Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006573.1 Hibiscus syriacus cultivar Beakdansim tig00016106_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1218788
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:791190 original size:29 final size:29
Alignment explanation
Indices: 791101--791180 Score: 133
Period size: 29 Copynumber: 2.8 Consensus size: 29
791091 AATCCATTAT
791101 TCTTTTACTCAACAGTGTTTAATTGTTCA
1 TCTTTTACTCAACAGTGTTTAATTGTTCA
* *
791130 TTTTTTACTCAACAGTGTTTAGTTGTTCA
1 TCTTTTACTCAACAGTGTTTAATTGTTCA
*
791159 TCTTTTACTCAACAGTCTTTAA
1 TCTTTTACTCAACAGTGTTTAA
791181 CCGCTCATCT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.49
Consensus pattern (29 bp):
TCTTTTACTCAACAGTGTTTAATTGTTCA
Found at i:791459 original size:54 final size:54
Alignment explanation
Indices: 791383--791883 Score: 664
Period size: 54 Copynumber: 9.3 Consensus size: 54
791373 ATTTATTAAG
* * * ** *
791383 ATGCACACATAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATTATGTGGG
1 ATGCACACTTAGTGCATGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGA
* * *
791437 TTGCACACATCGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA
1 ATGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA
* * * ** * *
791491 ATGCACATTTAGTTCATGTATGACTATTCATCAACTCATGATGAATTCCATAGA
1 ATGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA
* *
791545 ATGCACACTTAGTACTTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA
1 ATGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA
* *
791599 ATGCACACTTAGTGCATGTACAGTTATTCATCAACTCATGATGAATTCCATGGA
1 ATGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA
* * *
791653 ATGCACACTTAATGCTTGTACGGTTATTCATCAACTCATGATGAATTACGTGGA
1 ATGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA
* * * * * * *
791707 CTACACATTTAGTGCTTATACGGTTATTCATCAACTCATGATAAATTCTGTGGA
1 ATGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA
* * * *
791761 ATGCATATTTAGTGCATGTACGATTATTCATCAACTCATGACGAATTCCGTGGA
1 ATGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA
791815 ATGCACACTTAGTGTC-TGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA
1 ATGCACACTTAGTG-CATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA
791869 ATGCACACTTAGTGC
1 ATGCACACTTAGTGC
791884 CTGTTTGGTA
Statistics
Matches: 390, Mismatches: 55, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
53 1 0.00
54 386 0.99
55 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (54 bp):
ATGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA
Found at i:792328 original size:20 final size:22
Alignment explanation
Indices: 792300--792353 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
792290 CGATGTTGCC
*
792300 TGGTATCGATAC-A-CTTACTA
1 TGGTATCGATACTACCATACTA
*
792320 TGGTGTCGATACTACCATACTA
1 TGGTATCGATACTACCATACTA
792342 TGGTATCGATAC
1 TGGTATCGATAC
792354 CCCTTTCTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 11 0.38
21 1 0.03
22 17 0.59
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (22 bp):
TGGTATCGATACTACCATACTA
Found at i:792341 original size:95 final size:95
Alignment explanation
Indices: 792220--792430 Score: 284
Period size: 95 Copynumber: 2.2 Consensus size: 95
792210 TTGATAACCC
**
792220 TACCATGGTATCGATACTACTTTACTATGGTA-CTGATACTCCATTTC-GATATCGATACCA-TT
1 TACCATGGTATCGATACTACCATACTATGGTATC-GATAC-CCATTTCTGATATCGATACCAGTT
* *
792282 TTAAGGTTCGATGTTGCCTGGTATCGATACACT
64 TT-AGCTTCGATGATGCCTGGTATCGATACACT
* * * *
792315 TACTATGGTGTCGATACTACCATACTATGGTATCGATACCCCTTTCTGGTATCGATACCAGTTTT
1 TACCATGGTATCGATACTACCATACTATGGTATCGATACCCATTTCTGATATCGATACCAGTTTT
* *
792380 AGCTTCGATGATGCTTGGTATCGATACCCT
66 AGCTTCGATGATGCCTGGTATCGATACACT
792410 TACCATGGTATCGATACTACC
1 TACCATGGTATCGATACTACC
792431 TCGTCTGTAT
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
94 6 0.06
95 90 0.89
96 5 0.05
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.36
Consensus pattern (95 bp):
TACCATGGTATCGATACTACCATACTATGGTATCGATACCCATTTCTGATATCGATACCAGTTTT
AGCTTCGATGATGCCTGGTATCGATACACT
Found at i:793594 original size:18 final size:19
Alignment explanation
Indices: 793557--793596 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
793547 ATTCTCAAAC
*
793557 TCATTCCAAACCGAAATACT
1 TCATTCCAAAAC-AAATACT
793577 TCATTCCAAAAC-AATACT
1 TCATTCCAAAACAAATACT
793595 TC
1 TC
793597 CAGAAAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.40, C:0.30, G:0.03, T:0.28
Consensus pattern (19 bp):
TCATTCCAAAACAAATACT
Found at i:794076 original size:20 final size:20
Alignment explanation
Indices: 794034--794073 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
794024 TAAGTGTTAA
*
794034 TGAATTTTAATATTTTATAT
1 TGAATTTTAATATTATATAT
794054 TGAATTTTAA-ATTATATAT
1 TGAATTTTAATATTATATAT
794073 T
1 T
794074 TGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TGAATTTTAATATTATATAT
Found at i:794294 original size:20 final size:20
Alignment explanation
Indices: 794261--794302 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
794251 AACCAGATTG
794261 CCCAGAGGGAACAGATTCCC
1 CCCAGAGGGAACAGATTCCC
* *
794281 CCCAGCGGGTACAGATTCCC
1 CCCAGAGGGAACAGATTCCC
794301 CC
1 CC
794303 TAGGTTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.40, G:0.24, T:0.12
Consensus pattern (20 bp):
CCCAGAGGGAACAGATTCCC
Found at i:796271 original size:19 final size:20
Alignment explanation
Indices: 796233--796270 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
796223 TAAAGATAAT
796233 TTGATTTTG-AAAGCAAAAA
1 TTGATTTTGAAAAGCAAAAA
*
796252 TTGATTTTGAAAATCAAAA
1 TTGATTTTGAAAAGCAAAA
796271 TGAAATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.34
Consensus pattern (20 bp):
TTGATTTTGAAAAGCAAAAA
Found at i:797518 original size:19 final size:20
Alignment explanation
Indices: 797479--797518 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
797469 TAAGTGTTAA
*
797479 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTATATAT
797499 TGAATTTTAA-ATTATATAT
1 TGAATTTTAAGATTATATAT
797518 T
1 T
797519 CGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TGAATTTTAAGATTATATAT
Found at i:798888 original size:34 final size:34
Alignment explanation
Indices: 798850--798927 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 34
798840 AATTGGGTCT
798850 CTAATTCTTAAACAACTCATAATCAATTGATCCA
1 CTAATTCTTAAACAACTCATAATCAATTGATCCA
798884 CTAATTTTTATTCTTAAACAACTCATAATCAATTGATCCA
1 CT-A-----ATTCTTAAACAACTCATAATCAATTGATCCA
798924 CTAA
1 CTAA
798928 CAACTCTCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
34 3 0.08
35 1 0.03
39 1 0.03
40 33 0.87
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.36
Consensus pattern (34 bp):
CTAATTCTTAAACAACTCATAATCAATTGATCCA
Found at i:800166 original size:2 final size:2
Alignment explanation
Indices: 800159--800222 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
800149 TTGTTATACC
800159 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
800201 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
800223 TATCCCTTCA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:800672 original size:54 final size:53
Alignment explanation
Indices: 800599--801099 Score: 351
Period size: 54 Copynumber: 9.3 Consensus size: 53
800589 ATTTATTAAG
* *
800599 ATGCACACATAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATTTCATGGG
1 ATGCACATATAGTG-CTATACGGCTA-TTCATCAACTCATGATGAATTTCATGGA
* * * * * *
800653 TTGCACATATCGTGACTATATGGTTATTCATCAACTCATGATGAATTACGTGGA
1 ATGCACATATAGTG-CTATACGGCTATTCATCAACTCATGATGAATTTCATGGA
* *
800707 ATGCACACT-TAGTGCTTGTACGGCTATTCATCAACTCATGATGAATTTCGT-GA
1 ATGCACA-TATAGTGC-TATACGGCTATTCATCAACTCATGATGAATTTCATGGA
** * ** * * *
800760 ACTGCACAGT-TAACGCATGTACTACTATTCATCAACTCTTGATGAATTCCGTGGA
1 A-TGCACA-TATAGTGC-TATACGGCTATTCATCAACTCATGATGAATTTCATGGA
* * * *
800815 ATGCACACT-TAGTGCATGTGCGGTTATTCATCAACTCATGAT-AAATT-ATGTGCA
1 ATGCACA-TATAGTGC-TATACGGCTATTCATCAACTCATGATGAATTTCATG-G-A
* * * * *
800869 ATGCACACT-TAGTGCATGTATGGTTATTCATCAACTCATGATGAATTTCGTGGT
1 ATGCACA-TATAGTGC-TATACGGCTATTCATCAACTCATGATGAATTTCATGGA
* * * *
800923 ATGCACACT-TAGTGCCTGTACGGTTATTTATCAACTCATGATGAATTTCGTGGA
1 ATGCACA-TATAGTG-CTATACGGCTATTCATCAACTCATGATGAATTTCATGGA
* * *** * *
800977 ATGTACA-ATTAGTGCTTGTACAATTATTCATCAACTCATGATGAATTCCGTGGA
1 ATGCACATA-TAGTGC-TATACGGCTATTCATCAACTCATGATGAATTTCATGGA
* * **
801031 ATGCACACT-TAGTGTCTGTACGGTTATTCATCAACTCATGATGAATTTTGTGGA
1 ATGCACA-TATAGTG-CTATACGGCTATTCATCAACTCATGATGAATTTCATGGA
801085 ATGCACACT-TAGTGC
1 ATGCACA-TATAGTGC
801100 ATGTTTGGTA
Statistics
Matches: 380, Mismatches: 51, Indels: 33
0.82 0.11 0.07
Matches are distributed among these distances:
52 2 0.01
53 10 0.03
54 353 0.93
55 13 0.03
56 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (53 bp):
ATGCACATATAGTGCTATACGGCTATTCATCAACTCATGATGAATTTCATGGA
Found at i:800740 original size:108 final size:109
Alignment explanation
Indices: 800599--801103 Score: 591
Period size: 108 Copynumber: 4.7 Consensus size: 109
800589 ATTTATTAAG
* * **
800599 ATGCACACATAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATTTCATGGGTTGCACA-TA
1 ATGCACACTTAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTTCATGGAATGCACACTA
* * * *
800662 TCGTG-ACTATATGGTTATTCATCAACTCATGATGAATTACGTGGA
65 TAGTGCA-TGTATGATTATTCATCAACTCATGATGAATTCCGTGGA
* * * *
800707 ATGCACACTTAGTGCTTGTACGGCTATTCATCAACTCATGATGAATTTCGT-GAACTGCACAGT-
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCATGGAA-TGCACACTA
** * *
800770 TAACGCATGTACT-ACTATTCATCAACTCTTGATGAATTCCGTGGA
65 TAGTGCATGTA-TGATTATTCATCAACTCATGATGAATTCCGTGGA
* * *
800815 ATGCACACTTAGTGCATGTGCGGTTATTCATCAACTCATGAT-AAATT-ATGTGCAATGCACACT
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCATG-G-AATGCACACT
* * *
800878 -TAGTGCATGTATGGTTATTCATCAACTCATGATGAATTTCGTGGT
64 ATAGTGCATGTATGATTATTCATCAACTCATGATGAATTCCGTGGA
* * * *
800923 ATGCACACTTAGTGCCTGTACGGTTATTTATCAACTCATGATGAATTTCGTGGAATGTACAAT-T
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCATGGAATGCACACTAT
* **
800987 AGTGCTTGTACAATTATTCATCAACTCATGATGAATTCCGTGGA
66 AGTGCATGTATGATTATTCATCAACTCATGATGAATTCCGTGGA
* **
801031 ATGCACACTTAGTGTCTGTACGGTTATTCATCAACTCATGATGAATTTTGTGGAATGCACACT-T
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCATGGAATGCACACTAT
801095 AGTGCATGT
66 AGTGCATGT
801104 TTGGTAATCG
Statistics
Matches: 340, Mismatches: 46, Indels: 22
0.83 0.11 0.05
Matches are distributed among these distances:
106 1 0.00
107 6 0.02
108 319 0.94
109 12 0.04
110 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (109 bp):
ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCATGGAATGCACACTAT
AGTGCATGTATGATTATTCATCAACTCATGATGAATTCCGTGGA
Found at i:800899 original size:162 final size:161
Alignment explanation
Indices: 800625--801095 Score: 588
Period size: 162 Copynumber: 2.9 Consensus size: 161
800615 TATACGGTAG
* * ** * * *
800625 TTCATCAACTCATGATGAATTTCATGGGTTGCAC-ATATCGTG-ACTATATGGTTATTCATCAAC
1 TTCATCAACTCATGATGAATTCCGTGGAATGCACAAT-TAGTGCA-TGTACGGTTATTCATCAAC
*
800688 TCATGATGAATTACGTGGAATGCACACTTAGTGCTTGTACGGCTATTCATCAACTCATGATGAAT
64 TCATGATGAATTACGTGGAATGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAAT
* *
800753 TTCGT-GAACTGCACAGTTAACGCATGTACTACTA
128 TTCGTGGAA-TGCACACTTAACGCATGTACGACTA
* * *
800787 TTCATCAACTCTTGATGAATTCCGTGGAATGCACACTTAGTGCATGTGCGGTTATTCATCAACTC
1 TTCATCAACTCATGATGAATTCCGTGGAATGCACAATTAGTGCATGTACGGTTATTCATCAACTC
* * * *
800852 ATGATAAATTATGTGCAATGCACACTTAGTGCATGTATGGTTATTCATCAACTCATGATGAATTT
66 ATGATGAATTACGTGGAATGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTT
* ** * **
800917 CGTGGTATGCACACTTAGTGCCTGTACGGTTA
130 CGTGGAATGCACACTTAACGCATGTACGACTA
* * * * **
800949 TTTATCAACTCATGATGAATTTCGTGGAATGTACAATTAGTGCTTGTACAATTATTCATCAACTC
1 TTCATCAACTCATGATGAATTCCGTGGAATGCACAATTAGTGCATGTACGGTTATTCATCAACTC
*
801014 ATGATGAATTCCGTGGAATGCACACTTAGTGTCTGTACGGTTATTCATCAACTCATGATGAATTT
66 ATGATGAATTACGTGGAATGCACACTTAGTG-CTGTACGGTTATTCATCAACTCATGATGAATTT
*
801079 TGTGGAATGCACACTTA
130 CGTGGAATGCACACTTA
801096 GTGCATGTTT
Statistics
Matches: 265, Mismatches: 40, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
162 260 0.98
163 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (161 bp):
TTCATCAACTCATGATGAATTCCGTGGAATGCACAATTAGTGCATGTACGGTTATTCATCAACTC
ATGATGAATTACGTGGAATGCACACTTAGTGCTGTACGGTTATTCATCAACTCATGATGAATTTC
GTGGAATGCACACTTAACGCATGTACGACTA
Found at i:801096 original size:162 final size:162
Alignment explanation
Indices: 800676--801103 Score: 599
Period size: 162 Copynumber: 2.6 Consensus size: 162
800666 GACTATATGG
* *
800676 TTATTCATCAACTCATGATGAATTACGTGGAATGCACACTTAGTGCTTGTACGGCTATTCATCAA
1 TTATTCATCAACTCATGATGAATTACGTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAA
* ** * *
800741 CTCATGATGAATTTCGT-GAACTGCACAGTTAACGCATGTACTACTATTCATCAACTCTTGATGA
66 CTCATGATGAATTTCGTGGAA-TGCACACTTAGTGCATGTACGACTATTCATCAACTCATGATGA
* * **
800805 ATTCCGTGGAATGCACACTTAGTGCATGTGCGG
130 ATTCCGTGGAATGCACAATTAGTGCATGTACAA
* * * *
800838 TTATTCATCAACTCATGATAAATTATGTGCAATGCACACTTAGTGCATGTATGGTTATTCATCAA
1 TTATTCATCAACTCATGATGAATTACGTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAA
* * ** *
800903 CTCATGATGAATTTCGTGGTATGCACACTTAGTGCCTGTACGGTTATTTATCAACTCATGATGAA
66 CTCATGATGAATTTCGTGGAATGCACACTTAGTGCATGTACGACTATTCATCAACTCATGATGAA
* * *
800968 TTTCGTGGAATGTACAATTAGTGCTTGTACAA
131 TTCCGTGGAATGCACAATTAGTGCATGTACAA
*
801000 TTATTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAGTGTC-TGTACGGTTATTCATCA
1 TTATTCATCAACTCATGATGAATTACGTGGAATGCACACTTAGTG-CATGTACGGTTATTCATCA
*
801064 ACTCATGATGAATTTTGTGGAATGCACACTTAGTGCATGT
65 ACTCATGATGAATTTCGTGGAATGCACACTTAGTGCATGT
801104 TTGGTAATCG
Statistics
Matches: 233, Mismatches: 31, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
162 230 0.99
163 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (162 bp):
TTATTCATCAACTCATGATGAATTACGTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAA
CTCATGATGAATTTCGTGGAATGCACACTTAGTGCATGTACGACTATTCATCAACTCATGATGAA
TTCCGTGGAATGCACAATTAGTGCATGTACAA
Found at i:801536 original size:95 final size:95
Alignment explanation
Indices: 801411--801634 Score: 306
Period size: 95 Copynumber: 2.4 Consensus size: 95
801401 TGGCTCCATA
* * * *
801411 GTATCGATACCCCTACCATGGTATCGATACTACTAAACTATGGTACCAATACTCCATT-TCGGTA
1 GTATCGATACCCTTACCATGGTATCGATACTACCAAACTATGGTACCAATACCCCATTCT-AGTA
* * * **
801475 CCGATACCACTTTTAGGTTCGATGTTTCCTG
65 CCGATACCAATTTTAGCTTCGATGATGACTG
* * * *
801506 GTATCGATACCCTTACTATGGTATCGATACTACCATACTATGGTACCGATACCCCATTCTAGTAT
1 GTATCGATACCCTTACCATGGTATCGATACTACCAAACTATGGTACCAATACCCCATTCTAGTAC
*
801571 CGATACCAATTTTAGCTTCGATGATGATTG
66 CGATACCAATTTTAGCTTCGATGATGACTG
801601 GTATCGATACCCTTACCATGGTATCGATACTACC
1 GTATCGATACCCTTACCATGGTATCGATACTACC
801635 TCGTCAGTAT
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
95 112 0.99
96 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (95 bp):
GTATCGATACCCTTACCATGGTATCGATACTACCAAACTATGGTACCAATACCCCATTCTAGTAC
CGATACCAATTTTAGCTTCGATGATGACTG
Found at i:801547 original size:22 final size:20
Alignment explanation
Indices: 801504--801577 Score: 80
Period size: 22 Copynumber: 3.6 Consensus size: 20
801494 CGATGTTTCC
*
801504 TGGTATCGATACCCTTACTA
1 TGGTATCGATACCCATACTA
801524 TGGTATCGATACTACCATACTA
1 TGGTATCGATAC--CCATACTA
* *
801546 TGGTACCGATACCCCATTCTA
1 TGGTATCGATA-CCCATACTA
801567 --GTATCGATACC
1 TGGTATCGATACC
801578 AATTTTAGCT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
18 2 0.04
19 8 0.17
20 12 0.26
21 7 0.15
22 17 0.36
23 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (20 bp):
TGGTATCGATACCCATACTA
Found at i:802787 original size:13 final size:13
Alignment explanation
Indices: 802754--802814 Score: 59
Period size: 13 Copynumber: 4.3 Consensus size: 13
802744 ACCGGTCATA
*
802754 ACCCGACCCGTTT
1 ACCCGACCCGTTG
802767 ACCCGACCCGTTG
1 ACCCGACCCGTTG
802780 ACCGGACCTGACCCGTTG
1 A-C---CC-GACCCGTTG
*
802798 ACCCGACCTGTTG
1 ACCCGACCCGTTG
802811 ACCC
1 ACCC
802815 TGTTGACCAC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
13 25 0.61
14 3 0.07
17 3 0.07
18 10 0.24
ACGTcount: A:0.16, C:0.44, G:0.21, T:0.18
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:802792 original size:18 final size:18
Alignment explanation
Indices: 802771--802807 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
802761 CCGTTTACCC
*
802771 GACCCGTTGACCGGACCT
1 GACCCGTTGACCCGACCT
802789 GACCCGTTGACCCGACCT
1 GACCCGTTGACCCGACCT
802807 G
1 G
802808 TTGACCCTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.41, G:0.27, T:0.16
Consensus pattern (18 bp):
GACCCGTTGACCCGACCT
Found at i:802829 original size:10 final size:10
Alignment explanation
Indices: 802805--802833 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
802795 TTGACCCGAC
802805 CTGTTGACC-
1 CTGTTGACCA
802814 CTGTTGACCA
1 CTGTTGACCA
802824 CTGTTGACCA
1 CTGTTGACCA
802834 AAACTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.17, C:0.31, G:0.21, T:0.31
Consensus pattern (10 bp):
CTGTTGACCA
Found at i:805309 original size:24 final size:24
Alignment explanation
Indices: 805291--805382 Score: 132
Period size: 24 Copynumber: 3.8 Consensus size: 24
805281 TTTGATTTGA
*
805291 ATTCTAATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
805315 ATTCGGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
805339 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
805363 ATTCTGATCTGTTACTTGAC
1 ATTCTGATCTGATACTTGAC
805383 CTGATTTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
23 1 0.02
24 59 0.97
25 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:805400 original size:48 final size:48
Alignment explanation
Indices: 805291--805406 Score: 119
Period size: 48 Copynumber: 2.4 Consensus size: 48
805281 TTTGATTTGA
* *
805291 ATTCTAATCTGATACTTGACATGGATTCGGATCTGATATCTGACATGG
1 ATTCTCATATGATACTTGACATGGATTCGGATCTGATATCTGACATGG
* * * * * *
805339 ATTCTGATCTGATACTTGACTTGGATTCTGATCTGTTA-CTTGACCT-G
1 ATTCTCATATGATACTTGACATGGATTCGGATCTGATATC-TGACATGG
*
805386 ATTTTTCATATGATACTTGAC
1 A-TTCTCATATGATACTTGAC
805407 CTGATTTATG
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 3 0.05
48 55 0.95
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (48 bp):
ATTCTCATATGATACTTGACATGGATTCGGATCTGATATCTGACATGG
Found at i:808284 original size:24 final size:24
Alignment explanation
Indices: 808257--808372 Score: 164
Period size: 24 Copynumber: 4.8 Consensus size: 24
808247 TTCGATTTGA
808257 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
808281 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
808305 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
808329 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACATGG
*
808352 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
808373 TTGATTTATG
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 3 0.04
24 80 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:810559 original size:20 final size:20
Alignment explanation
Indices: 810534--810584 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
810524 TGGAAAATGT
810534 TTTCTGGAAAATGATTTACA
1 TTTCTGGAAAATGATTTACA
810554 TTTCTGGAAAATGATTTACA
1 TTTCTGGAAAATGATTTACA
*
810574 TTTCTGTAAAA
1 TTTCTGGAAAA
810585 CATTTTCCGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACA
Found at i:816343 original size:35 final size:35
Alignment explanation
Indices: 816304--816380 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
816294 GTATTTTGTG
*
816304 TTTGGTTGGTTTAGCAGGAATGCAAGATTATCGTA
1 TTTGGTTGGTTTAGCAGGAATGCAAGATTATCATA
816339 TTTGGTTGGTTTAGCAGGAATGCAAGATTATCATA
1 TTTGGTTGGTTTAGCAGGAATGCAAGATTATCATA
816374 TTTGGTT
1 TTTGGTT
816381 AAAGGAATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (35 bp):
TTTGGTTGGTTTAGCAGGAATGCAAGATTATCATA
Found at i:817926 original size:21 final size:21
Alignment explanation
Indices: 817898--817948 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
817888 CCATAAACAC
817898 GTCA-AAAGATAACAAA-ATGT
1 GTCATAAAGATAA-AAATATGT
*
817918 GTCATAAAGACAAAAATATGT
1 GTCATAAAGATAAAAATATGT
817939 -T-ATAAAGATA
1 GTCATAAAGATA
817949 GTTATTAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 8 0.30
20 8 0.30
21 11 0.41
ACGTcount: A:0.55, C:0.08, G:0.14, T:0.24
Consensus pattern (21 bp):
GTCATAAAGATAAAAATATGT
Found at i:818617 original size:60 final size:58
Alignment explanation
Indices: 818471--818646 Score: 174
Period size: 60 Copynumber: 2.9 Consensus size: 58
818461 GAATTTGGAG
* * **
818471 ATGAAATTAAAATATTCAAAAGTTTAGAGACTAATTTATAAATAGGGACATAGTTTACGA
1 ATGAAATTAAAATATTCAAAAGTTTA-AGACTAATTTA-AAATAGAGTCATAGTTTAAAA
* * * * *
818531 ATTAAATTAGAATGTTCAAAGGTTTAATGACTAATTTAAAATAAAAGTCATAGTTTAAAA
1 ATGAAATTAAAATATTCAAAAGTTTAA-GACTAATTTAAAAT-AGAGTCATAGTTTAAAA
* * *
818591 ATGAAATCAAAATATTTAAAAGTTTAAGGACCT-ATTTAAAATTAGAGTTATAGTTT
1 ATGAAATTAAAATATTCAAAAGTTTAA-GA-CTAATTTAAAA-TAGAGTCATAGTTT
818647 GGAGACGTAG
Statistics
Matches: 94, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
59 5 0.05
60 86 0.91
61 3 0.03
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.35
Consensus pattern (58 bp):
ATGAAATTAAAATATTCAAAAGTTTAAGACTAATTTAAAATAGAGTCATAGTTTAAAA
Found at i:822111 original size:12 final size:12
Alignment explanation
Indices: 822094--822119 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
822084 TCTTCCATCA
822094 GCAAAAGGAGAT
1 GCAAAAGGAGAT
822106 GCAAAAGGAGAT
1 GCAAAAGGAGAT
822118 GC
1 GC
822120 TGTTTGGTTG
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:0.46, C:0.12, G:0.35, T:0.08
Consensus pattern (12 bp):
GCAAAAGGAGAT
Found at i:826764 original size:2 final size:2
Alignment explanation
Indices: 826757--826823 Score: 111
Period size: 2 Copynumber: 34.5 Consensus size: 2
826747 ATAATTTGTA
826757 AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
826798 AT AT AT AT AT AT AT CT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
826824 ATAAATAATA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 2 0.03
2 59 0.97
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:826831 original size:7 final size:8
Alignment explanation
Indices: 826755--826882 Score: 51
Period size: 10 Copynumber: 14.0 Consensus size: 8
826745 ATATAATTTG
826755 TAATATATA
1 TAATA-ATA
*
826764 TATTATATA
1 TAATA-ATA
826773 TATATATATA
1 TA-ATA-ATA
826783 TATATATATA
1 TA-ATA-ATA
826793 TATATATATA
1 TA-ATA-ATA
*
826803 TATATATATC
1 TA-ATA-ATA
826813 TATATAATA
1 TA-ATAATA
826822 TAATAA-A
1 TAATAATA
826829 TAATAATA
1 TAATAATA
*
826837 TTGTATTAATA
1 ---TAATAATA
*
826848 TAATATTTA
1 TAATA-ATA
826857 TAATAATAA
1 TAATAAT-A
*
826866 TAATAATTT
1 TAATAA-TA
826875 TAATAATA
1 TAATAATA
826883 ATAAACGAAA
Statistics
Matches: 101, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
7 7 0.07
8 11 0.11
9 34 0.34
10 42 0.42
11 7 0.07
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.47
Consensus pattern (8 bp):
TAATAATA
Found at i:826870 original size:18 final size:18
Alignment explanation
Indices: 826820--826886 Score: 79
Period size: 18 Copynumber: 3.8 Consensus size: 18
826810 ATCTATATAA
826820 TATAATAAATAATAATATT
1 TATAAT-AATAATAATATT
826839 GTAT--TAAT-ATAATATT
1 -TATAATAATAATAATATT
826855 TATAATAATAATAATAATT
1 TATAATAATAATAAT-ATT
826874 T-TAATAATAATAA
1 TATAATAATAATAA
826887 ACGAAAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.07
16 8 0.19
17 7 0.16
18 18 0.42
19 4 0.09
20 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (18 bp):
TATAATAATAATAATATT
Found at i:827617 original size:76 final size:76
Alignment explanation
Indices: 827032--827590 Score: 973
Period size: 76 Copynumber: 7.4 Consensus size: 76
827022 GAGGTCTTAA
* *
827032 AAACATCATGCACTGAAGGGCTTACAGATGA-CCTGAAGG-TTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGCAGGACTTACAGATGACCCT-AAGGCTTTGAAAACATCAAAAAGCTCCCG
827095 AAGGCTTTTTGG
65 AAGGCTTTTTGG
*
827107 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAACCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
827171 AGGC-TTTTGG
66 AGGCTTTTTGG
827181 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
827246 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
827257 AAACATCATGCACTGCAGGACTTACAGATGACCATAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
827322 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
827333 AAACGTCATGCACTGAAGGAATTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
827398 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
827409 AAACATCATGCACTGCAGGACTTACATATGACCATAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
827474 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
827485 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTTAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
827550 AGGCTTTTTGG
66 AGGCTTTTTGG
827561 AAACATCATGCACTGCAGGACTTACAGATG
1 AAACATCATGCACTGCAGGACTTACAGATG
827591 TGTGAAATAG
Statistics
Matches: 459, Mismatches: 21, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
74 58 0.13
75 63 0.14
76 338 0.74
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:828290 original size:22 final size:22
Alignment explanation
Indices: 828262--828316 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
828252 AATATAGATT
828262 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
828284 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
828306 TCATCTTTGAA
1 TCATCTTTGAA
828317 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:829784 original size:76 final size:76
Alignment explanation
Indices: 829660--829813 Score: 184
Period size: 76 Copynumber: 2.0 Consensus size: 76
829650 ATGATGTTGT
* * * * * *
829660 GGGCCTTCAGCATGCCCCAGTATTTGCTGATATGAGCGTTCAAAATACATCAACATTATTCATTC
1 GGGCCTTCAACATGCCCCAGCATTTGCTGATATAAACATTCAAAATACATCAACATTACTCATTC
829725 TGATTGA-AAA
66 TGATTGACAAA
* * ** * *
829735 GGGCTTTCAACATGCCCTAGCATTTTGCTGATATAAACATTCAGGATACATCAACATTCCTGATT
1 GGGCCTTCAACATGCCCCAGCA-TTTGCTGATATAAACATTCAAAATACATCAACATTACTCATT
829800 CTGATTGACAAA
65 CTGATTGACAAA
829812 GG
1 GG
829814 TTTTCAGTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
75 18 0.28
76 42 0.65
77 5 0.08
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (76 bp):
GGGCCTTCAACATGCCCCAGCATTTGCTGATATAAACATTCAAAATACATCAACATTACTCATTC
TGATTGACAAA
Found at i:835272 original size:14 final size:14
Alignment explanation
Indices: 835255--835293 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
835245 AAAAAGTATG
835255 AATGCAAAATGAAA
1 AATGCAAAATGAAA
*
835269 AATGCAAAGATGCAA
1 AATGCAAA-ATGAAA
835284 AATG-AAAATG
1 AATGCAAAATG
835294 CATATATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (14 bp):
AATGCAAAATGAAA
Found at i:837580 original size:15 final size:15
Alignment explanation
Indices: 837560--837610 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
837550 TCTTGAATAT
837560 AATAATAAAATAAAA
1 AATAATAAAATAAAA
*
837575 AATAATAATATATAAA
1 AATAATAAAATA-AAA
*
837591 AATTATAAGTAATAAAA
1 AATAATAA--AATAAAA
837608 AAT
1 AAT
837611 TTGAAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 11 0.37
16 10 0.33
17 6 0.20
18 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (15 bp):
AATAATAAAATAAAA
Found at i:837581 original size:18 final size:19
Alignment explanation
Indices: 837555--837607 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 19
837545 TTAATTCTTG
837555 AATATAATAATAAAATAAA
1 AATATAATAATAAAATAAA
*
837574 AA-ATAATAAT-ATATAAA
1 AATATAATAATAAAATAAA
837591 AATTATAAGTAATAAAA
1 AA-TATAA-TAATAAAA
837608 AATTTGAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 8 0.29
18 8 0.29
19 6 0.21
20 4 0.14
21 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AATATAATAATAAAATAAA
Found at i:837593 original size:16 final size:16
Alignment explanation
Indices: 837560--837608 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
837550 TCTTGAATAT
*
837560 AATAATAAAATA-AAA
1 AATAATAATATATAAA
837575 AATAATAATATATAAA
1 AATAATAATATATAAA
*
837591 AATTATAAGTA-ATAAA
1 AATAATAA-TATATAAA
837607 AA
1 AA
837609 ATTTGAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 11 0.37
16 17 0.57
17 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AATAATAATATATAAA
Found at i:837609 original size:18 final size:17
Alignment explanation
Indices: 837555--837609 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 17
837545 TTAATTCTTG
837555 AATATAATAATAAAATAA
1 AATATAATAATAAAA-AA
*
837573 AAAATAATAATATATAAAA
1 AATATAATAATA-A-AAAA
*
837592 ATTATAAGTAATAAAAAA
1 AATATAA-TAATAAAAAA
837610 TTTGAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 15 0.48
19 9 0.29
20 7 0.23
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AATATAATAATAAAAAA
Found at i:838300 original size:111 final size:111
Alignment explanation
Indices: 838100--838306 Score: 308
Period size: 111 Copynumber: 1.9 Consensus size: 111
838090 TAAGAATATA
* *
838100 TAATATAATAAGATATTTATTTATTTAGAAATATCAAAAAAGAGCTTCTAGGTGCTTTAAGACAG
1 TAATATAATAAGATATTTATTTATTTAAAAATATCAAAAAAGAGCTTCTAGGTACTTTAAGACAG
* * *
838165 CTCTTTTCTTCGATATAAATAAATAACTAAAACAAAAAATTTATTT
66 CTATTTTCTTCAATATAAATAAATAAATAAAACAAAAAATTTATTT
* * * *
838211 TAATATAGTAAGATATTTATTTATTTAAAAATATTAGAAAAGAGCTTCTAGTTACTTTAAGACAG
1 TAATATAATAAGATATTTATTTATTTAAAAATATCAAAAAAGAGCTTCTAGGTACTTTAAGACAG
*
838276 CTATTTTCTTTAATATTAAA-AAATAAATAAA
66 CTATTTTCTTCAATA-TAAATAAATAAATAAA
838307 TACCTAAATC
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
111 81 0.95
112 4 0.05
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (111 bp):
TAATATAATAAGATATTTATTTATTTAAAAATATCAAAAAAGAGCTTCTAGGTACTTTAAGACAG
CTATTTTCTTCAATATAAATAAATAAATAAAACAAAAAATTTATTT
Found at i:839815 original size:2 final size:2
Alignment explanation
Indices: 839804--839858 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
839794 GATATTTGTA
839804 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
839844 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
839859 ATAATAATAA
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 49 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:839864 original size:3 final size:3
Alignment explanation
Indices: 839841--839929 Score: 88
Period size: 3 Copynumber: 28.3 Consensus size: 3
839831 ATATATATAT
* *
839841 ATA ATA TATA TATA TATA ATA ATA ATA ATA ATA ATA ATA TGTA TTA ATA
1 ATA ATA -ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * *
839890 ATA ATA TTT ATA ATA ATA ATA ATA ATT TTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
839930 ACGAAAAATT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
3 60 0.82
4 13 0.18
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (3 bp):
ATA
Found at i:847794 original size:36 final size:36
Alignment explanation
Indices: 847707--847940 Score: 213
Period size: 38 Copynumber: 6.2 Consensus size: 36
847697 TGAAAATACA
*
847707 TATATAATATATAATTTTTTTAAAAGCA-TTTTGAAAA-
1 TATATAATATAT-A-GTTTTTAAAA-CATTTTTGAAAAC
* *
847744 TAAATATAGTATATAGTTTTTAAAACACTTTTGAAAAC
1 T--ATATAATATATAGTTTTTAAAACATTTTTGAAAAC
* *
847782 TATATAATATATATTTTTTAAAACATTTTTAGAAAAAA
1 TATATAATATATAGTTTTTAAAACATTTTT-G-AAAAC
* * *
847820 TATATAATATATGGATTTTAAAATCATTTTTCAAAAC
1 TATATAATATATAGTTTTTAAAA-CATTTTTGAAAAC
*
847857 TTTTATAATATATAGTTTTTTTTAAAAACATTTTT-AATAAC
1 -TATATAATATATAG---TTTTT-AAAACATTTTTGAA-AAC
* *
847898 ATATATAATATATAATTTTTAAAACATTTTTGAAAAT
1 -TATATAATATATAGTTTTTAAAACATTTTTGAAAAC
847935 TATATA
1 TATATA
847941 GTTTTCAAAA
Statistics
Matches: 165, Mismatches: 18, Indels: 29
0.78 0.08 0.14
Matches are distributed among these distances:
36 34 0.21
37 37 0.22
38 45 0.27
39 17 0.10
40 2 0.01
41 26 0.16
42 4 0.02
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAACATTTTTGAAAAC
Found at i:847950 original size:29 final size:29
Alignment explanation
Indices: 847906--847981 Score: 116
Period size: 31 Copynumber: 2.6 Consensus size: 29
847896 ACATATATAA
*
847906 TATATAATTTTTAAAACATTTTTGAAAAT
1 TATATAGTTTTTAAAACATTTTTGAAAAT
*
847935 TATATAGTTTTCAAAAAACATTTTTGAAAAT
1 TATATAGTTTT--TAAAACATTTTTGAAAAT
847966 TATATAGTTTTTAAAA
1 TATATAGTTTTTAAAA
847982 AATATTAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 14 0.33
31 28 0.67
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (29 bp):
TATATAGTTTTTAAAACATTTTTGAAAAT
Found at i:847953 original size:31 final size:31
Alignment explanation
Indices: 847918--847983 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
847908 TATAATTTTT
847918 AAAACATTTTTGAAAATTATATAGTTTTCAA
1 AAAACATTTTTGAAAATTATATAGTTTTCAA
*
847949 AAAACATTTTTGAAAATTATATAGTTTTTAA
1 AAAACATTTTTGAAAATTATATAGTTTTCAA
847980 AAAA
1 AAAA
847984 TATTAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (31 bp):
AAAACATTTTTGAAAATTATATAGTTTTCAA
Found at i:848071 original size:3 final size:3
Alignment explanation
Indices: 848063--848119 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
848053 TTATATTTAT
*
848063 TTA TTA TTA TTA TTA TCA TTA TTTA TTA TTA TT- TT- TTA TTA CTTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA -TTA
848108 TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TT
848120 TTTTCCCATT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 8 0.17
3 33 0.70
4 6 0.13
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:848075 original size:13 final size:13
Alignment explanation
Indices: 848056--848109 Score: 65
Period size: 13 Copynumber: 4.1 Consensus size: 13
848046 ATAGTTTTTA
848056 TATTTATTTATTAT
1 TATTTA-TTATTAT
*
848070 TA-TTATTATCAT
1 TATTTATTATTAT
848082 TATTTATTATTAT
1 TATTTATTATTAT
*
848095 TTTTTATTACTTAT
1 TATTTATTA-TTAT
848109 T
1 T
848110 TTATTTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.23
13 20 0.57
14 7 0.20
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTTATTATTAT
Found at i:848121 original size:22 final size:21
Alignment explanation
Indices: 848051--848118 Score: 79
Period size: 22 Copynumber: 3.3 Consensus size: 21
848041 ATTATATAGT
848051 TTTTAT-ATTTATTTATTATTA
1 TTTTATCA-TTATTTATTATTA
848072 TTATTATCATTATTTATTATTA
1 TT-TTATCATTATTTATTATTA
* *
848094 TTTT-TTATTACTTATT-TTA
1 TTTTATCATTATTTATTATTA
848113 TTTTAT
1 TTTTAT
848119 TTTTTCCCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.17
20 11 0.26
21 4 0.10
22 19 0.45
23 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTATCATTATTTATTATTA
Found at i:849332 original size:19 final size:20
Alignment explanation
Indices: 849305--849348 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
849295 TATTTTGTTA
849305 TTTTT-ATTTAT-TTAATAT
1 TTTTTGATTTATATTAATAT
*
849323 TTTTTGATTTATATTTATAT
1 TTTTTGATTTATATTAATAT
*
849343 TCTTTG
1 TTTTTG
849349 TCTATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 6 0.27
20 11 0.50
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTTTGATTTATATTAATAT
Found at i:849357 original size:20 final size:22
Alignment explanation
Indices: 849312--849358 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 22
849302 TTATTTTTAT
* *
849312 TTATTTAATATTTTTTGATTTA
1 TTATTTAATATTCTTTGATCTA
849334 -TATTT-ATATTCTTTG-TCTA
1 TTATTTAATATTCTTTGATCTA
849353 TTATTT
1 TTATTT
849359 TCTTTTTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 14 0.64
21 5 0.23
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.68
Consensus pattern (22 bp):
TTATTTAATATTCTTTGATCTA
Found at i:854005 original size:106 final size:106
Alignment explanation
Indices: 853813--854180 Score: 506
Period size: 106 Copynumber: 3.5 Consensus size: 106
853803 GTATTGCTCC
* ** * * * *
853813 GAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGATTATGGAACTGGGAAATTGTTTGTTGACA-
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAG
** * * *
853877 ATCAATCGCCCCTTCG-TCGTGAAATTGAACTTGTTCTGTCTT
66 A-CAGCCGCCCCTTCGCT-GTGAAGTTGAGCTTGTGCTGTCTT
853919 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAG
* * *
853984 ACAGCCACCCATTCGCTGTGAAGTTGAGCTTATGCTGTCTT
66 ACAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
* * *
854025 GAGTCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTTAAATTGGGAAATTATTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAG
* *
854090 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTCGTGCTGTCTT
66 ACAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
* *
854131 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGGGAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
854181 GCCCCTTCGT
Statistics
Matches: 234, Mismatches: 26, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
106 232 0.99
107 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAG
ACAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
Found at i:855337 original size:16 final size:16
Alignment explanation
Indices: 855318--855365 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 16
855308 CACCCTAAAC
855318 GTTTTTTCTCTTTTTT
1 GTTTTTTCTCTTTTTT
855334 GTTTTTTCCTCTTTTTT
1 GTTTTTT-CTCTTTTTT
855351 GTATTTTTCT-TTTTT
1 GT-TTTTTCTCTTTTT
855366 CATCTTAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.40
17 13 0.43
18 5 0.17
ACGTcount: A:0.02, C:0.12, G:0.06, T:0.79
Consensus pattern (16 bp):
GTTTTTTCTCTTTTTT
Found at i:855348 original size:25 final size:25
Alignment explanation
Indices: 855319--855371 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
855309 ACCCTAAACG
* * *
855319 TTTTTTCTCTTTTTTGTTTTTTCCTC
1 TTTTTTCT-ATTTTTCTTTTTTCATC
*
855345 TTTTTTGTATTTTTCTTTTTTCATC
1 TTTTTTCTATTTTTCTTTTTTCATC
855370 TT
1 TT
855372 AAGACGCCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.77
Consensus pattern (25 bp):
TTTTTTCTATTTTTCTTTTTTCATC
Found at i:865748 original size:13 final size:13
Alignment explanation
Indices: 865730--865785 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
865720 AAAAAATGAT
865730 AATAAGAAAAAAA
1 AATAAGAAAAAAA
* *
865743 AATAAGTAAATAA
1 AATAAGAAAAAAA
*
865756 AATAA-AAAAATAG
1 AATAAGAAAAA-AA
*
865769 AA-AAGAAAAGAA
1 AATAAGAAAAAAA
865781 AATAA
1 AATAA
865786 TACCATGTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
12 8 0.24
13 25 0.76
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (13 bp):
AATAAGAAAAAAA
Found at i:865777 original size:20 final size:20
Alignment explanation
Indices: 865738--865787 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
865728 ATAATAAGAA
* * *
865738 AAAAAAATAAGTAAATAAAAT
1 AAAAAAAT-AGAAAAGAAAAG
865759 AAAAAAATAGAAAAGAAAAG
1 AAAAAAATAGAAAAGAAAAG
*
865779 AAAATAATA
1 AAAAAAATA
865788 CCATGTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (20 bp):
AAAAAAATAGAAAAGAAAAG
Found at i:865986 original size:37 final size:38
Alignment explanation
Indices: 865834--865999 Score: 149
Period size: 37 Copynumber: 4.3 Consensus size: 38
865824 TTTTCACAAG
*
865834 CTATATTATATATACGTTTTCAAAAAAATATTTTAAAAA
1 CTATA-TATATATACGTTTTCAAAAATATATTTTAAAAA
* ***
865873 CTATATAT-TATATGTTTTTC-AAAACCGATTTTAAAAA
1 CTATATATATATACG-TTTTCAAAAATATATTTTAAAAA
* * *
865910 CAATATATTATATATGTTTTCAAAAATATATTTTTAAAA
1 CTATATA-TATATACGTTTTCAAAAATATATTTTAAAAA
* * * * *
865949 CTATATAT-TATACGTTTTTAAAATTGTGTTTTCAAAA
1 CTATATATATATACGTTTTCAAAAATATATTTTAAAAA
*
865986 CCATATTATATATA
1 CTATA-TATATATA
866000 TATATATTTT
Statistics
Matches: 104, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
37 52 0.50
38 18 0.17
39 34 0.33
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (38 bp):
CTATATATATATACGTTTTCAAAAATATATTTTAAAAA
Found at i:865986 original size:76 final size:79
Alignment explanation
Indices: 865835--866014 Score: 224
Period size: 76 Copynumber: 2.3 Consensus size: 79
865825 TTTCACAAGC
*
865835 TATATTATATATACGTTTTCAAAAAAATATTTTAAAAACTATATATTATATGTTTTTCAAAACCG
1 TATATTATATAT--GTTTTCAAAAAAATATTTTAAAAACTATATATTATACGTTTTTCAAAACCG
865900 ATTTTAAAAA-CA-A-
64 ATTTTAAAAACCATAT
* * ** *
865913 TATATTATATATGTTTTCAAAAATATATTTTTAAAACTATATATTATACGTTTTT-AAAATTGTG
1 TATATTATATATGTTTTCAAAAAAATATTTTAAAAACTATATATTATACGTTTTTCAAAACCG-A
*
865977 TTTTCAAAACCATAT
65 TTTTAAAAACCATAT
*
865992 TATATATATATATATTTTCAAAA
1 TATAT-TATATATGTTTTCAAAA
866015 CCGCTTTTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
75 5 0.06
76 48 0.54
77 2 0.02
78 13 0.15
79 5 0.06
80 16 0.18
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (79 bp):
TATATTATATATGTTTTCAAAAAAATATTTTAAAAACTATATATTATACGTTTTTCAAAACCGAT
TTTAAAAACCATAT
Found at i:866070 original size:39 final size:38
Alignment explanation
Indices: 865864--866079 Score: 131
Period size: 39 Copynumber: 5.5 Consensus size: 38
865854 CAAAAAAATA
* * * *
865864 TTTT-AAAAACTATATATTATATGTTTTTCAAAACCGA
1 TTTTAAAAAATTATATATTATATGTTTTTAAAAATCGT
* * *
865901 TTTTAAAAACAATATAT-TATATATGTTTTCAAAAAT-AT
1 TTTTAAAAA-ATTATATAT-TATATGTTTTTAAAAATCGT
* * * *
865939 ATTTT-TAAAACTATATATTATACGTTTTT-AAAATTGT
1 -TTTTAAAAAATTATATATTATATGTTTTTAAAAATCGT
* * *
865976 GTTTTCAAAACCATATTATATATATATAT-ATTTTCAAAACCGCTT
1 -TTTT-AAAA--A-ATTATATAT-TATATGTTTTTAAAAATCG--T
866021 TTTTAAAAAAAATTATATATTATATGTTTTTAAAAATCGT
1 TTTT--AAAAAATTATATATTATATGTTTTTAAAAATCGT
866061 TTTCTAAAAAATT-TATATT
1 TTT-TAAAAAATTATATATT
866080 TTTCAAAAAT
Statistics
Matches: 139, Mismatches: 22, Indels: 35
0.71 0.11 0.18
Matches are distributed among these distances:
36 5 0.04
37 24 0.17
38 15 0.11
39 34 0.24
40 4 0.03
41 7 0.05
42 31 0.22
43 10 0.07
44 4 0.03
45 5 0.04
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (38 bp):
TTTTAAAAAATTATATATTATATGTTTTTAAAAATCGT
Found at i:866071 original size:42 final size:42
Alignment explanation
Indices: 865945--866071 Score: 107
Period size: 42 Copynumber: 3.0 Consensus size: 42
865935 ATATATTTTT
* * * * *
865945 AAAACTATATATTATACGTTTTTAAAATTGTGTTTTC-AAAAC
1 AAAATTATATATTATATGTTTTTAAAAAT-CGTTTTCTAAAAA
* * * * * *
865987 CATATTATATATATATAT-ATTTTCAAAACCGCTTTT-TTAAAA
1 AAAATTATATAT-TATATGTTTTTAAAAATCG-TTTTCTAAAAA
866029 AAAATTATATATTATATGTTTTTAAAAATCGTTTTCTAAAAA
1 AAAATTATATATTATATGTTTTTAAAAATCGTTTTCTAAAAA
866071 A
1 A
866072 TTTATATTTT
Statistics
Matches: 63, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
41 10 0.16
42 49 0.78
43 4 0.06
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.44
Consensus pattern (42 bp):
AAAATTATATATTATATGTTTTTAAAAATCGTTTTCTAAAAA
Found at i:869408 original size:20 final size:21
Alignment explanation
Indices: 869362--869413 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
869352 ACTGATTCAA
869362 AAGGTATCGATA-TCGAAAGG
1 AAGGTATCGATACTCGAAAGG
* *
869382 -GGGTATCGATACT-GTAAGG
1 AAGGTATCGATACTCGAAAGG
869401 AAGGTATCGATAC
1 AAGGTATCGATAC
869414 CATTAATAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.23
Consensus pattern (21 bp):
AAGGTATCGATACTCGAAAGG
Found at i:869481 original size:22 final size:20
Alignment explanation
Indices: 869444--869494 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
869434 AATGGTATTG
869444 ATACCAT-ATAAGAGTATCA
1 ATACCATAATAAGAGTATCA
*
869463 ATACCATAATATAGTAGTATCG
1 ATACCATAATA-AG-AGTATCA
869485 ATACCATAAT
1 ATACCATAAT
869495 GGGGGTATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 7 0.25
20 3 0.11
21 2 0.07
22 16 0.57
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (20 bp):
ATACCATAATAAGAGTATCA
Found at i:869786 original size:15 final size:15
Alignment explanation
Indices: 869766--869794 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
869756 CATTTAATTA
869766 TGTAACTATATGTTG
1 TGTAACTATATGTTG
869781 TGTAACTATATGTT
1 TGTAACTATATGTT
869795 ATACTAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (15 bp):
TGTAACTATATGTTG
Found at i:869914 original size:54 final size:54
Alignment explanation
Indices: 869848--870131 Score: 360
Period size: 54 Copynumber: 5.3 Consensus size: 54
869838 TTACCAAATA
* **
869848 GGCACTAAGTGTGCAAAGTACGGAATGCATCATATGTTGATGAATAATTGTTTC
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTC
* *
869902 GGTACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
869956 GGCACTAAGTGTGC-AATTCAGGGAATTCATC--ATGTTCATAAATAACCGTTTC
1 GGCACTAAGTGTGCAAAGT-ACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * **
870008 GACACTAAGTGTGC-AATTCACGGAATTCATCATATGTTGATGAATAATTGTTTC
1 GGCACTAAGTGTGCAAAGT-ACGGAATTCATCATATGTTGATGAATAACCGTTTC
* *
870062 GGCACTAAGTGTGCAAAGTACGAAATTCATTATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTC
** *
870116 AACACTATGTGTGCAA
1 GGCACTAAGTGTGCAA
870132 CCCACATAAT
Statistics
Matches: 200, Mismatches: 26, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
52 48 0.24
53 3 0.01
54 146 0.73
55 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (54 bp):
GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:870035 original size:106 final size:107
Alignment explanation
Indices: 869848--870131 Score: 313
Period size: 106 Copynumber: 2.7 Consensus size: 107
869838 TTACCAAATA
* * * * * * ** ***
869848 GGCACTAAGTGTGCAAAGTACGGAATGCATCATATGTTGATGAATAATTGTTTCGGTACTAAGTG
1 GGCACTAAGTGTGCAAAGTACGAAATTCATTACATGTTCATAAATAACCGTTTCAACACTAAGTG
869913 TGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTC
66 TGC-AAGTACGAAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
869956 GGCACTAAGTGTGC-AATTCAGGGAATTCA-T-CATGTTCATAAATAACCGTTTCGACACTAAGT
1 GGCACTAAGTGTGCAAAGT-ACGAAATTCATTACATGTTCATAAATAACCGTTTCAACACTAAGT
* * **
870018 GTGCAATTCACGGAATTCATCATATGTTGATGAATAATTGTTTC
65 GTGCAAGT-ACGAAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
870062 GGCACTAAGTGTGCAAAGTACGAAATTCATTATATGTTGATGAATAACCGTTTCAACACTATGTG
1 GGCACTAAGTGTGCAAAGTACGAAATTCATTACATGTTCATAAATAACCGTTTCAACACTAAGTG
870127 TGCAA
66 TGCAA
870132 CCCACATAAT
Statistics
Matches: 148, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
105 3 0.02
106 83 0.56
107 7 0.05
108 55 0.37
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (107 bp):
GGCACTAAGTGTGCAAAGTACGAAATTCATTACATGTTCATAAATAACCGTTTCAACACTAAGTG
TGCAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:870145 original size:160 final size:160
Alignment explanation
Indices: 869850--870145 Score: 468
Period size: 160 Copynumber: 1.9 Consensus size: 160
869840 ACCAAATAGG
*
869850 CACTAAGTGTGCAAAGTACGGAATGCATCATATGTTGATGAATAATTGTTTCGGTACTAAGTGTG
1 CACTAAGTGTGCAAAGTACGGAATGCATCATATGTTGATGAATAATTGTTTCGGCACTAAGTGTG
** ** **
869915 CAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAATTCAGGGA
66 CAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCAACACTAAGTGTGCAACCCACAGA
869980 ATTCATCATGTTCATAAATAACCGTTTCGA
131 ATTCATCATGTTCATAAATAACCGTTTCGA
* *
870010 CACTAAGTGTGC-AATTCACGGAATTCATCATATGTTGATGAATAATTGTTTCGGCACTAAGTGT
1 CACTAAGTGTGCAAAGT-ACGGAATGCATCATATGTTGATGAATAATTGTTTCGGCACTAAGTGT
* * *
870074 GCAAAGTACGAAATTCATTATATGTTGATGAATAACCGTTTCAACACTATGTGTGCAACCCACAT
65 GCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCAACACTAAGTGTGCAACCCACAG
870139 AATTCAT
130 AATTCAT
870146 AATGAGTTTA
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
159 3 0.02
160 120 0.98
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (160 bp):
CACTAAGTGTGCAAAGTACGGAATGCATCATATGTTGATGAATAATTGTTTCGGCACTAAGTGTG
CAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCAACACTAAGTGTGCAACCCACAGA
ATTCATCATGTTCATAAATAACCGTTTCGA
Found at i:870159 original size:54 final size:53
Alignment explanation
Indices: 869850--870165 Score: 233
Period size: 54 Copynumber: 5.9 Consensus size: 53
869840 ACCAAATAGG
** * * * ** *
869850 CACTAAGTGTGCAAAGTACGGAATGCATCATATGTTGATGAATAATTGTTTCGG
1 CACTAAGTGTGCAAACCAC-AAATTCATAATATGTTGATGAATAACCGTTTCGA
* ** * *
869904 TACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCGG
1 CACTAAGTGTGCAAACCAC-AAATTCATAATATGTTGATGAATAACCGTTTCGA
** ** * * *
869958 CACTAAGTGTGCAATTCAGGGAATTCAT--CATGTTCATAAATAACCGTTTCGA
1 CACTAAGTGTGCAAACCA-CAAATTCATAATATGTTGATGAATAACCGTTTCGA
** * * ** *
870010 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAATTGTTTCGG
1 CACTAAGTGTGCAAACCAC-AAATTCATAATATGTTGATGAATAACCGTTTCGA
** * *
870064 CACTAAGTGTGCAAAGTACGAAATTCATTATATGTTGATGAATAACCGTTTCAA
1 CACTAAGTGTGCAAACCAC-AAATTCATAATATGTTGATGAATAACCGTTTCGA
* * * *
870118 CACTATGTGTGCAACCCACATAATTCATAATGA-GTTTATGAATGACCG
1 CACTAAGTGTGCAAACCACA-AATTCATAAT-ATGTTGATGAATAACCG
870166 CATAGGCACT
Statistics
Matches: 218, Mismatches: 38, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
52 46 0.21
53 1 0.00
54 170 0.78
55 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (53 bp):
CACTAAGTGTGCAAACCACAAATTCATAATATGTTGATGAATAACCGTTTCGA
Found at i:874739 original size:29 final size:29
Alignment explanation
Indices: 874688--874743 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
874678 AATCATAATA
874688 TAATAAAAACAAAATCCAAATTCAAAAGT
1 TAATAAAAACAAAATCCAAATTCAAAAGT
* * * *
874717 TAATAAAATCAATATGCATATTCAAAA
1 TAATAAAAACAAAATCCAAATTCAAAA
874744 TAAATAACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.59, C:0.12, G:0.04, T:0.25
Consensus pattern (29 bp):
TAATAAAAACAAAATCCAAATTCAAAAGT
Found at i:876324 original size:139 final size:138
Alignment explanation
Indices: 876072--876850 Score: 1056
Period size: 139 Copynumber: 5.7 Consensus size: 138
876062 GGAAACAAGC
* * *
876072 TAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTCCTTCCTCGGATGAGTTCTTCTCATTA
1 TAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTA
* * * *
876137 TGAAATCACCACTGGAAAGGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGTGAC
66 TGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGAC
876202 GAATCGAG
131 GAATCGAG
*
876210 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
1 -TAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
* * ** ** * *
876275 ATGAACTCTCCACTAGAAATGTTGATCCCTCGAGTGAAGCATCACTGATTCGA----A-ATGTCA
65 ATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGA
*
876335 TGAATCGAG
130 CGAATCGAG
* * *
876344 TGATAAGTCGAACAAGATCTTCTCATTATGAACTTTTTCTCCCTCTATCGGATGAGTTCTTCTCA
1 T-A-AAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTC-ATCGGATGAGTTCTTCTCA
*
876409 TTATGAACTCTCTACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGT
63 TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGT
876474 GACGAATCGAG
128 GACGAATCGAG
*
876485 TTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
1 -TAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
* * ** ** *
876550 ATGAACTCTCCACTGAAAATGTTGATCCCTCGAGTGAAGCATCACTGATTCAA----A-ATGTCA
65 ATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGA
*
876610 TGAATCGAG
130 CGAATCGAG
* *
876619 TGATAAGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCA
1 T-A-AAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTC-ATCGGATGAGTTCTTCTCA
*
876684 TTATGAACTCTCCACTGGAAATATTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGT
63 TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGT
*
876749 GACGAATCGTG
128 GACGAATCGAG
* * *
876760 TTAAGGTTGAACAAGTTCTTTTCATTATGAACGTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
1 -TAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
* *
876825 ATGAACTCTCCATTTGAAATGTTGAT
65 ATGAACTCTCCACTGGAAATGTTGAT
876851 TGGTTCATCT
Statistics
Matches: 557, Mismatches: 65, Indels: 36
0.85 0.10 0.05
Matches are distributed among these distances:
133 2 0.00
134 28 0.05
135 77 0.14
136 133 0.24
139 213 0.38
140 75 0.13
141 27 0.05
142 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (138 bp):
TAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTA
TGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGAC
GAATCGAG
Found at i:876608 original size:275 final size:275
Alignment explanation
Indices: 876074--876850 Score: 1346
Period size: 275 Copynumber: 2.8 Consensus size: 275
876064 AAACAAGCTA
* * *
876074 AAGTTGAACAA-ATTCTTCTCATTATGAACTTCTTCTCCTTC-CTCGGATGAGTTCTTCTCATTA
1 AAGTCGAACAAGA-TCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTA
* * * *
876137 TGAAATCACCACTGGAAAGGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGTGAC
65 TGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGAC
*
876202 GAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTC
130 GAATCGAGTTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTC
*
876267 TTCTCATTATGAACTCTCCACT-AGAAATGTTGATCCCTCGAGTGAAGCATCACTGATTCGAAAT
195 TTCTCATTATGAACTCTCCACTGA-AAATGTTGATCCCTCGAGTGAAGCATCACTGATTCAAAAT
876331 GTCATGAATCGAGTGAT
259 GTCATGAATCGAGTGAT
*
876348 AAGTCGAACAAGATCTTCTCATTATGAACTTTTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
1 AAGTCGAACAAGATCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
*
876413 GAACTCTCTACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGACG
66 GAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGACG
876478 AATCGAGTTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCT
131 AATCGAGTTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCT
876543 TCTCATTATGAACTCTCCACTGAAAATGTTGATCCCTCGAGTGAAGCATCACTGATTCAAAATGT
196 TCTCATTATGAACTCTCCACTGAAAATGTTGATCCCTCGAGTGAAGCATCACTGATTCAAAATGT
876608 CATGAATCGAGTGAT
261 CATGAATCGAGTGAT
*
876623 AAGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
1 AAGTCGAACAAGATCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
*
876688 GAACTCTCCACTGGAAATATTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGACG
66 GAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGACG
* * *
876753 AATCGTGTTAAGGTTGAACAAGTTCTTTTCATTATGAACGTCTTCTCCCTCATCGGATGAGTTCT
131 AATCGAGTTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCT
*
876818 TCTCATTATGAACTCTCCATTTG-AAATGTTGAT
196 TCTCATTATGAACTCTCCA-CTGAAAATGTTGAT
876851 TGGTTCATCT
Statistics
Matches: 480, Mismatches: 19, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
274 36 0.08
275 441 0.92
276 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (275 bp):
AAGTCGAACAAGATCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
GAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGACG
AATCGAGTTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCT
TCTCATTATGAACTCTCCACTGAAAATGTTGATCCCTCGAGTGAAGCATCACTGATTCAAAATGT
CATGAATCGAGTGAT
Found at i:877640 original size:51 final size:52
Alignment explanation
Indices: 877581--877750 Score: 155
Period size: 54 Copynumber: 3.2 Consensus size: 52
877571 ATTTACAGTT
*
877581 ATCAAGAAACCCCT-AAAATTAGGCTTAGCTTCTTTCAAAAATTCA-AAAAAA
1 ATCAAGAAACCCCTAAAAATTAGGCTTAACTTCTTT-AAAAATTCATAAAAAA
* ** * * * *
877632 ATCAAGAAACCCCTGAAAACCAGGCTTAATTTCTTTGAAAATTCATTTGAAAAC
1 ATCAAGAAACCCCTAAAAATTAGGCTTAACTTCTTTAAAAATTCA--TAAAAAA
* * * **
877686 ATCAAGAAAACCCTAAAAATTAGGCTTAATTTCTTTGAATGTTCATTTAAGAAAA
1 ATCAAGAAACCCCTAAAAATTAGGCTTAACTTCTTTAAAAATTCA--TAA-AAAA
877741 ATCAAGAAAC
1 ATCAAGAAAC
877751 TTCCGAAAAT
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
51 22 0.22
52 17 0.17
54 47 0.48
55 12 0.12
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.28
Consensus pattern (52 bp):
ATCAAGAAACCCCTAAAAATTAGGCTTAACTTCTTTAAAAATTCATAAAAAA
Found at i:877774 original size:55 final size:54
Alignment explanation
Indices: 877631--877987 Score: 348
Period size: 54 Copynumber: 6.6 Consensus size: 54
877621 ATTCAAAAAA
** * * * *
877631 AATCAAGAAACCCCTGAAAACCAGGCTTAATTTCTTTGAAAATTCATTTGAAA-
1 AATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTGAAAT
* * * * * ***
877684 ACATCAAGAAAAC-CCTAAAAATTAGGCTTAATTTCTTTGAATGTTCATTTAAGAAA-
1 A-ATCAAG-AAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTT--GAAAT
* * *
877740 AATCAAGAAACTTCCGAAAATCAAACTTAGTTTCTTT-AAAACACATTTGAAA-
1 AATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTGAAAT
* * *
877792 AGCGTCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAAT
1 A--ATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTGAAAT
* * * *
877848 CATCATGAAACTTCTGAAAATCAGACTTAGTTTCGTTGAAAACTTATTTGAAAT
1 AATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTGAAAT
* * *
877902 CATCAAGAAACTTCTGAAAACCAGACTTAGTTTCTTT-AAAACTCACTTGAAAAT
1 AATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTG-AAAT
* *
877956 CATCATGAAACTTCTGAAAATCAGACTTAGTT
1 AATCAAGAAACTTCTGAAAATCAGACTTAGTT
877988 CCGAAAAACA
Statistics
Matches: 259, Mismatches: 35, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
52 5 0.02
53 11 0.04
54 196 0.76
55 42 0.16
56 5 0.02
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (54 bp):
AATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTGAAAT
Found at i:877881 original size:108 final size:106
Alignment explanation
Indices: 877644--877987 Score: 386
Period size: 108 Copynumber: 3.2 Consensus size: 106
877634 CAAGAAACCC
* * * * * *
877644 CTGAAAACCAGGCTTAATTTCTTTGAAAATTCATTTGAAAACATCAAGAAAAC-CCTAAAAATTA
1 CTGAAAATCAGACTTAGTTTCTTT-AAAACTCATTTGAAAACATCAAG-AAACTTCTAAAAATCA
* * *** * *
877708 GGCTTAATTTCTTTGAATGTTCATTTAAGAAA-AATCAAGAAACTT
64 GACTTAGTTTCTTT-AAAACTCATTT--GAAATCATCATGAAACTT
* * * *
877753 CCGAAAATCAAACTTAGTTTCTTTAAAACACATTTGAAAAGCGTCAAGAAACTTCTAAAAATCAG
1 CTGAAAATCAGACTTAGTTTCTTTAAAACTCATTTGAAAA-CATCAAGAAACTTCTAAAAATCAG
877818 ACTTAGTTTCTTTAAAAACTCATTTGAAATCATCATGAAACTT
65 ACTTAGTTTCTTT-AAAACTCATTTGAAATCATCATGAAACTT
* * * * *
877861 CTGAAAATCAGACTTAGTTTCGTTGAAAACTTATTTGAAATCATCAAGAAACTTCTGAAAACCAG
1 CTGAAAATCAGACTTAGTTTC-TTTAAAACTCATTTGAAAACATCAAGAAACTTCTAAAAATCAG
*
877926 ACTTAGTTTCTTTAAAACTCACTTGAAAATCATCATGAAACTT
65 ACTTAGTTTCTTTAAAACTCATTTG-AAATCATCATGAAACTT
877969 CTGAAAATCAGACTTAGTT
1 CTGAAAATCAGACTTAGTT
877988 CCGAAAAACA
Statistics
Matches: 202, Mismatches: 28, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
107 15 0.07
108 118 0.58
109 69 0.34
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.32
Consensus pattern (106 bp):
CTGAAAATCAGACTTAGTTTCTTTAAAACTCATTTGAAAACATCAAGAAACTTCTAAAAATCAGA
CTTAGTTTCTTTAAAACTCATTTGAAATCATCATGAAACTT
Found at i:879951 original size:51 final size:51
Alignment explanation
Indices: 879895--879992 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
879885 TTTTTTTTTA
*
879895 ATTTTTTT-T-TCTTTTTCTTCTATTTTTTCTCTTTCTTTTTTCTCTTTTTCT
1 ATTTTTTTATGTCTTTCTCTT-T-TTTTTTCTCTTTCTTTTTTCTCTTTTTCT
* *
879946 ATTTTTTTATGTGTTTCTCTTTTTTTTTCTCTTTCTTTTTTTTCTTT
1 ATTTTTTTATGTCTTTCTCTTTTTTTTTCTCTTTCTTTTTTCTCTTT
879993 CTTTGTTTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 32 0.76
52 2 0.05
53 8 0.19
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (51 bp):
ATTTTTTTATGTCTTTCTCTTTTTTTTTCTCTTTCTTTTTTCTCTTTTTCT
Found at i:879953 original size:18 final size:17
Alignment explanation
Indices: 879896--879990 Score: 74
Period size: 18 Copynumber: 5.6 Consensus size: 17
879886 TTTTTTTTAA
879896 TTTTTTTT-TCTTTTTC
1 TTTTTTTTCTCTTTTTC
*
879912 TTCTATTTTT-TCTCTTTC
1 TT-T-TTTTTCTCTTTTTC
879930 --TTTTTTCTCTTTTTC
1 TTTTTTTTCTCTTTTTC
* *
879945 TATTTTTTTATGTGTTTCTC
1 T-TTTTTTTCTCT-TTT-TC
*
879965 TTTTTTTT-TCTCTTTC
1 TTTTTTTTCTCTTTTTC
879981 TTTTTTTTCT
1 TTTTTTTTCT
879991 TTCTTTGTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
14 5 0.08
15 8 0.12
16 12 0.19
17 4 0.06
18 22 0.34
19 10 0.16
20 3 0.05
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTTTTTCTCTTTTTC
Found at i:879986 original size:13 final size:13
Alignment explanation
Indices: 879917--879996 Score: 78
Period size: 13 Copynumber: 6.2 Consensus size: 13
879907 TTTTCTTCTA
879917 TTTTTTCTCTTTC
1 TTTTTTCTCTTTC
879930 TTTTTTCTCTTT-
1 TTTTTTCTCTTTC
*
879942 TTCTATTT-T-TTTA
1 TT-T-TTTCTCTTTC
*
879955 TGTGTTTCTCTTT-
1 T-TTTTTCTCTTTC
879968 TTTTTTCTCTTTC
1 TTTTTTCTCTTTC
*
879981 TTTTTTTTCTTTC
1 TTTTTTCTCTTTC
879994 TTT
1 TTT
879997 GTTTGTGTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
12 18 0.32
13 32 0.56
14 7 0.12
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTTTCTCTTTC
Found at i:879987 original size:19 final size:19
Alignment explanation
Indices: 879920--879994 Score: 55
Period size: 19 Copynumber: 3.9 Consensus size: 19
879910 TCTTCTATTT
* *
879920 TTTCTCTTTCTTTTTTCTC
1 TTTCTTTTTTTTTTTTCTC
* * *
879939 TTT-TTCTATTTTTTTATGTG
1 TTTCTT-T-TTTTTTTTTCTC
*
879959 TTTC-TCTTTTTTTTTCTC
1 TTTCTTTTTTTTTTTTCTC
*
879977 TTTCTTTTTTTTCTTTCT
1 TTTCTTTTTTTTTTTTCT
879995 TTGTTTGTGT
Statistics
Matches: 41, Mismatches: 11, Indels: 8
0.68 0.18 0.13
Matches are distributed among these distances:
18 14 0.34
19 15 0.37
20 12 0.29
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (19 bp):
TTTCTTTTTTTTTTTTCTC
Found at i:881422 original size:21 final size:23
Alignment explanation
Indices: 881381--881431 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
881371 ATGCACATGC
881381 AAATG-AAAAGATACAAAAATGG
1 AAATGCAAAAGATACAAAAATGG
* *
881403 GAATGCAAAA-ATAC-AAAATGT
1 AAATGCAAAAGATACAAAAATGG
881424 AAATGCAA
1 AAATGCAA
881432 CAAAGGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 13 0.52
22 8 0.32
23 4 0.16
ACGTcount: A:0.61, C:0.08, G:0.16, T:0.16
Consensus pattern (23 bp):
AAATGCAAAAGATACAAAAATGG
Found at i:885582 original size:27 final size:28
Alignment explanation
Indices: 885544--885609 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
885534 TATATTCGGG
885544 TCGGGTCGGGTTT-TTTAAGTGTGATAT
1 TCGGGTCGGGTTTATTTAAGTGTGATAT
885571 TCGGGTCGGGTTTATTTAAGTGTGATAT
1 TCGGGTCGGGTTTATTTAAGTGTGATAT
885599 TCGGGTCGGGT
1 TCGGGTCGGGT
885610 CCGGTTCGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 13 0.34
28 25 0.66
ACGTcount: A:0.14, C:0.09, G:0.36, T:0.41
Consensus pattern (28 bp):
TCGGGTCGGGTTTATTTAAGTGTGATAT
Found at i:886212 original size:17 final size:18
Alignment explanation
Indices: 886187--886233 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
886177 TATGGAATTG
* *
886187 GATTTCAATTCC-TAAGA
1 GATTCCAATTCCTTAACA
*
886204 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTAACA
886222 GATTCCAATTCC
1 GATTCCAATTCC
886234 GTCATAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (18 bp):
GATTCCAATTCCTTAACA
Found at i:888271 original size:2 final size:2
Alignment explanation
Indices: 888264--888337 Score: 75
Period size: 2 Copynumber: 37.5 Consensus size: 2
888254 AACATATTAA
*
888264 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT GAT A- AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
*
888305 A- AT AGT GGT AT A- AT AT AT AT AT AT AT AT AT AT A
1 AT AT A-T -AT AT AT AT AT AT AT AT AT AT AT AT AT A
888338 ATAAAATAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
1 4 0.06
2 54 0.87
3 4 0.06
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (2 bp):
AT
Found at i:888355 original size:3 final size:3
Alignment explanation
Indices: 888335--888428 Score: 60
Period size: 3 Copynumber: 32.3 Consensus size: 3
888325 ATATATATAT
* *
888335 ATA ATA A-A ATA A-A A-A ATA ATA ATA ATA A-A ATA AAA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
888379 AT- ATAA ATA ATAA ATA ATGA A-A ATA TATA ATT A-A ATA CAT- ATA
1 ATA AT-A ATA AT-A ATA AT-A ATA ATA -ATA ATA ATA ATA -ATA ATA
888422 ATA ATA A
1 ATA ATA A
888429 ATATACTATT
Statistics
Matches: 75, Mismatches: 4, Indels: 24
0.73 0.04 0.23
Matches are distributed among these distances:
2 15 0.20
3 48 0.64
4 12 0.16
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:888359 original size:21 final size:21
Alignment explanation
Indices: 888335--888396 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
888325 ATATATATAT
888335 ATAATAAAATAAAAAATAATA
1 ATAATAAAATAAAAAATAATA
888356 ATAATAAAATAAAAAA-AATA
1 ATAATAAAATAAAAAATAATA
*
888376 ATAATATAAATAATAAATAAT
1 ATAATA-AAATAAAAAATAAT
888397 GAAAATATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
20 10 0.26
21 25 0.66
22 3 0.08
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
ATAATAAAATAAAAAATAATA
Found at i:888427 original size:12 final size:11
Alignment explanation
Indices: 888313--888433 Score: 70
Period size: 12 Copynumber: 10.4 Consensus size: 11
888303 ATAATAGTGG
888313 TATAATATATATA
1 TATAATA-ATA-A
888326 TATATATATATAA
1 TATA-ATA-ATAA
*
888339 TAAAATAA-AA
1 TATAATAATAA
*
888349 AATAATAATAA
1 TATAATAATAA
*
888360 TAAAATAA-AA
1 TATAATAATAA
*
888370 -AAAATAATAA
1 TATAATAATAA
888380 TATAAATAATAA
1 TAT-AATAATAA
*
888392 -ATAATGAAAATA
1 TATAAT-AATA-A
888404 TATAATTAAATACA
1 TATAA-T-AATA-A
888418 TATAATAATAAA
1 TATAATAAT-AA
888430 TATA
1 TATA
888434 CTATTTAAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
9 7 0.08
10 15 0.17
11 15 0.17
12 20 0.23
13 14 0.16
14 17 0.19
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (11 bp):
TATAATAATAA
Found at i:888452 original size:28 final size:27
Alignment explanation
Indices: 888314--888453 Score: 69
Period size: 28 Copynumber: 5.1 Consensus size: 27
888304 TAATAGTGGT
* * *
888314 ATAATATATATATATATATATATAATAAA
1 ATAATA-A-ATATATATTTAAATAAAAAA
* *
888343 ATAAAAAATA-ATA-AT-AATAAAATAA
1 ATAATAAATATATATTTAAATAAAA-AA
* *
888368 A-AA-AAATA-ATAATATAAAT-AATAA
1 ATAATAAATATAT-ATTTAAATAAAAAA
* * *
888392 ATAATGAAAATATATAATTAAATACATATA
1 ATAAT--AAATATATATTTAAATA-AAAAA
888422 ATAATAAATATACTATTTAAATAAAAAA
1 ATAATAAATATA-TATTTAAATAAAAAA
888450 ATAA
1 ATAA
888454 CCAAATAAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 25
0.70 0.10 0.20
Matches are distributed among these distances:
23 7 0.08
24 11 0.13
25 11 0.13
26 6 0.07
27 3 0.03
28 26 0.30
29 16 0.18
30 7 0.08
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (27 bp):
ATAATAAATATATATTTAAATAAAAAA
Found at i:888480 original size:2 final size:2
Alignment explanation
Indices: 888473--888512 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
888463 AATAGTTTTA
*
888473 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
888513 TTAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:894002 original size:6 final size:6
Alignment explanation
Indices: 893993--894017 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
893983 ATCGAACTAC
893993 TCCCTT TCCCTT TCCCTT TCCCTT T
1 TCCCTT TCCCTT TCCCTT TCCCTT T
894018 TCTTCCTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
TCCCTT
Found at i:897614 original size:21 final size:21
Alignment explanation
Indices: 897588--897646 Score: 93
Period size: 20 Copynumber: 2.9 Consensus size: 21
897578 AGGGTGTCAA
897588 AGTGCATCCATGCACTCCTAC
1 AGTGCATCCATGCACTCCTAC
* *
897609 AGTGCATCCATGCAC-CATGC
1 AGTGCATCCATGCACTCCTAC
897629 AGTGCATCCATGCACTCC
1 AGTGCATCCATGCACTCC
897647 ATTTCGAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.22
Consensus pattern (21 bp):
AGTGCATCCATGCACTCCTAC
Found at i:899010 original size:19 final size:20
Alignment explanation
Indices: 898986--899033 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
898976 AATGATTTTC
*
898986 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
899005 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
899025 TTTTGAAAA
1 TTTTGAAAA
899034 AGAATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:900473 original size:42 final size:41
Alignment explanation
Indices: 900407--900506 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 41
900397 AAAGTGTCAA
* * * * * *
900407 AGTGCATCCATACACTCCTGCAGTGTATCTATGCACCCCTGC
1 AGTGCATCCATGCACTCATACAGTGCATCCATGCA-CCATGC
**
900449 AGTGCATCCATGCACTCATACAGTGCATCCATGCACCATTT
1 AGTGCATCCATGCACTCATACAGTGCATCCATGCACCATGC
900490 AGTGCATCCATGCACTC
1 AGTGCATCCATGCACTC
900507 CATTTCGAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
41 20 0.40
42 30 0.60
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (41 bp):
AGTGCATCCATGCACTCATACAGTGCATCCATGCACCATGC
Found at i:900495 original size:20 final size:21
Alignment explanation
Indices: 900407--900506 Score: 103
Period size: 21 Copynumber: 4.8 Consensus size: 21
900397 AAAGTGTCAA
* * *
900407 AGTGCATCCATACACTCCTGC
1 AGTGCATCCATGCACTCATAC
* * * * *
900428 AGTGTATCTATGCACCCCTGC
1 AGTGCATCCATGCACTCATAC
900449 AGTGCATCCATGCACTCATAC
1 AGTGCATCCATGCACTCATAC
**
900470 AGTGCATCCATGCAC-CATTT
1 AGTGCATCCATGCACTCATAC
900490 AGTGCATCCATGCACTC
1 AGTGCATCCATGCACTC
900507 CATTTCGAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
20 18 0.27
21 49 0.73
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (21 bp):
AGTGCATCCATGCACTCATAC
Found at i:900697 original size:20 final size:22
Alignment explanation
Indices: 900659--900698 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
900649 TTTGAGTAGA
900659 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
900681 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
900699 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:902356 original size:19 final size:18
Alignment explanation
Indices: 902333--902380 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
902323 GGAAGAAAAT
* *
902333 GAAAATAAATAAAATAAA
1 GAAAATAAAGAAAACAAA
* *
902351 GAAAAACAAAGGAAACAAA
1 G-AAAATAAAGAAAACAAA
902370 GAAAATAAAGA
1 GAAAATAAAGA
902381 TAAAAAGATA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.75, C:0.04, G:0.12, T:0.08
Consensus pattern (18 bp):
GAAAATAAAGAAAACAAA
Found at i:902379 original size:9 final size:9
Alignment explanation
Indices: 902333--902463 Score: 62
Period size: 9 Copynumber: 14.8 Consensus size: 9
902323 GGAAGAAAAT
902333 GAAAATAAA
1 GAAAATAAA
*
902342 TAAAATAAA
1 GAAAATAAA
*
902351 GAAAAACAAA
1 G-AAAATAAA
* *
902361 GGAAACAAA
1 GAAAATAAA
902370 GAAAATAAA
1 GAAAATAAA
902379 G---ATAAA
1 GAAAATAAA
*
902385 -AAGATAAA
1 GAAAATAAA
902393 GAAAATAAAA
1 GAAAAT-AAA
**
902403 GGGAATAAA
1 GAAAATAAA
902412 -AATAA-AAA
1 GAA-AATAAA
* *
902420 TAGAAA-AAG
1 GA-AAATAAA
902429 GAAAATAATA
1 GAAAATAA-A
902439 -ATAAATAAA
1 GA-AAATAAA
*
902448 TAAAATAAA
1 GAAAATAAA
902457 GAAAATA
1 GAAAATA
902464 GTGACAATCT
Statistics
Matches: 94, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
6 5 0.05
8 11 0.12
9 55 0.59
10 23 0.24
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (9 bp):
GAAAATAAA
Found at i:902426 original size:24 final size:24
Alignment explanation
Indices: 902399--902445 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
902389 TAAAGAAAAT
*
902399 AAAAGGGAATAAAAATAA-AAATAG
1 AAAAAGGAA-AAAAATAATAAATAG
*
902423 AAAAAGGAAAATAATAATAAATA
1 AAAAAGGAAAAAAATAATAAATA
902446 AATAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (24 bp):
AAAAAGGAAAAAAATAATAAATAG
Found at i:902687 original size:3 final size:3
Alignment explanation
Indices: 902679--902724 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
902669 ATATACATAT
902679 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
902725 ACGTATAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:902793 original size:2 final size:2
Alignment explanation
Indices: 902782--902822 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
902772 ATAGTAGTGG
902782 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
902823 AATTAAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:902833 original size:10 final size:10
Alignment explanation
Indices: 902820--902925 Score: 50
Period size: 10 Copynumber: 10.7 Consensus size: 10
902810 ATATATATAT
902820 ATAAATTAA-A
1 ATAAA-TAATA
902830 ATAAATAATA
1 ATAAATAATA
902840 ATAAA-AA-A
1 ATAAATAATA
*
902848 AGAAA-AA-A
1 ATAAATAATA
*
902856 AGAAA-AATAA
1 ATAAATAAT-A
902866 ATAAATAAT-
1 ATAAATAATA
902875 ATAAATAATA
1 ATAAATAATA
902885 A-ATAATGAA-A
1 ATA-AAT-AATA
*
902895 ATATATAATTAA
1 ATAAATAA-T-A
902907 ATATAGATAATA
1 ATA-A-ATAATA
902919 ATAAATA
1 ATAAATA
902926 TACTATTTAA
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
8 15 0.19
9 17 0.22
10 27 0.34
11 7 0.09
12 8 0.10
13 1 0.01
14 4 0.05
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (10 bp):
ATAAATAATA
Found at i:902925 original size:16 final size:16
Alignment explanation
Indices: 902657--902927 Score: 66
Period size: 16 Copynumber: 17.8 Consensus size: 16
902647 TAAAAAATCA
*
902657 AATAAAAAATATATAT
1 AATAATAAATATATAT
*
902673 ACAT-ATATA-ATA-AT
1 A-ATAATAAATATATAT
902687 AATAAT-AATA-ATAAT
1 AATAATAAATATAT-AT
902702 AATAAT-AATA-ATAAT
1 AATAATAAATATAT-AT
**
902717 AATAATAAACGTATA-
1 AATAATAAATATATAT
* *
902732 AAT-A-ACATAT-TAA
1 AATAATAAATATATAT
** *
902745 AAGGATATATATATAT
1 AATAATAAATATATAT
*
902761 AATGATAAA-ATATAGT
1 AATAATAAATATATA-T
* **
902777 AGTGGTATAATATATAT
1 AATAATA-AATATATAT
*
902794 -AT-ATATATATATAT
1 AATAATAAATATATAT
*
902808 -AT-ATATATATATAT
1 AATAATAAATATATAT
* *
902822 AA-ATTAAA-ATAAAT
1 AATAATAAATATATAT
* * * *
902836 AATAATAAAAAAAGAA
1 AATAATAAATATATAT
* * * *
902852 AAAAAGAAAAATAAAT
1 AATAATAAATATATAT
902868 AAATAATATAA-ATA-AT
1 -AATAATA-AATATATAT
902884 AAATAATGAAA-ATATAT
1 -AATAAT-AAATATATAT
*
902901 AAT--TAAATATAGAT
1 AATAATAAATATATAT
902915 AATAATAAATATA
1 AATAATAAATATA
902928 CTATTTAAAT
Statistics
Matches: 197, Mismatches: 33, Indels: 50
0.70 0.12 0.18
Matches are distributed among these distances:
12 2 0.01
13 12 0.06
14 46 0.23
15 50 0.25
16 62 0.31
17 18 0.09
18 7 0.04
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (16 bp):
AATAATAAATATATAT
Found at i:902946 original size:28 final size:28
Alignment explanation
Indices: 902864--902947 Score: 73
Period size: 28 Copynumber: 2.9 Consensus size: 28
902854 AAAGAAAAAT
* *
902864 AAATAAATAATATAAAT-AATAAATAATGA
1 AAATATATAAT-TAAATAAAAAAATAAT-A
* *
902893 AAATATATAATTAAATATAGATAATAAT-
1 AAATATATAATTAAATA-AAAAAATAATA
*
902921 AAATATACTATTTAAATAAAAAAATAA
1 AAATATA-TAATTAAATAAAAAAATAA
902948 CCAAATAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
28 19 0.42
29 19 0.42
30 7 0.16
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.31
Consensus pattern (28 bp):
AAATATATAATTAAATAAAAAAATAATA
Found at i:908869 original size:22 final size:24
Alignment explanation
Indices: 908842--908888 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
908832 ATATTTTTAT
908842 TTTTATATTATAAA-AAT-AAATA
1 TTTTATATTATAAATAATCAAATA
*
908864 TTTTATATTTTAAATAATCAAATA
1 TTTTATATTATAAATAATCAAATA
908888 T
1 T
908889 ACTATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 3 0.14
24 6 0.27
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTTATATTATAAATAATCAAATA
Found at i:908894 original size:24 final size:22
Alignment explanation
Indices: 908845--908899 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
908835 TTTTTATTTT
* **
908845 TATATTATAAAAATAAATATTT
1 TATATTTTAAAAATAAATATAC
908867 TATATTTTAAATAATCAAATATAC
1 TATATTTTAAA-AAT-AAATATAC
908891 TATATTTTA
1 TATATTTTA
908900 TTAGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 10 0.36
23 3 0.11
24 15 0.54
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
TATATTTTAAAAATAAATATAC
Found at i:909408 original size:22 final size:21
Alignment explanation
Indices: 909381--909423 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
909371 AAATATTTAA
**
909381 TAAATTTTTATATTTATATTTT
1 TAAATTTAAATATTTAT-TTTT
909403 TAAATTTAAATATTTATTTTT
1 TAAATTTAAATATTTATTTTT
909424 GCATGAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TAAATTTAAATATTTATTTTT
Found at i:911528 original size:19 final size:19
Alignment explanation
Indices: 911493--911532 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
911483 TATAATTTTC
*
911493 TTTAAAAAATTTATTATTT
1 TTTAAAAAATCTATTATTT
911512 TTTAATAAAATCT-TTATTT
1 TTTAA-AAAATCTATTATTT
911531 TT
1 TT
911533 ATCTGCTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTAAAAAATCTATTATTT
Found at i:913446 original size:95 final size:95
Alignment explanation
Indices: 913331--913516 Score: 275
Period size: 95 Copynumber: 2.0 Consensus size: 95
913321 ATACCGACGA
* *
913331 GGTAGTATCGATAACATGGTAAGGGTATCGATACCA-AACATCATCGAAGCTAAAATTGATATCG
1 GGTAGTATCGATAACATGGTAAGGGTATCGATACCAGAA-AGCATCGAACCTAAAATTGATATCG
* *
913395 ATACCTGAAGGGGGTATCGGTACCATAGTAT
65 ATACCGGAAGGGGGTATCGATACCATAGTAT
* * * * *
913426 GGTAGTATTGATACCGTGGTAAGGGTATCGATACCAGGAAGCATCGAACCTAAAATTGGTATCGA
1 GGTAGTATCGATAACATGGTAAGGGTATCGATACCAGAAAGCATCGAACCTAAAATTGATATCGA
913491 TACCGGAAGGGGGTATCGATACCATA
66 TACCGGAAGGGGGTATCGATACCATA
913517 TTATAGAAGT
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 80 0.99
96 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.24
Consensus pattern (95 bp):
GGTAGTATCGATAACATGGTAAGGGTATCGATACCAGAAAGCATCGAACCTAAAATTGATATCGA
TACCGGAAGGGGGTATCGATACCATAGTAT
Found at i:913550 original size:95 final size:95
Alignment explanation
Indices: 913372--913554 Score: 228
Period size: 95 Copynumber: 1.9 Consensus size: 95
913362 TACCAAACAT
* * * * * *
913372 CATCGAAGCTAAAATTGATATCGATACCTGAAGGGGGTATCGGTACCATAGTATGGTAGTATTGA
1 CATCGAACCTAAAATTGATATCGATACCGGAAGGGGGTATCGATACCATAGTATAGAAGTATAGA
**
913437 TACCGTGGTAAGGGTATCGATACCAGGAAG
66 TACCGTGGTAAGAATATCGATACCAGGAAG
* *
913467 CATCGAACCTAAAATTGGTATCGATACCGGAAGGGGGTATCGATACCATATTATAGAAGTATA-A
1 CATCGAACCTAAAATTGATATCGATACCGGAAGGGGGTATCGATACCATAGTATAGAAGTATAGA
913531 GTACCAG-GGT-AGTAATATCGATAC
66 -TACC-GTGGTAAG-AATATCGATAC
913555 TATGGAGCCA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
94 3 0.04
95 71 0.95
96 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (95 bp):
CATCGAACCTAAAATTGATATCGATACCGGAAGGGGGTATCGATACCATAGTATAGAAGTATAGA
TACCGTGGTAAGAATATCGATACCAGGAAG
Found at i:914380 original size:55 final size:55
Alignment explanation
Indices: 913878--914355 Score: 606
Period size: 55 Copynumber: 8.7 Consensus size: 55
913868 ACCAAATCGA
* * * * * *
913878 CACTATGTGTGC-ATTTCACGGAATTCATCCT-ATGTGGATGAATAACTGTACAGG
1 CACTATGTGTGCAAATCCACAGAATTCATCATGA-GTTGATGAATAACCGTACAGG
* * * * **
913932 CCCTATGTGTGCAAATTCACAGAATTCATCATGACTTGATGATTAACCGTACAAT
1 CACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGG
* ** *
913987 CACTATATGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAACCGTACATG
1 CACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGG
* * *
914042 CACTATGTGTGCAAATGCACGGAATTCATCATGAGTTGATGAATAACCGTACATG
1 CACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGG
* *
914097 CACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAATCGTAAAGG
1 CACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGG
* * *
914152 CACTATGTGTGCAAATCCACAGAATTCATCATAAGTTGATGAATAACCATAAAGG
1 CACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGG
* * *
914207 CACTAAGTGTGTAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGA
1 CACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGG
* *
914262 CACTATGTGTGCAAATCCAC-GTAGCTT-GTCATGAGTTGATGAATAACCGTACAGG
1 CACTATGTGTGCAAATCCACAG-A-ATTCATCATGAGTTGATGAATAACCGTACAGG
* * *
914317 CACGATGTGTGC-AACCCACATAATTCATCATGAGTTGAT
1 CACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGAT
914356 AACTATCGTA
Statistics
Matches: 372, Mismatches: 46, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
53 2 0.01
54 31 0.08
55 336 0.90
56 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (55 bp):
CACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGG
Found at i:914668 original size:81 final size:81
Alignment explanation
Indices: 914557--914774 Score: 301
Period size: 81 Copynumber: 2.7 Consensus size: 81
914547 TCCATTTGAC
* * * *
914557 AGAAATGTGTCAATTATGACAGTTAGATGAACGATTAAAGACCCTTGAGTAAAATAATAATGGCC
1 AGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGAATAATGGCC
914622 TAACTATACAATTGGT
66 TAACTATACAATTGGT
* *
914638 AGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAACGAATAATGGTC
1 AGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGAATAATGGCC
* * * *
914703 TAATTGTGCGATTGGT
66 TAACTATACAATTGGT
* * * * *
914719 ATAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAAGA
1 AGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGA
914775 TGAAAGGTCA
Statistics
Matches: 121, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 121 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.28
Consensus pattern (81 bp):
AGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGAATAATGGCC
TAACTATACAATTGGT
Found at i:914793 original size:29 final size:29
Alignment explanation
Indices: 914743--914803 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
914733 TATGCCAGTT
* * * * *
914743 AGATGAACGGTTAAATACTGTTGAGTAAA
1 AGATGAAAGGTCAAACAATGTTGAATAAA
914772 AGATGAAAGGTCAAACAATGTTGAATAAA
1 AGATGAAAGGTCAAACAATGTTGAATAAA
914801 AGA
1 AGA
914804 ATAATGGACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.23, T:0.23
Consensus pattern (29 bp):
AGATGAAAGGTCAAACAATGTTGAATAAA
Found at i:915330 original size:22 final size:22
Alignment explanation
Indices: 915305--915347 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
915295 TTCATTCAAT
*
915305 ATTGATAAGATA-TTGTCGTATA
1 ATTG-TAAGATACTTGTAGTATA
*
915327 ATTGTAATATACTTGTAGTAT
1 ATTGTAAGATACTTGTAGTAT
915348 TATGTCTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (22 bp):
ATTGTAAGATACTTGTAGTATA
Found at i:916787 original size:2 final size:2
Alignment explanation
Indices: 916775--916818 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
916765 GGTCAGAAAG
916775 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
916816 AT A
1 AT A
916819 GCTTTTGTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:924787 original size:6 final size:6
Alignment explanation
Indices: 924778--924885 Score: 189
Period size: 6 Copynumber: 17.5 Consensus size: 6
924768 GAAATCGATT
924778 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
924826 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAAAA AAATAAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT--AA AAAT-AA
924877 AAATAA AAA
1 AAATAA AAA
924886 ATGTTAGATC
Statistics
Matches: 100, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
6 87 0.87
7 7 0.07
8 6 0.06
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:924792 original size:1 final size:1
Alignment explanation
Indices: 924782--924886 Score: 66
Period size: 1 Copynumber: 105.0 Consensus size: 1
924772 TCGATTAAAT
* * * * * * * * * *
924782 AAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
924847 TAAAAATAAAAATAAAAATAAAAAAATAAAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
924887 TGTTAGATCA
Statistics
Matches: 72, Mismatches: 32, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (1 bp):
A
Found at i:927155 original size:153 final size:154
Alignment explanation
Indices: 926877--927185 Score: 611
Period size: 153 Copynumber: 2.0 Consensus size: 154
926867 ACCAAGGGGT
926877 TTAATAAGGGAAACCTTCTATAGAACTAATTTTTTGATATAACAAATAAGGAAAAAAATGTTTTT
1 TTAATAAGGGAAACCTTCTATAGAACTAATTTTTTGATATAACAAATAAGGAAAAAAATGTTTTT
926942 GGACCAAATTAAATTTATTCAAACATTGCAAAGATAATTCAAAGTTCTTAAGTTTCGAAACAAGC
66 GGACCAAATTAAATTTATTCAAACATTGCAAAGATAATTCAAAGTTCTTAAGTTTCGAAACAAGC
927007 AA-TTTGGGCCTGGTTTCGAAACC
131 AATTTTGGGCCTGGTTTCGAAACC
927030 TTAATAAGGGAAACCTTCTATAGAACTAATTTTTTGATATAACAAATAAGGAAAAAAATGTTTTT
1 TTAATAAGGGAAACCTTCTATAGAACTAATTTTTTGATATAACAAATAAGGAAAAAAATGTTTTT
927095 GGACCAAATTAAATTTATTCAAACATTGCAAAGATAATTCAAAGTTCTTAAGTTTCGAAACAAGC
66 GGACCAAATTAAATTTATTCAAACATTGCAAAGATAATTCAAAGTTCTTAAGTTTCGAAACAAGC
927160 AATTTTGGGCCTGGTTTCGAAACC
131 AATTTTGGGCCTGGTTTCGAAACC
927184 TT
1 TT
927186 TTCAAGAGGT
Statistics
Matches: 155, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
153 132 0.85
154 23 0.15
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (154 bp):
TTAATAAGGGAAACCTTCTATAGAACTAATTTTTTGATATAACAAATAAGGAAAAAAATGTTTTT
GGACCAAATTAAATTTATTCAAACATTGCAAAGATAATTCAAAGTTCTTAAGTTTCGAAACAAGC
AATTTTGGGCCTGGTTTCGAAACC
Found at i:927266 original size:20 final size:19
Alignment explanation
Indices: 927229--927267 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
927219 GAAATCTGGA
927229 TTAAAGGTTTAGAAACCCC
1 TTAAAGGTTTAGAAACCCC
* *
927248 TTAAAGGTTTTGAAAACCC
1 TTAAAGGTTTAGAAACCCC
927267 T
1 T
927268 ATTCAAATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (19 bp):
TTAAAGGTTTAGAAACCCC
Found at i:927400 original size:20 final size:21
Alignment explanation
Indices: 927355--927405 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
927345 TTTTTTAGCT
*
927355 CCCAACGGCTCCAAATTATCC
1 CCCAACGACTCCAAATTATCC
*
927376 CCCAATGACTCCAAATTAT-C
1 CCCAACGACTCCAAATTATCC
927396 CCCAACGACT
1 CCCAACGACT
927406 AGTAACTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.31, C:0.41, G:0.08, T:0.20
Consensus pattern (21 bp):
CCCAACGACTCCAAATTATCC
Found at i:939846 original size:55 final size:56
Alignment explanation
Indices: 939762--939872 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 56
939752 ACTCATTTTC
939762 CTCATCAACTTTGTCTTATTCCTCTTTCCTTTTTTTGGTAGTTCCCC-TAATCTAG
1 CTCATCAACTTTGTCTTATTCCTCTTTCCTTTTTTTGGTAGTTCCCCTTAATCTAG
939817 CTCATCAACTTTGTCTTATTCCTCTTTCCTTTTTTTGGTAGTTCCCCTTAATCTAG
1 CTCATCAACTTTGTCTTATTCCTCTTTCCTTTTTTTGGTAGTTCCCCTTAATCTAG
939873 GAACAAGTCT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 47 0.85
56 8 0.15
ACGTcount: A:0.14, C:0.27, G:0.09, T:0.50
Consensus pattern (56 bp):
CTCATCAACTTTGTCTTATTCCTCTTTCCTTTTTTTGGTAGTTCCCCTTAATCTAG
Found at i:939890 original size:55 final size:54
Alignment explanation
Indices: 939767--939891 Score: 153
Period size: 55 Copynumber: 2.3 Consensus size: 54
939757 TTTTCCTCAT
* * *
939767 CAACTTTGTCTTATTCCTCTTTCCTTTTTTTGGTAGTTCCCCTAATCTAGCTCAT
1 CAACTTCGACTTATTCCTCTTTCCTTTTTTTGGTAGTTCCCCTAATCTAGC-CAA
* * *
939822 CAACTTTGTCTTATTCCTCTTTCCTTTTTTTGGTAGTTCCCCTTAATCTAG-GAA
1 CAACTTCGACTTATTCCTCTTTCCTTTTTTTGGTAGTTCCCC-TAATCTAGCCAA
*
939876 CAAGTCTCGACTTATT
1 CAACT-TCGACTTATT
939892 TGTGAAAATT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
54 5 0.08
55 50 0.79
56 8 0.13
ACGTcount: A:0.17, C:0.26, G:0.10, T:0.47
Consensus pattern (54 bp):
CAACTTCGACTTATTCCTCTTTCCTTTTTTTGGTAGTTCCCCTAATCTAGCCAA
Found at i:942710 original size:103 final size:103
Alignment explanation
Indices: 942530--942794 Score: 306
Period size: 103 Copynumber: 2.6 Consensus size: 103
942520 AAGAGAGGCT
* * * *
942530 ATCTCAGGTGAGATAAATTTTGGTTTC-GAGTGAACAATTTCAAATTTTGTG-TTCCAAGGGAAA
1 ATCTCAAGTGAGATCAA-TTTGGTTTCAGAGTGAACAATTTCAAATTTTGTGTTTCAAAGGAAAA
* *
942593 CATGTCTCAAGCGAGACGAAATTAACTTTAAGAAAAACA
65 CATATCTCAAGCGAGACAAAATTAACTTTAAGAAAAACA
* *
942632 ATCTCAAGTGAGATCAATTTGGTTTCAGA-TGAACCAAATTCTAAATTTTGCGTTTCAAAGGAAA
1 ATCTCAAGTGAGATCAATTTGGTTTCAGAGTGAA-CAATTTC-AAATTTTGTGTTTCAAAGGAAA
* *** * *
942696 AC-TATCTCAAGCGAGATAAAATTGGTTTTTAGAAAAATA
64 ACATATCTCAAGCGAGACAAAATTAACTTTAAGAAAAACA
* * *
942735 ATCTCAAGTAAGATCAATTTTGTTTCA-AGTGAAACAATTTCAAAATTTGTGTTTCAAAGG
1 ATCTCAAGTGAGATCAATTTGGTTTCAGAGTG-AACAATTTCAAATTTTGTGTTTCAAAGG
942795 GAGCTTGTCT
Statistics
Matches: 138, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
101 13 0.09
102 41 0.30
103 71 0.51
104 13 0.09
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (103 bp):
ATCTCAAGTGAGATCAATTTGGTTTCAGAGTGAACAATTTCAAATTTTGTGTTTCAAAGGAAAAC
ATATCTCAAGCGAGACAAAATTAACTTTAAGAAAAACA
Found at i:942919 original size:66 final size:66
Alignment explanation
Indices: 942740--942923 Score: 166
Period size: 66 Copynumber: 2.8 Consensus size: 66
942730 AAATAATCTC
* * * ** *
942740 AAGTAAGAT-CAATTTTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTTCAA-AGGGAGCTTGT
1 AAGTAAGATAAAAATTTGATTC-AGTGAAACAATTTCAAAATTTGTGTTTCAAGA-GGAGAATAT
* *
942803 CTT
64 ATA
* * * * *
942806 AAGTAAGACAAAAATTATGA---A-TGAAAAAATTTCACAATTCGTATTTCAAGAGGA-AATATA
1 AAGTAAGATAAAAATT-TGATTCAGTGAAACAATTTCAAAATTTGTGTTTCAAGAGGAGAATATA
942866 TA
65 TA
942868 AAGTAAGATAAAAATTTGATTCTAGTGAAACAATTTCAAAATTTGTGTTTCAAGAG
1 AAGTAAGATAAAAATTTGATTC-AGTGAAACAATTTCAAAATTTGTGTTTCAAGAG
942924 AAACTGTCTC
Statistics
Matches: 92, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
61 3 0.03
62 18 0.20
63 27 0.29
64 2 0.02
65 1 0.01
66 35 0.38
67 4 0.04
68 2 0.02
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (66 bp):
AAGTAAGATAAAAATTTGATTCAGTGAAACAATTTCAAAATTTGTGTTTCAAGAGGAGAATATAT
A
Found at i:947799 original size:23 final size:22
Alignment explanation
Indices: 947772--947816 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
947762 TGAAACAAAC
* *
947772 AAAATGTGAATGCGTAATGTAAA
1 AAAATATGAATGC-AAATGTAAA
*
947795 AAAATATTAATGCAAATGTAAA
1 AAAATATGAATGCAAATGTAAA
947817 GATGCGAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.53, C:0.04, G:0.16, T:0.27
Consensus pattern (22 bp):
AAAATATGAATGCAAATGTAAA
Done.