Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 77 of 144
Found at i:23288473 original size:42 final size:42
Alignment explanation
Indices: 23288414--23288504 Score: 182
Period size: 42 Copynumber: 2.2 Consensus size: 42
23288404 TATTTGCAAG
23288414 TATACTAAACACATGATATGATACATAATCATTTCAAAGACT
1 TATACTAAACACATGATATGATACATAATCATTTCAAAGACT
23288456 TATACTAAACACATGATATGATACATAATCATTTCAAAGACT
1 TATACTAAACACATGATATGATACATAATCATTTCAAAGACT
23288498 TATACTA
1 TATACTA
23288505 GCTTGCAGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (42 bp):
TATACTAAACACATGATATGATACATAATCATTTCAAAGACT
Found at i:23291381 original size:20 final size:20
Alignment explanation
Indices: 23291356--23291395 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
23291346 TTACTTCTTC
23291356 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
23291376 TTTACTTACTTGCTTACTTG
1 TTTACTTACTTGCTTACTTG
23291396 AATAACTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.15, C:0.23, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:23291721 original size:50 final size:50
Alignment explanation
Indices: 23291597--23291791 Score: 158
Period size: 50 Copynumber: 3.9 Consensus size: 50
23291587 AATAATAACA
* * * * ** * * * *
23291597 TGCCAAAGCCATGTCCCAGACATGATCTTACATAGGATGTTTCCTGT-GC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
* * * **
23291646 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
* ** * ** *
23291696 TGCCCATTTCATGTCCCAAACATGGTATTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
* * *
23291746 TGCCAATGCCATGTCCTAGACGTGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATA
23291792 ATCTCAATAT
Statistics
Matches: 112, Mismatches: 33, Indels: 1
0.77 0.23 0.01
Matches are distributed among these distances:
49 37 0.33
50 75 0.67
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:23291992 original size:30 final size:30
Alignment explanation
Indices: 23291951--23292011 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
23291941 TTAAATAAAT
*
23291951 TCATGAAATAAGTACATAATTTCTGGAAAA
1 TCATCAAATAAGTACATAATTTCTGGAAAA
23291981 TCATCAAATAAGTACATAATTTCTGGAAAA
1 TCATCAAATAAGTACATAATTTCTGGAAAA
23292011 T
1 T
23292012 TAACAACATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (30 bp):
TCATCAAATAAGTACATAATTTCTGGAAAA
Found at i:23292030 original size:30 final size:30
Alignment explanation
Indices: 23291956--23292031 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
23291946 TAAATTCATG
* *
23291956 AAATAAGTACATAATTTCTGGAAAATCATC
1 AAATAAATACATAATTTCTGGAAAATCAAC
* *
23291986 AAATAAGTACATAATTTCTGGAAAATTAAC
1 AAATAAATACATAATTTCTGGAAAATCAAC
23292016 AACATAAATA-ATAATT
1 AA-ATAAATACATAATT
23292032 ATTCAAATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
30 36 0.86
31 6 0.14
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (30 bp):
AAATAAATACATAATTTCTGGAAAATCAAC
Found at i:23294483 original size:13 final size:13
Alignment explanation
Indices: 23294426--23294483 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
23294416 GAGCACGCAT
*
23294426 AAAACATATCTTT
1 AAAACATATCTTG
* *
23294439 AAAACATAGCTTA
1 AAAACATATCTTG
* *
23294452 AAAACATAACATG
1 AAAACATATCTTG
**
23294465 GTAACATATCTTG
1 AAAACATATCTTG
23294478 AAAACA
1 AAAACA
23294484 AAGTATCAGA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.52, C:0.16, G:0.07, T:0.26
Consensus pattern (13 bp):
AAAACATATCTTG
Found at i:23295279 original size:27 final size:27
Alignment explanation
Indices: 23295249--23295300 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
23295239 GAACTCCTCC
*
23295249 AGTTCACTAAAATACTGGTGAACCCCT
1 AGTTCACTAAAACACTGGTGAACCCCT
***
23295276 AGTTTTTTAAAACACTGGTGAACCC
1 AGTTCACTAAAACACTGGTGAACCC
23295301 TCACTTATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (27 bp):
AGTTCACTAAAACACTGGTGAACCCCT
Found at i:23298660 original size:15 final size:15
Alignment explanation
Indices: 23298640--23298675 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
23298630 ACTGCATAAT
23298640 AATAATTAACATGAA
1 AATAATTAACATGAA
23298655 AATAATTAACATGAA
1 AATAATTAACATGAA
23298670 AATAAT
1 AATAAT
23298676 ATAATTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (15 bp):
AATAATTAACATGAA
Found at i:23301728 original size:11 final size:13
Alignment explanation
Indices: 23301704--23301735 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
23301694 TAGTTTATTA
23301704 ATATTTTAATATG
1 ATATTTTAATATG
23301717 AT-TTTTAA-ATG
1 ATATTTTAATATG
23301728 ATATTTTA
1 ATATTTTA
23301736 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:23302757 original size:18 final size:18
Alignment explanation
Indices: 23302734--23302769 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23302724 ATATCTCAAG
*
23302734 ATATAAATGATTTTGTGA
1 ATATAAATGATTTAGTGA
23302752 ATATAAATGATTTAGTGA
1 ATATAAATGATTTAGTGA
23302770 CTATGACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (18 bp):
ATATAAATGATTTAGTGA
Found at i:23310610 original size:21 final size:21
Alignment explanation
Indices: 23310580--23310620 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23310570 TCTTAAATTT
* *
23310580 TTTTAAATTTTTGGTTAAATA
1 TTTTAAATTTATGATTAAATA
*
23310601 TTTTATATTTATGATTAAAT
1 TTTTAAATTTATGATTAAAT
23310621 TGATAAAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (21 bp):
TTTTAAATTTATGATTAAATA
Found at i:23311310 original size:14 final size:14
Alignment explanation
Indices: 23311291--23311321 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
23311281 ATAAGGTGCC
23311291 AAATACATACTATA
1 AAATACATACTATA
23311305 AAATACATACTATA
1 AAATACATACTATA
23311319 AAA
1 AAA
23311322 GTAACTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATACATACTATA
Found at i:23314128 original size:15 final size:15
Alignment explanation
Indices: 23314108--23314137 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23314098 GATTAGTTAC
23314108 CTTTCAATTTGAATT
1 CTTTCAATTTGAATT
*
23314123 CTTTCATTTTGAATT
1 CTTTCAATTTGAATT
23314138 TTGAGACTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (15 bp):
CTTTCAATTTGAATT
Found at i:23314826 original size:21 final size:20
Alignment explanation
Indices: 23314775--23314826 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
23314765 TATACATAAG
*
23314775 AAATTTATTTTATATAAATA
1 AAATTTTTTTTATATAAATA
* *
23314795 TAATTTATTTTTATATATCATA
1 AAATTT-TTTTTATATA-AATA
23314817 AAATTTTTTT
1 AAATTTTTTT
23314827 GAAAAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 5 0.19
21 13 0.50
22 8 0.31
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
AAATTTTTTTTATATAAATA
Found at i:23315079 original size:46 final size:46
Alignment explanation
Indices: 23315016--23315199 Score: 359
Period size: 46 Copynumber: 4.0 Consensus size: 46
23315006 CATCTTTCCC
*
23315016 ACTAGGCATATCCATGAAAAGAAAACTTATATTTTCTATCTTTTAA
1 ACTAGGCATATCTATGAAAAGAAAACTTATATTTTCTATCTTTTAA
23315062 ACTAGGCATATCTATGAAAAGAAAACTTATATTTTCTATCTTTTAA
1 ACTAGGCATATCTATGAAAAGAAAACTTATATTTTCTATCTTTTAA
23315108 ACTAGGCATATCTATGAAAAGAAAACTTATATTTTCTATCTTTTAA
1 ACTAGGCATATCTATGAAAAGAAAACTTATATTTTCTATCTTTTAA
23315154 ACTAGGCATATCTATGAAAAGAAAACTTATATTTTCTATCTTTTAA
1 ACTAGGCATATCTATGAAAAGAAAACTTATATTTTCTATCTTTTAA
23315200 CTTTTCCCTT
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 137 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (46 bp):
ACTAGGCATATCTATGAAAAGAAAACTTATATTTTCTATCTTTTAA
Found at i:23315958 original size:12 final size:12
Alignment explanation
Indices: 23315941--23315968 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23315931 TACTCTTAAA
23315941 TCTCCTAATATC
1 TCTCCTAATATC
23315953 TCTCCTAATATC
1 TCTCCTAATATC
23315965 TCTC
1 TCTC
23315969 TAAAATACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (12 bp):
TCTCCTAATATC
Found at i:23318265 original size:24 final size:25
Alignment explanation
Indices: 23318231--23318284 Score: 101
Period size: 24 Copynumber: 2.2 Consensus size: 25
23318221 GGAACAAAAG
23318231 AGAAGAGTTCTTTTGAGATACCCAA
1 AGAAGAGTTCTTTTGAGATACCCAA
23318256 AGAAG-GTTCTTTTGAGATACCCAA
1 AGAAGAGTTCTTTTGAGATACCCAA
23318280 AGAAG
1 AGAAG
23318285 CACAATCAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (25 bp):
AGAAGAGTTCTTTTGAGATACCCAA
Found at i:23324157 original size:18 final size:18
Alignment explanation
Indices: 23324116--23324157 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
23324106 ATAAAAAAAC
23324116 GTTTTGAAATTGAATAAT
1 GTTTTGAAATTGAATAAT
*
23324134 GATTTGTAAA-TGAATAAT
1 GTTTTG-AAATTGAATAAT
*
23324152 TTTTTG
1 GTTTTG
23324158 GAAACGAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.48
Consensus pattern (18 bp):
GTTTTGAAATTGAATAAT
Found at i:23325190 original size:18 final size:18
Alignment explanation
Indices: 23325149--23325190 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
23325139 ATAAAAAAAC
23325149 GTTTTGAAATTGAATAAT
1 GTTTTGAAATTGAATAAT
*
23325167 GATTTGTAAA-TGAATAAT
1 GTTTTG-AAATTGAATAAT
*
23325185 TTTTTG
1 GTTTTG
23325191 GAAACGAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.48
Consensus pattern (18 bp):
GTTTTGAAATTGAATAAT
Found at i:23326507 original size:19 final size:18
Alignment explanation
Indices: 23326479--23326515 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
23326469 GTGACCCCTA
*
23326479 TTTCTCAAATTTTCATATT
1 TTTCTAAAATTTTC-TATT
23326498 TTTCTAAAATTTTCTATT
1 TTTCTAAAATTTTCTATT
23326516 CTGTCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.27, C:0.14, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTCTAAAATTTTCTATT
Found at i:23328821 original size:37 final size:38
Alignment explanation
Indices: 23328780--23328860 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 38
23328770 ATTTCATATG
*
23328780 TTATTATTA-ATTAGTTCCAAA-ACATATGTTTCATTCT
1 TTATTATTATATTAGTTCCAAACACATATGTGT-ATTCT
* *
23328817 TTATTA-TATATTATTTTCAAACACATATGTGTATTCT
1 TTATTATTATATTAGTTCCAAACACATATGTGTATTCT
*
23328854 ATATTAT
1 TTATTAT
23328861 GTGGTTTCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
36 2 0.05
37 26 0.70
38 9 0.24
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.51
Consensus pattern (38 bp):
TTATTATTATATTAGTTCCAAACACATATGTGTATTCT
Found at i:23329755 original size:14 final size:14
Alignment explanation
Indices: 23329700--23329748 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
23329690 CAACATTATA
23329700 AAAATATAAAAATTT
1 AAAATATAAAAA-TT
*
23329715 AAACTATACTAAAATTT
1 AAA--ATA-TAAAAATT
23329732 AAAATATAAAAATT
1 AAAATATAAAAATT
23329746 AAA
1 AAA
23329749 TTTTAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 10 0.34
15 6 0.21
17 8 0.28
18 5 0.17
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:23338066 original size:25 final size:25
Alignment explanation
Indices: 23338037--23338087 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
23338027 ACCTGCACAT
23338037 GGAAACAAACAAATCCGTGCACTAA
1 GGAAACAAACAAATCCGTGCACTAA
23338062 GGAAACAAACAAATCCGTGCACTAA
1 GGAAACAAACAAATCCGTGCACTAA
23338087 G
1 G
23338088 TAATAGTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.12
Consensus pattern (25 bp):
GGAAACAAACAAATCCGTGCACTAA
Found at i:23351719 original size:22 final size:19
Alignment explanation
Indices: 23351679--23351720 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
23351669 TGCAAAGTTG
23351679 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
23351698 ATAATAGATATAATAATATATT
1 ATAATA-AT-TAAT-ATATATT
23351720 A
1 A
23351721 ATGATTACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:23351839 original size:29 final size:30
Alignment explanation
Indices: 23351783--23351839 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
23351773 ATTTTGAAAA
* * *
23351783 TATTTACAAAAAGAGACATCTAATTTTTAG
1 TATTTACAAAAAGAGACAACCAAATTTTAG
*
23351813 TATTTACAAAAGGAG-CAACCAAATTTT
1 TATTTACAAAAAGAGACAACCAAATTTT
23351840 GAAAATAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 9 0.39
30 14 0.61
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (30 bp):
TATTTACAAAAAGAGACAACCAAATTTTAG
Found at i:23351993 original size:28 final size:28
Alignment explanation
Indices: 23351962--23352020 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
23351952 TCCATCTATT
23351962 AGGGGTAAAATAGTCATTTTACCCTTTA
1 AGGGGTAAAATAGTCATTTTACCCTTTA
*** * *
23351990 A-GGGTATTTTGGTTATTTTACCCTTTA
1 AGGGGTAAAATAGTCATTTTACCCTTTA
23352017 AGGG
1 AGGG
23352021 CATTTTGGTC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (28 bp):
AGGGGTAAAATAGTCATTTTACCCTTTA
Found at i:23352007 original size:27 final size:27
Alignment explanation
Indices: 23351974--23352037 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
23351964 GGGTAAAATA
*
23351974 GTCATTTTACCCTTTAAGGGTATTTTG
1 GTCATTTTACCCTTTAAGGGCATTTTG
*
23352001 GTTATTTTACCCTTTAAGGGCATTTTG
1 GTCATTTTACCCTTTAAGGGCATTTTG
23352028 GTCATTTTAC
1 GTCATTTTAC
23352038 TTATTTTAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (27 bp):
GTCATTTTACCCTTTAAGGGCATTTTG
Found at i:23354759 original size:52 final size:48
Alignment explanation
Indices: 23354740--23354942 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
23354730 TGACAAGTGG
* *
23354740 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
23354786 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
23354838 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
23354884 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
23354930 AAAGTGATAAGTG
1 AAAGTGATAAGTG
23354943 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:23354795 original size:98 final size:98
Alignment explanation
Indices: 23354674--23354942 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
23354664 TTTGAGTACT
* *
23354674 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
23354739 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
23354772 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
23354837 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
23354870 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
23354935 GATAAGTG
65 GAAAAGTG
23354943 GCTACACTTA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 148 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:23354950 original size:37 final size:37
Alignment explanation
Indices: 23354906--23355051 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
23354896 GATAGCTTTA
*
23354906 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
23354943 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
23354980 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
23355017 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
23355052 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:23356166 original size:38 final size:38
Alignment explanation
Indices: 23356123--23356199 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
23356113 AGAAGAAGTG
23356123 AGAAAAAGAAATGGAAGAGTTGCTCATAAAACTAACTA
1 AGAAAAAGAAATGGAAGAGTTGCTCATAAAACTAACTA
23356161 AGAAAAAGAAATGGAAGAGTTGCTCATAAAACTAACTA
1 AGAAAAAGAAATGGAAGAGTTGCTCATAAAACTAACTA
23356199 A
1 A
23356200 CAACTATAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.53, C:0.10, G:0.18, T:0.18
Consensus pattern (38 bp):
AGAAAAAGAAATGGAAGAGTTGCTCATAAAACTAACTA
Found at i:23359729 original size:145 final size:147
Alignment explanation
Indices: 23359440--23359729 Score: 363
Period size: 145 Copynumber: 2.0 Consensus size: 147
23359430 GCCAAAAATT
* * *
23359440 TTATGGTAAATTATAATATATACAATTAGCATTATATAATTAAGGTAGATTATTAATGATATGTA
1 TTATGGTAAATTATAATATATACAATTAACATGATATAATTAAAGTAGATTATTAATGATATGTA
* * * * * *
23359505 ATCCTATATATAACTATGTTATTAAAATGTACATTTTTATATTAATGATATGTGAGCTTAAACCC
66 ATCCCATATACAACTATGATATTAAAATGTACATTTTTATATTAAAGATATGTAACCTTAAACCC
* ** * *
23359570 TACCCTTGTAACTAATC
131 AAAACATATAACTAATC
* * *
23359587 TTATGGTAGA-TATAATATATACAGTTAACATGATATTATTAAAGTAGATTATTAATGATATGTA
1 TTATGGTAAATTATAATATATACAATTAACATGATATAATTAAAGTAGATTATTAATGATATGTA
* *
23359651 A-CCCATATACAATTATGATATTATAAA-GTGCATTTTTATATTAAAGATACT-TAACCTTAAAC
66 ATCCCATATACAACTATGATATTA-AAATGTACATTTTTATATTAAAGATA-TGTAACCTTAAAC
23359713 CCAAAACATATAACTAA
129 CCAAAACATATAACTAA
23359730 CTTTATAATA
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
145 59 0.48
146 54 0.44
147 9 0.07
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (147 bp):
TTATGGTAAATTATAATATATACAATTAACATGATATAATTAAAGTAGATTATTAATGATATGTA
ATCCCATATACAACTATGATATTAAAATGTACATTTTTATATTAAAGATATGTAACCTTAAACCC
AAAACATATAACTAATC
Found at i:23361137 original size:76 final size:78
Alignment explanation
Indices: 23360856--23361127 Score: 358
Period size: 77 Copynumber: 3.5 Consensus size: 78
23360846 GGAAATTAAA
* * *
23360856 AGTAAAAT-AAAATCGTTTTG-GCATTGATTCCCGCAGTTCAACGATTTTATTCCAAATTTGTTT
1 AGTAAAATAAAAATCGTTTCGAG-ATTGATTCCTGCCGTTCAACGATTTTATTCCAAATTTGTTT
*
23360919 TATTTCCAAAAATG
65 TATTTCCAAAAACG
* * * *
23360933 AGTAAAATAAAAATCGTTTTGGGATTGATTCCCGCTGTTCAACGATTTTATTCCAAATTTGTTTT
1 AGTAAAATAAAAATCGTTTCGAGATTGATTCCTGCCGTTCAACGATTTTATTCCAAATTTGTTTT
23360998 -TTTCCAAAAACG
66 ATTTCCAAAAACG
* * *
23361010 AGTAAAATAAAAATCATTTCGAGAGTGATTCTTGCCGTTCAACGATTTTATTCC-AATTT-TTTT
1 AGTAAAATAAAAATCGTTTCGAGATTGATTCCTGCCGTTCAACGATTTTATTCCAAATTTGTTTT
23361073 ATTTCCAAAAACG
66 ATTTCCAAAAACG
** *
23361086 AGTAACGT-AAAATCCGTTTCGAGATTGATTCCTACCGTTCAA
1 AGTAAAATAAAAAT-CGTTTCGAGATTGATTCCTGCCGTTCAA
23361128 TGGATTTATT
Statistics
Matches: 176, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
75 9 0.05
76 47 0.27
77 66 0.38
78 53 0.30
79 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (78 bp):
AGTAAAATAAAAATCGTTTCGAGATTGATTCCTGCCGTTCAACGATTTTATTCCAAATTTGTTTT
ATTTCCAAAAACG
Found at i:23361176 original size:153 final size:155
Alignment explanation
Indices: 23360891--23361175 Score: 339
Period size: 153 Copynumber: 1.8 Consensus size: 155
23360881 GATTCCCGCA
* * *
23360891 GTTCAACGATTTTATTCCAAATTTGTTTTATTTCCAAAAATGAGTAAAATAAAAATCGTTTTGGG
1 GTTCAACGATTTTATTCCAAATTTGTTTTATTTCCAAAAACGAGTAAAATAAAAATCGTTTCGAG
* * * ** * *
23360956 ATTGATTCCCGCTGTTCAACGATTTTATTCCAAATTTGTTTTTTTCCAAAAACGAGTAAAATAAA
66 ATTGATTCCCACCGTTCAACGATTTTATTACAAATTTGTTTTGCTCCAAAAACAAATAAAATAAA
23361021 AATCATTTCGAGAGTGATTCTTGCC
131 AATCATTTCGAGAGTGATTCTTGCC
**
23361046 GTTCAACGATTTTATTCC-AATTT-TTTTATTTCCAAAAACGAGTAACGT-AAAATCCGTTTCGA
1 GTTCAACGATTTTATTCCAAATTTGTTTTATTTCCAAAAACGAGTAAAATAAAAAT-CGTTTCGA
* * * *
23361108 GATTGATTCCTACCGTTCAATGGA-TTTATTAC-ATTTTGATTTTGCTGCAAAAA-AAATAAGAA
65 GATTGATTCCCACCGTTCAA-CGATTTTATTACAAATTTG-TTTTGCTCCAAAAACAAAT-A-AA
23361170 ATAAAA
126 ATAAAA
23361176 TTAAATAAAT
Statistics
Matches: 109, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
152 12 0.11
153 64 0.59
154 15 0.14
155 18 0.17
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (155 bp):
GTTCAACGATTTTATTCCAAATTTGTTTTATTTCCAAAAACGAGTAAAATAAAAATCGTTTCGAG
ATTGATTCCCACCGTTCAACGATTTTATTACAAATTTGTTTTGCTCCAAAAACAAATAAAATAAA
AATCATTTCGAGAGTGATTCTTGCC
Found at i:23366514 original size:16 final size:15
Alignment explanation
Indices: 23366484--23366513 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23366474 GTTAATCCCA
23366484 AAAATTATTTGTTTT
1 AAAATTATTTGTTTT
23366499 AAAATTATTTGTTTT
1 AAAATTATTTGTTTT
23366514 TGTTATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
AAAATTATTTGTTTT
Found at i:23368396 original size:22 final size:24
Alignment explanation
Indices: 23368371--23368423 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
23368361 ATTTTTTTAA
*
23368371 ATAAAATACA-CAT-AATTTTTTC
1 ATAAAATAAACCATAAATTTTTTC
23368393 AT-AAATAAACCATAGAATTTTTTC
1 ATAAAATAAACCATA-AATTTTTTC
23368417 A-AAAATA
1 ATAAAATA
23368424 TGTTCTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 6 0.23
22 5 0.19
24 15 0.58
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (24 bp):
ATAAAATAAACCATAAATTTTTTC
Found at i:23374194 original size:29 final size:30
Alignment explanation
Indices: 23374156--23374225 Score: 115
Period size: 29 Copynumber: 2.3 Consensus size: 30
23374146 CAGAATACCT
*
23374156 ATATATGCGTGGGTTTTGTTATATATAT-A
1 ATATATGCGTGGATTTTGTTATATATATAA
23374185 ATATATGCGTGGATTTTGTTATATATATAAA
1 ATATATGCGTGGATTTTGTTATATATAT-AA
23374216 ATATATGCGT
1 ATATATGCGT
23374226 TTATGGTTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 27 0.71
31 11 0.29
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (30 bp):
ATATATGCGTGGATTTTGTTATATATATAA
Found at i:23374210 original size:31 final size:29
Alignment explanation
Indices: 23374156--23374225 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 29
23374146 CAGAATACCT
* *
23374156 ATATATGCGTGGGTTTTGTTATATATATA
1 ATATATGCGTGGATTTTGTTATATATAAA
23374185 ATATATGCGTGGATTTTGTTATATATATAAA
1 ATATATGCGTGGATTTTG-T-TATATATAAA
23374216 ATATATGCGT
1 ATATATGCGT
23374226 TTATGGTTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 17 0.46
30 1 0.03
31 19 0.51
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (29 bp):
ATATATGCGTGGATTTTGTTATATATAAA
Found at i:23374244 original size:34 final size:32
Alignment explanation
Indices: 23374156--23374255 Score: 102
Period size: 29 Copynumber: 3.2 Consensus size: 32
23374146 CAGAATACCT
*
23374156 ATATATGCGTGG--GTTTTGTTATATATAT-A
1 ATATATGCGTGGATGGTTTGTTATATATATAA
23374185 ATATATGCGTGGAT--TTTGTTATATATATAAA
1 ATATATGCGTGGATGGTTTGTTATATATAT-AA
** *
23374216 ATATATGCGTTTATGGTTCTGTTATATATACACA
1 ATATATGCGTGGATGGTT-TGTTATATATATA-A
23374250 ATATAT
1 ATATAT
23374256 ATGTGTGTAG
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
29 26 0.43
31 13 0.22
33 3 0.05
34 18 0.30
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.46
Consensus pattern (32 bp):
ATATATGCGTGGATGGTTTGTTATATATATAA
Found at i:23374761 original size:17 final size:18
Alignment explanation
Indices: 23374726--23374763 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
23374716 TGCGAGCTAA
* *
23374726 TTATATTTGTGTACTATG
1 TTATATTTGTGAACAATG
23374744 TTATA-TTGTGAACAATG
1 TTATATTTGTGAACAATG
23374761 TTA
1 TTA
23374764 ACTTGGCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (18 bp):
TTATATTTGTGAACAATG
Found at i:23375485 original size:17 final size:17
Alignment explanation
Indices: 23375452--23375503 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
23375442 TATGATGTGG
* *
23375452 TATGAATGAATTATTA-
1 TATGAATGAACTGTTAT
23375468 TATTGAATGAACTGTTAT
1 TA-TGAATGAACTGTTAT
*
23375486 TATGCATGAACTGTTAT
1 TATGAATGAACTGTTAT
23375503 T
1 T
23375504 TCATATGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 2 0.06
17 27 0.87
18 2 0.06
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (17 bp):
TATGAATGAACTGTTAT
Found at i:23375511 original size:17 final size:16
Alignment explanation
Indices: 23375474--23375507 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
23375464 ATTATATTGA
23375474 ATGAACTGTTATTATGC
1 ATGAACTGTTATTAT-C
23375491 ATGAACTGTTATT-TC
1 ATGAACTGTTATTATC
23375506 AT
1 AT
23375508 ATGATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 1 0.06
17 13 0.76
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (16 bp):
ATGAACTGTTATTATC
Found at i:23380954 original size:44 final size:42
Alignment explanation
Indices: 23380887--23381007 Score: 147
Period size: 44 Copynumber: 2.9 Consensus size: 42
23380877 TTCTGATATG
* * *
23380887 TGATTTTGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATT
1 TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
23380928 TGAGATTTATGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
1 T--GATTT-TGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
* * *
23380973 TGATTTCGTGT-AGACCATGTCTGGGATAGTGGCAT
1 TGATTTTGTGTAAGACCATGTCTGGGACATTGGCAT
23381008 TGATATTTGA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
41 23 0.33
42 4 0.06
43 10 0.14
44 30 0.43
45 3 0.04
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (42 bp):
TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
Found at i:23394136 original size:257 final size:257
Alignment explanation
Indices: 23393680--23394198 Score: 1020
Period size: 257 Copynumber: 2.0 Consensus size: 257
23393670 AATGGATAGC
23393680 AAACTAAGAGGTATAATGTGCCCCATTATTCTTCAGTATTATCAGTGTTTAATATGGTGACTAGT
1 AAACTAAGAGGTATAATGTGCCCCATTATTCTTCAGTATTATCAGTGTTTAATATGGTGACTAGT
23393745 GATTTGTTTAGGTGATTTTTAATCTAATTAGTTCCCCTTCTCTTTCCTTATAAGTTTTAAACTAT
66 GATTTGTTTAGGTGATTTTTAATCTAATTAGTTCCCCTTCTCTTTCCTTATAAGTTTTAAACTAT
23393810 GTTGTCAGTGCATTGACCAGTCATCGTTTGTCATTAATCAAACTTCTTGTTAGATTAGTCAATTC
131 GTTGTCAGTGCATTGACCAGTCATCGTTTGTCATTAATCAAACTTCTTGTTAGATTAGTCAATTC
23393875 CATTTTGTTTTACACAAGTTTTCAAGGATAGGGCACAACTATGCTATCTCTATTGGCCTGAT
196 CATTTTGTTTTACACAAGTTTTCAAGGATAGGGCACAACTATGCTATCTCTATTGGCCTGAT
*
23393937 AAACTAAGAGGTATAATGTGCCCCATTATTCTTCAGTATTATCAGTGTTTAATATGGTGGCTAGT
1 AAACTAAGAGGTATAATGTGCCCCATTATTCTTCAGTATTATCAGTGTTTAATATGGTGACTAGT
*
23394002 GATTTGTTTAGGTGATTTTTAATCTAATTAGTTCCCCTTCTCTTTCCTTATAAGTTTTAAATTAT
66 GATTTGTTTAGGTGATTTTTAATCTAATTAGTTCCCCTTCTCTTTCCTTATAAGTTTTAAACTAT
23394067 GTTGTCAGTGCATTGACCAGTCATCGTTTGTCATTAATCAAACTTCTTGTTAGATTAGTCAATTC
131 GTTGTCAGTGCATTGACCAGTCATCGTTTGTCATTAATCAAACTTCTTGTTAGATTAGTCAATTC
23394132 CATTTTGTTTTACACAAGTTTTCAAGGATAGGGCACAACTATGCTATCTCTATTGGCCTGAT
196 CATTTTGTTTTACACAAGTTTTCAAGGATAGGGCACAACTATGCTATCTCTATTGGCCTGAT
23394194 AAACT
1 AAACT
23394199 TATGAGTAGA
Statistics
Matches: 260, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
257 260 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (257 bp):
AAACTAAGAGGTATAATGTGCCCCATTATTCTTCAGTATTATCAGTGTTTAATATGGTGACTAGT
GATTTGTTTAGGTGATTTTTAATCTAATTAGTTCCCCTTCTCTTTCCTTATAAGTTTTAAACTAT
GTTGTCAGTGCATTGACCAGTCATCGTTTGTCATTAATCAAACTTCTTGTTAGATTAGTCAATTC
CATTTTGTTTTACACAAGTTTTCAAGGATAGGGCACAACTATGCTATCTCTATTGGCCTGAT
Found at i:23403217 original size:3 final size:3
Alignment explanation
Indices: 23403209--23403246 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
23403199 TTTTTAAATT
23403209 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23403247 CCTATATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23403692 original size:39 final size:38
Alignment explanation
Indices: 23403607--23403692 Score: 88
Period size: 39 Copynumber: 2.2 Consensus size: 38
23403597 ACAATTCAAA
*
23403607 ATACACATTTTTTATATTATATATATTTTTGAATTATC
1 ATACACATTTTTTATATTATATATATTGTTGAATTATC
* *
23403645 ATAAACATTTTATTAT-TCTATATATACTCTGTT-ATTTAT-
1 ATACACATTTT-TTATAT-TATATATA-T-TGTTGAATTATC
23403684 ATACACATT
1 ATACACATT
23403693 GTACATATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
38 11 0.28
39 20 0.50
40 6 0.15
41 3 0.08
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.52
Consensus pattern (38 bp):
ATACACATTTTTTATATTATATATATTGTTGAATTATC
Found at i:23406546 original size:3 final size:3
Alignment explanation
Indices: 23406538--23406575 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
23406528 TTTTTAAATT
*
23406538 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23406576 CCTATATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23407214 original size:241 final size:242
Alignment explanation
Indices: 23406946--23407433 Score: 924
Period size: 241 Copynumber: 2.0 Consensus size: 242
23406936 CAAAATACAC
*
23406946 ATTTTTTATATTATATATATTTTTGAATTATCATAAACATTTTATTATTCTATATATACTCCGTT
1 ATTTTATATATTATATATATTTTTGAATTATCATAAACATTTTATTATTCTATATATACTCCGTT
23407011 ATTTATATACACATTGTACATATATATAAGTTTTTTAATACATATACGTGTTTTCATGATTTACC
66 ATTTATATACACATTGTACATATATATAAGTTTTTTAATACATATACGTGTTTTCATGATTTACC
23407076 AATACATATGTACTTATATA-TTTTTTATTTTTGTAAATATATACACATACAAATTTTTATATGT
131 AATACATATGTACTTATATATTTTTTTATTTTTGTAAATATATACACATACAAATTTTTATATGT
* *
23407140 TTATTTTATTTTATGATTTTCATGTACATATATACATGCATTTTTTT
196 TTATTTTATTTTACGATTTTCATGTACATAAATACATGCATTTTTTT
*
23407187 ATTTTATATATTATATATATTTTTGAATTATCATAAACATTTTATTATTCTATATATACTCTGTT
1 ATTTTATATATTATATATATTTTTGAATTATCATAAACATTTTATTATTCTATATATACTCCGTT
23407252 ATTTATATACACATTGTACATATATATAAGTTTTTTAATACATATACGTGTTTTCATGATTTACC
66 ATTTATATACACATTGTACATATATATAAGTTTTTTAATACATATACGTGTTTTCATGATTTACC
*
23407317 AATACATATGTACTTATATATTTTTTTATTTTTGTAAATATATACACATACCAATTTTTATATGT
131 AATACATATGTACTTATATATTTTTTTATTTTTGTAAATATATACACATACAAATTTTTATATGT
23407382 TTATTTTATTTTACGATTTTCATGTACATAAATACATGCATTTTTTT
196 TTATTTTATTTTACGATTTTCATGTACATAAATACATGCATTTTTTT
23407429 ATTTT
1 ATTTT
23407434 GTTTTTTTGA
Statistics
Matches: 241, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
241 148 0.61
242 93 0.39
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (242 bp):
ATTTTATATATTATATATATTTTTGAATTATCATAAACATTTTATTATTCTATATATACTCCGTT
ATTTATATACACATTGTACATATATATAAGTTTTTTAATACATATACGTGTTTTCATGATTTACC
AATACATATGTACTTATATATTTTTTTATTTTTGTAAATATATACACATACAAATTTTTATATGT
TTATTTTATTTTACGATTTTCATGTACATAAATACATGCATTTTTTT
Found at i:23415972 original size:23 final size:23
Alignment explanation
Indices: 23415946--23415990 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
23415936 TAAAAATAGA
*
23415946 TAAAAA-ATGAAATAAATGACAAC
1 TAAAAATATAAAAT-AATGACAAC
23415969 TAAAAATATAAAATAATGACAA
1 TAAAAATATAAAATAATGACAA
23415991 AGAAAAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (23 bp):
TAAAAATATAAAATAATGACAAC
Found at i:23415996 original size:23 final size:23
Alignment explanation
Indices: 23415947--23415996 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
23415937 AAAAATAGAT
* **
23415947 AAAAAATGAAATAAATGACAACT
1 AAAAAATAAAATAAATGACAAAG
23415970 AAAAATATAAAAT-AATGACAAAG
1 AAAAA-ATAAAATAAATGACAAAG
23415993 AAAA
1 AAAA
23415997 GTTAAGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.70, C:0.06, G:0.08, T:0.16
Consensus pattern (23 bp):
AAAAAATAAAATAAATGACAAAG
Found at i:23416981 original size:139 final size:139
Alignment explanation
Indices: 23416731--23417009 Score: 549
Period size: 139 Copynumber: 2.0 Consensus size: 139
23416721 TTTAGATTTT
*
23416731 TGGAATGTGATTGTTTGCAAAAAGTTTGATTTGGTATTGTGATTGTGTGCCTTTGGAGTATGCTT
1 TGGAATGTGACTGTTTGCAAAAAGTTTGATTTGGTATTGTGATTGTGTGCCTTTGGAGTATGCTT
23416796 TAGGACCCAAGTTCAATTCCTAAGTTTTGGATTTTCTCCTATTAATTTTTGGTCTTAAGTTGGAG
66 TAGGACCCAAGTTCAATTCCTAAGTTTTGGATTTTCTCCTATTAATTTTTGGTCTTAAGTTGGAG
23416861 TTTTATGGC
131 TTTTATGGC
23416870 TGGAATGTGACTGTTTGCAAAAAGTTTGATTTGGTATTGTGATTGTGTGCCTTTGGAGTATGCTT
1 TGGAATGTGACTGTTTGCAAAAAGTTTGATTTGGTATTGTGATTGTGTGCCTTTGGAGTATGCTT
23416935 TAGGACCCAAGTTCAATTCCTAAGTTTTGGATTTTCTCCTATTAATTTTTGGTCTTAAGTTGGAG
66 TAGGACCCAAGTTCAATTCCTAAGTTTTGGATTTTCTCCTATTAATTTTTGGTCTTAAGTTGGAG
23417000 TTTTATGGC
131 TTTTATGGC
23417009 T
1 T
23417010 TAAATTAATT
Statistics
Matches: 139, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 139 1.00
ACGTcount: A:0.21, C:0.11, G:0.24, T:0.44
Consensus pattern (139 bp):
TGGAATGTGACTGTTTGCAAAAAGTTTGATTTGGTATTGTGATTGTGTGCCTTTGGAGTATGCTT
TAGGACCCAAGTTCAATTCCTAAGTTTTGGATTTTCTCCTATTAATTTTTGGTCTTAAGTTGGAG
TTTTATGGC
Found at i:23422678 original size:23 final size:24
Alignment explanation
Indices: 23422652--23422704 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
23422642 TGCTCCTCAC
*
23422652 TTAACTAGGTT-TCTTTTCCTAGT
1 TTAACTAGGTTATCTTTTCCCAGT
**
23422675 TTAACTCTGTTATCTTTTCCCAGT
1 TTAACTAGGTTATCTTTTCCCAGT
*
23422699 CTAACT
1 TTAACT
23422705 TTGATTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.19, C:0.23, G:0.09, T:0.49
Consensus pattern (24 bp):
TTAACTAGGTTATCTTTTCCCAGT
Found at i:23427055 original size:47 final size:47
Alignment explanation
Indices: 23426999--23427092 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
23426989 GCAAATTGAT
*
23426999 TTTAAATTAGGTTCGATTGCTTCCAATTACCTATTTTATTTAATAGA
1 TTTAAATTAGGTTAGATTGCTTCCAATTACCTATTTTATTTAATAGA
*
23427046 TTTAAATTAGGTTAGATTGCTTCCAATTACCTGTTTTATTTAATAGA
1 TTTAAATTAGGTTAGATTGCTTCCAATTACCTATTTTATTTAATAGA
23427093 GTTAGATTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (47 bp):
TTTAAATTAGGTTAGATTGCTTCCAATTACCTATTTTATTTAATAGA
Found at i:23427098 original size:37 final size:37
Alignment explanation
Indices: 23427056--23427133 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
23427046 TTTAAATTAG
23427056 GTTAGATTGCTTCCAATTACCTGTTTTATTTAATAGA
1 GTTAGATTGCTTCCAATTACCTGTTTTATTTAATAGA
23427093 GTTAGATTGCTTCCAATTACCTGTTTTATTTAATAGA
1 GTTAGATTGCTTCCAATTACCTGTTTTATTTAATAGA
23427130 GTTA
1 GTTA
23427134 AGTTCAGCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (37 bp):
GTTAGATTGCTTCCAATTACCTGTTTTATTTAATAGA
Found at i:23428807 original size:16 final size:18
Alignment explanation
Indices: 23428788--23428827 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
23428778 ATATTTTTAG
23428788 TTATATAT-ATTT-AAAA
1 TTATATATAATTTCAAAA
*
23428804 TTAT-TGTAATTTCAAAA
1 TTATATATAATTTCAAAA
23428821 TTATATA
1 TTATATA
23428828 ACATTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
15 2 0.11
16 8 0.42
17 8 0.42
18 1 0.05
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
TTATATATAATTTCAAAA
Found at i:23431419 original size:19 final size:19
Alignment explanation
Indices: 23431395--23431431 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23431385 GTTTTTGGGG
*
23431395 TTTGGGGGGAAGTAAAAGT
1 TTTGGGGGAAAGTAAAAGT
23431414 TTTGGGGGAAAGTAAAAG
1 TTTGGGGGAAAGTAAAAG
23431432 GAAAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.41, T:0.24
Consensus pattern (19 bp):
TTTGGGGGAAAGTAAAAGT
Found at i:23431420 original size:18 final size:19
Alignment explanation
Indices: 23431394--23431431 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
23431384 AGTTTTTGGG
23431394 GTTTGGGGGG-AAGTAAAA
1 GTTTGGGGGGAAAGTAAAA
*
23431412 GTTTTGGGGGAAAGTAAAA
1 GTTTGGGGGGAAAGTAAAA
23431431 G
1 G
23431432 GAAAAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.42, T:0.24
Consensus pattern (19 bp):
GTTTGGGGGGAAAGTAAAA
Found at i:23436720 original size:24 final size:24
Alignment explanation
Indices: 23436699--23436750 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
23436689 AATCAATGTC
*
23436699 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
*
23436723 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATGCT
23436747 AAAT
1 AAAT
23436751 TTTCAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:23438147 original size:24 final size:24
Alignment explanation
Indices: 23438111--23438165 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
23438101 TAAGACATGA
* *
23438111 CCGTGTGATAGCTCGTGTCCTAGG
1 CCGTGTGACAGCTCGTGTCCCAGG
23438135 CCGTGTGACAGCTCGTGTCCCAGG
1 CCGTGTGACAGCTCGTGTCCCAGG
*
23438159 CTGTGTG
1 CCGTGTG
23438166 CACCTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.11, C:0.27, G:0.35, T:0.27
Consensus pattern (24 bp):
CCGTGTGACAGCTCGTGTCCCAGG
Found at i:23440942 original size:31 final size:30
Alignment explanation
Indices: 23440906--23440983 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 30
23440896 CACATGACCT
23440906 TGTGGCCCACACTGCCCAAATGGCGAGACTG
1 TGTGGCCCACA-TGCCCAAATGGCGAGACTG
*
23440937 TGTGGCCCACATTGCCCAAATGGCGAGATTG
1 TGTGGCCCACA-TGCCCAAATGGCGAGACTG
*
23440968 TATGGCCCACATGCCC
1 TGTGGCCCACATGCCC
23440984 TACCTAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 5 0.11
31 39 0.89
ACGTcount: A:0.22, C:0.32, G:0.27, T:0.19
Consensus pattern (30 bp):
TGTGGCCCACATGCCCAAATGGCGAGACTG
Found at i:23443553 original size:34 final size:33
Alignment explanation
Indices: 23443510--23443622 Score: 122
Period size: 34 Copynumber: 3.3 Consensus size: 33
23443500 AATGCTATAT
*
23443510 GACATGCTTATAATAGATCAATACAGTAGCAAA
1 GACATGCTTATAATAAATCAATACAGTAGCAAA
* * *
23443543 GGACATGCTTATAACATATGAATACTA-TAGCAATA
1 -GACATGCTTATAATAAATCAATAC-AGTAGCAA-A
*
23443578 GACATGCTTAT-ATCAAATCAATACGGTAGCAAAA
1 GACATGCTTATAAT-AAATCAATACAGTAGC-AAA
23443612 GACATGCTTAT
1 GACATGCTTAT
23443623 CATGTATTCT
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
33 1 0.01
34 62 0.93
35 4 0.06
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (33 bp):
GACATGCTTATAATAAATCAATACAGTAGCAAA
Found at i:23444636 original size:34 final size:33
Alignment explanation
Indices: 23444593--23444705 Score: 122
Period size: 34 Copynumber: 3.3 Consensus size: 33
23444583 AATGCTATAT
*
23444593 GACATGCTTATAATAGATCAATACAGTAGCAAA
1 GACATGCTTATAATAAATCAATACAGTAGCAAA
* * *
23444626 GGACATGCTTATAACATATGAATACTA-TAGCAATA
1 -GACATGCTTATAATAAATCAATAC-AGTAGCAA-A
*
23444661 GACATGCTTAT-ATCAAATCAATACGGTAGCAAAA
1 GACATGCTTATAAT-AAATCAATACAGTAGC-AAA
23444695 GACATGCTTAT
1 GACATGCTTAT
23444706 CATGTATTCG
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
33 1 0.01
34 62 0.93
35 4 0.06
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (33 bp):
GACATGCTTATAATAAATCAATACAGTAGCAAA
Found at i:23445585 original size:15 final size:16
Alignment explanation
Indices: 23445555--23445592 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
23445545 TGATGTAAAA
*
23445555 AAAAAGGAAAGCAAAT
1 AAAAAGAAAAGCAAAT
23445571 AAAAAGAAAAG-AAAT
1 AAAAAGAAAAGCAAAT
*
23445586 AGAAAGA
1 AAAAAGA
23445593 TGGAGAGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.05
Consensus pattern (16 bp):
AAAAAGAAAAGCAAAT
Found at i:23451692 original size:18 final size:18
Alignment explanation
Indices: 23451669--23451727 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
23451659 ATAATAGAAG
23451669 GAAATAACAA-ACTAAAGA
1 GAAATAACAATAC-AAAGA
*
23451687 GAAATATCAATACAAAGA
1 GAAATAACAATACAAAGA
* *
23451705 GGTAAT-ACAATAGAAAGA
1 -GAAATAACAATACAAAGA
*
23451723 TAAAT
1 GAAAT
23451728 GAGTGAACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 3 0.09
18 24 0.73
19 6 0.18
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.17
Consensus pattern (18 bp):
GAAATAACAATACAAAGA
Found at i:23454213 original size:9 final size:9
Alignment explanation
Indices: 23454199--23454227 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
23454189 GATTTTATGG
23454199 TTTAGGGTT
1 TTTAGGGTT
23454208 TTTAGGGTT
1 TTTAGGGTT
23454217 TTTAGGGTT
1 TTTAGGGTT
23454226 TT
1 TT
23454228 GGAGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.31, T:0.59
Consensus pattern (9 bp):
TTTAGGGTT
Found at i:23454725 original size:124 final size:125
Alignment explanation
Indices: 23454282--23454782 Score: 765
Period size: 125 Copynumber: 4.0 Consensus size: 125
23454272 TTTACTATAA
* * * * *
23454282 TAGGTCCT-GAAAAAATAATTTTGAGTTTACGTTTCTGAGCAAATAGTATAAAATTGCTTCTAGC
1 TAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* * *
23454346 AGGATGCTGTTTGATAAAAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
23454406 TAGGTCCTGGAAGAAATAACTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGT
1 TAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* * * * * *
23454471 AGGATACTATTTGAGAATAATTTGTGAAATCGTGCCTTCGTGGACACGTTTTTGCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
23454531 TAAGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* * *
23454596 AGGATGCTATTTAAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
23454656 TAGGTCCTGGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGG
1 TAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA-G
**
23454720 C-GGATGCTATTTGAGAAGAATTTGTGAAATCGTACCCTCGTGGACGCGCTTTTGCTACAG
65 CAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
23454780 TAG
1 TAG
23454783 CATGTTTGGG
Statistics
Matches: 340, Mismatches: 35, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
124 114 0.34
125 226 0.66
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (125 bp):
TAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:23457986 original size:114 final size:114
Alignment explanation
Indices: 23457785--23458055 Score: 524
Period size: 114 Copynumber: 2.4 Consensus size: 114
23457775 AAATTATATT
*
23457785 TGTAAAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTAT
1 TGTAAAATTATTAACTGAT-AATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTAT
23457850 TAATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
65 TAATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
23457900 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
1 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
23457965 AATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
66 AATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
23458014 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAA
1 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAA
23458056 ACCTTAAGGT
Statistics
Matches: 155, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
114 137 0.88
115 18 0.12
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (114 bp):
TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
AATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
Found at i:23458102 original size:21 final size:21
Alignment explanation
Indices: 23458063--23459956 Score: 1830
Period size: 21 Copynumber: 88.2 Consensus size: 21
23458053 AAAACCTTAA
23458063 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
23458085 GGTTTTTAAGTTAAGGTTTTAG
1 GGTTTTTAAGTTAAGG-TTTAG
* *
23458107 GGTTATTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
23458128 GGTTATTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23458149 GG-TTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23458169 GGTTTTTAATTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23458190 GGTTTTTAATTTAATGGTTAGGGTTAG
1 GGTTTTTAAGTTAA-GG-T----TTAG
* *
23458217 GATTTTTAAGTTAAAGGTTTAT
1 GGTTTTTAAGTT-AAGGTTTAG
23458239 GGTTTTTAAGTTAAGAGTTTAG
1 GGTTTTTAAGTTAAG-GTTTAG
* * *
23458261 GGTTATTAATTTAAGG-TGAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
23458281 GGTTTTTAATTTACGGGTTTAG
1 GGTTTTTAAGTTA-AGGTTTAG
23458303 GGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* * *
23458324 GGTGTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
23458345 GG-TTTT-AGTTAAGGGTTAA
1 GGTTTTTAAGTTAAGGTTTAG
* *
23458364 GGTTTTTAATTTAAGGCTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23458385 GGTTTTTAATTTAATGGTTAGGGTTAG
1 GGTTTTTAAGTTAA-GG-T----TTAG
*
23458412 GGTTTTTAAGTTAAAAGTTTAG
1 GGTTTTTAAGTT-AAGGTTTAG
*
23458434 GGTATAATTGT-A-TTAAGGGTTTAT
1 GGT-T--TT-TAAGTTAA-GGTTTAG
* * *
23458458 GGTTTTTAATTTAAGGGTTAT
1 GGTTTTTAAGTTAAGGTTTAG
* *
23458479 AGTTTTTAA-TTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23458499 TGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
*
23458521 GATTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
23458542 GGTTATTAAGTTAAGAG-TTAC
1 GGTTTTTAAGTTAAG-GTTTAG
*
23458563 AGTTTTTAAGTTAA-GTGTTAG
1 GGTTTTTAAGTTAAGGT-TTAG
*
23458584 GG-TTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
23458604 GGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* * *
23458625 GGTTTTTAATTTAAGGGTTAC
1 GGTTTTTAAGTTAAGGTTTAG
** *
23458646 AATTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23458667 GGTTTTTAAGGTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
23458688 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23458709 GGTTTTTAA-TTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
23458729 GGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
23458750 GATTTTTAAGTTAAGGGTTTAA
1 GGTTTTTAAGTTAA-GGTTTAG
*
23458772 GGTTTTTAAGTTAAGATTTA-
1 GGTTTTTAAGTTAAGGTTTAG
*
23458792 AGTTTATTAAGTTAAGGTTTAG
1 GGTTT-TTAAGTTAAGGTTTAG
*
23458814 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
**
23458835 CATTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
**
23458857 GGTTTTTATTTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23458878 GGTTTTTAATTTAATGGTTAGGGTTAG
1 GGTTTTTAAGTTAA-GG-T----TTAG
* *
23458905 GGTTTTTAAGTTGAAGTTTTAT
1 GGTTTTTAAGTT-AAGGTTTAG
*
23458927 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* * *
23458948 GGTTATTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
23458969 GGTTATTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
23458990 GGTTTTTGAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23459011 GGTTTTTAAGTTAAGGGTTTTG
1 GGTTTTTAAGTTAA-GGTTTAG
*
23459033 AGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* * *
23459054 GGTTATTAGGTTAAGGTTTAA
1 GGTTTTTAAGTTAAGGTTTAG
*
23459075 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23459096 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* * * *
23459117 GGTTTCTAATTTAGGGTTTAT
1 GGTTTTTAAGTTAAGGTTTAG
* *
23459138 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
23459159 GGTTTTTAA-TTAGGGTTTAA
1 GGTTTTTAAGTTAAGGTTTAG
* ** *
23459179 TGTTTTTAAGTTTGGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23459200 GGTTTGTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
23459221 GGTTATTAAGGTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
23459242 GG-TATTAAGTTAAGGTTTAA
1 GGTTTTTAAGTTAAGGTTTAG
*
23459262 GGTTTTTAATTTAAGAGTTT-G
1 GGTTTTTAAGTTAAG-GTTTAG
* * *
23459283 GGATTTTAA-TTATGGATTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23459303 GGTTTTTAAGTTAAGGGTTTAT
1 GGTTTTTAAGTTAA-GGTTTAG
*
23459325 AGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23459346 GGTTATTAAGTTAAGGTTTA-
1 GGTTTTTAAGTTAAGGTTTAG
* *
23459366 AGTTTTTAAGTTAAGGGTTA-
1 GGTTTTTAAGTTAAGGTTTAG
23459386 GGTGTTTTAAGTTAAGGGTTTAG
1 GGT-TTTTAAGTTAA-GGTTTAG
* * *
23459409 GATTTTTAATTTAAAGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23459430 GGTTTTTAATTTAATGGTTAGGGTTAG
1 GGTTTTTAAGTTAA-GG-T----TTAG
*
23459457 GGTTTTTAAGTTAAAGGTTTAT
1 GGTTTTTAAGTT-AAGGTTTAG
*
23459479 GGTTTTTAAGTTAAGGGTTTAT
1 GGTTTTTAAGTTAA-GGTTTAG
*
23459501 GGTTATTAAGTTTAAGG-TTAG
1 GGTTTTTAAG-TTAAGGTTTAG
* *
23459522 GGTTTTTGAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23459543 GATTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
* * *
23459565 GGTTATTAAGTTAAGGTCTAT
1 GGTTTTTAAGTTAAGGTTTAG
* *
23459586 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23459607 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* * *
23459628 GATTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23459649 GGTTTTTAA-TTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23459669 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23459690 GGTTTTTAAGTTAAGGGTTTAA
1 GGTTTTTAAGTTAA-GGTTTAG
*
23459712 GGTTTTTAAGTTAAGGCTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
23459733 GGTTATTAAGTTAAGATTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
23459754 GGTTTTGAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
** *
23459775 TATTTTTAAGTTACGAGTTTAG
1 GGTTTTTAAGTTAAG-GTTTAG
*
23459797 GGTTTTTAATTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
**
23459818 GGTTTTTATTTTAATGGTTAGGGTTAG
1 GGTTTTTAAGTTAA-GG-T----TTAG
* * *
23459845 GGTTTTTAACTTGAAAGTTTAT
1 GGTTTTTAAGTT-AAGGTTTAG
23459867 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
* *
23459889 GGTTATTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
23459910 GGTTTTTAAGTTAAGGGTTTTG
1 GGTTTTTAAGTTAA-GGTTTAG
* * *
23459932 GGTTTTTAATTTAAGGGTTAT
1 GGTTTTTAAGTTAAGGTTTAG
23459953 GGTT
1 GGTT
23459957 AGGGTTTTTT
Statistics
Matches: 1580, Mismatches: 212, Indels: 161
0.81 0.11 0.08
Matches are distributed among these distances:
19 17 0.01
20 193 0.12
21 882 0.56
22 365 0.23
23 14 0.01
24 10 0.01
25 3 0.00
26 6 0.00
27 80 0.05
28 10 0.01
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (21 bp):
GGTTTTTAAGTTAAGGTTTAG
Found at i:23458434 original size:28 final size:27
Alignment explanation
Indices: 23458381--23458436 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
23458371 AATTTAAGGC
* *
23458381 TTAGGGTTTTTAATTTAATGGTTAGGG
1 TTAGGGTTTTTAATTAAAAGGTTAGGG
*
23458408 TTAGGGTTTTTAAGTTAAAAGTTTAGGG
1 TTAGGGTTTTTAA-TTAAAAGGTTAGGG
23458436 T
1 T
23458437 ATAATTGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (27 bp):
TTAGGGTTTTTAATTAAAAGGTTAGGG
Found at i:23459829 original size:27 final size:26
Alignment explanation
Indices: 23459800--23459852 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
23459790 AGTTTAGGGT
*
23459800 TTTTAAT-TTAAGGTTTAGGGTTTTTA
1 TTTTAATGTT-AGGGTTAGGGTTTTTA
23459826 TTTTAATGGTTAGGGTTAGGGTTTTTA
1 TTTTAAT-GTTAGGGTTAGGGTTTTTA
23459853 ACTTGAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 15 0.62
28 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.55
Consensus pattern (26 bp):
TTTTAATGTTAGGGTTAGGGTTTTTA
Found at i:23460250 original size:21 final size:21
Alignment explanation
Indices: 23460226--23460272 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
23460216 CTTTGTCCAG
23460226 CTTCTGGCGGCGG-TTCTGGTT
1 CTTCTGGCGG-GGATTCTGGTT
*
23460247 CTTCCGGCGGGGATTCTGGTT
1 CTTCTGGCGGGGATTCTGGTT
23460268 CTTCT
1 CTTCT
23460273 AGTAGGGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.02, C:0.26, G:0.34, T:0.38
Consensus pattern (21 bp):
CTTCTGGCGGGGATTCTGGTT
Found at i:23460493 original size:255 final size:256
Alignment explanation
Indices: 23460038--23460552 Score: 870
Period size: 255 Copynumber: 2.0 Consensus size: 256
23460028 ATTTTTAATA
* * *
23460038 AGTTAAGGGTTTATGGTTTTTAATTAATAACTCAAAAAAAATTCTATTTTATTACATAAAAAAAT
1 AGTTAAGGCTTTAGGGTTTTTAAGTAATAACTCAAAAAAAATTCTATTTTATTACATAAAAAAAT
23460103 ATCAAAATATTCAAAATATTTGTAGAAATAAATTTAAATACAAAAATCAATGTCTGTGCCCGCGG
66 ATCAAAATATTCAAAATATTTGTAGAAATAAATTTAAATACAAAAATCAATGTCTGTGCCCGCGG
*
23460168 GATTCAGTGCCACATGGCGGCCATTGACGGTTACGCGCTGGATTCCTCCTTTGTCCAGCTTCTGG
131 GATTCAGTGCCACATGGCGGCCATCGACGGTTACGCGCTGGATTCCTCCTTTGTCCAGCTTCTGG
*
23460233 CGGCGGTTCTGGTTCTTCCGGCGGGGATTCTGGTTCTTCTAGTAGGGCATCTGGTTGTCGG
196 CGGCGGTTCTGGTTCTTCCGGCGGGGATTCTAGTTCTTCTAGTAGGGCATCTGGTTGTCGG
* *
23460294 AGTTAAGGCTTTAGGGTTTTTAAGTAATAACTTAAAAAAATTTCTATTTTATTACAT-AAAAAAT
1 AGTTAAGGCTTTAGGGTTTTTAAGTAATAACTCAAAAAAAATTCTATTTTATTACATAAAAAAAT
* * *
23460358 ATCAAAATATTCAAAATATTTGTAGAAATAAATTTAAATACAAAAATCAATGTTTGTGCTCGTGG
66 ATCAAAATATTCAAAATATTTGTAGAAATAAATTTAAATACAAAAATCAATGTCTGTGCCCGCGG
* * *
23460423 GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGCGTTGGATTCCTCCTTTGTCCAGCTTCTTG
131 GATTCAGTGCCACATGGCGGCCATCGACGGTTACGCGCTGGATTCCTCCTTTGTCCAGCTTCTGG
* * * *
23460488 CGGCGGTTGTGGTTCTTTCGGCGGGGATTCTAGTTCTTCTAGTAGGGCATTTGGTTGTTGG
196 CGGCGGTTCTGGTTCTTCCGGCGGGGATTCTAGTTCTTCTAGTAGGGCATCTGGTTGTCGG
23460549 AGTT
1 AGTT
23460553 GGGACGATGA
Statistics
Matches: 242, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
255 190 0.79
256 52 0.21
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (256 bp):
AGTTAAGGCTTTAGGGTTTTTAAGTAATAACTCAAAAAAAATTCTATTTTATTACATAAAAAAAT
ATCAAAATATTCAAAATATTTGTAGAAATAAATTTAAATACAAAAATCAATGTCTGTGCCCGCGG
GATTCAGTGCCACATGGCGGCCATCGACGGTTACGCGCTGGATTCCTCCTTTGTCCAGCTTCTGG
CGGCGGTTCTGGTTCTTCCGGCGGGGATTCTAGTTCTTCTAGTAGGGCATCTGGTTGTCGG
Found at i:23461691 original size:20 final size:20
Alignment explanation
Indices: 23461666--23461703 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23461656 TTTATTTTTA
23461666 AAAATCTAA-ATAATAATTGT
1 AAAATCTAATATAA-AATTGT
23461686 AAAATCTAATATAAAATT
1 AAAATCTAATATAAAATT
23461704 TACCTCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTAATATAAAATTGT
Found at i:23462695 original size:11 final size:11
Alignment explanation
Indices: 23462681--23462757 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
23462671 TTAAATATGG
23462681 ATTTGAGAGAA
1 ATTTGAGAGAA
*
23462692 ATTTG-GAAGGA
1 ATTTGAG-AGAA
23462703 ATTTGAGAGGAA
1 ATTTGAGA-GAA
*
23462715 A-TTGGGAGGAA
1 ATTTGAGA-GAA
23462726 A-TTGAGAGGAA
1 ATTTGAGA-GAA
*
23462737 A-TTGCGAAGAA
1 ATTTGAG-AGAA
23462748 ATTTGAGAGA
1 ATTTGAGAGA
23462758 GGATTAGCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
10 1 0.02
11 45 0.82
12 9 0.16
ACGTcount: A:0.42, C:0.01, G:0.34, T:0.23
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:23462706 original size:22 final size:22
Alignment explanation
Indices: 23462681--23462756 Score: 100
Period size: 22 Copynumber: 3.4 Consensus size: 22
23462671 TTAAATATGG
23462681 ATTTGAGA-GAAATTTGGAAGGA
1 ATTTGAGAGGAAA-TTGGAAGGA
*
23462703 ATTTGAGAGGAAATTGGGAGGA
1 ATTTGAGAGGAAATTGGAAGGA
* *
23462725 AATTGAGAGGAAATTGCGAAGAA
1 ATTTGAGAGGAAATTG-GAAGGA
23462748 ATTTGAGAG
1 ATTTGAGAG
23462757 AGGATTAGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
22 31 0.66
23 16 0.34
ACGTcount: A:0.41, C:0.01, G:0.34, T:0.24
Consensus pattern (22 bp):
ATTTGAGAGGAAATTGGAAGGA
Found at i:23464136 original size:47 final size:47
Alignment explanation
Indices: 23464067--23464165 Score: 198
Period size: 47 Copynumber: 2.1 Consensus size: 47
23464057 AAATGTTTTT
23464067 TTTAAGTTAATAAAGTTAATAAAACTTTAATTTATTCAAATTAGATA
1 TTTAAGTTAATAAAGTTAATAAAACTTTAATTTATTCAAATTAGATA
23464114 TTTAAGTTAATAAAGTTAATAAAACTTTAATTTATTCAAATTAGATA
1 TTTAAGTTAATAAAGTTAATAAAACTTTAATTTATTCAAATTAGATA
23464161 TTTAA
1 TTTAA
23464166 ATTTTATTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (47 bp):
TTTAAGTTAATAAAGTTAATAAAACTTTAATTTATTCAAATTAGATA
Found at i:23472572 original size:18 final size:18
Alignment explanation
Indices: 23472544--23472590 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
23472534 ATATTCAAGT
23472544 AATTATTAGAAGTTTCAAA
1 AATT-TTAGAAGTTTCAAA
23472563 AATTTTAGAAGTTTCAAA
1 AATTTTAGAAGTTTCAAA
*
23472581 AATTTCAGAA
1 AATTTTAGAA
23472591 TTTTTCAGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (18 bp):
AATTTTAGAAGTTTCAAA
Found at i:23473219 original size:25 final size:25
Alignment explanation
Indices: 23473191--23473240 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
23473181 AATTTAAGTA
23473191 AGGCAAATTAAAGTAAAAACAGTTT
1 AGGCAAATTAAAGTAAAAACAGTTT
*
23473216 AGGCAAATTAAAGTAAAAATAGTTT
1 AGGCAAATTAAAGTAAAAACAGTTT
23473241 TATGGCATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.52, C:0.06, G:0.16, T:0.26
Consensus pattern (25 bp):
AGGCAAATTAAAGTAAAAACAGTTT
Found at i:23483480 original size:13 final size:13
Alignment explanation
Indices: 23483462--23483486 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23483452 GAGGTTTGAT
23483462 TTATTTTGAACTC
1 TTATTTTGAACTC
23483475 TTATTTTGAACT
1 TTATTTTGAACT
23483487 ATTGTTAGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (13 bp):
TTATTTTGAACTC
Found at i:23488323 original size:27 final size:28
Alignment explanation
Indices: 23488277--23488329 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
23488267 ATTTTAAGAT
23488277 CTTTATTTATTTATTTTTTTAAACTTTC
1 CTTTATTTATTTATTTTTTTAAACTTTC
23488305 CTTTA-TTA-TTATTTGTTTTAAACTT
1 CTTTATTTATTTATTT-TTTTAAACTT
23488330 CTTATTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 6 0.25
27 13 0.54
28 5 0.21
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (28 bp):
CTTTATTTATTTATTTTTTTAAACTTTC
Found at i:23488582 original size:17 final size:17
Alignment explanation
Indices: 23488562--23488595 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23488552 CTTGTAAATC
*
23488562 ATTTATTTTAAATTGTT
1 ATTTACTTTAAATTGTT
*
23488579 ATTTGCTTTAAATTGTT
1 ATTTACTTTAAATTGTT
23488596 TTGCATATAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (17 bp):
ATTTACTTTAAATTGTT
Found at i:23488872 original size:27 final size:28
Alignment explanation
Indices: 23488826--23488878 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
23488816 ATTTTAAGAT
23488826 CTTTATTTATTTATTTTTTTAAACTTTC
1 CTTTATTTATTTATTTTTTTAAACTTTC
23488854 CTTTA-TTA-TTATTTGTTTTAAACTT
1 CTTTATTTATTTATTT-TTTTAAACTT
23488879 CTTATTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 6 0.25
27 13 0.54
28 5 0.21
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (28 bp):
CTTTATTTATTTATTTTTTTAAACTTTC
Found at i:23489131 original size:17 final size:17
Alignment explanation
Indices: 23489111--23489144 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23489101 CTTGTAAATC
*
23489111 ATTTATTTTAAATTGTT
1 ATTTACTTTAAATTGTT
*
23489128 ATTTGCTTTAAATTGTT
1 ATTTACTTTAAATTGTT
23489145 TTGCATATAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (17 bp):
ATTTACTTTAAATTGTT
Found at i:23489133 original size:549 final size:549
Alignment explanation
Indices: 23488095--23489194 Score: 2200
Period size: 549 Copynumber: 2.0 Consensus size: 549
23488085 ATCAGGTCCT
23488095 TTGACCATACATGGTCTTTTGCGCTGAAACATTGCACTCTCGGACTGGGGTATATAGCCCGATTA
1 TTGACCATACATGGTCTTTTGCGCTGAAACATTGCACTCTCGGACTGGGGTATATAGCCCGATTA
23488160 GTCCTTCATTCTTCGCATGCGCACCATTTTAATCCCTTGTGACCTATTTATGGTTTTTGCAATTA
66 GTCCTTCATTCTTCGCATGCGCACCATTTTAATCCCTTGTGACCTATTTATGGTTTTTGCAATTA
23488225 AAACCCCAGATTCTAGTTTGATTTCAGTATCACCCCAGGTCCATTTTAAGATCTTTATTTATTTA
131 AAACCCCAGATTCTAGTTTGATTTCAGTATCACCCCAGGTCCATTTTAAGATCTTTATTTATTTA
23488290 TTTTTTTAAACTTTCCTTTATTATTATTTGTTTTAAACTTCTTATTTATCATTTATTATAAACTA
196 TTTTTTTAAACTTTCCTTTATTATTATTTGTTTTAAACTTCTTATTTATCATTTATTATAAACTA
23488355 TTTTTGCATGTTATTTATTTAATTCTTTTAATATATTATCCATTTTAAATCACTAGATGTGTATA
261 TTTTTGCATGTTATTTATTTAATTCTTTTAATATATTATCCATTTTAAATCACTAGATGTGTATA
23488420 TTCTTTTAAATTCCCACGTATGTATATTCCAAAGAAATTCGTCGTAGGCATTTTGTTTATTTGTT
326 TTCTTTTAAATTCCCACGTATGTATATTCCAAAGAAATTCGTCGTAGGCATTTTGTTTATTTGTT
23488485 TTAAACTATTAATATTCACTTTAAATTTTTATATACCATATATTTTTGAAGCCTGTTATTATTTA
391 TTAAACTATTAATATTCACTTTAAATTTTTATATACCATATATTTTTGAAGCCTGTTATTATTTA
23488550 TTCTTGTAAATCATTTATTTTAAATTGTTATTTGCTTTAAATTGTTTTGCATATACATATTTTTA
456 TTCTTGTAAATCATTTATTTTAAATTGTTATTTGCTTTAAATTGTTTTGCATATACATATTTTTA
23488615 AAATATTTCCTTTTCTTTAACATTATTTG
521 AAATATTTCCTTTTCTTTAACATTATTTG
23488644 TTGACCATACATGGTCTTTTGCGCTGAAACATTGCACTCTCGGACTGGGGTATATAGCCCGATTA
1 TTGACCATACATGGTCTTTTGCGCTGAAACATTGCACTCTCGGACTGGGGTATATAGCCCGATTA
23488709 GTCCTTCATTCTTCGCATGCGCACCATTTTAATCCCTTGTGACCTATTTATGGTTTTTGCAATTA
66 GTCCTTCATTCTTCGCATGCGCACCATTTTAATCCCTTGTGACCTATTTATGGTTTTTGCAATTA
23488774 AAACCCCAGATTCTAGTTTGATTTCAGTATCACCCCAGGTCCATTTTAAGATCTTTATTTATTTA
131 AAACCCCAGATTCTAGTTTGATTTCAGTATCACCCCAGGTCCATTTTAAGATCTTTATTTATTTA
23488839 TTTTTTTAAACTTTCCTTTATTATTATTTGTTTTAAACTTCTTATTTATCATTTATTATAAACTA
196 TTTTTTTAAACTTTCCTTTATTATTATTTGTTTTAAACTTCTTATTTATCATTTATTATAAACTA
23488904 TTTTTGCATGTTATTTATTTAATTCTTTTAATATATTATCCATTTTAAATCACTAGATGTGTATA
261 TTTTTGCATGTTATTTATTTAATTCTTTTAATATATTATCCATTTTAAATCACTAGATGTGTATA
23488969 TTCTTTTAAATTCCCACGTATGTATATTCCAAAGAAATTCGTCGTAGGCATTTTGTTTATTTGTT
326 TTCTTTTAAATTCCCACGTATGTATATTCCAAAGAAATTCGTCGTAGGCATTTTGTTTATTTGTT
23489034 TTAAACTATTAATATTCACTTTAAATTTTTATATACCATATATTTTTGAAGCCTGTTATTATTTA
391 TTAAACTATTAATATTCACTTTAAATTTTTATATACCATATATTTTTGAAGCCTGTTATTATTTA
23489099 TTCTTGTAAATCATTTATTTTAAATTGTTATTTGCTTTAAATTGTTTTGCATATACATATTTTTA
456 TTCTTGTAAATCATTTATTTTAAATTGTTATTTGCTTTAAATTGTTTTGCATATACATATTTTTA
23489164 AAATATTTCCTTTTCTTTAACATTATTTG
521 AAATATTTCCTTTTCTTTAACATTATTTG
23489193 TT
1 TT
23489195 CAAAATTTAT
Statistics
Matches: 551, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
549 551 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (549 bp):
TTGACCATACATGGTCTTTTGCGCTGAAACATTGCACTCTCGGACTGGGGTATATAGCCCGATTA
GTCCTTCATTCTTCGCATGCGCACCATTTTAATCCCTTGTGACCTATTTATGGTTTTTGCAATTA
AAACCCCAGATTCTAGTTTGATTTCAGTATCACCCCAGGTCCATTTTAAGATCTTTATTTATTTA
TTTTTTTAAACTTTCCTTTATTATTATTTGTTTTAAACTTCTTATTTATCATTTATTATAAACTA
TTTTTGCATGTTATTTATTTAATTCTTTTAATATATTATCCATTTTAAATCACTAGATGTGTATA
TTCTTTTAAATTCCCACGTATGTATATTCCAAAGAAATTCGTCGTAGGCATTTTGTTTATTTGTT
TTAAACTATTAATATTCACTTTAAATTTTTATATACCATATATTTTTGAAGCCTGTTATTATTTA
TTCTTGTAAATCATTTATTTTAAATTGTTATTTGCTTTAAATTGTTTTGCATATACATATTTTTA
AAATATTTCCTTTTCTTTAACATTATTTG
Found at i:23489674 original size:27 final size:28
Alignment explanation
Indices: 23489628--23489680 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
23489618 ATCGGAAGAT
23489628 CTTTATTTATTTATTTTTTTAAACTTTC
1 CTTTATTTATTTATTTTTTTAAACTTTC
23489656 CTTTA-TTA-TTATTTGTTTTAAACTT
1 CTTTATTTATTTATTT-TTTTAAACTT
23489681 CTTATTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 6 0.25
27 13 0.54
28 5 0.21
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (28 bp):
CTTTATTTATTTATTTTTTTAAACTTTC
Found at i:23489933 original size:17 final size:17
Alignment explanation
Indices: 23489913--23489946 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23489903 CTTGTAAATC
*
23489913 ATTTATTTTAAATTGTT
1 ATTTACTTTAAATTGTT
*
23489930 ATTTGCTTTAAATTGTT
1 ATTTACTTTAAATTGTT
23489947 TTGCATATAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (17 bp):
ATTTACTTTAAATTGTT
Found at i:23490174 original size:802 final size:802
Alignment explanation
Indices: 23488821--23490424 Score: 3208
Period size: 802 Copynumber: 2.0 Consensus size: 802
23488811 GGTCCATTTT
23488821 AAGATCTTTATTTATTTATTTTTTTAAACTTTCCTTTATTATTATTTGTTTTAAACTTCTTATTT
1 AAGATCTTTATTTATTTATTTTTTTAAACTTTCCTTTATTATTATTTGTTTTAAACTTCTTATTT
23488886 ATCATTTATTATAAACTATTTTTGCATGTTATTTATTTAATTCTTTTAATATATTATCCATTTTA
66 ATCATTTATTATAAACTATTTTTGCATGTTATTTATTTAATTCTTTTAATATATTATCCATTTTA
23488951 AATCACTAGATGTGTATATTCTTTTAAATTCCCACGTATGTATATTCCAAAGAAATTCGTCGTAG
131 AATCACTAGATGTGTATATTCTTTTAAATTCCCACGTATGTATATTCCAAAGAAATTCGTCGTAG
23489016 GCATTTTGTTTATTTGTTTTAAACTATTAATATTCACTTTAAATTTTTATATACCATATATTTTT
196 GCATTTTGTTTATTTGTTTTAAACTATTAATATTCACTTTAAATTTTTATATACCATATATTTTT
23489081 GAAGCCTGTTATTATTTATTCTTGTAAATCATTTATTTTAAATTGTTATTTGCTTTAAATTGTTT
261 GAAGCCTGTTATTATTTATTCTTGTAAATCATTTATTTTAAATTGTTATTTGCTTTAAATTGTTT
23489146 TGCATATACATATTTTTAAAATATTTCCTTTTCTTTAACATTATTTGTTCAAAATTTATTTATTA
326 TGCATATACATATTTTTAAAATATTTCCTTTTCTTTAACATTATTTGTTCAAAATTTATTTATTA
23489211 TCTTTTAAAACTATCCTGCATTTTATTTGTTCTAATTTGCTTTGTATTATTCATCTTGAAATTGT
391 TCTTTTAAAACTATCCTGCATTTTATTTGTTCTAATTTGCTTTGTATTATTCATCTTGAAATTGT
23489276 TATATATGTTATTTAATTTATTCGTCTTTGACTATTAATGCTAGTCTTTAAATAATGTATGTTGC
456 TATATATGTTATTTAATTTATTCGTCTTTGACTATTAATGCTAGTCTTTAAATAATGTATGTTGC
23489341 ATGCTTATTACCATTATGTGTACTATGAATTGTTTATTCGTATTTTAATATTATTGTCATTTATC
521 ATGCTTATTACCATTATGTGTACTATGAATTGTTTATTCGTATTTTAATATTATTGTCATTTATC
23489406 AACGTAACCATTTATTCATACATCAATTTAACATCACATCAATTTTTACCCAAATTAGTAAAAAA
586 AACGTAACCATTTATTCATACATCAATTTAACATCACATCAATTTTTACCCAAATTAGTAAAAAA
23489471 ATGATATTTTTGGAAATAAAGGCAATACTCGATACTTGGGATCTTCGAGGGAATTGGGCCCAAAC
651 ATGATATTTTTGGAAATAAAGGCAATACTCGATACTTGGGATCTTCGAGGGAATTGGGCCCAAAC
23489536 GTGTTGGGTTCTAATTTTTTTCGTTGAATCTAAATAATCGAGAATCCTCTTTAATAAAAAAAACA
716 GTGTTGGGTTCTAATTTTTTTCGTTGAATCTAAATAATCGAGAATCCTCTTTAATAAAAAAAACA
23489601 TAAATAAAAATCTCATTATCGG
781 TAAATAAAAATCTCATTATCGG
23489623 AAGATCTTTATTTATTTATTTTTTTAAACTTTCCTTTATTATTATTTGTTTTAAACTTCTTATTT
1 AAGATCTTTATTTATTTATTTTTTTAAACTTTCCTTTATTATTATTTGTTTTAAACTTCTTATTT
23489688 ATCATTTATTATAAACTATTTTTGCATGTTATTTATTTAATTCTTTTAATATATTATCCATTTTA
66 ATCATTTATTATAAACTATTTTTGCATGTTATTTATTTAATTCTTTTAATATATTATCCATTTTA
23489753 AATCACTAGATGTGTATATTCTTTTAAATTCCCACGTATGTATATTCCAAAGAAATTCGTCGTAG
131 AATCACTAGATGTGTATATTCTTTTAAATTCCCACGTATGTATATTCCAAAGAAATTCGTCGTAG
23489818 GCATTTTGTTTATTTGTTTTAAACTATTAATATTCACTTTAAATTTTTATATACCATATATTTTT
196 GCATTTTGTTTATTTGTTTTAAACTATTAATATTCACTTTAAATTTTTATATACCATATATTTTT
23489883 GAAGCCTGTTATTATTTATTCTTGTAAATCATTTATTTTAAATTGTTATTTGCTTTAAATTGTTT
261 GAAGCCTGTTATTATTTATTCTTGTAAATCATTTATTTTAAATTGTTATTTGCTTTAAATTGTTT
23489948 TGCATATACATATTTTTAAAATATTTCCTTTTCTTTAACATTATTTGTTCAAAATTTATTTATTA
326 TGCATATACATATTTTTAAAATATTTCCTTTTCTTTAACATTATTTGTTCAAAATTTATTTATTA
23490013 TCTTTTAAAACTATCCTGCATTTTATTTGTTCTAATTTGCTTTGTATTATTCATCTTGAAATTGT
391 TCTTTTAAAACTATCCTGCATTTTATTTGTTCTAATTTGCTTTGTATTATTCATCTTGAAATTGT
23490078 TATATATGTTATTTAATTTATTCGTCTTTGACTATTAATGCTAGTCTTTAAATAATGTATGTTGC
456 TATATATGTTATTTAATTTATTCGTCTTTGACTATTAATGCTAGTCTTTAAATAATGTATGTTGC
23490143 ATGCTTATTACCATTATGTGTACTATGAATTGTTTATTCGTATTTTAATATTATTGTCATTTATC
521 ATGCTTATTACCATTATGTGTACTATGAATTGTTTATTCGTATTTTAATATTATTGTCATTTATC
23490208 AACGTAACCATTTATTCATACATCAATTTAACATCACATCAATTTTTACCCAAATTAGTAAAAAA
586 AACGTAACCATTTATTCATACATCAATTTAACATCACATCAATTTTTACCCAAATTAGTAAAAAA
23490273 ATGATATTTTTGGAAATAAAGGCAATACTCGATACTTGGGATCTTCGAGGGAATTGGGCCCAAAC
651 ATGATATTTTTGGAAATAAAGGCAATACTCGATACTTGGGATCTTCGAGGGAATTGGGCCCAAAC
23490338 GTGTTGGGTTCTAATTTTTTTCGTTGAATCTAAATAATCGAGAATCCTCTTTAATAAAAAAAACA
716 GTGTTGGGTTCTAATTTTTTTCGTTGAATCTAAATAATCGAGAATCCTCTTTAATAAAAAAAACA
23490403 TAAATAAAAATCTCATTATCGG
781 TAAATAAAAATCTCATTATCGG
23490425 GAATCCAATA
Statistics
Matches: 802, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
802 802 1.00
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (802 bp):
AAGATCTTTATTTATTTATTTTTTTAAACTTTCCTTTATTATTATTTGTTTTAAACTTCTTATTT
ATCATTTATTATAAACTATTTTTGCATGTTATTTATTTAATTCTTTTAATATATTATCCATTTTA
AATCACTAGATGTGTATATTCTTTTAAATTCCCACGTATGTATATTCCAAAGAAATTCGTCGTAG
GCATTTTGTTTATTTGTTTTAAACTATTAATATTCACTTTAAATTTTTATATACCATATATTTTT
GAAGCCTGTTATTATTTATTCTTGTAAATCATTTATTTTAAATTGTTATTTGCTTTAAATTGTTT
TGCATATACATATTTTTAAAATATTTCCTTTTCTTTAACATTATTTGTTCAAAATTTATTTATTA
TCTTTTAAAACTATCCTGCATTTTATTTGTTCTAATTTGCTTTGTATTATTCATCTTGAAATTGT
TATATATGTTATTTAATTTATTCGTCTTTGACTATTAATGCTAGTCTTTAAATAATGTATGTTGC
ATGCTTATTACCATTATGTGTACTATGAATTGTTTATTCGTATTTTAATATTATTGTCATTTATC
AACGTAACCATTTATTCATACATCAATTTAACATCACATCAATTTTTACCCAAATTAGTAAAAAA
ATGATATTTTTGGAAATAAAGGCAATACTCGATACTTGGGATCTTCGAGGGAATTGGGCCCAAAC
GTGTTGGGTTCTAATTTTTTTCGTTGAATCTAAATAATCGAGAATCCTCTTTAATAAAAAAAACA
TAAATAAAAATCTCATTATCGG
Found at i:23492265 original size:60 final size:62
Alignment explanation
Indices: 23492155--23492274 Score: 181
Period size: 60 Copynumber: 2.0 Consensus size: 62
23492145 CACGTATCTT
* * *
23492155 TTCATTCATTAACATTACATTTCATTATATACAATAAATTTCCTAAAATCCAAAAATACGCA
1 TTCATGCATCAACATTACATTTCATTATACACAATAAATTTCCTAAAATCCAAAAATACGCA
* *
23492217 TTCATGCATCAACATTACATTTCA-T-TGCACAATAAATTTCCTAAAATCCAAAAGTACG
1 TTCATGCATCAACATTACATTTCATTATACACAATAAATTTCCTAAAATCCAAAAATACG
23492275 TCGAGTTTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
60 30 0.57
61 1 0.02
62 22 0.42
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.33
Consensus pattern (62 bp):
TTCATGCATCAACATTACATTTCATTATACACAATAAATTTCCTAAAATCCAAAAATACGCA
Found at i:23494029 original size:12 final size:12
Alignment explanation
Indices: 23494001--23494054 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
23493991 ACTTCACTTG
23494001 AGAAAA-AAAAA
1 AGAAAAGAAAAA
23494012 CA-AAAAGAAAAA
1 -AGAAAAGAAAAA
23494024 AGAAAAGAAAAA
1 AGAAAAGAAAAA
* *
23494036 TGAAAAAGAAAAG
1 AG-AAAAGAAAAA
23494049 AGAAAA
1 AGAAAA
23494055 AGGAGAGGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
11 5 0.14
12 21 0.58
13 10 0.28
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (12 bp):
AGAAAAGAAAAA
Found at i:23494048 original size:18 final size:17
Alignment explanation
Indices: 23494001--23494054 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
23493991 ACTTCACTTG
*
23494001 AGAAAAA-AAAACAAAA
1 AGAAAAAGAAAAGAAAA
23494017 AGAAAAAAGAAAAGAAAA
1 AG-AAAAAGAAAAGAAAA
23494035 ATGAAAAAGAAAAGAGAAA
1 A-GAAAAAGAAAAGA-AAA
23494054 A
1 A
23494055 AGGAGAGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
16 2 0.06
17 5 0.15
18 21 0.64
19 5 0.15
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (17 bp):
AGAAAAAGAAAAGAAAA
Found at i:23494056 original size:13 final size:12
Alignment explanation
Indices: 23494003--23494056 Score: 58
Period size: 13 Copynumber: 4.4 Consensus size: 12
23493993 TTCACTTGAG
*
23494003 AAAA-AAAAACA
1 AAAAGAAAAAGA
23494014 AAAAGAAAAA-A
1 AAAAGAAAAAGA
23494025 GAAAAGAAAAATGA
1 -AAAAGAAAAA-GA
23494039 AAAAGAAAAGAGA
1 AAAAGAAAA-AGA
23494052 AAAAG
1 AAAAG
23494057 GAGAGGCCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.13
12 15 0.39
13 16 0.42
14 2 0.05
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (12 bp):
AAAAGAAAAAGA
Found at i:23494409 original size:45 final size:46
Alignment explanation
Indices: 23494331--23494417 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 46
23494321 TCCATTTTAT
* *
23494331 TCATTTTGTATTTTTGACAAAATACGCCATCTTGATTAATTTATTC
1 TCATTTTGTATTCTAGACAAAATACGCCATCTTGATTAATTTATTC
** *
23494377 TCATTTTGTATTCTAG-CAAAATTTGCTATCTTGATTAATTT
1 TCATTTTGTATTCTAGACAAAATACGCCATCTTGATTAATTT
23494418 GTTCATTTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 22 0.61
46 14 0.39
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (46 bp):
TCATTTTGTATTCTAGACAAAATACGCCATCTTGATTAATTTATTC
Found at i:23495339 original size:44 final size:43
Alignment explanation
Indices: 23495291--23495427 Score: 104
Period size: 44 Copynumber: 3.2 Consensus size: 43
23495281 GATAGCAGAT
23495291 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATT-ACAGCGAAGCAGATCGAAGACACAAAC
* ** * * ** * *
23495335 CTTGCC-TCTCT-CGGTTGTAGC-AGAGCTGGTTAAAGACAACAGAT
1 CTTGCCTTC-CTGC-ATTACAGCGA-AGCAGATCGAAGAC-ACAAAC
23495379 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAG--ACAAAC
1 CTTGCCTTCCTGCATT-ACAGCGAAGCAGATCGAAGACACAAAC
23495421 CTTGCCT
1 CTTGCCT
23495428 CTCTCGGTTG
Statistics
Matches: 67, Mismatches: 18, Indels: 18
0.65 0.17 0.17
Matches are distributed among these distances:
42 12 0.18
43 16 0.24
44 24 0.36
45 14 0.21
46 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTGCATTACAGCGAAGCAGATCGAAGACACAAAC
Found at i:23495468 original size:86 final size:86
Alignment explanation
Indices: 23495025--23496014 Score: 1243
Period size: 86 Copynumber: 11.4 Consensus size: 86
23495015 TCAAAGAAAG
* * * * *
23495025 CAGATCTTGCCTTCCTGCATTAACAGTGAAGAAGATCGAAAACAAAGCTTTGCCTC-CATCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAA-CCTTGCCTCTC-TCGGTT
* ** *
23495089 GCAGTGGAGCTGGTCAAAGATAA
64 GTAGTGGAGCTGGTTGAAGACAA
* * *
23495112 CAGATCTTGCCTTCCTGCATTAACACCGAAGCAGATCGAAAACAAAGCCTTGCCTC-CATCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAA-CCTTGCCTCTC-TCGGTT
* ** * *
23495176 GCAGTCCAGCTGGTTAAAGATAA
64 GTAGTGGAGCTGGTTGAAGACAA
* * * * * * * * *
23495199 CAAATCTTACCTTCCTGCGTTAACAGTGGAGCCGATCGAAAATAAAGCCTTGCCTC-CATCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAA-CCTTGCCTCTC-TCGGTT
* ** * *
23495263 GCAGTGGAGCTGGTCAAAGATAG
64 GTAGTGGAGCTGGTTGAAGACAA
*
23495286 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAG--ACAAACCTTGCCTCTCTCGGTT
** *
23495351 GTAGCAGAGCTGGTTAAAGACAA
64 GTAGTGGAGCTGGTTGAAGACAA
23495374 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
* *
23495439 AGTTGAGCTGGTTGAATACAA
66 AGTGGAGCTGGTTGAAGACAA
*
23495460 CAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
* *
23495525 AGTGGAGTTGGTTGAATACAA
66 AGTGGAGCTGGTTGAAGACAA
*
23495546 CAGATCTTGCCTTCCTGCATTGTCAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
* *
23495611 AATGGAGCTGGTTGAATACAA
66 AGTGGAGCTGGTTGAAGACAA
* **
23495632 CAGATCTTGCCTTCCTGCATTGAAAGCGAAGCAGATCGAAGATGAACCTTGCCTCTCTCGGTTGT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
* *
23495697 AGTGGATCTGGTTGGAGACAA
66 AGTGGAGCTGGTTGAAGACAA
* * * *
23495718 TAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAAACTTTCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAG--ACAAACCTTGCCTCTCTCGGTT
** *
23495783 GTAGCAGAGCTGGTTAAAGACAA
64 GTAGTGGAGCTGGTTGAAGACAA
* *
23495806 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAGACCTTGGCTCTCTCGGTTGT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
*
23495871 AGTGGAGCTAGTTGAAGACAA
66 AGTGGAGCTGGTTGAAGACAA
**
23495892 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCATG-TCGAAGACACAAACCTTGCCTCTCTCAAT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCA-GATCGAAG--ACAAACCTTGCCTCTCTCGGT
*
23495956 TGTAGCGGAGCTGGTTGAAGACAA
63 TGTAGTGGAGCTGGTTGAAGACAA
* * *
23495980 CA-AGTCTTGCCTTCCTGTACTGACAGCGGAGCAGA
1 CAGA-TCTTGCCTTCCTGCATTGACAGCGAAGCAGA
23496015 CTAAAAATAG
Statistics
Matches: 809, Mismatches: 84, Indels: 19
0.89 0.09 0.02
Matches are distributed among these distances:
86 398 0.49
87 192 0.24
88 214 0.26
89 5 0.01
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (86 bp):
CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
AGTGGAGCTGGTTGAAGACAA
Found at i:23495582 original size:172 final size:172
Alignment explanation
Indices: 23495025--23496014 Score: 1243
Period size: 174 Copynumber: 5.7 Consensus size: 172
23495015 TCAAAGAAAG
* * * *
23495025 CAGATCTTGCCTTCCTGCATTAACAGTGAAGAAGATCGAAAACAAAGCTTTGCCTC-CATCGGTT
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACAAA-CCTTGCCTCTC-TCGGTT
* * * * * *
23495089 GCAGTGGAGCTGGTCAAAGATAACAGATCTTGCCTTCCTGCATTAACACCGAAGCAGATCGAAAA
64 GTAGTGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGA
* ** * *
23495154 CAAAGCCTTGCCTC-CATCGGTTGCAGTCCAGCTGGTTAAAGATAA
129 CAAA-CCTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAGACAA
* * * * * * * *
23495199 CAAATCTTACCTTCCTGCGTTAACAGTGGAGCCGATCGAAAATAAAGCCTTGCCTC-CATCGGTT
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACAAA-CCTTGCCTCTC-TCGGTT
* * * * *
23495263 GCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGA
64 GTAGTGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAG-
** *
23495328 CACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTAAAGACAA
128 -ACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAA
*
23495374 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
* * * *
23495439 AGTTGAGCTGGTTGAATACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGATCGAAGACA
66 AGTGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACA
* *
23495504 AACCTTGCCTCTCTCGGTTGTAGTGGAGTTGGTTGAATACAA
131 AACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAA
**
23495546 CAGATCTTGCCTTCCTGCATTGTCAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
* * * * **
23495611 AATGGAGCTGGTTGAATACAACAGATCTTGCCTTCCTGCATTGAAAGCGAAGCAGATCGAAGATG
66 AGTGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACA
* *
23495676 AACCTTGCCTCTCTCGGTTGTAGTGGATCTGGTTGGAGACAA
131 AACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAA
* * *
23495718 TAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAAACTTTCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAG--ACAAACCTTGCCTCTCTCGGTT
**
23495783 GTAGCAGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGA
64 GTAGTGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGA
* * *
23495848 CAGACCTTGGCTCTCTCGGTTGTAGTGGAGCTAGTTGAAGACAA
129 CAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAA
* **
23495892 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCATG-TCGAAGACACAAACCTTGCCTCTCTCAAT
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCA-GATCGAAG--ACAAACCTTGCCTCTCTCGGT
* * * * *
23495956 TGTAGCGGAGCTGGTTGAAGACAACA-AGTCTTGCCTTCCTGTACTGACAGCGGAGCAGA
63 TGTAGTGGAGCTGGTTAAAGACAACAGA-TCTTGCCTTCCTGCATTGACAGCGAAGCAGA
23496015 CTAAAAATAG
Statistics
Matches: 729, Mismatches: 79, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
172 239 0.33
173 1 0.00
174 411 0.56
175 72 0.10
176 6 0.01
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (172 bp):
CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
AGTGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACA
AACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAA
Found at i:23495989 original size:44 final size:42
Alignment explanation
Indices: 23495853--23495991 Score: 104
Period size: 44 Copynumber: 3.2 Consensus size: 42
23495843 GAAGACAGAC
* * *
23495853 CTTGGCTCTCTCGGTTGTAGTGGAGCTAGTTGAAGACAAC-AGAT
1 CTTGCCTCTCTC-ATTGTAGCGGAGCT-GTTGAAGACAACAAG-T
* * * **
23495897 CTTGCCT-TCCTGCATTGACAGCGAAGCATGTCGAAGAC-ACAAAC
1 CTTGCCTCT-CT-CATTG-TAGCGGAGC-TGTTGAAGACAACAAGT
23495941 CTTGCCTCTCTCAATTGTAGCGGAGCTGGTTGAAGACAACAAGT
1 CTTGCCTCTCTC-ATTGTAGCGGAGCT-GTTGAAGACAACAAGT
23495985 CTTGCCT
1 CTTGCCT
23495992 TCCTGTACTG
Statistics
Matches: 73, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
42 1 0.01
43 17 0.23
44 37 0.51
45 17 0.23
46 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (42 bp):
CTTGCCTCTCTCATTGTAGCGGAGCTGTTGAAGACAACAAGT
Found at i:23496227 original size:95 final size:95
Alignment explanation
Indices: 23496057--23496251 Score: 293
Period size: 95 Copynumber: 2.1 Consensus size: 95
23496047 ACGGAGAAGC
* * * *
23496057 AGATCAAGGATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTATATTGAAGCCGATAATTCT
1 AGATCAAAGATGGCAAATTTTACCTCCCAGTGACTACAATGGAGTACATTGAAGCCGATAATTCT
* * *
23496122 CTCTCTCTGGTTGGTAGTGGAATGGATTGA
66 ATCTCTCTGGTTGGCAGTGGAATAGATTGA
* *
23496152 AGATCAAAGATGGCAGATTTTACCTCCCAGTGATTACAATGGAGTACATTGAAGCCGATAATTCT
1 AGATCAAAGATGGCAAATTTTACCTCCCAGTGACTACAATGGAGTACATTGAAGCCGATAATTCT
23496217 ATCT-TCCTGGTTGGCAGTGGAATAGATTGA
66 ATCTCT-CTGGTTGGCAGTGGAATAGATTGA
23496247 AGATC
1 AGATC
23496252 GAATATGGTG
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 1 0.01
95 89 0.99
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (95 bp):
AGATCAAAGATGGCAAATTTTACCTCCCAGTGACTACAATGGAGTACATTGAAGCCGATAATTCT
ATCTCTCTGGTTGGCAGTGGAATAGATTGA
Found at i:23498070 original size:18 final size:18
Alignment explanation
Indices: 23498047--23498082 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23498037 TTGATGGGGG
23498047 GATTTGTGCATTCTATGC
1 GATTTGTGCATTCTATGC
23498065 GATTTGTGCATTCTATGC
1 GATTTGTGCATTCTATGC
23498083 CCTAATGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (18 bp):
GATTTGTGCATTCTATGC
Found at i:23498424 original size:27 final size:28
Alignment explanation
Indices: 23498378--23498430 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
23498368 ATTTTAAGAT
23498378 CTTTATTTATTTATTTTTTTAAACTTTC
1 CTTTATTTATTTATTTTTTTAAACTTTC
23498406 CTTTA-TTA-TTATTTGTTTTAAACTT
1 CTTTATTTATTTATTT-TTTTAAACTT
23498431 CTTATTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 6 0.25
27 13 0.54
28 5 0.21
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (28 bp):
CTTTATTTATTTATTTTTTTAAACTTTC
Found at i:23498683 original size:17 final size:17
Alignment explanation
Indices: 23498663--23498696 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23498653 CTTGTAAATC
*
23498663 ATTTATTTTAAATTGTT
1 ATTTACTTTAAATTGTT
*
23498680 ATTTGCTTTAAATTGTT
1 ATTTACTTTAAATTGTT
23498697 TTGCATATAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (17 bp):
ATTTACTTTAAATTGTT
Found at i:23499720 original size:23 final size:23
Alignment explanation
Indices: 23499676--23499720 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
23499666 TCGTAGACCA
* *
23499676 AAATCGTTGTTTTAATAAAACCT
1 AAATCGTTGTATTAAAAAAACCT
23499699 AAATCGTT-TATTAAAAACAACC
1 AAATCGTTGTATTAAAAA-AACC
23499721 GTTTTACGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (23 bp):
AAATCGTTGTATTAAAAAAACCT
Found at i:23500297 original size:25 final size:25
Alignment explanation
Indices: 23500269--23500376 Score: 141
Period size: 25 Copynumber: 4.4 Consensus size: 25
23500259 TAGGATCATC
* *
23500269 ATGACATTTCATTGTCAAAATCAAA
1 ATGACATTTCATTTTCAGAATCAAA
23500294 ATGAC-TTGTCATTTTCAGAATCAAA
1 ATGACATT-TCATTTTCAGAATCAAA
*
23500319 ATGACATGTCATTTTCAGAATCAAA
1 ATGACATTTCATTTTCAGAATCAAA
*
23500344 ATGAC-TTGTCATTTTCAGGAT-AAA
1 ATGACATT-TCATTTTCAGAATCAAA
23500368 ATGACATTT
1 ATGACATTT
23500377 GATTATAAGG
Statistics
Matches: 74, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
24 12 0.16
25 61 0.82
26 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (25 bp):
ATGACATTTCATTTTCAGAATCAAA
Found at i:23500323 original size:50 final size:49
Alignment explanation
Indices: 23500269--23500376 Score: 171
Period size: 50 Copynumber: 2.2 Consensus size: 49
23500259 TAGGATCATC
23500269 ATGACATTTCATTGTCAAAATCAAAATGACTTGTCATTTTCAGAATCAAA
1 ATGACATTTCATTGTCAAAATCAAAATGACTTGTCATTTTCAGAAT-AAA
* * * *
23500319 ATGACATGTCATTTTCAGAATCAAAATGACTTGTCATTTTCAGGATAAA
1 ATGACATTTCATTGTCAAAATCAAAATGACTTGTCATTTTCAGAATAAA
23500368 ATGACATTT
1 ATGACATTT
23500377 GATTATAAGG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 11 0.21
50 42 0.79
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (49 bp):
ATGACATTTCATTGTCAAAATCAAAATGACTTGTCATTTTCAGAATAAA
Found at i:23500405 original size:49 final size:50
Alignment explanation
Indices: 23500269--23500405 Score: 136
Period size: 50 Copynumber: 2.8 Consensus size: 50
23500259 TAGGATCATC
* * *
23500269 ATGACATTTCATTGTCAA-AATCAAAATGACTTGTCATTTTCAGAATCAAA
1 ATGACATGTCATTAT-AAGAATCAAAATAACTTGTCATTTTCAGAATCAAA
* * * *
23500319 ATGACATGTCATTTTCAGAATCAAAATGACTTGTCATTTTCAGGAT-AAA
1 ATGACATGTCATTATAAGAATCAAAATAACTTGTCATTTTCAGAATCAAA
* * * *
23500368 ATGACATTTGATTATAAGGATCAGAATAACCTT-TCATT
1 ATGACATGTCATTATAAGAATCAAAATAA-CTTGTCATT
23500406 ACCAAAATCA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
49 31 0.42
50 43 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (50 bp):
ATGACATGTCATTATAAGAATCAAAATAACTTGTCATTTTCAGAATCAAA
Found at i:23501642 original size:25 final size:25
Alignment explanation
Indices: 23501581--23501653 Score: 94
Period size: 25 Copynumber: 2.9 Consensus size: 25
23501571 AAAAAGGTAG
* *
23501581 CCACAAAGGCTCTCCAGAG-GATTCA
1 CCACAAAGGCTTTTCAGAGAG-TTCA
*
23501606 CCACCAAGGCTTTTCAGAGAGTTCA
1 CCACAAAGGCTTTTCAGAGAGTTCA
*
23501631 CCACAAAGGCTTTTTAGAGAGTT
1 CCACAAAGGCTTTTCAGAGAGTT
23501654 TTGTGTTGAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (25 bp):
CCACAAAGGCTTTTCAGAGAGTTCA
Found at i:23503145 original size:23 final size:23
Alignment explanation
Indices: 23503119--23503164 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
23503109 TCTACAGATG
*
23503119 AATCGCACTGAAGTACCAGAATA
1 AATCACACTGAAGTACCAGAATA
* * *
23503142 AATCATATTGAAGTGCCAGAATA
1 AATCACACTGAAGTACCAGAATA
23503165 CTCCTACTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (23 bp):
AATCACACTGAAGTACCAGAATA
Found at i:23504217 original size:14 final size:14
Alignment explanation
Indices: 23504200--23504227 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23504190 CTCACATTTC
23504200 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
23504214 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
23504228 GATTTCTGCT
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:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:23504218 original size:19 final size:18
Alignment explanation
Indices: 23504180--23504224 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
23504170 TACGATACGC
23504180 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
23504197 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
23504216 TTCTTTTCT
1 TTCTTTTCT
23504225 CCAGATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:23507575 original size:18 final size:18
Alignment explanation
Indices: 23507541--23507587 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
23507531 ATAAGAATAT
23507541 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATAATTTTA
*
23507559 TTAAATTATATATTTTTA
1 TTAAATTATATAATTTTA
*
23507577 TTAAACTATAT
1 TTAAATTATAT
23507588 TTAAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TTAAATTATATAATTTTA
Found at i:23507631 original size:120 final size:116
Alignment explanation
Indices: 23507477--23508063 Score: 621
Period size: 121 Copynumber: 5.0 Consensus size: 116
23507467 TTCAAATTTT
*
23507477 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTTATATAAGAATATT
1 ATTAATTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAA--T-TATAAGAATATT
*
23507542 TAATATTAATAATTTTATTAAATTATATATTTTTATTAAACTATATTTAAAAATA
63 TAATATTAAGAATTTTATTAAATTATAT-TTTTTATTAAACTATATTTAAAAATA
*
23507597 ATTAATTTAAA-TACTATTTTATAGTATTATATATTATGATTTTAGTAAATTCTAAGAATATTTA
1 ATTAATTTAAATTA-TATTTTATAGTATTATATATTATGATTTTAGTAAATTATAAGAATATTTA
* * * *
23507661 ATATTAAGAATTTTATTAAATTATA-TTTTTAATAATAAT-TATTT-GAAATT
65 ATATTAAGAATTTTATTAAATTATATTTTTTATTAA-ACTATATTTAAAAATA
* * * * **
23507711 A-T-A-TT---TTATAGTATTATA-TATTATGAT-TT-T-A-GTAAATTCATT-TAAGAATATTT
1 ATTAATTTAAATTATA-TTTTATAGTATTAT-ATATTATGATTTTAGTAAATTATAAGAATATTT
* * *
23507764 AATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATT
64 AATATTAAGAATTTTATTAAATTATAT-TTTTTATTAAACTATATTTAAAAATA
* * *
23507818 ATTATTTTAAATTATATTTTATACTATTATATATTATGATTTTATTAAATTCATTTAAGAATATT
1 ATTAATTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATT-A--TAAGAATATT
* * * *
23507883 TAAATATAAAGAATTTTATTAAATTATGTATTTTTATTAAATTATATTTAATAATA
63 T-AATATTAAGAATTTTATTAAATTATAT-TTTTTATTAAACTATATTTAAAAATA
* * * *
23507939 ATTATTTTAAATTATATTTTATAGTATTATATATTATTATTTTTATTAAATTCATATAATAATAT
1 ATTAATTTAAATTATATTTTATAGTATTATATATTATGA-TTTTAGTAAA-T--TATAAGAATAT
* * *
23508004 TTAAAATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
62 TTAATATTAAGAATTTTATTAAATTATAT-TTTTTATTAAACTATATTTAAAAATA
23508060 ATTA
1 ATTA
23508064 TGTTAAAATA
Statistics
Matches: 405, Mismatches: 33, Indels: 57
0.82 0.07 0.12
Matches are distributed among these distances:
104 37 0.09
105 8 0.02
106 15 0.04
107 6 0.01
108 11 0.03
109 10 0.02
110 2 0.00
111 2 0.00
112 9 0.02
113 14 0.03
114 6 0.01
115 15 0.04
116 8 0.02
117 37 0.09
118 1 0.00
119 2 0.00
120 56 0.14
121 143 0.35
122 20 0.05
123 1 0.00
124 1 0.00
125 1 0.00
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (116 bp):
ATTAATTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTATAAGAATATTTAA
TATTAAGAATTTTATTAAATTATATTTTTTATTAAACTATATTTAAAAATA
Found at i:23507945 original size:121 final size:121
Alignment explanation
Indices: 23507671--23508070 Score: 669
Period size: 121 Copynumber: 3.3 Consensus size: 121
23507661 ATATTAAGAA
*
23507671 TTTTATTAAATTATATTTTTAATAATAATTATTTGAAATTATATTTTATAGTATTATATATTATG
1 TTTTATTAAATTATA--TTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATG
*
23507736 ATTTTAGTAAATTCATTTAAGAATATTT-AATATTAAGAATTTTATTAAATTATATAT
64 ATTTTATTAAATTCATTTAAGAATATTTAAATATTAAGAATTTTATTAAATTATATAT
* *
23507793 TTTTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATACTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
* *
23507858 TTTATTAAATTCATTTAAGAATATTTAAATATAAAGAATTTTATTAAATTATGTAT
66 TTTATTAAATTCATTTAAGAATATTTAAATATTAAGAATTTTATTAAATTATATAT
*
23507914 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATTAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGA-
* *
23507979 TTTTATTAAATTCATATAATAATATTTAAA-ATTAAGAATTTTATTAAATTATATAT
65 TTTTATTAAATTCATTTAAGAATATTTAAATATTAAGAATTTTATTAAATTATATAT
*
23508035 TTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAA
23508071 ATATGATTAA
Statistics
Matches: 262, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
120 72 0.27
121 147 0.56
122 43 0.16
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (121 bp):
TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
TTTATTAAATTCATTTAAGAATATTTAAATATTAAGAATTTTATTAAATTATATAT
Found at i:23508242 original size:39 final size:41
Alignment explanation
Indices: 23508197--23508302 Score: 117
Period size: 44 Copynumber: 2.5 Consensus size: 41
23508187 TTTGCTTATG
* *
23508197 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
*
23508237 C-ATTACGCATCTATTCCATTTCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTAC
*
23508282 CTATTACGCCTCTATTTCATT
1 CTATTACGCCTCTATTCCATT
23508303 ACGCATCTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
39 12 0.22
40 2 0.04
41 4 0.07
44 19 0.35
45 4 0.07
46 13 0.24
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.31
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:23508277 original size:44 final size:46
Alignment explanation
Indices: 23508214--23508302 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 46
23508204 ACCTCTATTC
*
23508214 CATTCAACCAAACACAAGAA-TACC-ATTACGCATCTATTCCATTT
1 CATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCCATTT
* *
23508258 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTTCATT
1 CATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCCATT
23508303 ACGCATCTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 19 0.47
45 4 0.10
46 17 0.43
ACGTcount: A:0.38, C:0.28, G:0.04, T:0.29
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCCATTT
Found at i:23508305 original size:16 final size:16
Alignment explanation
Indices: 23508284--23508332 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
23508274 AGAATTACCT
*
23508284 ATTACGCCTCTATTTC
1 ATTACGCCTCTATTCC
*
23508300 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
23508316 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
23508332 A
1 A
23508333 ATACAGTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:23512024 original size:17 final size:18
Alignment explanation
Indices: 23511985--23512024 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
23511975 ATATACATAT
*
23511985 ATTTTGAATATTTTTATT
1 ATTTTGAATATTTTTATA
*
23512003 TTTTTGAATA-TTTTATA
1 ATTTTGAATATTTTTATA
23512020 ATTTT
1 ATTTT
23512025 ATATTATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
ATTTTGAATATTTTTATA
Found at i:23512024 original size:18 final size:18
Alignment explanation
Indices: 23511981--23512016 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23511971 ATATATATAC
23511981 ATATATTTTGAATATTTTT
1 ATAT-TTTTGAATATTTTT
*
23512000 ATTTTTTTGAATATTTT
1 ATATTTTTGAATATTTT
23512017 ATAATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
ATATTTTTGAATATTTTT
Found at i:23513358 original size:9 final size:9
Alignment explanation
Indices: 23513344--23513452 Score: 53
Period size: 9 Copynumber: 11.8 Consensus size: 9
23513334 TTTTTTAAAT
23513344 AATTTTATA
1 AATTTTATA
23513353 AATTTTAT-
1 AATTTTATA
*
23513361 ATTTTTATA
1 AATTTTATA
* *
23513370 AATCATTA-G
1 AAT-TTTATA
* *
23513379 AATTTTTTG
1 AATTTTATA
23513388 AATTTTATA
1 AATTTTATA
*
23513397 AGTGTTTAT-
1 AAT-TTTATA
23513406 AATATTTATTA
1 AAT-TTTA-TA
**
23513417 TTTTTTTATA
1 -AATTTTATA
*
23513427 ATTTTTATA
1 AATTTTATA
*
23513436 AGTTTATATA
1 AATTT-TATA
23513446 AATTTTA
1 AATTTTA
23513453 AATATATTTT
Statistics
Matches: 76, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
8 9 0.12
9 43 0.57
10 19 0.25
11 4 0.05
12 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.59
Consensus pattern (9 bp):
AATTTTATA
Found at i:23513521 original size:30 final size:30
Alignment explanation
Indices: 23513477--23513553 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
23513467 GTTCCATATG
*
23513477 TTTTATTA-TTTTTATAATTTA-TTAGAACA
1 TTTTATAAGTTTTTATAATTTATTTAGAA-A
* * *
23513506 TTTTATAAGTTTTTATGATTTATTTATAAG
1 TTTTATAAGTTTTTATAATTTATTTAGAAA
*
23513536 TTTTATAAGTTTATATAA
1 TTTTATAAGTTTTTATAA
23513554 ATTCCATGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 7 0.17
30 28 0.70
31 5 0.12
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.58
Consensus pattern (30 bp):
TTTTATAAGTTTTTATAATTTATTTAGAAA
Found at i:23513548 original size:21 final size:21
Alignment explanation
Indices: 23513507--23513549 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
23513497 ATTAGAACAT
*
23513507 TTTATAAGTTTTTATGATTTA
1 TTTATAAGTTTTTAAGATTTA
23513528 TTTATAAGTTTTATAAG-TTTA
1 TTTATAAGTTTT-TAAGATTTA
23513549 T
1 T
23513550 ATAAATTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (21 bp):
TTTATAAGTTTTTAAGATTTA
Found at i:23519642 original size:27 final size:27
Alignment explanation
Indices: 23519604--23519656 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
23519594 CTTCATTTGG
*
23519604 ATGAATTTGTACAGCTATATTCCCTTA
1 ATGAAGTTGTACAGCTATATTCCCTTA
23519631 ATGAAGTTGTACAGCTATATTCCCTT
1 ATGAAGTTGTACAGCTATATTCCCTT
23519657 TATAAGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (27 bp):
ATGAAGTTGTACAGCTATATTCCCTTA
Done.