Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008180.1 Hibiscus syriacus cultivar Beakdansim tig00110777_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2670214
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 14
Found at i:640948 original size:21 final size:20
Alignment explanation
Indices: 640917--640977 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
640907 CTTGAACGGT
640917 GAGGGGACTCTTGAGGGATG
1 GAGGGGACTCTTGAGGGATG
* * **
640937 ATAGGGGCCTCTTGAATGATTG
1 -GAGGGGACTCTTGAGGGA-TG
640959 GAGGGGACTCTTGAGGGAT
1 GAGGGGACTCTTGAGGGAT
640978 AACAGGTGAG
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 1 0.03
21 28 0.90
22 2 0.06
ACGTcount: A:0.21, C:0.11, G:0.43, T:0.25
Consensus pattern (20 bp):
GAGGGGACTCTTGAGGGATG
Found at i:641407 original size:19 final size:20
Alignment explanation
Indices: 641326--641412 Score: 95
Period size: 20 Copynumber: 4.4 Consensus size: 20
641316 TAGTTTACTT
* * * *
641326 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
*
641346 TCGCAATGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
641366 TCGCAACGCGAAAATGGCTA
1 TCGCAACGCGAAAATGACTA
**
641386 TCGCAACGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
641405 TCGCAACG
1 TCGCAACG
641413 ACAAAATCGC
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
19 14 0.25
20 43 0.75
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:641460 original size:19 final size:19
Alignment explanation
Indices: 641438--641501 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
641428 GAAACACAAA
641438 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
641457 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
*
641473 TCG--TTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
641490 TCGCATTGCGAT
1 TCGCATTGCGAT
641502 AGCCATTTCC
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
14 5 0.14
15 3 0.09
16 4 0.11
17 4 0.11
18 3 0.09
19 16 0.46
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:641508 original size:19 final size:20
Alignment explanation
Indices: 641486--641529 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
641476 TTGCAATTTT
*
641486 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTACGATAGC
* *
641505 CATTTCCGCGTTACGATAGT
1 CATTTCCGCATTACGATAGC
641525 CATTT
1 CATTT
641530 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTACGATAGC
Found at i:642104 original size:18 final size:18
Alignment explanation
Indices: 642081--642128 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
642071 CAGGTCGATC
642081 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
642099 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
642117 AGGTGATGGCTC
1 AGGTGATGGCTC
642129 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:643456 original size:20 final size:20
Alignment explanation
Indices: 643433--643480 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
643423 GAAAATGAAA
643433 ATCGCAACACGAAAATT-ACT
1 ATCGCAACA-GAAAATTGACT
* *
643453 ATCGCAACAGGAATTTGACT
1 ATCGCAACAGAAAATTGACT
643473 ATCGCAAC
1 ATCGCAAC
643481 GAGAGAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.21
Consensus pattern (20 bp):
ATCGCAACAGAAAATTGACT
Found at i:643785 original size:22 final size:22
Alignment explanation
Indices: 643758--643801 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
643748 GATGGAGATA
643758 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
643780 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
643802 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:644073 original size:61 final size:61
Alignment explanation
Indices: 644008--644125 Score: 191
Period size: 61 Copynumber: 1.9 Consensus size: 61
643998 CGAAAGTCAG
644008 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
* * * * *
644069 TATCGCGTTGCGATAGTCTGTATCGCGTTGCGATAGTCTGTATCGCTTTGCGATTTT
1 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTT
644126 CCCAATTCGC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.36
Consensus pattern (61 bp):
TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
Found at i:644092 original size:41 final size:41
Alignment explanation
Indices: 643968--644102 Score: 175
Period size: 41 Copynumber: 3.3 Consensus size: 41
643958 CGCTTTGAAA
* **
643968 ATCGCATTGCGATTATGTATTATCTTGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* *
644009 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * *
644049 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCTGT
1 ATCGCGTTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
644090 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
644103 AGTCTGTATC
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 3 0.04
40 32 0.40
41 44 0.54
42 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (41 bp):
ATCGCGTTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:644112 original size:81 final size:81
Alignment explanation
Indices: 643968--644121 Score: 227
Period size: 81 Copynumber: 1.9 Consensus size: 81
643958 CGCTTTGAAA
**
643968 ATCGCATTGCGATTATGTATTATCTTGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTCAGTATCG
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTCAGTATCG
644033 CGTTGCGAAAGTCAGT
66 CGTTGCGAAAGTCAGT
* * * * * *
644049 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCTGTATCGCGTTGCGATAGTCTGTATCG
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTCAGTATCG
*
644114 CTTTGCGA
66 CGTTGCGA
644122 TTTTCCCAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 64 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (81 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTCAGTATCG
CGTTGCGAAAGTCAGT
Found at i:644122 original size:20 final size:20
Alignment explanation
Indices: 643994--644122 Score: 161
Period size: 20 Copynumber: 6.4 Consensus size: 20
643984 GTATTATCTT
*
643994 GTTGCGAAAGTCAGTATCGC
1 GTTGCGATAGTCAGTATCGC
*
644014 GTTGCGAAAGTCAGTATCGC
1 GTTGCGATAGTCAGTATCGC
*
644034 GTTGCGAAAGTCAGTATCGC
1 GTTGCGATAGTCAGTATCGC
* *
644054 GTTGCGATTTTGT-ATTATCGC
1 GTTGCGA--TAGTCAGTATCGC
*
644075 GTTGCGATAGTCTGTATCGC
1 GTTGCGATAGTCAGTATCGC
*
644095 GTTGCGATAGTCTGTATCGC
1 GTTGCGATAGTCAGTATCGC
*
644115 TTTGCGAT
1 GTTGCGAT
644123 TTTCCCAATT
Statistics
Matches: 99, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
19 3 0.03
20 80 0.81
21 14 0.14
22 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (20 bp):
GTTGCGATAGTCAGTATCGC
Found at i:644162 original size:61 final size:61
Alignment explanation
Indices: 644008--644143 Score: 184
Period size: 61 Copynumber: 2.2 Consensus size: 61
643998 CGAAAGTCAG
* * ** *
644008 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTCTGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTCCAA
* * *
644069 TATCGCGTTGCGATAGTCTGTATCGCGTTGCGATAGTCTGTATCGCTTTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTCTGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTT-CCAA
644131 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
644144 TTACTTATTC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
61 64 0.97
62 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (61 bp):
TATCGCGTTGCGATAGTCTGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTCCAA
Found at i:644204 original size:21 final size:22
Alignment explanation
Indices: 644152--644204 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
644142 ATTTACTTAT
644152 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
644173 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
644194 TCGCATTGCGA
1 TCGCATTGCGA
644205 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:644548 original size:19 final size:20
Alignment explanation
Indices: 644514--644560 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
644504 TATGATTTCG
*
644514 ATCCCAAAATCCCAATCTC-A
1 ATCCCAACATCCCAATC-CAA
644534 ATCCCAACA-CCCAATCCAA
1 ATCCCAACATCCCAATCCAA
644553 ATCCCAAC
1 ATCCCAAC
644561 CCTAGATCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 1 0.04
19 16 0.64
20 8 0.32
ACGTcount: A:0.40, C:0.45, G:0.00, T:0.15
Consensus pattern (20 bp):
ATCCCAACATCCCAATCCAA
Found at i:645194 original size:21 final size:21
Alignment explanation
Indices: 645170--645214 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
645160 AAGTTGCATG
*
645170 AAAGACTTCAAAAATCACTCC
1 AAAGACTTCAAAAACCACTCC
*
645191 AAAGACTTCAGAAACCACTCC
1 AAAGACTTCAAAAACCACTCC
645212 AAA
1 AAA
645215 ACTCTATCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.29, G:0.07, T:0.16
Consensus pattern (21 bp):
AAAGACTTCAAAAACCACTCC
Found at i:648195 original size:2 final size:2
Alignment explanation
Indices: 648188--648218 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
648178 AATTATTTCT
648188 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
648219 TTTAAGTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:650417 original size:42 final size:42
Alignment explanation
Indices: 650354--650453 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
650344 GTAGGTAGTG
* *
650354 GGCGGGTGTGGATTTAGAAAGTGGTACCCATCGCGGGTTGTA
1 GGCGGGTGTGGATTTAAAAAGTGGTACCCATCGCGAGTTGTA
*
650396 GGCGGGTGTGGATTTAAAAAGTGGTACCCTTCGCGAGTTGTA
1 GGCGGGTGTGGATTTAAAAAGTGGTACCCATCGCGAGTTGTA
650438 GGCGGGTGATGGATTT
1 GGCGGGTG-TGGATTT
650454 GAGACCTTAC
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 47 0.87
43 7 0.13
ACGTcount: A:0.19, C:0.13, G:0.40, T:0.28
Consensus pattern (42 bp):
GGCGGGTGTGGATTTAAAAAGTGGTACCCATCGCGAGTTGTA
Found at i:650876 original size:43 final size:42
Alignment explanation
Indices: 650826--650965 Score: 183
Period size: 43 Copynumber: 3.3 Consensus size: 42
650816 GGCGGGTGTA
650826 GATTTGAAAAATTTTACCCATCATGGGTGGTAGGCGGATGGTG
1 GATTTGAAAAATTTTACCCATCATGGGTGGT-GGCGGATGGTG
* * *
650869 GATTTGAAAAATTTTACACATAATGGGTGGTGAGCGTATGGTG
1 GATTTGAAAAATTTTACCCATCATGGGTGGTG-GCGGATGGTG
* * * *
650912 GATTTGAAAATTTTTACCCATCATGAGTGATGGACGGATGGTC
1 GATTTGAAAAATTTTACCCATCATGGGTGGTGG-CGGATGGTG
650955 GATTT-AAAAAT
1 GATTTGAAAAAT
650966 ATTAGATGTG
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
42 7 0.08
43 77 0.92
ACGTcount: A:0.30, C:0.10, G:0.28, T:0.32
Consensus pattern (42 bp):
GATTTGAAAAATTTTACCCATCATGGGTGGTGGCGGATGGTG
Found at i:661675 original size:21 final size:21
Alignment explanation
Indices: 661633--661675 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
661623 TTTTCGGGCT
* * *
661633 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
661654 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
661675 A
1 A
661676 CGAATATAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:662493 original size:150 final size:147
Alignment explanation
Indices: 662217--662530 Score: 522
Period size: 150 Copynumber: 2.1 Consensus size: 147
662207 GGGTAGAGGG
* * *
662217 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAGGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
* *
662282 ACTTGATCCTTAGTATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTATA
66 ACTTGATCCCTAGTATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATTATA
662347 TGGCACTACGGTGCAAT
131 TGGCACTACGGTGCAAT
*
662364 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTT-GAAAGACACA
*
662429 TACTTGATCCCTAGTATATGTATATTATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
65 TACTTGATCCCTAG--TATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
662494 ATATGGCACTACGGTGCAAT
128 ATATGGCACTACGGTGCAAT
662514 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
662531 TGCAATTATA
Statistics
Matches: 156, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
147 50 0.32
148 23 0.15
149 1 0.01
150 82 0.53
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (147 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATTATA
TGGCACTACGGTGCAAT
Found at i:662531 original size:23 final size:23
Alignment explanation
Indices: 662498--662542 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
662488 ATCATTATAT
*
662498 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
662521 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
662543 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:668604 original size:21 final size:21
Alignment explanation
Indices: 668562--668604 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
668552 TTTTCGGGCT
* * *
668562 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
668583 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
668604 A
1 A
668605 CGAATATAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:668667 original size:20 final size:21
Alignment explanation
Indices: 668631--668689 Score: 93
Period size: 20 Copynumber: 2.9 Consensus size: 21
668621 GAATGCTAGA
668631 GGGGAATCGATACCCCCAGGG
1 GGGGAATCGATACCCCCAGGG
668652 GGGGAATCGATACCCCCA-GG
1 GGGGAATCGATACCCCCAGGG
* *
668672 GGGGAACCGATTCCCCCA
1 GGGGAATCGATACCCCCA
668690 TGAGAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 18 0.50
21 18 0.50
ACGTcount: A:0.24, C:0.32, G:0.34, T:0.10
Consensus pattern (21 bp):
GGGGAATCGATACCCCCAGGG
Found at i:669436 original size:150 final size:149
Alignment explanation
Indices: 669166--669481 Score: 535
Period size: 150 Copynumber: 2.1 Consensus size: 149
669156 GGGTAGAGGG
* * *
669166 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAGGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
* *
669231 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
*
669296 TATGGCACTACGGTGCAAT
131 AATGGCACTACGGTGCAAT
*
669315 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTT-GAAAGACACA
669380 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
65 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
*
669445 AAATGGCACTACGGTGTAAT
130 AAATGGCACTACGGTGCAAT
669465 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
669482 TGCAATTATA
Statistics
Matches: 157, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
149 51 0.32
150 106 0.68
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
AATGGCACTACGGTGCAAT
Found at i:669482 original size:23 final size:23
Alignment explanation
Indices: 669449--669493 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
669439 ATCATTAAAT
* *
669449 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
669472 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
669494 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:672495 original size:8 final size:8
Alignment explanation
Indices: 672482--672576 Score: 72
Period size: 7 Copynumber: 11.8 Consensus size: 8
672472 CTTGAAGATG
672482 AAAAAAG-
1 AAAAAAGA
672489 AAAAAA-A
1 AAAAAAGA
*
672496 AAAAATG-
1 AAAAAAGA
*
672503 AAAAATG-
1 AAAAAAGA
*
672510 AAAAATGA
1 AAAAAAGA
672518 AAAAAATGA
1 AAAAAA-GA
672527 AAAAAATGA
1 AAAAAA-GA
672536 AAAAAATGAA
1 AAAAAA-G-A
672546 AAAAAATGA
1 AAAAAA-GA
*
672555 AAAAATGA
1 AAAAAAGA
*
672563 AAAAATGA
1 AAAAAAGA
672571 AAAAAA
1 AAAAAA
672577 ACAAAACAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
7 25 0.32
8 20 0.25
9 25 0.32
10 9 0.11
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (8 bp):
AAAAAAGA
Found at i:672496 original size:9 final size:9
Alignment explanation
Indices: 672482--672587 Score: 67
Period size: 9 Copynumber: 11.7 Consensus size: 9
672472 CTTGAAGATG
672482 AAAAAAGAA
1 AAAAAAGAA
672491 AAAAAA-AA
1 AAAAAAGAA
*
672499 AATGAAAA-ATG
1 AA--AAAAGA-A
*
672510 AAAAATGAA
1 AAAAAAGAA
*
672519 AAAAATGAA
1 AAAAAAGAA
*
672528 AAAAATGAA
1 AAAAAAGAA
*
672537 AAAAATGAA
1 AAAAAAGAA
672546 AAAAAATG-A
1 AAAAAA-GAA
*
672555 AAAAATG-A
1 AAAAAAGAA
*
672563 AAAAATGAA
1 AAAAAAGAA
*
672572 AAAAAACAA
1 AAAAAAGAA
672581 AACAAAA
1 AA-AAAA
672588 ACAAATAAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 13
0.81 0.07 0.13
Matches are distributed among these distances:
8 13 0.16
9 57 0.69
10 11 0.13
11 2 0.02
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.08
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:672531 original size:18 final size:18
Alignment explanation
Indices: 672494--672576 Score: 115
Period size: 18 Copynumber: 4.9 Consensus size: 18
672484 AAAAGAAAAA
672494 AAAAAAATG--AAAAATG
1 AAAAAAATGAAAAAAATG
672510 --AAAAATGAAAAAAATG
1 AAAAAAATGAAAAAAATG
672526 AAAAAAATGAAAAAAATG
1 AAAAAAATGAAAAAAATG
672544 AAAAAAAATG-AAAAAATG
1 -AAAAAAATGAAAAAAATG
672562 -AAAAAATGAAAAAAA
1 AAAAAAATGAAAAAAA
672577 ACAAAACAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 11
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.11
16 15 0.25
17 6 0.10
18 24 0.39
19 9 0.15
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAAAAATGAAAAAAATG
Found at i:672577 original size:18 final size:17
Alignment explanation
Indices: 672479--672576 Score: 113
Period size: 18 Copynumber: 6.1 Consensus size: 17
672469 TTGCTTGAAG
672479 ATGAAAAAA-G-AAAAA
1 ATGAAAAAATGAAAAAA
672494 A--AAAAAATG--AAAA
1 ATGAAAAAATGAAAAAA
672507 ATG-AAAAATGAAAAAA
1 ATGAAAAAATGAAAAAA
672523 ATGAAAAAAATGAAAAAA
1 ATG-AAAAAATGAAAAAA
672541 ATGAAAAAAAATG-AAAAA
1 ATG--AAAAAATGAAAAAA
672559 ATGAAAAAATGAAAAAA
1 ATGAAAAAATGAAAAAA
672576 A
1 A
672577 ACAAAACAAA
Statistics
Matches: 74, Mismatches: 0, Indels: 16
0.82 0.00 0.18
Matches are distributed among these distances:
13 11 0.15
14 8 0.11
15 1 0.01
16 15 0.20
17 6 0.08
18 24 0.32
19 9 0.12
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.10
Consensus pattern (17 bp):
ATGAAAAAATGAAAAAA
Found at i:674035 original size:54 final size:53
Alignment explanation
Indices: 673930--674760 Score: 1318
Period size: 54 Copynumber: 15.6 Consensus size: 53
673920 CAGAAGATTA
*
673930 TTCGAGTTCTACTCCCTGAAGAAATAG-G-GTGGACCCGTAGGAAGATTATTG
1 TTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTG
*
673981 TTCGAGTTCTTACTCCCTGAAGAAATAGAGAGC-GAGCCCGTAGGAAGAATATTG
1 TTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGA-CCCGTAGGAAGATTATTG
*
674035 TTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTG
1 TTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTG
* *
674088 TTCGAGTTCTTACTCCCTGAAGAAATAGAAAGC-GAGCCCGTAGGAAGAATATTG
1 TTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGA-CCCGTAGGAAGATTATTG
* *
674142 TTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCATAGGAAGATTATTG
1 TTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTG
*
674196 TTCGAGTTCTACTCCCTGAAGAAATAGAGAGTGGACCCGTAGGAAGATTATTG
1 TTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTG
674249 TTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTG
1 TTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTG
** *
674302 TTCGAGTTCTTACTCCCTGAAGAAATAGAGAGC-GAGCCTATAGGAAGAATATTG
1 TTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGA-CCCGTAGGAAGATTATTG
*
674356 TTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTG
1 TTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTG
674410 TTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTG
1 TTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTG
* *
674463 TTCGAGTTCTACTCCCTAAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTG
1 TTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTG
*
674516 TTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTG
1 TTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTG
*
674570 TTCGAGTTCTACTCCCTGAAGAAATAG-G-GTGGACCCGTAGGAAGATTATTG
1 TTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTG
*
674621 TTCGAGTTCTTACTCCCTGAAGAAATAGAGAGC-GAGCCCGTAGGAAGAATATTG
1 TTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGA-CCCGTAGGAAGATTATTG
*
674675 TTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTG
1 TTCGAGTTC-TACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTG
* *
674729 TTGGAGTTCTACTCCCTGAAGAAATAGGGAGC
1 TTCGAGTTCTACTCCCTGAAGAAATAGAGAGC
674761 ATACACGATT
Statistics
Matches: 728, Mismatches: 35, Indels: 32
0.92 0.04 0.04
Matches are distributed among these distances:
51 40 0.05
52 37 0.05
53 301 0.41
54 344 0.47
55 6 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (53 bp):
TTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTG
Found at i:674114 original size:107 final size:107
Alignment explanation
Indices: 673921--674760 Score: 1385
Period size: 107 Copynumber: 7.9 Consensus size: 107
673911 GTGAAGCAAC
* * * *
673921 AGAAGATTATTCGAGTTCTACTCCCTGAAGAAATAG-G-GTGGACCCGTAGGAAGATTATTGTTC
1 AGAATATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTC
673984 GAGTTCTTACTCCCTGAAGAAATAGAGAGCGAGCCCGTAGGA
66 GAGTTCTTACTCCCTGAAGAAATAGAGAGCGAGCCCGTAGGA
674026 AGAATATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTC
1 AGAATATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTC
*
674091 GAGTTCTTACTCCCTGAAGAAATAGAAAGCGAGCCCGTAGGA
66 GAGTTCTTACTCCCTGAAGAAATAGAGAGCGAGCCCGTAGGA
*
674133 AGAATATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCATAGGAAGATTATTGTT
1 AGAATATTGTTCGAGTTC-TACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTT
*
674198 CGAGTTC-TACTCCCTGAAGAAATAGAGAGTG-GACCCGTAGGA
65 CGAGTTCTTACTCCCTGAAGAAATAGAGAGCGAG-CCCGTAGGA
* *
674240 AGATTATTGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGGACCCGTAGGAAGATTATTGTTC
1 AGAATATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTC
**
674305 GAGTTCTTACTCCCTGAAGAAATAGAGAGCGAGCCTATAGGA
66 GAGTTCTTACTCCCTGAAGAAATAGAGAGCGAGCCCGTAGGA
674347 AGAATATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTT
1 AGAATATTGTTCGAGTTC-TACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTT
674412 CGAGTTC-TACTCCCTGAAGAAATAGAGAGCG-GACCCGTAGGA
65 CGAGTTCTTACTCCCTGAAGAAATAGAGAGCGAG-CCCGTAGGA
* *
674454 AGATTATTGTTCGAGTTCTACTCCCTAAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTC
1 AGAATATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTC
*
674519 GAGTTCTTACTCCCTGAAGAAAAAGAGAGCG-GACCCGTAGGA
66 GAGTTCTTACTCCCTGAAGAAATAGAGAGCGAG-CCCGTAGGA
* * *
674561 AGATTATTGTTCGAGTTCTACTCCCTGAAGAAATAG-G-GTGGACCCGTAGGAAGATTATTGTTC
1 AGAATATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTC
674624 GAGTTCTTACTCCCTGAAGAAATAGAGAGCGAGCCCGTAGGA
66 GAGTTCTTACTCCCTGAAGAAATAGAGAGCGAGCCCGTAGGA
674666 AGAATATTGTTCGAGTTCTTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTT
1 AGAATATTGTTCGAGTTC-TACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTT
* *
674731 GGAGTTC-TACTCCCTGAAGAAATAGGGAGC
65 CGAGTTCTTACTCCCTGAAGAAATAGAGAGC
674761 ATACACGATT
Statistics
Matches: 692, Mismatches: 30, Indels: 24
0.93 0.04 0.03
Matches are distributed among these distances:
105 114 0.16
106 125 0.18
107 318 0.46
108 135 0.20
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (107 bp):
AGAATATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGGACCCGTAGGAAGATTATTGTTC
GAGTTCTTACTCCCTGAAGAAATAGAGAGCGAGCCCGTAGGA
Found at i:682576 original size:2 final size:2
Alignment explanation
Indices: 682569--682601 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
682559 TGTATTTTTG
682569 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
682602 TTGTAAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:686783 original size:2 final size:2
Alignment explanation
Indices: 686776--686811 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
686766 CTCATCTATG
686776 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
686812 TTCAAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:689049 original size:30 final size:30
Alignment explanation
Indices: 689013--689097 Score: 143
Period size: 30 Copynumber: 2.8 Consensus size: 30
689003 GGATTACACA
689013 ATGATTTCTAAAAAACATGTTGACTGCACG
1 ATGATTTCTAAAAAACATGTTGACTGCACG
689043 ATGATTTCTAAAAAACATGTTGACTGCACG
1 ATGATTTCTAAAAAACATGTTGACTGCACG
** *
689073 ATGATTTCTGGAAAACGTGTTGACT
1 ATGATTTCTAAAAAACATGTTGACT
689098 ACAGGAGGAC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (30 bp):
ATGATTTCTAAAAAACATGTTGACTGCACG
Found at i:704921 original size:2 final size:2
Alignment explanation
Indices: 704914--704954 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
704904 GTTTCAAAAC
704914 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
704955 AATCTTTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:709086 original size:16 final size:17
Alignment explanation
Indices: 709057--709103 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
709047 AAAATATTTT
709057 ATATATAATTAATATAAA
1 ATATATAA-TAATATAAA
* *
709075 ATATATAA-AATATTAT
1 ATATATAATAATATAAA
709091 ATATATATATAAT
1 ATATATA-ATAAT
709104 CGGGGCGGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 13 0.52
17 1 0.04
18 11 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATATAATAATATAAA
Found at i:718486 original size:2 final size:2
Alignment explanation
Indices: 718479--718513 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
718469 TTGTAAATAC
*
718479 AT AT AT AT -T TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
718514 GTTTAGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:718545 original size:18 final size:18
Alignment explanation
Indices: 718522--718559 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
718512 ATGTTTAGAT
*
718522 ATTTAAATTATAAAATCA
1 ATTTAAATTATAAAACCA
718540 ATTTAAATTATAAAACCA
1 ATTTAAATTATAAAACCA
718558 AT
1 AT
718560 CAATTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTTAAATTATAAAACCA
Found at i:718571 original size:21 final size:23
Alignment explanation
Indices: 718535--718576 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
718525 TAAATTATAA
718535 AATCAATTTAAATTA-TAAAACC
1 AATCAATTTAAATTATTAAAACC
718557 AATCAATTT-AATTATTAAAA
1 AATCAATTTAAATTATTAAAA
718577 AATTAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.36
Consensus pattern (23 bp):
AATCAATTTAAATTATTAAAACC
Found at i:720903 original size:42 final size:42
Alignment explanation
Indices: 720856--720944 Score: 169
Period size: 42 Copynumber: 2.1 Consensus size: 42
720846 ATCTAATCCG
720856 AAAATCGATCCGATATTAATCGATATGAAAATCAACCGTCTT
1 AAAATCGATCCGATATTAATCGATATGAAAATCAACCGTCTT
*
720898 AAAATCGATCTGATATTAATCGATATGAAAATCAACCGTCTT
1 AAAATCGATCCGATATTAATCGATATGAAAATCAACCGTCTT
720940 AAAAT
1 AAAAT
720945 AAACAAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (42 bp):
AAAATCGATCCGATATTAATCGATATGAAAATCAACCGTCTT
Found at i:728460 original size:30 final size:30
Alignment explanation
Indices: 728424--728484 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 30
728414 ATATGTTATC
728424 TTCAAGGTT-AGCGCAA-TCTTTCAAATGTCA
1 TTCAAGGTTAAG-G-AAGTCTTTCAAATGTCA
728454 TTCAAGGTTAAGGAAGTCTTTCAAATGTCA
1 TTCAAGGTTAAGGAAGTCTTTCAAATGTCA
728484 T
1 T
728485 ATACTCAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 2 0.07
30 25 0.86
31 2 0.07
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (30 bp):
TTCAAGGTTAAGGAAGTCTTTCAAATGTCA
Found at i:729764 original size:20 final size:20
Alignment explanation
Indices: 729739--729778 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
729729 AAGAAACTAA
729739 TGGCACGCTCATCTAAACAT
1 TGGCACGCTCATCTAAACAT
729759 TGGCACGCTCATCTAAACAT
1 TGGCACGCTCATCTAAACAT
729779 CTAGGGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (20 bp):
TGGCACGCTCATCTAAACAT
Found at i:738026 original size:21 final size:22
Alignment explanation
Indices: 737977--738031 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
737967 GCATACATGT
*
737977 AGGTCGCCATGCACGCAGCACGT
1 AGGTCGCCATGCACGCA-CACGA
*
738000 AGGTCGCCATGCACGCA-ATGA
1 AGGTCGCCATGCACGCACACGA
*
738021 AGGTCGACATG
1 AGGTCGCCATG
738032 AATGTCGGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 12 0.41
23 17 0.59
ACGTcount: A:0.25, C:0.29, G:0.31, T:0.15
Consensus pattern (22 bp):
AGGTCGCCATGCACGCACACGA
Found at i:738194 original size:24 final size:22
Alignment explanation
Indices: 738158--738203 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
738148 GCTGCATTAT
738158 TGCAGCATAATTTTCGCTGCTTCA
1 TGCAGCATAA-TTT-GCTGCTTCA
* *
738182 TGCATCATCATTTGCTGCTTCA
1 TGCAGCATAATTTGCTGCTTCA
738204 ACGTCCCGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
23 3 0.15
24 8 0.40
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (22 bp):
TGCAGCATAATTTGCTGCTTCA
Found at i:738491 original size:21 final size:21
Alignment explanation
Indices: 738467--738506 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
738457 GTTAATTAGT
738467 TTGTTAGTTTAAGTTATATTA
1 TTGTTAGTTTAAGTTATATTA
738488 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAGTTATAT
738507 CATACATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAGTTATATTA
Found at i:740993 original size:21 final size:22
Alignment explanation
Indices: 740962--741006 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
740952 TAATCATTAC
740962 TAAATCATTAAT-ATCAAATCAT
1 TAAATCATTAATAAT-AAATCAT
740984 TAAAT-ATTAATAATAAATCAT
1 TAAATCATTAATAATAAATCAT
741005 TA
1 TA
741007 TTAGTAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATCATTAATAATAAATCAT
Found at i:741009 original size:24 final size:26
Alignment explanation
Indices: 740953--741062 Score: 60
Period size: 24 Copynumber: 4.5 Consensus size: 26
740943 ATCGCAAACT
* * *
740953 AATCATTACTAAATCATTAAT-ATCA
1 AATCATTATTAAATAATTAATAATAA
740978 AATC---ATTAAAT-ATTAATAAT-A
1 AATCATTATTAAATAATTAATAATAA
* * *
740999 AATCATTATT-AGTAATCAATACT-A
1 AATCATTATTAAATAATTAATAATAA
* *
741023 AATAATTATTATAAT-TTTAA-ATATAA
1 AATCATTATTA-AATAATTAATA-ATAA
741049 AATCATTATTAAAT
1 AATCATTATTAAAT
741063 CATGATTATC
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
21 11 0.17
22 8 0.12
23 2 0.03
24 21 0.32
25 11 0.17
26 13 0.20
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.40
Consensus pattern (26 bp):
AATCATTATTAAATAATTAATAATAA
Found at i:741019 original size:21 final size:21
Alignment explanation
Indices: 740977--741019 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
740967 CATTAATATC
*
740977 AAATCATTAAATATTAATAAT
1 AAATCATTAAATAGTAATAAT
*
740998 AAATCATT-ATTAGTAATCAAT
1 AAATCATTAAATAGTAAT-AAT
741019 A
1 A
741020 CTAAATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (21 bp):
AAATCATTAAATAGTAATAAT
Found at i:741450 original size:43 final size:46
Alignment explanation
Indices: 741346--741451 Score: 121
Period size: 47 Copynumber: 2.3 Consensus size: 46
741336 AAATCTTTAC
*
741346 TATCAAATCATTACATATTAATAATAATTTCATTATTACTAATCATTAT
1 TATCAAATCATT--ATATTAATAATAAATTCATTATTACTAATCA-TAT
* *
741395 TATCAAAACATTATATTATTAATAAATT-ATTATTACTAAT-A-AT
1 TATCAAATCATTATATTAATAATAAATTCATTATTACTAATCATAT
741438 TA-CTAAATCATTAT
1 TATC-AAATCATTAT
741452 TATCAAATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
42 1 0.02
43 13 0.25
45 1 0.02
46 12 0.23
47 14 0.27
49 11 0.21
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.44
Consensus pattern (46 bp):
TATCAAATCATTATATTAATAATAAATTCATTATTACTAATCATAT
Found at i:741488 original size:59 final size:59
Alignment explanation
Indices: 741380--741544 Score: 219
Period size: 59 Copynumber: 2.8 Consensus size: 59
741370 TAATTTCATT
* *
741380 ATTACT-AATCATTATTATCAAAACATT--ATATTATTAATAAATTATTATTACTAATA
1 ATTACTAAATCATTATTATCAAATCATTAAATATTATTAATAAATCATTATTACTAATA
* * *
741436 ATTACTAAATCATTATTATCAAATCATTAAATATTAATAATAAATCATTATTAGTAATC
1 ATTACTAAATCATTATTATCAAATCATTAAATATTATTAATAAATCATTATTACTAATA
* * * * *
741495 ATTATTAAATTATTACTATCAAATAATTAATTATTATTAATAAATCATTA
1 ATTACTAAATCATTATTATCAAATCATTAAATATTATTAATAAATCATTA
741545 CCATCAAATC
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
56 6 0.06
57 20 0.21
59 69 0.73
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (59 bp):
ATTACTAAATCATTATTATCAAATCATTAAATATTATTAATAAATCATTATTACTAATA
Found at i:741539 original size:21 final size:20
Alignment explanation
Indices: 741467--741537 Score: 54
Period size: 21 Copynumber: 3.5 Consensus size: 20
741457 AATCATTAAA
* *
741467 TATTAATAATAAATCATTAT
1 TATTAATAATAATTAATTAT
* * *
741487 TAGTAATCATTATTAAATTAT
1 TATTAATAATAATT-AATTAT
*
741508 TACT-ATCAAATAATTAATTAT
1 TATTAAT--AATAATTAATTAT
741529 TATTAATAA
1 TATTAATAA
741538 ATCATTACCA
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
20 14 0.37
21 17 0.45
22 7 0.18
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (20 bp):
TATTAATAATAATTAATTAT
Found at i:741553 original size:14 final size:14
Alignment explanation
Indices: 741536--741572 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
741526 TATTATTAAT
741536 AAATCATTACCATC
1 AAATCATTACCATC
*
741550 AAATCATTACTATC
1 AAATCATTACCATC
*
741564 AAATTATTA
1 AAATCATTA
741573 AATATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACCATC
Found at i:741740 original size:23 final size:20
Alignment explanation
Indices: 741714--741754 Score: 55
Period size: 23 Copynumber: 1.9 Consensus size: 20
741704 AATGTAAAAA
741714 ATAAATTCGACATATTTATAAAG
1 ATAAATT-GAC-TA-TTATAAAG
741737 ATAAATTGACTATTATAA
1 ATAAATTGACTATTATAA
741755 TCATTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 3 0.17
23 7 0.39
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (20 bp):
ATAAATTGACTATTATAAAG
Found at i:744475 original size:26 final size:26
Alignment explanation
Indices: 744446--744526 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 26
744436 TATTATTAAT
744446 ATAATAATTTGATATTAAATGATTTA
1 ATAATAATTTGATATTAAATGATTTA
* *
744472 ATAATAATATGAGTCAGT-AATGATTACTA
1 ATAATAATTTGA-T-ATTAAATGATT--TA
* *
744501 ATAATTATTT-ATTTTAAAT-ATTTA
1 ATAATAATTTGATATTAAATGATTTA
744525 AT
1 AT
744527 GATTTAGATT
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
24 4 0.09
26 15 0.34
27 12 0.27
28 3 0.07
29 10 0.23
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (26 bp):
ATAATAATTTGATATTAAATGATTTA
Found at i:744744 original size:17 final size:17
Alignment explanation
Indices: 744722--744759 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
744712 ATTTTTTAAA
744722 AAACACTAA-ATATTTTT
1 AAACAC-AATATATTTTT
*
744739 AAACACAATATTTTTTT
1 AAACACAATATATTTTT
744756 AAAC
1 AAAC
744760 GGGAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.39
Consensus pattern (17 bp):
AAACACAATATATTTTT
Found at i:745264 original size:49 final size:49
Alignment explanation
Indices: 745194--745329 Score: 143
Period size: 49 Copynumber: 2.8 Consensus size: 49
745184 TTTTTACATT
* * *
745194 TAATAACTTAAACTAAGAAACTAATTAACTAATTTTTTATA-TAATAAA-
1 TAATAACTTAAACTAACAAACTAATTAA-TAATTTTTTAAACTAACAAAC
***
745242 TATATAACTTAAACTAACAAACTAATATAAT-ATAACTTAAACTAACAAAC
1 TA-ATAACTTAAACTAACAAACTAAT-TAATAATTTTTTAAACTAACAAAC
* *
745292 TAATAATTTATACTAACAAACTAATTAATTAATTTTTT
1 TAATAACTTAAACTAACAAACTAATTAA-TAATTTTTT
745330 TACCCTAAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
48 11 0.15
49 51 0.72
50 9 0.13
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.37
Consensus pattern (49 bp):
TAATAACTTAAACTAACAAACTAATTAATAATTTTTTAAACTAACAAAC
Found at i:745275 original size:28 final size:28
Alignment explanation
Indices: 745243--745296 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
745233 TATAATAAAT
745243 ATATAACTTAAACTAACAAACTAATATA
1 ATATAACTTAAACTAACAAACTAATATA
745271 ATATAACTTAAACTAACAAACTAATA
1 ATATAACTTAAACTAACAAACTAATA
745297 ATTTATACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (28 bp):
ATATAACTTAAACTAACAAACTAATATA
Found at i:745303 original size:28 final size:28
Alignment explanation
Indices: 745235--745303 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 28
745225 ATTTTTTATA
745235 TAATAAATATATAACTTAAACTAACAAAC
1 TAAT-AATATATAACTTAAACTAACAAAC
745264 TAAT-ATAATATAACTTAAACTAACAAAC
1 TAATAAT-ATATAACTTAAACTAACAAAC
*
745292 TAATAATTTATA
1 TAATAATATATA
745304 CTAACAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 2 0.05
28 29 0.78
29 6 0.16
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
TAATAATATATAACTTAAACTAACAAAC
Found at i:745306 original size:21 final size:21
Alignment explanation
Indices: 745273--745321 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
745263 CTAATATAAT
*
745273 ATAACTTAAACTAACAAACTA
1 ATAATTTAAACTAACAAACTA
*
745294 ATAATTTATACTAACAAACTA
1 ATAATTTAAACTAACAAACTA
745315 ATTAATT
1 A-TAATT
745322 AATTTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATTTAAACTAACAAACTA
Found at i:746979 original size:127 final size:129
Alignment explanation
Indices: 746747--746982 Score: 332
Period size: 127 Copynumber: 1.8 Consensus size: 129
746737 CTTTGACCTG
* ** *
746747 ACCCGTTGACTTTAACCAAAAAGTCAAATTTTTCGAAAAGTCATATCTTATGTTTTTTGACGTTC
1 ACCCGTTAACTTTAACCAAAAAGTCAAATTTTTCGAAAAGTCATATCTTATGTTTTTCAACGTCC
* * *
746812 AGATTCTGAATCCAAAGTCCGTTTTTCTAAATTCAAACCTGAAAGCCTCGAAATTGATAGTCAA
66 AGAGTCTGAATCCAAAGTCCGTTTTGCCAAATTCAAACCTGAAAGCCTCGAAATTGATAGTCAA
* *
746876 ACCCGTTAACTTTGACCAAAAAGTC-AATTTTT-GAAAAGTCATATTTTATGTTTTTCAACGTCC
1 ACCCGTTAACTTTAACCAAAAAGTCAAATTTTTCGAAAAGTCATATCTTATGTTTTTCAACGTCC
* * * **
746939 TGAGTCTGATTCCGAAGTCCGTTTTGCCAAATTCTTACCTGAAA
66 AGAGTCTGAATCCAAAGTCCGTTTTGCCAAATTCAAACCTGAAA
746983 TCCCCAAATC
Statistics
Matches: 93, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
127 63 0.68
128 7 0.08
129 23 0.25
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (129 bp):
ACCCGTTAACTTTAACCAAAAAGTCAAATTTTTCGAAAAGTCATATCTTATGTTTTTCAACGTCC
AGAGTCTGAATCCAAAGTCCGTTTTGCCAAATTCAAACCTGAAAGCCTCGAAATTGATAGTCAA
Found at i:747722 original size:31 final size:31
Alignment explanation
Indices: 747639--747723 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
747629 GGCTTATCGA
* * *
747639 CTTTTTGCTCAGGGCCTTACTAGCTCCTCGG
1 CTTTGTGCTCAGGGCCTTACTGGCTCCTCAG
747670 CTTTGTGCTCAGGGCCTTACTGGCTCCTCAG
1 CTTTGTGCTCAGGGCCTTACTGGCTCCTCAG
747701 CTTTGTGCTCAGGGCCTTACTGG
1 CTTTGTGCTCAGGGCCTTACTGG
747724 ACTTGATGGT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.09, C:0.31, G:0.26, T:0.34
Consensus pattern (31 bp):
CTTTGTGCTCAGGGCCTTACTGGCTCCTCAG
Found at i:752791 original size:2 final size:2
Alignment explanation
Indices: 752784--752809 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
752774 AAAATTCCTA
752784 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
752810 GCTGTGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:754298 original size:17 final size:18
Alignment explanation
Indices: 754276--754317 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
754266 GAATTAAATT
*
754276 CAATTCC-TGACAGATTC
1 CAATTCCTTCACAGATTC
*
754293 CAATTCCTTCACAGATTT
1 CAATTCCTTCACAGATTC
754311 CAATTCC
1 CAATTCC
754318 CTCATAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (18 bp):
CAATTCCTTCACAGATTC
Found at i:754694 original size:21 final size:20
Alignment explanation
Indices: 754669--754723 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
754659 TTAGGATTGA
754669 AGGTTTAAGAATTTAAATCTT
1 AGGTTTAAGAATTTAAAT-TT
* *
754690 AGGTTTTAGAATTAAAATTT
1 AGGTTTAAGAATTTAAATTT
*
754710 ATGTTTAA-AATTTA
1 AGGTTTAAGAATTTA
754724 GGATTTAAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 5 0.17
20 8 0.28
21 16 0.55
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (20 bp):
AGGTTTAAGAATTTAAATTT
Found at i:761997 original size:72 final size:73
Alignment explanation
Indices: 761903--762046 Score: 209
Period size: 72 Copynumber: 2.0 Consensus size: 73
761893 CTCTGTTAGT
* * *
761903 GAAATTTTTATACATGTAGATGATGTATTCTTTGTAGGCATGGATGGATCTAATTTAGATGTGGG
1 GAAATTTTTATACATGTAGATGATGGATTCCTTGTAGGCATGGATGGATCTAATTTAGAGGTGGG
761968 AGGGGCTA
66 AGGGGCTA
* * * * *
761976 GAAA-TTTTATTCATGTTGATGATGGATTCCTTGTAGGCATGGATGGATCTACTTTATAGGTTGG
1 GAAATTTTTATACATGTAGATGATGGATTCCTTGTAGGCATGGATGGATCTAATTTAGAGGTGGG
762040 AGGGGCT
66 AGGGGCT
762047 CTAGCGCCCA
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
72 59 0.94
73 4 0.06
ACGTcount: A:0.25, C:0.08, G:0.29, T:0.38
Consensus pattern (73 bp):
GAAATTTTTATACATGTAGATGATGGATTCCTTGTAGGCATGGATGGATCTAATTTAGAGGTGGG
AGGGGCTA
Found at i:763070 original size:40 final size:41
Alignment explanation
Indices: 763022--763117 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 41
763012 GTACTATAGC
* *
763022 GGCG-TTTTTATAAAAATGCCGTTAAAGAATGT-ACTTTAGT
1 GGCGTTTTTTATAAAAACGACGTTAAAGAATGTCA-TTTAGT
* * *
763062 GTC-TTTTTTATATAAACGACGTTAAAGACTGTCATTTAGT
1 GGCGTTTTTTATAAAAACGACGTTAAAGAATGTCATTTAGT
763102 GGCGTTTTTGTATAAA
1 GGCGTTTTT-TATAAA
763118 CGCTGATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
40 34 0.76
41 6 0.13
42 5 0.11
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (41 bp):
GGCGTTTTTTATAAAAACGACGTTAAAGAATGTCATTTAGT
Found at i:763141 original size:41 final size:41
Alignment explanation
Indices: 763095--763201 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 41
763085 AAAGACTGTC
* *
763095 ATTTAGTGGCGTTTTTGTAT-AAACGCTGATATAGAG-TCGT-
1 ATTTAGTGGCGTTTTTAT-TCAAACGCCGATATAG-GCTCGTG
* *
763135 ACTTTAGTGACGTTTTTATTGCAAACGCCGCTATAGGCTCGTG
1 A-TTTAGTGGCGTTTTTATT-CAAACGCCGATATAGGCTCGTG
*
763178 ATTTAGTGGCGTTTTTATACAAAC
1 ATTTAGTGGCGTTTTTATTCAAAC
763202 ACCGCTAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
40 2 0.04
41 21 0.38
42 32 0.57
43 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.38
Consensus pattern (41 bp):
ATTTAGTGGCGTTTTTATTCAAACGCCGATATAGGCTCGTG
Found at i:763229 original size:41 final size:41
Alignment explanation
Indices: 763022--763374 Score: 246
Period size: 41 Copynumber: 8.6 Consensus size: 41
763012 GTACTATAGC
* * * * * *
763022 GGCGTTTTTATAAAAATGCCGTTAAAGAAT-GTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAAT
* * * * * * *
763062 GTCTTTTTTATATAAACGACGTTAAAGACT-GT-CATTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCATAC-TTTAAT
* * * * * * * *
763102 GGCGTTTTTGTATAAACGCTGATATAGAGTCGTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAAT
* * * * * *
763143 GACGTTTTTATTGCAAACGCCGCTATAGGCTCGTGA-TTTAGT
1 GGCGTTTTTA-TACAAACGCCGCTAAAGACTCAT-ACTTTAAT
* * *
763185 GGCGTTTTTATACAAACACCGCTAAAAACTCATACTTCAAT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAAT
* * * * *
763226 GGCGTTTATATAAAAACACCGCTAAAGACTCGTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAAT
* * * *
763267 GGCGTTTATATACAAATGTCGCTAAAGACTCATACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAAT
* * * *
763308 GGCGTTTTTATATAAACGCCGCTAAATACTCGTACTTTAAC
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAAT
* *
763349 GGCGCTTTTATATAAACGCCGCTAAA
1 GGCGTTTTTATACAAACGCCGCTAAA
763375 TATTGTAAGG
Statistics
Matches: 256, Mismatches: 51, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.00
40 55 0.21
41 166 0.65
42 33 0.13
43 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (41 bp):
GGCGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAAT
Found at i:766473 original size:21 final size:21
Alignment explanation
Indices: 766449--766507 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
766439 TGATTTATTA
**
766449 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
766470 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
766491 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
766508 ATTGGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.05, G:0.20, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:766747 original size:43 final size:43
Alignment explanation
Indices: 766703--766971 Score: 322
Period size: 43 Copynumber: 6.3 Consensus size: 43
766693 ACCAGATCTT
* * * * *
766703 TTGCGGTGTTTGTGGGGAAAACGCTGCTAAATCTCAAGACCTT
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
* * * *
766746 TTACGGTGTTTGTGGAAAAAACGCCGCTAAATCTCAAGACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
* *
766789 TTACGGCGTTTGTGGAAAAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
*
766832 TTGCGGCGTTTGTGGGAAAAACTCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
* * * *
766875 TTGCGACGTTTGTTGGAAAAACGCCGCTAAATATCAATACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
* * * * * ***
766918 TTGCGGCGTTTGTTGGACAAACGCCACTATATATCGTTACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
766961 TTGCGGCGTTT
1 TTGCGGCGTTT
766972 TTTGTTACCA
Statistics
Matches: 205, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 205 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (43 bp):
TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
Found at i:766800 original size:86 final size:86
Alignment explanation
Indices: 766660--766971 Score: 324
Period size: 86 Copynumber: 3.6 Consensus size: 86
766650 ATATGACATT
** * * * * *
766660 TTGCGGCGTTTGTTCTAAAAAACGCCGCTATATAC-C-AGATCTTTTGCGGTGTTTGTGGGGAAA
1 TTGCGGCGTTTG-TGGAAAAAACGCCGCTAAAT-CTCAAGACCTATTGCGGCGTTTGTGGGAAAA
* * *
766723 ACGCTGCTAAATCTCAAGACCTT
64 ACGCCGCTAAATCTCAACACCTA
* * * *
766746 TTACGGTGTTTGTGGAAAAAACGCCGCTAAATCTCAAGACCTATTACGGCGTTTGTGGAAAAAAC
1 TTGCGGCGTTTGTGGAAAAAACGCCGCTAAATCTCAAGACCTATTGCGGCGTTTGTGGGAAAAAC
766811 GCCGCTAAATCTCAACACCTA
66 GCCGCTAAATCTCAACACCTA
* * * * *
766832 TTGCGGCGTTTGTGGGAAAAACTCCGCTAAATCTCAACACCTATTGCGACGTTTGTTGGAAAAAC
1 TTGCGGCGTTTGTGGAAAAAACGCCGCTAAATCTCAAGACCTATTGCGGCGTTTGTGGGAAAAAC
* *
766897 GCCGCTAAATATCAATACCTA
66 GCCGCTAAATCTCAACACCTA
* * * * ***
766918 TTGCGGCGTTTGTTGG-ACAAACGCCACTATATATCGTTACCTATTGCGGCGTTT
1 TTGCGGCGTTTG-TGGAAAAAACGCCGCTAAATCTCAAGACCTATTGCGGCGTTT
766972 TTTGTTACCA
Statistics
Matches: 189, Mismatches: 34, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
84 1 0.01
85 18 0.10
86 167 0.88
87 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (86 bp):
TTGCGGCGTTTGTGGAAAAAACGCCGCTAAATCTCAAGACCTATTGCGGCGTTTGTGGGAAAAAC
GCCGCTAAATCTCAACACCTA
Found at i:771830 original size:13 final size:13
Alignment explanation
Indices: 771812--771847 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
771802 GTACTAAATT
771812 ATAAAAAATTAAA
1 ATAAAAAATTAAA
*
771825 ATAAAAGATTAAA
1 ATAAAAAATTAAA
771838 ATAAAAAATT
1 ATAAAAAATT
771848 TGATAAACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (13 bp):
ATAAAAAATTAAA
Found at i:774074 original size:59 final size:58
Alignment explanation
Indices: 774011--774127 Score: 141
Period size: 59 Copynumber: 2.0 Consensus size: 58
774001 TCGAGTAATC
*
774011 ATTTTGTAACTTTTAATAATCAGAAGAC-TCAA-TAAAATAACT-CCCTATAGTCGGAGACT
1 ATTTTGTAACTTCTAATAATC-GAA-ACATCAACT-AAATAA-TACCCTATAGTCGGAGACT
* *
774070 ATTTTGTAGCTTCTAATAATCGAAACATTCAACTAAATAATACCTTATAGTCGGAGAC
1 ATTTTGTAACTTCTAATAATCGAAACA-TCAACTAAATAATACCCTATAGTCGGAGAC
774128 CATTCGTATA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
57 2 0.04
58 4 0.08
59 44 0.86
60 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (58 bp):
ATTTTGTAACTTCTAATAATCGAAACATCAACTAAATAATACCCTATAGTCGGAGACT
Found at i:775947 original size:60 final size:59
Alignment explanation
Indices: 775841--775954 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 59
775831 GTATATACAT
* * * * *
775841 ATAGTTTGGGATGAAATTAGAATGTTAAAAAATTTGAGGGTCAATTTAGAATGAAGTAA
1 ATAGTTTGGGATAAAATTAAAATATTAAAAAATTTGAGGGCCAATTTAAAATGAAGTAA
* *
775900 ATAGTTTGAGGATAAAATTAAAATATTTAAAAGTTT-AGGGCCTAATTTAAAATGA
1 ATAGTTTG-GGATAAAATTAAAATATTAAAAAATTTGAGGGCC-AATTTAAAATGA
775955 GGTCATACAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
59 13 0.28
60 33 0.72
ACGTcount: A:0.44, C:0.03, G:0.20, T:0.33
Consensus pattern (59 bp):
ATAGTTTGGGATAAAATTAAAATATTAAAAAATTTGAGGGCCAATTTAAAATGAAGTAA
Found at i:780905 original size:20 final size:21
Alignment explanation
Indices: 780880--780960 Score: 85
Period size: 20 Copynumber: 3.8 Consensus size: 21
780870 CCAGAACCCC
*
780880 AGGGGGTATCGATTCCCCT-A
1 AGGGGGAATCGATTCCCCTCA
780900 AGGGGGAAATCGATTCCCCTTCAA
1 AGGGGG-AATCGATTCCCC-TC-A
780924 AGGGGGAATCGATT-CCCTCA
1 AGGGGGAATCGATTCCCCTCA
* * *
780944 TGAGGGTATCGATTCCC
1 AGGGGGAATCGATTCCC
780961 TCTGCACCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
20 18 0.35
21 15 0.29
22 4 0.08
23 8 0.15
24 7 0.13
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (21 bp):
AGGGGGAATCGATTCCCCTCA
Found at i:780911 original size:21 final size:22
Alignment explanation
Indices: 780880--780940 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 22
780870 CCAGAACCCC
*
780880 AGGGGGTATCGATTCCCC-T-A
1 AGGGGGAATCGATTCCCCTTAA
780900 AGGGGGAAATCGATTCCCCTTCAA
1 AGGGGG-AATCGATTCCCCTT-AA
780924 AGGGGGAATCGATTCCC
1 AGGGGGAATCGATTCCC
780941 TCATGAGGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 6 0.17
21 11 0.31
22 1 0.03
23 11 0.31
24 7 0.19
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.21
Consensus pattern (22 bp):
AGGGGGAATCGATTCCCCTTAA
Found at i:786755 original size:20 final size:21
Alignment explanation
Indices: 786730--786785 Score: 96
Period size: 20 Copynumber: 2.7 Consensus size: 21
786720 CGTTGAACAG
786730 TGGGGGGAATCGGTACCCCC-
1 TGGGGGGAATCGGTACCCCCT
786750 TGGGGGGAATCGGTACCCCCT
1 TGGGGGGAATCGGTACCCCCT
786771 TGGGGGGGAATCGGT
1 T-GGGGGGAATCGGT
786786 TCCCTCTGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 20 0.59
21 1 0.03
22 13 0.38
ACGTcount: A:0.14, C:0.23, G:0.45, T:0.18
Consensus pattern (21 bp):
TGGGGGGAATCGGTACCCCCT
Found at i:788416 original size:24 final size:24
Alignment explanation
Indices: 788384--788439 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
788374 TTAATGAGTG
*
788384 AATGAATGAATATTTAGGTTAACA
1 AATGCATGAATATTTAGGTTAACA
788408 AATGCATGAATATTTAGGTTAACA
1 AATGCATGAATATTTAGGTTAACA
788432 AATGCATG
1 AATGCATG
788440 TCATAGCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (24 bp):
AATGCATGAATATTTAGGTTAACA
Found at i:789012 original size:31 final size:31
Alignment explanation
Indices: 788971--789052 Score: 146
Period size: 31 Copynumber: 2.6 Consensus size: 31
788961 TGACATGTGT
* *
788971 TATGTCACCCAAAGTGATGATGTGACATTAC
1 TATGTTACCCAAAGTGATGATATGACATTAC
789002 TATGTTACCCAAAGTGATGATATGACATTAC
1 TATGTTACCCAAAGTGATGATATGACATTAC
789033 TATGTTACCCAAAGTGATGA
1 TATGTTACCCAAAGTGATGA
789053 CGTAACATGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (31 bp):
TATGTTACCCAAAGTGATGATATGACATTAC
Found at i:789286 original size:32 final size:31
Alignment explanation
Indices: 789185--789286 Score: 75
Period size: 32 Copynumber: 3.2 Consensus size: 31
789175 TAATAACATA
* * *
789185 ACGTGTCATGTCACTTAAAATGATAATATGGCAT
1 ACGTGTCATATCACCTAAAAT-ATGATAT-G-AT
* * *
789219 A--TGTCACATCACCCAAAATATGATGT-AGT
1 ACGTGTCATATCACCTAAAATATGATATGA-T
*
789248 ATGTGTCATATCACCTAAAATAATGATATGAT
1 ACGTGTCATATCACCTAAAAT-ATGATATGAT
789280 ACGTGTC
1 ACGTGTC
789287 TCATCACTCA
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
28 1 0.02
29 2 0.04
31 21 0.40
32 27 0.51
33 1 0.02
34 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (31 bp):
ACGTGTCATATCACCTAAAATATGATATGAT
Found at i:789450 original size:30 final size:32
Alignment explanation
Indices: 789385--789452 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
789375 CTTAATGGAG
*
789385 CAAAATATAATTAATCATAGAAAATAAGGGGA
1 CAAAATATAATTAATCATAGAAAATAAGAGGA
789417 CAAAATATAATTAATCATA-AAAATAA-AGGA
1 CAAAATATAATTAATCATAGAAAATAAGAGGA
789447 CAAAAT
1 CAAAAT
789453 CAAAATAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 9 0.26
31 7 0.20
32 19 0.54
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.22
Consensus pattern (32 bp):
CAAAATATAATTAATCATAGAAAATAAGAGGA
Found at i:792679 original size:16 final size:17
Alignment explanation
Indices: 792658--792690 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
792648 ACACACTAAA
792658 TCGG-TTTCGATTTTTT
1 TCGGTTTTCGATTTTTT
792674 TCGGTTTTCGATTTTTT
1 TCGGTTTTCGATTTTTT
792691 AGATCGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.06, C:0.12, G:0.18, T:0.64
Consensus pattern (17 bp):
TCGGTTTTCGATTTTTT
Found at i:793735 original size:2 final size:2
Alignment explanation
Indices: 793730--793789 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
793720 CTTTTATAAG
793730 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
793772 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
793790 CACCATTTGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:794301 original size:16 final size:16
Alignment explanation
Indices: 794280--794321 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
794270 TATCTTACTT
794280 TTTAAAAATTAAAATA
1 TTTAAAAATTAAAATA
794296 TTTAAAAATTAAAATA
1 TTTAAAAATTAAAATA
794312 TTTAAAAATT
1 TTTAAAAATT
794322 TAATACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTAAAAATTAAAATA
Found at i:794324 original size:8 final size:8
Alignment explanation
Indices: 794280--794324 Score: 58
Period size: 7 Copynumber: 5.6 Consensus size: 8
794270 TATCTTACTT
794280 TTTAAAAA
1 TTTAAAAA
794288 -TTAAAATA
1 TTTAAAA-A
794296 TTTAAAAA
1 TTTAAAAA
794304 -TTAAAATA
1 TTTAAAA-A
794312 TTTAAAAA
1 TTTAAAAA
794320 TTTAA
1 TTTAA
794325 TACATAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 12 0.36
8 9 0.27
9 12 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTTAAAAA
Found at i:795031 original size:3 final size:3
Alignment explanation
Indices: 795023--795079 Score: 78
Period size: 3 Copynumber: 18.3 Consensus size: 3
795013 TATTCTTAAA
* *
795023 ATT ATT ATT ATT ATT AAAT ATT ATT ATT ATT AAT ATT ATAT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
795070 ATT ATT ATT A
1 ATT ATT ATT A
795080 AATAAATAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
3 43 0.90
4 5 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:795046 original size:16 final size:15
Alignment explanation
Indices: 795025--795079 Score: 83
Period size: 16 Copynumber: 3.5 Consensus size: 15
795015 TTCTTAAAAT
795025 TATTATTATTATTAAA
1 TATTATTATTATT-AA
795041 TATTATTATTATTAA
1 TATTATTATTATTAA
*
795056 TATTATATATTATTAT
1 TATTAT-TATTATTAA
795072 TATTATTA
1 TATTATTA
795080 AATAAATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
15 10 0.27
16 27 0.73
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATTATTATTAA
Found at i:795047 original size:19 final size:19
Alignment explanation
Indices: 795012--795083 Score: 92
Period size: 19 Copynumber: 3.7 Consensus size: 19
795002 TTTTTTCATT
*
795012 TTATTCTTAAA-ATTATTA
1 TTATTATTAAATATTATTA
795030 TTATTATTAAATATTATTA
1 TTATTATTAAATATTATTA
*
795049 TTATTAATATTATATATTATTA
1 TTA-T--TATTAAATATTATTA
795071 TTATTATTAAATA
1 TTATTATTAAATA
795084 AATAATTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
18 10 0.21
19 18 0.38
20 1 0.02
21 1 0.02
22 17 0.36
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATTATTAAATATTATTA
Found at i:795051 original size:22 final size:22
Alignment explanation
Indices: 795023--795079 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
795013 TATTCTTAAA
795023 ATTATTATTATTATTAAATATT
1 ATTATTATTATTATTAAATATT
* *
795045 ATTATTATTAATATTATATATT
1 ATTATTATTATTATTAAATATT
795067 ATTATTATTATTA
1 ATTATTATTATTA
795080 AATAAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTATTATTATTATTAAATATT
Found at i:802277 original size:9 final size:9
Alignment explanation
Indices: 802263--802320 Score: 73
Period size: 9 Copynumber: 6.4 Consensus size: 9
802253 CATTCATCAG
802263 AAAAAAGAA
1 AAAAAAGAA
802272 AAAAAAG-A
1 AAAAAAGAA
* *
802280 GAAAACGAA
1 AAAAAAGAA
802289 AAAAAAGAA
1 AAAAAAGAA
*
802298 GAAAAAGAA
1 AAAAAAGAA
802307 GAAAAAAGAA
1 -AAAAAAGAA
802317 AAAA
1 AAAA
802321 TGAAAGAAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 6 0.15
9 27 0.66
10 8 0.20
ACGTcount: A:0.83, C:0.02, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:802282 original size:11 final size:10
Alignment explanation
Indices: 802263--802335 Score: 56
Period size: 12 Copynumber: 6.5 Consensus size: 10
802253 CATTCATCAG
802263 AAAAAAGAAA
1 AAAAAAGAAA
802273 AAAAAGAGAAA
1 AAAAA-AGAAA
*
802284 ACGAAAAAAAAGA
1 A--AAAAAGAA-A
*
802297 AGAAAAAGAAG
1 A-AAAAAGAAA
802308 AAAAAAGAAA
1 AAAAAAGAAA
802318 AAATGAAAGAAGA
1 AAA--AAAGAA-A
802331 AAAAA
1 AAAAA
802336 TTGAATCAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
10 16 0.31
11 9 0.17
12 17 0.33
13 10 0.19
ACGTcount: A:0.81, C:0.01, G:0.16, T:0.01
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:802284 original size:18 final size:17
Alignment explanation
Indices: 802263--802325 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
802253 CATTCATCAG
802263 AAAAAAGAAAAAAAAGA
1 AAAAAAGAAAAAAAAGA
* *
802280 GAAAACGAAAAAAAAGA
1 AAAAAAGAAAAAAAAGA
802297 AGAAAAAGAAGAAAAAAGA
1 A-AAAAAGAA-AAAAAAGA
*
802316 AAAAATGAAA
1 AAAAAAGAAA
802326 GAAGAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
17 16 0.41
18 14 0.36
19 9 0.23
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAAAAAAAGA
Found at i:802292 original size:26 final size:28
Alignment explanation
Indices: 802263--802320 Score: 84
Period size: 26 Copynumber: 2.1 Consensus size: 28
802253 CATTCATCAG
*
802263 AAAAAAGAAAAAAAAG-AG-AAAACGAA
1 AAAAAAGAAAAAAAAGAAGAAAAAAGAA
*
802289 AAAAAAGAAGAAAAAGAAGAAAAAAGAA
1 AAAAAAGAAAAAAAAGAAGAAAAAAGAA
802317 AAAA
1 AAAA
802321 TGAAAGAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 15 0.54
27 2 0.07
28 11 0.39
ACGTcount: A:0.83, C:0.02, G:0.16, T:0.00
Consensus pattern (28 bp):
AAAAAAGAAAAAAAAGAAGAAAAAAGAA
Found at i:802335 original size:16 final size:16
Alignment explanation
Indices: 802292--802340 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
802282 AAACGAAAAA
802292 AAAGAAGAAAAAGAA-G
1 AAAGAAGAAAAA-AATG
*
802308 AAAAAAG-AAAAAATG
1 AAAGAAGAAAAAAATG
*
802323 AAAGAAGAAAAAATTG
1 AAAGAAGAAAAAAATG
802339 AA
1 AA
802341 TCAAGATGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 11 0.39
16 15 0.54
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (16 bp):
AAAGAAGAAAAAAATG
Found at i:804802 original size:75 final size:74
Alignment explanation
Indices: 804708--804880 Score: 190
Period size: 75 Copynumber: 2.3 Consensus size: 74
804698 ATTGGCAAGA
* * *
804708 AACAAAT-ACTGGGGTATGCTGAAAGCCCATTTTAATCAGAA-ATTGGAATATTGACGCATTTTG
1 AACAAATGA-TGGGGCATGCTGAAAGCCC-TTTCAATCAGAATA-AGGAATATTGACGCATTTTG
804771 AATGTTTGTATC
63 AATGTTTGTATC
* * * * *
804783 AGA-AAATGATGGGGCATGCTAAAAATCCCTTTCAATCAGAATAAGGAATGTTGATGTATTTTGA
1 A-ACAAATGATGGGGCATGCT-GAAAGCCCTTTCAATCAGAATAAGGAATATTGACGCATTTTGA
804847 ATGTTTGTATC
64 ATGTTTGTATC
* *
804858 AACAAATGTTGGGCCATGCTGAA
1 AACAAATGATGGGGCATGCTGAA
804881 GGTCTATATT
Statistics
Matches: 82, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
74 3 0.04
75 70 0.85
76 9 0.11
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (74 bp):
AACAAATGATGGGGCATGCTGAAAGCCCTTTCAATCAGAATAAGGAATATTGACGCATTTTGAAT
GTTTGTATC
Found at i:805837 original size:54 final size:53
Alignment explanation
Indices: 805754--805964 Score: 253
Period size: 54 Copynumber: 3.9 Consensus size: 53
805744 TGATTGAGAA
* * * *
805754 ATCTGGGCAGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATATTTTTCAAAC
1 ATCTGTGCAGAAACCACAAGAAA-GATGAATGTGTTGTCAAATGTTTTACAAAC
* *
805808 ATCTGTGCAGAAACCACAGGAAAGCATGAAAGTGTTGTCAAATGTTTTACAAAC
1 ATCTGTGCAGAAACCACAAGAAAG-ATGAATGTGTTGTCAAATGTTTTACAAAC
* * *
805862 ATCTGTGCAGAAACCACAGGAAATGATGAATATTTTGTCAAATGTTTTACAAAC
1 ATCTGTGCAGAAACCACAAGAAA-GATGAATGTGTTGTCAAATGTTTTACAAAC
** * *
805916 ATCTG-GACAGAAGTCACAAGAAAATATGAACGTGTTGTCAAATGTTTTA
1 ATCTGTG-CAGAAACCACAAG-AAAGATGAATGTGTTGTCAAATGTTTTA
805965 TGAACCAGTG
Statistics
Matches: 137, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
53 2 0.01
54 131 0.96
55 4 0.03
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (53 bp):
ATCTGTGCAGAAACCACAAGAAAGATGAATGTGTTGTCAAATGTTTTACAAAC
Found at i:805945 original size:108 final size:108
Alignment explanation
Indices: 805754--805964 Score: 280
Period size: 108 Copynumber: 2.0 Consensus size: 108
805744 TGATTGAGAA
* * *
805754 ATCTGGGCAGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATATTTTTCAAACATCTGTGCAGA
1 ATCTGGGCAGAAACCACAAGAAAGGATGAATATGTTGTCAAATATTTTACAAACATCTGTGCAGA
* *
805819 AACCACAGGAAAGCATGAAAGTGTTGTCAAATGTTTTACAAAC
66 AACCACAAGAAAACATGAAAGTGTTGTCAAATGTTTTACAAAC
* * * * *
805862 ATCTGTGCAGAAACCACAGGAAATGATGAATATTTTGTCAAATGTTTTACAAACATCTG-GACAG
1 ATCTGGGCAGAAACCACAAGAAAGGATGAATATGTTGTCAAATATTTTACAAACATCTGTG-CAG
** * *
805926 AAGTCACAAGAAAATATGAACGTGTTGTCAAATGTTTTA
65 AAACCACAAGAAAACATGAAAGTGTTGTCAAATGTTTTA
805965 TGAACCAGTG
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
107 1 0.01
108 87 0.99
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (108 bp):
ATCTGGGCAGAAACCACAAGAAAGGATGAATATGTTGTCAAATATTTTACAAACATCTGTGCAGA
AACCACAAGAAAACATGAAAGTGTTGTCAAATGTTTTACAAAC
Found at i:807209 original size:45 final size:45
Alignment explanation
Indices: 807153--807435 Score: 487
Period size: 45 Copynumber: 6.3 Consensus size: 45
807143 TAGATCTTTT
* *
807153 TGATATTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
807198 TGATGTTTTCAAAACCCTCGGTTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
807243 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
807288 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAG-CCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
807332 TGATGTTTTCAAAACCCTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
807377 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
807422 GGATGTTTTCAAAA
1 TGATGTTTTCAAAA
807436 AAGCCTTCGG
Statistics
Matches: 226, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
44 43 0.19
45 183 0.81
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:807399 original size:134 final size:136
Alignment explanation
Indices: 807158--807567 Score: 570
Period size: 134 Copynumber: 3.1 Consensus size: 136
807148 CTTTTTGATA
* *
807158 TTTTC-AAAA-CCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCCTCGGTT
1 TTTTCAAAAAGCCTTCGGGTCATCTGTAAG-CCTTCAGTGCATGATGTTTTCAAAACCCTCGGGT
* *
807221 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
65 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTG
*
807286 CATGATG
130 CAGGATG
807293 TTTTC-AAAA-CCTTCGGGTCATCTGTAAGCCTTCAGTGCATGATGTTTTCAAAACCCTCGGGTC
1 TTTTCAAAAAGCCTTCGGGTCATCTGTAAGCCTTCAGTGCATGATGTTTTCAAAACCCTCGGGTC
807356 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGC
66 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGC
807421 AGGATG
131 AGGATG
* * *
807427 TTTTCAAAAAAGCCTTCGGG--AGCT-T-----TT---TG-AT-A--TTTTCAAAACCTTCAGGT
1 TTTTC-AAAAAGCCTTCGGGTCATCTGTAAGCCTTCAGTGCATGATGTTTTCAAAACCCTCGGGT
* * *
807477 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTG
65 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTG
807542 CAGGATG
130 CAGGATG
807549 TTTTCAAAAAGCCTTCGGG
1 TTTTCAAAAAGCCTTCGGG
807568 AGCTTTTTGA
Statistics
Matches: 261, Mismatches: 11, Indels: 20
0.89 0.04 0.07
Matches are distributed among these distances:
121 14 0.05
122 90 0.34
124 1 0.00
125 2 0.01
126 2 0.01
129 2 0.01
134 108 0.41
135 30 0.11
136 4 0.02
137 8 0.03
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (136 bp):
TTTTCAAAAAGCCTTCGGGTCATCTGTAAGCCTTCAGTGCATGATGTTTTCAAAACCCTCGGGTC
ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGC
AGGATG
Found at i:807508 original size:45 final size:45
Alignment explanation
Indices: 807454--807557 Score: 154
Period size: 45 Copynumber: 2.3 Consensus size: 45
807444 GGGAGCTTTT
* ** * *
807454 TGATATTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTGCA
807499 TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTGCA
*
807544 GGATGTTTTCAAAA
1 TGATGTTTTCAAAA
807558 AGCCTTCGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTGCA
Found at i:807554 original size:122 final size:120
Alignment explanation
Indices: 807332--807624 Score: 460
Period size: 122 Copynumber: 2.4 Consensus size: 120
807322 CTTCAGTGCA
*
807332 TGATGTTTTCAAAACCCTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAA-CCTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCA
* *
807397 GGTCATCTATAAGCCCTACAGTGCAGGATGTTTTCAAAAAAGCCTTCGGGAGCTTTT
65 GGTCATCCATAAGACCTACAGTGCAGGATGTTTTC-AAAAAGCCTTCGGGAGCTTTT
* *
807454 TGATATTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCA
1 TGATGTTTTCAAAACC-TCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCA
807519 GGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
65 GGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
* * * * *
807575 TGATGTTTTTAAAGCCTCTGGGTCATCTGTAAGACCTACAGTGCAAGATG
1 TGATGTTTTCAAAACCTC-GGGTCATCTGTAAGCCCTTCAGTGCATGATG
807625 ATAAGACCTC
Statistics
Matches: 157, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
120 2 0.01
121 63 0.40
122 92 0.59
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (120 bp):
TGATGTTTTCAAAACCTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAG
GTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
Found at i:807795 original size:3 final size:3
Alignment explanation
Indices: 807787--807847 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
807777 TATTCTTAAA
* * **
807787 ATT ATT ATT ATT GTT ATT AAAT ATT ATT ATT AAA ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
807833 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
807848 TATAGGCCCA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 47 0.96
4 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:813683 original size:12 final size:12
Alignment explanation
Indices: 813666--813690 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
813656 AAGAGTTGAT
813666 AAGTTTAATTTG
1 AAGTTTAATTTG
813678 AAGTTTAATTTG
1 AAGTTTAATTTG
813690 A
1 A
813691 CTTGTCATCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (12 bp):
AAGTTTAATTTG
Found at i:821001 original size:21 final size:21
Alignment explanation
Indices: 820975--821028 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
820965 GTTTCCAGAT
820975 TCGCAAAGCGAACTTCGACTA
1 TCGCAAAGCGAACTTCGACTA
* *
820996 TCGCAACGCGAACTTGGACTA
1 TCGCAAAGCGAACTTCGACTA
*
821017 TCGCAATGCGAA
1 TCGCAAAGCGAA
821029 TATGTAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (21 bp):
TCGCAAAGCGAACTTCGACTA
Found at i:821067 original size:21 final size:21
Alignment explanation
Indices: 821037--821138 Score: 104
Period size: 21 Copynumber: 4.9 Consensus size: 21
821027 AATATGTAAA
*
821037 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
* *
821058 TCGCGTTGCGATAGTCG-ACT
1 TCGCATTGCGATAGTCGAAGT
*
821078 ATCGCATTGCGAT-TTAC-ATA-T
1 -TCGCATTGCGATAGT-CGA-AGT
*
821099 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
821120 TCGCATTGCGATAGTCGAA
1 TCGCATTGCGATAGTCGAA
821139 TAGTCCAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
20 17 0.25
21 49 0.73
22 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:821089 original size:62 final size:62
Alignment explanation
Indices: 821012--821137 Score: 168
Period size: 62 Copynumber: 2.0 Consensus size: 62
821002 CGCGAACTTG
* *
821012 GACTATCGCAATGCGAATATGTA-A-A-TCGCAATGCGATAGTCGAAGTTCGCGTTGCGATAGTC
1 GACTATCGCAATGCG-AT-T-TACATATTCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTC
* *
821074 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
1 GACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTC
821136 GA
1 GA
821138 ATAGTCCAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
59 2 0.04
60 2 0.04
61 3 0.05
62 50 0.88
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.29
Consensus pattern (62 bp):
GACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTC
Found at i:821945 original size:42 final size:42
Alignment explanation
Indices: 821886--822025 Score: 253
Period size: 42 Copynumber: 3.3 Consensus size: 42
821876 CGTTGCGATT
821886 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
*
821928 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* *
821970 TTCGACTATCTCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
822012 TTGGACTATCGCAA
1 TTGGACTATCGCAA
822026 TGCGAATATG
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 92 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (42 bp):
TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
Found at i:822022 original size:21 final size:20
Alignment explanation
Indices: 821886--822031 Score: 127
Period size: 21 Copynumber: 7.0 Consensus size: 20
821876 CGTTGCGATT
821886 TTGGACTATCGCAA-CGAAC
1 TTGGACTATCGCAAGCGAAC
*
821905 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
*
821928 TTGGACTATCGCAA-CGAAT
1 TTGGACTATCGCAAGCGAAC
*
821947 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
* *
821970 TTCGACTATCTCAA-CGAAC
1 TTGGACTATCGCAAGCGAAC
*
821989 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
822012 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAA-GCGAA
822032 TATGTAAATC
Statistics
Matches: 102, Mismatches: 13, Indels: 22
0.74 0.09 0.16
Matches are distributed among these distances:
19 26 0.25
21 45 0.44
23 31 0.30
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
TTGGACTATCGCAAGCGAAC
Found at i:828210 original size:20 final size:19
Alignment explanation
Indices: 828173--828214 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
828163 AGTTTTCATG
828173 AAAACAACACAATTAAATCA
1 AAAACAACACAATTAAAT-A
*
828193 AAAACAACA-ATTTAAAATA
1 AAAACAACACAATT-AAATA
828212 AAA
1 AAA
828215 TATTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAACAACACAATTAAATA
Found at i:828690 original size:18 final size:19
Alignment explanation
Indices: 828661--828720 Score: 77
Period size: 18 Copynumber: 3.1 Consensus size: 19
828651 TTCAAGGAAT
*
828661 GTATCGGTACACATTTCTA
1 GTATCGGTACACATTTATA
828680 GTATC-GTACACATTTATA
1 GTATCGGTACACATTTATA
*
828698 GTGTATCGGTACATATTTATA
1 --GTATCGGTACACATTTATA
828719 GT
1 GT
828721 GTATCGATAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 12 0.33
19 7 0.19
20 5 0.14
21 12 0.33
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (19 bp):
GTATCGGTACACATTTATA
Found at i:828715 original size:21 final size:21
Alignment explanation
Indices: 828660--828731 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
828650 ATTCAAGGAA
*
828660 TGTATCGGTACACATTTCTA-
1 TGTATCGGTACACATTTATAG
828680 -GTATC-GTACACATTTATAG
1 TGTATCGGTACACATTTATAG
*
828699 TGTATCGGTACATATTTATAG
1 TGTATCGGTACACATTTATAG
*
828720 TGTATCGATACA
1 TGTATCGGTACA
828732 TAGCGAGGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
18 12 0.26
19 5 0.11
20 5 0.11
21 24 0.52
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (21 bp):
TGTATCGGTACACATTTATAG
Found at i:831328 original size:36 final size:36
Alignment explanation
Indices: 831288--831419 Score: 196
Period size: 36 Copynumber: 3.7 Consensus size: 36
831278 ACGGTGCTGG
*
831288 ACATTGATACACGAATGTACCAAAGTTGTTATGATA
1 ACATTGATACACGAATGTACCAAAGTTGATATGATA
*
831324 ACATTGATACTA-TAATGTACCAAAGCTT-ATATGATA
1 ACATTGATAC-ACGAATGTACCAAAG-TTGATATGATA
*
831360 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGTTGATATGATA
*
831396 ACATTGATACACGAATGTATCAAA
1 ACATTGATACACGAATGTACCAAA
831420 CCTAATAATA
Statistics
Matches: 87, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
35 2 0.02
36 82 0.94
37 3 0.03
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGTTGATATGATA
Found at i:834010 original size:12 final size:12
Alignment explanation
Indices: 833993--834017 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
833983 ATGATGGTTC
833993 TCCAACGTCATG
1 TCCAACGTCATG
834005 TCCAACGTCATG
1 TCCAACGTCATG
834017 T
1 T
834018 GTATTTACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TCCAACGTCATG
Found at i:834591 original size:20 final size:19
Alignment explanation
Indices: 834535--834591 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
834525 TTCAGACCGC
*
834535 GAATTTTATTTTCGCAACT
1 GAATTTTAATTTCGCAACT
* *
834554 CAATTTCCGAATTT-GCAACAT
1 GAATTT--TAATTTCGCAAC-T
834575 GAATTTTAATTTCGCAA
1 GAATTTTAATTTCGCAA
834592 AATAGCTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 10 0.34
20 9 0.31
21 10 0.34
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.40
Consensus pattern (19 bp):
GAATTTTAATTTCGCAACT
Found at i:834753 original size:22 final size:22
Alignment explanation
Indices: 834724--834785 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
834714 TCTCTATCTT
*
834724 TGGCGACATCCGTCCCCAAATC
1 TGGCGACATCCATCCCCAAATC
*
834746 TGGTGACATCCATCCCCAAATC
1 TGGCGACATCCATCCCCAAATC
834768 TGGCGACATCCATCCCCA
1 TGGCGACATCCATCCCCA
834786 TATTCGACGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.24, C:0.40, G:0.16, T:0.19
Consensus pattern (22 bp):
TGGCGACATCCATCCCCAAATC
Found at i:835170 original size:15 final size:15
Alignment explanation
Indices: 835152--835184 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
835142 CTTGAAACTT
835152 AAATTCGCAACACGA
1 AAATTCGCAACACGA
*
835167 AAA-TCGCAACTCGA
1 AAATTCGCAACACGA
835181 AAAT
1 AAAT
835185 GAAAATCGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
14 13 0.81
15 3 0.19
ACGTcount: A:0.48, C:0.24, G:0.12, T:0.15
Consensus pattern (15 bp):
AAATTCGCAACACGA
Found at i:835190 original size:20 final size:20
Alignment explanation
Indices: 835165--835234 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
835155 TTCGCAACAC
*
835165 GAAAATCGCAACTCGAAAAT
1 GAAAATCGCAACTCGAAAAA
*
835185 GAAAATCGCAACTCGAAAAC
1 GAAAATCGCAACTCGAAAAA
*
835205 GAAAATCACAACTCGAAAAA
1 GAAAATCGCAACTCGAAAAA
*
835225 GAAATTCGCA
1 GAAAATCGCA
835235 TTGCGAATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.51, C:0.21, G:0.14, T:0.13
Consensus pattern (20 bp):
GAAAATCGCAACTCGAAAAA
Found at i:835202 original size:14 final size:14
Alignment explanation
Indices: 835156--835223 Score: 50
Period size: 14 Copynumber: 5.0 Consensus size: 14
835146 AAACTTAAAT
*
835156 TCGCAACACGAAAA
1 TCGCAACTCGAAAA
835170 TCGCAACTCGAAAA
1 TCGCAACTCGAAAA
* * * *
835184 T-GAAAATCGCAAC
1 TCGCAACTCGAAAA
**
835197 TCG-AAAACGAAAA
1 TCGCAACTCGAAAA
*
835210 TCACAACTCGAAAA
1 TCGCAACTCGAAAA
835224 AGAAATTCGC
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
13 18 0.44
14 23 0.56
ACGTcount: A:0.50, C:0.25, G:0.13, T:0.12
Consensus pattern (14 bp):
TCGCAACTCGAAAA
Found at i:836755 original size:42 final size:42
Alignment explanation
Indices: 836696--836823 Score: 202
Period size: 42 Copynumber: 3.0 Consensus size: 42
836686 CCCCACTTTT
*
836696 TCATCGAGTCGATTCTCCACTTCGACACTGAGATCCATCACC
1 TCATCGAGTCGATTCTCCACTTCGACACCGAGATCCATCACC
*
836738 TCATCGAGTCGATTCTCCACTTCGACTCCGAGATCCATCACC
1 TCATCGAGTCGATTCTCCACTTCGACACCGAGATCCATCACC
* * * *
836780 TCATCGAGCCGATTCTACACCTCGACACCGAGAGCCATCACC
1 TCATCGAGTCGATTCTCCACTTCGACACCGAGATCCATCACC
836822 TC
1 TC
836824 TCTACACCTC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.23
Consensus pattern (42 bp):
TCATCGAGTCGATTCTCCACTTCGACACCGAGATCCATCACC
Found at i:836828 original size:31 final size:31
Alignment explanation
Indices: 836793--836853 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
836783 TCGAGCCGAT
836793 TCTACACCTCGACACCGAGAGCCATCACCTC
1 TCTACACCTCGACACCGAGAGCCATCACCTC
* *
836824 TCTACACCTCGACATCGAGATCCATCACCT
1 TCTACACCTCGACACCGAGAGCCATCACCT
836854 ATTCCATCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.26, C:0.43, G:0.11, T:0.20
Consensus pattern (31 bp):
TCTACACCTCGACACCGAGAGCCATCACCTC
Done.