Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 4 of 333
Found at i:925363 original size:16 final size:16
Alignment explanation
Indices: 925309--925366 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
925299 TGAATTTATC
* *
925309 AAATTTATATTGATTG
1 AAATATATATTAATTG
*
925325 AAATCAT-T-TTGATT-
1 AAAT-ATATATTAATTG
*
925339 AAATTTATATTAATTG
1 AAATATATATTAATTG
925355 AAATATATATTA
1 AAATATATATTA
925367 TATATATGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 1 0.03
14 5 0.15
15 11 0.32
16 16 0.47
17 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (16 bp):
AAATATATATTAATTG
Found at i:928144 original size:14 final size:14
Alignment explanation
Indices: 928106--928147 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
928096 TTTAGTTATT
*
928106 TTATTATTTAAGT-
1 TTATTATTTTAGTA
* *
928119 TAATTATCTTAGTA
1 TTATTATTTTAGTA
928133 TTATTATTTTAGTA
1 TTATTATTTTAGTA
928147 T
1 T
928148 CTAATATTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (14 bp):
TTATTATTTTAGTA
Found at i:928360 original size:21 final size:22
Alignment explanation
Indices: 928330--928371 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
928320 GTTAACTTTC
*
928330 TATAGCATATTTTACTATTATA
1 TATAGCATATATTACTATTATA
*
928352 TATA-CATATATTATTATTAT
1 TATAGCATATATTACTATTAT
928372 GTACATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
TATAGCATATATTACTATTATA
Found at i:936224 original size:19 final size:19
Alignment explanation
Indices: 936200--936273 Score: 58
Period size: 21 Copynumber: 3.7 Consensus size: 19
936190 GTGGGGGTCT
936200 ACACACCCATGTGAAGGCCAC
1 ACACACCCATGTGAAGG-C-C
* *
936221 ACACACCCGTATGAAGGCC
1 ACACACCCATGTGAAGGCC
* * *
936240 ACATCGCCCATGTGGAGGCG
1 ACA-CACCCATGTGAAGGCC
* *
936260 GCACACCCGTGTGA
1 ACACACCCATGTGA
936274 GTAGCCCGTG
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 12 0.29
20 14 0.34
21 15 0.37
ACGTcount: A:0.27, C:0.35, G:0.26, T:0.12
Consensus pattern (19 bp):
ACACACCCATGTGAAGGCC
Found at i:936226 original size:21 final size:21
Alignment explanation
Indices: 936200--936242 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
936190 GTGGGGGTCT
*
936200 ACACACCCATGTGAAGGCCAC
1 ACACACCCATATGAAGGCCAC
*
936221 ACACACCCGTATGAAGGCCAC
1 ACACACCCATATGAAGGCCAC
936242 A
1 A
936243 TCGCCCATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.37, G:0.19, T:0.09
Consensus pattern (21 bp):
ACACACCCATATGAAGGCCAC
Found at i:936673 original size:30 final size:30
Alignment explanation
Indices: 936639--936700 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
936629 ACTTAGTTTA
936639 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
936669 TTGTTAATTTTGTTATTATTTTAGAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
936699 TT
1 TT
936701 ACTCGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:959387 original size:18 final size:18
Alignment explanation
Indices: 959373--959418 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
959363 TTTATATACG
959373 TATGTATATGGATATGGA
1 TATGTATATGGATATGGA
*
959391 TATGGATATGGATATGGA
1 TATGTATATGGATATGGA
959409 TATGTATATG
1 TATGTATATG
959419 TATAATCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (18 bp):
TATGTATATGGATATGGA
Found at i:959422 original size:6 final size:6
Alignment explanation
Indices: 959373--959418 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
959363 TTTATATACG
* *
959373 TATGTA TATGGA TATGGA TATGGA TATGGA TATGGA TATGTA TATG
1 TATGGA TATGGA TATGGA TATGGA TATGGA TATGGA TATGGA TATG
959419 TATAATCATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (6 bp):
TATGGA
Found at i:959530 original size:3 final size:3
Alignment explanation
Indices: 959524--959554 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
959514 ATAATAATAA
*
959524 TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
959555 TTGAACATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:960015 original size:24 final size:23
Alignment explanation
Indices: 959971--960035 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 23
959961 AAAAATAAAT
959971 AAATATTTATTATTATATTTTAA
1 AAATATTTATTATTATATTTTAA
959994 AAATATTTATTTATTCAT-TTTT--
1 AAATATTTA-TTATT-ATATTTTAA
960016 -AA-ATTTATTATTATATTTTA
1 AAATATTTATTATTATATTTTA
960036 TTGAAACTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
18 2 0.05
19 9 0.24
20 5 0.13
21 2 0.05
23 9 0.24
24 9 0.24
25 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
AAATATTTATTATTATATTTTAA
Found at i:962436 original size:22 final size:22
Alignment explanation
Indices: 962398--962439 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
962388 AGAGAGTTAA
*
962398 AAATGTAATTTTGTTATTATAT
1 AAATGTAAATTTGTTATTATAT
962420 AAATGTAAAATTT-TTATTAT
1 AAATGT-AAATTTGTTATTAT
962440 TTTCACGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
AAATGTAAATTTGTTATTATAT
Found at i:968778 original size:26 final size:26
Alignment explanation
Indices: 968742--968794 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
968732 GGTCAAATAG
968742 ATTCTATAGTTAATCTTTCTCGTATA
1 ATTCTATAGTTAATCTTTCTCGTATA
968768 ATTCTATAGTTAATCTTTCTCGTATA
1 ATTCTATAGTTAATCTTTCTCGTATA
968794 A
1 A
968795 GTCATGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (26 bp):
ATTCTATAGTTAATCTTTCTCGTATA
Found at i:984538 original size:13 final size:13
Alignment explanation
Indices: 984520--984545 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
984510 ATAGAGATTA
984520 AATCTCAAGCCGG
1 AATCTCAAGCCGG
984533 AATCTCAAGCCGG
1 AATCTCAAGCCGG
984546 TACAATATAA
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:0.31, G:0.23, T:0.15
Consensus pattern (13 bp):
AATCTCAAGCCGG
Found at i:986104 original size:4 final size:4
Alignment explanation
Indices: 986087--986127 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
986077 CAATTTATTC
986087 ATGT A-GT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
986128 ACTGATGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 6 0.17
4 30 0.83
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (4 bp):
ATGT
Found at i:986442 original size:26 final size:26
Alignment explanation
Indices: 986386--986442 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
986376 AGATCATGTC
*
986386 AATTTAAATTTTCAAAGTTCTTGGAT
1 AATTTAAATTTTCAAAGTTCTTGAAT
* *
986412 AATTTAAGATTTTTAGAGTT-TTGAAT
1 AATTTAA-ATTTTCAAAGTTCTTGAAT
*
986438 TATTT
1 AATTT
986443 GGGGTTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (26 bp):
AATTTAAATTTTCAAAGTTCTTGAAT
Found at i:986480 original size:32 final size:33
Alignment explanation
Indices: 986414--986481 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
986404 TCTTGGATAA
* * *
986414 TTTAAGATTTTTAGAGTTTTGAATTATTTGGGG
1 TTTAAAATTTTTAAAGTTTTGAATCATTTGGGG
*
986447 TTTAAAATTTTTAAAG-TTTGAATCATTTTGGG
1 TTTAAAATTTTTAAAGTTTTGAATCATTTGGGG
986479 TTT
1 TTT
986482 GGATAGTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.26, C:0.01, G:0.19, T:0.53
Consensus pattern (33 bp):
TTTAAAATTTTTAAAGTTTTGAATCATTTGGGG
Found at i:987508 original size:17 final size:17
Alignment explanation
Indices: 987486--987519 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
987476 ATCCACTAAT
*
987486 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
987503 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
987520 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:992147 original size:17 final size:17
Alignment explanation
Indices: 992125--992158 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
992115 ATCCACTAAT
*
992125 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
992142 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
992159 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:994806 original size:20 final size:20
Alignment explanation
Indices: 994778--994815 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
994768 TTTTTACTCA
* *
994778 AAACTTTAAATCTTGAACCC
1 AAACCTTAAACCTTGAACCC
994798 AAACCTTAAACCTTGAAC
1 AAACCTTAAACCTTGAAC
994816 TTCAAGTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (20 bp):
AAACCTTAAACCTTGAACCC
Found at i:997738 original size:264 final size:254
Alignment explanation
Indices: 997354--997877 Score: 617
Period size: 252 Copynumber: 2.0 Consensus size: 254
997344 GTTAACTTCT
* * *
997354 TAATGTTGTTTTAAGTTGATTGGCATTGCTAGTTTCTGATACTAAGTTAGTTGGTAAGTAGCTTT
1 TAATGTTGTTTTAAGTTGATTGGCATTGCTAGTTTCTAATACTAAG-TA-TTGATAAATAGCTTT
* ** ** *
997419 GGATGTGCAGACATGGTGGGGTATAATGTGGTTTATTGTTTAAAAGCTCTTCATATATATACATG
64 GAACATGCAGACATGGCCGGGTATAATGTAGTTTATTGTTTAAAAGCTCTTCATATATAT--AT-
* *
997484 CACATGCACACGCACACGTGCGTGCATGCATGCATACATTTATATGTATATATAGAAGTGGGATC
126 -ACAT--ACACGCACA--TGC--G--TGCATGCATACATATATATGTATATATAGAAATGGGATC
* * * * * * *
997549 TAATGATTCATTAATGTCCCCGAAA-ATGTTAAACTCCCCCTTTATGAACTTCATTTTGCTGCTT
182 TAACGATTCACTAATGCCCCCCAAATATGTTAAA-TCCCCCTTAAGGAACTTCATTTTGCTACTT
997613 AGATGTGGA
246 AGATGTGGA
*
997622 TAATGTTGTTTTAATTTGATTGGCATTGCTAGTTTCTAACT-CTAA-T-TTGATAAATAGCTTTG
1 TAATGTTGTTTTAAGTTGATTGGCATTGCTAGTTTCTAA-TACTAAGTATTGATAAATAGCTTTG
* * *
997684 AACATGCAGGCATGGCCGGGTATAATGTAGTTTTTTGTTTAAAAGCAT-TTCATATATATATATA
65 AACATGCAGACATGGCCGGGTATAATGTAGTTTATTGTTTAAAAGC-TCTTCATATATATATACA
* * *
997748 TACATGCACATGCGTGCATGCATACATATATATGTGTATATGGAAATGGGATCTAACGATTCACT
129 TACACGCACATGCGTGCATGCATACATATATATGTATATATAGAAATGGGATCTAACGATTCACT
**
997813 AATGCCCCCCAAATATGTTAAATCCCCCTTAAGGGTCTTCATTTTGCTACTTAGATGTGGA
194 AATGCCCCCCAAATATGTTAAATCCCCCTTAAGGAACTTCATTTTGCTACTTAGATGTGGA
997874 TAAT
1 TAAT
997878 ATAGTCTTGA
Statistics
Matches: 226, Mismatches: 27, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
252 94 0.42
253 8 0.04
254 1 0.00
256 3 0.01
258 8 0.04
260 3 0.01
262 2 0.01
264 63 0.28
265 1 0.00
266 1 0.00
268 41 0.18
269 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (254 bp):
TAATGTTGTTTTAAGTTGATTGGCATTGCTAGTTTCTAATACTAAGTATTGATAAATAGCTTTGA
ACATGCAGACATGGCCGGGTATAATGTAGTTTATTGTTTAAAAGCTCTTCATATATATATACATA
CACGCACATGCGTGCATGCATACATATATATGTATATATAGAAATGGGATCTAACGATTCACTAA
TGCCCCCCAAATATGTTAAATCCCCCTTAAGGAACTTCATTTTGCTACTTAGATGTGGA
Found at i:1002568 original size:6 final size:6
Alignment explanation
Indices: 1002557--1002587 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1002547 TGAATACTCC
*
1002557 CTTCAT CTTCAT CTTCAT CTTCTT CTTCAT C
1 CTTCAT CTTCAT CTTCAT CTTCAT CTTCAT C
1002588 CTTTTCCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.13, C:0.35, G:0.00, T:0.52
Consensus pattern (6 bp):
CTTCAT
Found at i:1003510 original size:12 final size:12
Alignment explanation
Indices: 1003493--1003518 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1003483 CTCTAAATTT
1003493 GGATTCCATTGA
1 GGATTCCATTGA
1003505 GGATTCCATTGA
1 GGATTCCATTGA
1003517 GG
1 GG
1003519 TAAGATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (12 bp):
GGATTCCATTGA
Found at i:1004309 original size:24 final size:24
Alignment explanation
Indices: 1004277--1004339 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
1004267 AAGTAGTCTT
1004277 TTTTTTTTGTTAAAATTTCATTCA
1 TTTTTTTTGTTAAAATTTCATTCA
**
1004301 TTTTTTTTGTTAAAATTTTGTTCA
1 TTTTTTTTGTTAAAATTTCATTCA
*
1004325 TTTCTTTTGTTAAAA
1 TTTTTTTTGTTAAAA
1004340 GATAGTCTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.63
Consensus pattern (24 bp):
TTTTTTTTGTTAAAATTTCATTCA
Found at i:1010101 original size:16 final size:16
Alignment explanation
Indices: 1010080--1010113 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1010070 TGGGCTTTCC
1010080 TTCTTATAAGATACTG
1 TTCTTATAAGATACTG
1010096 TTCTTATAAGATACTG
1 TTCTTATAAGATACTG
1010112 TT
1 TT
1010114 AAATAGGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (16 bp):
TTCTTATAAGATACTG
Found at i:1017136 original size:46 final size:46
Alignment explanation
Indices: 1016992--1017394 Score: 497
Period size: 46 Copynumber: 8.7 Consensus size: 46
1016982 TGATGTCATA
* * * * *
1016992 GTATCTTTCAACTATGAT-TTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCAAGTTGCCATG
* * * * *
1017037 GTATATTTCAACCATGGTCTTATTCATTTTCCTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAAGTTGCCATG
*
1017084 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAAGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAAGTTGCCATG
* * *
1017130 GTATCTTTCAACCATGGTCTTATTCATTTCACATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAAGTTGCCATG
* *
1017176 GTATCTTTTAACCATGGTCTTACACATTTCATATCACA-TTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCA-AGTTGCCATG
* *** * *
1017222 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTACCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAAGTTGCCATG
* *
1017269 GTATCTTTCAACCATGGTCTTACTCATTTTATATCAAGTTGCCATT
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAAGTTGCCATG
* *
1017315 GTATGTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAAGTTGCCATG
* *
1017361 GTATCTTTCAACCATGGTCTTACACATTCCATAT
1 GTATCTTTCAACCATGGTCTTACTCATTTCATAT
1017395 TAGAGAACAC
Statistics
Matches: 312, Mismatches: 40, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
45 15 0.05
46 219 0.70
47 78 0.25
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAAGTTGCCATG
Found at i:1017279 original size:139 final size:137
Alignment explanation
Indices: 1017028--1017388 Score: 506
Period size: 139 Copynumber: 2.6 Consensus size: 137
1017018 TTTCTGTCAT
** * * *
1017028 GTTGCCATGGTATATTTCAACCATGGTCTTATTCATTTTCCTGTCATGTTGCCATGGTATCTTTC
1 GTTGCCATGGTATATTTCAACCATGGTCTTACACA-TTTCATATCA-ATTGCCATGGTATCTTTC
* * *
1017093 AACCATGGTCTTACTCATTTCATGTCAAGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATT
64 AACCATGGTCTTACTCATTTCACGTCAAGTTACCATGGTATCTTTCAACCATGGTCTTACTCATT
*
1017158 TCACATCAC
129 TCACATCAA
* *
1017167 GTTGCCATGGTATCTTTTAACCATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTTCA
1 GTTGCCATGGTATATTTCAACCATGGTCTTACACATTTCATATCA-ATTGCCATGGTATCTTTCA
* * *
1017232 ACCATGGTCTTATTCATTTTCCCGTCATGTTACCATGGTATCTTTCAACCATGGTCTTACTCATT
65 ACCATGGTCTTACTCA-TTTCACGTCAAGTTACCATGGTATCTTTCAACCATGGTCTTACTCATT
* *
1017297 TTATATCAA
129 TCACATCAA
* *
1017306 GTTGCCATTGTATGTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATATTTCAACCATGGTCTTACACATTTCATATCAA-TTGCCATGGTATCTTTCA
*
1017371 ACCATGGTCTTACACATT
65 ACCATGGTCTTACTCATT
1017389 CCATATTAGA
Statistics
Matches: 198, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
138 44 0.22
139 154 0.78
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (137 bp):
GTTGCCATGGTATATTTCAACCATGGTCTTACACATTTCATATCAATTGCCATGGTATCTTTCAA
CCATGGTCTTACTCATTTCACGTCAAGTTACCATGGTATCTTTCAACCATGGTCTTACTCATTTC
ACATCAA
Found at i:1017345 original size:185 final size:185
Alignment explanation
Indices: 1017029--1017394 Score: 615
Period size: 185 Copynumber: 2.0 Consensus size: 185
1017019 TTCTGTCATG
* *
1017029 TTGCCATGGTATATTTCAACCATGGTCTTATTCATTTTCCTGTCATGTTGCCATGGTATCTTTCA
1 TTGCCATGGTATATTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTACCATGGTATCTTTCA
* **
1017094 ACCATGGTCTTACTCATTTCATGTCAAGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT
66 ACCATGGTCTTACTCATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
* * *
1017159 CACATCACGTTGCCATGGTATCTTTTAACCATGGTCTTACACATTTCATATCACA
131 CACATCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCATATCACA
*
1017214 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTACCATGGTATCTTTCA
1 TTGCCATGGTATATTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTACCATGGTATCTTTCA
* * *
1017279 ACCATGGTCTTACTCATTTTATATCAAGTTGCCATTGTATGTTTCAACCATGGTCTTACACATTT
66 ACCATGGTCTTACTCATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
*
1017344 CATATCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCATAT
131 CACATCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCATAT
1017395 TAGAGAACAC
Statistics
Matches: 168, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
185 168 1.00
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (185 bp):
TTGCCATGGTATATTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTACCATGGTATCTTTCA
ACCATGGTCTTACTCATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
CACATCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCATATCACA
Found at i:1022280 original size:13 final size:13
Alignment explanation
Indices: 1022262--1022286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1022252 TTGAGAGATA
1022262 AAAATTTAATATT
1 AAAATTTAATATT
1022275 AAAATTTAATAT
1 AAAATTTAATAT
1022287 AAACACTCTA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAATTTAATATT
Found at i:1024200 original size:12 final size:12
Alignment explanation
Indices: 1024183--1024233 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
1024173 AAACTTACAG
1024183 GATCAGCATCAT
1 GATCAGCATCAT
*
1024195 GATCAGGATCA-
1 GATCAGCATCAT
*
1024206 GCATCATG-ATCAG
1 G-ATCA-GCATCAT
1024219 GATCAGCATCAT
1 GATCAGCATCAT
1024231 GAT
1 GAT
1024234 GACTCTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 2 0.06
12 29 0.88
13 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (12 bp):
GATCAGCATCAT
Found at i:1024203 original size:18 final size:18
Alignment explanation
Indices: 1024180--1024233 Score: 108
Period size: 18 Copynumber: 3.0 Consensus size: 18
1024170 CCAAAACTTA
1024180 CAGGATCAGCATCATGAT
1 CAGGATCAGCATCATGAT
1024198 CAGGATCAGCATCATGAT
1 CAGGATCAGCATCATGAT
1024216 CAGGATCAGCATCATGAT
1 CAGGATCAGCATCATGAT
1024234 GACTCTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (18 bp):
CAGGATCAGCATCATGAT
Found at i:1033572 original size:50 final size:50
Alignment explanation
Indices: 1033497--1033673 Score: 239
Period size: 50 Copynumber: 3.5 Consensus size: 50
1033487 CCATGGAAAC
*
1033497 AAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
1033547 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1033597 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * * *
1033647 CAACTGAAAAGTGGTAGTTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
1033674 CTGATCAGTG
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 88 0.79
51 23 0.21
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:1033828 original size:31 final size:31
Alignment explanation
Indices: 1033651--1033828 Score: 257
Period size: 31 Copynumber: 5.7 Consensus size: 31
1033641 AAATGACAAC
* *
1033651 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
1033682 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1033713 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
1033744 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* ** *
1033775 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
1033806 TGAATAGTGGTAGCTTTGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
1033829 AAGTGACAAG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 132 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:1041280 original size:33 final size:33
Alignment explanation
Indices: 1041237--1041305 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
1041227 GATTAAATTG
* *
1041237 TATTTTATGTATCATTATATTAAATTATTTATA
1 TATTTCATGTATCATTATATTAAATTATTTAAA
1041270 TATTTCATGTATCATTATATTAAATTATTTAAA
1 TATTTCATGTATCATTATATTAAATTATTTAAA
1041303 TAT
1 TAT
1041306 CATATAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55
Consensus pattern (33 bp):
TATTTCATGTATCATTATATTAAATTATTTAAA
Found at i:1058336 original size:11 final size:11
Alignment explanation
Indices: 1058315--1058354 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
1058305 GCATCTCATC
1058315 TTTTTCACTTTT
1 TTTTTC-CTTTT
1058327 TTTTTCCTTTT
1 TTTTTCCTTTT
1058338 TCTTTTCCTTTAT
1 T-TTTTCCTTT-T
1058351 TTTT
1 TTTT
1058355 GAAGATTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 6 0.23
12 18 0.69
13 2 0.08
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTCCTTTT
Found at i:1068539 original size:22 final size:22
Alignment explanation
Indices: 1068511--1068555 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1068501 GATCCTTAAC
1068511 TTTGAAAGTAATTTAATGAAAT
1 TTTGAAAGTAATTTAATGAAAT
1068533 TTTGAAAGTAATTTAATGAAAT
1 TTTGAAAGTAATTTAATGAAAT
1068555 T
1 T
1068556 CAAGCTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (22 bp):
TTTGAAAGTAATTTAATGAAAT
Found at i:1068788 original size:26 final size:28
Alignment explanation
Indices: 1068723--1068794 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
1068713 ATAAGAAAAT
* *
1068723 TTATTATTAAGAATTTTATGAAATTATATA
1 TTATTATT-A-AATTATATGAAATAATATA
*
1068753 TTATTATTAAATTATATGTAATAATA-A
1 TTATTATTAAATTATATGAAATAATATA
1068780 TTATT-TTAAATTATA
1 TTATTATTAAATTATA
1068795 CAAATTTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 14 0.36
29 1 0.03
30 8 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
TTATTATTAAATTATATGAAATAATATA
Found at i:1068990 original size:16 final size:16
Alignment explanation
Indices: 1068969--1069010 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
1068959 TTATTAAATT
*
1068969 ATATATTTTAATTATA
1 ATATATTTTAATAATA
1068985 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
1069000 AT-TATGTTTAA
1 ATATAT-TTTAA
1069011 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:1068995 original size:15 final size:15
Alignment explanation
Indices: 1068960--1069001 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1068950 TTAAGAATTT
*
1068960 TATTAAATTAT-ATA
1 TATTTAATTATAATA
1068974 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
1068988 TATTTAATAATAAT
1 TATTTAATTATAAT
1069002 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:1069114 original size:154 final size:156
Alignment explanation
Indices: 1068944--1069257 Score: 569
Period size: 154 Copynumber: 2.0 Consensus size: 156
1068934 ATAAGAATAT
*
1068944 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1069009 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAAT
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
*
1069072 AATAATTTACCAAAATAAATTTATGC
131 AATAATTTACCAAAACAAATTTATGC
1069098 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1069163 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAA
* *
1069228 TAATCATTTACCAAAACAAATTTCTGC
130 TAATAATTTACCAAAACAAATTTATGC
1069255 TAA
1 TAA
1069258 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
154 92 0.60
155 2 0.01
157 59 0.39
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTATGC
Found at i:1069138 original size:18 final size:17
Alignment explanation
Indices: 1069110--1069144 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1069100 ATTATTAAGA
*
1069110 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
1069127 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
1069145 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:1069166 original size:75 final size:75
Alignment explanation
Indices: 1068944--1069180 Score: 198
Period size: 75 Copynumber: 3.1 Consensus size: 75
1068934 ATAAGAATAT
*
1068944 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
1069009 AAA-TATGAT
66 AAATTATGAC
* ** * * * * * *
1069018 TAAATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATTT
1 T-AATTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATATTTAATAATAA-TT
****
1069080 ACCAAAATAAATTTATG-C
60 A--TGTTTAAA-TTATGAC
1069098 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
1069163 AAA-TATGAT
66 AAATTATGAC
1069172 TAAATTATT
1 T-AATTATT
1069181 TATTATTGAT
Statistics
Matches: 119, Mismatches: 29, Indels: 29
0.67 0.16 0.16
Matches are distributed among these distances:
73 4 0.03
74 2 0.02
75 26 0.22
76 26 0.22
77 12 0.10
78 25 0.21
79 19 0.16
80 1 0.01
81 4 0.03
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (75 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATTATGAC
Found at i:1069409 original size:16 final size:16
Alignment explanation
Indices: 1069390--1069430 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
1069380 ACATAGCTTT
*
1069390 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
1069406 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
1069422 TCCAATACA
1 TCCAATACA
1069431 GCGAACCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:1069830 original size:49 final size:49
Alignment explanation
Indices: 1069756--1069853 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
1069746 TAATTGCAAA
* * * *
1069756 AGATACCTAACGGAGGGTTGCTTGCATGTTGTCCCCCACAAAGGGTCAT
1 AGATACCTAACGGAGGGTCGCTTGCAGGCTATCCCCCACAAAGGGTCAT
* *
1069805 AGATACCTAACGGAGGGTCGTTTGCAGGCTATCTCCCACAAAGGGTCAT
1 AGATACCTAACGGAGGGTCGCTTGCAGGCTATCCCCCACAAAGGGTCAT
1069854 TGGCAAGTCG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (49 bp):
AGATACCTAACGGAGGGTCGCTTGCAGGCTATCCCCCACAAAGGGTCAT
Found at i:1070571 original size:42 final size:42
Alignment explanation
Indices: 1070524--1070605 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
1070514 ATTCAAACTC
* *
1070524 CCAAATTCATGATTTTTCTTCAAAAACCCT-TAAATTAAATAT
1 CCAAATCCATGATTCTTCTTC-AAAACCCTCTAAATTAAATAT
** *
1070566 CCAAATCCATTCTTCTTCTTCAAAACTCTCTAAATTAAAT
1 CCAAATCCATGATTCTTCTTCAAAACCCTCTAAATTAAAT
1070606 CCTCCATTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 7 0.21
42 27 0.79
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.38
Consensus pattern (42 bp):
CCAAATCCATGATTCTTCTTCAAAACCCTCTAAATTAAATAT
Found at i:1071552 original size:24 final size:22
Alignment explanation
Indices: 1071525--1071571 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
1071515 ATTTTTTAAA
1071525 TAATTAAATTACAAAAAATAATTT
1 TAATTAAATT--AAAAAATAATTT
* *
1071549 TAATTATATTAAATAATAATTT
1 TAATTAAATTAAAAAATAATTT
1071571 T
1 T
1071572 TATAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
24 9 0.43
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATTAAATTAAAAAATAATTT
Found at i:1072309 original size:20 final size:22
Alignment explanation
Indices: 1072276--1072320 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
1072266 TTTATTTTTC
*
1072276 ATAATAAATTACATAATAT-AT
1 ATAATAAATAACATAATATAAT
1072297 ATAA-AAATAACATAATATAAT
1 ATAATAAATAACATAATATAAT
1072318 ATA
1 ATA
1072321 TTAGGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAATAAATAACATAATATAAT
Found at i:1078433 original size:22 final size:22
Alignment explanation
Indices: 1078399--1078450 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
1078389 TCAAATATAT
1078399 TTAAAA-AACATAAAAACAAATA
1 TTAAAACAACATAAAAA-AAATA
*
1078421 TTAAAACAA-ATAAAAATAATA
1 TTAAAACAACATAAAAAAAATA
*
1078442 CTAAAACAA
1 TTAAAACAA
1078451 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 12 0.44
22 13 0.48
23 2 0.07
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (22 bp):
TTAAAACAACATAAAAAAAATA
Found at i:1078435 original size:21 final size:20
Alignment explanation
Indices: 1078403--1078450 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
1078393 ATATATTTAA
* *
1078403 AAAACATAAAAACA-AATATT
1 AAAACA-AAAAAAATAATACT
1078423 AAAACAAATAAAAATAATACT
1 AAAACAAA-AAAAATAATACT
1078444 AAAACAA
1 AAAACAA
1078451 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.42
21 12 0.50
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAACAAAAAAAATAATACT
Found at i:1079395 original size:76 final size:78
Alignment explanation
Indices: 1079249--1079413 Score: 253
Period size: 76 Copynumber: 2.1 Consensus size: 78
1079239 TCTCACTTAC
* *
1079249 ACCATCGAGATTCAAACACAAAACCATCACACATAAATACAAACTGTCTGTATCTTCAGCTCATA
1 ACCATTGAGATTCAAACACAAAACCAT-ACACATAAACACAAACTGTCTGTATCTTCAGCTCATA
1079314 AACATCC-CAATAA
65 AACATCCTCAATAA
* * * *
1079327 ACCATTGAGATTCAAACACAAAACCAT-CACATAAACACATACTGTTTGTATCTTCAGTTCATCA
1 ACCATTGAGATTCAAACACAAAACCATACACATAAACACAAACTGTCTGTATCTTCAGCTCATAA
1079391 ACATCCTCAATAA
66 ACATCCTCAATAA
1079404 ACCATTGAGA
1 ACCATTGAGA
1079414 ATGTATTTCA
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
76 38 0.47
77 16 0.20
78 26 0.32
ACGTcount: A:0.42, C:0.27, G:0.07, T:0.24
Consensus pattern (78 bp):
ACCATTGAGATTCAAACACAAAACCATACACATAAACACAAACTGTCTGTATCTTCAGCTCATAA
ACATCCTCAATAA
Found at i:1079527 original size:42 final size:42
Alignment explanation
Indices: 1079470--1079603 Score: 180
Period size: 42 Copynumber: 3.2 Consensus size: 42
1079460 ACGTTTGTAG
* * * *
1079470 CTTCAGTAGGTTTTCTTCTAACTCAGCTTTGTCCTTCTCCAG
1 CTTCAGTTGGTTTTCTTTTAACTCAGCTTTGCCCTTCTCCAC
* *
1079512 CTTCAGTTGGTTTTCTTTTAACTCAGCTTCGCCCTGCTCCAC
1 CTTCAGTTGGTTTTCTTTTAACTCAGCTTTGCCCTTCTCCAC
* *
1079554 CTTCAGTTTGTTTTCTTTTAAATCAGCTTCT-CCCTTCTCCAC
1 CTTCAGTTGGTTTTCTTTTAACTCAGCTT-TGCCCTTCTCCAC
1079596 CTTCAGTT
1 CTTCAGTT
1079604 CGTCTTTCCT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 81 1.00
ACGTcount: A:0.13, C:0.31, G:0.12, T:0.44
Consensus pattern (42 bp):
CTTCAGTTGGTTTTCTTTTAACTCAGCTTTGCCCTTCTCCAC
Found at i:1081421 original size:47 final size:47
Alignment explanation
Indices: 1081352--1081445 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
1081342 TCTCAATAAT
1081352 AATTTGATTTCGAATATTTGTTGTAACCACTCATGCCGTTTAAGTGC
1 AATTTGATTTCGAATATTTGTTGTAACCACTCATGCCGTTTAAGTGC
1081399 AATTTGATTTCGAATATTTGTTGTAACCACTCATGCCGTTTAAGTGC
1 AATTTGATTTCGAATATTTGTTGTAACCACTCATGCCGTTTAAGTGC
1081446 CTAATGAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (47 bp):
AATTTGATTTCGAATATTTGTTGTAACCACTCATGCCGTTTAAGTGC
Found at i:1087040 original size:76 final size:78
Alignment explanation
Indices: 1086893--1087057 Score: 244
Period size: 76 Copynumber: 2.1 Consensus size: 78
1086883 TATCACTTAG
* * *
1086893 ACCATCGAGATTCAAACACAAAACCATCACGCATAAATACAAACTGTCTGTATCTTCAGCTCATA
1 ACCATTGAGATTCAAACACAAAACCATCAC-CATAAACACAAACTGTCTGTATCTTCAGCTCAGA
1086958 AACATCC-CAATAA
65 AACATCCTCAATAA
* * * *
1086971 ACCATTGAGATTCAAACACAAAACCATCA-CATAAACACATACTGTTTGTATCTTCAGTTCAGCA
1 ACCATTGAGATTCAAACACAAAACCATCACCATAAACACAAACTGTCTGTATCTTCAGCTCAGAA
1087035 ACATCCTCAATAA
66 ACATCCTCAATAA
1087048 ACCATTGAGA
1 ACCATTGAGA
1087058 ATGTATTTCA
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
76 35 0.44
77 16 0.20
78 28 0.35
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.24
Consensus pattern (78 bp):
ACCATTGAGATTCAAACACAAAACCATCACCATAAACACAAACTGTCTGTATCTTCAGCTCAGAA
ACATCCTCAATAA
Found at i:1087170 original size:42 final size:42
Alignment explanation
Indices: 1087114--1087247 Score: 180
Period size: 42 Copynumber: 3.2 Consensus size: 42
1087104 TCGTTTTCAG
* * * *
1087114 CTTCAGTAGGTTTTCTTCTAACTCAGCTTTGTCCTTCTCCAG
1 CTTCAGTTGGTTTTCTTTTAACTCAGCTTTGCCCTTCTCCAC
* *
1087156 CTTCACTTGGTTTTCTTTTAACTCAGCTTCGCCCTTCTCCAC
1 CTTCAGTTGGTTTTCTTTTAACTCAGCTTTGCCCTTCTCCAC
* *
1087198 CTTCAGTTTGTTTTCTTTTAAATCAGCTTCT-CCCTTCTCCAC
1 CTTCAGTTGGTTTTCTTTTAACTCAGCTT-TGCCCTTCTCCAC
1087240 CTTCAGTT
1 CTTCAGTT
1087248 CGTCTTTCCT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 81 1.00
ACGTcount: A:0.13, C:0.31, G:0.10, T:0.45
Consensus pattern (42 bp):
CTTCAGTTGGTTTTCTTTTAACTCAGCTTTGCCCTTCTCCAC
Found at i:1087609 original size:24 final size:24
Alignment explanation
Indices: 1087579--1087628 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
1087569 ACAGCTTCAT
1087579 ATTGTCTTGATTTTCTCTGGCATC
1 ATTGTCTTGATTTTCTCTGGCATC
1087603 ATTGTCTTGATTTTCTCTGGCATC
1 ATTGTCTTGATTTTCTCTGGCATC
1087627 AT
1 AT
1087629 AGTTTCCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.14, C:0.20, G:0.16, T:0.50
Consensus pattern (24 bp):
ATTGTCTTGATTTTCTCTGGCATC
Found at i:1096335 original size:11 final size:11
Alignment explanation
Indices: 1096319--1096360 Score: 84
Period size: 11 Copynumber: 3.8 Consensus size: 11
1096309 GAGATTAGAT
1096319 ACTGTAGCGAC
1 ACTGTAGCGAC
1096330 ACTGTAGCGAC
1 ACTGTAGCGAC
1096341 ACTGTAGCGAC
1 ACTGTAGCGAC
1096352 ACTGTAGCG
1 ACTGTAGCG
1096361 TAAGACAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (11 bp):
ACTGTAGCGAC
Found at i:1096676 original size:20 final size:20
Alignment explanation
Indices: 1096651--1096702 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1096641 TAGTTTTTTT
1096651 TGTGATTATTTGTTAATTTC
1 TGTGATTATTTGTTAATTTC
1096671 TGTGATTATTTGTTAATTTC
1 TGTGATTATTTGTTAATTTC
1096691 TGTGATTATTTG
1 TGTGATTATTTG
1096703 CATGTATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.04, G:0.17, T:0.60
Consensus pattern (20 bp):
TGTGATTATTTGTTAATTTC
Found at i:1098483 original size:38 final size:39
Alignment explanation
Indices: 1098434--1098508 Score: 125
Period size: 38 Copynumber: 1.9 Consensus size: 39
1098424 TCCCTACTCA
* *
1098434 AATATTTTAGGAGATATTTACCTGTTACTTATAATTCAG
1 AATATTTTAGGAAATATTCACCTGTTACTTATAATTCAG
1098473 AATA-TTTAGGAAATATTCACCTGTTACTTATAATTC
1 AATATTTTAGGAAATATTCACCTGTTACTTATAATTC
1098509 GAGGAGTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 30 0.88
39 4 0.12
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.43
Consensus pattern (39 bp):
AATATTTTAGGAAATATTCACCTGTTACTTATAATTCAG
Found at i:1104588 original size:13 final size:13
Alignment explanation
Indices: 1104570--1104594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1104560 TGTAGTTGTT
1104570 TTTTTATTTTTTA
1 TTTTTATTTTTTA
1104583 TTTTTATTTTTT
1 TTTTTATTTTTT
1104595 TTAATTTAGT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:1107935 original size:628 final size:626
Alignment explanation
Indices: 1105730--1108822 Score: 5329
Period size: 626 Copynumber: 4.9 Consensus size: 626
1105720 GGTAAGGTTT
* * * *
1105730 GGCATATATATATATATATAGTTGAAGTTGCTTATTTTTTTGGATCAAGTCTGCTTCTCTTCTTC
1 GGCATATATATATATATATAATTGAAGTTGCTTATTTTTTTGGATCAAATCTGATTCTCTTCTGC
* *
1105795 ATATAGGATCTTTCGTCACTGTGGTTCTTTGATGTGGAAAAATATGGTTTGGAAAACCATCATCT
66 ATATAGGATCTTTCGTCACTGTGGTTCTTTGATGTGGAAAAATATGATTTGGAAAACCGTCATCT
* **
1105860 GCCAGGTAGTGGCTGCAAGTTGATATTCTATTATGTCATTTTACAGAAATAATTTGGTCTCTACA
131 GCCAGGTAATGGCTGCAAGTTGATATTCTATTATGTCAACTTACAGAAATAATTTGGTCTCTACA
*
1105925 TTCTTAAACTGTGACTATAATAATCTTAATGGTTTTATACTTGTCAATTGTCAACATTAATATCC
196 TTCTTAAACTGTGACTATAATAATCTTAATGGTCTTATACTTGTCAATTGTCAACATTAATATCC
* * * * *
1105990 TTTAGATTTTGGACATCAATATCCGGATGAAGGCAGCAGTAAGGCAAGAGCAAATCAAGACAATA
261 TTTAGATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAATA
* * *
1106055 TGAAGCTGTCAAATGAGAACATCTCTCCTGTCCAAGGGTATACAACATTTATGGACGCAATGTTA
326 TGAAGCTGTCACATGAGAACACCTCTCCTGTCCAAGGGTATACAACATTTATGGACGCAATGCTA
*
1106120 ATGTGCTCACTGAGATATTTCAAAAGCACCCTCATACTGATAACAAGTTTTTCATTTAGGCATGC
391 ATGTGCTCACTGAGATATTTCAAAAGCACCCTCATACTGATAACAAGTTTTTTATTTAGGCATGC
* * *
1106185 AGATTTTCAGAACATCCTTACAAACTCTCTAACTGAAGCTGATCATAATATAGAAAGCAAACCAG
456 AGATTTTCAGAACATCCTTGCAAACTCTCTAACTGAAGCTGACCATAATATAGAAAGTAAACCAG
* *
1106250 AGAGGCTCGAGCTAAAAGACATCACAAATATAGAGGTAAGGGTGCAAAGCATAAAGAATAACTTG
521 AGAGGCTCGAGCTAAAAGACATCACAAATATAGAGGTAAGGGTGCAAAACATAAGGAATAACTTG
*
1106315 GAGAAGGCTCGTGAAAGGAAGAAATTGGAAGAAGAGATCAG
586 GAGAAGGCTCGTGAAAAGAAGAAATTGGAAGAAGAGATCAG
* *
1106356 GGCATATATATATATATAAAATTGAAGTTGCTTATTTTTTTGGATCAATTCTGATTCTCTTCTGC
1 GGCATATATATATATATATAATTGAAGTTGCTTATTTTTTTGGATCAAATCTGATTCTCTTCTGC
* * **
1106421 ATATAGGATCTTTTGTCACCGCAGTTCTTTGATGTGGAAAAATATGATTTGGAAAACCGTCATCT
66 ATATAGGATCTTTCGTCACTGTGGTTCTTTGATGTGGAAAAATATGATTTGGAAAACCGTCATCT
*
1106486 GCCAGGTAATGGCTGCAAGTTGATATTCTATCATGTCAACTTACAGAAATAATTTGGTCTCTACA
131 GCCAGGTAATGGCTGCAAGTTGATATTCTATTATGTCAACTTACAGAAATAATTTGGTCTCTACA
1106551 TTCTTAAACTGTGACTATAATAATCTTAATGGTCTTATACTTGTCAATTGTCAACATTAATATCC
196 TTCTTAAACTGTGACTATAATAATCTTAATGGTCTTATACTTGTCAATTGTCAACATTAATATCC
1106616 TTTAGATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAATA
261 TTTAGATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAATA
* * *
1106681 TGAAGCTGTCATATGAGAACATCTCTCCTGTCCAAGGGTATACAACATTTATAGACGCAATGCTA
326 TGAAGCTGTCACATGAGAACACCTCTCCTGTCCAAGGGTATACAACATTTATGGACGCAATGCTA
1106746 ATGTGCTCACTGAGATATTTCAAAAGCACCCTCATACTGATAACAAGTTTTTTATTTAGGCATGC
391 ATGTGCTCACTGAGATATTTCAAAAGCACCCTCATACTGATAACAAGTTTTTTATTTAGGCATGC
*
1106811 AGATTTTCAGAACATCCTTGCAAACTCTCTAACTGAAGCTGACCATTATATAGAAAGTAAACCAG
456 AGATTTTCAGAACATCCTTGCAAACTCTCTAACTGAAGCTGACCATAATATAGAAAGTAAACCAG
* * *
1106876 ATAGGCTCGAGCTAAAAGACATCACAAATATAGAGGTAAGGATGCAAAGCATAAGGAATAACTTG
521 AGAGGCTCGAGCTAAAAGACATCACAAATATAGAGGTAAGGGTGCAAAACATAAGGAATAACTTG
* *
1106941 GAGAATGCTCGTGAAAGGAAGAAATTGGAAGAAGAGATCAG
586 GAGAAGGCTCGTGAAAAGAAGAAATTGGAAGAAGAGATCAG
* *
1106982 GGC--ACATATATATATATAATTGAAGTTGCTTATTTTTTTGGATCAATTCTGATTCTCTTCTGC
1 GGCATATATATATATATATAATTGAAGTTGCTTATTTTTTTGGATCAAATCTGATTCTCTTCTGC
* * *
1107045 ATATAGGATCTTTCGTCACTTTGGTTCTTTGATGTGGAAAAAAATGATTTGGAAAACCATCATCT
66 ATATAGGATCTTTCGTCACTGTGGTTCTTTGATGTGGAAAAATATGATTTGGAAAACCGTCATCT
*
1107110 GCCAGGTAATGGCTGCAAGTTGATATTCTATTATGTCAATTTACAGAAATAATTTGGTCTCTACA
131 GCCAGGTAATGGCTGCAAGTTGATATTCTATTATGTCAACTTACAGAAATAATTTGGTCTCTACA
1107175 TTCTTAAACTGTGACTATAATAATCTTAATGGTCTTATACTTGTCAATTGTCAACATTAATATCC
196 TTCTTAAACTGTGACTATAATAATCTTAATGGTCTTATACTTGTCAATTGTCAACATTAATATCC
*
1107240 TTTAGATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCGAATCAAGAGAATA
261 TTTAGATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAATA
1107305 TGAAGCTGTCACATGAGAACACCTCTCCTGTCCAAGGGTATACAACATTTATGGACGCAATGCTA
326 TGAAGCTGTCACATGAGAACACCTCTCCTGTCCAAGGGTATACAACATTTATGGACGCAATGCTA
**
1107370 ATGTGCTCACTGAGATATTTTTAAAGCACCCTCATACTGATAACAAGTTTTTTATTTAGGCATGC
391 ATGTGCTCACTGAGATATTTCAAAAGCACCCTCATACTGATAACAAGTTTTTTATTTAGGCATGC
*
1107435 AGATTTTCAGAACATCCTTGCAAACTCTCTAACTGAAGCTGACCATAATATAGAACGTAAACCAG
456 AGATTTTCAGAACATCCTTGCAAACTCTCTAACTGAAGCTGACCATAATATAGAAAGTAAACCAG
1107500 AGAGGCTCGAGCTAAAAGACATCACAAATATAGAGGTAAGGGTGCAAAACATAAGGAATAACTTG
521 AGAGGCTCGAGCTAAAAGACATCACAAATATAGAGGTAAGGGTGCAAAACATAAGGAATAACTTG
1107565 GAGAAGGCTCGTGAAAAGAAGAAATTGGAAGAAGAGA-CTAG
586 GAGAAGGCTCGTGAAAAGAAGAAATTGGAAGAAGAGATC-AG
*
1107606 GGCATATATATATATATATGTAATTGAAGTTGTTTATTTTTTTGGATCAAATCTGATTCTCTTCT
1 GGCATATATATATATATA--TAATTGAAGTTGCTTATTTTTTTGGATCAAATCTGATTCTCTTCT
* *
1107671 GCGTATAGGATCTTTCGTCACTGTGGTTTTTTGATGTGGAAAAATATGATTTGGAAAACCGTCAT
64 GCATATAGGATCTTTCGTCACTGTGGTTCTTTGATGTGGAAAAATATGATTTGGAAAACCGTCAT
*
1107736 CTGCCAGGTAATGACTGCAAGTTGATATTCTATTATGTCAACTTACAGAAATAATTTGGTCTCTA
129 CTGCCAGGTAATGGCTGCAAGTTGATATTCTATTATGTCAACTTACAGAAATAATTTGGTCTCTA
1107801 CATTCTTAAACTGTGACTATAATAATCTTAATGGTCTTATACTTGTCAATTGTCAACATTAATAT
194 CATTCTTAAACTGTGACTATAATAATCTTAATGGTCTTATACTTGTCAATTGTCAACATTAATAT
1107866 CCTTTAGATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAA
259 CCTTTAGATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAA
* * *
1107931 TATGAAGCTGTCATATGAGAACACCTCTCCTGTCCAAGGGTATACAACATTTATTGACGCAATGT
324 TATGAAGCTGTCACATGAGAACACCTCTCCTGTCCAAGGGTATACAACATTTATGGACGCAATGC
*
1107996 TAATATGCTCACTGAGATATTTCAAAAGCACCCTCATACTGATAACAAGTTTTTTATTTAGGCAT
389 TAATGTGCTCACTGAGATATTTCAAAAGCACCCTCATACTGATAACAAGTTTTTTATTTAGGCAT
*
1108061 GCAGATTTTCAGAACATCCTTGCAAACTCTCTAACTGAAGCTGACCATAATGTAGAAAGTAAACC
454 GCAGATTTTCAGAACATCCTTGCAAACTCTCTAACTGAAGCTGACCATAATATAGAAAGTAAACC
*
1108126 AGAGAGGCTCGAGCTAAAAGACATCACAAATATAGAGGTAAGGGTGCAAAACATAAGGAACAACT
519 AGAGAGGCTCGAGCTAAAAGACATCACAAATATAGAGGTAAGGGTGCAAAACATAAGGAATAACT
*
1108191 TGGAGAAGGCTCGTGAAAAGAAGAAATTGGAAGAAGAGATTAG
584 TGGAGAAGGCTCGTGAAAAGAAGAAATTGGAAGAAGAGATCAG
*
1108234 GGCATATATATATATATGTAATTGAAGTTGCTTATTTTTTTGGATCAAATCTGATTCTCTTCTGC
1 GGCATATATATATATATATAATTGAAGTTGCTTATTTTTTTGGATCAAATCTGATTCTCTTCTGC
* *
1108299 GTGTAGGATCTTTCGTCACTGTGGTTCTTTGATGTGGAAAAATATGATTTGGAAAACCGTCATCT
66 ATATAGGATCTTTCGTCACTGTGGTTCTTTGATGTGGAAAAATATGATTTGGAAAACCGTCATCT
*
1108364 GCCAGGTAATGACTGCAAGTTGATATTCTATTATGTCAACTTACAGAAATAATTTGGTCTCTACA
131 GCCAGGTAATGGCTGCAAGTTGATATTCTATTATGTCAACTTACAGAAATAATTTGGTCTCTACA
*
1108429 TTCTTAAACT-TGGAGTATAATAATCTTAATGGTCTTATACTTGTCAATTGTCAACATTAATATC
196 TTCTTAAACTGT-GACTATAATAATCTTAATGGTCTTATACTTGTCAATTGTCAACATTAATATC
*
1108493 CTTTAGATTTTGGACATCAATATCCGGATGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAAT
260 CTTTAGATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAAT
* * * *
1108558 CTGAAGCTGTCACATGAGAACACCTCTCTTGTCCAAAGGTATACAACATTTATGGACGCAAGGCT
325 ATGAAGCTGTCACATGAGAACACCTCTCCTGTCCAAGGGTATACAACATTTATGGACGCAATGCT
*
1108623 AATGTGCTCACTGAGATATTTCAAAAGCACCCTCATACTGATAACAATTTTTTTATTTAGGCATG
390 AATGTGCTCACTGAGATATTTCAAAAGCACCCTCATACTGATAACAAGTTTTTTATTTAGGCATG
* * * * * *
1108688 CATATTTTGAGAACATCCTTTCAAACTCTCTAGCAGAAGCTGACCAT-A-A-AGAAAGTAACCCA
455 CAGATTTTCAGAACATCCTTGCAAACTCTCTAACTGAAGCTGACCATAATATAGAAAGTAAACCA
* * * *
1108750 GAGAGGCTCGGGCTAAGAGACATCACAAATATGGAGGTAACGGTGCAAAACA-AGAGGAATAACT
520 GAGAGGCTCGAGCTAAAAGACATCACAAATATAGAGGTAAGGGTGCAAAACATA-AGGAATAACT
1108814 TGGAAGAAG
584 TGG-AGAAG
1108823 AGACCAAGAA
Statistics
Matches: 2353, Mismatches: 105, Indels: 20
0.95 0.04 0.01
Matches are distributed among these distances:
622 1 0.00
623 73 0.03
624 603 0.26
625 2 0.00
626 1070 0.45
628 604 0.26
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (626 bp):
GGCATATATATATATATATAATTGAAGTTGCTTATTTTTTTGGATCAAATCTGATTCTCTTCTGC
ATATAGGATCTTTCGTCACTGTGGTTCTTTGATGTGGAAAAATATGATTTGGAAAACCGTCATCT
GCCAGGTAATGGCTGCAAGTTGATATTCTATTATGTCAACTTACAGAAATAATTTGGTCTCTACA
TTCTTAAACTGTGACTATAATAATCTTAATGGTCTTATACTTGTCAATTGTCAACATTAATATCC
TTTAGATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAATA
TGAAGCTGTCACATGAGAACACCTCTCCTGTCCAAGGGTATACAACATTTATGGACGCAATGCTA
ATGTGCTCACTGAGATATTTCAAAAGCACCCTCATACTGATAACAAGTTTTTTATTTAGGCATGC
AGATTTTCAGAACATCCTTGCAAACTCTCTAACTGAAGCTGACCATAATATAGAAAGTAAACCAG
AGAGGCTCGAGCTAAAAGACATCACAAATATAGAGGTAAGGGTGCAAAACATAAGGAATAACTTG
GAGAAGGCTCGTGAAAAGAAGAAATTGGAAGAAGAGATCAG
Found at i:1116966 original size:21 final size:21
Alignment explanation
Indices: 1116942--1116996 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
1116932 CCTACAGCCA
* *
1116942 CTGTTATTCCTGTTTTGGAAC
1 CTGTTTTTCCTATTTTGGAAC
1116963 CTGTTTTTCCTATTTTGGAAC
1 CTGTTTTTCCTATTTTGGAAC
1116984 CTGTTTTTCCTAT
1 CTGTTTTTCCTAT
1116997 CTCCACTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.13, C:0.20, G:0.15, T:0.53
Consensus pattern (21 bp):
CTGTTTTTCCTATTTTGGAAC
Found at i:1119832 original size:47 final size:47
Alignment explanation
Indices: 1119702--1119872 Score: 175
Period size: 47 Copynumber: 3.6 Consensus size: 47
1119692 ATAGTAAAAC
* * * *
1119702 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTACACAGTAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * * * *
1119751 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCTAGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* *
1119797 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * *
1119844 TATGGTCTTATACGGAAGCACATATCACA
1 TATGGTCTTACACAGTAGCACATATCACA
1119873 TTTCTCCAAA
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 25 0.25
47 55 0.54
48 10 0.10
49 12 0.12
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (47 bp):
TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
Found at i:1126448 original size:24 final size:24
Alignment explanation
Indices: 1126416--1126588 Score: 116
Period size: 24 Copynumber: 7.2 Consensus size: 24
1126406 GCTAAATCGC
1126416 TTAGTGACCATCCATCCATGCATA
1 TTAGTGACCATCCATCCATGCATA
1126440 TTAGTGACCATCCATCCAT-C---
1 TTAGTGACCATCCATCCATGCATA
*
1126460 -CA-T--CCATCCATCCATGCATA
1 TTAGTGACCATCCATCCATGCATA
*
1126480 TTAGTGACCATCCATCCATCCATCCA
1 TTAGTGACCATCCATCCATGCAT--A
* *
1126506 TCCA-T--CCATCCATCGATGCATA
1 T-TAGTGACCATCCATCCATGCATA
1126528 TTAGTGACCATCCTTCCATCCATCCATGCATA
1 TTAGTG---A-----CCATCCATCCATGCATA
* *
1126560 TTAGTGACCATTCAACCATGCATA
1 TTAGTGACCATCCATCCATGCATA
1126584 TTAGT
1 TTAGT
1126589 TTCGTACACA
Statistics
Matches: 117, Mismatches: 10, Indels: 44
0.68 0.06 0.26
Matches are distributed among these distances:
16 12 0.10
17 1 0.01
18 1 0.01
19 1 0.01
21 2 0.02
22 4 0.03
23 1 0.01
24 68 0.58
26 3 0.03
27 1 0.01
29 1 0.01
32 22 0.19
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.29
Consensus pattern (24 bp):
TTAGTGACCATCCATCCATGCATA
Found at i:1126452 original size:20 final size:20
Alignment explanation
Indices: 1126427--1126494 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
1126417 TAGTGACCAT
1126427 CCATCCATGCATATTAGTGA
1 CCATCCATGCATATTAGTGA
* *
1126447 CCATCCATCCATCCATCCA-T--
1 CCATCCATGCAT--AT-TAGTGA
1126467 CCATCCATGCATATTAGTGA
1 CCATCCATGCATATTAGTGA
1126487 CCATCCAT
1 CCATCCAT
1126495 CCATCCATCC
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
17 1 0.03
18 3 0.08
20 30 0.79
22 3 0.08
23 1 0.03
ACGTcount: A:0.28, C:0.35, G:0.09, T:0.28
Consensus pattern (20 bp):
CCATCCATGCATATTAGTGA
Found at i:1126456 original size:4 final size:4
Alignment explanation
Indices: 1126447--1126519 Score: 83
Period size: 4 Copynumber: 17.2 Consensus size: 4
1126437 ATATTAGTGA
* **
1126447 CCAT CCAT CCAT CCAT CCAT CCAT CCAT GCAT ATTAGT GACCAT CCAT
1 CCAT CCAT CCAT CCAT CCAT CCAT CCAT CCAT -CCA-T --CCAT CCAT
1126495 CCAT CCAT CCAT CCAT CCAT CCAT C
1 CCAT CCAT CCAT CCAT CCAT CCAT C
1126520 GATGCATATT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
4 56 0.92
5 1 0.02
6 2 0.03
7 2 0.03
ACGTcount: A:0.26, C:0.44, G:0.04, T:0.26
Consensus pattern (4 bp):
CCAT
Found at i:1126474 original size:40 final size:40
Alignment explanation
Indices: 1126423--1126514 Score: 184
Period size: 40 Copynumber: 2.3 Consensus size: 40
1126413 CGCTTAGTGA
1126423 CCATCCATCCATGCATATTAGTGACCATCCATCCATCCAT
1 CCATCCATCCATGCATATTAGTGACCATCCATCCATCCAT
1126463 CCATCCATCCATGCATATTAGTGACCATCCATCCATCCAT
1 CCATCCATCCATGCATATTAGTGACCATCCATCCATCCAT
1126503 CCATCCATCCAT
1 CCATCCATCCAT
1126515 CCATCGATGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.27, C:0.39, G:0.07, T:0.27
Consensus pattern (40 bp):
CCATCCATCCATGCATATTAGTGACCATCCATCCATCCAT
Found at i:1126518 original size:48 final size:48
Alignment explanation
Indices: 1126447--1126554 Score: 198
Period size: 48 Copynumber: 2.2 Consensus size: 48
1126437 ATATTAGTGA
1126447 CCATCCATCCATCCATCCATCCATCCATGCATATTAGTGACCATCCAT
1 CCATCCATCCATCCATCCATCCATCCATGCATATTAGTGACCATCCAT
* *
1126495 CCATCCATCCATCCATCCATCCATCGATGCATATTAGTGACCATCCTT
1 CCATCCATCCATCCATCCATCCATCCATGCATATTAGTGACCATCCAT
1126543 CCATCCATCCAT
1 CCATCCATCCAT
1126555 GCATATTAGT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.26, C:0.40, G:0.06, T:0.28
Consensus pattern (48 bp):
CCATCCATCCATCCATCCATCCATCCATGCATATTAGTGACCATCCAT
Found at i:1126546 original size:32 final size:32
Alignment explanation
Indices: 1126503--1126570 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
1126493 ATCCATCCAT
*
1126503 CCATCCATCCATCCATCGATGCATATTAGTGA
1 CCATCCATCCATCCATCCATGCATATTAGTGA
*
1126535 CCATCCTTCCATCCATCCATGCATATTAGTGA
1 CCATCCATCCATCCATCCATGCATATTAGTGA
1126567 CCAT
1 CCAT
1126571 TCAACCATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.26, C:0.34, G:0.10, T:0.29
Consensus pattern (32 bp):
CCATCCATCCATCCATCCATGCATATTAGTGA
Found at i:1126578 original size:40 final size:40
Alignment explanation
Indices: 1126423--1126578 Score: 167
Period size: 40 Copynumber: 3.9 Consensus size: 40
1126413 CGCTTAGTGA
*
1126423 CCATCCATCCATGCATATTAGTGACCATCCATCCATCCAT
1 CCATCCATCCATGCATATTAGTGACCATCCAACCATCCAT
*
1126463 CCATCCATCCATGCATATTAGTGACCATCCATCCATCCAT
1 CCATCCATCCATGCATATTAGTGACCATCCAACCATCCAT
* * ** * *
1126503 CCATCCATCCATCCATCGATGCA-T-ATTAGT--GACCATCCTT
1 CCATCCATCCATGCAT--AT-TAGTGACCA-TCCAACCATCCAT
*
1126543 CCATCCATCCATGCATATTAGTGACCATTCAACCAT
1 CCATCCATCCATGCATATTAGTGACCATCCAACCAT
1126579 GCATATTAGT
Statistics
Matches: 96, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
37 1 0.01
38 4 0.04
39 2 0.02
40 82 0.85
41 2 0.02
42 4 0.04
43 1 0.01
ACGTcount: A:0.28, C:0.36, G:0.08, T:0.28
Consensus pattern (40 bp):
CCATCCATCCATGCATATTAGTGACCATCCAACCATCCAT
Found at i:1131080 original size:17 final size:17
Alignment explanation
Indices: 1131051--1131110 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
1131041 TTTTTTAAAA
*
1131051 TTTAAAAA-AAAAATAT
1 TTTAAAAATTAAAATAT
1131067 TTTAAAAATTAAAAT-T
1 TTTAAAAATTAAAATAT
1131083 TGTTAGAAAATGTAAAA-AT
1 T-TTA-AAAAT-TAAAATAT
*
1131102 TATAAAAAT
1 TTTAAAAAT
1131111 GTATTTAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 10 0.27
17 13 0.35
18 7 0.19
19 7 0.19
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
TTTAAAAATTAAAATAT
Found at i:1131423 original size:38 final size:39
Alignment explanation
Indices: 1131372--1131452 Score: 155
Period size: 38 Copynumber: 2.1 Consensus size: 39
1131362 ATAGTCTTTC
1131372 AGTTAAACTCTGTTTACTTGTTTCAATCAAACACTGA-T
1 AGTTAAACTCTGTTTACTTGTTTCAATCAAACACTGATT
1131410 AGTTAAACTCTGTTTACTTGTTTCAATCAAACACTGATT
1 AGTTAAACTCTGTTTACTTGTTTCAATCAAACACTGATT
1131449 AGTT
1 AGTT
1131453 TAGATTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 37 0.88
39 5 0.12
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (39 bp):
AGTTAAACTCTGTTTACTTGTTTCAATCAAACACTGATT
Found at i:1135116 original size:18 final size:18
Alignment explanation
Indices: 1135089--1135181 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
1135079 TACGACCGTT
1135089 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
1135107 TACGGCACTATTTACGTA
1 TACGGTACTATTCACGTA
*
1135125 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
1135143 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
1135161 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
1135179 TAC
1 TAC
1135182 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:1141233 original size:22 final size:24
Alignment explanation
Indices: 1141205--1141267 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 24
1141195 GGCGCGACCC
1141205 ATTTTTTTAATAATA-TA-ATTTT
1 ATTTTTTTAATAATATTATATTTT
1141227 ATTTTTTTTAA-AATATTATTATTTT
1 A-TTTTTTTAATAATATTA-TATTTT
1141252 ATTATATTTTAATAAT
1 ATT-T-TTTTAATAAT
1141268 TTTTAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
22 5 0.15
23 11 0.32
24 2 0.06
25 7 0.21
26 6 0.18
27 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTTTTTTAATAATATTATATTTT
Found at i:1141241 original size:25 final size:25
Alignment explanation
Indices: 1141206--1141263 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
1141196 GCGCGACCCA
1141206 TTTTTTT--AATAATATAATTTTAT
1 TTTTTTTAAAATAATATAATTTTAT
* *
1141229 TTTTTTTAAAATATTATTATTTTAT
1 TTTTTTTAAAATAATATAATTTTAT
*
1141254 TATATTTTAA
1 T-TTTTTTAA
1141264 TAATTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.24
25 15 0.52
26 7 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTTTTAAAATAATATAATTTTAT
Found at i:1141505 original size:3 final size:3
Alignment explanation
Indices: 1141490--1141558 Score: 77
Period size: 3 Copynumber: 22.7 Consensus size: 3
1141480 TGCAGCAGCA
*
1141490 AAG AGAG AA- AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * *
1141535 AAG GAG AAG GAG GAG AAAG AAG AA
1 AAG AAG AAG AAG AAG -AAG AAG AA
1141559 AAAAATATTA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 50 0.88
4 5 0.09
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1141734 original size:16 final size:16
Alignment explanation
Indices: 1141710--1141779 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
1141700 TTTGGTTCGC
* *
1141710 TGTATTGGATTAAAGG
1 TGTAATGGATTAGAGG
1141726 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
1141742 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
1141758 TGTATTGGAATAGAGG
1 TGTAATGGATTAGAGG
1141774 TGTAAT
1 TGTAAT
1141780 AGCAAATCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:1141816 original size:45 final size:44
Alignment explanation
Indices: 1141758--1141848 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
1141748 GGATTAGAGG
* *
1141758 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
1141803 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
1141847 TG
1 TG
1141849 GAATAGAGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:1142034 original size:18 final size:17
Alignment explanation
Indices: 1142013--1142047 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1142003 TTATTATTAA
*
1142013 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1142031 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1142048 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1142101 original size:157 final size:157
Alignment explanation
Indices: 1141900--1142213 Score: 574
Period size: 157 Copynumber: 2.0 Consensus size: 157
1141890 TAGAATACCC
*
1141900 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
1141965 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
1142030 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
1142057 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAATTTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
1142122 ATATTAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
1142187 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
1142214 CTAATATTCT
Statistics
Matches: 151, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 151 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:1142187 original size:16 final size:16
Alignment explanation
Indices: 1142150--1142191 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
1142140 TTAATCATAT
*
1142150 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
1142166 TT-AAATATATTATAA
1 TTAAAATATATTATAA
1142181 TTAAAATATAT
1 TTAAAATATAT
1142192 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:1142198 original size:14 final size:15
Alignment explanation
Indices: 1142159--1142200 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1142149 TTTAAACATA
*
1142159 ATTATTATTAAATAT
1 ATTATAATTAAATAT
1142174 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
1142188 A-TATAATTTAATA
1 ATTATAATTAAATA
1142201 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:1142590 original size:101 final size:93
Alignment explanation
Indices: 1142473--1142755 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
1142463 CACATGAAAG
* * * *
1142473 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
1142537 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
1142574 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
1142637 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
1142665 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
1142728 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
1142756 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:1142602 original size:26 final size:28
Alignment explanation
Indices: 1142573--1142633 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
1142563 TATGAATTTG
*
1142573 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
1142599 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
1142627 TAAAATT
1 TATAATT
1142634 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:1142631 original size:47 final size:46
Alignment explanation
Indices: 1142580--1142723 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
1142570 TTGTATAATT
1142580 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
1142627 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
1142671 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
1142718 TAAAAT
1 TAAAAT
1142724 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:1142643 original size:91 final size:90
Alignment explanation
Indices: 1142548--1142755 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
1142538 TAATTATAAC
* * * *
1142548 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
1142613 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
1142639 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
1142704 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
1142730 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
1142756 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:1142715 original size:44 final size:43
Alignment explanation
Indices: 1142573--1142715 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
1142563 TATGAATTTG
* *
1142573 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
1142617 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
1142664 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
1142708 TATAATTT
1 TATAATTT
1142716 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:1142730 original size:47 final size:47
Alignment explanation
Indices: 1142598--1142736 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
1142588 TTATTATTAC
* *
1142598 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
1142645 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
1142689 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1142736 A
1 A
1142737 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:1147044 original size:11 final size:11
Alignment explanation
Indices: 1147028--1147052 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1147018 AGTAAGAAAA
1147028 TTTAATGTAAT
1 TTTAATGTAAT
1147039 TTTAATGTAAT
1 TTTAATGTAAT
1147050 TTT
1 TTT
1147053 GATATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTAATGTAAT
Found at i:1148678 original size:6 final size:6
Alignment explanation
Indices: 1148667--1148718 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
1148657 ACCAACTCCG
* * * * *
1148667 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCG GAGGCA GTGCCG GACCCA
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA
1148715 GAGC
1 GAGC
1148719 GGCGGCTAGA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.38, T:0.02
Consensus pattern (6 bp):
GAGCCA
Found at i:1148738 original size:12 final size:12
Alignment explanation
Indices: 1148667--1148736 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
1148657 ACCAACTCCG
*
1148667 GAGCCAGAGCCA
1 GAGCCGGAGCCA
*
1148679 GAGCCAGAGCCA
1 GAGCCGGAGCCA
*
1148691 GAGCCGGAGGCA
1 GAGCCGGAGCCA
* *
1148703 GTGCCGGACCCA
1 GAGCCGGAGCCA
* *
1148715 GAG-CGGCGGCTA
1 GAGCCGG-AGCCA
1148727 GAGCCGGAGC
1 GAGCCGGAGC
1148737 TACACTCAGG
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 3 0.07
12 40 0.87
13 3 0.07
ACGTcount: A:0.24, C:0.31, G:0.41, T:0.03
Consensus pattern (12 bp):
GAGCCGGAGCCA
Found at i:1152325 original size:19 final size:20
Alignment explanation
Indices: 1152301--1152345 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
1152291 CTCCTCCTTG
*
1152301 TTTTCTTCT-CCTTTCTTTT
1 TTTTCTTCTCCCTATCTTTT
1152320 TTTTCTTCTCCCTATCTTTT
1 TTTTCTTCTCCCTATCTTTT
1152340 TCTTTC
1 T-TTTC
1152346 CGTTCAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 10 0.43
21 4 0.17
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTCTTCTCCCTATCTTTT
Found at i:1152958 original size:21 final size:20
Alignment explanation
Indices: 1152912--1152961 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
1152902 ATTATTAAAA
*
1152912 TATAATAAAATAATAATATT
1 TATAAAAAAATAATAATATT
1152932 TA-AAAAAAATAA-AATTATAT
1 TATAAAAAAATAATAA-TAT-T
1152952 TATAAAAAAA
1 TATAAAAAAA
1152962 ATGGGTCGCG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.08
19 12 0.46
20 5 0.19
21 7 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TATAAAAAAATAATAATATT
Found at i:1155005 original size:17 final size:17
Alignment explanation
Indices: 1154980--1155018 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
1154970 TTTTAACTTT
*
1154980 TACTAGTACATATTTTA
1 TACTTGTACATATTTTA
1154997 TACTTGTACATATTTTA
1 TACTTGTACATATTTTA
1155014 TACTT
1 TACTT
1155019 TGATGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (17 bp):
TACTTGTACATATTTTA
Found at i:1155993 original size:17 final size:17
Alignment explanation
Indices: 1155971--1156003 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1155961 CGATAAAAAT
1155971 ATAATTT-TATTATTTAA
1 ATAATTTATA-TATTTAA
1155988 ATAATTTATATATTTA
1 ATAATTTATATATTTA
1156004 TAATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATAATTTATATATTTAA
Found at i:1160231 original size:28 final size:28
Alignment explanation
Indices: 1160200--1160258 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
1160190 GATCAAATTA
*
1160200 ATTGGATTAAAAATCGATTAAAGAATCG
1 ATTGAATTAAAAATCGATTAAAGAATCG
** *
1160228 ATTGAATTGGAAATCGATTAAAGAATTG
1 ATTGAATTAAAAATCGATTAAAGAATCG
1160256 ATT
1 ATT
1160259 TAGAGAAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.32
Consensus pattern (28 bp):
ATTGAATTAAAAATCGATTAAAGAATCG
Found at i:1166071 original size:26 final size:26
Alignment explanation
Indices: 1165988--1166071 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
1165978 TGATACAAAT
*
1165988 TGATAATGGCCGTTAGGTAAATGTTTCA
1 TGATAATGG--GTTAGGTAAATGTTCCA
*
1166016 TGACAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
1166042 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
1166068 TGAT
1 TGAT
1166072 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
26 45 0.85
28 8 0.15
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:1170442 original size:19 final size:19
Alignment explanation
Indices: 1170418--1170457 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1170408 TTTTTCTTCC
1170418 AATGGCCTTTCTCATGACA
1 AATGGCCTTTCTCATGACA
1170437 AATGGCCTTTCTCATGACA
1 AATGGCCTTTCTCATGACA
1170456 AA
1 AA
1170458 AGGCACATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (19 bp):
AATGGCCTTTCTCATGACA
Found at i:1174164 original size:129 final size:128
Alignment explanation
Indices: 1173914--1174242 Score: 453
Period size: 129 Copynumber: 2.6 Consensus size: 128
1173904 AAAAAGCCAA
* * * *** * * *
1173914 AACCCAGCACGGTAGGGCACAATTTTTCGAATTTCCAAACATTGAACATTGCCTCGCTTT-AGCA
1 AACCCAGCACGATAAGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTCGTTTTAAGAA
**
1173978 TTTAGAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTCGAACAAACGGGAAATTGC
66 TTTTCAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTCGAACAAACGGGAAATTGC
*
1174041 AACCCAGCATGATAAGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTCGTTTTAAGGA
1 AACCCAGCACGATAAGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTCGTTTTAA-GA
* * * *
1174106 ATTTTCAAAGCATGAGTGAAATTCTAAAGGAATATTTGATTATTTTGAACAAATGGGAAATTGC
65 ATTTTCAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTCGAACAAACGGGAAATTGC
* * *
1174170 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCAAACATTGCCTTCATTTTAAAG
1 AACCCAGCACGATAAGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCC-TCGTTTT-AAG
1174235 AATTTTCA
64 AATTTTCA
1174243 GACGAATAAT
Statistics
Matches: 178, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
127 51 0.29
128 1 0.01
129 109 0.61
130 15 0.08
131 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (128 bp):
AACCCAGCACGATAAGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTCGTTTTAAGAA
TTTTCAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTCGAACAAACGGGAAATTGC
Found at i:1176167 original size:26 final size:26
Alignment explanation
Indices: 1176130--1176187 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
1176120 TGATACAAAT
1176130 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
1176156 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
1176182 TGATAA
1 TGATAA
1176188 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:1179614 original size:25 final size:23
Alignment explanation
Indices: 1179577--1179627 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
1179567 TTGGACAGTA
* *
1179577 TTTATTTTGTTTTATTTTTTGGAT
1 TTTATTTTATTTTATATTTTGG-T
*
1179601 TTTATATTTATTTTGTATTTTGGT
1 TTTAT-TTTATTTTATATTTTGGT
1179625 TTT
1 TTT
1179628 GACGTGGACC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.14, C:0.00, G:0.12, T:0.75
Consensus pattern (23 bp):
TTTATTTTATTTTATATTTTGGT
Found at i:1182214 original size:15 final size:15
Alignment explanation
Indices: 1182194--1182230 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
1182184 AATCTCAGTC
1182194 TAAGTGAGAGAGAGG
1 TAAGTGAGAGAGAGG
1182209 TAAGTGAGAGAGAGG
1 TAAGTGAGAGAGAGG
*
1182224 TGAGTGA
1 TAAGTGA
1182231 CACACCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.46, T:0.16
Consensus pattern (15 bp):
TAAGTGAGAGAGAGG
Found at i:1184554 original size:16 final size:15
Alignment explanation
Indices: 1184533--1184580 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
1184523 AATGTGAATA
1184533 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
1184549 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
1184564 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
1184580 A
1 A
1184581 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:1184556 original size:24 final size:24
Alignment explanation
Indices: 1184529--1184584 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
1184519 TAATAATGTG
*
1184529 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
1184553 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
1184577 AATAATAA
1 AATAATAA
1184585 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:1184563 original size:8 final size:8
Alignment explanation
Indices: 1184529--1184580 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
1184519 TAATAATGTG
*
1184529 AATAATAA
1 AATATTAA
1184537 AATATATAA
1 AATAT-TAA
1184546 AATA-TAA
1 AATATTAA
1184553 AATATTAA
1 AATATTAA
*
1184561 AATATCAA
1 AATATTAA
*
1184569 AATATTAG
1 AATATTAA
1184577 AATA
1 AATA
1184581 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:1184795 original size:22 final size:24
Alignment explanation
Indices: 1184732--1184796 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
1184722 CGTGATAATA
*
1184732 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
1184757 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
1184780 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
1184797 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:1184839 original size:23 final size:22
Alignment explanation
Indices: 1184812--1184888 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 22
1184802 CATGTAAAAA
*
1184812 AATATATATATATATATATAAAT
1 AATATATATA-ATATATATACAT
*
1184835 AATATAATATTAAAGATATATACAT
1 AATAT-ATA-T-AATATATATACAT
* *
1184860 AAAATAGTATAATATATATACGT
1 AATATA-TATAATATATATACAT
1184883 AATATA
1 AATATA
1184889 GAATTTAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
23 21 0.48
24 5 0.11
25 17 0.39
26 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.38
Consensus pattern (22 bp):
AATATATATAATATATATACAT
Found at i:1184887 original size:48 final size:43
Alignment explanation
Indices: 1184817--1184954 Score: 122
Period size: 46 Copynumber: 3.1 Consensus size: 43
1184807 AAAAAAATAT
*
1184817 ATATATATATATATAAATAATATAATATTAAAGATATATACATAAA
1 ATATATA-ATATATATATAATATAATATT-AAGA-ATATACATAAA
* *
1184863 ATAGTATAATATATATACGTAATATAGA-ATTTAA-AATATACCTAAT
1 ATA-TATAATATATATA--TAATATA-ATA-TTAAGAATATACATAAA
*
1184909 ATAT-TAAAATATATATAATATAATATTAAGAAATATA-ATAATA
1 ATATATAATATATATATAATATAATATTAAG-AATATACATAA-A
1184952 ATA
1 ATA
1184955 AAAAAGGAGA
Statistics
Matches: 77, Mismatches: 6, Indels: 21
0.74 0.06 0.20
Matches are distributed among these distances:
41 5 0.06
42 11 0.14
43 9 0.12
44 10 0.13
45 1 0.01
46 23 0.30
47 5 0.06
48 10 0.13
49 3 0.04
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.37
Consensus pattern (43 bp):
ATATATAATATATATATAATATAATATTAAGAATATACATAAA
Found at i:1184889 original size:23 final size:23
Alignment explanation
Indices: 1184738--1184934 Score: 67
Period size: 23 Copynumber: 8.7 Consensus size: 23
1184728 AATATTAAAA
* * *
1184738 ATATGTACATAATATAGTGTTAAAA
1 ATATATACATAATATAGT-AT-AAT
* *
1184763 ATACATACATAATATAGT-TAAG
1 ATATATACATAATATAGTATAAT
* *
1184785 ATATATACATAAGATAACATGTA-AAA
1 ATATATACAT-A-AT-ATA-GTATAAT
* *
1184811 AAATATATATATATATA-TATAA-
1 ATATATACATA-ATATAGTATAAT
*
1184833 ATA-AT--ATAATAT--TA-AAG
1 ATATATACATAATATAGTATAAT
*
1184850 ATATATACATAAAATAGTATAAT
1 ATATATACATAATATAGTATAAT
* *
1184873 ATATATACGTAATATAGAATTTAA-
1 ATATATACATAATATAG--TATAAT
* * *
1184897 A-ATATACCTAATATATTAAAAT
1 ATATATACATAATATAGTATAAT
*
1184919 ATATATAATATAATAT
1 ATATAT-ACATAATAT
1184935 TAAGAAATAT
Statistics
Matches: 132, Mismatches: 22, Indels: 37
0.69 0.12 0.19
Matches are distributed among these distances:
16 2 0.02
17 5 0.04
18 6 0.05
19 3 0.02
20 6 0.05
21 5 0.04
22 18 0.14
23 38 0.29
24 12 0.09
25 25 0.19
26 12 0.09
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.36
Consensus pattern (23 bp):
ATATATACATAATATAGTATAAT
Found at i:1184933 original size:14 final size:14
Alignment explanation
Indices: 1184813--1184934 Score: 57
Period size: 14 Copynumber: 9.1 Consensus size: 14
1184803 ATGTAAAAAA
1184813 ATATAT-ATAT-AT
1 ATATATAATATAAT
1184825 ATATATAA-ATAAT
1 ATATATAATATAAT
* *
1184838 ATA-ATATTA-AAG
1 ATATATAATATAAT
1184850 ATATATACATA-AA-
1 ATATATA-ATATAAT
1184863 ATAGTATAATAT-AT
1 ATA-TATAATATAAT
**
1184877 ATACGTAATATAGA-
1 ATATATAATATA-AT
* * *
1184891 ATTTAAAATATACCT
1 ATATATAATATA-AT
* *
1184906 A-ATATATTAAAAT
1 ATATATAATATAAT
1184919 ATATATAATATAAT
1 ATATATAATATAAT
1184933 AT
1 AT
1184935 TAAGAAATAT
Statistics
Matches: 80, Mismatches: 18, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
12 16 0.20
13 25 0.31
14 37 0.46
15 2 0.03
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (14 bp):
ATATATAATATAAT
Found at i:1185257 original size:17 final size:16
Alignment explanation
Indices: 1185221--1185253 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1185211 TTTGATTAAT
1185221 CTTCTCCAAAAACTAG
1 CTTCTCCAAAAACTAG
1185237 CTTCTCCAAAAACTAG
1 CTTCTCCAAAAACTAG
1185253 C
1 C
1185254 CTTCACAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.33, G:0.06, T:0.24
Consensus pattern (16 bp):
CTTCTCCAAAAACTAG
Found at i:1185489 original size:30 final size:30
Alignment explanation
Indices: 1185455--1185518 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
1185445 CAAGTGTGAT
1185455 TAGTGGAGTAGGTGGTGGAAAAGGAGTGGC
1 TAGTGGAGTAGGTGGTGGAAAAGGAGTGGC
* *
1185485 TAGTGGAGTTGGTGGTGGAAAAGGTGTGGC
1 TAGTGGAGTAGGTGGTGGAAAAGGAGTGGC
1185515 TAGT
1 TAGT
1185519 TGAGAAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.03, G:0.48, T:0.25
Consensus pattern (30 bp):
TAGTGGAGTAGGTGGTGGAAAAGGAGTGGC
Found at i:1186283 original size:14 final size:14
Alignment explanation
Indices: 1186264--1186313 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
1186254 GAGTTGATTT
* *
1186264 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
1186278 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
1186293 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
1186307 TT-AAAAA
1 TTGAAAAA
1186314 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:1186429 original size:73 final size:73
Alignment explanation
Indices: 1186293--1186612 Score: 383
Period size: 74 Copynumber: 4.3 Consensus size: 73
1186283 AAAACAGAAA
* * **
1186293 TTGA-AAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATA
1 TTGACAAA-CAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATA
1186357 TGAGTTAATTT
63 TGAGTTAATTT
* * *
1186368 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCTCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
*
1186433 GTTGATTT
66 GTTAATTT
* * *
1186441 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGACAAACAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
*
1186506 AGTTGATTTTTT
65 AGTT-A--ATTT
* * * **
1186518 TTTACGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGACAAACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
1186583 GAGTTGATTT
64 GAGTTAATTT
1186593 TTGACAAACAGAAATT-AAAA
1 TTGACAAACAGAAATTGAAAA
1186613 GGCTTAACTC
Statistics
Matches: 210, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
73 51 0.24
74 53 0.25
75 40 0.19
76 17 0.08
77 14 0.07
78 35 0.17
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (73 bp):
TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTAATTT
Found at i:1186595 original size:152 final size:147
Alignment explanation
Indices: 1186293--1186612 Score: 437
Period size: 152 Copynumber: 2.1 Consensus size: 147
1186283 AAAACAGAAA
*
1186293 TTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTAAAAAGACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
** * *
1186358 GAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTT
65 GAGTTAATTTTTGACAAACAGAAATTGAAAAGACCTCAGCGTGACCCGAGGCTCAACTCACCTCT
*
1186423 CTCAATATGAGTTGATTT
130 CGCAATATGAGTTGATTT
* *
1186441 TTGAAAAACAGAAATTTAAAAATACCTCAGC-GTG-TCCTGAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAA-TTAAAAAGACCTCAGCAGTGAGCC-GAGGCTCAACTCACCTCTCGCAATA
* * * *
1186504 TGAGTTGATTTTTTTTTACGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTC
64 TGAGTT-A--ATTTTTGACAAACAGAAATTGAAAAGACCTCAGC--GTGACCCGAGGCTCAACTC
1186569 ACCTCTCGCAATATGAGTTGATTT
124 ACCTCTCGCAATATGAGTTGATTT
*
1186593 TTGACAAACAGAAATTAAAA
1 TTGAAAAACAGAAATTAAAA
1186613 GGCTTAACTC
Statistics
Matches: 152, Mismatches: 13, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
146 2 0.01
147 34 0.22
148 14 0.09
149 15 0.10
150 29 0.19
151 6 0.04
152 52 0.34
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (147 bp):
TTGAAAAACAGAAATTAAAAAGACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTTTTGACAAACAGAAATTGAAAAGACCTCAGCGTGACCCGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTT
Found at i:1186719 original size:128 final size:128
Alignment explanation
Indices: 1186480--1186869 Score: 475
Period size: 128 Copynumber: 3.0 Consensus size: 128
1186470 GCGTGTCCTG
* *** * *
1186480 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAAAGACCTC
1 AGGCTTAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAC-AATAGAAATTGAAAATACCTC
*
1186545 AGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATT
64 AGC--GTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
1186609 AAA
126 AAA
* * *
1186612 AGGCTTAACTCACTTCTCGCAACATGAGTTGATTTTTGAAACAATAAAAATT-AAGAATACCTCA
1 AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAATAGAAATTGAA-AATACCTCA
* * *
1186676 GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATAAGCTGA-TTTTGAAAAAGTAGAAATTAAA
65 GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-CAGAAATTAAA
* * * *
1186740 AGG-TTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACA-AATAGAAATTGAAATTACCTCA
1 AGGCTT-AACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAATAGAAATTGAAAATACCTCA
* * *
1186803 TCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAA
65 GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAA-TTAA
1186868 A
128 A
1186869 A
1 A
1186870 ATACCTCAGC
Statistics
Matches: 224, Mismatches: 26, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
127 67 0.30
128 85 0.38
129 18 0.08
130 18 0.08
131 7 0.03
132 29 0.13
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (128 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAATAGAAATTGAAAATACCTCAG
CGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:1186839 original size:73 final size:73
Alignment explanation
Indices: 1186744--1187469 Score: 575
Period size: 73 Copynumber: 9.4 Consensus size: 73
1186734 ATTAAAAGGT
* * * *
1186744 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAATAGAAATTGAAATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1186809 CCTGAGGC
66 CCTGAGGC
* * * *
1186817 TCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAGAAA-TTGAAATTACCTCAGCGT
*
1186882 GTCCTGAAGC
64 GTCCTGAGGC
* * ** **
1186892 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACGAACAGAAATTGAAGAACAGAAATTGA
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAGAAATT---GAA-ATTACCT--
* *
1186957 AAAGAC-T-TCAGCATGTGAGC
58 -CAG-CGTGTC--C-TGAG-GC
* * *
1186977 -CGAGGCTCAACTCACCTATCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
1 TC-A-ACTC-----ACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTC
*
1187041 AGCGTGTCCCGAGGC
59 AGCGTGTCCTGAGGC
* * * * *
1187056 TCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAAACATAAATTTAAAAATACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA-TTGAAATTACCTCAGCGTG
1187121 TCCTGAGGC
65 TCCTGAGGC
* ** ***
1187130 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATGAACAGAAATTGAAGA--ACAGAAATTG
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAGAAATTGAA-ATTAC-CTCA--G
*** *
1187193 AAAAGACCTCAGCAAGTGAGC
61 -CGTGTCCT--G--A--G-GC
*
1187214 -CGAGACTCAACTCACCTCTCGTAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTC
1 TC-A-ACT-----CACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTC
*
1187278 AGCGTGTCTTGAGGC
59 AGCGTGTCCTGAGGC
1187293 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1187358 CCTGAGGC
66 CCTGAGGC
* * * * * * *
1187366 TCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGTATCTCAACGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
*
1187430 CTTGAGGC
66 CCTGAGGC
* *
1187438 TCAACTCATCTCTCGCAATACGAGTTGATTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTT
1187470 CCTTGAAAAG
Statistics
Matches: 524, Mismatches: 79, Indels: 100
0.75 0.11 0.14
Matches are distributed among these distances:
72 62 0.12
73 157 0.30
74 71 0.14
75 67 0.13
76 16 0.03
77 4 0.01
78 8 0.02
79 10 0.02
80 5 0.01
81 5 0.01
82 7 0.01
83 6 0.01
84 7 0.01
85 9 0.02
86 9 0.02
87 1 0.00
88 1 0.00
89 37 0.07
90 23 0.04
91 19 0.04
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (73 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
CCTGAGGC
Found at i:1186949 original size:14 final size:14
Alignment explanation
Indices: 1186930--1186957 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1186920 TTTTTTTTAC
1186930 GAACAGAAATTGAA
1 GAACAGAAATTGAA
1186944 GAACAGAAATTGAA
1 GAACAGAAATTGAA
1186958 AAGACTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:1187186 original size:14 final size:14
Alignment explanation
Indices: 1187167--1187194 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1187157 ATTTTTTTAT
1187167 GAACAGAAATTGAA
1 GAACAGAAATTGAA
1187181 GAACAGAAATTGAA
1 GAACAGAAATTGAA
1187195 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:1187253 original size:237 final size:237
Alignment explanation
Indices: 1186744--1187397 Score: 1094
Period size: 237 Copynumber: 2.8 Consensus size: 237
1186734 ATTAAAAGGT
* * * *
1186744 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAATAGAAATTGAAATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
*
1186809 CCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAATAC
66 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAATAC
*
1186874 CTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACGAACAGAAA
130 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTACGAACAGAAA
* * *
1186939 TTGAAGAACAGAAATTGAAAAGACTTCAGCATGTGAGCCGAGGC
194 TTGAAGAACAGAAATTGAAAAGACCTCAGCAAGTGAGCCGAGAC
* *
1186983 TCAACTCACCTATCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
* * *
1187048 CCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAAACATAAATTTAAAAATACC
66 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACC
*
1187113 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATGAACAGAAATT
131 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTACGAACAGAAATT
1187178 GAAGAACAGAAATTGAAAAGACCTCAGCAAGTGAGCCGAGAC
196 GAAGAACAGAAATTGAAAAGACCTCAGCAAGTGAGCCGAGAC
*
1187220 TCAACTCACCTCTCGTAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
* * * *
1187285 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA-TTGAAATTACC
66 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACC
*
1187349 TCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
131 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1187398 GAAAAACAAA
Statistics
Matches: 389, Mismatches: 26, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
236 57 0.15
237 168 0.43
238 72 0.19
239 92 0.24
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (237 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACC
TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTACGAACAGAAATT
GAAGAACAGAAATTGAAAAGACCTCAGCAAGTGAGCCGAGAC
Found at i:1187451 original size:145 final size:147
Alignment explanation
Indices: 1187182--1187469 Score: 411
Period size: 145 Copynumber: 2.0 Consensus size: 147
1187172 GAAATTGAAG
* *
1187182 AACAGAAATTGAAAAGACCTCAGCAAGTGAGCCGAGACTCAACTCACCTCTCGTAATATGAGTTG
1 AACAGAAATTGAAAAGACCTCAGC-AGTGAGCCGAGACTCAACTCACCTCTAGCAATATGAGTTG
* * * * *
1187247 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
65 ATTTTTGAAAAACAAAAATTAAAAGTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
*
1187312 ATGAGTTGATTTTTGACA
130 ACGAGTTGATTTTTGACA
** * *
1187330 AACAGAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG
1 AACAGAAATTGAAAAGACCTCAGCAGTGAGCC-GAGACTCAACTCACCTCTAGCAATATGAGTTG
* *
1187393 A-TTTTGAAAAACAAAAATTAAAAGTATCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAAT
65 ATTTTTGAAAAACAAAAATTAAAAGTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
1187457 ACGAGTTGATTTT
130 ACGAGTTGATTTT
1187470 CCTTGAAAAG
Statistics
Matches: 125, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
145 70 0.56
146 33 0.26
148 22 0.18
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (147 bp):
AACAGAAATTGAAAAGACCTCAGCAGTGAGCCGAGACTCAACTCACCTCTAGCAATATGAGTTGA
TTTTTGAAAAACAAAAATTAAAAGTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
CGAGTTGATTTTTGACA
Found at i:1195787 original size:12 final size:12
Alignment explanation
Indices: 1195765--1195819 Score: 57
Period size: 12 Copynumber: 5.0 Consensus size: 12
1195755 TGGGATATGC
*
1195765 AATGAATGAATG
1 AATGCATGAATG
*
1195777 GATGCATGAATG
1 AATGCATGAATG
1195789 AATGCATGAATG
1 AATGCATGAATG
1195801 --T-CA--AATG
1 AATGCATGAATG
1195808 AATGCATGAATG
1 AATGCATGAATG
1195820 TCAAATGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
7 4 0.11
9 3 0.09
10 3 0.09
12 25 0.71
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Done.