Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 76 of 284
Found at i:25762006 original size:16 final size:15
Alignment explanation
Indices: 25761959--25762006 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
25761949 TTTATTAACA
*
25761959 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
25761976 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
25761991 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
25762007 GTTAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:25762184 original size:39 final size:41
Alignment explanation
Indices: 25762139--25762244 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 41
25762129 TTTCCTTATG
* *
25762139 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
25762179 C-ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTAC
25762224 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
25762245 ACGCCTCTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
39 13 0.23
40 2 0.04
41 4 0.07
44 19 0.33
45 5 0.09
46 14 0.25
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:25762219 original size:44 final size:46
Alignment explanation
Indices: 25762156--25762246 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
25762146 ACCTCTATTC
*
25762156 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
25762200 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
25762246 C
1 C
25762247 GCCTCTATTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 19 0.43
45 4 0.09
46 21 0.48
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.26
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
Found at i:25762247 original size:16 final size:16
Alignment explanation
Indices: 25762226--25762262 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
25762216 AGAATTACCT
25762226 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
25762242 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
25762258 ATTAC
1 ATTAC
25762263 AGCGAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.22, C:0.35, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:25771154 original size:929 final size:929
Alignment explanation
Indices: 25769351--25771208 Score: 3601
Period size: 929 Copynumber: 2.0 Consensus size: 929
25769341 ACTAGATTTC
25769351 AACAAATAAATAGGCATGATGAGTTCACAAATAAATTGGCAAATGAATCCCAAACTTAGGTCCTT
1 AACAAATAAATAGGCATGATGAGTTCACAAATAAATTGGCAAATGAATCCCAAACTTAGGTCCTT
25769416 GGTTTGTTTCTAGGCACTTTTCTCGCCGCAGAGCTTATCGATAAGCTCAGCTGCGTCATGAACAG
66 GGTTTGTTTCTAGGCACTTTTCTCGCCGCAGAGCTTATCGATAAGCTCAGCTGCGTCATGAACAG
25769481 TTGATATGCTTTGGGCATTGTCCTCTTCCACAGTGATTCCAAACTCTTCCTCAAGCCCCATCACA
131 TTGATATGCTTTGGGCATTGTCCTCTTCCACAGTGATTCCAAACTCTTCCTCAAGCCCCATCACA
25769546 ATCTCGACCTGAAATGCCCATTCTATCGAATTACACACATACTACTACATGCAATAAAAAATAAT
196 ATCTCGACCTGAAATGCCCATTCTATCGAATTACACACATACTACTACATGCAATAAAAAATAAT
25769611 TGACTGACAAGAGGTACAACAAAGAAAAAGAAAGGAAAAAATTCATCAAACTAAAAGAAATGCAT
261 TGACTGACAAGAGGTACAACAAAGAAAAAGAAAGGAAAAAATTCATCAAACTAAAAGAAATGCAT
25769676 ACTCTCCTTGGTCCAGCACCCCATCCTACCCAAATGAGGAGTAAAAACAAACAAGATCCAGATAT
326 ACTCTCCTTGGTCCAGCACCCCATCCTACCCAAATGAGGAGTAAAAACAAACAAGATCCAGATAT
25769741 TAAAGAAAAAACTGCTTCAGATGGTTATAAACAGTTAAGTACCGTATCAAGAGAATCGGCTCCAA
391 TAAAGAAAAAACTGCTTCAGATGGTTATAAACAGTTAAGTACCGTATCAAGAGAATCGGCTCCAA
25769806 GTTCAGCAAATTTTGATTCACCTGTGACTGGTTTGTCACTTGGTAGGGCTAGTTGTTTCCTTACT
456 GTTCAGCAAATTTTGATTCACCTGTGACTGGTTTGTCACTTGGTAGGGCTAGTTGTTTCCTTACT
25769871 ATTTCACATACCTTATCCACTGTCTCTGGTTTGGCCTGCCCAAAACATTTAACTAGGGTATCAGC
521 ATTTCACATACCTTATCCACTGTCTCTGGTTTGGCCTGCCCAAAACATTTAACTAGGGTATCAGC
*
25769936 ATTATGTCATTCACAAAAGGTACAATAGTCATTCCTACTTAAATGACCAGGCCATAACAAGCATA
586 ATTATGTCATTCACAAAAGGTACAACAGTCATTCCTACTTAAATGACCAGGCCATAACAAGCATA
* *
25770001 TTTACACAAAACCCTGAATATGAAGCACAATAAACTTTTATAGAAGAAGCAGAAATTAATGAATA
651 TTTACACAAAACCCTGAATATGAAGCACAATAAACTTTAATAAAAGAAGCAGAAATTAATGAATA
**
25770066 TTTATATGGAAAGGACTTCATGCAAAAGCAAAAGAAAAGACAAACATGATAACAGATAAACAGAC
716 TTTATATACAAAGGACTTCATGCAAAAGCAAAAGAAAAGACAAACATGATAACAGATAAACAGAC
25770131 ACTAGAGGCAAGTGACTTGCCAACCATTCCTTGCGCTCCTTAAAGTTAACAAAATAATAGCACAA
781 ACTAGAGGCAAGTGACTTGCCAACCATTCCTTGCGCTCCTTAAAGTTAACAAAATAATAGCACAA
* * *
25770196 ACAGTTAACCATATTTCAAACAGTCCCATACGAGAAATATCAAAGATAAGAAAACCATGCACTGT
846 ACAGTTAACCATATTTCAAACAATCCCATACAAGAAATATCAAAGATAAGAAAACCATGCACTGG
25770261 TAGAAGAGAGTCCACAAGT
911 TAGAAGAGAGTCCACAAGT
25770280 AACAAATAAATAGGCATGATGAGTTCACAAATAAATTGGCAAATGAATCCCAAACTTAGGTCCTT
1 AACAAATAAATAGGCATGATGAGTTCACAAATAAATTGGCAAATGAATCCCAAACTTAGGTCCTT
25770345 GGTTTGTTTCTAGGCACTTTTCTCGCCGCAGAGCTTATCGATAAGCTCAGCTGCGTCATGAACAG
66 GGTTTGTTTCTAGGCACTTTTCTCGCCGCAGAGCTTATCGATAAGCTCAGCTGCGTCATGAACAG
25770410 TTGATATGCTTTGGGCATTGTCCTCTTCCACAGTGATTCCAAACTCTTCCTCAAGCCCCATCACA
131 TTGATATGCTTTGGGCATTGTCCTCTTCCACAGTGATTCCAAACTCTTCCTCAAGCCCCATCACA
25770475 ATCTCGACCTGAAATGCCCATTCTATCGAATTACACACATACTACTACATGCAATAAAAAATAAT
196 ATCTCGACCTGAAATGCCCATTCTATCGAATTACACACATACTACTACATGCAATAAAAAATAAT
25770540 TGACTGACAAGAGGTACAACAAAGAAAAAGAAAGGAAAAAATTCATCAAACTAAAAGAAATGCAT
261 TGACTGACAAGAGGTACAACAAAGAAAAAGAAAGGAAAAAATTCATCAAACTAAAAGAAATGCAT
25770605 ACTCTCCTTGGTCCAGCACCCCATCCTACCCAAATGAGGAGTAAAAACAAACAAGATCCAGATAT
326 ACTCTCCTTGGTCCAGCACCCCATCCTACCCAAATGAGGAGTAAAAACAAACAAGATCCAGATAT
25770670 TAAAGAAAAAACTGCTTCAGATGGTTATAAACAGTTAAGTACCGTATCAAGAGAATCGGCTCCAA
391 TAAAGAAAAAACTGCTTCAGATGGTTATAAACAGTTAAGTACCGTATCAAGAGAATCGGCTCCAA
25770735 GTTCAGCAAATTTTGATTCACCTGTGACTGGTTTGTCACTTGGTAGGGCTAGTTGTTTCCTTACT
456 GTTCAGCAAATTTTGATTCACCTGTGACTGGTTTGTCACTTGGTAGGGCTAGTTGTTTCCTTACT
25770800 ATTTCACATACCTTATCCACTGTCTCTGGTTTGGCCTGCCCAAAACATTTAACTAGGGTATCAGC
521 ATTTCACATACCTTATCCACTGTCTCTGGTTTGGCCTGCCCAAAACATTTAACTAGGGTATCAGC
*
25770865 ATTATGTTATTCACAAAAGGTACAACAGTCATTCCTACTTAAATGACCAGGCCATAACAAGCATA
586 ATTATGTCATTCACAAAAGGTACAACAGTCATTCCTACTTAAATGACCAGGCCATAACAAGCATA
25770930 TTTACA-ACAAACCCTGAATATGAAGCACAATAAACTTTAATAAAAGAAGCAGAAATTAATGAAT
651 TTTACACA-AAACCCTGAATATGAAGCACAATAAACTTTAATAAAAGAAGCAGAAATTAATGAAT
25770994 ATTTATATACAAAGGACTTCATGCAAAAGCAAAAGAAAAGACAAACATGATAACAGATAAACAGA
715 ATTTATATACAAAGGACTTCATGCAAAAGCAAAAGAAAAGACAAACATGATAACAGATAAACAGA
25771059 CACTAGAGGCAAGTGACTTGCCAACCATTCCTTGCGCTCCTTAAAGTTAACAAAATAATAGCACA
780 CACTAGAGGCAAGTGACTTGCCAACCATTCCTTGCGCTCCTTAAAGTTAACAAAATAATAGCACA
* *
25771124 AACAGTTCACCATATTTCAAACAATCCCATATAAGAAATATCAAAGATAAGAAAACCATGCACTG
845 AACAGTTAACCATATTTCAAACAATCCCATACAAGAAATATCAAAGATAAGAAAACCATGCACTG
25771189 GTAGAAGAGAGTCCACAAGT
910 GTAGAAGAGAGTCCACAAGT
25771209 GGATTCATAT
Statistics
Matches: 917, Mismatches: 11, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
928 1 0.00
929 916 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (929 bp):
AACAAATAAATAGGCATGATGAGTTCACAAATAAATTGGCAAATGAATCCCAAACTTAGGTCCTT
GGTTTGTTTCTAGGCACTTTTCTCGCCGCAGAGCTTATCGATAAGCTCAGCTGCGTCATGAACAG
TTGATATGCTTTGGGCATTGTCCTCTTCCACAGTGATTCCAAACTCTTCCTCAAGCCCCATCACA
ATCTCGACCTGAAATGCCCATTCTATCGAATTACACACATACTACTACATGCAATAAAAAATAAT
TGACTGACAAGAGGTACAACAAAGAAAAAGAAAGGAAAAAATTCATCAAACTAAAAGAAATGCAT
ACTCTCCTTGGTCCAGCACCCCATCCTACCCAAATGAGGAGTAAAAACAAACAAGATCCAGATAT
TAAAGAAAAAACTGCTTCAGATGGTTATAAACAGTTAAGTACCGTATCAAGAGAATCGGCTCCAA
GTTCAGCAAATTTTGATTCACCTGTGACTGGTTTGTCACTTGGTAGGGCTAGTTGTTTCCTTACT
ATTTCACATACCTTATCCACTGTCTCTGGTTTGGCCTGCCCAAAACATTTAACTAGGGTATCAGC
ATTATGTCATTCACAAAAGGTACAACAGTCATTCCTACTTAAATGACCAGGCCATAACAAGCATA
TTTACACAAAACCCTGAATATGAAGCACAATAAACTTTAATAAAAGAAGCAGAAATTAATGAATA
TTTATATACAAAGGACTTCATGCAAAAGCAAAAGAAAAGACAAACATGATAACAGATAAACAGAC
ACTAGAGGCAAGTGACTTGCCAACCATTCCTTGCGCTCCTTAAAGTTAACAAAATAATAGCACAA
ACAGTTAACCATATTTCAAACAATCCCATACAAGAAATATCAAAGATAAGAAAACCATGCACTGG
TAGAAGAGAGTCCACAAGT
Found at i:25773925 original size:22 final size:22
Alignment explanation
Indices: 25773897--25773966 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
25773887 TATACACTAT
25773897 TAAATAGAGAGCACTAAAGTGC
1 TAAATAGAGAGCACTAAAGTGC
* * *
25773919 TATATAGAGAGCACAAAATGTGT
1 TAAATAGAGAGCACTAAA-GTGC
* *
25773942 TAAATGGAGAGCACTAATGTGC
1 TAAATAGAGAGCACTAAAGTGC
25773964 TAA
1 TAA
25773967 TAATTGGAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 22 0.56
23 17 0.44
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (22 bp):
TAAATAGAGAGCACTAAAGTGC
Found at i:25776847 original size:14 final size:14
Alignment explanation
Indices: 25776828--25776867 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
25776818 TTGATTGCCA
25776828 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
25776842 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
25776856 GGAAAATGTTTT
1 GTAAAATGTTTT
25776868 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:25776876 original size:20 final size:20
Alignment explanation
Indices: 25776851--25776890 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25776841 CGTAAAATGA
*
25776851 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGGTTTACT
*
25776871 TTTCTGTAAAATGGTTTACT
1 TTTCTGGAAAATGGTTTACT
25776891 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGGTTTACT
Found at i:25776880 original size:34 final size:35
Alignment explanation
Indices: 25776836--25776902 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
25776826 CAGTAAAATG
*
25776836 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
* *
25776870 TTTTCTGTAAAATGGTTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
25776903 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:25782149 original size:5 final size:5
Alignment explanation
Indices: 25782139--25782163 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25782129 ACTAAATTAT
25782139 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
25782164 TGAAACTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:25784525 original size:51 final size:50
Alignment explanation
Indices: 25784449--25784644 Score: 225
Period size: 51 Copynumber: 3.9 Consensus size: 50
25784439 GATACCGATT
* ***
25784449 CACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCACTGTCCAATA
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT-TCTGGTA
* **
25784500 CACGTAGTAGCCTGCACATAGTACTACACACGTGA-TAGAAGCTATCTGGTA
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CT-TCTGGTA
* * * *
25784551 CGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-TTCTGGTA
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTTCTGGTA
* *
25784601 CACGTAGTAGCCTGCATATAGTACTACACACGTGACCACCACTT
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTT
25784645 TCACTTTCAC
Statistics
Matches: 120, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 3 0.03
50 43 0.36
51 72 0.60
53 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (50 bp):
CACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTCTGGTA
Found at i:25784629 original size:101 final size:102
Alignment explanation
Indices: 25784453--25784635 Score: 298
Period size: 101 Copynumber: 1.8 Consensus size: 102
25784443 CCGATTCACG
*
25784453 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTGTCCAATACACGTAGTAGCCTGCACA
1 TAGTAGCCTGCACATAGTACTACACATGCGACCATCACTGTCCAATACACGTAGTAGCCTGCACA
25784518 TAGTACTACACACGTGATAGAAGCTATCTGGTACGCA
66 TAGTACTACACACGTGATAGAAGCTATCTGGTACGCA
*** *
25784555 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGCAT
1 TAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTGTCCAATACACGTAGTAGCCTGCAC
25784618 ATAGTACTACACACGTGA
65 ATAGTACTACACACGTGA
25784636 CCACCACTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
101 38 0.51
102 33 0.44
103 4 0.05
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (102 bp):
TAGTAGCCTGCACATAGTACTACACATGCGACCATCACTGTCCAATACACGTAGTAGCCTGCACA
TAGTACTACACACGTGATAGAAGCTATCTGGTACGCA
Found at i:25784658 original size:101 final size:102
Alignment explanation
Indices: 25784447--25784669 Score: 254
Period size: 101 Copynumber: 2.2 Consensus size: 102
25784437 ATGATACCGA
* *
25784447 TTCACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCACTGTCCAATACACGTAGTAGCC
1 TTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTGTCCAATACACGTAGTAGCC
* * **
25784512 TGCACATAGTACTACACACGTGATAGAAGCTATCTGG
66 TGCACATAGTACTACACACGTGACACAAGCTATCACG
* * ***
25784549 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGC
1 TTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTGTCCAATACACGTAGTAGC
* * * *
25784612 CTGCATATAGTACTACACACGTGACCACCA-CTTTCACT
65 CTGCACATAGTACTACACACGTGA-CACAAGCTATCACG
* *
25784650 TTCACATAGTGGCCTACACA
1 TTCACATAGTAGCCTGCACA
25784670 CAGTCCATGC
Statistics
Matches: 100, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
101 58 0.58
102 38 0.38
103 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (102 bp):
TTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTGTCCAATACACGTAGTAGCC
TGCACATAGTACTACACACGTGACACAAGCTATCACG
Found at i:25793341 original size:96 final size:96
Alignment explanation
Indices: 25793177--25793369 Score: 325
Period size: 96 Copynumber: 2.0 Consensus size: 96
25793167 GAGGAGTATT
* *
25793177 GAGAATGTGCCTTAGACTTGCTAAATAATAGGTGTAGACCAAGTATTTAGGGATTTGTTAATTTG
1 GAGAATGTGCCTTAGACTAGCCAAATAATAGGTGTAGACCAAGTATTTAGGGATTTGTTAATTTG
*
25793242 TGGCATGATTTTAGGAGTAAGTTAGGATGTG
66 TGGCATGATTTTAGGAATAAGTTAGGATGTG
*
25793273 GAGAATGTGCCTTAGACTAGCCAAATAATAGGTGTAGACCAAGTATTTAGGGAATTT-TTAGTTT
1 GAGAATGTGCCTTAGACTAGCCAAATAATAGGTGTAGACCAAGTATTTAGGG-ATTTGTTAATTT
*
25793337 GTGGCATGATTTTATGAATAAGTTAGGATGTG
65 GTGGCATGATTTTAGGAATAAGTTAGGATGTG
25793369 G
1 G
25793370 TTAGATATCA
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
96 87 0.96
97 4 0.04
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (96 bp):
GAGAATGTGCCTTAGACTAGCCAAATAATAGGTGTAGACCAAGTATTTAGGGATTTGTTAATTTG
TGGCATGATTTTAGGAATAAGTTAGGATGTG
Found at i:25793954 original size:101 final size:101
Alignment explanation
Indices: 25793823--25794374 Score: 1095
Period size: 101 Copynumber: 5.5 Consensus size: 101
25793813 AAAAACCCCT
25793823 AATACCTTAACTAATTACTAAATAGATAGTAATCAATCAGTTAAATAGAAAAATGAAAAATAATT
1 AATACCTTAACTAATTACTAAATAGATAGTAATCAATCAGTTAAATAGAAAAATGAAAAATAATT
25793888 CAAACATCATAAATTGGTTGTTAAAACAAAATTACA
66 CAAACATCATAAATTGGTTGTTAAAACAAAATTACA
25793924 AATACCTTAACTAATTACTAAATAGATAGTAATCAATCAGTTAAATAGAAAAATGAAAAATAATT
1 AATACCTTAACTAATTACTAAATAGATAGTAATCAATCAGTTAAATAGAAAAATGAAAAATAATT
25793989 CAAACATCATAAATTGGTTGTTAAAACAAAATTACA
66 CAAACATCATAAATTGGTTGTTAAAACAAAATTACA
25794025 AATACCTTAACTAATTACTAAATAGATAGTAATCAATCAGTTAAATAGAAAAATGAAAAATAATT
1 AATACCTTAACTAATTACTAAATAGATAGTAATCAATCAGTTAAATAGAAAAATGAAAAATAATT
25794090 CAAACATCATAAATTGGTTGTTAAAACAAAATTACA
66 CAAACATCATAAATTGGTTGTTAAAACAAAATTACA
25794126 AATACCTTAACTAATTACTAAATAGATAGTAATCAATCAGTTAAATAGAAAAATGAAAAATAATT
1 AATACCTTAACTAATTACTAAATAGATAGTAATCAATCAGTTAAATAGAAAAATGAAAAATAATT
25794191 CAAACATCATAAATTGGTTGTTAAAACAAAATTACA
66 CAAACATCATAAATTGGTTGTTAAAACAAAATTACA
25794227 AATACCTTAACTAATTACTAAATAGATAGTAATCAATCAGTTAAATAGAAAAATGAAAAATAATT
1 AATACCTTAACTAATTACTAAATAGATAGTAATCAATCAGTTAAATAGAAAAATGAAAAATAATT
25794292 CAAACATCATAAATTGGTTGTTAAAACAAAATTACA
66 CAAACATCATAAATTGGTTGTTAAAACAAAATTACA
*
25794328 AATACCTTAACTAATTACTAAATAGATAGTAATCAATCGGTTAAATA
1 AATACCTTAACTAATTACTAAATAGATAGTAATCAATCAGTTAAATA
25794375 AATTACAAAT
Statistics
Matches: 450, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 450 1.00
ACGTcount: A:0.52, C:0.11, G:0.08, T:0.29
Consensus pattern (101 bp):
AATACCTTAACTAATTACTAAATAGATAGTAATCAATCAGTTAAATAGAAAAATGAAAAATAATT
CAAACATCATAAATTGGTTGTTAAAACAAAATTACA
Found at i:25795503 original size:27 final size:27
Alignment explanation
Indices: 25795445--25795503 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
25795435 GACAACCAGT
*
25795445 GTAGTTTATCGGAATAGTAAACACGAG
1 GTAGTCTATCGGAATAGTAAACACGAG
* *
25795472 ATAGTCTATCAGGAA-AGTAAACACGTG
1 GTAGTCTATC-GGAATAGTAAACACGAG
25795499 GTAGT
1 GTAGT
25795504 TCCTCACGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (27 bp):
GTAGTCTATCGGAATAGTAAACACGAG
Found at i:25801081 original size:195 final size:193
Alignment explanation
Indices: 25800749--25801135 Score: 512
Period size: 195 Copynumber: 2.0 Consensus size: 193
25800739 ACATTAGTTA
* * * * * *
25800749 TACATTCAAGAACTTGAGTAACAAAAATCATAAATACTACTAACAAAGATAACCAAAAAAGGTGT
1 TACATTCAAGAACTTAAGTAAAAAAAAACATAAATACTACTAACAAACAAAACCAAAAAAGGTGC
*
25800814 TTGACCTCTATTCGTTTATAAAAATGGTGAATTTCACTATAATTCCTGTAAATTCAAAATTTTTA
66 CTGACCTCTATTCGTTTATAAAAATGGTGAATTTCACTATAATTCCTGTAAATTCAAAATTTTTA
** * *
25800879 CAAATAACTTTTAAGAAATTTCCAAATATCCTCCTTTAAATTATATATATATCTGGGTTCAATTC
131 CAAATAACTTAAAACAAATTTCCAAATATCCTCATTTAAA-T-TATATATATCTGGGTTCAATTC
*
25800944 TACATTCAAGAACTTAAGTAAAAAAAAACATAAATA-TGACTAACAAAACAAAACCAAAAATGGT
1 TACATTCAAGAACTTAAGTAAAAAAAAACATAAATACT-ACTAAC-AAACAAAACCAAAAAAGGT
* * * * *
25801008 GCCTGACCTCTATTCG-TTGTGAAGATGGT-AGATTTTACTGTAATTCCTGTAAATTCCAAAA-T
64 GCCTGACCTCTATTCGTTTATAAAAATGGTGA-ATTTCACTATAATTCCTGTAAATT-CAAAATT
* * *
25801070 TTTCCAAATAACTTAAAACACATTTCCAAATATCCTCATTTAAATTATATATATCTGGTTTCAAT
127 TTTACAAATAACTTAAAACAAATTTCCAAATATCCTCATTTAAATTATATATATCTGGGTTCAAT
25801135 T
192 T
25801136 AACATGTGTT
Statistics
Matches: 168, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
193 20 0.12
194 3 0.02
195 110 0.65
196 35 0.21
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (193 bp):
TACATTCAAGAACTTAAGTAAAAAAAAACATAAATACTACTAACAAACAAAACCAAAAAAGGTGC
CTGACCTCTATTCGTTTATAAAAATGGTGAATTTCACTATAATTCCTGTAAATTCAAAATTTTTA
CAAATAACTTAAAACAAATTTCCAAATATCCTCATTTAAATTATATATATCTGGGTTCAATTC
Found at i:25801685 original size:38 final size:34
Alignment explanation
Indices: 25801643--25801715 Score: 92
Period size: 38 Copynumber: 2.0 Consensus size: 34
25801633 AAATAGATAA
25801643 AAAATTTAAAAATTATTTTTTTATTAAATAAAAACATT
1 AAAATTTAAAAATTA-TTTTTTA--AAATAAAAA-ATT
* *
25801681 AAAATTTTAAATTTATTTTTTAAAATAAAAAATT
1 AAAATTTAAAAATTATTTTTTAAAATAAAAAATT
25801715 A
1 A
25801716 TGAAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 4 0.12
35 9 0.27
37 7 0.21
38 13 0.39
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (34 bp):
AAAATTTAAAAATTATTTTTTAAAATAAAAAATT
Found at i:25802784 original size:17 final size:18
Alignment explanation
Indices: 25802745--25802783 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
25802735 TAACATTGAG
*
25802745 TTTTT-AAATTTTTTTTA
1 TTTTTAAAATATTTTTTA
25802762 TTTTTAAAATATTTTTTA
1 TTTTTAAAATATTTTTTA
25802780 TTTT
1 TTTT
25802784 ATGAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTAAAATATTTTTTA
Found at i:25813822 original size:37 final size:36
Alignment explanation
Indices: 25813755--25813843 Score: 139
Period size: 37 Copynumber: 2.5 Consensus size: 36
25813745 CAACTATAAG
25813755 TGCCGAATGC--ACATAT-TCACTTATACCCACCTA
1 TGCCGAATGCATACATATATCACTTATACCCACCTA
*
25813788 TGCCGAATGCATACATATATACACTTATATCCACCTA
1 TGCCGAATGCATACATATAT-CACTTATACCCACCTA
25813825 TGCCGAATGCATACATATA
1 TGCCGAATGCATACATATA
25813844 CACATTTAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
33 10 0.20
35 6 0.12
36 1 0.02
37 34 0.67
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (36 bp):
TGCCGAATGCATACATATATCACTTATACCCACCTA
Found at i:25814102 original size:41 final size:41
Alignment explanation
Indices: 25814031--25814204 Score: 156
Period size: 41 Copynumber: 4.2 Consensus size: 41
25814021 TTTAAACAGA
* * * * * *
25814031 TTCACTGGCACTTCA-CCTGATAGACTTATAGTCTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCATATAGTCTGATTCAG
* *
25814072 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCATATAGTCTGATTCAG
* * * *
25814113 TTCATCGGCACTTAGCCTGCT-GGACATATAATCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGG-CATATAGTCTGATTCAG
* * * *
25814154 TTCACCGGCACTTAGCCTACT-GGACGTATAGTCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGG-CATATAGTCTGATTCAG
25814195 TTCACCGGCA
1 TTCACCGGCA
25814205 ATAAATCTGA
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 3 0.03
41 111 0.97
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCATATAGTCTGATTCAG
Found at i:25818980 original size:65 final size:65
Alignment explanation
Indices: 25818907--25819036 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
25818897 TGGGATGTGG
*
25818907 AATTATATTTTTCAAATTCATATAAGAAACCATTTGTTGGAGATAACTTTTTTTTAACCATCTTT
1 AATTATATTTTTCAAATTCATATAAGAAACCATTTGTTGGAGATAACTGTTTTTTAACCATCTTT
*
25818972 AATTATATTTTTCAAATTCATATTAGAAACCATTTGTTGGAGATAACTGTTTTTTAACCATCTTT
1 AATTATATTTTTCAAATTCATATAAGAAACCATTTGTTGGAGATAACTGTTTTTTAACCATCTTT
25819037 CCATCTTCAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (65 bp):
AATTATATTTTTCAAATTCATATAAGAAACCATTTGTTGGAGATAACTGTTTTTTAACCATCTTT
Found at i:25825980 original size:20 final size:21
Alignment explanation
Indices: 25825943--25825981 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
25825933 GACAACAGGG
* *
25825943 AGGGAAGCAGGGGTAGCAGCA
1 AGGGAAGCAGAGGCAGCAGCA
25825964 AGGG-AGCAGAGGCAGCAG
1 AGGGAAGCAGAGGCAGCAG
25825982 AGGTATTAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.33, C:0.15, G:0.49, T:0.03
Consensus pattern (21 bp):
AGGGAAGCAGAGGCAGCAGCA
Found at i:25829158 original size:7 final size:7
Alignment explanation
Indices: 25829142--25829178 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
25829132 CACCGATTTC
25829142 TTTT-GA
1 TTTTAGA
25829148 TTTTAGA
1 TTTTAGA
25829155 TTTTAGA
1 TTTTAGA
25829162 TTTTAGA
1 TTTTAGA
*
25829169 TTTTATA
1 TTTTAGA
25829176 TTT
1 TTT
25829179 GGGCTTTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (7 bp):
TTTTAGA
Found at i:25834049 original size:21 final size:19
Alignment explanation
Indices: 25834021--25834070 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
25834011 AACATGGGAA
25834021 TTAAATTATGTAAC-AATATT
1 TTAAATTAT-T-ACTAATATT
25834041 TTAAGATTATTACTAATATT
1 TTAA-ATTATTACTAATATT
*
25834061 TTAACTTATT
1 TTAAATTATT
25834071 TTATTATTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (19 bp):
TTAAATTATTACTAATATT
Found at i:25843969 original size:50 final size:50
Alignment explanation
Indices: 25843887--25844063 Score: 203
Period size: 50 Copynumber: 3.4 Consensus size: 50
25843877 TATCCGAGAT
** * * * *
25843887 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCTGTGCCAATGCCATGTCCCAAAC
**
25843937 ATGGTCTTACGGGGGACCTCTCATCTCTGTGCCAACT-CCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATCTCTGTGCCAA-TGCCATGTCCCAAAC
25843987 ATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTC---ATCTC--TG-TGCCAATGCCATGTCCCAAAC
*
25844043 ATGGTCTTACATGGGATCTCT
1 ATGGTCTTACATGGGACCTCT
25844064 TTACCTAAAT
Statistics
Matches: 108, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
50 60 0.56
51 1 0.01
53 5 0.05
55 3 0.03
56 39 0.36
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCTGTGCCAATGCCATGTCCCAAAC
Found at i:25856423 original size:15 final size:16
Alignment explanation
Indices: 25856395--25856428 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
25856385 TTTCTTTAGG
25856395 TTTTGTTTTGGTTGTT
1 TTTTGTTTTGGTTGTT
25856411 TTTTGTTTT-GTTGTT
1 TTTTGTTTTGGTTGTT
25856426 TTT
1 TTT
25856429 ATTTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (16 bp):
TTTTGTTTTGGTTGTT
Found at i:25857182 original size:2 final size:2
Alignment explanation
Indices: 25857175--25857209 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
25857165 CCCCAAACAA
25857175 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
25857210 AGGCAATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:25862996 original size:81 final size:81
Alignment explanation
Indices: 25862861--25863030 Score: 313
Period size: 81 Copynumber: 2.1 Consensus size: 81
25862851 GAAATTAAAA
25862861 CCAAAGAAGGATGCAGAGCTGAAGCCCATGAATGATACTTTTGGTGACAATTTAAATATAATAAA
1 CCAAAGAAGGATGCAGAGCTGAAGCCCATGAATGATACTTTTGGTGACAATTTAAATATAATAAA
*
25862926 GGACACTGAACCGAAG
66 AGACACTGAACCGAAG
*
25862942 CCAAAGAAGGATGCAGAGCTGAAGCCCATGAATGATATTTTTGGTGACAATTTAAATATAATAAA
1 CCAAAGAAGGATGCAGAGCTGAAGCCCATGAATGATACTTTTGGTGACAATTTAAATATAATAAA
*
25863007 AGACACTGAACTGAAG
66 AGACACTGAACCGAAG
25863023 CCAAAGAA
1 CCAAAGAA
25863031 TAATTCTTTC
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (81 bp):
CCAAAGAAGGATGCAGAGCTGAAGCCCATGAATGATACTTTTGGTGACAATTTAAATATAATAAA
AGACACTGAACCGAAG
Found at i:25863172 original size:24 final size:24
Alignment explanation
Indices: 25863145--25863199 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
25863135 AGTTCAATGT
25863145 ATTGAAGGATTACAAGGTGAAAAC
1 ATTGAAGGATTACAAGGTGAAAAC
25863169 ATTGAAGGATTACAAGGTGAAAAC
1 ATTGAAGGATTACAAGGTGAAAAC
25863193 ATTGAAG
1 ATTGAAG
25863200 ACTGCTGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.45, C:0.07, G:0.25, T:0.22
Consensus pattern (24 bp):
ATTGAAGGATTACAAGGTGAAAAC
Found at i:25873095 original size:25 final size:25
Alignment explanation
Indices: 25873066--25873113 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
25873056 TATAGCCCGG
25873066 ATAAGC-TTCTTGTTACATGGCTCAC
1 ATAAGCTTTC-TGTTACATGGCTCAC
*
25873091 ATAAGCTTTCTGTTATATGGCTC
1 ATAAGCTTTCTGTTACATGGCTC
25873114 GAGAGAATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (25 bp):
ATAAGCTTTCTGTTACATGGCTCAC
Found at i:25879254 original size:99 final size:99
Alignment explanation
Indices: 25879131--25879327 Score: 376
Period size: 99 Copynumber: 2.0 Consensus size: 99
25879121 CACTTGTAGC
25879131 GGATCCTCCCTTTCCAATAACCGATGAAACATCAACAGATGGTTATTAAAAGTCCACGAAGCTTC
1 GGATCCTCCCTTTCCAATAACCGATGAAACATCAACAGATGGTTATTAAAAGTCCACGAAGCTTC
25879196 ATCCACCACACGATCTATATCCACTTTAAATAAT
66 ATCCACCACACGATCTATATCCACTTTAAATAAT
* *
25879230 GGATCCTCCCTTTCCAATAACCGATGAAACATCAACAGATGGTTATTGAAAGTCCACGACGCTTC
1 GGATCCTCCCTTTCCAATAACCGATGAAACATCAACAGATGGTTATTAAAAGTCCACGAAGCTTC
25879295 ATCCACCACACGATCTATATCCACTTTAAATAA
66 ATCCACCACACGATCTATATCCACTTTAAATAA
25879328 AAATAAAATA
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.26
Consensus pattern (99 bp):
GGATCCTCCCTTTCCAATAACCGATGAAACATCAACAGATGGTTATTAAAAGTCCACGAAGCTTC
ATCCACCACACGATCTATATCCACTTTAAATAAT
Found at i:25880709 original size:42 final size:41
Alignment explanation
Indices: 25880627--25880750 Score: 140
Period size: 42 Copynumber: 3.0 Consensus size: 41
25880617 GAATGTCAAC
* * * * *
25880627 ACCACACGGCCAGGGACATTGGTGTGTGTTCAGGCTGTGTGA
1 ACCACACGGGCAAGGACATGGGCGTGTGTCCAGGC-GTGTGA
*
25880669 ACCATACGGGCAAGGACATGGGCGTGTGTCCAGGTCGTGTGA
1 ACCACACGGGCAAGGACATGGGCGTGTGTCCAGG-CGTGTGA
* * *
25880711 GCCACACGGGTAAGGACATGGGCGTATGTCCAGGCCGTGT
1 ACCACACGGGCAAGGACATGGGCGTGTGTCCAGG-CGTGT
25880751 TACTCATTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
42 69 0.99
43 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.37, T:0.20
Consensus pattern (41 bp):
ACCACACGGGCAAGGACATGGGCGTGTGTCCAGGCGTGTGA
Found at i:25887690 original size:20 final size:21
Alignment explanation
Indices: 25887665--25887706 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
25887655 AGTGGCAAGT
25887665 TATTTTATT-TAATTCTTTAA
1 TATTTTATTATAATTCTTTAA
*
25887685 TATTTTATTATAATTTTTTAA
1 TATTTTATTATAATTCTTTAA
25887706 T
1 T
25887707 TACTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTTTATTATAATTCTTTAA
Found at i:25894703 original size:22 final size:22
Alignment explanation
Indices: 25894675--25894717 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
25894665 GCTTATCAAT
25894675 TCAAAACAAATGAAATAAAGCA
1 TCAAAACAAATGAAATAAAGCA
25894697 TCAAAACAAATGAAATAAAGC
1 TCAAAACAAATGAAATAAAGC
25894718 GTCTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.63, C:0.14, G:0.09, T:0.14
Consensus pattern (22 bp):
TCAAAACAAATGAAATAAAGCA
Found at i:25897910 original size:14 final size:14
Alignment explanation
Indices: 25897891--25897941 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
25897881 GAAGAGAATG
25897891 GAAAAAAAGAAAAA
1 GAAAAAAAGAAAAA
*
25897905 GAAAAAAAG-GAAA
1 GAAAAAAAGAAAAA
* *
25897918 GTTAAAAAACATAAAA
1 G-AAAAAAAGA-AAAA
25897934 GAAAAAAA
1 GAAAAAAA
25897942 ACTAAATTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 4 0.14
14 15 0.52
15 6 0.21
16 4 0.14
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (14 bp):
GAAAAAAAGAAAAA
Found at i:25901272 original size:93 final size:93
Alignment explanation
Indices: 25901157--25901339 Score: 330
Period size: 93 Copynumber: 2.0 Consensus size: 93
25901147 ATGTAATTAT
*
25901157 TATTTGAATCTCATAAGCAAATAAGAATGCAATTTAATAAGAATGTAAAACTCGAAGATAGGAAA
1 TATTTGAATCTCATAAGCAAATAAGAATGCAATTTAATAAGAATGTAAAACTCGAAGATAAGAAA
*
25901222 CAAAAGATTAGTGCAAATATAGCTCCCA
66 CAAAAGATTAGTGCAAAAATAGCTCCCA
* *
25901250 TATTTGAATCTCGTCAGCAAATAAGAATGCAATTTAATAAGAATGTAAAACTCGAAGATAAGAAA
1 TATTTGAATCTCATAAGCAAATAAGAATGCAATTTAATAAGAATGTAAAACTCGAAGATAAGAAA
25901315 CAAAAGATTAGTGCAAAAATAGCTC
66 CAAAAGATTAGTGCAAAAATAGCTC
25901340 GACGTTGTGG
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 86 1.00
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.25
Consensus pattern (93 bp):
TATTTGAATCTCATAAGCAAATAAGAATGCAATTTAATAAGAATGTAAAACTCGAAGATAAGAAA
CAAAAGATTAGTGCAAAAATAGCTCCCA
Found at i:25901441 original size:17 final size:16
Alignment explanation
Indices: 25901414--25901450 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
25901404 ATTTACCGAG
*
25901414 ATGAAACTTGAAGATA
1 ATGAAACTTGAAGACA
25901430 ATGAAGACTTGAAGACA
1 ATGAA-ACTTGAAGACA
25901447 ATGA
1 ATGA
25901451 CCACACTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.49, C:0.08, G:0.22, T:0.22
Consensus pattern (16 bp):
ATGAAACTTGAAGACA
Found at i:25907430 original size:4 final size:4
Alignment explanation
Indices: 25907415--25907490 Score: 52
Period size: 4 Copynumber: 19.0 Consensus size: 4
25907405 ATAAGTAAAT
* *
25907415 AAAG AAAT AAAG AAAG AAAG ATAG AAACG AAACAG AAAG AAA- AAAG -AAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG
* *
25907464 GAA- AAAG AAA- AAGG AAAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG -AAAG AAAG AAAG
25907491 GAGAAAGATA
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
3 10 0.18
4 37 0.65
5 6 0.11
6 3 0.05
7 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.22, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:25917509 original size:16 final size:15
Alignment explanation
Indices: 25917477--25917518 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
25917467 TTCTGATGGG
25917477 ATTGTTAAAATATTA
1 ATTGTTAAAATATTA
25917492 ATTGTATAAAACTA-TA
1 ATTGT-TAAAA-TATTA
25917508 ATT-TTAAAATA
1 ATTGTTAAAATA
25917519 AACTTTTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.08
14 5 0.20
15 6 0.24
16 10 0.40
17 2 0.08
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (15 bp):
ATTGTTAAAATATTA
Found at i:25934248 original size:54 final size:54
Alignment explanation
Indices: 25934163--25934273 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
25934153 TCTCTTGGTC
* *
25934163 TATGACAATGTATAAATTATAGATTTGTAATAAAAATTATGTAATTTAGTTAAA
1 TATGACAATGTATAAATAATAGATTTATAATAAAAATTATGTAATTTAGTTAAA
*
25934217 TATGACCATGTATAAATAATAGATTTATAATAAAAATTATGTAATTTAGTTAAA
1 TATGACAATGTATAAATAATAGATTTATAATAAAAATTATGTAATTTAGTTAAA
25934271 TAT
1 TAT
25934274 TTAATAGGTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.41
Consensus pattern (54 bp):
TATGACAATGTATAAATAATAGATTTATAATAAAAATTATGTAATTTAGTTAAA
Found at i:25944852 original size:22 final size:22
Alignment explanation
Indices: 25944796--25944893 Score: 80
Period size: 22 Copynumber: 4.5 Consensus size: 22
25944786 AGTGTTTGGG
25944796 TGGCATTCT-A-TTAGCCTTTA
1 TGGCATTCTGATTTAGCCTTTA
*
25944816 TGG-AGTACTCTGATTTTGCCTTTA
1 TGGCA-T--TCTGATTTAGCCTTTA
*
25944840 TGGCATTCTGATTTAGCCTTTG
1 TGGCATTCTGATTTAGCCTTTA
* *
25944862 TGGCATATTCTG--TTAGACTTTG
1 TGGC--ATTCTGATTTAGCCTTTA
25944884 TGGCATTCTG
1 TGGCATTCTG
25944894 TAGCTTTTGT
Statistics
Matches: 66, Mismatches: 4, Indels: 16
0.77 0.05 0.19
Matches are distributed among these distances:
19 1 0.02
20 10 0.15
22 34 0.52
23 1 0.02
24 19 0.29
25 1 0.02
ACGTcount: A:0.16, C:0.17, G:0.21, T:0.45
Consensus pattern (22 bp):
TGGCATTCTGATTTAGCCTTTA
Found at i:25944904 original size:19 final size:19
Alignment explanation
Indices: 25944835--25944908 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 19
25944825 CTGATTTTGC
*
25944835 CTTTATGGCATTCTGATTTAG
1 CTTTGTGGCATTCTG--TTAG
25944856 CCTTTGTGGCATATTCTGTTAG
1 -CTTTGTGGC--ATTCTGTTAG
25944878 ACTTTGTGGCATTCTG-TAG
1 -CTTTGTGGCATTCTGTTAG
25944897 CTTTTGTGGCAT
1 C-TTTGTGGCAT
25944909 ATTTTGTATG
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.02
19 13 0.28
20 6 0.13
22 21 0.45
24 6 0.13
ACGTcount: A:0.15, C:0.16, G:0.23, T:0.46
Consensus pattern (19 bp):
CTTTGTGGCATTCTGTTAG
Found at i:25945423 original size:28 final size:28
Alignment explanation
Indices: 25945383--25945442 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
25945373 AATTTGATTT
*
25945383 AGTAAGATCAATATAGGTAT-TCGCCAAA
1 AGTAAGACCAATATAGGTATCT-GCCAAA
*
25945411 AGTAAGACCAATATGGGTATCTGCCAAA
1 AGTAAGACCAATATAGGTATCTGCCAAA
25945439 AGTA
1 AGTA
25945443 TGAACAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (28 bp):
AGTAAGACCAATATAGGTATCTGCCAAA
Found at i:25948101 original size:12 final size:13
Alignment explanation
Indices: 25948077--25948105 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
25948067 GTGCCCAATA
25948077 TTAATTAAAATTT
1 TTAATTAAAATTT
25948090 TTAATT-AAATTT
1 TTAATTAAAATTT
25948102 TTAA
1 TTAA
25948106 AAGATTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATTAAAATTT
Found at i:25956486 original size:30 final size:30
Alignment explanation
Indices: 25956440--25956533 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
25956430 TTTTATTATG
*
25956440 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
25956471 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
25956501 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
25956531 CCA
1 CCA
25956534 TAAATATGGA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 53 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:25956495 original size:15 final size:15
Alignment explanation
Indices: 25956450--25956527 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
25956440 CCAATATCTC
25956450 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25956465 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
25956480 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25956495 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
25956510 GATACCCATATCTTT
1 GATACCCATATCTTT
25956525 GAT
1 GAT
25956528 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:25961159 original size:15 final size:15
Alignment explanation
Indices: 25961114--25961221 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
25961104 CCAATATCTC
25961114 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25961129 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
25961144 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25961159 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
25961174 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25961189 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
25961204 GATACCCATATCTTT
1 GATACCCATATCTTT
25961219 GAT
1 GAT
25961222 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:25961228 original size:30 final size:30
Alignment explanation
Indices: 25961104--25961227 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
25961094 TTTTATTATG
*
25961104 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
25961135 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
25961165 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
25961195 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
25961225 CCA
1 CCA
25961228 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:25963862 original size:17 final size:18
Alignment explanation
Indices: 25963842--25963886 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
25963832 ACGGTATTAA
25963842 AATTGAATTAAG-AAAA-T
1 AATT-AATTAAGAAAAATT
25963859 AATTTAATT-AGAAAAATT
1 AA-TTAATTAAGAAAAATT
25963877 AATTAATTAA
1 AATTAATTAA
25963887 CTAATTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 2 0.08
17 16 0.67
18 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (18 bp):
AATTAATTAAGAAAAATT
Found at i:25965519 original size:98 final size:98
Alignment explanation
Indices: 25965350--25965544 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
25965340 ATACAATAAA
*
25965350 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
25965415 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
* *
25965448 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
* *
25965513 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCAGAATATTTCCTT
25965545 CATGATTTTT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
Found at i:25966751 original size:9 final size:9
Alignment explanation
Indices: 25966737--25966764 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
25966727 GCGGAGGGGC
25966737 TAAATAAAA
1 TAAATAAAA
25966746 TAAATAAAA
1 TAAATAAAA
25966755 TAAATAAAA
1 TAAATAAAA
25966764 T
1 T
25966765 TCGCAGTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (9 bp):
TAAATAAAA
Found at i:25967059 original size:19 final size:19
Alignment explanation
Indices: 25967035--25967166 Score: 219
Period size: 19 Copynumber: 6.8 Consensus size: 19
25967025 AATCATATAT
25967035 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
25967054 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
25967073 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
25967092 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
25967113 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
25967132 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
25967151 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
25967167 CTCAAAAATT
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
19 86 0.82
21 19 0.18
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:25967119 original size:59 final size:59
Alignment explanation
Indices: 25967028--25967165 Score: 221
Period size: 59 Copynumber: 2.4 Consensus size: 59
25967018 ATTACAAAAT
*
25967028 CATAT-AT-TCTAAGATTGC--ATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
* *
25967083 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
25967142 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTGCATAT
25967166 CCTCAAAAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 11 0.14
59 58 0.76
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:25967389 original size:44 final size:43
Alignment explanation
Indices: 25967339--25967819 Score: 367
Period size: 44 Copynumber: 10.9 Consensus size: 43
25967329 TAGTGCCATC
*
25967339 TTTAGTCTGCCTCACTGCAACTTTAGGACGATAAGACTTGCTTA
1 TTTAGTCTGCCTCACTGCAACTTCAGGA-GATAAGACTTGCTTA
* * * *
25967383 TTTAGTCTGCTTCACTGCAACTTCAGGGAGATAGGA-TT-ATTGGC
1 TTTAGTCTGCCTCACTGCAACTTCA-GGAGATAAGACTTGCTT--A
* * *
25967427 TTTAATCT-ACTCTACTGCAACTTCAAGGAGATAAGACTTGC-CA
1 TTTAGTCTGCCTC-ACTGCAACTTC-AGGAGATAAGACTTGCTTA
* *
25967470 TCTTCAGTCTGCCCCACTGCAACTTGAGGAGGATAAGACTTGCTTA
1 T-TT-AGTCTGCCTCACTGCAACTTCAGGA-GATAAGACTTGCTTA
* * * *
25967516 TTTAGTCTGCTTCACTGCAACTTCAGGGAGATAGGA-TT-ATTGGC
1 TTTAGTCTGCCTCACTGCAACTTCA-GGAGATAAGACTTGCTT--A
* * *
25967560 TTTAATCT-ACTCTACTGCAACTTCAAGGAGATAAGACTTGC-CA
1 TTTAGTCTGCCTC-ACTGCAACTTC-AGGAGATAAGACTTGCTTA
* *
25967603 TCTTCAGTCTGCCCCACTGCAACTTGAGGAGGATAAGACTTGCTTA
1 T-TT-AGTCTGCCTCACTGCAACTTCAGGA-GATAAGACTTGCTTA
* * * *
25967649 TTTAGTCTGCTTCACTGCAACTTCAGGGAGATAGGA-TT-ATTGGC
1 TTTAGTCTGCCTCACTGCAACTTCA-GGAGATAAGACTTGCTT--A
* * *
25967693 TTTAATCT-ACTCTACTGCAACTTCAAGGAGATAAGACTTGC-CA
1 TTTAGTCTGCCTC-ACTGCAACTTC-AGGAGATAAGACTTGCTTA
* *
25967736 TCTTCAGTCTGCCCCACTGCAACTTGAGGAGGATAAGACTTGCTTA
1 T-TT-AGTCTGCCTCACTGCAACTTCAGGA-GATAAGACTTGCTTA
*
25967782 CTTAGTCTG-CTGCACTGCAACTTCAGGGAGATAAGACT
1 TTTAGTCTGCCT-CACTGCAACTTCA-GGAGATAAGACT
25967820 AGATGCGATA
Statistics
Matches: 343, Mismatches: 56, Indels: 76
0.72 0.12 0.16
Matches are distributed among these distances:
42 6 0.02
43 16 0.05
44 205 0.60
45 105 0.31
46 11 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (43 bp):
TTTAGTCTGCCTCACTGCAACTTCAGGAGATAAGACTTGCTTA
Found at i:25967570 original size:133 final size:133
Alignment explanation
Indices: 25967332--25967814 Score: 912
Period size: 133 Copynumber: 3.6 Consensus size: 133
25967322 TAGGAATTAG
* * * *
25967332 TGCCATCTTTAGTCTGCCTCACTGCAACTTTAGGACGATAAGACTTGCTTATTTAGTCTGCTTCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTGAGGAGGATAAGACTTGCTTATTTAGTCTGCTTCA
25967397 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCTACTGCAACTTCAAGGAGATAAG
66 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCTACTGCAACTTCAAGGAGATAAG
25967462 ACT
131 ACT
25967465 TGCCATCTTCAGTCTGCCCCACTGCAACTTGAGGAGGATAAGACTTGCTTATTTAGTCTGCTTCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTGAGGAGGATAAGACTTGCTTATTTAGTCTGCTTCA
25967530 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCTACTGCAACTTCAAGGAGATAAG
66 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCTACTGCAACTTCAAGGAGATAAG
25967595 ACT
131 ACT
25967598 TGCCATCTTCAGTCTGCCCCACTGCAACTTGAGGAGGATAAGACTTGCTTATTTAGTCTGCTTCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTGAGGAGGATAAGACTTGCTTATTTAGTCTGCTTCA
25967663 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCTACTGCAACTTCAAGGAGATAAG
66 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCTACTGCAACTTCAAGGAGATAAG
25967728 ACT
131 ACT
* *
25967731 TGCCATCTTCAGTCTGCCCCACTGCAACTTGAGGAGGATAAGACTTGCTTACTTAGTCTGCTGCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTGAGGAGGATAAGACTTGCTTATTTAGTCTGCTTCA
25967796 CTGCAACTTCAGGGAGATA
66 CTGCAACTTCAGGGAGATA
25967815 AGACTAGATG
Statistics
Matches: 344, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 344 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (133 bp):
TGCCATCTTCAGTCTGCCCCACTGCAACTTGAGGAGGATAAGACTTGCTTATTTAGTCTGCTTCA
CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCTACTGCAACTTCAAGGAGATAAG
ACT
Found at i:25968209 original size:132 final size:132
Alignment explanation
Indices: 25967972--25968381 Score: 766
Period size: 132 Copynumber: 3.1 Consensus size: 132
25967962 CAATCCGCTC
25967972 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
*
25968037 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTC
66 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATACGCCGTC
25968102 TT
131 TT
*
25968104 CGATCTGCTCCACTACTGCTTATGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
25968169 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATACGCCGTC
66 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATACGCCGTC
25968234 TT
131 TT
25968236 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
* * * *
25968301 AGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCTACTATCTTGGAAAGATAAGATTCGTCGTC
66 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATACGCCGTC
25968366 TT
131 TT
25968368 CGATCTGCTCCACT
1 CGATCTGCTCCACT
25968382 GTCAATGCAG
Statistics
Matches: 271, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 271 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (132 bp):
CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATACGCCGTC
TT
Found at i:25968280 original size:44 final size:44
Alignment explanation
Indices: 25967974--25968282 Score: 145
Period size: 44 Copynumber: 7.0 Consensus size: 44
25967964 ATCCGCTCCG
*
25967974 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * * * * * * ** *
25968018 ACCTTCTCCGCTGCTGCTCAGGGAGACAAG-GCT-TGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGT--CTTCA
* ** * *
25968062 ATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATCCGCCGTCTTCG
1 ATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCTACAGTCTTCA
* *
25968106 ATCTGCTCCACTACTGCTTATGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * * * * * * ** *
25968150 ACCTTCTCCGCTGCTGCTCAGGGAGACAAG-GCT-TGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGT--CTTCA
* * * *
25968194 ATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATAC-GCCGTCTTCG
1 ATCTGC-T-CCACTACTGCTTAGG-GAGATAAGAT-CTACAGTCTTCA
*
25968238 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
25968282 A
1 A
25968283 CCTTCTCCGC
Statistics
Matches: 183, Mismatches: 60, Indels: 44
0.64 0.21 0.15
Matches are distributed among these distances:
42 14 0.08
43 13 0.07
44 135 0.74
45 8 0.04
46 13 0.07
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
Found at i:25969606 original size:11 final size:10
Alignment explanation
Indices: 25969590--25969617 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
25969580 TTATTTTTTA
25969590 TTTTTTTGTT
1 TTTTTTTGTT
25969600 TTTTTTTGTT
1 TTTTTTTGTT
25969610 TTTTTTTG
1 TTTTTTTG
25969618 AATTTGAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:25970822 original size:19 final size:19
Alignment explanation
Indices: 25970798--25970891 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
25970788 AATCATATAT
25970798 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
25970817 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
25970838 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
25970857 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
25970876 TCTAAGATTGCTTATC
1 TCTAAGATTGCATATC
25970892 CTCAAAAATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 51 0.73
21 19 0.27
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:25970846 original size:40 final size:38
Alignment explanation
Indices: 25970791--25970891 Score: 152
Period size: 40 Copynumber: 2.7 Consensus size: 38
25970781 ATTACAAAAT
25970791 CATAT-AT-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
*
25970827 CATATATCATATCTAAGATTGCATATCATATCTAGGATTG
1 C--ATATCATATCTAAGATTGCATATCATATCTAAGATTG
*
25970867 CATATCATATCTAAGATTGCTTATC
1 CATATCATATCTAAGATTGCATATC
25970892 CTCAAAAATT
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
36 1 0.02
38 27 0.46
39 2 0.03
40 29 0.49
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:25972298 original size:126 final size:123
Alignment explanation
Indices: 25972050--25972276 Score: 276
Period size: 126 Copynumber: 1.8 Consensus size: 123
25972040 AATAAAATAT
*
25972050 TTTTGGGAGTAAAAGGGGGAGAGAAAGTAAAAAAATTTGAAGGTAAAGGAGATAAAAATTTTGTG
1 TTTTGGGAGTAAAAGGGGGAGAGAAAGTAAAAAAATTTGAAGGTAAAGGAGATAAAAAGTTTGTG
* ** *
25972115 GGGGATTTGATTTTTGGGGGTAAAGAGGGAGAAATAAAATATTTTTGAGGGATTTTGA
66 AGGGATTTGATTTTTGGGGGTAAAGAGGGAGAAATAAAATATTTTCAAGCGATTTTGA
* * *** * * *
25972173 TTTTGGGAGTAAAATTGGGGGAGGGGGAAGTAAAACTTTTTGGAGGTAAGGGGGATAAAAAGTTT
1 TTTTGGGAGTAAAA--GGGGGA-GAGAAAGTAAAAAAATTTGAAGGTAAAGGAGATAAAAAGTTT
*
25972238 GTGAAGGGATTTGA-TTTTGGGGGATAAAGGGGGAGAAAT
63 GTG-AGGGATTTGATTTTTGGGGG-TAAAGAGGGAGAAAT
25972277 TCAAAATTTC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
123 14 0.16
125 6 0.07
126 45 0.51
127 23 0.26
ACGTcount: A:0.35, C:0.00, G:0.36, T:0.28
Consensus pattern (123 bp):
TTTTGGGAGTAAAAGGGGGAGAGAAAGTAAAAAAATTTGAAGGTAAAGGAGATAAAAAGTTTGTG
AGGGATTTGATTTTTGGGGGTAAAGAGGGAGAAATAAAATATTTTCAAGCGATTTTGA
Found at i:25974852 original size:40 final size:40
Alignment explanation
Indices: 25974807--25975154 Score: 687
Period size: 40 Copynumber: 8.7 Consensus size: 40
25974797 GCAAACACAT
*
25974807 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25974847 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25974887 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25974927 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25974967 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25975007 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25975047 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25975087 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25975127 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
25975155 TCCAATGCTC
Statistics
Matches: 307, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 307 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:25982388 original size:16 final size:16
Alignment explanation
Indices: 25982363--25982395 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
25982353 TTATTTATAT
*
25982363 TTATTCATATAATTAA
1 TTATTAATATAATTAA
25982379 TTATTAATATAATTAA
1 TTATTAATATAATTAA
25982395 T
1 T
25982396 ATAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATTAATATAATTAA
Found at i:25982395 original size:9 final size:9
Alignment explanation
Indices: 25982369--25982401 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
25982359 ATATTTATTC
25982369 ATATAATTA
1 ATATAATTA
25982378 AT-T-ATTA
1 ATATAATTA
25982385 ATATAATTA
1 ATATAATTA
25982394 ATATAATT
1 ATATAATT
25982402 TATTAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.27
8 2 0.09
9 14 0.64
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
ATATAATTA
Found at i:25982407 original size:22 final size:20
Alignment explanation
Indices: 25982372--25982419 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
25982362 TTTATTCATA
*
25982372 TAATTAATTATTAATATAAT
1 TAATTAATTATTAAAATAAT
25982392 TAATATAATTTATTAAAATAAT
1 TAAT-TAA-TTATTAAAATAAT
*
25982414 AAATTA
1 TAATTA
25982420 TTTAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.17
21 5 0.21
22 15 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATTAATTATTAAAATAAT
Found at i:25982984 original size:33 final size:33
Alignment explanation
Indices: 25982947--25983022 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
25982937 ATGAAACAAA
25982947 AGAAAATATTTTACACAAATTCATCCAAACACC
1 AGAAAATATTTTACACAAATTCATCCAAACACC
* *
25982980 AGAAAATATTTTATACAGATTCATCCAAACACC
1 AGAAAATATTTTACACAAATTCATCCAAACACC
25983013 AGAAAATATT
1 AGAAAATATT
25983023 AGCTTTTCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.26
Consensus pattern (33 bp):
AGAAAATATTTTACACAAATTCATCCAAACACC
Found at i:25983772 original size:40 final size:40
Alignment explanation
Indices: 25983705--25983817 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 40
25983695 AAAATAGGTT
*
25983705 TTTAGCGGCG-TTTGGATAAAAAACGCCGCTAAAGATTGAGCA
1 TTTAGCGGCGCTTT--ATGAAAAACGCCGCTAAAGATTGAG-A
* * *
25983747 -TTAGCGGCGCTTTTTGGAAAACGCCGTTAAAGATTGAGA
1 TTTAGCGGCGCTTTATGAAAAACGCCGCTAAAGATTGAGA
**
25983786 TTTAGCGGCGCTTTATGAAAAATACCGCTAAA
1 TTTAGCGGCGCTTTATGAAAAACGCCGCTAAA
25983818 AATAAGCTAG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
39 1 0.02
40 47 0.78
41 9 0.15
42 3 0.05
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27
Consensus pattern (40 bp):
TTTAGCGGCGCTTTATGAAAAACGCCGCTAAAGATTGAGA
Found at i:25983953 original size:41 final size:41
Alignment explanation
Indices: 25983887--25984091 Score: 275
Period size: 41 Copynumber: 4.8 Consensus size: 41
25983877 CTTTCGGGGA
* *
25983887 TTTAGCGGCGTTTTTAGGAAGGCGCCGCTAATGCCCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGGC
25983928 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGGC
* *
25983969 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCGCAGGCC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGGC
*
25984010 TTTAGCGGCGTTTTTGTGAAAGTTGTGAAAGCGCCGCTAATGCCTAGGGC
1 TTTAGCGGCG-TTTT-T----G--G-GAAAGCGCCGCTAATGCCCAGGGC
*
25984060 TTTAGCGGCGTTTTTGGGAAAGTGCCGCTAAT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAT
25984092 AATGCTCATG
Statistics
Matches: 147, Mismatches: 8, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
41 102 0.69
42 5 0.03
43 1 0.01
44 1 0.01
47 1 0.01
48 1 0.01
49 5 0.03
50 31 0.21
ACGTcount: A:0.18, C:0.21, G:0.33, T:0.27
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGGC
Found at i:25984024 original size:82 final size:87
Alignment explanation
Indices: 25983887--25984091 Score: 285
Period size: 91 Copynumber: 2.4 Consensus size: 87
25983877 CTTTCGGGGA
* * *
25983887 TTTAGCGGCGTTTTTAGGAAGGCGCCGCTAATGCCCAGGGCTTTAGCGGCG-TTTT-T-G-G-GA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGCCTTTAGCGGCGTTTTTGTAGTGTGA
25983947 AAGCGCCGCTAATGCCCAGGGC
66 AAGCGCCGCTAATGCCCAGGGC
*
25983969 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCGCAGGCCTTTAGCGGCGTTTTTGTGAAAGTT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGCCTTTAGCGGCGTTTTTGT---AG-T
*
25984034 GTGAAAGCGCCGCTAATGCCTAGGGC
62 GTGAAAGCGCCGCTAATGCCCAGGGC
*
25984060 TTTAGCGGCGTTTTTGGGAAAGTGCCGCTAAT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAT
25984092 AATGCTCATG
Statistics
Matches: 108, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
82 47 0.44
83 4 0.04
84 1 0.01
88 1 0.01
90 1 0.01
91 54 0.50
ACGTcount: A:0.18, C:0.21, G:0.33, T:0.27
Consensus pattern (87 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAGGCCTTTAGCGGCGTTTTTGTAGTGTGA
AAGCGCCGCTAATGCCCAGGGC
Found at i:25984063 original size:50 final size:50
Alignment explanation
Indices: 25983986--25984082 Score: 160
Period size: 50 Copynumber: 1.9 Consensus size: 50
25983976 GCGTTTTTGG
*
25983986 GAAAGCGCCGCTAATGCGCAGGCCTTTAGCGGCGTTTTTGTGAAAGTTGT
1 GAAAGCGCCGCTAATGCGCAGGCCTTTAGCGGCGTTTTTGGGAAAGTTGT
*
25984036 GAAAGCGCCGCTAATGC-CTAGGGCTTTAGCGGCGTTTTTGGGAAAGT
1 GAAAGCGCCGCTAATGCGC-AGGCCTTTAGCGGCGTTTTTGGGAAAGT
25984083 GCCGCTAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 1 0.02
50 43 0.98
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.27
Consensus pattern (50 bp):
GAAAGCGCCGCTAATGCGCAGGCCTTTAGCGGCGTTTTTGGGAAAGTTGT
Found at i:25984282 original size:66 final size:66
Alignment explanation
Indices: 25984211--25984344 Score: 241
Period size: 66 Copynumber: 2.0 Consensus size: 66
25984201 ATTTATATAT
*
25984211 TAAATAATTTCTTATATAATTGTAAAAGAGATAGCATTAATTTTAAAATATTGAATTAATTATCA
1 TAAATAATTTCTTATATAATCGTAAAAGAGATAGCATTAATTTTAAAATATTGAATTAATTATCA
25984276 C
66 C
* *
25984277 TAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAAAATGTTGAATTAATTATCA
1 TAAATAATTTCTTATATAATCGTAAAAGAGATAGCATTAATTTTAAAATATTGAATTAATTATCA
25984342 C
66 C
25984343 TA
1 TA
25984345 TAGTTTAGGG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (66 bp):
TAAATAATTTCTTATATAATCGTAAAAGAGATAGCATTAATTTTAAAATATTGAATTAATTATCA
C
Found at i:25984469 original size:78 final size:74
Alignment explanation
Indices: 25984358--25984505 Score: 224
Period size: 78 Copynumber: 1.9 Consensus size: 74
25984348 TTTAGGGTTT
* *
25984358 TTGGTTTAGGGTATATGGTTTAAATAGGTTTAGGTGTTACCATTTTAAGGTTTATGGATTTTGGG
1 TTGGTTTAGGGTATATGGTTTAAACAGGTTTAGGTGTTACCATTTTAAGGTTTATGGATTATGGG
25984423 TTTAGGTCC
66 TTTAGGTCC
* *
25984432 TTGGTTTAGGGTATATGCATGGTTTAGACAGGTTTAGGTGTTGCCATTTTAAGGTTTATGGATTA
1 TTGGTTTAGGG--TAT--ATGGTTTAAACAGGTTTAGGTGTTACCATTTTAAGGTTTATGGATTA
25984497 TGGGTTTAG
62 TGGGTTTAG
25984506 AGATTATGGG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
74 11 0.17
76 3 0.05
78 52 0.79
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (74 bp):
TTGGTTTAGGGTATATGGTTTAAACAGGTTTAGGTGTTACCATTTTAAGGTTTATGGATTATGGG
TTTAGGTCC
Found at i:25984504 original size:15 final size:15
Alignment explanation
Indices: 25984484--25984532 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
25984474 GCCATTTTAA
25984484 GGTTTATGGATTATG
1 GGTTTATGGATTATG
25984499 GGTTTA-GAGATTATG
1 GGTTTATG-GATTATG
*
25984514 GG-TTATGGTTTAT-
1 GGTTTATGGATTATG
25984527 GGTTTA
1 GGTTTA
25984533 AAGGTTGGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 2 0.07
14 12 0.40
15 16 0.53
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:25984538 original size:21 final size:21
Alignment explanation
Indices: 25984514--25984561 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
25984504 AGAGATTATG
*
25984514 GGTTATGGTTTATGGTTTAAA
1 GGTTATGGTTTAAGGTTTAAA
** *
25984535 GGTTGGGGTTTAAGGTTTAGA
1 GGTTATGGTTTAAGGTTTAAA
25984556 GGTTAT
1 GGTTAT
25984562 ATGTTAAGGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (21 bp):
GGTTATGGTTTAAGGTTTAAA
Found at i:25984609 original size:21 final size:20
Alignment explanation
Indices: 25984580--25984618 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25984570 GGTTTATGGT
25984580 TTTAAGGTTTTAGGGTTTAAA
1 TTTAAGG-TTTAGGGTTTAAA
*
25984601 TTTATGGTTTAGGGTTTA
1 TTTAAGGTTTAGGGTTTA
25984619 GATTAACTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (20 bp):
TTTAAGGTTTAGGGTTTAAA
Found at i:25988098 original size:21 final size:21
Alignment explanation
Indices: 25988072--25988114 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
25988062 GACAATGTTT
25988072 GGATATATGCCGATTGGAGCA
1 GGATATATGCCGATTGGAGCA
25988093 GGATATATGCCGATTGGAGCA
1 GGATATATGCCGATTGGAGCA
25988114 G
1 G
25988115 TCATGGTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (21 bp):
GGATATATGCCGATTGGAGCA
Found at i:25989052 original size:35 final size:35
Alignment explanation
Indices: 25988986--25989052 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
25988976 TAATTATATT
*
25988986 ATTAATTTATTATTTTAAATTCTAAATTTAAATTC
1 ATTAATTTATTATTTTAAATTCTAAAGTTAAATTC
* * *
25989021 ATTAATTTTTTATATTT-AGTTTTAAAGTTAAA
1 ATTAATTTATTAT-TTTAAATTCTAAAGTTAAA
25989053 ATTTTCGTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 24 0.89
36 3 0.11
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (35 bp):
ATTAATTTATTATTTTAAATTCTAAAGTTAAATTC
Found at i:25989231 original size:42 final size:42
Alignment explanation
Indices: 25989170--25989423 Score: 312
Period size: 42 Copynumber: 6.0 Consensus size: 42
25989160 GATATGTTTT
* * * *
25989170 TAGCGGCGGTTGTGTGAAAAGCGCTGCTAAAGGTCTGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGATCTA
*
25989212 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGCTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGATCTA
* * *
25989254 TAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCTGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGATCTA
* * * *
25989296 TAGTGGCGTTTGTGGGGAAAGCACCGCGAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-TGATCTA
* * * * *
25989339 TAGTGGCGTTTGTGGGGAAAGCTCCGCTAAAGATCTTGAGCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-TGATCTA
*
25989382 TAGCGACGTTTGTGGG-AAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-CTGATCTA
25989424 AACGCATTTT
Statistics
Matches: 189, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 129 0.68
43 60 0.32
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGATCTA
Found at i:25989739 original size:124 final size:124
Alignment explanation
Indices: 25989516--25989865 Score: 628
Period size: 124 Copynumber: 2.8 Consensus size: 124
25989506 TTATTTCGAG
* *
25989516 TTGACGTTTCTGATCAAATAGTATAAAATCGCCTCTACCAGGATTCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
25989581 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
*
25989640 TTTACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
25989705 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
* * *
25989764 TTGACGTTTTTGAGCAAATAGTATAAAATCACCTCTACCAGGATGCTATTTGGGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
25989829 AAATCACGCCCTCGTGGATGCGATTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
25989866 CAAGTTTGGG
Statistics
Matches: 217, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 217 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
Found at i:25992765 original size:10 final size:10
Alignment explanation
Indices: 25992750--25992776 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
25992740 TAAAATTATC
25992750 AAATTATGTA
1 AAATTATGTA
25992760 AAATTATGTA
1 AAATTATGTA
25992770 AAATTAT
1 AAATTAT
25992777 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:25992821 original size:18 final size:18
Alignment explanation
Indices: 25992798--25992832 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25992788 CAATTTAATT
25992798 AAATTAGGTAAAATTATC
1 AAATTAGGTAAAATTATC
*
25992816 AAATTATGTAAAATTAT
1 AAATTAGGTAAAATTAT
25992833 TATGTCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:25992826 original size:66 final size:64
Alignment explanation
Indices: 25992687--25992832 Score: 188
Period size: 65 Copynumber: 2.2 Consensus size: 64
25992677 CAAATCTAAC
* * ** *
25992687 ATTATGCAAAATTATGTAAAATTATTAAGTCCCAAAATTTTGTTAATGGTTAGTAAAATTATCAA
1 ATTATGTAAAATTATGTAAAATTATTAAGTCCAAAAATTTAATTAA-GATTAGTAAAATTATCAA
25992752 ATTATGTAAAATTATGTAAAATTATTAAG-CCAAAAACAATTTAATTAA-ATTAGGTAAAATTAT
1 ATTATGTAAAATTATGTAAAATTATTAAGTCC--AAA-AATTTAATTAAGATTA-GTAAAATTAT
25992815 CAA
62 CAA
25992818 ATTATGTAAAATTAT
1 ATTATGTAAAATTAT
25992833 TATGTCCAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
64 2 0.03
65 31 0.43
66 30 0.42
67 9 0.12
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (64 bp):
ATTATGTAAAATTATGTAAAATTATTAAGTCCAAAAATTTAATTAAGATTAGTAAAATTATCAA
Found at i:25992853 original size:121 final size:121
Alignment explanation
Indices: 25992695--25993008 Score: 574
Period size: 121 Copynumber: 2.6 Consensus size: 121
25992685 ACATTATGCA
* *
25992695 AAATTATGTAAAATTATTAAGTCCCAAAATTTTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
*
25992760 AAATTATGTAAAATTATTAAGCCAAAAACAATTTAATTAAATTAGGTAAAATTATC
66 AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTAGGTAAAATTATC
*
25992816 AAATTATGTAAAATTATTATGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
25992881 AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTAGGTAAAATTATC
66 AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTAGGTAAAATTATC
* *
25992937 AAATTAGGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
25993002 AAATTAT
66 AAATTAT
25993009 TAAGTCCAAC
Statistics
Matches: 186, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 186 1.00
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (121 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
AAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTAGGTAAAATTATC
Found at i:25992886 original size:10 final size:10
Alignment explanation
Indices: 25992871--25992897 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
25992861 TAAAATTATC
25992871 AAATTATGTA
1 AAATTATGTA
25992881 AAATTATGTA
1 AAATTATGTA
25992891 AAATTAT
1 AAATTAT
25992898 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:25992942 original size:18 final size:18
Alignment explanation
Indices: 25992919--25992953 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
25992909 AAATTTAATT
25992919 AAATTAGGTAAAATTATC
1 AAATTAGGTAAAATTATC
25992937 AAATTAGGTAAAATTAT
1 AAATTAGGTAAAATTAT
25992954 TAAGTCCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.34
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:25993003 original size:55 final size:55
Alignment explanation
Indices: 25992926--25993062 Score: 256
Period size: 55 Copynumber: 2.5 Consensus size: 55
25992916 ATTAAATTAG
* *
25992926 GTAAAATTATCAAATTAGGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTTA
1 GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTGA
25992981 GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTGA
1 GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTGA
25993036 GTAAAATTATCAAATTATGTAAAATTA
1 GTAAAATTATCAAATTATGTAAAATTA
25993063 GGTTACAGTT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 80 1.00
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (55 bp):
GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTGA
Found at i:25993092 original size:18 final size:18
Alignment explanation
Indices: 25993069--25993110 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
25993059 ATTAGGTTAC
25993069 AGTTAGAGTTTTTAATTA
1 AGTTAGAGTTTTTAATTA
*
25993087 AGTTAGGGTTTTTAATTA
1 AGTTAGAGTTTTTAATTA
*
25993105 AATTAG
1 AGTTAG
25993111 GTTAGGGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (18 bp):
AGTTAGAGTTTTTAATTA
Found at i:25993120 original size:29 final size:29
Alignment explanation
Indices: 25993088--25993169 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
25993078 TTTTAATTAA
25993088 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
**
25993117 GTTAGACTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
*
25993146 GTTAGGGTTTTTAATTAAGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGG
25993170 GTTTTTAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:25993142 original size:76 final size:76
Alignment explanation
Indices: 25993057--25993444 Score: 521
Period size: 76 Copynumber: 5.1 Consensus size: 76
25993047 AAATTATGTA
** * *
25993057 AAATTAGGTTACAGTTAGAGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAG
**
25993122 ACTTTTTAATT
66 GGTTTTTAATT
*
25993133 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGATTAGGGTTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAG
25993198 GGTTTTTAATT
66 GGTTTTTAATT
* **** * * * * *
25993209 AAGTTAGGGTTTTTAATTA-AG-TTAT-GTTAGGGTTAGGGTTTTTAATTAGGTTAGGTTAGGGT
1 AAATTA-GG-TTAGGGTTAGGGTTTTTAATTA-AGTTAGGGTTTTTAATTAAGTTAGGTTAGGGT
25993271 TAGGGTTTTTAATT
63 TAGGGTTTTTAATT
**
25993285 AGGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAG
*
25993350 GGTTTTTACTT
66 GGTTTTTAATT
* *
25993361 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTGTTTTTAATTAGGTTAGGTTAGGGTTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAG
25993426 GGTTTTTAATT
66 GGTTTTTAATT
*
25993437 AAGTTAGG
1 AAATTAGG
25993445 GTTTTTAAAA
Statistics
Matches: 271, Mismatches: 35, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
74 5 0.02
75 6 0.02
76 249 0.92
77 6 0.02
78 5 0.02
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (76 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAG
GGTTTTTAATT
Found at i:25993168 original size:47 final size:47
Alignment explanation
Indices: 25993124--25993368 Score: 337
Period size: 47 Copynumber: 5.0 Consensus size: 47
25993114 AGGGTTAGAC
*
25993124 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGG
1 TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGG
*
25993171 TTTTTAATTAAGTTAGATTAGGGTTAGGGTTTTTAATTAAGTTAGGG
1 TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGG
*
25993218 TTTTTAATTAAGTTATGTTAGGGTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAGGG
1 TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTT-A--A--TTA----A--GTTAGGG
*
25993276 TTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGG
1 TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGG
* *
25993323 TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTACTTAAATTAGG
1 TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG
25993369 TTAGGGTTAG
Statistics
Matches: 178, Mismatches: 9, Indels: 22
0.85 0.04 0.11
Matches are distributed among these distances:
47 127 0.71
48 1 0.01
49 1 0.01
50 1 0.01
52 3 0.02
53 3 0.02
55 1 0.01
56 1 0.01
57 1 0.01
58 39 0.22
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (47 bp):
TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGG
Found at i:25993169 original size:18 final size:18
Alignment explanation
Indices: 25993146--25993232 Score: 100
Period size: 18 Copynumber: 5.2 Consensus size: 18
25993136 TTAGGTTAGG
25993146 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
25993164 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
25993182 GTTA--G------ATTAGG
1 GTTAGGGTTTTTAATTA-A
25993193 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
25993211 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
25993229 GTTA
1 GTTA
25993233 TGTTAGGGTT
Statistics
Matches: 58, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
10 4 0.07
11 4 0.07
13 1 0.02
16 1 0.02
18 44 0.76
19 4 0.07
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:25993196 original size:29 final size:29
Alignment explanation
Indices: 25993164--25993321 Score: 139
Period size: 29 Copynumber: 5.8 Consensus size: 29
25993154 TTTTAATTAA
*
25993164 GTTAGGGTTTTTAATTAAGTTAGATTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
25993193 GTTAGGGTTTTTAATT-A---A-GTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
*
25993217 GTT----TTTAATTAAGTTATGTTAGGGTTA--
1 GTTAGGGTTT--TTAA-TTAAGTTA-GGTTAGG
*
25993244 G----GGTTTTTAATTAGGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
*
25993269 GTTAGGGTTTTTAATTAGGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
25993298 GTTAGGGTTTTTAATTAAGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGG
25993322 GTTTTTAATT
Statistics
Matches: 108, Mismatches: 4, Indels: 34
0.74 0.03 0.23
Matches are distributed among these distances:
20 3 0.03
22 4 0.04
23 7 0.06
24 15 0.14
25 6 0.06
27 5 0.05
28 1 0.01
29 67 0.62
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAGTTAGGTTAGG
Found at i:25993341 original size:17 final size:18
Alignment explanation
Indices: 25993298--25993339 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
25993288 TTAGGTTAGG
25993298 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
25993316 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
25993334 GTTAGG
1 GTTAGG
25993340 TTAGGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:25993396 original size:29 final size:29
Alignment explanation
Indices: 25993211--25993321 Score: 195
Period size: 29 Copynumber: 3.8 Consensus size: 29
25993201 TTTTAATTAA
*
25993211 GTTAGGGTTTTTAATTAAGTTATGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
*
25993240 GTTAGGGTTTTTAATTAGGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
*
25993269 GTTAGGGTTTTTAATTAGGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
25993298 GTTAGGGTTTTTAATTAAGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGG
25993322 GTTTTTAATT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 79 1.00
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.46
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAGTTAGGTTAGG
Found at i:25993396 original size:47 final size:47
Alignment explanation
Indices: 25993345--25993462 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
25993335 TTAGGTTAGG
*
25993345 GTTAGGGTTTTTACTTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* **
25993392 GTTAGTGTTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
**
25993439 GTTAGGGTTTTTAAAAAAATTAGG
1 GTTAGGGTTTTTAATTAAATTAGG
25993463 GTTTTTATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (47 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:25993401 original size:18 final size:18
Alignment explanation
Indices: 25993374--25993469 Score: 80
Period size: 18 Copynumber: 5.7 Consensus size: 18
25993364 TTAGGTTAGG
25993374 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* *
25993392 GTTAGTGTTTTTAATTAG
1 GTTAGGGTTTTTAATTAA
**
25993410 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
25993421 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**
25993439 GTTAGGGTTTTTAAAAAA
1 GTTAGGGTTTTTAATTAA
*
25993457 ATTAGGGTTTTTA
1 GTTAGGGTTTTTA
25993470 TTACATCAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
11 5 0.08
12 2 0.03
13 1 0.02
14 2 0.03
15 2 0.03
16 1 0.02
17 1 0.02
18 48 0.77
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:25993425 original size:105 final size:103
Alignment explanation
Indices: 25993164--25993444 Score: 350
Period size: 105 Copynumber: 2.7 Consensus size: 103
25993154 TTTTAATTAA
* **
25993164 GTTAGGGTTTTTAATTAAGTTAGATTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGAATTAGGG--TTTAATTAAGTTAGGGTTTTTAATTAA
* **
25993229 GTTATGTTAGGGTTAGGGTTTTTAATTAGGTTAGGTTAGG
64 GTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
* **
25993269 GTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGAATTAGGG--TTTAATTAAGTTAGGGTTTTTAATTAA
*
25993334 GTTAGGTTAGGGTTAGGGTTTTTACTTAAATTAGGTTAGG
64 GTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
** * *
25993374 GTTAGGGTTTTTAATTAAGTTAGTGTTTTTAATTA-GG-TTAGGTTAGGGTTAGGGTTTTTAATT
1 GTTAGGGTTTTTAATTAAGTTAG-G-TTAGAATTAGGGTTTA-ATTA-AGTTAGGGTTTTTAATT
25993437 AAGTTAGG
62 AAGTTAGG
25993445 GTTTTTAAAA
Statistics
Matches: 159, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
103 3 0.02
104 3 0.02
105 145 0.91
106 3 0.02
107 5 0.03
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (103 bp):
GTTAGGGTTTTTAATTAAGTTAGGTTAGAATTAGGGTTTAATTAAGTTAGGGTTTTTAATTAAGT
TAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:25993533 original size:25 final size:25
Alignment explanation
Indices: 25993465--25993533 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
25993455 AAATTAGGGT
* *
25993465 TTTTATTACATCAAATTGAACTTCTA
1 TTTTATTACATCAAA-TAAAATTCTA
* *
25993491 TTTTATTATATTAAATAAAATTCTA
1 TTTTATTACATCAAATAAAATTCTA
*
25993516 TTTTATTACATCAGATAA
1 TTTTATTACATCAAATAA
25993534 TAAATTTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 23 0.64
26 13 0.36
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (25 bp):
TTTTATTACATCAAATAAAATTCTA
Found at i:25993964 original size:18 final size:18
Alignment explanation
Indices: 25993937--25993971 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25993927 CGGAAAAGGA
* *
25993937 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
25993955 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
25993972 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:25995842 original size:30 final size:30
Alignment explanation
Indices: 25995815--25995876 Score: 99
Period size: 31 Copynumber: 2.1 Consensus size: 30
25995805 ATGAAAATAT
*
25995815 AAAAAATTTAAAATTATTTTTAAAAAATAGA
1 AAAAAAATTAAAATTA-TTTTAAAAAATAGA
25995846 AAAAAAATTAAAATTATTTTAAAAAAT-GA
1 AAAAAAATTAAAATTATTTTAAAAAATAGA
25995875 AA
1 AA
25995877 TTGAGGGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 4 0.13
30 11 0.37
31 15 0.50
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAAAAATTAAAATTATTTTAAAAAATAGA
Found at i:25995928 original size:51 final size:51
Alignment explanation
Indices: 25995873--25995985 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
25995863 TTTAAAAAAT
* *
25995873 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTTGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
*
25995924 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
25995975 GAAATTGAGAG
1 GAAATTGAGAG
25995986 AATTTTTGAA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:25995982 original size:22 final size:22
Alignment explanation
Indices: 25995957--25996007 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
25995947 AAATATGGGT
25995957 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
25995979 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
25996001 TTGAGAG
1 TTGAGAG
25996008 GATTAGAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:25997335 original size:15 final size:14
Alignment explanation
Indices: 25997317--25997346 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
25997307 TTAGCAGTTA
25997317 AGGGATTATGTGTTT
1 AGGGATTATG-GTTT
25997332 AGGGATTATGGTTT
1 AGGGATTATGGTTT
25997346 A
1 A
25997347 TTGTTTAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (14 bp):
AGGGATTATGGTTT
Found at i:25997373 original size:14 final size:15
Alignment explanation
Indices: 25997356--25997392 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
25997346 ATTGTTTAGT
25997356 GTTTAAGGGTT-GGG
1 GTTTAAGGGTTAGGG
25997370 GTTTAAGGGTTAGGG
1 GTTTAAGGGTTAGGG
25997385 GTTTAAGG
1 GTTTAAGG
25997393 TTTATAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (15 bp):
GTTTAAGGGTTAGGG
Found at i:25997396 original size:50 final size:50
Alignment explanation
Indices: 25997341--25997446 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
25997331 TAGGGATTAT
* * * * * *
25997341 GGTTTATTGTTTAGTGTTTAAGGGTT-GGGGTTTAAGGGTTAGGGGTTTAA
1 GGTTTATAGTTTA-TGTTTAAGGATTCAGGGTTTAAGGGATAAGGGTTAAA
* *
25997391 GGTTTATAGTTTATGTTTTATGATTCAGGGTTTAAGGGATAAGGGTTAAA
1 GGTTTATAGTTTATGTTTAAGGATTCAGGGTTTAAGGGATAAGGGTTAAA
25997441 GGTTTA
1 GGTTTA
25997447 GGGATTATAG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 9 0.19
50 38 0.81
ACGTcount: A:0.23, C:0.01, G:0.33, T:0.43
Consensus pattern (50 bp):
GGTTTATAGTTTATGTTTAAGGATTCAGGGTTTAAGGGATAAGGGTTAAA
Found at i:25997515 original size:22 final size:21
Alignment explanation
Indices: 25997490--25997538 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
25997480 TGGGGTTTAA
25997490 GGTTTAGGTGTTAG-GGATTAGG
1 GGTTTAGG-GTTAGAGGATTA-G
* *
25997512 GGTTAAGGGTTAGAGGTTTAG
1 GGTTTAGGGTTAGAGGATTAG
25997533 GGTTTA
1 GGTTTA
25997539 TAATTTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (21 bp):
GGTTTAGGGTTAGAGGATTAG
Found at i:25997532 original size:8 final size:7
Alignment explanation
Indices: 25997328--25997538 Score: 54
Period size: 7 Copynumber: 29.7 Consensus size: 7
25997318 GGGATTATGT
25997328 GTTTAGG
1 GTTTAGG
* *
25997335 GATTATG
1 GTTTAGG
**
25997342 GTTTATT
1 GTTTAGG
*
25997349 GTTTAGT
1 GTTTAGG
25997356 GTTTAAGG
1 GTTT-AGG
*
25997364 G-TTGGG
1 GTTTAGG
25997370 GTTTAAGG
1 GTTT-AGG
25997378 G-TTAGGG
1 GTTTA-GG
*
25997385 GTTTAAG
1 GTTTAGG
**
25997392 GTTTATA
1 GTTTAGG
*
25997399 GTTTATG
1 GTTTAGG
* *
25997406 TTTTATG
1 GTTTAGG
* *
25997413 ATTCAGG
1 GTTTAGG
25997420 GTTTAAGG
1 GTTT-AGG
* *
25997428 GATAAGG
1 GTTTAGG
* *
25997435 GTTAAAG
1 GTTTAGG
25997442 GTTTAGG
1 GTTTAGG
* **
25997449 GATTATA
1 GTTTAGG
*
25997456 GTTTATG
1 GTTTAGG
*
25997463 GATTATGG
1 GTTTA-GG
* *
25997471 TTTTAAG
1 GTTTAGG
*
25997478 G-TTGGG
1 GTTTAGG
*
25997484 GTTTAAG
1 GTTTAGG
25997491 GTTTA-G
1 GTTTAGG
25997497 GTGTTAGG
1 GT-TTAGG
*
25997505 GATTAGGG
1 GTTTA-GG
*
25997513 GTTAAGG
1 GTTTAGG
25997520 G-TTAGAG
1 GTTTAG-G
25997527 GTTTAGG
1 GTTTAGG
25997534 GTTTA
1 GTTTA
25997539 TAATTTATAT
Statistics
Matches: 148, Mismatches: 43, Indels: 26
0.68 0.20 0.12
Matches are distributed among these distances:
6 14 0.09
7 105 0.71
8 29 0.20
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:25997592 original size:21 final size:21
Alignment explanation
Indices: 25997557--25997654 Score: 67
Period size: 21 Copynumber: 4.6 Consensus size: 21
25997547 ATTTTATGAT
*
25997557 TTAATGTTTAAGGGA-TAAGGG
1 TTAAGGTTT-AGGGATTAAGGG
* *
25997578 TTAGAGGTTTAGGGATTATGGT
1 TTA-AGGTTTAGGGATTAAGGG
* * *
25997600 TTAAGGGTTGGGGATTAAGGT
1 TTAAGGTTTAGGGATTAAGGG
*
25997621 TTAA-GTGTTAGGG-GTAAGGG
1 TTAAGGT-TTAGGGATTAAGGG
*
25997641 TTATGGGTTTAGGG
1 TTA-AGGTTTAGGG
25997655 TTTATAGTTC
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
20 9 0.15
21 38 0.62
22 14 0.23
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (21 bp):
TTAAGGTTTAGGGATTAAGGG
Found at i:25997655 original size:120 final size:122
Alignment explanation
Indices: 25997507--25997725 Score: 304
Period size: 120 Copynumber: 1.8 Consensus size: 122
25997497 GTGTTAGGGA
* * *
25997507 TTAGGGGTTAAGGGTTAGAGGTTTAGGGTTTATAATTTATATTTTATGATTTAATGTTTAAGGGA
1 TTAGGGGTTAAGGGTTAGAGGTTTAGGGTTTATAATTCATATTTTACGATTTAATGTTTAAAGGA
25997572 TAAGG-GTTAGAGGTTT-AGGGATTAT-GGTTTAAGGGTTGGGGATTAAGGTTTAAGTG
66 T-AGGTGTTAGAGGTTTAAGGG-TTATAGGTTTAAGGGTTGGGGATTAAGGTTTAAGTG
* * *
25997628 TTAGGGG-TAAGGGTTATG-GGTTTAGGGTTTATAGTTCATGTTTTACGATTTAGTGTTTAAAGG
1 TTAGGGGTTAAGGGTTA-GAGGTTTAGGGTTTATAATTCATATTTTACGATTTAATGTTTAAAGG
*
25997691 ATAGGTGTTAGGGGTTTAAGGGTTATAAGGTTTAA
65 ATAGGTGTTAGAGGTTTAAGGGTTAT-AGGTTTAA
25997726 AGGACAGGGT
Statistics
Matches: 86, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
119 3 0.03
120 64 0.74
121 12 0.14
122 7 0.08
ACGTcount: A:0.26, C:0.01, G:0.33, T:0.41
Consensus pattern (122 bp):
TTAGGGGTTAAGGGTTAGAGGTTTAGGGTTTATAATTCATATTTTACGATTTAATGTTTAAAGGA
TAGGTGTTAGAGGTTTAAGGGTTATAGGTTTAAGGGTTGGGGATTAAGGTTTAAGTG
Found at i:25997751 original size:15 final size:15
Alignment explanation
Indices: 25997731--25997778 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
25997721 TTTAAAGGAC
25997731 AGGGTTTAAGGTTTT
1 AGGGTTTAAGGTTTT
*
25997746 AGGGTTT-AGGGTTT
1 AGGGTTTAAGGTTTT
*
25997760 AGGGTTTATGGTTTT
1 AGGGTTTAAGGTTTT
25997775 AGGG
1 AGGG
25997779 ATAATGATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 13 0.45
15 16 0.55
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.44
Consensus pattern (15 bp):
AGGGTTTAAGGTTTT
Found at i:25997753 original size:7 final size:7
Alignment explanation
Indices: 25997731--25997778 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
25997721 TTTAAAGGAC
25997731 AGGGTTT
1 AGGGTTT
*
25997738 AAGGTTTT
1 -AGGGTTT
25997746 AGGGTTT
1 AGGGTTT
25997753 AGGGTTT
1 AGGGTTT
25997760 AGGGTTT
1 AGGGTTT
*
25997767 ATGGTTTT
1 A-GGGTTT
25997775 AGGG
1 AGGG
25997779 ATAATGATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
7 23 0.66
8 12 0.34
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.44
Consensus pattern (7 bp):
AGGGTTT
Found at i:25998249 original size:124 final size:125
Alignment explanation
Indices: 25998081--25998321 Score: 362
Period size: 124 Copynumber: 1.9 Consensus size: 125
25998071 AATGGCGCCG
* * *
25998081 TTTCGCTTCAGGAATATAATTTTAAGTGGCGTTTTTTGTAAAACGCCACAAATGTTATGCAATTA
1 TTTCACTTCAGGAACATAATTTTAAGTGGCATTTTTTGTAAAACGCCACAAATGTTATGCAATTA
* *
25998146 CTGGC-TTTTTTATAAAACGCCGCAAATATTGAAATTTCAATTTGACTTAAACGGTGCCA
66 CTGGCGTTTATTATAAAACGCCGCAAATACTGAAATTTCAATTTGACTTAAACGGTGCCA
**
25998205 TTTCACTTCAGGAACATAATTTTTAA-TGGCATTTTGTT-TAAAACGCTGCAAATGTTATGCAAT
1 TTTCACTTCAGGAACATAA-TTTTAAGTGGCATTTT-TTGTAAAACGCCACAAATGTTATGCAAT
* *
25998268 TAGTGGCGTTTATTGTAAAACGCCGCAAATACTGAAATTTCAATTTGACTTAAA
64 TACTGGCGTTTATTATAAAACGCCGCAAATACTGAAATTTCAATTTGACTTAAA
25998322 TGCCGTCGTG
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
124 54 0.51
125 51 0.49
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (125 bp):
TTTCACTTCAGGAACATAATTTTAAGTGGCATTTTTTGTAAAACGCCACAAATGTTATGCAATTA
CTGGCGTTTATTATAAAACGCCGCAAATACTGAAATTTCAATTTGACTTAAACGGTGCCA
Found at i:26001137 original size:43 final size:43
Alignment explanation
Indices: 26001063--26001265 Score: 196
Period size: 43 Copynumber: 4.8 Consensus size: 43
26001053 CAGCGTTAAA
* ** * * *
26001063 AGAAAGGCGCCGCTAAAGAACATG-ACATTTAGCGGTGTTTATG
1 AGAAAAGCGCCGCTAAAGGTCATGTTC-TTTAGCGGCGTTTGTG
* * * *
26001106 ACAAAAGCGCCGCTAAATGTCATGTTCTTTAGCAGCATTTGTG
1 AGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
* * ** *
26001149 AGAAAAGTGTCGCTAAAGGTCATGTT-TTTAGCATCGTTTCTG
1 AGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
* * * *
26001191 ATAAAAACGCCGCTAAAGGTAATGTTCTTCAGCGGCGTTTGTG
1 AGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
*
26001234 AGAAAA-TGCCGCTAAAGGTCATGTTCTTTAGC
1 AGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
26001266 AAGCGCCGCT
Statistics
Matches: 128, Mismatches: 30, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
42 57 0.45
43 70 0.55
44 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
AGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
Found at i:26001205 original size:42 final size:42
Alignment explanation
Indices: 26001090--26001266 Score: 176
Period size: 42 Copynumber: 4.2 Consensus size: 42
26001080 GAACATGACA
* * * * *
26001090 TTTAGCGGTGTTTATGACAAAAGCGCCGCTAAATGTCATGTTC
1 TTTAGCAGCGTTTGTGA-AAAAACGCCGCTAAAGGTCATGTTC
* ** *
26001133 TTTAGCAGCATTTGTGAGAAAAGTGTCGCTAAAGGTCATGTT-
1 TTTAGCAGCGTTTGTGA-AAAAACGCCGCTAAAGGTCATGTTC
* * *
26001175 TTTAGCATCGTTTCTGATAAAAACGCCGCTAAAGGTAATGTTC
1 TTTAGCAGCGTTTGTGA-AAAAACGCCGCTAAAGGTCATGTTC
* * * *
26001218 TTCAGCGGCGTTTGTGAGAAAATGCCGCTAAAGGTCATGTTC
1 TTTAGCAGCGTTTGTGAAAAAACGCCGCTAAAGGTCATGTTC
26001260 TTTAGCA
1 TTTAGCA
26001267 AGCGCCGCTA
Statistics
Matches: 108, Mismatches: 25, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
42 61 0.56
43 47 0.44
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
TTTAGCAGCGTTTGTGAAAAAACGCCGCTAAAGGTCATGTTC
Found at i:26001207 original size:85 final size:85
Alignment explanation
Indices: 26001099--26001266 Score: 239
Period size: 85 Copynumber: 2.0 Consensus size: 85
26001089 ATTTAGCGGT
* * * * *
26001099 GTTTATGACAAAAGCGCCGCTAAATGTCATGTTCTTTAGCAGCATTTGTGAGAAAAGTGTCGCTA
1 GTTTATGACAAAAACGCCGCTAAAGGTAATGTTCTTCAGCAGCATTTGTGAGAAAA-TGCCGCTA
26001164 AAGGTCATGTT-TTTAGCATC
65 AAGGTCATGTTCTTTAGCATC
* * * *
26001184 GTTTCTGATAAAAACGCCGCTAAAGGTAATGTTCTTCAGCGGCGTTTGTGAGAAAATGCCGCTAA
1 GTTTATGACAAAAACGCCGCTAAAGGTAATGTTCTTCAGCAGCATTTGTGAGAAAATGCCGCTAA
26001249 AGGTCATGTTCTTTAGCA
66 AGGTCATGTTCTTTAGCA
26001267 AGCGCCGCTA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 18 0.25
85 55 0.75
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (85 bp):
GTTTATGACAAAAACGCCGCTAAAGGTAATGTTCTTCAGCAGCATTTGTGAGAAAATGCCGCTAA
AGGTCATGTTCTTTAGCATC
Found at i:26001335 original size:21 final size:21
Alignment explanation
Indices: 26001295--26001335 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26001285 AGCGGCGCTT
* * *
26001295 AAAAGCGCCACTATAGGCCTA
1 AAAAACGCCACTAAAAGCCTA
26001316 AAAAACGCCACTAAAAGCCT
1 AAAAACGCCACTAAAAGCCT
26001336 GTTTTGCTGT
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:0.44, C:0.29, G:0.15, T:0.12
Consensus pattern (21 bp):
AAAAACGCCACTAAAAGCCTA
Found at i:26017946 original size:52 final size:48
Alignment explanation
Indices: 26017927--26018129 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
26017917 TGACAAGTGG
* *
26017927 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
26017973 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
26018025 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
26018071 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
26018117 AAAGTGATAAGTG
1 AAAGTGATAAGTG
26018130 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:26017982 original size:98 final size:98
Alignment explanation
Indices: 26017861--26018129 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
26017851 TTTGAGTACT
* *
26017861 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
26017926 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
26017959 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
26018024 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
26018057 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
26018122 GATAAGTG
65 GAAAAGTG
26018130 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:26018137 original size:37 final size:37
Alignment explanation
Indices: 26018093--26018238 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
26018083 GATAGCTTTA
*
26018093 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
26018130 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
26018167 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
26018204 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
26018239 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
Done.