Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007931.1 Hibiscus syriacus cultivar Beakdansim tig00110339_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: 2341804
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 12
Found at i:1051704 original size:19 final size:19
Alignment explanation
Indices: 1051682--1051773 Score: 96
Period size: 19 Copynumber: 5.4 Consensus size: 19
1051672 AAAAATTACT
1051682 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1051701 ATCGCAA--CG--AT-ATA
1 ATCGCAATGCGAAATGAAA
1051715 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1051734 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1051748 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1051767 ATCGCAA
1 ATCGCAA
1051774 CGACAAAATC
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 19 0.32
15 3 0.05
16 4 0.07
17 4 0.07
18 3 0.05
19 26 0.44
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1051724 original size:33 final size:33
Alignment explanation
Indices: 1051682--1051807 Score: 182
Period size: 33 Copynumber: 3.8 Consensus size: 33
1051672 AAAAATTACT
* *
1051682 ATCGCAATGCGAAATGAAAATCGCAACGATATA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
1051715 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1051748 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
1051781 ATCGTAACGCGAAACT-AAAATCGCAAC
1 ATCGCAATGCGAAA-TGAAAATCGCAAC
1051808 ACGAAACTAA
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
33 85 0.99
34 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.19, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1051802 original size:19 final size:19
Alignment explanation
Indices: 1051778--1051823 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
1051768 TCGCAACGAC
* *
1051778 AAAATCGTAACGCGAAACT
1 AAAATCGCAACACGAAACT
1051797 AAAATCGCAACACGAAACT
1 AAAATCGCAACACGAAACT
*
1051816 AAATTCGC
1 AAAATCGC
1051824 GTTGCGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.48, C:0.24, G:0.13, T:0.15
Consensus pattern (19 bp):
AAAATCGCAACACGAAACT
Found at i:1051841 original size:19 final size:19
Alignment explanation
Indices: 1051819--1051883 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
1051809 CGAAACTAAA
*
1051819 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
1051838 TTCGCATTGCGA--TT-AT
1 TTCGCATTGCGATTTTCAT
* *
1051854 CTCG--TTGCAATTTTCAT
1 TTCGCATTGCGATTTTCAT
1051871 TTCGCATTGCGAT
1 TTCGCATTGCGAT
1051884 AGTAATTTCC
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 5 0.14
16 7 0.19
17 7 0.19
19 17 0.47
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:1051949 original size:20 final size:20
Alignment explanation
Indices: 1051877--1051949 Score: 51
Period size: 20 Copynumber: 3.6 Consensus size: 20
1051867 TCATTTCGCA
* *
1051877 TTGCGATAGTAATTTCCGCG
1 TTGCGATAGTCATTTCCGTG
* * **
1051897 TTGTGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTCCG-TG
1051917 ATTGCGA-ATGTCATTTCCGTG
1 -TTGCGATA-GTCATTTCCGTG
1051938 TTGCGATAGTCA
1 TTGCGATAGTCA
1051950 AACTCAAGTT
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
19 3 0.08
20 21 0.55
21 11 0.29
22 3 0.08
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGTG
Found at i:1053225 original size:15 final size:15
Alignment explanation
Indices: 1053205--1053233 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1053195 TCTTCGGGTT
1053205 GCGAAAGTCAGTATC
1 GCGAAAGTCAGTATC
1053220 GCGAAAGTCAGTAT
1 GCGAAAGTCAGTAT
1053234 TGAGTTGCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (15 bp):
GCGAAAGTCAGTATC
Found at i:1053310 original size:41 final size:41
Alignment explanation
Indices: 1053220--1053328 Score: 139
Period size: 41 Copynumber: 2.7 Consensus size: 41
1053210 AGTCAGTATC
* * ** * *
1053220 GCGAAAGTCAGTATTGAGTTGCGAAATT-AAGTATCGAGTT
1 GCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGAGTT
*
1053260 GCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGTGTT
1 GCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGAGTT
*
1053301 GCGATAGTCAGTATCGCGTTGCGATTTT
1 GCGAAAGTCAGTATCGCGTTGCGATTTT
1053329 CCAAATTCGC
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 24 0.40
41 36 0.60
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.35
Consensus pattern (41 bp):
GCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGAGTT
Found at i:1053325 original size:20 final size:20
Alignment explanation
Indices: 1053202--1053324 Score: 96
Period size: 20 Copynumber: 6.3 Consensus size: 20
1053192 TTTTCTTCGG
1053202 GTTGCGAAAGTCAGTATC--
1 GTTGCGAAAGTCAGTATCGA
*
1053220 ---GCGAAAGTCAGTATTGA
1 GTTGCGAAAGTCAGTATCGA
* *
1053237 GTTGCGAAATTAAGTATCGA
1 GTTGCGAAAGTCAGTATCGA
*
1053257 GTTGCGAAAGTCAGTATCGC
1 GTTGCGAAAGTCAGTATCGA
** * *
1053277 GTTGCGATTTTGT-ATTATCGT
1 GTTGCGA--AAGTCAGTATCGA
* *
1053298 GTTGCGATAGTCAGTATCGC
1 GTTGCGAAAGTCAGTATCGA
1053318 GTTGCGA
1 GTTGCGA
1053325 TTTTCCAAAT
Statistics
Matches: 83, Mismatches: 14, Indels: 14
0.75 0.13 0.13
Matches are distributed among these distances:
15 14 0.17
19 3 0.04
20 51 0.61
21 13 0.16
22 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (20 bp):
GTTGCGAAAGTCAGTATCGA
Found at i:1053343 original size:21 final size:21
Alignment explanation
Indices: 1053314--1053362 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
1053304 ATAGTCAGTA
*
1053314 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
1053335 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
1053356 TCGCATT
1 TCGCATT
1053363 TCGAATTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:1053344 original size:41 final size:41
Alignment explanation
Indices: 1053258--1053346 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
1053248 AAGTATCGAG
* ** * **
1053258 TTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGTG
1 TTGCGATAGTCAGTATCGCGTTGCGATTTTCAAATATCGCA
1053299 TTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAAT-TCGCA
1 TTGCGATAGTCAGTATCGCGTTGCGATTTT-CAAATATCGCA
1053340 TTGCGAT
1 TTGCGAT
1053347 TTTCCAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 39 0.95
42 2 0.05
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (41 bp):
TTGCGATAGTCAGTATCGCGTTGCGATTTTCAAATATCGCA
Found at i:1053380 original size:21 final size:21
Alignment explanation
Indices: 1053356--1053408 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
1053346 TTTTCCAAAT
*
1053356 TCGCATTTCG-AATTGGGAAAA
1 TCGCATTGCGAAATT-GGAAAA
**
1053377 TCGCAACGCGAAATTGGAAAA
1 TCGCATTGCGAAATTGGAAAA
1053398 TCGCATTGCGA
1 TCGCATTGCGA
1053409 TAGTCATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (21 bp):
TCGCATTGCGAAATTGGAAAA
Found at i:1060773 original size:42 final size:42
Alignment explanation
Indices: 1060714--1060805 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
1060704 CCTTAAGGAT
* *
1060714 CACATATATATTCCAAAGGACCAAATATGTGTCCCGAAAAAC
1 CACATATATATTCCAAAGGACCAAATATATATCCCGAAAAAC
* ** * *
1060756 CACATATATGTTCCAAAGGATTACATATATATCCCGAAAGAC
1 CACATATATATTCCAAAGGACCAAATATATATCCCGAAAAAC
1060798 CACATATA
1 CACATATA
1060806 ACCCTCGACT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.24
Consensus pattern (42 bp):
CACATATATATTCCAAAGGACCAAATATATATCCCGAAAAAC
Found at i:1060802 original size:21 final size:21
Alignment explanation
Indices: 1060708--1060805 Score: 74
Period size: 21 Copynumber: 4.7 Consensus size: 21
1060698 AACACTCCTT
* *
1060708 AAGGATCACATATATATTCCA
1 AAGGACCACATATATATCCCA
* * *
1060729 AAGGACCAAATATGTGTCCCGA
1 AAGGACCACATATATATCCC-A
* * *
1060751 AA-AACCACATATATGTTCCA
1 AAGGACCACATATATATCCCA
**
1060771 AAGGATTACATATATATCCCGA
1 AAGGACCACATATATATCCC-A
1060793 AA-GACCACATATA
1 AAGGACCACATATA
1060806 ACCCTCGACT
Statistics
Matches: 58, Mismatches: 16, Indels: 6
0.73 0.20 0.08
Matches are distributed among these distances:
20 3 0.05
21 49 0.84
22 6 0.10
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGGACCACATATATATCCCA
Found at i:1075887 original size:21 final size:20
Alignment explanation
Indices: 1075822--1075935 Score: 97
Period size: 21 Copynumber: 5.5 Consensus size: 20
1075812 CATATTCGCA
*
1075822 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAATTCG-G
* **
1075843 TTGTGATTTTCCAAATTC-G
1 TTGCGATAGTCCAAATTCGG
*
1075862 TTGCGATAGTCTAAATTCGTG
1 TTGCGATAGTCCAAATTCG-G
* *
1075883 TTGCGATTTATTCCAAATTC-A
1 TTGCGA--TAGTCCAAATTCGG
*
1075904 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAATTCG-G
1075925 TTGCGATAGTC
1 TTGCGATAGTC
1075936 TCCAAGTTCA
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
19 25 0.34
21 38 0.52
23 10 0.14
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCCAAATTCGG
Found at i:1075898 original size:42 final size:41
Alignment explanation
Indices: 1075820--1075959 Score: 174
Period size: 42 Copynumber: 3.4 Consensus size: 41
1075810 TACATATTCG
*
1075820 CATTGCGATAGTCCAAGTTCGCGTTGTGA-TTTTCCAAATT
1 CATTGCGATAGTCCAAGTTCGCGTTGCGATTTTTCCAAATT
* * * *
1075860 CGTTGCGATAGTCTAAATTCGTGTTGCGATTTATTCCAAATT
1 CATTGCGATAGTCCAAGTTCGCGTTGCGATTT-TTCCAAATT
* * *
1075902 CATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCTCCAAGTT
1 CATTGCGATAGTCCAAGTTCGCGTTGCGAT-TTTTCCAAATT
*
1075944 CATTGCGATAGGCCAA
1 CATTGCGATAGTCCAA
1075960 AATCGCAATG
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 24 0.29
41 2 0.02
42 57 0.68
43 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (41 bp):
CATTGCGATAGTCCAAGTTCGCGTTGCGATTTTTCCAAATT
Found at i:1075949 original size:21 final size:19
Alignment explanation
Indices: 1075820--1075959 Score: 73
Period size: 21 Copynumber: 6.8 Consensus size: 19
1075810 TACATATTCG
1075820 CATTGCGATAGTCCAAGTT
1 CATTGCGATAGTCCAAGTT
* * ** *
1075839 CGCGTTGTGATTTTCCAAATT
1 --CATTGCGATAGTCCAAGTT
* * *
1075860 CGTTGCGATAGTCTAAATT
1 CATTGCGATAGTCCAAGTT
* * *
1075879 CGTGTTGCGATTTATTCCAAATT
1 C--ATTGCGA--TAGTCCAAGTT
1075902 CATTGCGATAGTCCAAGTT
1 CATTGCGATAGTCCAAGTT
*
1075921 CGCGTTGCGATAGTCTCCAAGTT
1 --CATTGCGATAG--TCCAAGTT
*
1075944 CATTGCGATAGGCCAA
1 CATTGCGATAGTCCAA
1075960 AATCGCAATG
Statistics
Matches: 94, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
19 29 0.31
21 47 0.50
23 18 0.19
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (19 bp):
CATTGCGATAGTCCAAGTT
Found at i:1076992 original size:6 final size:6
Alignment explanation
Indices: 1076971--1077007 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
1076961 ATCCGTCTCG
1076971 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1077008 AATACGTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.00, C:0.16, G:0.54, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:1077166 original size:42 final size:41
Alignment explanation
Indices: 1077103--1077279 Score: 202
Period size: 42 Copynumber: 4.3 Consensus size: 41
1077093 ATTTTGGCCT
*
1077103 ATCGCAA--CGAACTTGGAGACTATCGCAACGAACTTGTAATAA
1 ATCGCAACGCGAACTT-G-GACTATCGCAACGAATTTG-AATAA
1077145 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTT-GAATAA
* * * *
1077187 ATCGCAACGTGAATTTGGACTATCGCAATGAATTTGGA-AA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGAATAA
*
1077227 ATCGCAACGCGAACTTGGACTATCGCAATGCGAATATG--TAA
1 ATCGCAACGCGAACTTGGACTATCGCAA--CGAATTTGAATAA
*
1077268 ATCGCAATGCGA
1 ATCGCAACGCGA
1077280 TAGTAGAAGT
Statistics
Matches: 119, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
40 28 0.24
41 15 0.13
42 67 0.56
43 2 0.02
44 7 0.06
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (41 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGAATAA
Found at i:1077260 original size:21 final size:19
Alignment explanation
Indices: 1077096--1077254 Score: 120
Period size: 21 Copynumber: 7.7 Consensus size: 19
1077086 CGCTGCGATT
*
1077096 TTGGCCTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
1077115 TTGGAGACTATCGCAACGAAC
1 TT-G-GACTATCGCAACGAAC
* *
1077136 TTGTAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
1077159 TTGGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
* *
1077178 TTGGAATAAATCGCAACGTGAAT
1 TTGGACT--ATCGCAAC--GAAC
* *
1077201 TTGGACTATCGCAATGAAT
1 TTGGACTATCGCAACGAAC
**
1077220 TTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAA--CGAAC
1077241 TTGGACTATCGCAA
1 TTGGACTATCGCAA
1077255 TGCGAATATG
Statistics
Matches: 113, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
19 30 0.27
20 2 0.02
21 61 0.54
23 20 0.18
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (19 bp):
TTGGACTATCGCAACGAAC
Found at i:1080973 original size:14 final size:14
Alignment explanation
Indices: 1080956--1080982 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1080946 AGTATTTTTT
1080956 ACTAACGATTTTCG
1 ACTAACGATTTTCG
1080970 ACTAACGATTTTC
1 ACTAACGATTTTC
1080983 ATCGTTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (14 bp):
ACTAACGATTTTCG
Found at i:1082407 original size:20 final size:20
Alignment explanation
Indices: 1082384--1082451 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
1082374 TCGTGCATTG
1082384 GATGCACAGCAGGATGCATC
1 GATGCACAGCAGGATGCATC
* **
1082404 GATGCACAACCTTGATGCATC
1 GATGCAC-AGCAGGATGCATC
*
1082425 GATGCACAGAAGGATGCATC
1 GATGCACAGCAGGATGCATC
1082445 GATGCAC
1 GATGCAC
1082452 TAATTGCATT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 23 0.57
21 17 0.43
ACGTcount: A:0.31, C:0.25, G:0.26, T:0.18
Consensus pattern (20 bp):
GATGCACAGCAGGATGCATC
Found at i:1082519 original size:22 final size:23
Alignment explanation
Indices: 1082486--1082528 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
1082476 ATGGATGCAC
1082486 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
1082509 TGCA-GGTGCATGGATGCACT
1 TGCATGGTGCATCGATGCACT
1082529 GCAGGGGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:1082649 original size:29 final size:29
Alignment explanation
Indices: 1082628--1082685 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
1082618 AAACTTTGAA
1082628 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
1082657 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
1082686 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:1082675 original size:30 final size:30
Alignment explanation
Indices: 1082628--1082687 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
1082618 AAACTTTGAA
1082628 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
1082657 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
1082688 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:1085501 original size:34 final size:32
Alignment explanation
Indices: 1085443--1085512 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
1085433 ACCTTACAAC
* *
1085443 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
1085475 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
1085509 TCCC
1 TCCC
1085513 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:1085753 original size:21 final size:22
Alignment explanation
Indices: 1085727--1085767 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1085717 TGTTGTATAT
1085727 AGCCGTTGGGGATG-TTTTTAG
1 AGCCGTTGGGGATGATTTTTAG
*
1085748 AGCCGTTTGGGATGATTTTT
1 AGCCGTTGGGGATGATTTTT
1085768 CTACTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.15, C:0.10, G:0.34, T:0.41
Consensus pattern (22 bp):
AGCCGTTGGGGATGATTTTTAG
Found at i:1085894 original size:21 final size:21
Alignment explanation
Indices: 1085870--1085934 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
1085860 CTAGCCGTTG
*
1085870 CAGCCTTCG-TGCATGGATGCA
1 CAGCCTT-GATGCATCGATGCA
**
1085891 CAG-CAGGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCA
1085911 CAGCCTTGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCA
1085932 CAG
1 CAG
1085935 AAGGATGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.03
20 15 0.41
21 21 0.57
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (21 bp):
CAGCCTTGATGCATCGATGCA
Found at i:1085908 original size:20 final size:20
Alignment explanation
Indices: 1085879--1085952 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
1085869 GCAGCCTTCG
*
1085879 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
**
1085899 TGCATCGATGCACAGCCTTGA
1 TGCATCGATGCACAG-CAGGA
*
1085920 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGCAGGA
*
1085940 TGAATCGATGCAC
1 TGCATCGATGCAC
1085953 TAATTGCATT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
20 28 0.61
21 18 0.39
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:1085915 original size:41 final size:41
Alignment explanation
Indices: 1085870--1085952 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
1085860 CTAGCCGTTG
* * *
1085870 CAGCCTTCG-TGCATGGATGCACAGCAGGATGCATCGATGCA
1 CAGCCTT-GATGCATCGATGCACAGAAGGATGAATCGATGCA
1085911 CAGCCTTGATGCATCGATGCACAGAAGGATGAATCGATGCA
1 CAGCCTTGATGCATCGATGCACAGAAGGATGAATCGATGCA
1085952 C
1 C
1085953 TAATTGCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.19
Consensus pattern (41 bp):
CAGCCTTGATGCATCGATGCACAGAAGGATGAATCGATGCA
Found at i:1086020 original size:22 final size:23
Alignment explanation
Indices: 1085987--1086029 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
1085977 ATGGATGCAC
1085987 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
1086010 TGCA-GGTGCATGGATGCACT
1 TGCATGGTGCATCGATGCACT
1086030 GCAGGGGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:1086151 original size:29 final size:29
Alignment explanation
Indices: 1086130--1086187 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
1086120 AAACTTTGAA
1086130 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
*
1086159 TAAATTCAATTCAAGTCTAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
1086188 TGCCTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 13 0.50
31 2 0.08
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:1086181 original size:30 final size:30
Alignment explanation
Indices: 1086130--1086189 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
1086120 AAACTTTGAA
1086130 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
*
1086159 TAAATTCAATTCAAGTCTAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
1086190 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:1091637 original size:21 final size:20
Alignment explanation
Indices: 1091612--1091672 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
1091602 CGTTAGACAA
1091612 GGGGAATCGGTACCCCCTAGG
1 GGGGAATCGGTACCCCCT-GG
* * *
1091633 GGGGAATCTGTTCCCCCTTG
1 GGGGAATCGGTACCCCCTGG
1091653 GGGGAATCGGTACCCCCTGG
1 GGGGAATCGGTACCCCCTGG
1091673 ACATTCTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.15, C:0.30, G:0.36, T:0.20
Consensus pattern (20 bp):
GGGGAATCGGTACCCCCTGG
Found at i:1091726 original size:21 final size:21
Alignment explanation
Indices: 1091701--1091740 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1091691 GCCACCTGTA
1091701 GGGGGAATCTGTACCCCCTTG
1 GGGGGAATCTGTACCCCCTTG
1091722 GGGGGAATCTGTACCCCCT
1 GGGGGAATCTGTACCCCCT
1091741 GGACAATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.23
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTTG
Found at i:1091992 original size:3 final size:3
Alignment explanation
Indices: 1091984--1092095 Score: 224
Period size: 3 Copynumber: 37.3 Consensus size: 3
1091974 GTTTCCAACA
1091984 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1092032 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1092080 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
1092096 TAAATATAAA
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 109 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1092122 original size:9 final size:9
Alignment explanation
Indices: 1091992--1092128 Score: 62
Period size: 9 Copynumber: 14.9 Consensus size: 9
1091982 CAAATAATAA
1091992 TAATAATAA-
1 TAATAA-AAT
1092001 TAATAATAA-
1 TAATAA-AAT
1092010 TAATAATAA-
1 TAATAA-AAT
1092019 TAATAATAA-
1 TAATAA-AAT
1092028 TAATAATAA-
1 TAATAA-AAT
1092037 TAATAATAA-
1 TAATAA-AAT
1092046 TAATAATAA-
1 TAATAA-AAT
1092055 TAATAATAA-
1 TAATAA-AAT
1092064 TAATAATAA-
1 TAATAA-AAT
1092073 TAATAATAA-
1 TAATAA-AAT
1092082 TAATAATAA-
1 TAATAA-AAT
1092091 TAATATAAAT
1 TAATA-AAAT
1092101 ATAAATAAAAT
1 -T-AATAAAAT
*
1092112 TAATAACAT
1 TAATAAAAT
1092121 TAATAAAA
1 TAATAAAA
1092129 CATATTTATC
Statistics
Matches: 122, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
9 111 0.91
10 2 0.02
11 5 0.04
12 4 0.03
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (9 bp):
TAATAAAAT
Found at i:1092473 original size:25 final size:25
Alignment explanation
Indices: 1092423--1092601 Score: 233
Period size: 24 Copynumber: 7.4 Consensus size: 25
1092413 CAAAAGTGTT
* * *
1092423 GTAGAATA-GCA-TCAATGTGCCAC
1 GTAGAATATGCACACAAAGTGCCTC
*
1092446 GTAGAATAGGCACACAAAGTGCCTC
1 GTAGAATATGCACACAAAGTGCCTC
*
1092471 GTATAAT-TGCACACAAAGTGCCTC
1 GTAGAATATGCACACAAAGTGCCTC
* * *
1092495 GTAAAATATGCATACAAAGTGCGTC
1 GTAGAATATGCACACAAAGTGCCTC
1092520 GTAGAATATGCACACAAAGTGCCTC
1 GTAGAATATGCACACAAAGTGCCTC
*
1092545 TTAGAAT-TGCACACAAAGTGCCTC
1 GTAGAATATGCACACAAAGTGCCTC
*
1092569 TTAGAAT-TGCACACAAAGTGCCTC
1 GTAGAATATGCACACAAAGTGCCTC
1092593 GTAGAATAT
1 GTAGAATAT
1092602 ACATGTATTG
Statistics
Matches: 139, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.06
24 72 0.52
25 59 0.42
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (25 bp):
GTAGAATATGCACACAAAGTGCCTC
Found at i:1092566 original size:74 final size:73
Alignment explanation
Indices: 1092439--1092601 Score: 245
Period size: 74 Copynumber: 2.2 Consensus size: 73
1092429 TAGCATCAAT
* * *
1092439 GTGCCACGTAGAATAGGCACACAAAGTGCCTCGTATAATTGCACACAAAGTGCCTCGTAAAATAT
1 GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATTGCACACAAAGTGCCTCGTAAAAT-T
*
1092504 GCATACAAA
65 GCACACAAA
* * * *
1092513 GTGCGTCGTAGAATATGCACACAAAGTGCCTCTTAGAATTGCACACAAAGTGCCTCTTAGAATTG
1 GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATTGCACACAAAGTGCCTCGTAAAATTG
1092578 CACACAAA
66 CACACAAA
1092586 GTGCCTCGTAGAATAT
1 GTGCCTCGTAGAATAT
1092602 ACATGTATTG
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 24 0.30
74 56 0.70
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (73 bp):
GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATTGCACACAAAGTGCCTCGTAAAATTG
CACACAAA
Found at i:1093646 original size:13 final size:13
Alignment explanation
Indices: 1093630--1093654 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1093620 CCAAAAAAAA
1093630 TAATCAAACATTC
1 TAATCAAACATTC
1093643 TAATCAAACATT
1 TAATCAAACATT
1093655 TAAACATTAC
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:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
TAATCAAACATTC
Found at i:1097865 original size:11 final size:11
Alignment explanation
Indices: 1097851--1097890 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
1097841 ACTCGATCCA
1097851 AGCTCGATTTG
1 AGCTCGATTTG
* *
1097862 AGCTCGACTTA
1 AGCTCGATTTG
1097873 AGCTCGATTTG
1 AGCTCGATTTG
1097884 AGCTCGA
1 AGCTCGA
1097891 CAGGTTAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (11 bp):
AGCTCGATTTG
Found at i:1097875 original size:22 final size:22
Alignment explanation
Indices: 1097850--1097891 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
1097840 AACTCGATCC
1097850 AAGCTCGATTTGAGCTCGACTT
1 AAGCTCGATTTGAGCTCGACTT
1097872 AAGCTCGATTTGAGCTCGAC
1 AAGCTCGATTTGAGCTCGAC
1097892 AGGTTAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (22 bp):
AAGCTCGATTTGAGCTCGACTT
Found at i:1100647 original size:7 final size:7
Alignment explanation
Indices: 1100616--1100693 Score: 95
Period size: 7 Copynumber: 11.3 Consensus size: 7
1100606 GTGCATAACT
1100616 TAAACCC
1 TAAACCC
*
1100623 TAAGCCC
1 TAAACCC
* *
1100630 TAAATCA
1 TAAACCC
1100637 TAAACCC
1 TAAACCC
1100644 TAAA-CC
1 TAAACCC
1100650 TAAACCC
1 TAAACCC
1100657 TAAACCC
1 TAAACCC
*
1100664 TAAACTC
1 TAAACCC
*
1100671 TAAACAC
1 TAAACCC
*
1100678 TAAACCA
1 TAAACCC
1100685 TAAACCC
1 TAAACCC
1100692 TA
1 TA
1100694 TCACATAATT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
6 6 0.10
7 53 0.90
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:1100790 original size:14 final size:14
Alignment explanation
Indices: 1100771--1100800 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1100761 TATAATTATC
*
1100771 AATAATGTATTTTT
1 AATAATGTAATTTT
1100785 AATAATGTAATTTT
1 AATAATGTAATTTT
1100799 AA
1 AA
1100801 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:1103757 original size:15 final size:16
Alignment explanation
Indices: 1103737--1103770 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1103727 TCATAGATAA
*
1103737 AAATGTAA-TGTAAAT
1 AAATGTAATTGGAAAT
1103752 AAATGTAATTGGAAAT
1 AAATGTAATTGGAAAT
1103768 AAA
1 AAA
1103771 ATATTTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (16 bp):
AAATGTAATTGGAAAT
Found at i:1105772 original size:43 final size:40
Alignment explanation
Indices: 1105711--1105818 Score: 119
Period size: 43 Copynumber: 2.6 Consensus size: 40
1105701 TGGTGGGGAA
*
1105711 GACACTACTCATACGTGATGAAGAGATCTAGTCTGCTAAGCG-T
1 GACACGACTCATACGTGATGAAGAGATCTAGTC-GCT--G-GAT
* * * * *
1105754 GACACGACTCCTACGTGATGAGGAGATTTGGTCGGTGGAT
1 GACACGACTCATACGTGATGAAGAGATCTAGTCGCTGGAT
1105794 GACACGACTCATACGTGATGAAGAG
1 GACACGACTCATACGTGATGAAGAG
1105819 TTCTGTCCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.02
40 25 0.45
42 2 0.04
43 28 0.50
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (40 bp):
GACACGACTCATACGTGATGAAGAGATCTAGTCGCTGGAT
Found at i:1106071 original size:40 final size:42
Alignment explanation
Indices: 1105983--1106080 Score: 121
Period size: 40 Copynumber: 2.4 Consensus size: 42
1105973 ATAACACGGT
1105983 TCCTACGTGATGAGGACAACTGGTTATCAGGGGTGACACAAC
1 TCCTACGTGATGAGGACAACTGGTTATCAGGGGTGACACAAC
* * * **
1106025 TCCTACGTGATGAGGAGATCTGG-T-T-GGGGGATGACACATG
1 TCCTACGTGATGAGGACAACTGGTTATCAGGGG-TGACACAAC
1106065 TCCTACGTGATGAGGA
1 TCCTACGTGATGAGGA
1106081 TGTCATGCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
39 4 0.08
40 24 0.48
41 1 0.02
42 21 0.42
ACGTcount: A:0.26, C:0.18, G:0.33, T:0.23
Consensus pattern (42 bp):
TCCTACGTGATGAGGACAACTGGTTATCAGGGGTGACACAAC
Found at i:1106095 original size:130 final size:131
Alignment explanation
Indices: 1105746--1106098 Score: 317
Period size: 130 Copynumber: 2.7 Consensus size: 131
1105736 ATCTAGTCTG
* * * * * *
1105746 CTAAGCGTGACACGACTCCTACGTGATGAGGAGATTTGGTCGGTGGATGACACGA-CTCATACGT
1 CTAAGGGTGACACGACTCCTACGTGATGAGGAGATCTGGTTGGGGGATGACAC-ATGTCCTACGT
* * * ****
1105810 GATGAAGAGTTC-TGTCCATCTTTAGGGAAGGTGATAACATAGTTCCTACGCTATGTGGATGGTT
65 GATGAGGAG-TCATG-CCATCTTTA-GGAA-GTGATAACACAGTTCCTACGCTATGAGGACAACT
1105874 AGTTAT
126 AGTTAT
* * * * **
1105880 CTAATGGTGACACGACTCCTACGTGATAAGGAGGTCTGGTT-AGGGATG--ACATGGTTCCTATA
1 CTAAGGGTGACACGACTCCTACGTGATGAGGAGATCTGGTTGGGGGATGACACAT-G-TCCTACG
** * * *
1105942 TGATGAGGACAACAAGCCATCTTTAGGAA-TGATAACACGGTTCCTACG-TGATGAGGACAACTG
64 TGATGAGGA-GTCATGCCATCTTTAGGAAGTGATAACACAGTTCCTACGCT-ATGAGGACAACTA
1106005 GTTAT
127 GTTAT
* *
1106010 C-AGGGGTGACACAACTCCTACGTGATGAGGAGATCTGGTTGGGGGATGACACATGTCCTACGTG
1 CTAAGGGTGACACGACTCCTACGTGATGAGGAGATCTGGTTGGGGGATGACACATGTCCTACGTG
*
1106074 ATGAGGATGTCATGCCTTCTTTAGG
66 ATGAGGA-GTCATGCCATCTTTAGG
1106099 GATAATGGTT
Statistics
Matches: 173, Mismatches: 37, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
129 35 0.20
130 64 0.37
131 3 0.02
132 8 0.05
133 27 0.16
134 36 0.21
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (131 bp):
CTAAGGGTGACACGACTCCTACGTGATGAGGAGATCTGGTTGGGGGATGACACATGTCCTACGTG
ATGAGGAGTCATGCCATCTTTAGGAAGTGATAACACAGTTCCTACGCTATGAGGACAACTAGTTA
T
Found at i:1106208 original size:34 final size:35
Alignment explanation
Indices: 1106170--1106238 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
1106160 AGATAAATTC
1106170 GTTTCAA-GGAAA-ATGACTCAAAGATAGGTGTTTT
1 GTTTCAAGGGAAACA-GACTCAAAGATAGGTGTTTT
1106204 GTTTCAAGGGAAACAGACTCAAAGATAGGTGTTTT
1 GTTTCAAGGGAAACAGACTCAAAGATAGGTGTTTT
1106239 TAAAAGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
34 7 0.21
35 25 0.76
36 1 0.03
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (35 bp):
GTTTCAAGGGAAACAGACTCAAAGATAGGTGTTTT
Found at i:1106270 original size:66 final size:65
Alignment explanation
Indices: 1106200--1106427 Score: 221
Period size: 67 Copynumber: 3.4 Consensus size: 65
1106190 AAGATAGGTG
* * *
1106200 TTTTGTTTCAAGGGAAACAGACTCAAAGATAGGTGTTTTT-AAAAGAAAATGTCTTGAGAGACAA
1 TTTTGTTTCAAGAGAAACA-ACTCAAAGATA-GTTTTTTTAAAAAGAAAATGTCTAGAGAGACAA
1106264 AA
64 AA
* * *
1106266 TTTTGTTTCAA-AGGAAACAAACTC-AA-ATATTTTTTTCTCAAAAGAAATTGTCTCAAGAGAGA
1 TTTTGTTTCAAGA-GAAAC-AACTCAAAGATAGTTTTTT-TAAAAAGAAAATGTCT--AGAGAGA
1106328 CAAAA
61 CAAAA
* * * * * * *
1106333 ATTTGTTTCCAGAGAAACATACTCAAAGATTTGTTTTTTTAAAAAGGAAACTATCTCGAGAGGCA
1 TTTTGTTTCAAGAGAAACA-ACTCAAAGA-TAGTTTTTTTAAAAA-GAAAATGTCTAGAGAGACA
1106398 AAA
63 AAA
1106401 TTTTGTTTCAAGAGAAACAACTCAAAG
1 TTTTGTTTCAAGAGAAACAACTCAAAG
1106428 GATACTGATA
Statistics
Matches: 134, Mismatches: 16, Indels: 23
0.77 0.09 0.13
Matches are distributed among these distances:
63 5 0.04
64 4 0.03
65 15 0.11
66 21 0.16
67 38 0.28
68 30 0.22
69 6 0.04
70 15 0.11
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (65 bp):
TTTTGTTTCAAGAGAAACAACTCAAAGATAGTTTTTTTAAAAAGAAAATGTCTAGAGAGACAAAA
Found at i:1106551 original size:33 final size:33
Alignment explanation
Indices: 1106511--1106578 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
1106501 TTGAATCCCT
1106511 AAAGATACCCCAACATTCGA-TGTTGATTGCTTC
1 AAAGATACCCCAACATTC-ATTGTTGATTGCTTC
*
1106544 AAAGATACCCCAATATTCATTGTTGATTGCTTC
1 AAAGATACCCCAACATTCATTGTTGATTGCTTC
1106577 AA
1 AA
1106579 CACTGATTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.32
Consensus pattern (33 bp):
AAAGATACCCCAACATTCATTGTTGATTGCTTC
Found at i:1107544 original size:3 final size:3
Alignment explanation
Indices: 1107536--1107583 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
1107526 CTTTTAATAC
1107536 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
1107582 AT
1 AT
1107584 ATTTTACAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1108190 original size:17 final size:18
Alignment explanation
Indices: 1108149--1108190 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
1108139 AGGTTTACAA
*
1108149 TTTATTTTTCTAATATAT
1 TTTAATTTTCTAATATAT
*
1108167 TTT-ATTTTCTAAT-TTT
1 TTTAATTTTCTAATATAT
1108183 TTTAATTT
1 TTTAATTT
1108191 GAAATAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 13 0.62
18 3 0.14
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTAATTTTCTAATATAT
Found at i:1122890 original size:18 final size:20
Alignment explanation
Indices: 1122858--1122896 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
1122848 GGATAATAAT
1122858 ATAAGTAATGAAAATAAATA
1 ATAAGTAATGAAAATAAATA
1122878 ATAAG-AATG-AAATAAATA
1 ATAAGTAATGAAAATAAATA
1122896 A
1 A
1122897 ATAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
19 4 0.21
20 5 0.26
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (20 bp):
ATAAGTAATGAAAATAAATA
Found at i:1122899 original size:19 final size:21
Alignment explanation
Indices: 1122852--1122900 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 21
1122842 TAAAGGGGAT
1122852 AATAATATAAGTAATGAAAATA
1 AATAA-ATAAGTAATGAAAATA
1122874 AAT-AATAAG-AATG-AAATA
1 AATAAATAAGTAATGAAAATA
1122892 AATAAATAA
1 AATAAATAA
1122901 ATAAATGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 8 0.31
19 9 0.35
20 5 0.19
21 1 0.04
22 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (21 bp):
AATAAATAAGTAATGAAAATA
Found at i:1127157 original size:19 final size:18
Alignment explanation
Indices: 1127135--1127189 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
1127125 TTTAAACTTC
1127135 TCTTTTTCTTTTCTTTTCT
1 TCTTTTTCTTTT-TTTTCT
1127154 TC-TTTTCTGATTTTTTTCT
1 TCTTTTTCT--TTTTTTTCT
1127173 TCTTTTGTCTTTTTTTT
1 TCTTTT-TCTTTTTTTT
1127190 GCACTCCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 6 0.19
19 17 0.53
20 6 0.19
21 3 0.09
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (18 bp):
TCTTTTTCTTTTTTTTCT
Found at i:1127502 original size:19 final size:21
Alignment explanation
Indices: 1127455--1127503 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 21
1127445 TAAAGGGGAT
1127455 AATAATATAAGTAATGAAAGTA
1 AATAA-ATAAGTAATGAAAGTA
1127477 AAT-AATAAG-AATGAAA-TA
1 AATAAATAAGTAATGAAAGTA
1127495 AATAAATAA
1 AATAAATAA
1127504 ATAAATGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.19
19 12 0.46
20 5 0.19
21 1 0.04
22 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.24
Consensus pattern (21 bp):
AATAAATAAGTAATGAAAGTA
Found at i:1130434 original size:109 final size:108
Alignment explanation
Indices: 1130236--1130662 Score: 448
Period size: 109 Copynumber: 3.9 Consensus size: 108
1130226 CGGAAAACAT
* * * * * * ** * * *
1130236 GTTCACTCCCTATTCCTTCAGGGAGTATAAGACTCGAACCATCTTCAACAATCGTGTTTGCTCCC
1 GTTCGCTCCCTCTTTCTTTAGGGAGTA-AAAACTCGAACGATCTTCTGCAAACGGGTTCGCTCCC
* * * *
1130301 TATTTC-TTCAGAGAGTATGAAACTCGAACAA-CTTCTTGT-TACGG
65 TCTTTCTTTAAG-GAGTA-GGAACTCGAACAATCTTC-TGTCAACGG
* * * ** * *
1130345 GTTTGCTCCCTTTTTCTCTAGGGAGTATAAAACTCGAATAATCTTCTGCAAACGGGTTTGCTCCT
1 GTTCGCTCCCTCTTTCTTTAGGGAGTA-AAAACTCGAACGATCTTCTGCAAACGGGTTCGCTCCC
1130410 TCTTTCTTTAAGGAGTATGGAACTCGAACAATCTTCTGTCAACGG
65 TCTTTCTTTAAGGAGTA-GGAACTCGAACAATCTTCTGTCAACGG
* ** * **
1130455 GCTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAATGATCTTCTGCTTACGGGTTCGCTCCCT
1 GTTCGCTCCCTCTTTCTTTAGGGAGTAAAAACTCGAACGATCTTCTGCAAACGGGTTCGCTCCCT
*
1130520 CTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGG
66 CTTTCTTTAAGGAGTAGGAACTCGAACAATCTTCTGTCAACGG
** * *
1130563 GTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACGATCTTCTG-ATTACGGGTTCGCTCTC
1 GTTCGCTCCCTCTTTCTTTAGGGAGTAAAAACTCGAACGATCTTCTGCA-AACGGGTTCGCTCCC
* *
1130627 TCTTTCTTTAGGGAGTAGGAACTCGAACGATCTTCT
65 TCTTTCTTTAAGGAGTAGGAACTCGAACAATCTTCT
1130663 TCTACTTCAC
Statistics
Matches: 279, Mismatches: 35, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
108 121 0.43
109 123 0.44
110 35 0.13
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (108 bp):
GTTCGCTCCCTCTTTCTTTAGGGAGTAAAAACTCGAACGATCTTCTGCAAACGGGTTCGCTCCCT
CTTTCTTTAAGGAGTAGGAACTCGAACAATCTTCTGTCAACGG
Found at i:1130582 original size:108 final size:109
Alignment explanation
Indices: 1130295--1130662 Score: 501
Period size: 108 Copynumber: 3.4 Consensus size: 109
1130285 AATCGTGTTT
* * * * * * *
1130295 GCTCCCTATTTCTTCAGAGAGTATGAAACTCGAACAA-CTTCTTGT-TACGGGTTTGCTCCCTTT
1 GCTCCCTCTTTCTTTAGGGAGTATGGAACTCGAACAATCTTC-TGTCAACGGGTTCGCTCCCTCT
* ** * ** *
1130358 TTCTCTAGGGAGTATAAAACTCGAATAATCTTCTGCAAACGGGTTT
65 TTCTTTAGGGAGTA-GGAACTCGAATGATCTTCTGCTTACGGGTTC
* * *
1130404 GCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACAATCTTCTGTCAACGGGCTCGCTCCCTCTT
1 GCTCCCTCTTTCTTTAGGGAGTATGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTT
1130469 TCTTTAGGGAGTAGGAACTCGAATGATCTTCTGCTTACGGGTTC
66 TCTTTAGGGAGTAGGAACTCGAATGATCTTCTGCTTACGGGTTC
1130513 GCTCCCTCTTTCTTTAGGGAGTA-GGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTT
1 GCTCCCTCTTTCTTTAGGGAGTATGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTT
* *
1130577 TCTTTAGGGAGTAGGAACTCGAACGATCTTCTGATTACGGGTTC
66 TCTTTAGGGAGTAGGAACTCGAATGATCTTCTGCTTACGGGTTC
* *
1130621 GCTCTCTCTTTCTTTAGGGAGTA-GGAACTCGAACGATCTTCT
1 GCTCCCTCTTTCTTTAGGGAGTATGGAACTCGAACAATCTTCT
1130663 TCTACTTCAC
Statistics
Matches: 233, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
108 122 0.52
109 80 0.34
110 31 0.13
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (109 bp):
GCTCCCTCTTTCTTTAGGGAGTATGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTT
TCTTTAGGGAGTAGGAACTCGAATGATCTTCTGCTTACGGGTTC
Found at i:1130649 original size:162 final size:164
Alignment explanation
Indices: 1130295--1130662 Score: 487
Period size: 162 Copynumber: 2.3 Consensus size: 164
1130285 AATCGTGTTT
* * * * * * *
1130295 GCTCCCTATTTCTTCAGAGAGTATGAAACTCGAAC-AACTTCTTG-TTACGGGTTTGCTCCCTTT
1 GCTCCCTCTTTCTTTAGGGAGTA-GGAACTCGAACGATCTTC-TGCTTACGGGTTCGCTCCCTCT
* * *
1130358 TTCTCTAGGGAGTATAAAACTCGAATAATCTTCTGCAAACGGGTTTGCTCCTTCTTTCTTTAAGG
64 TTCTCTAGGGAGTATAAAACTCGAACAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTAAGG
1130423 AGTATGGAACTCGAACAATCTTCTGTCAACGGGCTC
129 AGTATGGAACTCGAACAATCTTCTGTCAACGGGCTC
*
1130459 GCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAATGATCTTCTGCTTACGGGTTCGCTCCCTCTTT
1 GCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACGATCTTCTGCTTACGGGTTCGCTCCCTCTTT
* ** *
1130524 CTTTAGGGAGTA-GGAACTCGAACAATCTTCTGTC-AACGGGTTCGCTCCCTCTTTCTTTAGGGA
66 CTCTAGGGAGTATAAAACTCGAACAATCTTCTG-CAAACGGGTTCGCTCCCTCTTTCTTTAAGGA
* * *
1130587 GTA-GGAACTCGAACGATCTTCTGAT-TACGGGTTC
130 GTATGGAACTCGAACAATCTTCTG-TCAACGGGCTC
*
1130621 GCTCTCTCTTTCTTTAGGGAGTAGGAACTCGAACGATCTTCT
1 GCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACGATCTTCT
1130663 TCTACTTCAC
Statistics
Matches: 180, Mismatches: 20, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
162 66 0.37
163 58 0.32
164 56 0.31
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (164 bp):
GCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACGATCTTCTGCTTACGGGTTCGCTCCCTCTTT
CTCTAGGGAGTATAAAACTCGAACAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTAAGGAG
TATGGAACTCGAACAATCTTCTGTCAACGGGCTC
Found at i:1130655 original size:54 final size:53
Alignment explanation
Indices: 1130295--1130662 Score: 441
Period size: 54 Copynumber: 6.8 Consensus size: 53
1130285 AATCGTGTTT
* * * * * *
1130295 GCTCCCTATTTCTTCAGAGAGTATGAAACTCGAACAA-CTTCTTGTTACGGGTTT
1 GCTCCCTCTTTCTTTAGGGAGTA-GGAACTCGAACAATCTTC-TGTAACGGGTTC
* * ** * * *
1130349 GCTCCCTTTTTCTCTAGGGAGTATAAAACTCGAATAATCTTCTGCAAACGGGTTT
1 GCTCCCTCTTTCTTTAGGGAGTA-GGAACTCGAACAATCTTCTG-TAACGGGTTC
* * *
1130404 GCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACAATCTTCTGTCAACGGGCTC
1 GCTCCCTCTTTCTTTAGGGAGTA-GGAACTCGAACAATCTTCTGT-AACGGGTTC
** *
1130459 GCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAATGATCTTCTGCTTACGGGTTC
1 GCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTG-TAACGGGTTC
1130513 GCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTC
1 GCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGT-AACGGGTTC
* *
1130567 GCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACGATCTTCTGATTACGGGTTC
1 GCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTG-TAACGGGTTC
* *
1130621 GCTCTCTCTTTCTTTAGGGAGTAGGAACTCGAACGATCTTCT
1 GCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCT
1130663 TCTACTTCAC
Statistics
Matches: 278, Mismatches: 30, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.00
54 198 0.71
55 79 0.28
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (53 bp):
GCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGTAACGGGTTC
Found at i:1131974 original size:11 final size:12
Alignment explanation
Indices: 1131953--1131981 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
1131943 TTGAACCCTC
1131953 CTTTTTCTCTTT
1 CTTTTTCTCTTT
1131965 CTTTTT-TCTTT
1 CTTTTTCTCTTT
1131976 CTTTTT
1 CTTTTT
1131982 ATTATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
CTTTTTCTCTTT
Found at i:1150775 original size:290 final size:288
Alignment explanation
Indices: 1149768--1150984 Score: 872
Period size: 290 Copynumber: 4.1 Consensus size: 288
1149758 ACAAAAAATA
* ** *
1149768 TTTCCTCAAAACATGTATGATAGAATGATCCTGGTGTAATTTAGCACGTTACTTTTCTACTAAAG
1 TTTCCTCAAAACAGGTAAAATACAATGATCCTGGTGTAATTTAGCACGTTACTTTTCTACTAAAG
* * * *
1149833 CATAATATATATAATGTAC-TTCGGACTTCCAAGACAAGAAATCCGCAGTAGCGCAATGGTTGAA
66 CATAATGTATATAATATACTTTC--ACTTCCAAGACAAGAAATCCGTAGTAGCGCAATTGTTGAA
* **** * * *
1149897 ATTCCCAGGTTTGATTTCTGGCTGCGGAAAAATAATTTAGAAAATAAAGTTGTATTTTTATTATA
129 ATT--C---TTT-CTTTCAAATTGCGGAAAATTAATTTAGCAAATAAAGTTTTATTTTTATTATA
* *
1149962 ATTAATGTAAGAGAAATACTCGATGAGGCTCTCAGGAGAAACAAATC-GAATTTTCCATCGAAGC
188 ATTAATGTTAGAGAAATACTCG-TGAGGCTCTCA-GAGAAACAAATCAG-A-TTTCCATCCAAGC
*
1150026 TAAATTAAATTCCTTATTTTCTAAAACT-TTTTTATA--TT
249 TACATTAAATTCCTTATTTTCTAAAA-TGTTTTTATATTTT
* * * *
1150064 TTTCCTTAAAACGGGTAAAATACAACGATCCTGGTGTAATTTAGCAAGTTACTTTTCTACTAAAG
1 TTTCCTCAAAACAGGTAAAATACAATGATCCTGGTGTAATTTAGCACGTTACTTTTCTACTAAAG
* * * ** *** *
1150129 CATAAGGAATATAATAT--TTTGCACTTCAAAGACAAGAAATCCGTA--AAAGTTTTTCTTTG-A
66 CATAATGTATATAATATACTTT-CACTTCCAAGACAAGAAATCCGTAGTAGCGCAATT-GTTGAA
** *** *
1150189 ATTCCCAGGTTTGGTTCATGGCTGCAGAAAATTAATTTAGCAAATAAAGTTTTATTTTTATTATA
129 ATT--C---TTTCTTTCA-AATTGCGGAAAATTAATTTAGCAAATAAAGTTTTATTTTTATTATA
* * * * * ** * *
1150254 ATTAATGCTAGAGAAATACCCGGTGAGGCTCTTAAGCGAAATAAATCAGATTTTTAT-TATA-TT
188 ATTAATGTTAGAGAAATACTC-GTGAGGCTC-TCAGAGAAACAAATCAGATTTCCATCCA-AGCT
* * * * *** * *
1150317 TC-TT--TTTCCTTAAAATATGC-AAAATAGATCCATAACAAAATTTG
250 ACATTAAATTCCTT---ATTTTCTAAAAT-G-T---T-TTTATATTTT
* * * *
1150361 TTTCCTCAAAACAGGTAAAATACAATGATACTGGTGTAATATAGCACGTTACTTTTCTGCTAAAA
1 TTTCCTCAAAACAGGTAAAATACAATGATCCTGGTGTAATTTAGCACGTTACTTTTCTACTAAAG
* * * * * * * *
1150426 CATAACGTATATGATATACATTGCACTTCTAAGACAAGAAATTCATAGTAGCTCAATTGTTGAAC
66 CATAATGTATATAATATAC-TTTCACTTCCAAGACAAGAAATCCGTAGTAGCGCAATTGTTGAAA
*
1150491 TT-TTTCTTT-AAATTGCGGAAAATTAATTTAGCAAATATAGTTTTATTTTTATTATAATTAATG
130 TTCTTTCTTTCAAATTGCGGAAAATTAATTTAGCAAATAAAGTTTTATTTTTATTATAATTAATG
* *
1150554 TTAGAGAAAAACTCAGTGATGCTCTCCAGAGAAACAAATCAGATTTCCATCCAAGCTACATTAAA
195 TTAGAGAAATACTC-GTGAGGCTCT-CAGAGAAACAAATCAGATTTCCATCCAAGCTACATTAAA
1150619 TTCCTTATTTTCTAAAATGTTTTTATATTTCT
258 TTCCTTATTTTCTAAAATGTTTTTATATTT-T
* * * *
1150651 TTTCCTCAAAACAGGTAAAATACAGTGATCTTGGTGTAGTTTAGCACGTTACTTTTATACTAAAG
1 TTTCCTCAAAACAGGTAAAATACAATGATCCTGGTGTAATTTAGCACGTTACTTTTCTACTAAAG
* * *
1150716 CATAATGTATATAATAAACTTTCTACTTCCAAGACAAGAAATTCGGAGTAGCGCAATTGTTGAAA
66 CATAATGTATATAATATACTTTC-ACTTCCAAGACAAGAAATCCGTAGTAGCGCAATTGTTGAAA
* * *
1150781 TTCTTCTTTGAAATCTCGGGTTCAATTATCAACTGTGGAAAATGAAATTAGCAAATAAAGATTTT
130 ---TTC-TT----TCT----TTCAA--AT----TGCGGAAAATTAATTTAGCAAATAAAG-TTTT
* * * * * *
1150846 -TTTTTATAATAGTTAATGTTAGAGACATACTTGGCGAGTCTCTCAAGAGAAACAAAT-AGGATT
176 ATTTTTATTATAATTAATGTTAGAGAAATAC-TCGTGAGGCTCTC-AGAGAAACAAATCA-GA-T
* * * * ** *
1150909 TTCCATACAAGCAAAATTAAATTCTTTATTTTCTTAATTTTTTTTTATATTTCT
237 TTCCATCCAAGCTACATTAAATTCCTTATTTTC-TAAAATGTTTTTATATTT-T
*
1150963 TTTCCTCAAAACAAGTAAAATA
1 TTTCCTCAAAACAGGTAAAATA
1150985 GATCCATAAC
Statistics
Matches: 724, Mismatches: 136, Indels: 106
0.75 0.14 0.11
Matches are distributed among these distances:
287 6 0.01
288 1 0.00
289 14 0.02
290 116 0.16
291 10 0.01
292 96 0.13
293 97 0.13
294 31 0.04
295 18 0.02
296 71 0.10
297 78 0.11
299 24 0.03
300 5 0.01
301 6 0.01
303 2 0.00
304 2 0.00
306 2 0.00
309 2 0.00
310 70 0.10
311 35 0.05
312 38 0.05
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (288 bp):
TTTCCTCAAAACAGGTAAAATACAATGATCCTGGTGTAATTTAGCACGTTACTTTTCTACTAAAG
CATAATGTATATAATATACTTTCACTTCCAAGACAAGAAATCCGTAGTAGCGCAATTGTTGAAAT
TCTTTCTTTCAAATTGCGGAAAATTAATTTAGCAAATAAAGTTTTATTTTTATTATAATTAATGT
TAGAGAAATACTCGTGAGGCTCTCAGAGAAACAAATCAGATTTCCATCCAAGCTACATTAAATTC
CTTATTTTCTAAAATGTTTTTATATTTT
Found at i:1151334 original size:369 final size:372
Alignment explanation
Indices: 1150651--1151351 Score: 871
Period size: 369 Copynumber: 1.9 Consensus size: 372
1150641 TTATATTTCT
* * * *
1150651 TTTCCTCAAAACAGGTAAAATACAGTGATCTTGGTGTAGTTTAGCACGTTACTTTTATACTAAAG
1 TTTCCTCAAAACAGGTAAAATACAATAATCCTGGTGTAATTTAGCACGTTACTTTTATACTAAAG
* *
1150716 CATAATGTATATAATAAACTTTCTACTTCCAAGACAAGAAATTCGGAGTAGCGCAATTGTTGAAA
66 CATAA-GTATATAATAAACTTTCGACTTCCAAGACAAGAAATTCGGAGTAGCGCAATGGTTGAAA
* * ** *
1150781 TTCTTCTTTGAAATCTCGGGTTCAATTATCAACTGTGGAAAATGAAATTAGCAAATAAAGATTTT
130 TTCTTCTTTGAAATCCCGGGTTCAATTACCAACTGCAGAAAATGAAATTAGCAAATAAAGATTTA
* * * * * *
1150846 TTTTTATAATAGTTAATGTTAGAGACATACTTGGCGAGTCTCTCAAGAGAAACAAATAGGATTTT
195 TTATTATAATAGTTAATGTCAGAGAAATACTCGGCGAGGCTCTCAAGAGAAACAAATAAGATTTT
* * ** *
1150911 CCATACAAGCAAAATTAAATTCTTTATTTTCTTAATTTTTTTTTATATTTCTTTTCCTCAAAACA
260 CCATACAAGCAAAATTAAATTCCTTATCTTCTTAAAATCTTTTTATATTTCTTTTCCTCAAAACA
1150976 AGTAAAATAGATCCATAACAAAAAAAATATTTTCTTAACAAAAAAATA
325 AGTAAAATAGATCCATAACAAAAAAAATATTTTCTTAACAAAAAAATA
* *
1151024 TTTCCTCAAAACAGGTAAAATACAATAATCCTGGTGTAATTTAGCACGTTACTTTTTTTTTCTAA
1 TTTCCTCAAAACAGGTAAAATACAATAATCCTGGTGTAATTTAGCACGTTAC--TTTTATACTAA
* * * *
1151089 AGCATAA-TA-AT-AT-AA-TTTGGACTTCCAAGATAAGAAATGT-GTAGTAGTGCAATGGTTGA
64 AGCATAAGTATATAATAAACTTTCGACTTCCAAGACAAGAAAT-TCGGAGTAGCGCAATGGTTGA
* ** * * * *
1151148 AATTCTTCTTTGAATTCCCGGGTTTGATTCCCGACTGCAGAAAACT-AATTTAGCAAATTAA-AT
128 AATTCTTCTTTGAAATCCCGGGTTCAATTACCAACTGCAGAAAA-TGAAATTAGCAAATAAAGAT
** * *
1151211 TTAATTATTATTCTATTTAATGTCAGAGAAATACTCGGTGAGGCTCTCAAGAGAAACAAATCAAG
192 TT-ATTATTATAATAGTTAATGTCAGAGAAATACTCGGCGAGGCTCTCAAGAGAAACAAAT-AAG
* * ** *
1151276 ATTTTTCATCCAAGTTAAATTAAATTCCTTATCTTC-TAAAATCTTTTTATGTTTCTTTTCCTCA
255 ATTTTCCATACAAGCAAAATTAAATTCCTTATCTTCTTAAAATCTTTTTATATTTCTTTTCCTCA
*
1151340 AAACAGGTAAAA
320 AAACAAGTAAAA
1151352 AATAGTGATC
Statistics
Matches: 277, Mismatches: 45, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
368 4 0.01
369 167 0.60
370 36 0.13
371 2 0.01
372 2 0.01
373 50 0.18
375 16 0.06
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (372 bp):
TTTCCTCAAAACAGGTAAAATACAATAATCCTGGTGTAATTTAGCACGTTACTTTTATACTAAAG
CATAAGTATATAATAAACTTTCGACTTCCAAGACAAGAAATTCGGAGTAGCGCAATGGTTGAAAT
TCTTCTTTGAAATCCCGGGTTCAATTACCAACTGCAGAAAATGAAATTAGCAAATAAAGATTTAT
TATTATAATAGTTAATGTCAGAGAAATACTCGGCGAGGCTCTCAAGAGAAACAAATAAGATTTTC
CATACAAGCAAAATTAAATTCCTTATCTTCTTAAAATCTTTTTATATTTCTTTTCCTCAAAACAA
GTAAAATAGATCCATAACAAAAAAAATATTTTCTTAACAAAAAAATA
Found at i:1152039 original size:15 final size:16
Alignment explanation
Indices: 1152004--1152039 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1151994 AGATACATAA
1152004 CAAAAAATGTTTCCTT
1 CAAAAAATGTTTCCTT
*
1152020 TAAAAAATGTTTCC-T
1 CAAAAAATGTTTCCTT
1152035 CAAAA
1 CAAAA
1152040 CAGGTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (16 bp):
CAAAAAATGTTTCCTT
Found at i:1152369 original size:20 final size:20
Alignment explanation
Indices: 1152344--1152388 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1152334 CAAAAAATGT
1152344 AAAATAGATCCATAACAAAA
1 AAAATAGATCCATAACAAAA
** *
1152364 AAAATATTTCCTTAACAAAA
1 AAAATAGATCCATAACAAAA
1152384 AAAAT
1 AAAAT
1152389 GTTTCCTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAATAGATCCATAACAAAA
Found at i:1152393 original size:20 final size:20
Alignment explanation
Indices: 1152356--1152395 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1152346 AATAGATCCA
1152356 TAACAAAAAAAATATTTCCT
1 TAACAAAAAAAATATTTCCT
*
1152376 TAACAAAAAAAATGTTTCCT
1 TAACAAAAAAAATATTTCCT
1152396 CAAAACAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.30
Consensus pattern (20 bp):
TAACAAAAAAAATATTTCCT
Found at i:1156298 original size:55 final size:55
Alignment explanation
Indices: 1156221--1156343 Score: 165
Period size: 55 Copynumber: 2.2 Consensus size: 55
1156211 AATGATTCAC
* * * * *
1156221 GAAGAATGACATCTATTGAATGAAGAAATCTGAAACTGATTGAAGACAGATCTAT
1 GAAGAAAGACATCTAATAAATGAAGAAATCTGAAACTAATTGAAGACAGATCCAT
* * *
1156276 GAAGAAAGAGATCTAATAAATGAAGAAATTTGAAACTAATTGAAGACATATCCAT
1 GAAGAAAGACATCTAATAAATGAAGAAATCTGAAACTAATTGAAGACAGATCCAT
*
1156331 AAAGAAAGACATC
1 GAAGAAAGACATC
1156344 CGATGAATGA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.23
Consensus pattern (55 bp):
GAAGAAAGACATCTAATAAATGAAGAAATCTGAAACTAATTGAAGACAGATCCAT
Found at i:1156353 original size:55 final size:55
Alignment explanation
Indices: 1156222--1156365 Score: 162
Period size: 55 Copynumber: 2.6 Consensus size: 55
1156212 ATGATTCACG
* * * * * * *
1156222 AAGAATGACATCTATTGAATGAAGAAATCTGAAACTGATTGAAGACAGATCTATG
1 AAGAAAGACATCCAATGAATGAAGAAATTTGAAACTAATTGAAGACAGATCCATA
* * * *
1156277 AAGAAAGAGATCTAATAAATGAAGAAATTTGAAACTAATTGAAGACATATCCATA
1 AAGAAAGACATCCAATGAATGAAGAAATTTGAAACTAATTGAAGACAGATCCATA
* * *
1156332 AAGAAAGACATCCGATGAATGAATAAGTTTGAAA
1 AAGAAAGACATCCAATGAATGAAGAAATTTGAAA
1156366 TTGATCGTAG
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 74 1.00
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.24
Consensus pattern (55 bp):
AAGAAAGACATCCAATGAATGAAGAAATTTGAAACTAATTGAAGACAGATCCATA
Found at i:1162877 original size:22 final size:22
Alignment explanation
Indices: 1162835--1162877 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1162825 ACATCTAAAT
*
1162835 TTTTCAAAGATGATAGATTATC
1 TTTTCAAAGATGAAAGATTATC
*
1162857 TTTTCAAAGATGAAAGCTTAT
1 TTTTCAAAGATGAAAGATTAT
1162878 TGGATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (22 bp):
TTTTCAAAGATGAAAGATTATC
Found at i:1163924 original size:136 final size:136
Alignment explanation
Indices: 1163680--1164299 Score: 901
Period size: 136 Copynumber: 4.6 Consensus size: 136
1163670 TAATGTTTTC
* ** *
1163680 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCGTATGATAGAGGGAGAAGAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * *
1163745 TGAGAAGAGCTTGTTCAACCTATCACTCGATTCACGACATTTCGAATCAATGACGCCTCGTTTGA
66 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCGCTTGA
1163810 GGGATT
131 GGGATT
1163816 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * *
1163881 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGATGCCTCACTTGA
66 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCGCTTGA
* *
1163946 TGGATC
131 GGGATT
*
1163952 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATTCGACAGAGGGAGAAGAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * * **
1164017 TGAGCAGAGCTTGTTCGACCTATCACTCGATTCACGATATTTTGAATCAGTGATACCTCGCTTGA
66 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCGCTTGA
1164082 GGGATT
131 GGGATT
* * * *
1164088 GACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGAGAGAATAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * ** * *
1164153 TGAGAAGAGATTGTTTGACCTATCACTCGATTCACGGTATTTTGAATTAGTGACGCCTCGCTTGA
66 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCGCTTGA
1164218 GGGATT
131 GGGATT
* * *
1164224 GAA-ATTTCTAATGGAGAGTTCATAATGAGAAGAACTCGTCCTA-A-A-GGAG-A-AAGTTCATA
1 -AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATA
*
1164283 ATGAGAAGAACTTGTTC
65 ATGAGAAGAGCTTGTTC
1164300 CTTTCAAATT
Statistics
Matches: 442, Mismatches: 41, Indels: 7
0.90 0.08 0.01
Matches are distributed among these distances:
131 23 0.05
132 1 0.00
133 3 0.01
134 1 0.00
135 1 0.00
136 412 0.93
137 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (136 bp):
AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
TGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCGCTTGA
GGGATT
Found at i:1164516 original size:117 final size:111
Alignment explanation
Indices: 1164234--1164527 Score: 305
Period size: 117 Copynumber: 2.6 Consensus size: 111
1164224 GAAATTTCTA
* * * *
1164234 ATGGAGAGTTCATAATGAGAAGAACTCGTCCTAAAG--GAGAAAGTTCATAATGAGAAGAACTTG
1 ATGGAGAGTTCATAATGAGAAGAACTCATCCAAAAGAAGAAAAAGTTCATAATAAGAAGAACTTG
* * *
1164297 TT---CCTTTCAAATTCATCACAGAAGGAGGTGAAACAATATTTCC
66 TTCAACCTTTCAAATTCATCACAGAAAGAGATGAAACAACATTTCC
* *
1164340 A-GAAGAGTTCATAATGAGAAGAACTCATCCAATAAGAAAGAAGAAGTTCATAA-AGAGAAGAAC
1 ATGGAGAGTTCATAATGAGAAGAACTCATCCAA-AAG-AAGAAAAAGTTCATAATA-AGAAGAAC
*** * *
1164403 TTGTTCAACCTTGGTTTGATTCTATCACAGAAAGAGATGGATCAACATTTCC
63 TTGTTCAACCTT--TCAAATTC-ATCACAGAAAGAGATGAAACAACATTTCC
* *
1164455 AGTGGAGAGTTCATAATGAGAAGAATTCATCCAACGAAGAAGAAAAAGTTCATAATAAGAAGAAA
1 A-TGGAGAGTTCATAATGAGAAGAACTCATCCAA--AAGAAGAAAAAGTTCATAATAAGAAGAAC
*
1164520 TTATTCAA
63 TTGTTCAA
1164528 TCCAATGCTT
Statistics
Matches: 153, Mismatches: 20, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
105 28 0.18
106 4 0.03
109 25 0.16
112 4 0.03
114 5 0.03
115 25 0.16
117 58 0.38
118 4 0.03
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.24
Consensus pattern (111 bp):
ATGGAGAGTTCATAATGAGAAGAACTCATCCAAAAGAAGAAAAAGTTCATAATAAGAAGAACTTG
TTCAACCTTTCAAATTCATCACAGAAAGAGATGAAACAACATTTCC
Found at i:1164703 original size:7 final size:7
Alignment explanation
Indices: 1164691--1164739 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
1164681 ATATTAAAAA
1164691 TATATAT
1 TATATAT
1164698 TATATAT
1 TATATAT
1164705 TATATAT
1 TATATAT
1164712 TATATAT
1 TATATAT
*
1164719 CAT-TAT
1 TATATAT
*
1164725 TAT-TTT
1 TATATAT
1164731 TAT-TAT
1 TATATAT
1164737 TAT
1 TAT
1164740 TAATTATTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
6 15 0.39
7 23 0.61
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (7 bp):
TATATAT
Found at i:1164728 original size:3 final size:3
Alignment explanation
Indices: 1164695--1164747 Score: 52
Period size: 3 Copynumber: 16.3 Consensus size: 3
1164685 TAAAAATATA
* *
1164695 TAT TAT ATAT TAT ATAT TAT ATAT CAT TAT TAT TTT TAT TAT TAT TAAT
1 TAT TAT -TAT TAT -TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT T-AT
1164744 TAT T
1 TAT T
1164748 GTATTTTACA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
3 30 0.71
4 12 0.29
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1164747 original size:7 final size:6
Alignment explanation
Indices: 1164695--1164747 Score: 52
Period size: 7 Copynumber: 8.2 Consensus size: 6
1164685 TAAAAATATA
* *
1164695 TATTAT ATATTAT ATATTAT ATATCAT TATTAT TTTTAT TATTAT TAATTAT
1 TATTAT -TATTAT -TATTAT -TATTAT TATTAT TATTAT TATTAT T-ATTAT
1164747 T
1 T
1164748 GTATTTTACA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 16 0.39
7 25 0.61
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (6 bp):
TATTAT
Found at i:1169018 original size:18 final size:18
Alignment explanation
Indices: 1168995--1169034 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1168985 CAAAATATGT
1168995 AAAATATATCCATAACAA
1 AAAATATATCCATAACAA
* * *
1169013 AAAATATTTTCTTAACAA
1 AAAATATATCCATAACAA
1169031 AAAA
1 AAAA
1169035 ATGTTTCCTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAATATATCCATAACAA
Found at i:1169275 original size:721 final size:721
Alignment explanation
Indices: 1167625--1169462 Score: 2216
Period size: 721 Copynumber: 2.5 Consensus size: 721
1167615 ATAACAGGTA
* * * *
1167625 AGTGTAATTGAGCACATTACTTTTCTACTAAAGCATAAGTTATATAATATACTTTGCACTTTCAA
1 AGTGTAATTCAGCACGTTACTTTTCTACTAAAGCATAAGGTATATAATATACTTTGCACTTCCAA
* * * * * *
1167690 GGCAAGTAATTTGTAGTAGTACAATAGTTGAAATTCTTCTTTGAATTCACTA-GTTTGATTCCCG
66 GGCAAGAAATCTGTAGTAATGCAAT-GTTGAAATTCTTCTTTGAATTCAC-AGGTTCGATTCCCT
* * * *
1167754 GCTGCGGAAAATTAATTTAACAAAT-AAAGTTT-TTTTTATTATAATTAATGTCAGAGAAAACCT
129 GTTTCGGAAAATTAATTTAGCAAATAAAAATTTATTTTTATTATAATTAATGTCAGAGAAAA-CT
* * *
1167817 CAGTGAGGCTCTCAAGAGAAACAAATTGGATTTTTCTATTCAAGCTAAATTAAATTCCTTA-TTT
193 CAGTGAGGCTCTCAAGAGAAACAAATCGGA-TTTTCCATCCAAGCTAAATTAAATTCCTTATTTT
* * * * *
1167881 -TAAAAATCTTTTTATATTTATTTTCTTCAAAACATGTAAAGTAGATCCATAACAAAAAAATGTT
257 CTAAATATTTTTTTATATTT-TTTAC-TCAAAACAGGTAAAATAGATCCATAACAAAAAAATGTT
** ** * * *
1167945 TCCT-TGAACTATTTAAAATACAGTGATCTTGGTGTAATTGAGCACATTACTTTTCTACTAAAGC
320 TCCTCAAAAC-AGATAAAATACAATAATCTTGGTGTAATTGAGCACGTTACTTTTCTACTAAAGC
* * * *
1168009 ATAAAGGTATTTAATAGACTTTGCACTTCCAAGGCAAGTAATTCGTAGTAGTGCAATAGTTGAAA
384 AT-ATGGTATATAATAGACTTTACACTTCCAAGGCAAGAAATTCGTAGTAGTGCAATAGTTGAAA
** *
1168074 TTCTTCTTTGAATTCACGAGTTCGATTCTCAGCAGTGGAAAATTAATTTAACAAATAAAGTTTTA
448 TTCTTCTTTGAATTCACGAGTTCGATTCTCAGCAGCAGAAAATTAATTTAACAAATAAAATTTTA
* *
1168139 TTTTTATTATAATTAATATGAGAGAAATACCCGGAGAGGCTCTTAAGAGAAACAAATCGGATTTT
513 TTTTTATTATAATTAATATCAGAGAAATACCCGGAGAGGCTCTCAAGAGAAACAAATCGGATTTT
* * *
1168204 CCATCCAAGCTAAATTCAATTCCTTATTTTCTAAAATCTATTTTTAATATTTCCTTTCCTCAAAA
578 CCATCCAAGATAAATTCAATTCCTCATTTTATAAAATC-ATTTTTAATATTTCCTTTCCTCAAAA
* * * * *
1168269 CAGGTAAAATAGATACATAAGAAAAAAATATTTTCTTAACAAATATTGTTTTCTTAAAACATGTA
642 CAGGTAAAATAGATACATAAGAAAAAAATATTTTCTTAACAAAAAATGTTTCCTCAAAACAGGTA
* *
1168334 AAATAGAATGATCCT
707 AAATACAATGATCAT
* * * * * * * *
1168349 GGTATAATTTAGCACGTTACTTTGCTTCTAAAGCATAAAGTATATAATATACTTTGCAATTCTAA
1 AGTGTAATTCAGCACGTTACTTTTCTACTAAAGCATAAGGTATATAATATACTTTGCACTTCCAA
* * * * * * *
1168414 GGCAAGAAATCTATAATATTGCAATGGTTGAAATTCTTCCTTCAATTCATAGGTTCGATTCCTTG
66 GGCAAGAAATCTGTAGTAATGCAAT-GTTGAAATTCTTCTTTGAATTCACAGGTTCGATTCCCTG
* * * *
1168479 TTGT-GTAAAATTAATTTAGCAAATAAAATTTTATTTTTATTATAATTAATGTCAAAGAAAGCCT
130 TT-TCGGAAAATTAATTTAGCAAATAAAAATTTATTTTTATTATAATTAATGTCAGAGAAA-ACT
*
1168543 CAGTGAGGCTCTCAAGAGAAACAAATCGGATTTTCCATCCAAGCTAAATTAGATTCCTTATTTTC
193 CAGTGAGGCTCTCAAGAGAAACAAATCGGATTTTCCATCCAAGCTAAATTAAATTCCTTATTTTC
* * *
1168608 TAATTTTTTTTTTTATATTTTTTACTCAAAATAGGTAAAATAGATCCATAACAAAAAAATGTTTC
258 TAA-ATATTTTTTTATATTTTTTACTCAAAACAGGTAAAATAGATCCATAACAAAAAAATGTTTC
* * *
1168673 CTCAAAACAGATAAAATACAATAATCTTGGTGTGATTGAGCATGTTAATTTTCTACTAAAGCATA
322 CTCAAAACAGATAAAATACAATAATCTTGGTGTAATTGAGCACGTTACTTTTCTACTAAAGCATA
* * * ** *
1168738 TGGTATATAATATACTTTACACTTTCAAGGCAAGAAATTCGTAGTAGTGCAATGGTTGATTTTTT
387 TGGTATATAATAGACTTTACACTTCCAAGGCAAGAAATTCGTAGTAGTGCAATAGTTGAAATTCT
* ** * * *
1168803 TTTTTGAATTCTTGGGTAT-GATTCT-TGACCGCAGAAAATTAATTTAACAAATAAAATTTTATT
452 TCTTTGAATTCACGAGT-TCGATTCTCAG-CAGCAGAAAATTAATTTAACAAATAAAATTTTATT
* *
1168866 TTTATTATAATTAATATCAGAG-AATACTCGGTG-GAGCTCTCAAGAGAAACAAATCGGATTTTC
515 TTTATTATAATTAATATCAGAGAAATACCCGGAGAG-GCTCTCAAGAGAAACAAATCGGATTTTC
* *
1168929 CATCCAAGATAAATT-AATTTCCTCATTTTATAAAATC-TTTTT-ATATTTCTTTTCCTCAAAAT
579 CATCCAAGATAAATTCAA-TTCCTCATTTTATAAAATCATTTTTAATATTTCCTTTCCTCAAAAC
* * * *
1168991 ATGTAAAATATATCCATAA-CAAAAAATATTTTCTTAACAAAAAAATGTTTCCTCAAAACAGGTA
643 AGGTAAAATAGATACATAAGAAAAAAATATTTTCTTAAC-AAAAAATGTTTCCTCAAAACAGGTA
*
1169055 AAATACAGTGATCAT
707 AAATACAATGATCAT
*
1169070 AGTGTAATTCAGCACGTTACTTTTCTACTAAAGCATAAGGTATATAATATACTTTGGACTTCCAA
1 AGTGTAATTCAGCACGTTACTTTTCTACTAAAGCATAAGGTATATAATATACTTTGCACTTCCAA
** * * * * * * *
1169135 GATAAAAAATCTGCAGTAATGCCATGTTTGAAATTCTTCTTTGAATTCCCGGGTTCGGTTCCCTA
66 GGCAAGAAATCTGTAGTAATGCAATG-TTGAAATTCTTCTTTGAATTCACAGGTTCGATTCCCTG
* * *
1169200 TTTCGGAATATAAATTTAGCAAATAAAAATTTATTTTTATTATAAATAATGTCAGAGAAATACTC
130 TTTCGGAAAATTAATTTAGCAAATAAAAATTTATTTTTATTATAATTAATGTCAGAGAAA-ACTC
* * * ** *
1169265 GGTAAGGCTCTCAAAAGAAACGAAA-CATATTTTCCATCCAAGCTAAATTAAATTCCCTATTTTC
194 AGTGAGGCTCTCAAGAGAAAC-AAATCGGATTTTCCATCCAAGCTAAATTAAATTCCTTATTTTC
* * * *
1169329 TAAA-ATCTTTTTATATTTCTTTTCCACAAAACAGGTAAAATAGATCCATAACAAAAATAAATAT
258 TAAATATTTTTTTATA-TT-TTTTACTCAAAACAGGTAAAATAGATCCATAAC-AAAA-AAATGT
* * * * *
1169393 TTACTCAAAACAGGTAAAATACATTAAATCTTCGTGTAACTGAGCACGTTACTTTTCTACTAAAG
319 TTCCTCAAAACAGATAAAATACAAT-AATCTTGGTGTAATTGAGCACGTTACTTTTCTACTAAAG
1169458 CATAT
383 CATAT
1169463 TAAATTCCCT
Statistics
Matches: 944, Mismatches: 148, Indels: 44
0.83 0.13 0.04
Matches are distributed among these distances:
719 9 0.01
720 22 0.02
721 310 0.33
722 12 0.01
723 31 0.03
724 230 0.24
725 160 0.17
726 148 0.16
727 10 0.01
728 12 0.01
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (721 bp):
AGTGTAATTCAGCACGTTACTTTTCTACTAAAGCATAAGGTATATAATATACTTTGCACTTCCAA
GGCAAGAAATCTGTAGTAATGCAATGTTGAAATTCTTCTTTGAATTCACAGGTTCGATTCCCTGT
TTCGGAAAATTAATTTAGCAAATAAAAATTTATTTTTATTATAATTAATGTCAGAGAAAACTCAG
TGAGGCTCTCAAGAGAAACAAATCGGATTTTCCATCCAAGCTAAATTAAATTCCTTATTTTCTAA
ATATTTTTTTATATTTTTTACTCAAAACAGGTAAAATAGATCCATAACAAAAAAATGTTTCCTCA
AAACAGATAAAATACAATAATCTTGGTGTAATTGAGCACGTTACTTTTCTACTAAAGCATATGGT
ATATAATAGACTTTACACTTCCAAGGCAAGAAATTCGTAGTAGTGCAATAGTTGAAATTCTTCTT
TGAATTCACGAGTTCGATTCTCAGCAGCAGAAAATTAATTTAACAAATAAAATTTTATTTTTATT
ATAATTAATATCAGAGAAATACCCGGAGAGGCTCTCAAGAGAAACAAATCGGATTTTCCATCCAA
GATAAATTCAATTCCTCATTTTATAAAATCATTTTTAATATTTCCTTTCCTCAAAACAGGTAAAA
TAGATACATAAGAAAAAAATATTTTCTTAACAAAAAATGTTTCCTCAAAACAGGTAAAATACAAT
GATCAT
Found at i:1169387 original size:369 final size:369
Alignment explanation
Indices: 1167930--1169385 Score: 1118
Period size: 369 Copynumber: 4.0 Consensus size: 369
1167920 AGTAGATCCA
** ** * * * * * *
1167930 TAACAAAAAAATGTTTCCT-TGAACTATTTAAAATACAGTGATCTTGGTGTAATTGAGCACATTA
1 TAACAAAAAAATGTTTCCTCAAAAC-AGATAAAATACAATAATCATAGTGTAATTCAGCACGTTA
* * * * * ** *
1167994 CTTTTCTACTAAAGCATAAAGGTATTTAATAGACTTTGCACTTCCAAGGCAAGTAATTCGTAGTA
65 ATTTTCTACTAAAGCAT-AAGGTATATAATATACTTTACACTTCCAAGACAAAAAATTCGCAGTA
* * * * * * ** *
1168059 GTGCAATAGTTGAAATTCTTCTTTGAATTCACGAGT-TCGATT-CTCAGCAGTGGAAAATTAATT
129 ATGCAATGGTTGAAATTCTTCTTTGAATTCCCGGGTAT-GATTCCTGA-CCGCAGAAAATAAATT
** * * * * *
1168122 TAACAAATAAAGTTTTATTTTTATTATAATTAATATGAGAGAAATACCCGG-AGAGGCTCTTAAG
192 TAACAAATAAAAATTTATTTTTATTATAAATAATATCAGAG-AATACTCGGTAGA-GCTCTCAAA
* * * *
1168186 AGAAACAAATCGGATTTTCCATCCAAGCTAAATTCAATT-CCTTATTTTCTAAAATCTATTTTTA
255 AGAAACAAATCAGATTTTCCATCCAAGATAAATT-AATTCCCTCATTTTATAAAATC--TTTTT-
* * * *
1168250 ATATTTCCTTTCCTCAAAACAGGTAAAATAGATACATAAGAAAAAAATATTTTCT
316 ATATTTCTTTTCCACAAAACAGGTAAAATAGATCCATAA-CAAAAAATATTTTCT
* * * * * * * * * *
1168305 TAAC-AAATATTGTTTTCTTAAAACATG-TAAAATAGAATGATCCTGGTATAATTTAGCACGTTA
1 TAACAAAAAAATGTTTCCTCAAAACA-GATAAAATACAATAATCATAGTGTAATTCAGCACGTTA
* * * * * * * * * ** *
1168368 CTTTGCTTCTAAAGCATAAAGTATATAATATACTTTGCAATTCTAAGGCAAGAAA-TCTATAATA
65 ATTTTCTACTAAAGCATAAGGTATATAATATACTTTACACTTCCAAGACAAAAAATTC-GCAGTA
* * * *** ** * *
1168432 TTGCAATGGTTGAAATTCTTCCTTCAATTCATAGGT-TCGATTCCTTG-TTG-TGTAAAATTAAT
129 ATGCAATGGTTGAAATTCTTCTTTGAATTCCCGGGTAT-GATTCC-TGACCGCAG-AAAATAAAT
* * * * * *
1168494 TTAGCAAATAAAATTTTATTTTTATTATAATTAATGTCAAAGAA-AGCCTCAGT-GAGGCTCTCA
191 TTAACAAATAAAAATTTATTTTTATTATAAATAATATCAGAGAATA--CTCGGTAGA-GCTCTCA
* * * * * ** * *
1168557 AGAGAAACAAATCGGATTTTCCATCCAAGCTAAATTAGATT-CCTTATTTTCTAATTTTTTTTTT
253 AAAGAAACAAATCAGATTTTCCATCCAAGATAAATTA-ATTCCCTCATTTTATAAAATCTTTTTA
* * *
1168621 TATATT-TTTTACTCAAAATAGGTAAAATAGAT-C----C-------A------
317 TAT-TTCTTTTCCACAAAACAGGTAAAATAGATCCATAACAAAAAATATTTTCT
* * * * *
1168656 TAACAAAAAAATGTTTCCTCAAAACAGATAAAATACAATAATCTTGGTGTGATTGAGCATGTTAA
1 TAACAAAAAAATGTTTCCTCAAAACAGATAAAATACAATAATCATAGTGTAATTCAGCACGTTAA
* * * * * *
1168721 TTTTCTACTAAAGCATATGGTATATAATATACTTTACACTTTCAAGGCAAGAAATTCGTAGTAGT
66 TTTTCTACTAAAGCATAAGGTATATAATATACTTTACACTTCCAAGACAAAAAATTCGCAGTAAT
** * * ** * *
1168786 GCAATGGTTGATTTTTTTTTTTGAATTCTTGGGTATGATTCTTGACCGCAGAAAATTAATTTAAC
131 GCAATGGTTGAAATTCTTCTTTGAATTCCCGGGTATGATTCCTGACCGCAGAAAATAAATTTAAC
* * * *
1168851 AAATAAAATTTTATTTTTATTATAATTAATATCAGAGAATACTCGGTGGAGCTCTCAAGAGAAAC
196 AAATAAAAATTTATTTTTATTATAAATAATATCAGAGAATACTCGGTAGAGCTCTCAAAAGAAAC
* *
1168916 AAATCGGATTTTCCATCCAAGATAAATTAATTTCCTCATTTTATAAAATCTTTTTATATTTCTTT
261 AAATCAGATTTTCCATCCAAGATAAATTAATTCCCTCATTTTATAAAATCTTTTTATATTTCTTT
* * * *
1168981 TCCTCAAAATATGTAAAATATATCCATAACAAAAAATATTTTCT
326 TCCACAAAACAGGTAAAATAGATCCATAACAAAAAATATTTTCT
* * * *
1169025 TAACAAAAAAATGTTTCCTCAAAACAGGTAAAATACAGTGATCATAGTGTAATTCAGCACGTTAC
1 TAACAAAAAAATGTTTCCTCAAAACAGATAAAATACAATAATCATAGTGTAATTCAGCACGTTAA
** *
1169090 TTTTCTACTAAAGCATAAGGTATATAATATACTTTGGACTTCCAAGATAAAAAA-TCTGCAGTAA
66 TTTTCTACTAAAGCATAAGGTATATAATATACTTTACACTTCCAAGACAAAAAATTC-GCAGTAA
* * * *** * *
1169154 TGCCATGTTTGAAATTCTTCTTTGAATTCCCGGGT-TCGGTTCCCT-ATTTCGGAATATAAATTT
130 TGCAATGGTTGAAATTCTTCTTTGAATTCCCGGGTAT-GATT-CCTGACCGCAGAAAATAAATTT
* *
1169217 AGCAAATAAAAATTTATTTTTATTATAAATAATGTCAGAGAAATACTCGGTA-AGGCTCTCAAAA
193 AACAAATAAAAATTTATTTTTATTATAAATAATATCAGAG-AATACTCGGTAGA-GCTCTCAAAA
* * *
1169281 GAAACGAAA-CATATTTTCCATCCAAGCTAAATTAAATTCCCT-ATTTTCTAAAATCTTTTTATA
256 GAAAC-AAATCAGATTTTCCATCCAAGATAAATT-AATTCCCTCATTTTATAAAATCTTTTTATA
1169344 TTTCTTTTCCACAAAACAGGTAAAATAGATCCATAACAAAAA
319 TTTCTTTTCCACAAAACAGGTAAAATAGATCCATAACAAAAA
1169386 TAAATATTTA
Statistics
Matches: 888, Mismatches: 147, Indels: 97
0.78 0.13 0.09
Matches are distributed among these distances:
350 5 0.01
351 98 0.11
352 182 0.20
353 5 0.01
356 1 0.00
357 1 0.00
363 1 0.00
368 3 0.00
369 188 0.21
370 131 0.15
371 18 0.02
372 6 0.01
373 183 0.21
374 58 0.07
375 8 0.01
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (369 bp):
TAACAAAAAAATGTTTCCTCAAAACAGATAAAATACAATAATCATAGTGTAATTCAGCACGTTAA
TTTTCTACTAAAGCATAAGGTATATAATATACTTTACACTTCCAAGACAAAAAATTCGCAGTAAT
GCAATGGTTGAAATTCTTCTTTGAATTCCCGGGTATGATTCCTGACCGCAGAAAATAAATTTAAC
AAATAAAAATTTATTTTTATTATAAATAATATCAGAGAATACTCGGTAGAGCTCTCAAAAGAAAC
AAATCAGATTTTCCATCCAAGATAAATTAATTCCCTCATTTTATAAAATCTTTTTATATTTCTTT
TCCACAAAACAGGTAAAATAGATCCATAACAAAAAATATTTTCT
Found at i:1169490 original size:150 final size:148
Alignment explanation
Indices: 1169311--1169609 Score: 544
Period size: 148 Copynumber: 2.0 Consensus size: 148
1169301 TCCAAGCTAA
*
1169311 ATTAAATTCCCTATTTTCTAAAATCTTTTTATATTTCTTTTCCACAAAACAGGTAAAATAGATCC
1 ATTAAATTCCCTATTTTCTAAAATCTTTTTATATTTCTTTTCCACAAAACAGGTAAAATAGACCC
1169376 ATAACAAAAATAAATATTTACTCAAAACAGGTAAAATACATTAAATCTTCGTGTAACTGAGCACG
66 ATAAC-AAAA-AAATATTTACTCAAAACAGGTAAAATACATTAAATCTTCGTGTAACTGAGCACG
1169441 TTACTTTTCTACTAAAGCAT
129 TTACTTTTCTACTAAAGCAT
1169461 ATTAAATTCCCTATTTTCTAAAATCTTTTTATATTTCTTTTCCACAAAACAGGTAAAATAGACCC
1 ATTAAATTCCCTATTTTCTAAAATCTTTTTATATTTCTTTTCCACAAAACAGGTAAAATAGACCC
* * *
1169526 ATAACAAAAAATTATTTCCTCAAAACAGGTAAAATACATTAAATCTTTGTGTAACTGAGCACGTT
66 ATAACAAAAAAATATTTACTCAAAACAGGTAAAATACATTAAATCTTCGTGTAACTGAGCACGTT
1169591 ACTTTTCTACTAAAGCAT
131 ACTTTTCTACTAAAGCAT
1169609 A
1 A
1169610 ACGTATAAAA
Statistics
Matches: 145, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
148 72 0.50
149 4 0.03
150 69 0.48
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.35
Consensus pattern (148 bp):
ATTAAATTCCCTATTTTCTAAAATCTTTTTATATTTCTTTTCCACAAAACAGGTAAAATAGACCC
ATAACAAAAAAATATTTACTCAAAACAGGTAAAATACATTAAATCTTCGTGTAACTGAGCACGTT
ACTTTTCTACTAAAGCAT
Found at i:1175142 original size:39 final size:39
Alignment explanation
Indices: 1175054--1175402 Score: 497
Period size: 39 Copynumber: 9.0 Consensus size: 39
1175044 AGACAAAATT
* * * * *
1175054 TGTTTCAAGGGAAACTGTCTCAAGAGTGACAAAA-C-TC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
1175091 -ATTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1175129 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * * *
1175168 TGTTTCAAGGAAAACTATCTCAAGCGAGATTAAATCTTT
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1175207 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
*
1175246 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAAACTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
1175285 TGTTTCGAGGGAAACTATCTCAAGCAAGATAAAATCTTT
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
1175324 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATATTA
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * * *
1175363 TGTTTCGAGAGAAACCATCTCAAGTGAGATAAAATATTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1175402 T
1 T
1175403 TTAAAAACAA
Statistics
Matches: 283, Mismatches: 26, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
36 28 0.10
37 1 0.00
38 2 0.01
39 252 0.89
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (39 bp):
TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
Found at i:1175595 original size:73 final size:70
Alignment explanation
Indices: 1175436--1175631 Score: 202
Period size: 73 Copynumber: 2.7 Consensus size: 70
1175426 AAAAGGTCTT
* *
1175436 GTAAAAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATCTTGAGTAAAAAATATTG
1 GTAAAAACAGTCTCAAGCGAGACAAATCTTGTTTT-AGAAAAACAATCTTGAGCAAAAAATATTG
*
1175501 TTTTGA
65 TTTTAA
*
1175507 GTAAAAAAAATGTCTCAAGCGAGACAAATCTTGTTTTA-AAAAACAATCTTGAGCCAAATGAAAT
1 GT-AAAAACA-GTCTCAAGCGAGACAAATCTTGTTTTAGAAAAACAATCTTGAG-CAAA--AAAT
*
1175571 GTCT-TCTTTCAA
61 AT-TGT-TTT-AA
* *
1175583 GT-AAAACAGTCTCAAGTGAGACAAAGTCTAT-TTTAAGAAAAACAATCTT
1 GTAAAAACAGTCTCAAGCGAGACAAA-TCT-TGTTTTAGAAAAACAATCTT
1175632 CAGTGAGATA
Statistics
Matches: 106, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
71 17 0.16
72 9 0.08
73 42 0.40
74 18 0.17
75 17 0.16
76 3 0.03
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (70 bp):
GTAAAAACAGTCTCAAGCGAGACAAATCTTGTTTTAGAAAAACAATCTTGAGCAAAAAATATTGT
TTTAA
Found at i:1182707 original size:36 final size:36
Alignment explanation
Indices: 1182594--1182785 Score: 115
Period size: 36 Copynumber: 5.1 Consensus size: 36
1182584 CTCAAGATTG
*
1182594 TTTTTCTTAAAACAAGATTTGTCTCGCTTGGGACAT
1 TTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAT
* * * * *
1182630 GTTTTATTCAAAACAAGACATT-TCAT-G--TCACTACAT
1 TTTTTCTT-AAAACAAGA-TTTGTC-TCGCTTGA-GACAT
1182666 GTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACATT
1 -TTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACA-T
* * * * * ** *
1182704 TTTTTACTCGAAATAAGAAGATTTATTTCACTCAAGA-TT
1 TTTTT-CT--TAA-AACAAGATTTGTCTCGCTTGAGACAT
1182743 GTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACGAT
1 -TTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC-AT
1182781 TTTTT
1 TTTTT
1182786 ACTCGAAAGA
Statistics
Matches: 112, Mismatches: 27, Indels: 33
0.65 0.16 0.19
Matches are distributed among these distances:
35 4 0.04
36 39 0.35
37 33 0.29
38 9 0.08
39 3 0.03
40 7 0.06
41 17 0.15
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAT
Found at i:1182755 original size:150 final size:148
Alignment explanation
Indices: 1182517--1182811 Score: 407
Period size: 150 Copynumber: 2.0 Consensus size: 148
1182507 TACTGAAGAT
* *
1182517 TGTTTTTCTTAAAATAGATTTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGACATTTCATTT
1 TGTTTTTCTTAAAAAAGATTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGACATTTCATTT
* * *
1182582 GACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGGGAC-ATGTTTTATTCAAAACAA
66 CACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACGATGTTTTACTCAAAACAA
1182646 GACATTTCATGTCACTACA
131 GACA-TTCATGTCACTACA
* * * *
1182665 TGTTTTTCTTAAAACAAGA-TTTGTCTCGCTTGAGACATTTTTTTACTCGAAATAAGAAGATTT-
1 TGTTTTTCTTAAAA-AAGATTTTGTCTCACTTGAGAC--TGTTTTACTCGAAAGAAG-ACATTTC
* *
1182728 ATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACGATTTTTTACTCGAA
62 ATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACGATGTTTTACTCAAA
* *
1182793 AGAAGACATTCATTTCACT
127 ACAAGACATTCATGTCACT
1182812 CAAAATTGTT
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
148 30 0.23
149 3 0.02
150 73 0.57
151 23 0.18
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (148 bp):
TGTTTTTCTTAAAAAAGATTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGACATTTCATTT
CACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACGATGTTTTACTCAAAACAA
GACATTCATGTCACTACA
Found at i:1182769 original size:77 final size:75
Alignment explanation
Indices: 1182499--1182848 Score: 396
Period size: 77 Copynumber: 4.7 Consensus size: 75
1182489 AATACGGAGG
* * *
1182499 ATTTATCTT-ACTGAAGATTGTTTTTCTTAAAA-TAGATTTTGTCTCACTTGAGAC-TGTTTTAC
1 ATTTAT-TTCACTCAAGATTGTTTTTCTTAAAACAAGA-TTTGTCTCGCTTGAGACATGTTTTAC
*
1182561 TTGAAAGAAGAC
64 TCGAAAGAAGAC
* * *
1182573 ATTTCATTTGACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGGGACATGTTTTATT
1 ATTT-ATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACATGTTTTACT
* *
1182638 CAAAACAAGAC
65 CGAAAGAAGAC
* * *
1182649 ATTTCATGTCACT--ACA-TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACATTTTTTTAC
1 ATTT-ATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACA-TGTTTTAC
* *
1182711 TCGAAATAAGAAG
64 TCGAAAGAAG-AC
*
1182724 ATTTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACGATTTTTTACT
1 ATTTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC-ATGTTTTACT
1182789 CGAAAGAAGAC
65 CGAAAGAAGAC
* * * *
1182800 ATTCATTTCACTCAAAATTG--TTT-TT-AAAGAAGATTTATCTCGCTTGAGA
1 ATTTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGA
1182849 TAATTTCCCT
Statistics
Matches: 241, Mismatches: 25, Indels: 22
0.84 0.09 0.08
Matches are distributed among these distances:
72 22 0.09
73 38 0.16
74 32 0.13
75 44 0.18
76 51 0.21
77 53 0.22
78 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (75 bp):
ATTTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACATGTTTTACTC
GAAAGAAGAC
Found at i:1182827 original size:150 final size:147
Alignment explanation
Indices: 1182521--1182848 Score: 396
Period size: 150 Copynumber: 2.2 Consensus size: 147
1182511 GAAGATTGTT
* * *
1182521 TTTCTTAAA-ATAGATTTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGACATTTCATTTGAC
1 TTTCTTAAACA-AGA-TTTGTCTCGCTTGAGACTGTTTTACTCGAAAGAAGACATTTCATTTCAC
* *
1182585 TCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGGGACATGTTTTATTCAAAACAAGACA
64 TCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACATGTTTTACTCAAAACAAGACA
* *
1182650 TTTCATGTCACTACATGTT
129 TTTCATGTCACTAAATGTG
* * *
1182669 TTTCTTAAAACAAGATTTGTCTCGCTTGAGACATTTTTTTACTCGAAATAAGAAGATTT-ATTTC
1 TTTCTT-AAACAAGATTTGTCTCGCTTGAGAC--TGTTTTACTCGAAAGAAG-ACATTTCATTTC
* * *
1182733 ACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACGATTTTTTACTCGAAAGAAG
62 ACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC-ATGTTTTACTCAAAACAAG
*
1182798 ACA-TTCATTTCACTCAAAAT-TG
126 ACATTTCATGTCACT--AAATGTG
* *
1182820 TTT-TTAAAGAAGATTTATCTCGCTTGAGA
1 TTTCTTAAACAAGATTTGTCTCGCTTGAGA
1182849 TAATTTCCCT
Statistics
Matches: 156, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
148 22 0.14
149 28 0.18
150 76 0.49
151 27 0.17
152 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (147 bp):
TTTCTTAAACAAGATTTGTCTCGCTTGAGACTGTTTTACTCGAAAGAAGACATTTCATTTCACTC
AAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACATGTTTTACTCAAAACAAGACATT
TCATGTCACTAAATGTG
Found at i:1182884 original size:41 final size:41
Alignment explanation
Indices: 1182829--1182943 Score: 173
Period size: 39 Copynumber: 2.9 Consensus size: 41
1182819 GTTTTTAAAG
*
1182829 AAGA-TTTATCTCGCTTGAGATAATTTCCCTCGAAAAAAAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAAAAAA
* * *
1182869 AAGATTTTATCTCGCTTGAGATAGTTTCCCTC--TAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAAAAAA
1182908 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAA
1182944 CGAGTTTTGT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
39 36 0.54
40 4 0.06
41 27 0.40
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (41 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAAAAAA
Found at i:1182923 original size:39 final size:39
Alignment explanation
Indices: 1182827--1183080 Score: 194
Period size: 36 Copynumber: 6.7 Consensus size: 39
1182817 TTGTTTTTAA
* * *
1182827 AGAAGA-TTTATCTCGCTTGAGATAATTTCCCTCGAAAAAA
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTC--TAAAC
*
1182867 AAAAGATTTTATCTCGCTTGAGATAGTTTCCCTCTAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCTAAAC
*
1182906 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCTAAAC
* * * *
1182945 -G-AG-TTTTGTCTCTCTTGAGACAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCTAAAC
* * *
1182981 --AA-ATTTTGTCTCTCTTGAGACAGTTTCCCT-TGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCT-AAAC
* * * *
1183017 --AA-ATTTTGTCCCTCTTGAGACAGTTTCCCT-TGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCT-AAAC
* * *
1183053 AAGAA-A-TGTATCTCACTTGAGATGGTTT
1 -AGAAGATTTTATCTCGCTTGAGATAGTTT
1183081 TTCTTAAAAC
Statistics
Matches: 190, Mismatches: 17, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
36 97 0.51
37 2 0.01
38 17 0.09
39 43 0.23
40 5 0.03
41 26 0.14
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.35
Consensus pattern (39 bp):
AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCTAAAC
Found at i:1182970 original size:36 final size:36
Alignment explanation
Indices: 1182872--1183054 Score: 231
Period size: 36 Copynumber: 5.0 Consensus size: 36
1182862 AAAAAAAAAG
* * * *
1182872 ATTTTATCTCGCTTGAGATAGTTTCCCTCTAAACAGAA
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTCGAAAC--AA
* * * *
1182910 GATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACGA
1 -ATTTTGTCTCTCTTGAGACAGTTTCCCTCGAAACAA
*
1182947 GTTTTGTCTCTCTTGAGACAGTTTCCCTCGAAACAA
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTCGAAACAA
*
1182983 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTCGAAACAA
* *
1183019 ATTTTGTCCCTCTTGAGACAGTTTCCCTTGAAACAA
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTCGAAACAA
1183055 GAAATGTATC
Statistics
Matches: 134, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
36 100 0.75
37 1 0.01
39 33 0.25
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (36 bp):
ATTTTGTCTCTCTTGAGACAGTTTCCCTCGAAACAA
Found at i:1183016 original size:72 final size:73
Alignment explanation
Indices: 1182829--1183112 Score: 248
Period size: 72 Copynumber: 3.8 Consensus size: 73
1182819 GTTTTTAAAG
* * * * * *
1182829 AAGA-TTTATCTCGCTTGAGATAATTTCCCTCGAAAAAAAAAAGATTTTATCTCGCTTGAGATAG
1 AAGATTTTATCTCGCTTGAGACAGTTTCCCTCG----AAACAA-ATTTTGTCTCTCTTGAGACAG
*
1182893 TTTCCCTCTAAAC
61 TTTCCCTCGAAAC
* * *
1182906 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACGAGTTTTGTCTCTCTTGAGACAGTTT
1 --AAGATTTTATCTCGCTTGAGACAGTTTCCCTCGAAACAAATTTTGTCTCTCTTGAGACAGTTT
1182971 CCCTCGAAAC
64 CCCTCGAAAC
* * * *
1182981 AA-ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCC
1 AAGATTTTATCTCGCTTGAGACAGTTTCCCTCGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
*
1183045 CTTGAAAC
66 CTCGAAAC
* * * ** ** ** * *
1183053 AAGAAATGTATCTCACTTGAGATGGTTTTTCTTAAAACCAATTTTGTCTCGCTTGAGACA
1 AAG-ATTTTATCTCGCTTGAGACAGTTTCCCTCGAAACAAATTTTGTCTCTCTTGAGACA
1183113 ATTTTCTCTT
Statistics
Matches: 174, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
72 64 0.37
73 2 0.01
74 44 0.25
75 29 0.17
76 4 0.02
79 4 0.02
80 27 0.16
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (73 bp):
AAGATTTTATCTCGCTTGAGACAGTTTCCCTCGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
CTCGAAAC
Found at i:1186078 original size:347 final size:346
Alignment explanation
Indices: 1185363--1186084 Score: 820
Period size: 347 Copynumber: 2.1 Consensus size: 346
1185353 CGGTTACGAC
* * *
1185363 AGATTCAATAACAAAAAAATGTTTCCTCAAAACATGTAAAACACAGTGATCTTGGTACAATTTAG
1 AGATTC-ATAACAAAAAAATGTTTCCTCAAAACAGGTAAAACACAATGATCTTGGTACAATTTAA
* * * * **
1185428 CACATTACTTTTCTACTGAAACATAAGGTATATAATATGCTTTGCACTTTTAAGCAAGAAATGCA
65 CACATTAATTTTCGACTGAAACATAAGATATATAATATACTTTGCACTTCCAAGCAAGAAATGCA
** * *
1185493 CAGTAGCGCAATGGTTGAAATTCTTCTTTGAATTTCCAAGTTTGATTCTTGCCTACATAAAATTA
130 CAGTAGCGCAATGGTTGAAA-T-TTCTTTGAATTTCCAAGTTTGATTCACGCATACAGAAAATTA
**
1185558 ATTTTGTAAATAAAATTTTGTTTTTATTTTAATAAATGTAAGAGAAATACTCCGTGAGACTCTTA
193 ATTTTGTAAATAAAATTTCATTTTTATTTTAATAAATGTAAGAGAAATACTCCGTGAGACTCTTA
* * * * *
1185623 AGAGAAACAAATTGGATTTTCCTTTCAAGCTAAATTAATTTTTTTTTATTTTCTGAAATTATTTT
258 AGAGAAACAAATCGGATTTTCCTTCCAAGCTAAATTAA-TATTCTTTATTTTCTGAAATCATTTT
* *
1185688 ATTTTTTCCTCGATACAAGTAAAAT
322 ATTTTTTCCTCAAAACAAGTAAAAT
* * * *
1185713 GGATTCATAACAAAAAAATGTTTCCTCAAAACAGGTAAAATACAATGATTTTGGTGCAATTTAAC
1 AGATTCATAACAAAAAAATGTTTCCTCAAAACAGGTAAAACACAATGATCTTGGTACAATTTAAC
* * *
1185778 ACGTTAATTTTCGACT-AAAGCATAAGATATATAATATATTTTGTACTTCCAAGACAAGAAACT-
66 ACATTAATTTTCGACTGAAA-CATAAGATATATAATATACTTTGCACTTCCAAG-CAAGAAA-TG
** * ** * * *
1185841 CGTAGTAGCGCAATGGTTGAAA-TTCTTTGAATTTTCGTGTTTGATTCACGTATGCGGAAAATTA
128 CACAGTAGCGCAATGGTTGAAATTTCTTTGAATTTCCAAGTTTGATTCACGCATACAGAAAATTA
* * * *
1185905 ATTTTG-AAATTAAAGTTTCATTTTTATTTTAATAAATGTTAGAGGAATAC-CCGGTGAGGCT-T
193 ATTTTGTAAA-TAAAATTTCATTTTTATTTTAATAAATGTAAGAGAAATACTCC-GTGAGACTCT
* *
1185967 TCAAGAGAAATAGATCGGA-TTTCCTTCCAAGCTAAATTAA-ATTCTTTATTTTCAT-AAATCAT
256 T-AAGAGAAACAAATCGGATTTTCCTTCCAAGCTAAATTAATATTCTTTATTTTC-TGAAATCAT
1186029 TTTATTCTTCTTTTCCTCAAAAC-AGATAAAAT
319 TTTA---TT-TTTTCCTCAAAACAAG-TAAAAT
1186061 AGA-TCGATAAC-AAAAAATGTTTCC
1 AGATTC-ATAACAAAAAAATGTTTCC
1186085 AATTATATTA
Statistics
Matches: 315, Mismatches: 44, Indels: 29
0.81 0.11 0.07
Matches are distributed among these distances:
344 21 0.07
345 1 0.00
346 27 0.09
347 113 0.36
348 27 0.09
349 93 0.30
350 32 0.10
351 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (346 bp):
AGATTCATAACAAAAAAATGTTTCCTCAAAACAGGTAAAACACAATGATCTTGGTACAATTTAAC
ACATTAATTTTCGACTGAAACATAAGATATATAATATACTTTGCACTTCCAAGCAAGAAATGCAC
AGTAGCGCAATGGTTGAAATTTCTTTGAATTTCCAAGTTTGATTCACGCATACAGAAAATTAATT
TTGTAAATAAAATTTCATTTTTATTTTAATAAATGTAAGAGAAATACTCCGTGAGACTCTTAAGA
GAAACAAATCGGATTTTCCTTCCAAGCTAAATTAATATTCTTTATTTTCTGAAATCATTTTATTT
TTTCCTCAAAACAAGTAAAAT
Found at i:1190547 original size:18 final size:20
Alignment explanation
Indices: 1190512--1190548 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1190502 CACGGAATGT
1190512 AAGATTACCGATGGGAATAA
1 AAGATTACCGATGGGAATAA
1190532 AAGATTACC-A-GGGAATA
1 AAGATTACCGATGGGAATA
1190549 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (20 bp):
AAGATTACCGATGGGAATAA
Found at i:1190716 original size:15 final size:15
Alignment explanation
Indices: 1190698--1190728 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1190688 AAATTCTAAA
1190698 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
1190713 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
1190728 T
1 T
1190729 CTATCTGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:1191009 original size:16 final size:16
Alignment explanation
Indices: 1190990--1191041 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
1190980 TAATAAAAAG
*
1190990 ATATAATATTTGTTAT
1 ATATAATATTTATTAT
* * * *
1191006 ATATAATAATTCTAAG
1 ATATAATATTTATTAT
1191022 ATATAATATTTATTAT
1 ATATAATATTTATTAT
1191038 ATAT
1 ATAT
1191042 TCTATATACA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (16 bp):
ATATAATATTTATTAT
Found at i:1191012 original size:32 final size:32
Alignment explanation
Indices: 1190976--1191041 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
1190966 ATAGATATTC
*
1190976 ATAATAATAAAAAGATATAATATTTGTTATAT
1 ATAATAATAAAAAGATATAATATTTATTATAT
***
1191008 ATAATAATTCTAAGATATAATATTTATTATAT
1 ATAATAATAAAAAGATATAATATTTATTATAT
1191040 AT
1 AT
1191042 TCTATATACA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.44
Consensus pattern (32 bp):
ATAATAATAAAAAGATATAATATTTATTATAT
Found at i:1192509 original size:64 final size:65
Alignment explanation
Indices: 1192374--1192514 Score: 171
Period size: 64 Copynumber: 2.2 Consensus size: 65
1192364 TTGTTCAGTA
* * * *
1192374 TGTATCGATACA-CAGGACGTGCATCAATGCACCCATTAAAAATGGAAACATCGAATGCAATTAG
1 TGTATCGATGCATAAGGACGTGCATCAATGCACCCATTAAAAATGAAAACATCGAAGGCAATTAG
* * ** *
1192438 TGCATCGATGCATAAGGA-GTGCATCAATGCACCCCCTT-AAAATGAAAACATCGAAGGTGATTT
1 TGTATCGATGCATAAGGACGTGCATCAATGCA-CCCATTAAAAATGAAAACATCGAAGGCAATTA
1192501 G
65 G
1192502 TGTATCGATGCAT
1 TGTATCGATGCAT
1192515 GGCTAGTGCA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
64 56 0.86
65 9 0.14
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (65 bp):
TGTATCGATGCATAAGGACGTGCATCAATGCACCCATTAAAAATGAAAACATCGAAGGCAATTAG
Found at i:1192523 original size:64 final size:64
Alignment explanation
Indices: 1192377--1192533 Score: 167
Period size: 64 Copynumber: 2.4 Consensus size: 64
1192367 TTCAGTATGT
* * * *
1192377 ATCGATACACAGGACGTGCATCAATGCA-CCCATTAAAAATGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAGGA-GTGCATCAATGCACCCCATTAAAAATGAAAACATCGAAGGCAATTAGTGC
* ** * *
1192441 ATCGATGCATAAGGAGTGCATCAATGCACCCCCTT-AAAATGAAAACATCGAAGGTGATTTGTGT
1 ATCGATGCAT-AGGAGTGCATCAATGCACCCCATTAAAAATGAAAACATCGAAGGCAATTAGTGC
*
1192505 ATCGATGCAT-GGCTAGTGCATCGATGCAC
1 ATCGATGCATAGG--AGTGCATCAATGCAC
1192534 ATGTTAAAGA
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
62 2 0.03
64 68 0.86
65 9 0.11
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (64 bp):
ATCGATGCATAGGAGTGCATCAATGCACCCCATTAAAAATGAAAACATCGAAGGCAATTAGTGC
Found at i:1192566 original size:20 final size:22
Alignment explanation
Indices: 1192521--1192578 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
1192511 GCATGGCTAG
1192521 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
1192545 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
*
1192565 TGTATCGATGCACT
1 TGCATCGATGCACT
1192579 TCAAGTGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 2 0.06
24 13 0.39
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:1194167 original size:23 final size:23
Alignment explanation
Indices: 1194137--1194196 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
1194127 CATTTTATAT
* *
1194137 GGCACTTCGGTGCAATTCTACGC
1 GGCACTTCGATGCAATTCTACAC
*
1194160 GGCACTTCGATGCAATTCTACAT
1 GGCACTTCGATGCAATTCTACAC
1194183 GGCACTTCGATGCA
1 GGCACTTCGATGCA
1194197 TTTATGCGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (23 bp):
GGCACTTCGATGCAATTCTACAC
Found at i:1195651 original size:31 final size:31
Alignment explanation
Indices: 1195613--1195672 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
1195603 TACAATTCTA
* *
1195613 GATGCATAATTGATACTATCCCCTAATGTTG
1 GATGCATAACTGAAACTATCCCCTAATGTTG
1195644 GATGCATAACTGAAACTATCCCCTAATGT
1 GATGCATAACTGAAACTATCCCCTAATGT
1195673 ATAAAGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (31 bp):
GATGCATAACTGAAACTATCCCCTAATGTTG
Found at i:1202053 original size:2 final size:2
Alignment explanation
Indices: 1202046--1202095 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1202036 TAAAACAATC
1202046 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1202088 AT AT AT AT
1 AT AT AT AT
1202096 GGATTAATTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1204942 original size:2 final size:2
Alignment explanation
Indices: 1204935--1204970 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1204925 TGGAACATGC
1204935 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1204971 TCATGAGACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1205159 original size:51 final size:51
Alignment explanation
Indices: 1205081--1205223 Score: 153
Period size: 51 Copynumber: 2.8 Consensus size: 51
1205071 AATAGTTGCT
* * * * *
1205081 CAAATCAGAAATAAGCA-TCGACCAAAATGCGTAAATTGAAAGGACAATAGC
1 CAAATCAGAAATAAACAGT-GACTAAAATGCATAAATTAAAAGAACAATAGC
* * * * * *
1205132 CAAATCAGAAATAAATAGTGATTAAAATGCATAAAATAAAAGAATAGTGGC
1 CAAATCAGAAATAAACAGTGACTAAAATGCATAAATTAAAAGAACAATAGC
* *
1205183 CAAATTAGAAATAAACAGTGACTAAGATGCATAAATTAAAA
1 CAAATCAGAAATAAACAGTGACTAAAATGCATAAATTAAAA
1205224 TACATCACAG
Statistics
Matches: 75, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
51 74 0.99
52 1 0.01
ACGTcount: A:0.53, C:0.12, G:0.15, T:0.20
Consensus pattern (51 bp):
CAAATCAGAAATAAACAGTGACTAAAATGCATAAATTAAAAGAACAATAGC
Found at i:1206993 original size:139 final size:139
Alignment explanation
Indices: 1206713--1207252 Score: 762
Period size: 139 Copynumber: 3.9 Consensus size: 139
1206703 CAAGTATTGA
* * * *
1206713 TGTTG-TTCAAACTCCTTATGTGATGGAAACGAGCTAAAGCTGAACAAGTTCTTCTCATTATGAA
1 TGTTGATTC-AACTCCATATGTGAT-GAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAA
* * * *
1206777 CTTATTCTCCCTCATCAGATAAGTTCTTCACATTATGAACTC-CCTACTAGAAATGTTGATCCCT
64 CTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCC-ACTAGAAATGTTGATCCCT
*
1206841 CGAGTAAGGTGT
128 TGAGTAAGGTGT
* * * *
1206853 TGTTGATTCAACTCCATATTTAATCAATTGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACT
1 TGTTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACT
* *
1206918 TCTTCTCCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCAACT-GAAAATGTTGATCCCTTG
66 TCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTAG-AAATGTTGATCCCTTG
1206982 AGTAAGGTGT
130 AGTAAGGTGT
*
1206992 TGTTGATTCAACTCCATATGCGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACT
1 TGTTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACT
* *
1207057 TCTTCTCCCTCATCGGATGAGTTCTTCTTATTATGAACCCTCCACTAGAAATGTTGATCCCTTGA
66 TCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATCCCTTGA
*
1207122 GTGAGGTGT
131 GTAAGGTGT
* *
1207131 TGTTGATTTAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTTTTCTCATTATGAACT
1 TGTTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACT
* * * * * * * *
1207196 TCATCTCCTTCATCGAATGAGTTCTTGTTATAATGAATTCTCCACTGGAAATGTTGA
66 TCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGA
1207253 CCAGTTTATC
Statistics
Matches: 360, Mismatches: 36, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
138 1 0.00
139 337 0.94
140 19 0.05
141 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (139 bp):
TGTTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACT
TCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATCCCTTGA
GTAAGGTGT
Found at i:1210903 original size:23 final size:23
Alignment explanation
Indices: 1210857--1210917 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
1210847 AGCTCGTATC
*
1210857 ATTGCACCGAAGTG-CACGTAGA
1 ATTGCACCGTAGTGCCACGTAGA
*
1210879 ATTGCACCGTAGTGCCGCGTAGA
1 ATTGCACCGTAGTGCCACGTAGA
*
1210902 ATTACACCGTAGTGCC
1 ATTGCACCGTAGTGCC
1210918 TTATAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 13 0.37
23 22 0.63
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (23 bp):
ATTGCACCGTAGTGCCACGTAGA
Found at i:1212585 original size:63 final size:62
Alignment explanation
Indices: 1212510--1212668 Score: 192
Period size: 63 Copynumber: 2.5 Consensus size: 62
1212500 TCATGGAGTC
* * * * **
1212510 ATGCATCGATGCACTCCTGATGCATCGATGCACTGAGGGCATTTGATGTTCATTTTATTAGAA
1 ATGCATCGATGCACTCCT-ATGCATCGATGCACTGACGACATTCGATGTTCATATTAAAAGAA
** **
1212573 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTTGTATTAAAATTA
1 ATGCATCGATGCACTCC-TATGCATCGATGCACTGACGACATTCGATGTTCATATTAAAAGAA
*
1212636 ATGCATCGATGCACTTCATATGCATCGATGCAC
1 ATGCATCGATGCAC-TCCTATGCATCGATGCAC
1212669 CTTCAACAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 80 0.96
64 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (62 bp):
ATGCATCGATGCACTCCTATGCATCGATGCACTGACGACATTCGATGTTCATATTAAAAGAA
Found at i:1212660 original size:19 final size:20
Alignment explanation
Indices: 1212636--1212673 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
1212626 ATTAAAATTA
1212636 ATGCATCGATGCA-CTTCAT
1 ATGCATCGATGCACCTTCAT
1212655 ATGCATCGATGCACCTTCA
1 ATGCATCGATGCACCTTCA
1212674 ACAAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGCATCGATGCACCTTCAT
Found at i:1216079 original size:23 final size:23
Alignment explanation
Indices: 1216033--1216093 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
1216023 AGCTCGTATC
1216033 ATTGCACCGA-AGTG-CACGTAGA
1 ATTGCACC-ATAGTGCCACGTAGA
*
1216055 ATTGCACCATAGTGCCGCGTAGA
1 ATTGCACCATAGTGCCACGTAGA
*
1216078 ATTGCACCGTAGTGCC
1 ATTGCACCATAGTGCC
1216094 TTATAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 1 0.03
22 12 0.34
23 22 0.63
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (23 bp):
ATTGCACCATAGTGCCACGTAGA
Found at i:1217792 original size:63 final size:63
Alignment explanation
Indices: 1217686--1217840 Score: 202
Period size: 63 Copynumber: 2.5 Consensus size: 63
1217676 TAATGGAGTC
* * * * * *
1217686 ATGCATCGATGCACTCCTGATGCATCGATGCACTGAGGGCATTCGATGTTCATTTTATTAGAA
1 ATGCATCGATGCACTCCTTATGCATCGATACACTGACGACATTCGATGTTCATATTATAAGAA
** **
1217749 ATGCATCGATGCACTCCTTATGCATCGATACACTGACGACATTCGATGTTTGTATTATAATTA
1 ATGCATCGATGCACTCCTTATGCATCGATACACTGACGACATTCGATGTTCATATTATAAGAA
* *
1217812 ATGCATCGATGCACTTCATATGCATCGAT
1 ATGCATCGATGCACTCCTTATGCATCGAT
1217841 GCACCTTCAA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 80 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTTATGCATCGATACACTGACGACATTCGATGTTCATATTATAAGAA
Found at i:1217836 original size:19 final size:20
Alignment explanation
Indices: 1217812--1217849 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
1217802 ATTATAATTA
1217812 ATGCATCGATGCA-CTTCAT
1 ATGCATCGATGCACCTTCAT
1217831 ATGCATCGATGCACCTTCA
1 ATGCATCGATGCACCTTCA
1217850 ACAAATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGCATCGATGCACCTTCAT
Found at i:1218771 original size:39 final size:39
Alignment explanation
Indices: 1218693--1218771 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
1218683 TTGTTTTTAA
* * * *
1218693 AGAATATTTTATCTCACTTGAGATGGTTTCTCTCGAAAC
1 AGAAGATTTTATCTCACTTGAGATAGTTTCACTCAAAAC
* *
1218732 AGAAGATTTTATCTCGCTTGAGATAGTTTCACTTAAAAC
1 AGAAGATTTTATCTCACTTGAGATAGTTTCACTCAAAAC
1218771 A
1 A
1218772 AGAGTTGTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (39 bp):
AGAAGATTTTATCTCACTTGAGATAGTTTCACTCAAAAC
Found at i:1218969 original size:75 final size:77
Alignment explanation
Indices: 1218831--1218975 Score: 197
Period size: 75 Copynumber: 1.9 Consensus size: 77
1218821 CCCTCGGAAC
* * *
1218831 ACAAGATTTTGTCTCGCTTGAGGCAGTTTTTACTCGAAACAAGAAGATTTATTTCACTCAAGATT
1 ACAAGATTTTGTCTCGCTTGAGACAGGTTTTACTCAAAACAAGAAGATTTATTTCACTCAAGATT
1218896 GTTTTTCTTAAA
66 GTTTTTCTTAAA
* * * *
1218908 ACAAGA-TTTGTCTCGCTTGAGAC-GGTTTTACTTAAAAGAA-AATATTTCATTTCACTGAAGAT
1 ACAAGATTTTGTCTCGCTTGAGACAGGTTTTACTCAAAACAAGAAGATTT-ATTTCACTCAAGAT
1218970 TGTTTT
65 TGTTTT
1218976 AAAGAAGATT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
74 6 0.10
75 32 0.53
76 16 0.27
77 6 0.10
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.39
Consensus pattern (77 bp):
ACAAGATTTTGTCTCGCTTGAGACAGGTTTTACTCAAAACAAGAAGATTTATTTCACTCAAGATT
GTTTTTCTTAAA
Found at i:1219032 original size:39 final size:39
Alignment explanation
Indices: 1218978--1219336 Score: 517
Period size: 39 Copynumber: 9.3 Consensus size: 39
1218968 ATTGTTTTAA
* *
1218978 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
*
1219017 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCAAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* * * * *
1219056 AAAAGA--TTGGCTCGCTTGAGATAGTTTCTCACGAAAT
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
1219093 AGAAGATTTTATCTCGCTTGAGATATTTTCCCTCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
1219132 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
*
1219171 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCAAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
*
1219210 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCAAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
1219249 AGAAGATTTTATCTCGCTT-AGGATAGTTTCTCTCGAAAC
1 AGAAGATTTTGTCTCGCTTGA-GATAGTTTCCCTCGAAAC
* * *
1219288 AAAAGATTTTATCTCGCTTGAGATAGTTTCTCTCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
1219327 AAAATATTTT
1 AGAAGATTTT
1219337 ATAAGAAACT
Statistics
Matches: 292, Mismatches: 24, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
37 31 0.11
38 1 0.00
39 259 0.89
40 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (39 bp):
AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
Found at i:1219243 original size:117 final size:117
Alignment explanation
Indices: 1218778--1219338 Score: 567
Period size: 117 Copynumber: 4.9 Consensus size: 117
1218768 AACAAGAGTT
* * * * *
1218778 GTTTCGCTTGAAACAGAAGGTTTTGTCTCGCTTGAGATAGTTTCCCTCGGAACACAAGATTTTGT
1 GTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAAAAGATTTTGT
** * * * ** *
1218843 CTCGCTTGAGGCAGTTTTTACTCGAAACAAGAAGA-TTTATTTCACTCAAGATT
66 CTCGCTTGAGATAGTTTCT-CTCGAAAC-AGAAGATTTTATCTCGCTTGAGATA
** * * ** ** ** * * **
1218896 GTTTTTCT-TAAA-ACAAGA-TTTGTCTCGCTTGAGACGGTTTTACTTAAAAGAAAATATTTCAT
1 GTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAAAAGATTTTGT
* * *
1218958 TTCAC-TGAAGATTG-TT-T-T---AA-AGAAGATTTTATCTCGCTTGAGATA
66 CTCGCTTG-AGATAGTTTCTCTCGAAACAGAAGATTTTATCTCGCTTGAGATA
* * *
1219003 GTTTCCCTTGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCAAAACAAAAGA--TTGG
1 GTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAAAAGATTTTGT
* *
1219066 CTCGCTTGAGATAGTTTCTCACGAAATAGAAGATTTTATCTCGCTTGAGATA
66 CTCGCTTGAGATAGTTTCTCTCGAAACAGAAGATTTTATCTCGCTTGAGATA
* *
1219118 TTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTGT
1 GTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAAAAGATTTTGT
* * *
1219183 CTCGCTTGAGATAGTTTCCCTCAAAACAGAAGATTTTGTCTCGCTTGAGATA
66 CTCGCTTGAGATAGTTTCTCTCGAAACAGAAGATTTTATCTCGCTTGAGATA
* * * *
1219235 GTTTCCCTCAAAACAGAAGATTTTATCTCGCTT-AGGATAGTTTCTCTCGAAACAAAAGATTTTA
1 GTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGA-GATAGTTTCCCTCGAAACAAAAGATTTTG
* *
1219299 TCTCGCTTGAGATAGTTTCTCTCGAAACAAAATATTTTAT
65 TCTCGCTTGAGATAGTTTCTCTCGAAACAGAAGATTTTAT
1219339 AAGAAACTAA
Statistics
Matches: 361, Mismatches: 66, Indels: 33
0.78 0.14 0.07
Matches are distributed among these distances:
106 6 0.02
107 19 0.05
108 14 0.04
109 9 0.02
110 32 0.09
111 1 0.00
113 1 0.00
114 6 0.02
115 118 0.33
116 5 0.01
117 144 0.40
118 6 0.02
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (117 bp):
GTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAAAAGATTTTGT
CTCGCTTGAGATAGTTTCTCTCGAAACAGAAGATTTTATCTCGCTTGAGATA
Found at i:1222045 original size:43 final size:43
Alignment explanation
Indices: 1221987--1222099 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
1221977 GGAATTGAAA
* *
1221987 AAAATTA-GGATCTCAATTATAAAGGTAAAGAGTGAGATTGA-
1 AAAATTAGGGACCTCAATTATAAAGGTAAAAAGTGAGATTGAG
* *
1222028 AAAAGTTAGGGGCCTCAATT-TAAAAGGTAAAAAGTGGGATTGAG
1 AAAA-TTAGGGACCTCAATTAT-AAAGGTAAAAAGTGAGATTGAG
**
1222072 AAAATTAGGGACCTCAGCTATAAAGGTA
1 AAAATTAGGGACCTCAATTATAAAGGTA
1222100 GAAATTGGAC
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
41 4 0.07
42 4 0.07
43 47 0.78
44 5 0.08
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.24
Consensus pattern (43 bp):
AAAATTAGGGACCTCAATTATAAAGGTAAAAAGTGAGATTGAG
Found at i:1226948 original size:17 final size:17
Alignment explanation
Indices: 1226909--1226950 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
1226899 CTACCAAATG
*
1226909 CATACATATATCATCTA
1 CATACATATATAATCTA
1226926 -ATACATATCATAAT-TA
1 CATACATAT-ATAATCTA
1226942 CATACATAT
1 CATACATAT
1226951 TGAACCAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (17 bp):
CATACATATATAATCTA
Found at i:1227390 original size:18 final size:18
Alignment explanation
Indices: 1227367--1227525 Score: 273
Period size: 18 Copynumber: 8.8 Consensus size: 18
1227357 TAGAAATTTA
*
1227367 TCCCGAATGACCACTATG
1 TCCCGAAGGACCACTATG
1227385 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTATG
1227403 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTATG
1227421 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTATG
1227439 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTATG
1227457 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTATG
*
1227475 TCCCGAAGGACCGCTATG
1 TCCCGAAGGACCACTATG
* *
1227493 TCCCGAATGACCACTATA
1 TCCCGAAGGACCACTATG
*
1227511 CCCCGAAGGACCACT
1 TCCCGAAGGACCACT
1227526 GATAATCCCT
Statistics
Matches: 134, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 134 1.00
ACGTcount: A:0.28, C:0.35, G:0.21, T:0.17
Consensus pattern (18 bp):
TCCCGAAGGACCACTATG
Found at i:1231577 original size:17 final size:17
Alignment explanation
Indices: 1231555--1231589 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1231545 CTTGAGGAGA
*
1231555 TTTGATTCATTTCGAAT
1 TTTGATTCATTCCGAAT
1231572 TTTGATTCATTCCGAAT
1 TTTGATTCATTCCGAAT
1231589 T
1 T
1231590 AAAGAATCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.51
Consensus pattern (17 bp):
TTTGATTCATTCCGAAT
Found at i:1231992 original size:43 final size:43
Alignment explanation
Indices: 1231955--1232295 Score: 445
Period size: 43 Copynumber: 7.9 Consensus size: 43
1231945 ATGCCGCCAT
* * * *
1231955 AGGTCAAGATCTATAGCGGCGTTTTTGGAACAAATGCCACAGA
1 AGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* *
1231998 AGGTCGAGATCTATAACGGCGTTTTTGGAACAAACGTCGCAAA
1 AGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
*
1232041 AGGTCGAGATCTATAGCGGTGTTTTTGGAACAAACGCCGCAAA
1 AGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* *
1232084 AGGTC-AGATCTATAGCGGCGTGTATTGGAACAAACGTCGCAAA
1 AGGTCGAGATCTATAGCGGCGT-TTTTGGAACAAACGCCGCAAA
* *
1232127 AGGT-TAGATCTATAGCGGCGTTTTTTTGAACAAACGCCGCAAA
1 AGGTCGAGATCTATAGCGGCG-TTTTTGGAACAAACGCCGCAAA
* *
1232170 AGGTCGAGATCTATAGTGGCGTTTTTGGAACAAATGCCGCAAA
1 AGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* * ** *
1232213 AGGT-TAGATCTATAGCGGCATTTTTTTAACAAATGCCGCAAA
1 AGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* **
1232255 AGGTTGAGATCTATAGCGGCGTTTTTTTATACAAACGCCGC
1 AGGTCGAGATCTATAGCGGCGTTTTTGGA-ACAAACGCCGC
1232296 TAATTACATT
Statistics
Matches: 265, Mismatches: 27, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
42 52 0.20
43 188 0.71
44 25 0.09
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (43 bp):
AGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
Found at i:1234314 original size:5 final size:5
Alignment explanation
Indices: 1234306--1234330 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1234296 TAAAACAGCT
1234306 TCTTC TCTTC TCTTC TCTTC TCTTC
1 TCTTC TCTTC TCTTC TCTTC TCTTC
1234331 AGAAATGCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
TCTTC
Found at i:1234903 original size:42 final size:41
Alignment explanation
Indices: 1234849--1235173 Score: 331
Period size: 42 Copynumber: 7.9 Consensus size: 41
1234839 TTGTAAATAC
1234849 AAACGCCACTAAAGTACGAGTC-ATTAGCGGCGTTTGTATTCA
1 AAACGCCACTAAAGTACGAGTCTA-TAGCGGCGTTTGTA-TCA
* * *
1234891 AAATGCCACTAAAGTACGAGTCTATAGCGGCATTTGCATTCA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTA-TCA
* * *
1234933 AAACGCAACTAAAGTACGAGTCTATA--GGCATTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATCA
* * * *
1234972 AAACGCCACTAAAGTACTAGTCTATAGCGGCATTTATATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATCA
* * *
1235013 AAATGCCACTAAAGTACGAGTTTATAGCGGCGTTTGGATTCA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTA-TCA
* *
1235055 AAACGCCACTAAAGTATGAGTATATAGCGGCGTTTGTAT-A
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATCA
* * * *
1235095 GAAACGCCAGTAAAGTACTAGTATATAGCGGCGTTTTTGGAT-A
1 -AAACGCCACTAAAGTACGAGTCTATAGCGGCG--TTTGTATCA
*
1235138 CAAACGCCACAAAATGT-C-AGATCTATAGCGGCGTTT
1 -AAACGCCACTAAA-GTACGAG-TCTATAGCGGCGTTT
1235174 TTGGATACAA
Statistics
Matches: 245, Mismatches: 29, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
39 26 0.11
40 10 0.04
41 77 0.31
42 99 0.40
43 31 0.13
44 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (41 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATCA
Found at i:1236493 original size:41 final size:41
Alignment explanation
Indices: 1236425--1236620 Score: 171
Period size: 41 Copynumber: 4.7 Consensus size: 41
1236415 ATTTAACATT
* *
1236425 TTGCGGCGTTTATACAAAAAAACGCCACTATTGATT-ACACTA
1 TTGCGGCATTT-TA-AAAAAAACGCCACTATTGATTAAAACTA
* * *
1236467 TTGTGGCGTTTGTAAAAAAAACGCCACTAATGATTAAAACTA
1 TTGCGGCATTT-TAAAAAAAACGCCACTATTGATTAAAACTA
* * * *
1236509 TTGCGGTATTTTTATAAAAACGCCACTATTGATTAACACTA
1 TTGCGGCATTTTAAAAAAAACGCCACTATTGATTAAAACTA
** ** * * *
1236550 TTATGGCATTTGT-CTAAAAACACCACTATTTATTATAACTA
1 TTGCGGCATTT-TAAAAAAAACGCCACTATTGATTAAAACTA
* *
1236591 TTGCGGCATTTTAAGAATAAATGCCACTAT
1 TTGCGGCATTTTAA-AAAAAACGCCACTAT
1236621 ATGTGTAATC
Statistics
Matches: 124, Mismatches: 26, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
40 1 0.01
41 86 0.69
42 37 0.30
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (41 bp):
TTGCGGCATTTTAAAAAAAACGCCACTATTGATTAAAACTA
Done.