Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 47 of 345
Found at i:14028893 original size:54 final size:54
Alignment explanation
Indices: 14028727--14028910 Score: 187
Period size: 54 Copynumber: 3.4 Consensus size: 54
14028717 TGTAAATTAG
** * * * *
14028727 GGGTATTTTAGTAATTTTATAAA-TTGAGGGTATTTCGGTAATT-TCACAAAC-CA
1 GGGTATTTCGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTCT-ACAAACTAA
* * *
14028780 GTGGTATTTCGGTAATTTTACAAACTAGGGGTCTTTTGGTAATTTTACAAACTAG
1 G-GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAACTAA
* **
14028835 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTAC-AA
1 GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTA-CAAACTAA
*
14028889 GGGTATTTCAGTAATTTTACAA
1 GGGTATTTCGGTAATTTTACAA
14028911 TCGAGGGTAA
Statistics
Matches: 110, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
53 1 0.01
54 102 0.93
55 7 0.06
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAACTAA
Found at i:14028992 original size:27 final size:27
Alignment explanation
Indices: 14028899--14028992 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 27
14028889 GGGTATTTCA
*
14028899 GTAATTTTAC-AATCGAGGGTAAAACG
1 GTAATTCTACAAATCGAGGGTAAAACG
** *
14028925 GTAATTCTGTAAATCGAGGGTGAAACG
1 GTAATTCTACAAATCGAGGGTAAAACG
** *
14028952 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTACAAATCGAGGGTAAAACG
14028979 GTAATTCTACAAAT
1 GTAATTCTACAAAT
14028993 TAAGGGCATT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 7 0.12
27 52 0.88
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTACAAATCGAGGGTAAAACG
Found at i:14028998 original size:27 final size:27
Alignment explanation
Indices: 14028909--14028986 Score: 138
Period size: 27 Copynumber: 2.9 Consensus size: 27
14028899 GTAATTTTAC
14028909 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
14028936 AATCGAGGGTGAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
14028963 AATCGAGGGTAAAATGGTAATTCT
1 AATCGAGGGTAAAACGGTAATTCT
14028987 ACAAATTAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:14029018 original size:54 final size:53
Alignment explanation
Indices: 14028886--14029018 Score: 126
Period size: 54 Copynumber: 2.5 Consensus size: 53
14028876 TTCTATCCTA
* **
14028886 CAAGGGTATTTCAGTAATTT-TACAATCGAGGGTAAAACGGTAATTCTGTAAAT
1 CAAGGGCATTTCAGTAATTTGTA-AATCGAGGGTAAAACGGTAATTCTACAAAT
* * ** * *
14028939 CGAGGGTGA-AACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACAAAT
1 CAAGGG-CATTTCAGTAATT-TGTAAATCGAGGGTAAAACGGTAATTCTACAAAT
*
14028993 TAAGGGCATTTCAGTAATTTGGTAAA
1 CAAGGGCATTTCAGTAATTT-GTAAA
14029019 CTAAAGTATT
Statistics
Matches: 61, Mismatches: 14, Indels: 9
0.73 0.17 0.11
Matches are distributed among these distances:
53 14 0.23
54 45 0.74
55 2 0.03
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (53 bp):
CAAGGGCATTTCAGTAATTTGTAAATCGAGGGTAAAACGGTAATTCTACAAAT
Found at i:14029222 original size:19 final size:19
Alignment explanation
Indices: 14029198--14029248 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
14029188 GGCCCGTAGG
14029198 CCCATTTGGCCCACATGAC
1 CCCATTTGGCCCACATGAC
14029217 CCCATTTGGCCCACATGAC
1 CCCATTTGGCCCACATGAC
14029236 CCC-TTTCGGCCCA
1 CCCATTT-GGCCCA
14029249 TCGTGGCCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 3 0.10
19 28 0.90
ACGTcount: A:0.18, C:0.45, G:0.16, T:0.22
Consensus pattern (19 bp):
CCCATTTGGCCCACATGAC
Found at i:14036761 original size:40 final size:40
Alignment explanation
Indices: 14036706--14036892 Score: 302
Period size: 40 Copynumber: 4.7 Consensus size: 40
14036696 CAATTGAGGA
*
14036706 TTATATCCGGGTTAAGTCCCGAAGGTATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
14036746 TTATATCCGAGTTAAGTCCCAAAGGCATTCGTACTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
14036786 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
14036826 TTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTC
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
14036866 TTATATCCGGGCTAAATCCCGAAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
14036893 ATTGGGTTGG
Statistics
Matches: 136, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:14042366 original size:13 final size:13
Alignment explanation
Indices: 14042348--14042373 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14042338 CCCTCGCACA
14042348 TAATTAATCCATT
1 TAATTAATCCATT
14042361 TAATTAATCCATT
1 TAATTAATCCATT
14042374 AGAGGTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTAATCCATT
Found at i:14043259 original size:15 final size:16
Alignment explanation
Indices: 14043239--14043269 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14043229 TCTTTAAGTT
14043239 TTGATG-AAGAAATTG
1 TTGATGAAAGAAATTG
14043254 TTGATGAAAGAAATTG
1 TTGATGAAAGAAATTG
14043270 ATCTTGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (16 bp):
TTGATGAAAGAAATTG
Found at i:14044523 original size:40 final size:40
Alignment explanation
Indices: 14044468--14044574 Score: 187
Period size: 40 Copynumber: 2.7 Consensus size: 40
14044458 CAATTAAGGA
14044468 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
14044508 TTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
14044548 TTATATCCGGGCTAAATCCCGAAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
14044575 ATTGGGTTGG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:14049033 original size:48 final size:49
Alignment explanation
Indices: 14048915--14049038 Score: 160
Period size: 48 Copynumber: 2.6 Consensus size: 49
14048905 TGACATCCCA
* *
14048915 TGTAAGACTATGTCTGGGACATGGCATCGGCATCCGAGATGAGAGCCAG
1 TGTAAGACAATGTCTGGGACATGGCATCGACATCCGAGATGAGAGCCAG
* * * * * *
14048964 TGTAAGACCATGTCTGGGACATGGCATCGACAT-TGATATGTGTGCTAG
1 TGTAAGACAATGTCTGGGACATGGCATCGACATCCGAGATGAGAGCCAG
*
14049012 TGTAAGACAATGTATGGGACATGGCAT
1 TGTAAGACAATGTCTGGGACATGGCAT
14049039 TGGCACCAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
48 35 0.53
49 31 0.47
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (49 bp):
TGTAAGACAATGTCTGGGACATGGCATCGACATCCGAGATGAGAGCCAG
Found at i:14056414 original size:42 final size:41
Alignment explanation
Indices: 14056309--14056460 Score: 130
Period size: 43 Copynumber: 3.6 Consensus size: 41
14056299 TATGTGTTTT
14056309 CGTGTAAGACCACGTCTGGGACGTTGGCATTG-ACTTATGATTTA
1 CGTGTAAGA-CACGTCTGGGACG-TGGCATTGTA-TT-TGATTTA
14056353 CGTGTAAGACACGTCTGGGACGTCGGCATTGTATTTGATTT-
1 CGTGTAAGACACGTCTGGGACGT-GGCATTGTATTTGATTTA
* * * * *
14056394 TGTGTAAGGCCCTGTTTGGGACAGTGGCATCGATATTTGA-TTA
1 CGTGTAAGACAC-GTCTGGGAC-GTGGCATTG-TATTTGATTTA
* * *
14056437 CATGTAAGACCATGCCTGGGACGT
1 CGTGTAAGA-CACGTCTGGGACGT
14056461 TGTCATTAGA
Statistics
Matches: 89, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
41 9 0.10
42 25 0.28
43 44 0.49
44 11 0.12
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.32
Consensus pattern (41 bp):
CGTGTAAGACACGTCTGGGACGTGGCATTGTATTTGATTTA
Found at i:14060296 original size:48 final size:48
Alignment explanation
Indices: 14060233--14060474 Score: 403
Period size: 48 Copynumber: 5.0 Consensus size: 48
14060223 TACAAGATAA
14060233 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
14060281 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
14060329 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATTTGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
14060377 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
** * * *
14060425 ATATATATATGTGGTAAATACGAATGGCTAATGAGCAATATGTAGGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
14060473 AT
1 AT
14060475 GTGTGTATAT
Statistics
Matches: 181, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 181 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:14060582 original size:47 final size:47
Alignment explanation
Indices: 14060526--14060630 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
14060516 TAGTATTAAT
*
14060526 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
14060573 TATGCGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
14060620 AATGTGATAAG
1 TATGTGATAAG
14060631 TCCCGAAGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:14065346 original size:49 final size:49
Alignment explanation
Indices: 14065270--14065369 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 49
14065260 TTAGTGAAAT
* *
14065270 ATTTTGACCTTAAGCTGCATCAGATGAATATTAAGTTAATAATTTCTCA
1 ATTTTGACCTTAAACTGCATCAAATGAATATTAAGTTAATAATTTCTCA
* * *
14065319 ATTTTGACTTTAAACTGCATTAAATGAATATTAAGTTAATAGTTTCTCA
1 ATTTTGACCTTAAACTGCATCAAATGAATATTAAGTTAATAATTTCTCA
14065368 AT
1 AT
14065370 GGTAACATTG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (49 bp):
ATTTTGACCTTAAACTGCATCAAATGAATATTAAGTTAATAATTTCTCA
Found at i:14066278 original size:23 final size:23
Alignment explanation
Indices: 14066252--14066296 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14066242 GTTATTTCAG
* *
14066252 TTTAAAGATATTAAGTTTATTTT
1 TTTAAAGAAATAAAGTTTATTTT
*
14066275 TTTACAGAAATAAAGTTTATTT
1 TTTAAAGAAATAAAGTTTATTT
14066297 GGTTTTTCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (23 bp):
TTTAAAGAAATAAAGTTTATTTT
Found at i:14067316 original size:92 final size:92
Alignment explanation
Indices: 14067159--14067339 Score: 256
Period size: 92 Copynumber: 2.0 Consensus size: 92
14067149 TTTGACATGA
* * * * *
14067159 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACTATGGTCTTACACATTTTCTATCAGGTTACCATGGTATCTTTCAAC
***
14067224 CATGGTCTTGTTCATTTCATATCACGT
66 CATGGTCTTACACATTTCATATCACGT
* *
14067251 TGCCATGGTATCTTTCAACTATGGTCTTACACA-TTTCATATCAGGTTATCATGGTATCTTTCAA
1 TGCCATAGTATCTTTCAACTATGGTCTTACACATTTTC-TATCAGGTTACCATGGTATCTTTCAA
14067315 CCATGGTCTTACACATTTCATATCA
65 CCATGGTCTTACACATTTCATATCA
14067340 GAGAGCACAC
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
91 4 0.05
92 74 0.95
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (92 bp):
TGCCATAGTATCTTTCAACTATGGTCTTACACATTTTCTATCAGGTTACCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGT
Found at i:14067340 original size:46 final size:46
Alignment explanation
Indices: 14067159--14067340 Score: 231
Period size: 46 Copynumber: 4.0 Consensus size: 46
14067149 TTTGACATGA
* * * * * *
14067159 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
14067205 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
14067251 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
**
14067297 TATCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
14067341 AGAGCACACT
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.03
46 116 0.97
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:14071075 original size:40 final size:39
Alignment explanation
Indices: 14070912--14071054 Score: 200
Period size: 40 Copynumber: 3.6 Consensus size: 39
14070902 CGGATGATAA
* *
14070912 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAAT-ACTAATT
*
14070952 CCGGGCTAAGTCCCGAAGGCA-TTGTTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGA-ATACTAATT
14070992 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TACTAAT-T
14071032 CCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
14071055 CGAGTGAATA
Statistics
Matches: 95, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
39 5 0.05
40 86 0.91
41 4 0.04
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATACTAATT
Found at i:14072702 original size:3 final size:3
Alignment explanation
Indices: 14072688--14072736 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
14072678 TTTTATACTA
*
14072688 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14072731 AA- AAT A
1 AAT AAT A
14072737 TCTCATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:14072710 original size:11 final size:11
Alignment explanation
Indices: 14072694--14072732 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
14072684 ACTAAATAAT
14072694 TAATAATAAAA
1 TAATAATAAAA
*
14072705 TAATAATGAAA
1 TAATAATAAAA
14072716 TAATAATAAAA
1 TAATAATAAAA
14072727 TAATAA
1 TAATAA
14072733 AATATCTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:14072719 original size:19 final size:19
Alignment explanation
Indices: 14072695--14072736 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
14072685 CTAAATAATT
*
14072695 AATAATAAAATAATAATGA
1 AATAATAAAATAATAATAA
14072714 AATAATAATAA-AATAATAA
1 AATAATAA-AATAATAATAA
14072733 AATA
1 AATA
14072737 TCTCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAAAATAATAATAA
Found at i:14072759 original size:20 final size:21
Alignment explanation
Indices: 14072706--14072781 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
14072696 ATAATAAAAT
* *
14072706 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
14072725 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
14072746 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
14072767 TAATCATAAAATATC
1 -AATAATAAAATATC
14072782 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:14074407 original size:25 final size:25
Alignment explanation
Indices: 14074369--14074417 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
14074359 GAATGTGCTG
* *
14074369 AATGTGCTAATAATTAGAGAGCATT
1 AATGTGCTAATAATCAAAGAGCATT
*
14074394 AATGTGCTAGTAATCAAAGAGCAT
1 AATGTGCTAATAATCAAAGAGCAT
14074418 GCTGAGGTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (25 bp):
AATGTGCTAATAATCAAAGAGCATT
Found at i:14075695 original size:45 final size:46
Alignment explanation
Indices: 14075655--14075839 Score: 117
Period size: 46 Copynumber: 4.0 Consensus size: 46
14075645 GTCTTATTTA
* *
14075655 TCTTTGACATGATACCATAGTGTCTTTCAACTATGGTCTTACTCAT
1 TCTTTGACATGATACCATAGTATCTTTCAACCATGGTCTTACTCAT
* * * * * **
14075701 TTTTTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCAT
1 TCTTTGACATGATACCATAGTATCTTTCAACCATGGTCTTACTCAT
* * * * * *
14075747 T-TCAT-ATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 TCT-TTGA-CATGATACCATAGTATCTTTCAACCATGGTCTTACTCAT
* * * * * *
14075793 T-TCAT-ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 TCT-TTGA-CATGATACCATAGTATCTTTCAACCATGGTCTTACTCAT
14075839 T
1 T
14075840 TCATATCAGA
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
45 1 0.01
46 120 0.99
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
TCTTTGACATGATACCATAGTATCTTTCAACCATGGTCTTACTCAT
Found at i:14075848 original size:46 final size:46
Alignment explanation
Indices: 14075677--14075848 Score: 254
Period size: 46 Copynumber: 3.7 Consensus size: 46
14075667 TACCATAGTG
* * ** * *
14075677 TCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*** *
14075723 TCTTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
14075769 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
14075815 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
14075849 AGAGCACACT
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 115 1.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:14078041 original size:20 final size:20
Alignment explanation
Indices: 14077983--14078052 Score: 74
Period size: 19 Copynumber: 3.6 Consensus size: 20
14077973 TTATACTAAA
*
14077983 TAATT-AATAATAAAATA-A
1 TAATTAAATAATAAAATATC
*
14078001 TAATGAAATAATAAAATATC
1 TAATTAAATAATAAAATATC
* *
14078021 TCATTAAAATAAT-ATATATC
1 TAATT-AAATAATAAAATATC
14078041 TAATTAAATAAT
1 TAATTAAATAAT
14078053 CATAAAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 4 0.09
19 19 0.44
20 13 0.30
21 7 0.16
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (20 bp):
TAATTAAATAATAAAATATC
Found at i:14084838 original size:29 final size:30
Alignment explanation
Indices: 14084806--14084872 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
14084796 GTATTTACTT
*
14084806 TTTAAATATAT-TAATTAATATTTTTATT-A
1 TTTAAATATATATAATTAAGATTTTT-TTAA
*
14084835 TTTAAA-ATATATATTTAAGATTTTTTTAA
1 TTTAAATATATATAATTAAGATTTTTTTAA
14084864 TTTATAATA
1 TTTA-AATA
14084873 AAAATATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 6 0.19
29 23 0.72
30 2 0.06
31 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (30 bp):
TTTAAATATATATAATTAAGATTTTTTTAA
Found at i:14085110 original size:13 final size:12
Alignment explanation
Indices: 14085091--14085134 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
14085081 ATTTAAATTA
*
14085091 AATAATAAAACT
1 AATAATAAAAAT
14085103 ATATAATATAAAAT
1 A-ATAATA-AAAAT
*
14085117 AATAATAATAAT
1 AATAATAAAAAT
14085129 AATAAT
1 AATAAT
14085135 TAAACATCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 11 0.39
13 12 0.43
14 5 0.18
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (12 bp):
AATAATAAAAAT
Found at i:14085323 original size:36 final size:36
Alignment explanation
Indices: 14085283--14085351 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
14085273 TGCTAAATAT
14085283 TAGTTTTAATTGATAATCAAGCTAAAATAATAAGTG
1 TAGTTTTAATTGATAATCAAGCTAAAATAATAAGTG
* *
14085319 TAGTTTTTATTGATAATTAAGCTAAAATAATAA
1 TAGTTTTAATTGATAATCAAGCTAAAATAATAA
14085352 ATATAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (36 bp):
TAGTTTTAATTGATAATCAAGCTAAAATAATAAGTG
Found at i:14086938 original size:6 final size:6
Alignment explanation
Indices: 14086927--14086956 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
14086917 ATAAAGTAAT
14086927 ATTTTA ATTTTA ATTTTA ATTTTA TATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA -ATTTT
14086957 TAAAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
ATTTTA
Found at i:14086944 original size:12 final size:13
Alignment explanation
Indices: 14086925--14086956 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
14086915 TGATAAAGTA
14086925 ATATTTTAATTTT
1 ATATTTTAATTTT
14086938 A-ATTTTAATTTT
1 ATATTTTAATTTT
14086950 ATATTTT
1 ATATTTT
14086957 TAAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTTTAATTTT
Found at i:14095189 original size:46 final size:46
Alignment explanation
Indices: 14095136--14095259 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 46
14095126 TATGTGTGCT
* * *
14095136 AGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATA-AGAACC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCAT-TGAGACAGAACC
* *
14095182 AGTGTAAGACATGTCTAGGACATGCATCGG-CATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCATTGAGAC-AGAACC
*
14095228 AGTGTAAGACATGTCTAGAACATGCATCGGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCC
14095260 TCGAGATATA
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 3 0.04
45 3 0.04
46 62 0.90
47 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCATTGAGACAGAACC
Found at i:14095291 original size:48 final size:46
Alignment explanation
Indices: 14095133--14095291 Score: 151
Period size: 46 Copynumber: 3.4 Consensus size: 46
14095123 TGATATGTGT
* * ** *
14095133 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATAAG-AA
1 GCTAGTGTAAGACATGTCTAGAACATGCATCGG-CAT-CGAGAAGAAA
* * * * *
14095180 -CCAGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTAGAACATGCATCGGCATCGAGAAGAAA
* *
14095225 GCTAGTGTAAGACATGTCTAGAACATGCATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTAGAACATGCATCGGCATCGAGA-AGA-AA
*
14095273 GCTAGTGTAAGACCTGTCT
1 GCTAGTGTAAGACATGTCT
14095292 GGGACATGAC
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
44 4 0.04
45 4 0.04
46 66 0.70
47 1 0.01
48 19 0.20
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGAACATGCATCGGCATCGAGAAGAAA
Found at i:14095386 original size:49 final size:49
Alignment explanation
Indices: 14095319--14095445 Score: 157
Period size: 49 Copynumber: 2.6 Consensus size: 49
14095309 TGTTGTGTGT
*
14095319 CAGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATAAATGAAAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAAATGAAAGC
* * * * *
14095368 CAGTTTAAGACCTGTCTGGGACACGGCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAAATGAAAGC
* * *
14095417 TAGTGTAAGACCTGTTTGGGAAATGGCAT
1 CAGTGTAAGACCTGTCTGGGACATGGCAT
14095446 TGACTTTGAT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 1 0.02
49 65 0.98
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAAATGAAAGC
Found at i:14104597 original size:21 final size:21
Alignment explanation
Indices: 14104572--14104636 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
14104562 TAGCCTTCGG
14104572 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
** * *
14104593 GCTT-CAATTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
14104611 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
14104632 GCTTC
1 GCTTC
14104637 AGCTAGACTT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 5 0.15
19 9 0.27
20 9 0.27
21 10 0.30
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:14104604 original size:39 final size:39
Alignment explanation
Indices: 14104554--14104654 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
14104544 GCTCTGGTGA
14104554 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
14104593 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
14104632 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
14104655 AGATCACGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.14, C:0.27, G:0.23, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:14108541 original size:20 final size:19
Alignment explanation
Indices: 14108507--14108547 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
14108497 CATTAATTCC
14108507 TCTTTCAATAATTTTTTTT
1 TCTTTCAATAATTTTTTTT
*
14108526 TCTTTCAATAAATTTTTTT
1 TCTTTCAATAATTTTTTTT
14108545 TCT
1 TCT
14108548 CCACGAATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (19 bp):
TCTTTCAATAATTTTTTTT
Found at i:14112862 original size:49 final size:49
Alignment explanation
Indices: 14112809--14113033 Score: 297
Period size: 49 Copynumber: 4.5 Consensus size: 49
14112799 CTGGTACGCA
14112809 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * ** * *
14112858 TAGTAGCCTGCACTTAGTACAACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
* * * * * *
14112908 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
*
14112959 TAGTAGCCTGCACTTAGTGCTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
*
14113008 TAGTAGCTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
14113034 CGTGACCTCA
Statistics
Matches: 149, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
49 66 0.44
50 46 0.31
51 37 0.25
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:14113037 original size:100 final size:99
Alignment explanation
Indices: 14112809--14113040 Score: 313
Period size: 100 Copynumber: 2.3 Consensus size: 99
14112799 CTGGTACGCA
* * *
14112809 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
14112874 GTACAACACATGTGACCTAACCATCTGATACACG
66 GTACAACACATGCGACCTAACCATCCGATACACG
* * *
14112908 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* * ** *
14112973 TAGTGCTACACATGCGACC-AATTATCCGGTACACG
64 TAGTACAACACATGCGACCTAACCATCCGATACACG
*
14113008 TAGTAGCTTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
14113041 TCATAATAGA
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 30 0.26
100 45 0.39
101 41 0.35
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACAACACATGCGACCTAACCATCCGATACACG
Found at i:14115604 original size:19 final size:19
Alignment explanation
Indices: 14115580--14115618 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
14115570 AGGTAATCTC
14115580 ATACAATATCTCAATAGAG
1 ATACAATATCTCAATAGAG
14115599 ATACAATATCTCAATAGAG
1 ATACAATATCTCAATAGAG
14115618 A
1 A
14115619 CAGTCACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.26
Consensus pattern (19 bp):
ATACAATATCTCAATAGAG
Found at i:14117450 original size:85 final size:85
Alignment explanation
Indices: 14117307--14117485 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
14117297 GGCCGGCCAT
14117307 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
14117372 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
14117392 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
14117457 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
14117477 GGGCATGGG
1 GAGCATGGG
14117486 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:14119473 original size:47 final size:47
Alignment explanation
Indices: 14119419--14119756 Score: 496
Period size: 47 Copynumber: 7.1 Consensus size: 47
14119409 TTAGGATTTT
*
14119419 ATGTGATGGATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
14119466 ATGTGATGAATGTGAACATGCGTATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
14119513 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
*
14119566 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
14119613 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
14119660 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
14119707 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
14119754 ATG
1 ATG
14119757 CGGAACGTGT
Statistics
Matches: 268, Mismatches: 17, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
47 223 0.83
48 1 0.00
52 1 0.00
53 43 0.16
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:14119593 original size:23 final size:23
Alignment explanation
Indices: 14119566--14119640 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
14119556 CGAATGGCCA
14119566 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
14119589 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
14119613 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
14119636 ATGTG
1 ATGTG
14119641 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:14119596 original size:147 final size:141
Alignment explanation
Indices: 14119419--14119756 Score: 532
Period size: 147 Copynumber: 2.4 Consensus size: 141
14119409 TTAGGATTTT
*
14119419 ATGTGATGGATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
14119484 TGCGTATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATGCGTG
66 TGCGTATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C---ATACATATAT--GAG
14119549 ATAAGGCCGAATGGCCA
125 ATAAGGCCGAATGGCCA
*
14119566 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
14119631 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
66 TGCGTATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATACATATATGAGATAAGG
14119696 CCGAATGGCCA
131 CCGAATGGCCA
* * * *
14119707 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATG
14119757 CGGAACGTGT
Statistics
Matches: 180, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
141 64 0.36
143 8 0.04
146 1 0.01
147 107 0.59
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (141 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATACATATATGAGATAAGG
CCGAATGGCCA
Found at i:14119827 original size:141 final size:140
Alignment explanation
Indices: 14119419--14119805 Score: 440
Period size: 147 Copynumber: 2.7 Consensus size: 140
14119409 TTAGGATTTT
* * * * *
14119419 ATGTGATGGATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACA
* * * ** *
14119484 TGCGTATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATGCGTG
65 TGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAA-C---ATGCATATAT--GAG
14119549 ATAAGGCCGAATGGCCA
124 ATAAGGCCGAATGGCCA
** * * *
14119566 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACA
* *
14119631 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
65 TGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
14119696 CCGAATGGCCA
130 CCGAATGGCCA
* *
14119707 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATGCG-GAACGTGTATGA
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTG-A--A
* *
14119771 GATG-GATATGTG-G-TAAAGCCAAATGGCTAATGTGA
63 CATGCG-TATGTGTGATAAAGCCAAATGGCCAATGTGA
14119806 GATATGTACG
Statistics
Matches: 219, Mismatches: 17, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
139 6 0.03
140 20 0.09
141 67 0.31
142 10 0.05
143 8 0.04
146 1 0.00
147 107 0.49
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (140 bp):
ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTGAACAT
GCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGC
CGAATGGCCA
Found at i:14120020 original size:37 final size:37
Alignment explanation
Indices: 14119967--14120112 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
14119957 GGAAATATAT
*
14119967 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
14120004 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
14120041 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
14120078 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
14120113 CGTCTGAGCT
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:14122078 original size:50 final size:49
Alignment explanation
Indices: 14121960--14122190 Score: 302
Period size: 50 Copynumber: 4.7 Consensus size: 49
14121950 CTGGTACGCA
* * *
14121960 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
** *
14122009 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGATACACG
* * *
14122059 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-CGATACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGATACACG
* * * *
14122109 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACAGG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
*
14122158 TAGTAGCCTGCACTTAGTACTACAGACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
14122191 TTATAATAGA
Statistics
Matches: 156, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
48 4 0.03
49 69 0.44
50 80 0.51
51 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
Found at i:14122161 original size:99 final size:99
Alignment explanation
Indices: 14121960--14122190 Score: 304
Period size: 99 Copynumber: 2.3 Consensus size: 99
14121950 CTGGTACGCA
* * * *
14121960 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACATAGTAGCCTGCACTTA
* *
14122025 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCCGATACACG
* *
14122059 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-CGATACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGATACACATAGTAGCCTGCACT
* ** * *
14122123 TAGTACTACACATGCGACC-AATTATCCGGTACAGG
64 TAGTACTACACACGCGACCTAACCATCCGATACACG
*
14122158 TAGTAGCCTGCACTTAGTACTACAGACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
14122191 TTATAATAGA
Statistics
Matches: 115, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
98 1 0.01
99 70 0.61
100 40 0.35
101 4 0.03
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCCGATACACG
Found at i:14126719 original size:51 final size:51
Alignment explanation
Indices: 14126643--14126762 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 51
14126633 AACTAAGTTA
* *
14126643 TCCGGATAAAATATGAAGCTCTTGTTAAAGCTAGAGCAAC-AGAGTAATTAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAG-GTAATAAT
* *
14126694 TCCGGATGAAATATGAAGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAGGTAATAAT
* *
14126745 TCTGGATGAAGTATGAAG
1 TCCGGATGAAATATGAAG
14126763 TAAGTTTGAG
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
51 60 0.97
52 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAGGTAATAAT
Found at i:14127571 original size:26 final size:23
Alignment explanation
Indices: 14127510--14127563 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
14127500 TATGATTATT
14127510 TTCAGAATATGAATAATAAATTA
1 TTCAGAATATGAATAATAAATTA
14127533 TTCAGAATATGAATAATAAATTA
1 TTCAGAATATGAATAATAAATTA
14127556 TTCAGAAT
1 TTCAGAAT
14127564 TATCTGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (23 bp):
TTCAGAATATGAATAATAAATTA
Found at i:14131724 original size:3 final size:3
Alignment explanation
Indices: 14131718--14131742 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14131708 ACAACAACAA
14131718 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
14131743 TGCAAACAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:14134364 original size:101 final size:99
Alignment explanation
Indices: 14134258--14134556 Score: 304
Period size: 91 Copynumber: 3.1 Consensus size: 99
14134248 ATTTAATATT
14134258 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
1 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
14134323 ATCATTATTAAAT-TA--T-AT-TTAA-TA--TT-
66 AT-ATTATTAAATATATTTAATATTAATTATTTTA
14134349 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
1 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
*
14134414 ATTATTATTAAATTATATTTAATAATAATTATTTTA
66 A-TATTATTAAA-TATATTTAATATTAATTATTTTA
** * * * *
14134450 AATTA-TACAAATTCATATAAGAAAATTTAT-TAGGTATAA-TTATTAT--A-AATTTTATTAAA
1 AATTATTTTAAATT-ATAT----AAATTCATATAAG-AAAATTTATTATCAAGAATTTTATGAAA
* * *
14134509 TCATATATTTTAATTAAAATATATTTAATATTAATTATTTCA
60 TTATATATATT-ATT-AAATATATTTAATATTAATTATTTTA
14134551 AATTAT
1 AATTAT
14134557 ATTTTATAGT
Statistics
Matches: 177, Mismatches: 11, Indels: 29
0.82 0.05 0.13
Matches are distributed among these distances:
91 75 0.42
92 2 0.01
93 2 0.01
95 1 0.01
96 2 0.01
97 3 0.02
98 2 0.01
100 11 0.06
101 55 0.31
102 4 0.02
104 10 0.06
105 10 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (99 bp):
AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
ATATTATTAAATATATTTAATATTAATTATTTTA
Found at i:14134500 original size:91 final size:91
Alignment explanation
Indices: 14134223--14134481 Score: 491
Period size: 91 Copynumber: 2.8 Consensus size: 91
14134213 TTAAATGTAT
14134223 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
14134288 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
14134314 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
14134379 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
* * *
14134405 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
14134470 GAAAATTTATTA
66 GAAAATTTATTA
14134482 GGTATAATTA
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 165 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:14134652 original size:16 final size:16
Alignment explanation
Indices: 14134631--14134672 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14134621 TTATTAAATT
*
14134631 ATATATTTTAATTATA
1 ATATATTTTAATAATA
14134647 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
14134662 AT-TATGTTTAA
1 ATATAT-TTTAA
14134673 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:14134657 original size:15 final size:15
Alignment explanation
Indices: 14134622--14134663 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14134612 TTAAGAATTT
*
14134622 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14134636 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14134650 TATTTAATAATAAT
1 TATTTAATTATAAT
14134664 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14134913 original size:16 final size:16
Alignment explanation
Indices: 14134888--14134955 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
14134878 GATTTGCTAT
*
14134888 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
14134904 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
14134920 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
*
14134936 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
14134952 TACA
1 TACA
14134956 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:14138080 original size:21 final size:21
Alignment explanation
Indices: 14138024--14138081 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
14138014 ATAATATTTA
*
14138024 AAAATA-TATATTTTTACATAG
1 AAAATATTA-ATTTTTAAATAG
* *
14138045 AAAAT-TTAAAGTTTTAAATAT
1 AAAATATT-AATTTTTAAATAG
14138066 AAAATATTAATTTTTA
1 AAAATATTAATTTTTA
14138082 CCATTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
21 27 0.90
22 3 0.10
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (21 bp):
AAAATATTAATTTTTAAATAG
Found at i:14140290 original size:20 final size:20
Alignment explanation
Indices: 14140265--14140307 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
14140255 CCTGAAAGAC
14140265 TTAATACAGCTCACATGATG
1 TTAATACAGCTCACATGATG
14140285 TTAATACAGCTCACATGATG
1 TTAATACAGCTCACATGATG
14140305 TTA
1 TTA
14140308 TTTCAAGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (20 bp):
TTAATACAGCTCACATGATG
Found at i:14141978 original size:45 final size:45
Alignment explanation
Indices: 14141925--14142082 Score: 169
Period size: 45 Copynumber: 3.5 Consensus size: 45
14141915 CTTCAAAATT
*
14141925 AGTATCATTTTCAGATGCAGGATCAATCCTCTTTTCTTCCAAAAG
1 AGTATCATTTTCAGATGCAAGATCAATCCTCTTTTCTTCCAAAAG
* * *
14141970 AGTATCATTATT-TGATGTAAGATCAATTCTCTTTTCTTCCAAAAG
1 AGTATCATT-TTCAGATGCAAGATCAATCCTCTTTTCTTCCAAAAG
* ** * *
14142015 AGTAT--TGTGAATGGATGCAAGATCAATCCTCTTCTCTTCCAAAAT
1 AGTATCATTTTCA--GATGCAAGATCAATCCTCTTTTCTTCCAAAAG
* *
14142060 AGTATCAGTTTCAGATGTAAGAT
1 AGTATCATTTTCAGATGCAAGAT
14142083 TAATATTGTT
Statistics
Matches: 91, Mismatches: 16, Indels: 12
0.76 0.13 0.10
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
45 85 0.93
46 2 0.02
47 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (45 bp):
AGTATCATTTTCAGATGCAAGATCAATCCTCTTTTCTTCCAAAAG
Found at i:14142099 original size:90 final size:90
Alignment explanation
Indices: 14141938--14142103 Score: 228
Period size: 90 Copynumber: 1.8 Consensus size: 90
14141928 ATCATTTTCA
* * **
14141938 GATGCAGGATCAATCCTCTTTTCTTCCAAAAGAGTATCATTATTTGATGTAAGATCAATTCTCTT
1 GATGCAAGATCAATCCTCTTCTCTTCCAAAAGAGTATCATTATCAGATGTAAGATCAATTCTCTT
*
14142003 TTCTTCCAAAAGAGTATTGTGAATG
66 TCCTTCCAAAAGAGTATTGTGAATG
* * *
14142028 GATGCAAGATCAATCCTCTTCTCTTCCAAAATAGTATCAGTT-TCAGATGTAAGATTAATAT-TG
1 GATGCAAGATCAATCCTCTTCTCTTCCAAAAGAGTATCA-TTATCAGATGTAAGATCAAT-TCTC
14142091 TTTCCTTCCAAAA
64 TTTCCTTCCAAAA
14142104 CAACCTGATC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
90 63 0.95
91 3 0.05
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (90 bp):
GATGCAAGATCAATCCTCTTCTCTTCCAAAAGAGTATCATTATCAGATGTAAGATCAATTCTCTT
TCCTTCCAAAAGAGTATTGTGAATG
Found at i:14146302 original size:23 final size:23
Alignment explanation
Indices: 14146276--14146323 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
14146266 TAAAATAAAG
*
14146276 AGTTTATTGGTAT-CAAAATTGTC
1 AGTTAATTGG-ATGCAAAATTGTC
*
14146299 AGTTAATTGGATGCAAAATTTTC
1 AGTTAATTGGATGCAAAATTGTC
14146322 AG
1 AG
14146324 ATTTGAGGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (23 bp):
AGTTAATTGGATGCAAAATTGTC
Found at i:14149984 original size:3 final size:3
Alignment explanation
Indices: 14149978--14150009 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14149968 GAGGAGGAGG
14149978 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
14150010 CTTTGGATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:14150373 original size:4 final size:4
Alignment explanation
Indices: 14150364--14150416 Score: 106
Period size: 4 Copynumber: 13.2 Consensus size: 4
14150354 TAAATATTCC
14150364 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14150412 TGTA T
1 TGTA T
14150417 AATGGTGGCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:14161286 original size:21 final size:20
Alignment explanation
Indices: 14161238--14161287 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
14161228 AGTTCAACCA
*
14161238 AAATTTTA-ATTTTAATTTT
1 AAATTTTATATTTTAATTGT
*
14161257 ATAAATTTATATTTTAATATGT
1 A-AATTTTATATTTTAAT-TGT
14161279 AAATTTTAT
1 AAATTTTAT
14161288 TATCACTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 6 0.24
21 15 0.60
22 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
AAATTTTATATTTTAATTGT
Found at i:14164059 original size:38 final size:38
Alignment explanation
Indices: 14164017--14164092 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
14164007 TTAAGCAGTG
14164017 ATTCCCATTGGTGAAGATAAAGCAAGCAAATAATCAAA
1 ATTCCCATTGGTGAAGATAAAGCAAGCAAATAATCAAA
14164055 ATTCCCATTGGTGAAGATAAAGCAAGCAAATAATCAAA
1 ATTCCCATTGGTGAAGATAAAGCAAGCAAATAATCAAA
14164093 CTCAACACAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (38 bp):
ATTCCCATTGGTGAAGATAAAGCAAGCAAATAATCAAA
Found at i:14164769 original size:17 final size:18
Alignment explanation
Indices: 14164749--14164783 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14164739 TATGGAATTT
*
14164749 CCAATTA-CTTGGACCTC
1 CCAATTATCATGGACCTC
14164766 CCAATTATCATGGACCTC
1 CCAATTATCATGGACCTC
14164784 AAAGAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.34, G:0.11, T:0.29
Consensus pattern (18 bp):
CCAATTATCATGGACCTC
Found at i:14166717 original size:38 final size:39
Alignment explanation
Indices: 14166552--14166754 Score: 374
Period size: 39 Copynumber: 5.3 Consensus size: 39
14166542 CCAGCACGAA
14166552 ACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGAT
1 ACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGAT
14166591 ACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGAT
1 ACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGAT
14166630 ACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGAT
1 ACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGAT
*
14166669 ACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCC-GAT
1 ACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGAT
*
14166707 ACATTTCCAGCACGAAGCCTGCGGGTCTTTAG-CCGGAT
1 ACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGAT
14166745 ACATTTCCAG
1 ACATTTCCAG
14166755 TGTCTTGCTT
Statistics
Matches: 162, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
37 2 0.01
38 48 0.30
39 112 0.69
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.22
Consensus pattern (39 bp):
ACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGAT
Found at i:14172909 original size:39 final size:39
Alignment explanation
Indices: 14172855--14172983 Score: 231
Period size: 39 Copynumber: 3.3 Consensus size: 39
14172845 ACCAGCACGA
*
14172855 ATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGG
1 ATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGG
*
14172894 ATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCTG
1 ATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGG
*
14172933 ATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCTCGG
1 ATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGG
14172972 ATACATTTCCAG
1 ATACATTTCCAG
14172984 TGTCTTGCTT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 86 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.25
Consensus pattern (39 bp):
ATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGG
Found at i:14176725 original size:21 final size:21
Alignment explanation
Indices: 14176691--14176734 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
14176681 AAATCTCTAC
*
14176691 AATTTCTCCCTAAAGCTCTCA
1 AATTTCTCACTAAAGCTCTCA
* **
14176712 AATTTCTCATTAAATTTCTCA
1 AATTTCTCACTAAAGCTCTCA
14176733 AA
1 AA
14176735 GCTCTTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCTCACTAAAGCTCTCA
Found at i:14178558 original size:18 final size:18
Alignment explanation
Indices: 14178535--14178578 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
14178525 TAACCAAGTG
* *
14178535 TGTATCTTATCCCTTATA
1 TGTATCCTAACCCTTATA
14178553 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
14178571 TGTTTCCT
1 TGTATCCT
14178579 TTTCCCAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.25, G:0.07, T:0.48
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:14182620 original size:27 final size:29
Alignment explanation
Indices: 14182590--14182656 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 29
14182580 CAGCCAGGTT
*
14182590 TAATTAATTT-TAACCCTAAACCCTAA-A
1 TAATTAATTTAAAACCCTAAACCCTAATA
* * *
14182617 TAATTTATTTAAAACCCTAAACCTTAATT
1 TAATTAATTTAAAACCCTAAACCCTAATA
14182646 TAATTAATTTA
1 TAATTAATTTA
14182657 TTTAAACACC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 9 0.27
28 14 0.42
29 10 0.30
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.40
Consensus pattern (29 bp):
TAATTAATTTAAAACCCTAAACCCTAATA
Found at i:14182654 original size:33 final size:34
Alignment explanation
Indices: 14182617--14182689 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
14182607 AAACCCTAAA
*
14182617 TAATTTATTTAAA-ACCCT-AAACCTTAATTTAAT
1 TAATTTATTTAAACACCATAAAACC-TAATTTAAT
*
14182650 TAATTTATTTAAACACCATAAAACCTAGTTTAAT
1 TAATTTATTTAAACACCATAAAACCTAATTTAAT
*
14182684 TTATTT
1 TAATTT
14182690 GAAACCTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
33 13 0.37
34 17 0.49
35 5 0.14
ACGTcount: A:0.41, C:0.14, G:0.01, T:0.44
Consensus pattern (34 bp):
TAATTTATTTAAACACCATAAAACCTAATTTAAT
Found at i:14182694 original size:21 final size:22
Alignment explanation
Indices: 14182668--14182717 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
14182658 TTAAACACCA
*
14182668 TAAAACC-TAGTTTAATTTATT
1 TAAAACCTTAATTTAATTTATT
* *
14182689 TGAAACCTTAATTTTATTTATT
1 TAAAACCTTAATTTAATTTATT
14182711 TAAAACC
1 TAAAACC
14182718 CTAGAACCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (22 bp):
TAAAACCTTAATTTAATTTATT
Found at i:14184815 original size:39 final size:39
Alignment explanation
Indices: 14184641--14184799 Score: 255
Period size: 39 Copynumber: 4.1 Consensus size: 39
14184631 TGTGAATATA
*
14184641 TATATGCGAGAATTATATCCGGACTTCAGGTCCGTAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
14184680 TATAAGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* * *
14184719 TATATGCGAGAATTATATCCGGACTTTATGTTCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
14184758 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
14184797 TAT
1 TAT
14184800 GTGCTGGACA
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:14191373 original size:49 final size:49
Alignment explanation
Indices: 14191311--14191417 Score: 117
Period size: 48 Copynumber: 2.2 Consensus size: 49
14191301 GCTTGAACTT
* * * *
14191311 CCCGATATATGGCTATCCGGAGCTTCCTGATTAATGGCTCTTCTAAGCTA
1 CCCGTTATATGGCTAGCAGGAGCTTCCTGATT-ATGGCTCTTATAAGCTA
* * * * *
14191361 CCCGTTAT-TGGCTCGCATGAGCTTCTTGATTATGGCTCTTATGAGCTT
1 CCCGTTATATGGCTAGCAGGAGCTTCCTGATTATGGCTCTTATAAGCTA
14191409 CCCGTTATA
1 CCCGTTATA
14191418 CAACCCAGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
48 22 0.47
49 18 0.38
50 7 0.15
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (49 bp):
CCCGTTATATGGCTAGCAGGAGCTTCCTGATTATGGCTCTTATAAGCTA
Found at i:14192746 original size:43 final size:44
Alignment explanation
Indices: 14192698--14192792 Score: 129
Period size: 43 Copynumber: 2.2 Consensus size: 44
14192688 ATACCCACAT
* * *
14192698 GGCTTGTGACACAGGTGTGTCTCCCCACACGTCCTGA-CACACG
1 GGCTTGTGAAACAAGTGTGTCTCCCCACACGGCCTGACCACACG
* * *
14192741 GGCTTGTGAAACAAGTGTGTCTCCCCATACGGCTTGACCATACG
1 GGCTTGTGAAACAAGTGTGTCTCCCCACACGGCCTGACCACACG
14192785 GGCTTGTG
1 GGCTTGTG
14192793 TCCCTTACAC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
43 32 0.71
44 13 0.29
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.24
Consensus pattern (44 bp):
GGCTTGTGAAACAAGTGTGTCTCCCCACACGGCCTGACCACACG
Found at i:14208687 original size:27 final size:28
Alignment explanation
Indices: 14208647--14208758 Score: 108
Period size: 27 Copynumber: 4.1 Consensus size: 28
14208637 AGGAAGCGTC
*
14208647 CTGGTGGCTATGCCACAATTATCT-TAT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
*
14208674 CTGGTGGTTCTGCCACATATT-TCTGT-T
1 CTGGTGGCTCTGCCACA-ATTATCTGTAT
* ***
14208701 CTAGTGGCTCTGCCATGTTTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
* *
14208729 CTGGTGACTCTGTCAC-ATTATCTGT-T
1 CTGGTGGCTCTGCCACAATTATCTGTAT
14208755 CTGG
1 CTGG
14208759 AAGCCATGCT
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
26 7 0.10
27 45 0.65
28 17 0.25
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.41
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAATTATCTGTAT
Found at i:14215497 original size:33 final size:33
Alignment explanation
Indices: 14215455--14215520 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
14215445 TTTCTTCTTG
*
14215455 ACATTCCAGCTCCTATCCAGCAACAAAACACTC
1 ACATTCCAGCTCCTATCCAACAACAAAACACTC
* *
14215488 ACATTCCAGCTCCTGTCCAACAACCAAACACTC
1 ACATTCCAGCTCCTATCCAACAACAAAACACTC
14215521 CCACTCAGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.41, G:0.06, T:0.18
Consensus pattern (33 bp):
ACATTCCAGCTCCTATCCAACAACAAAACACTC
Found at i:14219337 original size:12 final size:12
Alignment explanation
Indices: 14219318--14219363 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
14219308 ACAAGTATGA
14219318 TTTT-TAGTAGT
1 TTTTATAGTAGT
*
14219329 TTTTATAGTAAT
1 TTTTATAGTAGT
*
14219341 TTATTTTAGTAGT
1 TT-TTATAGTAGT
14219354 TTTTATAGTA
1 TTTTATAGTA
14219364 ATTTATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 4 0.14
12 15 0.52
13 10 0.34
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (12 bp):
TTTTATAGTAGT
Found at i:14219347 original size:25 final size:25
Alignment explanation
Indices: 14219319--14219374 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
14219309 CAAGTATGAT
14219319 TTTTAGTAGTTTTTATAGTAATTTA
1 TTTTAGTAGTTTTTATAGTAATTTA
14219344 TTTTAGTAGTTTTTATAGTAATTTA
1 TTTTAGTAGTTTTTATAGTAATTTA
14219369 TATTTA
1 T-TTTA
14219375 ATAAAGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (25 bp):
TTTTAGTAGTTTTTATAGTAATTTA
Found at i:14222487 original size:12 final size:12
Alignment explanation
Indices: 14222470--14222494 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14222460 CATGTTGAAT
14222470 ATGACTTTAAGA
1 ATGACTTTAAGA
14222482 ATGACTTTAAGA
1 ATGACTTTAAGA
14222494 A
1 A
14222495 CTATCTTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
ATGACTTTAAGA
Found at i:14226655 original size:46 final size:46
Alignment explanation
Indices: 14226603--14226824 Score: 245
Period size: 46 Copynumber: 4.8 Consensus size: 46
14226593 TATTTGGGCA
14226603 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
14226649 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGCTGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
14226695 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* *
14226740 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * ** *
14226788 CCCGAGCTCGTTGAGTTGAGTTTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14226825 GCGGGTTACA
Statistics
Matches: 149, Mismatches: 18, Indels: 18
0.81 0.10 0.10
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
45 3 0.02
46 104 0.70
47 26 0.17
48 3 0.02
50 4 0.03
51 3 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:14226771 original size:93 final size:93
Alignment explanation
Indices: 14226649--14226817 Score: 250
Period size: 93 Copynumber: 1.8 Consensus size: 93
14226639 GATGCGAACG
* * **
14226649 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGCTGTGAACGTTCGAACTCGTTGAGTTGA
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGA
14226714 GTCCGAGTTCGTGAGATGTAACTAGGCA
66 GTCCGAGTTCGTGAGATGTAACTAGGCA
* *
14226742 TCCGAGCTCGTTGAGTTGAG-TCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTTC-GAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
**
14226806 AGTTTGAGTTCG
65 AGTCCGAGTTCG
14226818 CTTATGGGCG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 65 0.97
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (93 bp):
TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGA
GTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:14228914 original size:19 final size:19
Alignment explanation
Indices: 14228858--14228916 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
14228848 AAAAACATAA
*
14228858 AAATA-TTTTATTAATATT
1 AAATATTTTTATTAATTTT
*
14228876 -AATATTTTAAATTAGA-TTT
1 AAATATTTT-TATTA-ATTTT
14228895 AAATATTTTTATTAATTTT
1 AAATATTTTTATTAATTTT
14228914 AAA
1 AAA
14228917 CAATAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
17 4 0.12
18 4 0.12
19 16 0.48
20 9 0.27
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
AAATATTTTTATTAATTTT
Found at i:14229646 original size:11 final size:11
Alignment explanation
Indices: 14229582--14229659 Score: 62
Period size: 11 Copynumber: 7.5 Consensus size: 11
14229572 TTAACTCAAC
14229582 TTAAATTTAAA
1 TTAAATTTAAA
14229593 -T-AA-TTAAA
1 TTAAATTTAAA
*
14229601 TTAAATTTCGAA
1 TTAAATTT-AAA
*
14229613 CTAAATTTAAA
1 TTAAATTTAAA
*
14229624 TTTAA---AAA
1 TTAAATTTAAA
14229632 TTAATATTT-AA
1 TTAA-ATTTAAA
14229643 TTAAATTTAAA
1 TTAAATTTAAA
14229654 TTAAAT
1 TTAAAT
14229660 ATCAAACTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
8 11 0.21
9 4 0.08
10 7 0.13
11 21 0.40
12 9 0.17
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:14234700 original size:15 final size:15
Alignment explanation
Indices: 14234680--14234710 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14234670 CCTTAGAAAG
14234680 TTAAAACCCAAACCA
1 TTAAAACCCAAACCA
14234695 TTAAAACCCAAACCA
1 TTAAAACCCAAACCA
14234710 T
1 T
14234711 CCGTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (15 bp):
TTAAAACCCAAACCA
Found at i:14239814 original size:25 final size:25
Alignment explanation
Indices: 14239763--14239834 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 25
14239753 CACTCTCTCA
* * * *
14239763 AGCCATATAACGGGATGCTCATGTG
1 AGCCATATAACAGGAAGCTTATTTG
* * *
14239788 AGCCATGTAATAGGAGGCTTATTTG
1 AGCCATATAACAGGAAGCTTATTTG
*
14239813 AGCCTTATAACAGGAAGCTTAT
1 AGCCATATAACAGGAAGCTTAT
14239835 AAGAACCATA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTTATTTG
Found at i:14240005 original size:26 final size:25
Alignment explanation
Indices: 14239947--14240013 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
14239937 GCGATATTGG
* *
14239947 GAAGCTCATAAAGAGCCTTTAATTGA
1 GAAGCTCAT-AAGAGCCTATAATAGA
14239973 GAAGCTCATGAAGAGCCATATAATAG-
1 GAAGCTCAT-AAGAGCC-TATAATAGA
*
14239999 GATGCTCATAAGAGC
1 GAAGCTCATAAGAGC
14240014 TGTGGTGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 6 0.17
26 24 0.67
27 6 0.17
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (25 bp):
GAAGCTCATAAGAGCCTATAATAGA
Found at i:14241013 original size:31 final size:31
Alignment explanation
Indices: 14240977--14241039 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
14240967 TTAGGAAAGA
14240977 TGGTGAAAATGATGATATTTTCTTATTTTAT
1 TGGTGAAAATGATGATATTTTCTTATTTTAT
14241008 TGGTGAAAATGATGATATTTTCTTATTTTAT
1 TGGTGAAAATGATGATATTTTCTTATTTTAT
14241039 T
1 T
14241040 AATTTATCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (31 bp):
TGGTGAAAATGATGATATTTTCTTATTTTAT
Found at i:14241420 original size:17 final size:17
Alignment explanation
Indices: 14241398--14241430 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
14241388 TGAAAACAGA
14241398 CTGTTACAACTCTCCCG
1 CTGTTACAACTCTCCCG
14241415 CTGTTACAACTCTCCC
1 CTGTTACAACTCTCCC
14241431 ATTTTAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.42, G:0.09, T:0.30
Consensus pattern (17 bp):
CTGTTACAACTCTCCCG
Found at i:14243895 original size:46 final size:46
Alignment explanation
Indices: 14243827--14244092 Score: 251
Period size: 46 Copynumber: 5.7 Consensus size: 46
14243817 TTGGGCATCT
14243827 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * * * *
14243873 AAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCC
* *
14243920 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * *
14243966 GAACTCGTTGAGTTGAGTCTGAGTTCA-TGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCC
* * *
14244013 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* *
14244059 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14244093 GCGGGTTACA
Statistics
Matches: 179, Mismatches: 23, Indels: 36
0.75 0.10 0.15
Matches are distributed among these distances:
42 6 0.03
43 8 0.04
45 6 0.03
46 85 0.47
47 54 0.30
48 6 0.03
50 8 0.04
51 6 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
Found at i:14243932 original size:93 final size:93
Alignment explanation
Indices: 14243820--14244085 Score: 442
Period size: 93 Copynumber: 2.9 Consensus size: 93
14243810 CGGATATTTG
* * * *
14243820 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
14243885 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
14243913 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
* *
14243978 TTGAGTCTGAGTTCATGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
14244006 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
14244071 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
14244086 CTTATGGGCG
Statistics
Matches: 160, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 160 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:14251073 original size:46 final size:47
Alignment explanation
Indices: 14251013--14251125 Score: 160
Period size: 46 Copynumber: 2.4 Consensus size: 47
14251003 TTACACTGAC
* *
14251013 ACATCTC-ATAGCCGATGCATGTCCCAGACATGTCTTACACCGGCT-T
1 ACATCTCAAT-GCCGATGCATGTCCCAGACATGTCCTACACCAGCTCT
*
14251059 ACATCTCAATGCCGATGCATGTCCCAGACATGTCCTACACTAGCTCT
1 ACATCTCAATGCCGATGCATGTCCCAGACATGTCCTACACCAGCTCT
*
14251106 -GATCTCAATGCCGATGCATG
1 ACATCTCAATGCCGATGCATG
14251126 GCCTTACACT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
46 58 0.95
47 3 0.05
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (47 bp):
ACATCTCAATGCCGATGCATGTCCCAGACATGTCCTACACCAGCTCT
Found at i:14257464 original size:25 final size:25
Alignment explanation
Indices: 14257395--14257466 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 25
14257385 CACTCTCTCA
* * * *
14257395 AGCCATATAATGGGATGCTCATGTG
1 AGCCATATAATAGGAAGCTTATCTG
* *
14257420 AGCCATGTAATAGGAGGCTTATCTG
1 AGCCATATAATAGGAAGCTTATCTG
*
14257445 AGCCTTATAATAGGAAGCTTAT
1 AGCCATATAATAGGAAGCTTAT
14257467 AAGAACCATA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (25 bp):
AGCCATATAATAGGAAGCTTATCTG
Found at i:14257632 original size:26 final size:25
Alignment explanation
Indices: 14257577--14257644 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 25
14257567 GAGCTATATT
* *
14257577 GGGAAGCTCATAAAGAGCCTTTAATT
1 GGGAAGCTCAT-AAGAGCCTATAATC
14257603 GGGAAGCTCATGAAGAGCCATATAA-C
1 GGGAAGCTCAT-AAGAGCC-TATAATC
*
14257629 GGGACGCTCATAAGAG
1 GGGAAGCTCATAAGAG
14257645 ATGTGGTGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 5 0.14
26 28 0.76
27 4 0.11
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (25 bp):
GGGAAGCTCATAAGAGCCTATAATC
Found at i:14260731 original size:32 final size:32
Alignment explanation
Indices: 14260695--14260757 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
14260685 AAATTTAATT
*
14260695 TAAGTATTT-ATTT-ATTTTAATAATGAAAAAAA
1 TAAGTATTTAATTTAAATTTAA-AA-GAAAAAAA
14260727 TAAGTATTTAATTTAAATTTAAAAGAAAAAA
1 TAAGTATTTAATTTAAATTTAAAAGAAAAAA
14260758 GAAAACAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 16 0.57
33 6 0.21
34 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (32 bp):
TAAGTATTTAATTTAAATTTAAAAGAAAAAAA
Found at i:14261036 original size:23 final size:23
Alignment explanation
Indices: 14261005--14261054 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
14260995 ATTCACGTCA
* *
14261005 CCACATGTCACTTTATTATACGT
1 CCACATGTCACTTCATAATACGT
*
14261028 CCACTTGTCACTTCATAATACGT
1 CCACATGTCACTTCATAATACGT
14261051 CCAC
1 CCAC
14261055 GTGCCAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.32, G:0.08, T:0.34
Consensus pattern (23 bp):
CCACATGTCACTTCATAATACGT
Found at i:14261368 original size:17 final size:17
Alignment explanation
Indices: 14261346--14261397 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
14261336 TTCACAGAAT
*
14261346 CAAATCTTTTAAGATTA
1 CAAATCTTCTAAGATTA
* *
14261363 CAAATCCTCTAAGATTG
1 CAAATCTTCTAAGATTA
* *
14261380 CATATCTTCGAAGATTA
1 CAAATCTTCTAAGATTA
14261397 C
1 C
14261398 TTCCCATACT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (17 bp):
CAAATCTTCTAAGATTA
Found at i:14268480 original size:26 final size:27
Alignment explanation
Indices: 14268451--14268510 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
14268441 TGATATACTG
**
14268451 AATTTTACCG-GGAGTAAAATGGTCAA
1 AATTTTACCGAGGAGTAAAATCATCAA
** *
14268477 AATTTTATTGAGGGGTAAAATCATCAA
1 AATTTTACCGAGGAGTAAAATCATCAA
14268504 AATTTTA
1 AATTTTA
14268511 TTTGAGTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.33
Consensus pattern (27 bp):
AATTTTACCGAGGAGTAAAATCATCAA
Found at i:14271788 original size:31 final size:31
Alignment explanation
Indices: 14271750--14271810 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
14271740 TTGAATCTAC
*
14271750 TGAAACATATATGCTTTCAAGTCATACCTAT
1 TGAAACATATATGCTTTCAAGCCATACCTAT
* *
14271781 TGAAACATATGTGCTTTCGAGCCATACCTA
1 TGAAACATATATGCTTTCAAGCCATACCTA
14271811 CTAATCCCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (31 bp):
TGAAACATATATGCTTTCAAGCCATACCTAT
Found at i:14271841 original size:40 final size:39
Alignment explanation
Indices: 14271788--14271889 Score: 116
Period size: 40 Copynumber: 2.6 Consensus size: 39
14271778 TATTGAAACA
*
14271788 TATGTGCTTTCGAGCCATACCTACTAATCCCACTGAAATG
1 TATGTGCTATCGAGCCATACCTACTAATCCCACTGAAA-G
* * * * *
14271828 TATGTGCTATCGAGCCTTACCTATTGATTCTACTGAAAG
1 TATGTGCTATCGAGCCATACCTACTAATCCCACTGAAAG
*
14271867 TATGCT-TTATCGAGCCATACCTA
1 TATG-TGCTATCGAGCCATACCTA
14271890 ATGATTCTAC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 20 0.38
40 33 0.62
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (39 bp):
TATGTGCTATCGAGCCATACCTACTAATCCCACTGAAAG
Found at i:14272003 original size:37 final size:38
Alignment explanation
Indices: 14271907--14272003 Score: 128
Period size: 38 Copynumber: 2.6 Consensus size: 38
14271897 TACTAAAAGT
** *
14271907 AGCTCAAACGAGAAAATTTTACTGTTATACTGATGTGA
1 AGCTCAAATAAGAAAATTCTACTGTTATACTGATGTGA
14271945 AGCTCAAATAAGAAAATTCTACTGTTATACTGAATG-G-
1 AGCTCAAATAAGAAAATTCTACTGTTATACTG-ATGTGA
14271982 AGCTCAAATAAGCAAAA-TCTAC
1 AGCTCAAATAAG-AAAATTCTAC
14272004 ATATACACTG
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
37 17 0.31
38 34 0.63
39 3 0.06
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (38 bp):
AGCTCAAATAAGAAAATTCTACTGTTATACTGATGTGA
Found at i:14272014 original size:37 final size:37
Alignment explanation
Indices: 14271907--14272015 Score: 98
Period size: 38 Copynumber: 2.9 Consensus size: 37
14271897 TACTAAAAGT
** * * *
14271907 AGCTCAAACGAGAAAATTTTACTGTTATACTG-ATGTG
1 AGCTCAAATAAGAAAATTCTACTGATACACTGAATG-G
* *
14271944 AAGCTCAAATAAGAAAATTCTACTGTTATACTGAATGG
1 -AGCTCAAATAAGAAAATTCTACTGATACACTGAATGG
14271982 AGCTCAAATAAGCAAAA-TCTACAT-ATACACTGAA
1 AGCTCAAATAAG-AAAATTCTAC-TGATACACTGAA
14272016 ATAAAGTTCA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
37 25 0.40
38 35 0.56
39 3 0.05
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.28
Consensus pattern (37 bp):
AGCTCAAATAAGAAAATTCTACTGATACACTGAATGG
Found at i:14278533 original size:15 final size:15
Alignment explanation
Indices: 14278509--14278540 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14278499 TATGCATGCA
*
14278509 AAATATAAAAGACAT
1 AAATACAAAAGACAT
14278524 AAATACAAAAGACAT
1 AAATACAAAAGACAT
14278539 AA
1 AA
14278541 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:14279266 original size:17 final size:17
Alignment explanation
Indices: 14279246--14279290 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
14279236 AATCAAATAT
14279246 TCTAAGATTACAAATTC
1 TCTAAGATTACAAATTC
* * *
14279263 TCTAAGATTGCATATTT
1 TCTAAGATTACAAATTC
*
14279280 TCGAAGATTAC
1 TCTAAGATTAC
14279291 TTCCCATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (17 bp):
TCTAAGATTACAAATTC
Found at i:14280989 original size:20 final size:19
Alignment explanation
Indices: 14280966--14281023 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
14280956 TTTTGGTACT
14280966 CTCTTGTAATTTTTTGTATA
1 CTCTTG-AATTTTTTGTATA
* *
14280986 CTCTAAGAATTTTTGGTATA
1 CTCT-TGAATTTTTTGTATA
14281006 CT-TTGGAAATTTTTTGTA
1 CTCTT-G-AATTTTTTGTA
14281024 GTCTCTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 2 0.06
20 28 0.90
21 1 0.03
ACGTcount: A:0.24, C:0.09, G:0.14, T:0.53
Consensus pattern (19 bp):
CTCTTGAATTTTTTGTATA
Found at i:14281265 original size:20 final size:20
Alignment explanation
Indices: 14281242--14281283 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
14281232 TGCCCTAAAC
*
14281242 ATTTTTAGTATACTTTCGAA
1 ATTTTTAGTATACTCTCGAA
* *
14281262 ATTTTTTGTATTCTCTCGAA
1 ATTTTTAGTATACTCTCGAA
14281282 AT
1 AT
14281284 AAAATTTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.12, G:0.10, T:0.52
Consensus pattern (20 bp):
ATTTTTAGTATACTCTCGAA
Found at i:14281464 original size:19 final size:19
Alignment explanation
Indices: 14281400--14281467 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 19
14281390 TAATATTCCT
14281400 TCATATTTTTTG-ATTATCTC
1 TCATATTTTTTGTATT-T-TC
* *
14281420 TAATATTTTTTTGATACTTTC
1 TCATA-TTTTTTG-TATTTTC
14281441 T--TATTTTTTGTATTTTC
1 TCATATTTTTTGTATTTTC
14281458 TCATATTTTT
1 TCATATTTTT
14281468 ATATGCTTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
17 7 0.17
18 7 0.17
19 9 0.22
20 4 0.10
21 10 0.25
22 1 0.03
23 2 0.05
ACGTcount: A:0.19, C:0.10, G:0.04, T:0.66
Consensus pattern (19 bp):
TCATATTTTTTGTATTTTC
Found at i:14281783 original size:21 final size:21
Alignment explanation
Indices: 14281736--14281784 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
14281726 TATTCTCCTG
*
14281736 TAATTTTTTTGTAGTCTCTTA
1 TAATTTTTTTGTAGTCTCTCA
*
14281757 T-GTTTTTTT-TAGTCTCTCA
1 TAATTTTTTTGTAGTCTCTCA
14281776 TCAATTTTT
1 T-AATTTTT
14281785 GCATTTCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 10 0.43
20 7 0.30
21 6 0.26
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.63
Consensus pattern (21 bp):
TAATTTTTTTGTAGTCTCTCA
Found at i:14281854 original size:6 final size:7
Alignment explanation
Indices: 14281836--14281860 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14281826 TTTTTGCATG
14281836 ATTTTTT
1 ATTTTTT
14281843 ATTTTTT
1 ATTTTTT
14281850 ATTTTTT
1 ATTTTTT
14281857 ATTT
1 ATTT
14281861 CCTTATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
ATTTTTT
Found at i:14281879 original size:20 final size:20
Alignment explanation
Indices: 14281865--14281947 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
14281855 TTATTTCCTT
14281865 ATAATATTTAGTATTCCCTC
1 ATAATATTTAGTATTCCCTC
* *
14281885 ATAATATTTGGTACTCCCTC
1 ATAATATTTAGTATTCCCTC
* * *
14281905 ATATTTTTTTAATATTCCCT-
1 ATA-ATATTTAGTATTCCCTC
*
14281925 -T-ATATTTAGTATTCCCTT
1 ATAATATTTAGTATTCCCTC
14281943 ATAAT
1 ATAAT
14281948 TTTTGATATT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
17 13 0.27
19 2 0.04
20 23 0.47
21 11 0.22
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (20 bp):
ATAATATTTAGTATTCCCTC
Found at i:14281937 original size:17 final size:17
Alignment explanation
Indices: 14281912--14281945 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14281902 CTCATATTTT
14281912 TTTAATATTCCCTTATA
1 TTTAATATTCCCTTATA
*
14281929 TTTAGTATTCCCTTATA
1 TTTAATATTCCCTTATA
14281946 ATTTTTGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.18, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAATATTCCCTTATA
Found at i:14282021 original size:21 final size:20
Alignment explanation
Indices: 14281979--14282035 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
14281969 TGACACTCCC
**
14281979 TCATATTTTTAGGTATTTTTT
1 TCATATTTTT-GGTATGATTT
14282000 TCATAGTTTTTGGTATGATTT
1 TCATA-TTTTTGGTATGATTT
*
14282021 T-AGAATTTTTGGTAT
1 TCA-TATTTTTGGTAT
14282036 TGTTTTGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 11 0.35
21 15 0.48
22 5 0.16
ACGTcount: A:0.21, C:0.04, G:0.16, T:0.60
Consensus pattern (20 bp):
TCATATTTTTGGTATGATTT
Found at i:14282041 original size:20 final size:21
Alignment explanation
Indices: 14281983--14282041 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
14281973 ACTCCCTCAT
* *
14281983 ATTTTTAGGTATTTTTTTCATA
1 ATTTTT-GGTATTGTTTTCAGA
*
14282005 GTTTTTGGTA-TGATTTT-AGA
1 ATTTTTGGTATTG-TTTTCAGA
14282025 ATTTTTGGTATTGTTTT
1 ATTTTTGGTATTGTTTT
14282042 GAAATGAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 16 0.52
21 10 0.32
22 5 0.16
ACGTcount: A:0.19, C:0.02, G:0.17, T:0.63
Consensus pattern (21 bp):
ATTTTTGGTATTGTTTTCAGA
Found at i:14282282 original size:18 final size:18
Alignment explanation
Indices: 14282261--14282296 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14282251 TTGATAGTTC
* *
14282261 CTCATAATTTTTTGTACT
1 CTCATAATATTTGGTACT
14282279 CTCATAATATTTGGTACT
1 CTCATAATATTTGGTACT
14282297 TCCTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.50
Consensus pattern (18 bp):
CTCATAATATTTGGTACT
Found at i:14283576 original size:16 final size:16
Alignment explanation
Indices: 14283554--14283622 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
14283544 TTTGGTTCGC
14283554 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
14283570 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14283586 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
14283603 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14283619 TGTA
1 TGTA
14283623 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:14283600 original size:33 final size:32
Alignment explanation
Indices: 14283554--14283622 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
14283544 TTTGGTTCGC
14283554 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
14283586 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
14283619 TGTA
1 TGTA
14283623 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:14283687 original size:44 final size:45
Alignment explanation
Indices: 14283603--14283693 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
14283593 GGATTAGAGG
* * *
14283603 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
14283648 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
14283692 TG
1 TG
14283694 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:14283879 original size:18 final size:17
Alignment explanation
Indices: 14283858--14283892 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14283848 TTATTATTGA
*
14283858 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
14283876 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
14283893 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:14284120 original size:18 final size:17
Alignment explanation
Indices: 14284099--14284133 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14284089 TTATTATTAA
*
14284099 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
14284117 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
14284134 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Done.