Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_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: 4819703
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 21
Found at i:698631 original size:64 final size:63
Alignment explanation
Indices: 698494--698651 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 63
698484 AATTGTTCAG
* * * *
698494 TGTGTATCGATGCACAGGAAGTGCATCGATGCACCCCTTAAAAATGGAAATATCGAATGCAATT
1 TGTGTATCGATGCATAGGAAGTGCATCGATACACCCCTTAAAAATGAAAACATCGAATGC-ATT
* * * * *
698558 AGTGCATCGATGCATAAGAAGTGCATCGATACACCCCCTT-AAGATTAAAACATCGAAGGTGC-T
1 TGTGTATCGATGCATAGGAAGTGCATCGATACA-CCCCTTAAAAATGAAAACATCGAA--TGCAT
698621 T
63 T
* *
698622 TGTGTATCGATGCATGGGTAGTGCATCGAT
1 TGTGTATCGATGCATAGGAAGTGCATCGAT
698652 GCACATGTTA
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
64 68 0.88
65 6 0.08
66 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (63 bp):
TGTGTATCGATGCATAGGAAGTGCATCGATACACCCCTTAAAAATGAAAACATCGAATGCATT
Found at i:700202 original size:173 final size:177
Alignment explanation
Indices: 699903--700260 Score: 670
Period size: 173 Copynumber: 2.0 Consensus size: 177
699893 ATGAGAAGAC
*
699903 ATAAGAATAAGATATAAGCAAGGTGATAAGAAATGTGAAATGACGTGTAAAGTTAATATAAGTTG
1 ATAATAATAAGATATAAGCAAGGTGATAAGAAATGTGAAATGACGTGTAAAGTTAATATAAGTTG
699968 TGTAAAACTGATCTACGTGATTATATGTATATGTGATCCAAGCTATGTGACCTAAGATACGTG-A
66 TGTAAAACTGATCTACGTGATTATATGTATATGTGATCCAAGCTATGTGACCTAAGATACGTGAA
700032 AGGTGAAAGTGAA-T-TGTGTCTATGTGAATACGTGAAATGACATAA
131 AGGTGAAAGTGAATTATGTGTCTATGTGAATACGTGAAATGACATAA
*
700077 ATAATAATTAGATATAAGCAAGGTGATAAGAAATGTGAAATGACGTGTAAAGTT-ATATAAGTTG
1 ATAATAATAAGATATAAGCAAGGTGATAAGAAATGTGAAATGACGTGTAAAGTTAATATAAGTTG
700141 TGTAAAACTGATCTACGTGATTATATGTATATGTGATCCAAGCTATGTGACCTAAGATACGTGAA
66 TGTAAAACTGATCTACGTGATTATATGTATATGTGATCCAAGCTATGTGACCTAAGATACGTGAA
700206 AGGTGAAAGTGAATTATGTGTCTATGTGAATACGTGAAATGACATAA
131 AGGTGAAAGTGAATTATGTGTCTATGTGAATACGTGAAATGACATAA
700253 ATAATAAT
1 ATAATAAT
700261 GCCCATGTTA
Statistics
Matches: 179, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
173 73 0.41
174 66 0.37
175 1 0.01
176 39 0.22
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (177 bp):
ATAATAATAAGATATAAGCAAGGTGATAAGAAATGTGAAATGACGTGTAAAGTTAATATAAGTTG
TGTAAAACTGATCTACGTGATTATATGTATATGTGATCCAAGCTATGTGACCTAAGATACGTGAA
AGGTGAAAGTGAATTATGTGTCTATGTGAATACGTGAAATGACATAA
Found at i:700503 original size:23 final size:23
Alignment explanation
Indices: 700450--700511 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
700440 GACATTTTAT
*
700450 ATGGCACTTTGGTGCAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
* * *
700473 ACGACACTTCGGTGCAATTCTAT
1 ATGGCACTTCGGTGCAATTCTAC
*
700496 GTGGCACTTCGGTGCA
1 ATGGCACTTCGGTGCA
700512 TTTATATGAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (23 bp):
ATGGCACTTCGGTGCAATTCTAC
Found at i:701398 original size:23 final size:23
Alignment explanation
Indices: 701369--701425 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
701359 CTCGTATAAA
*
701369 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* *
701392 TGTACCGAAGTGCCGCATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
701415 TGCACCGAAGT
1 TGCACCGAAGT
701426 TCCATATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:703018 original size:24 final size:20
Alignment explanation
Indices: 702965--703022 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
702955 TTCCCCTTGA
*
702965 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
702985 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
703008 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
703023 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:706528 original size:23 final size:23
Alignment explanation
Indices: 706502--706562 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
706492 CTCGTATAAA
706502 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* * *
706525 TGCACCAAAGTACCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
706548 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
706563 TATAAAATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.31, C:0.28, G:0.25, T:0.16
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:707782 original size:25 final size:25
Alignment explanation
Indices: 707736--707787 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
707726 ACATACAAAA
707736 ACATAACAATTCATATAATTAAACAT
1 ACATAACAATTCATATAATT-AACAT
* **
707762 ACAT-ACACTTCATATTGTTAACAT
1 ACATAACAATTCATATAATTAACAT
707786 AC
1 AC
707788 TTATAATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.30
25 12 0.52
26 4 0.17
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (25 bp):
ACATAACAATTCATATAATTAACAT
Found at i:708130 original size:24 final size:20
Alignment explanation
Indices: 708077--708134 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
708067 TTCCCCTTGA
*
708077 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
708097 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
708120 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
708135 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:711655 original size:24 final size:25
Alignment explanation
Indices: 711613--711662 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
711603 ACCAAAGTGT
711613 CGCGTAGAATTTTGTCCCGAAGAAC
1 CGCGTAGAATTTTGTCCCGAAGAAC
711638 CGCGTAGAA-TTTGTCCCGAAGAAC
1 CGCGTAGAATTTTGTCCCGAAGAAC
711662 C
1 C
711663 ACATAGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (25 bp):
CGCGTAGAATTTTGTCCCGAAGAAC
Found at i:711669 original size:24 final size:25
Alignment explanation
Indices: 711617--711670 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 25
711607 AAGTGTCGCG
* *
711617 TAGAATTTTGTCCCGAAGAACCGCG
1 TAGAATTTTGTCCCGAAGAACCACA
711642 TAGAA-TTTGTCCCGAAGAACCACA
1 TAGAATTTTGTCCCGAAGAACCACA
711666 TAGAA
1 TAGAA
711671 ATTCCTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (25 bp):
TAGAATTTTGTCCCGAAGAACCACA
Found at i:713387 original size:21 final size:21
Alignment explanation
Indices: 713363--713418 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
713353 TTGGTTGAGG
713363 GGGTATCGATTCCCATTGAAT
1 GGGTATCGATTCCCATTGAAT
* *
713384 GGGTATCGATACCCATTTAAT
1 GGGTATCGATTCCCATTGAAT
*
713405 GGGTACCGATTCCC
1 GGGTATCGATTCCC
713419 CTAGCCCAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (21 bp):
GGGTATCGATTCCCATTGAAT
Found at i:716830 original size:24 final size:25
Alignment explanation
Indices: 716779--716845 Score: 93
Period size: 24 Copynumber: 2.7 Consensus size: 25
716769 ATAAATTGCA
716779 CCGAAGTG-CCGCATAGAATTTTGTC
1 CCGAAG-GACCGCATAGAATTTTGTC
*
716804 CCGAAGGACCGCGTAGAA-TTTGTC
1 CCGAAGGACCGCATAGAATTTTGTC
*
716828 CCGAAGGACCACATAGAA
1 CCGAAGGACCGCATAGAA
716846 ATTCCTTAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.61
25 15 0.39
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.19
Consensus pattern (25 bp):
CCGAAGGACCGCATAGAATTTTGTC
Found at i:718563 original size:21 final size:21
Alignment explanation
Indices: 718539--718594 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
718529 TCGGTTGAGG
*
718539 GGGTATCGATTCCCATTGAAT
1 GGGTACCGATTCCCATTGAAT
718560 GGGTACCGATTCCCATTGAAT
1 GGGTACCGATTCCCATTGAAT
718581 GGGTACCGATTCCC
1 GGGTACCGATTCCC
718595 CTAGCCCATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (21 bp):
GGGTACCGATTCCCATTGAAT
Found at i:719197 original size:12 final size:12
Alignment explanation
Indices: 719180--719204 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
719170 AGGCTGAGTC
719180 TAGGAGTTACAT
1 TAGGAGTTACAT
719192 TAGGAGTTACAT
1 TAGGAGTTACAT
719204 T
1 T
719205 GGGTTTTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (12 bp):
TAGGAGTTACAT
Found at i:725209 original size:36 final size:36
Alignment explanation
Indices: 725163--725232 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
725153 GAGTGATTAC
*
725163 ATTTGTTAATTGTTATATATCTAAATAAAGTTAATA
1 ATTTGTTAATTGTTATATATCCAAATAAAGTTAATA
* *
725199 ATTTTTTAATTGTTATATATCCAATTAAAGTTAA
1 ATTTGTTAATTGTTATATATCCAAATAAAGTTAA
725233 AGACAAAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (36 bp):
ATTTGTTAATTGTTATATATCCAAATAAAGTTAATA
Found at i:727281 original size:23 final size:23
Alignment explanation
Indices: 727235--727290 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
727225 CAGCTCGTAT
* * *
727235 AAATGCATCGAAGTGCCACGTAG
1 AAATGCACCGTAGTGCCACATAG
** *
727258 AGTTGCACCGTAGTGCCGCATAG
1 AAATGCACCGTAGTGCCACATAG
727281 AAATGCACCG
1 AAATGCACCG
727291 AAGTTCCATA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (23 bp):
AAATGCACCGTAGTGCCACATAG
Found at i:728235 original size:21 final size:21
Alignment explanation
Indices: 728193--728235 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
728183 TTTCTGGGCT
* * *
728193 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
728214 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
728235 A
1 A
728236 ACGAACCAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:730947 original size:12 final size:12
Alignment explanation
Indices: 730929--730964 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
730919 TATATGTGTT
730929 CATGTGATATGA
1 CATGTGATATGA
*
730941 TATGTGATATGA
1 CATGTGATATGA
730953 CATGTGATATGA
1 CATGTGATATGA
730965 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:730986 original size:23 final size:26
Alignment explanation
Indices: 730929--730997 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
730919 TATATGTGTT
**
730929 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
730953 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
730978 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
730998 CACAAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:731156 original size:15 final size:15
Alignment explanation
Indices: 731109--731147 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
731099 GAGGGTATAA
*
731109 TAGTCATTCGGGACG
1 TAGTCCTTCGGGACG
*
731124 TAGTCCTTCGGGAGG
1 TAGTCCTTCGGGACG
731139 TAGTCCTTC
1 TAGTCCTTC
731148 AGGATGTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:737798 original size:12 final size:12
Alignment explanation
Indices: 737780--737815 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
737770 TATATGTGTT
737780 CATGTGATATGA
1 CATGTGATATGA
*
737792 TATGTGATATGA
1 CATGTGATATGA
*
737804 CCTGTGATATGA
1 CATGTGATATGA
737816 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:738082 original size:15 final size:15
Alignment explanation
Indices: 737966--738073 Score: 189
Period size: 15 Copynumber: 7.2 Consensus size: 15
737956 ATAATAGACT
* *
737966 TTCGGGATGTAGTCT
1 TTCGGGACGTAGTCC
*
737981 TTCGGGACGTAGTCT
1 TTCGGGACGTAGTCC
737996 TTCGGGACGTAGTCC
1 TTCGGGACGTAGTCC
738011 TTCGGGACGTAGTCC
1 TTCGGGACGTAGTCC
738026 TTCGGGACGTAGTCC
1 TTCGGGACGTAGTCC
738041 TTCGGGACGTAGTCC
1 TTCGGGACGTAGTCC
738056 TTCGGGACGTAGTCC
1 TTCGGGACGTAGTCC
738071 TTC
1 TTC
738074 AGGATGTAGG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 91 1.00
ACGTcount: A:0.13, C:0.24, G:0.32, T:0.31
Consensus pattern (15 bp):
TTCGGGACGTAGTCC
Found at i:738918 original size:23 final size:23
Alignment explanation
Indices: 738884--738975 Score: 139
Period size: 23 Copynumber: 4.0 Consensus size: 23
738874 CACTATTATA
*
738884 TGGCACTACGGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
*
738907 CGGCACTCCGGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
*
738930 TGGCACTCCAGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
* *
738953 TGGCACTTCGGTGCAATTATACG
1 TGGCACTCCGGTGCAATTCTACG
738976 AGCTGTGGTG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (23 bp):
TGGCACTCCGGTGCAATTCTACG
Found at i:745774 original size:23 final size:23
Alignment explanation
Indices: 745721--745785 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
745711 ACATTATTAT
*
745721 ATGGCACT-ACGGTGCAATTCTAG
1 ATGGCACTCA-GGTGCAATTCTAC
** *
745744 GCGACACTCAGGTGCAATTCTAC
1 ATGGCACTCAGGTGCAATTCTAC
745767 ATGGCACTTC-GGTGCAATT
1 ATGGCAC-TCAGGTGCAATT
745786 ATACGAGCTG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
23 30 0.91
24 3 0.09
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (23 bp):
ATGGCACTCAGGTGCAATTCTAC
Found at i:751018 original size:23 final size:23
Alignment explanation
Indices: 750984--751075 Score: 130
Period size: 23 Copynumber: 4.0 Consensus size: 23
750974 CATTATTATA
* *
750984 TGGCACTACGGTGCAATTCTACA
1 TGGCACTCCGGTGCAATTCTACG
*
751007 CGGCACTCCGGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
*
751030 TGGCACTCCAGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
* *
751053 TGGCACTTCGGTGCAATTATACG
1 TGGCACTCCGGTGCAATTCTACG
751076 AGCTGTGGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (23 bp):
TGGCACTCCGGTGCAATTCTACG
Found at i:756798 original size:23 final size:23
Alignment explanation
Indices: 756730--756798 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
756720 CACCACATCT
* *
756730 CGTATAAATGCACCGAAGTGTCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
756753 TGTAGAATTGCACCGTAGGGCCA
1 CGTAGAAATGCACCGAAGTGCCA
756776 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
756799 TATAAGGTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:757276 original size:2 final size:2
Alignment explanation
Indices: 757269--757296 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
757259 ATTCATCTTC
757269 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
757297 CATTTTTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:758469 original size:24 final size:24
Alignment explanation
Indices: 758382--758462 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
758372 TTCCCTTGAA
*
758382 GTGCATCGATGCAT-TC-T-ACA-
1 GTGCATCGATGCATCCCTTAACAT
*
758402 GTGTATCGATGCATCCCTTAACAT
1 GTGCATCGATGCATCCCTTAACAT
* *
758426 ATGCACCGATGCATCCCTTAACAT
1 GTGCATCGATGCATCCCTTAACAT
758450 GTGCATCGATGCA
1 GTGCATCGATGCA
758463 CTCCTTATGC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 13 0.26
21 1 0.02
22 1 0.02
23 3 0.06
24 32 0.64
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (24 bp):
GTGCATCGATGCATCCCTTAACAT
Found at i:770470 original size:29 final size:30
Alignment explanation
Indices: 770436--770496 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
770426 ACACAATCTA
* * *
770436 TAAAATTAATTTTA-ATTT-AAAATGATTT
1 TAAAAATAATTTAATATTTAAAAATCATTT
*
770464 TAAAAATGATTTAATATTTAAAAATCATTT
1 TAAAAATAATTTAATATTTAAAAATCATTT
770494 TAA
1 TAA
770497 TTTTATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 11 0.41
29 4 0.15
30 12 0.44
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (30 bp):
TAAAAATAATTTAATATTTAAAAATCATTT
Found at i:770501 original size:18 final size:17
Alignment explanation
Indices: 770460--770501 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
770450 ATTTAAAATG
*
770460 ATTTTAAAAATGATTTA
1 ATTTTAAAAATCATTTA
770477 ATATTTAAAAATCATTTTA
1 AT-TTTAAAAATCA-TTTA
770496 ATTTTA
1 ATTTTA
770502 TTATTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 14 0.64
19 6 0.27
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
ATTTTAAAAATCATTTA
Found at i:774405 original size:2 final size:2
Alignment explanation
Indices: 774398--774438 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
774388 GTGGACATGA
774398 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
774439 AACCTGGGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:776489 original size:12 final size:12
Alignment explanation
Indices: 776474--776504 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
776464 ACACACACAC
776474 ACAGAGAGAGAG
1 ACAGAGAGAGAG
776486 ACAGAGAGAGAG
1 ACAGAGAGAGAG
*
776498 AGAGAGA
1 ACAGAGA
776505 ACCAGTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.42, T:0.00
Consensus pattern (12 bp):
ACAGAGAGAGAG
Found at i:785950 original size:25 final size:26
Alignment explanation
Indices: 785906--785959 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
785896 AGAAGTGTTT
* *
785906 CCTAGCAATAATTATAATGTTGTTAC
1 CCTAACAATAATTATAATGTTGATAC
785932 CCTAACAATAATTAT-ATGTTGATAC
1 CCTAACAATAATTATAATGTTGATAC
785957 CCT
1 CCT
785960 CCAAAGACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (26 bp):
CCTAACAATAATTATAATGTTGATAC
Found at i:820928 original size:2 final size:2
Alignment explanation
Indices: 820921--820945 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
820911 CCTAAAAGGA
820921 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
820946 AGCAGATGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:826771 original size:5 final size:5
Alignment explanation
Indices: 826758--826795 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
826748 CGAGTAACAT
*
826758 AGATT AGATG AGATG AGATG AGATG AGATG AGATG AGA
1 AGATG AGATG AGATG AGATG AGATG AGATG AGATG AGA
826796 ACTCTTTGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.21
Consensus pattern (5 bp):
AGATG
Found at i:830364 original size:16 final size:18
Alignment explanation
Indices: 830322--830367 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
830312 TTCACGTAAT
830322 GTAAGATTACCAGTGGGAA
1 GTAAGATTACCAG-GGGAA
830341 TGTAAGATTACCA-GGGAA
1 -GTAAGATTACCAGGGGAA
830359 -TAAGATTAC
1 GTAAGATTAC
830368 TGGGAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.35
18 5 0.19
20 12 0.46
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
GTAAGATTACCAGGGGAA
Found at i:831125 original size:141 final size:140
Alignment explanation
Indices: 830939--831200 Score: 357
Period size: 141 Copynumber: 1.9 Consensus size: 140
830929 TTCCCCCATC
* * *
830939 TAAGGGTGCGTTTGGTTCACGGAATGTAAGATTACCAGTGGGAATAAAAAATTA-C-CAGGGAAT
1 TAAGAGTGCGTTTGGTTCACGGAATATAAGATTACCAATGGGAAT--AAAATTATCGCA-GGAAT
* * ** *
831002 AGGATTACTGAGAATGTTGTATTTTGTATTTGGTTGGTTTGGCAGGAATATAAGATTACCGTGTT
63 AAGATTACTGAGAATGTTGTATTTTGTATTTGGTTCGTTTAACAAGAATATAAGATTACCGTGTT
831067 TGGTTTATAAGAA
128 TGGTTTATAAGAA
* *
831080 TAAGAGTGCGTTTGGTTCACGGAATATAAGATTACTAATGGGAATAAGATTATCGGCAGGAATAA
1 TAAGAGTGCGTTTGGTTCACGGAATATAAGATTACCAATGGGAATAAAATTATC-GCAGGAATAA
* * *
831145 GATTATTGAGAATGTTGTATTTTGTGTTTGGTTCGTTTAACAAGAATGTAAGATTA
65 GATTACTGAGAATGTTGTATTTTGTATTTGGTTCGTTTAACAAGAATATAAGATTA
831201 TCGTATTTTG
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
139 6 0.06
140 1 0.01
141 96 0.91
142 2 0.02
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (140 bp):
TAAGAGTGCGTTTGGTTCACGGAATATAAGATTACCAATGGGAATAAAATTATCGCAGGAATAAG
ATTACTGAGAATGTTGTATTTTGTATTTGGTTCGTTTAACAAGAATATAAGATTACCGTGTTTGG
TTTATAAGAA
Found at i:831889 original size:37 final size:37
Alignment explanation
Indices: 831816--831890 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
831806 GTTGGAAAAT
* *
831816 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATACTTTCTTTAAAAAAATTAAAATCATAAA
* *
831853 ATTTATATACTTTCTTTTACAAAATTTAAAAT-ATAAA
1 ATTTATATACTTTC-TTTAAAAAAATTAAAATCATAAA
831890 A
1 A
831891 AATTTTAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 19 0.58
38 14 0.42
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (37 bp):
ATTTATATACTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:833048 original size:17 final size:18
Alignment explanation
Indices: 833022--833060 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
833012 GAAAAATATA
833022 AAAATATGACTTTTTGG-
1 AAAATATGACTTTTTGGT
*
833039 AAAATTTGACTTTTTGGT
1 AAAATATGACTTTTTGGT
833057 AAAA
1 AAAA
833061 GTCAACGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (18 bp):
AAAATATGACTTTTTGGT
Found at i:834118 original size:91 final size:86
Alignment explanation
Indices: 833994--834166 Score: 256
Period size: 86 Copynumber: 2.0 Consensus size: 86
833984 ATTGACCCAA
*
833994 AATCTTTCAAAACTACCCATTATGATCCTTTAATTAAATTAAATAAATTTTACCATAGAAATTTA
1 AATCTTTCAAAACTACCCATTATGATCCCTTAATTAAA-T---T-AATTTTACCATAGAAATTTA
834059 GGGTGTAACAAAATCAACTTTACCAT
61 GGGTGTAACAAAATCAACTTTACCAT
* * * *
834085 AATCTTTCAAAATTGCCTATTATGATCCCTTAATTAAATTAATTTTACCTTAGAAATTTAGGGTG
1 AATCTTTCAAAACTACCCATTATGATCCCTTAATTAAATTAATTTTACCATAGAAATTTAGGGTG
834150 TAACAAAATCAACTTTA
66 TAACAAAATCAACTTTA
834167 TTTTTGTATG
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
86 41 0.53
87 1 0.01
90 1 0.01
91 34 0.44
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.37
Consensus pattern (86 bp):
AATCTTTCAAAACTACCCATTATGATCCCTTAATTAAATTAATTTTACCATAGAAATTTAGGGTG
TAACAAAATCAACTTTACCAT
Found at i:847559 original size:168 final size:168
Alignment explanation
Indices: 847281--847616 Score: 672
Period size: 168 Copynumber: 2.0 Consensus size: 168
847271 AAATGCAGGA
847281 TGGCGGAATAGATCCTGATGAGGTTACCATGGTTCATTGTTTATCTGCATGCTCACAACTTGGAG
1 TGGCGGAATAGATCCTGATGAGGTTACCATGGTTCATTGTTTATCTGCATGCTCACAACTTGGAG
847346 CCCTAGATATAGGAATTTGGATTCATCATTATATCGAAAAGAACAGATTTCATTTAAATGTCGTG
66 CCCTAGATATAGGAATTTGGATTCATCATTATATCGAAAAGAACAGATTTCATTTAAATGTCGTG
847411 TCGGGGACTGCTTTAGTTGACATGTATGCTAAGTGTGG
131 TCGGGGACTGCTTTAGTTGACATGTATGCTAAGTGTGG
847449 TGGCGGAATAGATCCTGATGAGGTTACCATGGTTCATTGTTTATCTGCATGCTCACAACTTGGAG
1 TGGCGGAATAGATCCTGATGAGGTTACCATGGTTCATTGTTTATCTGCATGCTCACAACTTGGAG
847514 CCCTAGATATAGGAATTTGGATTCATCATTATATCGAAAAGAACAGATTTCATTTAAATGTCGTG
66 CCCTAGATATAGGAATTTGGATTCATCATTATATCGAAAAGAACAGATTTCATTTAAATGTCGTG
847579 TCGGGGACTGCTTTAGTTGACATGTATGCTAAGTGTGG
131 TCGGGGACTGCTTTAGTTGACATGTATGCTAAGTGTGG
847617 GAACATCACA
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (168 bp):
TGGCGGAATAGATCCTGATGAGGTTACCATGGTTCATTGTTTATCTGCATGCTCACAACTTGGAG
CCCTAGATATAGGAATTTGGATTCATCATTATATCGAAAAGAACAGATTTCATTTAAATGTCGTG
TCGGGGACTGCTTTAGTTGACATGTATGCTAAGTGTGG
Found at i:855209 original size:28 final size:29
Alignment explanation
Indices: 855169--855226 Score: 109
Period size: 28 Copynumber: 2.0 Consensus size: 29
855159 GAACAGTGAC
855169 CGAAAACTCCTATAGGCG-AATGCAGGAG
1 CGAAAACTCCTATAGGCGAAATGCAGGAG
855197 CGAAAACTCCTATAGGCGAAATGCAGGAG
1 CGAAAACTCCTATAGGCGAAATGCAGGAG
855226 C
1 C
855227 CATTAAACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 18 0.62
29 11 0.38
ACGTcount: A:0.36, C:0.22, G:0.28, T:0.14
Consensus pattern (29 bp):
CGAAAACTCCTATAGGCGAAATGCAGGAG
Found at i:856036 original size:24 final size:24
Alignment explanation
Indices: 856000--856051 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
855990 AAGGAATACT
856000 ATAAATCGATGTAATTTCCTATCA
1 ATAAATCGATGTAATTTCCTATCA
* *
856024 ATAAATCGGTGTAATTTCCTATTA
1 ATAAATCGATGTAATTTCCTATCA
856048 ATAA
1 ATAA
856052 TCGTGTTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (24 bp):
ATAAATCGATGTAATTTCCTATCA
Found at i:868630 original size:41 final size:43
Alignment explanation
Indices: 868567--868647 Score: 112
Period size: 41 Copynumber: 1.9 Consensus size: 43
868557 AAGTCTTTCG
* * *
868567 AGCATGATGATGAAATCCTTCGGGTCATCTATAAG-CCTTTAA
1 AGCAAGATGATGAAATCCTTCGGGCCATCCATAAGACCTTTAA
*
868609 AGCAAGATGAT-AAGTCCTTCGGGCCATCCATAAGACCTT
1 AGCAAGATGATGAAATCCTTCGGGCCATCCATAAGACCTT
868648 CGGGTAGGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 20 0.59
42 14 0.41
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (43 bp):
AGCAAGATGATGAAATCCTTCGGGCCATCCATAAGACCTTTAA
Found at i:868811 original size:42 final size:42
Alignment explanation
Indices: 868758--869023 Score: 219
Period size: 42 Copynumber: 6.1 Consensus size: 42
868748 ACTTAGTAAG
* *
868758 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTAGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
* *
868800 TTCTTAGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAA
1 TCCTTAGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
** ** * * * **
868842 TCCTTAGGGTAATTTATAAGCCTTCACGGAAG-ATTAGTGAAGCAAA
1 TCCTTAGGGCCATCAATAAGTCTT-TC-G-AGCATGA-TG-ATTAAA
* * * * *
868888 CCCATCAGTAAGTGCCATCAGTAAGTCTTTCGAGCATGATGATGAAG
1 TCC-T---T-AGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
* * * *
868935 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATGAAG
1 TCCTTAGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
* *
868977 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAA
1 TCCTTAGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
869019 TCCTT
1 TCCTT
869024 TGGGTAATTT
Statistics
Matches: 180, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
42 135 0.75
43 2 0.01
44 4 0.02
45 4 0.02
46 7 0.04
47 6 0.03
48 4 0.02
49 4 0.02
50 2 0.01
51 12 0.07
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (42 bp):
TCCTTAGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
Found at i:868907 original size:13 final size:13
Alignment explanation
Indices: 868889--868913 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
868879 TGAAGCAAAC
868889 CCATCAGTAAGTG
1 CCATCAGTAAGTG
868902 CCATCAGTAAGT
1 CCATCAGTAAGT
868914 CTTTCGAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:868941 original size:22 final size:21
Alignment explanation
Indices: 868909--869023 Score: 85
Period size: 22 Copynumber: 5.4 Consensus size: 21
868899 GTGCCATCAG
*
868909 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
* *
868930 TGAAGTCCTTCGGGCCATCA-G-
1 T-AAGTCCTTCGAG-CATGATGA
*
868951 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
* *
868972 TGAAGTCCTTCGGGCCATCA-G-
1 T-AAGTCCTTCGAG-CATGATGA
*
868993 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
*
869014 TTAAATCCTT
1 -TAAGTCCTT
869024 TGGGTAATTT
Statistics
Matches: 71, Mismatches: 14, Indels: 17
0.70 0.14 0.17
Matches are distributed among these distances:
19 8 0.11
20 22 0.31
21 4 0.06
22 29 0.41
23 8 0.11
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (21 bp):
TAAGTCCTTCGAGCATGATGA
Found at i:868976 original size:93 final size:93
Alignment explanation
Indices: 868808--869077 Score: 226
Period size: 84 Copynumber: 3.0 Consensus size: 93
868798 AATTCTTAGG
* * * *
868808 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTAGGGTAATTTATAAGCCTTCACGGAA
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTAGGGCAATTCATAAGCCTTCACGCAA
*
868873 GATTAGTGAAGCAAACCCATCAGTAAGT
66 GATGAGTGAAGCAAACCCATCAGTAAGT
* * * *
868901 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCA-TCAGTAAGTCTTTCGA-G
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTAGGGCAATTCA-TAAG-CCTTC-ACG
* * *
868964 CATGATGA-TGAAG----TCCTTC-G---G-
63 CAAGATGAGTGAAGCAAACCCATCAGTAAGT
* * * **
868985 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTAATTTGTAAGCCTTCAC-CGA
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTAGGGCAATTCATAAGCCTTCACGC-A
* *
869049 AGA-GTAGTGAAGCAAATCCATCAGCAAGT
65 AGATG-AGTGAAGCAAACCCATCAGTAAGT
869078 CTTTCGAGCA
Statistics
Matches: 138, Mismatches: 22, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
82 3 0.02
83 8 0.06
84 50 0.36
85 2 0.01
88 6 0.04
89 5 0.04
92 3 0.02
93 50 0.36
94 10 0.07
95 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (93 bp):
GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTAGGGCAATTCATAAGCCTTCACGCAA
GATGAGTGAAGCAAACCCATCAGTAAGT
Found at i:868989 original size:177 final size:177
Alignment explanation
Indices: 868755--869077 Score: 538
Period size: 177 Copynumber: 1.8 Consensus size: 177
868745 CGCACTTAGT
* * *
868755 AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATTCTTAGGGCCATCAGTAAG
1 AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATGAAATCCTTAGGGCCATCAGTAAG
* *
868820 TCTTTCGAGCATGATGATTAAATCCTTAGGGTAATTTATAAGCCTTCACGGAAGATTAGTGAAGC
66 TCTTTCGAGCATGATGATTAAATCCTTAGGGTAATTTATAAGCCTTCACCGAAGAGTAGTGAAGC
*
868885 AAACCCATCAGTAAGTGCCATCAGTAAGTCTTTCGAGCATGATGATG
131 AAACCCATCAGCAAGTGCCATCAGTAAGTCTTTCGAGCATGATGATG
* * *
868932 AAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAG
1 AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATGAAATCCTTAGGGCCATCAGTAAG
* *
868997 TCTTTCGAGCATGATGATTAAATCCTTTGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGC
66 TCTTTCGAGCATGATGATTAAATCCTTAGGGTAATTTATAAGCCTTCACCGAAGAGTAGTGAAGC
*
869062 AAATCCATCAGCAAGT
131 AAACCCATCAGCAAGT
869078 CTTTCGAGCA
Statistics
Matches: 134, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
177 134 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (177 bp):
AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATGAAATCCTTAGGGCCATCAGTAAG
TCTTTCGAGCATGATGATTAAATCCTTAGGGTAATTTATAAGCCTTCACCGAAGAGTAGTGAAGC
AAACCCATCAGCAAGTGCCATCAGTAAGTCTTTCGAGCATGATGATG
Found at i:869038 original size:42 final size:42
Alignment explanation
Indices: 868901--869023 Score: 228
Period size: 42 Copynumber: 2.9 Consensus size: 42
868891 ATCAGTAAGT
868901 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGG
868943 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGG
* *
868985 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTT
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTT
869024 TGGGTAATTT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (42 bp):
GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGG
Found at i:869060 original size:84 final size:81
Alignment explanation
Indices: 868900--869136 Score: 232
Period size: 84 Copynumber: 2.9 Consensus size: 81
868890 CATCAGTAAG
* * * ** * *
868900 TGCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
1 TGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTAAGTCCTTCGACC
* **
868965 ATGATGATGAAGTC-CT
66 AAGATGATGAAG-CAAA
* *
868981 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTAATTTGTAAG-CCTTC-
1 T---GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTAAGTCCTTCG
869044 ACCGAAGA-GTAGTGAAGCAAA
63 ACC-AAGATG-A-TGAAGCAAA
* * * *
869065 T-CCATCAGCAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATTTGTAAGTCTTTCGAGC
1 TGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTAAGTCCTTCGACC
869129 AAGATGAT
66 AAGATGAT
869137 AAGTCTTTCG
Statistics
Matches: 128, Mismatches: 18, Indels: 21
0.77 0.11 0.13
Matches are distributed among these distances:
80 50 0.39
81 10 0.08
82 6 0.05
83 9 0.07
84 53 0.41
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (81 bp):
TGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTAAGTCCTTCGACC
AAGATGATGAAGCAAA
Found at i:869135 original size:42 final size:42
Alignment explanation
Indices: 869066--869152 Score: 95
Period size: 42 Copynumber: 2.1 Consensus size: 42
869056 TGAAGCAAAT
* *
869066 CCATCAGCAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGG
* ** * * *
869108 TCATTTGTAAGTCTTTCGAGCAAGATGA-TAAGTCTTTCGGG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGG
869149 CCAT
1 CCAT
869153 TTTAAGCCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
41 14 0.38
42 23 0.62
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (42 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGG
Found at i:869592 original size:53 final size:53
Alignment explanation
Indices: 869529--869780 Score: 378
Period size: 53 Copynumber: 4.8 Consensus size: 53
869519 AAAATCACAC
* *
869529 CAGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* * *
869582 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGAGAACTCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* *
869635 CAGAAGATTGTTTGAGTTCTACTCCCTGAAGCAAGAGGGAGCGATCCCGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* * * *
869688 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAAGGAGCAAACTCGTAAA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* * *
869741 TAGAAGATTATTCGAGTTCTACTCCCTGAAGCAATAGGGA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGA
869781 ATTTTTAGAA
Statistics
Matches: 181, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 181 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
Found at i:876207 original size:3 final size:3
Alignment explanation
Indices: 876201--876251 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
876191 TTTACTCATT
* * *
876201 TTA TTA TTA TTA TAA TTA TTA TAA TTA TTA TTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
876249 TTA
1 TTA
876252 AAAAATAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:876221 original size:15 final size:15
Alignment explanation
Indices: 876201--876251 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
876191 TTTACTCATT
* *
876201 TTATTATTATTATAA
1 TTATTATAATTATTA
876216 TTATTATAATTATTA
1 TTATTATAATTATTA
876231 TTATTATAATTATTA
1 TTATTATAATTATTA
876246 TTATTA
1 TTATTA
876252 AAAAATAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTATAATTATTA
Found at i:877699 original size:13 final size:14
Alignment explanation
Indices: 877667--877708 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
877657 ATAAATATTT
877667 ATTTATTTTTAATA
1 ATTTATTTTTAATA
* *
877681 AATTATTTTTAA-C
1 ATTTATTTTTAATA
877694 ATTTATTTTTCAATA
1 ATTTATTTTT-AATA
877709 TCGAAGAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTATTTTTAATA
Found at i:881713 original size:15 final size:15
Alignment explanation
Indices: 881693--881724 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
881683 ATCAATACCT
881693 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
881708 TTTTGCATACATTCA
1 TTTTGCATACATGCA
881723 TT
1 TT
881725 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:889056 original size:8 final size:8
Alignment explanation
Indices: 889045--889098 Score: 74
Period size: 8 Copynumber: 6.6 Consensus size: 8
889035 AGAGAAAAAG
889045 AAAAGAAA
1 AAAAGAAA
*
889053 AAAAGAGA
1 AAAAGAAA
889061 AAAAG-AA
1 AAAAGAAA
889068 AAAAGAAA
1 AAAAGAAA
889076 AAAAGAGAA
1 AAAAGA-AA
889085 AAAAGAAGA
1 AAAAGAA-A
889094 AAAAG
1 AAAAG
889099 GGGGTCAAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
7 6 0.15
8 21 0.51
9 14 0.34
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:889063 original size:15 final size:17
Alignment explanation
Indices: 889042--889096 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
889032 TGAAGAGAAA
889042 AAGAAAAGA-AAAAAAG
1 AAGAAAAGAGAAAAAAG
889058 -AGAAAA-AGAAAAAAG
1 AAGAAAAGAGAAAAAAG
*
889073 AAAAAAAGAGAAAAAAG
1 AAGAAAAGAGAAAAAAG
889090 AAGAAAA
1 AAGAAAA
889097 AGGGGGTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 1 0.03
15 13 0.38
16 5 0.15
17 15 0.44
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAGAAAAGAGAAAAAAG
Found at i:889075 original size:23 final size:23
Alignment explanation
Indices: 889034--889096 Score: 94
Period size: 23 Copynumber: 2.7 Consensus size: 23
889024 ATTATGCTTG
889034 AAGAGAAAAAG--AAAAGAAAAA
1 AAGAGAAAAAGAAAAAAGAAAAA
889055 AAGAGAAAAAGAAAAAAGAAAAA
1 AAGAGAAAAAGAAAAAAGAAAAA
889078 AAGAGAAAAAAGAAGAAAA
1 AAGAG-AAAAAGAA-AAAA
889097 AGGGGGTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.29
23 15 0.39
24 8 0.21
25 4 0.11
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (23 bp):
AAGAGAAAAAGAAAAAAGAAAAA
Found at i:890456 original size:115 final size:115
Alignment explanation
Indices: 890249--890563 Score: 569
Period size: 115 Copynumber: 2.7 Consensus size: 115
890239 GAATGTGCTC
890249 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
890314 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
66 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
* *
890364 ATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAAACCACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
890429 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
66 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
* *
890479 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA-GGAACTACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
* *
890543 TCATTGGAATTAAAAGATGAA
66 TCATTGGATTTGAAAGATGAA
890564 CTGCATGACT
Statistics
Matches: 192, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
114 32 0.17
115 160 0.83
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (115 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
Found at i:891414 original size:113 final size:113
Alignment explanation
Indices: 891253--892343 Score: 1767
Period size: 113 Copynumber: 9.7 Consensus size: 113
891243 GTCAGTTAGT
891253 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
*
891318 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCTAGAAAAA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAAAAA
891366 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
* * * ** * ** **
891431 ACCTTTTGCTCAAATCCATCA-TTCAATGGATCAACAGTGTCAGTTAGT
66 ACCTTTTGCTCAAATCCATCACTT-GATGGATTAGCTTTGCCAGAAAAA
891479 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
891544 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAAAAA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAAAAA
*
891592 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAATTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
*
891657 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAAAAA
891705 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
*
891770 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGATAAA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAAAAA
891818 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
891883 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAAAAA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAAAAA
891931 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
* *
891996 ACATTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAAAAA
*
892044 GTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
* * *
892109 ATCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTCT-CCAGAAAAA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTT-TGCCAGAAAAA
* * * * *
892157 ATTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
* * * * * * * * *
892222 A-TTTTTCGCTCGAATTCATCACTCGATAGATCAACTTT-TCAGAAGAGA
66 ACCTTTT-GCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAA-AAA
* * ** *
892270 GTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCG
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
892335 ACCTTTTGC
66 ACCTTTTGC
892344 ATAACCCTAT
Statistics
Matches: 916, Mismatches: 56, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
112 12 0.01
113 897 0.98
114 7 0.01
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAAAAA
Found at i:892693 original size:3 final size:3
Alignment explanation
Indices: 892687--892725 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
892677 TTTACTCATT
*
892687 TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
892726 AAAAATAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:901305 original size:79 final size:79
Alignment explanation
Indices: 901174--901328 Score: 301
Period size: 79 Copynumber: 2.0 Consensus size: 79
901164 AAACACACAA
*
901174 CTTATGAAATATATCTTTTGGGAATAGAATAATAACATTATGACAGATACAAGATTTTTTAAATC
1 CTTATGAAACATATCTTTTGGGAATAGAATAATAACATTATGACAGATACAAGATTTTTTAAATC
901239 ATTATTTTATTAAG
66 ATTATTTTATTAAG
901253 CTTATGAAACATATCTTTTGGGAATAGAATAATAACATTATGACAGATACAAGATTTTTTAAATC
1 CTTATGAAACATATCTTTTGGGAATAGAATAATAACATTATGACAGATACAAGATTTTTTAAATC
901318 ATTATTTTATT
66 ATTATTTTATT
901329 TTTATTTTTT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (79 bp):
CTTATGAAACATATCTTTTGGGAATAGAATAATAACATTATGACAGATACAAGATTTTTTAAATC
ATTATTTTATTAAG
Found at i:901674 original size:21 final size:21
Alignment explanation
Indices: 901649--901690 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
901639 CCTTCAACTT
901649 CAAACCT-CTTCCAAAACTCAA
1 CAAACCTCCTT-CAAAACTCAA
901670 CAAACCTCCTTCAAAACTCAA
1 CAAACCTCCTTCAAAACTCAA
901691 ATTGAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.43, C:0.38, G:0.00, T:0.19
Consensus pattern (21 bp):
CAAACCTCCTTCAAAACTCAA
Found at i:903636 original size:30 final size:30
Alignment explanation
Indices: 903602--903659 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
903592 CGCACCTTGG
* *
903602 TCCCCATGTGTACCATGCGCATTTGATTGC
1 TCCCCATGTGCACCATGCACATTTGATTGC
903632 TCCCCATGTGCACCATGCACATTTGATT
1 TCCCCATGTGCACCATGCACATTTGATT
903660 CTTCAACAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (30 bp):
TCCCCATGTGCACCATGCACATTTGATTGC
Found at i:903791 original size:81 final size:81
Alignment explanation
Indices: 903643--903798 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
903633 CCCCATGTGC
* * * *
903643 ACCATGCACATTTGATTCTTCAACAGGTGATCCACTTTCAATATTTGAATTTGCAATAATTCTTC
1 ACCATGCACATTTGATTCTTCAACAGGTGAGCCACTTTCAATATTTCAATTTACAATAATTCCTC
903708 CTTGGACCCCGCGTAT
66 CTTGGACCCCGCGTAT
* * * *
903724 ACCATGCGCATTTGATTGC-TCAATAGGTGAGCCACTTTCAATATTTCAATTTATAATATTTCCT
1 ACCATGCACATTTGATT-CTTCAACAGGTGAGCCACTTTCAATATTTCAATTTACAATAATTCCT
903788 CCTTGGACCCC
65 CCTTGGACCCC
903799 ACGCGAGATG
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
81 65 0.98
82 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (81 bp):
ACCATGCACATTTGATTCTTCAACAGGTGAGCCACTTTCAATATTTCAATTTACAATAATTCCTC
CTTGGACCCCGCGTAT
Found at i:903848 original size:96 final size:96
Alignment explanation
Indices: 903729--903920 Score: 323
Period size: 96 Copynumber: 2.0 Consensus size: 96
903719 CGTATACCAT
*
903729 GCGCATTTGATTGCTCAATAGGTGAGCCACTTTCAATATTTCAATTTATAATATTTCCTCCTTGG
1 GCGCATTTGATTGCTCAACAGGTGAGCCACTTTCAATATTTCAATTTATAATATTTCCTCCTTGG
* *
903794 ACCCCACGCGAGATGCTATTACCATGTGAGC
66 ACCCCAAGCGAGATGCCATTACCATGTGAGC
* *
903825 GCGCATTTGATT-CTTCAACAGGTGAGTCACTTTCAATATTTGAATTTATAATATTTCCTCCTTG
1 GCGCATTTGATTGC-TCAACAGGTGAGCCACTTTCAATATTTCAATTTATAATATTTCCTCCTTG
903889 GACCCCAAGCGAGATGCCATTACCATGTGAGC
65 GACCCCAAGCGAGATGCCATTACCATGTGAGC
903921 TCCAATTATT
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 1 0.01
96 89 0.99
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (96 bp):
GCGCATTTGATTGCTCAACAGGTGAGCCACTTTCAATATTTCAATTTATAATATTTCCTCCTTGG
ACCCCAAGCGAGATGCCATTACCATGTGAGC
Found at i:911666 original size:21 final size:21
Alignment explanation
Indices: 911637--911683 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
911627 ATTCTGACTA
*
911637 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGACTTTCCAAAT
* *
911658 TCGCGTTGCGACTTTCCTAAT
1 TCGCATTGCGACTTTCCAAAT
911679 TCGCA
1 TCGCA
911684 ATGTGAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGACTTTCCAAAT
Found at i:911934 original size:22 final size:22
Alignment explanation
Indices: 911909--911974 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
911899 GGCGACATCC
911909 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
911931 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
911953 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
911975 ATCACAGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:912387 original size:20 final size:20
Alignment explanation
Indices: 912311--912380 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
912301 CGATTCTGTC
*
912311 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
**
912330 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
912350 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
912370 GTTGCGATTTT
1 GTTGCGATTTT
912381 AAGTTTCAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 11 0.24
20 34 0.76
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:914301 original size:20 final size:20
Alignment explanation
Indices: 914276--914432 Score: 126
Period size: 20 Copynumber: 8.5 Consensus size: 20
914266 AGAATAGTTT
914276 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
914296 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
914316 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
914332 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
**
914349 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
* *
914365 A--ATCGCAACGTGAAAATG
1 ACTATCGCAATGCGAAAATG
*
914383 ACTATCGCAATGAGAAAATG
1 ACTATCGCAATGCGAAAATG
**
914403 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
914423 ACTATCGCAA
1 ACTATCGCAA
914433 CGAAAGAATC
Statistics
Matches: 114, Mismatches: 9, Indels: 28
0.75 0.06 0.19
Matches are distributed among these distances:
14 14 0.12
16 9 0.08
17 8 0.07
18 5 0.04
19 7 0.06
20 71 0.62
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:914345 original size:34 final size:34
Alignment explanation
Indices: 914299--914453 Score: 141
Period size: 34 Copynumber: 4.4 Consensus size: 34
914289 GAAAATGACT
*
914299 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGAGAGA
** * * *
914333 ATCGCAATGCG-AAATGAAAATCGCAACAACAAA
1 ATCGCAATGCGAAAATGACTATCGCAACGAGAGA
* * *
914366 ATCGCAACGTGAAAATGACTATCGCAATGAGAAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAACGAG---A-GA
** *
914404 CTATCGCAATGCGAATTTGACTATCGCAACGAAAGA
1 --ATCGCAATGCGAAAATGACTATCGCAACGAGAGA
914440 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
914454 TGAAAATCGC
Statistics
Matches: 93, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
33 26 0.28
34 37 0.40
36 2 0.02
37 2 0.02
38 1 0.01
40 25 0.27
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGCAACGAGAGA
Found at i:914504 original size:20 final size:20
Alignment explanation
Indices: 914479--914565 Score: 120
Period size: 20 Copynumber: 4.3 Consensus size: 20
914469 GATTCTCTCG
914479 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
914499 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
914519 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
** *
914539 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
914559 TTGCGAT
1 TTGCGAT
914566 TTTAAGTTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:914575 original size:20 final size:20
Alignment explanation
Indices: 914477--914575 Score: 76
Period size: 20 Copynumber: 5.0 Consensus size: 20
914467 GCGATTCTCT
*
914477 CGTTGCGATAGTCAA-ATTCG
1 CGTTGCGATAGT-AAGTTTCG
* *
914497 CATTGCGATAGTCAA-ATTCG
1 CGTTGCGATAGT-AAGTTTCG
* * *
914517 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* *
914537 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
**
914557 CGTTGCGATTTTAAGTTTC
1 CGTTGCGATAGTAAGTTTC
914576 AGATTCTATT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
19 1 0.01
20 69 0.99
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTAAGTTTCG
Found at i:915140 original size:21 final size:21
Alignment explanation
Indices: 915049--915153 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 21
915039 GACTCACCTG
*
915049 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
915071 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** * *
915091 TCATCCCTCAATAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
915112 TGACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
915133 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
915154 CCAATATTCT
Statistics
Matches: 61, Mismatches: 21, Indels: 3
0.72 0.25 0.04
Matches are distributed among these distances:
20 3 0.05
21 57 0.93
22 1 0.02
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:915153 original size:42 final size:41
Alignment explanation
Indices: 915046--915153 Score: 103
Period size: 42 Copynumber: 2.6 Consensus size: 41
915036 CCCGACTCAC
* *
915046 CTGTCATCGTTCAAGAGGCCTCCC-CTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGG--TCCCTCTACCGTTCAAGAGGCCA
* ** *
915088 CTATCATCCCTCAATA-GTCCCCTCTGACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGT-CCCTCT-ACCGTTCAAGAGGCCA
*
915130 CTGTCATCGTTGAAGAGGTCCCTC
1 CTGTCATCGTTCAAGAGGTCCCTC
915154 CCAATATTCT
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
39 1 0.02
40 3 0.06
41 3 0.06
42 42 0.82
43 2 0.04
ACGTcount: A:0.20, C:0.35, G:0.19, T:0.25
Consensus pattern (41 bp):
CTGTCATCGTTCAAGAGGTCCCTCTACCGTTCAAGAGGCCA
Found at i:919629 original size:19 final size:20
Alignment explanation
Indices: 919607--919650 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
919597 GAGAAAAGGT
919607 AAAAGTTAA-AATGAAAGAG
1 AAAAGTTAATAATGAAAGAG
* * *
919626 AAAAATTAATAATGCAAGAT
1 AAAAGTTAATAATGAAAGAG
919646 AAAAG
1 AAAAG
919651 AAAAAGTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.64, C:0.02, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAAGTTAATAATGAAAGAG
Found at i:928654 original size:33 final size:33
Alignment explanation
Indices: 928604--928694 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 33
928594 AAAATAGACT
* ** * *
928604 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGAAACAAGAGA
928638 ATCGCAATGCGAAATGAAAATCGAAACAAGAGA
1 ATCGCAATGCGAAATGAAAATCGAAACAAGAGA
*
928671 ATCGCAATGCGAAAATAAAAATCG
1 ATCGCAATGCG-AAATGAAAATCG
928695 CAACGCGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
33 30 0.60
34 20 0.40
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGAAACAAGAGA
Found at i:928695 original size:20 final size:20
Alignment explanation
Indices: 928670--928709 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
928660 GAAACAAGAG
*
928670 AATCGCAATGCGAAAATAAA
1 AATCGCAACGCGAAAATAAA
*
928690 AATCGCAACGCGAAACTAAA
1 AATCGCAACGCGAAAATAAA
928710 TTCGCGTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.20, G:0.15, T:0.12
Consensus pattern (20 bp):
AATCGCAACGCGAAAATAAA
Found at i:928772 original size:20 final size:20
Alignment explanation
Indices: 928747--928840 Score: 145
Period size: 20 Copynumber: 4.7 Consensus size: 20
928737 GCGATTGTCT
928747 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
928767 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
928787 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
928807 TGTTGCGATAGTCATATT-TG
1 CGTTGCGATAGTCAT-TTCCG
928827 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
928841 AATGAATGTC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
20 66 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:930367 original size:13 final size:14
Alignment explanation
Indices: 930332--930366 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
930322 GCATGTAACT
930332 AACAAAAATGAGTC
1 AACAAAAATGAGTC
930346 AACAAAAATGAGTC
1 AACAAAAATGAGTC
930360 AACAAAA
1 AACAAAA
930367 TTATATTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.63, C:0.14, G:0.11, T:0.11
Consensus pattern (14 bp):
AACAAAAATGAGTC
Found at i:931302 original size:24 final size:24
Alignment explanation
Indices: 931268--931321 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
931258 CTGAAAAATC
931268 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
931292 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
931316 ATCAAA
1 ATCAAA
931322 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:931335 original size:24 final size:24
Alignment explanation
Indices: 931268--931335 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
931258 CTGAAAAATC
* * *
931268 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
931292 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
931316 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
931336 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:932187 original size:20 final size:20
Alignment explanation
Indices: 932162--932208 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
932152 AAATTCAGTA
932162 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
*
932182 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCGCG
932202 TTGCGAT
1 TTGCGAT
932209 TTACGTATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:932218 original size:20 final size:20
Alignment explanation
Indices: 932195--932327 Score: 230
Period size: 20 Copynumber: 6.7 Consensus size: 20
932185 CGATAGTCAG
*
932195 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
932215 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
932235 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
932255 ATTCGCATTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
932275 ATTTGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
932295 ATTCGCATTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
932315 ATTCGCATTGCGA
1 ATTCGCATTGCGA
932328 ATTAGGAAAA
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 106 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:932348 original size:21 final size:21
Alignment explanation
Indices: 932324--932364 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
932314 TATTCGCATT
*
932324 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGAAAAATCGCAAC
*
932345 GCGAATTTGAAAAATCGCAA
1 GCGAATTAGAAAAATCGCAA
932365 TGCAATAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
GCGAATTAGAAAAATCGCAAC
Found at i:932981 original size:14 final size:14
Alignment explanation
Indices: 932962--932990 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
932952 CTTCGCAGGA
932962 ATAACATTGTTTTC
1 ATAACATTGTTTTC
932976 ATAACATTGTTTTC
1 ATAACATTGTTTTC
932990 A
1 A
932991 ATCCAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (14 bp):
ATAACATTGTTTTC
Found at i:938782 original size:3 final size:3
Alignment explanation
Indices: 938774--938811 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
938764 ACCTACTCAG
* *
938774 GAC GAC GAC GAC GAC GAT GAT GAC GAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
938812 TGATGGTGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.34, T:0.05
Consensus pattern (3 bp):
GAC
Found at i:938800 original size:18 final size:18
Alignment explanation
Indices: 938777--938814 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
938767 TACTCAGGAC
*
938777 GACGACGACGACGATGAT
1 GACGACGACGACGACGAT
938795 GACGACGACGACGACGAT
1 GACGACGACGACGACGAT
938813 GA
1 GA
938815 TGGTGGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.24, G:0.34, T:0.08
Consensus pattern (18 bp):
GACGACGACGACGACGAT
Found at i:938800 original size:21 final size:21
Alignment explanation
Indices: 938774--938816 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
938764 ACCTACTCAG
938774 GACGACGACGACGACGATGAT
1 GACGACGACGACGACGATGAT
938795 GACGACGACGACGACGATGAT
1 GACGACGACGACGACGATGAT
938816 G
1 G
938817 GTGGTGATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.23, G:0.35, T:0.09
Consensus pattern (21 bp):
GACGACGACGACGACGATGAT
Found at i:943665 original size:53 final size:52
Alignment explanation
Indices: 943538--943674 Score: 150
Period size: 53 Copynumber: 2.6 Consensus size: 52
943528 TGAAATTTAA
* * *
943538 TTTTTTACGTTAATTGTTTATTTTATTGATGATGTCATCATGAAATACGAAT
1 TTTTTTAAGTTAATTGTTTATTTTATTGATGACGTCACCATGAAATACGAAT
* * * ** *
943590 TTCTTTATGTCAGGTGTTTATTTTATTGATGACGTTCACCTTGAAAT-CTGAAT
1 TTTTTTAAGTTAATTGTTTATTTTATTGATGACG-TCACCATGAAATAC-GAAT
* *
943643 TTTTTTAAGTTAATTGTCTATTTTACTGATGA
1 TTTTTTAAGTTAATTGTTTATTTTATTGATGA
943675 TATCTATTTT
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
52 29 0.43
53 39 0.57
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (52 bp):
TTTTTTAAGTTAATTGTTTATTTTATTGATGACGTCACCATGAAATACGAAT
Found at i:948289 original size:25 final size:25
Alignment explanation
Indices: 948256--948303 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
948246 GAAATTATAT
*
948256 TAAAATTTTAAAAGGTATGAAATTA
1 TAAAATTTTAAAAAGTATGAAATTA
948281 TAAAATTTTAAAAAGTATGAAAT
1 TAAAATTTTAAAAAGTATGAAAT
948304 AAGATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.35
Consensus pattern (25 bp):
TAAAATTTTAAAAAGTATGAAATTA
Found at i:948312 original size:25 final size:25
Alignment explanation
Indices: 948257--948320 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
948247 AAATTATATT
* * *
948257 AAAATTTTAAAAGGTATGAAATTAT
1 AAAATTTTAAAAAGTATGAAATAAG
948282 AAAATTTTAAAAAGTATGAAATAAG
1 AAAATTTTAAAAAGTATGAAATAAG
*
948307 ATAATTTATAAAAA
1 AAAATTT-TAAAAA
948321 ATATTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 28 0.82
26 6 0.18
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (25 bp):
AAAATTTTAAAAAGTATGAAATAAG
Found at i:950450 original size:28 final size:31
Alignment explanation
Indices: 950396--950452 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
950386 AACAAATGTA
*
950396 TAAATAAAAATATTATTTGATGTATAATCAG
1 TAAATAAAAATATTATTTGATGAATAATCAG
*
950427 TAAA-AAAAATATT-TTT-TTGAATAATC
1 TAAATAAAAATATTATTTGATGAATAATC
950453 TGGAGTGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.33
29 3 0.12
30 9 0.38
31 4 0.17
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (31 bp):
TAAATAAAAATATTATTTGATGAATAATCAG
Found at i:952431 original size:23 final size:23
Alignment explanation
Indices: 952396--952440 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
952386 TATCTAAAAA
952396 AGTATAAAATTAT-ATTCATAAAT
1 AGTATAAAATTATCATT-ATAAAT
952419 AGTA-AAAATTTATCATTATAAA
1 AGTATAAAA-TTATCATTATAAA
952441 GTAATACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 13 0.65
24 3 0.15
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (23 bp):
AGTATAAAATTATCATTATAAAT
Found at i:952443 original size:21 final size:21
Alignment explanation
Indices: 952393--952444 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
952383 AATTATCTAA
952393 AAAAGTATAAAATTATATTCAT
1 AAAAGTA-AAAATTATATTCAT
952415 AAATAGTAAAAATT-TA-TCATT
1 AAA-AGTAAAAATTATATTCA-T
952436 ATAAAGTAA
1 A-AAAGTAA
952445 TACTTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 3 0.11
21 9 0.33
22 11 0.41
23 4 0.15
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (21 bp):
AAAAGTAAAAATTATATTCAT
Found at i:952862 original size:31 final size:33
Alignment explanation
Indices: 952803--952863 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
952793 CTCATCTAAT
*
952803 TATTATTAAAATATTAGATGAACTTTTAATATA
1 TATTATTAAAAAATTAGATGAACTTTTAATATA
* *
952836 TATTA-TAAAAAATTATAT-AATTTTTAAT
1 TATTATTAAAAAATTAGATGAACTTTTAAT
952864 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 9 0.36
32 11 0.44
33 5 0.20
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (33 bp):
TATTATTAAAAAATTAGATGAACTTTTAATATA
Found at i:953927 original size:4 final size:4
Alignment explanation
Indices: 953918--953954 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
953908 CAAAATAGGC
953918 AATA AATA AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA A
953955 GAAGAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:957124 original size:32 final size:34
Alignment explanation
Indices: 957088--957157 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
957078 CCTTACAAAC
* *
957088 TCCCTAG-TTTTTC-CGGGCTAAACTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
* *
957120 TCCCTAGCTTTTACACGGGATTAGCTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
957154 TCCC
1 TCCC
957158 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
Found at i:959025 original size:19 final size:21
Alignment explanation
Indices: 958978--959025 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
958968 TCTAAATCCT
*
958978 TTTTCAAAATTTCATTTTGGC
1 TTTTCAAAATCTCATTTTGGC
*
958999 TTTT-AAAATCT-ATTTTTG-
1 TTTTCAAAATCTCATTTTGGC
959017 TTTTCAAAA
1 TTTTCAAAA
959026 GAAAATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 4 0.17
19 10 0.42
20 6 0.25
21 4 0.17
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.54
Consensus pattern (21 bp):
TTTTCAAAATCTCATTTTGGC
Found at i:960331 original size:21 final size:21
Alignment explanation
Indices: 960305--960344 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
960295 GTTAGACAGT
960305 GGGAATCGGTACCCCCTGGGG
1 GGGAATCGGTACCCCCTGGGG
* *
960326 GGGAATCTGTACCCTCTGG
1 GGGAATCGGTACCCCCTGG
960345 ACATTCTGTT
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:0.15, C:0.28, G:0.38, T:0.20
Consensus pattern (21 bp):
GGGAATCGGTACCCCCTGGGG
Found at i:968464 original size:26 final size:25
Alignment explanation
Indices: 968416--968468 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 25
968406 TTTTTTTTCA
968416 TTTTTATTGTTTATAATATTATTTT
1 TTTTTATTGTTTATAATATTATTTT
* *
968441 TTTTTCTT-TTTATAATATTATATT
1 TTTTTATTGTTTATAATATTATTTT
968465 TTTT
1 TTTT
968469 AATCATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (25 bp):
TTTTTATTGTTTATAATATTATTTT
Found at i:968477 original size:24 final size:24
Alignment explanation
Indices: 968426--968489 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
968416 TTTTTATTGT
* ** **
968426 TTATAATATTATTTTTTTTTCTTT
1 TTATAATATTATATTTTTTAATCA
968450 TTATAATATTATATTTTTTAATCA
1 TTATAATATTATATTTTTTAATCA
*
968474 TTATAAATATTTTATT
1 TTAT-AATATTATATT
968490 AATGCTATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 23 0.70
25 10 0.30
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (24 bp):
TTATAATATTATATTTTTTAATCA
Found at i:968486 original size:18 final size:19
Alignment explanation
Indices: 968465--968506 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
968455 ATATTATATT
*
968465 TTTTAATCAT-TATAAATA
1 TTTTAATAATCTATAAATA
*
968483 TTTTATTAATGCTATAAATA
1 TTTTAATAAT-CTATAAATA
968503 TTTT
1 TTTT
968507 GGTAATTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
20 12 0.60
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTAATAATCTATAAATA
Found at i:968512 original size:20 final size:20
Alignment explanation
Indices: 968475--968512 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
968465 TTTTAATCAT
*
968475 TATAAATATTTTATTAATGC
1 TATAAATATTTTAGTAATGC
*
968495 TATAAATATTTTGGTAAT
1 TATAAATATTTTAGTAAT
968513 TTCACCCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (20 bp):
TATAAATATTTTAGTAATGC
Found at i:984607 original size:19 final size:20
Alignment explanation
Indices: 984573--984610 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
984563 AATTCTTAAT
984573 ATAAAATATAATATATATAG
1 ATAAAATATAATATATATAG
984593 ATAAAATAT-ATATATATA
1 ATAAAATATAATATATATA
984611 TGACATAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
ATAAAATATAATATATATAG
Found at i:985413 original size:20 final size:19
Alignment explanation
Indices: 985390--985438 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
985380 AGCTAATTTT
*
985390 GCAACACAGTTTCTGAATTC
1 GCAACACAGTTT-GGAATTC
* *
985410 GCAACTCGAATTTGGAATTC
1 GCAACAC-AGTTTGGAATTC
985430 GCAACACAG
1 GCAACACAG
985439 AAGTATAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
19 1 0.04
20 18 0.78
21 4 0.17
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (19 bp):
GCAACACAGTTTGGAATTC
Found at i:985514 original size:20 final size:20
Alignment explanation
Indices: 985489--985638 Score: 72
Period size: 20 Copynumber: 7.5 Consensus size: 20
985479 GATTTTTAAA
*
985489 TTCGCAACACGAGTTTCGTT
1 TTCGCAACACGAGTTTCATT
** * *
985509 TTCGCAACTTGATTTTC-TAA
1 TTCGCAACACGAGTTTCAT-T
** * *
985529 TTCGCAACGTGAGTTTAAAT
1 TTCGCAACACGAGTTTCATT
*
985549 TTCGCAACACGAATTTCATT
1 TTCGCAACACGAGTTTCATT
* * *
985569 TTCGCAACTCGATTTTCGA-A
1 TTCGCAACACGAGTTTC-ATT
* * * *
985589 TTCGCAACGCGAATTTAAAT
1 TTCGCAACACGAGTTTCATT
* * *
985609 TTCGCAACTC-AGCTTTTAAT
1 TTCGCAACACGAG-TTTCATT
985629 TTCGCAACAC
1 TTCGCAACAC
985639 TAATGTTTTG
Statistics
Matches: 100, Mismatches: 25, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
19 3 0.03
20 96 0.96
21 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (20 bp):
TTCGCAACACGAGTTTCATT
Found at i:985560 original size:60 final size:60
Alignment explanation
Indices: 985483--985616 Score: 207
Period size: 60 Copynumber: 2.2 Consensus size: 60
985473 TAACTCGATT
* * * * * *
985483 TTTAAA-TTCGCAACACGAGTTTCGTTTTCGCAACTTGATTTTCTAATTCGCAACGTGAG
1 TTTAAATTTCGCAACACGAATTTCATTTTCGCAACTCGATTTTCGAATTCGCAACGCGAA
985542 TTTAAATTTCGCAACACGAATTTCATTTTCGCAACTCGATTTTCGAATTCGCAACGCGAA
1 TTTAAATTTCGCAACACGAATTTCATTTTCGCAACTCGATTTTCGAATTCGCAACGCGAA
985602 TTTAAATTTCGCAAC
1 TTTAAATTTCGCAAC
985617 TCAGCTTTTA
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 6 0.09
60 62 0.91
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (60 bp):
TTTAAATTTCGCAACACGAATTTCATTTTCGCAACTCGATTTTCGAATTCGCAACGCGAA
Found at i:985573 original size:40 final size:39
Alignment explanation
Indices: 985529--985638 Score: 114
Period size: 40 Copynumber: 2.7 Consensus size: 39
985519 GATTTTCTAA
* *
985529 TTCGCAACGTGAGTTTAAATTTCGCAACACGAATTTCATT
1 TTCGCAAC-TGAGTTTAAATTTCGCAACACGAATTTAAAT
* * *
985569 TTCGCAACTCGATTTTCGAA-TTCGCAACGCGAATTTAAAT
1 TTCGCAACT-GAGTTT-AAATTTCGCAACACGAATTTAAAT
* *
985609 TTCGCAACTCAGCTTTTAATTTCGCAACAC
1 TTCGCAACTGAG-TTTAAATTTCGCAACAC
985639 TAATGTTTTG
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
39 4 0.07
40 51 0.89
41 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.34
Consensus pattern (39 bp):
TTCGCAACTGAGTTTAAATTTCGCAACACGAATTTAAAT
Found at i:985765 original size:22 final size:22
Alignment explanation
Indices: 985716--985767 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
985706 TCTCTCACTT
* * *
985716 TCTCCGACGACATCTGTCCCTA
1 TCTCCGGCGACATCCGTCCCCA
985738 TCTCCGGCGACATCCGTCCCCA
1 TCTCCGGCGACATCCGTCCCCA
*
985760 TTTCCGGC
1 TCTCCGGC
985768 AATCCCCCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.13, C:0.44, G:0.17, T:0.25
Consensus pattern (22 bp):
TCTCCGGCGACATCCGTCCCCA
Found at i:987254 original size:42 final size:42
Alignment explanation
Indices: 987154--987277 Score: 173
Period size: 42 Copynumber: 3.0 Consensus size: 42
987144 GTGATGGAAT
*
987154 AGGTGATGGATCTCGGTGTCGAGGTGTAGAGTCGGCT--A-G
1 AGGTGATGGATCTCGGTGTCGAGGTGTAGAATCGGCTCGATG
*
987193 AGGTGATGGATCTCAGTGTCGAGGTGTAGAATCGGCTCGATG
1 AGGTGATGGATCTCGGTGTCGAGGTGTAGAATCGGCTCGATG
* * * *
987235 AGGTGATGGATCTCGGTGTCTAAGTGGAGAATCGACTCGATG
1 AGGTGATGGATCTCGGTGTCGAGGTGTAGAATCGGCTCGATG
987277 A
1 A
987278 AAAAATGGGG
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 35 0.47
41 1 0.01
42 39 0.52
ACGTcount: A:0.22, C:0.14, G:0.39, T:0.26
Consensus pattern (42 bp):
AGGTGATGGATCTCGGTGTCGAGGTGTAGAATCGGCTCGATG
Found at i:989888 original size:24 final size:24
Alignment explanation
Indices: 989837--989888 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
989827 ATCTGAGTAT
** *
989837 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
989861 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
989885 TGAC
1 TGAC
989889 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:990671 original size:17 final size:17
Alignment explanation
Indices: 990628--990676 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
990618 TCCATACAAC
* *
990628 TAAAATAATAAATTATTT
1 TAAAA-AATCAATCATTT
*
990646 AAAATAAATCAATCATTT
1 TAAA-AAATCAATCATTT
990664 TAAAAAATCAATC
1 TAAAAAATCAATC
990677 CATACTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 9 0.35
18 16 0.62
19 1 0.04
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAAAATCAATCATTT
Found at i:990706 original size:32 final size:31
Alignment explanation
Indices: 990662--991059 Score: 242
Period size: 32 Copynumber: 14.4 Consensus size: 31
990652 AATCAATCAT
990662 TTTAAA-AAATCAATCCATACTAATAAATTA
1 TTTAAATAAATCAATCCATACTAATAAATTA
*
990692 TTTAGAATAAATCAATCCATAC-AACTACA--A
1 TTTA-AATAAATCAATCCATACTAA-TAAATTA
990722 --T-AATAAATCAATCCATA-T--T---TTA
1 TTTAAATAAATCAATCCATACTAATAAATTA
*
990744 ---AAATAAATCAATCCATACAAATAAATTA
1 TTTAAATAAATCAATCCATACTAATAAATTA
**
990772 TTTAAAATAAATCAATATATACTAATAAATTA
1 TTT-AAATAAATCAATCCATACTAATAAATTA
990804 TTTAAAATAAATCAATCC--A-T-AT---TTA
1 TTT-AAATAAATCAATCCATACTAATAAATTA
990829 ---AAATAAATCAATCCATACTAATAAATTA
1 TTTAAATAAATCAATCCATACTAATAAATTA
990857 TTTAAAATAAATCAATCCATACTAAT-AATTA
1 TTT-AAATAAATCAATCCATACTAATAAATTA
* *
990888 TTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAATAAATCAATCCATACTAA-TAAATTA
* **
990917 --T-AATAAATCAATCCAT-GTTTTAAA--A
1 TTTAAATAAATCAATCCATACTAATAAATTA
990942 -------AAATCAATCCATAC-AATAAATTA
1 TTTAAATAAATCAATCCATACTAATAAATTA
990965 TTTAAAATAAATCAAT-C-TACTAAT-AATTA
1 TTT-AAATAAATCAATCCATACTAATAAATTA
990994 TTTAAATAAATCAATCCATA-T--T---TTA
1 TTTAAATAAATCAATCCATACTAATAAATTA
*
991019 ---AAATAAATCAATCTATACTAATAAATTA
1 TTTAAATAAATCAATCCATACTAATAAATTA
991047 TTTAAAATAAATC
1 TTT-AAATAAATC
991060 CATATTTTAA
Statistics
Matches: 295, Mismatches: 18, Indels: 108
0.70 0.04 0.26
Matches are distributed among these distances:
21 30 0.10
22 33 0.11
23 4 0.01
24 1 0.00
25 14 0.05
26 31 0.11
27 1 0.00
28 24 0.08
29 17 0.06
30 31 0.11
31 20 0.07
32 89 0.30
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (31 bp):
TTTAAATAAATCAATCCATACTAATAAATTA
Found at i:990769 original size:22 final size:22
Alignment explanation
Indices: 990697--990769 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
990687 AATTATTTAG
*
990697 AATAAATCAATCCATACAACTACAA
1 AATAAATCAATCCATACAA--A-TA
***
990722 TAATAAATCAATCCATA-TTTTAA
1 -AATAAATCAATCCATACAAAT-A
990745 AATAAATCAATCCATACAAATA
1 AATAAATCAATCCATACAAATA
990767 AAT
1 AAT
990770 TATTTAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
22 20 0.53
23 2 0.05
26 16 0.42
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AATAAATCAATCCATACAAATA
Found at i:990779 original size:14 final size:14
Alignment explanation
Indices: 990762--990815 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
990752 CAATCCATAC
990762 AAATAAATTATTTA
1 AAATAAATTATTTA
*
990776 AAATAAATCAATATATA
1 AAATAAAT---TATTTA
*
990793 CTAATAAATTATTTA
1 -AAATAAATTATTTA
990808 AAATAAAT
1 AAATAAAT
990816 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 5 0.16
17 5 0.16
18 7 0.22
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:990826 original size:21 final size:21
Alignment explanation
Indices: 990802--990845 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
990792 ACTAATAAAT
990802 TATTTAAAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCA
990823 TATTTAAAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCA
990844 TA
1 TA
990846 CTAATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (21 bp):
TATTTAAAATAAATCAATCCA
Found at i:990965 original size:77 final size:82
Alignment explanation
Indices: 990772--991059 Score: 308
Period size: 80 Copynumber: 3.5 Consensus size: 82
990762 AAATAAATTA
** ***
990772 TTTAAAATAAATCAATATATACTAATAAATTATTTAAAATAAATCAATCCA-TATTTA--AAATA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCACTAACAACTAAATA
* * *
990834 AATCAATCCATACTAATAAATT
66 AATAAATCAAT-C-CAT--A-T
990856 ATTTAAAATAAATCAATCCATACTAAT-AATTA-TTAAAATAAATCAATCCA-T-ACAACTACAA
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCACTAACAACTA-AA
*
990917 T-AATAAATCAATCCATGT
64 TAAATAAATCAATCCATAT
* * * **
990935 TTTAAAA-AAATCAATCCATAC-AATAAATTATTTAAAATAAATCAATCTACTAATAATTATTTA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCACTAACAACTAAATA
990998 AATAAATCAATCCATAT
66 AATAAATCAATCCATAT
*
991015 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
991060 CATATTTTAA
Statistics
Matches: 177, Mismatches: 16, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
76 3 0.02
77 19 0.11
78 24 0.14
79 3 0.02
80 28 0.16
81 13 0.07
82 25 0.14
83 20 0.11
84 15 0.08
85 27 0.15
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (82 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCACTAACAACTAAATA
AATAAATCAATCCATAT
Done.