Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 31 of 333
Found at i:8766164 original size:36 final size:36
Alignment explanation
Indices: 8766117--8766189 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
8766107 CAAGTTGGAA
8766117 TTTTATTTGAATTTAAGTCTAAAATATCCATACCAG
1 TTTTATTTGAATTTAAGTCTAAAATATCCATACCAG
8766153 TTTTATTTGAATTTAAGTCTAAAATATCCATACCAG
1 TTTTATTTGAATTTAAGTCTAAAATATCCATACCAG
8766189 T
1 T
8766190 ATGCAACACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (36 bp):
TTTTATTTGAATTTAAGTCTAAAATATCCATACCAG
Found at i:8768955 original size:21 final size:21
Alignment explanation
Indices: 8768929--8768969 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8768919 ATCTGCTCAA
* *
8768929 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
8768950 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
8768970 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:8772639 original size:7 final size:7
Alignment explanation
Indices: 8772627--8772651 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8772617 CCTCCATCAA
8772627 ATCTACC
1 ATCTACC
8772634 ATCTACC
1 ATCTACC
8772641 ATCTACC
1 ATCTACC
8772648 ATCT
1 ATCT
8772652 GAGTAGCGTT
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:0.28, C:0.40, G:0.00, T:0.32
Consensus pattern (7 bp):
ATCTACC
Found at i:8777931 original size:29 final size:29
Alignment explanation
Indices: 8777849--8777962 Score: 108
Period size: 30 Copynumber: 3.9 Consensus size: 29
8777839 GAACTTGACA
* *
8777849 TTTTTTTCTAATTTCGTACCTAAACTT--
1 TTTTTTCCTAATTTGGTACCTAAACTTAG
* * *
8777876 TTTTTGGCCCAAATTGGTACCTAAACTTCAG
1 TTTTT-TCCTAATTTGGTACCTAAACTT-AG
* *
8777907 -TTTTTCTTAATTTGGTACCTAAACTTGG
1 TTTTTTCCTAATTTGGTACCTAAACTTAG
*
8777935 TTTTTTTCCTAATTTGGTACTTAAACTT
1 -TTTTTTCCTAATTTGGTACCTAAACTT
8777963 TTTTTAGGTT
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
27 5 0.07
28 18 0.26
29 18 0.26
30 28 0.41
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.49
Consensus pattern (29 bp):
TTTTTTCCTAATTTGGTACCTAAACTTAG
Found at i:8777948 original size:30 final size:29
Alignment explanation
Indices: 8777849--8777988 Score: 119
Period size: 29 Copynumber: 4.9 Consensus size: 29
8777839 GAACTTGACA
*
8777849 TTTTTTT-CTAATTTCGTACCTAAACTT-
1 TTTTTTTCCTAATTTGGTACCTAAACTTG
** * * *
8777876 TTTTTGGCCCAAATTGGTACCTAAACTTC
1 TTTTTTTCCTAATTTGGTACCTAAACTTG
** *
8777905 AGTTTTTCTTAATTTGGTACCTAAACTTGG
1 TTTTTTTCCTAATTTGGTACCTAAACTT-G
*
8777935 TTTTTTTCCTAATTTGGTACTTAAACTT-
1 TTTTTTTCCTAATTTGGTACCTAAACTTG
8777963 TTTTTAGGTT-C-AATTTGGTACCTAAA
1 TTTTT---TTCCTAATTTGGTACCTAAA
8777989 TTTATTAAAT
Statistics
Matches: 89, Mismatches: 18, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
27 5 0.06
28 22 0.25
29 35 0.39
30 25 0.28
31 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.49
Consensus pattern (29 bp):
TTTTTTTCCTAATTTGGTACCTAAACTTG
Found at i:8778177 original size:58 final size:59
Alignment explanation
Indices: 8778107--8778254 Score: 187
Period size: 58 Copynumber: 2.5 Consensus size: 59
8778097 AATGTTTGAT
8778107 AAGTTGAAGTACCAAA-TAGAACAAAAAAATGATTAAGTGTCAAATTAGGAAAAAG-AGTC
1 AAGTTG-AGTACCAAATTAGAACAAAAAAATGATTAAGTGTCAAATTAGGAAAAAGTA-TC
* * * *
8778166 AAGTTGAGTACCAAATTGGATCCAAAAAA-GATTAAGTGTCAACTTAGGAAAAAGTATC
1 AAGTTGAGTACCAAATTAGAACAAAAAAATGATTAAGTGTCAAATTAGGAAAAAGTATC
* *
8778224 AAGTTTAGGTACCAAATTAGGA-AAAAAAATG
1 AAGTTGA-GTACCAAATTAGAACAAAAAAATG
8778255 TCAAATTCGG
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
58 47 0.62
59 29 0.38
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.22
Consensus pattern (59 bp):
AAGTTGAGTACCAAATTAGAACAAAAAAATGATTAAGTGTCAAATTAGGAAAAAGTATC
Found at i:8780933 original size:30 final size:29
Alignment explanation
Indices: 8780897--8780988 Score: 116
Period size: 30 Copynumber: 3.2 Consensus size: 29
8780887 CGGGAACGAT
*
8780897 CACCACCACGACGAACTCTTGCATGACCAC
1 CACCACCAC-ACGAACACTTGCATGACCAC
*
8780927 CACCA-C-CATGAACACTTGCATGACCAC
1 CACCACCACACGAACACTTGCATGACCAC
* *
8780954 CACCACCACCACGAACACCTGCATGACCAA
1 CACCACCA-CACGAACACTTGCATGACCAC
8780984 CACCA
1 CACCA
8780989 TGAACATCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
27 23 0.43
28 2 0.04
29 1 0.02
30 28 0.52
ACGTcount: A:0.34, C:0.45, G:0.11, T:0.11
Consensus pattern (29 bp):
CACCACCACACGAACACTTGCATGACCAC
Found at i:8780939 original size:27 final size:27
Alignment explanation
Indices: 8780897--8780988 Score: 112
Period size: 27 Copynumber: 3.3 Consensus size: 27
8780887 CGGGAACGAT
* *
8780897 CACCACCACGACGAACTCTTGCATGAC
1 CACCACCACCACGAACACTTGCATGAC
*
8780924 CACCACCACCATGAACACTTGCATGACCAC
1 CACCACCACCACGAACACTTGCATG---AC
*
8780954 CACCACCACCACGAACACCTGCATGAC
1 CACCACCACCACGAACACTTGCATGAC
*
8780981 CAACACCA
1 CACCACCA
8780989 TGAACATCAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
27 31 0.55
30 25 0.45
ACGTcount: A:0.34, C:0.45, G:0.11, T:0.11
Consensus pattern (27 bp):
CACCACCACCACGAACACTTGCATGAC
Found at i:8784670 original size:42 final size:42
Alignment explanation
Indices: 8784617--8784704 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
8784607 AACAAAAAAG
8784617 AAAAATCATCTAGCTCTTCCAATTTTTGGTAGCATGACAAAT
1 AAAAATCATCTAGCTCTTCCAATTTTTGGTAGCATGACAAAT
8784659 AAAAATCATCTAGCTCTTCCAATTTTTGGTAGCATGACAAAT
1 AAAAATCATCTAGCTCTTCCAATTTTTGGTAGCATGACAAAT
8784701 AAAA
1 AAAA
8784705 TAGTAAAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (42 bp):
AAAAATCATCTAGCTCTTCCAATTTTTGGTAGCATGACAAAT
Found at i:8785651 original size:3 final size:3
Alignment explanation
Indices: 8785638--8785670 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
8785628 TCAAAAACTG
*
8785638 AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
8785671 GGAGCAGGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:8786784 original size:31 final size:30
Alignment explanation
Indices: 8786731--8786799 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
8786721 ATACATGAAT
*
8786731 TTTAATTTGGTGTAATTATATACGTAAAAC
1 TTTAATTTGGTGTAAATATATACGTAAAAC
* *
8786761 TTTAATTGTGGT-TCAAATATATACTTGAAAC
1 TTTAATT-TGGTGT-AAATATATACGTAAAAC
8786792 TTTAATTT
1 TTTAATTT
8786800 TGATTTAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.26
31 25 0.74
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.46
Consensus pattern (30 bp):
TTTAATTTGGTGTAAATATATACGTAAAAC
Found at i:8786995 original size:29 final size:30
Alignment explanation
Indices: 8786942--8786998 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
8786932 AAGTTGGATC
8786942 AAATCAAAATTTCATGTATAAAATTGCATA
1 AAATCAAAATTTCATGTATAAAATTGCATA
*
8786972 AAATCAAAA-TTCATGTATATAATTGCA
1 AAATCAAAATTTCATGTATAAAATTGCA
8786999 CATTAAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTGCATA
Found at i:8787019 original size:31 final size:29
Alignment explanation
Indices: 8786946--8787022 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 29
8786936 TGGATCAAAT
*
8786946 CAAAATTTCATGTATAAAATTGCATAAAAT
1 CAAAATTT-ATGTATAAAATTGCATAAAAC
* * *
8786976 CAAAATTCATGTATATAATTGCACATTAAAC
1 CAAAATTTATGTATAAAATTG--CATAAAAC
*
8787007 CATAATTTATGTATAA
1 CAAAATTTATGTATAA
8787023 TTTTGGTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 12 0.32
30 7 0.18
31 19 0.50
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (29 bp):
CAAAATTTATGTATAAAATTGCATAAAAC
Found at i:8787389 original size:47 final size:49
Alignment explanation
Indices: 8787310--8787409 Score: 152
Period size: 47 Copynumber: 2.1 Consensus size: 49
8787300 ATATTTTTAT
* *
8787310 AATT-TTTATAATTTATTTTAATTTAAAGTTAAATTACAAATGAAAATA
1 AATTGTTTATAATTTATTTTAATTTAAAATTAAACTACAAATGAAAATA
*
8787358 AATTGTTTATAA-TTATTTT-ATTTAAAATTAAACTGCAAATGAAAATA
1 AATTGTTTATAATTTATTTTAATTTAAAATTAAACTACAAATGAAAATA
8787405 AATTG
1 AATTG
8787410 ACATCATTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
47 30 0.62
48 11 0.23
49 7 0.15
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (49 bp):
AATTGTTTATAATTTATTTTAATTTAAAATTAAACTACAAATGAAAATA
Found at i:8791533 original size:46 final size:47
Alignment explanation
Indices: 8791473--8791731 Score: 355
Period size: 46 Copynumber: 5.6 Consensus size: 47
8791463 TGCCATAGCG
* * *
8791473 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCATGTCACGTTGCCATGGTA
* ** * **
8791519 TCATTCAACCATGGTCTTATTCATTTCCCCGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCATGTCACGTTGCCATGGTA
*
8791566 TCTTTCAACCATGGTCTTAAACA-TTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCATGTCACGTTGCCATGGTA
* *
8791612 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCATGTCACGTTGCCATGGTA
* * *
8791658 TCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCATGTCACGTTGCCATGGTA
8791704 TCTTTCAACCATGGTCTTACACATTTTC
1 TCTTTCAACCATGGTCTTACACATTTTC
8791732 TATCAGAGAG
Statistics
Matches: 194, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
46 154 0.79
47 40 0.21
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (47 bp):
TCTTTCAACCATGGTCTTACACATTTTCATGTCACGTTGCCATGGTA
Found at i:8794482 original size:19 final size:18
Alignment explanation
Indices: 8794456--8794502 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
8794446 CATCAACAGT
8794456 GAAAAAAAACGCTAAAAACA
1 GAAAAAAAA-GCTAAAAA-A
* *
8794476 GAAAAAAAAGCTGAAAAT
1 GAAAAAAAAGCTAAAAAA
8794494 GAAAAAAAA
1 GAAAAAAAA
8794503 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
19 7 0.28
20 9 0.36
ACGTcount: A:0.72, C:0.09, G:0.13, T:0.06
Consensus pattern (18 bp):
GAAAAAAAAGCTAAAAAA
Found at i:8794692 original size:3 final size:3
Alignment explanation
Indices: 8794677--8794719 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
8794667 TTCAGGAACA
* * *
8794677 AAG AAG GAG AAG AAG AAA AAG AA- AAG AAG GAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
8794720 AGAAAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8794702 original size:23 final size:24
Alignment explanation
Indices: 8794676--8794725 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
8794666 TTTCAGGAAC
8794676 AAAGAAGGAGAAGAAGAA-AAAGA
1 AAAGAAGGAGAAGAAGAAGAAAGA
8794699 AAAGAAGGAGAAGAAGAAGAAAGA
1 AAAGAAGGAGAAGAAGAAGAAAGA
8794723 AAA
1 AAA
8794726 AAAAGGGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (24 bp):
AAAGAAGGAGAAGAAGAAGAAAGA
Found at i:8794710 original size:17 final size:17
Alignment explanation
Indices: 8794684--8794730 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
8794674 ACAAAGAAGG
8794684 AGAAGAAGAAAAAGAAA
1 AGAAGAAGAAAAAGAAA
* * *
8794701 AGAAGGAGAAGAAGAAG
1 AGAAGAAGAAAAAGAAA
*
8794718 A-AAGAAAAAAAAG
1 AGAAGAAGAAAAAG
8794731 GGGAGGAGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
AGAAGAAGAAAAAGAAA
Found at i:8794788 original size:14 final size:14
Alignment explanation
Indices: 8794763--8794826 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
8794753 CACTTGAGAG
8794763 AAGAAAAA-AGAAA
1 AAGAAAAAGAGAAA
*
8794776 AAGAAAAAGAGAAG
1 AAGAAAAAGAGAAA
* * **
8794790 GAGAAGAAGAGGGA
1 AAGAAAAAGAGAAA
*
8794804 AGGAAAAAGAAGAAA
1 AAGAAAAAG-AGAAA
8794819 AA-AAAAAG
1 AAGAAAAAG
8794827 GTAACTTTTT
Statistics
Matches: 37, Mismatches: 12, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
13 8 0.22
14 25 0.68
15 4 0.11
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAGAAA
Found at i:8795217 original size:17 final size:17
Alignment explanation
Indices: 8795187--8795258 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 17
8795177 CCTTTTACAA
* *
8795187 AAAATAGTATAAAAAAT
1 AAAATACTAGAAAAAAT
8795204 AAAATACT--AAAAAAT
1 AAAATACTAGAAAAAAT
* * *
8795219 ATATTAAT-GAAAAAAT
1 AAAATACTAGAAAAAAT
* *
8795235 AAAATACGAGAAGAAAT
1 AAAATACTAGAAAAAAT
8795252 AAAATAC
1 AAAATAC
8795259 GAAAAAAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
15 12 0.27
16 11 0.25
17 21 0.48
ACGTcount: A:0.68, C:0.04, G:0.07, T:0.21
Consensus pattern (17 bp):
AAAATACTAGAAAAAAT
Found at i:8795465 original size:133 final size:134
Alignment explanation
Indices: 8795321--8795593 Score: 356
Period size: 133 Copynumber: 2.0 Consensus size: 134
8795311 TAAAAAATAA
* * * *
8795321 AATATGAAAATAGTATA-TTTAAAAAATAAAATCCGAAAATAAAAAAATACGAACAAGGTG-TCA
1 AATATGAAAATAATATATTTTAAAAAATAAAATACAAAAAT-AAAAAATACGAACAAAGTGCT-A
* * * * * *
8795384 AAGCCAGGGTTTTTTATTAAATTAATAT-AAAAA-ACTTAAATAATACATTTAAAACATTTTTTG
64 AAACCAGGGTTATTTATTAAA-AAATATAAAAAACACTTAAATAATACATTTAAAACATTATGTA
8795447 CTAAAAT
128 CTAAAAT
* *
8795454 AATATGAAAATAATATATTTTAAAAAATAATATACAAAAATAAAAAATACGAATAAAGTGCTAAA
1 AATATGAAAATAATATATTTTAAAAAATAAAATACAAAAATAAAAAATACGAACAAAGTGCTAAA
* *
8795519 ATCAGGGTTATTTATTAAAAAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACT
66 ACCAGGGTTATTTATTAAAAAATAT-AAAAAACACTTAAATAATACATTTAAAACATTATGTACT
8795584 AAAAT
130 AAAAT
8795589 AATAT
1 AATAT
8795594 AAAGAAATAA
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
132 5 0.04
133 52 0.43
134 26 0.21
135 38 0.31
ACGTcount: A:0.55, C:0.07, G:0.08, T:0.30
Consensus pattern (134 bp):
AATATGAAAATAATATATTTTAAAAAATAAAATACAAAAATAAAAAATACGAACAAAGTGCTAAA
ACCAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTAAAACATTATGTACTA
AAAT
Found at i:8798217 original size:27 final size:27
Alignment explanation
Indices: 8798187--8798248 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
8798177 AATAACTAAC
*
8798187 AATAATTAGGGTTTTTTTACTAACAAT
1 AATAATAAGGGTTTTTTTACTAACAAT
8798214 AATAATAAGGGTTTTTTTACTAACAAT
1 AATAATAAGGGTTTTTTTACTAACAAT
*
8798241 ATTAATAA
1 AATAATAA
8798249 CTAACAACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (27 bp):
AATAATAAGGGTTTTTTTACTAACAAT
Found at i:8798553 original size:20 final size:20
Alignment explanation
Indices: 8798523--8798575 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
8798513 TTACTTATTT
*
8798523 TTTTATTTTTTCGTTTTCAGC
1 TTTT-TTTTTTCATTTTCAGC
8798544 TTTTTTTTTTCATTTTCAGC
1 TTTTTTTTTTCATTTTCAGC
*
8798564 CTTTTTTTTTCA
1 TTTTTTTTTTCA
8798576 CTGTTGAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 26 0.87
21 4 0.13
ACGTcount: A:0.09, C:0.15, G:0.06, T:0.70
Consensus pattern (20 bp):
TTTTTTTTTTCATTTTCAGC
Found at i:8800553 original size:16 final size:15
Alignment explanation
Indices: 8800532--8800611 Score: 52
Period size: 17 Copynumber: 5.0 Consensus size: 15
8800522 TTTTTTTACA
*
8800532 AAAATAGTATAAAAAT
1 AAAATACTA-AAAAAT
8800548 AAAATACTAAAAAAT
1 AAAATACTAAAAAAT
** * *
8800563 ATATCTTAATGAAAAAT
1 A-A-AATACTAAAAAAT
*
8800580 AAAATACAAAAACAAAT
1 AAAATAC-TAAA-AAAT
*
8800597 AAAATACGAAAAAAT
1 AAAATACTAAAAAAT
8800612 TAATTTTTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
15 13 0.27
16 15 0.31
17 21 0.43
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.21
Consensus pattern (15 bp):
AAAATACTAAAAAAT
Found at i:8800596 original size:17 final size:18
Alignment explanation
Indices: 8800576--8800609 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
8800566 TCTTAATGAA
8800576 AAATAAAATAC-AAAAAC
1 AAATAAAATACGAAAAAC
8800593 AAATAAAATACGAAAAA
1 AAATAAAATACGAAAAA
8800610 ATTAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (18 bp):
AAATAAAATACGAAAAAC
Found at i:8800814 original size:12 final size:13
Alignment explanation
Indices: 8800797--8800829 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
8800787 GTTATGTACT
8800797 AAAATAATATA-A
1 AAAATAATATACA
*
8800809 AAAATAAAATACA
1 AAAATAATATACA
8800822 AAAATAAT
1 AAAATAAT
8800830 TTATTTTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAATATACA
Found at i:8816454 original size:46 final size:46
Alignment explanation
Indices: 8816229--8816456 Score: 350
Period size: 46 Copynumber: 5.0 Consensus size: 46
8816219 TTATCTTTGG
* * * * * *
8816229 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
** * *
8816275 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
8816321 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
8816367 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
8816413 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
8816457 TTCAGAAAGC
Statistics
Matches: 171, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 167 0.98
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:8818609 original size:11 final size:11
Alignment explanation
Indices: 8818593--8818618 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8818583 ATATATACTA
8818593 AATAAAATAAT
1 AATAAAATAAT
8818604 AATAAAATAAT
1 AATAAAATAAT
8818615 AATA
1 AATA
8818619 TATCATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:8820534 original size:10 final size:10
Alignment explanation
Indices: 8820521--8820554 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
8820511 ATTTTTTTAA
*
8820521 ATGTATTTAT
1 ATGTATATAT
8820531 ATGTATATAT
1 ATGTATATAT
8820541 ATGTATATAT
1 ATGTATATAT
8820551 ATGT
1 ATGT
8820555 CTTCTTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (10 bp):
ATGTATATAT
Found at i:8825814 original size:11 final size:11
Alignment explanation
Indices: 8825798--8825828 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8825788 TTAGTTTCAA
*
8825798 AAAAAGAAAAT
1 AAAAAGAAAAG
8825809 AAAAAGAAAAG
1 AAAAAGAAAAG
8825820 AAAAAGAAA
1 AAAAAGAAA
8825829 CAGGAGAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:8827248 original size:44 final size:45
Alignment explanation
Indices: 8827200--8827299 Score: 116
Period size: 44 Copynumber: 2.2 Consensus size: 45
8827190 TTAGCCACTG
**
8827200 GTCTTATC-TCTCTAAAGTAGC-AAGAGAGCAGGTTGAAAA-TACAA
1 GTCTTATCTTCT-TAAAGTAGCAAAGA-AGCAGACTGAAAATTACAA
* *
8827244 GTCTTATCTTCTTGAGGTAGCAAAGAAGCAGACTGAAAATTACAA
1 GTCTTATCTTCTTAAAGTAGCAAAGAAGCAGACTGAAAATTACAA
*
8827289 ATCTTATCTTC
1 GTCTTATCTTC
8827300 ATGTATCGGC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
44 26 0.54
45 22 0.46
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (45 bp):
GTCTTATCTTCTTAAAGTAGCAAAGAAGCAGACTGAAAATTACAA
Found at i:8827319 original size:45 final size:45
Alignment explanation
Indices: 8827279--8827366 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
8827269 AAGCAGACTG
* *
8827279 AAAATTACAAATCTTATCT-TCATGTATCGGCTATGGAGCAGATCA
1 AAAATGACAAATCTTATCTCT-ATGTATCAGCTATGGAGCAGATCA
* * *
8827324 AAAATGGCGAGTCTTATCTCTATGTATCAGCTATGGAGCAGAT
1 AAAATGACAAATCTTATCTCTATGTATCAGCTATGGAGCAGAT
8827367 TTTAGCCATC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 36 0.97
46 1 0.03
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (45 bp):
AAAATGACAAATCTTATCTCTATGTATCAGCTATGGAGCAGATCA
Found at i:8827400 original size:178 final size:178
Alignment explanation
Indices: 8827098--8828513 Score: 2373
Period size: 178 Copynumber: 8.0 Consensus size: 178
8827088 GGGTAACAGG
* * * *
8827098 CTGAAAATTACAGATCTTATCTCTATGTATCGGCTATGGAGTAGATCGAAAATGGTGAGTCTTAT
1 CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTAT
** * * *
8827163 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACTGGTCTTATCTCTCTAAAGTAGCAAGAGAG
66 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAG
* * *
8827228 CAGGTTGAAAATACAAGTCTTATCTTCTTGAGGTAGCAAAGAAGCAGA
131 CAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
* *
8827276 CTGAAAATTACAAATCTTATCTTCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTAT
1 CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTAT
* * * * *
8827341 CTCTATGTATCAGCTATGGAGCAGATTTTAGCCATCAGTCTTATCTCTCTAAGGTAGCAAGAGAG
66 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAG
* *
8827406 TAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTATCAAGGAAGCAGA
131 CAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
* * *
8827454 CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGAAGCAGATCAGAAATGGTGAGTCTTAT
1 CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTAT
* *
8827519 CTCTATGTATCGGCTATGGAGCAGATTTTAGCAACCAGCCTTATCTCTCTGAGGTAGCAAGAGAG
66 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAG
*
8827584 CAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAA
131 CAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
* * *
8827632 CTGAAAATTACAGATCTTATCTACATGTATCGGCTATAGAGCAGATCAGAAATGGCGAGTCTTAT
1 CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTAT
*
8827697 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCAAGAGAG
66 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAG
* *
8827762 CAGGTTGAAGATACAAGTATTATCTTCCTGAGGTAGCAAGGAAGCAAA
131 CAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
* * *
8827810 CTGGAAATTACAGATCTTATCTCCATGTATCGGCTATGGAACAGATCAAAAATGGTGAGTCTTAT
1 CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTAT
*
8827875 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTGGCAAGAGAG
66 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAG
8827940 CAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
131 CAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
* * * *
8827988 CTGAAAATTACAGATCTTATCTCCATGTATCAGCTATGGAGTAGATAAAAAATGGCGAGTTTTAT
1 CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTAT
8828053 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAG
66 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAG
*
8828118 TAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
131 CAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
* * * * *
8828166 CTGAAAATTACAGATCTTATCTCCATGTATCAGTTATGGAGCAGATCAGAAATAGTGAGTCTTAT
1 CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTAT
8828231 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAG
66 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAG
* *
8828296 CAGGTTAAAGATACAAGTTTTATCTTCCTGAGGTAGCAAGGAAGCAGA
131 CAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
* *
8828344 CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAACAGATCGAAAATGGCGAGTCTTAT
1 CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTAT
8828409 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAG
66 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAG
8828474 CAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAG
131 CAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAG
8828514 AGAGCAGGTT
Statistics
Matches: 1162, Mismatches: 76, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
178 1162 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (178 bp):
CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTAT
CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAG
CAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
Found at i:8828475 original size:44 final size:44
Alignment explanation
Indices: 8828427--8828556 Score: 154
Period size: 44 Copynumber: 3.0 Consensus size: 44
8828417 ATCGGCTATG
** * *
8828427 GAGCAGATTTTAGCCACCAGCCTTATC-TCTCTGAGGTAGCAAGA
1 GAGCAGATTGAAGACACAAGCCTTATCTTC-CTGAGGTAGCAAGA
* * *
8828471 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGA
1 GAGCAGATTGAAGACACAAGCCTTATCTTCCTGAGGTAGCAAGA
* * *
8828515 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
1 GAGCAGATTGAAGACACAAGCCTTATCTTCCTGAGGTAGCAA
8828557 TGAAACAGAC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 76 0.97
45 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (44 bp):
GAGCAGATTGAAGACACAAGCCTTATCTTCCTGAGGTAGCAAGA
Found at i:8828509 original size:222 final size:222
Alignment explanation
Indices: 8828270--8828734 Score: 808
Period size: 222 Copynumber: 2.1 Consensus size: 222
8828260 AGCCACCAGC
*
8828270 CTTATC-TCTCTGAGGTAGCAAGAGAGCAGGTTAAAGATACAAGTTTTATCTTCCTGAGGTAGCA
1 CTTATCTTC-CTGAGGTAGCAAGAGAGCAGGTTAAAGATACAAGTCTTATCTTCCTGAGGTAGCA
* * * *
8828334 AGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATC-GGCTATGGAACAGATCGAAAATG
65 AGGAAACAGACTGAAAATTACAGATCTTATCTCCATGTATCAGAC-ATAGAACAGATCAAAAATG
8828398 GCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGG
129 GCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGG
8828463 TAGCAAGAGAGCAGGTTGAAGATACAAGT
194 TAGCAAGAGAGCAGGTTGAAGATACAAGT
*
8828492 CTTATCTTCCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
1 CTTATCTTCCTGAGGTAGCAAGAGAGCAGGTTAAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
* * *
8828557 TGAAACAGACTGAAAATTACAGATCTTATCTCTATGTATCAGACATAGAGCAGATCAAAAATGGC
66 GGAAACAGACTGAAAATTACAGATCTTATCTCCATGTATCAGACATAGAACAGATCAAAAATGGC
*
8828622 GAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTG
131 GAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTA
8828687 GCAAGAGAGCAGGTTGAAGATACAAGT
196 GCAAGAGAGCAGGTTGAAGATACAAGT
8828714 CTTATCTTCCTGAGGTAGCAA
1 CTTATCTTCCTGAGGTAGCAA
8828735 TGAAACAGAC
Statistics
Matches: 231, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
222 227 0.98
223 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (222 bp):
CTTATCTTCCTGAGGTAGCAAGAGAGCAGGTTAAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
GGAAACAGACTGAAAATTACAGATCTTATCTCCATGTATCAGACATAGAACAGATCAAAAATGGC
GAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTA
GCAAGAGAGCAGGTTGAAGATACAAGT
Found at i:8828517 original size:400 final size:400
Alignment explanation
Indices: 8828092--8828913 Score: 1387
Period size: 400 Copynumber: 2.1 Consensus size: 400
8828082 AGCCACCAGC
*
8828092 CTTATC-TCTCTGAGGTAGCAAGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCA
1 CTTATCTTC-CTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCA
* ** * *
8828156 AGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCAGTTATGGAGCAGATCAGAAATAG
65 AGGAAACAGACTGAAAATTACAGATCTTATCTCCATGTATCAGACATAGAGCAGATCAAAAATAG
*
8828221 TGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGT
130 CGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGT
* *
8828286 AGCAAGAGAGCAGGTTAAAGATACAAGTTTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAA
195 AGCAAGAGAGCAGGTTAAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAAA
* *
8828351 TTACAGATCTTATCTCCATGTATCGGCTATGGAACAGATC-GAAAATGGCGAGTCTTATCTCCAT
260 TTACAGATCATATCTCCATGTATCGGCTATGGAACAGATCAG-AAATGGCGAGCCTTATCTCCAT
* * * *
8828415 GTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT
324 GTATCGGCTATGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGATT
8828480 GAAGATACAAGT
389 GAAGATACAAGT
8828492 CTTATCTTCCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
1 CTTATCTTCCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
* * *
8828557 TGAAACAGACTGAAAATTACAGATCTTATCTCTATGTATCAGACATAGAGCAGATCAAAAATGGC
66 GGAAACAGACTGAAAATTACAGATCTTATCTCCATGTATCAGACATAGAGCAGATCAAAAATAGC
*
8828622 GAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTG
131 GAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTA
* *
8828687 GCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAATGAAACAGACTGAAAAT
196 GCAAGAGAGCAGGTTAAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAAAT
* * *
8828752 TATAGATCATATCTCCATGTATCGTCTATGGAGCAGATCAGAAATGGCGAGCCTTATCTCCATGT
261 TACAGATCATATCTCCATGTATCGGCTATGGAACAGATCAGAAATGGCGAGCCTTATCTCCATGT
*
8828817 ATCGGCTATGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCATATTGA
326 ATCGGCTATGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGA
8828882 AGATACAAGT
391 AGATACAAGT
8828892 CTTATCTTCCTGAGGTAGCAAG
1 CTTATCTTCCTGAGGTAGCAAG
8828914 GAAGCAGACT
Statistics
Matches: 395, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
400 392 0.99
401 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (400 bp):
CTTATCTTCCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
GGAAACAGACTGAAAATTACAGATCTTATCTCCATGTATCAGACATAGAGCAGATCAAAAATAGC
GAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTA
GCAAGAGAGCAGGTTAAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAAAT
TACAGATCATATCTCCATGTATCGGCTATGGAACAGATCAGAAATGGCGAGCCTTATCTCCATGT
ATCGGCTATGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGA
AGATACAAGT
Found at i:8828517 original size:578 final size:578
Alignment explanation
Indices: 8827914--8829091 Score: 2024
Period size: 578 Copynumber: 2.0 Consensus size: 578
8827904 AGCCACCAGC
*
8827914 CTTATC-TCTCTGAGGTGGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCA
1 CTTATCTTC-CTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCA
* * *
8827978 AGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCAG-CTATGGAGTAGATAAAAAATG
65 AGGAAACAGACTGAAAATTACAGATCTTATCTCCATGTATCAGAC-ATAGAGCAGATAAAAAATG
*
8828042 GCGAGTTTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGG
129 GCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGG
* *
8828107 TAGCAAGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAA
194 TAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAA
* * *
8828172 ATTACAGATCTTATCTCCATGTATCAGT-TATGGAGCAGATCAGAAATAGTGAGTCTTATCTCCA
259 ATTACAGATCATATCTCCATGTATC-GTCTATGGAGCAGATCAGAAATAGCGAGCCTTATCTCCA
* * * *
8828236 TGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
323 TGTATCGGCTATGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGAT
* *
8828301 TAAAGATACAAGTTTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAA-ATTACAGATCTTATC
388 TAAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT-AAAGATTACAGATCATATC
*
8828365 TCCATGTATCGGCTATGGAA-CAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGA
452 TCCATGTATCGGCTAT-GAAGCAGATCGAAAATAGCGAGTCTTATCTCCATGTATCGGCTATGGA
8828429 GCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGT
516 GCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGT
8828492 CTTATCTTCCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
1 CTTATCTTCCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
* * *
8828557 TGAAACAGACTGAAAATTACAGATCTTATCTCTATGTATCAGACATAGAGCAGATCAAAAATGGC
66 GGAAACAGACTGAAAATTACAGATCTTATCTCCATGTATCAGACATAGAGCAGATAAAAAATGGC
*
8828622 GAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTG
131 GAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTA
*
8828687 GCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAATGAAACAGACTGAAAAT
196 GCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAAAT
* *
8828752 TATAGATCATATCTCCATGTATCGTCTATGGAGCAGATCAGAAATGGCGAGCCTTATCTCCATGT
261 TACAGATCATATCTCCATGTATCGTCTATGGAGCAGATCAGAAATAGCGAGCCTTATCTCCATGT
* *
8828817 ATCGGCTATGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCATATTGA
326 ATCGGCTATGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTAA
8828882 AGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTACAGATCATATCTCCA
391 AGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTACAGATCATATCTCCA
8828947 TGTATCGGCTATGAAGCAGATCGAAAATAGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGA
456 TGTATCGGCTATGAAGCAGATCGAAAATAGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGA
*
8829012 TTTTAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGT
521 TTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGT
*
8829070 CTTATCTTCCTAAGGTAGCAAG
1 CTTATCTTCCTGAGGTAGCAAG
8829092 GAAGCAGACT
Statistics
Matches: 567, Mismatches: 28, Indels: 10
0.94 0.05 0.02
Matches are distributed among these distances:
577 8 0.01
578 556 0.98
579 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (578 bp):
CTTATCTTCCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
GGAAACAGACTGAAAATTACAGATCTTATCTCCATGTATCAGACATAGAGCAGATAAAAAATGGC
GAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTA
GCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAAAT
TACAGATCATATCTCCATGTATCGTCTATGGAGCAGATCAGAAATAGCGAGCCTTATCTCCATGT
ATCGGCTATGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTAA
AGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTACAGATCATATCTCCA
TGTATCGGCTATGAAGCAGATCGAAAATAGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGA
TTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGT
Found at i:8828576 original size:756 final size:756
Alignment explanation
Indices: 8827733--8829168 Score: 2398
Period size: 756 Copynumber: 1.9 Consensus size: 756
8827723 TTTAGCCACC
8827733 AGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTATTATCTTCCTGAGGTAG
1 AGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTATTATCTTCCTGAGGTAG
* * * *
8827798 CAAGGAAGCAAACTGGAAATTACAGATCTTATCTCCATGTATC-GGCTATGGAACAGATCAAAAA
66 CAAGGAAACAAACTGAAAATTACAGATCTTATCTCCATGTATCAGAC-ATAGAACAGATCAAAAA
*
8827862 TGGTGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGA
130 TGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGA
*
8827927 GGTGGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGA
195 GGTGGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGA
* * **
8827992 AAATTACAGATCTTATCTCCATGTATCAG-CTATGGAGTAGATAAAAAATGGCGAGTTTTATCTC
260 AAATTACAGATCATATCTCCATGTATC-GTCTATGGAGCAGATAAAAAATGGCGAGCCTTATCTC
* * * *
8828056 CATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAG
324 CATGTATCGGCTATGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAG
* *
8828121 GTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAA-ATTACAGATCTTA
389 ATTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT-AAAGATTACAGATCATA
* * *
8828185 TCTCCATGTATCAGTTATGGAGCAGATC-AGAAATAGTGAGTCTTATCTCCATGTATCGGCTATG
453 TCTCCATGTATCAGCTATGAAGCAGATCGA-AAATAGCGAGTCTTATCTCCATGTATCGGCTATG
8828249 GAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAGATACAAGT
517 GAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAGATACAAGT
* * * **
8828314 TTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAA-ATTACAGATCTTATCTCCATGTATCGGC
582 CTTATCTTCCTAAGGTAGCAAGGAAGCAGACT-AAATATTAAAGATCTTATCTCCATGTATCCAC
* **
8828378 TATGGAACAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
646 TATGGAACAGATCGAAAACGGCGAACCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
8828443 CCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
711 CCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
*
8828489 AGTCTTATCT-TCCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTA
1 AGTCTTATCTCT-CTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTATTATCTTCCTGAGGTA
* * * *
8828553 GCAATGAAACAGACTGAAAATTACAGATCTTATCTCTATGTATCAGACATAGAGCAGATCAAAAA
65 GCAAGGAAACAAACTGAAAATTACAGATCTTATCTCCATGTATCAGACATAGAACAGATCAAAAA
8828618 TGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGA
130 TGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGA
*
8828683 GGTGGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAATGAAACAGACTGA
195 GGTGGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGA
* * *
8828748 AAATTATAGATCATATCTCCATGTATCGTCTATGGAGCAGATCAGAAATGGCGAGCCTTATCTCC
260 AAATTACAGATCATATCTCCATGTATCGTCTATGGAGCAGATAAAAAATGGCGAGCCTTATCTCC
*
8828813 ATGTATCGGCTATGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCATA
325 ATGTATCGGCTATGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGA
8828878 TTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTACAGATCATATC
390 TTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTACAGATCATATC
*
8828943 TCCATGTATCGGCTATGAAGCAGATCGAAAATAGCGAGTCTTATCTCCATGTATCGGCTATGGAG
455 TCCATGTATCAGCTATGAAGCAGATCGAAAATAGCGAGTCTTATCTCCATGTATCGGCTATGGAG
* *
8829008 CAGATTTTAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTT
520 CAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAGATACAAGTCTT
8829073 ATCTTCCTAAGGTAGCAAGGAAGCAGACTAAATATTAAAGATCTTATCTCCATGTATCCACTATG
585 ATCTTCCTAAGGTAGCAAGGAAGCAGACTAAATATTAAAGATCTTATCTCCATGTATCCACTATG
* *
8829138 GAGCAGATCGAAGACGGCGAACCTTATCTCC
650 GAACAGATCGAAAACGGCGAACCTTATCTCC
8829169 CTAAGCAGTA
Statistics
Matches: 632, Mismatches: 42, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
755 8 0.01
756 621 0.98
757 3 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (756 bp):
AGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTATTATCTTCCTGAGGTAG
CAAGGAAACAAACTGAAAATTACAGATCTTATCTCCATGTATCAGACATAGAACAGATCAAAAAT
GGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAG
GTGGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAA
AATTACAGATCATATCTCCATGTATCGTCTATGGAGCAGATAAAAAATGGCGAGCCTTATCTCCA
TGTATCGGCTATGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGAT
TGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTACAGATCATATCT
CCATGTATCAGCTATGAAGCAGATCGAAAATAGCGAGTCTTATCTCCATGTATCGGCTATGGAGC
AGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAGATACAAGTCTTA
TCTTCCTAAGGTAGCAAGGAAGCAGACTAAATATTAAAGATCTTATCTCCATGTATCCACTATGG
AACAGATCGAAAACGGCGAACCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGC
CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
Found at i:8829147 original size:178 final size:178
Alignment explanation
Indices: 8828492--8829168 Score: 1013
Period size: 178 Copynumber: 3.8 Consensus size: 178
8828482 AGATACAAGT
8828492 CTTATCT-TCCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCA
1 CTTATCTCT-CTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCA
* * * * *
8828556 ATGAAACAGACTGAAAATTACAGATCTTATCTCTATGTATCAGAC-ATAGAGCAGATCAAAAATG
65 AGGAAACAGACTGAAAATTACAGATCATATCTCCATGTATC-GACTATGGAGCAGATCGAAAATG
8828620 GCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGC
129 GCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGC
*
8828670 CTTATCTCTCTGAGGTGGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
* * *
8828735 TGAAACAGACTGAAAATTATAGATCATATCTCCATGTATCGTCTATGGAGCAGATC-AGAAATGG
66 GGAAACAGACTGAAAATTACAGATCATATCTCCATGTATCGACTATGGAGCAGATCGA-AAATGG
* * *
8828799 CGAGCCTTATCTCCATGTATCGGCTATGGAGAAAATTTTAGCCACCAGC
130 CGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGC
* **
8828848 CTTATCTCTCTAAGGTAGCAAGAGAGCATATTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
* * * *
8828913 GGAAGCAGACT-AAAGATTACAGATCATATCTCCATGTATCGGCTATGAAGCAGATCGAAAATAG
66 GGAAACAGACTGAAA-ATTACAGATCATATCTCCATGTATCGACTATGGAGCAGATCGAAAATGG
*
8828977 CGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCATCAGC
130 CGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGC
*
8829026 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAGGTAGCAA
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
* * * * * *
8829091 GGAAGCAGACT-AAATATTAAAGATCTTATCTCCATGTATCCACTATGGAGCAGATCGAAGACGG
66 GGAAACAGACTGAAA-ATTACAGATCATATCTCCATGTATCGACTATGGAGCAGATCGAAAATGG
**
8829155 CGAACCTTATCTCC
130 CGAGTCTTATCTCC
8829169 CTAAGCAGTA
Statistics
Matches: 456, Mismatches: 38, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
177 6 0.01
178 448 0.98
179 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (178 bp):
CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAA
GGAAACAGACTGAAAATTACAGATCATATCTCCATGTATCGACTATGGAGCAGATCGAAAATGGC
GAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGC
Found at i:8829319 original size:88 final size:88
Alignment explanation
Indices: 8829160--8829368 Score: 260
Period size: 88 Copynumber: 2.4 Consensus size: 88
8829150 GACGGCGAAC
* * * * *
8829160 CTTATCTCCCTAAGCAGTAATGGAACAGATCGAAGACGGCGAGCCTTAACCCCCTAGATAGGAGG
1 CTTATCTCTCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGAGCCTTAACCCCCTAGACAGGAGG
* **
8829225 GTAACAGGCGGGAAATTACAAAT
66 GAAACAGGCGAAAAATTACAAAT
* * *
8829248 CTTATCTCTCTAAGCAGTAGTGGGGCAGATTGAAGACGGTGAGCCTTAACCCCCTA-AGCAGTAG
1 CTTATCTCTCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGAGCCTTAACCCCCTAGA-CAGGAG
* * *
8829312 GGAAACAGGCTAAAAATTGCAGAT
65 GGAAACAGGCGAAAAATTACAAAT
*
8829336 CTTATCTCT-TAAACAGTAGTGGAGCAGATTGAA
1 CTTATCTCTCTAAGCAGTAGTGGAGCAGATTGAA
8829369 ACGAGTTCCT
Statistics
Matches: 104, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
87 23 0.22
88 81 0.78
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.22
Consensus pattern (88 bp):
CTTATCTCTCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGAGCCTTAACCCCCTAGACAGGAGG
GAAACAGGCGAAAAATTACAAAT
Found at i:8830982 original size:10 final size:10
Alignment explanation
Indices: 8830969--8831002 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
8830959 TTTTTTTTAA
*
8830969 ATGTATTTAT
1 ATGTATATAT
8830979 ATGTATATAT
1 ATGTATATAT
8830989 ATGTATATAT
1 ATGTATATAT
8830999 ATGT
1 ATGT
8831003 CTTCTTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (10 bp):
ATGTATATAT
Found at i:8831628 original size:120 final size:120
Alignment explanation
Indices: 8831415--8831638 Score: 270
Period size: 120 Copynumber: 1.9 Consensus size: 120
8831405 AAAGTTTTTC
* * ** *
8831415 AAAATAAGGCAATATTTCGTGTTTGGAAGTTCGAGAAATCGTGCCTTACCATGCTGGGTTTCGAT
1 AAAATAAGGCAATATTTCATGTTTGGAAATTCGAGAAATCGTGCCCAACCATGCTGGGTTTCAAT
* * ** * *
8831480 TTTCTGTTCAACTGAATAACTGAATATCCTTTTGAAATTCCATCCATGTTTTCTT
66 TTACCGTTCAACCAAATAACTAAATATCCTTTTAAAATTCCATCCATGTTTTCTT
* * * * *
8831535 AAAATGAGGCAATATTTCATGTTTGTAAATTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCAAT
1 AAAATAAGGCAATATTTCATGTTTGGAAATTCGAGAAATCGTGCCCAACCATGCTGGGTTTCAAT
* *
8831600 TTACCGTTTAACCAAAT-ATTCAAATATCCTTTTAAAATT
66 TTACCGTTCAACCAAATAACT-AAATATCCTTTTAAAATT
8831639 TCAAATGCAT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
119 2 0.02
120 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (120 bp):
AAAATAAGGCAATATTTCATGTTTGGAAATTCGAGAAATCGTGCCCAACCATGCTGGGTTTCAAT
TTACCGTTCAACCAAATAACTAAATATCCTTTTAAAATTCCATCCATGTTTTCTT
Found at i:8833070 original size:23 final size:23
Alignment explanation
Indices: 8833044--8833162 Score: 170
Period size: 23 Copynumber: 5.3 Consensus size: 23
8833034 GTGTTATTGA
8833044 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
8833067 TCAGTGGTAGCTTTGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
8833089 CCAGTGGTAGCTTTGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
8833111 CCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
*
8833134 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
8833157 TCAGTG
1 TCAGTG
8833163 TGGCACTTAT
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
22 42 0.47
23 48 0.53
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:8833096 original size:22 final size:22
Alignment explanation
Indices: 8833045--8833155 Score: 168
Period size: 22 Copynumber: 5.0 Consensus size: 22
8833035 TGTTATTGAT
*
8833045 CAGTGGTAGCTTCGGCTACATTT
1 CAGTGGTAGCTTCGGCTACA-TC
*
8833068 CAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATC
*
8833090 CAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATC
*
8833112 CAGTGGTAGCTTCGGCTACATAT
1 CAGTGGTAGCTTCGGCTACAT-C
8833135 CAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACAT
8833156 ATCAGTGTGG
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
22 43 0.52
23 40 0.48
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.32
Consensus pattern (22 bp):
CAGTGGTAGCTTCGGCTACATC
Found at i:8835626 original size:3 final size:3
Alignment explanation
Indices: 8835618--8835648 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8835608 GTTCTGAGTA
8835618 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8835649 TTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8837902 original size:20 final size:21
Alignment explanation
Indices: 8837877--8837916 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8837867 CAAGTTTAAA
8837877 TTTATA-GTAATTATTTTTAT
1 TTTATATGTAATTATTTTTAT
*
8837897 TTTATATGTAATTTTTTTTA
1 TTTATATGTAATTATTTTTA
8837917 ATGAGATACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTATATGTAATTATTTTTAT
Found at i:8840470 original size:44 final size:44
Alignment explanation
Indices: 8840421--8840504 Score: 168
Period size: 44 Copynumber: 1.9 Consensus size: 44
8840411 ATATATTTTT
8840421 TTATTTGACTTCGCGATTTTAAATTTGTCACTTAAATATAAAAA
1 TTATTTGACTTCGCGATTTTAAATTTGTCACTTAAATATAAAAA
8840465 TTATTTGACTTCGCGATTTTAAATTTGTCACTTAAATATA
1 TTATTTGACTTCGCGATTTTAAATTTGTCACTTAAATATA
8840505 TTTTTATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (44 bp):
TTATTTGACTTCGCGATTTTAAATTTGTCACTTAAATATAAAAA
Found at i:8841566 original size:8 final size:8
Alignment explanation
Indices: 8841517--8841597 Score: 51
Period size: 8 Copynumber: 10.0 Consensus size: 8
8841507 TTAAATGATC
8841517 TTTTAAAA
1 TTTTAAAA
8841525 -TTTAAAA
1 TTTTAAAA
8841532 TATTTAAAA
1 T-TTTAAAA
**
8841541 AATTAAAA
1 TTTTAAAA
* *
8841549 ATTT--AT
1 TTTTAAAA
8841555 TTTTAAAA
1 TTTTAAAA
8841563 TTTTAAAA
1 TTTTAAAA
8841571 TTATTGAAAAA
1 TT-TT--AAAA
*
8841582 GTTTAAAA
1 TTTTAAAA
*
8841590 TTATAAAA
1 TTTTAAAA
8841598 AAATATTTGT
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
6 4 0.07
7 7 0.12
8 30 0.53
9 9 0.16
10 2 0.04
11 5 0.09
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (8 bp):
TTTTAAAA
Found at i:8841599 original size:19 final size:19
Alignment explanation
Indices: 8841559--8841600 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
8841549 ATTTATTTTT
* **
8841559 AAAATTTTAAAATTATTGA
1 AAAAGTTTAAAATTATAAA
8841578 AAAAGTTTAAAATTATAAA
1 AAAAGTTTAAAATTATAAA
8841597 AAAA
1 AAAA
8841601 TATTTGTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAAGTTTAAAATTATAAA
Found at i:8858337 original size:30 final size:30
Alignment explanation
Indices: 8858293--8858360 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
8858283 GATGATGAGA
* *
8858293 CGGGCCCATCAACAACGCCCACACAATTAC
1 CGGGCCCATCAACAACACCCACACAATCAC
* * *
8858323 CGGGCCTATTAACAATACCCACACAATCAC
1 CGGGCCCATCAACAACACCCACACAATCAC
8858353 CGGGCCCA
1 CGGGCCCA
8858361 ATGCCTCAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.41, G:0.15, T:0.12
Consensus pattern (30 bp):
CGGGCCCATCAACAACACCCACACAATCAC
Found at i:8858438 original size:18 final size:18
Alignment explanation
Indices: 8858415--8858451 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
8858405 GCCAAATGCT
*
8858415 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
8858433 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
8858451 T
1 T
8858452 TTTCTTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.41
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:8861547 original size:35 final size:37
Alignment explanation
Indices: 8861508--8861583 Score: 111
Period size: 35 Copynumber: 2.1 Consensus size: 37
8861498 TTTTAAAAAA
*
8861508 CTAAACCCTAATTTAATTAATTT-TAACCCTA-AACC
1 CTAAACCCTAATTTAATTAATTTAGAACCCTAGAACC
* *
8861543 CTAAACCCTAATTTAATTTATTTAGAACCCTAGAATC
1 CTAAACCCTAATTTAATTAATTTAGAACCCTAGAACC
8861580 CTAA
1 CTAA
8861584 TTTAATTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 22 0.61
36 7 0.19
37 7 0.19
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (37 bp):
CTAAACCCTAATTTAATTAATTTAGAACCCTAGAACC
Found at i:8861615 original size:30 final size:30
Alignment explanation
Indices: 8861538--8861616 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
8861528 TTTTAACCCT
* * *
8861538 AAACCCTA-AACCCTAATTTAATTTATTTA
1 AAACCCTAGAAACCTAATTTAATTAATCTA
* *
8861567 GAACCCTAGAATCCTAATTTAATTAATCTA
1 AAACCCTAGAAACCTAATTTAATTAATCTA
*
8861597 AAATCCTA-AAACCTTAATTT
1 AAACCCTAGAAACC-TAATTT
8861617 GAATAGTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 11 0.27
30 30 0.73
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (30 bp):
AAACCCTAGAAACCTAATTTAATTAATCTA
Found at i:8862875 original size:2 final size:2
Alignment explanation
Indices: 8862868--8862892 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8862858 TAAACAATCT
8862868 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8862893 GAAAAAAGTC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8865195 original size:3 final size:3
Alignment explanation
Indices: 8865187--8865218 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8865177 CAGTAATAGT
8865187 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
8865219 CTGTTTTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:8871426 original size:25 final size:27
Alignment explanation
Indices: 8871368--8871426 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
8871358 TAACAAATGC
*
8871368 CTATTTTTAATTAATCTATTTTTCATA
1 CTATTTGTAATTAATCTATTTTTCATA
* *
8871395 TTTTTTGTAATTAAT-TATTTTT-ATA
1 CTATTTGTAATTAATCTATTTTTCATA
8871420 CTATTTG
1 CTATTTG
8871427 GATAAAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 8 0.30
26 7 0.26
27 12 0.44
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (27 bp):
CTATTTGTAATTAATCTATTTTTCATA
Found at i:8879256 original size:5 final size:5
Alignment explanation
Indices: 8879248--8879273 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8879238 AATATATATA
8879248 AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG A
8879274 TGGACATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:8879747 original size:17 final size:17
Alignment explanation
Indices: 8879727--8879782 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
8879717 AATAAATGGT
8879727 TTGTATGTTTAAATCGA
1 TTGTATGTTTAAATCGA
*
8879744 TTGTCATATTGTATAAT--A
1 TTGT-ATGTT-TA-AATCGA
*
8879762 TTGCATGTTTAAATCGA
1 TTGTATGTTTAAATCGA
8879779 TTGT
1 TTGT
8879783 CATATTGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
15 3 0.10
16 2 0.07
17 12 0.40
18 8 0.27
19 2 0.07
20 3 0.10
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.48
Consensus pattern (17 bp):
TTGTATGTTTAAATCGA
Found at i:8879777 original size:35 final size:35
Alignment explanation
Indices: 8879731--8879818 Score: 140
Period size: 35 Copynumber: 2.5 Consensus size: 35
8879721 AATGGTTTGT
8879731 ATGTTTAAATCGATTGTCATATTGTATAATATTGC
1 ATGTTTAAATCGATTGTCATATTGTATAATATTGC
8879766 ATGTTTAAATCGATTGTCATATTGTATAATATTGC
1 ATGTTTAAATCGATTGTCATATTGTATAATATTGC
* * *
8879801 TTCTTTTGAATCGATTGT
1 AT-GTTTAAATCGATTGT
8879819 TTTTATGTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
35 36 0.73
36 13 0.27
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (35 bp):
ATGTTTAAATCGATTGTCATATTGTATAATATTGC
Found at i:8879833 original size:21 final size:21
Alignment explanation
Indices: 8879809--8879901 Score: 63
Period size: 21 Copynumber: 4.5 Consensus size: 21
8879799 GCTTCTTTTG
8879809 AATCGATTGTTTTTATGTTTA
1 AATCGATTGTTTTTATGTTTA
* *
8879830 AATCAATTG---TTATGTTGA
1 AATCGATTGTTTTTATGTTTA
*
8879848 AAT--ATTGCCTCTTCTTAT-TTTG
1 AATCGATTG--T-TT-TTATGTTTA
*
8879870 AATCGATTGTTTATATGTTTA
1 AATCGATTGTTTTTATGTTTA
*
8879891 AACCGATTGTT
1 AATCGATTGTT
8879902 ATGTTGGAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 20
0.67 0.09 0.24
Matches are distributed among these distances:
16 4 0.07
18 11 0.20
20 3 0.05
21 23 0.42
22 6 0.11
23 4 0.07
24 4 0.07
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.51
Consensus pattern (21 bp):
AATCGATTGTTTTTATGTTTA
Found at i:8879925 original size:55 final size:56
Alignment explanation
Indices: 8879799--8879947 Score: 183
Period size: 61 Copynumber: 2.6 Consensus size: 56
8879789 GTATAATATT
* *
8879799 GCTTCTTTTGAATCGATTGTTTTTATGTTTAAATCAATTGTTATGTTGAAATATTGCC
1 GCTTCTTTTGAATCGATTGTTTATATGTTTAAACCAATTGTTATGTTGAAATA-T-CC
* * *
8879857 TCTTCTTATTTTGAATCGATTGTTTATATGTTTAAACCGATTGTTATGTTGGAATA-CC
1 GCTTC---TTTTGAATCGATTGTTTATATGTTTAAACCAATTGTTATGTTGAAATATCC
* *
8879915 GCTTCTTTTGAATTGATTGTTTATATATTTAAA
1 GCTTCTTTTGAATCGATTGTTTATATGTTTAAA
8879948 TCGAATATTA
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
55 26 0.32
58 10 0.12
61 44 0.55
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (56 bp):
GCTTCTTTTGAATCGATTGTTTATATGTTTAAACCAATTGTTATGTTGAAATATCC
Found at i:8880763 original size:14 final size:14
Alignment explanation
Indices: 8880744--8880771 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8880734 ATTTAATTCT
8880744 GTATAACAATTTCA
1 GTATAACAATTTCA
8880758 GTATAACAATTTCA
1 GTATAACAATTTCA
8880772 TTTAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
GTATAACAATTTCA
Found at i:8882347 original size:11 final size:11
Alignment explanation
Indices: 8882333--8882373 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
8882323 TGTTTTCTCC
8882333 CTATTTTGCTA
1 CTATTTTGCTA
*
8882344 CTATTTTACTA
1 CTATTTTGCTA
* *
8882355 TTATGTTGCTA
1 CTATTTTGCTA
8882366 CTATTTTG
1 CTATTTTG
8882374 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:8884721 original size:35 final size:35
Alignment explanation
Indices: 8884659--8884795 Score: 118
Period size: 35 Copynumber: 3.9 Consensus size: 35
8884649 CACATATGGT
* * * * *
8884659 CGAATATGCATATTTAAGATAACTTCACATATATC
1 CGAATATACAAATTCAATATAACTTCACATGTATC
* * *
8884694 CGAGTATACAATTTCAATATAAGTTCACATGTAAT-
1 CGAATATACAAATTCAATATAACTTCACATGT-ATC
* * *
8884729 CGAATACTA-AAATTCAATATAACCTCACATGCACC
1 CGAATA-TACAAATTCAATATAACTTCACATGTATC
*
8884764 CGAATATACAAGTTCAATATAAGCTT-ACATGT
1 CGAATATACAAATTCAATATAA-CTTCACATGT
8884796 GCTTACCTAT
Statistics
Matches: 80, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
34 3 0.04
35 71 0.89
36 6 0.08
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (35 bp):
CGAATATACAAATTCAATATAACTTCACATGTATC
Found at i:8892416 original size:35 final size:35
Alignment explanation
Indices: 8892354--8892490 Score: 118
Period size: 35 Copynumber: 3.9 Consensus size: 35
8892344 CACATATGGT
* * * * *
8892354 CGAATATGCATATTTAAGATAACTTCACATATATC
1 CGAATATACAAATTCAATATAACTTCACATGTATC
* * *
8892389 CGAGTATACAATTTCAATATAAGTTCACATGTAAT-
1 CGAATATACAAATTCAATATAACTTCACATGT-ATC
* * *
8892424 CGAATACTA-AAATTCAATATAACCTCACATGCACC
1 CGAATA-TACAAATTCAATATAACTTCACATGTATC
*
8892459 CGAATATACAAGTTCAATATAAGCTT-ACATGT
1 CGAATATACAAATTCAATATAA-CTTCACATGT
8892491 GCTTACCTAT
Statistics
Matches: 80, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
34 3 0.04
35 71 0.89
36 6 0.08
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (35 bp):
CGAATATACAAATTCAATATAACTTCACATGTATC
Found at i:8893271 original size:30 final size:31
Alignment explanation
Indices: 8893247--8893305 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
8893237 GTAAATACTC
* *
8893247 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACTAATAGTGTAAATATGA
*
8893277 AAAATTTGAAGGACTAATAGTGCAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
8893306 CTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATGA
Found at i:8893570 original size:8 final size:8
Alignment explanation
Indices: 8893559--8893583 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
8893549 TTTAATAAGA
8893559 TATTTTAT
1 TATTTTAT
8893567 TATTTTAT
1 TATTTTAT
8893575 TATTTTAT
1 TATTTTAT
8893583 T
1 T
8893584 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:8895055 original size:12 final size:12
Alignment explanation
Indices: 8895038--8895117 Score: 61
Period size: 12 Copynumber: 7.2 Consensus size: 12
8895028 TATATATTGC
8895038 TATTATTTATAT
1 TATTATTTATAT
8895050 TATTA-TTACTAT
1 TATTATTTA-TAT
8895062 TATTA--T-TAT
1 TATTATTTATAT
8895071 TA-T-TTTATAT
1 TATTATTTATAT
*
8895081 TATTA-TTATGT
1 TATTATTTATAT
8895092 TA-TATTTAGTAT
1 TATTATTTA-TAT
8895104 TATT-TTTAATAT
1 TATTATTT-ATAT
8895116 TA
1 TA
8895118 CATTTTTTAC
Statistics
Matches: 56, Mismatches: 2, Indels: 20
0.72 0.03 0.26
Matches are distributed among these distances:
8 1 0.02
9 6 0.11
10 7 0.12
11 15 0.27
12 25 0.45
13 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.64
Consensus pattern (12 bp):
TATTATTTATAT
Found at i:8895107 original size:3 final size:3
Alignment explanation
Indices: 8895024--8895089 Score: 66
Period size: 3 Copynumber: 22.3 Consensus size: 3
8895014 GATTAAGTTT
* * *
8895024 TTA TTA TATA TTG CTA TTA TT- TATA TTA TTA TTA CTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
8895070 TTA TT- TTA -TA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
8895090 GTTATATTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 5 0.10
3 43 0.83
4 4 0.08
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:8895666 original size:24 final size:25
Alignment explanation
Indices: 8895619--8895675 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
8895609 TATGTATATA
*
8895619 ATATAAATTCTTAATACCATATTAT
1 ATATAAATTCTTAATACCACATTAT
* * *
8895644 GTATATATT-TTAATACTACATTAT
1 ATATAAATTCTTAATACCACATTAT
8895668 ATATAAAT
1 ATATAAAT
8895676 GTATTTTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.46
Consensus pattern (25 bp):
ATATAAATTCTTAATACCACATTAT
Found at i:8895883 original size:20 final size:23
Alignment explanation
Indices: 8895832--8895926 Score: 70
Period size: 22 Copynumber: 4.0 Consensus size: 23
8895822 ATCGTATACG
8895832 TTTTATATATATTATGTATATAT
1 TTTTATATATATTATGTATATAT
*
8895855 TTTCA-ATATTATTA-GT-TATAT
1 TTTTATATA-TATTATGTATATAT
*
8895876 TTTTATATACTATTCCATGTACATAT
1 TTTTATATA-TATT--ATGTATATAT
** * *
8895902 TTCCAGATCATCTTATGTATATAT
1 TTTTATAT-ATATTATGTATATAT
8895926 T
1 T
8895927 CTTAAACACT
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
21 9 0.16
22 12 0.21
23 9 0.16
24 11 0.20
25 2 0.04
26 12 0.21
27 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.54
Consensus pattern (23 bp):
TTTTATATATATTATGTATATAT
Found at i:8896271 original size:20 final size:20
Alignment explanation
Indices: 8896217--8896277 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
8896207 TATATATGTA
*
8896217 TATATTATGTATATATTTTAAC
1 TATATTAGGTATAT-TTTT-AC
* *
8896239 -ATTACTAGTTATATTTTTAC
1 TA-TATTAGGTATATTTTTAC
*
8896259 TATATTAGGTATATCTTTA
1 TATATTAGGTATATTTTTA
8896278 TCGTTTTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
20 16 0.52
21 6 0.19
22 9 0.29
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.54
Consensus pattern (20 bp):
TATATTAGGTATATTTTTAC
Found at i:8899756 original size:51 final size:51
Alignment explanation
Indices: 8899696--8899831 Score: 209
Period size: 51 Copynumber: 2.7 Consensus size: 51
8899686 GACTAACACA
*
8899696 ATGGATGCCATGGAGCCTCACTCACATGGTCTTACACCTCATATCATATTT
1 ATGGATGCCATGGAGCCTCACTCACATGGTCTTACACCTCATATCATATCT
* * * *
8899747 ATGGATGCCATGAAACCTCACTCAGATGGTCTCACACCTCATATCATATCT
1 ATGGATGCCATGGAGCCTCACTCACATGGTCTTACACCTCATATCATATCT
**
8899798 ATGGATATCATGGAGCCTCACTCACATGGTCTTA
1 ATGGATGCCATGGAGCCTCACTCACATGGTCTTA
8899832 TATTGTCTCA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 74 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (51 bp):
ATGGATGCCATGGAGCCTCACTCACATGGTCTTACACCTCATATCATATCT
Found at i:8901347 original size:38 final size:38
Alignment explanation
Indices: 8901296--8901376 Score: 162
Period size: 38 Copynumber: 2.1 Consensus size: 38
8901286 CCCCTTTCAT
8901296 TCATACCCTATTGTTCTTACACCTTTCATCATCCTCAC
1 TCATACCCTATTGTTCTTACACCTTTCATCATCCTCAC
8901334 TCATACCCTATTGTTCTTACACCTTTCATCATCCTCAC
1 TCATACCCTATTGTTCTTACACCTTTCATCATCCTCAC
8901372 TCATA
1 TCATA
8901377 AACAATCATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.22, C:0.36, G:0.02, T:0.40
Consensus pattern (38 bp):
TCATACCCTATTGTTCTTACACCTTTCATCATCCTCAC
Found at i:8910992 original size:41 final size:41
Alignment explanation
Indices: 8910929--8911010 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
8910919 TATATTTGAC
8910929 TTTGAAAGATTTGAAAAGAAAGAGTATCAGTTCAGAGATAA
1 TTTGAAAGATTTGAAAAGAAAGAGTATCAGTTCAGAGATAA
*
8910970 TTTGAAAGATTTGATAAA-AAAGAGTATCGGTTCAGAGATAA
1 TTTGAAAGATTTGA-AAAGAAAGAGTATCAGTTCAGAGATAA
8911011 ATCTCTAATC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 36 0.92
42 3 0.08
ACGTcount: A:0.45, C:0.05, G:0.22, T:0.28
Consensus pattern (41 bp):
TTTGAAAGATTTGAAAAGAAAGAGTATCAGTTCAGAGATAA
Found at i:8915897 original size:25 final size:23
Alignment explanation
Indices: 8915865--8915943 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 23
8915855 ACTTATTAAA
8915865 TATTTAAATAAACTATATAATATT
1 TATTTAAATAAA-TATATAATATT
8915889 TATTATAAATGATTAATAT-TAATATT
1 TATT-TAAAT-A--AATATATAATATT
* * *
8915915 AATTTAAACTAAATTACATAGTATT
1 TATTTAAA-TAAA-TATATAATATT
8915940 TATT
1 TATT
8915944 ATTAATTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
23 2 0.05
24 6 0.14
25 19 0.43
26 12 0.27
27 3 0.07
28 2 0.05
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (23 bp):
TATTTAAATAAATATATAATATT
Found at i:8918298 original size:10 final size:10
Alignment explanation
Indices: 8918280--8918309 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
8918270 TTCTTTGAAA
8918280 GTACATTTTT
1 GTACATTTTT
*
8918290 GTTCATTTTT
1 GTACATTTTT
8918300 GTACATTTTT
1 GTACATTTTT
8918310 TTTTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.17, C:0.10, G:0.10, T:0.63
Consensus pattern (10 bp):
GTACATTTTT
Found at i:8924308 original size:3 final size:3
Alignment explanation
Indices: 8924300--8924644 Score: 148
Period size: 3 Copynumber: 113.0 Consensus size: 3
8924290 TAAAAATGAC
* * * *
8924300 AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAA AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** * * * *
8924348 AAT GAT GGT AAA AAT AAT AGT AAT AAT AAT -AT ACT AAAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* * * * **
8924393 AAT AAC AA- AAC AAT AGT AAT AGT AATT ACC AA- AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
* * * *
8924437 AAT AAT AAT AGT AAT AAT AAT AAG ACCAT AAT AAT AAT AAA AAGA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AA-T AAT
* * * * *
8924485 AAT AGCAT -GT AAAT AAT AAT AAT AAT AAT AGT ATAT ATT AAT AAT GAC
1 AAT A--AT AAT -AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * * * * * *
8924533 AAT AAT -AG AAT -AT AAT AAA AAC AA- ATAT ACT ATGT CAAT AAG GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT A-AT -AAT AAT AAT
* * * * *
8924578 AAT AGT AGT AAT AGT AAT AAA AAC AAT AAT AAT AA- ATAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* *
8924623 AGAA AAT AAT AAT AAA AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT
8924645 TAATTTGAAA
Statistics
Matches: 255, Mismatches: 65, Indels: 44
0.70 0.18 0.12
Matches are distributed among these distances:
2 12 0.05
3 222 0.87
4 16 0.06
5 5 0.02
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:8924548 original size:22 final size:24
Alignment explanation
Indices: 8924497--8924633 Score: 79
Period size: 25 Copynumber: 5.8 Consensus size: 24
8924487 TAGCATGTAA
*
8924497 ATAATAATAATAATAATAGTATAT
1 ATAATAATAACAATAATAGTATAT
*
8924521 ATTAATAATGACAATAATAG-A-AT
1 A-TAATAATAACAATAATAGTATAT
*
8924544 ATAATAAAAAC-A-AATA-TACTAT
1 ATAATAATAACAATAATAGTA-TAT
* ** * *
8924566 GTCAATAAGGATAATAGTAGTA-AT
1 AT-AATAATAACAATAATAGTATAT
* * *
8924590 AGTAATAAAAACAATAATAATAAAT
1 A-TAATAATAACAATAATAGTATAT
*
8924615 ATAATAATAGAAAATAATA
1 ATAATAATA-ACAATAATA
8924634 ATAAAAATAA
Statistics
Matches: 85, Mismatches: 17, Indels: 21
0.69 0.14 0.17
Matches are distributed among these distances:
20 5 0.06
21 1 0.01
22 11 0.13
23 9 0.11
24 26 0.31
25 31 0.36
26 2 0.02
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (24 bp):
ATAATAATAACAATAATAGTATAT
Found at i:8924630 original size:25 final size:27
Alignment explanation
Indices: 8924602--8924672 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 27
8924592 TAATAAAAAC
*
8924602 AATAATAATAAATATAA-TAA-TAGAA
1 AATAATAATAAAAATAATTAATTAGAA
*
8924627 AATAATAATAAAAATAATTAATTTGAA
1 AATAATAATAAAAATAATTAATTAGAA
8924654 AATAA-AATAGTAAAATAAT
1 AATAATAATA--AAAATAAT
8924673 GAAAAAAGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
25 16 0.40
26 7 0.17
27 9 0.22
28 8 0.20
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (27 bp):
AATAATAATAAAAATAATTAATTAGAA
Found at i:8924633 original size:13 final size:13
Alignment explanation
Indices: 8924602--8924672 Score: 76
Period size: 13 Copynumber: 5.5 Consensus size: 13
8924592 TAATAAAAAC
8924602 AATAATAATA-AA
1 AATAATAATAGAA
*
8924614 TATAATAATAGAA
1 AATAATAATAGAA
8924627 AATAATAATA-AA
1 AATAATAATAGAA
*
8924639 AATAATTAATTTGAA
1 AATAA-TAA-TAGAA
8924654 AATAA-AATAGTAA
1 AATAATAATAG-AA
8924667 AATAAT
1 AATAAT
8924673 GAAAAAAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
12 18 0.37
13 23 0.47
14 1 0.02
15 7 0.14
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (13 bp):
AATAATAATAGAA
Found at i:8941782 original size:13 final size:13
Alignment explanation
Indices: 8941764--8941790 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8941754 GAAATAATCG
8941764 CACACGGGCGTGT
1 CACACGGGCGTGT
8941777 CACACGGGCGTGT
1 CACACGGGCGTGT
8941790 C
1 C
8941791 CCTGCCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:8947429 original size:16 final size:17
Alignment explanation
Indices: 8947404--8947436 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8947394 CCGAAAAGTT
8947404 TATTTATTTT-GAAAGA
1 TATTTATTTTAGAAAGA
*
8947420 TATTTTTTTTAGAAAGA
1 TATTTATTTTAGAAAGA
8947437 AATCATACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (17 bp):
TATTTATTTTAGAAAGA
Found at i:8947885 original size:14 final size:16
Alignment explanation
Indices: 8947859--8947897 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
8947849 AACTAAAAAT
8947859 ATAAAATATGACAA-A
1 ATAAAATATGACAATA
8947874 ATAAAA-ATGACAATA
1 ATAAAATATGACAATA
8947889 ATAATAATA
1 ATAA-AATA
8947898 ATAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 11 0.52
16 2 0.10
17 1 0.05
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (16 bp):
ATAAAATATGACAATA
Found at i:8947893 original size:3 final size:3
Alignment explanation
Indices: 8947885--8948175 Score: 120
Period size: 3 Copynumber: 97.0 Consensus size: 3
8947875 TAAAAATGAC
* * * * * * *
8947885 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AGT AGT AGT AGT AGT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * ** * *
8947933 AGT AA- AA- AAT AAT AAT GAT GGT AAT AAT AAT AGT AAT AAT AAT AAG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
8947979 ACCAT AAT AA- AAA AAT GA- AAT AAT AGCAT -GT AAAT AAT AAT AAT
1 A--AT AAT AAT AAT AAT AAT AAT AAT A--AT AAT -AAT AAT AAT AAT
* * *
8948023 AAC AAT AAT AAT -AT ATT AAT AAT AAT AAT AGT -AT ATAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT AAT
* * * * * ** *
8948068 GAC AAT AAT AGAA AAT AAT AAA AAT AA- ATAT ACT -AT GTTT AAT AGT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT A-AT AAT AAT -AAT AAT AAT
* *
8948114 AGT AAT AGT AAT AA- AAT AAT AAT AAT AAT GAAT -AT AAT AAT GAA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT
*
8948158 AAT AAT AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT
8948176 TAATTTGAAA
Statistics
Matches: 225, Mismatches: 40, Indels: 46
0.72 0.13 0.15
Matches are distributed among these distances:
2 19 0.08
3 187 0.83
4 14 0.06
5 5 0.02
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:8948042 original size:20 final size:20
Alignment explanation
Indices: 8948011--8948058 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
8948001 ATAGCATGTA
8948011 AATAATA-A-TAATAACAAT
1 AATAATATATTAATAACAAT
*
8948029 AATAATATATTAATAATAAT
1 AATAATATATTAATAACAAT
*
8948049 AATAGTATAT
1 AATAATATAT
8948059 ATAAATAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 1 0.04
20 18 0.69
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
AATAATATATTAATAACAAT
Found at i:8948475 original size:14 final size:14
Alignment explanation
Indices: 8948456--8948484 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8948446 TAAATAGCCC
8948456 CTTTATCGAAAACA
1 CTTTATCGAAAACA
8948470 CTTTATCGAAAACA
1 CTTTATCGAAAACA
8948484 C
1 C
8948485 GCGAATCCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (14 bp):
CTTTATCGAAAACA
Found at i:8949526 original size:20 final size:20
Alignment explanation
Indices: 8949479--8949543 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
8949469 TTTTATATTT
8949479 TTTTTAAAAATATAAGTTTTAGAA
1 TTTTTAAAAAT-T-A-TTTTA-AA
*
8949503 TTTTTATAAA-TATTTTAAA
1 TTTTTAAAAATTATTTTAAA
*
8949522 TTTTTAAAAATTATTTTGAA
1 TTTTTAAAAATTATTTTAAA
8949542 TT
1 TT
8949544 ATTTTGTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.30
20 15 0.41
21 1 0.03
22 1 0.03
24 9 0.24
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTAAA
Found at i:8959224 original size:3 final size:3
Alignment explanation
Indices: 8959216--8959389 Score: 95
Period size: 3 Copynumber: 57.7 Consensus size: 3
8959206 AATGAAAATG
* * * * * *
8959216 ATA ATA ATA ATA ATA GTA ATA ATA AGA ATA TTA ATA TTA GTA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
8959264 ATA ATG ATA ATA GTA ATA GAAA ATA ACA ATA A-A ATA GT- ATA GTA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
8959308 ATA GTA ATA A-A AGTA AAA ATA ATA GTA CTA ATA ATG GTA ATA ATAA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* *
8959354 ATA GTA ATA ATA ACA ATA ATA CA-A ATA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA AT-A ATA AT
8959390 CTAAAGTTTG
Statistics
Matches: 125, Mismatches: 37, Indels: 18
0.69 0.21 0.10
Matches are distributed among these distances:
2 6 0.05
3 108 0.86
4 11 0.09
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:8959578 original size:20 final size:20
Alignment explanation
Indices: 8959550--8959591 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
8959540 AAAGAAAAAA
* *
8959550 AATATAATAATAATAGTAAT
1 AATACAATAATAATAATAAT
*
8959570 AATACAATAGTAATAATAAT
1 AATACAATAATAATAATAAT
8959590 AA
1 AA
8959592 AAAGGGAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (20 bp):
AATACAATAATAATAATAAT
Found at i:8959580 original size:14 final size:13
Alignment explanation
Indices: 8959549--8959588 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
8959539 AAAAGAAAAA
8959549 AAATA-TAATAAT
1 AAATAGTAATAAT
8959561 -AATAGTAATAAT
1 AAATAGTAATAAT
8959573 ACAATAGTAATAAT
1 A-AATAGTAATAAT
8959587 AA
1 AA
8959589 TAAAAAGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.16
12 7 0.28
13 1 0.04
14 13 0.52
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (13 bp):
AAATAGTAATAAT
Found at i:8959700 original size:3 final size:3
Alignment explanation
Indices: 8959553--8959684 Score: 65
Period size: 3 Copynumber: 44.3 Consensus size: 3
8959543 GAAAAAAAAT
* * * * *
8959553 ATA ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ATA ATA AAA AGGGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA
* * * * *
8959599 ATA ATA AT- ATA TTA GATA GTA AAA ATA ATA ATA ATA ATA ACA GTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
8959644 ATA A-A A-A ATG ATA ATA GTG ATA TTA GTA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8959685 CAATGTATTA
Statistics
Matches: 95, Mismatches: 28, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
2 7 0.07
3 84 0.88
4 2 0.02
5 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:8963012 original size:58 final size:60
Alignment explanation
Indices: 8962902--8963030 Score: 174
Period size: 58 Copynumber: 2.1 Consensus size: 60
8962892 ATGCATTGAT
* * *
8962902 TTTTTAATATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAAA-AAAAGTTG
1 TTTTGAATATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAAATAGAAGTTC
*
8962961 TTTTGAATAT-TTTGTACAAATTATTTTTATATT-TTGTCCTATTTAATAAAAATAGAAGTTC
1 TTTTGAATATATTTGTACAAACTATTTTTATATTGTT-T-C-ATTTAATAAAAATAGAAGTTC
8963022 TTTTGAATA
1 TTTTGAATA
8963031 AGACAATACA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
57 2 0.03
58 23 0.37
59 10 0.16
60 12 0.19
61 15 0.24
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.50
Consensus pattern (60 bp):
TTTTGAATATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAAATAGAAGTTC
Found at i:8984943 original size:127 final size:127
Alignment explanation
Indices: 8984620--8985012 Score: 670
Period size: 126 Copynumber: 3.1 Consensus size: 127
8984610 TTTTAAATTG
* * * **
8984620 ACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTCATT-TTTGTTTTTCAAAATCAACTCATATTG
1 ACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTCCTACTTTTTCAAAATCAACTCATATTG
*
8984683 TTAGAGGTGAGTTGAGCCTCAGGATACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAATCA
65 CTAGAGGTGAGTTGAGCCTCAGGATACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAATCA
8984746 ACTCA-ATTGCGAGAGGTGGGTTGAACCTTTTAATTCCTACTTTTTCAAAATCAACTCATATTGC
1 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTCCTACTTTTTCAAAATCAACTCATATTGC
*
8984810 TAGAGGTGAGTTGAGCCTCAGGATACGATGAGGTAATTTAAATTTCTGTTTGTCAAGAATCA
66 TAGAGGTGAGTTGAGCCTCAGGATACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAATCA
8984872 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTCCTACTTTTTCAAAATCAACTCATATTGC
1 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTCCTACTTTTTCAAAATCAACTCATATTGC
8984937 TAGAGGTGAGTTGAGCCTCAGGATACGATGAGGTAATTTCAATTTCTGTTT-TCAA-AATTCA
66 TAGAGGTGAGTTGAGCCTCAGGATACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAA-TCA
8984998 ACTCATATTGCGAGA
1 ACTCATATTGCGAGA
8985013 AATGAGTTGA
Statistics
Matches: 255, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
125 27 0.11
126 119 0.47
127 109 0.43
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (127 bp):
ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTCCTACTTTTTCAAAATCAACTCATATTGC
TAGAGGTGAGTTGAGCCTCAGGATACGATGAGGTAATTTCAATTTCTGTTTGTCAAGAATCA
Found at i:8985043 original size:72 final size:72
Alignment explanation
Indices: 8984914--8985065 Score: 191
Period size: 72 Copynumber: 2.1 Consensus size: 72
8984904 AATTCCTACT
* ** * *
8984914 TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGATACGATGAGGTAATTTCAA
1 TTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATACGATAAGGTAATTTCAA
**
8984979 TTTCTG-
66 AATCTGC
* *
8984985 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATTC-ATTAAGGTATTTTC
1 TTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATACGA-TAAGGTAATTTC
8985049 AAAATCTGC
64 AAAATCTGC
8985058 TTTTCAAA
1 TTTTCAAA
8985066 TTAAGTTTCA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
71 10 0.14
72 51 0.74
73 8 0.12
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (72 bp):
TTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATACGATAAGGTAATTTCAA
AATCTGC
Found at i:8985754 original size:17 final size:17
Alignment explanation
Indices: 8985732--8985765 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8985722 ATTTTGGGCC
8985732 CTAAACCAAACAACCCA
1 CTAAACCAAACAACCCA
8985749 CTAAACCAAACAACCCA
1 CTAAACCAAACAACCCA
8985766 ATAACCCGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.41, G:0.00, T:0.06
Consensus pattern (17 bp):
CTAAACCAAACAACCCA
Found at i:8986339 original size:27 final size:30
Alignment explanation
Indices: 8986283--8986340 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 30
8986273 CTATTTTCCC
* *
8986283 ATATATATACTAAAATATATAAAAATAATA
1 ATATATATACTAAAATAAATAAAAAAAATA
8986313 ATATA-ATAC-AAAA-AAATAAAAAAAATA
1 ATATATATACTAAAATAAATAAAAAAAATA
8986340 A
1 A
8986341 AAAAATTGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 13 0.50
28 4 0.15
29 4 0.15
30 5 0.19
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (30 bp):
ATATATATACTAAAATAAATAAAAAAAATA
Found at i:8986343 original size:18 final size:21
Alignment explanation
Indices: 8986293--8986345 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
8986283 ATATATATAC
* *
8986293 TAAAATATATAAAAATAATAA
1 TAAAATACAAAAAAATAATAA
*
8986314 TATAATACAAAAAAATAA-AA
1 TAAAATACAAAAAAATAATAA
8986334 -AAAATA-AAAAAA
1 TAAAATACAAAAAA
8986346 TTGACCTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 6 0.21
19 5 0.18
20 2 0.07
21 15 0.54
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAAATACAAAAAAATAATAA
Found at i:8986346 original size:8 final size:9
Alignment explanation
Indices: 8986303--8986345 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
8986293 TAAAATATAT
8986303 AAAAATAATA
1 AAAAATAA-A
*
8986313 ATATAATACAA
1 A-AAAATA-AA
8986324 AAAAATAAA
1 AAAAATAAA
8986333 AAAAATAAA
1 AAAAATAAA
8986342 AAAA
1 AAAA
8986346 TTGACCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 15 0.52
10 6 0.21
11 7 0.24
12 1 0.03
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAAATAAA
Found at i:8986956 original size:3 final size:3
Alignment explanation
Indices: 8986948--8986980 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
8986938 TGTATTTTCA
8986948 TAT TAT TAT TAT TAT TAT TAT ATAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
8986981 ATGCATATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8986965 original size:12 final size:13
Alignment explanation
Indices: 8986948--8986982 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
8986938 TGTATTTTCA
8986948 TATTATTAT-TAT
1 TATTATTATATAT
8986960 TATTATTATATAT
1 TATTATTATATAT
8986973 T-TTATTATAT
1 TATTATTATAT
8986983 GCATATACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATTATTATATAT
Found at i:8989123 original size:7 final size:7
Alignment explanation
Indices: 8989111--8989136 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8989101 TTTTAATTTC
8989111 ATATTGA
1 ATATTGA
8989118 ATATTGA
1 ATATTGA
8989125 ATATTGA
1 ATATTGA
8989132 ATATT
1 ATATT
8989137 TAAAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (7 bp):
ATATTGA
Found at i:8989727 original size:27 final size:25
Alignment explanation
Indices: 8989678--8989727 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
8989668 TAAGACAACA
* *
8989678 TATTATAATATATTTTAACTTTAAT
1 TATTATAATATATTATAAATTTAAT
8989703 TATTATAATATATATAATAAATTTA
1 TATTATAATATAT-T-ATAAATTTA
8989728 CACATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 13 0.62
26 1 0.05
27 7 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTATAATATATTATAAATTTAAT
Found at i:8990592 original size:30 final size:31
Alignment explanation
Indices: 8990533--8990602 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 31
8990523 AACTAAAAAA
8990533 AGTTTAAGTACCAACTTAAGAAAAAAATGGTAT
1 AGTTTAAGTACCAACTTAAG--AAAAATGGTAT
*
8990566 AGTTTAAGTACCAATTTAAG-AAAATGGTAT
1 AGTTTAAGTACCAACTTAAGAAAAATGGTAT
*
8990596 AATTTAA
1 AGTTTAA
8990603 AAACTATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 16 0.46
33 19 0.54
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.31
Consensus pattern (31 bp):
AGTTTAAGTACCAACTTAAGAAAAATGGTAT
Found at i:8994541 original size:23 final size:23
Alignment explanation
Indices: 8994511--8994556 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
8994501 GGGTTTTTGG
*
8994511 AAAAAAATAGGGTTTAAGGTTTT
1 AAAAAAATAAGGTTTAAGGTTTT
*
8994534 AAAAAAATAAGGTTTAGGGTTTT
1 AAAAAAATAAGGTTTAAGGTTTT
8994557 TTTAATAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (23 bp):
AAAAAAATAAGGTTTAAGGTTTT
Found at i:8994559 original size:26 final size:26
Alignment explanation
Indices: 8994498--8994561 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 26
8994488 TGGTTTAGGG
** *
8994498 TTAGGGTTTTTGGAAAAAAATAGGGT
1 TTAGGGTTTTTTTAAAAAAATAAGGT
*
8994524 TTAAGG---TTTTAAAAAAATAAGGT
1 TTAGGGTTTTTTTAAAAAAATAAGGT
8994547 TTAGGGTTTTTTTAA
1 TTAGGGTTTTTTTAA
8994562 TAGGTAAGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
23 19 0.63
26 11 0.37
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (26 bp):
TTAGGGTTTTTTTAAAAAAATAAGGT
Found at i:8995065 original size:25 final size:25
Alignment explanation
Indices: 8995032--8995103 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
8995022 TTACAGCAAG
8995032 AAAAATTGAAGAAGTTCAGAAGAAT
1 AAAAATTGAAGAAGTTCAGAAGAAT
*
8995057 AAAAATTGAAGAAGTTTAGAAGAAT
1 AAAAATTGAAGAAGTTCAGAAGAAT
* *
8995082 AAAAATTGAAGAAATTGAGAAG
1 AAAAATTGAAGAAGTTCAGAAG
8995104 GTATAAGTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.57, C:0.01, G:0.21, T:0.21
Consensus pattern (25 bp):
AAAAATTGAAGAAGTTCAGAAGAAT
Found at i:8997875 original size:30 final size:30
Alignment explanation
Indices: 8997839--8997937 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
8997829 CTAGCCTTTG
8997839 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
8997869 CCACCACCTACTCCACTAGTCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
8997899 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
8997929 CCACCACCA
1 CCACCACCA
8997938 CTTATACCTA
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:0.25, C:0.49, G:0.06, T:0.19
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:8998443 original size:22 final size:24
Alignment explanation
Indices: 8998394--8998439 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
8998384 ATTTTTTTGT
8998394 TATTATTATATT-TTTTAATATTA
1 TATTATTATATTCTTTTAATATTA
8998417 TATTATATATATTCTTTTAATAT
1 TATTAT-TATATTCTTTTAATAT
8998440 ATTAGGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 9 0.43
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATTATATTCTTTTAATATTA
Found at i:8998497 original size:25 final size:26
Alignment explanation
Indices: 8998469--8998527 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
8998459 CTATATTACG
*
8998469 TATATATATT-ATACTATTTTATGTA
1 TATATATATTAATACTATATTATGTA
* *
8998494 TATATCT-TTAATACTATATTATTTA
1 TATATATATTAATACTATATTATGTA
8998519 TATATATAT
1 TATATATAT
8998528 ATTTTTCTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 2 0.07
25 25 0.89
26 1 0.04
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (26 bp):
TATATATATTAATACTATATTATGTA
Found at i:8998517 original size:30 final size:29
Alignment explanation
Indices: 8998478--8998595 Score: 90
Period size: 30 Copynumber: 4.3 Consensus size: 29
8998468 GTATATATAT
*
8998478 TATACTATTTTATGTATATATCTTTAATAC
1 TATATTATTTTATGTATATAT-TTTAATAC
* **
8998508 TATATTATTTATATATATATATTTTTCTAC
1 TATATTATTT-TATGTATATATTTTAATAC
* *
8998538 -ATGTTATCTTATGTATATA-TTTAAT--
1 TATATTATTTTATGTATATATTTTAATAC
* *
8998563 TATATTA-TGTATGTAT-T-TTTT-ACAC
1 TATATTATTTTATGTATATATTTTAATAC
8998588 TATATTAT
1 TATATTAT
8998596 GTACATATTT
Statistics
Matches: 69, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
23 1 0.01
24 4 0.06
25 14 0.20
26 5 0.07
27 4 0.06
28 9 0.13
29 7 0.10
30 15 0.22
31 10 0.14
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (29 bp):
TATATTATTTTATGTATATATTTTAATAC
Found at i:8998612 original size:21 final size:21
Alignment explanation
Indices: 8998541--8998613 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
8998531 TTTCTACATG
* **
8998541 TTATCTTATGTATATATTTAA
1 TTATATTATGTATATATTTTT
*
8998562 TTATATTATGTATGTATTTTT
1 TTATATTATGTATATATTTTT
*
8998583 TACACTATATTATGTACATATTTTT
1 T----TATATTATGTATATATTTTT
8998608 TTATAT
1 TTATAT
8998614 CTATTTCATA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 23 0.55
25 19 0.45
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
TTATATTATGTATATATTTTT
Found at i:9012160 original size:3 final size:3
Alignment explanation
Indices: 9012141--9012177 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
9012131 GTATATGCAT
*
9012141 ATA ATA AAA ATA TATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
9012178 TGAAAATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9012675 original size:16 final size:16
Alignment explanation
Indices: 9012650--9012692 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
9012640 AAAAAAAAAA
9012650 GAAGAGAAGAGGAGAGG
1 GAAGA-AAGAGGAGAGG
*
9012667 GAAGAAAGAAGAGAGG
1 GAAGAAAGAGGAGAGG
*
9012683 GGAG-AAGAGG
1 GAAGAAAGAGG
9012693 GAGCTCCGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 5 0.22
16 13 0.57
17 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (16 bp):
GAAGAAAGAGGAGAGG
Found at i:9012833 original size:27 final size:30
Alignment explanation
Indices: 9012797--9012854 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
9012787 GTCAATTTTT
* *
9012797 TTATT-TTTTT-TATTTTTTTGTAT-TATA
1 TTATTATTTTTATATATTTTAGTATATATA
9012824 TTATTATTTTTATATATTTTAGTATATATA
1 TTATTATTTTTATATATTTTAGTATATATA
9012854 T
1 T
9012855 ATGGGAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 5 0.19
28 5 0.19
29 11 0.42
30 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (30 bp):
TTATTATTTTTATATATTTTAGTATATATA
Found at i:9013402 original size:17 final size:17
Alignment explanation
Indices: 9013380--9013413 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9013370 GACGGGTTAT
9013380 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
9013397 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
9013414 GGCCCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.41, T:0.53
Consensus pattern (17 bp):
TGGGTTGTTTGGTTTAG
Found at i:9017066 original size:24 final size:23
Alignment explanation
Indices: 9017021--9017073 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
9017011 AATTTTGAAA
* *
9017021 TCTGAAAAGTAAAAATATTAAAAT
1 TCTGAAAAGTAAAAAGACT-AAAT
9017045 TCTGAAAA-TAAAAAGGACTAAAT
1 TCTGAAAAGTAAAAA-GACTAAAT
9017068 TCTGAA
1 TCTGAA
9017074 TCTACAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (23 bp):
TCTGAAAAGTAAAAAGACTAAAT
Found at i:9017512 original size:20 final size:20
Alignment explanation
Indices: 9017473--9017512 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9017463 ATGTATTAAT
**
9017473 GTTGAAAAAATATTTTAAAA
1 GTTGAAAAAATATTCAAAAA
*
9017493 GTTGTAAAAATATTCAAAAA
1 GTTGAAAAAATATTCAAAAA
9017513 TAAAAAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (20 bp):
GTTGAAAAAATATTCAAAAA
Found at i:9018448 original size:3 final size:3
Alignment explanation
Indices: 9018440--9018464 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9018430 TTTTACAGCC
9018440 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
9018465 TTGCTATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Done.