Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 194 of 221
Found at i:56810837 original size:29 final size:28
Alignment explanation
Indices: 56810804--56810890 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
56810794 TCATAAGAAC
56810804 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
56810833 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
56810857 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
56810887 ATTT
1 ATTT
56810891 CAAATTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:56811101 original size:137 final size:138
Alignment explanation
Indices: 56810947--56811368 Score: 418
Period size: 137 Copynumber: 2.9 Consensus size: 138
56810937 TAAGAATATG
* *
56810947 AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
* * * *
56811012 AATACGATTAAATTATTTATTATTGATATTAATTATCTTATTAAAATTTAAATAACAATAACAAA
66 AATACGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
56811077 TTTCTGCT
131 TTTCTGCT
****
56811085 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
* *
56811149 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAAT
66 AATACGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAAC-A-
*
56811214 AATCATT-TACCAAAAT
129 AAT--TTCT-GC----T
** * ** * * ** * *
56811230 AATT-TTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTAT
1 AATTATTAAG--AATTTTATTAA-ATTA-TATACCA-A-A-ATTAA----AATATATTTAATAAT
*
56811294 AATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATA
55 AATTATGTTTAAATACGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATA
56811359 ACAATAACAA
120 ACAATAACAA
56811369 TAATCATTTA
Statistics
Matches: 238, Mismatches: 25, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
137 109 0.46
138 6 0.03
139 3 0.01
140 1 0.00
141 3 0.01
145 7 0.03
147 8 0.03
148 3 0.01
149 5 0.02
151 1 0.00
152 4 0.02
154 1 0.00
155 1 0.00
156 86 0.36
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
AATACGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
TTTCTGCT
Found at i:56811123 original size:18 final size:17
Alignment explanation
Indices: 56811095--56811129 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56811085 AATTATAAGA
*
56811095 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
56811112 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
56811130 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:56811194 original size:70 final size:68
Alignment explanation
Indices: 56810981--56811195 Score: 156
Period size: 70 Copynumber: 3.1 Consensus size: 68
56810971 ATATACCAAA
* * * * *
56810981 ATTATAATGTATTTAATAATAATTATGTTTAAATACGATTAAATTATTTATTATTGATATTAATT
1 ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTA-TGATAATAA-T
56811046 ATCTT
64 ATCTT
* ** * ** * * *
56811051 ATTAAAATTTAAATAACAATAACAAAT-TTCTGCTAAT-T-A-TAAGAAT-TTTATTA-AATTAT
1 ATTAAAATATATTTAATAATAA-TTATGTT-T--AAATATGATTAA-AATATTTATTATGATAAT
*
56811110 -ATATTTT
61 AATATCTT
56811117 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 -ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTA-TGATAATAAT
56811182 AATCTT
64 -ATCTT
56811188 ATTAAAAT
1 ATTAAAAT
56811196 TTAAATAACA
Statistics
Matches: 106, Mismatches: 24, Indels: 30
0.66 0.15 0.19
Matches are distributed among these distances:
64 3 0.03
65 1 0.01
66 12 0.11
67 31 0.29
68 3 0.03
69 4 0.04
70 39 0.37
71 10 0.09
73 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (68 bp):
ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTATGATAATAATAT
CTT
Found at i:56811201 original size:50 final size:51
Alignment explanation
Indices: 56811145--56811358 Score: 122
Period size: 50 Copynumber: 4.2 Consensus size: 51
56811135 AATAATTATG
56811145 TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTT-ATTAAAA
1 TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
** * * * * ** *
56811195 TTTAAATAACATTAACAATAATCATTTAC-CAAAATAATTTTCTGCTAATTATAA
1 TTTAAATATGATTAA-AATATTTA-TTACTGATAATAATAATCT--TAATTAAAA
* * * * * * *
56811249 ---GAATTTTATTAAATTATATATT-TTAATTAA-AATATAT-TTAATTATAATTA
1 TTTAAATATGATTAAAATATTTATTACTGA-TAATAATA-ATCTTAATTA-AA--A
56811299 TGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTT-ATTAAAA
1 --TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
56811351 TTTAAATA
1 TTTAAATA
56811359 ACAATAACAA
Statistics
Matches: 115, Mismatches: 30, Indels: 38
0.63 0.16 0.21
Matches are distributed among these distances:
47 6 0.05
48 1 0.01
49 7 0.06
50 29 0.25
51 24 0.21
52 5 0.04
53 1 0.01
54 8 0.07
55 26 0.23
56 8 0.07
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (51 bp):
TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
Found at i:56811253 original size:156 final size:156
Alignment explanation
Indices: 56811071--56811398 Score: 611
Period size: 156 Copynumber: 2.1 Consensus size: 156
56811061 AAATAACAAT
*
56811071 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
56811136 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
*
56811201 TAACATTAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
* *
56811227 AATAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
56811292 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
56811357 TAACAATAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
56811383 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
56811399 GGGTATTCTA
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 166 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (156 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
TAACAATAACAATAATCATTTACCAA
Found at i:56811279 original size:18 final size:18
Alignment explanation
Indices: 56811251--56811299 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
56811241 AATTATAAGA
56811251 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
56811268 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
56811284 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
56811300 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:56811285 original size:16 final size:16
Alignment explanation
Indices: 56811251--56811305 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
56811241 AATTATAAGA
56811251 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
56811268 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
56811284 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
56811298 ATGTTTAA
1 AT-TTTAA
56811306 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:56811515 original size:44 final size:45
Alignment explanation
Indices: 56811450--56811540 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
56811440 ACCTCTATTC
* * *
56811450 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
56811494 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
56811539 CA
1 CA
56811541 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:56811542 original size:16 final size:16
Alignment explanation
Indices: 56811521--56811588 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
56811511 GATTAGCTAT
56811521 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56811537 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
56811553 TACACATCTAATTCAA
1 TACACCTCTAATCCAA
56811569 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56811585 TACA
1 TACA
56811589 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.40, C:0.34, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:56813484 original size:27 final size:26
Alignment explanation
Indices: 56813432--56813486 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
56813422 AAAAAACATG
*
56813432 TATATGTGTTAAGCATTTGAGGTGCT
1 TATATGTGTTAAACATTTGAGGTGCT
*
56813458 TATATGTGTACTAAACA-TTGAGTTGCT
1 TATATGTGT--TAAACATTTGAGGTGCT
56813485 TA
1 TA
56813487 GCAAATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.36
27 11 0.44
28 5 0.20
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (26 bp):
TATATGTGTTAAACATTTGAGGTGCT
Found at i:56816227 original size:19 final size:20
Alignment explanation
Indices: 56816203--56816241 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
56816193 AGCTTAAAAT
*
56816203 GGTATCGGTACCTA-TATGG
1 GGTATCGATACCTATTATGG
56816222 GGTATCGATACCTATTATGG
1 GGTATCGATACCTATTATGG
56816242 AAACTTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (20 bp):
GGTATCGATACCTATTATGG
Found at i:56818027 original size:50 final size:50
Alignment explanation
Indices: 56817924--56818164 Score: 284
Period size: 50 Copynumber: 4.7 Consensus size: 50
56817914 AAAGAGATCT
* *
56817924 CATGTAAGACCATGTCTAGGAAATGGCATTGGCATCCTTGAGATCATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATGAGAGGTCC
* *
56817980 CATGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
*
56818030 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** * ** * * **
56818080 CCCGTAAGACCATGTCTAGGACATGGCACGGGCACTGATATGAGAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-AGGTCC
*
56818131 CATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
56818165 TGTTATGATC
Statistics
Matches: 164, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
50 96 0.59
51 32 0.20
53 3 0.02
55 2 0.01
56 31 0.19
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:56819861 original size:16 final size:15
Alignment explanation
Indices: 56819829--56819879 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
56819819 TTCAATAAAA
*
56819829 TTAAAAGGACAAGTGT
1 TTAAAAGGA-AAATGT
56819845 TTAATAAGGAAAATGT
1 TTAA-AAGGAAAATGT
* *
56819861 TTAAGAGTAAAATGT
1 TTAAAAGGAAAATGT
56819876 TTAA
1 TTAA
56819880 TAATAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.42
16 13 0.42
17 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (15 bp):
TTAAAAGGAAAATGT
Found at i:56819886 original size:15 final size:15
Alignment explanation
Indices: 56819842--56819888 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
56819832 AAAGGACAAG
*
56819842 TGTTTAATAAGGAAAA
1 TGTTTAATAA-TAAAA
* *
56819858 TGTTTAAGAGTAAAA
1 TGTTTAATAATAAAA
56819873 TGTTTAATAATAAAA
1 TGTTTAATAATAAAA
56819888 T
1 T
56819889 TAAAAAACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 18 0.69
16 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (15 bp):
TGTTTAATAATAAAA
Found at i:56824738 original size:33 final size:34
Alignment explanation
Indices: 56824696--56824854 Score: 101
Period size: 33 Copynumber: 4.7 Consensus size: 34
56824686 CTATGAAATT
* *
56824696 ATAAGACCATAGTTAGGCTATGGCATTCT-GATG
1 ATAAGACCATAGTTAGGTTATGGCATTATAGATG
**** * * *
56824729 ATAAGACCATAACCGGGTTATGGCATAATGGA-C
1 ATAAGACCATAGTTAGGTTATGGCATTATAGATG
* *** *
56824762 ATAAGACCATGGTTAGACCATGGCAGTGTATACATG
1 ATAAGACCATAGTTAGGTTATGGCA-T-TATAGATG
* *
56824798 -TAAGACCATAGCTAGGTTATGGCATTCTA-ATG
1 ATAAGACCATAGTTAGGTTATGGCATTATAGATG
* * *
56824830 ATAAGACTATAATTATGTTATGGCA
1 ATAAGACCATAGTTAGGTTATGGCA
56824855 CTATGAACGT
Statistics
Matches: 91, Mismatches: 30, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
32 3 0.03
33 62 0.68
34 4 0.04
35 22 0.24
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (34 bp):
ATAAGACCATAGTTAGGTTATGGCATTATAGATG
Found at i:56824884 original size:101 final size:101
Alignment explanation
Indices: 56824697--56824887 Score: 242
Period size: 101 Copynumber: 1.9 Consensus size: 101
56824687 TATGAAATTA
* * * *
56824697 TAAGACCATAGTTAGGCTATGGCATTCTGATGATAAGACCATAACCGGGTTATGGCATAATGGAC
1 TAAGACCATAGCTAGGCTATGGCATTCTAATGATAAGACCATAACCAGGTTATGGCATAATGAAC
*
56824762 ATAAGACCATGGTTAGACCATGGCAGTGTATACATG
66 ATAAGACCATGGTCAGACCATGGCAGTGTATACATG
* * ** *
56824798 TAAGACCATAGCTAGGTTATGGCATTCTAATGATAAGACTATAATTATGTTATGGCACT-ATGAA
1 TAAGACCATAGCTAGGCTATGGCATTCTAATGATAAGACCATAACCAGGTTATGGCA-TAATGAA
* *
56824862 CGTAAGACCATGG-CAGGGCCATGGCA
65 CATAAGACCATGGTCA-GACCATGGCA
56824888 ATGCGCATGT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
100 1 0.01
101 74 0.97
102 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (101 bp):
TAAGACCATAGCTAGGCTATGGCATTCTAATGATAAGACCATAACCAGGTTATGGCATAATGAAC
ATAAGACCATGGTCAGACCATGGCAGTGTATACATG
Found at i:56827105 original size:15 final size:17
Alignment explanation
Indices: 56827085--56827118 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
56827075 ATTTATTTAT
56827085 AAATTTTA-ATT-TAAA
1 AAATTTTATATTCTAAA
56827100 AAATTTTATATTCTAAA
1 AAATTTTATATTCTAAA
56827117 AA
1 AA
56827119 TTCAAAACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 3 0.18
17 6 0.35
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATTTTATATTCTAAA
Found at i:56827476 original size:20 final size:20
Alignment explanation
Indices: 56827453--56827494 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
56827443 TAATTTTTTT
*
56827453 ATTTTTTATTTTTAATTTAA
1 ATTTTATATTTTTAATTTAA
*
56827473 ATTTTATATTTTTATTTTAA
1 ATTTTATATTTTTAATTTAA
56827493 AT
1 AT
56827495 AAATTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTATATTTTTAATTTAA
Found at i:56830773 original size:20 final size:22
Alignment explanation
Indices: 56830750--56830805 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 22
56830740 TTAAAAACCC
56830750 ATTTTATTATTT-AAAA-TAAT
1 ATTTTATTATTTAAAAATTAAT
*
56830770 ATTTTATTTTTTAAAAAATTAAT
1 ATTTTATTATTT-AAAAATTAAT
56830793 ATTTTATATATTT
1 ATTTTAT-TATTT
56830806 TATTATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 11 0.37
22 4 0.13
23 11 0.37
24 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTTATTATTTAAAAATTAAT
Found at i:56831867 original size:10 final size:11
Alignment explanation
Indices: 56831850--56831875 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
56831840 AAAGATCGAA
56831850 GTTTTTTTTTT
1 GTTTTTTTTTT
56831861 GTTTTTTTTTT
1 GTTTTTTTTTT
56831872 GTTT
1 GTTT
56831876 ACCTCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:56837615 original size:169 final size:169
Alignment explanation
Indices: 56837336--56837676 Score: 646
Period size: 169 Copynumber: 2.0 Consensus size: 169
56837326 GTCACCAAGT
56837336 GGTACAACTAACTAAGCCATGCTAAAATCAACTCATGGAAAGACCTGACACAGGCTTTAATGAAA
1 GGTACAACTAACTAAGCCATGCTAAAATCAACTCATGGAAAGACCTGACACAGGCTTTAATGAAA
*
56837401 TAATACAGCCATGTGACCAATATGACACCTGATAGAATTACGTTGCAAAACATGGAAAAAAAGCC
66 CAATACAGCCATGTGACCAATATGACACCTGATAGAATTACGTTGCAAAACATGGAAAAAAAGCC
56837466 AAGTGAAAGCTTTAAGTAGTACGTTCAAAGATGGAGAGA
131 AAGTGAAAGCTTTAAGTAGTACGTTCAAAGATGGAGAGA
*
56837505 GGTACAACTAACTAAGCCGTGCTAAAATCAACTCATGGAAAGACCTGACACAGGCTTTAATGAAA
1 GGTACAACTAACTAAGCCATGCTAAAATCAACTCATGGAAAGACCTGACACAGGCTTTAATGAAA
* *
56837570 CAATATAGCCATGTGACCAATATGACACCTGATAGAATTACGTTGCAAAACATGGAAAAGAAGCC
66 CAATACAGCCATGTGACCAATATGACACCTGATAGAATTACGTTGCAAAACATGGAAAAAAAGCC
56837635 AAGTGAAAGCTTTAAGTAGTACGTTCAAAGATGGAGAGA
131 AAGTGAAAGCTTTAAGTAGTACGTTCAAAGATGGAGAGA
56837674 GGT
1 GGT
56837677 GGCAATAAAA
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
169 168 1.00
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (169 bp):
GGTACAACTAACTAAGCCATGCTAAAATCAACTCATGGAAAGACCTGACACAGGCTTTAATGAAA
CAATACAGCCATGTGACCAATATGACACCTGATAGAATTACGTTGCAAAACATGGAAAAAAAGCC
AAGTGAAAGCTTTAAGTAGTACGTTCAAAGATGGAGAGA
Found at i:56844874 original size:45 final size:45
Alignment explanation
Indices: 56844766--56845117 Score: 370
Period size: 45 Copynumber: 7.9 Consensus size: 45
56844756 CAGCATGACG
** * **
56844766 AATCTTATCTTTCTGAAGTTGCAGTGGAGCA-AGTTTAAGCCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATAGCA
* * *
56844810 AATCTTATCTCCCTGAAGTTGCATTGGAGTAGGTTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * *
56844855 AATCTTATTTCCCTAAAGTTGTAGCGGAGCAGATTGAAGATAGTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
*
56844900 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * **
56844945 AATCTTATTTTCCTGAAGTAGCAGTGGAGCAGATGGAAGATAATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * *
56844990 AATCTTATCTCCCTAAAGTTGTAGTGGAG-TGAATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTGAAGATAGCA
* * * *
56845035 AATCTTATCTCCTTGAAGTAGCAGTGGAGCAGATTAAAGCTA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * *
56845079 AGTCTAATCTCCCTAAAGTTACAGTGGAGTAGATTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
56845118 CAATAAATCC
Statistics
Matches: 253, Mismatches: 51, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
44 67 0.26
45 185 0.73
46 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
Found at i:56846441 original size:4 final size:4
Alignment explanation
Indices: 56846421--56846459 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
56846411 TTTTCTTTTA
* *
56846421 TATT TATC TACT TATT TATT TATT TA-T TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
56846460 CTTTCTCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (4 bp):
TATT
Found at i:56846452 original size:15 final size:16
Alignment explanation
Indices: 56846421--56846459 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
56846411 TTTTCTTTTA
*
56846421 TATTTATCTACTTATT
1 TATTTATTTACTTATT
56846437 TATTTATTTA-TTATT
1 TATTTATTTACTTATT
56846452 TATTTATT
1 TATTTATT
56846460 CTTTCTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTTATTTACTTATT
Found at i:56849881 original size:22 final size:22
Alignment explanation
Indices: 56849832--56849887 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
56849822 TGAGAATTTC
56849832 TCATATAGTTTTTAATAGCGTT
1 TCATATAGTTTTTAATAGCGTT
* * *
56849854 TAATATA-TTTTTATTAAGCTTT
1 TCATATAGTTTTTAAT-AGCGTT
56849876 TCATATAAGTTT
1 TCATAT-AGTTT
56849888 GGTAAATCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 7 0.26
22 16 0.59
23 1 0.04
24 3 0.11
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (22 bp):
TCATATAGTTTTTAATAGCGTT
Found at i:56850863 original size:21 final size:22
Alignment explanation
Indices: 56850826--56850868 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
56850816 CCAATTAAAC
56850826 TAGCCCAAACACTAAACCCAAT
1 TAGCCCAAACACTAAACCCAAT
*
56850848 TAGCCTAAAC-CTAAACCCAAT
1 TAGCCCAAACACTAAACCCAAT
56850869 ACCCTGGCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.44, C:0.35, G:0.05, T:0.16
Consensus pattern (22 bp):
TAGCCCAAACACTAAACCCAAT
Found at i:56853666 original size:36 final size:36
Alignment explanation
Indices: 56853610--56853681 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
56853600 TTGTCGTGGT
56853610 ACAAATGCAGCGAAACTAAGTCTTGGTTTTGGTGTC
1 ACAAATGCAGCGAAACTAAGTCTTGGTTTTGGTGTC
* * *
56853646 ACAAATGCAGCTAAATTAAGTGTTGGTTTTGGTGTC
1 ACAAATGCAGCGAAACTAAGTCTTGGTTTTGGTGTC
56853682 TAAAGCCAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (36 bp):
ACAAATGCAGCGAAACTAAGTCTTGGTTTTGGTGTC
Found at i:56870280 original size:7 final size:7
Alignment explanation
Indices: 56870270--56870306 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
56870260 TCCTTACCCC
56870270 TTTTATT
1 TTTTATT
56870277 TTTTATT
1 TTTTATT
56870284 TTTTA-T
1 TTTTATT
56870290 TTTTA-T
1 TTTTATT
56870296 TTTTATT
1 TTTTATT
56870303 TTTT
1 TTTT
56870307 TGTTCATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 12 0.41
7 17 0.59
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTATT
Found at i:56870285 original size:6 final size:6
Alignment explanation
Indices: 56870270--56870305 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
56870260 TCCTTACCCC
56870270 TTTTATT TTTTATT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTA-T TTTTA-T TTTTAT TTTTAT TTTTAT TTTT
56870306 TTGTTCATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:56870292 original size:13 final size:13
Alignment explanation
Indices: 56870270--56870306 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
56870260 TCCTTACCCC
56870270 TTTTATTTTTTAT
1 TTTTATTTTTTAT
56870283 TTTT-TATTTTTAT
1 TTTTAT-TTTTTAT
56870296 TTTTATTTTTT
1 TTTTATTTTTT
56870307 TGTTCATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:56870307 original size:20 final size:20
Alignment explanation
Indices: 56870270--56870306 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
56870260 TCCTTACCCC
56870270 TTTTATTTTTTATTTTTTAT
1 TTTTATTTTTTATTTTTTAT
56870290 TTTTA-TTTTTATTTTTT
1 TTTTATTTTTTATTTTTT
56870307 TGTTCATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTTATTTTTTATTTTTTAT
Found at i:56870934 original size:14 final size:14
Alignment explanation
Indices: 56870909--56870935 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56870899 ACCATTAGCC
56870909 TTATATTATTATTG
1 TTATATTATTATTG
56870923 TTATATTATTATT
1 TTATATTATTATT
56870936 TTTGCTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (14 bp):
TTATATTATTATTG
Found at i:56871035 original size:24 final size:23
Alignment explanation
Indices: 56871004--56871048 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
56870994 TATACATATC
* *
56871004 TTATTATATATCTTTATATCTTA
1 TTATTATATATATCTATATCTTA
56871027 TTATGTATATATATCTATATCT
1 TTAT-TATATATATCTATATCT
56871049 CTTCTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTATATATATCTATATCTTA
Found at i:56871041 original size:18 final size:18
Alignment explanation
Indices: 56870988--56871042 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 18
56870978 CTATTATAAC
*
56870988 TATT-TATATACATATCT
1 TATTATATATATATATCT
*
56871005 TATTATATATCTTTATATCT
1 TATTATATA--TATATATCT
*
56871025 TATTATGTATATATATCT
1 TATTATATATATATATCT
56871043 ATATCTCTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 4 0.13
18 12 0.39
20 15 0.48
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATATATATATATCT
Found at i:56871346 original size:18 final size:18
Alignment explanation
Indices: 56871299--56871342 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
56871289 CTTAAAGTAC
* *
56871299 TTTAATTTTATTTGTTTA
1 TTTACTTTTATTTGTTGA
56871317 TTTACTTTTATTTGTTGA
1 TTTACTTTTATTTGTTGA
56871335 TTT-CTTTT
1 TTTACTTTT
56871343 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.73
Consensus pattern (18 bp):
TTTACTTTTATTTGTTGA
Found at i:56879552 original size:7 final size:7
Alignment explanation
Indices: 56879540--56879593 Score: 67
Period size: 7 Copynumber: 8.0 Consensus size: 7
56879530 GGCACTCTGA
56879540 AAAAATG
1 AAAAATG
56879547 AAAAATG
1 AAAAATG
*
56879554 -AGAATG
1 AAAAATG
*
56879560 AAAATTG
1 AAAAATG
*
56879567 AAAAAAG
1 AAAAATG
56879574 -AAAATG
1 AAAAATG
56879580 AAAAATG
1 AAAAATG
56879587 AAAAATG
1 AAAAATG
56879594 GAGAGGCTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 10 0.26
7 29 0.74
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:56879568 original size:20 final size:20
Alignment explanation
Indices: 56879540--56879593 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
56879530 GGCACTCTGA
*
56879540 AAAAATGAAAAATGAGAATG
1 AAAAATGAAAAATGAAAATG
* *
56879560 AAAATTGAAAAAAGAAAATG
1 AAAAATGAAAAATGAAAATG
56879580 AAAAATGAAAAATG
1 AAAAATGAAAAATG
56879594 GAGAGGCTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAAATGAAAAATGAAAATG
Found at i:56881137 original size:44 final size:44
Alignment explanation
Indices: 56881089--56881290 Score: 155
Period size: 44 Copynumber: 4.5 Consensus size: 44
56881079 AGGCACAAAC
56881089 CTTATCTCCCTGAAGTTACAGTGGGACAGGTTGAATATGCAAGT
1 CTTATCTCCCTGAAGTTACAGTGGGACAGGTTGAATATGCAAGT
* * * ** *
56881133 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAAT-TTC-AGAT
1 CTTATCTCCCTGAAGTTACAGTGG-G-ACA-GGTTGAATATGCAAG-T
* * * * * *
56881179 CTTATCTCCCTG-AGATTACAG-AGGAGCAGATCGAAGCCACG-AA-C
1 CTTATCTCCCTGAAG-TTACAGTGGGA-CAGGTTGAA--TATGCAAGT
* *
56881223 CTTATTTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGT
1 CTTATCTCCCTGAAGTTACAGTGGGACAGGTTGAATATGCAAGT
*
56881267 CTTATCTCCCTGAGGTTACAGTGG
1 CTTATCTCCCTGAAGTTACAGTGG
56881291 AGTAGACCGA
Statistics
Matches: 117, Mismatches: 27, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
42 2 0.02
43 6 0.05
44 71 0.61
45 9 0.08
46 24 0.21
47 5 0.04
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTACAGTGGGACAGGTTGAATATGCAAGT
Found at i:56881323 original size:90 final size:90
Alignment explanation
Indices: 56880958--56881325 Score: 283
Period size: 90 Copynumber: 4.1 Consensus size: 90
56880948 TAAAGGATCC
*
56880958 TATCTCTCTGAAGTTACAGTGGA-CAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGTG
1 TATCTCCCTGAAGTTACAGTGGAGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGTG
56881022 GAGTAGACCGAAGAATTT-TAGATCT
66 GAGTAGACCGAAGAATTTCTA-ATCT
** * * * **** ** *
56881047 TATCTCCCTG-AGATTACAGAAGAGTAGATCGAAGGCACAAACCTTATCTCCCTGAAGTTACAGT
1 TATCTCCCTGAAG-TTACAGTGGAGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGT
* * ** *
56881111 GG-G-ACA-GGTTGAATATGC-AAGTCT
65 GGAGTAGACCGAAGAAT-TTCTAA-TCT
* * ** * *
56881135 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAAT-TTC-AGATCTTATCTCCCTGAGATTAC
1 TATCTCCCTGAAGTTACAGTGGAGCAG---GTTGAATATGCAAG-TCTTATCTCCCTGAGGTTAC
* * * * * *
56881198 AGAGGAGCAGATCGAAGCCA---CGAACCT
62 AGTGGAGTAGACCGAAG-AATTTCTAATCT
* *
56881225 TATTTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGTG
1 TATCTCCCTGAAGTTACAGTGGAGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGTG
56881290 GAGTAGACCGAAGAATTTCTAATCT
66 GAGTAGACCGAAGAATTTCTAATCT
56881315 TATCTCCCTGA
1 TATCTCCCTGA
56881326 GATTACAACG
Statistics
Matches: 206, Mismatches: 53, Indels: 39
0.69 0.18 0.13
Matches are distributed among these distances:
87 12 0.06
88 66 0.32
89 22 0.11
90 95 0.46
91 6 0.03
92 2 0.01
93 2 0.01
94 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (90 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGTG
GAGTAGACCGAAGAATTTCTAATCT
Found at i:56881339 original size:134 final size:135
Alignment explanation
Indices: 56880958--56881343 Score: 665
Period size: 134 Copynumber: 2.9 Consensus size: 135
56880948 TAAAGGATCC
*
56880958 TATCTCTCTGAAGTTACAGT-GGACAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGTG
1 TATCTCCCTGAAGTTACAGTGGGACAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGTG
* * *
56881022 GAGTAGACCGAAGAATTT-TAGATCTTATCTCCCTGAGATTACAGAAGAGTAGATCGAAGGCACA
66 GAGTAGACCGAAGAATTTCTAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACA
56881086 AACCT
131 AACCT
56881091 TATCTCCCTGAAGTTACAGTGGGACAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGTG
1 TATCTCCCTGAAGTTACAGTGGGACAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGTG
*
56881156 GAGTAGACCGAAGAATTTC-AGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACG
66 GAGTAGACCGAAGAATTTCTAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACA
56881220 AACCT
131 AACCT
* *
56881225 TATTTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGTG
1 TATCTCCCTGAAGTTACAGTGGGACAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGTG
56881290 GAGTAGACCGAAGAATTTCTA-ATCTTATCTCCCTGAGATTACA-ACGGAGCAGAT
66 GAGTAGACCGAAGAATTTCTAGATCTTATCTCCCTGAGATTACAGA-GGAGCAGAT
56881344 TAAAGCTAGT
Statistics
Matches: 242, Mismatches: 7, Indels: 7
0.95 0.03 0.03
Matches are distributed among these distances:
133 20 0.08
134 221 0.91
135 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (135 bp):
TATCTCCCTGAAGTTACAGTGGGACAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGTG
GAGTAGACCGAAGAATTTCTAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACA
AACCT
Found at i:56881536 original size:44 final size:44
Alignment explanation
Indices: 56881488--56882300 Score: 713
Period size: 44 Copynumber: 18.7 Consensus size: 44
56881478 CTAGTAGTCG
* * *
56881488 TATCTCCCTAAGCAGTAGTGGTGCAGGTCAAAGATGGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCT
* * *
56881532 TATCTCCCAAAGCAGTAATGGAGCAGATCGAAGA-CG-ACGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTA-G-ATCT
* * * ** ***** *
56881576 TATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCT
* *
56881619 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCT
* *
56881663 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCT
* *
56881707 TATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGT-GAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAG-ATCT
* * ** *****
56881751 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCT
* * *
56881794 TATCTCCCTAAGCAGTAATGGAGCAGGTCGAAGGTGGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCT
* *
56881838 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCT
* *
56881882 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG-CGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAG-ATCT
* * * ** ***** *
56881926 TATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCT
*
56881969 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCT
* * * *
56882013 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAATACGGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCT
* *
56882057 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG-CGAATTT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAG-ATCT
* * ** *****
56882101 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCT
* * * **
56882144 TATCTCCTTAAGCAGTAGTGGAGCAGGTCAAAGATGACA-ATTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA-TCT
* * * **
56882188 TATCTCCTTAAGCAGTAGTGGAGTAGATC--ACAT-CAAG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCT
* * ****
56882228 TATCTCCCTAAGCAGTAGTGGAGTAGA-CAAAAGAAACCA-ATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGATGGTAGATCT
56882271 TATCTCCCTAAGCAGTAGTGGAGCAGATCG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCG
56882301 CACCAAGTAT
Statistics
Matches: 624, Mismatches: 123, Indels: 45
0.79 0.16 0.06
Matches are distributed among these distances:
39 1 0.00
40 29 0.05
41 1 0.00
42 6 0.01
43 161 0.26
44 421 0.67
45 4 0.01
46 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCT
Found at i:56881627 original size:175 final size:175
Alignment explanation
Indices: 56881488--56882336 Score: 1252
Period size: 175 Copynumber: 4.9 Consensus size: 175
56881478 CTAGTAGTCG
* * *
56881488 TATCTCCCTAAGCAGTAGTGGTGCAGGTCAAAGATGGTAGATCTTATCTCCCAAAGCAGTAATGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGG
* *
56881553 AGCAGATCGAAGACGACGAATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAGTC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
*
56881618 CTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCC
131 CTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCT
56881663 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGG
* *
56881728 AGCAAATCGAAGACGGTGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
* * *
56881793 TTATCTCCCTAAGCAGTAATGGAGCAGGTCGAAGGTGGTAGATCT
131 CTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCT
56881838 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGG
*
56881903 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAGTC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
56881968 CTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCT
131 CTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCT
* *
56882013 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAATACGGTAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGG
* *
56882078 AGCAGATCGAAGATGGCGAATTTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
* * * **
56882143 TTATCTCCTTAAGCAGTAGTGGAGCAGGTCAAAGATGACA-ATTCT
131 CTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA-TCT
* * * * **
56882188 TATCTCCTTAAGCAGTAGTGGAGTAGATC--ACAT-CAAG-TCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGG
* * ** * * * *
56882249 AGTAGA-CAAAAGA-AACCAATCTTATCTCCCTAAGCAGTAGTGGAGCAGA--T-CG-CACCAAG
66 AGCAGATC-GAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACC-AG
** *
56882308 TATTATCTCCCTAAGCAGTAGTGAAGCAG
129 TCCTATCTCCCTAAGCAGTAGTGGAGCAG
56882337 ACAGAAGAAA
Statistics
Matches: 625, Mismatches: 46, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
166 4 0.01
167 29 0.05
168 1 0.00
170 31 0.05
171 33 0.05
172 2 0.00
173 2 0.00
174 1 0.00
175 522 0.84
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (175 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
CTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCT
Found at i:56882336 original size:40 final size:40
Alignment explanation
Indices: 56882185--56882337 Score: 157
Period size: 40 Copynumber: 3.8 Consensus size: 40
56882175 AGATGACAAT
* * * * *
56882185 TCTTATCTCCTTAAGCAGTAGTGGAGTAGATCACATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGCACCAAG
** *
56882225 TCTTATCTCCCTAAGCAGTAGTGGAGTAGACA-AAAGAAACCAA-
1 TCTTATCTCCCTAAGCAGTAGT-GA--AG-CAGATCG-CACCAAG
*
56882268 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCACCAAG
1 TCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGCACCAAG
*
56882308 TATTATCTCCCTAAGCAGTAGTGAAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGAAGCAGA
56882338 CAGAAGAAAC
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
39 7 0.08
40 53 0.58
41 1 0.01
42 1 0.01
43 25 0.27
44 5 0.05
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGCACCAAG
Found at i:56915907 original size:23 final size:22
Alignment explanation
Indices: 56915856--56915907 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
56915846 CCTCGTCTTT
*
56915856 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
56915878 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
56915901 TTCTTTT
1 TTCTTTT
56915908 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:56919062 original size:13 final size:11
Alignment explanation
Indices: 56919034--56919076 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
56919024 AGTTAAATAT
56919034 TATTTTATTAA
1 TATTTTATTAA
56919045 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
56919058 TA-TTTATTAT
1 TATTTTATTAA
56919068 TATTTTATT
1 TATTTTATT
56919077 TAAAAAACGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:56922122 original size:17 final size:17
Alignment explanation
Indices: 56922097--56922130 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56922087 TATATTTATT
* *
56922097 TTTTTAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
56922114 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
56922131 AATACTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:56922128 original size:11 final size:11
Alignment explanation
Indices: 56922114--56922240 Score: 68
Period size: 12 Copynumber: 11.4 Consensus size: 11
56922104 ATTTTTTTAA
56922114 TTTTAAAATAT
1 TTTTAAAATAT
56922125 TTTTAAAATACT
1 TTTTAAAATA-T
* *
56922137 TTTTATTATTAT
1 TTTTA-AAATAT
*
56922149 TTTT----TAA
1 TTTTAAAATAT
56922156 TTTTAAAATAT
1 TTTTAAAATAT
56922167 TTTTAAAATACT
1 TTTTAAAATA-T
* *
56922179 TTTTAAATTTTT
1 TTTTAAA-ATAT
*
56922191 TAATTTTAAATAT
1 T--TTTAAAATAT
56922204 TTTTAAAATACT
1 TTTTAAAATA-T
**
56922216 TTTT-TTA-AT
1 TTTTAAAATAT
56922225 TTTTAAAATAAT
1 TTTTAAAAT-AT
56922237 TTTT
1 TTTT
56922241 TGGTATTTAT
Statistics
Matches: 88, Mismatches: 14, Indels: 27
0.68 0.11 0.21
Matches are distributed among these distances:
7 6 0.07
9 5 0.06
10 2 0.02
11 31 0.35
12 32 0.36
13 7 0.08
14 5 0.06
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:56922157 original size:42 final size:38
Alignment explanation
Indices: 56922097--56922228 Score: 194
Period size: 42 Copynumber: 3.3 Consensus size: 38
56922087 TATATTTATT
56922097 TTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTAAA-TTTTTTAATTTTAAAATATTTTTAAAATAC
56922136 TTTTTATTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTA--A--ATTTTTTAATTTTAAAATATTTTTAAAATAC
56922178 TTTTTAAATTTTTTAATTTT-AAATATTTTTAAAATAC
1 TTTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAC
*
56922215 TTTTTTTAATTTTT
1 -TTTTTAAATTTTT
56922229 AAAATAATTT
Statistics
Matches: 87, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
37 17 0.20
38 25 0.29
39 6 0.07
40 1 0.01
41 1 0.01
42 36 0.41
43 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (38 bp):
TTTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:56922182 original size:30 final size:31
Alignment explanation
Indices: 56922125--56922189 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
56922115 TTTAAAATAT
* * *
56922125 TTTTAAAATACTTTTTATTATTATTTTTTAA
1 TTTTAAAATACTTTTTATAAATATTTTTAAA
56922156 TTTTAAAATA-TTTTTA-AAATACTTTTTAAA
1 TTTTAAAATACTTTTTATAAATA-TTTTTAAA
56922186 TTTT
1 TTTT
56922190 TTAATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 3 0.10
30 17 0.57
31 10 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTTAAAATACTTTTTATAAATATTTTTAAA
Found at i:56922199 original size:15 final size:16
Alignment explanation
Indices: 56922179--56922209 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
56922169 TTAAAATACT
56922179 TTTTAAAT-TTTTTAA
1 TTTTAAATATTTTTAA
56922194 TTTTAAATATTTTTAA
1 TTTTAAATATTTTTAA
56922210 AATACTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTAAATATTTTTAA
Found at i:56922226 original size:21 final size:21
Alignment explanation
Indices: 56922202--56922241 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
56922192 AATTTTAAAT
*
56922202 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAATTTTTTTA
56922223 ATTTTTAAAATAATTTTTT
1 ATTTTTAAAATAATTTTTT
56922242 GGTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTAAAATAATTTTTTTA
Found at i:56926521 original size:15 final size:17
Alignment explanation
Indices: 56926501--56926539 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
56926491 ATTCAGTGGA
*
56926501 AAAAAAACCAAA-A-AC
1 AAAAAAACAAAAGAGAC
56926516 AAAAAAACAAAAGAGAC
1 AAAAAAACAAAAGAGAC
56926533 AAAAAAA
1 AAAAAAA
56926540 ATAAAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.52
16 1 0.05
17 9 0.43
ACGTcount: A:0.82, C:0.13, G:0.05, T:0.00
Consensus pattern (17 bp):
AAAAAAACAAAAGAGAC
Found at i:56927554 original size:108 final size:108
Alignment explanation
Indices: 56927365--56927560 Score: 320
Period size: 108 Copynumber: 1.8 Consensus size: 108
56927355 TTTGTATTCT
*
56927365 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
*
56927430 ATCTATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
66 ATCAATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
* ** *
56927473 AGCAAAATTTGCTATCTTGATTGATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTTCATTTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
* *
56927538 GTCAATTTTGATAATCTTTTTCA
66 ATCAATTGTGATAATCTTTTTCA
56927561 AGCATTTTTC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 80 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
ATCAATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
Found at i:56928113 original size:44 final size:44
Alignment explanation
Indices: 56928046--56928307 Score: 201
Period size: 44 Copynumber: 6.0 Consensus size: 44
56928036 AAGTCATTAA
*** *
56928046 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATATTGGTAG-GAAGTAGATCGAAGAT
* * *
56928090 AGCAGGTCTTGTCTTCCCATATTGGTAGGAAGTGGATTGAAGAT
1 AGCAGATCTTGTCTTCCCATATTGGTAGGAAGTAGATCGAAGAT
* * * * * * *
56928134 -GCGGATCTTGTCTTCCCATACTGGTGGCGAAATAGAT-AAAAAA
1 AGCAGATCTTGTCTTCCCATATTGGTAG-GAAGTAGATCGAAGAT
* * *** *
56928177 AGTAGATATTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATATTGGTAG-GAAGTAGATCGAAGAT
* * * * * *
56928221 AGTAGGTCATGTCTTCCTATATTAGTAGGAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATATTGGTAGGAAGTAGATCGAAGAT
* *
56928265 -GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
1 AGCAGATCTTGTCTTCCCATATTGGTAG-GAAGTAGATCGAAGA
56928308 AAATAGATCT
Statistics
Matches: 167, Mismatches: 45, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
43 55 0.33
44 110 0.66
45 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCCCATATTGGTAGGAAGTAGATCGAAGAT
Found at i:56928288 original size:131 final size:131
Alignment explanation
Indices: 56928044--56928301 Score: 435
Period size: 131 Copynumber: 2.0 Consensus size: 131
56928034 TGAAGTCATT
* *
56928044 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCTTGTCTTCCCA
1 AAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCATGTCTTCCCA
* * *
56928109 TATTGGTAGGAAGTGGATTGAAGATGCGGATCTTGTCTTCCCATACTGGTGGCGAAATAGATAAA
66 TATTAGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATAAA
56928174 A
131 A
* * *
56928175 AAAGTAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCATGTCTTCCTA
1 AAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCATGTCTTCCCA
*
56928240 TATTAGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
66 TATTAGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAATAGAT
56928302 CGAAGAAAAT
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
131 118 1.00
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (131 bp):
AAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCATGTCTTCCCA
TATTAGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATAAA
A
Found at i:56928802 original size:132 final size:132
Alignment explanation
Indices: 56928604--56929626 Score: 1506
Period size: 132 Copynumber: 7.8 Consensus size: 132
56928594 TTACCTCAGC
* * * *
56928604 GGAGTACATTGAAGCCATAAATTCTA-CTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAG
1 GGAGTACATTGAAGCCAGAAGTTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAG
* *
56928668 ATCTTTTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCCGATTTTACCTCCCTGTTGTTAC
65 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTTGTTAC
56928733 AGT
130 AGT
* * * * * **
56928736 GGAGTACATTGAAGCCAAAAATTCTA-CTTCCCTAGACAACAGTGGAATAGATTGAAGATTTTAG
1 GGAGTACATTGAAGCCAGAAGTTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAG
* *
56928800 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC-GAATTTTACCTCCTTATTGTTA
65 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAG-ATTTTACCTCCCTGTTGTTA
56928864 CAGT
129 CAGT
56928868 GGAGTACATTGAAGCCAGAAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGA
1 GGAGTACATTGAAGCCAGAAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGA
* **
56928933 TCTTATCTCCCTAAGCAGTAGTGAAGCAGATTAAAGATGGCAGATTTTACCTCCCTGTTGTTACA
66 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTTGTTACA
56928998 GT
131 GT
**
56929000 GGAGTACATTGAAGCCAGAAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGA
1 GGAGTACATTGAAGCCAGAAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGA
* * * *
56929065 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGGATTTTACCTCCTTATTGTTACA
66 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTTGTTACA
56929130 GT
131 GT
* * *
56929132 GGAGTACATTGAAGCTAGAAGTTCTATCTCCCTGGGCAGTAGTGGAATAGATTAAAGATTACAGA
1 GGAGTACATTGAAGCCAGAAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGA
* **
56929197 TCTTATCCCCCTAAGCAGTAGTGGAGCAGATTAAAGATGGCAGATTTTACCTCCCTGTTGTTACA
66 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTTGTTACA
56929262 GT
131 GT
56929264 GGAGTACATTGAAGCCAGAAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGA
1 GGAGTACATTGAAGCCAGAAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGA
* * *
56929329 TCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCACTG-AGATTAC
66 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTTG-TTAC
56929393 AGT
130 AGT
*
56929396 GGAGTACATTGAAGCCAGTAA-TTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAG
1 GGAGTACATTGAAGCCAG-AAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAG
* *
56929460 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTG-AGATTA
65 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTTG-TTA
*
56929524 TAGT
129 CAGT
* * ** * * * *
56929528 GGAGTACATTAAAGCCAG-TGGCCTCATCTCCCTGAGTAGCAGT-GAAGTAGGTTGAAGATTGCA
1 GGAGTACATTGAAGCCAGAAGTTCT-ATCTCCCTGGGCAGCAGTGGAA-TAGATTGAAGATTACA
56929591 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAA
64 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
56929627 AGAAACCAAT
Statistics
Matches: 824, Mismatches: 59, Indels: 17
0.92 0.07 0.02
Matches are distributed among these distances:
131 11 0.01
132 809 0.98
133 4 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
GGAGTACATTGAAGCCAGAAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGA
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTTGTTACA
GT
Found at i:56928913 original size:43 final size:43
Alignment explanation
Indices: 56928864--56929320 Score: 145
Period size: 44 Copynumber: 10.4 Consensus size: 43
56928854 CTTATTGTTA
*
56928864 CAGTGGAGTACATTGAAGCCAGAAGTTCTATCTCCCTGGGCAG
1 CAGTGGAGTAGATTGAAGCCAGAAGTTCTATCTCCCTGGGCAG
* * * **
56928907 CAGTGGAATAGATTGAAG--ATTACAGATCTTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGCCA-GA-AGTTC-TATCTCCCTGGGCAG
* * * * *** * * * **
56928951 TAGTGAAGCAGATTAAAGATGGCAGATTTTACCTCCCTGTTGTTA-
1 CAGTGGAGTAGATTGAAGCCAGAAG-TTCTATCTCCCTG--GGCAG
*
56928996 CAGTGGAGTACATTGAAGCCAGAAGTTCTATCTCCCTGGGCAG
1 CAGTGGAGTAGATTGAAGCCAGAAGTTCTATCTCCCTGGGCAG
* ***** * **
56929039 CAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGCCAGAAGTTC-TATCTCCCTGGGCAG
* * *** ** * * * * **
56929083 TAGTGGAGCAGATTGAAGATGGCGGATTTTACCTCCTTATTGTTA-
1 CAGTGGAGTAGATTGAAGCCAGAAG-TTCTATCTCC--CTGGGCAG
* *
56929128 CAGTGGAGTACATTGAAGCTAGAAGTTCTATCTCCCTGGGCAG
1 CAGTGGAGTAGATTGAAGCCAGAAGTTCTATCTCCCTGGGCAG
* * * * * * **
56929171 TAGTGGAATAGATTAAAG--ATTACAGATCTTATCCCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGCCA-GA-AGTTC-TATCTCCCTGGGCAG
* * * *** * * * **
56929215 TAGTGGAGCAGATTAAAGATGGCAGATTTTACCTCCCTGTTGTTA-
1 CAGTGGAGTAGATTGAAGCCAGAAG-TTCTATCTCCCTG--GGCAG
*
56929260 CAGTGGAGTACATTGAAGCCAGAAGTTCTATCTCCCTGGGCAG
1 CAGTGGAGTAGATTGAAGCCAGAAGTTCTATCTCCCTGGGCAG
*
56929303 CAGTGGAATAGATTGAAG
1 CAGTGGAGTAGATTGAAG
56929321 ATTACAGATC
Statistics
Matches: 283, Mismatches: 108, Indels: 46
0.65 0.25 0.11
Matches are distributed among these distances:
41 2 0.01
42 9 0.03
43 74 0.26
44 140 0.49
45 54 0.19
46 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (43 bp):
CAGTGGAGTAGATTGAAGCCAGAAGTTCTATCTCCCTGGGCAG
Found at i:56929646 original size:43 final size:42
Alignment explanation
Indices: 56929592--56929900 Score: 208
Period size: 43 Copynumber: 7.3 Consensus size: 42
56929582 AAGATTGCAG
56929592 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAC-AAAGAAACCA
* ** ** * ** *
56929635 ATCCTATCTCCCTGAAGTTGCCGTGGAGCGGATTAA-AACCACA
1 ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGACAAAGAAAC-CA
* *
56929678 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---G-CATCA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAGAAACCA
* *
56929718 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAAAATCA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAGAAACCA
* * * * ** *
56929761 ATCATATCTCCCTGAAGTTA-CAGTGGAGCGGATTAA-AACCACA
1 ATCTTATCTCCCT-AAG-CAGTAGTGGAGCAGACAAAGAAAC-CA
* * *
56929804 GATCTTATCTCCCTAAGCAGTAGTGGAACAGATC---G-TATCA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAGAAACCA
56929844 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGACA-AAGAAACCA
*
56929888 ATCCTATCTCCCT
1 ATCTTATCTCCCT
56929901 GAAGTTGCAG
Statistics
Matches: 201, Mismatches: 42, Indels: 46
0.70 0.15 0.16
Matches are distributed among these distances:
39 4 0.02
40 63 0.31
42 17 0.08
43 75 0.37
44 42 0.21
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (42 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAGAAACCA
Found at i:56929728 original size:40 final size:40
Alignment explanation
Indices: 56929680--56929875 Score: 191
Period size: 40 Copynumber: 4.8 Consensus size: 40
56929670 AAACCACAGA
**
56929680 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
56929720 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAAAAATCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----AAATCAAG
* * * * * *
56929762 TCATATCTCCCTGAAGTTA-CAGTGGAGCGGATTAAAACCACAG
1 TCTTATCTCCCT-AAG-CAGTAGTGGAGCAGA-TCAAATCA-AG
* **
56929805 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGTATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
56929846 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
56929876 CAGAAGAAAC
Statistics
Matches: 126, Mismatches: 18, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
39 1 0.01
40 59 0.47
41 7 0.06
42 17 0.13
43 30 0.24
44 12 0.10
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
Found at i:56929793 original size:126 final size:126
Alignment explanation
Indices: 56929593--56929935 Score: 587
Period size: 126 Copynumber: 2.7 Consensus size: 126
56929583 AGATTGCAGA
*
56929593 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCCG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAC-AAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
*
56929658 TGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
65 TGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGCATCAAG
* * * *
56929720 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAAAATCAATCATATCTCCCTGAAGTTACAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGT
*
56929785 GGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGTATCAAG
66 GGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGCATCAAG
56929846 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACA-AAGAAACCAATCCTATCTCCCTGAAGTTGCAG
* *
56929911 TGGAGTGGATTAAAACCACAAATCT
65 TGGAGCGGATTAAAACCACAGATCT
56929936 CATTCCCATG
Statistics
Matches: 202, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
126 120 0.59
127 82 0.41
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (126 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGT
GGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGCATCAAG
Found at i:56935607 original size:26 final size:26
Alignment explanation
Indices: 56935571--56935620 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
56935561 GAGAGTGGGT
56935571 TTCTCATATCTTATCTCACGAAGGTC
1 TTCTCATATCTTATCTCACGAAGGTC
56935597 TTCTCATATCTTATCTCACGAAGG
1 TTCTCATATCTTATCTCACGAAGG
56935621 CCTAATTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (26 bp):
TTCTCATATCTTATCTCACGAAGGTC
Found at i:56941366 original size:25 final size:24
Alignment explanation
Indices: 56941324--56941379 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
56941314 TTTTAATATT
*
56941324 TATATTAATATTAAATAAAAATAAA
1 TATATAAATATTAAAT-AAAATAAA
**
56941349 TATATAAATATTCGATAAAATAAA
1 TATATAAATATTAAATAAAATAAA
56941373 -ATA-AAAT
1 TATATAAAT
56941380 TTATCTGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.14
23 3 0.11
24 8 0.29
25 13 0.46
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
TATATAAATATTAAATAAAATAAA
Found at i:56951770 original size:18 final size:18
Alignment explanation
Indices: 56951747--56951782 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
56951737 TCACAAACTT
*
56951747 CAAACATGAATCATAAAA
1 CAAACATAAATCATAAAA
*
56951765 CAAACATAAATGATAAAA
1 CAAACATAAATCATAAAA
56951783 AAAAATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.64, C:0.14, G:0.06, T:0.17
Consensus pattern (18 bp):
CAAACATAAATCATAAAA
Found at i:56958851 original size:26 final size:25
Alignment explanation
Indices: 56958812--56958861 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
56958802 TCACAGCTAG
56958812 TTAAATACTTTATTAAAAAAATTTA
1 TTAAATACTTTATTAAAAAAATTTA
* * *
56958837 TTAAATTATTTTATTTAAAACATTT
1 TTAAA-TACTTTATTAAAAAAATTT
56958862 TACTCCATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
TTAAATACTTTATTAAAAAAATTTA
Found at i:56959539 original size:13 final size:13
Alignment explanation
Indices: 56959504--56959553 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
56959494 ACAGATAGTT
56959504 AAAAATTTTATTA
1 AAAAATTTTATTA
*
56959517 AAAAAATTTATTA
1 AAAAATTTTATTA
**
56959530 AATTATTTTATTTA
1 AAAAATTTTA-TTA
*
56959544 AAACATTTTA
1 AAAAATTTTA
56959554 CTCCATTAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAAATTTTATTA
Found at i:56960235 original size:13 final size:13
Alignment explanation
Indices: 56960200--56960249 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
56960190 ACAGATAGTT
56960200 AAAAATTTTATTA
1 AAAAATTTTATTA
*
56960213 AAAAAATTTATTA
1 AAAAATTTTATTA
**
56960226 AATTATTTTATTTA
1 AAAAATTTTA-TTA
*
56960240 AAACATTTTA
1 AAAAATTTTA
56960250 CTCCATTAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAAATTTTATTA
Found at i:56960488 original size:696 final size:696
Alignment explanation
Indices: 56958255--56960553 Score: 4234
Period size: 696 Copynumber: 3.3 Consensus size: 696
56958245 AAATTAAATT
* * * *
56958255 GTAATTTTTACTATAGTCAAAATACAATTTTTAAAGGATTAAATCAAAATTTTATCATTTTTAGG
1 GTAATTTTTACTATAGTAAAAATACAATTTTTAAAAGATTAAATCAAAATTTTATTATTATTAGG
*
56958320 GGGAGTCAAAGTGCAATTTTACCTTTACTAATTTAATATTTTAAAAAATTCAAAGGGACAAAATG
66 GGGAGCCAAAGTGCAATTTTACCTTTACTAATTTAATATTTTAAAAAATTCAAAGGGACAAAATG
* *
56958385 GGAAATTTTCCATGGGGGCTAGGGCCCCTACCAGCCCCCTAGATTCATCCCTAAACCTAATCAAC
131 GGAAATTTTCCATGGGGGCTAGGGCCCCTGCCAGCCCCCTAGATTCACCCCTAAACCTAATCAAC
* *
56958450 ATGCCAAATTGATAAATTTTGGAAGATGATTCAGGACAAAATTACTGTTACATTTGTGAAGAAGA
196 ATGCCAAATTGACAAATTTTGGAAGATGATTCAGGACAAAATTACTGTGACATTTGTGAAGAAGA
56958515 AAGAGATTCAGAAGATCATATCTATTATTGCATAGAAGGTATAAATGCGTTTTAACGCATCCGAA
261 AAGAGATTCAGAAGATCATATCTATTATTGCATAGAAGGTATAAATGCGTTTTAACGCATCCGAA
* * *
56958580 ATCATGTCCTCTTGAACCGAGAACAATGCCACTACCAAATTGTTATTATTTCTTAAATAAACATG
326 CTCACGTCCTCTTGAACCGAGAACAATGCCACTACCAAAATGTTATTATTTCTTAAATAAACATG
56958645 TAAATATACACAAAATTTCACACAATCATAATTTCAAATTTTATTGAAAAAAATAGTATTCTACC
391 TAAATATACACAAAATTTCACACAATCATAATTTCAAATTTTATTGAAAAAAATAGTATTCTACC
56958710 CACTTAGAATTATTTTAATTTAGTAGCATTCTCTTTTTCTTTTTCTTTTTGTTACTTTTGACATA
456 CACTTAGAATTATTTTAATTTAGTAGCATTCTCTTTTTCTTTTTCTTTTTGTTACTTTTGACATA
* * *
56958775 CAAAATCCTAGTAATCACTATGATGGATCACAGCTAGTTAAATACTTTATTAAAAAAATTTATTA
521 CAAAATCCTAGTAATCACTATGATGGATCACAGATAGTTAAAAATTTTATTAAAAAAATTTATTA
* *
56958840 AATTATTTTATTTAAAACATTTTACTCCATTACGCTGATTTGTTTTAATTCTTTAAATATACTCT
586 AATTATTTTATTTAAAACATTTTACTCCATTAAGTTGATTTGTTTTAATTCTTTAAATATACTCT
56958905 AATTAATGAAAAAATAAAAAACCGTCACTAGAAAAGGATAATAATA
651 AATTAATGAAAAAATAAAAAACCGTCACTAGAAAAGGATAATAATA
56958951 GTAATTTTTACTATAGTAAAAATACAATTTTTAAAAGATTAAATCAAAATTTTATTATTATTAGG
1 GTAATTTTTACTATAGTAAAAATACAATTTTTAAAAGATTAAATCAAAATTTTATTATTATTAGG
56959016 GGGAGCCAAAGTGCAATTTTACCTTTACTAATTTAATATTTTAAAAAATTCAAAGGGACAAAATG
66 GGGAGCCAAAGTGCAATTTTACCTTTACTAATTTAATATTTTAAAAAATTCAAAGGGACAAAATG
* *
56959081 GGAAATTTTCCATGGGGGCTAGGACCCCTGCTAGCCCCCTAGATTCACCCCTAAACCTAATCAAC
131 GGAAATTTTCCATGGGGGCTAGGGCCCCTGCCAGCCCCCTAGATTCACCCCTAAACCTAATCAAC
56959146 ATGCCAAATTGACAAATTTTGGAAGATGATTCAGGACAAAATTACTGTGACATTTGTGAAGAAGA
196 ATGCCAAATTGACAAATTTTGGAAGATGATTCAGGACAAAATTACTGTGACATTTGTGAAGAAGA
56959211 AAGAGATTCAGAAGATCATATCTATTATTGCATAGAAGGTATAAATGCGTTTTAACGCATCCGAA
261 AAGAGATTCAGAAGATCATATCTATTATTGCATAGAAGGTATAAATGCGTTTTAACGCATCCGAA
56959276 CTCACGTCCTCTTGAACCGAGAACAATGCCACTACCAAAATGTTATTATTTCTTAAATAAACATG
326 CTCACGTCCTCTTGAACCGAGAACAATGCCACTACCAAAATGTTATTATTTCTTAAATAAACATG
56959341 TAAATATACACAAAATTTCACACAATCATAATTTCAAATTTTATTGAAAAAAATAGTATTCTACC
391 TAAATATACACAAAATTTCACACAATCATAATTTCAAATTTTATTGAAAAAAATAGTATTCTACC
*
56959406 CACTTAGAATTATTTTAATTTAGTAGCA------TTTTCTTTTTCTTTTTATTACTTTTGACATA
456 CACTTAGAATTATTTTAATTTAGTAGCATTCTCTTTTTCTTTTTCTTTTTGTTACTTTTGACATA
56959465 CAAAATCCTAGTAATCACTATGATGGATCACAGATAGTTAAAAATTTTATTAAAAAAATTTATTA
521 CAAAATCCTAGTAATCACTATGATGGATCACAGATAGTTAAAAATTTTATTAAAAAAATTTATTA
*
56959530 AATTATTTTATTTAAAACATTTTACTCCATTAAGTTGATTTGTTTTAATTCTTTAACTATACTCT
586 AATTATTTTATTTAAAACATTTTACTCCATTAAGTTGATTTGTTTTAATTCTTTAAATATACTCT
56959595 AATTAATGAAAAAAATAAAAAACCGTCACTAGAAAAGGATAATAATA
651 AATTAATG-AAAAAATAAAAAACCGTCACTAGAAAAGGATAATAATA
*
56959642 GTAATTTTTCCTATAGTAAAAATACAATTTTTAAAAGATTAAATCAAAATTTTATTATTATTAGG
1 GTAATTTTTACTATAGTAAAAATACAATTTTTAAAAGATTAAATCAAAATTTTATTATTATTAGG
*
56959707 GGGAGTCAAAGTGCAATTTTACCTTTACTAATTTAATATTTTAAAAAATTCAAAGGGACAAAATG
66 GGGAGCCAAAGTGCAATTTTACCTTTACTAATTTAATATTTTAAAAAATTCAAAGGGACAAAATG
* *
56959772 GGAAATTTTCCATAGGGGCTAGGGCCCCTGCTAG-CCCCTAGATTCACCCCTAAACCTAATCAAC
131 GGAAATTTTCCATGGGGGCTAGGGCCCCTGCCAGCCCCCTAGATTCACCCCTAAACCTAATCAAC
56959836 ATGCCAAATTGACAAATTTTGGAAGATGATTCAGGACAAAATTACTGTGACATTTGTGAAGAAGA
196 ATGCCAAATTGACAAATTTTGGAAGATGATTCAGGACAAAATTACTGTGACATTTGTGAAGAAGA
56959901 AAGAGATTCAGAAGATCATATCTATTATTGCATAGAAGGTATAAATGCGTTTTAACGCATCCGAA
261 AAGAGATTCAGAAGATCATATCTATTATTGCATAGAAGGTATAAATGCGTTTTAACGCATCCGAA
56959966 CTCACGTCCTCTTGAACCGAGAACAATGCCACTACCAAAATGTTATTATTTCTTAAATAAACATG
326 CTCACGTCCTCTTGAACCGAGAACAATGCCACTACCAAAATGTTATTATTTCTTAAATAAACATG
56960031 TAAATATACACAAAATTTCACACAATCATAATTTCAAATTTTATTGAAAAAAATAGTATTCTACC
391 TAAATATACACAAAATTTCACACAATCATAATTTCAAATTTTATTGAAAAAAATAGTATTCTACC
*
56960096 CACTTAGAATTATTTTAATTTAGTAGCATTCTCTTTTTCTTTTTCTTTTTGTTAATTTTGACATA
456 CACTTAGAATTATTTTAATTTAGTAGCATTCTCTTTTTCTTTTTCTTTTTGTTACTTTTGACATA
56960161 CAAAATCCTAGTAATCACTATGATGGATCACAGATAGTTAAAAATTTTATTAAAAAAATTTATTA
521 CAAAATCCTAGTAATCACTATGATGGATCACAGATAGTTAAAAATTTTATTAAAAAAATTTATTA
*
56960226 AATTATTTTATTTAAAACATTTTACTCCATTAAGTTGATTTGTTTTAATTCTTTAATTATACTCT
586 AATTATTTTATTTAAAACATTTTACTCCATTAAGTTGATTTGTTTTAATTCTTTAAATATACTCT
56960291 AATTAATGTAAAAAATAAAAAACCGTCACTAGAAAAGGATAATAATA
651 AATTAATG-AAAAAATAAAAAACCGTCACTAGAAAAGGATAATAATA
* *
56960338 GTAATTTTTACTATAGTAAAAATACAATTTTTAAAGGATTAAATCAAAATTTTATTATTTTTAGG
1 GTAATTTTTACTATAGTAAAAATACAATTTTTAAAAGATTAAATCAAAATTTTATTATTATTAGG
* *
56960403 GAGAGCCAAAGTGCAATTTTACCTTTACTAATTTAAAATTTTAAAAAATTCAAAGGGACAAAATG
66 GGGAGCCAAAGTGCAATTTTACCTTTACTAATTTAATATTTTAAAAAATTCAAAGGGACAAAATG
**
56960468 AAAAATTTTCCATGGGGGCTAGGGCCCCTGCCAGCCCCCTAGATTCACCCCTAAACCTAATCAAC
131 GGAAATTTTCCATGGGGGCTAGGGCCCCTGCCAGCCCCCTAGATTCACCCCTAAACCTAATCAAC
56960533 ATGCCAAATTGACAAATTTTG
196 ATGCCAAATTGACAAATTTTG
56960554 ATAAAAAAAA
Statistics
Matches: 1556, Mismatches: 39, Indels: 15
0.97 0.02 0.01
Matches are distributed among these distances:
690 480 0.31
691 198 0.13
696 827 0.53
697 51 0.03
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.35
Consensus pattern (696 bp):
GTAATTTTTACTATAGTAAAAATACAATTTTTAAAAGATTAAATCAAAATTTTATTATTATTAGG
GGGAGCCAAAGTGCAATTTTACCTTTACTAATTTAATATTTTAAAAAATTCAAAGGGACAAAATG
GGAAATTTTCCATGGGGGCTAGGGCCCCTGCCAGCCCCCTAGATTCACCCCTAAACCTAATCAAC
ATGCCAAATTGACAAATTTTGGAAGATGATTCAGGACAAAATTACTGTGACATTTGTGAAGAAGA
AAGAGATTCAGAAGATCATATCTATTATTGCATAGAAGGTATAAATGCGTTTTAACGCATCCGAA
CTCACGTCCTCTTGAACCGAGAACAATGCCACTACCAAAATGTTATTATTTCTTAAATAAACATG
TAAATATACACAAAATTTCACACAATCATAATTTCAAATTTTATTGAAAAAAATAGTATTCTACC
CACTTAGAATTATTTTAATTTAGTAGCATTCTCTTTTTCTTTTTCTTTTTGTTACTTTTGACATA
CAAAATCCTAGTAATCACTATGATGGATCACAGATAGTTAAAAATTTTATTAAAAAAATTTATTA
AATTATTTTATTTAAAACATTTTACTCCATTAAGTTGATTTGTTTTAATTCTTTAAATATACTCT
AATTAATGAAAAAATAAAAAACCGTCACTAGAAAAGGATAATAATA
Found at i:56960782 original size:15 final size:16
Alignment explanation
Indices: 56960751--56960782 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
56960741 TATAATTTCG
56960751 TAATATTTTATACAAT
1 TAATATTTTATACAAT
56960767 TAATATTTTA-ACAAT
1 TAATATTTTATACAAT
56960782 T
1 T
56960783 CAATTGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATATTTTATACAAT
Found at i:56978161 original size:22 final size:22
Alignment explanation
Indices: 56978113--56978161 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
56978103 CGAAAAATCG
*
56978113 ATTTAATTTAACATATATTTTA
1 ATTTATTTTAACATATATTTTA
56978135 A-TTATTTTAA-ATATATTTTTA
1 ATTTATTTTAACATATA-TTTTA
56978156 ATTTAT
1 ATTTAT
56978162 AATATATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 5 0.21
21 14 0.58
22 5 0.21
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTATTTTAACATATATTTTA
Found at i:56978483 original size:18 final size:19
Alignment explanation
Indices: 56978435--56978483 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
56978425 AAAAATAATT
56978435 ATAAAAA-ATAAATTTTAG
1 ATAAAAATATAAATTTTAG
* *
56978453 GT-AAATTATTAAATTTTA-
1 ATAAAAATA-TAAATTTTAG
56978471 ATAAAAATATAAA
1 ATAAAAATATAAA
56978484 AAAATTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
17 3 0.12
18 7 0.29
19 14 0.58
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (19 bp):
ATAAAAATATAAATTTTAG
Found at i:56978486 original size:10 final size:9
Alignment explanation
Indices: 56978473--56978540 Score: 57
Period size: 9 Copynumber: 7.3 Consensus size: 9
56978463 AAATTTTAAT
56978473 AAAAATATA
1 AAAAATATA
56978482 AAAAA-ATTA
1 AAAAATA-TA
*
56978491 AAAATTATTA
1 AAAAATA-TA
*
56978501 AAAATTATA
1 AAAAATATA
**
56978510 AAAAACGTA
1 AAAAATATA
*
56978519 AAAAATAAA
1 AAAAATATA
56978528 AAAAATTATA
1 AAAAA-TATA
56978538 AAA
1 AAA
56978541 TGCATCAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
8 1 0.02
9 30 0.62
10 17 0.35
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (9 bp):
AAAAATATA
Found at i:56978492 original size:27 final size:28
Alignment explanation
Indices: 56978468--56978540 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
56978458 TTATTAAATT
56978468 TTAATAAAAA-TATAAAAAAATTAAAAA
1 TTAATAAAAATTATAAAAAAATTAAAAA
* **
56978495 TTATTAAAAATTATAAAAAACGTAAAAA
1 TTAATAAAAATTATAAAAAAATTAAAAA
* *
56978523 ATAAAAAAAATTATAAAA
1 TTAATAAAAATTATAAAA
56978541 TGCATCAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 9 0.23
28 30 0.77
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.26
Consensus pattern (28 bp):
TTAATAAAAATTATAAAAAAATTAAAAA
Found at i:56978514 original size:37 final size:38
Alignment explanation
Indices: 56978455--56978540 Score: 88
Period size: 37 Copynumber: 2.3 Consensus size: 38
56978445 AATTTTAGGT
** * **
56978455 AAATTATTAAATTTTAATAAAAATATAAAAAA-ATTAA
1 AAATTATTAAAAATTAATAAAAACATAAAAAATAAAAA
*
56978492 AAATTATTAAAAATT-ATAAAAAACGTAAAAAATAAAAA
1 AAATTATTAAAAATTAAT-AAAAACATAAAAAATAAAAA
56978530 AAATTA-TAAAA
1 AAATTATTAAAA
56978541 TGCATCAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
36 2 0.05
37 30 0.73
38 9 0.22
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (38 bp):
AAATTATTAAAAATTAATAAAAACATAAAAAATAAAAA
Found at i:56978807 original size:10 final size:10
Alignment explanation
Indices: 56978794--56978886 Score: 66
Period size: 10 Copynumber: 9.3 Consensus size: 10
56978784 CTTTATAAAA
56978794 TTTTATAATT
1 TTTTATAATT
* *
56978804 TTTTTTCATAT
1 TTTTATAAT-T
* *
56978815 TTCTAT-ATA
1 TTTTATAATT
56978824 TTTTA-AATTT
1 TTTTATAA-TT
56978834 TTTTATAA-T
1 TTTTATAATT
*
56978843 TTTTATAAAT
1 TTTTATAATT
*
56978853 TTTTATATTT
1 TTTTATAATT
*
56978863 TTTTATGATT
1 TTTTATAATT
*
56978873 TTTTCCTAATT
1 TTTT-ATAATT
56978884 TTT
1 TTT
56978887 AATATTTTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
9 14 0.22
10 36 0.56
11 14 0.22
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (10 bp):
TTTTATAATT
Found at i:56978865 original size:19 final size:19
Alignment explanation
Indices: 56978785--56978865 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
56978775 TTCTTACAAC
*
56978785 TTTATAAAATTTTATAATTT
1 TTTATAAATTTTTAT-ATTT
* * * *
56978805 TTTTTCATATTTCTATATAT
1 TTTAT-AAATTTTTATATTT
* *
56978825 TTTA-AATTTTTTTATAATT
1 TTTATAA-ATTTTTATATTT
56978844 TTTATAAATTTTTATATTT
1 TTTATAAATTTTTATATTT
56978863 TTT
1 TTT
56978866 TATGATTTTT
Statistics
Matches: 45, Mismatches: 13, Indels: 7
0.69 0.20 0.11
Matches are distributed among these distances:
18 1 0.02
19 25 0.56
20 12 0.27
21 7 0.16
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATAAATTTTTATATTT
Found at i:56978885 original size:29 final size:29
Alignment explanation
Indices: 56978785--56978875 Score: 96
Period size: 29 Copynumber: 3.1 Consensus size: 29
56978775 TTCTTACAAC
*
56978785 TTTATAAAATTTTATAATTTTTTT-TCATATT
1 TTTATAAATTTTTAT-ATTTTTTTAT-A-ATT
* * *
56978816 TCTATATA-TTTTAAATTTTTTTATAATT
1 TTTATAAATTTTTATATTTTTTTATAATT
*
56978844 TTTATAAATTTTTATATTTTTTTATGATT
1 TTTATAAATTTTTATATTTTTTTATAATT
56978873 TTT
1 TTT
56978876 TCCTAATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 9 0.18
29 30 0.59
30 6 0.12
31 6 0.12
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (29 bp):
TTTATAAATTTTTATATTTTTTTATAATT
Found at i:56983780 original size:33 final size:33
Alignment explanation
Indices: 56983738--56983811 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
56983728 AATATTAAGG
* ** *
56983738 CAAATATTTCTAGAGCTACTAATGAATCATTTA
1 CAAATATTTCTAAAGCTACTAACAAAACATTTA
56983771 CAAATATTTCTAAAGCTACTAACAAAACATTTA
1 CAAATATTTCTAAAGCTACTAACAAAACATTTA
56983804 CAAA-ATTT
1 CAAATATTT
56983812 GTTCTTTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 4 0.11
33 33 0.89
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (33 bp):
CAAATATTTCTAAAGCTACTAACAAAACATTTA
Found at i:56987279 original size:22 final size:20
Alignment explanation
Indices: 56987254--56987294 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
56987244 TTCATGAAAT
56987254 ATAATTTAATTATCATAAAAAA
1 ATAATTT-ATTA-CATAAAAAA
*
56987276 ATAATTTTTTACATAAAAA
1 ATAATTTATTACATAAAAA
56987295 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAATTTATTACATAAAAAA
Found at i:56988863 original size:24 final size:25
Alignment explanation
Indices: 56988835--56988882 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
56988825 ATATTACTTT
*
56988835 ATATTAATT-ACAATAATTAAAAAC
1 ATATTAATTAAAAATAATTAAAAAC
*
56988859 ATATTATTTAAAAAATAATTAAAA
1 ATATTAATT-AAAAATAATTAAAA
56988883 TTAAGCATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
26 12 0.60
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
ATATTAATTAAAAATAATTAAAAAC
Found at i:56993281 original size:48 final size:48
Alignment explanation
Indices: 56993202--56993295 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
56993192 AGGGAATTCT
* *
56993202 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCATTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCATTTTTACG
*
56993250 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCATTTTTA
56993296 AGCCAAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 2 0.05
48 39 0.95
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCATTTTTACG
Found at i:56995793 original size:48 final size:48
Alignment explanation
Indices: 56995714--56995807 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
56995704 AGGGAATTCT
* *
56995714 GTTGAATCCTTTATTGTTGCGAGTTGAGTTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGTTGACTTAGGCGTTTTTACG
56995762 GTTGAATCCATTATTGGTG-GAAGTT-AGGTTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GTTGACTTAGGCGTTTTTA
56995808 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.19, C:0.11, G:0.28, T:0.43
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGTTGACTTAGGCGTTTTTACG
Found at i:57005970 original size:28 final size:29
Alignment explanation
Indices: 57005920--57005980 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
57005910 ACCATATTTT
* * *
57005920 AAATAAAGACATAAAGTTAAAATAATCTA
1 AAATAAAGAAATAAAGTAAAAATAATATA
* *
57005949 AAATAATGAAATAAA-TAAAAATTATATA
1 AAATAAAGAAATAAAGTAAAAATAATATA
57005977 AAAT
1 AAAT
57005981 TCAATTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (29 bp):
AAATAAAGAAATAAAGTAAAAATAATATA
Found at i:57007546 original size:17 final size:16
Alignment explanation
Indices: 57007513--57007547 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
57007503 AAAGTATGGG
*
57007513 AAAATTATTTTTTTTA
1 AAAATTATTTCTTTTA
57007529 AAAATTATTTACTTTTA
1 AAAATTATTT-CTTTTA
57007546 AA
1 AA
57007548 GAGAAAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
AAAATTATTTCTTTTA
Found at i:57023370 original size:4 final size:4
Alignment explanation
Indices: 57023361--57023401 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
57023351 TATGAAAATA
57023361 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
57023402 TTTTAAGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:57023679 original size:25 final size:23
Alignment explanation
Indices: 57023651--57023706 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
57023641 GTATATACAT
57023651 ATATATATATATGAAAATAAAAAA
1 ATATATATATAT-AAAATAAAAAA
* * *
57023675 A-ATATAGATTATAGAATATAAAA
1 ATATATATA-TATAAAATAAAAAA
57023698 ATATATATA
1 ATATATATA
57023707 AGTAGGTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (23 bp):
ATATATATATATAAAATAAAAAA
Found at i:57023680 original size:23 final size:21
Alignment explanation
Indices: 57023653--57023706 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
57023643 ATATACATAT
57023653 ATATATATATGAAAATAAAAAAA
1 ATATATATAT-AAAAT-AAAAAA
* * *
57023676 ATATAGATTATAGAATATAAAA
1 ATATATA-TATAAAATAAAAAA
57023698 ATATATATA
1 ATATATATA
57023707 AGTAGGTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 11 0.42
23 10 0.38
24 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
ATATATATATAAAATAAAAAA
Found at i:57025574 original size:44 final size:44
Alignment explanation
Indices: 57025517--57026653 Score: 615
Period size: 44 Copynumber: 25.8 Consensus size: 44
57025507 GACTTGATGT
* *
57025517 GATCTGCTCCACTGTAATCTCAGGAAGATAAGATCTCTGGCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * * *
57025561 AATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---CTGGCTTC
* * *
57025607 GATCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CT-GATGC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* ** * * *** *
57025648 GATCTACTTTACTGTAACTTCAGAGAGATAAGATC-CTTTATTTT
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTC-TGGCTTC
* * * * ** *
57025692 AATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* ** *
57025735 GATCTGTTCTGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * * * *
57025779 AATTTGTTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---CTGGCTTC
* * * *
57025825 GGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CT-GATGC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * * * ** *
57025866 GATCTACTCTACTGTAACTTCAGAGAGATAAGAT-AGTGTCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * *
57025909 GATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTCTGGCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * * *** *
57025953 AAGCTGCTCCACTGTAACCTCAGGGAGATAAGATCTTTTATTTT
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * *
57025997 AATCCGCTCCACTGTAACTTCAGGGAGATAAGATCTCTGGCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * * * *
57026041 AATCTACTCCACTGTAACCTTAGGGAGATAAGATCTGAAAT-TCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---CTGGCTTC
* *
57026087 GGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CT-T-GCATATTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGC---TTC
* * * * * * *
57026131 AACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* ** * * *
57026175 GATCTGCTCCTCTGTAATTTTAGGGAGATAAGATCTAAAAT-TCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---CTGGCTTC
* * *
57026221 GGTCTACTCTACTGTAACCTCAGGGAGATAAGA-CT-T-GCATATTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGC---TTC
* * * * * * *
57026265 AATCTGCCCCGCTGTAACTTCAGGGAGATAAGGTTTGTGGCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
** * *
57026309 GATCTGCTCCTTTGTAATCTCAGGGAGATAAGA-C-CTGAAATTCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTG----GCTTC
* * *
57026355 GGTATACTCCACTGTAACCTCAGGGAGATAAGA-CT-T-GCATATTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGC---TTC
* * * * * * *
57026399 AACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * *
57026443 GATCTACTCCACTGTAACCTCAGGGAGATAAGATCTAAAAT-TCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---CTGGCTTC
* * * * *
57026489 GGTCTACTCCACTGTAACATCAGGGAGATAAGA-C-CT-GATGC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * * * *** *
57026530 GATCTACTCTACTGTAACTTCAGAGAGATAAGATC-CTTTATTTT
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTC-TGGCTTC
* * * * *** *
57026574 AAT-TCGCTCCACTGTAACTTCAGGGAGATAGGATCTTTTATTTT
1 GATCT-GCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * * *
57026618 AATCCGCTCCACTGTAATCTCAGAGAGATAAGATCT
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
57026654 GAAATTCTTC
Statistics
Matches: 841, Mismatches: 199, Indels: 106
0.73 0.17 0.09
Matches are distributed among these distances:
41 101 0.12
42 7 0.01
43 61 0.07
44 448 0.53
45 10 0.01
46 203 0.24
47 11 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
Found at i:57025738 original size:87 final size:85
Alignment explanation
Indices: 57025613--57025816 Score: 189
Period size: 87 Copynumber: 2.4 Consensus size: 85
57025603 CTTCGATCTA
*
57025613 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTT-TACTGTAA-CTTCAGAGAGA
1 CTCCACTGTAACCTCAGGGAGATAAGAACTGATGCGATCT-CTTCTACTGTAATC-TCAGAGAGA
57025676 TAAGATCCTTTATTTTAATCCG
64 TAAGATCCTTTATTTTAATCCG
* * * * * * * *
57025698 CTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGTTCTGCTGTAATCTCAGGGAGA
1 CTCCACTGTAACCTCAGGGAGATAAGA-ACTG-ATGCGATCTCTTCTACTGTAATCTCAGAGAGA
*** * **
57025763 TAAGAT-CTCTGGCTTCAATTTG
64 TAAGATCCT-TTATTTTAATCCG
* *
57025785 TTCCACTGTAACCTCAGGGAGATAAGATCTGA
1 CTCCACTGTAACCTCAGGGAGATAAGAACTGA
57025817 AATTCTTCGG
Statistics
Matches: 93, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
85 25 0.27
86 8 0.09
87 59 0.63
88 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (85 bp):
CTCCACTGTAACCTCAGGGAGATAAGAACTGATGCGATCTCTTCTACTGTAATCTCAGAGAGATA
AGATCCTTTATTTTAATCCG
Found at i:57026116 original size:134 final size:134
Alignment explanation
Indices: 57025746--57026522 Score: 966
Period size: 134 Copynumber: 5.8 Consensus size: 134
57025736 ATCTGTTCTG
* * * * *
57025746 CTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATTTGTTCCACTGTAACCTCAGGGAGATAA
1 CTGTAACT-TCAGGGAGATAAGATTTGTGGCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAA
* * * **
57025810 GATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG---ATGCGATCTA
65 GATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAATCCG
* *
57025872 CTCTA
130 CCCCA
* * * * * *
57025877 CTGTAACTTCAGAGAGATAAGA-TAGTGTCTTCGATCTGCTCCGCTGTAATCTTAGGGAGATAAG
1 CTGTAACTTCAGGGAGATAAGATTTGTGGCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAG
* * * * ** *
57025941 ATCT---CTGGCTTCAAG-CTGCTCCACTGTAACCTCAGGGAGATAAGATCTTTTAT-TTTAATC
66 ATCTGAAAT-TCTTC-GGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CTTGCATATTCAATC
*
57026001 CGCTCCA
128 CGCCCCA
* * * * *
57026008 CTGTAACTTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAACCTTAGGGAGATAAG
1 CTGTAACTTCAGGGAGATAAGATTTGTGGCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAG
57026073 ATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAA-CCTG
66 ATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAATCC-G
57026137 CCCCA
130 CCCCA
* * ** *
57026142 CTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATTTTAGGGAGATAAG
1 CTGTAACTTCAGGGAGATAAGATTTGTGGCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAG
* * *
57026207 ATCTAAAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACTTGCATATTCAATCTGC
66 ATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAATCCGC
*
57026272 CCCG
131 CCCA
* ** *
57026276 CTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTTTGTAATCTCAGGGAGATAAG
1 CTGTAACTTCAGGGAGATAAGATTTGTGGCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAG
* *
57026341 ACCTGAAATTCTTCGGTATACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAA-CCTG
66 ATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAATCC-G
57026405 CCCCA
130 CCCCA
* *
57026410 CTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAG
1 CTGTAACTTCAGGGAGATAAGATTTGTGGCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAG
* *
57026475 ATCTAAAATTCTTCGGTCTACTCCACTGTAACATCAGGGAGATAAGAC
66 ATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
57026523 CTGATGCGAT
Statistics
Matches: 561, Mismatches: 69, Indels: 29
0.85 0.10 0.04
Matches are distributed among these distances:
127 1 0.00
128 33 0.06
129 3 0.01
130 36 0.06
131 48 0.09
132 39 0.07
133 9 0.02
134 390 0.70
135 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (134 bp):
CTGTAACTTCAGGGAGATAAGATTTGTGGCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAG
ATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAATCCGC
CCCA
Found at i:57026156 original size:178 final size:172
Alignment explanation
Indices: 57025497--57026478 Score: 482
Period size: 178 Copynumber: 5.6 Consensus size: 172
57025487 ACTACTGCTT
* ** * ** *
57025497 AGGGAGATAAGACTTGATGTGATCTGCTCCACTGTAA-TCTCAG-GAAGATAAGATCTCTGGCTT
1 AGGGAGATAAGACCTGATGCAATCTACTCCACTGTAACT-TCAGAG-AGATAAGAT-AATGTCTT
* * * * * * *
57025560 CAATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGATCTACTCCACTGTAA
63 CGATCTACTCCACTGTAACCTCAGGGAGATAAGATCT---CTGGCTTCAACCTGCCCCACTGTAA
* * *** ** ** *
57025624 CCTCAGGGAGATAAGA-C-CTGA-TGCGATCTACTTTACTGTAACTTC
125 CCTCAGGGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAACCTC
* * ** ** * * *
57025669 AGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTT
1 AGGGAGATAAGA-CC-TGA-TGCAATCTACTCCACTGTAACTTCAGAGAGATAAGATAATGTCTT
** ** * ** **
57025734 CGATCTGTTCTGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATTTGTTCCACTGTAACCT
63 CGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAACCTGCCCCACTGTAACCT
*** ** **
57025799 CAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTC
128 CAGGGAGATAAGATCTTTTATT-TT-AATCCGCTCCACTGTAACCTC
* * *
57025846 AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATAGTGTCTTCGA
1 AGGGAGATAAGACCTGATGCAATCTACTCCACTGTAACTTCAGAGAGATAAGATAATGTCTTCGA
* * * * * *
57025911 TCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTCTGGCTTCAAGCTGCTCCACTGTAACCTCAG
66 TCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAACCTGCCCCACTGTAACCTCAG
*
57025976 GGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAACTTC
131 GGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAACCTC
* * *
57026018 AGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAACCTT-AGGGAGATAAGATCTGAAAT
1 AGGGAGATAAGA-C-CT-GATGCAATCTACTCCACTGTAA-CTTCAGAGAGATAAGA--T--AAT
*
57026082 -TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CT-T-GCATATTCAACCTGCCCCAC
58 GTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTGGC---TTCAACCTGCCCCAC
* * *** ** * * ** *
57026143 TGTAACTTCAGGGAGATAAGGT-TTGTGGCTTCGATCTGCTCCTCTGTAATTTT
120 TGTAACCTCAGGGAGATAAGATCTT-TTATTTTAATCCGCTCCACTGTAACCTC
* * * ** * * *
57026196 AGGGAGATAAGATCTAAAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACT--TGC
1 AGGGAGATAAGACCT--GA---TGCAATCTACTCCACTGTAACTTCAGAGAGATAAGA-TAATG-
* * * * * * * * * * * * **
57026259 ATATTCAATCTGCCCCGCTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTTTGT
59 -TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAACCTGCCCCACTGT
* * *** ** ***
57026324 AATCTCAGGGAGATAAGACCTGAAATTCTTCGGTATACTCCACTGTAACCTC
123 AACCTCAGGGAGATAAGATCTTTTATT-TT-AATCCGCTCCACTGTAACCTC
* * * * * * * *
57026376 AGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAGATAAGGT-TTGTGGC
1 AGGGAGATAAGACCTG---ATGCAATCTACTCCACTGTAACTTCAGAGAGATAAGATAATGT--C
57026440 TTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCT
61 TTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCT
57026479 AAAATTCTTC
Statistics
Matches: 630, Mismatches: 137, Indels: 80
0.74 0.16 0.09
Matches are distributed among these distances:
171 1 0.00
172 72 0.11
173 5 0.01
174 156 0.25
175 64 0.10
176 11 0.02
177 34 0.05
178 218 0.35
179 9 0.01
180 57 0.09
181 3 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (172 bp):
AGGGAGATAAGACCTGATGCAATCTACTCCACTGTAACTTCAGAGAGATAAGATAATGTCTTCGA
TCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAACCTGCCCCACTGTAACCTCAG
GGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAACCTC
Found at i:57026337 original size:268 final size:267
Alignment explanation
Indices: 57025745--57026522 Score: 1070
Period size: 268 Copynumber: 2.9 Consensus size: 267
57025735 GATCTGTTCT
* *
57025745 GCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATTTGTTCCACTGTAACCTCAGGGAGATA
1 GCTGTAACT-TCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATA
* * * *
57025809 AGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG---ATGCGATCT
65 AGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCT
* * * * * * * *
57025871 ACTCTACTGTAACTTCAGAGAGATAA-GATAGTGTCTTCGATCTGCTCCGCTGTAATCTTAGGGA
130 GCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCACTGTAATCTTAGGGA
* * * * **
57025935 GATAAGATCT---CTGGCTTCAAG-CTGCTCCACTGTAACCTCAGGGAGATAAGATCTTTTATTT
195 GATAAGATCTAAAAT-TCTTC-GGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CTTGCATTT
* *
57025996 TAATCCGCTCC
257 CAATCCGCCCC
* * *
57026007 ACTGTAACTTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAACCTTAGGGAGATAA
1 GCTGTAACTTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAA
57026072 GATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTG
66 GATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTG
* *
57026137 CCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATTTTAGGGAG
131 CCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCACTGTAATCTTAGGGAG
*
57026202 ATAAGATCTAAAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACTTGCATATTCAA
196 ATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCAT-TTCAA
*
57026267 TCTGCCCC
260 TCCGCCCC
* * * * ** *
57026275 GCTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTTTGTAATCTCAGGGAGATAA
1 GCTGTAACTTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAA
* *
57026340 GACCTGAAATTCTTCGGTATACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTG
66 GATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTG
* * *
57026405 CCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTACTCCACTGTAACCTCAGGGAG
131 CCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCACTGTAATCTTAGGGAG
*
57026470 ATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACATCAGGGAGATAAGAC
196 ATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
57026523 CTGATGCGAT
Statistics
Matches: 459, Mismatches: 47, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
262 109 0.24
263 1 0.00
265 28 0.06
266 43 0.09
267 6 0.01
268 271 0.59
269 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (267 bp):
GCTGTAACTTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAA
GATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTG
CCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCACTGTAATCTTAGGGAG
ATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATTTCAAT
CCGCCCC
Found at i:57027940 original size:7 final size:7
Alignment explanation
Indices: 57027922--57027954 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
57027912 TAGCCTCTCT
57027922 ATTTTTC
1 ATTTTTC
57027929 A-TTTTC
1 ATTTTTC
57027935 ATTTTTC
1 ATTTTTC
57027942 ATTTTTC
1 ATTTTTC
57027949 ATTTTT
1 ATTTTT
57027955 TTTTGACTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTTC
Found at i:57035282 original size:16 final size:16
Alignment explanation
Indices: 57035261--57035291 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57035251 TTATAGGTTC
57035261 CAGAACTCTCTTTTTT
1 CAGAACTCTCTTTTTT
*
57035277 CAGAACTTTCTTTTT
1 CAGAACTCTCTTTTT
57035292 AATATCTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (16 bp):
CAGAACTCTCTTTTTT
Found at i:57048927 original size:63 final size:63
Alignment explanation
Indices: 57048832--57048965 Score: 180
Period size: 63 Copynumber: 2.1 Consensus size: 63
57048822 ACAAAAAATG
* * * *
57048832 AATGGAAATGGAGAAATGGGAAACCTTTGAAATGATTATGGTTTTCTCCAAAATGAAAATGAA
1 AATGAAAATGGAGAAATGAGAAACATTTGAAATGAATATGGTTTTCTCCAAAATGAAAATGAA
* * *
57048895 AATGAAAATGGAGAAAT-AGAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAATGAG
1 AATGAAAATGGAGAAATGAGAAACATTT-GAAATGAATATGGTTTTCTCCAAAATGAAAATGAA
*
57048958 TATGAAAA
1 AATGAAAA
57048966 ATGAAAATGA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
62 7 0.11
63 55 0.89
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.27
Consensus pattern (63 bp):
AATGAAAATGGAGAAATGAGAAACATTTGAAATGAATATGGTTTTCTCCAAAATGAAAATGAA
Found at i:57057392 original size:15 final size:14
Alignment explanation
Indices: 57057361--57057408 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
57057351 TATTTTTATA
*
57057361 TATATTAAAAATATT
1 TATATTAATAAT-TT
*
57057376 TATATTATATTATTT
1 TATATTA-ATAATTT
57057391 TAATATTAATAATTT
1 T-ATATTAATAATTT
57057406 TAT
1 TAT
57057409 TTTTTATTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 2 0.07
15 17 0.61
16 9 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TATATTAATAATTT
Found at i:57057395 original size:22 final size:22
Alignment explanation
Indices: 57057370--57057414 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
57057360 ATATATTAAA
*
57057370 AATATTTAT-ATTATATTATTTT
1 AATATTAATAATTATATT-TTTT
*
57057392 AATATTAATAATTTTATTTTTT
1 AATATTAATAATTATATTTTTT
57057414 A
1 A
57057415 TTTGTTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
AATATTAATAATTATATTTTTT
Found at i:57057654 original size:19 final size:19
Alignment explanation
Indices: 57057632--57057684 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
57057622 ATTTTGAACG
57057632 AACCTAATATTTTTGTCCA
1 AACCTAATATTTTTGTCCA
57057651 AACC---TA-TTTT-T-CA
1 AACCTAATATTTTTGTCCA
*
57057664 AATCTAATATTTTTGTCCA
1 AACCTAATATTTTTGTCCA
57057683 AA
1 AA
57057685 TATTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 12
0.68 0.03 0.30
Matches are distributed among these distances:
13 5 0.19
14 1 0.04
15 4 0.15
16 4 0.15
17 4 0.15
18 1 0.04
19 8 0.30
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (19 bp):
AACCTAATATTTTTGTCCA
Found at i:57057672 original size:32 final size:29
Alignment explanation
Indices: 57057635--57057695 Score: 95
Period size: 32 Copynumber: 2.0 Consensus size: 29
57057625 TTGAACGAAC
57057635 CTAATATTTTTGTCCAAACCTATTTTTCAAAT
1 CTAATATTTTTGTCCAAA--TATTTTT-AAAT
57057667 CTAATATTTTTGTCCAAATATTTTTAAAT
1 CTAATATTTTTGTCCAAATATTTTTAAAT
57057696 TTTAAGTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 4 0.14
30 7 0.24
32 18 0.62
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.49
Consensus pattern (29 bp):
CTAATATTTTTGTCCAAATATTTTTAAAT
Found at i:57077553 original size:45 final size:46
Alignment explanation
Indices: 57077500--57077599 Score: 127
Period size: 45 Copynumber: 2.2 Consensus size: 46
57077490 TCAAAAGGAA
57077500 AATG-AAAAAATCAAAAATCAAAAT-AAAAAAACAAAAA-AAAGAAAG
1 AATGAAAAAAATC-AAAATCAAAATGAAAAAAACAAAAAGAAAG-AAG
** *
57077545 AA-GAAAAAAATCAAAATCAAAATGAAAATGAGAAAAAGAAAGAAG
1 AATGAAAAAAATCAAAATCAAAATGAAAAAAACAAAAAGAAAGAAG
57077590 AATGAAAAAA
1 AATGAAAAAA
57077600 GAGAAATCTA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
44 12 0.25
45 25 0.52
46 11 0.23
ACGTcount: A:0.75, C:0.05, G:0.11, T:0.09
Consensus pattern (46 bp):
AATGAAAAAAATCAAAATCAAAATGAAAAAAACAAAAAGAAAGAAG
Found at i:57078525 original size:13 final size:13
Alignment explanation
Indices: 57078507--57078532 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57078497 GAGTCAAAAA
57078507 AAAATGAAAAATG
1 AAAATGAAAAATG
57078520 AAAATGAAAAATG
1 AAAATGAAAAATG
57078533 GAGAGGCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:57079818 original size:44 final size:44
Alignment explanation
Indices: 57079768--57080264 Score: 196
Period size: 44 Copynumber: 11.3 Consensus size: 44
57079758 TGAATATTTC
* * *
57079768 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAA
* * ** * *
57079812 AGATCTTATCTCCTTGAGATTACAACGGAGCAGATCGAGGAC-A
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAA
** * * * * * *
57079855 CTATCCTATCTCCCTGAAGTTATAGTGGAGCGGATT-AAAATAA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAA
* * * ** * * * *
57079898 AGGATCCTATCTCTCTGAAGTTACAGCAGAGCAG-GT-CACATAA
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAA
* * * * *
57079941 AGCT-TTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGC-A
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGA--CAA
* ** ** *
57079985 AG-TCCTATCTCCCTGAGGTTACAGTGGAGTGGACCGAAGA-ATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACA---A
* *
57080030 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAG-C-T
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAA
* * * * *
57080072 AGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 AG--ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAA
* * * * * * * *
57080117 AGGATCTCATCTCTCTGAAGTTACAGTAGAGTAGATCG-CGTC--
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAA
* * * * ** *
57080159 AGGTCTTATCTCCCTAAGGTTACAGTGGAGTAAACCGAAGA-ATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACA---A
* * ***
57080205 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGGTCGAAGATGGT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGA-CAA
57080250 AGATCTTATCTCCCT
1 AGATCTTATCTCCCT
57080265 AAGCAGTAGT
Statistics
Matches: 331, Mismatches: 95, Indels: 53
0.69 0.20 0.11
Matches are distributed among these distances:
41 51 0.15
42 9 0.03
43 37 0.11
44 149 0.45
45 18 0.05
46 67 0.20
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAA
Found at i:57080045 original size:46 final size:46
Alignment explanation
Indices: 57079990--57080264 Score: 180
Period size: 46 Copynumber: 6.2 Consensus size: 46
57079980 ATGCAAGTCC
*
57079990 TATCTCCCTGAGGTTACAGTGGAGTGGACCGAAGAATTTCAGATCT
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
* ** * * * *
57080036 TATCTCCCTGAGGTTACAGTGGAGCAGATTGGAG-CTAGT-A-ATCC
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAAT-TTCAGATCT
* ** ** **
57080080 TATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAAGGATCT
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA-GATCT
* * * * * * *
57080124 CATCTCTCTGAAGTTACAGTAGAGTAGATCG-CG----TCAGGTCT
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
* *
57080165 TATCTCCCTAAGGTTACAGTGGAGTAAACCGAAGAATTTCAGATCT
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
* ** *
57080211 TATCTCCCTGAGGTTACAGTGGAGCAGGTCGAAG-ATGGT-AGATCT
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAAT-TTCAGATCT
57080256 TATCTCCCT
1 TATCTCCCT
57080265 AAGCAGTAGT
Statistics
Matches: 174, Mismatches: 42, Indels: 27
0.72 0.17 0.11
Matches are distributed among these distances:
41 28 0.16
42 3 0.02
43 2 0.01
44 55 0.32
45 19 0.11
46 67 0.39
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (46 bp):
TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
Found at i:57080085 original size:175 final size:174
Alignment explanation
Indices: 57079901--57080237 Score: 428
Period size: 175 Copynumber: 1.9 Consensus size: 174
57079891 AAAATAAAGG
* * * * *
57079901 ATCCTATCTCTCTGAAGTTACAGCAGAGCAGG-TCACATAAA-GCT-TTATCTCCCTGAAGTTAC
1 ATCCTATCTCCCTGAAGTTACAGCAGAGC-GGATAAAATAAAGGATCTCATCTCCCTGAAGTTAC
* * * * * * **
57079963 AGTGGGGCAGGTTGAATATGCAAGTCCTATCTCCCTGAGGTTACAGTGGAGTGGACCGAAGAATT
65 AGTAGAGCAGATCG--CAT-CAAGTCCTATCTCCCTAAGGTTACAGTGGAGTAAACCGAAGAATT
57080028 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAGCTAGTA
127 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAGCTAGTA
** *
57080076 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTAC
1 ATCCTATCTCCCTGAAGTTACAGCAGAGCGGA-TAAAATAAAGGATCTCATCTCCCTGAAGTTAC
* * * *
57080141 AGTAGAGTAGATCGCGTCAGGTCTTATCTCCCTAAGGTTACAGTGGAGTAAACCGAAGAATTTCA
65 AGTAGAGCAGATCGCATCAAGTCCTATCTCCCTAAGGTTACAGTGGAGTAAACCGAAGAATTTCA
57080206 GATCTTATCTCCCTGAGGTTACAGTGGAGCAG
130 GATCTTATCTCCCTGAGGTTACAGTGGAGCAG
57080238 GTCGAAGATG
Statistics
Matches: 138, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
174 2 0.01
175 101 0.73
176 8 0.06
177 2 0.01
178 25 0.18
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (174 bp):
ATCCTATCTCCCTGAAGTTACAGCAGAGCGGATAAAATAAAGGATCTCATCTCCCTGAAGTTACA
GTAGAGCAGATCGCATCAAGTCCTATCTCCCTAAGGTTACAGTGGAGTAAACCGAAGAATTTCAG
ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAGCTAGTA
Found at i:57080278 original size:219 final size:215
Alignment explanation
Indices: 57079763--57080283 Score: 526
Period size: 219 Copynumber: 2.4 Consensus size: 215
57079753 ATCAATGAAT
* * * *
57079763 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGCCA-G-AGATCTTATCTCCT
1 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGGTCGAAG--ATGTAGATCTTATCTCCC
* ** *
57079826 TGAGATTACAACGGAGCAGA-TCGAGGACACTATCCTATCTCCCTGAAGTTATAGTGGAGCGGAT
64 TGAGAGTA-AGTGGAGCAGATTCGAGGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT
*
57079890 TAAAATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGCAGGTCACATAAAGCTTTATCTCCCT
128 TAAAATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGCAGATCACATAAAGCTTTATCTCCCT
** * **
57079955 GAAGTTACAGTGGGGCAGGTTGA
193 GAAGTTACAGTGGGAAACGAAGA
* * * * *
57079978 ATATGCA-AGTCCTATCTCCCTGAGGTTACAGTGGAG-TGGACCGAAGAATTTCAGATCTTATCT
1 AT-TTCAGA-TCTTATCTCCCTGAGGTTACAGTGGAGCAGG-TCGAAG-ATGT-AGATCTTATCT
* *
57080041 CCCTGAG-GTTACAGTGGAGCAGATTGGA-G-CTAGTAATCCTATCTCCCTGAAGTTACAGTGGA
61 CCCTGAGAG-TA-AGTGGAGCAGATTCGAGGAC-ACT-ATCCTATCTCCCTGAAGTTACAGTGGA
* * * * * *
57080103 GCGGATTAAAATAAAGGAT-CTCATCTCTCTGAAGTTACAGTAGAGTAGATCGCGT-CAGGTCTT
122 GCGGATTAAAATAAAGGATCCT-ATCTCTCTGAAGTTACAGCAGAGCAGATCACATAAAGCT-TT
57080166 ATCTCCCT-AAGGTTACAGTGGAGTAAACCGAAGA
185 ATCTCCCTGAA-GTTACAGTGG-G-AAA-CGAAGA
57080200 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGGTCGAAGATGGTAGATCTTATCTCCCT
1 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGGTCGAAGAT-GTAGATCTTATCTCCCT
*
57080265 AAGCAGT-AGTGGAGCAGAT
65 GAG-AGTAAGTGGAGCAGAT
57080284 CGAAAATGGC
Statistics
Matches: 251, Mismatches: 34, Indels: 38
0.78 0.11 0.12
Matches are distributed among these distances:
215 5 0.02
216 32 0.13
217 1 0.00
218 39 0.16
219 108 0.43
220 20 0.08
221 37 0.15
222 9 0.04
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (215 bp):
ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGGTCGAAGATGTAGATCTTATCTCCCTG
AGAGTAAGTGGAGCAGATTCGAGGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA
AATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGCAGATCACATAAAGCTTTATCTCCCTGAA
GTTACAGTGGGAAACGAAGA
Found at i:57080287 original size:44 final size:43
Alignment explanation
Indices: 57080228--57080409 Score: 172
Period size: 44 Copynumber: 4.3 Consensus size: 43
57080218 CTGAGGTTAC
* **
57080228 AGTGGAGCAGGTCGAAGATGGTAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCGAAGATGCCAG-TCTTATCTCCCTAAGCAGT
* * * * *
57080272 AGTGGAGCAGATCGAAAATGGCAAATCTCATCTTCCTAAGCAGT
1 AGTGGAGCAGATCGAAGAT-GCCAGTCTTATCTCCCTAAGCAGT
* ** *** *
57080316 AGTGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTAAACAGT
1 AGTGGAGCAGATCGAAGATGCCAGTCTTATCTCCCTAAGCAGT
* *
57080359 AGTGGAGCAGATCG--CAT-CAAGTCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCGAAGATGCCAGTCTTATCTCCCTAAGCAGT
57080399 AGTGGAGCAGA
1 AGTGGAGCAGA
57080410 CAAAAGAAAC
Statistics
Matches: 110, Mismatches: 27, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
40 32 0.29
43 29 0.26
44 47 0.43
45 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (43 bp):
AGTGGAGCAGATCGAAGATGCCAGTCTTATCTCCCTAAGCAGT
Found at i:57080359 original size:87 final size:83
Alignment explanation
Indices: 57080253--57080409 Score: 224
Period size: 87 Copynumber: 1.8 Consensus size: 83
57080243 AGATGGTAGA
* *
57080253 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAATCTCATCTTCCTAAGCAGTAG
1 TCTTATCTCCCTAAACAGTAGTGGAGCAGATCG--AAT--CAAATCTCATCTCCCTAAGCAGTAG
57080318 TGAAGCAGATTTAAGCCACCAG
62 TGAAGCAGATTTAAGCCACCAG
* * * *
57080340 TCTTATCTCCCTAAACAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
1 TCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAATCAAATCTCATCTCCCTAAGCAGTAGTGAA
57080405 GCAGA
66 GCAGA
57080410 CAAAAGAAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
83 30 0.47
85 2 0.03
87 32 0.50
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (83 bp):
TCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAATCAAATCTCATCTCCCTAAGCAGTAGTGAA
GCAGATTTAAGCCACCAG
Found at i:57080393 original size:40 final size:41
Alignment explanation
Indices: 57080253--57080409 Score: 165
Period size: 40 Copynumber: 3.7 Consensus size: 41
57080243 AGATGGTAGA
* *
57080253 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-ACAT--CAAG
* * * * * *
57080297 TCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCA-CCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA--T-CGACATCAAG
*
57080340 TCTTATCTCCCTAAACAGTAGTGGAGCAGATCG-CATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGACATCAAG
57080380 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
57080410 CAAAAGAAAC
Statistics
Matches: 94, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 2 0.02
40 33 0.35
41 1 0.01
43 28 0.30
44 27 0.29
46 2 0.02
47 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (41 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGACATCAAG
Found at i:57084363 original size:19 final size:19
Alignment explanation
Indices: 57084339--57084377 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
57084329 TATCTTTTCA
57084339 AAGGGAAGAAGGGGTGATT
1 AAGGGAAGAAGGGGTGATT
*
57084358 AAGGGAAGAATGGGTGATT
1 AAGGGAAGAAGGGGTGATT
57084377 A
1 A
57084378 GAGTCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.44, T:0.18
Consensus pattern (19 bp):
AAGGGAAGAAGGGGTGATT
Found at i:57085836 original size:46 final size:46
Alignment explanation
Indices: 57085769--57085953 Score: 298
Period size: 46 Copynumber: 4.0 Consensus size: 46
57085759 ACATTGCTAT
* * * **
57085769 AACTCAATATGGCTTTCTTCACGGAATTACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* * *
57085815 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTAATTTTCAT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
57085861 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
57085907 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
57085953 A
1 A
57085954 CTTTGTCATG
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:57087208 original size:17 final size:17
Alignment explanation
Indices: 57087177--57087225 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
57087167 AAATTCTTTT
57087177 TAAATCACAAAAATTCAC
1 TAAATCAC-AAAATTCAC
57087195 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
*
57087212 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
57087226 TTCTAAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 7 0.23
17 15 0.50
18 8 0.27
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:57088795 original size:25 final size:29
Alignment explanation
Indices: 57088761--57088836 Score: 115
Period size: 25 Copynumber: 2.7 Consensus size: 29
57088751 ATATTTATGG
57088761 AAAGTCAAAGATATGGGTATC-AA-A-T-
1 AAAGTCAAAGATATGGGTATCAAATATTA
57088786 AAAGTCAAAGATATGGGTATCAAATATTA
1 AAAGTCAAAGATATGGGTATCAAATATTA
57088815 GAAAGTCAAAGATATGGGTATC
1 -AAAGTCAAAGATATGGGTATC
57088837 GAGATATTGG
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
25 21 0.46
26 2 0.04
27 1 0.02
28 1 0.02
30 21 0.46
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (29 bp):
AAAGTCAAAGATATGGGTATCAAATATTA
Found at i:57089538 original size:14 final size:16
Alignment explanation
Indices: 57089509--57089547 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
57089499 TTTTAAATAG
57089509 TTTAATATTAAATTTT
1 TTTAATATTAAATTTT
57089525 TTTAAT-TT-AATTTT
1 TTTAATATTAAATTTT
57089539 TTTAA-ATTA
1 TTTAATATTA
57089548 TTAACTGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 13 0.62
15 2 0.10
16 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTAATATTAAATTTT
Found at i:57091423 original size:25 final size:25
Alignment explanation
Indices: 57091366--57091428 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 25
57091356 GGGTTTTTAA
*
57091366 TATTAATATAATA--ATTTAAATAT
1 TATTAATCTAATATTATTTAAATAT
*
57091389 TATTAATCTATTATTATTTAAA-A-
1 TATTAATCTAATATTATTTAAATAT
57091412 TATTAATGTCTAATATT
1 TATTAA--TCTAATATT
57091429 TATGTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 17 0.52
24 1 0.03
25 15 0.45
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (25 bp):
TATTAATCTAATATTATTTAAATAT
Found at i:57092267 original size:14 final size:15
Alignment explanation
Indices: 57092241--57092270 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
57092231 ATGCATTAGA
57092241 TTAATTAAAATAAAT
1 TTAATTAAAATAAAT
57092256 TTAATT-AAATAAAT
1 TTAATTAAAATAAAT
57092270 T
1 T
57092271 ATTTCAGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATTAAAATAAAT
Found at i:57098670 original size:30 final size:32
Alignment explanation
Indices: 57098634--57098695 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 32
57098624 AATCAGAATC
57098634 TATAATA-AAAATTATATAAAA-GAAT-TATTT
1 TATAATATAAAATT-TATAAAAGGAATATATTT
57098664 TATAATATAAAATTTATAAAAGGAATATATTT
1 TATAATATAAAATTTATAAAAGGAATATATTT
57098696 ATTTCACCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 14 0.48
31 10 0.34
32 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (32 bp):
TATAATATAAAATTTATAAAAGGAATATATTT
Found at i:57106852 original size:16 final size:16
Alignment explanation
Indices: 57106816--57106846 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57106806 TAAAATATAT
*
57106816 TATTATTTAAATAAAG
1 TATTAATTAAATAAAG
57106832 TATTAATTAAATAAA
1 TATTAATTAAATAAA
57106847 TAATTATAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
TATTAATTAAATAAAG
Found at i:57107243 original size:43 final size:43
Alignment explanation
Indices: 57107160--57107299 Score: 117
Period size: 43 Copynumber: 3.3 Consensus size: 43
57107150 CCGGAAAAAA
* * *
57107160 CGCCGCTAAAAACCAAGACCTTTAGCGGCGCTT-TTCCCACAAAT
1 CGCCGCT-AAAATCAAGACCTTTAGCGACACTTCTTCCCAC-AAT
*
57107204 -GCCGCTATAAATCACGACCTTTAGCGACACTTCTT-CCACAAT
1 CGCCGCTA-AAATCAAGACCTTTAGCGACACTTCTTCCCACAAT
* * * * * * *
57107246 CGACGCTAAAGATCATGACCTTTAGTGATACTTC-TCGCAAAAA
1 CGCCGCTAAA-ATCAAGACCTTTAGCGACACTTCTTCCCACAAT
57107289 CGCCGCTAAAA
1 CGCCGCTAAAA
57107300 CATAACCTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
42 8 0.10
43 69 0.87
44 2 0.03
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (43 bp):
CGCCGCTAAAATCAAGACCTTTAGCGACACTTCTTCCCACAAT
Found at i:57107602 original size:34 final size:35
Alignment explanation
Indices: 57107558--57107623 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
57107548 CTATGAAAAT
57107558 TTTAACTTTAAAA-CTAAATATAA-AAATTAATGAA
1 TTTAACTTTAAAATCTAAA-ATAATAAATTAATGAA
* *
57107592 TTTAATTTTAAAATTTAAAATAATAAATTAAT
1 TTTAACTTTAAAATCTAAAATAATAAATTAAT
57107624 AACACAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (35 bp):
TTTAACTTTAAAATCTAAAATAATAAATTAATGAA
Found at i:57113429 original size:41 final size:41
Alignment explanation
Indices: 57113321--57113432 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 41
57113311 AGATTTTATT
** * **
57113321 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCTTGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCCGAGC
* *
57113362 TTTAGCGGC-ATTTCCCAAAAACGCCGCTAAAGCCCCGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCCGAGC
57113402 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAA
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAA
57113433 TACTTATTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 33 0.54
41 28 0.46
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (41 bp):
ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCCGAGC
Done.