Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_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: 5800122
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 26
Found at i:652171 original size:37 final size:36
Alignment explanation
Indices: 652118--652199 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 36
652108 CGAGCTTAAA
**
652118 ATCGAGCTTTTTAATCGAGCTTCTCAATCGAGCTTGC
1 ATCGAGCTTTTTAATCGAGC-TCAAAATCGAGCTTGC
**
652155 ATCGAG-TTTTTCAATCGAGCTCAAAATCGAGCTTTA
1 ATCGAGCTTTTT-AATCGAGCTCAAAATCGAGCTTGC
652191 ATCGAGCTT
1 ATCGAGCTT
652200 GAGTCTCGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 23 0.59
37 16 0.41
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (36 bp):
ATCGAGCTTTTTAATCGAGCTCAAAATCGAGCTTGC
Found at i:652209 original size:60 final size:60
Alignment explanation
Indices: 652105--652220 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 60
652095 AACGAGCTTG
* *
652105 AATCGAGCTTAAAATCGAGCTTTTTAATCGAGCTTCTCAATCGAGCTTGCATCGAGTTTTTC
1 AATCGAGCTCAAAATCGAGC-TTTTAATCGAGCTTCTC-ATCGAGCTTGAATCGAGTTTTTC
*
652167 AATCGAGCTCAAAATCGAGC-TTTAATCGAGCTTGAGTC-TCGAGCTTGAATCGAG
1 AATCGAGCTCAAAATCGAGCTTTTAATCGAGCTT--CTCATCGAGCTTGAATCGAG
652221 CTCTTAAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
60 28 0.57
62 21 0.43
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (60 bp):
AATCGAGCTCAAAATCGAGCTTTTAATCGAGCTTCTCATCGAGCTTGAATCGAGTTTTTC
Found at i:652554 original size:35 final size:34
Alignment explanation
Indices: 652452--652554 Score: 104
Period size: 35 Copynumber: 3.0 Consensus size: 34
652442 ATAATAGTAA
* *
652452 TAAAATT-AAAGAAAATAAAAAAATAAAGATAAAT
1 TAAAATTAAAAGAAAATAAATAAATAAATA-AAAT
* * *
652486 GAAATTTAGTAA-AAAATAAATAAAT-AATAAAAAT
1 TAAAATTA-AAAGAAAATAAATAAATAAAT-AAAAT
652520 TAAAATTAAAATGAAAATAAATAAATAAATAAAAT
1 TAAAATTAAAA-GAAAATAAATAAATAAATAAAAT
652555 AACCAAGGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
33 2 0.04
34 17 0.31
35 31 0.56
36 5 0.09
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (34 bp):
TAAAATTAAAAGAAAATAAATAAATAAATAAAAT
Found at i:653186 original size:14 final size:14
Alignment explanation
Indices: 653169--653196 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
653159 ATCATAACAA
653169 AATTATATAACTAT
1 AATTATATAACTAT
653183 AATTATATAACTAT
1 AATTATATAACTAT
653197 TCTTTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:655145 original size:37 final size:37
Alignment explanation
Indices: 655096--655307 Score: 192
Period size: 37 Copynumber: 5.9 Consensus size: 37
655086 TTTTTTTTTG
* * *
655096 TGTTTCAAGAGAAATTGTCTCAAGGGAGGCAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* *
655133 TGTTTCAAGAGAAACATAT-TC-A-A-AG-----ATTGG
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT-T
* *
655163 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* *
655200 TGTTTCAAGGGAAACTGTCTCAAGAAAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* *
655236 TGTTTCAAGAGAAACTGTCTCAAGAAAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * * * *
655273 AGTTCCAAAAGAAACTATCTCAAGGGAGACAAAAT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
655308 GGCTTCCTTT
Statistics
Matches: 144, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
29 5 0.03
30 16 0.11
31 1 0.01
32 1 0.01
33 2 0.01
34 2 0.01
36 36 0.25
37 77 0.53
38 4 0.03
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:655250 original size:36 final size:37
Alignment explanation
Indices: 655163--655306 Score: 200
Period size: 37 Copynumber: 3.9 Consensus size: 37
655153 CAAAGATTGG
* *
655163 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAAAGACAAAACTT
*
655200 TGTTTCAAGGGAAACTGTCTCAAGAAAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAAAGACAAAACTT
655236 TGTTTCAAGAGAAACTGTCTCAAGAAAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAAAGACAAAACTT
* * * * **
655273 AGTTCCAAAAGAAACTATCTCAAGGGAGACAAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAAAGACAAAA
655307 TGGCTTCCTT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
36 35 0.36
37 61 0.64
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAAAGACAAAACTT
Found at i:655257 original size:73 final size:73
Alignment explanation
Indices: 655163--655307 Score: 209
Period size: 73 Copynumber: 2.0 Consensus size: 73
655153 CAAAGATTGG
* * * * ** *
655163 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAAAG
1 TGTTTCAAGAGAAACTGTCTCAAGAAAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGAAAG
655228 ACAAAATT
66 ACAAAATT
**
655236 TGTTTCAAGAGAAACTGTCTCAAGAAAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAAAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGAAAG
655301 ACAAAAT
66 ACAAAAT
655308 GGCTTCCTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.23
Consensus pattern (73 bp):
TGTTTCAAGAGAAACTGTCTCAAGAAAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGAAAG
ACAAAATT
Found at i:656141 original size:95 final size:94
Alignment explanation
Indices: 655934--656179 Score: 303
Period size: 95 Copynumber: 2.6 Consensus size: 94
655924 AGCTGAATCC
* * * *
655934 ATAAAGCAGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTTAATATCATTGTATAGATATTAT
1 ATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTT-A-AGC-TT-TATTGACATTAT
* *
655999 AATCATCTTTATCAGGCTAGCTGAATATTATCC
62 AATCACCTTTATCAGGCTAGCTGAATATTATCA
** * *
656032 ATAAAGCCAAGGCGTTTAATCAATTGCTCTAGAGGGACAACTTAAGCTTTATTGTACATTATAAT
1 ATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTTAAGCTTTATTG-ACATTATAAT
*
656097 CACCTTTATCAGGCTAGCTGAATCTTATCA
65 CACCTTTATCAGGCTAGCTGAATATTATCA
* * * * *
656127 ATAAAGCCGGGGCGTTTAGCCAATTGCTTTTGAGGGATAGCTCAAGCTTTATT
1 ATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTTAAGCTTTATT
656180 ATATATATAA
Statistics
Matches: 127, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
94 4 0.03
95 82 0.65
96 2 0.02
97 1 0.01
98 38 0.30
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (94 bp):
ATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTTAAGCTTTATTGACATTATAATC
ACCTTTATCAGGCTAGCTGAATATTATCA
Found at i:659036 original size:22 final size:22
Alignment explanation
Indices: 659004--659054 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
658994 TGAAATTTAG
659004 TAAA-AAAAATGAAAAAAAATAA
1 TAAATAAAAATGAAAAAAAA-AA
*
659026 T-AATAAAAATGAAAAAGAAAA
1 TAAATAAAAATGAAAAAAAAAA
659047 TAAATAAA
1 TAAATAAA
659055 TAAAATAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (22 bp):
TAAATAAAAATGAAAAAAAAAA
Found at i:659060 original size:25 final size:22
Alignment explanation
Indices: 659004--659060 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 22
658994 TGAAATTTAG
*
659004 TAAAAAAAATGAAAAAAAATAA
1 TAAATAAAATGAAAAAAAATAA
659026 T-AATAAAAATGAAAAAGAAAATAAA
1 TAAAT-AAAATG-AAAA-AAAAT-AA
659051 TAAATAAAAT
1 TAAATAAAAT
659061 AACCAAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 2 0.07
22 7 0.24
23 4 0.14
24 5 0.17
25 8 0.28
26 3 0.10
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (22 bp):
TAAATAAAATGAAAAAAAATAA
Found at i:662855 original size:80 final size:80
Alignment explanation
Indices: 662764--662926 Score: 317
Period size: 80 Copynumber: 2.0 Consensus size: 80
662754 TATGTCTCTA
662764 ATTAATAAAAAAATCATAGATAAGGAAAATAATAATTTATTATAAATGTAGAGAGATTATAAAGA
1 ATTAATAAAAAAATCATAGATAAGGAAAATAATAATTTATTATAAATGTAGAGAGATTATAAAGA
662829 ACACAAATATATAAT
66 ACACAAATATATAAT
662844 ATTAATAAAAAAATCATAGATAAGGAAAATAATAATTTATTATAAATGTAGAGAGATTATAAAGA
1 ATTAATAAAAAAATCATAGATAAGGAAAATAATAATTTATTATAAATGTAGAGAGATTATAAAGA
*
662909 AGACAAATATATAAT
66 ACACAAATATATAAT
662924 ATT
1 ATT
662927 TATGTATCAA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.29
Consensus pattern (80 bp):
ATTAATAAAAAAATCATAGATAAGGAAAATAATAATTTATTATAAATGTAGAGAGATTATAAAGA
ACACAAATATATAAT
Found at i:664429 original size:31 final size:31
Alignment explanation
Indices: 664391--664449 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
664381 ATGGCGAATG
664391 ATCGATTTGTTATAAACCAATAACGTTAGTC
1 ATCGATTTGTTATAAACCAATAACGTTAGTC
*
664422 ATCGATTTGTTATAAACCAATAATGTTA
1 ATCGATTTGTTATAAACCAATAACGTTA
664450 ATGATTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (31 bp):
ATCGATTTGTTATAAACCAATAACGTTAGTC
Found at i:664461 original size:31 final size:31
Alignment explanation
Indices: 664395--664464 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
664385 CGAATGATCG
* *
664395 ATTTGTTATAAACCAATAACGTTAGTCATCG
1 ATTTGTTATAAACCAATAACGTTAATCATCA
* * *
664426 ATTTGTTATAAACCAATAATGTTAATGATTA
1 ATTTGTTATAAACCAATAACGTTAATCATCA
664457 ATTTGTTA
1 ATTTGTTA
664465 GTTTTAAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.41
Consensus pattern (31 bp):
ATTTGTTATAAACCAATAACGTTAATCATCA
Found at i:674735 original size:23 final size:24
Alignment explanation
Indices: 674694--674741 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
674684 ATGTGTTTTC
674694 TATTTTTTAAAAATATAT-AATTT
1 TATTTTTTAAAAATATATAAATTT
* *
674717 TATTTTTTAAAATTTTATAAATTT
1 TATTTTTTAAAAATATATAAATTT
674741 T
1 T
674742 TTAAAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TATTTTTTAAAAATATATAAATTT
Found at i:679931 original size:9 final size:9
Alignment explanation
Indices: 679914--680104 Score: 83
Period size: 9 Copynumber: 20.4 Consensus size: 9
679904 TTATTTTCTT
679914 TTTTATTTA
1 TTTTATTTA
*
679923 TTTTGTTTA
1 TTTTATTTA
*
679932 ---TATTCA
1 TTTTATTTA
679938 TTTTATTTA
1 TTTTATTTA
679947 TTTTATTT-
1 TTTTATTTA
*
679955 TATTTATCTA
1 T-TTTATTTA
*
679965 TTTTATGTTT
1 TTTTAT-TTA
679975 TCCTTTATCTTTA
1 T--TTTA--TTTA
679988 TCTTTATCTTA
1 T-TTTAT-TTA
*
679999 CTTTTTTTGTA
1 -TTTTATT-TA
*
680010 TTTTTTTTA
1 TTTTATTTA
*
680019 TCTTTTTTTA
1 T-TTTATTTA
680029 -TTTATTT-
1 TTTTATTTA
** *
680036 TTTGGTTTC
1 TTTTATTTA
*
680045 TTTATCTTTA
1 TTT-TATTTA
680055 TTTTATTTA
1 TTTTATTTA
680064 TTTTATTT-
1 TTTTATTTA
680072 TTTTACTTTA
1 TTTTA-TTTA
*
680082 TCTTATTT-
1 TTTTATTTA
680090 TCTTTATTTCA
1 T-TTTATTT-A
680101 TTTT
1 TTTT
680105 TTCCTTCATT
Statistics
Matches: 142, Mismatches: 18, Indels: 43
0.70 0.09 0.21
Matches are distributed among these distances:
6 4 0.03
8 18 0.13
9 63 0.44
10 33 0.23
11 10 0.07
12 10 0.07
13 3 0.02
14 1 0.01
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (9 bp):
TTTTATTTA
Found at i:679941 original size:24 final size:23
Alignment explanation
Indices: 679914--679958 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
679904 TTATTTTCTT
*
679914 TTTTATTTATTTTGTTTATATTCA
1 TTTTATTTATTTTATTT-TATTCA
679938 TTTTATTTATTTTATTTTATT
1 TTTTATTTATTTTATTTTATT
679959 TATCTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTATTTATTTTATTTTATTCA
Found at i:679951 original size:5 final size:5
Alignment explanation
Indices: 679904--680104 Score: 81
Period size: 5 Copynumber: 40.4 Consensus size: 5
679894 ATTTTTACTA
* * * *
679904 TTATT TTCTT TTTTAT TTATT TT-GT TTATAT TCATT TTA-T TTATT TTATT
1 TTATT TTATT TTAT-T TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT
* *
679954 TTA-T TTA-T CTATT TTATGT TT-TCCT TTATCT TTATCT TTATC TTACTT
1 TTATT TTATT TTATT TTAT-T TTAT--T TTAT-T TTAT-T TTATT TTA-TT
680002 TT-TT TGTATT TT-TT TTATCT TT-TT TTA-T TTATT TT-TT GGTT-TCT
1 TTATT T-TATT TTATT TTAT-T TTATT TTATT TTATT TTATT --TTAT-T
* * *
680046 TTATCT TTATT TTA-T TTATT TTA-T TT-TT TTACT TTATC TTATT TT-CT
1 TTAT-T TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
*
680093 TTATT TCATT TT
1 TTATT TTATT TT
680105 TTCCTTCATT
Statistics
Matches: 153, Mismatches: 20, Indels: 46
0.70 0.09 0.21
Matches are distributed among these distances:
4 43 0.28
5 63 0.41
6 45 0.29
7 2 0.01
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:680021 original size:31 final size:29
Alignment explanation
Indices: 679913--680098 Score: 116
Period size: 27 Copynumber: 6.4 Consensus size: 29
679903 ATTATTTTCT
* * * *
679913 TTTTTATTTATTTTGTTTATATTCATTTTA
1 TTTTT-TTTATTTTTTTTATCTTTATCTTA
* * *
679943 TTTATTTTATTTTATTTATC--TATTTTA
1 TTTTTTTTATTTTTTTTATCTTTATCTTA
** * *
679970 TGTTTTCCT-TTATCTTTATCTTTATCTTA
1 T-TTTTTTTATTTTTTTTATCTTTATCTTA
*
679999 CTTTTTTTGTATTTTTTTTATCTTT-TTTTA
1 -TTTTTTT-TATTTTTTTTATCTTTATCTTA
* *
680029 TTTATTTTT-TGGTTTCTTTATCTTTATTTTA
1 TTT-TTTTTAT--TTTTTTTATCTTTATCTTA
*
680060 TTTATTTTA-TTTTTTTA-CTTTATCTTA
1 TTTTTTTTATTTTTTTTATCTTTATCTTA
*
680087 TTTTCTTTATTT
1 TTTTTTTTATTT
680099 CATTTTTTCC
Statistics
Matches: 123, Mismatches: 21, Indels: 26
0.72 0.12 0.15
Matches are distributed among these distances:
27 32 0.26
28 14 0.11
29 27 0.22
30 30 0.24
31 20 0.16
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (29 bp):
TTTTTTTTATTTTTTTTATCTTTATCTTA
Found at i:680055 original size:67 final size:65
Alignment explanation
Indices: 679919--680098 Score: 197
Period size: 67 Copynumber: 2.8 Consensus size: 65
679909 TTCTTTTTTA
* * * * *
679919 TTTATTTTGTTTATATTCATTTTATTTATTTTAT-TTTATTTATCTATTTTATGTTTTCCTTTAT
1 TTTATTTTATTTAT-TTTATTTTATTTATTTTATCTTTTTTTATTTATTTTATGGTTTCCTTTAT
679983 C
65 C
* *
679984 TTTATCTTTATCTTACTTTT-TTTGTATTTTTTTTATCTTTTTTTATTTATTTTTTGGTTT-CTT
1 TTTAT-TTTAT-TTA-TTTTATTT-TATTTATTTTATCTTTTTTTATTTATTTTATGGTTTCCTT
680047 TATC
62 TATC
* * *
680051 TTTATTTTATTTATTTTATTTT-TTTACTTTATCTTATTTTCTTTATTT
1 TTTATTTTATTTATTTTATTTTATTTATTTTATCTTTTTTTATTTATTT
680099 CATTTTTTCC
Statistics
Matches: 98, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
63 22 0.22
64 5 0.05
65 11 0.11
66 12 0.12
67 28 0.29
68 20 0.20
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (65 bp):
TTTATTTTATTTATTTTATTTTATTTATTTTATCTTTTTTTATTTATTTTATGGTTTCCTTTATC
Found at i:685532 original size:23 final size:23
Alignment explanation
Indices: 685449--685524 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
685439 CATTATTATA
685449 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
685472 TGGCACTACGGTGTAATTCTATG
1 TGGCACTACGGTGCAATTCTACG
685495 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
685518 CGGCACT
1 TGGCACT
685525 CCAGTGCATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:686289 original size:31 final size:31
Alignment explanation
Indices: 686251--686404 Score: 274
Period size: 31 Copynumber: 5.0 Consensus size: 31
686241 CCCGAAGGAC
* *
686251 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
686282 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
686313 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
686344 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
686375 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
686405 CCCTCGACCC
Statistics
Matches: 120, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
31 119 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:687105 original size:21 final size:21
Alignment explanation
Indices: 687075--687119 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
687065 ATTCTGTCGT
* *
687075 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
687096 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
687117 TTG
1 TTG
687120 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:690805 original size:31 final size:31
Alignment explanation
Indices: 690767--690889 Score: 203
Period size: 31 Copynumber: 4.0 Consensus size: 31
690757 CCCGAAGGAC
* *
690767 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
690798 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
690829 CAGTCCATATGTCCCGAAGAACATAGGAAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
690860 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
690890 CCCTCGACCC
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 86 0.99
32 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:691593 original size:21 final size:21
Alignment explanation
Indices: 691563--691607 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
691553 ATTCTATCGT
* *
691563 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
691584 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
691605 TTG
1 TTG
691608 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:692310 original size:2 final size:2
Alignment explanation
Indices: 692303--692328 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
692293 GGATGTTACA
692303 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
692329 GATGGATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:692486 original size:18 final size:18
Alignment explanation
Indices: 692463--692497 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
692453 AAATAATTTG
*
692463 ATGATAATGATATAAATA
1 ATGATAATAATATAAATA
692481 ATGATAATAATATAAAT
1 ATGATAATAATATAAAT
692498 GATAATGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (18 bp):
ATGATAATAATATAAATA
Found at i:692500 original size:15 final size:13
Alignment explanation
Indices: 692466--692503 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
692456 TAATTTGATG
692466 ATAATGAT-ATAA
1 ATAATGATAATAA
692478 ATAATGATAATAA
1 ATAATGATAATAA
692491 TATAAATGATAAT
1 -AT-AATGATAAT
692504 GCTAAGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 2 0.09
15 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (13 bp):
ATAATGATAATAA
Found at i:695223 original size:48 final size:48
Alignment explanation
Indices: 695170--695265 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
695160 CTTCTTCTCC
*
695170 TTTCTTCTTCATGCATGGAAGCCAAGAGCTAAGGTGAGAATTTTTATT
1 TTTCTTCTTCACGCATGGAAGCCAAGAGCTAAGGTGAGAATTTTTATT
695218 TTTCTTCTTCACGCATGGAAGCCAAGAGCTAAGGTGAGAATTTTTATT
1 TTTCTTCTTCACGCATGGAAGCCAAGAGCTAAGGTGAGAATTTTTATT
695266 AGTTGATTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (48 bp):
TTTCTTCTTCACGCATGGAAGCCAAGAGCTAAGGTGAGAATTTTTATT
Found at i:703161 original size:21 final size:21
Alignment explanation
Indices: 703135--703197 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
703125 TTTTGGTGCA
*
703135 GAGGGAATCGATTCCCCCCCT
1 GAGGGAACCGATTCCCCCCCT
* **
703156 GAGGGAACCGATTCCTCCTTT
1 GAGGGAACCGATTCCCCCCCT
703177 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
703198 ACAGGGGAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 18 0.53
22 1 0.03
23 15 0.44
ACGTcount: A:0.21, C:0.35, G:0.25, T:0.19
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCCT
Found at i:703205 original size:21 final size:21
Alignment explanation
Indices: 703179--703218 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
703169 CCTCCTTTGA
*
703179 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
703200 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
703219 TGGGGTTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:705490 original size:27 final size:24
Alignment explanation
Indices: 705459--705516 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 24
705449 ATTTAACAAA
705459 AAGGGGGAGAAGAATAAGTGTTAAAGT
1 AAGGGGGAG-AG--TAAGTGTTAAAGT
705486 AA-GGGG-GAGTAAGTGTTAAAGT
1 AAGGGGGAGAGTAAGTGTTAAAGT
705508 AAGGGGGAG
1 AAGGGGGAG
705517 TAATTTCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 15 0.52
23 4 0.14
24 3 0.10
25 1 0.03
26 4 0.14
27 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (24 bp):
AAGGGGGAGAGTAAGTGTTAAAGT
Found at i:705498 original size:22 final size:22
Alignment explanation
Indices: 705473--705519 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
705463 GGGAGAAGAA
705473 TAAGTGTTAAAGTAAGGGGGAG
1 TAAGTGTTAAAGTAAGGGGGAG
705495 TAAGTGTTAAAGTAAGGGGGAG
1 TAAGTGTTAAAGTAAGGGGGAG
705517 TAA
1 TAA
705520 TTTCTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (22 bp):
TAAGTGTTAAAGTAAGGGGGAG
Found at i:706760 original size:14 final size:14
Alignment explanation
Indices: 706741--706776 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
706731 AGAGATAAGT
706741 AATATGAATGTGTG
1 AATATGAATGTGTG
706755 AATATGAATGTGTG
1 AATATGAATGTGTG
706769 AATATGAA
1 AATATGAA
706777 ATGAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (14 bp):
AATATGAATGTGTG
Found at i:707012 original size:23 final size:23
Alignment explanation
Indices: 706982--707065 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
706972 CATTATTATA
706982 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
707005 TGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTACG
707028 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* * *
707051 CGACACTTCGGTGCA
1 TGGCACTACGGTGCA
707066 TTTATACGAG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:707347 original size:18 final size:18
Alignment explanation
Indices: 707324--707358 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
707314 AAATAATTTG
*
707324 ATGATAATGATATAAATA
1 ATGATAATAATATAAATA
707342 ATGATAATAATATAAAT
1 ATGATAATAATATAAAT
707359 GATAATGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (18 bp):
ATGATAATAATATAAATA
Found at i:707361 original size:15 final size:13
Alignment explanation
Indices: 707327--707364 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
707317 TAATTTGATG
707327 ATAATGAT-ATAA
1 ATAATGATAATAA
707339 ATAATGATAATAA
1 ATAATGATAATAA
707352 TATAAATGATAAT
1 -AT-AATGATAAT
707365 GCTAAGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 2 0.09
15 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (13 bp):
ATAATGATAATAA
Found at i:708993 original size:95 final size:95
Alignment explanation
Indices: 708829--709007 Score: 306
Period size: 95 Copynumber: 1.9 Consensus size: 95
708819 TAATATTATT
* * *
708829 TATACAATAAAGCTTGAGTTGTTCCTCTAGAGCAATTGGTTAAATGCCCCGGCTTTATGGATAAT
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAG
*
708894 ATTCAGCTAGCCTGATAAATATGATTATAC
66 ATTCAGCTAACCTGATAAATATGATTATAC
708924 TATACAATAAAGCTTGAGTTGTCCCTCTA-AGGCAATTGGTTAAACGCCCCGGCTTTATGGATAA
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGA-GCAATTGGTTAAACGCCCCGGCTTTATGGATAA
708988 GATTCAGCTAACCTGATAAA
65 GATTCAGCTAACCTGATAAA
709008 GGTTTTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
94 1 0.01
95 78 0.99
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAG
ATTCAGCTAACCTGATAAATATGATTATAC
Found at i:710396 original size:32 final size:36
Alignment explanation
Indices: 710323--710560 Score: 211
Period size: 36 Copynumber: 6.9 Consensus size: 36
710313 AAACAAGGGG
710323 TTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATT
1 TTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATT
*
710359 CTGTCTCTCTTGAGACA-TTT-T-TT-AAACAAATT
1 TTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATT
*** * * *
710391 TTGTCTCTCTTGAGATGGTTTCCCTTGAAACAAAAACT
1 TTGTCTCTCTTGAGACATTTTCTCTT-AAA-ACAAATT
**
710429 TTG--AAT-TT--G---TTTTC-C--AAAACAAAGTT
1 TTGTCTCTCTTGAGACATTTTCTCTTAAAACAAA-TT
710455 TTGTCTCTCTTGAGACAGTTTT-TCTTAAAACAAATT
1 TTGTCTCTCTTGAGACA-TTTTCTCTTAAAACAAATT
710491 TTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATT
1 TTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATT
** * *
710527 TTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAA
1 TTGTCTCTCTTGAGACATTTTCTCTTAAAACAAA
710561 AACTTTGAAT
Statistics
Matches: 164, Mismatches: 18, Indels: 40
0.74 0.08 0.18
Matches are distributed among these distances:
25 4 0.02
26 7 0.04
28 1 0.01
29 3 0.02
30 4 0.02
31 1 0.01
32 23 0.14
33 6 0.04
34 1 0.01
35 16 0.10
36 80 0.49
37 10 0.06
38 8 0.05
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.42
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATT
Found at i:710522 original size:100 final size:95
Alignment explanation
Indices: 710349--710982 Score: 453
Period size: 102 Copynumber: 6.3 Consensus size: 95
710339 ATTTTCTCTT
**
710349 AAAACAAATTCTGTCTCTCTTGAGACATTTTTTAAACAAATTTTGTCTCTCTTGAGATGGTTTCC
1 AAAACAAATTCTGTCTCTCTTGAGACATTTTTTAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
*
710414 CTTGAAACAAAAACTTTGAATTTGTTTTCC
66 CTTAAAACAAAAACTTTGAATTTGTTTTCC
* *
710444 AAAACAAAGTTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAATTTTGTCTCTCTTGAGACAT
1 AAAACAAA-TTCTGTCTCTCTTGAGACA--TTTT-TT-AAACAAATTTTGTCTCTCTTGAGACAG
* ** ** *
710509 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGA-CGGTTTCCC
61 TTTCCCTTAAAACAAA------AACT-TTGA-ATTTGTTTTCC
* ** *** * *
710551 TTGAAACAAAAACT-T-TGAATT-TG---TTTTCCTTGAAACAAAATTTTGTCTCTCTTGAGACG
1 --AAAACAAATTCTGTCTCTCTTGAGACATTTT--TT-AAAC-AAATTTTGTCTCTCTTGAGACA
* *
710610 GTTTCCCTTGAAAAC-TAAACTTTGAATTTGTTCTCC
60 GTTTCCCTT-AAAACAAAAACTTTGAATTTGTTTTCC
*
710646 TTAAAACAAAATTATGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAC
1 --AAAAC-AAATTCTGTCTCTCTTGAGACA-TTT-T-TT-AAACAAATTTTGTCTCTCTTGAGAC
* *
710711 GGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCC
59 AGTTTCCCTTAAAACAAAAACTTTGAATTTGTTTTCC
* * *
710748 TTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTTATACAAATTTTGTCTCTCTTGAGAC
1 --AAAACAAA-TTCTGTCTCTCTTGAGACA--TT-T-TTTAAACAAATTTTGTCTCTCTTGAGAC
** * *
710813 AGTTTCCCTTGCAACAAAATCTTTGAATCTGTTTTCC
59 AGTTTCCCTTAAAACAAAAACTTTGAATTTGTTTTCC
*
710850 TTAAAACAAATT-TCGTCTCCCTTGAGACAGTTTCTTTCAAAACAAATTTTGTCTCTCTTGAGAC
1 --AAAACAAATTCT-GTCTCTCTTGAGACA-TTT-TTT--AAACAAATTTTGTCTCTCTTGAGAC
* * * * *
710914 GGTTTTCCTTAAAGCAAAATCTTTGAA-TCGTTTTCC
59 AGTTTCCCTTAAAACAAAAACTTTGAATTTGTTTTCC
*
710950 TTTAAACAAATT-TCGTCTCTCTTGAGACATTTT
1 --AAAACAAATTCT-GTCTCTCTTGAGACATTTT
710983 CTCTTAAAAT
Statistics
Matches: 442, Mismatches: 62, Indels: 67
0.77 0.11 0.12
Matches are distributed among these distances:
94 1 0.00
95 23 0.05
96 24 0.05
97 1 0.00
98 8 0.02
99 11 0.02
100 79 0.18
101 76 0.17
102 169 0.38
103 20 0.05
104 4 0.01
105 1 0.00
106 5 0.01
107 11 0.02
108 2 0.00
109 7 0.02
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (95 bp):
AAAACAAATTCTGTCTCTCTTGAGACATTTTTTAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
CTTAAAACAAAAACTTTGAATTTGTTTTCC
Found at i:710575 original size:136 final size:134
Alignment explanation
Indices: 710323--710613 Score: 471
Period size: 136 Copynumber: 2.2 Consensus size: 134
710313 AAACAAGGGG
710323 TTGTCTCTCTTGAGACA-TTTTCTCTTAAAACAAATTCTGTCTCTCTTGAGACATTTTTTAAACA
1 TTGTCTCTCTTGAGACAGTTTTCTCTTAAAACAAATTCTGTCTCTCTTGAGACATTTTTTAAACA
*
710387 AATTTTGTCTCTCTTGAGATGGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCC-AAAACAA
66 AATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTAAAACAA
*
710451 AGTT
131 AATT
*
710455 TTGTCTCTCTTGAGACAGTTTT-TCTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTAA
1 TTGTCTCTCTTGAGACAGTTTTCTCTTAAAACAAATTCTGTCTCTCTTGAGACA-TTT-T-TT-A
*
710519 AACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTTGA
62 AACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCC-TAA
710584 AACAAAATT
126 AACAAAATT
*
710593 TTGTCTCTCTTGAGACGGTTT
1 TTGTCTCTCTTGAGACAGTTT
710614 CCCTTGAAAA
Statistics
Matches: 147, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
132 47 0.32
133 7 0.05
134 1 0.01
135 2 0.01
136 61 0.41
138 29 0.20
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.42
Consensus pattern (134 bp):
TTGTCTCTCTTGAGACAGTTTTCTCTTAAAACAAATTCTGTCTCTCTTGAGACATTTTTTAAACA
AATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTAAAACAA
AATT
Found at i:710592 original size:66 final size:66
Alignment explanation
Indices: 710382--710692 Score: 330
Period size: 66 Copynumber: 4.7 Consensus size: 66
710372 GACATTTTTT
*
710382 AAAC-AAATTTTGTCTCTCTTGAGATGGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCC--
1 AAACAAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTT
710444 A
66 A
* * ** * * **
710445 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTTTCTT-AAA-ACAAATTTTGTCTCTCTTGAGACA
1 AAACAAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTG--AAT-TT--G---
710508 TTTTCTCTTA
58 TTTTC-CTTA
710518 AAAC-AAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTT
1 AAACAAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTT
*
710582 G
66 A
* *
710583 AAACAAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAA-ACTAAACTTTGAATTTGTTCTCCT
1 AAACAAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACA-AAAACTTTGAATTTGTTTTCCT
710647 TA
65 TA
* ** * *
710649 AAACAAAATTATGTCTCTCTTGAGACATTTTCTCTTAAAACAAA
1 AAACAAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAA
710693 TTTTGTCTCT
Statistics
Matches: 204, Mismatches: 27, Indels: 31
0.78 0.10 0.12
Matches are distributed among these distances:
62 8 0.04
63 7 0.03
64 27 0.13
65 10 0.05
66 97 0.48
67 2 0.01
69 1 0.00
70 5 0.02
71 3 0.01
72 28 0.14
73 8 0.04
74 8 0.04
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (66 bp):
AAACAAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTT
A
Found at i:710666 original size:168 final size:167
Alignment explanation
Indices: 710478--710782 Score: 574
Period size: 168 Copynumber: 1.8 Consensus size: 167
710468 GACAGTTTTT
*
710478 CTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAC
1 CTTAAAACAAATTATGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAC
710543 GGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTTGAAACAAAATTTTGTCTCTCTTGAGA
66 GGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTTGAAACAAAATTTTGTCTCTCTTGAGA
*
710608 CGGTTTCCCTTGAAAACTAAACTTTGAATTTGTTCTC
131 CAGTTTCCCTTGAAAACTAAACTTTGAATTTGTTCTC
710645 CTTAAAACAAAATTATGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGA
1 CTTAAAAC-AAATTATGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGA
*
710710 CGGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTTGAAACAAAGTTTTGTCTCTCTTGAG
65 CGGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTTGAAACAAAATTTTGTCTCTCTTGAG
710775 ACAGTTTC
130 ACAGTTTC
710783 TCTTTATACA
Statistics
Matches: 134, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
167 8 0.06
168 126 0.94
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (167 bp):
CTTAAAACAAATTATGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAC
GGTTTCCCTTGAAACAAAAACTTTGAATTTGTTTTCCTTGAAACAAAATTTTGTCTCTCTTGAGA
CAGTTTCCCTTGAAAACTAAACTTTGAATTTGTTCTC
Found at i:710680 original size:102 final size:99
Alignment explanation
Indices: 710574--710991 Score: 529
Period size: 102 Copynumber: 4.1 Consensus size: 99
710564 TTTGAATTTG
* *
710574 TTTTCCTTGAAACAAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAAACTAAACTTTGAATTT
1 TTTTCCTTAAAAC-AAATTTTGTCTCTCTTGAGACGGTTTCCCTTG-AAACAAAACTTTGAATTT
*
710639 GTTCTCCTTAAAACAAAATTATGTCTCTCTTGAGACA
64 GTTTTCCTTAAAACAAAATT-TGTCTCTCTTGAGACA
710676 TTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATTT
1 TTTTC-CTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAAC-AAAACTTTGAATTT
* *
710741 GTTTTCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
64 GTTTTCCTTAAAACAAA-ATTTGTCTCTCTTGAGACA
* * * * * *
710778 GTTTCTCTTTATACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGCAACAAAATCTTTGAATCT
1 TTTTC-CTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAA-CTTTGAATTT
*
710843 GTTTTCCTTAAAAC-AAATTTCGTCTCCCTTGAGACA
64 GTTTTCCTTAAAACAAAATTT-GTCTCTCTTGAGACA
* * *
710879 GTTTCTTTCAAAACAAATTTTGTCTCTCTTGAGACGGTTTTCCTT-AAAGCAAAATCTTTGAA-T
1 TTTTCCTT-AAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAA-CAAAA-CTTTGAATT
* *
710942 CGTTTTCCTTTAAAC-AAATTTCGTCTCTCTTGAGACA
63 TGTTTTCCTTAAAACAAAATTT-GTCTCTCTTGAGACA
710979 TTTTCTCTTAAAA
1 TTTTC-CTTAAAA
710992 TACCAATCTT
Statistics
Matches: 282, Mismatches: 26, Indels: 18
0.87 0.08 0.06
Matches are distributed among these distances:
100 49 0.17
101 76 0.27
102 148 0.52
103 9 0.03
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (99 bp):
TTTTCCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAACTTTGAATTTGT
TTTCCTTAAAACAAAATTTGTCTCTCTTGAGACA
Found at i:710691 original size:37 final size:37
Alignment explanation
Indices: 710640--710729 Score: 119
Period size: 36 Copynumber: 2.4 Consensus size: 37
710630 TTTGAATTTG
*
710640 TTCTCCTTAAAACAAAATTATGTCTCTCTTGAGACATT
1 TTCT-CTTAAAACAAAATTATGTCTCTCTTGAGACAGT
* *
710678 TTCTCTTAAAAC-AAATTTTGTCTCTCTTGAGACGGT
1 TTCTCTTAAAACAAAATTATGTCTCTCTTGAGACAGT
* *
710714 TTCCCTTGAAACAAAA
1 TTCTCTTAAAACAAAA
710730 ACTTTGAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
36 31 0.67
37 11 0.24
38 4 0.09
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (37 bp):
TTCTCTTAAAACAAAATTATGTCTCTCTTGAGACAGT
Found at i:710830 original size:36 final size:37
Alignment explanation
Indices: 710741--710830 Score: 128
Period size: 36 Copynumber: 2.5 Consensus size: 37
710731 CTTTGAATTT
*
710741 GTTTTCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
* * *
710778 GTTTCTCTTTATACAAA-TTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
*
710814 GTTTCCCTTGCAACAAA
1 GTTTCCCTTGAAACAAA
710831 ATCTTTGAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 32 0.71
37 13 0.29
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.41
Consensus pattern (37 bp):
GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
Found at i:712677 original size:482 final size:482
Alignment explanation
Indices: 711772--712729 Score: 1781
Period size: 482 Copynumber: 2.0 Consensus size: 482
711762 CGTTCGTGTA
711772 GCCGCACATCGCGCACCAACCAACTGCCCGATCAACAAGTCGTCCGAGTTCCCCGCCGGAGCCTC
1 GCCGCACATCGCGCACCAACCAACTGCCCGATCAACAAGTCGTCCGAGTTCCCCGCCGGAGCCTC
* * *
711837 TCCAACAAACGTGCGAACAACCAACAAACACGTTATTAGTGTTCTACTCGGGATTAAACTCTAAA
66 TCCAACAAACGTGCGAACAACCAACAAACACATTATTAGTGTTCTACTCAGGACTAAACTCTAAA
*
711902 AATAGCCAATAGTTTTGGCTATAAAATCATGTAATCGAACACAAGTAGAGGGGGGATTTTACACA
131 AATAGCCAATAGTTTTGACTATAAAATCATGTAATCGAACACAAGTAGAGGGGGGATTTTACACA
*
711967 CGAGAAATTTCATTCGAGGTCCACACACAGAATACATAAAAAAAGATCGGTAGAAAGATCTAGGG
196 CGAGAAATTTCATTCGAGATCCACACACAGAATACATAAAAAAAGATCGGTAGAAAGATCTAGGG
712032 AAAGCCCATTCGAACAGAGAAAAAAACCCAAACAGAAAAAAACTCTTACCTCGTCGACTTCACTG
261 AAAGCCCATTCGAACAGAGAAAAAAACCCAAACAGAAAAAAACTCTTACCTCGTCGACTTCACTG
* *
712097 GAACTAGACGAACTCACTACCGAAAGGATTTAGATACAAGGCGTTATTCTGTTGATTGGGTCCCC
326 GAACTAGACGAACTCACTACCAAAAGGATTTAGATACAAGGCGTTATTCTATTGATTGGGTCCCC
* *
712162 TTTGGGTTCCTAGTACGGAGAAGGTAGCAATCGAGGACCGGTTAGAAGGATGGATCGAAGACCTG
391 TTTGGATTCCTAGTACGGAGAAGGTAGCAATCGAGGACCGGTTAGAAGGATGGATCAAAGACCTG
712227 GAAGCAAGTGAAGCTGATATTCCTATT
456 GAAGCAAGTGAAGCTGATATTCCTATT
**
712254 GCCGCACATCGCGCACCAACCAACTGCCCGATCAACAAGTTTTCCGAGTTCCCCGCCGGAGCCTC
1 GCCGCACATCGCGCACCAACCAACTGCCCGATCAACAAGTCGTCCGAGTTCCCCGCCGGAGCCTC
712319 TCCAACAAACGTGCGAACAACCAACAAACACATTATTAGTGTTCTACTCAGGACTAAACTCTAAA
66 TCCAACAAACGTGCGAACAACCAACAAACACATTATTAGTGTTCTACTCAGGACTAAACTCTAAA
712384 AATAGCCAATAGTTTTGACTATAAAATCATGTAATCGAACACAAGTAGAGGGGGGATTTTACACA
131 AATAGCCAATAGTTTTGACTATAAAATCATGTAATCGAACACAAGTAGAGGGGGGATTTTACACA
* *
712449 CGAGAAATTTCATTCGATATCCACACACAGAATACATAAGAAAAGATCGGTAGAAAGATCTAGGG
196 CGAGAAATTTCATTCGAGATCCACACACAGAATACATAAAAAAAGATCGGTAGAAAGATCTAGGG
*
712514 AAAGCCCATTCGAATAGAGAAAAAAACCCAAACAGAAAAAAACTCTTACCTCGTCGACTTCACTG
261 AAAGCCCATTCGAACAGAGAAAAAAACCCAAACAGAAAAAAACTCTTACCTCGTCGACTTCACTG
712579 GAACTAGACGAACTCACTACCAAAAGGATTTAGATACAAGGCGTTATTCTATTGATTGGGTCCCC
326 GAACTAGACGAACTCACTACCAAAAGGATTTAGATACAAGGCGTTATTCTATTGATTGGGTCCCC
*
712644 TTTGGATTCCTAGTATGGAGAAGGTAGCAATCGAGGACCGGTTAGAAGGATGGATCAAAGACCTG
391 TTTGGATTCCTAGTACGGAGAAGGTAGCAATCGAGGACCGGTTAGAAGGATGGATCAAAGACCTG
712709 GAAGCAAGTGAAGCTGATATT
456 GAAGCAAGTGAAGCTGATATT
712730 GCAACTTTTG
Statistics
Matches: 461, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
482 461 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (482 bp):
GCCGCACATCGCGCACCAACCAACTGCCCGATCAACAAGTCGTCCGAGTTCCCCGCCGGAGCCTC
TCCAACAAACGTGCGAACAACCAACAAACACATTATTAGTGTTCTACTCAGGACTAAACTCTAAA
AATAGCCAATAGTTTTGACTATAAAATCATGTAATCGAACACAAGTAGAGGGGGGATTTTACACA
CGAGAAATTTCATTCGAGATCCACACACAGAATACATAAAAAAAGATCGGTAGAAAGATCTAGGG
AAAGCCCATTCGAACAGAGAAAAAAACCCAAACAGAAAAAAACTCTTACCTCGTCGACTTCACTG
GAACTAGACGAACTCACTACCAAAAGGATTTAGATACAAGGCGTTATTCTATTGATTGGGTCCCC
TTTGGATTCCTAGTACGGAGAAGGTAGCAATCGAGGACCGGTTAGAAGGATGGATCAAAGACCTG
GAAGCAAGTGAAGCTGATATTCCTATT
Found at i:718995 original size:20 final size:20
Alignment explanation
Indices: 718970--719033 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 20
718960 GCATTTGGTG
*
718970 CTGAGGGAATCGATCCCCCC
1 CTGAGGGAACCGATCCCCCC
*
718990 CTGAGGGAACCGATTCCCCCT
1 CTGAGGGAACCGA-TCCCCCC
*
719011 TTGAAGGGGAACCGATTCCCCCC
1 CTG-A-GGGAACCGA-TCCCCCC
719034 AGGGGAATCG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 12 0.32
21 8 0.22
22 1 0.03
23 16 0.43
ACGTcount: A:0.20, C:0.38, G:0.25, T:0.17
Consensus pattern (20 bp):
CTGAGGGAACCGATCCCCCC
Found at i:719039 original size:19 final size:19
Alignment explanation
Indices: 718974--719050 Score: 55
Period size: 23 Copynumber: 3.8 Consensus size: 19
718964 TTGGTGCTGA
* * *
718974 GGGAATCGATCCCCCCCTG
1 GGGAACCGATTCCCCCCAG
*
718993 AGGGAACCGATTCCCCCTTTGAAG
1 -GGGAACCGATTCCCCC----CAG
719017 GGGAACCGATTCCCCCCAG
1 GGGAACCGATTCCCCCCAG
* *
719036 GGGAATCGATACCCC
1 GGGAACCGATTCCCC
719051 TGGGGTTCTG
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
19 15 0.33
20 14 0.30
23 16 0.35
24 1 0.02
ACGTcount: A:0.22, C:0.36, G:0.26, T:0.16
Consensus pattern (19 bp):
GGGAACCGATTCCCCCCAG
Found at i:722806 original size:4 final size:4
Alignment explanation
Indices: 722797--723013 Score: 53
Period size: 4 Copynumber: 52.0 Consensus size: 4
722787 GATCCTTTAC
* * *
722797 ATTT ATTT ATTT ATTT ATTC ATTC ATTGT ATAT ACTATT -TTT ACTATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT-T ATTT A-T-TT ATTT A-T-TT
* * *
722845 ATTT -TCTT TTTT ATTT ATTTT GTTT A-TT ATTT TTTT ATATT CATTTT
1 ATTT AT-TT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT AT-TT -A-TTT
* * *
722892 ATTT ATTTT ATTTT ATTT ATCT ATTT -TTAT TTTT ATTT -TTT CTTT -TCTT
1 ATTT A-TTT A-TTT ATTT ATTT ATTT ATT-T ATTT ATTT ATTT ATTT AT-TT
* *
722941 -TTCT -TTT CTTT ATTTT CTTT ATCTTT ATTTT ACTTT -TTT -TTT ATTT
1 ATT-T ATTT ATTT A-TTT ATTT A--TTT A-TTT A-TTT ATTT ATTT ATTT
*
722987 -TTT -TGT ATTT ATTTT ATTT ATTT ATTT
1 ATTT ATTT ATTT A-TTT ATTT ATTT ATTT
723014 TATCTTTATT
Statistics
Matches: 168, Mismatches: 19, Indels: 52
0.70 0.08 0.22
Matches are distributed among these distances:
3 25 0.15
4 94 0.56
5 37 0.22
6 11 0.07
7 1 0.01
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:722870 original size:9 final size:9
Alignment explanation
Indices: 722853--723102 Score: 105
Period size: 9 Copynumber: 27.4 Consensus size: 9
722843 TTATTTTCTT
722853 TTTTATTTA
1 TTTTATTTA
*
722862 TTTTGTTTA
1 TTTTATTTA
722871 --TTATTT-
1 TTTTATTTA
722877 TTTTATATTCA
1 TTTTAT-TT-A
722888 TTTTATTTA
1 TTTTATTTA
722897 TTTTATTT-
1 TTTTATTTA
*
722905 TATTTATCTA
1 T-TTTATTTA
722915 TTTTTATTT-
1 -TTTTATTTA
* *
722924 TTATTTTTTC
1 TT-TTATTTA
* *
722934 TTTTCTTTTC
1 TTTT-ATTTA
*
722944 TTTTCTTTA
1 TTTTATTTA
*
722953 TTTTCTTTA
1 TTTTATTTA
722962 TCTTTATTT-
1 T-TTTATTTA
*
722971 TACTT-TTT-
1 T-TTTATTTA
*
722979 TTTTATTTT
1 TTTTATTTA
722988 TTTGTATTTA
1 TTT-TATTTA
722998 TTTTATTTA
1 TTTTATTTA
723007 -TTTATTTTA
1 TTTTA-TTTA
723016 TCTTTATTTTTA
1 T-TTTA--TTTA
*
723028 TTTT-TTTG
1 TTTTATTTA
* *
723036 GTTTCTTTA
1 TTTTATTTA
723045 TCTTTATTTTA
1 T-TTTA-TTTA
723056 TTTGT-TTTA
1 TTT-TATTTA
723065 -TTT-TTTA
1 TTTTATTTA
*
723072 CTTTATCTTA
1 TTTTAT-TTA
*
723082 TTTTCTTTA
1 TTTTATTTA
*
723091 TTTCATTT-
1 TTTTATTTA
723099 TTTT
1 TTTT
723103 CCTTCATTTT
Statistics
Matches: 193, Mismatches: 22, Indels: 53
0.72 0.08 0.20
Matches are distributed among these distances:
7 12 0.06
8 32 0.17
9 78 0.40
10 45 0.23
11 20 0.10
12 6 0.03
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTTATTTA
Found at i:722890 original size:26 final size:23
Alignment explanation
Indices: 722851--723099 Score: 147
Period size: 24 Copynumber: 10.7 Consensus size: 23
722841 TATTATTTTC
*
722851 TTTTTTATTTATTTTGTTTATTAT
1 TTTTTTATTTATTTTATTTATT-T
722875 TTTTTTATATTCATTTTATTTATTT
1 TTTTTTAT-TT-ATTTTATTTATTT
* *
722900 TATTTTATTTA-TCTA-TT-TTT
1 TTTTTTATTTATTTTATTTATTT
* *
722920 ATTTTTATTT-TTTCT-TTTCTTT
1 TTTTTTATTTATTT-TATTTATTT
* * *
722942 TCTTTTCTTTATTTTCTTTATCTT
1 TTTTTTATTTATTTTATTTAT-TT
* *
722966 TATTTTACTT-TTTT-TTTATTT
1 TTTTTTATTTATTTTATTTATTT
*
722987 TTTTGTATTTATTTTATTTATTT
1 TTTTTTATTTATTTTATTTATTT
* *
723010 ATTTTATCTTTATTTTTATTT-TTT
1 -TTTTTTATTTA-TTTTATTTATTT
** *
723034 TGGTTTCTTTATCTTTATTTTATTT
1 TTTTTTATTTAT-TTTA-TTTATTT
* *
723059 GTTTTATTTTTTACTTTATCTTA-TT
1 -TTTT-TTATTTATTTTAT-TTATTT
*
723084 TTCTTTATTTCATTTT
1 TTTTTTATTT-ATTTT
723100 TTTCCTTCAT
Statistics
Matches: 177, Mismatches: 28, Indels: 40
0.72 0.11 0.16
Matches are distributed among these distances:
20 12 0.07
21 14 0.08
22 24 0.14
23 36 0.20
24 41 0.23
25 24 0.14
26 20 0.11
27 6 0.03
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTTTTATTTATTTTATTTATTT
Found at i:722901 original size:5 final size:5
Alignment explanation
Indices: 722843--723099 Score: 103
Period size: 5 Copynumber: 51.4 Consensus size: 5
722833 ATTTTTACTA
* * * * *
722843 TTATT TTCTT TTTTAT TTATT TT-GT TTATT ATTTTT TTATAT TCATT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT -TTATT TTAT-T TTATT
* * *
722890 TTA-T TTATT TTATT TTA-T TTA-T CTATTT TTATT TT-TA TT-TT TTCTT
1 TTATT TTATT TTATT TTATT TTATT TTA-TT TTATT TTATT TTATT TTATT
* * * * *
722936 TTCTT TTCTT TT-CT TTATT TT-CT TTATCT TTATT TTACTT TTTTT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTAT-T TTATT TTA-TT TTATT TTATT
722986 TT-TT TGTA-T TTATT TTA-T TTA-T TTATT TTATCT TTATTT TTATT
1 TTATT T-TATT TTATT TTATT TTATT TTATT TTAT-T TTA-TT TTATT
* * * *
723030 TT-TT TGGTTTCT TTATCT TTATT TTATT TGT-TT TATTTT TTACT TTATC
1 TTATT T--TAT-T TTAT-T TTATT TTATT T-TATT T-TATT TTATT TTATT
* *
723079 TTATT TT-CT TTATT TCATT TT
1 TTATT TTATT TTATT TTATT TT
723100 TTTCCTTCAT
Statistics
Matches: 197, Mismatches: 30, Indels: 50
0.71 0.11 0.18
Matches are distributed among these distances:
4 45 0.23
5 103 0.52
6 45 0.23
7 2 0.01
8 2 0.01
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:723051 original size:44 final size:44
Alignment explanation
Indices: 722851--723058 Score: 144
Period size: 44 Copynumber: 4.7 Consensus size: 44
722841 TATTATTTTC
* *
722851 TTTTT-TATTTATTTTGTTTATTATTTTTTTA-TATTCA-TTTTATT
1 TTTTTGTATTTATTTTATTTATT-TTATTTTACT-TT-ATTTTTATT
* * * * *
722895 TATTT-TATTT-TATTTATCTATTTTTATTTTTATTTTTTCTTTTCTT
1 TTTTTGTATTTAT-TTTATTTA-TTTTA-TTTTACTTTAT-TTTTATT
* * *
722941 TTCTTT-TCTTTATTTTCTTTATCTTTATTTTACTTTTTTTTTATT
1 TT-TTTGTATTTATTTTATTTAT-TTTATTTTACTTTATTTTTATT
722986 TTTTTGTATTTATTTTATTTA-TTTATTTTATCTTTATTTTTATT
1 TTTTTGTATTTATTTTATTTATTTTATTTTA-CTTTATTTTTATT
* * *
723030 TTTTTG-GTTTCTTTATCTTTATTTTATTT
1 TTTTTGTATTTATTT-TATTTATTTTATTT
723059 GTTTTATTTT
Statistics
Matches: 133, Mismatches: 18, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
43 16 0.12
44 43 0.32
45 37 0.28
46 19 0.14
47 17 0.13
48 1 0.01
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (44 bp):
TTTTTGTATTTATTTTATTTATTTTATTTTACTTTATTTTTATT
Found at i:723062 original size:23 final size:23
Alignment explanation
Indices: 723003--723062 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
722993 ATTTATTTTA
* *
723003 TTTA-TTTATTT-TATCTTTATT
1 TTTATTTTATTTGTTTCTTTATC
723024 TTTATTTT-TTTGGTTTCTTTATC
1 TTTATTTTATTT-GTTTCTTTATC
723047 TTTATTTTATTTGTTT
1 TTTATTTTATTTGTTT
723063 TATTTTTTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 7 0.21
22 3 0.09
23 20 0.61
24 3 0.09
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTATTTTATTTGTTTCTTTATC
Found at i:723112 original size:98 final size:94
Alignment explanation
Indices: 722898--723130 Score: 233
Period size: 98 Copynumber: 2.4 Consensus size: 94
722888 TTTTATTTAT
* *
722898 TTTATTTTATTTA-TCTATTTTTATTTTTATTTTTTCTTTTCTTTTCTTTTCTTTATTTTCTTTA
1 TTTATTTTATTTATTC-A-TTTTATCTTTATTTTTT-TTTTCTTTTCTTTTCTTTATTTTATTTA
* * *
722962 TCTTTATTTTACTTTTTTTTTATTTTTTTGTA
63 TCTTTATTTTACTTTTATCTTATTTTCTTGTA
* *
722994 TTTATTTTATTTATTTATTTTATCTTTATTTTTATTTTTTTGGTTTCTTTATCTTTATTTTATTT
1 TTTATTTTATTTATTCATTTTATCTTTATTTTT-TTTTTCT--TTTCTTT-TCTTTATTTTATTT
*
723059 GT-TTTATTTTTTAC-TTTATCTTATTTTCTT-TA
62 ATCTTTA--TTTTACTTTTATCTTATTTTCTTGTA
* * *
723091 TTTCATTTT-TTTCCTTCATTTTTTCTTTATTTTTGTTTTC
1 TTT-ATTTTATTT-ATTCATTTTATCTTTATTTTTTTTTTC
723131 ATTATCTGTT
Statistics
Matches: 115, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
95 20 0.17
96 15 0.13
97 24 0.21
98 50 0.43
99 6 0.05
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.76
Consensus pattern (94 bp):
TTTATTTTATTTATTCATTTTATCTTTATTTTTTTTTTCTTTTCTTTTCTTTATTTTATTTATCT
TTATTTTACTTTTATCTTATTTTCTTGTA
Found at i:731414 original size:20 final size:22
Alignment explanation
Indices: 731381--731439 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
731371 TTTGGTGCAG
*
731381 AGGGAATCGA-TCCCCCCCTG-
1 AGGGAACCGATTCCCCCCCTGA
**
731401 A-GGAACCGATTCCCCCTTTGA
1 AGGGAACCGATTCCCCCCCTGA
731422 AGGGAACCGATTCCCCCC
1 AGGGAACCGATTCCCCCC
731440 ACAGGGGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 7 0.22
20 9 0.28
21 1 0.03
22 15 0.47
ACGTcount: A:0.22, C:0.39, G:0.22, T:0.17
Consensus pattern (22 bp):
AGGGAACCGATTCCCCCCCTGA
Found at i:731570 original size:19 final size:19
Alignment explanation
Indices: 731546--731592 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
731536 CCTCTAAACC
731546 CCTCAAATCTCCATTTTTG
1 CCTCAAATCTCCATTTTTG
731565 CCTCAAATCTCCATTTTTG
1 CCTCAAATCTCCATTTTTG
731584 CCTCAAATC
1 CCTCAAATC
731593 AACGATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.23, C:0.34, G:0.04, T:0.38
Consensus pattern (19 bp):
CCTCAAATCTCCATTTTTG
Found at i:734940 original size:18 final size:18
Alignment explanation
Indices: 734893--734940 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
734883 ACTCAACAAT
* *
734893 AATCATCTGATATCTGTA
1 AATCATCTGATAACTGAA
*
734911 AAT-ATCTTATAACTGAA
1 AATCATCTGATAACTGAA
734928 AATCATCTGATAA
1 AATCATCTGATAA
734941 TTGTAAACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (18 bp):
AATCATCTGATAACTGAA
Found at i:746960 original size:21 final size:20
Alignment explanation
Indices: 746919--746960 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
746909 AATAAACAAC
*
746919 TACAATAAAAAAATACTAAA
1 TACAATAAAAAAATACAAAA
746939 TACAAGTATAAAAAA-ACAAAA
1 TACAA-TA-AAAAAATACAAAA
746960 T
1 T
746961 CTATCGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 8 0.42
22 6 0.32
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.19
Consensus pattern (20 bp):
TACAATAAAAAAATACAAAA
Found at i:753690 original size:28 final size:28
Alignment explanation
Indices: 753655--753714 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
753645 TAGTTGTGTG
*
753655 TTTCATACTCTCGTGCTTTTGTTTTATC
1 TTTCATACTCTCCTGCTTTTGTTTTATC
753683 TTTCATACTCTCCTGCTTTTGTTTTATC
1 TTTCATACTCTCCTGCTTTTGTTTTATC
753711 TTTC
1 TTTC
753715 TCACCAGCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.10, C:0.23, G:0.08, T:0.58
Consensus pattern (28 bp):
TTTCATACTCTCCTGCTTTTGTTTTATC
Found at i:759470 original size:18 final size:18
Alignment explanation
Indices: 759422--759475 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 18
759412 AAAATCCATT
759422 TAAAGTAGATTTTTTACA
1 TAAAGTAGATTTTTTACA
*
759440 TAAA-T-GATTATTTTATTAA
1 TAAAGTAGATT-TTTTA--CA
759459 TAAAGTAGATTTTTTAC
1 TAAAGTAGATTTTTTAC
759476 CTATTAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
16 4 0.14
17 6 0.21
18 4 0.14
19 5 0.17
20 6 0.21
21 4 0.14
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (18 bp):
TAAAGTAGATTTTTTACA
Found at i:761091 original size:17 final size:17
Alignment explanation
Indices: 761069--761101 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
761059 TAGGAGATAA
761069 TTTAATGTAATAGGTAT
1 TTTAATGTAATAGGTAT
761086 TTTAATGTAATAGGTA
1 TTTAATGTAATAGGTA
761102 GTGCCTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (17 bp):
TTTAATGTAATAGGTAT
Found at i:761239 original size:74 final size:73
Alignment explanation
Indices: 761079--761773 Score: 879
Period size: 73 Copynumber: 9.5 Consensus size: 73
761069 TTTAATGTAA
* * * * **
761079 TAGGTATTTTAATGTAATAGGTAGTGCCTATTTTATTTTACTGTTTATATTATTAGTAATTTTTA
1 TAGGTATTTTAATGTAATAGGTAGCGCCTATTTT-TTTTACCGTTTACATTATTAGCAA-CATTA
* *
761144 AATAAACCGA
64 AAAAAACCGG
* *
761154 TAGATATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAATATTAAA
1 TAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACATT-AA
*
761219 AAAAACCAG
65 AAAAACCGG
* * * * *
761228 TAGGTAATTTAATGTAATAGGTAACACCTA-TTTTTTTACCGTTTACATTATTAACAACCTTAGA
1 TAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACATTA-A
*
761292 AAAAATCGG
65 AAAAACCGG
* * *
761301 TAAGTATTTTAATGTAACAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACATTCAA
1 TAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACATTAAA
761366 AAAACCGG
66 AAAACCGG
* *
761374 TAGGTATTTTAATGTAATAGGTAGCGTCTA-TTTTTTTACCGTTTACATTATTAACAATC-TTAA
1 TAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAA-CATT-A
*
761437 AAAAAACCGA
64 AAAAAACCGG
* *
761447 TAGGTAGTTTAATGTAATAGGTAGCGCCTA-TTTTTTTACCGTTTACTTTATTAGCAACATTAAA
1 TAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACATTAAA
*
761511 AAAA-CTG
66 AAAACCGG
* * *
761518 TAGGTGTTTTAATGTAATAGATAGCGCCTA-TTTTTTTACTGTTTACATTATTAGCAACATTAAA
1 TAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACATTAAA
761582 AAAA--GG
66 AAAACCGG
* ** * *
761588 TAGATATTTTAATGTAATAGGTAGCGTATATTTTTTTTTACCGTTTACATCATTAGCAAC-TTCA
1 TAGGTATTTTAATGTAATAGGTAGCGCCTA-TTTTTTTTACCGTTTACATTATTAGCAACATTAA
761652 AAAAACCGG
65 AAAAACCGG
* * *
761661 TAGATATTTTAATGTAATAGGTAACGCCTATTTTTTTTACCGTTTACATTATTAGCAACCTTTAA
1 TAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAA-CATTAA
*
761726 AAAAATCGG
65 AAAAACCGG
* *
761735 TAGGTATTTTAATGTAATA-GTAGCACCGATTTTATTTTA
1 TAGGTATTTTAATGTAATAGGTAGCGCCTATTTT-TTTTA
761774 ACCGGTTAAG
Statistics
Matches: 544, Mismatches: 63, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
70 26 0.05
71 72 0.13
72 90 0.17
73 206 0.38
74 118 0.22
75 32 0.06
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (73 bp):
TAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACATTAAA
AAAACCGG
Found at i:771237 original size:22 final size:22
Alignment explanation
Indices: 771211--771253 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
771201 CCACTCTATT
771211 TTTTTTAAA-AAAATTTTAAAA
1 TTTTTTAAATAAAATTTTAAAA
*
771232 TTTTTTAAATATAATTTTAAAA
1 TTTTTTAAATAAAATTTTAAAA
771254 GATATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTTTAAATAAAATTTTAAAA
Found at i:777657 original size:27 final size:27
Alignment explanation
Indices: 777626--777686 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
777616 TTAGCACCTG
777626 CAGCAGCCCCTCCACCACAACAAATTC
1 CAGCAGCCCCTCCACCACAACAAATTC
777653 CAGCAGCCCCTCCACCACAACAAATTC
1 CAGCAGCCCCTCCACCACAACAAATTC
777680 CAGCAGC
1 CAGCAGC
777687 TTCCACCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.33, C:0.48, G:0.10, T:0.10
Consensus pattern (27 bp):
CAGCAGCCCCTCCACCACAACAAATTC
Found at i:782428 original size:22 final size:22
Alignment explanation
Indices: 782403--782449 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
782393 GCATACATTT
782403 ATTTTGCATACATTCATTATTC
1 ATTTTGCATACATTCATTATTC
782425 ATTTTGCATACATTCATTATTC
1 ATTTTGCATACATTCATTATTC
782447 ATT
1 ATT
782450 GCATTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.17, G:0.04, T:0.51
Consensus pattern (22 bp):
ATTTTGCATACATTCATTATTC
Found at i:789736 original size:14 final size:15
Alignment explanation
Indices: 789717--789758 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
789707 TATTATGCTT
789717 AAAGAAGAAGAAAA-
1 AAAGAAGAAGAAAAG
*
789731 AAAGAAAAAGAAAAG
1 AAAGAAGAAGAAAAG
*
789746 AAA-AAGTAGAAAA
1 AAAGAAGAAGAAAA
789759 TAAAAAGGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 21 0.88
15 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (15 bp):
AAAGAAGAAGAAAAG
Found at i:789747 original size:25 final size:25
Alignment explanation
Indices: 789717--789765 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
789707 TATTATGCTT
*
789717 AAAGAAGAAGAAAAAAAGAAAAAGA
1 AAAGAAAAAGAAAAAAAGAAAAAGA
* * *
789742 AAAGAAAAAGTAGAAAATAAAAAG
1 AAAGAAAAAGAAAAAAAGAAAAAG
789766 GAGGGTCAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (25 bp):
AAAGAAAAAGAAAAAAAGAAAAAGA
Found at i:790134 original size:18 final size:18
Alignment explanation
Indices: 790111--790147 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
790101 TCCAAGTTTA
790111 TCTTTTCGAAACTCAATT
1 TCTTTTCGAAACTCAATT
* *
790129 TCTTTTTGAAATTCAATT
1 TCTTTTCGAAACTCAATT
790147 T
1 T
790148 ATTCTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.51
Consensus pattern (18 bp):
TCTTTTCGAAACTCAATT
Found at i:790716 original size:39 final size:39
Alignment explanation
Indices: 790666--790762 Score: 144
Period size: 39 Copynumber: 2.5 Consensus size: 39
790656 ACATTTCAAG
790666 GAAG-AGTTCATAATGAGAAGAACTCAACTGAAGA-AGAA
1 GAAGAAGTTCATAATGAGAAGAACTCAACTGAAGAGA-AA
* * *
790704 GAATAAGTTCATAATGAGAAGAACTTATCTGAAGAGAAA
1 GAAGAAGTTCATAATGAGAAGAACTCAACTGAAGAGAAA
790743 GAAGAAGTTCATAATGAGAA
1 GAAGAAGTTCATAATGAGAA
790763 TAATTTGTTC
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
38 3 0.06
39 49 0.92
40 1 0.02
ACGTcount: A:0.49, C:0.08, G:0.23, T:0.20
Consensus pattern (39 bp):
GAAGAAGTTCATAATGAGAAGAACTCAACTGAAGAGAAA
Found at i:791000 original size:122 final size:123
Alignment explanation
Indices: 790709--790986 Score: 450
Period size: 122 Copynumber: 2.3 Consensus size: 123
790699 AAGAAGAATA
* * *
790709 AGTTCATAATGAGAAGAACTTATCTGAAGAGAAAGAAGAAGTTCATAATGAGAATAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
*
790774 ACCTTTCGCTTAATTCTATCACAGAAGGAGATAGATCAGCATCAACATTGCCAGGAAG
66 ACCTTTCGCTTAATTCTATCACAGAAGGAGATAGATCAACATCAACATTGCCAGGAAG
*
790832 AGTTCATAATGATAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAA-TTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
* * * *
790896 ACTTTTCGCTTGATTCTATCACAGAAGGAGATATATCAACATCAACATTTCCAGGAAG
66 ACCTTTCGCTTAATTCTATCACAGAAGGAGATAGATCAACATCAACATTGCCAGGAAG
* *
790954 AGTTTATAATGAGAAGAACTCATTTGAAGAGGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGA
790987 TTAACATTTT
Statistics
Matches: 143, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
122 90 0.63
123 53 0.37
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (123 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
ACCTTTCGCTTAATTCTATCACAGAAGGAGATAGATCAACATCAACATTGCCAGGAAG
Found at i:791049 original size:50 final size:50
Alignment explanation
Indices: 790954--791050 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
790944 TTCCAGGAAG
* * ** **
790954 AGTTTATAATGAGAAGAACTCATTTGAAGAGGATTAACATTTTCATAGGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAACAAGTTCATAGGA
* *
791004 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAACAAGTTCATA
791051 ATGAGAAGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (50 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAACAAGTTCATAGGA
Found at i:791294 original size:16 final size:16
Alignment explanation
Indices: 791275--791315 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
791265 GTTCATAATG
791275 AGAAGAACTCATCTGA
1 AGAAGAACTCATCTGA
*
791291 AGAAGAATTCATCTGA
1 AGAAGAACTCATCTGA
791307 AGAAGAACT
1 AGAAGAACT
791316 TGTCCAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (16 bp):
AGAAGAACTCATCTGA
Found at i:792997 original size:64 final size:64
Alignment explanation
Indices: 792929--793085 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 64
792919 TTTAAGGTGT
* ** *
792929 ATCGATGCACAGGTAGTGCATTGATGCA-CTCTTTTAA-AATAAAAAGATCGAATGCA-ATTAGT
1 ATCGATGCACAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCATATTA-T
792991 GC
63 GC
* * *
792993 ATCGATGCATAAGGCA-TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATTTTATGC
1 ATCGATGCA-CAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
* *
793057 ACCGATGCACAAGTAGTGCATCGATGCAT
1 ATCGATGCACAGGTAGTGCATCGATGCAT
793086 ACCTTCATTA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
63 3 0.04
64 63 0.82
65 11 0.14
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (64 bp):
ATCGATGCACAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
Found at i:793501 original size:29 final size:29
Alignment explanation
Indices: 793462--793534 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
793452 TATTTGATAT
793462 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
793492 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
793521 GAGAAATGACATGA
1 GAGAAATGACATGA
793535 TCACAAGAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 38 0.88
30 5 0.12
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.16
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:793505 original size:20 final size:20
Alignment explanation
Indices: 793480--793554 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
793470 GACATGAGCT
793480 ACATGATCACAAGAGAAATG
1 ACATGATCACAAGAGAAATG
793500 ACATGAGCTACATGATCACAAGAGAAATG
1 ACATGA--T-C---A-CA-A-GAGAAATG
793529 ACATGATCACAAGAGAAATG
1 ACATGATCACAAGAGAAATG
793549 ACATGA
1 ACATGA
793555 GTACATGAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
20 20 0.43
21 1 0.02
22 3 0.07
23 2 0.04
26 2 0.04
27 3 0.07
28 1 0.02
29 14 0.30
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (20 bp):
ACATGATCACAAGAGAAATG
Found at i:795473 original size:18 final size:18
Alignment explanation
Indices: 795450--795490 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
795440 TGCCAGAGAG
795450 GAAGAGGTAGAGGCAGAA
1 GAAGAGGTAGAGGCAGAA
* *
795468 GAAGAGGTAGAGGTAGAG
1 GAAGAGGTAGAGGCAGAA
795486 GAAGA
1 GAAGA
795491 AGCCAATCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.02, G:0.46, T:0.07
Consensus pattern (18 bp):
GAAGAGGTAGAGGCAGAA
Found at i:795473 original size:24 final size:24
Alignment explanation
Indices: 795446--795492 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
795436 TGCATGCCAG
*
795446 AGAGGAAGAGGTAGAGGCAGAAGA
1 AGAGGAAGAGGTAGAGGAAGAAGA
*
795470 AGAGGTAGAGGTAGAGGAAGAAG
1 AGAGGAAGAGGTAGAGGAAGAAG
795493 CCAATCGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.47, T:0.06
Consensus pattern (24 bp):
AGAGGAAGAGGTAGAGGAAGAAGA
Found at i:795485 original size:12 final size:12
Alignment explanation
Indices: 795446--795490 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
795436 TGCATGCCAG
795446 AGAGGAAGAGGT
1 AGAGGAAGAGGT
* * *
795458 AGAGGCAGAAGA
1 AGAGGAAGAGGT
*
795470 AGAGGTAGAGGT
1 AGAGGAAGAGGT
795482 AGAGGAAGA
1 AGAGGAAGA
795491 AGCCAATCGA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.44, C:0.02, G:0.47, T:0.07
Consensus pattern (12 bp):
AGAGGAAGAGGT
Found at i:799826 original size:64 final size:64
Alignment explanation
Indices: 799757--799912 Score: 183
Period size: 64 Copynumber: 2.4 Consensus size: 64
799747 TTGAAGGTGT
** *
799757 ATCGATGCACAGGTAGTGCATCGATGCACTCTTTTAA-AATAAAAAGATCGAATGCA-ATTAGTG
1 ATCGATGCACAGGTAGTGCATCGATGCACTCCATTAATAAT-AAAACATCGAATGCATATTA-TG
799820 C
64 C
* * * *
799821 ATCGATGCATAAGGCA-TGCATCGATGCATTCCATTAATAATAAAACATCGAATGCATTTTATGC
1 ATCGATGCA-CAGGTAGTGCATCGATGCACTCCATTAATAATAAAACATCGAATGCATATTATGC
* *
799885 ACCGATGCACAAGTAGTGCATCGATGCA
1 ATCGATGCACAGGTAGTGCATCGATGCA
799913 TACCTTCATT
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
63 3 0.04
64 64 0.83
65 10 0.13
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (64 bp):
ATCGATGCACAGGTAGTGCATCGATGCACTCCATTAATAATAAAACATCGAATGCATATTATGC
Found at i:800444 original size:15 final size:15
Alignment explanation
Indices: 800426--800459 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
800416 GAGGGTATAA
800426 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
* *
800441 TAGTCCTTTGGGATG
1 TAGTCCTTCGGGACG
800456 TAGT
1 TAGT
800460 GGTCCTACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.32, T:0.35
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:803857 original size:25 final size:24
Alignment explanation
Indices: 803821--803874 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
803811 TTATTTTATT
*
803821 TATTTTATAAATATTTTCATGTTCA
1 TATTTTATAAATA-ATTCATGTTCA
803846 TATTATTA-AAATAATTCATGTT--
1 TATT-TTATAAATAATTCATGTTCA
803868 TATTTTA
1 TATTTTA
803875 GAATTTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 3 0.11
22 4 0.15
24 8 0.30
25 9 0.33
26 3 0.11
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (24 bp):
TATTTTATAAATAATTCATGTTCA
Found at i:812119 original size:15 final size:16
Alignment explanation
Indices: 812092--812125 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
812082 AGATTTGCTA
812092 TAATTATTTAAAATAT
1 TAATTATTTAAAATAT
*
812108 TAATTA-TTAAAATTT
1 TAATTATTTAAAATAT
812123 TAA
1 TAA
812126 AAAGTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTATTTAAAATAT
Found at i:812225 original size:21 final size:19
Alignment explanation
Indices: 812195--812242 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
812185 TACACTTATA
*
812195 ATAT-ATAAAATATAAAGT
1 ATATAATAAAATACAAAGT
812213 AATATTAATAAAAATACAAAGT
1 -ATA-TAAT-AAAATACAAAGT
812235 ATATAATA
1 ATATAATA
812243 TGTATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 4 0.16
20 5 0.20
21 5 0.20
22 11 0.44
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (19 bp):
ATATAATAAAATACAAAGT
Found at i:812228 original size:22 final size:20
Alignment explanation
Indices: 812201--812242 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
812191 TATAATATAT
*
812201 AAAATATAAAGTAATATTAATA
1 AAAATACAAAGT-ATA-TAATA
812223 AAAATACAAAGTATATAATA
1 AAAATACAAAGTATATAATA
812243 TGTATTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 3 0.16
22 11 0.58
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAATACAAAGTATATAATA
Found at i:813967 original size:83 final size:83
Alignment explanation
Indices: 813871--814149 Score: 273
Period size: 83 Copynumber: 3.4 Consensus size: 83
813861 ATTTTTAAAA
* *
813871 AAACGCCGCAATAGAGTGGTAATTTAGCGGCGTTTATAGCTA-AAACGCCGCAATAGAGATGTTT
1 AAACGCCTCAATAGAGTGGTAATTTAGCGGCGTTTATAGC-ACAAACGCCGCAATAGAGTTGTTT
813935 ATAGTGGCGTTT-TCTCAAC
65 ATAGTGGCGTTTGT-TCAAC
* * ** *
813954 AAACGCCTCAATAGAGTGGTAATTTAGCGGCGTTTTTA-CACAAATGCCGTGATAGTGTTGTTTA
1 AAACGCCTCAATAGAGTGGTAATTTAGCGGCGTTTATAGCACAAACGCCGCAATAGAGTTGTTTA
*
814018 TAGTGGCATTTGTTCAAC
66 TAGTGGCGTTTGTTCAAC
* * * ** * *
814036 AAGCG-ATAACATAGAGAAGTAATTTCGCGGTGTTTATCAG-ACAAACGCCGCAATAGTA-TTGT
1 AAACGCCTCA-ATAGAGTGGTAATTTAGCGGCGTTTAT-AGCACAAACGCCGCAATAG-AGTTGT
* *
814098 TTATAGTGGCGTTTGTGCAAA
63 TTATAGTGGCGTTTGTTCAAC
* * ** *
814119 AAATGCCGCAATAGAGTAATAATATAGCGGC
1 AAACGCCTCAATAGAGTGGTAATTTAGCGGC
814150 ATTTGTCCTA
Statistics
Matches: 156, Mismatches: 33, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
81 3 0.02
82 60 0.38
83 92 0.59
84 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (83 bp):
AAACGCCTCAATAGAGTGGTAATTTAGCGGCGTTTATAGCACAAACGCCGCAATAGAGTTGTTTA
TAGTGGCGTTTGTTCAAC
Found at i:813997 original size:41 final size:42
Alignment explanation
Indices: 813852--814298 Score: 178
Period size: 41 Copynumber: 10.8 Consensus size: 42
813842 AAAATGATAC
* *
813852 TTTAGCGGCATTTTTA-AAAAAACGCCGCAATAGAGTGGTAA
1 TTTAGCGGCGTTTTTACAACAAACGCCGCAATAGAGTGGTAA
* *
813893 TTTAGCGGCGTTTATAGCTA-AAACGCCGCAATAGAGAT-GT--
1 TTTAGCGGCGTTTTTA-CAACAAACGCCGCAATAGAG-TGGTAA
* *
813933 TTATAGTGGCGTTTTCT-CAACAAACGCCTCAATAGAGTGGTAA
1 TT-TAGCGGCGTTTT-TACAACAAACGCCGCAATAGAGTGGTAA
* ** * *
813976 TTTAGCGGCGTTTTTAC-ACAAATGCCGTGATAGTGTTGT--
1 TTTAGCGGCGTTTTTACAACAAACGCCGCAATAGAGTGGTAA
* * * *** **
814015 TTATAGTGGCATTTGTT-CAACAAGCG-ATAACATAGAGAAGTAA
1 TT-TAGCGGCGTTT-TTACAACAAACGCCGCA-ATAGAGTGGTAA
* * * *
814058 TTTCGCGGTGTTTAT-CAGACAAACGCCGCAATAGTA-TTGT--
1 TTTAGCGGCGTTTTTACA-ACAAACGCCGCAATAG-AGTGGTAA
* * * * * **
814098 TTATAGTGGCGTTTGTGCAAAAAATGCCGCAATAGAGTAATAA
1 TT-TAGCGGCGTTTTTACAACAAACGCCGCAATAGAGTGGTAA
* * * * * * *
814141 TATAGCGGCATTTGTCCTACAAACGTCACAATAGAGTGGTAA
1 TTTAGCGGCGTTTTTACAACAAACGCCGCAATAGAGTGGTAA
* ** * *
814183 TTTAGCGGCGTTTTTAC-ACAAACGCTGTGATAGTGTTGT--
1 TTTAGCGGCGTTTTTACAACAAACGCCGCAATAGAGTGGTAA
* * * ** *
814222 TTATAGTGGCGTTTGTT-CAACAAACGACGCTATAGAGAAGTAC
1 TT-TAGCGGCGTTT-TTACAACAAACGCCGCAATAGAGTGGTAA
* * *
814265 TTTCGCGGCGTTTGT-CAAACAAACGCCACAATAG
1 TTTAGCGGCGTTTTTAC-AACAAACGCCGCAATAG
814299 TATTGTTTAT
Statistics
Matches: 296, Mismatches: 80, Indels: 59
0.68 0.18 0.14
Matches are distributed among these distances:
39 4 0.01
40 29 0.10
41 134 0.45
42 118 0.40
43 11 0.04
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTACAACAAACGCCGCAATAGAGTGGTAA
Found at i:814226 original size:207 final size:208
Alignment explanation
Indices: 813952--814345 Score: 612
Period size: 207 Copynumber: 1.9 Consensus size: 208
813942 CGTTTTCTCA
* *
813952 ACAAACGCCTCAATAGAGTGGTAATTTAGCGGCGTTTTTACACAAATGCCGTGATAGTGTTGTTT
1 ACAAACGCCACAATAGAGTGGTAATTTAGCGGCGTTTTTACACAAACGCCGTGATAGTGTTGTTT
* * *
814017 ATAGTGGCATTTGTTCAACAAGCGATAAC-ATAGAGAAGTAATTTCGCGGTGTTTATCAGACAAA
66 ATAGTGGCATTTGTTCAACAAACGA-AACTATAGAGAAGTAATTTCGCGGCGTTTATCAAACAAA
* * *
814081 CGCCGCAATAGTATTGTTTATAGTGGCGTTTGTGC-AAAAAATGCCGCAATAGAGTAATAATATA
130 CGCCACAATAGTATTGTTTATAGTGGAGTTTGTGCAAAAAAACGCCGCAATAGAGTAATAATATA
814145 GCGGCATTTGTCCT
195 GCGGCATTTGTCCT
* *
814159 ACAAACGTCACAATAGAGTGGTAATTTAGCGGCGTTTTTACACAAACGCTGTGATAGTGTTGTTT
1 ACAAACGCCACAATAGAGTGGTAATTTAGCGGCGTTTTTACACAAACGCCGTGATAGTGTTGTTT
* ** * *
814224 ATAGTGGCGTTTGTTCAACAAACGACGCTATAGAGAAGTACTTTCGCGGCGTTTGTCAAACAAAC
66 ATAGTGGCATTTGTTCAACAAACGAAACTATAGAGAAGTAATTTCGCGGCGTTTATCAAACAAAC
* *
814289 GCCACAATAGTATTGTTTATTGTGGAGTTTGTGCAAAAAAACGTCGCAATAGAGTAA
131 GCCACAATAGTATTGTTTATAGTGGAGTTTGTGCAAAAAAACGCCGCAATAGAGTAA
814346 ACAAATGCCG
Statistics
Matches: 168, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
206 1 0.01
207 147 0.88
208 20 0.12
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (208 bp):
ACAAACGCCACAATAGAGTGGTAATTTAGCGGCGTTTTTACACAAACGCCGTGATAGTGTTGTTT
ATAGTGGCATTTGTTCAACAAACGAAACTATAGAGAAGTAATTTCGCGGCGTTTATCAAACAAAC
GCCACAATAGTATTGTTTATAGTGGAGTTTGTGCAAAAAAACGCCGCAATAGAGTAATAATATAG
CGGCATTTGTCCT
Found at i:814245 original size:82 final size:83
Alignment explanation
Indices: 814141--814344 Score: 194
Period size: 82 Copynumber: 2.5 Consensus size: 83
814131 AGAGTAATAA
* * * * * * *
814141 TATAGCGGCATTTGTCCTACAAACGTCACAATAGAGTGGTAATTTAGCGGCGTTT-TTACACAAA
1 TATAGTGGCGTTTGTCCAACAAACGTCGCAATAGAGTAGTAATTTAGCGGCGTTTGTCAAACAAA
**** *
814205 CGCTGTGATAGTGTTGTT
66 CGCCACAATAGTATTGTT
* * * * * *
814223 TATAGTGGCGTTTGTTCAACAAACGACGCTATAGAGAAGTACTTTCGCGGCGTTTGTCAAACAAA
1 TATAGTGGCGTTTGTCCAACAAACGTCGCAATAGAGTAGTAATTTAGCGGCGTTTGTCAAACAAA
814288 CGCCACAATAGTATTGTT
66 CGCCACAATAGTATTGTT
* * * *
814306 TATTGTGGAGTTTGTGCAAAAAAACGTCGCAATAGAGTA
1 TATAGTGGCGTTTGT-CCAACAAACGTCGCAATAGAGTA
814345 AACAAATGCC
Statistics
Matches: 94, Mismatches: 26, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
82 44 0.47
83 33 0.35
84 17 0.18
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (83 bp):
TATAGTGGCGTTTGTCCAACAAACGTCGCAATAGAGTAGTAATTTAGCGGCGTTTGTCAAACAAA
CGCCACAATAGTATTGTT
Found at i:816079 original size:24 final size:24
Alignment explanation
Indices: 816069--816180 Score: 145
Period size: 24 Copynumber: 4.7 Consensus size: 24
816059 CATAATTCAC
* *
816069 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCAGATCAAAATCCAT
* * * *
816093 GTCAAGTAACATATCAGAATCCAA
1 GTCAAGTATCAGATCAAAATCCAT
*
816117 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAAAATCCAT
816141 GTC-AGATATCAGATCAAAATCCAT
1 GTCAAG-TATCAGATCAAAATCCAT
816165 GTCAAGTATCAGATCA
1 GTCAAGTATCAGATCA
816181 TAATTCAAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 2 0.03
24 75 0.95
25 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (24 bp):
GTCAAGTATCAGATCAAAATCCAT
Found at i:816200 original size:48 final size:48
Alignment explanation
Indices: 816045--816207 Score: 125
Period size: 48 Copynumber: 3.4 Consensus size: 48
816035 AAACGAATAT
* * * * * * * *
816045 ATCAAAAATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAG
1 ATCAGAAATCAGATCAAAATCCAAGTCAAGTATCAGATCAGAATCCAA
* * * * *
816093 GTCAAGTAA-CATATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAT
1 ATC-AGAAATCAGATCAAAATCCAAGTCAAGTATCAGATCAGAATCCAA
* * * * *
816141 GTCAGATATCAGATCAAAATCCATGTCAAGTATCAGATCATAATTCAA
1 ATCAGAAATCAGATCAAAATCCAAGTCAAGTATCAGATCAGAATCCAA
816189 ATC-GAAAATCAGAT-AAAAT
1 ATCAG-AAATCAGATCAAAAT
816208 TTTCATGTGA
Statistics
Matches: 92, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
47 9 0.10
48 80 0.87
49 3 0.03
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (48 bp):
ATCAGAAATCAGATCAAAATCCAAGTCAAGTATCAGATCAGAATCCAA
Found at i:816200 original size:72 final size:71
Alignment explanation
Indices: 816049--816202 Score: 166
Period size: 72 Copynumber: 2.1 Consensus size: 71
816039 GAATATATCA
* * * * *
816049 AAAATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAGGTCAAGTAACATATCAGAATC
1 AAAATCAGATCAGAATCCACGTCAAGTATCAGATCAAAATCCAGGTCAAGTAACAGATCAGAATC
*
816114 CAAGTC
66 CAAATC
* * * * *
816120 AAGTATCAGATCAGAATCCATGTC-AGATATCAGATCAAAATCCATGTCAAGTATCAGATCATAA
1 AA-AATCAGATCAGAATCCACGTCAAG-TATCAGATCAAAATCCAGGTCAAGTAACAGATCAGAA
*
816184 TTCAAATC
64 TCCAAATC
816192 GAAAATCAGAT
1 -AAAATCAGAT
816203 AAAATTTTCA
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
71 4 0.06
72 61 0.91
73 2 0.03
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (71 bp):
AAAATCAGATCAGAATCCACGTCAAGTATCAGATCAAAATCCAGGTCAAGTAACAGATCAGAATC
CAAATC
Found at i:817794 original size:17 final size:18
Alignment explanation
Indices: 817762--817808 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
817752 AACTAACATT
*
817762 TCTTATGCACATCAATATA
1 TCTTAT-CAGATCAATATA
817781 T-TTATCAGATCAATATA
1 TCTTATCAGATCAATATA
*
817798 TCTTTTCAGAT
1 TCTTATCAGAT
817809 TTATTAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 12 0.48
18 12 0.48
19 1 0.04
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (18 bp):
TCTTATCAGATCAATATA
Found at i:818667 original size:13 final size:13
Alignment explanation
Indices: 818649--818679 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
818639 ACGCGTCAAC
*
818649 GGTCAATGGGTCG
1 GGTCAACGGGTCG
818662 GGTCAACGGGTCG
1 GGTCAACGGGTCG
818675 GGTCA
1 GGTCA
818680 GCAGGTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.45, T:0.19
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:823264 original size:230 final size:230
Alignment explanation
Indices: 822861--823321 Score: 868
Period size: 230 Copynumber: 2.0 Consensus size: 230
822851 CATCATGATC
822861 AATAATAAGACCCTTACTCAACAAGGCCCATAGCTTAAAATTGTCAATTGGAATCGATACTCTAC
1 AATAATAAGACCCTTACTCAACAAGGCCCATAGCTTAAAATTGTCAATTGGAATCGATACTCTAC
822926 TTAAATATTGACACTAGATATTTTCTTTTCCTGAAAATTTATTGTTTGGTTCGAGTTAGGATTTA
66 TTAAATATTGACACTAGATATTTTCTTTTCCTGAAAATTTATTGTTTGGTTCGAGTTAGGATTTA
822991 CTGCCGAAAAAAAAGTTAGATGAACTGAAGCCTTTTGGGATTAATTATATTGTTTTAAGCTGAAT
131 CTGCCGAAAAAAAAGTTAGATGAACTGAAGCCTTTTGGGATTAATTATATTGTTTTAAGCTGAAT
823056 TCATGATTCAGGATGATGAGTTATTCAATATATAT
196 TCATGATTCAGGATGATGAGTTATTCAATATATAT
* *
823091 AATAATAAGACCCTTACTCAACAAGGCCCATAGCTTAAAATTGTCAGTTTGAATCGATACTCTAC
1 AATAATAAGACCCTTACTCAACAAGGCCCATAGCTTAAAATTGTCAATTGGAATCGATACTCTAC
*
823156 TTAAATATTGACACTAGTTATTTTCTTTTCCTGAAAATTTATTGTTTGGTTCGAGTTAGGATTTA
66 TTAAATATTGACACTAGATATTTTCTTTTCCTGAAAATTTATTGTTTGGTTCGAGTTAGGATTTA
* *
823221 CTGCCGGAAAAAAAGTTAGATGAATTGAAGCCTTTTGGGATTAATTATATTGTTTTAAGCTGAAT
131 CTGCCGAAAAAAAAGTTAGATGAACTGAAGCCTTTTGGGATTAATTATATTGTTTTAAGCTGAAT
*
823286 TCATGATTTAGGATGATGAGTTATTCAATATATAT
196 TCATGATTCAGGATGATGAGTTATTCAATATATAT
823321 A
1 A
823322 TATTTGTTTT
Statistics
Matches: 225, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
230 225 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (230 bp):
AATAATAAGACCCTTACTCAACAAGGCCCATAGCTTAAAATTGTCAATTGGAATCGATACTCTAC
TTAAATATTGACACTAGATATTTTCTTTTCCTGAAAATTTATTGTTTGGTTCGAGTTAGGATTTA
CTGCCGAAAAAAAAGTTAGATGAACTGAAGCCTTTTGGGATTAATTATATTGTTTTAAGCTGAAT
TCATGATTCAGGATGATGAGTTATTCAATATATAT
Found at i:826273 original size:15 final size:15
Alignment explanation
Indices: 826235--826265 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
826225 ATGTAATGCA
826235 TATTGAGAAGAATGT
1 TATTGAGAAGAATGT
826250 TATTGAGAAGAATGT
1 TATTGAGAAGAATGT
826265 T
1 T
826266 TGTGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.35
Consensus pattern (15 bp):
TATTGAGAAGAATGT
Found at i:830258 original size:44 final size:45
Alignment explanation
Indices: 830203--830390 Score: 108
Period size: 44 Copynumber: 4.3 Consensus size: 45
830193 TATTGCGACG
*
830203 TTTGTAT--TAAAAAACGCCGCAATGTACCA-ACTT-TTAGCAGCA
1 TTTGTATCCTAAAAAACGCCGCAATATACCATACTTATT-GCAGCA
* * * * *
830245 TTTGTATCCT-AAAAATGCCGCTATATAGCATACTTATTGCGGCG
1 TTTGTATCCTAAAAAACGCCGCAATATACCATACTTATTGCAGCA
* * * * * * * *
830289 TTTGTATCCT-AAAAACACCACTATATTCCAGT-CCTATAGCGGCG
1 TTTGTATCCTAAAAAACGCCGCAATATACCA-TACTTATTGCAGCA
* * * * *
830333 TTT-TACCCT-AAAAACGCCGCTAA-ATACCATACCTATCGCGGCG
1 TTTGTATCCTAAAAAACGCCGC-AATATACCATACTTATTGCAGCA
830376 TTTGTATCCTAAAAA
1 TTTGTATCCTAAAAA
830391 TGTCGTTATA
Statistics
Matches: 117, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
42 8 0.07
43 49 0.42
44 53 0.45
45 7 0.06
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (45 bp):
TTTGTATCCTAAAAAACGCCGCAATATACCATACTTATTGCAGCA
Found at i:830303 original size:87 final size:87
Alignment explanation
Indices: 830190--830466 Score: 218
Period size: 87 Copynumber: 3.2 Consensus size: 87
830180 AAATATTAAC
* * * * * * *
830190 ACCTATTGCGACGTTTGTAT--TAAAAAACGCCGCAATGTACCA-ACTTTTAGCAGCATTTGTAT
1 ACCTATTGCGGCGTTTGTATCCT-AAAAACACCACAATATACCAGACCTATAGCAGCATTT-TAC
* * *
830252 CCTAAAAATGCCGCTATATAGCAT
64 CCTAAAAACGCCGCTAAATACCAT
* * * * * *
830276 ACTTATTGCGGCGTTTGTATCCTAAAAACACCACTATATTCCAGTCCTATAGCGGCGTTTTACCC
1 ACCTATTGCGGCGTTTGTATCCTAAAAACACCACAATATACCAGACCTATAGCAGCATTTTACCC
830341 TAAAAACGCCGCTAAATACCAT
66 TAAAAACGCCGCTAAATACCAT
* *** *** * * * * * *
830363 ACCTATCGCGGCGTTTGTATCCTAAAAATGTCGTTATATTCTAGTCCTGTAGCGGCGTTTGTACC
1 ACCTATTGCGGCGTTTGTATCCTAAAAACACCACAATATACCAGACCTATAGCAGCATTT-TACC
* * *
830428 CAAAAAATGCCGCTAAATACCAA
65 CTAAAAACGCCGCTAAATACCAT
830451 ACCTATTGCGGCGTTT
1 ACCTATTGCGGCGTTT
830467 TCATAAAAAA
Statistics
Matches: 158, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
86 18 0.11
87 89 0.56
88 51 0.32
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (87 bp):
ACCTATTGCGGCGTTTGTATCCTAAAAACACCACAATATACCAGACCTATAGCAGCATTTTACCC
TAAAAACGCCGCTAAATACCAT
Found at i:830418 original size:44 final size:44
Alignment explanation
Indices: 830245--830466 Score: 180
Period size: 44 Copynumber: 5.1 Consensus size: 44
830235 TTTAGCAGCA
* * ** * *
830245 TTTGTATCCTAAAAATGCCGCTATATAGCA-TACTTATTGCGGCG
1 TTTGTACCCTAAAAACGCCGCTATATTCCAGT-CCTATAGCGGCG
* * *
830289 TTTGTATCCTAAAAACACCACTATATTCCAGTCCTATAGCGGCG
1 TTTGTACCCTAAAAACGCCGCTATATTCCAGTCCTATAGCGGCG
* * *
830333 TTT-TACCCTAAAAACGCCGCTAAATACCA-TACCTATCGCGGCG
1 TTTGTACCCTAAAAACGCCGCTATATTCCAGT-CCTATAGCGGCG
* * * * * *
830376 TTTGTATCCTAAAAATGTCGTTATATTCTAGTCCTGTAGCGGCG
1 TTTGTACCCTAAAAACGCCGCTATATTCCAGTCCTATAGCGGCG
* * * * ** *
830420 TTTGTACCCAAAAAATGCCGCTAAATACCAAACCTATTGCGGCG
1 TTTGTACCCTAAAAACGCCGCTATATTCCAGTCCTATAGCGGCG
830464 TTT
1 TTT
830467 TCATAAAAAA
Statistics
Matches: 141, Mismatches: 33, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
42 1 0.01
43 35 0.25
44 103 0.73
45 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (44 bp):
TTTGTACCCTAAAAACGCCGCTATATTCCAGTCCTATAGCGGCG
Found at i:830477 original size:44 final size:43
Alignment explanation
Indices: 830429--830533 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 43
830419 GTTTGTACCC
*
830429 AAAAAATGCCGCTAAATACCAA-ACCTATTGCGGCGTTTTCATAA
1 AAAAAATGCCGCTAAATACCAACACCAATTGCGGCGTTTT--TAA
* *
830473 AAAAAATGCCGCGAAATATCAACACCAATTGCGGCGTTTTTAA
1 AAAAAATGCCGCTAAATACCAACACCAATTGCGGCGTTTTTAA
* * *
830516 GACAAACGCCGCTAAATA
1 AAAAAATGCCGCTAAATA
830534 TAGGTACCTA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 17 0.32
44 20 0.38
45 16 0.30
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (43 bp):
AAAAAATGCCGCTAAATACCAACACCAATTGCGGCGTTTTTAA
Found at i:830478 original size:88 final size:87
Alignment explanation
Indices: 830310--830480 Score: 236
Period size: 88 Copynumber: 2.0 Consensus size: 87
830300 AAAACACCAC
* *
830310 TATATTCCAGTCCTATAGCGGCGTTTTACCCTAAAAACGCCGCTAAATACCATACCTATCGCGGC
1 TATATTCCAGTCCTATAGCGGCGTTTTACCCAAAAAACGCCGCTAAATACCAAACCTATCGCGGC
***
830375 GTTTGTATCCTAAAAATGTCGT
66 GTTTGTATAAAAAAAATGTCGT
* * * *
830397 TATATTCTAGTCCTGTAGCGGCGTTTGTACCCAAAAAATGCCGCTAAATACCAAACCTATTGCGG
1 TATATTCCAGTCCTATAGCGGCGTTT-TACCCAAAAAACGCCGCTAAATACCAAACCTATCGCGG
830462 CGTTT-TCATAAAAAAAATG
65 CGTTTGT-ATAAAAAAAATG
830481 CCGCGAAATA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
87 25 0.34
88 48 0.66
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (87 bp):
TATATTCCAGTCCTATAGCGGCGTTTTACCCAAAAAACGCCGCTAAATACCAAACCTATCGCGGC
GTTTGTATAAAAAAAATGTCGT
Found at i:830551 original size:43 final size:42
Alignment explanation
Indices: 830451--830599 Score: 129
Period size: 43 Copynumber: 3.4 Consensus size: 42
830441 TAAATACCAA
* * * **
830451 ACCTATTGCGGCGTTTTCATAAAAAAAATGCCGCGAAATATCA-AC
1 ACCTATTACGGCGTTTT--T-AAAAAAACGCCGCTAAATAT-AGGT
* * *
830496 ACCAATTGCGGCGTTTTTAAGACAAACGCCGCTAAATATAGGT
1 ACCTATTACGGCGTTTTTAA-AAAAACGCCGCTAAATATAGGT
* * *
830539 ACCTATTACGGCGTTTGTTAAAAAAACGCCGCTATATATCGTT
1 ACCTATTACGGCGTTT-TTAAAAAAACGCCGCTAAATATAGGT
*
830582 ACCTATTGCGGCGTTTTT
1 ACCTATTACGGCGTTTTT
830600 GGTTAACAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 5 0.06
43 63 0.72
44 4 0.05
45 16 0.18
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (42 bp):
ACCTATTACGGCGTTTTTAAAAAAACGCCGCTAAATATAGGT
Found at i:834708 original size:21 final size:20
Alignment explanation
Indices: 834678--834718 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
834668 GGTATTGAGT
834678 CGGGTCTAGATATGGGCCTC
1 CGGGTCTAGATATGGGCCTC
*
834698 CGGGTTCTAGATCTGGGCCTC
1 CGGG-TCTAGATATGGGCCTC
834719 ATTTGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.12, C:0.27, G:0.34, T:0.27
Consensus pattern (20 bp):
CGGGTCTAGATATGGGCCTC
Found at i:834765 original size:3 final size:3
Alignment explanation
Indices: 834757--834846 Score: 90
Period size: 3 Copynumber: 30.0 Consensus size: 3
834747 ATTTGGCATG
* * * * *
834757 TAA TAA TAA TAT TAT TTA TAG TAA TAG TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
834805 TAA CAA TAA CAA TAA TAT TTA TAA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
834847 AATGAAAAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:835221 original size:48 final size:48
Alignment explanation
Indices: 835097--835367 Score: 390
Period size: 48 Copynumber: 5.7 Consensus size: 48
835087 TAAAATCTCA
* * * * *
835097 TTTGAAAACATCCTGCACTGAAGGTCTTACGGATGACCCGAAAG-CTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTT
* * * * *
835144 TTTAAAAACATCCTGCACTAAAGGTCTTAC-GAATGACTCGAAGGTTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAG-ATGACCCGAAGGTTTT
*
835192 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCTGAAGG---T
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTT
*
835237 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACTCGAAGGTTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTT
835285 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTT
835333 TTTGAAAACATCATGCACTGAAGGGCTTACAGATG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATG
835368 TGGGAAATAG
Statistics
Matches: 204, Mismatches: 14, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
45 43 0.21
46 1 0.00
47 38 0.19
48 121 0.59
49 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (48 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTT
Found at i:835284 original size:93 final size:93
Alignment explanation
Indices: 835097--835367 Score: 400
Period size: 93 Copynumber: 2.9 Consensus size: 93
835087 TAAAATCTCA
* * * * * *
835097 TTTGAAAACATCCTGCACTGAAGGTCTTACGGATGACCCGAAAGCTTTTTAAAAACATCCTGCAC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCG-AAG-GTTTTGAAAACATCATGCAC
* *
835162 TAAAGGTCTTAC-GAATGACTCGAAGGTTTT
64 TGAAGGGCTTACAG-ATGACTCGAAGGTTTT
*
835192 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCTGAAGGTTTTGAAAACATCATGCACTG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
835257 AAGGGCTTACAGATGACTCGAAGGTTTT
66 AAGGGCTTACAGATGACTCGAAGGTTTT
835285 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTTTGAAAACATCATGCA
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG---TTTTGAAAACATCATGCA
835350 CTGAAGGGCTTACAGATG
63 CTGAAGGGCTTACAGATG
835368 TGGGAAATAG
Statistics
Matches: 162, Mismatches: 10, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
93 86 0.53
94 4 0.02
95 36 0.22
96 36 0.22
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (93 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
AAGGGCTTACAGATGACTCGAAGGTTTT
Found at i:835350 original size:141 final size:140
Alignment explanation
Indices: 835097--835367 Score: 418
Period size: 141 Copynumber: 1.9 Consensus size: 140
835087 TAAAATCTCA
* * * *
835097 TTTGAAAACATCCTGCACTGAAGGTCTTACGGATGACCCGAAAGCTTTTTAAAAACATCCTGCAC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAAGCTTTTTAAAAACATCATGCAC
* *
835162 TAAAGGTCTTACGAATGACTCGAAGGTTTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
66 TAAAGGGCTTACGAATGACCCGAAGGTTTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
835227 ACCTGAAGGT
131 ACCTGAAGGT
* * * *
835237 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACTCGAAGGTTTTTTTGAAAACATCATGCA
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAAG-CTTTTTAAAAACATCATGCA
*
835302 CTGAAGGGCTTAC-AGATGACCCGAAGGTTTTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
65 CTAAAGGGCTTACGA-ATGACCCGAAGGTTTTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
835366 TG
129 TG
835368 TGGGAAATAG
Statistics
Matches: 118, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
140 40 0.34
141 78 0.66
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (140 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAAGCTTTTTAAAAACATCATGCAC
TAAAGGGCTTACGAATGACCCGAAGGTTTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
ACCTGAAGGT
Found at i:836073 original size:20 final size:22
Alignment explanation
Indices: 836039--836115 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
836029 TAAGGCTTTA
*
836039 ATCTTTGAAAAGAGAATCTATC
1 ATCTTTGAAGAGAGAATCTATC
*
836061 ATCTTTGAAGAGAGAATCTACC
1 ATCTTTGAAGAGAGAATCTATC
*
836083 ATATTTGAAGAGAGAATCTATC
1 ATCTTTGAAGAGAGAATCTATC
836105 ATCTTTGAAGA
1 ATCTTTGAAGA
836116 ATGTAGATGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (22 bp):
ATCTTTGAAGAGAGAATCTATC
Found at i:836563 original size:54 final size:54
Alignment explanation
Indices: 836480--836595 Score: 171
Period size: 54 Copynumber: 2.1 Consensus size: 54
836470 CATAATAATT
* *
836480 GGTTCGTAAAACATTTGACAACACATTCATTCTTTCCTGTGGTTTCTG-CACAGA
1 GGTTCGTAAAACATTTAACAACACATTCATCCTTTCCTGTGGTTTCTGTC-CAGA
* * *
836534 TGTTCGTAAAACATTTAATAACACATTCATCCTTTCCTGTGGTTTTTGTCCAGA
1 GGTTCGTAAAACATTTAACAACACATTCATCCTTTCCTGTGGTTTCTGTCCAGA
836588 GGTTCGTA
1 GGTTCGTA
836596 TTTGACAAAC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 54 0.98
55 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (54 bp):
GGTTCGTAAAACATTTAACAACACATTCATCCTTTCCTGTGGTTTCTGTCCAGA
Found at i:837695 original size:75 final size:76
Alignment explanation
Indices: 837556--837753 Score: 226
Period size: 75 Copynumber: 2.6 Consensus size: 76
837546 TTCAAAATGT
* *
837556 TATTCTAATTTCTGATTGAAATGGGCTTTCAGCATGCCCCAGCATTT-TCTAATACAGACGTTCA
1 TATTCCAATTTCTGATTGAAATGGGCTTTCAGCATGCCCCAGCATTTGTCTAATACAGACATTCA
**
837620 AAATGCGCCAA
66 AAACACGCCAA
* *
837631 TATTCCAATTTCTGATTGAAATGGGCTTTCAGCATGCCCCAGCATTTGT-T--GACGTGAACATT
1 TATTCCAATTTCTGATTGAAATGGGCTTTCAGCATGCCCCAGCATTTGTCTAATAC-AG-ACATT
* *
837693 CAAAACACGTCGA
64 CAAAACACGCCAA
* * * *
837706 TATTCCTGA-TTATGATTGAAATGGGCTTTCAGCATACCCCAACATTTG
1 TATTCC-AATTTCTGATTGAAATGGGCTTTCAGCATGCCCCAGCATTTG
837754 CTTCTTGTTG
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
73 2 0.02
74 1 0.01
75 102 0.95
76 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (76 bp):
TATTCCAATTTCTGATTGAAATGGGCTTTCAGCATGCCCCAGCATTTGTCTAATACAGACATTCA
AAACACGCCAA
Found at i:840102 original size:32 final size:32
Alignment explanation
Indices: 840063--840129 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
840053 TGAAGAAATG
* * *
840063 GTTGTTATGCTTATCTGGTAGAGATACTTCTT
1 GTTGTTATGCTCATCTCGTAGAAATACTTCTT
*
840095 GTTGTTATGCTCATCTCGTATAAATACTTCTT
1 GTTGTTATGCTCATCTCGTAGAAATACTTCTT
840127 GTT
1 GTT
840130 TCCAGACTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.19, C:0.15, G:0.18, T:0.48
Consensus pattern (32 bp):
GTTGTTATGCTCATCTCGTAGAAATACTTCTT
Found at i:840607 original size:20 final size:19
Alignment explanation
Indices: 840584--840634 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
840574 CATTTTTTTC
*
840584 TTTTTTTGTCTTCCTTCTT
1 TTTTTTTTTCTTCCTTCTT
*
840603 TTTTTTTCTTTTTCCTTCTT
1 TTTTTTT-TTCTTCCTTCTT
*
840623 TTCCTTTTTTCT
1 TT-TTTTTTTCT
840635 CTTCTTCAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.27
20 15 0.58
21 4 0.15
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTTTTCTTCCTTCTT
Found at i:840631 original size:27 final size:27
Alignment explanation
Indices: 840576--840632 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
840566 TTTTGATTCA
*
840576 TTTTTTTCTTTTTTTGTCTTCCTTCTT
1 TTTTTTTCTTTTTTTCTCTTCCTTCTT
*
840603 TTTTTTTCTTTTTCCTTCTTTTCCTT-TT
1 TTTTTTTCTTTTT--TTCTCTTCCTTCTT
840631 TT
1 TT
840633 CTCTTCTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 13 0.50
28 4 0.15
29 9 0.35
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (27 bp):
TTTTTTTCTTTTTTTCTCTTCCTTCTT
Found at i:843697 original size:43 final size:43
Alignment explanation
Indices: 843614--843698 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
843604 TCGTGCATCA
*
843614 AACAAAACTTTACATATAGGGGACAACTTTCAGTCCTAACTTT
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTT
* * *
843657 AACAAAACTTTACATATAGGGGATAACTTTCCCTCTTAACTT
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTT
843699 CTCTAAAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (43 bp):
AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTT
Found at i:845098 original size:22 final size:22
Alignment explanation
Indices: 845056--845103 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
845046 AATACTTGAA
*
845056 AATAAAATAAAATAAAAATATT
1 AATAAAATAAAATAAAAATATC
* *
845078 AATAAAA-AATAATATACATATC
1 AATAAAATAA-AATAAAAATATC
845100 AATA
1 AATA
845104 TTATGAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (22 bp):
AATAAAATAAAATAAAAATATC
Found at i:845126 original size:28 final size:26
Alignment explanation
Indices: 845083--845140 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 26
845073 ATATTAATAA
* *
845083 AAAATAATATACATATCAATATTATG
1 AAAATAATATACATATAAAAATTATG
* *
845109 AAAATAATAAGTATATATAAAAATTTTG
1 AAAATAAT-A-TACATATAAAAATTATG
845137 AAAA
1 AAAA
845141 GAAAGAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 8 0.31
27 1 0.04
28 17 0.65
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAATAATATACATATAAAAATTATG
Found at i:846976 original size:441 final size:439
Alignment explanation
Indices: 846110--846978 Score: 1621
Period size: 441 Copynumber: 2.0 Consensus size: 439
846100 TAGGATTAAA
*
846110 ATATAAGATATATAAATTAATAGACAAAATGAAAATTAAAAAAAAATGACAAACATATAAAATAT
1 ATATAAGATATATAAATTAATAGACAAAATGAAAATTAAAAAAAAATGACAAACATATAAAATAC
*
846175 AAAATCTAAAGATCCTAATTTGAATTATTAAAAAAGATATGTACTAACAATGTAATTTAGCCCAA
66 AAAACCTAAAGATCCTAATTTGAATTATTAAAAAAGATATGTACTAACAATGTAATTTAGCCCAA
846240 ATATTAATTATCCGGGTTAAAATAAATTTTATTAAAATTACCAGGGACTAAATAAAGTATTTACC
131 ATATTAATTATCCGGGTTAAAATAAATTTTATTAAAATTACCAGGGACTAAATAAAGTATTTACC
*
846305 ATAAATATGTAAGTATAATAATAGTGACTAAATTATAAATTAAATAAAACTATAAAGCCGGATTG
196 ATAAATATGTAAGTATAATAATAGTGACTAAATTATAAATTAAATAAAACTATAAAGCCGAATTG
* *
846370 AAATAATTAGAAGTTGATTTTAGTGACTGAAATAGAAAGTTACAAAACTAGGATGGCTACACACG
261 AAATAATTAGAAGTTGATTTTAGTGAATGAAATAAAAAGTTACAAAACTAGGATGGCTACACACG
*
846435 TGATTTTTCCCAGATGGAAATTACAAAGAAGTCCCTCCCCAAAACGACGTAGTTTTGAGGAGGGT
326 TGATTTTTCCCAGATGAAAATTACAAAGAAGTCCCTCCCCAAAACGACGTAGTTTTGAGGAGGGT
846500 ATAAATAGACCTTAAATAGCCTAAAATTCCCAAAATTCATCGTTTCTTC
391 ATAAATAGACCTTAAATAGCCTAAAATTCCCAAAATTCATCGTTTCTTC
*
846549 ATATAAGATATATAAATTAATAGACAAAATGAAAATTAAAAAAAACAATGACAAATATATAAAAT
1 ATATAAGATATATAAATTAATAGACAAAATGAAAATT-AAAAAAA-AATGACAAACATATAAAAT
*
846614 ACAAAACCTAAAGATCCTAATTTGAATTATTAAAAAAGATATGTACTAACAATGTAATTTAGCCT
64 ACAAAACCTAAAGATCCTAATTTGAATTATTAAAAAAGATATGTACTAACAATGTAATTTAGCCC
*
846679 AAATATTAATTATTCGGGTTAAAATAAATTTTATTAAAATTACCAGGGACTAAATAAAGTATTTA
129 AAATATTAATTATCCGGGTTAAAATAAATTTTATTAAAATTACCAGGGACTAAATAAAGTATTTA
*
846744 CCATAAATATGTAAGTATAATAATAGTGACTAAATTATGAATTAAATAAAACTATAAAGCCGAAT
194 CCATAAATATGTAAGTATAATAATAGTGACTAAATTATAAATTAAATAAAACTATAAAGCCGAAT
846809 TGAAATAATTAGAAGTTGATTTTAGTGAATGAAATAAAAAGTTACAAAACTAGGATGGCTACACA
259 TGAAATAATTAGAAGTTGATTTTAGTGAATGAAATAAAAAGTTACAAAACTAGGATGGCTACACA
*
846874 CGTGATTTTTCCCAGATGAAAATTACACAGAAGTCCCTCCCCAAAACGACGTAGTTTTGAGGAGG
324 CGTGATTTTTCCCAGATGAAAATTACAAAGAAGTCCCTCCCCAAAACGACGTAGTTTTGAGGAGG
846939 GTATAAATAGACCTTAAATAGCCTAAAATTCCCAAAATTC
389 GTATAAATAGACCTTAAATAGCCTAAAATTCCCAAAATTC
846979 CTCATTTATT
Statistics
Matches: 417, Mismatches: 11, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
439 37 0.09
440 7 0.02
441 373 0.89
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (439 bp):
ATATAAGATATATAAATTAATAGACAAAATGAAAATTAAAAAAAAATGACAAACATATAAAATAC
AAAACCTAAAGATCCTAATTTGAATTATTAAAAAAGATATGTACTAACAATGTAATTTAGCCCAA
ATATTAATTATCCGGGTTAAAATAAATTTTATTAAAATTACCAGGGACTAAATAAAGTATTTACC
ATAAATATGTAAGTATAATAATAGTGACTAAATTATAAATTAAATAAAACTATAAAGCCGAATTG
AAATAATTAGAAGTTGATTTTAGTGAATGAAATAAAAAGTTACAAAACTAGGATGGCTACACACG
TGATTTTTCCCAGATGAAAATTACAAAGAAGTCCCTCCCCAAAACGACGTAGTTTTGAGGAGGGT
ATAAATAGACCTTAAATAGCCTAAAATTCCCAAAATTCATCGTTTCTTC
Found at i:847082 original size:22 final size:22
Alignment explanation
Indices: 847054--847103 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
847044 CACCGGTCGG
* **
847054 CCACCGCCGATTACTATTCTGA
1 CCACCGCCGATCACTATTCCAA
847076 CCACCGCCGATCACTATTCCAA
1 CCACCGCCGATCACTATTCCAA
847098 CCACCG
1 CCACCG
847104 GTCACTATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.44, G:0.12, T:0.20
Consensus pattern (22 bp):
CCACCGCCGATCACTATTCCAA
Found at i:847548 original size:23 final size:23
Alignment explanation
Indices: 847521--847565 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
847511 AACATGACGG
847521 CGGAGCAGCTGGAGTAGAGGCGA
1 CGGAGCAGCTGGAGTAGAGGCGA
*
847544 CGGAGCAGTTGGAGTAGAGGCG
1 CGGAGCAGCTGGAGTAGAGGCG
847566 GCAGAGAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.16, G:0.49, T:0.11
Consensus pattern (23 bp):
CGGAGCAGCTGGAGTAGAGGCGA
Found at i:847636 original size:21 final size:21
Alignment explanation
Indices: 847608--847665 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
847598 TTGGGTCAGG
*
847608 TCTAGATCTGGGCCTTCGGGT
1 TCTAGATCTGGGCCTCCGGGT
*
847629 TCTGGATCTGGGCCTCCGGGT
1 TCTAGATCTGGGCCTCCGGGT
*
847650 TCTAGATCTAGGCCTC
1 TCTAGATCTGGGCCTC
847666 ATTTGTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.10, C:0.28, G:0.31, T:0.31
Consensus pattern (21 bp):
TCTAGATCTGGGCCTCCGGGT
Done.