Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold115
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: 1475684
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 7 of 10
Found at i:968381 original size:11 final size:11
Alignment explanation
Indices: 968367--968403 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
968357 TGAATCACAA
968367 AATTGTCACGT
1 AATTGTCACGT
*
968378 AATTGTCACAT
1 AATTGTCACGT
*
968389 TATTGTCACGT
1 AATTGTCACGT
968400 AATT
1 AATT
968404 AATGGAAAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (11 bp):
AATTGTCACGT
Found at i:968386 original size:22 final size:22
Alignment explanation
Indices: 968361--968403 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
968351 AGTTTTTGAA
968361 TCACAAAATTGTCACGTAATTG
1 TCACAAAATTGTCACGTAATTG
**
968383 TCACATTATTGTCACGTAATT
1 TCACAAAATTGTCACGTAATT
968404 AATGGAAAGC
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:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (22 bp):
TCACAAAATTGTCACGTAATTG
Found at i:970766 original size:12 final size:12
Alignment explanation
Indices: 970749--970777 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
970739 AATAAACCTT
970749 TTTATTTTACTC
1 TTTATTTTACTC
970761 TTTA-TTTACTC
1 TTTATTTTACTC
970772 TTTATT
1 TTTATT
970778 ACCATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTATTTTACTC
Found at i:973266 original size:65 final size:66
Alignment explanation
Indices: 973189--973332 Score: 188
Period size: 67 Copynumber: 2.2 Consensus size: 66
973179 TAAAATATAT
* * * *
973189 AAAGAACATCAAGTTTTAACAAGTATGGAAAA-AGC-CCAAAGCATTTTAATAAGCACATATAAT
1 AAAGAATATCAAGTTTCAACAAGTAT-AAAAATAGCACCAAAACATTTTAATAAGCACATATAAT
973252 AA
65 AA
* *
973254 AAAGAATATCAAGTTTCAATAAGTATAAAAATATCATCCAAAACATTTTAATAAGCACATATAAT
1 AAAGAATATCAAGTTTCAACAAGTATAAAAATAGCA-CCAAAACATTTTAATAAGCACATATAAT
973319 AA
65 AA
973321 AAA-AATA-CAAGT
1 AAAGAATATCAAGT
973333 AAAGATATAA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
64 4 0.06
65 30 0.43
66 4 0.06
67 32 0.46
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.25
Consensus pattern (66 bp):
AAAGAATATCAAGTTTCAACAAGTATAAAAATAGCACCAAAACATTTTAATAAGCACATATAATA
A
Found at i:974016 original size:15 final size:14
Alignment explanation
Indices: 973998--974069 Score: 60
Period size: 15 Copynumber: 5.0 Consensus size: 14
973988 ATAAGATTTT
973998 ATTTTAAATTAAATA
1 ATTTTAAA-TAAATA
974013 A-TTTATAATATAAT-
1 ATTTTA-AATA-AATA
974027 ATATTTAAATAAAATA
1 AT-TTTAAAT-AAATA
*
974043 ATCTTAAATAAATA
1 ATTTTAAATAAATA
*
974057 A-ATTAAATAAATA
1 ATTTTAAATAAATA
974070 TATGAGATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
13 11 0.22
14 13 0.27
15 18 0.37
16 7 0.14
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTTTAAATAAATA
Found at i:974017 original size:29 final size:30
Alignment explanation
Indices: 973985--974044 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
973975 ATATATATTT
** *
973985 TTTATAAGATTTTAT-TTTAAATTAAATAA
1 TTTATAAGATAATATATTTAAATAAAATAA
*
974014 TTTATAATATAATATATTTAAATAAAATAA
1 TTTATAAGATAATATATTTAAATAAAATAA
974044 T
1 T
974045 CTTAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (30 bp):
TTTATAAGATAATATATTTAAATAAAATAA
Found at i:975230 original size:17 final size:19
Alignment explanation
Indices: 975211--975254 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 19
975201 ATTAAGATCA
975211 TATTATTTTTTATATTATATTT
1 TATTA-TTTTTATATTATA--T
975233 TAATTATTTTTATATTATAT
1 T-ATTATTTTTATATTATAT
975253 TA
1 TA
975255 ACATATAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 1 0.05
20 2 0.10
22 14 0.67
23 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTATTTTTATATTATAT
Found at i:975858 original size:33 final size:32
Alignment explanation
Indices: 975821--975894 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 32
975811 TAATTAAAAT
*
975821 ATAATATA-AATATGTGAATATATTAAAATTTAG
1 ATAATATAGAATAT-T-AATATATCAAAATTTAG
* *
975854 ATAATATAGATTATTAATATATCAAAATTTAT
1 ATAATATAGAATATTAATATATCAAAATTTAG
975886 ATAAATATA
1 AT-AATATA
975895 TAATTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 17 0.47
33 15 0.42
34 4 0.11
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (32 bp):
ATAATATAGAATATTAATATATCAAAATTTAG
Found at i:975976 original size:35 final size:34
Alignment explanation
Indices: 975914--975981 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 34
975904 AAACATAATT
*
975914 ATAATATAAAAATTATACAACTATAACATAAATAC
1 ATAATATAAAAATTATACAAATATAACA-AAATAC
* *
975949 ATAATTATAAAAATT-TTCAAATCTAACAAAATA
1 ATAA-TATAAAAATTATACAAATATAACAAAATA
975982 TGTCTCATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 5 0.17
35 14 0.48
36 10 0.34
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (34 bp):
ATAATATAAAAATTATACAAATATAACAAAATAC
Found at i:976327 original size:38 final size:38
Alignment explanation
Indices: 976285--976360 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
976275 TCAAAGTGTT
976285 TAAGCTTGATAAAATATGGTATTATCCGTTTTTGGTGA
1 TAAGCTTGATAAAATATGGTATTATCCGTTTTTGGTGA
976323 TAAGCTTGATAAAATATGGTATTATCCGTTTTTGGTGA
1 TAAGCTTGATAAAATATGGTATTATCCGTTTTTGGTGA
976361 CAAAACTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (38 bp):
TAAGCTTGATAAAATATGGTATTATCCGTTTTTGGTGA
Found at i:978468 original size:23 final size:24
Alignment explanation
Indices: 978439--978498 Score: 88
Period size: 23 Copynumber: 2.5 Consensus size: 24
978429 TGTTTATGTA
978439 TTCATATTATATTA-ATATTATTTT
1 TTCATATTATATTATA-ATTATTTT
*
978463 TT-ATATCATATTATAATTATTTT
1 TTCATATTATATTATAATTATTTT
978486 TTCATATTATATT
1 TTCATATTATATT
978499 GTATGTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 20 0.62
24 12 0.38
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (24 bp):
TTCATATTATATTATAATTATTTT
Found at i:985683 original size:21 final size:21
Alignment explanation
Indices: 985657--985709 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
985647 AGATGTAAGA
985657 TTGAAGAAATTCAATAAAATT
1 TTGAAGAAATTCAATAAAATT
*
985678 TTGAAGAAATTCAATAAAGTT
1 TTGAAGAAATTCAATAAAATT
*
985699 TTAAAGAAATT
1 TTGAAGAAATT
985710 AAAGGTTGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.34
Consensus pattern (21 bp):
TTGAAGAAATTCAATAAAATT
Found at i:989047 original size:13 final size:13
Alignment explanation
Indices: 989029--989054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
989019 AATTTTTTGG
989029 TGTATCGATACAT
1 TGTATCGATACAT
989042 TGTATCGATACAT
1 TGTATCGATACAT
989055 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:991150 original size:21 final size:20
Alignment explanation
Indices: 991121--991163 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
991111 GGCTAGTGTG
*
991121 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
991142 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
991162 GG
1 GG
991164 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:991623 original size:13 final size:13
Alignment explanation
Indices: 991605--991643 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
991595 ATAATCCCCC
*
991605 TGTATCGATACAG
1 TGTATCGATACAA
991618 TGTATCGATACAA
1 TGTATCGATACAA
991631 TGTATCGATACAA
1 TGTATCGATACAA
991644 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:993743 original size:15 final size:15
Alignment explanation
Indices: 993723--993753 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
993713 ATTTCGTTTG
*
993723 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
993738 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
993753 G
1 G
993754 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1000326 original size:15 final size:15
Alignment explanation
Indices: 1000306--1000338 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1000296 AGTCAACGTT
1000306 ATCATTATCATCATC
1 ATCATTATCATCATC
*
1000321 ATCATTATCTTCATC
1 ATCATTATCATCATC
1000336 ATC
1 ATC
1000339 TTTGATGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (15 bp):
ATCATTATCATCATC
Found at i:1001969 original size:33 final size:33
Alignment explanation
Indices: 1001932--1001996 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1001922 TTTGGGATAA
* ***
1001932 TGTATCGATACAATTTTTTATGTATCGATACAT
1 TGTATCGATACAATATGCCATGTATCGATACAT
1001965 TGTATCGATACAATATGCCATGTATCGATACA
1 TGTATCGATACAATATGCCATGTATCGATACA
1001997 AATAGTGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATATGCCATGTATCGATACAT
Found at i:1001970 original size:13 final size:13
Alignment explanation
Indices: 1001952--1001976 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1001942 CAATTTTTTA
1001952 TGTATCGATACAT
1 TGTATCGATACAT
1001965 TGTATCGATACA
1 TGTATCGATACA
1001977 ATATGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1002070 original size:19 final size:19
Alignment explanation
Indices: 1002027--1002081 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
1002017 TGCCAGTTTA
**
1002027 ATGTATCGATATAATTGTGC
1 ATGTATCGATATAA-TGAAC
1002047 ATGTATCGATATAATGAAC
1 ATGTATCGATATAATGAAC
*
1002066 ATGTATCGATACAATG
1 ATGTATCGATATAATG
1002082 TATCGATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (19 bp):
ATGTATCGATATAATGAAC
Found at i:1002084 original size:13 final size:13
Alignment explanation
Indices: 1002066--1002091 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1002056 TATAATGAAC
1002066 ATGTATCGATACA
1 ATGTATCGATACA
1002079 ATGTATCGATACA
1 ATGTATCGATACA
1002092 TCTGGATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1004444 original size:21 final size:22
Alignment explanation
Indices: 1004420--1004474 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
1004410 ATAGTTAGAT
1004420 ATTAAATTAACTATA-TAAATA
1 ATTAAATTAACTATACTAAATA
* * *
1004441 ATTAATTTATCTATATCTATATA
1 ATTAAATTAACTATA-CTAAATA
1004464 ATTTAAATTAA
1 A-TTAAATTAA
1004475 TTCTTATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 13 0.50
23 6 0.23
24 7 0.27
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTAAATTAACTATACTAAATA
Found at i:1013346 original size:3 final size:3
Alignment explanation
Indices: 1013338--1013379 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
1013328 TTAAGATGTT
1013338 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1013380 ATATGTGTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1014089 original size:21 final size:21
Alignment explanation
Indices: 1014038--1014090 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
1014028 TTAACAAGTT
*
1014038 CATCATTTCATCCAATAAATG
1 CATCATTTCATCCAATAAATA
*
1014059 CAT-TTATTCATCCAACT-AATA
1 CATCAT-TTCATCCAA-TAAATA
1014080 CATCATTTCAT
1 CATCATTTCAT
1014091 TTAAATGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
20 1 0.04
21 23 0.88
22 2 0.08
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (21 bp):
CATCATTTCATCCAATAAATA
Found at i:1016339 original size:25 final size:25
Alignment explanation
Indices: 1016305--1016355 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
1016295 TCTAAGAGTT
1016305 TCATAGAGATGTGATTGGTAGGCTA
1 TCATAGAGATGTGATTGGTAGGCTA
1016330 TCATAGAGATGTGATTGGTAGGCTA
1 TCATAGAGATGTGATTGGTAGGCTA
1016355 T
1 T
1016356 GTTACCTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.31, T:0.33
Consensus pattern (25 bp):
TCATAGAGATGTGATTGGTAGGCTA
Found at i:1017223 original size:19 final size:19
Alignment explanation
Indices: 1017199--1017237 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1017189 AGTTACATAT
1017199 CTTTGAATGATAAAGATGC
1 CTTTGAATGATAAAGATGC
1017218 CTTTGAATGATAAAGATGC
1 CTTTGAATGATAAAGATGC
1017237 C
1 C
1017238 CCTATTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (19 bp):
CTTTGAATGATAAAGATGC
Found at i:1021714 original size:13 final size:13
Alignment explanation
Indices: 1021698--1021725 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1021688 AAGCTAGTTA
1021698 TTAACTCATGTTT
1 TTAACTCATGTTT
1021711 TTAACTCATGTTT
1 TTAACTCATGTTT
1021724 TT
1 TT
1021726 CATCCCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAACTCATGTTT
Found at i:1024169 original size:20 final size:20
Alignment explanation
Indices: 1024133--1024171 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1024123 GATTAGAAAA
*
1024133 TTTTATATAAATATATAATT
1 TTTTAAATAAATATATAATT
1024153 TTTTAAATATAAT-TATAAT
1 TTTTAAATA-AATATATAAT
1024172 ATAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTAAATAAATATATAATT
Found at i:1026219 original size:30 final size:30
Alignment explanation
Indices: 1026183--1026242 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
1026173 GATATGATGT
1026183 ACTTGCAAAGACTAAAGTCATAGTTAATGC
1 ACTTGCAAAGACTAAAGTCATAGTTAATGC
1026213 ACTTGCAAAGACTAAAGTCATAGTTAATGC
1 ACTTGCAAAGACTAAAGTCATAGTTAATGC
1026243 GTGGGCCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (30 bp):
ACTTGCAAAGACTAAAGTCATAGTTAATGC
Found at i:1026673 original size:18 final size:18
Alignment explanation
Indices: 1026646--1026681 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1026636 GGATAAATAT
*
1026646 TGTAAGCAAGAACTAGTA
1 TGTAAACAAGAACTAGTA
1026664 TGTAAACAAGAACTAGTA
1 TGTAAACAAGAACTAGTA
1026682 AGTTCAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.22
Consensus pattern (18 bp):
TGTAAACAAGAACTAGTA
Found at i:1027499 original size:3 final size:3
Alignment explanation
Indices: 1027493--1027520 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1027483 TTTTAGTAAC
1027493 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1027521 ATGCTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1027994 original size:14 final size:16
Alignment explanation
Indices: 1027974--1028012 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
1027964 AAGATAATTA
*
1027974 AAAAATAAATGAAA-G
1 AAAAATAAATAAAATG
1027989 -AAAATAAATAAAATG
1 AAAAATAAATAAAATG
1028004 AAAAATAAA
1 AAAAATAAA
1028013 GCATACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 12 0.57
15 1 0.05
16 8 0.38
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (16 bp):
AAAAATAAATAAAATG
Found at i:1029177 original size:24 final size:23
Alignment explanation
Indices: 1029149--1029193 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
1029139 AAAAGGAAAT
1029149 TTCTACTTC-AATCAACAAAATGGC
1 TTCTACTTCGAAT--ACAAAATGGC
*
1029173 TTCTAGTTCGAATACAAAATG
1 TTCTACTTCGAATACAAAATG
1029194 AGAAAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (23 bp):
TTCTACTTCGAATACAAAATGGC
Found at i:1030590 original size:19 final size:19
Alignment explanation
Indices: 1030545--1030601 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1030535 CTACCAGTTT
**
1030545 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
1030566 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1030585 CATGTATCGATAAAATG
1 CATGTATCGATACAATG
1030602 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.55
21 15 0.45
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1030608 original size:32 final size:33
Alignment explanation
Indices: 1030567--1030629 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
1030557 CAATTTGTCC
*
1030567 ATGTATCGATACAATG-AACATGTATCGATAAA
1 ATGTATCGATACAAAGCAACATGTATCGATAAA
*
1030599 ATGTATCGATACAAAGCAGCATGTATCGATA
1 ATGTATCGATACAAAGCAACATGTATCGATA
1030630 CATCTGGCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.27
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGTATCGATAAA
Found at i:1031177 original size:17 final size:17
Alignment explanation
Indices: 1031151--1031221 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 17
1031141 GTTTTCGTTT
1031151 TTCT-CCCCTTAAAAAA
1 TTCTCCCCCTTAAAAAA
**
1031167 TTCTCCCCCTTAAACGA
1 TTCTCCCCCTTAAAAAA
* **
1031184 TTATCTCCTTTATAAAAAA
1 TTCTC-CCCCT-TAAAAAA
* *
1031203 TTCTCTCCCTTAAACAA
1 TTCTCCCCCTTAAAAAA
1031220 TT
1 TT
1031222 ATCTTCTCCC
Statistics
Matches: 40, Mismatches: 12, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
16 4 0.10
17 22 0.55
18 5 0.12
19 9 0.22
ACGTcount: A:0.32, C:0.30, G:0.01, T:0.37
Consensus pattern (17 bp):
TTCTCCCCCTTAAAAAA
Found at i:1033111 original size:13 final size:13
Alignment explanation
Indices: 1033093--1033119 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1033083 ACATGCTGCT
1033093 TTGTATCGATACA
1 TTGTATCGATACA
1033106 TTGTATCGATACA
1 TTGTATCGATACA
1033119 T
1 T
1033120 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1033116 original size:33 final size:32
Alignment explanation
Indices: 1033074--1033138 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1033064 CACACCCAGA
*
1033074 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
1033107 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
1033139 GGCCAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:1033150 original size:21 final size:19
Alignment explanation
Indices: 1033104--1033160 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1033094 TGTATCGATA
**
1033104 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGGC
1033123 CATTGTATCGATACATGGC
1 CATTGTATCGATACATGGC
1033142 CAAATTGTATCGATACATG
1 C--ATTGTATCGATACATG
1033161 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGGC
Found at i:1038691 original size:13 final size:13
Alignment explanation
Indices: 1038673--1038701 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1038663 ACAACATTCC
1038673 TTGTATCGATACA
1 TTGTATCGATACA
1038686 TTGTATCGATACA
1 TTGTATCGATACA
1038699 TTG
1 TTG
1038702 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1041199 original size:13 final size:13
Alignment explanation
Indices: 1041181--1041206 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1041171 TGCTGCTTTG
1041181 TGTATCGATACAT
1 TGTATCGATACAT
1041194 TGTATCGATACAT
1 TGTATCGATACAT
1041207 GTTCATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1041302 original size:20 final size:19
Alignment explanation
Indices: 1041277--1041329 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
1041267 TATCACTATT
1041277 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
1041297 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
1041317 TGTATCGATACAT
1 TGTATCGATACAT
1041330 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:1047708 original size:20 final size:20
Alignment explanation
Indices: 1047683--1047748 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
1047673 GTTACAAGCT
1047683 ATGTATCGATACATTTCTTC
1 ATGTATCGATACATTTCTTC
1047703 ATGTATCGATACA-------
1 ATGTATCGATACATTTCTTC
*
1047716 ATGTATCAATACATTTCTTC
1 ATGTATCGATACATTTCTTC
1047736 ATGTATCGATACA
1 ATGTATCGATACA
1047749 ATGTATCGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 12 0.32
20 25 0.68
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTCTTC
Found at i:1047721 original size:13 final size:13
Alignment explanation
Indices: 1047703--1047761 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
1047693 ACATTTCTTC
1047703 ATGTATCGATACA
1 ATGTATCGATACA
*
1047716 ATGTATCAATAC-
1 ATGTATCGATACA
*
1047728 AT-T-TC--TTC-
1 ATGTATCGATACA
1047736 ATGTATCGATACA
1 ATGTATCGATACA
1047749 ATGTATCGATACA
1 ATGTATCGATACA
1047762 TTTTACCATG
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
8 4 0.11
9 1 0.03
10 4 0.11
11 1 0.03
12 4 0.11
13 24 0.63
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1047721 original size:33 final size:33
Alignment explanation
Indices: 1047683--1047782 Score: 166
Period size: 33 Copynumber: 3.0 Consensus size: 33
1047673 GTTACAAGCT
1047683 ATGTATCGATACATTTCTTCATGTATCGATACA
1 ATGTATCGATACATTTCTTCATGTATCGATACA
*
1047716 ATGTATCAATACATTTCTTCATGTATCGATACA
1 ATGTATCGATACATTTCTTCATGTATCGATACA
*
1047749 ATGTATCGATACATTT-TACCATGTATCGATACA
1 ATGTATCGATACATTTCT-TCATGTATCGATACA
1047782 A
1 A
1047783 ATAGTGATAG
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
32 1 0.02
33 62 0.98
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (33 bp):
ATGTATCGATACATTTCTTCATGTATCGATACA
Found at i:1047860 original size:19 final size:19
Alignment explanation
Indices: 1047811--1047867 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1047801 CTGCCAGTTT
**
1047811 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
*
1047832 CATTTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1047851 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1047868 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 18 0.56
21 14 0.44
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1047870 original size:13 final size:13
Alignment explanation
Indices: 1047852--1047878 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1047842 TACAATGAAC
1047852 ATGTATCGATACA
1 ATGTATCGATACA
1047865 ATGTATCGATACA
1 ATGTATCGATACA
1047878 A
1 A
1047879 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1047893 original size:33 final size:32
Alignment explanation
Indices: 1047836--1047897 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
1047826 TTTGTCCATT
*
1047836 TATCGATACAATGAACATGTATCGATACAATG
1 TATCGATACAAAGAACATGTATCGATACAATG
*
1047868 TATCGATACAAAGCAGCATGTATCGATACA
1 TATCGATACAAAG-AACATGTATCGATACA
1047898 TCTAGGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (32 bp):
TATCGATACAAAGAACATGTATCGATACAATG
Found at i:1051172 original size:28 final size:28
Alignment explanation
Indices: 1051131--1051202 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
1051121 GTGAAAATCG
*
1051131 AGGTTGGAGTATCCCTTCGAAGATGGTA
1 AGGTTGGAGTATCCCTTCGAAGATAGTA
* *
1051159 AGGTTGGAGCATCCCCTCGAAGATAGTA
1 AGGTTGGAGTATCCCTTCGAAGATAGTA
*
1051187 GGGTTGGAGTATCCCT
1 AGGTTGGAGTATCCCT
1051203 AGAGATGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (28 bp):
AGGTTGGAGTATCCCTTCGAAGATAGTA
Found at i:1051441 original size:161 final size:160
Alignment explanation
Indices: 1051160--1051500 Score: 404
Period size: 161 Copynumber: 2.1 Consensus size: 160
1051150 AAGATGGTAA
* * * *
1051160 GGTTGGAGCATCCCCTCGAAGATAGTAGGGTTGGAGTATCCCTAGAGATGTAAAATTTTGATGTT
1 GGTTAGAGTATCCCCTCGAAGATAGTAGGGTTAGAGTATCCCTAGAGATGTAAAAATTTGATGTT
* * *
1051225 TTAGAAGTAAAAATGGGGTTGGAGTATCCCCTTGAATATGGTAGGGTTAGAGTATCCCTTGAGAT
66 TGAGAAATAAAAATGGGGTTGGAGTATCCCCTTGAATATGGTAGGGTTAGAGTATCCC-TAAGAT
* * * *
1051290 TAAAATTTTGGTGTTTTAGAGGTAAAAACTGG
130 GAAAATGTTGATGTTTTAGAAGTAAAAAC-GG
* *
1051322 GGTTAGAGTATCCCCTC-ATAGATAGTGGTGGTTAGAGTATCCC-AGAGATG-AAAAATTTGGTG
1 GGTTAGAGTATCCCCTCGA-AGATAGTAG-GGTTAGAGTATCCCTAGAGATGTAAAAATTTGATG
* * * *
1051384 TTTGGGAAATAAAAATGGGGTTGGAGTAT-CCTTTCGGAA-ATGGTGGGGTTGGAGTATCCCTAA
64 TTTGAGAAATAAAAATGGGGTTGGAGTATCCCCTT--GAATATGGTAGGGTTAGAGTATCCCTAA
* *
1051447 GATGAACATGTTGATGTTTTAGAAGTAAATACGG
127 GATGAAAATGTTGATGTTTTAGAAGTAAAAACGG
* *
1051481 GGTTACAGTATCCCTTCGAA
1 GGTTAGAGTATCCCCTCGAA
1051501 AATGCTGGGG
Statistics
Matches: 153, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
159 18 0.12
160 33 0.22
161 56 0.37
162 33 0.22
163 13 0.08
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.31
Consensus pattern (160 bp):
GGTTAGAGTATCCCCTCGAAGATAGTAGGGTTAGAGTATCCCTAGAGATGTAAAAATTTGATGTT
TGAGAAATAAAAATGGGGTTGGAGTATCCCCTTGAATATGGTAGGGTTAGAGTATCCCTAAGATG
AAAATGTTGATGTTTTAGAAGTAAAAACGG
Found at i:1051452 original size:79 final size:80
Alignment explanation
Indices: 1051160--1051813 Score: 446
Period size: 80 Copynumber: 8.2 Consensus size: 80
1051150 AAGATGGTAA
* * * * *
1051160 GGTTGGAGCATCCCCTC-GAAGATAGTAGGGTTGGAGTATCCCTAGAGATGTAAAATTTTGATGT
1 GGTTGGAGTATCCCTTCAGAA-ATGGTGGGGTTGGAGTATCCCTAGAGATG-AAAAATTTGATGT
*
1051224 TTTAGAAGTAAAAATGG
64 TTTAGAAATAAAAATGG
* * * * * *
1051241 GGTTGGAGTATCCCCTT--GAATATGGTAGGGTTAGAGTATCCCTTGAGATTAAAATTTTGGTGT
1 GGTTGGAGTAT-CCCTTCAGAA-ATGGTGGGGTTGGAGTATCCCTAGAGATGAAAAATTTGATGT
**
1051304 TTTAGAGGTAAAAACTGG
64 TTTAGAAATAAAAA-TGG
* * * * * * *
1051322 GGTTAGAGTATCCCCTCATAGATAGTGGTGGTTAGAGTATCCC-AGAGATGAAAAATTTGGTGTT
1 GGTTGGAGTATCCCTTCAGAAATGGTGG-GGTTGGAGTATCCCTAGAGATGAAAAATTTGATGTT
**
1051386 TGGGAAATAAAAATGG
65 TTAGAAATAAAAATGG
* * *
1051402 GGTTGGAGTATCCTTTCGGAAATGGTGGGGTTGGAGTATCCCTA-AGATG-AACATGTTGATGTT
1 GGTTGGAGTATCCCTTCAGAAATGGTGGGGTTGGAGTATCCCTAGAGATGAAAAAT-TTGATGTT
* * *
1051465 TTAGAAGTAAATACGG
65 TTAGAAATAAAAATGG
** * * **
1051481 GGTTACAGTATCCCTTC-GAAAATGCTGGGGTTGGAGCAT-CCTA-AGGATGAAGAAATTCAATG
1 GGTTGGAGTATCCCTTCAG-AAATGGTGGGGTTGGAGTATCCCTAGA-GATGAA-AAATTTGATG
* **
1051543 TTTTAAAAATAAAAACAG
63 TTTTAGAAATAAAAATGG
* * * * * * * *
1051561 AGTTAGAGTATCCCCTC-G-AATGGTTGGGTTGAAATATCCC-AGAGATGAAAAATTCGGTGTTT
1 GGTTGGAGTATCCCTTCAGAAATGGTGGGGTTGGAGTATCCCTAGAGATGAAAAATTTGATGTTT
**
1051623 GGGAAATAAAAATGG
66 TAGAAATAAAAATGG
* * * ** * *
1051638 GATTGGAGTATCCTCTT-AGAGATGGTGAGGTTAAAGTATTCCCT-GAAATGAAAATTTTGATGT
1 GGTTGGAGTATCC-CTTCAGAAATGGTGGGGTTGGAGTA-TCCCTAGAGATGAAAAATTTGATGT
* *
1051701 TTTAGGAGTAAAAACAT-G
64 TTTAGAAAT-AAAA-ATGG
* * * *
1051719 GG-TGGAGTATCCTTTCAAAAAAT-GTGGGGTTGGAGTA-CCTCCAGAGATGAAAAATTCGATGT
1 GGTTGGAGTATCCCTTC-AGAAATGGTGGGGTTGGAGTATCC-CTAGAGATGAAAAATTTGATGT
*
1051781 TTTA-AAAGTGAAAATGG
64 TTTAGAAA-TAAAAATGG
* *
1051798 GGTTGGTGTACCCCTT
1 GGTTGGAGTATCCCTT
1051814 TTGATGTTTT
Statistics
Matches: 448, Mismatches: 98, Indels: 55
0.75 0.16 0.09
Matches are distributed among these distances:
77 31 0.07
78 38 0.08
79 98 0.22
80 164 0.37
81 96 0.21
82 21 0.05
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (80 bp):
GGTTGGAGTATCCCTTCAGAAATGGTGGGGTTGGAGTATCCCTAGAGATGAAAAATTTGATGTTT
TAGAAATAAAAATGG
Found at i:1051636 original size:236 final size:237
Alignment explanation
Indices: 1051359--1051787 Score: 584
Period size: 237 Copynumber: 1.8 Consensus size: 237
1051349 GTGGTTAGAG
* * *
1051359 TATCCCAGAGATGAAAAATTTGGTGTTTGGGAAATAAAAATGGGGTTGGAGTATCCT-TTCGGAA
1 TATCCCAGAGATGAAAAATTCGGTGTTTGGGAAATAAAAATGGGATTGGAGTATCCTCTT-AGAA
* ** * *
1051423 ATGGTGGGGTTGGAGTA-TCCCT-AAGATGAACATGTTGATGTTTTAGAAGTAAATAC-GGGGTT
65 ATGGTGAGGTTAAAGTATTCCCTGAA-ATGAAAATGTTGATGTTTTAGAAGTAAAAACAGGGG-T
*
1051485 ACAGTATCCCTTC-GAAAATGCTGGGGTTGGAGCATCCT-AAG-GATGAAGAAATTCAATGTTTT
128 ACAGTATCCCTTCAAAAAATG-TGGGGTTGGAGCA-CCTCAAGAGATGAA-AAATTCAATGTTTT
1051547 AAAAATAAAAACAGAGTTAGAGTATCCCCTCGAATGGTTGGGTTGAAA
190 AAAAATAAAAACAGAGTTAGAGTATCCCCTCGAATGGTTGGGTTGAAA
*
1051595 TATCCCAGAGATGAAAAATTCGGTGTTTGGGAAATAAAAATGGGATTGGAGTATCCTCTTAGAGA
1 TATCCCAGAGATGAAAAATTCGGTGTTTGGGAAATAAAAATGGGATTGGAGTATCCTCTTAGAAA
* * * **
1051660 TGGTGAGGTTAAAGTATTCCCTGAAATGAAAATTTTGATGTTTTAGGAGTAAAAACATGGGTGGA
66 TGGTGAGGTTAAAGTATTCCCTGAAATGAAAATGTTGATGTTTTAGAAGTAAAAACAGGGGTACA
* * * *
1051725 GTATCCTTTCAAAAAATGTGGGGTTGGAGTACCTCCAGAGATGAAAAATTCGATGTTTTAAAA
131 GTATCCCTTCAAAAAATGTGGGGTTGGAGCACCTCAAGAGATGAAAAATTCAATGTTTTAAAA
1051788 GTGAAAATGG
Statistics
Matches: 167, Mismatches: 19, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
236 74 0.44
237 76 0.46
238 17 0.10
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (237 bp):
TATCCCAGAGATGAAAAATTCGGTGTTTGGGAAATAAAAATGGGATTGGAGTATCCTCTTAGAAA
TGGTGAGGTTAAAGTATTCCCTGAAATGAAAATGTTGATGTTTTAGAAGTAAAAACAGGGGTACA
GTATCCCTTCAAAAAATGTGGGGTTGGAGCACCTCAAGAGATGAAAAATTCAATGTTTTAAAAAT
AAAAACAGAGTTAGAGTATCCCCTCGAATGGTTGGGTTGAAA
Found at i:1053946 original size:136 final size:140
Alignment explanation
Indices: 1053615--1053967 Score: 352
Period size: 136 Copynumber: 2.5 Consensus size: 140
1053605 AGGATAAAAG
* *
1053615 AGGTGCCACTAGCTTGTGTAGGCTTTAAAAAGAAAAAGATATCTTGCTCTTTGAGGACT-AAAAG
1 AGGTGCCACAAGCTTGTGTAGGCTTT-GAAAGAAAAAG-TATCTTGCTCTTTGAGGACTAAAAAG
* * * * * * *
1053679 GATAAAAGGGGTGCTACCATCTTGTATAGGCTTCTTTTAAAAAAAGAAAGCATCTTGCTTTTTGA
64 G-TAAAA--GGTACTACCATCTTATATAGGC-GCTTTTAAAAAAAAAAACCATCTTGCTCTTTAA
1053744 GGACTAACAATGGATAAA
125 GGACTAACAAT-G-TAAA
** * * * *
1053762 AGGTGCCACAAATTTATTTAGGCTTTG-AA-AAAAA-CATCTTGCTTTTTGAGGACTAAAAAGGT
1 AGGTGCCACAAGCTTGTGTAGGCTTTGAAAGAAAAAGTATCTTGCTCTTTGAGGACTAAAAAGGT
*
1053824 AAAAGGTACTATCGA-CTTATAT-GG-GC-TTTAAAAAAGAAAAACCAT-TATGCTCTTTAAGGA
66 AAAAGGTACTA-CCATCTTATATAGGCGCTTTTAAAAAA-AAAAACCATCT-TGCTCTTTAAGGA
1053884 CT-A-AAT-TAAA
128 CTAACAATGTAAA
*
1053894 AGGTGCCACCAGCTTGTGTAGGCTTTGAAAGAAAAAGGTATCTTGCTCTTTGAGGACTAAAAAGA
1 AGGTGCCACAAGCTTGTGTAGGCTTTGAAAGAAAAA-GTATCTTGCTCTTTGAGGACTAAAAAG-
1053959 GTAAAAGGT
64 GTAAAAGGT
1053968 GCCATTAGCT
Statistics
Matches: 174, Mismatches: 23, Indels: 28
0.77 0.10 0.12
Matches are distributed among these distances:
132 26 0.15
133 2 0.01
134 5 0.03
135 3 0.02
136 35 0.20
137 30 0.17
139 2 0.01
140 12 0.07
141 2 0.01
142 23 0.13
143 6 0.03
144 5 0.03
145 2 0.01
147 21 0.12
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (140 bp):
AGGTGCCACAAGCTTGTGTAGGCTTTGAAAGAAAAAGTATCTTGCTCTTTGAGGACTAAAAAGGT
AAAAGGTACTACCATCTTATATAGGCGCTTTTAAAAAAAAAAACCATCTTGCTCTTTAAGGACTA
ACAATGTAAA
Found at i:1053978 original size:70 final size:69
Alignment explanation
Indices: 1053597--1054072 Score: 301
Period size: 70 Copynumber: 6.7 Consensus size: 69
1053587 ACTATTTAAC
* * **
1053597 GACTAAACAGGATAAAAGAGGTGCCACTAGCTTGTGTAGGCTTTAAAAAGAAAAAGATATCTTGC
1 GACTAAAAAGG-T-AAA-AGGTGCCACTAGCTTGTGTAGGCTTT-GAAAGAAAAAGGCATCTTGC
1053662 TCTTTGAG
62 TCTTTGAG
* * * * * * *
1053670 GACT-AAAAGGATAAAAGGGGTGCTACCATCTTGTATAGGCTTCTTTTAAAAAAAGAAAGCATCT
1 GACTAAAAAGG-TAAAA--GGTGCCACTAGCTTGTGTAGG---CTTTGAAAGAAA-AAGGCATCT
*
1053734 TGCTTTTTGAG
59 TGCTCTTTGAG
* * ** * * *
1053745 GACTAACAATGGATAAAAGGTGCCACAAATTTATTTAGGCTTTG-AA-AAAAA--CATCTTGCTT
1 GACTAA-AAAGG-TAAAAGGTGCCACTAGCTTGTGTAGGCTTTGAAAGAAAAAGGCATCTTGCTC
1053806 TTTGAG
64 TTTGAG
* * * * * * * *
1053812 GACTAAAAAGGTAAAAGGTACTA-TCGACTTATATGGGCTTTAAAAAAGAAAAA-CCAT-TATGC
1 GACTAAAAAGGTAAAAGGTGCCACTAG-CTTGTGTAGGCTTT--GAAAGAAAAAGGCATCT-TGC
*
1053874 TCTTTAAG
62 TCTTTGAG
* * *
1053882 GACT--AAA-TTAAAAGGTGCCACCAGCTTGTGTAGGCTTTGAAAGAAAAAGGTATCTTGCTCTT
1 GACTAAAAAGGTAAAAGGTGCCACTAGCTTGTGTAGGCTTTGAAAGAAAAAGGCATCTTGCTCTT
1053944 TGAG
66 TGAG
* * *
1053948 GACTAAAAAGAGTAAAAGGTGCCATTAGCTTGTGTGGGCTTTGAAAAAAAAAGGGCAT-TATGCT
1 GACTAAAAAG-GTAAAAGGTGCCACTAGCTTGTGTAGGCTTTGAAAGAAAAA-GGCATCT-TGCT
*
1054012 CTTTGAT
63 CTTTGAG
* * * * *
1054019 GACTAAAAAGGATAAAAGGGGTACCACTAGCTTGTATGGGCTTTAAAAAAAAAA
1 GACTAAAAAGG-TAAAA--GGTGCCACTAGCTTGTGTAGGCTTTGAAAGAAAAA
1054073 AGAAAAGGGG
Statistics
Matches: 322, Mismatches: 54, Indels: 54
0.75 0.13 0.13
Matches are distributed among these distances:
65 30 0.09
66 20 0.06
67 44 0.14
68 9 0.03
69 8 0.02
70 58 0.18
71 34 0.11
72 28 0.09
73 35 0.11
74 6 0.02
75 39 0.12
76 1 0.00
77 10 0.03
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.28
Consensus pattern (69 bp):
GACTAAAAAGGTAAAAGGTGCCACTAGCTTGTGTAGGCTTTGAAAGAAAAAGGCATCTTGCTCTT
TGAG
Found at i:1053995 original size:137 final size:135
Alignment explanation
Indices: 1053615--1054025 Score: 377
Period size: 137 Copynumber: 3.0 Consensus size: 135
1053605 AGGATAAAAG
* * *
1053615 AGGTGCCACTAGCTTGTGTAGGCTTTAAAAAGAAAAAGATATCTTGCTCTTTGAGGACTAAAAGG
1 AGGTGCCACAAGCTTGTGTAGGCTTT-GAAAGAAAAAG-TATCTTGCTCTTTGAGGACTAAAAAG
* * * * *
1053680 A-TAAAAGGGGTGCTACCATCTTGTATAGGCTTCTTTTAAAAAAAGAAAGCATCT-TGCTTTTTG
64 AGTAAAA--GGTGCTA-TAGCTTGTAT-GG--GC-TTTAAAAAAAAAAAGCAT-TATGCTCTTTG
1053743 AGGACTAACAATGGATAAA
121 AGGACT-A-AAT-G-TAAA
** * * * *
1053762 AGGTGCCACAAATTTATTTAGGCTTTG-AA-AAAAA-CATCTTGCTTTTTGAGGACTAAAAAG-G
1 AGGTGCCACAAGCTTGTGTAGGCTTTGAAAGAAAAAGTATCTTGCTCTTTGAGGACTAAAAAGAG
* * * * *
1053823 TAAAAGGTACTATCGACTTATATGGGCTTTAAAAAAGAAAAACCATTATGCTCTTTAAGGACTAA
66 TAAAAGGTGCTATAG-CTTGTATGGGCTTTAAAAAA-AAAAAGCATTATGCTCTTTGAGGACTAA
1053888 AT-TAAA
129 ATGTAAA
*
1053894 AGGTGCCACCAGCTTGTGTAGGCTTTGAAAGAAAAAGGTATCTTGCTCTTTGAGGACTAAAAAGA
1 AGGTGCCACAAGCTTGTGTAGGCTTTGAAAGAAAAA-GTATCTTGCTCTTTGAGGACTAAAAAGA
* * ** *
1053959 GTAAAAGGTGCCATTAGCTTGTGTGGGCTTTGAAAAAAAAAGGGCATTATGCTCTTTGATGACTA
65 GTAAAAGGTGCTA-TAGCTTGTATGGGCTTT-AAAAAAAAAAAGCATTATGCTCTTTGAGGACTA
1054024 AA
128 AA
1054026 AAGGATAAAA
Statistics
Matches: 217, Mismatches: 36, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
132 26 0.12
133 2 0.01
134 5 0.02
135 3 0.01
136 35 0.16
137 68 0.31
138 8 0.04
139 2 0.01
140 12 0.06
142 28 0.13
144 5 0.02
145 2 0.01
147 21 0.10
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.29
Consensus pattern (135 bp):
AGGTGCCACAAGCTTGTGTAGGCTTTGAAAGAAAAAGTATCTTGCTCTTTGAGGACTAAAAAGAG
TAAAAGGTGCTATAGCTTGTATGGGCTTTAAAAAAAAAAAGCATTATGCTCTTTGAGGACTAAAT
GTAAA
Found at i:1054183 original size:44 final size:44
Alignment explanation
Indices: 1054133--1054239 Score: 119
Period size: 45 Copynumber: 2.4 Consensus size: 44
1054123 GCGTCTTGCT
* * *
1054133 CTTTGAAGACTAAAAAGGTAAAAG-GTGCCACCAGCATGTATGGG
1 CTTTGAAAACAAAAAAAG-AAAAGAGTGCCACCAGCATGTATGGG
* * *
1054177 CTTTGAAAAAGAAAAAAAGAAAAGAGTGCCACCAGCTTGTGTGGG
1 CTTTG-AAAACAAAAAAAGAAAAGAGTGCCACCAGCATGTATGGG
1054222 CTTTGAAAA-AAGAAAAAG
1 CTTTGAAAACAA-AAAAAG
1054240 CGTCTTACTT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
43 2 0.04
44 20 0.37
45 32 0.59
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (44 bp):
CTTTGAAAACAAAAAAAGAAAAGAGTGCCACCAGCATGTATGGG
Found at i:1054192 original size:121 final size:115
Alignment explanation
Indices: 1053982--1054297 Score: 340
Period size: 120 Copynumber: 2.7 Consensus size: 115
1053972 TTAGCTTGTG
** * * *
1053982 TGGGCTTTG-AAAAAAAAAGGGCAT-TATGCTCTTTGATGACTAAAAAGGATAAAAGGGGTACCA
1 TGGGCTTTGAAAAAAAAAAAAGCGTCT-TGCTCTTTGAAGACTAAAAAGG-TAAAA--GGTGCCA
* *
1054045 CTAGCTTGTATGGGCTTT--AAAAAAAAAAAGAAAAGGGGTGCCACCAGCTTATA
62 CCAGCTTGTATGGGCTTTGAAAAAAAAAAAAGAAAA-GAGTGCCACCAGCTTATA
*
1054098 TGGGTTTTGAAAAAGTAAAAGGAAAGCGTCTTGCTCTTTGAAGACTAAAAAGGTAAAAGGTGCCA
1 TGGGCTTTGAAAAA--AAAA--AAAGCGTCTTGCTCTTTGAAGACTAAAAAGGTAAAAGGTGCCA
* * *
1054163 CCAGCATGTATGGGCTTTGAAAAAGAAAAAAAGAAAAGAGTGCCACCAGCTTGTG
62 CCAGCTTGTATGGGCTTTGAAAAA-AAAAAAAGAAAAGAGTGCCACCAGCTTATA
* * * * *
1054218 TGGGCTTTGAAAAAAGAAAAAGCGTCTTACTTTTTGAGGACT-AAAA--TAAAGGGTGCCACCAG
1 TGGGCTTTGAAAAAAAAAAAAGCGTCTTGCTCTTTGAAGACTAAAAAGGTAAAAGGTGCCACCAG
*
1054280 TTTGTATGGGCTTTGAAA
66 CTTGTATGGGCTTTGAAA
1054298 GAATTAAGGA
Statistics
Matches: 172, Mismatches: 19, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
113 31 0.18
115 4 0.02
116 29 0.17
117 4 0.02
118 25 0.15
119 4 0.02
120 37 0.22
121 37 0.22
122 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (115 bp):
TGGGCTTTGAAAAAAAAAAAAGCGTCTTGCTCTTTGAAGACTAAAAAGGTAAAAGGTGCCACCAG
CTTGTATGGGCTTTGAAAAAAAAAAAAGAAAAGAGTGCCACCAGCTTATA
Found at i:1054208 original size:45 final size:45
Alignment explanation
Indices: 1054152--1054238 Score: 140
Period size: 45 Copynumber: 1.9 Consensus size: 45
1054142 CTAAAAAGGT
1054152 AAAAGGTGCCACCAGCATGTATGGGCTTTG-AAAAAGAAAAAAAG
1 AAAAGGTGCCACCAGCATGTATGGGCTTTGAAAAAAGAAAAAAAG
* *
1054196 AAAAGAGTGCCACCAGCTTGTGTGGGCTTTGAAAAAAGAAAAA
1 AAAAG-GTGCCACCAGCATGTATGGGCTTTGAAAAAAGAAAAA
1054239 GCGTCTTACT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 5 0.13
45 23 0.59
46 11 0.28
ACGTcount: A:0.44, C:0.14, G:0.25, T:0.17
Consensus pattern (45 bp):
AAAAGGTGCCACCAGCATGTATGGGCTTTGAAAAAAGAAAAAAAG
Found at i:1054314 original size:120 final size:116
Alignment explanation
Indices: 1053952--1054431 Score: 331
Period size: 116 Copynumber: 4.0 Consensus size: 116
1053942 TTTGAGGACT
* ** ** * *
1053952 AAAAAGAGTAAAAG-GTGCCATTAGCTTGTGTGGGCTTTGAAAAAA-AAAGGGCAT-TATGCTCT
1 AAAAAAAG-AAAAGAGTGCCACCAGCTTGTGTGGGCTTTGAAAAAAGAAAAAGCGTCT-TGCTTT
* * * *
1054014 TTGATGACTAAAAAGGATAAAAGGGGTACCACTAGCTTGTATGGGCTTT---AAA-A
64 TTGAGGACTAAAAA-G-TAAAA--GGTGCCACCAGCATGTATGGGCTTTGAAAAAGA
* * * * *
1054067 AAAAAAAGAAAAGGGGTGCCACCAGCTTATATGGGTTTTGAAAAAGTAAAAGGAAAGCGTCTTGC
1 AAAAAAAGAAAA-GAGTGCCACCAGCTTGTGTGGGCTTTGAAAAA--AGAA--AAAGCGTCTTGC
* *
1054132 TCTTTGAAGACTAAAAAGGTAAAAGGTGCCACCAGCATGTATGGGCTTTGAAAAAG-
61 TTTTTGAGGACTAAAAA-GTAAAAGGTGCCACCAGCATGTATGGGCTTTGAAAAAGA
*
1054188 AAAAAAAGAAAAGAGTGCCACCAGCTTGTGTGGGCTTTGAAAAAAGAAAAAGCGTCTTACTTTTT
1 AAAAAAAGAAAAGAGTGCCACCAGCTTGTGTGGGCTTTGAAAAAAGAAAAAGCGTCTTGCTTTTT
* **
1054253 GAGGACT-AAAA-TAAAGGGTGCCACCAGTTTGTATGGGCTTTGAAAGAATTAAGGA
66 GAGGACTAAAAAGTAAAAGGTGCCACCAGCATGTATGGGCTTTG--A-AA--AA-GA
* * * * **
1054308 CTAAAAAAGATAAAAAAAGGTACCACCAACTTGTGTGGGCTTT--AAAAAGAAAAAGTATCTTGC
1 --AAAAAA-A-GAAAAGA-GTGCCACCAGCTTGTGTGGGCTTTGAAAAAAGAAAAAGCGTCTTGC
* * * * * *
1054371 TTTTTGAGGAC-AAAGAAGGTAAAAGATACCACCATCTTGT-TGGACTTTGGAAAAGA
61 TTTTTGAGGACTAAA-AA-GTAAAAGGTGCCACCAGCATGTATGGGCTTTGAAAAAGA
1054427 AAAAA
1 AAAAA
1054432 GAAAAGCATC
Statistics
Matches: 299, Mismatches: 38, Indels: 54
0.76 0.10 0.14
Matches are distributed among these distances:
113 28 0.09
114 4 0.01
115 13 0.04
116 48 0.16
117 5 0.02
118 28 0.09
119 5 0.02
120 35 0.12
121 40 0.13
122 9 0.03
123 31 0.10
124 7 0.02
125 30 0.10
126 16 0.05
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (116 bp):
AAAAAAAGAAAAGAGTGCCACCAGCTTGTGTGGGCTTTGAAAAAAGAAAAAGCGTCTTGCTTTTT
GAGGACTAAAAAGTAAAAGGTGCCACCAGCATGTATGGGCTTTGAAAAAGA
Found at i:1058525 original size:12 final size:12
Alignment explanation
Indices: 1058508--1058550 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
1058498 GGAACTCAGC
*
1058508 AAAAAAAGAGGG
1 AAAAAAAGAGAG
1058520 AAAAAAAGAGAG
1 AAAAAAAGAGAG
1058532 AAAAAAA-AGA-
1 AAAAAAAGAGAG
*
1058542 AAAACAAGA
1 AAAAAAAGA
1058551 AAAAATAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 6 0.21
11 4 0.14
12 18 0.64
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAGAG
Found at i:1062565 original size:99 final size:99
Alignment explanation
Indices: 1062425--1062619 Score: 320
Period size: 99 Copynumber: 2.0 Consensus size: 99
1062415 AGTTGGGACA
* * *
1062425 GTGCCAACAAGCTAGATTTACAGTAAAGTATGGGCAGGTGGCCTTGTTGTTGAGAGTTCACATAG
1 GTGCCAACAAGCTAGATTTACAGTAAAGTACGGACAGGTGGCCTTATTGTTGAGAGTTCACATAG
* *
1062490 ATGAAGAGCTAGTTCGAGCTCTGATAGAATTTCC
66 ATGAACAACTAGTTCGAGCTCTGATAGAATTTCC
*
1062524 GTGCCAACAAGCTAGATTTACA-TCAAAGTACGGACATGTGGCCTTATTGTTGAGAGTTCACATA
1 GTGCCAACAAGCTAGATTTACAGT-AAAGTACGGACAGGTGGCCTTATTGTTGAGAGTTCACATA
1062588 GATGAACAACTAGTTCGAGCTCTGATAGAATT
65 GATGAACAACTAGTTCGAGCTCTGATAGAATT
1062620 CTAGGATCCC
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 1 0.01
99 88 0.99
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (99 bp):
GTGCCAACAAGCTAGATTTACAGTAAAGTACGGACAGGTGGCCTTATTGTTGAGAGTTCACATAG
ATGAACAACTAGTTCGAGCTCTGATAGAATTTCC
Found at i:1069560 original size:20 final size:20
Alignment explanation
Indices: 1069535--1069584 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1069525 TTCCTGCATG
*
1069535 TATCGATACAATGAAGAATA
1 TATCGATACAATAAAGAATA
*
1069555 TATCGATACAATAAAGAATG
1 TATCGATACAATAAAGAATA
*
1069575 TATCAATACA
1 TATCGATACA
1069585 TTTGGGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (20 bp):
TATCGATACAATAAAGAATA
Found at i:1069716 original size:20 final size:20
Alignment explanation
Indices: 1069673--1069733 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
1069663 TGACATGATC
* **
1069673 ATGTATCGATACATTTCAGAT
1 ATGTATCGATATA-TTCACTT
1069694 ATGTATCGATATATTCACTT
1 ATGTATCGATATATTCACTT
*
1069714 ATGTATCAATATATTACACT
1 ATGTATCGATATATT-CACT
1069734 ATTGTATCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 19 0.54
21 16 0.46
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (20 bp):
ATGTATCGATATATTCACTT
Found at i:1069739 original size:21 final size:20
Alignment explanation
Indices: 1069693--1069742 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1069683 ACATTTCAGA
*
1069693 TATGTATCGATATATTCACT
1 TATGTATCAATATATTCACT
1069713 TATGTATCAATATATTACAC-
1 TATGTATCAATATATT-CACT
1069733 TATTGTATCA
1 TA-TGTATCA
1069743 TACAATTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (20 bp):
TATGTATCAATATATTCACT
Found at i:1074078 original size:28 final size:28
Alignment explanation
Indices: 1074047--1074106 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
1074037 TTAAAGTTTT
1074047 CCCTCAG-AATCGATGGGGTTGGAGTATC
1 CCCTCAGAAAT-GATGGGGTTGGAGTATC
** * *
1074075 CCCTTGGAAATGGTGGGGTTGGATTATC
1 CCCTCAGAAATGATGGGGTTGGAGTATC
1074103 CCCT
1 CCCT
1074107 GAGATGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 24 0.89
29 3 0.11
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (28 bp):
CCCTCAGAAATGATGGGGTTGGAGTATC
Found at i:1074326 original size:81 final size:81
Alignment explanation
Indices: 1074059--1074425 Score: 332
Period size: 81 Copynumber: 4.5 Consensus size: 81
1074049 CTCAGAATCG
* * * *
1074059 ATGGGGTTGGAGTATCCCCTTGGAAATGGTGGGGTTGGATTATCCCCTGA-GATGAAAATTTTGA
1 ATGGGGTTGGAGTATCCCCTTGGAAATGATGGGGTTGGAGTATCCCCTAATGGTGAAAATTTTGA
* *
1074123 TGTTTTGGAAAATAAAA
66 TGTTTTGG-AAGTGAAA
* * *
1074140 ATGGGGTTGGAGTATCCCCTCGGAAATGATGGGGTTGGAGTAT-CCCTAATGGTAAAAAAAATTT
1 ATGGGGTTGGAGTATCCCCTTGGAAATGATGGGGTTGGAGTATCCCCTAATGGT--GAAAATTTT
**
1074204 GACATTTTGGAAGTGAAA
64 GATGTTTTGGAAGTGAAA
* * * * * * *
1074222 ACGGGGTTAGAGTATCCCCTTGGAGATGATGGGGTTGAAGTATCCTC-GATGGTGACAATTTTGA
1 ATGGGGTTGGAGTATCCCCTTGGAAATGATGGGGTTGGAGTATCCCCTAATGGTGAAAATTTTGA
*
1074286 TGTTTTTGGAAGCGAAA
66 TG-TTTTGGAAGTGAAA
* ** * ** * *
1074303 ATAGGGTTGGAGTATCCTTTTGGAGATGGCGGGGTTGGAGTATCCCC-AATGGTGAAAAATTCGA
1 ATGGGGTTGGAGTATCCCCTTGGAAATGATGGGGTTGGAGTATCCCCTAATGGTGAAAATTTTGA
* *
1074367 TATTTTAGAAGT-AAA
66 TGTTTTGGAAGTGAAA
* *** *
1074382 A-GCGAGGTTGGAGTATTCCCTCAAAAATGTTGGGGTTGGAGTAT
1 ATG-G-GGTTGGAGTATCCCCTTGGAAATGATGGGGTTGGAGTAT
1074426 TCCCGATGAA
Statistics
Matches: 229, Mismatches: 50, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
79 5 0.02
80 51 0.22
81 107 0.47
82 49 0.21
83 17 0.07
ACGTcount: A:0.28, C:0.11, G:0.31, T:0.30
Consensus pattern (81 bp):
ATGGGGTTGGAGTATCCCCTTGGAAATGATGGGGTTGGAGTATCCCCTAATGGTGAAAATTTTGA
TGTTTTGGAAGTGAAA
Found at i:1074339 original size:163 final size:163
Alignment explanation
Indices: 1074061--1074361 Score: 390
Period size: 163 Copynumber: 1.8 Consensus size: 163
1074051 CAGAATCGAT
* * * *
1074061 GGGGTTGGAGTATCCCCTTGGAAATGGTGGGGTTGGATTATCCCCTGAGATGAAAATTTTGATGT
1 GGGGTTAGAGTATCCCCTTGGAAATGATGGGGTTGAAGTATCCCCTGAGATGAAAATTTTGATGT
* * * *
1074126 TTTGGAAAATAAAAATGGGGTTGGAGTATCCCCTCGGAAATGATGGGGTTGGAGTATCCCTAATG
66 TTTGGAAAACAAAAATAGGGTTGGAGTATCCCCTCGGAAATGACGGGGTTGGAGTATCCCCAATG
1074191 GTAAAAAAAATTTGACATTTTGGAAGTGAAAAC
131 GTAAAAAAAATTTGACATTTTGGAAGTGAAAAC
* * * *
1074224 GGGGTTAGAGTATCCCCTTGGAGATGATGGGGTTGAAGTATCCTC-GATGGTGACAATTTTGATG
1 GGGGTTAGAGTATCCCCTTGGAAATGATGGGGTTGAAGTATCCCCTGA-GATGAAAATTTTGATG
* * ** * * *
1074288 TTTTTGG-AAGCGAAAATAGGGTTGGAGTATCCTTTTGGAGATGGCGGGGTTGGAGTATCCCCAA
65 -TTTTGGAAAACAAAAATAGGGTTGGAGTATCCCCTCGGAAATGACGGGGTTGGAGTATCCCCAA
*
1074352 TGGTGAAAAA
129 TGGTAAAAAA
1074362 TTCGATATTT
Statistics
Matches: 116, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
162 2 0.02
163 108 0.93
164 6 0.05
ACGTcount: A:0.28, C:0.11, G:0.32, T:0.30
Consensus pattern (163 bp):
GGGGTTAGAGTATCCCCTTGGAAATGATGGGGTTGAAGTATCCCCTGAGATGAAAATTTTGATGT
TTTGGAAAACAAAAATAGGGTTGGAGTATCCCCTCGGAAATGACGGGGTTGGAGTATCCCCAATG
GTAAAAAAAATTTGACATTTTGGAAGTGAAAAC
Found at i:1076851 original size:50 final size:52
Alignment explanation
Indices: 1076740--1076877 Score: 181
Period size: 50 Copynumber: 2.7 Consensus size: 52
1076730 AATAGCCTGC
* ** * * *
1076740 ATGTATTGATACATTGAAGAATTTATTGATACATTTGGGTCAAAAACCCAAA
1 ATGTATCGATACAACGAAAAATGTATCGATACATTTGGGTCAAAAACCCAAA
* * *
1076792 ATGTATCGATGCAACGAAAAATGTATCGATACATTTGGGT-TAAAA-CTAAA
1 ATGTATCGATACAACGAAAAATGTATCGATACATTTGGGTCAAAAACCCAAA
1076842 ATGTATCGATACAACGAAAAATGTATCGATACATTT
1 ATGTATCGATACAACGAAAAATGTATCGATACATTT
1076878 TCTTTTCAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
50 39 0.51
51 4 0.05
52 33 0.43
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACAACGAAAAATGTATCGATACATTTGGGTCAAAAACCCAAA
Found at i:1077427 original size:13 final size:13
Alignment explanation
Indices: 1077409--1077435 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1077399 ATATTATGCT
1077409 TTGTATCGATACA
1 TTGTATCGATACA
1077422 TTGTATCGATACA
1 TTGTATCGATACA
1077435 T
1 T
1077436 GAAACTGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1077493 original size:20 final size:20
Alignment explanation
Indices: 1077468--1077518 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
1077458 CCACTGTTTG
*
1077468 TATCGATACATGGT-ACATTA
1 TATCGATACATGATGA-ATTA
*
1077488 TATCGATACATGATGAATTG
1 TATCGATACATGATGAATTA
1077508 TATCGATACAT
1 TATCGATACAT
1077519 TGCTTCTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (20 bp):
TATCGATACATGATGAATTA
Found at i:1079110 original size:9 final size:9
Alignment explanation
Indices: 1079093--1079126 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
1079083 GTCAACCATC
1079093 AATGATGAT
1 AATGATGAT
1079102 GAA-GATGAT
1 -AATGATGAT
1079111 AATGATGAT
1 AATGATGAT
1079120 AATGATG
1 AATGATG
1079127 GTGACTCGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 19 0.83
10 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.29
Consensus pattern (9 bp):
AATGATGAT
Found at i:1086090 original size:19 final size:20
Alignment explanation
Indices: 1086066--1086117 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
1086056 CACACCCAGA
**
1086066 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGGACAAT
*
1086085 TGTATCAATACATGGACAAT
1 TGTATCGATACATGGACAAT
1086105 TGTATCGATACAT
1 TGTATCGATACAT
1086118 AAAACTGGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATGGACAAT
Found at i:1086203 original size:33 final size:33
Alignment explanation
Indices: 1086147--1086216 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
1086137 CTACCACTGT
**
1086147 TTGTATCGATACATGGTACATTGTATAAATACA
1 TTGTATCGATACATAATACATTGTATAAATACA
**
1086180 TTGTATCGATACATAATGA-ATTGTATCGATACA
1 TTGTATCGATACATAAT-ACATTGTATAAATACA
1086213 TTGT
1 TTGT
1086217 TTCTAACGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATAATACATTGTATAAATACA
Found at i:1089718 original size:52 final size:52
Alignment explanation
Indices: 1089648--1089768 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
1089638 GAAAATTTAT
*
1089648 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1089700 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1089752 CAGCATGTATCGATACA
1 CTGCATGTATCGATACA
1089769 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1089781 original size:52 final size:51
Alignment explanation
Indices: 1089650--1089788 Score: 199
Period size: 52 Copynumber: 2.7 Consensus size: 51
1089640 AAATTTATCT
*
1089650 GCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCT
1 GCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGCCA
* *
1089702 GCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCA
1 GCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGCCA
*
1089754 GCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 GCATGTATCGATACATTA-AT-AGTGTATCGATACA
1089789 ATGTATCGAT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.03
52 77 0.97
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (51 bp):
GCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGCCA
Found at i:1089795 original size:13 final size:13
Alignment explanation
Indices: 1089777--1089801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1089767 CAAAGATCAG
1089777 TGTATCGATACAA
1 TGTATCGATACAA
1089790 TGTATCGATACA
1 TGTATCGATACA
1089802 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1089867 original size:16 final size:15
Alignment explanation
Indices: 1089842--1089884 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 15
1089832 GCAGTAGCTT
1089842 AAATTGTATCGATAA
1 AAATTGTATCGATAA
1089857 AAATATGTATCGAT--
1 AAAT-TGTATCGATAA
*
1089871 ACATTGTATCGATA
1 AAATTGTATCGATA
1089885 CAACACTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 9 0.36
14 3 0.12
15 4 0.16
16 9 0.36
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (15 bp):
AAATTGTATCGATAA
Found at i:1096325 original size:52 final size:50
Alignment explanation
Indices: 1096233--1096493 Score: 175
Period size: 52 Copynumber: 5.0 Consensus size: 50
1096223 TGAAGATGAA
* * * * *
1096233 AAGAGTGATAAAGGTGCCAATATGCTGATTCCAGGTCAGCGATATTGGGCTT
1 AAGA-TGACAAAGGTGACAATATGTTGATT-CAGGCCAGCGATATTGGACTT
* *
1096285 GAAGATGACAAAGGTGTCAATATGTTGATTCAGGGCCAGCGACATTGGACTT
1 -AAGATGACAAAGGTGACAATATGTTGATTCA-GGCCAGCGATATTGGACTT
* *
1096337 AAAGATGACAAAGG-CACTAATATGTTGATTCAAGGCCAACGATATTGGACTT
1 -AAGATGACAAAGGTGAC-AATATGTTGATTC-AGGCCAGCGATATTGGACTT
* * * * * * * *
1096389 AAGA-AAGCAAAAGGTGCCAATGTGCTGATTCGAGGCTAACGACATTGAACTT
1 AAGATGA-C-AAAGGTGACAATATGTTGATTC-AGGCCAGCGATATTGGACTT
** * * * * * *
1096441 AAAGATGGTAAAGGCGCCAATATGCTGATTCAAGGCTAGTGATATTGGGCTT
1 -AAGATGACAAAGGTGACAATATGTTGATTC-AGGCCAGCGATATTGGACTT
1096493 A
1 A
1096494 TGCCAATGTG
Statistics
Matches: 169, Mismatches: 31, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
50 1 0.01
51 9 0.05
52 149 0.88
53 10 0.06
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (50 bp):
AAGATGACAAAGGTGACAATATGTTGATTCAGGCCAGCGATATTGGACTT
Found at i:1096485 original size:104 final size:103
Alignment explanation
Indices: 1096232--1096493 Score: 287
Period size: 104 Copynumber: 2.5 Consensus size: 103
1096222 ATGAAGATGA
* * *
1096232 AAAGAGTGATAAAGGTGCCAATATGCTGATTCCAGG-TCAGCGATATTGGGCTTGAAGATGACAA
1 AAAGA-TGATAAAGGCGCCAATATGCTGATTCAAGGCT-AGCGATATTGGGCTT-AAGAAGACAA
* * * *
1096296 AGGTGTCAATATGTTGATTCAGGGCCAGCGACATTGGACTT
63 AGGTGCCAATATGCTGATTCAGGGCCAACGACATTGAACTT
* * * * * * *
1096337 AAAGATGACAAAGGCACTAATATGTTGATTCAAGGCCAACGATATTGGACTTAAGAA-AGCAAAA
1 AAAGATGATAAAGGCGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAAGAAGA-C-AAA
* *
1096401 GGTGCCAATGTGCTGATTC-GAGGCTAACGACATTGAACTT
64 GGTGCCAATATGCTGATTCAG-GGCCAACGACATTGAACTT
* *
1096441 AAAGATGGTAAAGGCGCCAATATGCTGATTCAAGGCTAGTGATATTGGGCTTA
1 AAAGATGATAAAGGCGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTA
1096494 TGCCAATGTG
Statistics
Matches: 128, Mismatches: 25, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
102 1 0.01
103 6 0.05
104 116 0.91
105 5 0.04
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (103 bp):
AAAGATGATAAAGGCGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAAGAAGACAAAGG
TGCCAATATGCTGATTCAGGGCCAACGACATTGAACTT
Found at i:1096527 original size:39 final size:39
Alignment explanation
Indices: 1096456--1096532 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
1096446 TGGTAAAGGC
*** *
1096456 GCCAATATGCTGATTCAAGGCTAGTGATATTGGGCTTAT
1 GCCAATATGCTGATTCAAGGCTAACAACATTGGGCTTAT
* *
1096495 GCCAATGTGCTGATTCAAGGCTAACAACATTGGTCTTA
1 GCCAATATGCTGATTCAAGGCTAACAACATTGGGCTTA
1096533 AACATAAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (39 bp):
GCCAATATGCTGATTCAAGGCTAACAACATTGGGCTTAT
Found at i:1096625 original size:32 final size:32
Alignment explanation
Indices: 1096589--1096746 Score: 146
Period size: 32 Copynumber: 4.9 Consensus size: 32
1096579 TTAAAGGAGA
*
1096589 TGCCACCAACTTGTATGGGCTTTTGAGAATGT
1 TGCCACCAACTTGTATGGGCTTTTGAGAAGGT
* * *
1096621 TGCCACTAACTTGTGTGGGCTTTTGA-AGGGGT
1 TGCCACCAACTTGTATGGGCTTTTGAGA-AGGT
* * *
1096653 TGCCATCAACTTGTGA-GGGTTTTATAAG-AGGT
1 TGCCACCAACTTGT-ATGGGCTTT-TGAGAAGGT
*
1096685 TGCCACCAACTTGTTTGGGC-TTT-AGAAGATGT
1 TGCCACCAACTTGTATGGGCTTTTGAGAAG--GT
* *
1096717 TGCCACCAACTTGTGTGGGCTTTAGAGAAG
1 TGCCACCAACTTGTATGGGCTTTTGAGAAG
1096747 AAAGAAGGTG
Statistics
Matches: 101, Mismatches: 15, Indels: 18
0.75 0.11 0.13
Matches are distributed among these distances:
29 2 0.02
30 3 0.03
31 3 0.03
32 84 0.83
33 4 0.04
34 5 0.05
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (32 bp):
TGCCACCAACTTGTATGGGCTTTTGAGAAGGT
Found at i:1096690 original size:64 final size:64
Alignment explanation
Indices: 1096589--1096740 Score: 182
Period size: 64 Copynumber: 2.4 Consensus size: 64
1096579 TTAAAGGAGA
* * * * *
1096589 TGCCACCAACTTGT-ATGGGCTTT-TGAGAATGTTGCCACTAACTTGTGTGGGCTTTTGAAGGGG
1 TGCCACCAACTTGTGA-GGGCTTTATAAG-AGGTTGCCACCAACTTGTGTGGGCTTTAGAAGAGG
1096652 T
64 T
* * * *
1096653 TGCCATCAACTTGTGAGGGTTTTATAAGAGGTTGCCACCAACTTGTTTGGGCTTTAGAAGATGT
1 TGCCACCAACTTGTGAGGGCTTTATAAGAGGTTGCCACCAACTTGTGTGGGCTTTAGAAGAGGT
*
1096717 TGCCACCAACTTGTGTGGGCTTTA
1 TGCCACCAACTTGTGAGGGCTTTA
1096741 GAGAAGAAAG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
64 70 0.95
65 4 0.05
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (64 bp):
TGCCACCAACTTGTGAGGGCTTTATAAGAGGTTGCCACCAACTTGTGTGGGCTTTAGAAGAGGT
Found at i:1096793 original size:27 final size:27
Alignment explanation
Indices: 1096751--1096834 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
1096741 GAGAAGAAAG
* *
1096751 AAGGTGCCATGGAGTTGTGGACTTAAA
1 AAGGTACCATGAAGTTGTGGACTTAAA
* *
1096778 AAGGTATCATGAAGTTATGGACTTAAA
1 AAGGTACCATGAAGTTGTGGACTTAAA
* *
1096805 AGGGTGCCAT-AGAGTTGTGGACTTAAA
1 AAGGTACCATGA-AGTTGTGGACTTAAA
1096832 AAG
1 AAG
1096835 AAAATGGGTG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.26
Consensus pattern (27 bp):
AAGGTACCATGAAGTTGTGGACTTAAA
Found at i:1096898 original size:33 final size:33
Alignment explanation
Indices: 1096842--1096908 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
1096832 AAGAAAATGG
*
1096842 GTGCCAGCGAGTTTTGGGATTTGAAAAAAAAAA
1 GTGCCAGCGAGTTGTGGGATTTGAAAAAAAAAA
* *
1096875 GTGCCA-CGAAGTTGTGGGTTTTGAAAAGAAAAA
1 GTGCCAGCG-AGTTGTGGGATTTGAAAAAAAAAA
1096908 G
1 G
1096909 GTACCATAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 28 0.93
ACGTcount: A:0.37, C:0.09, G:0.30, T:0.24
Consensus pattern (33 bp):
GTGCCAGCGAGTTGTGGGATTTGAAAAAAAAAA
Found at i:1097033 original size:34 final size:34
Alignment explanation
Indices: 1096990--1097113 Score: 137
Period size: 34 Copynumber: 3.6 Consensus size: 34
1096980 TTGTAGACTT
1096990 AAAAGGTGCCACGAAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCACGAAGTTGTGGGCTTTGAAAAGA
* *
1097024 AAAAGGTGCCAC-AGAGTTGTGGAC-TT-AAATGGA
1 AAAAGGTGCCACGA-AGTTGTGGGCTTTGAAA-AGA
* * * *
1097057 AAAAGGGTGTCATGAAGTTTTAGGCTTTGAAAAGA
1 AAAA-GGTGCCACGAAGTTGTGGGCTTTGAAAAGA
*
1097092 AAAAGGTGCCACGGAGTTGTGG
1 AAAAGGTGCCACGAAGTTGTGG
1097114 ACTTAAAAGG
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
32 3 0.04
33 9 0.13
34 47 0.66
35 9 0.13
36 3 0.04
ACGTcount: A:0.35, C:0.10, G:0.32, T:0.23
Consensus pattern (34 bp):
AAAAGGTGCCACGAAGTTGTGGGCTTTGAAAAGA
Found at i:1097043 original size:60 final size:59
Alignment explanation
Indices: 1096790--1097343 Score: 296
Period size: 60 Copynumber: 8.8 Consensus size: 59
1096780 GGTATCATGA
* * *
1096790 AGTTATGGACTTAAAAGGGTGCCA-TAGAGTTGTGGACTTAAAAAGAAAATGGGTGCCAGC-G
1 AGTTGTGGACTTAAAAGGGTGCCACGA-AGTTGTGGACTT-AAAAGAAAA-AGGTGCCA-CAG
* * ** ** * *
1096851 AGTTTTGGGATTTGAAAAAAAAAAGTGCCACGAAGTTGTGGGTTTTGAAAAGAAAAAGGTACCAT
1 AGTTGT-GGACTT-----AAAAGGGTGCCACGAAGTTGT-GGACTT-AAAAGAAAAAGGTGCCAC
1096916 AG
58 AG
* * * * * * *
1096918 ATTTGTGAACTTAAAATGGTGCTACGGAGTTGTGGACTTGGAAAA-AAAAAGGTGTCA-TG
1 AGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTT--AAAAGAAAAAGGTGCCACAG
* *
1096977 ATGTTGTAGACTTAAAA-GGTGCCACGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAG
1 A-GTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGAC-TT-AAAAGAAAAAGGTGCCACAG
* * *
1097038 AGTTGTGGACTTAAATGGAAAAAGGGTGTCATGAAGTTTTAGG-CTTTGAAAAGAAAAAGGTGCC
1 AGTTGTGGAC-T---T---AAAAGGGTGCCACGAAGTTGT-GGAC-TT-AAAAGAAAAAGGTGCC
*
1097102 ACGG
56 ACAG
* ** * **
1097106 AGTTGTGGACTTAAAAGGAATGTGCCATGGTGTTGTGAACTTAAAAGGAAAAAGGTGCCATGG
1 AGTTGTGGACTTAAAAGG---GTGCCACGAAGTTGTGGACTTAAAA-GAAAAAGGTGCCACAG
* * * * * *
1097169 AGTTGTGGAGTTAAAAGGAAAAAGGTGCCATGGAGTTGTGGAGTTAAAAGGAAAATGATGCCACA
1 AGTTGTGGACTTAAAA-G-----GGTGCCACGAAGTTGTGGACTTAAAA-GAAAAAGGTGCCACA
1097234 G
59 G
* * * **
1097235 AGTTGTGGGCTTAAAATGGTGCCAC-AGAGTTATGGACTTAAAAGGAAAAAAGGTGCCATGG
1 AGTTGTGGACTTAAAAGGGTGCCACGA-AGTTGTGGACTTAAAA-G-AAAAAGGTGCCACAG
* *
1097296 AGTTATGAACTTAAAA-GGTGCCACGAAGTTGTGGACTTAAAAGAAAAA
1 AGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGAAAAA
1097344 ATAATGCCAC
Statistics
Matches: 390, Mismatches: 66, Indels: 77
0.73 0.12 0.14
Matches are distributed among these distances:
58 5 0.01
59 25 0.06
60 93 0.24
61 61 0.16
62 9 0.02
63 33 0.08
64 15 0.04
66 53 0.14
67 32 0.08
68 61 0.16
69 3 0.01
ACGTcount: A:0.36, C:0.10, G:0.30, T:0.24
Consensus pattern (59 bp):
AGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGAAAAAGGTGCCACAG
Found at i:1097075 original size:68 final size:66
Alignment explanation
Indices: 1096990--1098609 Score: 367
Period size: 68 Copynumber: 25.5 Consensus size: 66
1096980 TTGTAGACTT
* *
1096990 AAAAGGTGCCACGAAGTTGTGGGCTTTGAAAA-GAAAAAGGTGCCACAGAGTTGTGGACTTAAAT
1 AAAAGGTGCCATGAAGTTGTGGGC-TT-AAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAA
1097054 GGA
64 GGA
* * * *
1097057 AAAAGGGTGTCATGAAGTTTTAGGCTTTGAAAA-GAAAAAGGTGCCACGGAGTTGTGGACTTAAA
1 AAAA-GGTGCCATGAAGTTGTGGGC-TT-AAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAA
1097121 AGG-
63 AGGA
* ** ** ** *
1097124 --AATGTGCCATGGTGTTGTGAACTTAAAAGGAAAAAGGTGCCATGGAGTTGTGGAGTTAAAAGG
1 AAAAGGTGCCATGAAGTTGTGGGCTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
1097187 A
66 A
* * * *
1097188 AAAAGGTGCCATGGAGTTGTGGAG-TTAAAAGGAAAATGATGCCACAGAGTTGTGGGCTT-----
1 AAAAGGTGCCATGAAGTTGTGG-GCTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAG
1097247 -A
65 GA
* * * * ** * *
1097248 AAATGGTGCCA-CAGAGTTATGGACTTAAAAGGAAAAAAGGTGCCATGGAGTTATGAACTT----
1 AAAAGGTGCCATGA-AGTTGTGGGCTTAAAAGG-AAAAAGGTGCCACAGAGTTGTGGACTTAAAA
1097308 ---
64 GGA
* * * ** * * *
1097308 AAAAGGTGCCACGAAGTTGTGGACTTAAAAGAAAAAATAATGCCAC-GAAGTTATGGGCTTTGAG
1 AAAAGGTGCCATGAAGTTGTGGGCTTAAAAGGAAAAA-GGTGCCACAG-AGTTGTGGAC-TT-AA
1097372 AAGGA
62 AAGGA
* * *
1097377 AAAAGG-ACCAT-AGAGTTGTGGACTTAAAAGGAAAAATGGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAGGTGCCATGA-AGTTGTGGGCTTAAAAGGAAAAA-GGTGCCACAGAGTTGTGGACTTAAAA
1097440 GG-
64 GGA
* * * *** ** * ** * *
1097442 ---A--TACCACGGAGTTGTAAACTTAAAATAAAAAAAGGTGCTATGGAATTGTGGGCTTTGAAA
1 AAAAGGTGCCATGAAGTTGTGGGCTTAAAA-GGAAAAAGGTGCCACAGAGTTGTGGAC-TT-AAA
*
1097502 AGAA
63 AGGA
* * * * * * *
1097506 AAAAGATGCCA-CATTGTTGTAGACTT------AAAATGGTGCCACAGAGTTGTGGGCTTTGAAA
1 AAAAGGTGCCATGA-AGTTGTGGGCTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGAC-TT-AAA
1097564 A-GA
63 AGGA
** * * * ** * *
1097567 AAAAGGTATCAAGGAGTTGTGGACTTAAAA-G-----GGTGCCATGGAATTATGGACTT------
1 AAAAGGTGCCATGAAGTTGTGGGCTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
1097620 -
66 A
* * * ** * * *
1097620 AAAAGGTGCCACGGAGTTGTGGACTT-------AAAAGGTGCCATGGAGTTATGGCCTTTAAAAA
1 AAAAGGTGCCATGAAGTTGTGGGCTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGAC-TTAAAAG
1097678 GA
65 GA
** * * ** * *
1097680 AAAAAATGCCATGAAGTTGTGGACTTAAAAAGAAAAAGGTTGCCATGGAGTTATGGGCTTTGAAA
1 AAAAGGTGCCATGAAGTTGTGGGCTTAAAAGGAAAAAGG-TGCCACAGAGTTGTGGAC-TT-AAA
1097745 A-GA
63 AGGA
* * * * *
1097748 AAAAGGTGCCA-CAGAGTTATGGACTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAGGTGCCATGA-AGTTGTGGGCTT-AAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAA
1097812 GGA
64 GGA
* * * *
1097815 AAAAGGGTGCCA-CAGAGTTGTAGGCTTTGAAAA-GAAAAAGGTACCATAGAGTTGTGGACTTAA
1 AAAA-GGTGCCATGA-AGTTGTGGGC-TT-AAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAA
1097878 AAGGA
62 AAGGA
* * * * *
1097883 AAAAGGGTGCCACGGAGTTGTAGACTTAAAAGG----A--TACCACAGAGTTGTGGACTTAAAAG
1 AAAA-GGTGCCATGAAGTTGTGGGCTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAG
1097942 GAA
65 G-A
** ** **
1097945 AAAAGGTGCTACA-G-AGTTGTAAGCTTTGAAAA-GAAAAAGGTGCCATGGAGTTGTAAACTTAA
1 AAAAGGTGC--CATGAAGTTGTGGGC-TT-AAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAA
1098007 AA-G-
62 AAGGA
* * * * *
1098010 ----GGTGCCAT-AGAGTTATGGGCATT-----G-ATAAGATGCCACGGAGTTGTGGATTTTAAA
1 AAAAGGTGCCATGA-AGTTGTGGGC-TTAAAAGGAAAAAGGTGCCACAGAGTTGTGGA-CTTAAA
*
1098064 AAGA
63 AGGA
* * * *
1098068 AAAAGGTGCCACGAAGTTATGGACTT-------AAAAGGTGCCACAGAGATGTGG-CTTTTGAAA
1 AAAAGGTGCCATGAAGTTGTGGGCTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGAC--TT-AAA
1098125 A-GA
63 AGGA
* * * * * * **
1098128 AAAAGGTACCACGAAGTTGTAGACTTAAAAGGAAAAAGGGTGCTACGGAGTTGTGGGTTTTGAAA
1 AAAAGGTGCCATGAAGTTGTGGGCTTAAAAGGAAAAA-GGTGCCACAGAGTTGT-GGACTT---A
**
1098193 AAAAAA
61 AAAGGA
* * * * * *
1098199 AAAAGGTGCCATGGAGTTGTAGACTTAAAA-G-----GGTGCCATAGAGTTGTGGGCTT-----T
1 AAAAGGTGCCATGAAGTTGTGGGCTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
*
1098253 C
66 A
* * * ** * *
1098254 AAAAGGTGGCACGGAGTTGTGAACTTTAAAAAGAAAAAGGTACCAC-GAAGTTGTGGACTT----
1 AAAAGGTGCCATGAAGTTGTGGGC-TTAAAAGGAAAAAGGTGCCACAG-AGTTGTGGACTTAAAA
1098314 ---
64 GGA
* * * * * * *
1098314 AAACGGTGCCACGGAGATGT-GGCTTTTAAAAAGAAAAAGGTACCAC-GAAGTTGTAGACTTAAA
1 AAAAGGTGCCATGAAGTTGTGGGC--TTAAAAGGAAAAAGGTGCCACAG-AGTTGTGGACTTAAA
1098377 AGGAA
63 AGG-A
* *
1098382 AAAAGGTGCCATGGAGTTGTGGGCTTTGAAAA-GAAAAAGGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAGGTGCCATGAAGTTGTGGGC-TT-AAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAA
1098446 GGAA
64 GG-A
* ** * *
1098450 AAAATGTGCCACAAAGTTGTGGGCTTAAATGG-AAAAGGATGCCACGGAGTTGTAGG-CTT----
1 AAAAGGTGCCATGAAGTTGTGGGCTTAAAAGGAAAAAGG-TGCCACAGAGTTGT-GGACTTAAAA
1098509 --A
64 GGA
* ** *
1098510 AAAAGCTGCCACAAAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACA-AGGTTGTTGG-CTTTGA
1 AAAAGGTGCCATGAAGTTGTGGGCTTAAAAGGAAAAA-GGTGCCACAGA-GTTG-TGGAC-TT-A
*
1098573 GAA-GA
61 AAAGGA
* * *
1098578 AAAATGTGCCATGGAGTTGTGGACTTAAAAGG
1 AAAAGGTGCCATGAAGTTGTGGGCTTAAAAGG
1098610 TGCCATGGAG
Statistics
Matches: 1216, Mismatches: 196, Indels: 281
0.72 0.12 0.17
Matches are distributed among these distances:
52 18 0.01
53 25 0.02
55 38 0.03
56 13 0.01
57 2 0.00
59 9 0.01
60 216 0.18
61 167 0.14
62 87 0.07
63 51 0.04
64 25 0.02
65 2 0.00
66 69 0.06
67 51 0.04
68 358 0.29
69 52 0.04
70 5 0.00
71 28 0.02
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.23
Consensus pattern (66 bp):
AAAAGGTGCCATGAAGTTGTGGGCTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
A
Found at i:1097184 original size:26 final size:27
Alignment explanation
Indices: 1097154--1097217 Score: 74
Period size: 33 Copynumber: 2.1 Consensus size: 27
1097144 ACTTAAAAGG
1097154 AAAAAGGTGCCATGGAGTTGTGGAGTT
1 AAAAAGGTGCCATGGAGTTGTGGAGTT
1097181 AAAAGGAAAAAGGTGCCATGGAGTTGTGGAGTT
1 ------AAAAAGGTGCCATGGAGTTGTGGAGTT
1097214 AAAA
1 AAAA
1097218 GGAAAATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
27 4 0.13
33 27 0.87
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.22
Consensus pattern (27 bp):
AAAAAGGTGCCATGGAGTTGTGGAGTT
Found at i:1097216 original size:96 final size:98
Alignment explanation
Indices: 1097039--1097221 Score: 255
Period size: 96 Copynumber: 1.9 Consensus size: 98
1097029 GTGCCACAGA
* * * * **
1097039 GTTGTGGACTTAAATGGAAAAAGGGTGTCATGAAGTTTTAGGCTTTGAAAAGAAAAAGGTGCCAC
1 GTTGTGAACTTAAAAGGAAAAAGGGTGCCATGAAGTTGTAGGAGTTGAAAAGAAAAAGGTGCCAC
1097104 GGAGTTGTGGACTTAAAAGGAATGTGCCATGGT
66 GGAGTTGTGGACTTAAAAGGAATGTGCCATGGT
*
1097137 GTTGTGAACTTAAAAGGAAAAA-GGTGCCATGGAGTTGT-GGAGTT-AAAAGGAAAAAGGTGCCA
1 GTTGTGAACTTAAAAGGAAAAAGGGTGCCATGAAGTTGTAGGAGTTGAAAA-GAAAAAGGTGCCA
* *
1097199 TGGAGTTGTGGAGTTAAAAGGAA
65 CGGAGTTGTGGACTTAAAAGGAA
1097222 AATGATGCCA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
95 4 0.05
96 38 0.51
97 13 0.17
98 20 0.27
ACGTcount: A:0.35, C:0.08, G:0.33, T:0.25
Consensus pattern (98 bp):
GTTGTGAACTTAAAAGGAAAAAGGGTGCCATGAAGTTGTAGGAGTTGAAAAGAAAAAGGTGCCAC
GGAGTTGTGGACTTAAAAGGAATGTGCCATGGT
Found at i:1097251 original size:27 final size:27
Alignment explanation
Indices: 1097220--1097277 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
1097210 AGTTAAAAGG
* *
1097220 AAAATGATGCCACAGAGTTGTGGGCTT
1 AAAATGATGCCACAGAGTTATGGACTT
*
1097247 AAAATGGTGCCACAGAGTTATGGACTT
1 AAAATGATGCCACAGAGTTATGGACTT
1097274 AAAA
1 AAAA
1097278 GGAAAAAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (27 bp):
AAAATGATGCCACAGAGTTATGGACTT
Found at i:1097299 original size:34 final size:34
Alignment explanation
Indices: 1097247--1097442 Score: 135
Period size: 34 Copynumber: 6.0 Consensus size: 34
1097237 TTGTGGGCTT
* *
1097247 AAAATGGTGCCACAGAGTTATGGACTTAAAAGGA
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAAGGA
* *
1097281 AAAAAGGTGCCATGGAGTTATGAACTT-------
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAAGGA
* *
1097308 -AAAAGGTGCCACGAAGTTGTGGACTTAAAA-GA
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAAGGA
** * * *
1097340 AAAAATAATGCCACGAAGTTATGGGCTTTGAGAAGG-
1 AAAAA-GGTGCCACGGAGTTATGGAC-TT-AAAAGGA
* ** *
1097376 AAAAAGG-ACCATAGAGTTGTGGACTTAAAAGGA
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAAGGA
* *
1097409 AAAATGGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAAGGA
1097443 TACCACGGAG
Statistics
Matches: 123, Mismatches: 26, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
26 22 0.18
32 5 0.04
33 12 0.10
34 73 0.59
35 2 0.02
36 8 0.07
37 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTATGGACTTAAAAGGA
Found at i:1097311 original size:26 final size:26
Alignment explanation
Indices: 1097282--1097338 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
1097272 TTAAAAGGAA
* *
1097282 AAAAGGTGCCATGGAGTTATGAACTT
1 AAAAGGTGCCACGAAGTTATGAACTT
* *
1097308 AAAAGGTGCCACGAAGTTGTGGACTT
1 AAAAGGTGCCACGAAGTTATGAACTT
1097334 AAAAG
1 AAAAG
1097339 AAAAAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.23
Consensus pattern (26 bp):
AAAAGGTGCCACGAAGTTATGAACTT
Found at i:1097344 original size:60 final size:59
Alignment explanation
Indices: 1097188--1097362 Score: 174
Period size: 60 Copynumber: 2.9 Consensus size: 59
1097178 GTTAAAAGGA
* * * * * * **
1097188 AAAAGGTGCCATGGAGTTGTGGAGTTAAAAGGAAAATGATGCCACAGAGTTGTGGGCTT
1 AAAAGGTGCCACGAAGTTGTGGACTTAAAAGAAAAAAGATGCCACAGAGTTATGAACTT
* * **
1097247 AAAATGGTGCCAC-AGAGTTATGGACTTAAAAGGAAAAAAGGTGCCATGGAGTTATGAACTT
1 AAAA-GGTGCCACGA-AGTTGTGGACTTAAAA-GAAAAAAGATGCCACAGAGTTATGAACTT
*
1097308 AAAAGGTGCCACGAAGTTGTGGACTTAAAAGAAAAAATAATGCCAC-GAAGTTATG
1 AAAAGGTGCCACGAAGTTGTGGACTTAAAAGAAAAAA-GATGCCACAG-AGTTATG
1097363 GGCTTTGAGA
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
59 12 0.13
60 56 0.60
61 26 0.28
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.22
Consensus pattern (59 bp):
AAAAGGTGCCACGAAGTTGTGGACTTAAAAGAAAAAAGATGCCACAGAGTTATGAACTT
Found at i:1097602 original size:61 final size:61
Alignment explanation
Indices: 1097487--1097604 Score: 150
Period size: 61 Copynumber: 1.9 Consensus size: 61
1097477 TGCTATGGAA
** *
1097487 TTGTGGGCTTTGAAAAGAAAAAAGATGCCACATTGTTGTAGACTTAAAATGGTGCCACAGAG
1 TTGTGGGCTTTGAAAAGAAAAAAGAT-CCACAGAGTTGTAGACTTAAAAGGGTGCCACAGAG
* *
1097549 TTGTGGGCTTTGAAAAGAAAAAGGTAT-CA-AGGAGTTGTGGACTTAAAAGGGTGCCA
1 TTGTGGGCTTTGAAAAGAAAAAAG-ATCCACA-GAGTTGTAGACTTAAAAGGGTGCCA
1097605 TGGAATTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
60 1 0.02
61 23 0.47
62 23 0.47
63 2 0.04
ACGTcount: A:0.35, C:0.11, G:0.29, T:0.25
Consensus pattern (61 bp):
TTGTGGGCTTTGAAAAGAAAAAAGATCCACAGAGTTGTAGACTTAAAAGGGTGCCACAGAG
Found at i:1097616 original size:27 final size:26
Alignment explanation
Indices: 1097579--1097676 Score: 133
Period size: 26 Copynumber: 3.7 Consensus size: 26
1097569 AAGGTATCAA
*
1097579 GGAGTTGTGGACTTAAAAGGGTGCCAT
1 GGAGTTATGGACTTAAAA-GGTGCCAT
* *
1097606 GGAATTATGGACTTAAAAGGTGCCAC
1 GGAGTTATGGACTTAAAAGGTGCCAT
*
1097632 GGAGTTGTGGACTTAAAAGGTGCCAT
1 GGAGTTATGGACTTAAAAGGTGCCAT
*
1097658 GGAGTTATGGCCTTTAAAA
1 GGAGTTATGGAC-TTAAAA
1097677 AGAAAAAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 40 0.65
27 22 0.35
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.27
Consensus pattern (26 bp):
GGAGTTATGGACTTAAAAGGTGCCAT
Found at i:1097642 original size:26 final size:26
Alignment explanation
Indices: 1097579--1097663 Score: 134
Period size: 26 Copynumber: 3.2 Consensus size: 26
1097569 AAGGTATCAA
1097579 GGAGTTGTGGACTTAAAAGGGTGCCAT
1 GGAGTTGTGGACTTAAAA-GGTGCCAT
* * *
1097606 GGAATTATGGACTTAAAAGGTGCCAC
1 GGAGTTGTGGACTTAAAAGGTGCCAT
1097632 GGAGTTGTGGACTTAAAAGGTGCCAT
1 GGAGTTGTGGACTTAAAAGGTGCCAT
1097658 GGAGTT
1 GGAGTT
1097664 ATGGCCTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 36 0.69
27 16 0.31
ACGTcount: A:0.28, C:0.12, G:0.34, T:0.26
Consensus pattern (26 bp):
GGAGTTGTGGACTTAAAAGGTGCCAT
Found at i:1097724 original size:34 final size:33
Alignment explanation
Indices: 1097646--1098607 Score: 247
Period size: 34 Copynumber: 29.9 Consensus size: 33
1097636 TTGTGGACTT
* * *
1097646 AAAAGGTGCCATGGAGTTATGGCCTTTAAAAAGA
1 AAAAGGTGCCATGAAGTTGTGGAC-TTAAAAAGA
**
1097680 AAAAAATGCCATGAAGTTGTGGACTTAAAAAGA
1 AAAAGGTGCCATGAAGTTGTGGACTTAAAAAGA
* * * *
1097713 AAAAGGTTGCCATGGAGTTATGGGCTTTGAAAAGA
1 AAAAGG-TGCCATGAAGTTGTGGAC-TTAAAAAGA
* *
1097748 AAAAGGTGCCA-CAGAGTTATGGACTTAAAAAGAA
1 AAAAGGTGCCATGA-AGTTGTGGACTTAAAAAG-A
* * *
1097782 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGGTGCCATGAAGTTGTGGACTTAAAAAGA
* *
1097815 AAAAGGGTGCCA-CAGAGTTGTAGG-CTTTGAAAAGA
1 AAAA-GGTGCCATGA-AGTTGT-GGAC-TTAAAAAGA
* *
1097850 AAAAGGTACCAT-AGAGTTGTGGACTTAAAAGGA
1 AAAAGGTGCCATGA-AGTTGTGGACTTAAAAAGA
* * *
1097883 AAAAGGGTGCCACGGAGTTGTAGACTT-AAAAG-
1 AAAA-GGTGCCATGAAGTTGTGGACTTAAAAAGA
* * * *
1097915 ----GATACCA-CAGAGTTGTGGACTTAAAAGGAA
1 AAAAGGTGCCATGA-AGTTGTGGACTTAAAAAG-A
* *
1097945 AAAAGGTGCTACA-G-AGTTGT-AAGCTTTGAAAAGA
1 AAAAGGTGC--CATGAAGTTGTGGA-C-TTAAAAAGA
* **
1097979 AAAAGGTGCCATGGAGTTGTAAACTT-AAAAG-
1 AAAAGGTGCCATGAAGTTGTGGACTTAAAAAGA
* *
1098010 ----GGTGCCAT-AGAGTTATGGGCATT-----G-
1 AAAAGGTGCCATGA-AGTTGTGGAC-TTAAAAAGA
* * * * *
1098034 ATAAGATGCCACGGAGTTGTGGATTTTAAAAAGA
1 AAAAGGTGCCATGAAGTTGTGGA-CTTAAAAAGA
* *
1098068 AAAAGGTGCCACGAAGTTATGGACTT-------
1 AAAAGGTGCCATGAAGTTGTGGACTTAAAAAGA
* * *
1098094 AAAAGGTGCCA-CAGAGATGTGG-CTTTTGAAAAGA
1 AAAAGGTGCCATGA-AGTTGTGGAC--TTAAAAAGA
* * * *
1098128 AAAAGGTACCACGAAGTTGTAGACTTAAAAGGA
1 AAAAGGTGCCATGAAGTTGTGGACTTAAAAAGA
* * * ** *
1098161 AAAAGGGTGCTACGGAGTTGTGGGTTTTGAAAAAAAAA
1 AAAA-GGTGCCATGAAGTTGT-GGACTT---AAAAAGA
* *
1098199 AAAAGGTGCCATGGAGTTGTAGACTT-AAAAG-
1 AAAAGGTGCCATGAAGTTGTGGACTTAAAAAGA
* **
1098230 ----GGTGCCAT-AGAGTTGTGGGCTT-----TC
1 AAAAGGTGCCATGA-AGTTGTGGACTTAAAAAGA
* * * *
1098254 AAAAGGTGGCACGGAGTTGTGAACTTTAAAAAGA
1 AAAAGGTGCCATGAAGTTGTGGAC-TTAAAAAGA
* *
1098288 AAAAGGTACCACGAAGTTGTGGACTT-------
1 AAAAGGTGCCATGAAGTTGTGGACTTAAAAAGA
* * * *
1098314 AAACGGTGCCACGGAGATGTGG-CTTTTAAAAAGA
1 AAAAGGTGCCATGAAGTTGTGGAC--TTAAAAAGA
* * * *
1098348 AAAAGGTACCACGAAGTTGTAGACTTAAAAGGAA
1 AAAAGGTGCCATGAAGTTGTGGACTTAAAAAG-A
* * *
1098382 AAAAGGTGCCATGGAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCATGAAGTTGTGGAC-TTAAAAAGA
* * *
1098416 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAAGGTGCCATGAAGTTGTGGACTTAAAAAG-A
* ** * * *
1098450 AAAATGTGCCACAAAGTTGTGGGCTT-AAATGG
1 AAAAGGTGCCATGAAGTTGTGGACTTAAAAAGA
* *
1098482 AAAAGGATGCCACGGAGTTGTAGG-CTT------A
1 AAAAGG-TGCCATGAAGTTGT-GGACTTAAAAAGA
* ** *
1098510 AAAAGCTGCCACAAAGTTGTGGACTTAAAAGGA
1 AAAAGGTGCCATGAAGTTGTGGACTTAAAAAGA
* * *
1098543 AAAAGGGTGCCA-CAAGGTTGTTGG-CTTTGAGAAGA
1 AAAA-GGTGCCATGAA-GTTG-TGGAC-TTAAAAAGA
* *
1098578 AAAATGTGCCATGGAGTTGTGGACTTAAAA
1 AAAAGGTGCCATGAAGTTGTGGACTTAAAA
1098608 GGTGCCATGG
Statistics
Matches: 687, Mismatches: 141, Indels: 201
0.67 0.14 0.20
Matches are distributed among these distances:
24 1 0.00
25 3 0.00
26 37 0.05
27 67 0.10
28 40 0.06
29 2 0.00
32 16 0.02
33 108 0.16
34 324 0.47
35 61 0.09
36 5 0.01
37 14 0.02
38 9 0.01
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (33 bp):
AAAAGGTGCCATGAAGTTGTGGACTTAAAAAGA
Found at i:1097922 original size:27 final size:27
Alignment explanation
Indices: 1097883--1097943 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
1097873 CTTAAAAGGA
* * *
1097883 AAAAGGGTGCCACGGAGTTGTAGACTT
1 AAAAGGATACCACAGAGTTGTAGACTT
*
1097910 AAAAGGATACCACAGAGTTGTGGACTT
1 AAAAGGATACCACAGAGTTGTAGACTT
1097937 AAAAGGA
1 AAAAGGA
1097944 AAAAAGGTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.20
Consensus pattern (27 bp):
AAAAGGATACCACAGAGTTGTAGACTT
Found at i:1097927 original size:61 final size:60
Alignment explanation
Indices: 1097850--1097965 Score: 187
Period size: 61 Copynumber: 1.9 Consensus size: 60
1097840 TTTGAAAAGA
* * *
1097850 AAAAGGTACCATAGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACGGAGTTGTAGACTT
1 AAAAGGTACCACAGAGTTGTGGACTTAAAAGGAAAAAAGGTGCCACAGAGTTGTAGACTT
*
1097910 AAAAGGATACCACAGAGTTGTGGACTTAAAAGGAAAAAAGGTGCTACAGAGTTGTA
1 AAAAGG-TACCACAGAGTTGTGGACTTAAAAGGAAAAAAGGTGCCACAGAGTTGTA
1097966 AGCTTTGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
60 6 0.12
61 45 0.88
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (60 bp):
AAAAGGTACCACAGAGTTGTGGACTTAAAAGGAAAAAAGGTGCCACAGAGTTGTAGACTT
Found at i:1098126 original size:60 final size:60
Alignment explanation
Indices: 1098040--1098159 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 60
1098030 ATTGATAAGA
* * * *
1098040 TGCCACGGAGTTGTGGATTTTAAAAAGAAAAAGGTGCCACGAAGTTATGGACTTAAAAGG
1 TGCCACAGAGATGTGGATTTTAAAAAGAAAAAGGTACCACGAAGTTATAGACTTAAAAGG
* * *
1098100 TGCCACAGAGATGTGGCTTTTGAAAAGAAAAAGGTACCACGAAGTTGTAGACTTAAAAGG
1 TGCCACAGAGATGTGGATTTTAAAAAGAAAAAGGTACCACGAAGTTATAGACTTAAAAGG
1098160 AAAAAGGGTG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.23
Consensus pattern (60 bp):
TGCCACAGAGATGTGGATTTTAAAAAGAAAAAGGTACCACGAAGTTATAGACTTAAAAGG
Found at i:1098237 original size:220 final size:217
Alignment explanation
Indices: 1097910--1098447 Score: 799
Period size: 220 Copynumber: 2.5 Consensus size: 217
1097900 TTGTAGACTT
* * **
1097910 AAAAGGATACCAC-AGAGTTGTGGACTTAAAAGGAAAAAAGGTGCTACAGAGTTGTAAGCTTTGA
1 AAAAGG-TACCACGA-AGTTGTAGACTTAAAAGGAAAAAAGGTGCTACGGAGTTGTGGGCTTTGA
* * *
1097974 AAAGAAAAAGGTGCCATGGAGTTGTAAACTTAAAAGGGTGCCATAGAGTTATGGGCATTGATAAG
64 AAAGAAAAAGGTGCCATGGAGTTGTAGACTTAAAAGGGTGCCATAGAGTTATGGGCATTCAAAAG
* * *
1098039 ATGCCACGGAGTTGTGGATTTTAAAAAGAAAAAGGTGCCACGAAGTTATGGACTTAAAAGGTGCC
129 ATGCCACGGAGTTGTGAACTTTAAAAAGAAAAAGGTACCACGAAGTTATGGACTTAAAAGGTGCC
*
1098104 ACAGAGATGTGGCTTTTGAAAAGA
194 ACAGAGATGTGGCTTTTAAAAAGA
* *
1098128 AAAAGGTACCACGAAGTTGTAGACTTAAAAGGAAAAAGGGTGCTACGGAGTTGTGGGTTTTGAAA
1 AAAAGGTACCACGAAGTTGTAGACTTAAAAGGAAAAAAGGTGCTACGGAGTTGTGGGCTTTG---
* * *
1098193 AAAAAAAAAAGGTGCCATGGAGTTGTAGACTTAAAAGGGTGCCATAGAGTTGTGGGCTTTCAAAA
63 AAAAGAAAAAGGTGCCATGGAGTTGTAGACTTAAAAGGGTGCCATAGAGTTATGGGCATTCAAAA
* * * *
1098258 GGTGGCACGGAGTTGTGAACTTTAAAAAGAAAAAGGTACCACGAAGTTGTGGACTTAAACGGTGC
128 GATGCCACGGAGTTGTGAACTTTAAAAAGAAAAAGGTACCACGAAGTTATGGACTTAAAAGGTGC
*
1098323 CACGGAGATGTGGCTTTTAAAAAGA
193 CACAGAGATGTGGCTTTTAAAAAGA
* *
1098348 AAAAGGTACCACGAAGTTGTAGACTTAAAAGGAAAAAAGGTGCCATGGAGTTGTGGGCTTTGAAA
1 AAAAGGTACCACGAAGTTGTAGACTTAAAAGGAAAAAAGGTGCTACGGAGTTGTGGGCTTTGAAA
* *
1098413 AGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
66 AGAAAAAGGTGCCATGGAGTTGTAGACTTAAAAGG
1098448 AAAAAATGTG
Statistics
Matches: 288, Mismatches: 28, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
217 83 0.29
218 7 0.02
220 198 0.69
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.22
Consensus pattern (217 bp):
AAAAGGTACCACGAAGTTGTAGACTTAAAAGGAAAAAAGGTGCTACGGAGTTGTGGGCTTTGAAA
AGAAAAAGGTGCCATGGAGTTGTAGACTTAAAAGGGTGCCATAGAGTTATGGGCATTCAAAAGAT
GCCACGGAGTTGTGAACTTTAAAAAGAAAAAGGTACCACGAAGTTATGGACTTAAAAGGTGCCAC
AGAGATGTGGCTTTTAAAAAGA
Found at i:1098563 original size:61 final size:60
Alignment explanation
Indices: 1098456--1098569 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
1098446 GGAAAAAATG
* * *
1098456 TGCCACAAAGTTGTGGGCTTAAATGGAAAAGGATGCCACGGAGTTGTAGGCTTAAAAAGC
1 TGCCACAAAGTTGTGGACTTAAAAGGAAAAGGATGCCACAGAGTTGTAGGCTTAAAAAGC
* *
1098516 TGCCACAAAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACA-AGGTTGTTGGCTT
1 TGCCACAAAGTTGTGGACTTAAAAGG-AAAAGGATGCCACAGA-GTTGTAGGCTT
1098570 TGAGAAGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
60 25 0.53
61 22 0.47
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (60 bp):
TGCCACAAAGTTGTGGACTTAAAAGGAAAAGGATGCCACAGAGTTGTAGGCTTAAAAAGC
Found at i:1098608 original size:94 final size:94
Alignment explanation
Indices: 1098286--1098629 Score: 267
Period size: 94 Copynumber: 3.6 Consensus size: 94
1098276 ACTTTAAAAA
* * * * *
1098286 GAAAAAGG-TACCACGAAGTTGT-GGACTT-AAACGGTGCCACGGAGATGTGG-CTTTTAAAAAG
1 GAAAAAGGATGCCACGGAGTTGTAGG-CTTAAAAAGGTGCCACGGAGTTGTGGAC--TTAAAAGG
* * * * *
1098347 -AAAAAGGTACCACGAAGTTGTAGACTTAAAAG
63 AAAAAAGGTGCCACAAAGTTGTGGGCTT-AAAT
* *
1098379 GAAAAAAGG-TGCCATGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTA
1 G-AAAAAGGATGCCACGGAGTTGTAGGC-TT------AAAAAGGTGCCACGGAGTTGTGGACTTA
*
1098443 AAAGGAAAAAATGTGCCACAAAGTTGTGGGCTTAAAT
58 AAAGGAAAAAAGGTGCCACAAAGTTGTGGGCTTAAAT
* * **
1098480 GGAAAAGGATGCCACGGAGTTGTAGGCTTAAAAAGCTGCCACAAAGTTGTGGACTTAAAAGGAAA
1 GAAAAAGGATGCCACGGAGTTGTAGGCTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAA
* * *
1098545 AAGGGTGCCACAAGGTTGTTGGCTTTGAGAA-
66 AAAGGTGCCACAAAGTTGTGGGC-TT-A-AAT
* * *
1098576 GAAAAATG-TGCCATGGAGTTGT-GGACTT-AAAAGGTGCCATGGAGTTGTGGACTT
1 GAAAAAGGATGCCACGGAGTTGTAGG-CTTAAAAAGGTGCCACGGAGTTGTGGACTT
1098630 GGAGAAAAGA
Statistics
Matches: 205, Mismatches: 29, Indels: 33
0.77 0.11 0.12
Matches are distributed among these distances:
93 1 0.00
94 95 0.46
95 22 0.11
96 7 0.03
97 2 0.01
100 8 0.04
101 27 0.13
102 42 0.20
103 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.30, T:0.22
Consensus pattern (94 bp):
GAAAAAGGATGCCACGGAGTTGTAGGCTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAA
AAAGGTGCCACAAAGTTGTGGGCTTAAAT
Found at i:1098614 original size:26 final size:26
Alignment explanation
Indices: 1098578--1098629 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
1098568 TTTGAGAAGA
*
1098578 AAAATGTGCCATGGAGTTGTGGACTT
1 AAAAGGTGCCATGGAGTTGTGGACTT
1098604 AAAAGGTGCCATGGAGTTGTGGACTT
1 AAAAGGTGCCATGGAGTTGTGGACTT
1098630 GGAGAAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.29
Consensus pattern (26 bp):
AAAAGGTGCCATGGAGTTGTGGACTT
Found at i:1098703 original size:34 final size:33
Alignment explanation
Indices: 1098623--1098705 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 33
1098613 CATGGAGTTG
*
1098623 TGGACTTGGAG-AAAA--GATGCCACTGAGTCA
1 TGGACTTGGAGAAAAAGGGATGCCACTAAGTCA
1098653 TGGACTTTGG-GAAAAAAGGGATGCCACTAAGTCA
1 TGGAC-TTGGAG-AAAAAGGGATGCCACTAAGTCA
1098687 TGGACTTGGAAGAAAAAGG
1 TGGACTTGG-AGAAAAAGG
1098706 ATGTCATTGA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
30 6 0.13
31 4 0.09
32 4 0.09
33 4 0.09
34 26 0.58
35 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.19
Consensus pattern (33 bp):
TGGACTTGGAGAAAAAGGGATGCCACTAAGTCA
Found at i:1107941 original size:79 final size:79
Alignment explanation
Indices: 1107853--1108478 Score: 453
Period size: 79 Copynumber: 7.9 Consensus size: 79
1107843 ATAAAAACGA
* * * * *
1107853 GGTTGGAGTATCCCTTTGAAAATAACGAGGTTGGAATATCCTTGATGGTGAAAAATTGGTGTTTT
1 GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAATATCCTCGATTGTGAAAAATTGATGTTTT
1107918 AGAAATAAAACTGG
66 AGAAATAAAACTGG
* * * *
1107932 GGTTGGAGTATCCCCTCAAAAATAATGGGGTT-GAAGTATCCCCGATTGTGAAAAAAATATCGAT
1 GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAA-TATCCTCGATTGTG--AAAAAT-T-GAT
*
1107996 GTTTTGGAAATAAAA-TCGG
61 GTTTTAGAAATAAAACT-GG
* * * * * *
1108015 GGTTGAAGTATCCCATCGAAAAT-A-TGGGTTAGAGA-ATCCTCGATGGTGGAAAATTGATGTTT
1 GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGA-ATATCCTCGATTGTGAAAAATTGATGTTT
*
1108077 TAGAAATAAAA-TCGT
65 TAGAAATAAAACT-GG
* * * * * * *
1108092 AGTTGGAGTATCCCCTCTG-AAATAATGGGGTTGGAGTATCCACGATTGTGGAAAATTGATGTTC
1 GGTTGGAGTATCCCTTC-GAAAATAACGGGGTTGGAATATCCTCGATTGTGAAAAATTGATGTTT
1108156 TAGAAATAAAACTGG
65 TAGAAATAAAACTGG
* * * * *
1108171 AGTTAGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCTCGATTGT-AGAAAATTGAGGTTC
1 GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAATATCCTCGATTGTGA-AAAATTGATGTTT
**
1108235 TAGAAATAAAACTAA
65 TAGAAATAAAACTGG
* * * *
1108250 GGTTAGAGTATCTCC-TCGAAAATAACAGGGTTGGAGTATTCC-CGATTGTGAAAAA-TCAGTGT
1 GGTTGGAGTATC-CCTTCGAAAATAACGGGGTTGGAATA-TCCTCGATTGTGAAAAATTGA-TGT
*
1108312 TTTAGAAATAAAA-TCGA
63 TTTAGAAATAAAACT-GG
* * * * * * * * *
1108329 GTTTAGAGTATCTCCTTAG-AAATAACAGGGTTGGAGTATCCCCGATTATGGAAAA-TCAGTGTT
1 GGTTGGAGTATC-CCTTCGAAAATAACGGGGTTGGAATATCCTCGATTGTGAAAAATTGA-TGTT
* * *
1108392 TCAAAAATAAAA-T-C
64 TTAGAAATAAAACTGG
* * * * * * * * *
1108406 GG--GGAGTATCCCCTCGGAAATAACGGGGATGGAGTATCCCCGATGGT-AGAAAATCGGTATTT
1 GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAATATCCTCGATTGTGA-AAAATTGATGTTT
1108468 TAGAAATAAAA
65 TAGAAATAAAA
1108479 ACATGAATGA
Statistics
Matches: 457, Mismatches: 65, Indels: 54
0.79 0.11 0.09
Matches are distributed among these distances:
74 4 0.01
75 50 0.11
77 39 0.09
78 13 0.03
79 276 0.60
80 9 0.02
81 22 0.05
82 5 0.01
83 39 0.09
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (79 bp):
GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAATATCCTCGATTGTGAAAAATTGATGTTTT
AGAAATAAAACTGG
Found at i:1108260 original size:158 final size:156
Alignment explanation
Indices: 1107858--1108478 Score: 593
Period size: 158 Copynumber: 3.9 Consensus size: 156
1107848 AACGAGGTTG
* * * * *
1107858 GAGTATCCCTTTGAAAATAACGAGGTTGGAATATCCTTGATGGTGAAAAATTG-GTGTTTTAGAA
1 GAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATTGAGTGTTTTAGAA
* * * * *
1107922 ATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGAAGTATCCCCGATTGTGAAAAA
66 ATAAAACT-AGGTTGGAGTATCCCCTC-GAAATAACGGGGTTGGAGTATCCCCGATTGTG--GAA
* *
1107987 AATATCGATGTTTTGGAAATAAAATCGGGGTT-
127 AAT-T-GATGTTTTAGAAATAAAAT-GGAGTTA
* * * *
1108019 GAAGTATCCCATCGAAAAT-A-TGGGTTAGAGAATCCTCGATGGTGGAAAATTGA-TGTTTTAGA
1 G-AGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATTGAGTGTTTTAGA
* *
1108081 AATAAAATCGTA-GTTGGAGTATCCCCTCTGAAATAATGGGGTTGGAGTATCCACGATTGTGGAA
65 AATAAAA-C-TAGGTTGGAGTATCCCCTC-GAAATAACGGGGTTGGAGTATCCCCGATTGTGGAA
*
1108145 AATTGATGTTCTAGAAATAAAACTGGAGTTA
127 AATTGATGTTTTAGAAATAAAA-TGGAGTTA
* * *
1108176 GAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCTCGATTGTAGAAAATTGAG-GTTCTAGAA
1 GAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATTGAGTGTTTTAGAA
* * * *
1108240 ATAAAACTAAGGTTAGAGTATCTCCTCGAAAATAACAGGGTTGGAGTATTCCCGATTGT-GAAAA
66 ATAAAACT-AGGTTGGAGTATCCCCTCG-AAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAA
* * *
1108304 ATCAGTGTTTTAGAAATAAAATCGAGTTTA
129 TTGA-TGTTTTAGAAATAAAATGGAG-TTA
* * * ** * * *
1108334 GAGTATCTCCTTAG-AAATAACAGGGTTGGAGTATCCCCGATTATGGAAAA-TCAGTGTTTCAAA
1 GAGTATC-CCTTCGAAAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATTGAGTGTTTTAGA
* * * *
1108397 AATAAAA-TCGG--GGAGTATCCCCTCGGAAATAACGGGGATGGAGTATCCCCGATGGTAGAAAA
65 AATAAAACTAGGTTGGAGTATCCCCTC-GAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAA
* * *
1108459 TCGGTATTTTAGAAATAAAA
129 TTGATGTTTTAGAAATAAAA
1108479 ACATGAATGA
Statistics
Matches: 386, Mismatches: 56, Indels: 43
0.80 0.12 0.09
Matches are distributed among these distances:
154 52 0.13
155 6 0.02
156 40 0.10
157 22 0.06
158 156 0.40
159 5 0.01
160 86 0.22
161 3 0.01
162 16 0.04
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (156 bp):
GAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATTGAGTGTTTTAGAA
ATAAAACTAGGTTGGAGTATCCCCTCGAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAATT
GATGTTTTAGAAATAAAATGGAGTTA
Found at i:1108402 original size:237 final size:234
Alignment explanation
Indices: 1107911--1108459 Score: 575
Period size: 237 Copynumber: 2.3 Consensus size: 234
1107901 TGAAAAATTG
* * * *
1107911 GTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGAAGTATCCCCG
1 GTGTTTCAGAAATAAAACT-GGGTT-GAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCG
* * * * ** *
1107976 ATTGTGAAAAAAATATCGATGTTTTGGAAATAAAATCGGGGTTGAAGTATCCCATCGAAAATATG
64 ATTGT--AGAAAATATCGAGGTTCTAGAAATAAAATCAAGGTTGAAGTATCCCATCGAAAATAAG
* * *
1108041 GGTTAGAGAATCCTCGATGGTGGAAAATTGATGTTTTAGAAATAAAATCGTAGTTGGAGTATCCC
127 GGTTAGAGAATCCTCGATGGTGAAAAATAGATGTTTTAGAAATAAAATCGTAGTTAGAGTATCCC
** * *
1108106 CTCTGAAATAATGGGGTTGGAGTATCCACGATTGTGGAAAATT
192 CTCTGAAATAACAGGGTTGGAGTATCCACGATTATGGAAAATA
* *
1108149 GATG-TTCTAGAAATAAAACTGGAGTTAGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCT
1 G-TGTTTC-AGAAATAAAACTGG-GTT-GAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCC
1108213 CGATTGTAGAAAAT-T-GAGGTTCTAGAAATAAAA-CTAAGGTT-AGAGTATCTCC-TCGAAAAT
62 CGATTGTAGAAAATATCGAGGTTCTAGAAATAAAATC-AAGGTTGA-AGTATC-CCATCGAAAAT
* * *
1108273 AACAGGGTTGGAGTATTCC-CGATTGTGAAAAATCAG-TGTTTTAGAAATAAAATCG-AGTTTAG
124 -A-AGGGTTAGAG-AATCCTCGATGGTGAAAAAT-AGATGTTTTAGAAATAAAATCGTAG-TTAG
* *
1108335 AGTATCTCCT-TAGAAATAACAGGGTTGGAGTATCCCCGATTATGGAAAATCA
184 AGTATCCCCTCT-GAAATAACAGGGTTGGAGTATCCACGATTATGGAAAAT-A
* * *
1108387 GTGTTTCAAAAATAAAA-TCGGG--GAGTATCCCCTCGGAAATAACGGGGATGGAGTATCCCCGA
1 GTGTTTCAGAAATAAAACT-GGGTTGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGA
*
1108449 TGGTAGAAAAT
65 TTGTAGAAAAT
1108460 CGGTATTTTA
Statistics
Matches: 264, Mismatches: 32, Indels: 35
0.80 0.10 0.11
Matches are distributed among these distances:
233 46 0.17
234 2 0.01
235 33 0.12
236 9 0.03
237 104 0.39
238 14 0.05
239 56 0.21
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (234 bp):
GTGTTTCAGAAATAAAACTGGGTTGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
TGTAGAAAATATCGAGGTTCTAGAAATAAAATCAAGGTTGAAGTATCCCATCGAAAATAAGGGTT
AGAGAATCCTCGATGGTGAAAAATAGATGTTTTAGAAATAAAATCGTAGTTAGAGTATCCCCTCT
GAAATAACAGGGTTGGAGTATCCACGATTATGGAAAATA
Found at i:1111593 original size:43 final size:42
Alignment explanation
Indices: 1111553--1111806 Score: 251
Period size: 43 Copynumber: 5.9 Consensus size: 42
1111543 TCGAGGACAA
* *
1111553 AAAGGAAAAAAAGAAATAAAATGCATCCTACTC-TTGAGGAC
1 AAAGGAAAAAAAGAAATAAAATGCGTCCTGCTCTTTGAGGAC
* *
1111594 AAAGAAAAAAAAGAAATAAAATGCGTCATGCTCTTTGAGGAC
1 AAAGGAAAAAAAGAAATAAAATGCGTCCTGCTCTTTGAGGAC
* * * * * *
1111636 AAAGGAAAAGAAGGAAATTAAGTGTGTCCTACTCTTTAAGGAC
1 AAAGGAAAA-AAAGAAATAAAATGCGTCCTGCTCTTTGAGGAC
* *
1111679 AAAGGAGAAAAAA-ATATATAATGCAGTCCTGCTCTTTGAGGAC
1 AAAGGA-AAAAAAGAAATAAAATGC-GTCCTGCTCTTTGAGGAC
* * *
1111722 AAAAAGAAAAAAAGGAAATAAAATACGTCATGCTCTTTGAGGAC
1 -AAAGGAAAAAAA-GAAATAAAATGCGTCCTGCTCTTTGAGGAC
* * * *
1111766 AAAAGGGAAAGGAAGGAAATAAAGTGCGTCTTGCTCTTTGA
1 -AAA-GGAAA-AAAAGAAATAAAATGCGTCCTGCTCTTTGA
1111807 AGACTAAAAG
Statistics
Matches: 173, Mismatches: 31, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
41 29 0.17
42 22 0.13
43 56 0.32
44 29 0.17
45 35 0.20
46 2 0.01
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.20
Consensus pattern (42 bp):
AAAGGAAAAAAAGAAATAAAATGCGTCCTGCTCTTTGAGGAC
Found at i:1111723 original size:86 final size:85
Alignment explanation
Indices: 1111540--1111740 Score: 237
Period size: 85 Copynumber: 2.4 Consensus size: 85
1111530 TACACCATAT
* * * ** *
1111540 TCTTCGAGGACAAAAAGGAAAAAAA-GAAATAAAATGCATCCTACTCTTGAGGACAAAGAAAAAA
1 TCTTTGAGGACAAAAA-GAAAAAAAGGAAATTAAGTGTGTCCTACTCTTAAGGACAAAGAAAAAA
1111604 AAGAAATAAAATGCGTCATGC
65 AAGAAATAAAATGCGTCATGC
* * *
1111625 TCTTTGAGGAC-AAAGGAAAAGAAGGAAATTAAGTGTGTCCTACTCTTTAAGGACAAAGGAGAAA
1 TCTTTGAGGACAAAAAGAAAAAAAGGAAATTAAGTGTGTCCTACTC-TTAAGGACAAA-GAAAAA
* * *
1111689 AAA-ATATATAATGCAGTCCTGC
64 AAAGAAATAAAATGC-GTCATGC
1111711 TCTTTGAGGACAAAAAGAAAAAAAGGAAAT
1 TCTTTGAGGACAAAAAGAAAAAAAGGAAAT
1111741 AAAATACGTC
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
83 7 0.07
84 20 0.21
85 29 0.30
86 25 0.26
87 16 0.16
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.19
Consensus pattern (85 bp):
TCTTTGAGGACAAAAAGAAAAAAAGGAAATTAAGTGTGTCCTACTCTTAAGGACAAAGAAAAAAA
AGAAATAAAATGCGTCATGC
Found at i:1111753 original size:130 final size:128
Alignment explanation
Indices: 1111553--1111791 Score: 349
Period size: 130 Copynumber: 1.9 Consensus size: 128
1111543 TCGAGGACAA
*
1111553 AAAGGAAAAAAAGAAATAAAATGCATCCTACTCTTGAGGACAAAGAAAAAAAAGAAATAAAATGC
1 AAAGGAAAAAAAGAAATAAAATGCATCCTACTCTTGAGGACAAAGAAAAAAAAGAAATAAAATAC
*
1111618 GTCATGCTCTTTGAGGAC-AAA-GGAAAAGAAGGAAATTAAGTGTGTCCTACTCTTTAAGGAC
66 GTCATGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATAAAGTGTGTCCTACTCTTTAAGGAC
* * * *
1111679 AAAGGAGAAAAAA-ATATATAATGCAGTCCTGCTCTTTGAGGACAAAAAGAAAAAAAGGAAATAA
1 AAAGGA-AAAAAAGAAATAAAATGCA-TCCTACTC-TTGAGGAC--AAAGAAAAAAAAGAAATAA
*
1111743 AATACGTCATGCTCTTTGAGGACAAAAGGGAAAGGAAGGAAATAAAGTG
61 AATACGTCATGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATAAAGTG
1111792 CGTCTTGCTC
Statistics
Matches: 99, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
126 16 0.16
127 13 0.13
128 8 0.08
130 40 0.40
131 3 0.03
132 19 0.19
ACGTcount: A:0.49, C:0.11, G:0.21, T:0.19
Consensus pattern (128 bp):
AAAGGAAAAAAAGAAATAAAATGCATCCTACTCTTGAGGACAAAGAAAAAAAAGAAATAAAATAC
GTCATGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATAAAGTGTGTCCTACTCTTTAAGGAC
Found at i:1111951 original size:61 final size:61
Alignment explanation
Indices: 1111860--1112115 Score: 383
Period size: 61 Copynumber: 4.2 Consensus size: 61
1111850 AAGGAAAGTG
* *
1111860 TCCTGCTCTTTGGGGACT-AGAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
*
1111921 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
* * * *
1111982 TCCTGCTCTTTGAGGACTGAAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
*
1112043 TCCTACTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAA-GCA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
**
1112103 TCCCACTCTTTGA
1 TCCTGCTCTTTGA
1112116 AAGGAAAAGG
Statistics
Matches: 181, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
60 14 0.08
61 162 0.90
62 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
Found at i:1112040 original size:122 final size:122
Alignment explanation
Indices: 1111797--1112115 Score: 419
Period size: 122 Copynumber: 2.6 Consensus size: 122
1111787 AAGTGCGTCT
* * * * *
1111797 TGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAGATGAAAAAGGAAAGTGTC
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AAGGAAAAGG-CA---TC
* *
1111862 CTGCTCTTTGGGGACTAGAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGAAAAAGGCATCC
61 CTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCC
1111924 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCT
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCT
* * * *
1111989 CTTTGAGGACT-GAAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
66 CTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCC
* * **
1112046 TACTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAAGCATCCCAC
1 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGC
1112109 TCTTTGA
65 TCTTTGA
1112116 AAGGAAAAGG
Statistics
Matches: 175, Mismatches: 15, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
121 20 0.11
122 98 0.56
123 4 0.02
125 1 0.01
126 8 0.05
127 44 0.25
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (122 bp):
TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCT
CTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCC
Found at i:1112128 original size:25 final size:25
Alignment explanation
Indices: 1112086--1112140 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
1112076 CTTGTGTGGG
1112086 CTTT-AAAAGAAAAAGCATCCCACT
1 CTTTGAAAAGAAAAAGCATCCCACT
* * **
1112110 CTTTGAAAGGAAAAGGCATCCTGCT
1 CTTTGAAAAGAAAAAGCATCCCACT
1112135 CTTTGA
1 CTTTGA
1112141 GGACTAGAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.25
Consensus pattern (25 bp):
CTTTGAAAAGAAAAAGCATCCCACT
Found at i:1112952 original size:13 final size:13
Alignment explanation
Indices: 1112924--1112979 Score: 58
Period size: 14 Copynumber: 4.1 Consensus size: 13
1112914 AAGCAGGTTC
*
1112924 TTTTCTTTTCTCTT
1 TTTTCTTTT-TTTT
1112938 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
*
1112951 TTTTGTTGTTTTTT
1 TTTTCTT-TTTTTT
*
1112965 GTTGTCTTTTTTTT
1 -TTTTCTTTTTTTT
1112979 T
1 T
1112980 GAAAAAAAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
13 10 0.28
14 21 0.58
15 5 0.14
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:1123223 original size:4 final size:4
Alignment explanation
Indices: 1123214--1123263 Score: 91
Period size: 4 Copynumber: 12.5 Consensus size: 4
1123204 AAACAAAACA
*
1123214 AAAT AAAT AAAT AAAT AAAT AAAT GAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1123262 AA
1 AA
1123264 GCACCTCAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1125400 original size:79 final size:78
Alignment explanation
Indices: 1125302--1126129 Score: 637
Period size: 79 Copynumber: 10.6 Consensus size: 78
1125292 AAATTTAATA
* *
1125302 TTTTAGAGATAAAAACGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG
1 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG
*
1125367 ATAGAAAATCGGTG
66 AT-GAAAATCGATG
* * ** * *
1125381 TTTTAGAAATAAAATCGGGGTTTGAGTA-CTCCCTCAAAAATAATAGGGTTGAAGTATCCCTGAT
1 TTTTAGAAATAAAATCGGGGTTGGAGTATC-CCCTCAGAAATAACGGGGTTGGAGTATCCCCGA-
1125445 TG-TGAAAA-CGATG
64 TGATGAAAATCGATG
* ** * ***
1125458 TTTT-GAAAATAAAACCACGGTTGGAGTATTCCCTCAGAAATAATAAGGTTGGAGTATCCCCGAT
1 TTTTAG-AAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGAT
* *
1125522 GGTAGAAAATTGATG
65 GAT-GAAAATCGATG
* * *
1125537 TTTTAGAAATAAAGTCGGAGTTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATT
1 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGA-T
*
1125602 G-TGGAAAATTGATG
65 GAT-GAAAATCGATG
* * ** * * * * * * * *
1125616 TTCTAGAAATAAAACCAAGATTAGAGTATCCTCTCAAAAATAACGGGATTGGAGGATCTCCGATT
1 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG
1125681 ATGAAAAATC-AGTG
66 ATG-AAAATCGA-TG
* * * * * ** *
1125695 TTTCAGAAATAAAACCAGGGTTGGAGTATCTCCTC-GAAAATAATGGGGTTTAAGTATCCTCGAT
1 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGAT
* *
1125759 TATGGAAAAATTGATG
65 GAT-G-AAAATCGATG
* * * * * * *
1125775 TTTCAAAAATAAAATCCGGGTTTGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATT
1 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG
1125840 ATGAAAAATCGATG
66 ATG-AAAATCGATG
* * * * * *
1125854 TTTCAAAAATAAAATCGAGCTTGGAGTATCTCCTC-GAAAATAACGGGGTTGGAGTATCACCGAT
1 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGAT
*
1125918 GGTGGAAAATCGATG
65 GAT-GAAAATCGATG
* * * * * * * * *
1125933 TTTTAGAAATAAAATCGAGGTTGTAGTATCTCCTAAAAAATAACGAGATT---G-ATCCTCGATT
1 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG
*
1125994 ATGAAAAAATATCGGTG
66 ATG---AAA-ATCGATG
* * * * * *
1126011 TTTTGGAAATAAAATCGGGGTTAGAGTA-CCCTTC-GAAAATAATGGGGTTGGAGTATTCACGAT
1 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGAT
*
1126074 -AGTGAAAAATAGATG
65 GA-TG-AAAATCGATG
* * *
1126089 TTTTAGAAATAAAA-C-CGATTGGAGTATCCCCTCGGAAATAA
1 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAA
1126130 TGAGATGAAA
Statistics
Matches: 603, Mismatches: 115, Indels: 64
0.77 0.15 0.08
Matches are distributed among these distances:
74 1 0.00
75 8 0.01
76 12 0.02
77 84 0.14
78 63 0.10
79 353 0.59
80 72 0.12
81 10 0.02
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (78 bp):
TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG
ATGAAAATCGATG
Found at i:1125493 original size:156 final size:156
Alignment explanation
Indices: 1125302--1126121 Score: 763
Period size: 156 Copynumber: 5.2 Consensus size: 156
1125292 AAATTTAATA
* * ** * * *
1125302 TTTTAGAGATAAAAACGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG
1 TTTTAGAAATAAAACCACGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATT
* * *
1125367 ATAGAAAATCGGTGTTTTAGAAATAAAATCGGGGTTTGAGTACTCCCTCAAAAATAATAGGGTTG
66 ATAGAAAATCGGTGTTTTAGAAATAAAATCGGGGTTAGAGTA-TCCCTCGAAAATAATGGGGTTG
*
1125432 AAGTATCCCTGATTGT-GAAAA-CGATG
130 GAGTATCCC-GATTGTGGAAAATCGATG
* * **
1125458 TTTT-GAAAATAAAACCACGGTTGGAGTATTCCCTCAGAAATAATAAGGTTGGAGTATCCCCGAT
1 TTTTAG-AAATAAAACCACGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGAT
** * * * * *
1125522 GGTAGAAAATTGATGTTTTAGAAATAAAGTCGGAGTTAGAGTATCCCCTC-AGAAATAACGGGGT
65 TATAGAAAATCGGTGTTTTAGAAATAAAATCGGGGTTAGAGTAT-CCCTCGA-AAATAATGGGGT
*
1125586 TGGAGTATCCCCGATTGTGGAAAATTGATG
128 TGGAGTAT-CCCGATTGTGGAAAATCGATG
* * * * * * *
1125616 TTCTAGAAATAAAACCAAGATTAGAGTATCCTCTCAAAAATAACG-GGATTGGAGGATCTCCGAT
1 TTTTAGAAATAAAACCACGGTTGGAGTATCCCCTCAAAAATAACGAGG-TTGGAGTATCCCCGAT
* * * * *
1125680 TAT-GAAAAATCAGTGTTTCAGAAATAAAACCAGGGTTGGAGTATCTCCTCGAAAATAATGGGGT
65 TATAG-AAAATCGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATC-CCTCGAAAATAATGGGGT
** * *
1125744 TTAAGTATCCTCGATTATGGAAAAATTGATG
128 TGGAGTATCC-CGATTGTGG-AAAATCGATG
* * * *
1125775 TTTCAAAAATAAAATCC-GGGTTTGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGAT
1 TTTTAGAAATAAAA-CCACGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGAT
* * * * * * *
1125839 TAT-GAAAAATCGATGTTTCAAAAATAAAATCGAGCTTGGAGTATCTCCTCGAAAATAACGGGGT
65 TATAG-AAAATCGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATC-CCTCGAAAATAATGGGGT
*
1125903 TGGAGTATCACCGATGGTGGAAAATCGATG
128 TGGAGTATC-CCGATTGTGGAAAATCGATG
* * * * * *
1125933 TTTTAGAAATAAAATCGA-GGTTGTAGTATCTCCTAAAAAATAACGAGATT---G-ATCCTCGAT
1 TTTTAGAAATAAAA-CCACGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGAT
* *
1125993 TATGAAAAAATATCGGTGTTTTGGAAATAAAATCGGGGTTAGAGTA-CCCTTCGAAAATAATGGG
65 TAT--AGAAA-ATCGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCCC-TCGAAAATAATGGG
* * * *
1126057 GTTGGAGTATTCACGATAGTGAAAAATAGATG
126 GTTGGAGTA-TCCCGATTGTGGAAAATCGATG
*
1126089 TTTTAGAAATAAAA-C-CGATTGGAGTATCCCCTC
1 TTTTAGAAATAAAACCACGGTTGGAGTATCCCCTC
1126122 GGAAATAATG
Statistics
Matches: 547, Mismatches: 93, Indels: 50
0.79 0.13 0.07
Matches are distributed among these distances:
154 24 0.04
155 6 0.01
156 175 0.32
157 44 0.08
158 162 0.30
159 131 0.24
160 5 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (156 bp):
TTTTAGAAATAAAACCACGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATT
ATAGAAAATCGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCTCGAAAATAATGGGGTTGG
AGTATCCCGATTGTGGAAAATCGATG
Found at i:1125897 original size:317 final size:310
Alignment explanation
Indices: 1125325--1126121 Score: 859
Period size: 317 Copynumber: 2.5 Consensus size: 310
1125315 AACGGGGTTG
* * * * *
1125325 GAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAT-AGAAAATCGGTGTTTTAGAA
1 GAGTATCCTCTCAAAAATAACGGGATTGGAGGAT-CCCGATTATGA-AAAATCGGTGTTTTAGAA
* * * *
1125389 ATAAAATCGGGGTTTGAGTACTCCCTCAAAAATAATAGGGTTGAAGTATCCCTGATTGT-G-AAA
64 ATAAAATCGGGGTTAGAGTACT-CCTCGAAAATAATGGGGTTGAAGTATCCC-GATTATGGAAAA
* * * * *
1125452 A-CGATGTTTTGAAAATAAAACCACGGTTGGAGTATTCCCTCAGAAATAATAAGGTTGGAGTATC
127 ATAGATGTTTTAAAAATAAAA-C-CGGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATC
* * * *
1125516 CCCGATGGTAGAAAATTGATGTTTTAGAAATAAAGTCGGAGTTAGAGTATCCCCTCAGAAATAAC
190 CCCGAT-GTAGAAAATCGATGTTTCAAAAATAAAATCGGAGTTAGAGTATCCCCTCAGAAATAAC
* * *
1125581 GGGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTTCTAGAAATAAAACCAAGATT
254 GGGGTTGGAGTATCACCGATGGTGGAAAATCGATGTTCTAGAAATAAAACCAAGATT
* *
1125638 AGAGTATCCTCTCAAAAATAACGGGATTGGAGGATCTCCGATTATGAAAAATCAGTGTTTCAGAA
1 -GAGTATCCTCTCAAAAATAACGGGATTGGAGGATC-CCGATTATGAAAAATCGGTGTTTTAGAA
* * * *
1125703 ATAAAACCAGGGTTGGAGTATCTCCTCGAAAATAATGGGGTTTAAGTATCCTCGATTATGGAAAA
64 ATAAAATCGGGGTTAGAGTA-CTCCTCGAAAATAATGGGGTTGAAGTATCC-CGATTATGGAAAA
* * * *
1125768 ATTGATGTTTCAAAAATAAAATCCGGGTTTGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATC
127 ATAGATGTTTTAAAAATAAAA-CC-GGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATC
* *
1125833 CCCGAT-TATGAAAAATCGATGTTTCAAAAATAAAATC-GAGCTTGGAGTATCTCCTC-GAAAAT
190 CCCGATGTA-G-AAAATCGATGTTTCAAAAATAAAATCGGAG-TTAGAGTATCCCCTCAG-AAAT
* * * *
1125895 AACGGGGTTGGAGTATCACCGATGGTGGAAAATCGATGTTTTAGAAATAAAATCGAGGTT
251 AACGGGGTTGGAGTATCACCGATGGTGGAAAATCGATGTTCTAGAAATAAAACCAAGATT
* *
1125955 GTAGTAT-CTCCTAAAAAATAACGAGATT----GATCCTCGATTATGAAAAAATATCGGTGTTTT
1 G-AGTATCCT-CTCAAAAATAACGGGATTGGAGGATCC-CGATTATG--AAAA-ATCGGTGTTTT
* * *
1126015 GGAAATAAAATCGGGGTTAGAGTAC-CCTTCGAAAATAATGGGGTTGGAGTATTCACGA-TA-GT
60 AGAAATAAAATCGGGGTTAGAGTACTCC-TCGAAAATAATGGGGTTGAAGTA-TCCCGATTATG-
* *
1126077 GAAAAATAGATGTTTTAGAAATAAAACCGATTGGAGTATCCCCTC
122 GAAAAATAGATGTTTTAAAAATAAAACCGGTTGGAGTATCCCCTC
1126122 GGAAATAATG
Statistics
Matches: 410, Mismatches: 52, Indels: 44
0.81 0.10 0.09
Matches are distributed among these distances:
312 16 0.04
313 16 0.04
314 127 0.31
315 36 0.09
316 44 0.11
317 171 0.42
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (310 bp):
GAGTATCCTCTCAAAAATAACGGGATTGGAGGATCCCGATTATGAAAAATCGGTGTTTTAGAAAT
AAAATCGGGGTTAGAGTACTCCTCGAAAATAATGGGGTTGAAGTATCCCGATTATGGAAAAATAG
ATGTTTTAAAAATAAAACCGGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCCCGAT
GTAGAAAATCGATGTTTCAAAAATAAAATCGGAGTTAGAGTATCCCCTCAGAAATAACGGGGTTG
GAGTATCACCGATGGTGGAAAATCGATGTTCTAGAAATAAAACCAAGATT
Found at i:1126147 original size:58 final size:59
Alignment explanation
Indices: 1126079--1126191 Score: 167
Period size: 58 Copynumber: 1.9 Consensus size: 59
1126069 ACGATAGTGA
* *
1126079 AAAATAGATGTTTTAGAAATAAAACCGA-TTGGAGTATCC-CCTCGGAAATAATGAGATG
1 AAAATAGATGTTCTAGAAATAAAACCGAGTTGGAGTA-CCTCCTCGAAAATAATGAGATG
*
1126137 AAAATTGATGTTCTAGAAATAAAACCGAGGTTGGAGTACCTCCTCGAAAATAATG
1 AAAATAGATGTTCTAGAAATAAAACCGA-GTTGGAGTACCTCCTCGAAAATAATG
1126192 GGGTTGGAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
58 26 0.53
59 2 0.04
60 21 0.43
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (59 bp):
AAAATAGATGTTCTAGAAATAAAACCGAGTTGGAGTACCTCCTCGAAAATAATGAGATG
Done.