Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 103 of 770
Found at i:29758688 original size:40 final size:40
Alignment explanation
Indices: 29758633--29758836 Score: 216
Period size: 40 Copynumber: 5.1 Consensus size: 40
29758623 TGAATGATAA
* * *
29758633 CCGGGCTAAGCCCCGAAGGCAAATATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG-TTATAT
* *
29758673 CCGGGTTAAAACCCGAAGGC-ATTCATGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-ATGCGAGTTGTTATAT
* *
29758713 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGTTATAT
* * * *
29758753 CCGGGCTAAGACCCGAAGGC-ATTCGTACGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCAATT-ATGCGAGTTGTTATAT
* * ** *
29758793 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGTTATAT
29758833 CCGG
1 CCGG
29758837 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.03
40 128 0.92
41 7 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGTTATAT
Found at i:29758767 original size:80 final size:80
Alignment explanation
Indices: 29758633--29758836 Score: 266
Period size: 80 Copynumber: 2.5 Consensus size: 80
29758623 TGAATGATAA
* * * *
29758633 CCGGGCTAAGCCCCGAAGGCAAATATGCTAG-TGATTATATCCGGGTTAAAACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTG-TTATATCCGGGCTAAAACCCGAAGGCATTC
* * *
29758697 ATGCGAGTTGTTATAT
65 ATACGAGTTGCTATAC
* * * *
29758713 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATATCCGGGCTAAAACCCGAAGGCATTCA
29758778 TACGAGTTGCTATAC
66 TACGAGTTGCTATAC
* * *
29758793 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATATCCGG
29758837 TTAAATTCCG
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
80 105 0.98
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATATCCGGGCTAAAACCCGAAGGCATTCA
TACGAGTTGCTATAC
Found at i:29769493 original size:40 final size:40
Alignment explanation
Indices: 29769449--29769618 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
29769439 ATGCTAGTGA
* * * * *
29769449 TTATATCCGGGTTAAAACCCAAAGGCATTCATGCGAGTTT
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* *
29769489 TTATATCCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
29769529 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * ** *
29769569 CTATACCCGGGTTAAGACCCGAAGGCAATT-GTGCTTGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG
29769609 TTATATCCGG
1 TTATATCCGG
29769619 TTAAATTCCG
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 109 0.97
41 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:29769554 original size:80 final size:80
Alignment explanation
Indices: 29769419--29769618 Score: 229
Period size: 80 Copynumber: 2.5 Consensus size: 80
29769409 TGATAACCGG
* * * * * * *
29769419 GCTAAGCCCCGAAGGAAAATATGCTAGTGATTATATCCGGGTTAAAACCCAAAGGCATTCATGCG
1 GCTAAGACCCGAAGGCAATTGTGCGAGTGGTTATATCCGGGCTAAAACCCAAAGGCATTCATGCG
** *
29769484 AGTTTTTATATCCGA
66 AGTTGCTATACCCGA
* * * * *
29769499 GCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCG
1 GCTAAGACCCGAAGGCAATTGTGCGAGTGGTTATATCCGGGCTAAAACCCAAAGGCATTCATGCG
*
29769564 AGTTGCTATACCCGG
66 AGTTGCTATACCCGA
* **
29769579 GTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 GCTAAGACCCGAAGGCAATTGTGCGAGTGGTTATATCCGG
29769619 TTAAATTCCG
Statistics
Matches: 99, Mismatches: 21, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
80 99 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
GCTAAGACCCGAAGGCAATTGTGCGAGTGGTTATATCCGGGCTAAAACCCAAAGGCATTCATGCG
AGTTGCTATACCCGA
Found at i:29774727 original size:55 final size:54
Alignment explanation
Indices: 29774640--29774884 Score: 229
Period size: 55 Copynumber: 4.6 Consensus size: 54
29774630 ATTAGGGTTT
* *
29774640 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTGAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGT-AAGTTTCATAAGGC
* * * * * *
29774695 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACCATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT-TCATAAGG-C
* * * *
29774751 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCATAAGGC
* *
29774803 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC--AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCATAAGGC
* * *
29774852 AAGGATACCACGTAAGACCATGACAAGTCATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
29774885 CAATAGTAAG
Statistics
Matches: 158, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
49 29 0.18
52 6 0.04
53 41 0.26
54 11 0.07
55 67 0.42
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCATAAGGC
Found at i:29774846 original size:108 final size:110
Alignment explanation
Indices: 29774647--29774847 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
29774637 TTTAAGGATA
*
29774647 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTGAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTGAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
29774712 CCATGTCAAGACATGGCATTGATAAGTTACCATAAGGAAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACCATAAGGAAAAGGTC
*
29774757 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTGAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
29774819 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
29774848 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 8 0.09
110 26 0.31
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTGAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACCATAAGGAAAAGGTC
Found at i:29777029 original size:19 final size:20
Alignment explanation
Indices: 29776992--29777029 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
29776982 ATAAGGTGGT
29776992 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
29777012 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
29777030 TGGAGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:29788331 original size:16 final size:16
Alignment explanation
Indices: 29788310--29788340 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29788300 ATAAATTTGA
29788310 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
29788326 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
29788341 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:29798358 original size:23 final size:22
Alignment explanation
Indices: 29798345--29798407 Score: 108
Period size: 22 Copynumber: 2.8 Consensus size: 22
29798335 TAACCTTGAT
29798345 AAAATAAAACCCCTAACCATAA
1 AAAATAAAACCCCTAACCATAA
29798367 AAAATAAAACCCCTAACCATAA
1 AAAATAAAACCCCTAACCATAA
*
29798389 AAAATAAAAAGCCCTAACC
1 AAAAT-AAAACCCCTAACC
29798408 TTGGAGAGAG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
22 27 0.69
23 12 0.31
ACGTcount: A:0.59, C:0.27, G:0.02, T:0.13
Consensus pattern (22 bp):
AAAATAAAACCCCTAACCATAA
Found at i:29798995 original size:17 final size:18
Alignment explanation
Indices: 29798969--29799002 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29798959 AAAATAATTT
*
29798969 AAAATTATAA-AAAAATA
1 AAAATCATAATAAAAATA
29798986 AAAATCATAATAAAAAT
1 AAAATCATAATAAAAAT
29799003 TATAATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATCATAATAAAAATA
Found at i:29800141 original size:16 final size:16
Alignment explanation
Indices: 29800122--29800159 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
29800112 ACTTGTTCAT
29800122 ATTCAAACTTGAGCTC
1 ATTCAAACTTGAGCTC
*
29800138 ATTCATACTTGAGCTC
1 ATTCAAACTTGAGCTC
*
29800154 TTTCAA
1 ATTCAA
29800160 TATTATGAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.37
Consensus pattern (16 bp):
ATTCAAACTTGAGCTC
Found at i:29804013 original size:9 final size:9
Alignment explanation
Indices: 29804001--29804030 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
29803991 CTTCTGGGCT
29804001 TTCTCTTTC
1 TTCTCTTTC
29804010 TTCTCTTTC
1 TTCTCTTTC
29804019 TTCTCTTTC
1 TTCTCTTTC
29804028 TTC
1 TTC
29804031 CTCAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (9 bp):
TTCTCTTTC
Found at i:29806467 original size:40 final size:40
Alignment explanation
Indices: 29806407--29806486 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
29806397 TAATTCGAGC
*
29806407 TACAGAGCTCCAAATTAAGATCCGTAAATTTCCCCTGAAA
1 TACAAAGCTCCAAATTAAGATCCGTAAATTTCCCCTGAAA
29806447 TACAAAGCTCCAAATTAAGATCCGTAAATTTCCCCTGAAA
1 TACAAAGCTCCAAATTAAGATCCGTAAATTTCCCCTGAAA
29806487 CTAGACTCAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (40 bp):
TACAAAGCTCCAAATTAAGATCCGTAAATTTCCCCTGAAA
Found at i:29808209 original size:30 final size:30
Alignment explanation
Indices: 29808175--29808235 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
29808165 TCCTTAACTC
29808175 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
29808205 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
29808235 A
1 A
29808236 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:29809441 original size:59 final size:57
Alignment explanation
Indices: 29809360--29809480 Score: 136
Period size: 58 Copynumber: 2.1 Consensus size: 57
29809350 GAATGAGTAG
* * * *
29809360 AAATGGAGAAATGGAAAACATTTAGGAAATTATTATGGTTTTCTCAAAAATGAAAATGA
1 AAATGGAGAAATAGAAAACATTT-GAAAATGAATATGGTTTTCTC-AAAATGAAAATGA
* * *
29809419 AAATGGAGAAAATAG-AATCATTTGAAAATGAATGTGGTTTTCTCAAAATGGAAATGA
1 AAATGGAG-AAATAGAAAACATTTGAAAATGAATATGGTTTTCTCAAAATGAAAATGA
*
29809476 GAATG
1 AAATG
29809481 AAAATGAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
57 16 0.30
58 17 0.32
59 15 0.28
60 5 0.09
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (57 bp):
AAATGGAGAAATAGAAAACATTTGAAAATGAATATGGTTTTCTCAAAATGAAAATGA
Found at i:29809684 original size:26 final size:27
Alignment explanation
Indices: 29809642--29809692 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
29809632 TAAATATAGT
* *
29809642 TTATAATATTTATCAAGGGTAAAATCA
1 TTATAATATTTACCAAGGATAAAATCA
29809669 TTATAAT-TTTACCAAGGATAAAAT
1 TTATAATATTTACCAAGGATAAAAT
29809693 TGGGATGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (27 bp):
TTATAATATTTACCAAGGATAAAATCA
Found at i:29811487 original size:12 final size:12
Alignment explanation
Indices: 29811470--29811497 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
29811460 TATATACACT
29811470 CGTGTGCTAGGC
1 CGTGTGCTAGGC
29811482 CGTGTGCTAGGC
1 CGTGTGCTAGGC
29811494 CGTG
1 CGTG
29811498 CCAAACTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.25, G:0.43, T:0.25
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:29817201 original size:30 final size:30
Alignment explanation
Indices: 29817167--29817227 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
29817157 TCCTTAACTC
29817167 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
29817197 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
29817227 A
1 A
29817228 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:29818140 original size:43 final size:42
Alignment explanation
Indices: 29818052--29818133 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 42
29818042 CTAGGACATC
*
29818052 GGCATCGTATTTGATTTCATGTAAGACCCTGTCTGGGACAGT
1 GGCATCGTATTTGATTACATGTAAGACCCTGTCTGGGACAGT
*
29818094 GGCATCGATATTTGATTACATGTAGGA-CCTCGTCTGGGAC
1 GGCATCG-TATTTGATTACATGTAAGACCCT-GTCTGGGAC
29818134 GTTGGCAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 10 0.28
43 26 0.72
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (42 bp):
GGCATCGTATTTGATTACATGTAAGACCCTGTCTGGGACAGT
Found at i:29818906 original size:10 final size:10
Alignment explanation
Indices: 29818863--29818910 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
29818853 TAATGAATCT
29818863 TATGTTTTGGG
1 TATGTTTT-GG
29818874 TATGATTTTGG
1 TATG-TTTTGG
*
29818885 ATTATATTTTGG
1 --TATGTTTTGG
29818897 TATGTTTTGG
1 TATGTTTTGG
29818907 TATG
1 TATG
29818911 GATTAATAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 13 0.41
11 6 0.19
12 10 0.31
13 3 0.09
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (10 bp):
TATGTTTTGG
Found at i:29823546 original size:2 final size:2
Alignment explanation
Indices: 29823539--29823566 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
29823529 AATCTATTGG
29823539 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29823567 GTATGTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29835139 original size:12 final size:12
Alignment explanation
Indices: 29835124--29835150 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
29835114 ATTATTTTTA
29835124 TTTGTTTTAATG
1 TTTGTTTTAATG
29835136 TTTGTTTTAATG
1 TTTGTTTTAATG
29835148 TTT
1 TTT
29835151 TTAAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (12 bp):
TTTGTTTTAATG
Found at i:29847215 original size:21 final size:22
Alignment explanation
Indices: 29847175--29847216 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
29847165 GCCTAAATGG
29847175 TCACACGGGCGTGTTGCCCCTC
1 TCACACGGGCGTGTTGCCCCTC
*
29847197 TCACACGGTCGTG-TGCCCCT
1 TCACACGGGCGTGTTGCCCCT
29847217 ATGTTAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.40, G:0.26, T:0.24
Consensus pattern (22 bp):
TCACACGGGCGTGTTGCCCCTC
Found at i:29850547 original size:18 final size:18
Alignment explanation
Indices: 29850508--29850550 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
29850498 CCCACTACAT
* *
29850508 AATAAAAATTAACATATT
1 AATAATAATTAACATATA
29850526 AATAATAATTAACATGA-A
1 AATAATAATTAACAT-ATA
29850544 AATAATA
1 AATAATA
29850551 TAATTCATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (18 bp):
AATAATAATTAACATATA
Found at i:29852371 original size:29 final size:28
Alignment explanation
Indices: 29852305--29852411 Score: 99
Period size: 29 Copynumber: 3.7 Consensus size: 28
29852295 AAATTCACAT
* *
29852305 ACCTGTATCTGGCCCATTAAGCCC-AATC
1 ACCT-TATATGGCCCATTAGGCCCAAATC
* *
29852333 ATCTTCATATGGCCTATTAGGCCCAAATC
1 ACCTT-ATATGGCCCATTAGGCCCAAATC
*
29852362 ACCTATATATGGCCCATTAGGCCCAGATC
1 ACCT-TATATGGCCCATTAGGCCCAAATC
* * *
29852391 ACATTTATATAGCCCGTTAGG
1 AC-CTTATATGGCCCATTAGG
29852412 TCCAGTCACA
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
27 1 0.02
28 18 0.28
29 44 0.68
30 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (28 bp):
ACCTTATATGGCCCATTAGGCCCAAATC
Found at i:29852416 original size:29 final size:29
Alignment explanation
Indices: 29852316--29852428 Score: 97
Period size: 29 Copynumber: 4.0 Consensus size: 29
29852306 CCTGTATCTG
* * *
29852316 GCCCATTAAGCCCA-ATCATC-TTCATATG
1 GCCCATTAGGCCCAGATCA-CATTTATATA
* * * * *
29852344 GCCTATTAGGCCCAAATCACCTATATATG
1 GCCCATTAGGCCCAGATCACATTTATATA
29852373 GCCCATTAGGCCCAGATCACATTTATATA
1 GCCCATTAGGCCCAGATCACATTTATATA
* * *
29852402 GCCCGTTAGGTCCAG-TCACATTCATAT
1 GCCCATTAGGCCCAGATCACATTTATAT
29852429 TCATGATCAC
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
28 24 0.34
29 47 0.66
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.28
Consensus pattern (29 bp):
GCCCATTAGGCCCAGATCACATTTATATA
Found at i:29852665 original size:16 final size:17
Alignment explanation
Indices: 29852639--29852674 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
29852629 GTAGCCAAAC
29852639 TTTCGGCTTTTCGACAT
1 TTTCGGCTTTTCGACAT
*
29852656 TTTC-GCTTTTCGGCAT
1 TTTCGGCTTTTCGACAT
29852672 TTT
1 TTT
29852675 AGCATTTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.08, C:0.22, G:0.17, T:0.53
Consensus pattern (17 bp):
TTTCGGCTTTTCGACAT
Found at i:29852680 original size:24 final size:24
Alignment explanation
Indices: 29852639--29852689 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
29852629 GTAGCCAAAC
*
29852639 TTTCGGCTTTTCGACATTTTC-GCT
1 TTTCGGCTTTTAGACA-TTTCGGCT
29852663 TTTCGGCATTTTAG-CATTTCGGCT
1 TTTCGGC-TTTTAGACATTTCGGCT
29852687 TTT
1 TTT
29852690 GTCGATTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.17
24 15 0.62
25 5 0.21
ACGTcount: A:0.10, C:0.22, G:0.18, T:0.51
Consensus pattern (24 bp):
TTTCGGCTTTTAGACATTTCGGCT
Found at i:29852682 original size:16 final size:16
Alignment explanation
Indices: 29852647--29852689 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
29852637 ACTTTCGGCT
* * *
29852647 TTTCGACATTTTCGCT
1 TTTCGGCATTTTAGCA
29852663 TTTCGGCATTTTAGCA
1 TTTCGGCATTTTAGCA
29852679 TTTCGGC-TTTT
1 TTTCGGCATTTT
29852690 GTCGATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.12, C:0.21, G:0.16, T:0.51
Consensus pattern (16 bp):
TTTCGGCATTTTAGCA
Found at i:29860155 original size:40 final size:40
Alignment explanation
Indices: 29860085--29860258 Score: 228
Period size: 40 Copynumber: 4.4 Consensus size: 40
29860075 AAGCCAAGTA
* * * * *
29860085 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
29860124 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
29860164 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
29860204 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
29860244 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
29860259 TCGGTTATCA
Statistics
Matches: 122, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 13 0.11
40 109 0.89
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:29864385 original size:34 final size:35
Alignment explanation
Indices: 29864342--29864420 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
29864332 ATAGGTAAGC
*
29864342 TTATATTGAACTTGAT-TATTTGATTACATGTGAA-
1 TTATATTGAACTT-ATATATTCGATTACATGTGAAG
**
29864376 TTATATTGAACTTATATATTCGATTTTATGTGAAG
1 TTATATTGAACTTATATATTCGATTACATGTGAAG
*
29864411 TTATTTTGAA
1 TTATATTGAA
29864421 TGTGCATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
33 2 0.05
34 28 0.72
35 9 0.23
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (35 bp):
TTATATTGAACTTATATATTCGATTACATGTGAAG
Found at i:29866368 original size:23 final size:22
Alignment explanation
Indices: 29866338--29866384 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
29866328 TTATGTTTTG
*
29866338 TTTTA-TTTATTAATTTTATTACA
1 TTTTATTTTA-TAATTTCATT-CA
29866361 TTTTATTTTATAATTTCATTCA
1 TTTTATTTTATAATTTCATTCA
29866383 TT
1 TT
29866385 ACCATCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 14 0.64
24 4 0.18
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTATTTTATAATTTCATTCA
Found at i:29869682 original size:71 final size:71
Alignment explanation
Indices: 29869594--29869757 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
29869584 GAGATGTATC
29869594 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
29869659 AGGACA
66 AGGACA
*
29869665 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
29869730 AGGACA
66 AGGACA
29869736 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
29869758 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:29877279 original size:70 final size:71
Alignment explanation
Indices: 29877129--29877291 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
29877119 GAGATGTATC
29877129 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
29877194 AGGACA
66 AGGACA
29877200 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
29877264 AGGACA
66 AGGACA
29877270 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
29877292 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 52 0.57
71 40 0.43
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:29883128 original size:46 final size:45
Alignment explanation
Indices: 29883044--29883263 Score: 198
Period size: 46 Copynumber: 4.7 Consensus size: 45
29883034 GAGAGCCAGC
* * *
29883044 GTAAGACCATGTCTAGGACATTGCATTGGCATCGAGACGAGTGCTAGT
1 GTAAGA-CATGTCTGGGACA-TGCATCGGCATCGAGACGA-AGCTAGT
* *
29883092 GTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCATCGAGACG-AAGCTAGT
*
29883138 GTAAGACATGTCTGGGACATGCATC-G-ATTACGAGATGATAG-TCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCA-T-CGAGACGA-AGCT-AGT
* * *
29883184 GTAAGACCATGTCTGGAACATGGCATCGACAT-GAGA-TATGAGCTAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGA--AGCTAGT
29883231 GTAAGACTATGTCTGGGACATCGCATCGGCATC
1 GTAAGAC-ATGTCTGGGACAT-GCATCGGCATC
29883264 TTATCCACGT
Statistics
Matches: 144, Mismatches: 15, Indels: 26
0.78 0.08 0.14
Matches are distributed among these distances:
45 3 0.02
46 65 0.45
47 62 0.43
48 12 0.08
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (45 bp):
GTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAAGCTAGT
Found at i:29883205 original size:93 final size:94
Alignment explanation
Indices: 29883089--29883258 Score: 238
Period size: 93 Copynumber: 1.8 Consensus size: 94
29883079 GACGAGTGCT
* * * *
29883089 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGACGTAAGCCAGTGTAAGAC-ATGTCTG
1 AGTGTAAGACATGTCTGGAACATGGCATCGACAT-GAGACATAAGCCAGTGTAAGACTATGTCTG
29883152 GGACAT-GCATCGATTACGAGATGATAGTC
65 GGACATCGCATCGATTACGAGATGATAGTC
* * *
29883181 AGTGTAAGACCATGTCTGGAACATGGCATCGACATGAGATATGAGCTAGTGTAAGACTATGTCTG
1 AGTGTAAGA-CATGTCTGGAACATGGCATCGACATGAGACATAAGCCAGTGTAAGACTATGTCTG
29883246 GGACATCGCATCG
65 GGACATCGCATCG
29883259 GCATCTTATC
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
92 9 0.13
93 31 0.46
94 21 0.31
95 6 0.09
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGAACATGGCATCGACATGAGACATAAGCCAGTGTAAGACTATGTCTGG
GACATCGCATCGATTACGAGATGATAGTC
Found at i:29890739 original size:46 final size:46
Alignment explanation
Indices: 29890602--29890805 Score: 227
Period size: 46 Copynumber: 4.4 Consensus size: 46
29890592 GCTAGTATAG
* * *
29890602 GACATGTTTGGGACATGCATCAGG-CAC-ATTATGAGAGCCAGTGTAA
1 GACATGTCTGGGACATGCATC-GGCCTCGA-GATGAGAGCCAGTGTAA
* *
29890648 GACCATGTCTGGGACATCGCATCGGCATCGAGATGAGAGCTAGTGTAA
1 GA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCCAGTGTAA
*
29890696 GACATGTCTGGGACATGCATCGGCCTCGAGACGTA-AGCCAGTGTAA
1 GACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCCAGTGTAA
* * * *
29890742 GACATGTCTGGGACATGCATCGG-CTACAAGATGATAGTCGGTGTAA
1 GACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCCAGTGTAA
29890788 GACGATGTCTGGGACATG
1 GAC-ATGTCTGGGACATG
29890806 GCATTGACAT
Statistics
Matches: 138, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
45 3 0.02
46 67 0.49
47 44 0.32
48 23 0.17
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
GACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCCAGTGTAA
Found at i:29890834 original size:47 final size:47
Alignment explanation
Indices: 29890602--29890852 Score: 209
Period size: 47 Copynumber: 5.4 Consensus size: 47
29890592 GCTAGTATAG
* * * *
29890602 GACATGTTTGGGACATGCATCAGGCA-C-ATTATGA-GAGCCAGTGTAA
1 GACATGTCTGGGACATGCATC-GGCATCGA-GATGATGAGCTACTGTAA
*
29890648 GACCATGTCTGGGACATCGCATCGGCATCGAGATGA-GAGCTAGTGTAA
1 GA-CATGTCTGGGACAT-GCATCGGCATCGAGATGATGAGCTACTGTAA
* * * * *
29890696 GACATGTCTGGGACATGCATCGGCCTCGAGACG-TAAGCCAGTGTAA
1 GACATGTCTGGGACATGCATCGGCATCGAGATGATGAGCTACTGTAA
*
29890742 GACATGTCTGGGACATGCATCGGC-TACAAGATGAT-AG-T-CGGTGTAA
1 GACATGTCTGGGACATGCATCGGCAT-CGAGATGATGAGCTAC--TGTAA
* *
29890788 GACGATGTCTGGGACATGGCATTGACAT-GAGAT-ATGAGCTACTGTAA
1 GAC-ATGTCTGGGACAT-GCATCGGCATCGAGATGATGAGCTACTGTAA
*
29890835 GACGGTGTCTGGGACATG
1 GAC-ATGTCTGGGACATG
29890853 GAATCAGTAC
Statistics
Matches: 175, Mismatches: 15, Indels: 30
0.80 0.07 0.14
Matches are distributed among these distances:
45 1 0.01
46 69 0.39
47 72 0.41
48 30 0.17
49 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
GACATGTCTGGGACATGCATCGGCATCGAGATGATGAGCTACTGTAA
Found at i:29892971 original size:23 final size:22
Alignment explanation
Indices: 29892944--29892994 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
29892934 AGTAATATAC
*
29892944 AAAATAATATACATTAATTTAAA
1 AAAATAATATACA-TAAATTAAA
*
29892967 TAAATAATATACATAAATTAAA
1 AAAATAATATACATAAATTAAA
29892989 AAAATA
1 AAAATA
29892995 GTGTAATGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAATATACATAAATTAAA
Found at i:29895061 original size:45 final size:44
Alignment explanation
Indices: 29895012--29895108 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 44
29895002 AAGATTCGCC
* *
29895012 ATCTTC-GTTCTGCTCCACT-GCTATCTCAAGGAGATAAGATCTACA
1 ATCTTCAG-TCTGCTCC-CTCGCTACCTCAAGAAGATAAGA-CTACA
*
29895057 ATCTTCAGTCTGCTTCCTCGCTACCTCAAGAAGATAAGACTACA
1 ATCTTCAGTCTGCTCCCTCGCTACCTCAAGAAGATAAGACTACA
29895101 ATCTTCAG
1 ATCTTCAG
29895109 CCTACACCTT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
44 15 0.32
45 31 0.66
46 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (44 bp):
ATCTTCAGTCTGCTCCCTCGCTACCTCAAGAAGATAAGACTACA
Found at i:29895094 original size:90 final size:90
Alignment explanation
Indices: 29894987--29895363 Score: 305
Period size: 90 Copynumber: 4.2 Consensus size: 90
29894977 TGCTCCCCTT
* * * * *
29894987 CTACCTCGGGAAGATAAGATTCGCCATCTTCGTTCTGCTCCACTGCTATCTCAAGGAGATAAGAT
1 CTACCTCAGGAAGATAAGATTCACCATCTTCGATCTACACCACTGCTATCTCAAGGAGATAAGAT
*
29895052 CTACAATCTTCAGTCTGCTTCCTCG
66 CTACAATCTTCAGTCTGCTTCCTCA
* * * * ** * *
29895077 CTACCTCAAGAAGATAAGACT-ACAATCTTC-AGCCTACACCTTTGCTACCTCAGGGAGATAAG-
1 CTACCTCAGGAAGATAAGATTCACCATCTTCGA-TCTACACCACTGCTATCTCAAGGAGATAAGA
* **** ** * *
29895139 GCTAGTGGCTAAAATCTGC-TCCCCTA
65 TCTACAATCTTCAGTCTGCTTCCTC-A
* ** * * * * * *
29895165 CTGCCTTGGGAAAATAAGATTCACCGTCTTCAATCTACACCATTACTATCTCAGGGAGATAAGAT
1 CTACCTCAGGAAGATAAGATTCACCATCTTCGATCTACACCACTGCTATCTCAAGGAGATAAGAT
* * **
29895230 CTACAATCTTCAGTCTGTTTCTTTG
66 CTACAATCTTCAGTCTGCTTCCTCA
** * * *
29895255 CTACCTCAGGAAGATAAGATTCGTCGTCTTCGATCTACTCCACTGCTATCT-TAGGAAGATAAGA
1 CTACCTCAGGAAGATAAGATTCACCATCTTCGATCTACACCACTGCTATCTCAAGG-AGATAAGA
* *
29895319 TCTACAATCTTCAGTTTGCTTCCTTA
65 TCTACAATCTTCAGTCTGCTTCCTCA
29895345 CTACCTCAGGAAGATAAGA
1 CTACCTCAGGAAGATAAGA
29895364 CTACAATCTT
Statistics
Matches: 216, Mismatches: 64, Indels: 14
0.73 0.22 0.05
Matches are distributed among these distances:
87 4 0.02
88 26 0.12
89 65 0.30
90 119 0.55
91 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (90 bp):
CTACCTCAGGAAGATAAGATTCACCATCTTCGATCTACACCACTGCTATCTCAAGGAGATAAGAT
CTACAATCTTCAGTCTGCTTCCTCA
Found at i:29895124 original size:44 final size:45
Alignment explanation
Indices: 29895030--29895138 Score: 132
Period size: 44 Copynumber: 2.4 Consensus size: 45
29895020 TCTGCTCCAC
* * * *
29895030 TGCTATCTCAAGGAGATAAGATCTACAATCTTCAGTCTGCTTCCT
1 TGCTACCTCAAGGAGATAAGATCTACAATCTTCAGCCTACTACCT
* *
29895075 CGCTACCTCAAGAAGATAAGA-CTACAATCTTCAGCCTAC-ACCTT
1 TGCTACCTCAAGGAGATAAGATCTACAATCTTCAGCCTACTACC-T
*
29895119 TGCTACCTCAGGGAGATAAG
1 TGCTACCTCAAGGAGATAAG
29895139 GCTAGTGGCT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
43 2 0.04
44 34 0.63
45 18 0.33
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (45 bp):
TGCTACCTCAAGGAGATAAGATCTACAATCTTCAGCCTACTACCT
Found at i:29895184 original size:178 final size:178
Alignment explanation
Indices: 29894940--29895273 Score: 497
Period size: 178 Copynumber: 1.9 Consensus size: 178
29894930 ATCTGCTTTC
* * * *
29894940 TTGCTACCTCAGGGAGTTAAGGCTGGTGGCTAAAATCTGCTCCCCTTCTACCTCGGGAAGATAAG
1 TTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTACTACCTCGGGAAAATAAG
* ** * * *
29895005 ATTCGCCATCTTCGTTCTGCTCCACTGCTATCTCAAGGAGATAAGATCTACAATCTTCAGTCTGC
66 ATTCACCATCTTCAATCTACACCACTACTATCTCAAGGAGATAAGATCTACAATCTTCAGTCTGC
29895070 TTCCTCGCTACCTCAAGAAGATAAGACTACAATCTTCAGCCTACACCT
131 TTCCTCGCTACCTCAAGAAGATAAGACTACAATCTTCAGCCTACACCT
* *
29895118 TTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTACTGCCTTGGGAAAATAAG
1 TTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTACTACCTCGGGAAAATAAG
* * * *
29895183 ATTCACCGTCTTCAATCTACACCATTACTATCTCAGGGAGATAAGATCTACAATCTTCAGTCTGT
66 ATTCACCATCTTCAATCTACACCACTACTATCTCAAGGAGATAAGATCTACAATCTTCAGTCTGC
* * *
29895248 TTCTTTGCTACCTCAGGAAGATAAGA
131 TTCCTCGCTACCTCAAGAAGATAAGA
29895274 TTCGTCGTCT
Statistics
Matches: 137, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
178 137 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (178 bp):
TTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTACTACCTCGGGAAAATAAG
ATTCACCATCTTCAATCTACACCACTACTATCTCAAGGAGATAAGATCTACAATCTTCAGTCTGC
TTCCTCGCTACCTCAAGAAGATAAGACTACAATCTTCAGCCTACACCT
Found at i:29895240 original size:45 final size:45
Alignment explanation
Indices: 29895043--29895406 Score: 170
Period size: 45 Copynumber: 8.2 Consensus size: 45
29895033 TATCTCAAGG
* * ** *
29895043 AGATAAGATCTACAATCTTCAGTCTGCTTCC-TCGCTACCTCAAGA
1 AGATAAGATCTACAATCTTCAATCTAC-TCCATTACTACCTCAGGA
** * * * *
29895088 AGATAAGA-CTACAATCTTCAGCCTACACCTTTGCTACCTCAGGG
1 AGATAAGATCTACAATCTTCAATCTACTCCATTACTACCTCAGGA
* **** ** * ** * **
29895132 AGATAAG-GCTAGTGGCTAAAATCTGCTCCCCTACTGCCTTGGGA
1 AGATAAGATCTACAATCTTCAATCTACTCCATTACTACCTCAGGA
* ** * * *
29895176 AAATAAGAT-TCACCGTCTTCAATCTACACCATTACTATCTCAGGG
1 AGATAAGATCT-ACAATCTTCAATCTACTCCATTACTACCTCAGGA
* ** * * *
29895221 AGATAAGATCTACAATCTTCAGTCTGTTTCTTTGCTACCTCAGGA
1 AGATAAGATCTACAATCTTCAATCTACTCCATTACTACCTCAGGA
* * * * * *
29895266 AGATAAGATTCGT-C-GTCTTCGATCTACTCCACTGCTATCTTAGGA
1 AGATAAGA-TC-TACAATCTTCAATCTACTCCATTACTACCTCAGGA
* * *
29895311 AGATAAGATCTACAATCTTCAGTTTGCTTCC-TTACTACCTCAGGA
1 AGATAAGATCTACAATCTTCAATCTAC-TCCATTACTACCTCAGGA
* * * *
29895356 AGATAAGA-CTACAATCTTCAACCTACTCTC-TTGCTACATCAGAA
1 AGATAAGATCTACAATCTTCAATCTACTC-CATTACTACCTCAGGA
29895400 AGATAAG
1 AGATAAG
29895407 GCTGGTGGCT
Statistics
Matches: 231, Mismatches: 77, Indels: 23
0.70 0.23 0.07
Matches are distributed among these distances:
43 5 0.02
44 96 0.42
45 122 0.53
46 7 0.03
47 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (45 bp):
AGATAAGATCTACAATCTTCAATCTACTCCATTACTACCTCAGGA
Found at i:29895403 original size:44 final size:45
Alignment explanation
Indices: 29895310--29895406 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 45
29895300 CTATCTTAGG
*** * * *
29895310 AAGATAAGATCTACAATCTTCAGTTTGCTTCCTTACTACCTCAGG
1 AAGATAAGATCTACAATCTTCAACCTACTTCCTTACTACATCAGA
*
29895355 AAGATAAGA-CTACAATCTTCAACCTAC-TCTCTTGCTACATCAGA
1 AAGATAAGATCTACAATCTTCAACCTACTTC-CTTACTACATCAGA
29895399 AAGATAAG
1 AAGATAAG
29895407 GCTGGTGGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
43 2 0.05
44 33 0.75
45 9 0.20
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (45 bp):
AAGATAAGATCTACAATCTTCAACCTACTTCCTTACTACATCAGA
Found at i:29895439 original size:178 final size:178
Alignment explanation
Indices: 29895253--29896030 Score: 942
Period size: 178 Copynumber: 4.4 Consensus size: 178
29895243 TCTGTTTCTT
** * * *
29895253 TGCTACCTCAGGAAGATAAGATTCGTCGTCTTCGATCTACTCCACTGCTATCTTAGGAAGATAAG
1 TGCTACCTCAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTATCTTAGGGAGATAAG
* * *
29895318 ATCTACAATCTTCAGTTTGCTTCCTTACTACCTCAGGAAGATAAGACTACAATCTTCAACCTACT
66 ATCTACAATCTTCAGTCTGCTTCCTTACTACCTCAGAAAGATAAGACTACAATCTTCAACCTGCT
* * *
29895383 CTCTTGCTACATCAGAAAGATAAGGCTGGTGGCTAAAATCTACTCCCC
131 CTCTTACTACCTCAGAAAGATAAGGCTGGTGGCTAAAATCTGCTCCCC
* *
29895431 TGCTACCTC--GAGAGATAAGATTCACCATCTTCGATCTGCTCCACTACT-GCTTAGGGAGATAA
1 TGCTACCTCAGGA-AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTATCTTAGGGAGATAA
* * * * * * * *
29895493 GATCTATAAACCTCAGTCTGC-TCTCTTGCTACCTTAGAAAGATAAAACTACAATCTTTATCCTG
65 GATCTACAATCTTCAGTCTGCTTC-CTTACTACCTCAGAAAGATAAGACTACAATCTTCAACCTG
* * * *
29895557 CTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTTCTCCCC
129 CTCTCTTACTACCTCAGAAAGATAAGGCTGGTGGCTAAAATCTGCTCCCC
* * * * * ** *
29895607 TACTACTTCGGGAAGATAAGATTCACTGTCTTCGATCTGTTCCACCGCTATCTCAGGGAGATAAG
1 TGCTACCTCAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTATCTTAGGGAGATAAG
*
29895672 ATCTACAATCTT-AGGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACAATCTTCAACCTGC
66 ATCTACAATCTTCA-GTCTGCTTCCTTACTACCTCAGAAAGATAAGACTACAATCTTCAACCTGC
29895736 TCTCTTACTACCTCA-AAGAGCA-AAGGCTGGTGGCTAAAATCTGCTCCCC
130 TCTCTTACTACCTCAGAA-AG-ATAAGGCTGGTGGCTAAAATCTGCTCCCC
* * * *
29895785 TGCTACTTAAGGAAGATAAGATTCACCGTCTTAGATCTGCTCTACTACTATCTTAGGGAGATAAG
1 TGCTACCTCAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTATCTTAGGGAGATAAG
* * * * ** *
29895850 ATCTTCAATCTTTAGTCTACTTCCTTACTACCTCAGGAAGATAAGACTACAATCTTCGGCATGCT
66 ATCTACAATCTTCAGTCTGCTTCCTTACTACCTCAGAAAGATAAGACTACAATCTTCAACCTGCT
* ** * * *
29895915 CCCTTACTACCTCAGGGAGATAAGGCTGGTAGCTAAAATCTGCTTCTC
131 CTCTTACTACCTCAGAAAGATAAGGCTGGTGGCTAAAATCTGCTCCCC
* ** * * *
29895963 TGCTACCTCAGAAAGATAAGATTTGCCATCTTCAATCTACTCCACTACTA-CTTAGGGAGATAAG
1 TGCTACCTCAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTATCTTAGGGAGATAAG
29896027 ATCT
66 ATCT
29896031 TCAACTCACC
Statistics
Matches: 513, Mismatches: 75, Indels: 25
0.84 0.12 0.04
Matches are distributed among these distances:
175 2 0.00
176 117 0.23
177 83 0.16
178 307 0.60
179 4 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (178 bp):
TGCTACCTCAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTATCTTAGGGAGATAAG
ATCTACAATCTTCAGTCTGCTTCCTTACTACCTCAGAAAGATAAGACTACAATCTTCAACCTGCT
CTCTTACTACCTCAGAAAGATAAGGCTGGTGGCTAAAATCTGCTCCCC
Found at i:29895676 original size:354 final size:356
Alignment explanation
Indices: 29895263--29896030 Score: 937
Period size: 354 Copynumber: 2.2 Consensus size: 356
29895253 TGCTACCTCA
* * *
29895263 GGAAGATAAGATTCGTCGTCTTCGATCTACTCCACTGCTATCTTAGGAAGATAAGATCTACAATC
1 GGAAGATAAGATTCCTCGTCTTCGATCTACTCCACCGCTATCTCAGGAAGATAAGATCTACAATC
* * *
29895328 TTCA-GTTTGCTTCCTTACTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTA
66 TT-AGGTCTGCTTCCTTACTACCTCAGAAAGATAAGACTACAATCTTCAACCTACTCTCTTACTA
*
29895392 CATCAGAA-AG-ATAAGGCTGGTGGCTAAAATCTACTCCCCTGCTACCTCGA-G-AGATAAGATT
130 CATCA-AAGAGCA-AAGGCTGGTGGCTAAAATCTACTCCCCTGCTA-CTCAAGGAAGATAAGATT
* *
29895453 CACCATCTTCGATCTGCTCCACTACT-GCTTAGGGAGATAAGATCTAT-AAACCTCAGTCTGC-T
192 CACCATCTTAGATCTGCTCCACTACTAGCTTAGGGAGATAAGATCT-TCAAACCTCAGTCTACTT
* * * * * * *
29895515 CTCTTGCTACCTTAGAAAGATAAAACTACAATCTTTATCCTGCTCTCTTGCTACCTCAGAGAGAT
256 C-CTTACTACCTCAGAAAGATAAAACTACAATCTTCAGCATGCTCCCTTACTACCTCAGAGAGAT
*
29895580 AAGGCTAGTGGCTAAAATCTTCTCCCCTACTACTTCG
320 AAGGCTAGTAGCTAAAATCTTCTCCCCTACTACTTCG
** *
29895617 GGAAGATAAGATTCACT-GTCTTCGATCTGTTCCACCGCTATCTCAGGGAGATAAGATCTACAAT
1 GGAAGATAAGATTC-CTCGTCTTCGATCTACTCCACCGCTATCTCAGGAAGATAAGATCTACAAT
* *
29895681 CTTAGGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACAATCTTCAACCTGCTCTCTTACTA
65 CTTAGGTCTGCTTCCTTACTACCTCAGAAAGATAAGACTACAATCTTCAACCTACTCTCTTACTA
* * *
29895746 CCTCAAAGAGCAAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACTTAAGGAAGATAAGATTCAC
130 CATCAAAGAGCAAAGGCTGGTGGCTAAAATCTACTCCCCTGCTACTCAAGGAAGATAAGATTCAC
* * * * * *
29895811 CGTCTTAGATCTGCTCTACTACTATCTTAGGGAGATAAGATCTTCAATCTTTAGTCTACTTCCTT
195 CATCTTAGATCTGCTCCACTACTAGCTTAGGGAGATAAGATCTTCAAACCTCAGTCTACTTCCTT
* * * *
29895876 ACTACCTCAGGAAGATAAGACTACAATCTTCGGCATGCTCCCTTACTACCTCAGGGAGATAAGGC
260 ACTACCTCAGAAAGATAAAACTACAATCTTCAGCATGCTCCCTTACTACCTCAGAGAGATAAGGC
* * * * * * *
29895941 TGGTAGCTAAAATCTGCTTCTCTGCTACCTCA
325 TAGTAGCTAAAATCTTCTCCCCTACTACTTCG
* * * * ** * *
29895973 GAAAGATAAGATTTGC-CATCTTCAATCTACTCCACTACTA-CTTAGGGAGATAAGATCT
1 GGAAGATAAGA-TTCCTCGTCTTCGATCTACTCCACCGCTATCTCAGGAAGATAAGATCT
29896031 TCAACTCACC
Statistics
Matches: 352, Mismatches: 51, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
353 6 0.02
354 152 0.43
355 53 0.15
356 137 0.39
357 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (356 bp):
GGAAGATAAGATTCCTCGTCTTCGATCTACTCCACCGCTATCTCAGGAAGATAAGATCTACAATC
TTAGGTCTGCTTCCTTACTACCTCAGAAAGATAAGACTACAATCTTCAACCTACTCTCTTACTAC
ATCAAAGAGCAAAGGCTGGTGGCTAAAATCTACTCCCCTGCTACTCAAGGAAGATAAGATTCACC
ATCTTAGATCTGCTCCACTACTAGCTTAGGGAGATAAGATCTTCAAACCTCAGTCTACTTCCTTA
CTACCTCAGAAAGATAAAACTACAATCTTCAGCATGCTCCCTTACTACCTCAGAGAGATAAGGCT
AGTAGCTAAAATCTTCTCCCCTACTACTTCG
Found at i:29895736 original size:44 final size:45
Alignment explanation
Indices: 29895665--29895750 Score: 106
Period size: 44 Copynumber: 1.9 Consensus size: 45
29895655 TATCTCAGGG
** *
29895665 AGATAAGATCTACAATCTTAGGTCTGCT-TCCTTGCTACCTCAGAA
1 AGATAAGATCTACAATCTTAGACCTGCTCT-CTTACTACCTCAGAA
29895710 AGATAAGA-CTACAATCTTCA-ACCTGCTCTCTTACTACCTCA
1 AGATAAGATCTACAATCTT-AGACCTGCTCTCTTACTACCTCA
29895751 AAGAGCAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 26 0.72
45 10 0.28
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (45 bp):
AGATAAGATCTACAATCTTAGACCTGCTCTCTTACTACCTCAGAA
Found at i:29897319 original size:25 final size:24
Alignment explanation
Indices: 29897288--29897362 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 24
29897278 TCTCTTTCTC
29897288 TTTTTTTTGATTGATGATTTTTTT
1 TTTTTTTTGATTGATGATTTTTTT
29897312 TTATTTTTTGATT-A--ATTTTTTAT
1 TT-TTTTTTGATTGATGATTTTTT-T
**
29897335 TTTTTTTATTTTTGATGATTTTTTT
1 TTTTTTT-TGATTGATGATTTTTTT
29897360 TTT
1 TTT
29897363 GGTCTCAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
22 12 0.28
23 6 0.14
24 4 0.09
25 14 0.33
26 7 0.16
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (24 bp):
TTTTTTTTGATTGATGATTTTTTT
Found at i:29897320 original size:8 final size:9
Alignment explanation
Indices: 29897306--29897347 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
29897296 GATTGATGAT
29897306 TTTTTTTTA
1 TTTTTTTTA
29897315 TTTTTTGATTA
1 TTTTTT--TTA
*
29897326 -ATTTTTTA
1 TTTTTTTTA
29897334 TTTTTTTTA
1 TTTTTTTTA
29897343 TTTTT
1 TTTTT
29897348 GATGATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
8 3 0.11
9 18 0.64
10 4 0.14
11 3 0.11
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:29897337 original size:28 final size:25
Alignment explanation
Indices: 29897305--29897362 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 25
29897295 TGATTGATGA
29897305 TTTTTTTTTATTTTTTGATTAATTTTT
1 TTTTTTTTTA-TTTTTGA-TAATTTTT
*
29897332 TATTTTTTTTATTTTTGATGATTTTT
1 T-TTTTTTTTATTTTTGATAATTTTT
29897358 TTTTT
1 TTTTT
29897363 GGTCTCAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 4 0.14
26 8 0.28
27 8 0.28
28 9 0.31
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (25 bp):
TTTTTTTTTATTTTTGATAATTTTT
Found at i:29900611 original size:12 final size:12
Alignment explanation
Indices: 29900594--29900626 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
29900584 CTTAGTTGTT
29900594 CTTGCATCTGTG
1 CTTGCATCTGTG
*
29900606 CTTGCATCTGTT
1 CTTGCATCTGTG
29900618 CTTGCATCT
1 CTTGCATCT
29900627 CTTTCTACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.27, G:0.18, T:0.45
Consensus pattern (12 bp):
CTTGCATCTGTG
Found at i:29903119 original size:23 final size:23
Alignment explanation
Indices: 29903069--29903120 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
29903059 AGTAATATAC
* * *
29903069 AAAATAATATACATGAATTTAAT
1 AAAATAATATACATAAATTAAAA
*
29903092 TAAATAATATACATAAATTAAAA
1 AAAATAATATACATAAATTAAAA
29903115 AAAATA
1 AAAATA
29903121 GTGTAATGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAATAATATACATAAATTAAAA
Found at i:29908752 original size:40 final size:40
Alignment explanation
Indices: 29908646--29908829 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
29908636 TGCTGGAAAT
* * * * * **
29908646 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
29908686 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
29908726 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
29908764 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
29908805 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
29908830 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:29916520 original size:40 final size:40
Alignment explanation
Indices: 29916414--29916526 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
29916404 TGCTGGAAAT
* * * * * **
29916414 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
29916454 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* *
29916494 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGC
29916527 AATCGTGATA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:29920842 original size:40 final size:40
Alignment explanation
Indices: 29920769--29920844 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
29920759 ACACACCATG
** * *
29920769 TGGGGATAAAATTGACCCACCAATCCCTGCACACCAAATA
1 TGGGGATAAAATCAAACCACCAATCCCTACACACCAAATA
29920809 TGGGGATAAAATCAAACCATCCAA-CCCTACACACCA
1 TGGGGATAAAATCAAACCA-CCAATCCCTACACACCA
29920845 TAGAGTATCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 27 0.87
41 4 0.13
ACGTcount: A:0.39, C:0.32, G:0.13, T:0.16
Consensus pattern (40 bp):
TGGGGATAAAATCAAACCACCAATCCCTACACACCAAATA
Found at i:29924714 original size:40 final size:40
Alignment explanation
Indices: 29924640--29924742 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
29924630 CCCTGCACAC
* * *
29924640 CAACTCCATCCAACCCAACACACC--ATGTGGGGATAAAAT
1 CAAC-CCACCCAACCCTACACACCAAATATGGGGATAAAAT
* * *
29924679 CGACTCACCCATCCCTACACACCAAATATGGGGATAAAAT
1 CAACCCACCCAACCCTACACACCAAATATGGGGATAAAAT
* *
29924719 CAACCCATCCAACCTTACACACCA
1 CAACCCACCCAACCCTACACACCA
29924743 TAGAGTACCG
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
38 15 0.29
39 3 0.06
40 33 0.65
ACGTcount: A:0.38, C:0.37, G:0.10, T:0.16
Consensus pattern (40 bp):
CAACCCACCCAACCCTACACACCAAATATGGGGATAAAAT
Found at i:29927259 original size:2 final size:2
Alignment explanation
Indices: 29927252--29927276 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
29927242 AACCAATTTC
29927252 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
29927277 CTTTGTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29928105 original size:35 final size:35
Alignment explanation
Indices: 29928060--29928221 Score: 180
Period size: 35 Copynumber: 4.6 Consensus size: 35
29928050 AATACTCAAG
*
29928060 GTTCATTATATCATCACATATGGCCAAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * * **
29928095 GTACAATATATCATCATATATGACTGAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * * * * * *
29928130 GCTCAATAAAACATCACATGTAGTCAAATATTCAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * *
29928165 GTTTAATATAACATCACATGTGGCCAAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
29928200 GTTCAATATATCATCACATATG
1 GTTCAATATATCATCACATATG
29928222 TACATACCTA
Statistics
Matches: 100, Mismatches: 27, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 100 1.00
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (35 bp):
GTTCAATATATCATCACATATGGCCAAATATACAA
Found at i:29931147 original size:28 final size:28
Alignment explanation
Indices: 29931107--29931162 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
29931097 GGGAAAGATG
29931107 ATGAAAATTCTTCATCTTTCCTTCCTTT
1 ATGAAAATTCTTCATCTTTCCTTCCTTT
29931135 ATGAAAATTCTTCATCTTTCCTTCCTTT
1 ATGAAAATTCTTCATCTTTCCTTCCTTT
29931163 TATACTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.04, T:0.50
Consensus pattern (28 bp):
ATGAAAATTCTTCATCTTTCCTTCCTTT
Found at i:29932525 original size:25 final size:27
Alignment explanation
Indices: 29932488--29932537 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
29932478 TCAAACATGC
*
29932488 ATTTTGGTCAATTTAAC-CCTAGGGGT
1 ATTTCGGTCAATTTAACTCCTAGGGGT
*
29932514 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTCGGTCAATTTAACTCCTAGGG
29932538 ATAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (27 bp):
ATTTCGGTCAATTTAACTCCTAGGGGT
Found at i:29934056 original size:26 final size:26
Alignment explanation
Indices: 29934025--29934132 Score: 146
Period size: 26 Copynumber: 4.2 Consensus size: 26
29934015 TGAAATGCCC
29934025 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
29934051 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* * * *
29934077 ATCATTGAATATTTACCTAATCCATA
1 ATCATGGAACATTTACCTAAACCATT
* *
29934103 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
29934129 ATCA
1 ATCA
29934133 ATTTGTACCA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
25 4 0.06
26 64 0.90
27 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:29934107 original size:52 final size:52
Alignment explanation
Indices: 29934025--29934132 Score: 162
Period size: 52 Copynumber: 2.1 Consensus size: 52
29934015 TGAAATGCCC
* * *
29934025 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAAACCATAATCATGAAACATTTACCTAACCCATT
* * *
29934077 ATCATTGAATATTTACCTAATCCATAATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATAATCATGAAACATTTACCTAACCCATT
29934129 ATCA
1 ATCA
29934133 ATTTGTACCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATAATCATGAAACATTTACCTAACCCATT
Found at i:29939131 original size:39 final size:39
Alignment explanation
Indices: 29939061--29939161 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
29939051 ATCGTGATCT
* ** * *
29939061 GAAGCCCGAAGTCTAGTTGAAACACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
29939100 GAAGCCTGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
29939139 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
29939162 TCATTAGAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:29943152 original size:18 final size:19
Alignment explanation
Indices: 29943110--29943167 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
29943100 AAAAATTACA
29943110 AAAAATTTCAAAATAATTT-T
1 AAAAA-TTCAAAAT-ATTTAT
*
29943130 CAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
29943149 AAAAATTC-TAATATTTAT
1 AAAAATTCAAAATATTTAT
29943167 A
1 A
29943168 TTTTAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 14 0.41
19 16 0.47
20 4 0.12
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:29945225 original size:35 final size:35
Alignment explanation
Indices: 29945174--29945249 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
29945164 ACTAAGGGAA
* **
29945174 AATTCTATATAAATTTAGTGATATTTTATTTGGGT
1 AATTTTATATAAATTTAGTGATATTTTATTTAAGT
29945209 AATTTTATATAAATTTAGTGATATTTTATTTAAGT
1 AATTTTATATAAATTTAGTGATATTTTATTTAAGT
29945244 AATTTT
1 AATTTT
29945250 TCTTGTAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.34, C:0.01, G:0.11, T:0.54
Consensus pattern (35 bp):
AATTTTATATAAATTTAGTGATATTTTATTTAAGT
Found at i:29945699 original size:21 final size:21
Alignment explanation
Indices: 29945674--29945714 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29945664 AAAAAATGAT
* *
29945674 TAAAATATTTAATTTAAAAAG
1 TAAAATAATTAAATTAAAAAG
29945695 TAAAATAATTAAATTAAAAA
1 TAAAATAATTAAATTAAAAA
29945715 ATTAATAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAAATAATTAAATTAAAAAG
Found at i:29945714 original size:22 final size:21
Alignment explanation
Indices: 29945674--29945715 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
29945664 AAAAAATGAT
* *
29945674 TAAAATATTTAATTTAAAAAG
1 TAAAATATTAAATTAAAAAAG
29945695 TAAAATAATTAAATTAAAAAA
1 TAAAAT-ATTAAATTAAAAAA
29945716 TTAATAGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
TAAAATATTAAATTAAAAAAG
Found at i:29946619 original size:5 final size:5
Alignment explanation
Indices: 29946609--29946642 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
29946599 GTCCGAGTCT
* *
29946609 AGTGC AGTGC AGTGC TGTGC TGTGC AGTGC AGTG
1 AGTGC AGTGC AGTGC AGTGC AGTGC AGTGC AGTG
29946643 ACAGACAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.15, C:0.18, G:0.41, T:0.26
Consensus pattern (5 bp):
AGTGC
Found at i:29948416 original size:13 final size:13
Alignment explanation
Indices: 29948395--29948444 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
29948385 ATGTATCATG
*
29948395 TTATCAATTTTCT
1 TTATAAATTTTCT
*
29948408 TTATAAATTTTTT
1 TTATAAATTTTCT
*
29948421 TTGAAAAAATTTTCT
1 TT--ATAAATTTTCT
29948436 TTATAAATT
1 TTATAAATT
29948445 GTTTAACTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 19 0.63
15 11 0.37
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (13 bp):
TTATAAATTTTCT
Found at i:29948751 original size:21 final size:21
Alignment explanation
Indices: 29948727--29948803 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 21
29948717 TAATTAGTTT
29948727 TTTTAAAAATTTAAAAATTTA
1 TTTTAAAAATTTAAAAATTTA
*
29948748 TTTTTAAAATCATT-AAAA-TTA
1 TTTTAAAAAT--TTAAAAATTTA
*
29948769 TTTTAAATATTATGAAAAATATT-
1 TTTTAAAAATT-T-AAAAAT-TTA
*
29948792 TTTTAAATATTT
1 TTTTAAAAATTT
29948804 TTTAATTCTA
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
19 1 0.02
20 1 0.02
21 20 0.43
22 9 0.20
23 13 0.28
24 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (21 bp):
TTTTAAAAATTTAAAAATTTA
Found at i:29952100 original size:30 final size:30
Alignment explanation
Indices: 29952064--29952162 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
29952054 CTAGCCTTTG
29952064 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
29952094 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* * *
29952124 CCATCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
29952154 CCACCACCA
1 CCACCACCA
29952163 CTTGTACCTA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.26, C:0.49, G:0.06, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:29952813 original size:22 final size:23
Alignment explanation
Indices: 29952787--29952855 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 23
29952777 TTTCTACATG
29952787 TTATATTATGTATATATTTTA-A
1 TTATATTATGTATATATTTTACA
*
29952809 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTACA
*
29952834 CTATATTATGTACATATATTTT
1 TTATATTATGT--ATATATTTT
29952856 TTTTATATCT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 12 0.31
24 8 0.21
25 18 0.46
27 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:29952947 original size:25 final size:24
Alignment explanation
Indices: 29952919--29952974 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
29952909 GTTATATTTT
*
29952919 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
29952944 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
29952967 CACTATTA
1 CACTATTA
29952975 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:29963516 original size:12 final size:12
Alignment explanation
Indices: 29963497--29963525 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
29963487 AAGACATCTT
29963497 AAAA-AAAAAAG
1 AAAAGAAAAAAG
29963508 AAAAGAAAAAAG
1 AAAAGAAAAAAG
29963520 AAAAGA
1 AAAAGA
29963526 GAGAGGGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:29964587 original size:13 final size:13
Alignment explanation
Indices: 29964543--29964587 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
29964533 CGCCGAGGTA
29964543 TTTTTAATTTCTG
1 TTTTTAATTTCTG
29964556 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
29964570 CTTTTAATTTCTG
1 TTTTTAATTTCTG
29964583 TTTTT
1 TTTTT
29964588 CAAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:29964652 original size:100 final size:99
Alignment explanation
Indices: 29964455--29964839 Score: 429
Period size: 100 Copynumber: 4.0 Consensus size: 99
29964445 CGCTGAGGTA
* * *
29964455 TTTTCAATTTTCGTTTTTCCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCT
1 TTTTCAATTTT-GCTTTT--AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTT
* * * *
29964520 GAGCCTCGGGGCACGCCGAGGTATTTTTAATTTCTGT
63 GAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGT
* * *
29964557 TTTTCAATTTCTGCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTT-TGCTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
*
29964622 GCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGT
65 GCCTCAGGACACGCTGAGGTATTTTCAATTTCTGT
** * * *
29964657 TTTTCAATTTTTGCCTTACAAATTCTGCTTTTC--AAATCAACTCATATTGCGAGAAGTGAGTTA
1 TTTTCAA-TTTTG-CTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTG
29964720 AGCCTCAGGACACGCTGAGGTATTTTCAA-------
64 AGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGT
* * *
29964749 TTTTC--GTTT--TTTTAATTTATG-TTTCTAAAAAATCAACTCATATTGTGAGAAGTGAGTTGA
1 TTTTCAATTTTGCTTTTAATTTATGCTTT-TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
*
29964809 GCCTCAGGACACGCTGAGGTAATTTCAATTT
65 GCCTCAGGACACGCTGAGGTATTTTCAATTT
29964840 TTGTCAAAAC
Statistics
Matches: 251, Mismatches: 23, Indels: 29
0.83 0.08 0.10
Matches are distributed among these distances:
85 3 0.01
86 9 0.04
88 56 0.22
89 3 0.01
92 5 0.02
99 56 0.22
100 85 0.34
101 18 0.07
102 15 0.06
103 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.39
Consensus pattern (99 bp):
TTTTCAATTTTGCTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
CCTCAGGACACGCTGAGGTATTTTCAATTTCTGT
Found at i:29964952 original size:75 final size:75
Alignment explanation
Indices: 29964770--29965726 Score: 1266
Period size: 75 Copynumber: 13.1 Consensus size: 75
29964760 TTAATTTATG
* * * * * *
29964770 TTTCTAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
29964835 AA--T-T-TT
66 AATTTCTGTT
* * * *
29964841 TGTC--AAAACTTAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
29964904 AATTTCTGTT
66 AATTTCTGTT
* * * * *
29964914 TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
29964979 AATTTTTGTT
66 AATTTCTGTT
*
29964989 TGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
29965052 AATTTCTGTCT
66 AATTTCTGT-T
* *
29965063 TTT-AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
29965127 AATTTCTGTT
66 AATTTCTGTT
* * * *
29965137 TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--ACGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
29965200 AATTT-T-TT
66 AATTTCTGTT
*
29965208 TGT---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
29965270 AATTTCTGTT
66 AATTTCTGTT
* * * *
29965280 TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--ACGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
29965343 AATTTTTGTT
66 AATTTCTGTT
*
29965353 TGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
29965417 AATTTCTGTC
66 AATTTCTGTT
* * *
29965427 TTT-AAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
29965491 AATTTCTGTT
66 AATTTCTGTT
* * * *
29965501 TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--ACGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
29965564 AATTT-TGTT
66 AATTTCTGTT
*
29965573 TGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
29965636 AATTTCTGTC
66 AATTTCTGTT
* * * * * *
29965646 TTTCAAAAAAAAATCAGCTCATATTGAGAGAGGTAAGTTGAACCTCAAG--ACGCTGAGGTGTTT
1 TTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTT
*
29965709 TCCATTTCTGTT
64 TCAATTTCTGTT
*
29965721 CTTCAA
1 TTTCAA
29965727 TTTCTGTGTT
Statistics
Matches: 781, Mismatches: 77, Indels: 54
0.86 0.08 0.06
Matches are distributed among these distances:
68 39 0.05
69 53 0.07
70 58 0.07
71 9 0.01
72 72 0.09
73 139 0.18
74 100 0.13
75 274 0.35
77 37 0.05
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
AATTTCTGTT
Found at i:29965052 original size:148 final size:148
Alignment explanation
Indices: 29964770--29965720 Score: 1260
Period size: 148 Copynumber: 6.5 Consensus size: 148
29964760 TTAATTTATG
* * * *
29964770 TTTCTAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
* * * *
29964835 AA--T-T-TTTGTCAAAACTTAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
66 AATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAG
29964896 GTATTTTCAATTTCTGTT
131 GTATTTTCAATTTCTGTT
* * *
29964914 TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
* *
29964979 AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
66 AATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAG
29965044 GTATTTTCAATTTCTGTCT
131 GTATTTTCAATTTCTGT-T
* * * *
29965063 TTT-AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
* * *
29965127 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--ACGCTG
66 AATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTG
*
29965190 AGGTAATTTCAATTT-T-TT
129 AGGTATTTTCAATTTCTGTT
* * *
29965208 TGT---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
* * *
29965270 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--ACGCTG
66 AATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTG
* *
29965333 AGGTAATTTCAATTTTTGTT
129 AGGTATTTTCAATTTCTGTT
* * *
29965353 TGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
* * *
29965417 AATTTCTGTCTT-TAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTG
66 AATTTCTGT-TTGT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTG
29965481 AGGTATTTTCAATTTCTGTT
129 AGGTATTTTCAATTTCTGTT
* *
29965501 TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--ACGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
*
29965564 AATTT-TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
66 AATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAG
*
29965628 GTATTTTCAATTTCTGTC
131 GTATTTTCAATTTCTGTT
* * * * **
29965646 TTTCAAAAAAAAATCAGCTCATATTGAGAGAGGTAAGTTGAACCTCAAG--ACGCTGAGGTGTTT
1 TTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
*
29965709 TCCATTTCTGTT
64 TCAATTTCTGTT
29965721 CTTCAATTTC
Statistics
Matches: 739, Mismatches: 48, Indels: 36
0.90 0.06 0.04
Matches are distributed among these distances:
143 135 0.18
144 63 0.09
145 79 0.11
146 44 0.06
147 147 0.20
148 188 0.25
149 44 0.06
150 39 0.05
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (148 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
AATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAG
GTATTTTCAATTTCTGTT
Found at i:29965253 original size:366 final size:365
Alignment explanation
Indices: 29964770--29965704 Score: 1617
Period size: 366 Copynumber: 2.6 Consensus size: 365
29964760 TTAATTTATG
* * * * * *
29964770 TTTCTAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCA--AGACGCTGAGGTAATTTC
* * *
29964835 AA--TTTTTGTCAAAACTTAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
64 AATTTTTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
* *
29964898 ATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGAC
129 ATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGAC
29964963 ATGCTGAGGTAATTTCAATTTTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
194 --GCTGAGGTAATTTCAATTTTTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
29965027 CCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTTAAAAAAATCAGCTCATATTGCGAGAG
257 CCTCAAGACACGTTGAGGTATTTTCAATTTCTGTC-TTTAAAAAAATCAGCTCATATTGCGAGAG
29965092 GTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTCTGTT
321 GTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTCTGTT
29965137 TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGCTGAGGTAATTTCAA
1 TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGCTGAGGTAATTTCAA
29965202 TTTTTTTGT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 TTTTTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
29965266 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGC
131 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGC
29965331 TGAGGTAATTTCAATTTTTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
196 TGAGGTAATTTCAATTTTTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
29965396 AAGACACGTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAATTAGCTCATATTGCGAGAGGTGAG
261 AAGACACGTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAG
29965461 TTGAACCTCAAGACACGTTGAGGTATTTTCAATTTCTGTT
326 TTGAACCTCAAGACACGTTGAGGTATTTTCAATTTCTGTT
29965501 TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGCTGAGGTAATTTCAA
1 TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGCTGAGGTAATTTCAA
29965566 TTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 TTTT-TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
* * * * *
29965631 TTTTCAATTTCTGTCTTTCAAAAAAAAATCAGCTCATATTGAGAGAGGTAAGTTGAACCTCAAGA
130 TTTTCAATTTCTGTTTTTC--AAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGA
29965696 CGCTGAGGT
193 CGCTGAGGT
29965705 GTTTTCCATT
Statistics
Matches: 544, Mismatches: 17, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
364 170 0.31
365 93 0.17
366 185 0.34
367 47 0.09
368 49 0.09
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (365 bp):
TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGCTGAGGTAATTTCAA
TTTTTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGC
TGAGGTAATTTCAATTTTTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
AAGACACGTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAG
TTGAACCTCAAGACACGTTGAGGTATTTTCAATTTCTGTT
Found at i:29965833 original size:15 final size:14
Alignment explanation
Indices: 29965797--29965829 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
29965787 CGCTGAGGTA
29965797 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
29965811 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
29965825 TTTTC
1 TTTTC
29965830 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:29966034 original size:92 final size:89
Alignment explanation
Indices: 29965740--29966133 Score: 349
Period size: 92 Copynumber: 4.4 Consensus size: 89
29965730 CTGTGTTTCA
* * * *
29965740 AAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT-TGACTCACACGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-TCACACGCCGAGGTATTTTCAA
* * * * *
29965804 ATTCTGTTTTTCAAATTTTGTTTTTCC
65 ATTTTTTTTTTC-AA-TTTATCTTTGC
* * * *
29965831 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAG--GACACGCTGAGATATTTTC-AA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAAA
* *
29965893 --TTTCTTTTCAATTTATGTTTGTC
66 TTTTTTTTTTCAATTTATCTTTG-C
*
29965916 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCAAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAA
29965981 TTGATTTTTTTTTTCAATTTATACTTTGC
65 ---ATTTTTTTTTTCAATTTAT-CTTTGC
* * * **
29966010 -AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAAA
* * * * *
29966074 ATCTGTTTTACAAATTT-TGTTT--
66 TTTTTTTTTTC-AATTTATCTTTGC
* * * * *
29966096 TAAAAATCAACTTATACTACGAGAAGTGAGTTGAGCCT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
29966134 TGGCTCACGT
Statistics
Matches: 256, Mismatches: 33, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
84 7 0.03
85 3 0.01
86 46 0.18
87 34 0.13
88 20 0.08
89 27 0.11
90 5 0.02
91 35 0.14
92 59 0.23
94 16 0.06
95 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (89 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAAA
TTTTTTTTTTCAATTTATCTTTGC
Found at i:29966155 original size:87 final size:86
Alignment explanation
Indices: 29966010--29966236 Score: 235
Period size: 87 Copynumber: 2.6 Consensus size: 86
29966000 TATACTTTGC
* * * *
29966010 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAAA
1 AAAAATCAACTTATATTACGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
29966075 TCTGTTTTACAAATTTT-GTTTT
66 TCTGTTTT--AAATTTTAGTTTT
* * * * * **
29966097 AAAAATCAACTTATACTACGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTTATATTACGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
*
29966162 TCTGTTTTTAATTTTAGTTTT
66 TCTGTTTTAAATTTTAGTTTT
* * * * *
29966183 AAAGAGTCAA-TTCATATTACGAGAAATGAGTTAAG-CTCAGGATCACATGCCGAG
1 AAA-AATCAACTT-ATATTACGAGAAGTGAGTTGAGCCTC-GGCTCACATACCGAG
29966237 TAAAGAATAA
Statistics
Matches: 116, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
85 6 0.05
86 12 0.10
87 98 0.84
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (86 bp):
AAAAATCAACTTATATTACGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
TCTGTTTTAAATTTTAGTTTT
Found at i:29966887 original size:30 final size:30
Alignment explanation
Indices: 29966851--29966947 Score: 151
Period size: 30 Copynumber: 3.2 Consensus size: 30
29966841 CTAGCCTTTG
29966851 CCACCACTAACTCCACTAGCCACACTTGCT
1 CCACCACTAACTCCACTAGCCACACTTGCT
*
29966881 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACTAACTCCACTAGCCACACTTGCT
* *
29966911 CCATCACCT-ACTCCATTAGCCACACTTGCT
1 CCACCA-CTAACTCCACTAGCCACACTTGCT
29966941 CCACCAC
1 CCACCAC
29966948 CACTTGTACC
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
29 1 0.02
30 59 0.97
31 1 0.02
ACGTcount: A:0.26, C:0.48, G:0.06, T:0.20
Consensus pattern (30 bp):
CCACCACTAACTCCACTAGCCACACTTGCT
Found at i:29967461 original size:25 final size:25
Alignment explanation
Indices: 29967433--29967615 Score: 80
Period size: 25 Copynumber: 7.4 Consensus size: 25
29967423 TTGTTATTAT
29967433 TATATTTTTAATATTATATTATATA
1 TATATTTTTAATATTATATTATATA
* *
29967458 TATATTCTTT--TAATATATTA-A-G
1 TATATT-TTTAATATTATATTATATA
* *
29967480 TATATTCTAAAT-TCTATATTACGTATA
1 TATATTTTTAATAT-TATATTA--TATA
* * * *
29967507 TATA-TATT-ATACTATTTTATGTA
1 TATATTTTTAATATTATATTATATA
* *
29967530 TATATCTTTAATACTATATTATTTATA
1 TATATTTTTAATATTATATTA--TATA
* * * *
29967557 TTTTTTTTCTACATGTTATATTATGTA
1 TATATTTT-TA-ATATTATATTATATA
*
29967584 TATA-TTTT-A-ATTATATTATGTA
1 TATATTTTTAATATTATATTATATA
*
29967606 TGTATTTTTA
1 TATATTTTTA
29967616 CACTATATTA
Statistics
Matches: 116, Mismatches: 25, Indels: 35
0.66 0.14 0.20
Matches are distributed among these distances:
21 1 0.01
22 21 0.18
23 21 0.18
24 11 0.09
25 25 0.22
26 9 0.08
27 17 0.15
28 2 0.02
29 9 0.08
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATTTTTAATATTATATTATATA
Found at i:29967598 original size:22 final size:23
Alignment explanation
Indices: 29967572--29967639 Score: 84
Period size: 22 Copynumber: 2.9 Consensus size: 23
29967562 TTTCTACATG
29967572 TTATATTATGTATATATTTTA-A
1 TTATATTATGTATATATTTTACA
*
29967594 TTATATTATGTATGTATTTTTACA
1 TTATATTATGTATATA-TTTTACA
*
29967618 CTATATTATGTACATATATTTT
1 TTATATTATGT--ATATATTTT
29967640 TTTTATATCT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
22 15 0.38
23 5 0.13
24 11 0.28
25 4 0.10
26 4 0.10
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.57
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:29967646 original size:24 final size:22
Alignment explanation
Indices: 29967572--29967647 Score: 80
Period size: 22 Copynumber: 3.3 Consensus size: 22
29967562 TTTCTACATG
*
29967572 TTATATTATGTATATATTTTAA
1 TTATATTATGTATATATTTTTA
*
29967594 TTATATTATGTATGTATTTTTACA
1 TTATATTATGTATATATTTTT--A
* *
29967618 CTATATTATGTACATATATTTTTT
1 TTATATTATGT--ATATATTTTTA
29967642 TTATAT
1 TTATAT
29967648 CTATTTCATA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
22 19 0.43
24 16 0.36
26 9 0.20
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (22 bp):
TTATATTATGTATATATTTTTA
Found at i:29969595 original size:3 final size:3
Alignment explanation
Indices: 29969587--29969648 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
29969577 TTGGTTTCTT
29969587 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
29969635 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
29969649 GTTTTCTTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:29971156 original size:18 final size:18
Alignment explanation
Indices: 29971093--29971158 Score: 50
Period size: 18 Copynumber: 3.6 Consensus size: 18
29971083 ATAAAAGTAT
29971093 TTATAAAATTA-AATATAA
1 TTATAAAATTATAAT-TAA
*
29971111 GTTATAAATGGTTATAA--AA
1 -TTATAAA--ATTATAATTAA
29971130 TTA-AGAAATTATAATTAA
1 TTATA-AAATTATAATTAA
29971148 TTATAAAATTA
1 TTATAAAATTA
29971159 ATATAAGACC
Statistics
Matches: 38, Mismatches: 2, Indels: 15
0.69 0.04 0.27
Matches are distributed among these distances:
16 6 0.16
17 1 0.03
18 16 0.42
19 10 0.26
21 3 0.08
22 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (18 bp):
TTATAAAATTATAATTAA
Found at i:29972788 original size:50 final size:50
Alignment explanation
Indices: 29972713--29972814 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
29972703 ATTCAGGATG
29972713 TTCTTTCTACATGTGTCCCAATAGAGAATGGTTCTCCACATACAGTTCGA
1 TTCTTTCTACATGTGTCCCAATAGAGAATGGTTCTCCACATACAGTTCGA
29972763 TTCTTTCTACATGTGTCCCAATAGAGAATGGTTCTCCACATACAGTTCGA
1 TTCTTTCTACATGTGTCCCAATAGAGAATGGTTCTCCACATACAGTTCGA
29972813 TT
1 TT
29972815 GAAGGTGGAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (50 bp):
TTCTTTCTACATGTGTCCCAATAGAGAATGGTTCTCCACATACAGTTCGA
Found at i:29978921 original size:2 final size:2
Alignment explanation
Indices: 29978914--29978941 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
29978904 CCTTTTTAAA
29978914 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29978942 TTTAATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29984571 original size:22 final size:22
Alignment explanation
Indices: 29984546--29984593 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
29984536 TTTCTTGTTG
* *
29984546 TTTT-CTTCCTATTTTGCTACTA
1 TTTTACTT-CTATGTTGCCACTA
*
29984568 TTTTACTTTTATGTTGCCACTA
1 TTTTACTTCTATGTTGCCACTA
29984590 TTTT
1 TTTT
29984594 GTTATTATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.15, C:0.19, G:0.06, T:0.60
Consensus pattern (22 bp):
TTTTACTTCTATGTTGCCACTA
Found at i:29985666 original size:10 final size:11
Alignment explanation
Indices: 29985636--29985663 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
29985626 ATTAAAACAA
29985636 ACATTTTAAAT
1 ACATTTTAAAT
29985647 ACATTTTAAAT
1 ACATTTTAAAT
29985658 ACATTT
1 ACATTT
29985664 AAACACTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (11 bp):
ACATTTTAAAT
Found at i:29985942 original size:50 final size:51
Alignment explanation
Indices: 29985843--29985950 Score: 123
Period size: 50 Copynumber: 2.1 Consensus size: 51
29985833 ATGAGTTATT
* **
29985843 TAATGCAAGACTTAATTTAATAATGCAGACTTAAACTAACATGGGGTTACA
1 TAATGCAAGAATTAATTTAATAATGCAGACTTAAACTAACATGAAGTTACA
* *
29985894 TAATGCAAGTAATT-ATTT-ATTATGCATACTT-AACTAACATGAAAGTTACA
1 TAATGCAAG-AATTAATTTAATAATGCAGACTTAAACTAACATG-AAGTTACA
*
29985944 TCATGCA
1 TAATGCA
29985951 TTACTTTATT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
49 10 0.20
50 23 0.47
51 13 0.27
52 3 0.06
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (51 bp):
TAATGCAAGAATTAATTTAATAATGCAGACTTAAACTAACATGAAGTTACA
Found at i:29987789 original size:18 final size:18
Alignment explanation
Indices: 29987744--29987791 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
29987734 TCTTGGACAT
29987744 TTTCTTTTCTTTCTTCAA
1 TTTCTTTTCTTTCTTCAA
*
29987762 TCTCTCTTTCTTT-TTCAA
1 TTTCT-TTTCTTTCTTCAA
29987780 CTTTCTTTTCTT
1 -TTTCTTTTCTT
29987792 GCTCATATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.08, C:0.25, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTTTTCTTTCTTCAA
Found at i:29987906 original size:19 final size:17
Alignment explanation
Indices: 29987861--29987907 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
29987851 TTTATTTCCT
29987861 TTTCTTTTTCTTCCATG
1 TTTCTTTTTCTTCCATG
*
29987878 TATT-TTTTTCTTCTCTTG
1 T-TTCTTTTTCTTC-CATG
29987896 ATTTCTTTTTCT
1 -TTTCTTTTTCT
29987908 CGCATCCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 10 0.40
18 7 0.28
19 8 0.32
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.70
Consensus pattern (17 bp):
TTTCTTTTTCTTCCATG
Found at i:29993019 original size:23 final size:22
Alignment explanation
Indices: 29992947--29993034 Score: 92
Period size: 21 Copynumber: 4.1 Consensus size: 22
29992937 TACCTGATCA
*
29992947 GAATACGACACATAA-GTGCCT
1 GAATACGACACACAAGGTGCCT
*
29992968 GAA-ACGACACACGAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
29992989 G-CTGCGACACACAAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
29993010 GAAATACGACACATAAAGTGCCT
1 G-AATACGACACACAAGGTGCCT
29993033 GA
1 GA
29993035 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
20 9 0.17
21 27 0.50
22 1 0.02
23 17 0.31
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (22 bp):
GAATACGACACACAAGGTGCCT
Found at i:29993031 original size:44 final size:41
Alignment explanation
Indices: 29992952--29993033 Score: 101
Period size: 44 Copynumber: 1.9 Consensus size: 41
29992942 GATCAGAATA
* * *
29992952 CGACACATAAGTGCCTGAAACGACACACGAGGTGCCTGCTG
1 CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
*
29992993 CGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 CGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCTG
29993034 ATCAGTAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 9 0.26
42 7 0.21
43 2 0.06
44 16 0.47
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.15
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
Found at i:29993235 original size:23 final size:23
Alignment explanation
Indices: 29993205--29993261 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
29993195 GATTCCATCC
*
29993205 AAACACACCAAAAT-GTCCAACCA
1 AAACACACCAAAATAATCC-ACCA
* *
29993228 AAACACACCAATATAATCCTCCA
1 AAACACACCAAAATAATCCACCA
29993251 AAACACACCAA
1 AAACACACCAA
29993262 TATCATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 27 0.90
24 3 0.10
ACGTcount: A:0.53, C:0.35, G:0.02, T:0.11
Consensus pattern (23 bp):
AAACACACCAAAATAATCCACCA
Found at i:29993320 original size:29 final size:28
Alignment explanation
Indices: 29993237--29993322 Score: 120
Period size: 28 Copynumber: 3.0 Consensus size: 28
29993227 AAAACACACC
29993237 AATATAATCCTCCAAAACACACCA-ATAT
1 AATATAATCCTCCAAAACACACCAGA-AT
* * *
29993265 CATATAATCTTCCCAAACACACCAGAAT
1 AATATAATCCTCCAAAACACACCAGAAT
29993293 AATATAATCCATCCAAAACACACCAGAAT
1 AATATAATCC-TCCAAAACACACCAGAAT
29993322 A
1 A
29993323 GCACAACATG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
28 31 0.62
29 19 0.38
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (28 bp):
AATATAATCCTCCAAAACACACCAGAAT
Found at i:29998380 original size:23 final size:22
Alignment explanation
Indices: 29998308--29998395 Score: 92
Period size: 21 Copynumber: 4.1 Consensus size: 22
29998298 TACCTGATCA
*
29998308 GAATACGACACATAA-GTGCCT
1 GAATACGACACACAAGGTGCCT
*
29998329 GAA-ACGACACACGAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
29998350 G-CTGCGACACACAAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
29998371 GAAATACGACACATAAAGTGCCT
1 G-AATACGACACACAAGGTGCCT
29998394 GA
1 GA
29998396 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
20 9 0.17
21 27 0.50
22 1 0.02
23 17 0.31
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (22 bp):
GAATACGACACACAAGGTGCCT
Found at i:29998392 original size:44 final size:41
Alignment explanation
Indices: 29998313--29998394 Score: 101
Period size: 44 Copynumber: 1.9 Consensus size: 41
29998303 GATCAGAATA
* * *
29998313 CGACACATAAGTGCCTGAAACGACACACGAGGTGCCTGCTG
1 CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
*
29998354 CGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 CGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCTG
29998395 ATCAGTAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 9 0.26
42 7 0.21
43 2 0.06
44 16 0.47
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.15
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
Found at i:29998594 original size:23 final size:23
Alignment explanation
Indices: 29998564--29998620 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
29998554 GATTCCATCC
*
29998564 AAACACACCAAAAT-GTCCAACCA
1 AAACACACCAAAATAATCC-ACCA
* *
29998587 AAACACACCAATATAATCCTCCA
1 AAACACACCAAAATAATCCACCA
29998610 AAACACACCAA
1 AAACACACCAA
29998621 TATCATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 27 0.90
24 3 0.10
ACGTcount: A:0.53, C:0.35, G:0.02, T:0.11
Consensus pattern (23 bp):
AAACACACCAAAATAATCCACCA
Found at i:29998679 original size:29 final size:28
Alignment explanation
Indices: 29998596--29998681 Score: 120
Period size: 28 Copynumber: 3.0 Consensus size: 28
29998586 AAAACACACC
29998596 AATATAATCCTCCAAAACACACCA-ATAT
1 AATATAATCCTCCAAAACACACCAGA-AT
* * *
29998624 CATATAATCTTCCCAAACACACCAGAAT
1 AATATAATCCTCCAAAACACACCAGAAT
29998652 AATATAATCCATCCAAAACACACCAGAAT
1 AATATAATCC-TCCAAAACACACCAGAAT
29998681 A
1 A
29998682 GCACAACATG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
28 31 0.62
29 19 0.38
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (28 bp):
AATATAATCCTCCAAAACACACCAGAAT
Found at i:30003460 original size:18 final size:18
Alignment explanation
Indices: 30003439--30003478 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
30003429 GAAATATTTA
*
30003439 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
30003457 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
30003475 TTTT
1 TTTT
30003479 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:30004266 original size:45 final size:45
Alignment explanation
Indices: 30004217--30004370 Score: 125
Period size: 45 Copynumber: 3.4 Consensus size: 45
30004207 CCATCTGTAG
*
30004217 GTTATTTGCTGTGTATCCACAACTAGAGGCAAATTCCATTTGTGA
1 GTTATTTGCTGTGTATCCACAACAAGAGGCAAATTCCATTTGTGA
* * * * * * * *
30004262 GTTATTCGCTCTGAAATCCATAGCAATG-GGCATATTTCATTTGCGA
1 GTTATTTGCTGTG-TATCCACAACAA-GAGGCAAATTCCATTTGTGA
* * * *
30004308 -TATTTTTGCTGTGTACCCACAACCAGAGGCAAATTCCATTTGTGG
1 GT-TATTTGCTGTGTATCCACAACAAGAGGCAAATTCCATTTGTGA
* *
30004353 GAT-TTTGTTGTGTATCCA
1 GTTATTTGCTGTGTATCCA
30004371 TAGCCATTGG
Statistics
Matches: 80, Mismatches: 24, Indels: 11
0.70 0.21 0.10
Matches are distributed among these distances:
44 14 0.17
45 34 0.43
46 31 0.39
47 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (45 bp):
GTTATTTGCTGTGTATCCACAACAAGAGGCAAATTCCATTTGTGA
Found at i:30004978 original size:3 final size:3
Alignment explanation
Indices: 30004970--30004995 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30004960 TGAACCCTGT
30004970 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
30004996 GAACACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:30015575 original size:124 final size:124
Alignment explanation
Indices: 30015355--30015602 Score: 496
Period size: 124 Copynumber: 2.0 Consensus size: 124
30015345 GAAGATAGTG
30015355 GAGGTTCTTCATTCCAGTTTCAACAGCCTTATAACATGGTTGATAGGCTAGGAAATATTCTCAAA
1 GAGGTTCTTCATTCCAGTTTCAACAGCCTTATAACATGGTTGATAGGCTAGGAAATATTCTCAAA
30015420 GGAGTGGCAAGTTATCTGTTTACTCCCTATACGGGAGGAGAAACCATCAGATGAGAAGT
66 GGAGTGGCAAGTTATCTGTTTACTCCCTATACGGGAGGAGAAACCATCAGATGAGAAGT
30015479 GAGGTTCTTCATTCCAGTTTCAACAGCCTTATAACATGGTTGATAGGCTAGGAAATATTCTCAAA
1 GAGGTTCTTCATTCCAGTTTCAACAGCCTTATAACATGGTTGATAGGCTAGGAAATATTCTCAAA
30015544 GGAGTGGCAAGTTATCTGTTTACTCCCTATACGGGAGGAGAAACCATCAGATGAGAAGT
66 GGAGTGGCAAGTTATCTGTTTACTCCCTATACGGGAGGAGAAACCATCAGATGAGAAGT
30015603 CGGCCAGCAC
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (124 bp):
GAGGTTCTTCATTCCAGTTTCAACAGCCTTATAACATGGTTGATAGGCTAGGAAATATTCTCAAA
GGAGTGGCAAGTTATCTGTTTACTCCCTATACGGGAGGAGAAACCATCAGATGAGAAGT
Found at i:30016507 original size:16 final size:17
Alignment explanation
Indices: 30016486--30016523 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
30016476 TTCTATATGG
*
30016486 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
30016502 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
30016520 ATTT
1 ATTT
30016524 AATAAGGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:30023407 original size:41 final size:40
Alignment explanation
Indices: 30023338--30023488 Score: 153
Period size: 41 Copynumber: 3.7 Consensus size: 40
30023328 CTTTTGGTGG
30023338 CTTTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGAT-CAA
1 CTTTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGATACAA
* * * *
30023377 GTATTAGCGGCGCTTTTTTAAGAAACGCCGCTATAGGTACAC
1 CT-TTAGCGGCGCTTTTTTAA-AAACGCCGCTAAAGATACAA
* * * *
30023419 CTTTAGCGACGCTTTTTTGAAAAACGCCGCTAATGCT-CGAT
1 CTTTAGCGGCGCTTTTTT-AAAAACGCCGCTAAAGATAC-AA
*
30023460 CTTTAGCGGCGTTTTTTTTGAAAAACGCC
1 CTTTAGCGGCG-CTTTTTT-AAAAACGCC
30023489 ACAAAAAATG
Statistics
Matches: 94, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.01
40 19 0.20
41 53 0.56
42 21 0.22
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (40 bp):
CTTTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGATACAA
Found at i:30023864 original size:7 final size:7
Alignment explanation
Indices: 30023744--30023864 Score: 59
Period size: 7 Copynumber: 17.0 Consensus size: 7
30023734 GTTTAAGAGT
30023744 GGTTTAAG
1 GGTTT-AG
*
30023752 GG-TTGG
1 GGTTTAG
*
30023758 GGTTTAA
1 GGTTTAG
30023765 GGTTTA-
1 GGTTTAG
30023771 GGTGTTAGG
1 GGT-TTA-G
*
30023780 GGTTAAG
1 GGTTTAG
30023787 GG-TTAG
1 GGTTTAG
* *
30023793 TGGTTCAT
1 -GGTTTAG
*
30023801 GGTTCAG
1 GGTTTAG
*
30023808 GGTTTAT
1 GGTTTAG
*
30023815 GTTTTAG
1 GGTTTAG
* *
30023822 GATTTAT
1 GGTTTAG
*
30023829 GGTTTAA
1 GGTTTAG
30023836 GGTTTAG
1 GGTTTAG
*
30023843 GGATTATG
1 GGTTTA-G
*
30023851 AGTTTAG
1 GGTTTAG
30023858 GGTTTAG
1 GGTTTAG
30023865 ATTAATTGAT
Statistics
Matches: 85, Mismatches: 21, Indels: 15
0.70 0.17 0.12
Matches are distributed among these distances:
6 9 0.11
7 62 0.73
8 11 0.13
9 3 0.04
ACGTcount: A:0.19, C:0.02, G:0.37, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:30024024 original size:7 final size:7
Alignment explanation
Indices: 30024006--30024059 Score: 63
Period size: 7 Copynumber: 7.6 Consensus size: 7
30023996 GAGTTACTGT
*
30024006 TTTAAGG
1 TTTATGG
30024013 TTTATGG
1 TTTATGG
*
30024020 ATTATGGG
1 TTTAT-GG
*
30024028 TTTAGGG
1 TTTATGG
*
30024035 ATTATGG
1 TTTATGG
30024042 TTTATGG
1 TTTATGG
30024049 TTTATGG
1 TTTATGG
30024056 TTTA
1 TTTA
30024060 AGGGTTGGGG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 34 0.87
8 5 0.13
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (7 bp):
TTTATGG
Found at i:30024045 original size:14 final size:14
Alignment explanation
Indices: 30024011--30024059 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
30024001 ACTGTTTTAA
30024011 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
30024025 GGGTTTAGGGATTAT
1 -GGTTTATGGATTAT
*
30024040 GGTTTATGGTTTAT
1 GGTTTATGGATTAT
30024054 GGTTTA
1 GGTTTA
30024060 AGGGTTGGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:30024071 original size:14 final size:15
Alignment explanation
Indices: 30024054--30024086 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
30024044 TATGGTTTAT
*
30024054 GGTTTAAGGGTT-GG
1 GGTTTAAGGCTTAGG
30024068 GGTTTAAGGCTTAGG
1 GGTTTAAGGCTTAGG
30024083 GGTT
1 GGTT
30024087 AGGGGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.15, C:0.03, G:0.45, T:0.36
Consensus pattern (15 bp):
GGTTTAAGGCTTAGG
Found at i:30024893 original size:15 final size:15
Alignment explanation
Indices: 30024875--30024927 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
30024865 AAAAAATTTT
*
30024875 AAAATTTAAAATTAA
1 AAAATTTAAAAATAA
*
30024890 AAAATCTAAAAATAA
1 AAAATTTAAAAATAA
*
30024905 AAAA-TAAAAAATAA
1 AAAATTTAAAAATAA
30024919 AAAATTTAA
1 AAAATTTAA
30024928 TATTTAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATTTAAAAATAA
Found at i:30024905 original size:6 final size:7
Alignment explanation
Indices: 30024882--30024923 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
30024872 TTTAAAATTT
*
30024882 AAAATTA
1 AAAAATA
*
30024889 AAAAATCT
1 AAAAAT-A
30024897 AAAAATA
1 AAAAATA
30024904 AAAAATA
1 AAAAATA
30024911 AAAAATA
1 AAAAATA
30024918 AAAAAT
1 AAAAAT
30024924 TTAATATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (7 bp):
AAAAATA
Found at i:30024906 original size:14 final size:14
Alignment explanation
Indices: 30024875--30024924 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
30024865 AAAAAATTTT
* *
30024875 AAAATTTAAAATTA
1 AAAAATTAAAAATA
30024889 AAAAATCTAAAAATA
1 AAAAAT-TAAAAATA
*
30024904 AAAAATAAAAAATA
1 AAAAATTAAAAATA
30024918 AAAAATT
1 AAAAATT
30024925 TAATATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAATTAAAAATA
Found at i:30025053 original size:19 final size:17
Alignment explanation
Indices: 30025029--30025068 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 17
30025019 TTTGAAAGAA
30025029 AAAAATAAAAAAATATGTT
1 AAAAATAAAAAAA-AT-TT
30025048 AAAAATAAAAAAAATTT
1 AAAAATAAAAAAAATTT
30025065 AAAA
1 AAAA
30025069 TTAAGTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 2 0.10
19 13 0.62
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
AAAAATAAAAAAAATTT
Found at i:30026587 original size:7 final size:7
Alignment explanation
Indices: 30026575--30026599 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30026565 GTTGTCTTCT
30026575 TGTTTGA
1 TGTTTGA
30026582 TGTTTGA
1 TGTTTGA
30026589 TGTTTGA
1 TGTTTGA
30026596 TGTT
1 TGTT
30026600 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:30027533 original size:27 final size:28
Alignment explanation
Indices: 30027477--30027546 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
30027467 AAATTTGTAC
30027477 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
30027505 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
30027532 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
30027547 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Done.