Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold107
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: 2327068
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 6 of 15
Found at i:805821 original size:20 final size:20
Alignment explanation
Indices: 805795--805849 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
805785 CTGCCAATCT
*
805795 CATGTATCGATACAATTG-T
1 CATGTATCGATACAATTGAG
*
805814 CTATGTATCAATACAA-TGAG
1 C-ATGTATCGATACAATTGAG
805834 CATGTATCGATACAAT
1 CATGTATCGATACAAT
805850 GTATGGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:805960 original size:16 final size:15
Alignment explanation
Indices: 805935--805966 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
805925 CTAAGTCAAT
805935 CATAATGTATCGATA
1 CATAATGTATCGATA
805950 CATATATGTATCGATA
1 CATA-ATGTATCGATA
805966 C
1 C
805967 TTTAAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (15 bp):
CATAATGTATCGATA
Found at i:807023 original size:13 final size:13
Alignment explanation
Indices: 807005--807029 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
806995 TATTTTTAAA
807005 ATATTTATATTTG
1 ATATTTATATTTG
807018 ATATTTATATTT
1 ATATTTATATTT
807030 AACGATTAAA
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:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
ATATTTATATTTG
Found at i:811689 original size:40 final size:41
Alignment explanation
Indices: 811643--811721 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
811633 TGCATAAACC
*
811643 AATTTTTTT--AAATAAATTATTT-AAAAATAAATAAAATAA
1 AATTTTTTTCCAAACAAATT-TTTAAAAAATAAATAAAATAA
* *
811682 AATTTTTTTCCAAACGAATTTTTAAAAAATAATTAAAATA
1 AATTTTTTTCCAAACAAATTTTTAAAAAATAAATAAAATA
811722 TGATATGACA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 9 0.26
40 3 0.09
41 22 0.65
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (41 bp):
AATTTTTTTCCAAACAAATTTTTAAAAAATAAATAAAATAA
Found at i:812077 original size:19 final size:20
Alignment explanation
Indices: 812053--812106 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
812043 ACATTAAACT
**
812053 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGGACAA
812072 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGACAA
812092 TTGTATCGATACATG
1 TTGTATCGATACATG
812107 AAACTAGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:812096 original size:20 final size:19
Alignment explanation
Indices: 812034--812106 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
812024 CACACTTAGA
** *
812034 TGTATCGATACATTAAACTT
1 TGTATCGATACA-TGGACAT
**
812054 TGTATCGATACATGTTCAT
1 TGTATCGATACATGGACAT
812073 TGTATCGATACATGGACAAT
1 TGTATCGATACATGGAC-AT
812093 TGTATCGATACATG
1 TGTATCGATACATG
812107 AAACTAGTAG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 18 0.39
20 28 0.61
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATGGACAT
Found at i:812178 original size:33 final size:33
Alignment explanation
Indices: 812136--812200 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
812126 TACCACTGTT
* *
812136 TGTATCGATACATGGT-ACATTGTATTGATACAA
1 TGTATCGATACATGATGA-ATTGTATCGATACAA
812169 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGATGAATTGTATCGATACA
812201 TTGCTTCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCGATACAA
Found at i:818093 original size:79 final size:80
Alignment explanation
Indices: 817921--818218 Score: 275
Period size: 79 Copynumber: 3.8 Consensus size: 80
817911 AAATTTAATA
* * *** * * *
817921 TTTTAGAGATAATAAT-GGGGTTG-GCGTATCCCCTTAAAAATAATGGGGCTGGAGTATCCCCGG
1 TTTTAGAAATAA-AATCGGGGTTGAGTGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGA
* *
817984 TTGTGAAAAATCGATG
65 TTATGAAAAATTGATG
* * * * * *
818000 ATTTGGAAATAAAATCGAGATTG-GTGCATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAC
1 TTTTAGAAATAAAATCGGGGTTGAGTGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
*
818064 TATAAAAAATTGATG
66 TATGAAAAATTGATG
* * **
818079 TTTTAGAAACAAAATCGGGGTTGCA-T-TATCCCCTTGGGGATAACGGGGTTGGAGTATCCCCGA
1 TTTTAGAAATAAAATCGGGGTTG-AGTGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGA
* * *
818142 TTATGAGAAATTAATA
65 TTATGAAAAATTGATG
* * * **
818158 TTTTAGAAATAAAACCGGGGTTGAG-GTTTCCCTTCAAAAATAACGGGGTTGGAGTATCCCC
1 TTTTAGAAATAAAATCGGGGTTGAGTGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCC
818219 TCGAAAATAT
Statistics
Matches: 174, Mismatches: 40, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
78 4 0.02
79 169 0.97
80 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (80 bp):
TTTTAGAAATAAAATCGGGGTTGAGTGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
TATGAAAAATTGATG
Found at i:818217 original size:28 final size:28
Alignment explanation
Indices: 818173--818246 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
818163 GAAATAAAAC
* *
818173 CGGGGTT-GAGGTTTCCCTTCAAAAATAA
1 CGGGGTTGGA-GTATCCCCTCAAAAATAA
* *
818201 CGGGGTTGGAGTATCCCCTCGAAAATAT
1 CGGGGTTGGAGTATCCCCTCAAAAATAA
* *
818229 TGGGATTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
818247 GATGAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCAAAAATAA
Found at i:818283 original size:104 final size:105
Alignment explanation
Indices: 818127--818322 Score: 297
Period size: 104 Copynumber: 1.9 Consensus size: 105
818117 GATAACGGGG
* * *
818127 TTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTT-GAGGTTTCCCT
1 TTGGAGTATCCCCG--TATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGA-GTGTCCCC
*
818191 TCAAAAATAACGGGGTTGGAGTATCCCCTCGAAAATATTGGGA
63 TCAAAAATAACGAGGTTGGAGTATCCCCTCGAAAATATTGGGA
* *
818234 TTGGAGTATCCCCG-ATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCA
1 TTGGAGTATCCCCGTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCA
818298 AAAATAACGAGGTTGGAGTATCCCC
66 AAAATAACGAGGTTGGAGTATCCCC
818323 GATTGCGGAG
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
104 66 0.80
105 2 0.02
107 14 0.17
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (105 bp):
TTGGAGTATCCCCGTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCA
AAAATAACGAGGTTGGAGTATCCCCTCGAAAATATTGGGA
Found at i:818316 original size:183 final size:183
Alignment explanation
Indices: 818027--818399 Score: 464
Period size: 183 Copynumber: 2.0 Consensus size: 183
818017 AGATTGGTGC
* *
818027 ATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGACTATAAAAAATTGATGTTTTAGAAACAAA
1 ATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGA--ATAAAAAATTGATGTTTTAGAAACAAA
* * ***** * *
818092 ATCGGGGTTGCATTATCCCCTTGGGGATAACGGGGTTGGAGTATCCCCGATTA-TGAGAAATTAA
64 ACCGGGGTTGCAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTACGGAG-AATTAA
* *
818156 TATTTTAGAAATAAAACCGGGGTT-GAGGTTTCCCTTCAAAAATAACGGGGTTGGAG
128 TATTTTAGAAATAAAACCGGGGTTGGA-GTATCCCCTCAAAAATAACGGGGTTGGAG
** * *
818212 TATCCCCTCGAAAATATTGGGATTGGAGTATCCCCG-ATGAAAAATTGATGTTTTAGAAATAAAA
1 -ATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGAATAAAAAATTGATGTTTTAGAAACAAAA
* * * ** *
818276 CCGGGGTTGGAGTGTCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTGCGGAGAATTCGTG
65 CCGGGGTTGCAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTACGGAGAATTAATA
*
818341 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAG
130 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAG
818395 ATCCC
1 ATCCC
818400 TGATTATGAA
Statistics
Matches: 161, Mismatches: 24, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
182 5 0.03
183 120 0.75
184 5 0.03
186 31 0.19
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (183 bp):
ATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGAATAAAAAATTGATGTTTTAGAAACAAAAC
CGGGGTTGCAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTACGGAGAATTAATAT
TTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAG
Found at i:818367 original size:79 final size:77
Alignment explanation
Indices: 818201--818535 Score: 381
Period size: 78 Copynumber: 4.2 Consensus size: 77
818191 TCAAAAATAA
* ** *
818201 CGGGGTTGGAGTATCCCCTCGAAAATATTG-GGATTGGAGTATCCCCGA-TGAAAAATTGATGTT
1 CGGGGTTGGAGTATCCCCTCAAAAATAACGAGG-TTGGAGTATCCCCGATTGGAAAATTGATGTT
818264 TTAGAAATAAAAC
65 TTAGAAATAAAAC
* *
818277 CGGGGTTGGAGTGTCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTGCGGAGAATTCG-TG
1 CGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATT--GGAAAATT-GATG
818341 TTTTAGAAATAAAAC
63 TTTTAGAAATAAAAC
* * * *
818356 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAG-ATCCCTGATTATGAAAGATTGATGT
1 CGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATT-GGAAA-ATTGATGT
818420 TTTAGAAATAAAAC
64 TTTAGAAATAAAAC
*
818434 CGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTACCCCCCCCCTGATTGTGAAAAGTT
1 CGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTA----TCCCC-GATTG-GAAAA-TT
* * *
818499 GGTGTTTTGGAAATAAAAT
59 GATGTTTTAGAAATAAAAC
* *
818518 CGGAGTTGGAATATCCCC
1 CGGGGTTGGAGTATCCCC
818536 GATTATGGAA
Statistics
Matches: 221, Mismatches: 23, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
76 41 0.19
77 7 0.03
78 66 0.30
79 60 0.27
80 1 0.00
83 4 0.02
84 42 0.19
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (77 bp):
CGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTGGAAAATTGATGTTT
TAGAAATAAAAC
Found at i:818555 original size:51 final size:50
Alignment explanation
Indices: 818499--818613 Score: 140
Period size: 51 Copynumber: 2.3 Consensus size: 50
818489 GTGAAAAGTT
* * *
818499 GGTGTTTTGGAAATAAAATCGGAGTTGGAATATCCCCGATTATGGAAAATG
1 GGTGTTTTGGAAATAAAAACGGAGTTGGAATAT-CCCGATTAAGAAAAATG
* * * *
818550 GGTGTTTTAGAAACAAAAACGGAGTTGGAGTATCCCGATTAAGAAAAATT
1 GGTGTTTTGGAAATAAAAACGGAGTTGGAATATCCCGATTAAGAAAAATG
* *
818600 GATATTTTGGAAAT
1 GGTGTTTTGGAAAT
818614 GAAACCAAGA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
50 24 0.45
51 29 0.55
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.30
Consensus pattern (50 bp):
GGTGTTTTGGAAATAAAAACGGAGTTGGAATATCCCGATTAAGAAAAATG
Found at i:821088 original size:19 final size:21
Alignment explanation
Indices: 821064--821115 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
821054 AGCAATACAC
*
821064 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
821083 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
821104 TGTATCGATACA
1 TGTATCGATACA
821116 AATTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 5 0.17
21 13 0.43
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:821936 original size:42 final size:42
Alignment explanation
Indices: 821836--821982 Score: 131
Period size: 41 Copynumber: 3.5 Consensus size: 42
821826 AAAAAGAGTA
* * * *
821836 CGTCCTA-TTTTTCGAGGACAAAGGAAAAAGGGAAACGAA-TA
1 CGTCCTACTCTTT-GAGGACAAAAGAAAAAGGAAAACGAAGTG
* **
821877 CGTCCTGCT-TTCTGAGGACAAAAGAAAAAGGAAAATAAAGTG
1 CGTCCTACTCTT-TGAGGACAAAAGAAAAAGGAAAACGAAGTG
*
821919 CGTCCTACTCTTTGAGGACAAAAGAGAAAA-GAAGGGAAGGAAGTG
1 CGTCCTACTCTTTGAGGACAAAAGA-AAAAGGAA---AACGAAGTG
*
821964 TGTCCTACTCTTTGAGGAC
1 CGTCCTACTCTTTGAGGAC
821983 TGAAAAGTGC
Statistics
Matches: 88, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
41 30 0.34
42 27 0.31
43 6 0.07
45 25 0.28
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.20
Consensus pattern (42 bp):
CGTCCTACTCTTTGAGGACAAAAGAAAAAGGAAAACGAAGTG
Found at i:822106 original size:60 final size:59
Alignment explanation
Indices: 821965--822259 Score: 410
Period size: 61 Copynumber: 4.9 Consensus size: 59
821955 AAGGAAGTGT
* * *
821965 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTAGGCTTTAAAAGAAGAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGAA-AAGGC
* *
822026 GTCCTGCTCTTTGAGGACTGGAAAATGTCACCAACTTGTGTGGGCTTTGAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
* *
822086 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAAGAAAAAGC
1 GTCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGC
* *
822147 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGT
1 GTCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGC
* ** *
822208 GTCCTACTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAG
1 GTCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
822260 GCATCCTCTC
Statistics
Matches: 212, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
59 5 0.02
60 78 0.37
61 124 0.58
62 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (59 bp):
GTCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
Found at i:822179 original size:121 final size:121
Alignment explanation
Indices: 821965--822259 Score: 425
Period size: 121 Copynumber: 2.4 Consensus size: 121
821955 AAGGAAGTGT
* * * *
821965 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTAGGCTTTAAAAGAAGAAGGCGTCC
1 GTCCTACTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAAGCATCC
* *
822030 TGCTCTTTGAGGACTGGAAAATGTCACCAACTTGTGTGGGCTTT-GAAAGAAAAGGC
65 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
* *
822086 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAAGAA-AAAGCATC
1 GTCCTACTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAGAAAGCATC
*
822150 CTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGT
64 CTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
** *
822208 GTCCTACTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAG
1 GTCCTACTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
822260 GCATCCTCTC
Statistics
Matches: 156, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
120 10 0.06
121 106 0.68
122 40 0.26
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (121 bp):
GTCCTACTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAAGCATCCT
GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
Found at i:822507 original size:55 final size:55
Alignment explanation
Indices: 822294--822897 Score: 578
Period size: 55 Copynumber: 10.5 Consensus size: 55
822284 AGGTGAAAGG
822294 AGAGAGCGTCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTTGTGTGGGCTTTAAA
1 AGAG-GCGTCCTGCTCTTTGAGGACTGAA-AA-TGCCACCAACTTGTGTGGGCTTT-AA
* *
822352 AGGAAAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACTAACTTGTGTGGGCTTTAAAA
1 A-G---AGGCGTCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT--AA
* *
822414 GGAGAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACTAACTTGTGTGGGCTTT-A
1 --AG-AGGCGTCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAA
*
822472 AGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCA-CAACTTGTGTGGGCTTTAAAA
1 AGAGGCGTCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT--AA
* * * * *
822529 AGAAAAGGTGTCCTGCTCTTTGAGGATTAGAGAATGCCACCAACTCGTGTGGGCTTTGA
1 AG---AGGCGTCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAA
* * * *
822588 A-AGGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGAGGGCTTTAA
1 AGAGGCGTCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
822643 A-AGGAGTCCTACTCTTTAAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGA
1 AGAGGCGTCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAA
*** * *
822698 A-AGGCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACTAACTCGTGTGGGCTTTAA
1 AGAGGCGTCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAA
* *
822753 A-AGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGA
1 AGAGGCGTCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAA
* *
822808 A-AGGCGTCCTACTCTTTGAGGACT-AAAAGGTGCCACAAACTTGTGTGGGCTTTAAA
1 AGAGGCGTCCTGCTCTTTGAGGACTGAAAA--TGCCACCAACTTGTGTGGGCTTT-AA
*
822864 AGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAA
1 A-G---AGGCGTCCTGCTCTTTGAGGACTGAAAA
822898 GTGGAAGGAG
Statistics
Matches: 470, Mismatches: 48, Indels: 52
0.82 0.08 0.09
Matches are distributed among these distances:
54 24 0.05
55 254 0.54
56 6 0.01
57 3 0.01
58 2 0.00
59 3 0.01
60 31 0.07
61 132 0.28
62 11 0.02
63 3 0.01
64 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (55 bp):
AGAGGCGTCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAA
Found at i:822765 original size:165 final size:167
Alignment explanation
Indices: 822301--822890 Score: 697
Period size: 165 Copynumber: 3.4 Consensus size: 167
822291 AGGAGAGAGC
* *
822301 GTCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
1 GTCCTACTCTTTGAGGACTGAA-AGGTGCCACCAACTTGTGTGGGCTTT---A-GAAAAGGCGTC
* * *
822365 CTGCTCTTTGAGGATTGGAAAATGCCACTAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGC
61 CTGCTCTTTGAGGATTAGAGAATGCCACTAACTCGTGTGGGCTTT---A--A-AAGGCGTCCTGC
* * * * *
822430 TCTTTGAGGATTGGAAAATGCCACTAACTTGTGTGGGCTTTAAGAGGT
120 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
822478 GTCCTGCTCTTTGAGGACTGGAAA-ATGCCA-CAACTTGTGTGGGCTTTAAAAAGAAAAGGTGTC
1 GTCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT----AGAAAAGGCGTC
* * *
822541 CTGCTCTTTGAGGATTAGAGAATGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCTTTG
61 CTGCTCTTTGAGGATTAGAGAATGCCACTAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
* *
822606 AGGACTGGGAAGTGCCACCAACTTGTGAGGGCTTTAAAAGGA
126 AGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
822648 GTCCTACTCTTTAAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTT-G-AAAGGCGTCCTGCT
1 GTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCT
* **
822711 CTTTGAGGACTAGAGGGTGCCACTAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
66 CTTTGAGGATTAGAGAATGCCACTAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
* *
822776 T-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
131 TGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
822813 GTCCTACTCTTTGAGGACTAAAAGGTGCCACAAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 GTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT---A-GAAAAGGCGTCC
822878 TGCTCTTTGAGGA
62 TGCTCTTTGAGGA
822891 CTGAAAAGTG
Statistics
Matches: 366, Mismatches: 35, Indels: 30
0.85 0.08 0.07
Matches are distributed among these distances:
164 3 0.01
165 145 0.40
166 1 0.00
169 4 0.01
170 75 0.20
171 39 0.11
176 68 0.19
177 28 0.08
178 1 0.00
179 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (167 bp):
GTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCT
CTTTGAGGATTAGAGAATGCCACTAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
TGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:823872 original size:1 final size:1
Alignment explanation
Indices: 823866--823936 Score: 52
Period size: 1 Copynumber: 71.0 Consensus size: 1
823856 TTCTTTCCTC
* ** * * * * * **
823866 TTTTTTTCTTTTTTTTTGGTTTTTTGTTTTTTTGTTTTTTTGTTTTTGTTTTGTTTTTTTTGGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
823931 TTTTTT
1 TTTTTT
823937 GAAAAAAATG
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (1 bp):
T
Found at i:823877 original size:8 final size:8
Alignment explanation
Indices: 823876--823935 Score: 72
Period size: 8 Copynumber: 7.9 Consensus size: 8
823866 TTTTTTTCTT
823876 TTTTTTTG
1 TTTTTTTG
*
823884 GTTTTTTG
1 TTTTTTTG
823892 TTTTTTTG
1 TTTTTTTG
823900 TTTTTTTG
1 TTTTTTTG
823908 --TTTTTG
1 TTTTTTTG
*
823914 TTTTGTT-
1 TTTTTTTG
*
823921 TTTTTTGG
1 TTTTTTTG
823929 TTTTTTT
1 TTTTTTT
823936 TGAAAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.14
7 5 0.12
8 32 0.74
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:823895 original size:16 final size:14
Alignment explanation
Indices: 823869--823936 Score: 82
Period size: 15 Copynumber: 4.6 Consensus size: 14
823859 TTTCCTCTTT
823869 TTTTCTTTTTTTTTGG
1 TTTT-TTTTTTTTT-G
823885 TTTTTTGTTTTTTTG
1 TTTTTT-TTTTTTTG
*
823900 TTTTTTTGTTTTTG
1 TTTTTTTTTTTTTG
*
823914 TTTTGTTTTTTTTGG
1 TTTT-TTTTTTTTTG
823929 TTTTTTTT
1 TTTTTTTT
823937 GAAAAAAATG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
14 15 0.32
15 21 0.45
16 11 0.23
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTTTTTG
Found at i:836052 original size:79 final size:79
Alignment explanation
Indices: 835935--836215 Score: 273
Period size: 79 Copynumber: 3.6 Consensus size: 79
835925 GAGATAATAA
* * * * * * * *
835935 CGGGGTTGGCATATCCCCTTGAAAATAATGGGGCTGGAGTATCATCGGTTGTGAAAAATCGATGA
1 CGGGGTTGGTATATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGA
*
836000 TTTGGAAATAAAAT
66 TTTAGAAATAAAAT
* * * * * * *
836014 CGGGATTGGTACATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGACTATAAAAAATTGATGT
1 CGGGGTTGGTATATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGA
* *
836079 TTTAGAAACAAAAC
66 TTTAGAAATAAAAT
*** * * *
836093 CGGGGTTGG-AGTATCCCCTCGGGGATAACAGGGTTGGAGTATCCTCGATTATGAGAAATTAAT-
1 CGGGGTTGGTA-TATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGATG
836156 ATTTTAGAAATAAAA-
65 A-TTTAGAAATAAAAT
*
836171 CTGGGGTTTGG-GTATCCCCTCGAAAATAACGGGGTTGGAGTATCC
1 C-GGGG-TTGGTATATCCCCTCGAAAATAACGGGGTTGGAGTATCC
836216 CCTCAAAAAT
Statistics
Matches: 163, Mismatches: 35, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
78 2 0.01
79 157 0.96
80 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGTATATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGA
TTTAGAAATAAAAT
Found at i:836206 original size:28 final size:28
Alignment explanation
Indices: 836173--836267 Score: 138
Period size: 28 Copynumber: 3.4 Consensus size: 28
836163 AAATAAAACT
836173 GGGGTTTGG-GTATCCCCTCGAAAATAAC
1 GGGG-TTGGAGTATCCCCTCGAAAATAAC
*
836201 GGGGTTGGAGTATCCCCTCAAAAATAAC
1 GGGGTTGGAGTATCCCCTCGAAAATAAC
* *
836229 GGGGTTGGAGTATCTCTTCGAAAATAAC
1 GGGGTTGGAGTATCCCCTCGAAAATAAC
*
836257 GGGATTGGAGT
1 GGGGTTGGAGT
836268 GTCCTCGATG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 4 0.07
28 57 0.93
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCTCGAAAATAAC
Found at i:836324 original size:132 final size:133
Alignment explanation
Indices: 836093--836348 Score: 320
Period size: 132 Copynumber: 1.9 Consensus size: 133
836083 GAAACAAAAC
*** *
836093 CGGGGTTGGAGTATCCCCTCGGGGATAACAGGGTTGGAGTATCCTCGATTATGAGAAATTAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCTCG--TATGAAAAATTAATAT
* * * *
836158 TTTAGAAATAAAACTGGGGTTTGGGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCTCAAA
64 TTTAGAAATAAAACCGGGGTTTGAGTATCCCCTCGAAAATAACAGGGTTGGAGCATCCCCTCAAA
836223 AATAA
129 AATAA
* * * * *
836228 CGGGGTTGGAGTATCTCTTCGAAAATAAC-GGGATTGGAGTGTCCTCG-ATGAAAAATTGATGTT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACAGGG-TTGGAGTATCCTCGTATGAAAAATTAATATT
* *
836291 TTAGAAATAAAACCGGGG-TTGAAGTGTCCCCTCGAAAATAATAGGGTTGGAGCATCCC
65 TTAGAAATAAAACCGGGGTTTG-AGTATCCCCTCGAAAATAACAGGGTTGGAGCATCCC
836349 TGATTGCAGA
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
131 3 0.03
132 61 0.59
134 3 0.03
135 37 0.36
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (133 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCTCGTATGAAAAATTAATATTT
TAGAAATAAAACCGGGGTTTGAGTATCCCCTCGAAAATAACAGGGTTGGAGCATCCCCTCAAAAA
TAA
Found at i:836384 original size:79 final size:78
Alignment explanation
Indices: 836228--836558 Score: 359
Period size: 79 Copynumber: 4.2 Consensus size: 78
836218 TCAAAAATAA
* * *
836228 CGGGGTTGGAGTATCTCTTCGAAAATAAC-GGGATTGGAGTGT-CCTCGA-TGA-AAAATTGATG
1 CGGGGTTGGAGTATCCCCTCGAAAATAACAGGG-TTGGAGTATCCCT-GATTGAGAAAATTGATG
836289 TTTTAGAAATAAAAC
64 TTTTAGAAATAAAAC
* * * * * *
836304 CGGGGTTGAAGTGTCCCCTCGAAAATAATAGGGTTGGAGCATCCCTGATTGCAGAGAATTGGTGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTG-AGAAAATTGATGT
836369 TTTAGAAATAAAAC
65 TTTAGAAATAAAAC
* * *
836383 CGGGGTTGGAGTATCTCTTCGAAAATAACAGGGTTGGAGTATCCCCGATT-ATGAAAGATTGATG
1 CGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTGA-GAAA-ATTGATG
836447 TTTTAGAAATAAAAC
64 TTTTAGAAATAAAAC
** * * *
836462 CGGGGTTGGAGTATCCCCTTAAAAATAACGGGGTTGGAGTA-CCCTCGATTGTGAAAATTCGGTG
1 CGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCT-GATTGAGAAAATT-GATG
* *
836526 TTTTGGAAATAAAAT
64 TTTTAGAAATAAAAC
** *
836541 CGAAGTTGGAATATCCCC
1 CGGGGTTGGAGTATCCCC
836559 GATTATGGAA
Statistics
Matches: 214, Mismatches: 31, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
76 33 0.15
77 9 0.04
78 10 0.05
79 162 0.76
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTGAGAAAATTGATGTT
TTAGAAATAAAAC
Found at i:836526 original size:158 final size:155
Alignment explanation
Indices: 836228--836539 Score: 432
Period size: 158 Copynumber: 2.0 Consensus size: 155
836218 TCAAAAATAA
* *
836228 CGGGGTTGGAGTATCTCTTCGAAAATAACGGGATTGGAGTGTCCTCGATGAAAAATTGATGTTTT
1 CGGGGTTGGAGTATCTCTTCGAAAATAACGGGATTGGAGTATCCCCGATGAAAAATTGATGTTTT
* * *
836293 AGAAATAAAACCGGGGTTGAAGTGTCCCCTCGAAAATAATAGGGTTGGAGCATCCCTGATTGCAG
66 AGAAATAAAACCGGGGTTGAAGTATCCCCTCAAAAATAACAGGGTTGGAGCATCCCTGATTGCAG
*
836358 AGAATTGGTGTTTTAGAAATAAAAC
131 AAAATTGGTGTTTTAGAAATAAAAC
*
836383 CGGGGTTGGAGTATCTCTTCGAAAATAACAGGG-TTGGAGTATCCCCGATTATGAAAGATTGATG
1 CGGGGTTGGAGTATCTCTTCGAAAATAAC-GGGATTGGAGTATCCCCG---ATGAAAAATTGATG
* * * *
836447 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTAAAAATAACGGGGTTGGAGTA-CCCTCGAT
62 TTTTAGAAATAAAACCGGGGTTGAAGTATCCCCTCAAAAATAACAGGGTTGGAGCATCCCT-GAT
* *
836511 TG-TGAAAATTCGGTGTTTTGGAAATAAAA
126 TGCAGAAAATT-GGTGTTTTAGAAATAAAA
836540 TCGAAGTTGG
Statistics
Matches: 138, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
155 41 0.30
156 3 0.02
157 10 0.07
158 84 0.61
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (155 bp):
CGGGGTTGGAGTATCTCTTCGAAAATAACGGGATTGGAGTATCCCCGATGAAAAATTGATGTTTT
AGAAATAAAACCGGGGTTGAAGTATCCCCTCAAAAATAACAGGGTTGGAGCATCCCTGATTGCAG
AAAATTGGTGTTTTAGAAATAAAAC
Found at i:836652 original size:51 final size:50
Alignment explanation
Indices: 836494--836656 Score: 186
Period size: 51 Copynumber: 3.2 Consensus size: 50
836484 AAATAACGGG
* *
836494 GTTGGAGTA-CCCTCGATTGTGAAAATTCGGTGTTTTGGAAATAAAATCGAA
1 GTTGGAGTATCCC-CGATTATGAAAATT-GGTGTTTTGGAAATAAAATCGGA
* * *
836545 GTTGGAATATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * *
836596 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTATG-AAAATTGGTGTTTTGGAAATAAAATCGGA
836646 GATTGGAGTAT
1 G-TTGGAGTAT
836657 TCTCGAGATG
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
50 2 0.02
51 85 0.89
52 9 0.09
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.30
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:838942 original size:24 final size:22
Alignment explanation
Indices: 838890--838942 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 22
838880 AATGTGTGTT
838890 AAAAACATGTTTTGAATGAACA
1 AAAAACATGTTTTGAATGAACA
838912 ATTAAAACATGTTTTGAATGAAACCA
1 A--AAAACATGTTTTGAATG-AA-CA
838938 AAAAA
1 AAAAA
838943 ATGGCTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 1 0.04
24 21 0.78
25 2 0.07
26 3 0.11
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.26
Consensus pattern (22 bp):
AAAAACATGTTTTGAATGAACA
Found at i:845115 original size:20 final size:20
Alignment explanation
Indices: 845086--845123 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
845076 GAAAATTTTC
*
845086 AGAATGTATCGATACATCAA
1 AGAATATATCGATACATCAA
845106 AGAATATATCGATACATC
1 AGAATATATCGATACATC
845124 TGGAAAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (20 bp):
AGAATATATCGATACATCAA
Found at i:845188 original size:13 final size:13
Alignment explanation
Indices: 845156--845195 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
845146 ACAATATTCC
* *
845156 TTGTATCGATATA
1 TTGTATTGATACA
*
845169 TTATATTGATACA
1 TTGTATTGATACA
845182 TTGTATTGATACA
1 TTGTATTGATACA
845195 T
1 T
845196 GGGTTACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.47
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:847750 original size:19 final size:20
Alignment explanation
Indices: 847717--847773 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
847707 TTGTATCGAT
* *
847717 ACAA-TGTATCAATACATGT
1 ACAATTGTATCGATACATGG
* *
847736 TC-ATTGTATTGATACATGG
1 ACAATTGTATCGATACATGG
847755 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
847774 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 1 0.03
19 14 0.47
20 15 0.50
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:847866 original size:33 final size:33
Alignment explanation
Indices: 847803--847867 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
847793 TACCACTGTT
* * *
847803 TGTATCGATACATGGTATATTTTATTGATACAA
1 TGTATCGATACATGATATATTATATCGATACAA
847836 TGTATCGATACATGATGA-ATTATATCGATACA
1 TGTATCGATACATGAT-ATATTATATCGATACA
847868 TTGCTTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATGATATATTATATCGATACAA
Found at i:848702 original size:13 final size:13
Alignment explanation
Indices: 848684--848708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
848674 GCACAAAAAT
848684 AACATAAAAATAA
1 AACATAAAAATAA
848697 AACATAAAAATA
1 AACATAAAAATA
848709 GTAAAACAAA
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:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (13 bp):
AACATAAAAATAA
Found at i:849304 original size:20 final size:21
Alignment explanation
Indices: 849256--849304 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
849246 TTTGGTATTT
849256 AAATATAATGCACATATTTTG
1 AAATATAATGCACATATTTTG
*
849277 -AATATAATTCACATATTTTG
1 AAATATAATGCACATATTTTG
849297 AAAT-TAAT
1 AAATATAAT
849305 ATTATTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (21 bp):
AAATATAATGCACATATTTTG
Found at i:849931 original size:79 final size:78
Alignment explanation
Indices: 849762--849932 Score: 236
Period size: 79 Copynumber: 2.2 Consensus size: 78
849752 GAAGGTAAAA
* * * * *
849762 AACTAAATTTAAAAAGGTTTGTCTTGATAGAAGGTACAAGACTAAACCTAATGGACTTGGTTTTG
1 AACTAAAATTAAAAAGGTTGGTCTCGATAGAAAGTACAAGACTAAAACTAATGGACTTGGTTTTG
849827 ATGAAAGGTTTGG
66 ATGAAAGGTTTGG
* * *
849840 AATTAAAATTAAAAAGGTTCGGTCTCGATAGAAAGTATAGGACTAAAACTAATGGACTTGGTTTT
1 AACTAAAATTAAAAAGGTT-GGTCTCGATAGAAAGTACAAGACTAAAACTAATGGACTTGGTTTT
849905 GATGAAAGGTTT-G
65 GATGAAAGGTTTGG
*
849918 AAGCTAAACTTAAAA
1 AA-CTAAAATTAAAA
849933 GGGCTCAATC
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
78 20 0.25
79 61 0.75
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (78 bp):
AACTAAAATTAAAAAGGTTGGTCTCGATAGAAAGTACAAGACTAAAACTAATGGACTTGGTTTTG
ATGAAAGGTTTGG
Found at i:849945 original size:79 final size:79
Alignment explanation
Indices: 849787--849951 Score: 215
Period size: 79 Copynumber: 2.1 Consensus size: 79
849777 GGTTTGTCTT
* * *
849787 GATAGAAGGTACAAGACTAAACCTAATGGACTTGGTTTTGATGAAAGGTTTGGAATTAAAATTAA
1 GATAGAAAGTACAAGACTAAAACTAATGGACTTGGTTTTGATGAAAGGTTTGGAACTAAAATTAA
* **
849852 AAAGGTTCGGTCTC
66 AAAGGCTCAATCTC
* * *
849866 GATAGAAAGTATAGGACTAAAACTAATGGACTTGGTTTTGATGAAAGGTTT-GAAGCTAAACTTA
1 GATAGAAAGTACAAGACTAAAACTAATGGACTTGGTTTTGATGAAAGGTTTGGAA-CTAAAATTA
*
849930 AAAGGGCTCAATCTC
65 AAAAGGCTCAATCTC
*
849945 GACAGAA
1 GATAGAA
849952 GATACAAAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 3 0.04
79 71 0.96
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (79 bp):
GATAGAAAGTACAAGACTAAAACTAATGGACTTGGTTTTGATGAAAGGTTTGGAACTAAAATTAA
AAAGGCTCAATCTC
Found at i:852610 original size:15 final size:15
Alignment explanation
Indices: 852592--852656 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 15
852582 GCAAAGATTA
852592 AAATTGCAAGAAAAT
1 AAATTGCAAGAAAAT
** **
852607 AAATTGCATCAATTT
1 AAATTGCAAGAAAAT
* *
852622 AAATTGC-ATAAACT
1 AAATTGCAAGAAAAT
852636 AAAATTGCAAGAAAAT
1 -AAATTGCAAGAAAAT
852652 AAATT
1 AAATT
852657 AACTACATAA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
14 3 0.08
15 30 0.79
16 5 0.13
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (15 bp):
AAATTGCAAGAAAAT
Found at i:854477 original size:17 final size:17
Alignment explanation
Indices: 854455--854489 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
854445 GAAAGATAGT
854455 GTAGAGGTTCTATCTTA
1 GTAGAGGTTCTATCTTA
854472 GTAGAGGTTCTATCTTA
1 GTAGAGGTTCTATCTTA
854489 G
1 G
854490 CCTTTGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (17 bp):
GTAGAGGTTCTATCTTA
Found at i:854511 original size:49 final size:46
Alignment explanation
Indices: 854425--854521 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 46
854415 CAAGTGCTTG
854425 AGAGGTTCTATCTTAGCCTTGAAAGATAGTGTAGAGGTTCTATCTTAGT
1 AGAGGTTCTATCTTAGCCTTGAAAGATA--G-AGAGGTTCTATCTTAGT
854474 AGAGGTTCTATCTTAGCCTTTGTAAAAGATA-ACGAGGTTCTATCTTAG
1 AGAGGTTCTATCTTAGCC-TTG--AAAGATAGA-GAGGTTCTATCTTAG
854522 CCTGCAAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
48 1 0.02
49 33 0.75
50 3 0.07
52 7 0.16
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (46 bp):
AGAGGTTCTATCTTAGCCTTGAAAGATAGAGAGGTTCTATCTTAGT
Found at i:854549 original size:33 final size:33
Alignment explanation
Indices: 854474--854599 Score: 131
Period size: 32 Copynumber: 3.9 Consensus size: 33
854464 CTATCTTAGT
854474 AGAGGTTCTATCTTAGCCTTTGTAAAAGATA---A
1 AGAGGTTCTATCTTAGCC-TTG-AAAAGATAGGGA
*
854506 CGAGGTTCTATCTTAGCC-TGCAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTTG-AAAAGATAGGGA
* *
854539 AGAGGTTCTATTTTAGCTCGTGAAAAGATAGGG-
1 AGAGGTTCTATCTTAGC-CTTGAAAAGATAGGGA
*
854572 AG-GTTTCTATCTTAGCCTTG-AAAGATAG
1 AGAGGTTCTATCTTAGCCTTGAAAAGATAG
854600 TGTTGTAAGG
Statistics
Matches: 82, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
30 18 0.22
31 3 0.04
32 29 0.35
33 18 0.22
34 12 0.15
35 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (33 bp):
AGAGGTTCTATCTTAGCCTTGAAAAGATAGGGA
Found at i:854598 original size:64 final size:64
Alignment explanation
Indices: 854474--854599 Score: 159
Period size: 65 Copynumber: 2.0 Consensus size: 64
854464 CTATCTTAGT
*
854474 AGAGGTTCTATCTTAGCCTTTGTAAAAGATAACGAGGTTCTATCTTAGCCTGCAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTGTGTAAAAGATAACGAGGTTCTATCTTAGCCTG-AAAAGATAGGGA
* **
854539 AGAGGTTCTATTTTAG-CTCGTG-AAAAGATAGGGAGGTTTCTATCTTAGCCTTG-AAAGATAG
1 AGAGGTTCTATCTTAGCCT-GTGTAAAAGATAACGAGG-TTCTATCTTAGCC-TGAAAAGATAG
854600 TGTTGTAAGG
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
64 22 0.41
65 30 0.56
66 2 0.04
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (64 bp):
AGAGGTTCTATCTTAGCCTGTGTAAAAGATAACGAGGTTCTATCTTAGCCTGAAAAGATAGGGA
Found at i:856217 original size:21 final size:22
Alignment explanation
Indices: 856193--856248 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
856183 ACTAGAGCAA
856193 AAAATGAATGAGTTGGAA-AAG
1 AAAATGAATGAGTTGGAAGAAG
* * *
856214 AAAA-GAAATAAGTTGTAAGATG
1 AAAATG-AATGAGTTGGAAGAAG
856236 AAAAT-AATGAGTT
1 AAAATGAATGAGTT
856249 AACTAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 1 0.04
21 21 0.75
22 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (22 bp):
AAAATGAATGAGTTGGAAGAAG
Found at i:859536 original size:13 final size:13
Alignment explanation
Indices: 859518--859542 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
859508 ATATTGCTTA
859518 GTATCGATACATT
1 GTATCGATACATT
859531 GTATCGATACAT
1 GTATCGATACAT
859543 GTTTTTGGTA
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:859559 original size:32 final size:33
Alignment explanation
Indices: 859497--859561 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
859487 CACACCCATA
859497 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
* * *
859530 TGTATCGATACATGTT-TTTGGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
859562 CATGAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCGATACAT
Found at i:860160 original size:64 final size:63
Alignment explanation
Indices: 860081--860236 Score: 206
Period size: 65 Copynumber: 2.4 Consensus size: 63
860071 AAGTGATTGA
* * * **
860081 GAGGTTCTATCTTAGCCTTGAAAGATAATGTAGAGGTTCTATCTTAGCCTTTGTAAAAGATAGG
1 GAGGTTCTATCTTAGCCTTGAAAGATAAGGAAGAGATTCTATCTTAGCCCGTG-AAAAGATAGG
* *
860145 GAGGTTCTATCTTAGCC-TGCAAAAGTTAGGGAAGAGATTCTATCTTAGCCCGTGAAAAGATAGG
1 GAGGTTCTATCTTAGCCTTG--AAAGATAAGGAAGAGATTCTATCTTAGCCCGTGAAAAGATAGG
860209 GAGGTTTCTATCTTAGCCTTGAAAGATA
1 GAGG-TTCTATCTTAGCCTTGAAAGATA
860237 GTGTTGTAAG
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
63 2 0.03
64 37 0.46
65 39 0.49
66 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (63 bp):
GAGGTTCTATCTTAGCCTTGAAAGATAAGGAAGAGATTCTATCTTAGCCCGTGAAAAGATAGG
Found at i:860191 original size:33 final size:30
Alignment explanation
Indices: 860081--860237 Score: 167
Period size: 32 Copynumber: 5.0 Consensus size: 30
860071 AAGTGATTGA
*
860081 GAGGTTCTATCTTAGCCTTG-AAAGATAATGTA
1 GAGGTTCTATCTTAGCCTTGAAAAGAT-A-G-G
860113 GAGGTTCTATCTTAGCCTTTGTAAAAGATAGG
1 GAGGTTCTATCTTAGCC-TTG-AAAAGATAGG
*
860145 GAGGTTCTATCTTAGCC-TGCAAAAGTTAGG
1 GAGGTTCTATCTTAGCCTTG-AAAAGATAGG
*
860175 GAAGAGATTCTATCTTAGCCCGTGAAAAGATAGG
1 G-AG-G-TTCTATCTTAG-CCTTGAAAAGATAGG
860209 GAGGTTTCTATCTTAGCCTTG-AAAGATAG
1 GAGG-TTCTATCTTAGCCTTGAAAAGATAG
860238 TGTTGTAAGG
Statistics
Matches: 111, Mismatches: 6, Indels: 18
0.82 0.04 0.13
Matches are distributed among these distances:
30 20 0.18
31 6 0.05
32 47 0.42
33 17 0.15
34 13 0.12
35 8 0.07
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (30 bp):
GAGGTTCTATCTTAGCCTTGAAAAGATAGG
Found at i:862393 original size:9 final size:9
Alignment explanation
Indices: 862361--862409 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
862351 ATTGTTTTTG
862361 TTTTTTCA-
1 TTTTTTCAT
862369 TTTTTTCATT
1 TTTTTTCA-T
862379 TCTTTTTCAT
1 T-TTTTTCAT
*
862389 TTTTTTTAT
1 TTTTTTCAT
*
862398 TTTTTTTAT
1 TTTTTTCAT
862407 TTT
1 TTT
862410 CTATTTTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
8 8 0.22
9 19 0.51
10 3 0.08
11 7 0.19
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:862403 original size:19 final size:19
Alignment explanation
Indices: 862361--862409 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
862351 ATTGTTTTTG
862361 TTTTTTCA-TTTTTTCATT
1 TTTTTTCATTTTTTTCATT
*
862379 TCTTTTTCATTTTTTTTATT
1 T-TTTTTCATTTTTTTCATT
862399 TTTTTT-ATTTT
1 TTTTTTCATTTT
862410 CTATTTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 6 0.21
19 12 0.43
20 10 0.36
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTTCATTTTTTTCATT
Found at i:864486 original size:19 final size:21
Alignment explanation
Indices: 864456--864506 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
864446 ACATACAAGG
864456 GTTGTA-TGATACAATGC-AA
1 GTTGTATTGATACAATGCTAA
* *
864475 G-TGTATTGATACATTGCTTA
1 GTTGTATTGATACAATGCTAA
864495 GTTGTATTGATA
1 GTTGTATTGATA
864507 TAAATAAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 4 0.15
19 11 0.41
20 2 0.07
21 10 0.37
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (21 bp):
GTTGTATTGATACAATGCTAA
Found at i:867876 original size:13 final size:13
Alignment explanation
Indices: 867858--867882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
867848 TTTTCATTTG
867858 AACAAATTTATGC
1 AACAAATTTATGC
867871 AACAAATTTATG
1 AACAAATTTATG
867883 TTGACTAGGT
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:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (13 bp):
AACAAATTTATGC
Found at i:868621 original size:13 final size:13
Alignment explanation
Indices: 868603--868627 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
868593 CATAAAGTGT
868603 TGTATCGATACAA
1 TGTATCGATACAA
868616 TGTATCGATACA
1 TGTATCGATACA
868628 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:868625 original size:33 final size:33
Alignment explanation
Indices: 868583--868649 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
868573 GTCAACGATT
868583 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
868616 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
868649 T
1 T
868650 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:868708 original size:13 final size:13
Alignment explanation
Indices: 868690--868714 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
868680 ATCACTTAAA
868690 TGTATCGATACAT
1 TGTATCGATACAT
868703 TGTATCGATACA
1 TGTATCGATACA
868715 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:868779 original size:52 final size:52
Alignment explanation
Indices: 868723--868851 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
868713 CACTGATCTT
*
868723 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
868775 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
868827 TGTATCGATACATGCA-GATAAATTT
1 TGTATCGATACATGCAGGA-AAATTT
868852 TCATATTTCG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 1 0.01
52 71 0.99
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:873573 original size:32 final size:32
Alignment explanation
Indices: 873518--873578 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
873508 ATAGTTGAAA
*
873518 TGTATCGATACAATTTTAATGTATTAATACCT
1 TGTATCGATACAATTTTAATGTATCAATACCT
*
873550 TGTATCGATACAATTTCT-TTGTATCAATA
1 TGTATCGATACAATTT-TAATGTATCAATA
873579 GATCTGGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (32 bp):
TGTATCGATACAATTTTAATGTATCAATACCT
Found at i:876909 original size:20 final size:20
Alignment explanation
Indices: 876884--877031 Score: 134
Period size: 20 Copynumber: 7.8 Consensus size: 20
876874 TTTTCACAAT
876884 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
876904 TTGTATCGTTACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
876924 TTATATCGATACATT-TTGCA
1 TTGTATCGATACATTGTT-CA
* * * *
876944 TTGTATTGATCCATTGCTGA
1 TTGTATCGATACATTGTTCA
876964 TTGTATCGAT--A-----CA
1 TTGTATCGATACATTGTTCA
* *
876977 TTGTATCGATACATAGCTCA
1 TTGTATCGATACATTGTTCA
876997 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
877017 ATGTATCGATACATT
1 TTGTATCGATACATT
877032 CAGGCATTTT
Statistics
Matches: 105, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
13 11 0.10
15 1 0.01
18 1 0.01
19 3 0.03
20 88 0.84
21 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:876981 original size:13 final size:13
Alignment explanation
Indices: 876963--876990 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
876953 TCCATTGCTG
876963 ATTGTATCGATAC
1 ATTGTATCGATAC
876976 ATTGTATCGATAC
1 ATTGTATCGATAC
876989 AT
1 AT
876991 AGCTCATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:877000 original size:33 final size:33
Alignment explanation
Indices: 876942--877011 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
876932 ATACATTTTG
* * * *
876942 CATTGTATTGATCCATTGCTGATTGTATCGATA
1 CATTGTATCGATACATAGCTCATTGTATCGATA
876975 CATTGTATCGATACATAGCTCATTGTATCGATA
1 CATTGTATCGATACATAGCTCATTGTATCGATA
877008 CATT
1 CATT
877012 TTACAATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (33 bp):
CATTGTATCGATACATAGCTCATTGTATCGATA
Found at i:879494 original size:51 final size:51
Alignment explanation
Indices: 879318--879495 Score: 180
Period size: 51 Copynumber: 3.5 Consensus size: 51
879308 TAAATTTCTA
* * * * *
879318 AATTTTTCAT-CTCGGGGATACTCCAA-TCCCAGTTTCATGTCCAAAGCATC
1 AATTTTTCATAATCAGGGATACTCCAACTCCGA-TTTTATTTCCAAAGCATC
* * *
879368 AATTTTTCTTAATCAGGGATACTCAAACTCCGATTTTATTTCTAAAGCATC
1 AATTTTTCATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAGCATC
* ** * * * *
879419 GATTTACCGTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACC
1 AATTTTTCATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAGCATC
* *
879470 AATTTTTCACAATTAGGGATACTCCA
1 AATTTTTCATAATCAGGGATACTCCA
879496 CCCCAGCTTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
50 9 0.09
51 89 0.87
52 4 0.04
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (51 bp):
AATTTTTCATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAGCATC
Found at i:882789 original size:52 final size:52
Alignment explanation
Indices: 882641--882769 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
882631 CTGAAATATG
*
882641 AAATTTGCCTGCATGTATCGATACATTTCATAGTGCATCGATACATCTAGGA
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGA
** * * *
882693 AAATTTGCCTATATGTATCGATACATTTCATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGA
882745 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
882770 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGA
Found at i:882796 original size:13 final size:13
Alignment explanation
Indices: 882778--882837 Score: 60
Period size: 13 Copynumber: 5.0 Consensus size: 13
882768 CAAAGATCAG
882778 TGTATCGATACAA
1 TGTATCGATACAA
882791 TGTATCGATAC-A
1 TGTATCGATACAA
882803 T-T-T-GAGT--AA
1 TGTATCGA-TACAA
*
882812 TGTATCGATACAT
1 TGTATCGATACAA
882825 TGTATCGATACAA
1 TGTATCGATACAA
882838 CACTTATGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
9 4 0.11
10 3 0.08
11 3 0.08
12 4 0.11
13 24 0.63
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:883274 original size:79 final size:79
Alignment explanation
Indices: 883138--883284 Score: 217
Period size: 79 Copynumber: 1.9 Consensus size: 79
883128 AGGTGTCTAC
*
883138 AGGGGATACTCTAACCCCGATTGTATTTTCAAAACACAAATTTTCTATAATCAGGGATACTCCAG
1 AGGGGATACTCCAACCCCGATTGTATTTTCAAAACACAAATTTTCTATAATCAGGGATACTCCAG
883203 CCCTGTTATTTCGG
66 CCCTGTTATTTCGG
* ** *
883217 AGGGGATACTCCAACCCCGATTTTA-TTTCTAAAACACCGATTTT-TCATAATCGGGGATACTCC
1 AGGGGATACTCCAACCCCGATTGTATTTTC-AAAACACAAATTTTCT-ATAATCAGGGATACTCC
883280 AGCCC
64 AGCCC
883285 CGTTGTTATC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
78 5 0.08
79 56 0.92
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (79 bp):
AGGGGATACTCCAACCCCGATTGTATTTTCAAAACACAAATTTTCTATAATCAGGGATACTCCAG
CCCTGTTATTTCGG
Found at i:884962 original size:16 final size:14
Alignment explanation
Indices: 884945--884974 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
884935 ATCAAAAGAT
884945 AATAA-AATAAAAA
1 AATAATAATAAAAA
884958 AATAATAATAAAAA
1 AATAATAATAAAAA
884972 AAT
1 AAT
884975 GGGGATGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AATAATAATAAAAA
Found at i:887816 original size:79 final size:79
Alignment explanation
Indices: 887695--887912 Score: 217
Period size: 79 Copynumber: 2.7 Consensus size: 79
887685 AAAAGGATTT
* * * * **
887695 TCCAACCTTATTTATATTTTACAACAAATCTTGAATTTATATTCTT-GGGAAACTCCAACCCCAT
1 TCCAACCTCATTT-T-TTCTACAAAAAATCTTAAATTTATATT-TTCAAGAAACTCCAACCCCAT
887759 AC-TAAAAAAAGGGATAC
63 -CTTAAAAAAAGGGATAC
* * *
887776 TCCAACCTCATTTTTTCTACAAAAAATCTTAAATTTATATTTTCAAGATACTCTAACCCTATCTT
1 TCCAACCTCATTTTTTCTACAAAAAATCTTAAATTTATATTTTCAAGAAACTCCAACCCCATCTT
*** * *
887841 TGCAAAGGGGATTC
66 AAAAAAAGGGATAC
* * *
887855 TCCAA-CTCCTTTTTTCCTACAAAAAATCCTAAATTTATATTTTCAAGATACTCCAACC
1 TCCAACCTCATTTTTT-CTACAAAAAATCTTAAATTTATATTTTCAAGAAACTCCAACC
887913 TTAAATCCCA
Statistics
Matches: 117, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 12 0.10
79 92 0.79
80 1 0.01
81 12 0.10
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (79 bp):
TCCAACCTCATTTTTTCTACAAAAAATCTTAAATTTATATTTTCAAGAAACTCCAACCCCATCTT
AAAAAAAGGGATAC
Found at i:889118 original size:17 final size:17
Alignment explanation
Indices: 889093--889144 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
889083 ACTATTATGT
*
889093 TATTAATCATTTATTAC
1 TATTTATCATTTATTAC
*
889110 TATTTATCAATTATTGAC
1 TATTTATCATTTATT-AC
889128 TATTATGAT-ATTTATTA
1 TATT-T-ATCATTTATTA
889145 TATACTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 13 0.45
18 7 0.24
19 7 0.24
20 2 0.07
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (17 bp):
TATTTATCATTTATTAC
Found at i:889131 original size:18 final size:17
Alignment explanation
Indices: 889093--889132 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
889083 ACTATTATGT
*
889093 TATTAATCATTTATTAC
1 TATTAATCAATTATTAC
*
889110 TATTTATCAATTATTGAC
1 TATTAATCAATTATT-AC
889128 TATTA
1 TATTA
889133 TGATATTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTAATCAATTATTAC
Found at i:889157 original size:43 final size:43
Alignment explanation
Indices: 889083--889167 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
889073 ATCATTAGTT
* * *
889083 ACTATTATGTTATTAATCATTTATTACTA-TTTATCAATTATTG
1 ACTATTATGATATTAATCATATACTACTATTTTAT-AATTATTG
* * *
889126 ACTATTATGATATTTATTATATACTATTATTTTATAATTATT
1 ACTATTATGATATTAATCATATACTACTATTTTATAATTATT
889168 TAATTTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 30 0.86
44 5 0.14
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (43 bp):
ACTATTATGATATTAATCATATACTACTATTTTATAATTATTG
Found at i:890451 original size:168 final size:164
Alignment explanation
Indices: 890219--890671 Score: 524
Period size: 168 Copynumber: 2.7 Consensus size: 164
890209 TTTTTCTGCC
* *
890219 GTAAA-TTTTTTGGAGAGGATTTTCATCGATTTAAAATTTTTTAAATTCATCAAATATCATCATT
1 GTAAATTTTTTTGG-GAGGATTTTCATAGATTTAAAATTTTTTAAATTCATAAAATAT-ATCATT
* * *
890283 TAATTCATAATAAATCAGTTTTGAAAAATTCATTTATATTCACGAGTTTTTAATTTTTTCCTTAG
64 TAATTCATAATAAATCATTTTTGAAAAATTCATTCAT-TTCA-TAGTTTTTAATTTTTTCCTTAG
* * *
890348 AATTTCT-TATGTTTTCGAAATACGAAGTTTTCTTTTTA
127 AATTCCTCT-TGTTTTCGAAAAACGAAGCTTTCTTTTTA
* * *
890386 GTAAATTTTTTTCGGGAGGA-TTTCTATTGATTTAAAAATTTTAAAATTCATAAAATACTATCAT
1 GTAAATTTTTTT-GGGAGGATTTTC-ATAGATTTAAAATTTTTTAAATTCATAAAATA-TATCAT
* * ** *
890450 TTAATTTATAATAAATCATTTTTGAAAAAATCATTCATTTTTTTAG-TTTTCA-TTTTTCCTTAG
63 TTAATTCATAATAAATCATTTTTGAAAAATTCATTCA-TTTCATAGTTTTTAATTTTTTCCTTAG
* * * *
890513 AATTCCTCTTGTTTTTGAAAAATGGAGCTTTCTTTTTT
127 AATTCCTCTTGTTTTCGAAAAACGAAGCTTTCTTTTTA
* *
890551 GT-AATTTTTTTGGGATGATTTTCATAGATTTAAAATTTTTTAAATTCATAAAATATTATTATTT
1 GTAAATTTTTTTGGGAGGATTTTCATAGATTTAAAATTTTTTAAATTCATAAAATA-TATCATTT
* * *
890615 GATTCA-AATTAAATTATTTTTGAAAAATTCATTCATCTTCATAGTTTTAAATTTTTT
65 AATTCATAA-TAAATCATTTTTGAAAAATTCATTCAT-TTCATAGTTTTTAATTTTTT
890672 TTGAAATTTT
Statistics
Matches: 242, Mismatches: 33, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
162 3 0.01
163 75 0.31
164 17 0.07
165 47 0.19
166 6 0.02
167 11 0.05
168 79 0.33
169 4 0.02
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.50
Consensus pattern (164 bp):
GTAAATTTTTTTGGGAGGATTTTCATAGATTTAAAATTTTTTAAATTCATAAAATATATCATTTA
ATTCATAATAAATCATTTTTGAAAAATTCATTCATTTCATAGTTTTTAATTTTTTCCTTAGAATT
CCTCTTGTTTTCGAAAAACGAAGCTTTCTTTTTA
Found at i:890736 original size:163 final size:161
Alignment explanation
Indices: 890220--890770 Score: 490
Period size: 163 Copynumber: 3.4 Consensus size: 161
890210 TTTTCTGCCG
* * * * *
890220 TAAATTTTTTGGAGAGGATTTTC-ATCGATTTAAAATTTTTTAAATTCATCAAATATCATCATTT
1 TAAATTTTTCGG-GAGGATTTTCTATAGATTTAAAATTTTTAAAATTCATAAAATATTATCATTT
* * *
890284 AATTCATAATAAATCAGTTTTGAAAAATTCATTTATATTCACGAGTTTTTAATTTTTTCCTTAGA
65 AATTCATAATAAATCATTTTTGAAAAATTCATTCATATTCA-TAG-TTTTAATTTTTT--TTAGA
* *
890349 A-TTTCTTATGTTTTCGAAATACGAAGTTTTCTTTTTA
126 ATTTTCTTAT-TTTT-GAAAAACTAAGTTTTCTTTTTA
* * *
890386 GTAAATTTTTTTCGGGAGGA-TTTCTATTGATTTAAAAATTTTAAAATTCATAAAATACTATCAT
1 -TAAA--TTTTTCGGGAGGATTTTCTATAGATTTAAAATTTTTAAAATTCATAAAATATTATCAT
* * * ** * *
890450 TTAATTTATAATAAATCATTTTTGAAAAAATCATTCATTTTTTTAGTTTTCATTTTTCCTTAGAA
63 TTAATTCATAATAAATCATTTTTGAAAAATTCATTCATATTCATAGTTTTAATTTTT-TTTAGAA
* * * * *
890515 TTCCTCTTGTTTTTGAAAAA-TGGAGCTTTCTTTTTTG
127 TT-TTCTTATTTTTGAAAAACT-AAGTTTTC-TTTTTA
* * * * * *
890552 TAATTTTTTTGGGATGATTTTC-ATAGATTTAAAATTTTTTAAATTCATAAAATATTATTATTTG
1 TAAATTTTTCGGGAGGATTTTCTATAGATTTAAAATTTTTAAAATTCATAAAATATTATCATTTA
* *
890616 ATTCA-AATTAAATTATTTTTGAAAAATTCATTCATCTTCATAGTTTTAAATTTTTTTT-GAAAT
66 ATTCATAA-TAAATCATTTTTGAAAAATTCATTCATATTCATAGTTTT-AATTTTTTTTAG-AAT
* * ***
890679 TTTTTTATTTTTAAAAAACTAAGTTTTCTATCCCA
128 TTTCTTATTTTTGAAAAACTAAGTTTTCT-TTTTA
* **
890714 TAAATATTTTCGGG-GAGATTTTCTTTAG-TTTAAAATTTTTAAAATTCAGCAAATATT
1 TAAAT-TTTTCGGGAG-GATTTTCTATAGATTTAAAATTTTTAAAATTCATAAAATATT
890771 GTTATTAAAC
Statistics
Matches: 309, Mismatches: 58, Indels: 38
0.76 0.14 0.09
Matches are distributed among these distances:
161 1 0.00
162 27 0.09
163 132 0.43
164 13 0.04
165 20 0.06
166 20 0.06
167 15 0.05
168 74 0.24
169 7 0.02
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (161 bp):
TAAATTTTTCGGGAGGATTTTCTATAGATTTAAAATTTTTAAAATTCATAAAATATTATCATTTA
ATTCATAATAAATCATTTTTGAAAAATTCATTCATATTCATAGTTTTAATTTTTTTTAGAATTTT
CTTATTTTTGAAAAACTAAGTTTTCTTTTTA
Found at i:896775 original size:20 final size:20
Alignment explanation
Indices: 896722--896776 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
896712 AATTTCCCAG
**
896722 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
896742 ATGTATCGATACATTGAGT-A
1 ATGTATCGATACATTGA-TCA
896762 ATGTATCGATACATT
1 ATGTATCGATACATT
896777 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:896836 original size:19 final size:19
Alignment explanation
Indices: 896806--896854 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
896796 AGCGATACAT
896806 TGTATC-ATACAACACTTA
1 TGTATCGATACAACACTTA
*
896824 TGTATCGATACAACATTTA
1 TGTATCGATACAACACTTA
896843 TGTATCGATACA
1 TGTATCGATACA
896855 GTTACTGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 6 0.21
19 23 0.79
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:897770 original size:52 final size:51
Alignment explanation
Indices: 897484--898527 Score: 629
Period size: 52 Copynumber: 21.9 Consensus size: 51
897474 AAGAGTGATA
* * *
897484 AAGGTGCCATTATGCTGATTC-AGGACCAGTGATATTAGG-CTTAAGGATGAG
1 AAGGTGCCAATATGCTGATTCAAGG-CCAGCGATATT-GGACTTAAAGATGAG
* * * * * *
897535 AAAAAGGATGTCAATGTGCTGATTCATGGTCAGCGATATTAGACTTGAAGATGAG
1 ---AAGG-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
* * ** ** * ** *
897590 AAGAATGCCAATGTATTGATTCAAGGCCAATGACATTGGGGTTTAAAGATGACA
1 AAG-GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGATGA-G
** *
897644 AAGGCACCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
* * * *
897693 AAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTAGACTTAAAGATGACG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-G
* **
897745 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGAT--G
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
* * * *
897794 AAGATGTCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-G
897846 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
* * * *
897895 AAGGTGCCAATATGCTGATTCGAGGCCAGCGACATTGGACTCAAAGATGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-G
** * * * **
897947 AAGCCGTCAATATGCTGATTCAAGGCTAGTGATACCGGACTTAAAGAT--G
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
* * * *
897996 AAGATGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-G
* * *
898048 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATACTGGGC-T-----T---
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
* * * * *
898090 ---GTGCCAATGTGCTGATTCAAAGCCAGTGACATTGGTCTTAAAGA--A-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
* *
898135 AAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGGC-T-----T---
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
* * * * *
898177 -A--TGCCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTT-AA-A-GAC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
* * *
898222 AAGGTGCTAATATGCTAATTCAAGGCCAGCGATATTGGGC-T-----T---
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
* * * *
898264 -A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
* *
898309 AAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGGC-T-----T---
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
* * * *
898351 -A--TGCCAATTTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
* *
898396 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGC-T-----T---
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
* * * * *
898438 -A--TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
898483 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
898528 AGAAGACGTC
Statistics
Matches: 780, Mismatches: 137, Indels: 151
0.73 0.13 0.14
Matches are distributed among these distances:
39 155 0.20
40 5 0.01
41 4 0.01
46 5 0.01
47 4 0.01
48 161 0.21
49 171 0.22
51 1 0.00
52 196 0.25
53 35 0.04
54 8 0.01
55 33 0.04
56 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (51 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
Found at i:897770 original size:101 final size:95
Alignment explanation
Indices: 897595--898526 Score: 920
Period size: 87 Copynumber: 10.0 Consensus size: 95
897585 ATGAGAAGAA
** ** ** *
897595 TGCCAATGTATTGATTCAAGGCCAATGACATTGGGGT-TTAAAGATGACAAAGGCACCAATGTGC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATT--GGTCTTAAAGATGAC-AAGGTGCCAATATGC
897659 TGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
63 TGATTCAAGGCCAGCGATATTGGACTT--A-AT-AA-G
* * * *
897697 TGCCAATGTGCTGATTCAAGGCCAGTGACATTAGACTTAAAGATGACGAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAC-AAGGTGCCAATATGCTG
**
897762 ATTCAAGGCCAGCGATACCGGACTTAAAGATGAAG
65 ATTCAAGGCCAGCGATATTGGACTT--A-AT-AAG
* * *
897797 ATGTCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCT
1 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAC-AAGGTGCCAATATGCT
897862 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
64 GATTCAAGGCCAGCGATATTGGACTT--A-AT-AA-G
* * * * ** *
897899 TGCCAATATGCTGATTCGAGGCCAGCGACATTGGACTCAAAGATGACAAAGCCGTCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAC-AAGGTGCCAATATGCTG
* * **
897964 ATTCAAGGCTAGTGATACCGGACTTAAAGATGAAG
65 ATTCAAGGCCAGCGATATTGGACTT--A-AT-AAG
* * *
897999 ATGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCT
1 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAC-AAGGTGCCAATATGCT
* *
898064 GATTCAAGGCCAGCGATACTGGGC-T--T--G
64 GATTCAAGGCCAGCGATATTGGACTTAATAAG
* *
898091 TGCCAATGTGCTGATTCAAAGCCAGTGACATTGGTCTTAAAGA--A-AAGGTGCCAATATGCTGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAGGTGCCAATATGCTGA
* *
898153 TTCAAGGCCAGTGATATTGGGC-T--T-A-
66 TTCAAGGCCAGCGATATTGGACTTAATAAG
* * *
898178 TGCCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTT-AA-A-GACAAGGTGCTAATATGCTAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAGGTGCCAATATGCTGA
*
898240 TTCAAGGCCAGCGATATTGGGC-T--T-A-
66 TTCAAGGCCAGCGATATTGGACTTAATAAG
*
898265 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAAGGTGCCAATATGTTGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAGGTGCCAATATGCTGA
*
898327 TTCAAGGCCAGCGATATTGGGC-T--T-A-
66 TTCAAGGCCAGCGATATTGGACTTAATAAG
*
898352 TGCCAATTTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAAGGTGCCAATATGCTGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAGGTGCCAATATGCTGA
* *
898414 TTCAAGGCCAACGATATTGGGC-T--T-A-
66 TTCAAGGCCAGCGATATTGGACTTAATAAG
*
898439 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAAGGTGCCAATATGCTGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAGGTGCCAATATGCTGA
898501 TTCAAGGCCAGCGATATTGGACTTAA
66 TTCAAGGCCAGCGATATTGGACTTAA
898527 AAGAAGACGT
Statistics
Matches: 757, Mismatches: 63, Indels: 32
0.89 0.07 0.04
Matches are distributed among these distances:
85 1 0.00
86 3 0.00
87 361 0.48
88 1 0.00
89 1 0.00
91 39 0.05
92 1 0.00
95 1 0.00
100 4 0.01
101 315 0.42
102 30 0.04
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (95 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAGGTGCCAATATGCTGA
TTCAAGGCCAGCGATATTGGACTTAATAAG
Found at i:898472 original size:39 final size:39
Alignment explanation
Indices: 898400--898477 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
898390 AAAGACAAGG
* *
898400 TGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTA
1 TGCCAATATGCTAATTCAAGGCCAACGACATTGGGCTTA
* * *
898439 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTA
1 TGCCAATATGCTAATTCAAGGCCAACGACATTGGGCTTA
898478 AAGACAAGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (39 bp):
TGCCAATATGCTAATTCAAGGCCAACGACATTGGGCTTA
Found at i:898640 original size:33 final size:33
Alignment explanation
Indices: 898593--899098 Score: 427
Period size: 33 Copynumber: 15.8 Consensus size: 33
898583 TTTTGAAGGT
* * * *
898593 TGCCACTGACTTGTGGGCTTAAAAGGAGAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * *
898626 TGCCACAGAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* *
898659 TGCCATGGAGTTGTGGACTTTAAAAAGAAAAAGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGA
* *
898693 TACCACGGAGTTGTGGGCTTAAAAGGAAAACA-A
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAA-AGA
* * * * *
898726 GTGCCATGGAGTTGTGGGCTTAAAATG-CAAAGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* *
898759 TGCCACGGAGTTGTGGACTTTAAAAAGAAAAAAAAA
1 TGCCACGGAGTTGTGGAC-TT-AAAAG-GAAAAAGA
898795 GTGCCACGGAGTTGTGGGA-TTAAAAGGAAAAAGA
1 -TGCCACGGAGTTGT-GGACTTAAAAGGAAAAAGA
* *
898829 TGCCACAGAGGTGTGGACTTAAAAGG-----G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
*
898856 TGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAG-A
* *
898890 TGCCACGGAGTTGTGGACTTAAAAGGAATAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
*
898923 TGCCACGAAGTTGTGGACTTAAAA-G-----GA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* *
898950 TGCCACGGAGTTGTGGGCTTTAAAA-G-----GC
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGA
*
898978 TGCCACGGAGTTGTGGTCTTTAAAA-G----A-A
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGA
*
899006 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * *
899039 TGCCACGGAGTTTTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* *
899072 TACCACAGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
899099 TGCCATAGAG
Statistics
Matches: 395, Mismatches: 52, Indels: 52
0.79 0.10 0.10
Matches are distributed among these distances:
27 46 0.12
28 52 0.13
32 23 0.06
33 156 0.39
34 91 0.23
35 5 0.01
36 5 0.01
37 14 0.04
38 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
Found at i:898810 original size:69 final size:68
Alignment explanation
Indices: 898603--899095 Score: 302
Period size: 67 Copynumber: 7.7 Consensus size: 68
898593 TGCCACTGAC
* * * * * *
898603 TTGTGGGCTTAAAAGGAGAAAGATGCCACAGAGTTGTGGACTT-AAAAG-GAACAAGGTGCCATG
1 TTGTGGGCTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGAAAAAAAAGTGCCATG
898666 GAG
66 GAG
* * * * *
898669 TTGTGGACTTTAAAAAGAAAAAGATACCACGGAGTTGTGGGCTT-AAAAGGAAAACAAGTGCCAT
1 TTGTGGGC-TTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGAAAAAAAAGTGCCAT
898733 GGAG
65 GGAG
* * *
898737 TTGTGGGCTTAAAATG-CAAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAAAAAGTGCCA
1 TTGTGGGCTTAAAAAGAAAAAGATGCCACGGAGTTGTGGAC-TTAAAAAG-AAAAAAAAGTGCCA
*
898801 CGGAG
64 TGGAG
* * * * * *
898806 TTGTGGGATTAAAAGGAAAAAGATGCCACAGAGGTGTGGACTT-AAAAG-------GGTGCCACG
1 TTGTGGGCTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGAAAAAAAAGTGCCATG
898863 GAG
66 GAG
* * * *
898866 TTGTGGACTT-AAAAGAAAAAAGAATGCCACGGAGTTGTGGACTT-AAAAG-GAATAAGGTGCCA
1 TTGTGGGCTTAAAAAG-AAAAAG-ATGCCACGGAGTTGTGGACTTAAAAAGAAAAAAAAGTGCCA
* *
898928 CGAAG
64 TGGAG
* * * *
898933 TTGTGGACTT-AAAAG-----GATGCCACGGAGTTGTGGGCTTTAAAAG--------GCTGCCAC
1 TTGTGGGCTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGAAAAAAAAG-TGCCAT
898984 GGAG
65 GGAG
* * * *
898988 TTGTGGTCTTTAAAAG----A-ATGCCACGGAGTTGTGGACTT-AAAAGGAAAAAAA-TGCCACG
1 TTGTGGGCTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGAAAAAAAAGTGCCATG
899046 GAG
66 GAG
* * * * * * *
899049 TTTTGGACTTAAAAGGAACAAGGTACCACAGAGTTGTGGACTTAAAA
1 TTGTGGGCTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAA
899096 GGATGCCATA
Statistics
Matches: 352, Mismatches: 43, Indels: 63
0.77 0.09 0.14
Matches are distributed among these distances:
54 1 0.00
55 23 0.07
56 25 0.07
59 4 0.01
60 45 0.13
61 52 0.15
65 1 0.00
66 45 0.13
67 73 0.21
68 31 0.09
69 32 0.09
70 20 0.06
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (68 bp):
TTGTGGGCTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGAAAAAAAAGTGCCATG
GAG
Found at i:898860 original size:27 final size:27
Alignment explanation
Indices: 898822--899201 Score: 267
Period size: 28 Copynumber: 13.0 Consensus size: 27
898812 GATTAAAAGG
* * *
898822 AAAAAGATGCCACAGAGGTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
*
898849 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
898876 AAAAGAAAAAAGAATGCCACGGAGTTGTGGACTT
1 AAAAG------G-ATGCCACGGAGTTGTGGACTT
*
898910 AAAAGGAATAAGGTGCCACGAAGTTGTGGACTT
1 AAAAGG----A--TGCCACGGAGTTGTGGACTT
*
898943 AAAAGGATGCCACGGAGTTGTGGGCTTT
1 AAAAGGATGCCACGGAGTTGTGGAC-TT
* *
898971 AAAAGGCTGCCACGGAGTTGTGGTCTTT
1 AAAAGGATGCCACGGAGTTGTGGAC-TT
*
898999 AAAAGAATGCCACGGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
*
899026 AAAAGGAAAAAAATGCCACGGAGTTTTGGACTT
1 AAAAGG------ATGCCACGGAGTTGTGGACTT
* *
899059 AAAAGGAACAAGGTACCACAGAGTTGTGGACTT
1 AAAAGG----A--TGCCACGGAGTTGTGGACTT
** *
899092 AAAAGGATGCCATAGAGTTTTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGAC-TT
* ** * *
899120 AAAAGGGTGCCACAAAGTTCTGGGCTTT
1 AAAAGGATGCCACGGAGTTGTGGAC-TT
*
899148 AAAA-GAGTGCCATGGAGTTGTGGACTT
1 AAAAGGA-TGCCACGGAGTTGTGGACTT
* * *
899175 AAATGGTTGCCACAGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
899202 TGAAAAGAAA
Statistics
Matches: 292, Mismatches: 37, Indels: 48
0.77 0.10 0.13
Matches are distributed among these distances:
27 90 0.31
28 94 0.32
29 2 0.01
31 6 0.02
33 75 0.26
34 25 0.09
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (27 bp):
AAAAGGATGCCACGGAGTTGTGGACTT
Found at i:898863 original size:60 final size:61
Alignment explanation
Indices: 898795--899124 Score: 206
Period size: 60 Copynumber: 5.4 Consensus size: 61
898785 GAAAAAAAAA
*
898795 GTGCCACGGAGTTGTGGGA-TTAAAAGGAAAAAG-ATGCCACAGAGGTGTGGACTTAAAAGG
1 GTGCCACGGAGTTGT-GGACTTAAAAGAAAAAAGAATGCCACAGAGGTGTGGACTTAAAAGG
* *
898855 GTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAATGCCACGGAGTTGTGGACTTAAAAGGAATA
1 GTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAATGCCACAGAGGTGTGGACTTAAAA-G----
898920 AG
61 -G
* * * *
898922 GTGCCACGAAGTTGTGGACTTAAAAG------G-ATGCCACGGAGTTGTGGGCTTTAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAATGCCACAGAGGTGTGGAC-TTAAAAGG
* * * * *
898977 CTGCCACGGAGTTGTGGTCTT------TAAAAGAATGCCACGGAGTTGTGGACTTAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAATGCCACAGAGGTGTGGACTTAAAAGG
* * * * * * *
899032 AAAAAAATGCCACGGAGTTTTGGACTTAAAAGGAACAAG-GTACCACAGAGTTGTGGACTTAAAA
1 ------GTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAATGCCACAGAGGTGTGGACTTAAAA
899096 GG
60 GG
* ** *
899098 ATGCCATAGAGTTTTGGACTTTAAAAG
1 GTGCCACGGAGTTGTGGAC-TTAAAAG
899125 GGTGCCACAA
Statistics
Matches: 223, Mismatches: 19, Indels: 55
0.75 0.06 0.19
Matches are distributed among these distances:
55 28 0.13
56 18 0.08
59 3 0.01
60 64 0.29
61 55 0.25
62 1 0.00
66 24 0.11
67 30 0.13
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.22
Consensus pattern (61 bp):
GTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAATGCCACAGAGGTGTGGACTTAAAAGG
Found at i:898917 original size:94 final size:97
Alignment explanation
Indices: 898593--898975 Score: 426
Period size: 94 Copynumber: 3.9 Consensus size: 97
898583 TTTTGAAGGT
* * * *
898593 TGCCACTGACTTGTGGGCTTAAAAGGAGAAAGATGCCACAGAGTTGTGGACTTAAAAGGAACAAG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGG----AG
*
898658 GTGCCATGGAGTTGTGGACTTTAAAA-AGAAAAAG-A
62 GTGCCACGGAGTTGTGGACTTTAAAAGA-AAAAAGAA
* * ** * *
898693 TACCACGGAGTTGTGGGCTTAAAAGGAAAACA-AGTGCCATGGAGTTGTGGGCTTAAAATGCAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAA-AGA-TGCCACAGAGTTGTGGACTTAAAA-G--GA
*
898757 GGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAAAAA
61 GGTGCCACGGAGTTGTGGACTTT-AAAAGAAAAAAGAA
*
898795 GTGCCACGGAGTTGTGGGA-TTAAAAGGAAAAAGATGCCACAGAGGTGTGGACTTAAAA-G-GGT
1 -TGCCACGGAGTTGT-GGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAGGT
898857 GCCACGGAGTTGTGGAC-TTAAAAGAAAAAAGAA
64 GCCACGGAGTTGTGGACTTTAAAAGAAAAAAGAA
* *
898890 TGCCACGGAGTTGTGGACTTAAAAGGAATAAGGTGCCAC-GAAGTTGTGGACTTAAAAGGA--TG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAG-AGTTGTGGACTTAAAAGGAGGTG
*
898952 CCACGGAGTTGTGGGCTTTAAAAG
65 CCACGGAGTTGTGGACTTTAAAAG
898976 GCTGCCACGG
Statistics
Matches: 245, Mismatches: 22, Indels: 37
0.81 0.07 0.12
Matches are distributed among these distances:
93 4 0.02
94 65 0.27
95 21 0.09
96 2 0.01
97 20 0.08
100 50 0.20
101 31 0.13
102 24 0.10
103 26 0.11
104 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.21
Consensus pattern (97 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAGGTGC
CACGGAGTTGTGGACTTTAAAAGAAAAAAGAA
Found at i:899028 original size:55 final size:54
Alignment explanation
Indices: 898883--899208 Score: 190
Period size: 55 Copynumber: 5.6 Consensus size: 54
898873 CTTAAAAGAA
*
898883 AAAAGAATGCCACGGAGTTGTGGACTTAAAAGGAATAAGGTGCCACGAAGTTGTGGACTT
1 AAAAGAATGCCACGGAGTTGTGGACTT-----TAA-AAGGTGCCACGAAGTTGTGGACTT
* * * *
898943 AAAAGGATGCCACGGAGTTGTGGGCTTTAAAAGGCTGCCACGGAGTTGTGGTCTTT
1 AAAAGAATGCCACGGAGTTGTGGACTTTAAAAGG-TGCCACGAAGTTGTGGAC-TT
* *
898999 AAAAGAATGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAAATGCCACGGAGTTTTGGACTT
1 AAAAGAATGCCACGGAGTTGTGGACTTTAAAAGG-------TGCCACGAAGTTGTGGACTT
* * * *
899059 AAAAGGAACAAGGTACCACAGAGTTGTGGAC-TTAAAAGGATGCCA-TAGAGTTTTGGACTTT
1 AAAA-G---AA--TGCCACGGAGTTGTGGACTTTAAAAGG-TGCCACGA-AGTTGTGGAC-TT
** ** * * * *
899120 AAAAGGGTGCCACAAAGTTCTGGGCTTTAAAAGAGTGCCATGGAGTTGTGGACTT
1 AAAAGAATGCCACGGAGTTGTGGACTTTAAAAG-GTGCCACGAAGTTGTGGACTT
* ** *
899175 AAATGGTTGCCACAGAGTTGTGGACTTTGAAAAG
1 AAAAGAATGCCACGGAGTTGTGGACTTT-AAAAG
899209 AAAAAGGTGC
Statistics
Matches: 218, Mismatches: 28, Indels: 44
0.75 0.10 0.15
Matches are distributed among these distances:
54 4 0.02
55 65 0.30
56 51 0.23
57 1 0.00
60 48 0.22
61 23 0.11
64 2 0.01
66 24 0.11
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (54 bp):
AAAAGAATGCCACGGAGTTGTGGACTTTAAAAGGTGCCACGAAGTTGTGGACTT
Found at i:899072 original size:149 final size:150
Alignment explanation
Indices: 898829--899177 Score: 506
Period size: 149 Copynumber: 2.3 Consensus size: 150
898819 AGGAAAAAGA
* *
898829 TGCCACAGAGGTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAATGC
1 TGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAATGC
* * *
898893 CACGGAGTTGTGGACTTAAAAGGAATAAGGTGCCAC-GAAGTTGTGGACTTAAAAGGATGCCACG
66 CACGGAGTTGTGGACTTAAAAGGAACAAGGTACCACAG-AGTTGTGGACTTAAAAGGATGCCACA
*
898957 GAGTTGTGGGCTTTAAAAGGC
130 GAGTTGTGGACTTTAAAAGGC
* * * *
898978 TGCCACGGAGTTGTGGTCTTTAAAAGAATGCCACGGAGTTGTGGACTTAAAAGGAAAAA-AATGC
1 TGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAATGC
* *
899042 CACGGAGTTTTGGACTTAAAAGGAACAAGGTACCACAGAGTTGTGGACTTAAAAGGATGCCATAG
66 CACGGAGTTGTGGACTTAAAAGGAACAAGGTACCACAGAGTTGTGGACTTAAAAGGATGCCACAG
* *
899107 AGTTTTGGACTTTAAAAGGG
131 AGTTGTGGACTTTAAAAGGC
* * * *
899127 TGCCACAAAGTTCTGGGCTTTAAAAGAGTGCCATGGAGTTGTGGACTTAAA
1 TGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAA
899178 TGGTTGCCAC
Statistics
Matches: 178, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
149 140 0.79
150 38 0.21
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (150 bp):
TGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAATGC
CACGGAGTTGTGGACTTAAAAGGAACAAGGTACCACAGAGTTGTGGACTTAAAAGGATGCCACAG
AGTTGTGGACTTTAAAAGGC
Found at i:899302 original size:31 final size:31
Alignment explanation
Indices: 898823--899429 Score: 235
Period size: 28 Copynumber: 20.1 Consensus size: 31
898813 ATTAAAAGGA
* *
898823 AAAAGATGCCACAGAGGTGTGGAC-TT--A-
1 AAAAGATGCCACTGAGTTGTGGACTTTGAAG
* * * **
898850 AAAGGGTGCCACGGAGTTGTGGACTTAAAAG
1 AAAAGATGCCACTGAGTTGTGGACTTTGAAG
* **
898881 AAAAAAGAATGCCACGGAGTTGTGGACTTAAAAGG
1 --AAAAG-ATGCCACTGAGTTGTGGACTTTGAA-G
*
898916 AATAAGGTGCCAC-GAAGTTGTGGAC-TT--A-
1 AA-AAGATGCCACTG-AGTTGTGGACTTTGAAG
* * *
898944 AAAGGATGCCACGGAGTTGTGGGCTTT--A-
1 AAAAGATGCCACTGAGTTGTGGACTTTGAAG
* * * *
898972 AAAGGCTGCCACGGAGTTGTGGTCTTT-AA-
1 AAAAGATGCCACTGAGTTGTGGACTTTGAAG
* * **
899001 AAGA-ATGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAGATGCCACTGAGTTGTGGACTTTGAA-G
* * * **
899032 AAAAAAATGCCACGGAGTTTTGGACTTAAAAGG
1 -AAAAGATGCCACTGAGTTGTGGACTTTGAA-G
* * *
899065 AACAAGGTACCACAGAGTTGTGGAC-TT--A-
1 AA-AAGATGCCACTGAGTTGTGGACTTTGAAG
* *
899093 AAAGGATGCCA-TAGAGTTTTGGACTTT--A-
1 AAAAGATGCCACT-GAGTTGTGGACTTTGAAG
* * ** * *
899121 AAAGGGTGCCACAAAGTTCTGGGCTTT-AA-
1 AAAAGATGCCACTGAGTTGTGGACTTTGAAG
*
899150 AAGAG-TGCCA-TGGAGTTGTGGAC-TT--A-
1 AAAAGATGCCACT-GAGTTGTGGACTTTGAAG
** * *
899176 AATGGTTGCCACAGAGTTGTGGACTTTGAAAAG
1 AAAAGATGCCACTGAGTTGTGGACTTTG--AAG
* * * *
899209 AAAAAGGTGCCACGGAGTGGTGGGCTTTGAACAG
1 -AAAAGATGCCACTGAGTTGTGGACTTTG-A-AG
* *
899243 AAAA-ATGTGCCACAGAGTTGTGGGCTTTGAAG
1 AAAAGA--TGCCACTGAGTTGTGGACTTTGAAG
* *
899275 AAAAGATGCCACTAAGTCGTGGACTTTGAA-
1 AAAAGATGCCACTGAGTTGTGGACTTTGAAG
* *
899305 AAGAGATTGCCACTGAGTTGTGGACTTTGGAG
1 AAAAGA-TGCCACTGAGTTGTGGACTTTGAAG
* *
899337 AAAAAATGCCACTGAGTTGTGGACTTTG-GG
1 AAAAGATGCCACTGAGTTGTGGACTTTGAAG
*
899367 ACAAA-ATGCCACTGAGTTGTGGGCTTTG-AG
1 A-AAAGATGCCACTGAGTTGTGGACTTTGAAG
* *
899397 AAGAGATTGCCACTGAGTCGTGGACTTT-AAG
1 AAAAGA-TGCCACTGAGTTGTGGACTTTGAAG
899428 AA
1 AA
899430 GGTATTTAAA
Statistics
Matches: 466, Mismatches: 71, Indels: 82
0.75 0.11 0.13
Matches are distributed among these distances:
26 4 0.01
27 71 0.15
28 92 0.20
29 11 0.02
30 35 0.08
31 89 0.19
32 19 0.04
33 73 0.16
34 71 0.15
35 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTTGTGGACTTTGAAG
Found at i:899402 original size:92 final size:94
Alignment explanation
Indices: 899241--899424 Score: 257
Period size: 92 Copynumber: 2.0 Consensus size: 94
899231 GGCTTTGAAC
* *
899241 AGAAAAATGTGCCACAGAGTTGTGGGCTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTTGAAA
1 AGAAAAATATGCCACAGAGTTGTGGACTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTTGAAA
*
899306 AGAGATTGCCACTGAGTTGTGGACTTTGG
66 AGAGATTGCCACTGAGTCGTGGACTTTGG
* * * * * *
899335 AGAAAAA-ATGCCACTGAGTTGTGGACTTTG-GGACAAA-ATGCCACTGAGTTGTGGGCTTTGAG
1 AGAAAAATATGCCACAGAGTTGTGGACTTTGAAGA-AAAGATGCCACTAAGTCGTGGACTTTGAA
899397 AAGAGATTGCCACTGAGTCGTGGACTTT
65 AAGAGATTGCCACTGAGTCGTGGACTTT
899425 AAGAAGGTAT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
92 50 0.62
93 23 0.29
94 7 0.09
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (94 bp):
AGAAAAATATGCCACAGAGTTGTGGACTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTTGAAA
AGAGATTGCCACTGAGTCGTGGACTTTGG
Found at i:899430 original size:31 final size:32
Alignment explanation
Indices: 899182--899430 Score: 196
Period size: 31 Copynumber: 7.9 Consensus size: 32
899172 CTTAAATGGT
* *
899182 TGCCACAGAGTTGTGGACTTTGAA-AAGAAAAA
1 TGCCACTGAGTTGTGGACTTTGAAGAAG-AGAA
* * *
899214 GGTGCCACGGAGTGGTGGGCTTTGAACAGAA-A-AA
1 --TGCCACTGAGTTGTGGACTTTG-A-AGAAGAGAA
* * *
899248 TGTGCCACAGAGTTGTGGGCTTTGAAGAAAAG-A
1 --TGCCACTGAGTTGTGGACTTTGAAGAAGAGAA
* * *
899281 TGCCACTAAGTCGTGGACTTTGAA-AAGAGAT
1 TGCCACTGAGTTGTGGACTTTGAAGAAGAGAA
* *
899312 TGCCACTGAGTTGTGGACTTTGGAGAA-AAAA
1 TGCCACTGAGTTGTGGACTTTGAAGAAGAGAA
*
899343 TGCCACTGAGTTGTGGACTTTG-GGACA-A-AA
1 TGCCACTGAGTTGTGGACTTTGAAGA-AGAGAA
* *
899373 TGCCACTGAGTTGTGGGCTTTG-AGAAGAGAT
1 TGCCACTGAGTTGTGGACTTTGAAGAAGAGAA
*
899404 TGCCACTGAGTCGTGGACTTT-AAGAAG
1 TGCCACTGAGTTGTGGACTTTGAAGAAG
899431 GTATTTAAAG
Statistics
Matches: 181, Mismatches: 23, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
29 1 0.01
30 32 0.18
31 92 0.51
32 6 0.03
33 3 0.02
34 42 0.23
35 2 0.01
36 1 0.01
37 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.24
Consensus pattern (32 bp):
TGCCACTGAGTTGTGGACTTTGAAGAAGAGAA
Found at i:900732 original size:11 final size:10
Alignment explanation
Indices: 900716--900837 Score: 55
Period size: 9 Copynumber: 12.3 Consensus size: 10
900706 CCTTTGCACT
900716 TTTTTTCTGTG
1 TTTTTT-TGTG
*
900727 TTTTTTTGTT
1 TTTTTTTGTG
900737 TTGTTTTTGTG
1 TT-TTTTTGTG
**
900748 TTTACTTTTGAC
1 TTT--TTTTGTG
* **
900760 TTTTTCAT-CA
1 TTTTT-TTGTG
900770 TTTTTTT-TG
1 TTTTTTTGTG
900779 -TTTTTTGT-
1 TTTTTTTGTG
900787 TTTTTTT-TG
1 TTTTTTTGTG
900796 TTTTTGTT-T-
1 TTTTT-TTGTG
900805 TTTTTTTGTG
1 TTTTTTTGTG
900815 TTGTTTGTT-T-
1 TT-TTT-TTGTG
900825 TTTTTTTGTG
1 TTTTTTTGTG
900835 TTT
1 TTT
900838 GTACTTTTGA
Statistics
Matches: 87, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
8 11 0.13
9 23 0.26
10 23 0.26
11 20 0.23
12 10 0.11
ACGTcount: A:0.03, C:0.04, G:0.14, T:0.79
Consensus pattern (10 bp):
TTTTTTTGTG
Found at i:900774 original size:1 final size:1
Alignment explanation
Indices: 900770--900831 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
900760 TTTTTCATCA
* * * * * * * *
900770 TTTTTTTTGTTTTTTGTTTTTTTTTGTTTTTGTTTTTTTTTTGTGTTGTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
900832 GTGTTTGTAC
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (1 bp):
T
Found at i:900790 original size:17 final size:17
Alignment explanation
Indices: 900770--900830 Score: 88
Period size: 17 Copynumber: 3.5 Consensus size: 17
900760 TTTTTCATCA
900770 TTTTTTTTGTTTTTTGT
1 TTTTTTTTGTTTTTTGT
900787 TTTTTTTTG-TTTTTGTT
1 TTTTTTTTGTTTTTTG-T
900804 TTTTTTTTGTGTTGTTTGT
1 TTTTTTTTGT-TT-TTTGT
900823 TTTTTTTT
1 TTTTTTTT
900831 TGTGTTTGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.15
17 19 0.47
19 11 0.28
20 4 0.10
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (17 bp):
TTTTTTTTGTTTTTTGT
Found at i:900832 original size:20 final size:19
Alignment explanation
Indices: 900770--900837 Score: 99
Period size: 20 Copynumber: 3.7 Consensus size: 19
900760 TTTTTCATCA
900770 TTTTTTTTGT-TTTTTG--
1 TTTTTTTTGTGTTTTTGTT
900786 TTTTTTTT-TGTTTTTGTT
1 TTTTTTTTGTGTTTTTGTT
900804 TTTTTTTTGTGTTGTTTGTT
1 TTTTTTTTGTGTT-TTTGTT
900824 TTTTTTTTGTGTTT
1 TTTTTTTTGTGTTT
900838 GTACTTTTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.02
16 14 0.30
18 8 0.17
19 5 0.11
20 19 0.40
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (19 bp):
TTTTTTTTGTGTTTTTGTT
Found at i:900845 original size:20 final size:18
Alignment explanation
Indices: 900770--900839 Score: 83
Period size: 17 Copynumber: 3.9 Consensus size: 18
900760 TTTTTCATCA
900770 TTTTTTTTGT-TTT-TTGT
1 TTTTTTTTGTGTTTGTT-T
*
900787 TTTTTTTTGTTTTTGTTT
1 TTTTTTTTGTGTTTGTTT
900805 TTTTTTTGTGTTGTTTG-TT
1 TTTTTTT-TG-TGTTTGTTT
900824 TTTTTTTTGTGTTTGT
1 TTTTTTTTGTGTTTGT
900840 ACTTTTGAGG
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
17 16 0.34
18 13 0.28
19 13 0.28
20 5 0.11
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (18 bp):
TTTTTTTTGTGTTTGTTT
Found at i:905662 original size:20 final size:20
Alignment explanation
Indices: 905637--905765 Score: 105
Period size: 20 Copynumber: 6.8 Consensus size: 20
905627 CTGCCAAGGA
905637 AATGTATCGATACATTATT-C
1 AATGTATCGATACATT-TTGC
905657 AATGTATCGATACA---T--
1 AATGTATCGATACATTTTGC
* *
905672 --TGTATTGATATATTTTGC
1 AATGTATCGATACATTTTGC
* *
905690 ATTGTATCGATACATTGCT-C
1 AATGTATCGATACATT-TTGC
* *
905710 ACTATATCGATACATTTTGC
1 AATGTATCGATACATTTTGC
* *
905730 ATTGTATCGATACATTTTAC
1 AATGTATCGATACATTTTGC
905750 AATGTATCGATACATT
1 AATGTATCGATACATT
905766 CAGGCATTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
13 10 0.11
16 2 0.02
19 1 0.01
20 74 0.84
21 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTTTGC
Found at i:905696 original size:33 final size:36
Alignment explanation
Indices: 905641--905745 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 36
905631 CAAGGAAATG
*
905641 TATCGATACATTATT-CAATGTATCGATACATTG-TA
1 TATCGATACATT-TTGCATTGTATCGATACATTGCTA
*
905676 T-T-GATATATTTTGCATTGTATCGATACATTGCTCACTA
1 TATCGATACATTTTGCATTGTATCGATACATTG----CTA
905714 TATCGATACATTTTGCATTGTATCGATACATT
1 TATCGATACATTTTGCATTGTATCGATACATT
905746 TTACAATGTA
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
32 2 0.03
33 24 0.41
34 1 0.02
35 1 0.02
38 3 0.05
39 1 0.02
40 27 0.46
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (36 bp):
TATCGATACATTTTGCATTGTATCGATACATTGCTA
Found at i:905758 original size:40 final size:41
Alignment explanation
Indices: 905667--905765 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 41
905657 AATGTATCGA
* * *
905667 TACATTGTATTGATATATTTTGCATTGTATCGATACATTGC
1 TACAATGTATCGATACATTTTGCATTGTATCGATACATTGC
* * *
905708 T-CACTATATCGATACATTTTGCATTGTATCGATACATT-T
1 TACAATGTATCGATACATTTTGCATTGTATCGATACATTGC
905747 TACAATGTATCGATACATT
1 TACAATGTATCGATACATT
905766 CAGGCATTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.02
40 48 0.96
41 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (41 bp):
TACAATGTATCGATACATTTTGCATTGTATCGATACATTGC
Found at i:908111 original size:51 final size:51
Alignment explanation
Indices: 908045--908279 Score: 235
Period size: 51 Copynumber: 4.6 Consensus size: 51
908035 TTAAGTTTCT
* * * *
908045 CAATTTTTCATAATCGGGGGTACTCCAACCCTGGTTTTA-TTTCTAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCTGATTTTATTTTC-AAAACAC
* * *
908096 TAATTTTCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCGAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAAC-CCTGATTTTATTTTCAAAACAC
* * *
908147 CAATTTTCCACAACCGGGGATACTCCAACCC-CAGTGTTATTTTCAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCTGA-TTTTATTTTCAAAACAC
* * * * * *
908198 CAATTTTCTATAATCGGGGGTACTCCAA-CTTCGATTTTATTTCCAAAAACAT
1 CAATTTTCCACAATCGGGGATACTCCAACCCT-GATTTTATTTTC-AAAACAC
* *
908250 CAATTTTTCACAATCGGGGATGCTCCAACC
1 CAATTTTCCACAATCGGGGATACTCCAACC
908280 TCATTAATCA
Statistics
Matches: 150, Mismatches: 27, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
50 4 0.03
51 109 0.73
52 36 0.24
53 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
CAATTTTCCACAATCGGGGATACTCCAACCCTGATTTTATTTTCAAAACAC
Found at i:908222 original size:102 final size:103
Alignment explanation
Indices: 908045--908279 Score: 294
Period size: 102 Copynumber: 2.3 Consensus size: 103
908035 TTAAGTTTCT
* * ** * *
908045 CAATTTTTCATAATCGGGGGTACTCCAACCCTGGTTTTATTTCTAAAACACTAATTTTCCACAAT
1 CAATTTTTCACAATCGGGGATACTCCAACCCCAGTGTTATTTCTAAAACACCAATTTTCCACAAT
* *
908110 CGAGGATACTCCAACTCCGATTTTATTTTC-GAAACAC
66 CGAGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
* * * *
908147 CAATTTTCCACAACCGGGGATACTCCAACCCCAGTGTTATTT-TCAAAACACCAATTTTCTATAA
1 CAATTTTTCACAATCGGGGATACTCCAACCCCAGTGTTATTTCT-AAAACACCAATTTTCCACAA
* * * *
908211 TCGGGGGTACTCCAACTTCGATTTTATTTCCAAAAACAT
65 TCGAGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
*
908250 CAATTTTTCACAATCGGGGATGCTCCAACC
1 CAATTTTTCACAATCGGGGATACTCCAACC
908280 TCATTAATCA
Statistics
Matches: 112, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
101 1 0.01
102 79 0.71
103 32 0.29
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (103 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCAGTGTTATTTCTAAAACACCAATTTTCCACAAT
CGAGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
Found at i:908422 original size:79 final size:79
Alignment explanation
Indices: 908289--908494 Score: 326
Period size: 79 Copynumber: 2.6 Consensus size: 79
908279 CTCATTAATC
**
908289 ATCGGGGATACTCCAA-CCCATTATTTCCGAGGGGATACTCCAACCCTAGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
908353 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* * *
908367 ATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCTAACCCCGGTTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
908432 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* *
908446 ATCGGGGATACTCCAACCCCGTTATTTTCGTA-GGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCATTATTTCCG-AGGGGATACTCCAACCCCG
908495 TTATTTTTGA
Statistics
Matches: 118, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
78 16 0.14
79 101 0.86
80 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
ATTGATTTCTCACA
Found at i:908490 original size:28 final size:27
Alignment explanation
Indices: 908450--908520 Score: 115
Period size: 28 Copynumber: 2.6 Consensus size: 27
908440 CTCACAATCG
908450 GGGATACTCCAACCCCGTTATTTTCGTA
1 GGGATACTCCAACCCCGTTATTTTCG-A
*
908478 GGGATACTCCAACCCCGTTATTTTTGA
1 GGGATACTCCAACCCCGTTATTTTCGA
908505 GGCGATACTCCAACCC
1 GG-GATACTCCAACCC
908521 TGATTTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 3 0.07
28 38 0.93
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (27 bp):
GGGATACTCCAACCCCGTTATTTTCGA
Found at i:908561 original size:107 final size:107
Alignment explanation
Indices: 908370--908598 Score: 257
Period size: 107 Copynumber: 2.1 Consensus size: 107
908360 TCTCACAATC
* * * * **
908370 GGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCTAACCCCGGTTTTATTTCTAAAATATT
1 GGGGATACTCCAACCCCATTATTTCCGAGGCGATACTCCAACCCCGATTTTATTTCTAAAACACC
* * **
908435 GATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCGTA
66 AATTTCTCACAATCAGGGATACTCCAACCCCGTTA-TTTCCAA
* ** *
908478 -GGGATACTCCAACCCCGTTATTTTTGAGGCGATACTCCAACCCTGATTTTATTT-TCAAAACAC
1 GGGGATACTCCAACCCCATTATTTCCGAGGCGATACTCCAACCCCGATTTTATTTCT-AAAACAC
* * *
908541 CAATTT-TCTATAATTAGGGATACTCCAACCCTGTTATTTCCAA
65 CAATTTCTC-ACAATCAGGGATACTCCAACCCCGTTATTTCCAA
908584 GGGGATACTCCAACC
1 GGGGATACTCCAACC
908599 TCGATTTTAT
Statistics
Matches: 101, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
106 8 0.08
107 93 0.92
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (107 bp):
GGGGATACTCCAACCCCATTATTTCCGAGGCGATACTCCAACCCCGATTTTATTTCTAAAACACC
AATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCAA
Found at i:908633 original size:79 final size:80
Alignment explanation
Indices: 908476--908653 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 80
908466 GTTATTTTCG
*** *
908476 TAGGGATACTCCAACCCCGTTATTTTTGAGGCGATACTCCAACCCTGATTTTATTTTCAAAACAC
1 TAGGGATACTCCAACCCCGTTATTTCCAAGGCGATACTCCAACCCTGATTTTATTTCCAAAACAC
908541 CAATTTTCTATAAT-
66 CAATTTTCTATAATC
* * *
908555 TAGGGATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAA-CCTCGATTTTATTTCCAGAACA
1 TAGGGATACTCCAACCCCGTTATTTCCAAGGCGATACTCCAACCCT-GATTTTATTTCCAAAACA
***
908619 TTGATTTT-TCATAATC
65 CCAATTTTCT-ATAATC
* *
908635 AAGGG-TACTCCAGCCCCGT
1 TAGGGATACTCCAACCCCGT
908654 CGTCATCTCC
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
78 4 0.05
79 75 0.90
80 4 0.05
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (80 bp):
TAGGGATACTCCAACCCCGTTATTTCCAAGGCGATACTCCAACCCTGATTTTATTTCCAAAACAC
CAATTTTCTATAATC
Found at i:921018 original size:9 final size:9
Alignment explanation
Indices: 920965--921019 Score: 67
Period size: 9 Copynumber: 5.9 Consensus size: 9
920955 CATTCTTTTT
920965 CAAAAAAAA
1 CAAAAAAAA
*
920974 CAACAAAAA
1 CAAAAAAAA
920983 CAAGAAAAAA
1 CAA-AAAAAA
920993 -AACAAAAAA
1 CAA-AAAAAA
921002 CAAAAAAAAA
1 C-AAAAAAAA
921012 CAAAAAAA
1 CAAAAAAA
921020 CTAAACAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
9 26 0.65
10 12 0.30
11 2 0.05
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:921018 original size:18 final size:18
Alignment explanation
Indices: 920966--921020 Score: 76
Period size: 18 Copynumber: 2.9 Consensus size: 18
920956 ATTCTTTTTC
920966 AAAAAAAACAACAAAAACA
1 AAAAAAAACAA-AAAAACA
920985 AGAAAAAAA-ACAAAAAACA
1 A-AAAAAAACA-AAAAAACA
921004 AAAAAAAACAAAAAAAC
1 AAAAAAAACAAAAAAAC
921021 TAAACAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
18 14 0.42
19 11 0.33
20 8 0.24
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAAAAAAACA
Found at i:922170 original size:61 final size:59
Alignment explanation
Indices: 922006--922581 Score: 611
Period size: 61 Copynumber: 9.7 Consensus size: 59
921996 TTTCTCCTTT
*
922006 CACTTTTCAGTCCTCAAAGAGCATGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACG-CTTTT-CTTTCAAAGCCCACACAAGTTGGTGG
* * *
922067 CAC-CTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGAC-GCTTTT-CTTTCAAAGCCCACACAAGTTGGTGG
* * * * *
922127 AACTTTTTAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCTTT-TCTTT-CAAAGCCCACACAAGTTGGTGG
* * * *
922188 CAC-CTTCAGTCCTCAAAGGGCAGGACACATTTTCCTTTCAAAGCCTACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGC-TTTT-CTTTCAAAGCCCACACAAGTTGGTGG
* * *
922248 CACCTTTCAATCCTCAAAGAGTAGGACGC----CTTTCAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCTTTTCTTTCAAAGCCCACACAAGTTGGTGG
* *
922303 CACCTTTCAGTCCTCAAAGAGCAGGACGC----CTTTCAAAGCCCACACAAGTTGGTGA
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCTTTTCTTTCAAAGCCCACACAAGTTGGTGG
* *
922358 CA-TTTTCTAGTCCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGG
1 CACTTTTC-AGTCCTCAAAGAGCAGGACGC-TTTTC-TTTCAAAGCCCACACAAGTTGGTGG
* * * *
922419 CATTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACATAAGTTAGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACG-C-TTTTCTTTCAAAGCCCACACAAGTTGGTGG
* * * * *
922480 CA-TTTTCCAGTCCTCAAAGAGTAGGACATCTTCTACTTTTAAAGCCCACACAAGTTAGTGG
1 CACTTTT-CAGTCCTCAAAGAGCAGGAC-GCTT-TTCTTTCAAAGCCCACACAAGTTGGTGG
* *
922541 CAC-TTCCTAGTCCTAAAAGAGCAGGACGCTCTTTCCTTTCA
1 CACTTTTC-AGTCCTCAAAGAGCAGGACGCT-TTT-CTTTCA
922582 TTTTTTTGTC
Statistics
Matches: 443, Mismatches: 49, Indels: 46
0.82 0.09 0.09
Matches are distributed among these distances:
54 4 0.01
55 98 0.22
60 116 0.26
61 214 0.48
62 11 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (59 bp):
CACTTTTCAGTCCTCAAAGAGCAGGACGCTTTTCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:922179 original size:121 final size:120
Alignment explanation
Indices: 922006--922581 Score: 637
Period size: 121 Copynumber: 4.8 Consensus size: 120
921996 TTTCTCCTTT
* *
922006 CACTTTTCAGTCCTCAAAGAGCATGACGCCTTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCAC
1 CACTTTTCAGTCCTCAAAGAGCAGGACG-CTTTCT-CTTTTAAAGCCCACACAAGTTGGTGGCAC
*
922070 CTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
64 CTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG
* * * *
922127 AACTTTTTAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCACC
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCTTTCTCTTT-TAAAGCCCACACAAGTTGGTGGCACC
* * *
922192 TTCAGTCCTCAAAGGGCAGGACACATTTTCCTTTCAAAGCCTACACAAGTTGGTGG
65 TTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG
* * * *
922248 CACCTTTCAATCCTCAAAGAGTAGGACG----C-CTTTCAAAGCCCACACAAGTTGGTGGCACCT
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCTTTCTCTTTTAAAGCCCACACAAGTTGGTGGCACC-
* *
922308 TTCAGTCCTCAAAGAGCAGG--A-C---GCCTTTCAAAGCCCACACAAGTTGGTGA
65 TTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG
* * *
922358 CA-TTTTCTAGTCCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAT
1 CACTTTTC-AGTCCTCAAAGAGCAGGACGCTTTCTCTTTT-AAAGCCCACACAAGTTGGTGGCA-
** * * * * *
922422 TTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACATAAGTTAGTGG
63 CCTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG
* * *
922480 CA-TTTTCCAGTCCTCAAAGAGTAGGAC-ATCTTCTACTTTTAAAGCCCACACAAGTTAGTGGCA
1 CACTTTT-CAGTCCTCAAAGAGCAGGACGCT-TTCT-CTTTTAAAGCCCACACAAGTTGGTGGCA
* *
922543 -CTTCCTAGTCCTAAAAGAGCAGGAC-GCTCTTTCCTTTCA
63 CCTT-C-AGTCCTCAAAGAGCAGGACACCT-TTTCCTTTCA
922582 TTTTTTTGTC
Statistics
Matches: 382, Mismatches: 50, Indels: 45
0.80 0.10 0.09
Matches are distributed among these distances:
109 4 0.01
110 43 0.11
114 1 0.00
115 29 0.08
116 64 0.17
117 1 0.00
119 1 0.00
120 9 0.02
121 127 0.33
122 97 0.25
123 6 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (120 bp):
CACTTTTCAGTCCTCAAAGAGCAGGACGCTTTCTCTTTTAAAGCCCACACAAGTTGGTGGCACCT
TCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:922706 original size:154 final size:154
Alignment explanation
Indices: 922419--922874 Score: 633
Period size: 154 Copynumber: 2.9 Consensus size: 154
922409 AAGTTGGTGG
* * * * * **
922419 CATTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACATAAGTTAGTGGCATT
1 CATTTTTTTGTCCTCAAAGAGCAGGATGCC----T-TTT-AAAGCCCACACAAGCTGGTGGCACC
* * *
922484 TTCCAGTCCTCAAAGAGTAGGACATCTTCTACTTTTAAAGCCCACACAAGTTAGTGGCACTTCCT
60 TT-CAGTCCTCAAAGAGCAGGACACCTTCTACTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
* *
922549 AGTCCTAAAAGAGCAGGACGCTCTTTCCTTT
124 AGTCCTCAAAGAGCAGGACGCTCTCTCCTTT
*
922580 CATTTTTTTGTCCTCAAAGAGCAGGATGCCTTTTAAAGCTCACACAAGCTGGTGGCACCTTCAGT
1 CATTTTTTTGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGT
*
922645 CCTCAAAGAGCAGGACACCTTCTACTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCTTC
66 CCTCAAAGAGCAGGACACCTTCTACTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
*
922710 AAAGAGCAGGGCGCTCTCTCCTTT
131 AAAGAGCAGGACGCTCTCTCCTTT
***
922734 CGCCTTTTTGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGT
1 CATTTTTTTGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGT
* * * * **
922799 CCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTC
66 CCTCAAAGAGCAGGACACCTTCTACTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
922864 AAAGAGCAGGA
131 AAAGAGCAGGA
922875 TGCTTTCTTT
Statistics
Matches: 268, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
154 215 0.80
155 21 0.08
156 3 0.01
157 1 0.00
161 28 0.10
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (154 bp):
CATTTTTTTGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGT
CCTCAAAGAGCAGGACACCTTCTACTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
AAAGAGCAGGACGCTCTCTCCTTT
Found at i:922893 original size:61 final size:60
Alignment explanation
Indices: 922737--922997 Score: 286
Period size: 61 Copynumber: 4.4 Consensus size: 60
922727 CTCCTTTCGC
* *
922737 CTTTTT-GTCCTCAAAGAGCAGGATG-C---C-TTTTAAAGCCCACACAAGCTGGTGGCA
1 CTTTTTAGTCCTCAAAGAGCAGGACGCCTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
922791 C-CTTCAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTTTAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
*
922851 CTTTTTAGTCCTCAAAGAGCAGGATG-CTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCA
1 CTTTTTAGTCCTCAAAGAGCAGGACGCCTTTCTTTTT--AAAGCCCACACAAGTTGGTGGCA
* ** * * * * *
922912 CCTTCCAATCCTCAAAGGGCAGGACGTCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CTTTTTAGTCCTCAAAGAGCAGGACG-CCTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
*
922973 CTTTTTAGTCCTCAAAGAGTAGGAC
1 CTTTTTAGTCCTCAAAGAGCAGGAC
922998 ACACTTCTTT
Statistics
Matches: 170, Mismatches: 25, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
53 2 0.01
54 18 0.11
55 1 0.01
59 9 0.05
60 28 0.16
61 104 0.61
63 8 0.05
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (60 bp):
CTTTTTAGTCCTCAAAGAGCAGGACGCCTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:922967 original size:122 final size:115
Alignment explanation
Indices: 922737--922996 Score: 371
Period size: 122 Copynumber: 2.2 Consensus size: 115
922727 CTCCTTTCGC
*
922737 CTTTTT-GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCC
1 CTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAATCC
922801 TCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
66 TCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
922851 CTTTTTAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTT
1 CTTTTTAGTCCTCAAAGAGCAGGATGC---C-TTTT--AAAGCCCACACAAGCTGGTGGCACCTT
* * * *
922916 CCAATCCTCAAAGGGCAGGACGTCTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCA
60 -CAATCCTCAAAGAGCAAGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
*
922973 CTTTTTAGTCCTCAAAGAGTAGGA
1 CTTTTTAGTCCTCAAAGAGCAGGA
922997 CACACTTCTT
Statistics
Matches: 130, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
114 6 0.05
115 20 0.15
118 1 0.01
119 4 0.03
121 31 0.24
122 68 0.52
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (115 bp):
CTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAATCC
TCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:923101 original size:42 final size:42
Alignment explanation
Indices: 922975--923117 Score: 119
Period size: 42 Copynumber: 3.3 Consensus size: 42
922965 TGGTGGCACT
* * *
922975 TTTTAGTCCTCAAAGAGTAGGACACAC-TTCTTTCCCTTTTTTTCTC
1 TTTT-GTCCTCAAAGAGCAGGACGCACTTTATTTCCC---TTTT-TC
* * *
923021 TTTTATCCTCAAAGAGCAGGATGCACTTTATTTTCCTTTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTTC
* * * *
923063 TTTTGTCCTCAGAGAGCAGGACGTA-TTTCGTTTCCCTTTTCC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTT-ATTTCCCTTTTTC
*
923105 CTTTGTCCTCAAA
1 TTTTGTCCTCAAA
923118 AAACGAGACG
Statistics
Matches: 80, Mismatches: 15, Indels: 8
0.78 0.15 0.08
Matches are distributed among these distances:
41 3 0.04
42 44 0.55
43 4 0.05
45 18 0.22
46 11 0.14
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.43
Consensus pattern (42 bp):
TTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTTC
Found at i:923852 original size:13 final size:13
Alignment explanation
Indices: 923834--923914 Score: 69
Period size: 13 Copynumber: 7.2 Consensus size: 13
923824 GCCAAGGAAA
923834 TGTATCGATACAT
1 TGTATCGATACAT
923847 TGTATCGATACAT
1 TGTATCGATACAT
923860 T-T-T-G---CAT
1 TGTATCGATACAT
923867 TGTATCGATACAT
1 TGTATCGATACAT
923880 TG---C--T-CAT
1 TGTATCGATACAT
*
923887 TGTATTGATACAT
1 TGTATCGATACAT
923900 TGTATCGATACAT
1 TGTATCGATACAT
923913 TG
1 TG
923915 CTTATTGTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 24
0.68 0.03 0.30
Matches are distributed among these distances:
7 9 0.17
8 2 0.04
9 1 0.02
10 3 0.06
11 1 0.02
12 2 0.04
13 36 0.67
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:923869 original size:20 final size:19
Alignment explanation
Indices: 923844--923953 Score: 99
Period size: 20 Copynumber: 5.9 Consensus size: 19
923834 TGTATCGATA
923844 CATTGTATCGATACATTTT
1 CATTGTATCGATACATTTT
*
923863 GCATTGTATCGATACATTGCT
1 -CATTGTATCGATACATT-TT
*
923884 CATTGTATTGAT--A----
1 CATTGTATCGATACATTTT
923897 CATTGTATCGATACATTGCTT
1 CATTGTATCGATACATT--TT
923918 -ATTGTATCGATACATTTT
1 CATTGTATCGATACATTTT
*
923936 ACAATGTATCGATACATT
1 -CATTGTATCGATACATT
923954 CAGGCATTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
13 11 0.15
15 1 0.01
18 3 0.04
20 59 0.79
21 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (19 bp):
CATTGTATCGATACATTTT
Found at i:923901 original size:33 final size:33
Alignment explanation
Indices: 923864--923933 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
923854 ATACATTTTG
*
923864 CATTGTATCGATACATTGCTCATTGTATTGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
*
923897 CATTGTATCGATACATTGCTTATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
923930 CATT
1 CATT
923934 TTACAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCGATA
Found at i:923944 original size:53 final size:52
Alignment explanation
Indices: 923832--923953 Score: 167
Period size: 53 Copynumber: 2.3 Consensus size: 52
923822 CTGCCAAGGA
923832 AATGTATCGATACATTGTATCGATACATTTTGCATTGTATCGATACATTGCTC
1 AATGTATCGATACATTGTATCGATACATTTT-CATTGTATCGATACATTGCTC
* * *
923885 ATTGTATTGATACATTGTATCGATACATTGCTT-ATTGTATCGATACATT-TTAC
1 AATGTATCGATACATTGTATCGATACATT--TTCATTGTATCGATACATTGCT-C
923938 AATGTATCGATACATT
1 AATGTATCGATACATT
923954 CAGGCATTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
52 1 0.02
53 58 0.95
55 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.42
Consensus pattern (52 bp):
AATGTATCGATACATTGTATCGATACATTTTCATTGTATCGATACATTGCTC
Found at i:926342 original size:51 final size:51
Alignment explanation
Indices: 926252--926470 Score: 248
Period size: 51 Copynumber: 4.3 Consensus size: 51
926242 TTCATAATTA
* * *
926252 GGGG-TACTCCAACTCGGTTTTA-TTTCTAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAACTCGATTTTATTTTCAAAAACACCAATTTTCCACAATC
* * *
926301 GGGGATACTCCAACTTCGATTTTATTTTC-GAAACACCAATTTTCCATAACC
1 GGGGATACTCCAAC-TCGATTTTATTTTCAAAAACACCAATTTTCCACAATC
* * * *
926352 GGGGATACTCCAACCCCAGTTTTATTTTC-AAAACACCAATTTTCTATAATC
1 GGGGATACTCCAACTCGA-TTTTATTTTCAAAAACACCAATTTTCCACAATC
* * *
926403 GGGGGGGTACTCCAACTTCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
1 --GGGGATACTCCAAC-TCGATTTTATTTTCAAAAACACCAATTTTCCACAATC
926457 GGGGATACTCCAAC
1 GGGGATACTCCAAC
926471 CCTATTAATC
Statistics
Matches: 144, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
49 4 0.03
50 11 0.08
51 69 0.48
52 17 0.12
53 22 0.15
54 21 0.15
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACTCGATTTTATTTTCAAAAACACCAATTTTCCACAATC
Found at i:926691 original size:79 final size:78
Alignment explanation
Indices: 926481--926774 Score: 324
Period size: 79 Copynumber: 3.7 Consensus size: 78
926471 CCTATTAATC
**
926481 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCGATTTTATTCCTAAAAT
926546 ATTGATTTCTCACA
65 ATTGATTTCTCACA
* *
926560 ATCGGGGATACTCTC-ACCCCATTATTTCCGAGGGGATACTCCAACCACGATTTTATTCCTAAAA
1 ATCGGGGATACTC-CAACCCCGTTATTTTCGAGGGGATACTCCAACC-CGATTTTATTCCTAAAA
926624 TATTGATTTCTCACA
64 TATTGATTTCTCACA
** * ** *
926639 ATCGGGGATACTCCAACCCCGTTATTTTTTAGGGGATATTGAAACCCTGATTTTATT-TTCAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC-GATTTTATTCCT-AAAA
* *** *
926703 CACCAATTT-TCTATA
64 TATTGATTTCTC-ACA
** * * *
926718 ATTAGGGATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCGATTTTATT
926775 TTTAGAACAC
Statistics
Matches: 182, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
78 7 0.04
79 171 0.94
80 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCGATTTTATTCCTAAAATA
TTGATTTCTCACA
Found at i:926775 original size:79 final size:79
Alignment explanation
Indices: 926485--926818 Score: 316
Period size: 79 Copynumber: 4.2 Consensus size: 79
926475 TTAATCATCG
* ** * **
926485 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTG
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCTAAAACACCG
*
926550 ATTTCTCACAATCG
66 ATTTCTCACAATCA
* * * **
926564 GGGATACTCTC-ACCCCATTATTTCCGAGGGGATACTCCAACCACGATTTTATTCCTAAAATATT
1 GGGATACTC-CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCTAAAACACC
*
926628 GATTTCTCACAATCG
65 GATTTCTCACAATCA
*** * ** * *
926643 GGGATACTCCAACCCCGTTATTTTTTAGGGGATATTGAAACCCTGATTTTATT-TTCAAAACACC
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCT-AAAACACC
* * *
926707 AATTT-TCTATAATTA
65 GATTTCTC-ACAATCA
* * ** *
926722 GGGATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTTTAGAACACCG
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCTAAAACACCG
*
926787 ATTT-TCCATAATCA
66 ATTTCT-CACAATCA
* *
926801 GGGGTACTCCAGCCCCGT
1 GGGATACTCCAACCCCGT
926819 CGTCATCTCC
Statistics
Matches: 213, Mismatches: 36, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
78 4 0.02
79 205 0.96
80 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCTAAAACACCG
ATTTCTCACAATCA
Found at i:927900 original size:13 final size:13
Alignment explanation
Indices: 927882--927938 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
927872 ACATAAGTGT
927882 TGTATCGATACAA
1 TGTATCGATACAA
927895 TGTATCGATACATAA
1 TGTATCGATAC--AA
927910 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
927927 TGTATCGATACA
1 TGTATCGATACA
927939 TAACTACTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:927906 original size:32 final size:32
Alignment explanation
Indices: 927861--927941 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 32
927851 ACATTCAGTA
*
927861 AATGTATCTATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
927893 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
927925 AATGTATCGATACATAA
1 AATGTATCGATACATAA
927942 CTACTGCCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:927919 original size:19 final size:19
Alignment explanation
Indices: 927840--927925 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 19
927830 ATTTCAATAA
*
927840 TTTGTATCGATACATTCAGT
1 TTTGTATCGATACA-TAAGT
** *
927860 AAATGTATCTATACATAAGT
1 -TTTGTATCGATACATAAGT
*
927880 GTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
927895 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
927912 TTTGTATCGATACA
1 TTTGTATCGATACA
927926 ATGTATCGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
13 11 0.21
15 2 0.04
17 2 0.04
19 22 0.42
20 4 0.08
21 11 0.21
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:928011 original size:24 final size:24
Alignment explanation
Indices: 927964--928013 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
927954 AAATGTGTCG
*
927964 ATACATTTTTCTGTGTATCAATAC
1 ATACATTATTCTGTGTATCAATAC
*
927988 ATACATCTATTCTTTGTATC-ATAC
1 ATACAT-TATTCTGTGTATCAATAC
928012 AT
1 AT
928014 CTAGGAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.46
Consensus pattern (24 bp):
ATACATTATTCTGTGTATCAATAC
Found at i:930470 original size:52 final size:52
Alignment explanation
Indices: 930349--930484 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
930339 TGTTAAGTTT
* * * *
930349 CTCAATTGTTCATAATCGGGAATACTCTAACCCCGATTTTATTTTCAAAACA
1 CTCAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACA
* * *
930401 C-CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA-A
1 CTCAATTTTTC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACA
* *
930452 CCTCAATTTTTCACAATCGAGGATACTCCAACC
1 -CTCAATTTTTCATAATCGGGGATACTCCAACC
930485 TCGTTATTTC
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
51 8 0.12
52 53 0.77
53 8 0.12
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (52 bp):
CTCAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACA
Found at i:930609 original size:107 final size:108
Alignment explanation
Indices: 930421--930617 Score: 265
Period size: 107 Copynumber: 1.8 Consensus size: 108
930411 TTTAATCGGG
* * * *
930421 GATACTCCAACTCCGATTTTATTTCCAAAAACCTCAATTTTTCACAATCGAGGATACTCCAACCT
1 GATACTCCAACCCCGACTTTATTTCCAAAAACCTCAATTTCTCACAATCGAGGATACTCCAACCC
*
930486 CGTTATTTCATTGGGGATACTCCAACCCCATTACCTCCGAGGA
66 CGTTATTTCATAGGGGATACTCCAACCCCATTACCTCCGAGGA
* * * * *
930529 GATACTCCAACCCCGGCTTTATTTCCAAAATA-CT-AATTTCTCATAGTTGGGGATACTCCAACC
1 GATACTCCAACCCCGACTTTATTTCCAAAA-ACCTCAATTTCTCACAATCGAGGATACTCCAACC
930592 CCGTTATTTC-TGAGGGGATACTCCAA
65 CCGTTATTTCAT-AGGGGATACTCCAA
930618 TCCCGATTCT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
106 1 0.01
107 46 0.60
108 29 0.38
109 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (108 bp):
GATACTCCAACCCCGACTTTATTTCCAAAAACCTCAATTTCTCACAATCGAGGATACTCCAACCC
CGTTATTTCATAGGGGATACTCCAACCCCATTACCTCCGAGGA
Done.