Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008709.1 Hibiscus syriacus cultivar Beakdansim tig00111758_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: 3030657
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 15
Found at i:755566 original size:20 final size:21
Alignment explanation
Indices: 755541--755594 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
755531 GGGAAAGTAG
755541 TATTGATATTGTTCAT-ACAA
1 TATTGATATTGTTCATAACAA
755561 TATTGATATTG--CATGAACAA
1 TATTGATATTGTTCAT-AACAA
*
755581 TACTGATATTGTTC
1 TATTGATATTGTTC
755595 TTGCAGTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 3 0.10
20 25 0.86
22 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (21 bp):
TATTGATATTGTTCATAACAA
Found at i:756331 original size:20 final size:20
Alignment explanation
Indices: 756306--756345 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
756296 ATTAAATTTT
756306 AAAAATAATACATAACTTTA
1 AAAAATAATACATAACTTTA
756326 AAAAATAATACATAACTTTA
1 AAAAATAATACATAACTTTA
756346 TTTGTTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAATAATACATAACTTTA
Found at i:756601 original size:18 final size:18
Alignment explanation
Indices: 756549--756604 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
756539 TTAAACTTTC
756549 TATT-ATTTTATTATAAAT
1 TATTAATTTTATT-TAAAT
* * *
756567 ATAATATTTTTA-ATAAAT
1 -TATTAATTTTATTTAAAT
756585 TATTAATTTTATTTAAAT
1 TATTAATTTTATTTAAAT
756603 TA
1 TA
756605 AATCATTATT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
17 9 0.31
18 12 0.41
19 3 0.10
20 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTAATTTTATTTAAAT
Found at i:756739 original size:16 final size:16
Alignment explanation
Indices: 756718--756759 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
756708 AGTTAATTTC
756718 AATTTCGGTTCGGGTT
1 AATTTCGGTTCGGGTT
* *
756734 AATTTCAGTTCTGGTT
1 AATTTCGGTTCGGGTT
*
756750 GATTTCGGTT
1 AATTTCGGTT
756760 TCGTTAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.14, C:0.12, G:0.26, T:0.48
Consensus pattern (16 bp):
AATTTCGGTTCGGGTT
Found at i:757163 original size:21 final size:21
Alignment explanation
Indices: 757134--757176 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
757124 TTACAAAGGT
*
757134 AATACTGATATTCTTAGCCCG
1 AATACTGATACTCTTAGCCCG
*
757155 AATATTGATACTCTTAGCCCG
1 AATACTGATACTCTTAGCCCG
757176 A
1 A
757177 CTAGTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (21 bp):
AATACTGATACTCTTAGCCCG
Found at i:759685 original size:44 final size:44
Alignment explanation
Indices: 759635--760076 Score: 634
Period size: 44 Copynumber: 10.0 Consensus size: 44
759625 TATTTATTAT
* * *
759635 TTTCATTTATGGCATCCTTTCATGCCTTACTGCACCGTTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* * *
759679 TTTCATTTATGGCATCATTTCATGCCTTAATGCACCATTATGTA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* * *
759723 TTTCCA-TTATGGCATCCATTCATGCCATAATGCACCATTCTGCA
1 TTT-CAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* * * *
759767 TTTTAGTTATGCCATCCTTTCATGTCTTAATGAACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
*
759811 TTTCAGTTATGGCATCCTTTCATGCCTTAATGTACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
759855 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* *
759899 TTTCAATTATGGCATCCTTTCATGCCTTAATGCACCTTTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* * * * *
759943 TTTTAGTTATGACATGCTTTAATGCCTTAATGCATCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* *
759987 TTTTAGTTATGGCATCATTTCATGCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* * *
760031 TTTTAGTTATGGCATCATTTCATGCCTTAATACACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
760075 TT
1 TT
760077 CCACTTATAA
Statistics
Matches: 360, Mismatches: 36, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
43 1 0.00
44 357 0.99
45 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (44 bp):
TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
Found at i:760001 original size:24 final size:24
Alignment explanation
Indices: 759974--760049 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
759964 ATGCCTTAAT
759974 GCATCATTATGCATTTTAGTTATG
1 GCATCATTATGCATTTTAGTTATG
*
759998 GCATCATT-T-CATGCCTTA---AT-
1 GCATCATTATGCAT--TTTAGTTATG
*
760018 GCACCATTATGCATTTTAGTTATG
1 GCATCATTATGCATTTTAGTTATG
760042 GCATCATT
1 GCATCATT
760050 TCATGCCTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 16
0.67 0.07 0.27
Matches are distributed among these distances:
20 10 0.25
21 3 0.08
22 6 0.15
23 3 0.08
24 18 0.45
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.42
Consensus pattern (24 bp):
GCATCATTATGCATTTTAGTTATG
Found at i:760170 original size:17 final size:18
Alignment explanation
Indices: 760137--760174 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
760127 ATATCCTTTC
760137 CATACATATACTATAAAA
1 CATACATATACTATAAAA
*
760155 CATACAT-TACTTTAAAA
1 CATACATATACTATAAAA
760172 CAT
1 CAT
760175 TCTAATTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (18 bp):
CATACATATACTATAAAA
Found at i:764870 original size:23 final size:22
Alignment explanation
Indices: 764821--764893 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
764811 ACAGAACCCC
* * *
764821 AGGGGGTATCGATTCCCCTACA
1 AGGGGGAATCGGTTCCCCTTCA
* * *
764843 GGGGGGAGTTGGTTCCCCTTCA
1 AGGGGGAATCGGTTCCCCTTCA
764865 TAGGGGGAATCGGTTCCCCTTCA
1 -AGGGGGAATCGGTTCCCCTTCA
764888 AGGGGG
1 AGGGGG
764894 GTATCGATTC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 22 0.54
23 19 0.46
ACGTcount: A:0.16, C:0.23, G:0.37, T:0.23
Consensus pattern (22 bp):
AGGGGGAATCGGTTCCCCTTCA
Found at i:764894 original size:23 final size:23
Alignment explanation
Indices: 764822--764899 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
764812 CAGAACCCCA
* * *
764822 GGGGGTATCGATTCCCCTAC-AG
1 GGGGGAATCGGTTCCCCTTCAAG
* *
764844 GGGGGAGTTGGTTCCCCTTCATA-
1 GGGGGAATCGGTTCCCCTTCA-AG
764867 GGGGGAATCGGTTCCCCTTCAAG
1 GGGGGAATCGGTTCCCCTTCAAG
*
764890 GGGGGTATCG
1 GGGGGAATCG
764900 ATTCACTCTG
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
22 16 0.36
23 28 0.62
24 1 0.02
ACGTcount: A:0.15, C:0.23, G:0.37, T:0.24
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTCAAG
Found at i:766507 original size:19 final size:19
Alignment explanation
Indices: 766483--766547 Score: 121
Period size: 19 Copynumber: 3.4 Consensus size: 19
766473 TTCTTGAGTA
766483 TACCCTTGAGCAACAAGTC
1 TACCCTTGAGCAACAAGTC
766502 TACCCTTGAGCAACAAGTC
1 TACCCTTGAGCAACAAGTC
766521 TACCCTTGAGCAACAAGTC
1 TACCCTTGAGCAACAAGTC
*
766540 TAGCCTTG
1 TACCCTTG
766548 TTTTTCGCTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (19 bp):
TACCCTTGAGCAACAAGTC
Found at i:768796 original size:22 final size:21
Alignment explanation
Indices: 768754--768793 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
768744 GAGTTTATTT
*
768754 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
768775 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
768794 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:771668 original size:3 final size:3
Alignment explanation
Indices: 771660--771784 Score: 178
Period size: 3 Copynumber: 41.0 Consensus size: 3
771650 TTCATTTAAA
** *
771660 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
771708 ATT ATT AGT ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
*
771754 ATT ATT ATT AAT ATT ATAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
771785 TAAATATTAC
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
3 102 0.94
4 6 0.06
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:773204 original size:20 final size:21
Alignment explanation
Indices: 773158--773204 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
773148 TTGCTTTTGA
*
773158 ATATATCGTTCTAATTGTATT
1 ATATATTGTTCTAATTGTATT
* *
773179 -TTTATTGTTTTAATTGT-TT
1 ATATATTGTTCTAATTGTATT
773198 ATATATT
1 ATATATT
773205 TAAATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.62
Consensus pattern (21 bp):
ATATATTGTTCTAATTGTATT
Found at i:773281 original size:23 final size:24
Alignment explanation
Indices: 773247--773291 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
773237 TATATATGAT
773247 AAATAATAA-TTT-ATATTTTTTA
1 AAATAATAATTTTAATATTTTTTA
*
773269 AAATAAATTATTTTAATATTTTT
1 AAAT-AATAATTTTAATATTTTT
773292 CAATATCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 4 0.21
24 3 0.16
25 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
AAATAATAATTTTAATATTTTTTA
Found at i:780786 original size:84 final size:84
Alignment explanation
Indices: 780639--780862 Score: 405
Period size: 84 Copynumber: 2.7 Consensus size: 84
780629 TAACTGGAAC
780639 AAGAATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
1 AAGAATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
780704 AACCAATCATTGAATTTGG
66 AACCAATCATTGAATTTGG
* *
780723 AAG-ATGAATGTGCTCAATAGCATTTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTAGACA
1 AAGAAT-AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACA
780787 GAACCAATCATTGAATTTGG
65 GAACCAATCATTGAATTTGG
*
780807 AAGAATAATGTGTTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AAGAATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
780863 ATTCGGTAGG
Statistics
Matches: 133, Mismatches: 5, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
83 2 0.02
84 129 0.97
85 2 0.02
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.36
Consensus pattern (84 bp):
AAGAATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
AACCAATCATTGAATTTGG
Found at i:783471 original size:22 final size:22
Alignment explanation
Indices: 783443--783497 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
783433 ATCTACATTC
783443 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
783465 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
783487 TTCAAAGATGA
1 TTCAAAGATGA
783498 AAGCTTTATG
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:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:784218 original size:113 final size:113
Alignment explanation
Indices: 783900--784569 Score: 940
Period size: 113 Copynumber: 6.0 Consensus size: 113
783890 GCAAAGTTCA
* * **
783900 AATCCATCATTTAATGGATCAACA-TTCCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCATCATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG
* * **
783963 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * * *
784012 AATCCATCATTCGATGGATTGA-CATTTCCATAG-AAGTTCATAATGAGAAGAACTCATATGAAG
1 AATCCATCATTTGATGGA-TCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
784075 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* *
784124 AATCCATCATTTGATGGATCGTCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
784189 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* *
784237 AATCTATTATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
784302 AGGAAGAAGAAGTTCATAATGAGAAGAATTTATTCAACCTTTT-GTCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACT-TG
* * * * *
784350 AATTCATCACTTGATGGATTAT-TTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCATCATTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * * **
784414 AAGGAAGGAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCA
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * * *
784463 AATCCATCACTTGATGGAGCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * *
784527 AGGAAGAATAAGTTCATAATAAGAAGAATTTGTTCAACTTTTT
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
784570 GCATAATTCT
Statistics
Matches: 506, Mismatches: 43, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
111 1 0.00
112 192 0.38
113 307 0.61
114 6 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (113 bp):
AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
Found at i:785075 original size:76 final size:76
Alignment explanation
Indices: 784975--785461 Score: 947
Period size: 76 Copynumber: 6.4 Consensus size: 76
784965 ACTATTTCCC
*
784975 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
785040 AAGCCTTCGGG
66 AAGCCTTCGGG
*
785051 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
785116 AAGCCTTCGGG
66 AAGCCTTCGGG
785127 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
785192 AAGCCTTCAGG
66 AAGCCTTCGGG
785203 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
785268 AAGCCTTCGGG
66 AAGCCTTCGGG
785279 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
785344 AAGCCTTCGGG
66 AAGCCTTCGGG
785355 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
785420 AAGCCTTCGGG
66 AAGCCTTCGGG
785431 TCATCTGTAAGTCCTTCAGTGCATGATGTTT
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTT
785462 TCAACATTTC
Statistics
Matches: 408, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 408 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (76 bp):
TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
AAGCCTTCGGG
Found at i:785600 original size:3 final size:3
Alignment explanation
Indices: 785592--785706 Score: 176
Period size: 3 Copynumber: 38.0 Consensus size: 3
785582 TTCATTTAAA
** *
785592 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
785640 ATT AGT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
785688 ATT ATAT ATT ATT ATT ATT
1 ATT AT-T ATT ATT ATT ATT
785707 TAAATATTAC
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
3 98 0.97
4 3 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:787122 original size:20 final size:21
Alignment explanation
Indices: 787076--787122 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
787066 TTGCTTTTGA
*
787076 ATATATCGTTCTAATTGTATT
1 ATATATTGTTCTAATTGTATT
* *
787097 -TTTATTGTTTTAATTGT-TT
1 ATATATTGTTCTAATTGTATT
787116 ATATATT
1 ATATATT
787123 TAAATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.62
Consensus pattern (21 bp):
ATATATTGTTCTAATTGTATT
Found at i:790729 original size:6 final size:6
Alignment explanation
Indices: 790718--790746 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
790708 CTGACTTCTT
790718 CCTCTA CCTCTA CCTCTA CCTCTA CCTCT
1 CCTCTA CCTCTA CCTCTA CCTCTA CCTCT
790747 TTGAGTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.52, G:0.00, T:0.34
Consensus pattern (6 bp):
CCTCTA
Found at i:797255 original size:23 final size:23
Alignment explanation
Indices: 797205--797283 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 23
797195 AACTCGAAGT
*
797205 GGGTATCGATACCC--TC-ATGG
1 GGGTATCGATACCCATTCAAAGG
*
797225 GGGTATCGATACCCATTCAAAGA
1 GGGTATCGATACCCATTCAAAGG
*
797248 GGGTATCGGTACCCATTCAAAGG
1 GGGTATCGATACCCATTCAAAGG
*
797271 GGGTATTGATACC
1 GGGTATCGATACC
797284 TAGCATACAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
20 14 0.28
22 2 0.04
23 34 0.68
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (23 bp):
GGGTATCGATACCCATTCAAAGG
Found at i:806203 original size:44 final size:44
Alignment explanation
Indices: 806153--806471 Score: 480
Period size: 44 Copynumber: 7.2 Consensus size: 44
806143 TAATTATTAT
* * *
806153 TTTCATTTATGGCATCCTTTCATGCCTTATTGCACCGTTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* * *
806197 TTTCATTTATGGCA-CCATTTCATGCCCTAATACACCATTATGCA
1 TTTCAGTTATGGCATCC-TTTCATGCCTTAATGCACCATTATGCA
806241 GTTT-AGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
1 -TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
*
806285 TTTCAGTTATGGCATCCTTTCATGCCTTAATCCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
***
806329 TTTCAGTTATGGCATCCTTTCATGCCTTAAAATACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* *
806373 TTTCAGTTATGTCATCCTTTTATGCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* *
806417 TTTCAGTTTTGGCATCTTTTCATGCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
806461 TTTCAGTTATG
1 TTTCAGTTATG
806472 AATTCGGTTT
Statistics
Matches: 250, Mismatches: 21, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
43 5 0.02
44 240 0.96
45 5 0.02
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.41
Consensus pattern (44 bp):
TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
Found at i:806927 original size:42 final size:41
Alignment explanation
Indices: 806880--806987 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 41
806870 CAATAGTATC
* *
806880 GATACCCCTATCATGGTATCGATACTTCTATAATATGGTACT
1 GATACCCCT-TCATGGTATCGATACTACTACAATATGGTACT
* *
806922 GATACCTTTCTCTCA--GTATCGATACTACTACACTATGGTACT
1 GATACC--CCT-TCATGGTATCGATACTACTACAATATGGTACT
*
806964 GATACTCCCTT-TTGGTATCGATAC
1 GATAC-CCCTTCATGGTATCGATAC
806988 CATTTTGGCA
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
40 1 0.02
41 12 0.22
42 35 0.65
43 1 0.02
44 5 0.09
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (41 bp):
GATACCCCTTCATGGTATCGATACTACTACAATATGGTACT
Found at i:807349 original size:22 final size:22
Alignment explanation
Indices: 807315--807392 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
807305 TACCCCTATC
* *
807315 ATGGTATCTATACTTCTATACT
1 ATGGTACCGATACTTCTATACT
*
807337 ATGGTACCGATACCTT-TCT-CT
1 ATGGTACCGATA-CTTCTATACT
* * * *
807358 -TAGTATCGATACTACTACACT
1 ATGGTACCGATACTTCTATACT
807379 ATGGTACCGATACT
1 ATGGTACCGATACT
807393 CCCTTTTGGT
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
19 2 0.05
20 10 0.24
21 4 0.10
22 23 0.55
23 3 0.07
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (22 bp):
ATGGTACCGATACTTCTATACT
Found at i:810120 original size:15 final size:16
Alignment explanation
Indices: 810100--810139 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
810090 TTTACTTCAA
*
810100 AATGATT-AAGCGCTG
1 AATGATTCAAACGCTG
*
810115 AATGATTCAAATGCTG
1 AATGATTCAAACGCTG
810131 AATGATTCA
1 AATGATTCA
810140 GAGGCTCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (16 bp):
AATGATTCAAACGCTG
Found at i:812431 original size:24 final size:23
Alignment explanation
Indices: 812379--812432 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
812369 TTAGGTATGT
*
812379 TTTAAAAAAATTGAAAGTTGAGA
1 TTTAAAAAAATTGAAAATTGAGA
*
812402 TGTTAAAACAAATT-AAAATTGATA
1 T-TTAAAA-AAATTGAAAATTGAGA
812426 GTTTAAA
1 -TTTAAA
812433 TATTAGACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 19 0.73
25 6 0.23
ACGTcount: A:0.52, C:0.02, G:0.13, T:0.33
Consensus pattern (23 bp):
TTTAAAAAAATTGAAAATTGAGA
Found at i:812678 original size:2 final size:2
Alignment explanation
Indices: 812671--812712 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
812661 AAATTTTAAA
812671 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
812713 TCTCTTCTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:819291 original size:39 final size:39
Alignment explanation
Indices: 819248--819330 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 39
819238 GCCATCCTCT
*
819248 TCCTC-GCCTTCACCATCACCATCCAT-GGCAACACCGCCA
1 TCCTCTGCC-TCACCATCACCAT-CATCGGCAACACCACCA
* * *
819287 TCCTCTTCCTCACCATCACCGTCATCGGCTACACCACCA
1 TCCTCTGCCTCACCATCACCATCATCGGCAACACCACCA
819326 TCCTC
1 TCCTC
819331 CACCAACGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 3 0.08
39 33 0.87
40 2 0.05
ACGTcount: A:0.20, C:0.49, G:0.08, T:0.22
Consensus pattern (39 bp):
TCCTCTGCCTCACCATCACCATCATCGGCAACACCACCA
Found at i:819829 original size:11 final size:11
Alignment explanation
Indices: 819784--819834 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
819774 TACCTAATTC
**
819784 AAAAAAAAAAG
1 AAAAAAAAGGG
819795 AAAAAAAAGGG
1 AAAAAAAAGGG
*
819806 -AAAAAAA-GA
1 AAAAAAAAGGG
819815 AAAAAAAAGGG
1 AAAAAAAAGGG
819826 AAAAAAAAG
1 AAAAAAAAG
819835 AATCGTGATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 1 0.03
10 14 0.41
11 19 0.56
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGGG
Found at i:819834 original size:21 final size:21
Alignment explanation
Indices: 819786--819836 Score: 88
Period size: 20 Copynumber: 2.5 Consensus size: 21
819776 CCTAATTCAA
819786 AAAAAAAAG-AAAAAAAAGGG
1 AAAAAAAAGAAAAAAAAAGGG
819806 -AAAAAAAGAAAAAAAAAGGG
1 AAAAAAAAGAAAAAAAAAGGG
819826 AAAAAAAAGAA
1 AAAAAAAAGAA
819837 TCGTGATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.28
20 11 0.38
21 10 0.34
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (21 bp):
AAAAAAAAGAAAAAAAAAGGG
Found at i:820509 original size:26 final size:26
Alignment explanation
Indices: 820479--820530 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
820469 TCTCATTTTA
*
820479 TGACATTTTATCGATGCATTTAGAAT
1 TGACAGTTTATCGATGCATTTAGAAT
820505 TGACAGTTTATCGATGCATTTAGAAT
1 TGACAGTTTATCGATGCATTTAGAAT
820531 CGTTTGTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (26 bp):
TGACAGTTTATCGATGCATTTAGAAT
Found at i:821904 original size:23 final size:23
Alignment explanation
Indices: 821874--821919 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
821864 GTGGCGAGTA
821874 TTGTGGCAATTAAGTAAAGAATG
1 TTGTGGCAATTAAGTAAAGAATG
821897 TTGTGGCAATTAAGTAAAGAATG
1 TTGTGGCAATTAAGTAAAGAATG
821920 CTACGGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.30
Consensus pattern (23 bp):
TTGTGGCAATTAAGTAAAGAATG
Found at i:821927 original size:23 final size:23
Alignment explanation
Indices: 821878--821928 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
821868 CGAGTATTGT
* **
821878 GGCAATTAAGTAAAGAATGTTGT
1 GGCAATTAAGTAAAGAATGCTAC
821901 GGCAATTAAGTAAAGAATGCTAC
1 GGCAATTAAGTAAAGAATGCTAC
821924 GGCAA
1 GGCAA
821929 AAATAAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.10, G:0.25, T:0.24
Consensus pattern (23 bp):
GGCAATTAAGTAAAGAATGCTAC
Found at i:826441 original size:260 final size:257
Alignment explanation
Indices: 825979--826496 Score: 761
Period size: 261 Copynumber: 2.0 Consensus size: 257
825969 AAAAAATTAA
*
825979 AAAAAGGTGCGAGAGAGAAAGGAATAAAATAATGAGAAAATATTTGATTGGATGGTTTAAAAAGA
1 AAAAAGGTGCGAGAGAGAAAGGAAAAAAATAATGAGAAAATATTTGATTGGATGGTTTAAAAAGA
* * * *
826044 AAATAAAATAAAAAATTGTACCTTTTTCTGATTTTGCCGCCTAAACTCATAAACAATTAGGGTTT
66 AAATAAAATAAAAAATTGTACCTTCTTATCATTTTGCCGCCTAAACCCATAAACAATTAGGGTTT
* * * *
826109 ATTTTTCAACTTTTCATGCTTTCCCCCCAAATCGCGACATGTCTAAAGGAAAACTAAGGAAAATT
131 ATTTTTCAACTTTTCATGCTTTCCCCCCAAAACGCCACATGTCCAAAGGAAAACTAAAGAAAATT
* *
826174 GTTAAAATAAAAAAAAACTAAA-AACTGATAAGTAAAATGGTTAAAATAAAATAAATTGTTTATG
196 ATTAAAAT----AAAAACTAAAGAAATGATAAGTAAAATGGTTAAAATAAAATAAATTGTTTATG
826238 T
257 T
* * * *
826239 AAAAAGGTGCGAGAGAGAAAGGAAAAAAATAATGATAAAATATTTGATTTGATGGTTTGAAAATA
1 AAAAAGGTGCGAGAGAGAAAGGAAAAAAATAATGAGAAAATATTTGATTGGATGGTTTAAAAAGA
* * *
826304 AAATAAAATAAAATAATTGTACCTTCTTATCCTTTTGTCGCCTAAACCCATAAATAATTAGGGTT
66 AAATAAAATAAAA-AATTGTACCTTCTTATCATTTTGCCGCCTAAACCCATAAACAATTAGGGTT
* * *
826369 TGTTTTTCAACTTTTCATGTTTTCCCTCCAAAACGCCACATGTCCAAAGGAAAAC-AAAGAAAAT
130 TATTTTTCAACTTTTCATGCTTTCCCCCCAAAACGCCACATGTCCAAAGGAAAACTAAAGAAAAT
* * *
826433 TATTAAAATAAAAGCTAAAGAAATGATAATTAAAATGGTTAAAATAAAATAACTTGTTTATGT
195 TATTAAAATAAAAACTAAAGAAATGATAAGTAAAATGGTTAAAATAAAATAAATTGTTTATGT
826496 A
1 A
826497 CAAACTATGG
Statistics
Matches: 232, Mismatches: 24, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
256 9 0.04
257 41 0.18
260 89 0.38
261 93 0.40
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (257 bp):
AAAAAGGTGCGAGAGAGAAAGGAAAAAAATAATGAGAAAATATTTGATTGGATGGTTTAAAAAGA
AAATAAAATAAAAAATTGTACCTTCTTATCATTTTGCCGCCTAAACCCATAAACAATTAGGGTTT
ATTTTTCAACTTTTCATGCTTTCCCCCCAAAACGCCACATGTCCAAAGGAAAACTAAAGAAAATT
ATTAAAATAAAAACTAAAGAAATGATAAGTAAAATGGTTAAAATAAAATAAATTGTTTATGT
Found at i:831454 original size:24 final size:24
Alignment explanation
Indices: 831427--831479 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
831417 TAGACCCGCT
831427 GCCTCGAATCGCCTTAGCATGCTA
1 GCCTCGAATCGCCTTAGCATGCTA
* *
831451 GCCTTGAATCGCTTTAGCATGCTA
1 GCCTCGAATCGCCTTAGCATGCTA
831475 GCCTC
1 GCCTC
831480 TCTCAAGGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.19, C:0.32, G:0.21, T:0.28
Consensus pattern (24 bp):
GCCTCGAATCGCCTTAGCATGCTA
Found at i:836221 original size:58 final size:58
Alignment explanation
Indices: 836077--836392 Score: 447
Period size: 58 Copynumber: 5.5 Consensus size: 58
836067 TCCCATATGG
* * ** * ** *
836077 AAATTCATACATTTAGTATGAATCTCTTAACGGTTGGCTTACAAAGTGCCTAATAC-A
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCTAATACGA
* *
836134 GAATTTCATA-ACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCTAATACGG
1 -AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCTAATACGA
* *
836192 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTACCCAATACGA
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCTAATACGA
* * *
836250 AAATTCATACACTTATTATGAATTACTTAACTTTTTGCACATGAAGTGCCTAATACGA
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCTAATACGA
* *
836308 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATATGA
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCTAATACGA
*
836366 AAATTCATACACTTAGTATAAATTTCT
1 AAATTCATACACTTAGTATGAATTTCT
836393 CACACGGTCC
Statistics
Matches: 231, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
57 46 0.20
58 185 0.80
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (58 bp):
AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCTAATACGA
Found at i:840816 original size:58 final size:58
Alignment explanation
Indices: 840749--841264 Score: 807
Period size: 58 Copynumber: 8.9 Consensus size: 58
840739 TTTCCCATAT
* * ** * * *
840749 GGAAATTCATAAACTTAGTATGAATCTCTTAACGGTTGGCACACAAAGTGCCTAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAC
* * *
840807 GGAAATTCATACACTTAGTATGAATTTCTTAACCTTTTGCACATGAAGTGCCCAATAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAC
*
840865 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAC
* * *
840923 GGAAATTCAAACACTTAGTATGAATTTATTAAATTTTTGCACACGAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAC
* * *
840981 GAAAATTCATACACTTAGTATAAATTTATTAACTTTTTGCACACGAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAC
*
841039 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTACCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAC
* * *
841097 GGAAATTCATACACTTAGTATGAATTACTTAACTTTTTGCACATGAAGTGTCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAC
* *
841155 GAAAATTCATACACTTAGTATGAATTTTTTAACTTTTTGCACACGAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAC
* *
841213 GGAAATTCATAGACTTAGTATAAATTTCTTAACTTTTTGCACACGAAGTGCC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCC
841265 ATTTGGTAAT
Statistics
Matches: 422, Mismatches: 36, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 422 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (58 bp):
GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAC
Found at i:841654 original size:22 final size:20
Alignment explanation
Indices: 841589--841663 Score: 105
Period size: 20 Copynumber: 3.6 Consensus size: 20
841579 TGGCTCTTCA
841589 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
841609 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
* *
841629 GTATCGATACTACCATACTATG
1 GTATCGATAC--CCCTACCATG
*
841651 GTATTGATACCCC
1 GTATCGATACCCC
841664 CTTTCGGTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
20 32 0.65
22 17 0.35
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.28
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:841775 original size:95 final size:94
Alignment explanation
Indices: 841607--841832 Score: 321
Period size: 95 Copynumber: 2.4 Consensus size: 94
841597 ACCCCTACCA
* **
841607 TGGTATCGATACCCCTACCATGGTATCGATACTACCATACTATGGTATTGATACCCCCTTTCGGT
1 TGGTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTTCGGT
*
841672 ATCAATACCAATTTTAGATTCGACATG-GCC
66 ATCAATACCAATTTTAAATTC-A-ATGTGCC
841702 TGGTATCGATACCCTTACCATGGTATCGATACTACCATGA-TATGGTACCGATACCCCCTTTCGG
1 TGGTATCGATACCCTTACCATGGTATCGATACTACCAT-ACTATGGTACCGATACCCCCTTTCGG
*
841766 TATCGATACCAATTTTAAATTCAATGTTGCC
65 TATCAATACCAATTTTAAATTCAATG-TGCC
* * * *
841797 TAGTATTGATACCCTTACCATGATATTGATACTACC
1 TGGTATCGATACCCTTACCATGGTATCGATACTACC
841833 TTGTGGTATC
Statistics
Matches: 119, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
93 3 0.03
94 1 0.01
95 114 0.96
96 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (94 bp):
TGGTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTTCGGT
ATCAATACCAATTTTAAATTCAATGTGCC
Found at i:843774 original size:13 final size:12
Alignment explanation
Indices: 843744--843785 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
843734 GTTGAAATAA
*
843744 AATAAAAAT-AT
1 AATAAAATTAAT
843755 AATAAAATTAAT
1 AATAAAATTAAT
843767 AATGAAAATTAAT
1 AAT-AAAATTAAT
843780 AA-AAAA
1 AATAAAA
843786 GTAAATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 12 0.43
12 5 0.18
13 11 0.39
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (12 bp):
AATAAAATTAAT
Found at i:845141 original size:2 final size:2
Alignment explanation
Indices: 845134--845161 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
845124 ATATGTTTTC
845134 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
845162 TGTACACGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:845230 original size:2 final size:2
Alignment explanation
Indices: 845225--845269 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
845215 TTTTAACAAC
*
845225 TA TA TA TA TA TA TA TA TA T- TA TA AA TA T- TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
845264 AA TA TA
1 TA TA TA
845270 AAAGCCTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
1 3 0.08
2 33 0.92
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:845258 original size:16 final size:17
Alignment explanation
Indices: 845226--845269 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
845216 TTTAACAACT
*
845226 ATATATATATATATATA
1 ATATAAATATATATATA
*
845243 TTATAAATAT-TATATA
1 ATATAAATATATATATA
845259 ATATAAATATA
1 ATATAAATATA
845270 AAAGCCTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATAAATATATATATA
Found at i:848646 original size:21 final size:21
Alignment explanation
Indices: 848620--848664 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
848610 CAAAAAATAA
* *
848620 TATAAGTTATTATAGGTGACT
1 TATAAGTCATTATAGGTCACT
848641 TATAAGTCATTATAGGTCACT
1 TATAAGTCATTATAGGTCACT
848662 TAT
1 TAT
848665 GCATTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (21 bp):
TATAAGTCATTATAGGTCACT
Found at i:858625 original size:21 final size:21
Alignment explanation
Indices: 858601--858640 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
858591 CCAATGTGCC
*
858601 ACATATATGTTCCAAAGGATT
1 ACATATATGTCCCAAAGGATT
*
858622 ACATATATGTCCCGAAGGA
1 ACATATATGTCCCAAAGGA
858641 CCACGTAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
ACATATATGTCCCAAAGGATT
Found at i:859165 original size:2 final size:2
Alignment explanation
Indices: 859158--859212 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
859148 GCCTGTTACC
859158 TA TA TA 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
859200 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
859213 TCTCATAACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:861281 original size:31 final size:31
Alignment explanation
Indices: 861246--861319 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
861236 AAATTATCAT
* * *
861246 TTTGGTCCCTAAACTATTCCAAAGT-TTATAC
1 TTTGGTCCCTAAACT-TTACAAAATCTTATAA
861277 TTTGGTCACC-AAACTTTACAAAATCTTATAA
1 TTTGGTC-CCTAAACTTTACAAAATCTTATAA
*
861308 TTTGGTCACTAA
1 TTTGGTCCCTAA
861320 CTAAATCCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 8 0.22
31 26 0.72
32 2 0.06
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.38
Consensus pattern (31 bp):
TTTGGTCCCTAAACTTTACAAAATCTTATAA
Found at i:862001 original size:18 final size:18
Alignment explanation
Indices: 861978--862025 Score: 87
Period size: 18 Copynumber: 2.6 Consensus size: 18
861968 CAATTAATAT
861978 ACAAGTATACATAATCGA
1 ACAAGTATACATAATCGA
861996 ACAAGTATACATAATCGA
1 ACAAGTATACATAATCGA
862014 ACAAGTAATACA
1 ACAAGT-ATACA
862026 ATGATGAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.52, C:0.17, G:0.10, T:0.21
Consensus pattern (18 bp):
ACAAGTATACATAATCGA
Found at i:874494 original size:20 final size:20
Alignment explanation
Indices: 874471--874509 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
874461 CCCTCGTCTG
874471 CTTTATTGATTCCTCGATTA
1 CTTTATTGATTCCTCGATTA
874491 CTTTATTGATTCCTCGATT
1 CTTTATTGATTCCTCGATT
874510 GCATCTAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.18, C:0.21, G:0.10, T:0.51
Consensus pattern (20 bp):
CTTTATTGATTCCTCGATTA
Found at i:882391 original size:12 final size:12
Alignment explanation
Indices: 882376--882416 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
882366 TAGATAAACA
*
882376 AATAATGGTAAT
1 AATAATGATAAT
*
882388 AATAATGTTAAT
1 AATAATGATAAT
*
882400 AATAATAATAAT
1 AATAATGATAAT
882412 AATAA
1 AATAA
882417 ATAGTATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
AATAATGATAAT
Found at i:882392 original size:3 final size:3
Alignment explanation
Indices: 882384--882457 Score: 58
Period size: 3 Copynumber: 23.3 Consensus size: 3
882374 CAAATAATGG
** * *
882384 TAA TAA TAA TGT TAA TAA TAA TAA TAA TAA TAAA TAG TATA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA-A TAA TAA
* *
882431 TATG TAA CAA TAA TAA TAA TAAA TAA T
1 TA-A TAA TAA TAA TAA TAA T-AA TAA T
882458 TTTTTAAAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
3 46 0.84
4 9 0.16
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:882565 original size:2 final size:2
Alignment explanation
Indices: 882558--882591 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
882548 TATGTTTTCA
882558 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
882592 CACATTTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:882643 original size:30 final size:31
Alignment explanation
Indices: 882609--882667 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 31
882599 TCAAAAATTA
882609 TATTTTTGAA-AACTAT-T-TATATTATATATT
1 TATTTTT-AACAACTATATCTATA-TATATATT
882639 TATTTTTAACAACTATATCTATATATATA
1 TATTTTTAACAACTATATCTATATATATA
882668 GTATAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 2 0.08
30 13 0.50
31 7 0.27
32 4 0.15
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.53
Consensus pattern (31 bp):
TATTTTTAACAACTATATCTATATATATATT
Found at i:884514 original size:23 final size:23
Alignment explanation
Indices: 884471--884517 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
884461 TTTTATGAAT
*
884471 GAAATGTTTCTTTGATAATTTTA
1 GAAATGTTTATTTGATAATTTTA
*
884494 GAAATG-TTATTTGAATTATTTTA
1 GAAATGTTTATTTG-ATAATTTTA
884517 G
1 G
884518 GTTATGAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (23 bp):
GAAATGTTTATTTGATAATTTTA
Found at i:887110 original size:15 final size:15
Alignment explanation
Indices: 887090--887133 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
887080 CATCTCCATC
887090 AACTTAAAATCATAA
1 AACTTAAAATCATAA
*
887105 AACTTAAAATCATAC
1 AACTTAAAATCATAA
887120 AACTATAAAA-CATA
1 AACT-TAAAATCATA
887134 TTTTCATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 22 0.81
16 5 0.19
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.25
Consensus pattern (15 bp):
AACTTAAAATCATAA
Found at i:890141 original size:42 final size:42
Alignment explanation
Indices: 890052--890288 Score: 298
Period size: 42 Copynumber: 5.7 Consensus size: 42
890042 TAATCTTAAT
* * * * ** * *
890052 TTAGTGGCGTTTGTG-AACAAACACCGCTATAGACTTGTACT
1 TTAGTGGCGTTTTTGTAATAAACGCCGCAATAGTTTTGTCCC
*
890093 TTAGTGGCATTTTTGTAATAAACGCCGCAATAGTTTTGTCCC
1 TTAGTGGCGTTTTTGTAATAAACGCCGCAATAGTTTTGTCCC
* ** *
890135 TTAGTGGCGTTTTTGTAATAAATGAAGCAATAGTTTTGTCCT
1 TTAGTGGCGTTTTTGTAATAAACGCCGCAATAGTTTTGTCCC
*
890177 TTAGTGGCGTTTTTGTAATAAACGCCGTAATAGTTTTGTCCC
1 TTAGTGGCGTTTTTGTAATAAACGCCGCAATAGTTTTGTCCC
* *
890219 TTAGTGGCGTTTTTGTAATAAATGCCGCAATAGTTTTGTCCT
1 TTAGTGGCGTTTTTGTAATAAACGCCGCAATAGTTTTGTCCC
*
890261 TTAGTGGCGTTTTT-AATATAAACGCCGC
1 TTAGTGGCGTTTTTGTA-ATAAACGCCGC
890289 CATTGTTCAT
Statistics
Matches: 170, Mismatches: 24, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
41 14 0.08
42 156 0.92
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (42 bp):
TTAGTGGCGTTTTTGTAATAAACGCCGCAATAGTTTTGTCCC
Found at i:890198 original size:84 final size:84
Alignment explanation
Indices: 890086--890288 Score: 336
Period size: 84 Copynumber: 2.4 Consensus size: 84
890076 CGCTATAGAC
* *
890086 TTGTACTTTAGTGGCATTTTTGTAATAAACGCCGCAATAGTTTTGTCCCTTAGTGGCGTTTTTGT
1 TTGTCCTTTAGTGGCGTTTTTGTAATAAACGCCGCAATAGTTTTGTCCCTTAGTGGCGTTTTTGT
890151 AATAAATGAAGCAATAGTT
66 AATAAATGAAGCAATAGTT
*
890170 TTGTCCTTTAGTGGCGTTTTTGTAATAAACGCCGTAATAGTTTTGTCCCTTAGTGGCGTTTTTGT
1 TTGTCCTTTAGTGGCGTTTTTGTAATAAACGCCGCAATAGTTTTGTCCCTTAGTGGCGTTTTTGT
**
890235 AATAAATGCCGCAATAGTT
66 AATAAATGAAGCAATAGTT
*
890254 TTGTCCTTTAGTGGCGTTTTT-AATATAAACGCCGC
1 TTGTCCTTTAGTGGCGTTTTTGTA-ATAAACGCCGC
890289 CATTGTTCAT
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
83 1 0.01
84 110 0.99
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (84 bp):
TTGTCCTTTAGTGGCGTTTTTGTAATAAACGCCGCAATAGTTTTGTCCCTTAGTGGCGTTTTTGT
AATAAATGAAGCAATAGTT
Found at i:893350 original size:16 final size:16
Alignment explanation
Indices: 893319--893352 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
893309 CTTGCTCCCA
893319 TAAAATTTTATCAATT
1 TAAAATTTTATCAATT
893335 TAAAAGTTTTAT-AATT
1 TAAAA-TTTTATCAATT
893351 TA
1 TA
893353 GGAGTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
TAAAATTTTATCAATT
Found at i:901368 original size:21 final size:21
Alignment explanation
Indices: 901342--901388 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
901332 AGAGTTTTAC
901342 AATACTGAAATTTAAATAATT
1 AATACTGAAATTTAAATAATT
901363 AATACTGAAATTTAAATAATT
1 AATACTGAAATTTAAATAATT
*
901384 CATAC
1 AATAC
901389 AACAACAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (21 bp):
AATACTGAAATTTAAATAATT
Found at i:901434 original size:22 final size:22
Alignment explanation
Indices: 901406--901949 Score: 748
Period size: 22 Copynumber: 24.5 Consensus size: 22
901396 ATAATAATTT
*
901406 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
*
901428 TTCTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
901450 TTTTAAAATAAATCAATCAATA
1 TTTTAAAATAAATCAATCCATA
901472 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
901494 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
901516 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
901538 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*** *
901560 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
901582 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
901604 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
901626 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *** *
901648 TTTTGAAATAAATGTTTTCATA
1 TTTTAAAATAAATCAATCCATA
*
901670 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
901692 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
901714 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
*
901736 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
* *** *
901758 TTTTGAAATAAATGTTTTCATA
1 TTTTAAAATAAATCAATCCATA
**
901780 TTTTAAAATAAATCAATATATATATA
1 TTTTAAAATAAATC---A-ATCCATA
901806 TATATTAAAATAAATCAATCCATA
1 T-T-TTAAAATAAATCAATCCATA
901830 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
901852 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
901874 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
901896 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
901918 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
901940 TTTTAAAATA
1 TTTTAAAATA
901950 GATTTAAATG
Statistics
Matches: 458, Mismatches: 56, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
21 4 0.01
22 424 0.93
23 5 0.01
24 6 0.01
25 1 0.00
26 5 0.01
27 1 0.00
28 12 0.03
ACGTcount: A:0.48, C:0.10, G:0.01, T:0.41
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:906673 original size:5 final size:5
Alignment explanation
Indices: 906663--906709 Score: 67
Period size: 5 Copynumber: 9.4 Consensus size: 5
906653 CGAACGTTGG
* * *
906663 TGTAA TGTAA TGTAA TGTAA TGTAA TGTAA TGCAA TGCAA TGCAA TG
1 TGTAA TGTAA TGTAA TGTAA TGTAA TGTAA TGTAA TGTAA TGTAA TG
906710 AGAGTACAGC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.34
Consensus pattern (5 bp):
TGTAA
Found at i:907328 original size:3 final size:3
Alignment explanation
Indices: 907322--907351 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
907312 TTTTTTCATT
907322 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
907352 AATAATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:908821 original size:2 final size:2
Alignment explanation
Indices: 908814--908843 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
908804 CATCTTAGTC
908814 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
908844 TTGTTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:908985 original size:16 final size:15
Alignment explanation
Indices: 908953--908983 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
908943 ATAAAAATTA
*
908953 TATTTAATTTAGTTT
1 TATTTAAATTAGTTT
908968 TATTTAAATTAGTTT
1 TATTTAAATTAGTTT
908983 T
1 T
908984 TAGGAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TATTTAAATTAGTTT
Found at i:909127 original size:17 final size:18
Alignment explanation
Indices: 909107--909142 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
909097 TTTATAAAAA
909107 TATAAAAAAT-ATATATT
1 TATAAAAAATAATATATT
*
909124 TATAAAAATTAATATATT
1 TATAAAAAATAATATATT
909142 T
1 T
909143 TCTTGGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATAAAAAATAATATATT
Found at i:910541 original size:35 final size:35
Alignment explanation
Indices: 910502--910570 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
910492 AGTTATTTCA
910502 TAACTTTTAATAATCAA-AGGACTTAACAAAACAAG
1 TAACTTTTAATAATCAATA-GACTTAACAAAACAAG
*
910537 TAACTTTTAATAATCAATAGACTTAATAAAACAA
1 TAACTTTTAATAATCAATAGACTTAACAAAACAA
910571 TACCCTTTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 31 0.97
36 1 0.03
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (35 bp):
TAACTTTTAATAATCAATAGACTTAACAAAACAAG
Found at i:912797 original size:31 final size:31
Alignment explanation
Indices: 912737--912798 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
912727 GTTACTCATC
*
912737 AAATTGAACGTTTGGGATGTGACTGATTTTG
1 AAATTGAACGTTTGGGATGTGACTAATTTTG
912768 AAATTGAACGTTTGGGATGTGAGC-AATTTTG
1 AAATTGAACGTTTGGGATGTGA-CTAATTTTG
912799 TGCCAATCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.27, C:0.06, G:0.29, T:0.37
Consensus pattern (31 bp):
AAATTGAACGTTTGGGATGTGACTAATTTTG
Found at i:915335 original size:29 final size:29
Alignment explanation
Indices: 915293--915407 Score: 131
Period size: 29 Copynumber: 3.9 Consensus size: 29
915283 TACCGGGGGT
*
915293 AGGTCGCCATGCACGCCCGGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
***
915322 AGGTCGCCATGCACGCCCAGCGACCTGGT
1 AGGTCGCCATGCACGCCCAGCGACCTACC
* *
915351 AGGTCGCCATGCATGCCCTGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
** *
915380 AGCAACGCCCATGCACGCCCAACGACCT
1 AG-GTCG-CCATGCACGCCCAGCGACCT
915408 CCATGCACGC
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
29 51 0.73
30 2 0.03
31 17 0.24
ACGTcount: A:0.20, C:0.43, G:0.25, T:0.12
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCAGCGACCTACC
Found at i:915380 original size:58 final size:60
Alignment explanation
Indices: 915290--915407 Score: 177
Period size: 58 Copynumber: 2.0 Consensus size: 60
915280 CAGTACCGGG
** *
915290 GGTAGGTCGCCATGCACGCCCGGCGACCTACCAG-GTCG-CCATGCACGCCCAGCGACCT
1 GGTAGGTCGCCATGCACGCCCGGCGACCTACCAGCAACGCCCATGCACGCCCAACGACCT
* *
915348 GGTAGGTCGCCATGCATGCCCTGCGACCTACCAGCAACGCCCATGCACGCCCAACGACCT
1 GGTAGGTCGCCATGCACGCCCGGCGACCTACCAGCAACGCCCATGCACGCCCAACGACCT
915408 CCATGCACGC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
58 32 0.60
59 2 0.04
60 19 0.36
ACGTcount: A:0.19, C:0.42, G:0.26, T:0.13
Consensus pattern (60 bp):
GGTAGGTCGCCATGCACGCCCGGCGACCTACCAGCAACGCCCATGCACGCCCAACGACCT
Found at i:915420 original size:30 final size:30
Alignment explanation
Indices: 915357--915510 Score: 211
Period size: 30 Copynumber: 5.1 Consensus size: 30
915347 TGGTAGGTCG
* **
915357 CCATGCATGCCCTGCGACCTACCA-GCAACGC
1 CCATGCACGCCCAACGACCT-CCATGC-ACGC
915388 CCATGCACGCCCAACGACCTCCATGCACGC
1 CCATGCACGCCCAACGACCTCCATGCACGC
* *
915418 CCATGAACGCCCAACGACCTCCATGCATGC
1 CCATGCACGCCCAACGACCTCCATGCACGC
* * *
915448 CCAGGCACGTCCAACGACCTCCATGCACGG
1 CCATGCACGCCCAACGACCTCCATGCACGC
915478 CCATGCACGCCCAACGACCTCCATGCACGC
1 CCATGCACGCCCAACGACCTCCATGCACGC
915508 CCA
1 CCA
915511 GCTCGCCAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
30 90 0.83
31 19 0.17
ACGTcount: A:0.24, C:0.47, G:0.18, T:0.11
Consensus pattern (30 bp):
CCATGCACGCCCAACGACCTCCATGCACGC
Found at i:916183 original size:21 final size:21
Alignment explanation
Indices: 916158--916201 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
916148 AATTTAGTTA
916158 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
916179 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
916200 AT
1 AT
916202 ATTATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:916215 original size:28 final size:28
Alignment explanation
Indices: 916178--916231 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
916168 TAGTATAAAT
*
916178 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAATTTGTTAGTTTAAGTTATATTA
916206 TATTAATTTGTTAGTTTAAGTTATAT
1 TATTAATTTGTTAGTTTAAGTTATAT
916232 ATTAGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (28 bp):
TATTAATTTGTTAGTTTAAGTTATATTA
Found at i:919428 original size:11 final size:11
Alignment explanation
Indices: 919412--919498 Score: 54
Period size: 11 Copynumber: 7.6 Consensus size: 11
919402 TATGATTTGA
919412 TAGTAATGATT
1 TAGTAATGATT
919423 TAGTAATGATT
1 TAGTAATGATT
* *
919434 AGTAATAATGAAAT
1 --TAGTAATG-ATT
* * *
919448 TATTATTAATT
1 TAGTAATGATT
919459 T--TAATGATTT
1 TAGTAATGA-TT
919469 GATAGTAATGATT
1 --TAGTAATGATT
919482 TAGTAATGA-T
1 TAGTAATGATT
919492 TAGTAAT
1 TAGTAAT
919499 AATGAAATTA
Statistics
Matches: 60, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
9 4 0.07
10 10 0.17
11 23 0.38
12 6 0.10
13 9 0.15
14 8 0.13
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (11 bp):
TAGTAATGATT
Found at i:919436 original size:21 final size:20
Alignment explanation
Indices: 919412--919499 Score: 58
Period size: 21 Copynumber: 4.4 Consensus size: 20
919402 TATGATTTGA
919412 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* * *
919433 TAGTAATA-AT-GAAATTAT
1 TAGTAATATTTAGTAATGAT
* * *
919451 TATTAAT-TTTAATGATTTGA-
1 TAGTAATATTTAGT-A-ATGAT
919471 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
919492 TAGTAATA
1 TAGTAATA
919500 ATGAAATTAT
Statistics
Matches: 48, Mismatches: 12, Indels: 15
0.64 0.16 0.20
Matches are distributed among these distances:
18 13 0.27
19 1 0.02
20 12 0.25
21 17 0.35
22 5 0.10
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (20 bp):
TAGTAATATTTAGTAATGAT
Found at i:919511 original size:119 final size:119
Alignment explanation
Indices: 919299--919668 Score: 583
Period size: 119 Copynumber: 3.1 Consensus size: 119
919289 GTATTTATAA
* *
919299 GATTTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTAATAGTAAT--TTG
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTTAATGATTTGATAGTAATGATT-
919362 ATAGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
64 -TAGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
919419 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAATGATTTA
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAATGATTTA
919484 GTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
66 GTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
* *
919538 GACTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATCGTAATGATTT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAA-TTTTAATGATTTGATAGTAATGATTT
* *
919603 AGTAATGATTAGTAATAAT----TTATTATTAA-TATTTAATGATTTGATATTAAT
65 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAAT
*
919654 GATTTTGTAATGATT
1 GATTTAGTAATGATT
919669 TGATAGTAAT
Statistics
Matches: 238, Mismatches: 8, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
115 4 0.02
116 38 0.16
119 112 0.47
120 82 0.34
121 2 0.01
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (119 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAATGATTTA
GTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
Found at i:919599 original size:179 final size:175
Alignment explanation
Indices: 919299--919668 Score: 568
Period size: 179 Copynumber: 2.1 Consensus size: 175
919289 GTATTTATAA
* *
919299 GATTTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATGTAATGATTTAATAGTAA-TTGAT
919364 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGTAA
65 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGTAA
919429 TGATTAGTAATAATGAAATTATTATTAAT-TTTAATGATTTGATAGTAAT
130 TGATTAGTAATAAT----TTATTATTAATATTTAATGATTTGATAGTAAT
*
919478 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAA-TGAC
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAA-TATGTAATGATTTAATAGTAATTGA-
* *
919541 TTAGTAATGATTAGTAATAATGAAATTATTATTAATT-TTTAATGATTTGATCGTAATGATTTAG
64 -TAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAATGATTTAG
*
919605 TAATGATTAGTAATAATTTATTATTAATATTTAATGATTTGATATTAAT
127 TAATGATTAGTAATAATTTATTATTAATATTTAATGATTTGATAGTAAT
*
919654 GATTTTGTAATGATT
1 GATTTAGTAATGATT
919669 TGATAGTAAT
Statistics
Matches: 179, Mismatches: 7, Indels: 13
0.90 0.04 0.07
Matches are distributed among these distances:
175 11 0.06
176 33 0.18
177 3 0.02
178 2 0.01
179 126 0.70
180 4 0.02
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (175 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATGTAATGATTTAATAGTAATTGATA
GTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGTAAT
GATTAGTAATAATTTATTATTAATATTTAATGATTTGATAGTAAT
Found at i:919608 original size:25 final size:25
Alignment explanation
Indices: 919580--919684 Score: 84
Period size: 25 Copynumber: 4.0 Consensus size: 25
919570 TATTAATTTT
*
919580 TAATGATTTGATCGTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
* * * * *
919605 TAATGATTAGTAATAATTTATTATTAATATT
1 TAATGATT--TGAT-AGTAATGATT--TA-G
* *
919636 TAATGATTTGATATTAATGATTTTG
1 TAATGATTTGATAGTAATGATTTAG
919661 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGATAGTAATGATTTA
919685 CGACTTGAAC
Statistics
Matches: 61, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
25 30 0.49
26 1 0.02
27 3 0.05
28 14 0.23
29 3 0.05
30 2 0.03
31 8 0.13
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.49
Consensus pattern (25 bp):
TAATGATTTGATAGTAATGATTTAG
Found at i:919652 original size:14 final size:14
Alignment explanation
Indices: 919636--919683 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
919626 TATTAATATT
*
919636 TAATGATTTGATAT
1 TAATGATTTGATAG
919650 TAATGATTT--T-G
1 TAATGATTTGATAG
919661 TAATGATTTGATAG
1 TAATGATTTGATAG
919675 TAATGATTT
1 TAATGATTT
919684 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:919678 original size:60 final size:60
Alignment explanation
Indices: 919299--919668 Score: 560
Period size: 60 Copynumber: 6.2 Consensus size: 60
919289 GTATTTATAA
* *
919299 GATTTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTAATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
919359 --TTGATAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAAT
1 GATT--TAGTAATGATTAGTAATAATGAAATTATTATTAA-TATTTAATGATTTGATAGTAAT
919419 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
919478 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAA-TATTTAATGATTTGATAGTAAT
* * *
919538 GACTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATCGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
919598 GATTTAGTAATGATTAGTAATAAT----TTATTATTAATATTTAATGATTTGATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
919654 GATTTTGTAATGATT
1 GATTTAGTAATGATT
919669 TGATAGTAAT
Statistics
Matches: 287, Mismatches: 14, Indels: 22
0.89 0.04 0.07
Matches are distributed among these distances:
56 43 0.15
58 4 0.01
59 58 0.20
60 174 0.61
61 6 0.02
62 2 0.01
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (60 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
Found at i:922030 original size:30 final size:31
Alignment explanation
Indices: 921993--922068 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
921983 TTTCCCTTAA
921993 ACAACTAATAAACTATTCTTTAA-TATAAATT
1 ACAACTAATAAACTATT-TTTAATTATAAATT
*
922024 A-AACTAATAAA-TGATTTTTAATTATAATTT
1 ACAACTAATAAACT-ATTTTTAATTATAAATT
* *
922054 ACTACTAAAAAACTA
1 ACAACTAATAAACTA
922069 ATTAACTCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
29 6 0.16
30 21 0.55
31 10 0.26
32 1 0.03
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.38
Consensus pattern (31 bp):
ACAACTAATAAACTATTTTTAATTATAAATT
Found at i:922270 original size:21 final size:21
Alignment explanation
Indices: 922246--922285 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
922236 TTTCTATATG
922246 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
922267 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
922286 ACTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:922423 original size:35 final size:37
Alignment explanation
Indices: 922384--922455 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 37
922374 TCTTTTATAT
922384 AACTT-AA-ACTAATAAACT-ATTTTTTATTATAATAA
1 AACTTAAACACTAATAAACTAATTTTTTA-TATAATAA
922419 AACTTAAACTACTAATAAACTAATTTTTTATATAATA
1 AACTTAAAC-ACTAATAAACTAATTTTTTATATAATA
922456 TAAATTCAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
35 5 0.15
36 2 0.06
38 18 0.55
39 8 0.24
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.42
Consensus pattern (37 bp):
AACTTAAACACTAATAAACTAATTTTTTATATAATAA
Found at i:922515 original size:27 final size:29
Alignment explanation
Indices: 922480--922544 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
922470 AAAATATAAC
*
922480 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
922507 TTAAATA-TTAGACTAACTAACACACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
922535 TTAATTATTT
1 TTAAATATTT
922545 TTTAATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAATATTTAGACTAACTAACAAACTAA
Found at i:922865 original size:12 final size:11
Alignment explanation
Indices: 922834--922869 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
922824 ACGTTCACGG
922834 GCTGCAATAAT
1 GCTGCAATAAT
*
922845 GCAGCAATAAGT
1 GCTGCAATAA-T
922857 GCTGCAATAAT
1 GCTGCAATAAT
922868 GC
1 GC
922870 AGTTGATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (11 bp):
GCTGCAATAAT
Found at i:923102 original size:33 final size:33
Alignment explanation
Indices: 923060--923125 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
923050 AAGCATGGAC
*
923060 TGCATGGTGACCTTTGGCGAGCTGGACGTGCAT
1 TGCATGGTGACCTTTGGCGAGATGGACGTGCAT
*
923093 TGCATGGTGACCTTTGGCGAGATGGGCGTGCAT
1 TGCATGGTGACCTTTGGCGAGATGGACGTGCAT
923126 GGGCGTGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.15, C:0.20, G:0.38, T:0.27
Consensus pattern (33 bp):
TGCATGGTGACCTTTGGCGAGATGGACGTGCAT
Found at i:923129 original size:10 final size:10
Alignment explanation
Indices: 923114--923149 Score: 72
Period size: 10 Copynumber: 3.6 Consensus size: 10
923104 CTTTGGCGAG
923114 ATGGGCGTGC
1 ATGGGCGTGC
923124 ATGGGCGTGC
1 ATGGGCGTGC
923134 ATGGGCGTGC
1 ATGGGCGTGC
923144 ATGGGC
1 ATGGGC
923150 ATGGAGGTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.11, C:0.19, G:0.50, T:0.19
Consensus pattern (10 bp):
ATGGGCGTGC
Found at i:923209 original size:29 final size:29
Alignment explanation
Indices: 923171--923255 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
923161 TGGCTGGTAG
*
923171 GTCGCAGGGCATGCATGGCGACCTACCAA
1 GTCGCAGGGCGTGCATGGCGACCTACCAA
* *** *
923200 GTCGCTGGGCGTGCATGGCGACCTGGTAG
1 GTCGCAGGGCGTGCATGGCGACCTACCAA
*
923229 GTCGCCGGGCGTGCATGGCGACCTACC
1 GTCGCAGGGCGTGCATGGCGACCTACC
923256 CCCGGTACTG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.16
Consensus pattern (29 bp):
GTCGCAGGGCGTGCATGGCGACCTACCAA
Found at i:923549 original size:20 final size:20
Alignment explanation
Indices: 923526--923597 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
923516 CACGGAATGT
*
923526 AAGATTATCGGTGGGAATAA
1 AAGATTACCGGTGGGAATAA
*
923546 AAGATTACCAGTGGGAATAA
1 AAGATTACCGGTGGGAATAA
*
923566 AAGATTACCAGAGAGGAGAATAA
1 AAGATTACC-G-GTGG-GAATAA
923589 AAGATTACC
1 AAGATTACC
923598 AGGGAATAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
20 27 0.60
22 3 0.07
23 15 0.33
ACGTcount: A:0.46, C:0.10, G:0.25, T:0.19
Consensus pattern (20 bp):
AAGATTACCGGTGGGAATAA
Found at i:923590 original size:23 final size:22
Alignment explanation
Indices: 923538--923599 Score: 92
Period size: 20 Copynumber: 2.9 Consensus size: 22
923528 GATTATCGGT
*
923538 GGGAATAAAAGATTACC--AGT
1 GGGAATAAAAGATTACCAGAGA
923558 GGGAATAAAAGATTACCAGAGA
1 GGGAATAAAAGATTACCAGAGA
923580 GGAGAATAAAAGATTACCAG
1 GG-GAATAAAAGATTACCAG
923600 GGAATAAGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
20 17 0.45
22 4 0.11
23 17 0.45
ACGTcount: A:0.48, C:0.10, G:0.26, T:0.16
Consensus pattern (22 bp):
GGGAATAAAAGATTACCAGAGA
Found at i:923778 original size:15 final size:15
Alignment explanation
Indices: 923760--923790 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
923750 AAATTCTGAA
923760 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
923775 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
923790 T
1 T
923791 CTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:925805 original size:93 final size:94
Alignment explanation
Indices: 925644--925833 Score: 292
Period size: 93 Copynumber: 2.0 Consensus size: 94
925634 ATATGTTTCG
* * * *
925644 AGTAGCAAGCACATGAACACTTGACAAACTTTTTACAGTTGCCGCTGAGACAAGAGGAAACACGA
1 AGTAGCAAACACATGAACACTAGAC-AACTTTTTACAATTGCCGCTGAGACAAGAGGAAACACAA
925709 AACAAGGAAAACCAACAGCATAAATGCATA
65 AACAAGGAAAACCAACAGCATAAATGCATA
* * *
925739 AGTAGCAAACACATGAACACTAGAC-ACTTTTTACAATTTCTGCTGAGACAAGCGGAAACACAAA
1 AGTAGCAAACACATGAACACTAGACAACTTTTTACAATTGCCGCTGAGACAAGAGGAAACACAAA
*
925803 ACAAGGAAAACCAACATCATAAATGCATA
66 ACAAGGAAAACCAACAGCATAAATGCATA
925832 AG
1 AG
925834 AAGCTTCAGA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
93 64 0.74
95 23 0.26
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (94 bp):
AGTAGCAAACACATGAACACTAGACAACTTTTTACAATTGCCGCTGAGACAAGAGGAAACACAAA
ACAAGGAAAACCAACAGCATAAATGCATA
Found at i:928571 original size:16 final size:17
Alignment explanation
Indices: 928547--928590 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
928537 AAAATTGGTT
928547 TTCAAGTCTTCAACAAC
1 TTCAAGTCTTCAACAAC
*
928564 TT-AAGTCTACAACAAC
1 TTCAAGTCTTCAACAAC
928580 TTCAA-TCTTCA
1 TTCAAGTCTTCA
928591 CGTAAGTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.32
Consensus pattern (17 bp):
TTCAAGTCTTCAACAAC
Found at i:936415 original size:36 final size:36
Alignment explanation
Indices: 936368--936447 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
936358 TTTTCTTAAG
936368 CACAAAAGATGAAGCGTTAGAAAATTTCATCATTTT
1 CACAAAAGATGAAGCGTTAGAAAATTTCATCATTTT
936404 CACAAAAGATGAAGCGTTAGAAAATTTCATCATTTT
1 CACAAAAGATGAAGCGTTAGAAAATTTCATCATTTT
936440 CACTAAAA
1 CAC-AAAA
936448 TAATTAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 39 0.91
37 4 0.09
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (36 bp):
CACAAAAGATGAAGCGTTAGAAAATTTCATCATTTT
Found at i:939969 original size:109 final size:110
Alignment explanation
Indices: 939694--940443 Score: 1073
Period size: 109 Copynumber: 6.8 Consensus size: 110
939684 TACCGAATGA
* * *
939694 CACTTTGTGTGCAAAAAGTTAAGAAATTCATATTAAGTGTATGAATTTCCGTATGGGCACTGTGT
1 CACTATGTGTGC-AAAA-TTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTATGT
*
939759 GTGCAAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCATATGGG
64 GTGC-AAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
*
939807 CACTATGTGTGCAAAAATTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTATGTG
1 CACTATGTGTGC-AAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTATGTG
939872 TGCAAAATTAAGAAATTCATACTAAG-GTATGAATTTCCGTATGGG
65 TGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
* * * *
939917 CACTATGTGTGCAAAATTAAGAAATTCATATTAACTGTATGAATTTCCGTATGGACACTATCTGT
1 CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTATGTGT
*
939982 GCGAAATTAAGAAATTCATACTAAGTGTATGAA-TTCCGTATGGG
66 GCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
** * * *
940026 CACTATGTGTGTGAAACTAAGAAATTCATACTAAGTGTATGAATTTCCATATGGGCGCTATGTGT
1 CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTATGTGT
* *
940091 GCAAAATTAAGAAATTCATACTAAGTGTAT-AAATTCTGTATGGG
66 GCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
* * ** * *
940135 CACTATGTATGCGAAATTAAGAAATTCATACTAAGTGTATGAATTT-TTTTTGGTCACTATGTGT
1 CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTATGTGT
* * *
940199 GCGAAATTAAGAAATTCATACTCAGTGTATGAATTTCCATATGGG
66 GCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
* * * *
940244 CACTATGTGTGCAAAATTAAGAAATTCATACTTAGTGTATGAATTTACGT-TTGGCATTATGTGT
1 CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTATGTGT
* *
940308 GCAAAATTAAAAAAATTCATACTAAGTGTATGAATTTCTGTATGGG
66 GCAAAATT-AAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
*
940354 CACTATGTGTGCGAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTATAG-G
1 CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTAT-GTG
* *
940418 TGCAAACA-TAAGAAAATCATAATAAG
65 TGCAAA-ATTAAGAAATTCATACTAAG
940444 GAGGTGAATT
Statistics
Matches: 573, Mismatches: 56, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
108 43 0.08
109 293 0.51
110 132 0.23
111 39 0.07
112 50 0.09
113 16 0.03
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (110 bp):
CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTATGTGT
GCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
Found at i:940454 original size:55 final size:55
Alignment explanation
Indices: 939694--940443 Score: 1073
Period size: 55 Copynumber: 13.6 Consensus size: 55
939684 TACCGAATGA
* *
939694 CACTTTGTGTGCAAAAAGTTAAGAAATTCATATTAAGTGTATGAATTTCCGTATGGG
1 CACTATGTGTGC-AAAA-TTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
* *
939751 CACTGTGTGTGCAAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCATATGGG
1 CACTATGTGTGC-AAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
*
939807 CACTATGTGTGCAAAAATTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGG
1 CACTATGTGTGC-AAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
939863 CACTATGTGTGCAAAATTAAGAAATTCATACTAAG-GTATGAATTTCCGTATGGG
1 CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
* * *
939917 CACTATGTGTGCAAAATTAAGAAATTCATATTAACTGTATGAATTTCCGTATGGA
1 CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
* *
939972 CACTATCTGTGCGAAATTAAGAAATTCATACTAAGTGTATGAA-TTCCGTATGGG
1 CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
** * *
940026 CACTATGTGTGTGAAACTAAGAAATTCATACTAAGTGTATGAATTTCCATATGGG
1 CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
* * *
940081 CGCTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTAT-AAATTCTGTATGGG
1 CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
* * ** * *
940135 CACTATGTATGCGAAATTAAGAAATTCATACTAAGTGTATGAATTT-TTTTTGGT
1 CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
* * *
940189 CACTATGTGTGCGAAATTAAGAAATTCATACTCAGTGTATGAATTTCCATATGGG
1 CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
* * *
940244 CACTATGTGTGCAAAATTAAGAAATTCATACTTAGTGTATGAATTTACGT-TTGG
1 CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
* * *
940298 CATTATGTGTGCAAAATTAAAAAAATTCATACTAAGTGTATGAATTTCTGTATGGG
1 CACTATGTGTGCAAAATT-AAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
*
940354 CACTATGTGTGCGAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
1 CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
* *
940409 CACTATAG-GTGCAAACA-TAAGAAAATCATAATAAG
1 CACTAT-GTGTGCAAA-ATTAAGAAATTCATACTAAG
940444 GAGGTGAATT
Statistics
Matches: 628, Mismatches: 57, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
54 218 0.35
55 271 0.43
56 123 0.20
57 16 0.03
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (55 bp):
CACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
Found at i:942440 original size:21 final size:21
Alignment explanation
Indices: 942416--942461 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
942406 TTTTGATCAA
* *
942416 CCTGTTTTTGTTCTAGTTGAC
1 CCTGTTTTTATTCTAGTTAAC
942437 CCTGTTTTTATTCTAGTTAAC
1 CCTGTTTTTATTCTAGTTAAC
942458 CCTG
1 CCTG
942462 GTTCTACGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.13, C:0.22, G:0.15, T:0.50
Consensus pattern (21 bp):
CCTGTTTTTATTCTAGTTAAC
Found at i:947189 original size:55 final size:55
Alignment explanation
Indices: 947029--947397 Score: 571
Period size: 55 Copynumber: 6.7 Consensus size: 55
947019 ATTATCGAAT
*
947029 GGCACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
1 GGCACTATGTGTGC-AAAA-TTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
* *
947086 GGCACTATGTGTGAAAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCATATG
1 GGCACTATGTGTG-CAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
* *
947142 GGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATAAATTTCTGTATG
1 GGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
*
947197 GGCACTATGTGTGCGAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
1 GGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
*
947252 GGCACTATGTGTGCGAAATTAAGAAATTCATACTAAGTGTATG-ATTTCCGTATG
1 GGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
* *
947306 GGCACTATGTGTGCAAAAATAAGAAATTCATACTAAGTGTATGAATTTCCGTATA
1 GGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
* * * *
947361 GGCACTGTATGTGCAAACA-TAAGAAAGTCATAATAAG
1 GGCACTATGTGTGCAAA-ATTAAGAAATTCATACTAAG
947398 GAGGTGAATT
Statistics
Matches: 292, Mismatches: 17, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
54 52 0.18
55 174 0.60
56 50 0.17
57 16 0.05
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
Found at i:947231 original size:28 final size:28
Alignment explanation
Indices: 947200--947291 Score: 69
Period size: 28 Copynumber: 3.3 Consensus size: 28
947190 CTGTATGGGC
*
947200 ACTATGTGTGCGAAATTAAGAAATTCAT
1 ACTAAGTGTGCGAAATTAAGAAATTCAT
** * ** * ****
947228 ACTAAGTGTATGAATTTCCG-TATGGGC
1 ACTAAGTGTGCGAAATTAAGAAATTCAT
*
947255 ACTATGTGTGCGAAATTAAGAAATTCAT
1 ACTAAGTGTGCGAAATTAAGAAATTCAT
947283 ACTAAGTGT
1 ACTAAGTGT
947292 ATGATTTCCG
Statistics
Matches: 40, Mismatches: 23, Indels: 2
0.62 0.35 0.03
Matches are distributed among these distances:
27 16 0.40
28 24 0.60
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (28 bp):
ACTAAGTGTGCGAAATTAAGAAATTCAT
Found at i:947260 original size:110 final size:109
Alignment explanation
Indices: 947029--947397 Score: 560
Period size: 109 Copynumber: 3.3 Consensus size: 109
947019 ATTATCGAAT
*
947029 GGCACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTAT
1 GGCACTATGTGTGC-AAAA-TTAAGAAATTCATACTAAGTGTAT-AATTTCCGTATGGGCACTAT
* *
947094 GTGTGAAAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCATATG
63 GTGTG-CAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
*
947142 GGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATAAATTTCTGTATGGGCACTATGT
1 GGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTAT-AATTTCCGTATGGGCACTATGT
*
947207 GTGCGAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
65 GTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
* *
947252 GGCACTATGTGTGCGAAATTAAGAAATTCATACTAAGTGTATGATTTCCGTATGGGCACTATGTG
1 GGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATAATTTCCGTATGGGCACTATGTG
* *
947317 TGCAAAAATAAGAAATTCATACTAAGTGTATGAATTTCCGTATA
66 TGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
* * * *
947361 GGCACTGTATGTGCAAACA-TAAGAAAGTCATAATAAG
1 GGCACTATGTGTGCAAA-ATTAAGAAATTCATACTAAG
947398 GAGGTGAATT
Statistics
Matches: 238, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
109 92 0.39
110 81 0.34
111 48 0.20
112 4 0.02
113 13 0.05
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (109 bp):
GGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATAATTTCCGTATGGGCACTATGTG
TGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
Found at i:947408 original size:164 final size:166
Alignment explanation
Indices: 947050--947397 Score: 540
Period size: 164 Copynumber: 2.1 Consensus size: 166
947040 TGCAAAAAGT
* *
947050 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTATGTGTGAAAAAATTAAGAAATT
1 TAAGAAAGTCATAATAAGTGTATGAATTTCCGTATGGGCACTATGTGTGAAAAAATTAAGAAATT
*
947115 CATACTAAGTGTATGAATTTCCATATGGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGT
66 CATACTAAGTGTATGAATTTCCATATGGGCACTATGTGTGCAAAAATAAGAAATTCATACTAAGT
* * * *
947180 GTATAAATTTCTGTATGGGCACTATGTGTGCGAAAT
131 GTATAAATTTCCGTATAGGCACTATATGTGCGAAAA
* * **
947216 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTATGTGTG-CGAAATTAAGAAATT
1 TAAGAAAGTCATAATAAGTGTATGAATTTCCGTATGGGCACTATGTGTGAAAAAATTAAGAAATT
*
947280 CATACTAAGTGTATG-ATTTCCGTATGGGCACTATGTGTGCAAAAATAAGAAATTCATACTAAGT
66 CATACTAAGTGTATGAATTTCCATATGGGCACTATGTGTGCAAAAATAAGAAATTCATACTAAGT
* *
947344 GTATGAATTTCCGTATAGGCACTGTATGTGC-AAACA
131 GTATAAATTTCCGTATAGGCACTATATGTGCGAAA-A
947380 TAAGAAAGTCATAATAAG
1 TAAGAAAGTCATAATAAG
947398 GAGGTGAATT
Statistics
Matches: 169, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
163 3 0.02
164 89 0.53
165 28 0.17
166 49 0.29
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (166 bp):
TAAGAAAGTCATAATAAGTGTATGAATTTCCGTATGGGCACTATGTGTGAAAAAATTAAGAAATT
CATACTAAGTGTATGAATTTCCATATGGGCACTATGTGTGCAAAAATAAGAAATTCATACTAAGT
GTATAAATTTCCGTATAGGCACTATATGTGCGAAAA
Found at i:948138 original size:28 final size:28
Alignment explanation
Indices: 948076--948189 Score: 116
Period size: 28 Copynumber: 4.2 Consensus size: 28
948066 TAGGGCAGAC
*
948076 ATTTTATTTGGTCC-AATAGGTAG--TGTA
1 ATTTTATTTAG-CCTAATAGGTAGATTG-A
948103 ATTTTATTTAGCCTAATAGGTAGATTGA
1 ATTTTATTTAGCCTAATAGGTAGATTGA
948131 ATTTTATTTAG-CTCAATAGGTAGATT--
1 ATTTTATTTAGCCT-AATAGGTAGATTGA
* * *
948157 -TTTTATTAAACCTAATAGGTAGATTGG
1 ATTTTATTTAGCCTAATAGGTAGATTGA
948184 ATTTTA
1 ATTTTA
948190 CTTTTTTTTT
Statistics
Matches: 76, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
25 20 0.26
26 4 0.05
27 21 0.28
28 29 0.38
29 2 0.03
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.45
Consensus pattern (28 bp):
ATTTTATTTAGCCTAATAGGTAGATTGA
Found at i:959930 original size:20 final size:20
Alignment explanation
Indices: 959893--959931 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
959883 CTCAAAATCA
* *
959893 TTTTTCAAAATTTCATTTTT
1 TTTTTCAAAATCTAATTTTT
959913 TTTTTCAAAATCTAATTTT
1 TTTTTCAAAATCTAATTTT
959932 CCTTTCAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTCAAAATCTAATTTTT
Found at i:960461 original size:15 final size:14
Alignment explanation
Indices: 960426--960479 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
960416 TACCTCCTCA
960426 TTCTTCTTGTTTTTC
1 TTCTTCTT-TTTTTC
960441 TT-TTCTTTATTTTC
1 TTCTTCTTT-TTTTC
*
960455 TTCTTCTTTGTCTTC
1 TTCTTCTTT-TTTTC
*
960470 TTCCTCTTTT
1 TTCTTCTTTT
960480 ACCATCAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 1 0.03
14 13 0.38
15 20 0.59
ACGTcount: A:0.02, C:0.22, G:0.04, T:0.72
Consensus pattern (14 bp):
TTCTTCTTTTTTTC
Found at i:964365 original size:21 final size:21
Alignment explanation
Indices: 964341--964380 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
964331 GCAATGTTAT
964341 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
964362 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
964381 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:964428 original size:33 final size:33
Alignment explanation
Indices: 964375--964473 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
964365 TTTGTTTCAA
964375 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
964407 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
964440 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
964473 T
1 T
964474 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:964502 original size:13 final size:13
Alignment explanation
Indices: 964459--964513 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
964449 TTGGAAGTAT
964459 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
964472 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
964486 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
964499 TTAAGTATTTGAA
1 TTAAGTATTTCAA
964512 TT
1 TT
964514 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:964735 original size:21 final size:21
Alignment explanation
Indices: 964709--964765 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
964699 TGGAGCGTGG
*
964709 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
964730 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
964751 GGGAATTGGTTCCCT
1 GGGAATCGGTTCCCT
964766 AAGTGTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.30
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:964956 original size:15 final size:15
Alignment explanation
Indices: 964931--964986 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
964921 ATCTGGAATA
*
964931 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
964946 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
964961 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
964978 TTAAAACCG
1 TTAAAACCG
964987 AAACCGATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:964970 original size:17 final size:18
Alignment explanation
Indices: 964950--964983 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
964940 GTTTTTTTAT
964950 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
964967 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
964984 CCGAAACCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:965103 original size:15 final size:17
Alignment explanation
Indices: 965077--965108 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
965067 TTCTATGAGA
965077 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
965093 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
965109 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:966504 original size:15 final size:15
Alignment explanation
Indices: 966484--966535 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
966474 TTTGAAAGTT
966484 TAAAAATATACAACC
1 TAAAAATATACAACC
* * **
966499 TAAAAAATTTTCAAAT
1 T-AAAAATATACAACC
966515 TAAAAATATACAACC
1 TAAAAATATACAACC
966530 TAAAAA
1 TAAAAA
966536 ATTTTCAAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAAAATATACAACC
Found at i:966506 original size:16 final size:16
Alignment explanation
Indices: 966485--966537 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
966475 TTGAAAGTTT
966485 AAAAATATACAACCTA
1 AAAAATATACAACCTA
* * * *
966501 AAAAATTTTCAA-ATT
1 AAAAATATACAACCTA
966516 AAAAATATACAACCTA
1 AAAAATATACAACCTA
966532 AAAAAT
1 AAAAAT
966538 TTTCAAAAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 11 0.39
16 17 0.61
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAATATACAACCTA
Found at i:966518 original size:31 final size:31
Alignment explanation
Indices: 966483--966544 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
966473 ATTTGAAAGT
966483 TTAAAAATATACAACCTAAAAAATTTTCAAA
1 TTAAAAATATACAACCTAAAAAATTTTCAAA
966514 TTAAAAATATACAACCTAAAAAATTTTCAAA
1 TTAAAAATATACAACCTAAAAAATTTTCAAA
966545 AAAATTGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (31 bp):
TTAAAAATATACAACCTAAAAAATTTTCAAA
Found at i:968632 original size:21 final size:21
Alignment explanation
Indices: 968582--968633 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
968572 ACCGTTATGG
* * *
968582 TATTAACATAGCAGTTTACGA
1 TATTAACGTGGCAGTCTACGA
968603 TATTAACGTGGCAGTCTACGA
1 TATTAACGTGGCAGTCTACGA
* *
968624 TGTTGACGTG
1 TATTAACGTG
968634 ACAATCCACG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (21 bp):
TATTAACGTGGCAGTCTACGA
Found at i:968798 original size:5 final size:5
Alignment explanation
Indices: 968789--968836 Score: 51
Period size: 6 Copynumber: 8.8 Consensus size: 5
968779 ATGTTTACGC
*
968789 TATTA CATTA TATTA TATTA TATATA TATATA TATATA TATATA TATT
1 TATTA TATTA TATTA TATTA TAT-TA TAT-TA TAT-TA TAT-TA TATT
968837 CATTGTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 17 0.43
6 23 0.57
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (5 bp):
TATTA
Found at i:968814 original size:2 final size:2
Alignment explanation
Indices: 968797--968835 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
968787 GCTATTACAT
968797 TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
968836 TCATTGTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:969962 original size:4 final size:4
Alignment explanation
Indices: 969953--970006 Score: 65
Period size: 4 Copynumber: 12.8 Consensus size: 4
969943 ATATGCATAT
969953 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTTTA TTTTA TTATA TTATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA TT-TA TT-TA
970004 TTT
1 TTT
970007 TTGTTGTTCC
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
3 3 0.06
4 27 0.57
5 17 0.36
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:970098 original size:10 final size:9
Alignment explanation
Indices: 970031--970119 Score: 65
Period size: 10 Copynumber: 9.6 Consensus size: 9
970021 TCTTTTGGTT
970031 TTTTTATTA
1 TTTTTATTA
**
970040 TTACTATTA
1 TTTTTATTA
* *
970049 TTGTTAATA
1 TTTTTATTA
970058 TTTTT-TTA
1 TTTTTATTA
970066 -TTTTACTTA
1 TTTTTA-TTA
970075 TTTTTATATA
1 TTTTTAT-TA
970085 TTTTTATTA
1 TTTTTATTA
* *
970094 CTTTTTGGTTT
1 -TTTTT-ATTA
970105 TTTATTATTA
1 TTT-TTATTA
970115 TTTTT
1 TTTTT
970120 TTCCTACAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
7 4 0.06
8 2 0.03
9 25 0.40
10 27 0.44
11 4 0.06
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.72
Consensus pattern (9 bp):
TTTTTATTA
Done.