG-AAAAACTTA
1 A-TGAGATTGAAAAAACTTAGGAGCCAT-AATTATAAAGGCAGAAAACGAGATTGAAAAAACTTA
* *
1068229 GGAGTCTCGATTATAAAGGTA-AAA
64 GGAGCCTCAATTATAAAGGTAGAAA
* * * ** ** *
1068253 AGTGAGATTGAAAAAACATAAGG-G-CTTCAGTTATAAAGTTA-AAAGGTGGGATT-AAAAAA-T
1 A-TGAGATTGAAAAAAC-TTAGGAGCCAT-AATTATAAAGGCAGAAA-ACGAGATTGAAAAAACT
* * * *
1068313 GA-GAGGCATCAATTATAAATGT--ATA
62 TAGGA-GCCTCAATTATAAAGGTAGAAA
* **
1068338 ATCGAGATTGAAAAAACTTAGGAGCC-TCAA-TAGTAAAGGCGGAATTC-AGATTGAAAAAAACT
1 AT-GAGATTGAAAAAACTTAGGAGCCAT-AATTA-TAAAGGCAGAAAACGAGATTG-AAAAAACT
*
1068400 TATGAGCCTCAATTATAAAGGTAGAAA
62 TAGGAGCCTCAATTATAAAGGTAGAAA
* * * * *
1068427 ATTAGATTGAAAAAACATAGGGGCCATAATTATAAAGGTAGAAAACGAGATTGAAAAAACTTGGG
1 ATGAGATTGAAAAAACTTAGGAGCCATAATTATAAAGGCAGAAAACGAGATTGAAAAAACTTAGG
*
1068492 GGCCTCAATTATAAAGGTAGAAA
66 AGCCTCAATTATAAAGGTAGAAA
* *
1068515 GTGAGACTGAAAAAACTTA
1 ATGAGATTGAAAAAACTTA
1068534 ATTCAATTAT
Statistics
Matches: 365, Mismatches: 61, Indels: 50
0.77 0.13 0.11
Matches are distributed among these distances:
84 44 0.12
85 51 0.14
86 118 0.32
87 53 0.15
88 86 0.24
89 13 0.04
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (88 bp):
ATGAGATTGAAAAAACTTAGGAGCCATAATTATAAAGGCAGAAAACGAGATTGAAAAAACTTAGG
AGCCTCAATTATAAAGGTAGAAA
Found at i:1068873 original size:19 final size:19
Alignment explanation
Indices: 1068831--1068880 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
1068821 AGTTGAGAAT
* *
1068831 TTTTTAGTAACAAAAATTGA
1 TTTTTA-TAATAAAAATAGA
1068851 TTTTTATTAATAAAAATAG-
1 TTTTTA-TAATAAAAATAGA
1068870 TTTTTATAATA
1 TTTTTATAATA
1068881 TATACATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 5 0.19
19 6 0.22
20 16 0.59
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (19 bp):
TTTTTATAATAAAAATAGA
Found at i:1069980 original size:2 final size:2
Alignment explanation
Indices: 1069960--1070000 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
1069950 GATATAAGTT
*
1069960 TA TA T- TA TT TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1070000 T
1 T
1070001 TTAATAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:1070073 original size:51 final size:50
Alignment explanation
Indices: 1070011--1070181 Score: 204
Period size: 51 Copynumber: 3.4 Consensus size: 50
1070001 TTAATAAAAT
* * * * *
1070011 TGTAAGCATGTGTTAAGTGTTACACTGTTTTATTTTATTTACGTACACCGG
1 TGTAAGTATGTGTTAAGTGCTACACT-TTTTATTTTATTCACCTACATCGG
* *
1070062 TGTAAGTATGTGTTAAGTGCTACA-ATTTT-TTTTATTCACCTACATAGG
1 TGTAAGTATGTGTTAAGTGCTACACTTTTTATTTTATTCACCTACATCGG
* * *
1070110 TGT-AGTATGTGTTATGTGCTACACTTGTTTATTTTATCCACTTACATCGG
1 TGTAAGTATGTGTTAAGTGCTACACTT-TTTATTTTATTCACCTACATCGG
*
1070160 TGTAAATATGTGTTAAGTGCTA
1 TGTAAGTATGTGTTAAGTGCTA
1070182 ATTTTTTTGT
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
47 19 0.19
48 19 0.19
49 7 0.07
50 19 0.19
51 38 0.37
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.44
Consensus pattern (50 bp):
TGTAAGTATGTGTTAAGTGCTACACTTTTTATTTTATTCACCTACATCGG
Found at i:1070129 original size:47 final size:48
Alignment explanation
Indices: 1070060--1070189 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 48
1070050 TACGTACACC
*
1070060 GGTGTAAGTATGTGTTAAGTGCTACAATTTTTTTTATTCACCTACATA
1 GGTGTAAGTATGTGTTAAGTGCTACAATTTTTTTTATCCACCTACATA
* * * *
1070108 GGTGT-AGTATGTGTTATGTGCTACACTTGTTTATTTTATCCACTTACATC
1 GGTGTAAGTATGTGTTAAGTGCTACA-AT-TTT-TTTTATCCACCTACATA
*
1070158 GGTGTAAATATGTGTTAAGTGCT--AATTTTTTT
1 GGTGTAAGTATGTGTTAAGTGCTACAATTTTTTT
1070190 GTAGTATGAA
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
46 3 0.04
47 22 0.31
48 7 0.10
49 4 0.06
50 19 0.27
51 15 0.21
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (48 bp):
GGTGTAAGTATGTGTTAAGTGCTACAATTTTTTTTATCCACCTACATA
Found at i:1072904 original size:20 final size:21
Alignment explanation
Indices: 1072867--1072908 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1072857 TGCAAAGATT
1072867 TCATCCCCAAACGGCTAGAAA
1 TCATCCCCAAACGGCTAGAAA
1072888 TCATCCCCAAA-GGCTAGAAA
1 TCATCCCCAAACGGCTAGAAA
1072908 T
1 T
1072909 GGCCACAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.38, C:0.31, G:0.14, T:0.17
Consensus pattern (21 bp):
TCATCCCCAAACGGCTAGAAA
Found at i:1075880 original size:22 final size:22
Alignment explanation
Indices: 1075834--1075880 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1075824 TTTTTAAAAC
**
1075834 AAAAAAAAAACAAAAAAAGGTA
1 AAAAAAAAAACAAAAAAAGCCA
1075856 AAAAAACAAAAC-AAAAAAGCCA
1 AAAAAA-AAAACAAAAAAAGCCA
1075878 AAA
1 AAA
1075881 TTTAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.81, C:0.11, G:0.06, T:0.02
Consensus pattern (22 bp):
AAAAAAAAAACAAAAAAAGCCA
Found at i:1087093 original size:54 final size:54
Alignment explanation
Indices: 1087050--1087454 Score: 526
Period size: 54 Copynumber: 7.5 Consensus size: 54
1087040 TAAACATATT
* * * * *
1087050 ATGAA-TCTCGTGAAATGTACATTTAGTGCTGAAATC-GTTATTCATACACATAAG
1 ATGAATTC-CGTGAAATGCACACTTAGTGCCGAAA-CGGTTATTCATCCACATAGG
* * *
1087104 ATGAATTCCATGGAATGCACACTTAGTGCCGAAACGGTTATTCATCCATATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* *
1087158 ATGAATTCCTTGAAATGCACACTTAGTGCCGAAACTGTTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * *
1087212 ATGAATTTCGTGAAATGCACACTTAGTGTCGAAACGGTTATTCATCTACATAAG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * **
1087266 ATGAATTCCGTGAAATGCACACTTTGTGCTGAAACAATTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * *
1087320 ATGAATTCTGTGAAATGCACACTTAGTGCCAAAATGGTTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * *
1087374 ATGAATTCCATGAAATGCACACTTAATGCCGAAATGGTTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * *
1087428 ATAAATTTCGTGAAATTCACCCTTAGT
1 ATGAATTCCGTGAAATGCACACTTAGT
1087455 TCCTATTTGG
Statistics
Matches: 306, Mismatches: 43, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
53 1 0.00
54 303 0.99
55 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (54 bp):
ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
Found at i:1087921 original size:22 final size:23
Alignment explanation
Indices: 1087880--1087922 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1087870 TTGGTATCGA
*
1087880 TACCCTTACCATGGTGTCGATTC
1 TACCCTTACCATGGTATCGATTC
*
1087903 TACCC-TACTATGGTATCGAT
1 TACCCTTACCATGGTATCGAT
1087923 ACCCCCTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (23 bp):
TACCCTTACCATGGTATCGATTC
Found at i:1087936 original size:19 final size:19
Alignment explanation
Indices: 1087910--1087963 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
1087900 TTCTACCCTA
1087910 CTAT-GGTATCGATACCCC
1 CTATCGGTATCGATACCCC
1087928 CTATCGGTATCGATACCCC
1 CTATCGGTATCGATACCCC
*
1087947 CTATCGGTATTGATACC
1 CTATCGGTATCGATACC
1087964 AAAATTAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 4 0.12
19 30 0.88
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (19 bp):
CTATCGGTATCGATACCCC
Found at i:1094315 original size:54 final size:53
Alignment explanation
Indices: 1094134--1094314 Score: 227
Period size: 54 Copynumber: 3.4 Consensus size: 53
1094124 ACAAATCTCA
* * * * * **
1094134 TGAAATGCACATTTAGTGCCAAAATGGTTATTCATCCACATAATATGTATTATG
1 TGAAATGCACACTTAGTGCCAAAACGATTATTCATCCACAT-AGATGAATTCCG
*
1094188 TGGAATGCACACTTAGTGCCAAAACGATTATTCATCCACATAGGATGAATTCCG
1 TGAAATGCACACTTAGTGCCAAAACGATTATTCATCCACATA-GATGAATTCCG
* **
1094242 TGAAATGTACACTTAGTGCTGAAACGATTATTCATCCACATCAGATGAATTCCG
1 TGAAATGCACACTTAGTGCCAAAACGATTATTCATCCACAT-AGATGAATTCCG
*
1094296 TAAAATGCACACTTAGTGC
1 TGAAATGCACACTTAGTGC
1094315 TTATTTTGTA
Statistics
Matches: 111, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 109 0.98
55 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (53 bp):
TGAAATGCACACTTAGTGCCAAAACGATTATTCATCCACATAGATGAATTCCG
Found at i:1094671 original size:13 final size:13
Alignment explanation
Indices: 1094653--1094679 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1094643 ACTACTACCC
1094653 TAGTACCGATACT
1 TAGTACCGATACT
1094666 TAGTACCGATACT
1 TAGTACCGATACT
1094679 T
1 T
1094680 CTATATTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (13 bp):
TAGTACCGATACT
Found at i:1094733 original size:20 final size:20
Alignment explanation
Indices: 1094708--1094768 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
1094698 ACCCCATTCG
1094708 GGTATCGATACCCTTACCAT
1 GGTATCGATACCCTTACCAT
* *
1094728 GGTATCGATACTACCCTACTAT
1 GGTATCGATAC--CCTTACCAT
*
1094750 GGTACCGATACCCATTACC
1 GGTATCGATACCC-TTACC
1094769 GATATCGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 13 0.39
21 3 0.09
22 17 0.52
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (20 bp):
GGTATCGATACCCTTACCAT
Found at i:1097445 original size:547 final size:546
Alignment explanation
Indices: 1096407--1097461 Score: 1521
Period size: 547 Copynumber: 1.9 Consensus size: 546
1096397 ACTAGAGGGG
* * *
1096407 AAAAAGATAATGATTACTTGATAGTTGATATGTGGAGACGTGCAACCTTTTATTTTTATGTGGGT
1 AAAAAGATAATGATTACTTGATAGTTGATATGTGGAGACATGAAACCTTTGATTTTTATGTGGGT
* * * *
1096472 AATATTAATTAGCCTTGTAAATTTAAGGTCGAAATGATTATGGTTTTATTGTACTAATAATTTCT
66 AATATTAATTAGCCTTGGAAATATAAGGTCGAAATGATTATGGTTGTATCGTACTAATAATTTCT
*
1096537 TTTGGGAAATTTATTAAGACAACAAGACAATTTCAATTTTGAAAAAGTATGAAACCGATGATGCT
131 TTTGGGAAATTTATAAAGACAACAAGACAATTTCAATTTTGAAAAAGTATGAAACCGATGATGCT
* *
1096602 GACATGAGAAAACTCTCTAAATCAAGTAGTTGCCAAATTATGGTTTGATTCAAGCAATCACTCGA
196 GACATGAGAAAACTCTCTAAATCAAGTAGTTGCCAAATTATGGGTTGATTCAAGCAAACACTCGA
* * * *
1096667 AGATAAGGATTGTATTACTATCTTTATTTTTATGAAATTTGTTACTATTATTAAATTTCAAATAT
261 AGATAAGGATTGCATTACTATCATTATTTTTATGAAATTTGTTACTATTAATAAATTTCAAATAC
* * * * *
1096732 CGATATTATTGAATTTATTATGATTCAAAGTTTGCTAGATTCGGAGATCATCCTGATTAATAGAT
326 CAATATTATTGAATTTATTATAATTCAAAGTTCGATAGATTCGGAGATCATCCTGATTAAGAGAT
* * * *
1096797 GATTGTGCAAAGTGTGAAGATTGAAGTTACAGACATGGTGAGAGTCAACAAGTCTATTTGGTAAT
391 GATTATGCAAAGTGTGAAGATTAAAGTTACAAACATGGTGAGAGTCAACAAGTCTATTTGGGAAT
* * *
1096862 TATGATTCTACTTGTGTGGTCATACAATGTAGTCTTGTTACCTCTTAATTCATGTTTATTTGGAA
456 TATGATTCTACTTGCGAGGTCATACAATATAGTCTTGTTACCTCTTAATTCATGTTTATTTGGAA
1096927 CTGGAGGGTAACCAAAAAACTAAAAA
521 CTGGAGGGTAACCAAAAAACTAAAAA
* * * *
1096953 AAAAGAGATAATGTTTGCTT-ATAGTTGATATGTGGATATATGAAACCTTTGATTTTTTATGTGG
1 AAAA-AGATAATGATTACTTGATAGTTGATATGTGGAGACATGAAACCTTTGA-TTTTTATGTGG
*
1097017 GTAATATTAATTAGCCTTGGAAATATAAGGTCGAAATGATTGTGG-TGTATCGTACTAATAATTT
64 GTAATATTAATTAGCCTTGGAAATATAAGGTCGAAATGATTATGGTTGTATCGTACTAATAATTT
* * ** *
1097081 CTTTTGGGAAATTTATAAAGACAACAAGACATTTTCAATTTTGGAAAAGTATGAAATTGATGTTG
129 CTTTTGGGAAATTTATAAAGACAACAAGACAATTTCAATTTTGAAAAAGTATGAAACCGATGATG
* * *
1097146 CTGACATGAGAAACCTCTCTAAATCATGTAGTTGCCCAAATTATGGGTTGATTCAAGCAAACTCT
194 CTGACATGAGAAAACTCTCTAAATCAAGTAGTTG-CCAAATTATGGGTTGATTCAAGCAAACACT
* * * * * * * *
1097211 TGAATATAATGA-TGCATTTCTATCATTATTTTTTATGAATTTTTTTTTATTGTTAATAAATTTC
258 CGAAGATAAGGATTGCATTACTATCATTA-TTTTTATGAA--ATTTGTTACTATTAATAAATTTC
* * *
1097275 -AATGACCAATATTATTG-A-TTATTCTAATTCGAA-TATCGATAGATTCTGAGATCATCCTGAT
320 AAAT-ACCAATATTATTGAATTTATTATAATTCAAAGT-TCGATAGATTCGGAGATCATCCTGAT
*
1097336 TAAGAGATGATTATGCTAAGTGTGAAGATTAAAGTTACAAACATGGTGAGAGTCAACAAGTCTAT
383 TAAGAGATGATTATGCAAAGTGTGAAGATTAAAGTTACAAACATGGTGAGAGTCAACAAGTCTAT
*
1097401 TTGGGAATTATGATTCTACTTGCGAGGTCATACTATATAGTCTTGTTACCTCTTAATTCAT
448 TTGGGAATTATGATTCTACTTGCGAGGTCATACAATATAGTCTTGTTACCTCTTAATTCAT
1097462 TCATTTTAAA
Statistics
Matches: 449, Mismatches: 52, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
546 153 0.34
547 263 0.59
548 4 0.01
549 29 0.06
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.38
Consensus pattern (546 bp):
AAAAAGATAATGATTACTTGATAGTTGATATGTGGAGACATGAAACCTTTGATTTTTATGTGGGT
AATATTAATTAGCCTTGGAAATATAAGGTCGAAATGATTATGGTTGTATCGTACTAATAATTTCT
TTTGGGAAATTTATAAAGACAACAAGACAATTTCAATTTTGAAAAAGTATGAAACCGATGATGCT
GACATGAGAAAACTCTCTAAATCAAGTAGTTGCCAAATTATGGGTTGATTCAAGCAAACACTCGA
AGATAAGGATTGCATTACTATCATTATTTTTATGAAATTTGTTACTATTAATAAATTTCAAATAC
CAATATTATTGAATTTATTATAATTCAAAGTTCGATAGATTCGGAGATCATCCTGATTAAGAGAT
GATTATGCAAAGTGTGAAGATTAAAGTTACAAACATGGTGAGAGTCAACAAGTCTATTTGGGAAT
TATGATTCTACTTGCGAGGTCATACAATATAGTCTTGTTACCTCTTAATTCATGTTTATTTGGAA
CTGGAGGGTAACCAAAAAACTAAAAA
Found at i:1100271 original size:614 final size:614
Alignment explanation
Indices: 1099097--1100339 Score: 2310
Period size: 614 Copynumber: 2.0 Consensus size: 614
1099087 TTTGGTTAAT
* *
1099097 TATG-ATG-ATGGAATATAAATTATGTTGATTTACATATGATTCCACTTATGTTGGAAATGAGAA
1 TATGTATGTATGGAATATAAATTATGTTGATTTACATATGATGCCACTTATGTTGGAAATAAGAA
1099160 TGTGAATGTGATATGTTGCAAATGATGCATAGGATTTTAAAAACGGTTTGTGAAAATCTATATAT
66 TGTGAATGTGATATGTTGCAAATGATGCATAGGATTTTAAAAACGGTTTGTGAAAATCTATATAT
1099225 ATTCTGAATGTGAATTGGATGAGCTGAACTTTCTCACTGTCCAAATATGTGGATTGATCATGAAA
131 ATTCTGAATGTGAATTGGATGAGCTGAACTTTCTCACTGTCCAAATATGTGGATTGATCATGAAA
1099290 ACTAAATCCTTAAGTGTGTTTCAAAGTGTATTTGAATCAATATGTGAAAACTATGCATCATTGAC
196 ACTAAATCCTTAAGTGTGTTTCAAAGTGTATTTGAATCAATATGTGAAAACTATGCATCATTGAC
* *
1099355 AATCGCTCTTGGTTAATTGGATTAATTGGCTATTGTTCTTAGTATGACCCTTTGATATGAAAGAC
261 AATCGCTCTTGGTTAATTGGATTAATTGGCAATTGTTCTTAGTAGGACCCTTTGATATGAAAGAC
*
1099420 ATGCCTAGAAAAAAGTACTCTATGTATTTTGTATTAGGGTGTGATTTGATATTATATGGGGTTCT
326 ATGCCTAGAAAAAAGTACTCTATGTATTTTGTATTAGGGTGTGATTTGATATTATACGGGGTTCT
* *
1099485 GATGATACATTGAGCTTTTATCTGAGATGATACGGGGTAAGGTTGGATGTTGAGTTTGCTGCGTA
391 GATGATACATTGAGCTTTGATCTGAGATGATACGGGGTAAGGTTGGATGTTAAGTTTGCTGCGTA
* *
1099550 ATGAGTGGTTTTGGATCTATGTATGTTTGTAAGCAAAATGGGAGTTGTATGGAGTTAGTTTATCC
456 ATGAGTGGTTTTGGATCTATGTAAGTTTGTAAGAAAAATGGGAGTTGTATGGAGTTAGTTTATCC
*
1099615 AATGAGTGAGTTGTGTTTTGAAAAAAAGTCGTTGATTGGTCTTAAAATGGAAAAATGTGTGTGAT
521 AATGAGTGAGTTGTGTTTTGAAAAAAAGTCATTGATTGGTCTTAAAATGGAAAAATGTGTGTGAT
*
1099680 TGTGTGATTTTCCAATGAAGGTAATTGTG
586 TGTGTGATTTTCCAAGGAAGGTAATTGTG
*
1099709 TATGTATGTATGGAATATACATTATGTTGATTTACATATGATGCCACTTATGTTGGAAATAAGAA
1 TATGTATGTATGGAATATAAATTATGTTGATTTACATATGATGCCACTTATGTTGGAAATAAGAA
*
1099774 TGTGAATGTGATATGTTGCAAATGATGCATAGGATTTTAAAAATGGTTTGTGAAAATCTATATAT
66 TGTGAATGTGATATGTTGCAAATGATGCATAGGATTTTAAAAACGGTTTGTGAAAATCTATATAT
*
1099839 ATTCTGAATGTGAATTGGATGAGCTGAACTTTCTCACTGTCCAAATATGTGGGTTGATCATGAAA
131 ATTCTGAATGTGAATTGGATGAGCTGAACTTTCTCACTGTCCAAATATGTGGATTGATCATGAAA
1099904 ACTAAATCCTTAAGTGTGTTTCAAAGTGTATTTGAATCAATATGTGAAAACTATGCATCATTGAC
196 ACTAAATCCTTAAGTGTGTTTCAAAGTGTATTTGAATCAATATGTGAAAACTATGCATCATTGAC
1099969 AATCGCTCTTGGTTAATTGGATTAATTGGCAATTGTTCTTAGTAGGACCCTTTGATATGAAAGAC
261 AATCGCTCTTGGTTAATTGGATTAATTGGCAATTGTTCTTAGTAGGACCCTTTGATATGAAAGAC
* *
1100034 ATTCCTAGAAAAAAGTACTCTATGTATTTTGTATTAGGTTGTGATTTGATATTATACGGGGTTCT
326 ATGCCTAGAAAAAAGTACTCTATGTATTTTGTATTAGGGTGTGATTTGATATTATACGGGGTTCT
*
1100099 GATGGTACATTGAGCTTTGATCTGAGATGATACGGGGTAAGGTTGGATGTTAAGTTTGCTGCGTA
391 GATGATACATTGAGCTTTGATCTGAGATGATACGGGGTAAGGTTGGATGTTAAGTTTGCTGCGTA
1100164 ATGAGTGGTTTTGGATCTATGTAAGTTTGTAAGAAAAATGGGAGTTGTATGGAGTTAGTTTATCC
456 ATGAGTGGTTTTGGATCTATGTAAGTTTGTAAGAAAAATGGGAGTTGTATGGAGTTAGTTTATCC
1100229 AATGAGTGAGTTGTGTTTTGAAAAAAAGTCATTGATTGGTCTTAAAATGGAAAAATGTGTGTGAT
521 AATGAGTGAGTTGTGTTTTGAAAAAAAGTCATTGATTGGTCTTAAAATGGAAAAATGTGTGTGAT
1100294 TGTGTGATTTTCCAAGGAAGGTAATTGTG
586 TGTGTGATTTTCCAAGGAAGGTAATTGTG
1100323 TATGTATGTATGTGAAT
1 TATGTATGTATG-GAAT
1100340 GCTTTTGAAC
Statistics
Matches: 611, Mismatches: 17, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
612 4 0.01
613 3 0.00
614 600 0.98
615 4 0.01
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.37
Consensus pattern (614 bp):
TATGTATGTATGGAATATAAATTATGTTGATTTACATATGATGCCACTTATGTTGGAAATAAGAA
TGTGAATGTGATATGTTGCAAATGATGCATAGGATTTTAAAAACGGTTTGTGAAAATCTATATAT
ATTCTGAATGTGAATTGGATGAGCTGAACTTTCTCACTGTCCAAATATGTGGATTGATCATGAAA
ACTAAATCCTTAAGTGTGTTTCAAAGTGTATTTGAATCAATATGTGAAAACTATGCATCATTGAC
AATCGCTCTTGGTTAATTGGATTAATTGGCAATTGTTCTTAGTAGGACCCTTTGATATGAAAGAC
ATGCCTAGAAAAAAGTACTCTATGTATTTTGTATTAGGGTGTGATTTGATATTATACGGGGTTCT
GATGATACATTGAGCTTTGATCTGAGATGATACGGGGTAAGGTTGGATGTTAAGTTTGCTGCGTA
ATGAGTGGTTTTGGATCTATGTAAGTTTGTAAGAAAAATGGGAGTTGTATGGAGTTAGTTTATCC
AATGAGTGAGTTGTGTTTTGAAAAAAAGTCATTGATTGGTCTTAAAATGGAAAAATGTGTGTGAT
TGTGTGATTTTCCAAGGAAGGTAATTGTG
Found at i:1103810 original size:53 final size:53
Alignment explanation
Indices: 1103730--1103832 Score: 161
Period size: 53 Copynumber: 1.9 Consensus size: 53
1103720 CCTAAGTGCT
* *
1103730 GAAATGGTGATTCACAAACTCGTTATGAATTCCATGGATGCACACATAGTGTC
1 GAAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACATAGTGTC
* * *
1103783 GAAATTGTAATTCACAAACTCATTATGAATTCCTTGGATGCGCACATAGT
1 GAAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACATAGT
1103833 ACTGATAGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (53 bp):
GAAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACATAGTGTC
Found at i:1104397 original size:15 final size:16
Alignment explanation
Indices: 1104379--1104409 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1104369 TATATGGATA
1104379 TTTTATTCAT-TTATT
1 TTTTATTCATGTTATT
1104394 TTTTATTCATGTTATT
1 TTTTATTCATGTTATT
1104410 ATTATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTATTCATGTTATT
Found at i:1104474 original size:11 final size:12
Alignment explanation
Indices: 1104450--1104499 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
1104440 TTTCATTTGA
1104450 TTTTTTACTATAT
1 TTTTTTA-TATAT
1104463 TTTTTTAT-TAT
1 TTTTTTATATAT
* *
1104474 TATTATATATAT
1 TTTTTTATATAT
*
1104486 TTCTTTA-ATAT
1 TTTTTTATATAT
1104497 TTT
1 TTT
1104500 ACTTATAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
11 15 0.50
12 8 0.27
13 7 0.23
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTTATATAT
Found at i:1112814 original size:45 final size:45
Alignment explanation
Indices: 1112725--1113022 Score: 368
Period size: 45 Copynumber: 6.6 Consensus size: 45
1112715 ACCTCCATTC
* * *
1112725 ATGTTTATAATGCA-CCATTATTCATTTTCAACAATAGCATACTTTT
1 ATGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGCATACTTTT
*
1112771 ATGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTT
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
* *
1112816 ATGTTGATAATGCACCCATATGCATTTCAACAATAACATACTTTT
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
*
1112861 CTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
* * **
1112906 CAAT-TTGATAATACACCCATATGCATTTCAACTATATCATGTTTTT
1 --ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
* * * *
1112952 CTGTTGATAATGCACCCATATGCAATTCAACTAT-GACATCCTTTC
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAG-CATACTTTT
***
1112997 ATGCCAATAATGCACCCATATGCATT
1 ATGTTGATAATGCACCCATATGCATT
1113023 ATTATTTTCA
Statistics
Matches: 220, Mismatches: 27, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
44 1 0.00
45 159 0.72
46 56 0.25
47 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (45 bp):
ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
Found at i:1112826 original size:91 final size:91
Alignment explanation
Indices: 1112725--1113022 Score: 381
Period size: 91 Copynumber: 3.3 Consensus size: 91
1112715 ACCTCCATTC
* * * *
1112725 ATGTTTATAATGCA-CCATTATTCATTTTCAACAATAGCATACTTTTATGTTGATAATGCACCCA
1 ATGTTGATAATGCACCCA-TATGCA-TTTCAACAATAACATACTTTTCTGTTGATAATGCACCCA
*
1112789 TATGCATTTCAACTATAGTATACTTTT-
64 TATGCATTTCAACTATAGCATACTTTTA
1112816 ATGTTGATAATGCACCCATATGCATTTCAACAATAACATACTTTTCTGTTGATAATGCACCCATA
1 ATGTTGATAATGCACCCATATGCATTTCAACAATAACATACTTTTCTGTTGATAATGCACCCATA
1112881 TGCATTTCAACTATAGCATACTTTTCA
66 TGCATTTCAACTATAGCATACTTTT-A
* * * **
1112908 AT-TTGATAATACACCCATATGCATTTCAACTATATCATGTTTTTCTGTTGATAATGCACCCATA
1 ATGTTGATAATGCACCCATATGCATTTCAACAATAACATACTTTTCTGTTGATAATGCACCCATA
* * *
1112972 TGCAATTCAACTAT-GACAT-CCTTTC
66 TGCATTTCAACTATAG-CATACTTTTA
***
1112997 ATGCCAATAATGCACCCATATGCATT
1 ATGTTGATAATGCACCCATATGCATT
1113023 ATTATTTTCA
Statistics
Matches: 185, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
89 2 0.01
90 87 0.47
91 91 0.49
92 5 0.03
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (91 bp):
ATGTTGATAATGCACCCATATGCATTTCAACAATAACATACTTTTCTGTTGATAATGCACCCATA
TGCATTTCAACTATAGCATACTTTTA
Found at i:1112957 original size:136 final size:135
Alignment explanation
Indices: 1112712--1113022 Score: 396
Period size: 136 Copynumber: 2.3 Consensus size: 135
1112702 CTTTTCATTT
* * * *
1112712 ATAACCTCCATTCATGTTTATAATGCA-CCATTATTCATTTTCAACAATAGCATACTTTTATGTT
1 ATAACATCCTTTCATGTTAATAATGCACCCA-TATGCA-TTTCAACAATAGCATACTTTTATGTT
* *
1112776 GATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCACCCATATGCAT
64 GATAATACACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCACCCATATGCAA
1112841 TTCAACA
129 TTCAACA
* * *
1112848 ATAACATACTTTTC-TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCAAT-T
1 ATAACAT-CCTTTCATGTTAATAATGCACCCATATGCATTTCAACAATAGCATACTTTT--ATGT
** *
1112911 TGATAATACACCCATATGCATTTCAACTATA-TCATGTTTTTCTGTTGATAATGCACCCATATGC
63 TGATAATACACCCATATGCATTTCAACTATAGT-ATACTTTTATGTTGATAATGCACCCATATGC
*
1112975 AATTCAACT
127 AATTCAACA
* **
1112984 ATGACATCCTTTCATGCCAATAATGCACCCATATGCATT
1 ATAACATCCTTTCATGTTAATAATGCACCCATATGCATT
1113023 ATTATTTTCA
Statistics
Matches: 152, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
135 26 0.17
136 117 0.77
137 9 0.06
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (135 bp):
ATAACATCCTTTCATGTTAATAATGCACCCATATGCATTTCAACAATAGCATACTTTTATGTTGA
TAATACACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCACCCATATGCAATT
CAACA
Found at i:1113463 original size:20 final size:21
Alignment explanation
Indices: 1113438--1113482 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
1113428 TGGCTTCTCA
1113438 GTATCGATAC-CCATACCATG
1 GTATCGATACACCATACCATG
*
1113458 GTATCGATACTACCATACTATG
1 GTATCGATAC-ACCATACCATG
1113480 GTA
1 GTA
1113483 CTAATACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (21 bp):
GTATCGATACACCATACCATG
Found at i:1113480 original size:22 final size:22
Alignment explanation
Indices: 1113438--1113508 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 22
1113428 TGGCTTCTCA
*
1113438 GTATCGATAC--CCATACCATG
1 GTATCGATACTACCATACTATG
1113458 GTATCGATACTACCATACTATG
1 GTATCGATACTACCATACTATG
* * *
1113480 GTA-C--TAATACTATACTATA
1 GTATCGATACTACCATACTATG
1113499 GTATCGATAC
1 GTATCGATAC
1113509 CGTTTTTGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 15 0.37
20 11 0.27
21 1 0.02
22 14 0.34
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.31
Consensus pattern (22 bp):
GTATCGATACTACCATACTATG
Found at i:1113570 original size:20 final size:20
Alignment explanation
Indices: 1113534--1113576 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1113524 TTTTTAAATG
* *
1113534 GTATCGATACCTTCCCTTTA
1 GTATCGATACCTCCCCTTCA
1113554 GTATCGATA-CTCCCCCTTCA
1 GTATCGATACCT-CCCCTTCA
1113574 GTA
1 GTA
1113577 CCTATACTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.35
Consensus pattern (20 bp):
GTATCGATACCTCCCCTTCA
Found at i:1114011 original size:17 final size:17
Alignment explanation
Indices: 1113991--1114027 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
1113981 TCATTAAGCA
1113991 TACATATCACTTAATGT
1 TACATATCACTTAATGT
1114008 TACATATCACTTAATGT
1 TACATATCACTTAATGT
1114025 TAC
1 TAC
1114028 CAAAGCAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.41
Consensus pattern (17 bp):
TACATATCACTTAATGT
Found at i:1121560 original size:108 final size:107
Alignment explanation
Indices: 1121362--1121643 Score: 431
Period size: 108 Copynumber: 2.6 Consensus size: 107
1121352 GTACATGAAT
* * *
1121362 TTGCAC-CAAAGTGTCGATACGGTCATTCATACACTCATTATGAATTTCGTGGATTGCACACATA
1 TTGCACACATAGTGTCGATACGGTCATTCATAAACTCATTATGAATTT-GTGGGTTGCACACATA
* ** *
1121426 GTGCCGATATAGTCATTCATAAACTCATTATGAATTCCTTGGG
65 GTGCCGATACAGTCATTCATAAACTCATTATGAATTCCGCGGA
*
1121469 TTGCACACATAGTGTCGATACTGTCATTCATAAACTCATTATGAATTCTGTGGGTTGCACACATA
1 TTGCACACATAGTGTCGATACGGTCATTCATAAACTCATTATGAATT-TGTGGGTTGCACACATA
*
1121534 GTGCCGATACAGTCATTCATAAACTCATTCTGAATTCCGCGGA
65 GTGCCGATACAGTCATTCATAAACTCATTATGAATTCCGCGGA
* *
1121577 TTGCACACATAGTGTCGATACGGTCATTCATAAACTCATTATGAATTATATGGGTTACACACATA
1 TTGCACACATAGTGTCGATACGGTCATTCATAAACTCATTATGAATT-TGTGGGTTGCACACATA
1121642 GT
65 GT
1121644 TCCTATAGTA
Statistics
Matches: 160, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
107 6 0.04
108 153 0.96
109 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (107 bp):
TTGCACACATAGTGTCGATACGGTCATTCATAAACTCATTATGAATTTGTGGGTTGCACACATAG
TGCCGATACAGTCATTCATAAACTCATTATGAATTCCGCGGA
Found at i:1121638 original size:54 final size:54
Alignment explanation
Indices: 1121362--1121643 Score: 381
Period size: 54 Copynumber: 5.2 Consensus size: 54
1121352 GTACATGAAT
* * * *
1121362 TTGCAC-CAAAGTGTCGATACGGTCATTCATACACTCATTATGAATT-TCGTGGA
1 TTGCACACATAGTGTCGATACAGTCATTCATAAACTCATTATGAATTCT-GTGGG
* *
1121415 TTGCACACATAGTGCCGATATAGTCATTCATAAACTCATTATGAATTCCT-TGGG
1 TTGCACACATAGTGTCGATACAGTCATTCATAAACTCATTATGAATT-CTGTGGG
*
1121469 TTGCACACATAGTGTCGATACTGTCATTCATAAACTCATTATGAATTCTGTGGG
1 TTGCACACATAGTGTCGATACAGTCATTCATAAACTCATTATGAATTCTGTGGG
* * * * *
1121523 TTGCACACATAGTGCCGATACAGTCATTCATAAACTCATTCTGAATTCCGCGGA
1 TTGCACACATAGTGTCGATACAGTCATTCATAAACTCATTATGAATTCTGTGGG
* * *
1121577 TTGCACACATAGTGTCGATACGGTCATTCATAAACTCATTATGAATTATATGGG
1 TTGCACACATAGTGTCGATACAGTCATTCATAAACTCATTATGAATTCTGTGGG
*
1121631 TTACACACATAGT
1 TTGCACACATAGT
1121644 TCCTATAGTA
Statistics
Matches: 201, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
53 8 0.04
54 192 0.96
56 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (54 bp):
TTGCACACATAGTGTCGATACAGTCATTCATAAACTCATTATGAATTCTGTGGG
Found at i:1123920 original size:20 final size:20
Alignment explanation
Indices: 1123897--1123940 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1123887 CTCGGTATAA
*
1123897 ATACCACCCCTTG-GGTATCG
1 ATACCA-CCCTTGTAGTATCG
*
1123917 ATACCAGCCTTGTAGTATCG
1 ATACCACCCTTGTAGTATCG
1123937 ATAC
1 ATAC
1123941 TCCGTTGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (20 bp):
ATACCACCCTTGTAGTATCG
Found at i:1135546 original size:25 final size:24
Alignment explanation
Indices: 1135474--1135566 Score: 71
Period size: 26 Copynumber: 3.6 Consensus size: 24
1135464 CGAACGTGAG
*
1135474 AATAATAAATAAAACAAGAAAAAAT
1 AATAATAAAAAAAACAA-AAAAAAT
* *
1135499 GAAAAATAACAAAACACGTAAAAAAAAT
1 -AATAATAA-AAAAAAC--AAAAAAAAT
*
1135527 AATAATAAAAATAAACAAAATAAAT
1 AATAATAAAAA-AAACAAAAAAAAT
1135552 AA-AATGTAAAAAAAA
1 AATAA--TAAAAAAAA
1135567 AGACACAGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
24 2 0.04
25 13 0.24
26 16 0.29
27 15 0.27
28 7 0.13
29 2 0.04
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.15
Consensus pattern (24 bp):
AATAATAAAAAAAACAAAAAAAAT
Found at i:1135555 original size:34 final size:34
Alignment explanation
Indices: 1135477--1135555 Score: 83
Period size: 34 Copynumber: 2.3 Consensus size: 34
1135467 ACGTGAGAAT
1135477 AATAAATAAAACAAGAAAAAATGAAAAATAACAA
1 AATAAATAAAACAAGAAAAAATGAAAAATAACAA
* **
1135511 AACACGTAAAA-AA-AATAATAAT-AAAAATAAACAA
1 AATAAATAAAACAAGAA-AA-AATGAAAAAT-AACAA
1135545 AATAAATAAAA
1 AATAAATAAAA
1135556 TGTAAAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
32 2 0.06
33 10 0.28
34 24 0.67
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (34 bp):
AATAAATAAAACAAGAAAAAATGAAAAATAACAA
Found at i:1135782 original size:26 final size:25
Alignment explanation
Indices: 1135736--1135791 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
1135726 GATATTAAGA
1135736 AAAAATATAAAAAAATAAAATAAAGT
1 AAAAATATAAAAAAATAAAATAAA-T
* *
1135762 AAAAATAT-AATATATATAAATAAAT
1 AAAAATATAAAAAAATA-AAATAAAT
1135787 AAAAA
1 AAAAA
1135792 CAAAAATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (25 bp):
AAAAATATAAAAAAATAAAATAAAT
Found at i:1135948 original size:14 final size:14
Alignment explanation
Indices: 1135931--1135967 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
1135921 ATAAGATATG
1135931 TATAATAAAAATAA
1 TATAATAAAAATAA
1135945 TATAATAAAAATAA
1 TATAATAAAAATAA
1135959 -ATAA-AAAAA
1 TATAATAAAAA
1135968 AGAGGAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 5 0.22
13 4 0.17
14 14 0.61
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
TATAATAAAAATAA
Found at i:1138434 original size:67 final size:64
Alignment explanation
Indices: 1138325--1138473 Score: 185
Period size: 65 Copynumber: 2.3 Consensus size: 64
1138315 TGAAAACGAA
* **
1138325 CTCAAGGGA-AACAAA-TTTTTTTAAGGGAAATAATTTTGAAGATTTTTTGTTTCAAGAGAAACT
1 CTCAAGGGAGAA-AAATTTTTTTTAAGGGAAATAAATTCAAAGA--TTTTGTTTCAAGAGAAACT
1138388 GT
63 GT
* *
1138390 CTCAAGGGAGAAAAATTTTATTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGAAACTGT
1 CTCAAGGGAGAAAAATTTT-TTTTAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTGT
*
1138455 CTCAAGAGAGACAAAATTT
1 CTCAAGGGAGA-AAAATTT
1138474 GTTTCAAGAG
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
65 42 0.57
66 12 0.16
67 20 0.27
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (64 bp):
CTCAAGGGAGAAAAATTTTTTTTAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTGT
Found at i:1138487 original size:36 final size:36
Alignment explanation
Indices: 1138435--1138849 Score: 279
Period size: 36 Copynumber: 12.0 Consensus size: 36
1138425 ATTCAAAGAT
1138435 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
1138471 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** * **
1138507 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGATGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*** * *
1138544 TTTGTTTCAAATAAAACATAT-TC-----A-A-ATAA
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
*
1138573 TTTGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
1138609 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * *
1138645 TTTATTTCAAGGGAAA-TGTTTTC-A-A-TG-----T
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
* *
1138673 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
1138710 TTTCCTTTCAAGGGAAACTATCTCAAGAGAGATAAAA
1 TTT-GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * *
1138747 TTCGTTTCAAGGGAAA-TGTTTTC-A-A-TG-----T
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
* *
1138775 TTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAATAT
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-AA
* * *
1138813 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1138849 T
1 T
1138850 ATTCTTTTTA
Statistics
Matches: 293, Mismatches: 52, Indels: 68
0.71 0.13 0.16
Matches are distributed among these distances:
28 6 0.02
29 47 0.16
30 7 0.02
31 2 0.01
32 2 0.01
33 2 0.01
34 3 0.01
35 6 0.02
36 123 0.42
37 92 0.31
38 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:1138532 original size:37 final size:36
Alignment explanation
Indices: 1138447--1138538 Score: 139
Period size: 37 Copynumber: 2.5 Consensus size: 36
1138437 TGTTTCAAGG
* * *
1138447 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
1138483 GAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAA-TTAGTTCCAAAA
*
1138520 GAAACTGTCTCAAGGGAGA
1 GAAACTGTCTCAAGAGAGA
1138539 TGAAATTTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 24 0.47
37 27 0.53
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
Done.