Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 50 of 173
Found at i:13828932 original size:22 final size:22
Alignment explanation
Indices: 13828897--13828938 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13828887 GCAAAATTGT
**
13828897 AATAAAATTGAAAATAAAATAA
1 AATAAAATAAAAAATAAAATAA
*
13828919 AATAAAATAAAAAATGAAAT
1 AATAAAATAAAAAATAAAAT
13828939 TAGAAAGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (22 bp):
AATAAAATAAAAAATAAAATAA
Found at i:13829926 original size:33 final size:32
Alignment explanation
Indices: 13829888--13830028 Score: 93
Period size: 33 Copynumber: 4.2 Consensus size: 32
13829878 ATAGCTAGGC
13829888 TATGGCATTCTAATGATAAGACCATAACTGGGT
1 TATGGCATTCTAATG-TAAGACCATAACTGGGT
* * * *** **
13829921 TATGGCACTATGAACGTAAGACCATGTTTGGAC
1 TATGGCATTCT-AATGTAAGACCATAACTGGGT
* * * * *
13829954 CATGGTAGTGTTTATATGTAAGACCATAGCTGGGA
1 TATGGCA-T-TCTA-ATGTAAGACCATAACTGGGT
* *
13829989 TATGGTATTCTAATGATAATACCATAACTGGGT
1 TATGGCATTCTAATG-TAAGACCATAACTGGGT
13830022 TATGGCA
1 TATGGCA
13830029 CTACAAATGT
Statistics
Matches: 79, Mismatches: 24, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
32 3 0.04
33 49 0.62
34 5 0.06
35 22 0.28
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (32 bp):
TATGGCATTCTAATGTAAGACCATAACTGGGT
Found at i:13829982 original size:101 final size:101
Alignment explanation
Indices: 13829801--13830031 Score: 363
Period size: 101 Copynumber: 2.3 Consensus size: 101
13829791 TGAATTGACG
***
13829801 GATAAGACCATAACTTTTTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
* * *
13829866 ATATGTAATATCATAGCTAGGCTATGGCATTCTAAT
66 ATATGTAAGACCATAGCTAGGATATGGCATTCTAAT
* *
13829902 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGTTTGGACCATGGTAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
* *
13829967 ATATGTAAGACCATAGCTGGGATATGGTATTCTAAT
66 ATATGTAAGACCATAGCTAGGATATGGCATTCTAAT
*
13830003 GATAATACCATAACTGGGTTATGGCACTA
1 GATAAGACCATAACTGGGTTATGGCACTA
13830032 CAAATGTAAA
Statistics
Matches: 119, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 119 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
ATATGTAAGACCATAGCTAGGATATGGCATTCTAAT
Found at i:13833281 original size:16 final size:17
Alignment explanation
Indices: 13833247--13833287 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
13833237 CCTACTCCCT
13833247 CCCAATTTAAAACCCAG
1 CCCAATTTAAAACCCAG
*
13833264 CCCAATTT-AAATCCAG
1 CCCAATTTAAAACCCAG
13833280 CCCAATTT
1 CCCAATTT
13833288 TCTCTTAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.37, C:0.34, G:0.05, T:0.24
Consensus pattern (17 bp):
CCCAATTTAAAACCCAG
Found at i:13834211 original size:16 final size:16
Alignment explanation
Indices: 13834190--13834223 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
13834180 AATTATTGAA
*
13834190 TATATTGTAATTAATG
1 TATATTATAATTAATG
13834206 TATATTATAATTAATG
1 TATATTATAATTAATG
13834222 TA
1 TA
13834224 AGAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (16 bp):
TATATTATAATTAATG
Found at i:13837344 original size:24 final size:24
Alignment explanation
Indices: 13837287--13837345 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
13837277 GGTTTAATGC
* *
13837287 AAATGGAGATATTTTGGAGAGATG
1 AAATGGATATATTTTGGAAAGATG
*
13837311 AAATGAATATATTTTGGAAAGATG
1 AAATGGATATATTTTGGAAAGATG
13837335 AAATGGATATA
1 AAATGGATATA
13837346 AATGGAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (24 bp):
AAATGGATATATTTTGGAAAGATG
Found at i:13837437 original size:20 final size:19
Alignment explanation
Indices: 13837411--13837475 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
13837401 AATATTTTTA
13837411 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
* ***
13837430 ACTTATGTAAT-ATTTTTA-
1 A-TTATGTAGTGATTCAAAG
13837448 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
13837467 ATTTATGTA
1 A-TTATGTA
13837476 ATGTTTTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 6 0.18
20 15 0.44
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (19 bp):
ATTATGTAGTGATTCAAAG
Found at i:13837440 original size:37 final size:37
Alignment explanation
Indices: 13837386--13837498 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
13837376 TTATGTTTTA
*
13837386 ATTC-AAGACTTGTGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
13837422 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
* *
13837459 ATTCAAAGATTTATGTAATGTTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
13837496 ATT
1 ATT
13837499 TAATTCGGGT
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 4 0.05
37 69 0.95
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (37 bp):
ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
Found at i:13837454 original size:17 final size:17
Alignment explanation
Indices: 13837398--13837492 Score: 55
Period size: 17 Copynumber: 5.2 Consensus size: 17
13837388 TCAAGACTTG
13837398 TGTAATATTTTTAATTA
1 TGTAATATTTTTAATTA
* ***
13837415 TGTAGTGATTCAAAGACTTA
1 TGTAAT-ATTTTTA-A-TTA
13837435 TGTAATATTTTTAATTA
1 TGTAATATTTTTAATTA
* ***
13837452 TGTAGTGATTCAAAGATTTA
1 TGTAAT-ATTTTTA-A-TTA
*
13837472 TGTAATGTTTTTAATTA
1 TGTAATATTTTTAATTA
13837489 TGTA
1 TGTA
13837493 GTGATTTAAT
Statistics
Matches: 55, Mismatches: 17, Indels: 12
0.65 0.20 0.14
Matches are distributed among these distances:
17 20 0.36
18 10 0.18
19 9 0.16
20 16 0.29
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (17 bp):
TGTAATATTTTTAATTA
Found at i:13837513 original size:9 final size:9
Alignment explanation
Indices: 13837499--13837633 Score: 207
Period size: 9 Copynumber: 14.6 Consensus size: 9
13837489 TGTAGTGATT
13837499 TAATTCGGG
1 TAATTCGGG
13837508 TAATTCGGG
1 TAATTCGGG
13837517 TAATTTTCGGG
1 TAA--TTCGGG
13837528 TAATTCGGG
1 TAATTCGGG
*
13837537 TAATTTGGG
1 TAATTCGGG
13837546 TAATTTTCGGG
1 TAA--TTCGGG
13837557 TAATTCGGG
1 TAATTCGGG
13837566 TAATTCGGG
1 TAATTCGGG
13837575 TAATTCGGG
1 TAATTCGGG
*
13837584 TAAGTCGGG
1 TAATTCGGG
13837593 TAATTCGGG
1 TAATTCGGG
*
13837602 TAAGTCGGG
1 TAATTCGGG
13837611 TAATTCGGG
1 TAATTCGGG
13837620 TAATTCGGG
1 TAATTCGGG
13837629 TAATT
1 TAATT
13837634 TTTAACCAAA
Statistics
Matches: 116, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
9 99 0.85
11 17 0.15
ACGTcount: A:0.22, C:0.10, G:0.33, T:0.36
Consensus pattern (9 bp):
TAATTCGGG
Found at i:13837811 original size:12 final size:12
Alignment explanation
Indices: 13837794--13837818 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13837784 AAGAATTTCG
13837794 GGTCGGTTAACC
1 GGTCGGTTAACC
13837806 GGTCGGTTAACC
1 GGTCGGTTAACC
13837818 G
1 G
13837819 ACTGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:13838166 original size:29 final size:29
Alignment explanation
Indices: 13838110--13838169 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
13838100 ACATGATAGA
* **
13838110 TTCTGAAAAAATAGTTTTTAGGGTATGGG
1 TTCTGAAAAAATAGTTTTGAAAGTATGGG
13838139 TTCTGAAAAAATAGTTTTGACAAG-ATGGG
1 TTCTGAAAAAATAGTTTTGA-AAGTATGGG
13838168 TT
1 TT
13838170 GAGGTTTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (29 bp):
TTCTGAAAAAATAGTTTTGAAAGTATGGG
Found at i:13838606 original size:187 final size:188
Alignment explanation
Indices: 13838165--13838636 Score: 653
Period size: 187 Copynumber: 2.5 Consensus size: 188
13838155 TTGACAAGAT
* * * * *
13838165 GGGTTGAGGTTTGTAGAGGAAAGACACTCTAAGTAGGATGCACTGTCAGCAAAAGTACTGAAAAC
1 GGGTTGAGGTTTCTAGAGGAAAAACGCTCCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAC
* * * * *
13838230 GCTACAAATTGGACGCCCTTTTCAGTACTGCTACTTCTGTGAAAATAAATTTGATGAGATGATTC
66 GCTTCCAATTGGACGCCCTTTTCAATACTGCTACTTCTGTGAAAATAAATTAGATGAGATAATTC
* * * * *
13838295 TAAAAAAATATCACGGGATTCACTGGATGAGGTTTGTGAAAAATACCCCGAATAGTGG
131 TAAAAAAATATCACGAGATTCACCGGATAAAGTTTGTGAAAAATACCCCAAATAGTGG
*
13838353 GGGTTGAGGTTTCTAGAGAAAAAACGCTCCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAC
1 GGGTTGAGGTTTCTAGAGGAAAAACGCTCCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAC
* * *
13838418 GCTTCCAATTGGACGCCCATTTCAATACTGTTGCTTCTGTGAAAATAAATTAGATGAGATAATTC
66 GCTTCCAATTGGACGCCCTTTTCAATACTGCTACTTCTGTGAAAATAAATTAGATGAGATAATTC
* * *
13838483 T-GAAAAGTATC-CTGAGATTC-CCGGAATAAAGTTTGTGAAAAGTACCCCAAATAGTGG
131 TAAAAAAATATCAC-GAGATTCACCGG-ATAAAGTTTGTGAAAAATACCCCAAATAGTGG
* * * * *
13838540 TGGTTGAGGTTTCTATAGGAAAAACGCTCCAAACAGGATGCACTGTCAACAAAAGTACTAAAAAC
1 GGGTTGAGGTTTCTAGAGGAAAAACGCTCCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAC
*
13838605 GCTTCCATTTGGACGCCCTTTTCAATACTGCT
66 GCTTCCAATTGGACGCCCTTTTCAATACTGCT
13838637 TTTGATAGTG
Statistics
Matches: 251, Mismatches: 31, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
186 4 0.02
187 130 0.52
188 117 0.47
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (188 bp):
GGGTTGAGGTTTCTAGAGGAAAAACGCTCCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAC
GCTTCCAATTGGACGCCCTTTTCAATACTGCTACTTCTGTGAAAATAAATTAGATGAGATAATTC
TAAAAAAATATCACGAGATTCACCGGATAAAGTTTGTGAAAAATACCCCAAATAGTGG
Found at i:13838852 original size:13 final size:13
Alignment explanation
Indices: 13838836--13838860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13838826 GTATAAGTTG
13838836 ATTTTTCGTGTTA
1 ATTTTTCGTGTTA
13838849 ATTTTTCGTGTT
1 ATTTTTCGTGTT
13838861 TTGAATTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.08, G:0.16, T:0.64
Consensus pattern (13 bp):
ATTTTTCGTGTTA
Found at i:13844780 original size:20 final size:20
Alignment explanation
Indices: 13844755--13844796 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
13844745 CATGTGAAAT
*
13844755 AAACTAAAGATAAAACAAAA
1 AAACTAAACATAAAACAAAA
* *
13844775 AAACTAGACATAAAAGAAAA
1 AAACTAAACATAAAACAAAA
13844795 AA
1 AA
13844797 CGAAAAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.74, C:0.10, G:0.07, T:0.10
Consensus pattern (20 bp):
AAACTAAACATAAAACAAAA
Found at i:13848766 original size:42 final size:42
Alignment explanation
Indices: 13848686--13848856 Score: 218
Period size: 42 Copynumber: 4.0 Consensus size: 42
13848676 TTCAATATCC
** * *
13848686 ATTTGAGATTCCGTAAAAGACCATATCTGGGATA-TGGCATCG
1 ATTTGAGATT-CGTGTAAGACCATAGCTGGGCTATTGGCATCG
* * *
13848728 ATTTGAGATTCGTGTAGGACCATAGCTGGGTTATTGGCATCA
1 ATTTGAGATTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
* * *
13848770 ATTTGAGATTCGTTTAAGACCATAGTTGAGCTATTGGCATCG
1 ATTTGAGATTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
*
13848812 ATTTGAGATTTCATGTAAGACCATAGCTGGGCTATTGGCATCG
1 ATTTGAGA-TTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
13848855 AT
1 AT
13848857 ACGAGATTTC
Statistics
Matches: 111, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
41 18 0.16
42 61 0.55
43 32 0.29
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (42 bp):
ATTTGAGATTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
Found at i:13848846 original size:43 final size:42
Alignment explanation
Indices: 13848702--13848876 Score: 208
Period size: 42 Copynumber: 4.1 Consensus size: 42
13848692 GATTCCGTAA
* * *
13848702 AAGACCATATCTGGGATA-TGGCATCGATTTGAGATTCGTGT
1 AAGACCATAGCTGGGCTATTGGCATCGATTTGAGATTCATGT
* * * * *
13848743 AGGACCATAGCTGGGTTATTGGCATCAATTTGAGATTCGTTT
1 AAGACCATAGCTGGGCTATTGGCATCGATTTGAGATTCATGT
* *
13848785 AAGACCATAGTTGAGCTATTGGCATCGATTTGAGATTTCATGT
1 AAGACCATAGCTGGGCTATTGGCATCGATTTGAGA-TTCATGT
**
13848828 AAGACCATAGCTGGGCTATTGGCATCGATACGAGATTTCCATGT
1 AAGACCATAGCTGGGCTATTGGCATCGATTTGAGA-TT-CATGT
13848872 AAGAC
1 AAGAC
13848877 TATGTTTGGG
Statistics
Matches: 115, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
41 15 0.13
42 51 0.44
43 39 0.34
44 10 0.09
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
AAGACCATAGCTGGGCTATTGGCATCGATTTGAGATTCATGT
Found at i:13853307 original size:21 final size:20
Alignment explanation
Indices: 13853257--13853308 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
13853247 CAAATAAAAC
*
13853257 AAATAAAATAAATAAATAACT
1 AAAT-AAATAAATAAACAACT
13853278 AAGATAAATAAATAGAACAA-T
1 AA-ATAAATAAATA-AACAACT
13853299 AAATCAAATA
1 AAAT-AAATA
13853309 TTGGAACCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.07
21 19 0.70
22 6 0.22
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.21
Consensus pattern (20 bp):
AAATAAATAAATAAACAACT
Found at i:13855468 original size:9 final size:9
Alignment explanation
Indices: 13855454--13855522 Score: 104
Period size: 9 Copynumber: 7.8 Consensus size: 9
13855444 TTTGGTTAAA
13855454 AATTACCCG
1 AATTACCCG
13855463 AATTACCCG
1 AATTACCCG
13855472 AATTACCCG
1 AATTACCCG
13855481 AATTA-CCG
1 AATTACCCG
*
13855489 AATTAACCG
1 AATTACCCG
*
13855498 AATTAACCG
1 AATTACCCG
*
13855507 AATTAACCG
1 AATTACCCG
13855516 AATTACC
1 AATTACC
13855523 GAAAAATACC
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
8 8 0.14
9 50 0.86
ACGTcount: A:0.39, C:0.28, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:13855499 original size:35 final size:35
Alignment explanation
Indices: 13855454--13855525 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
13855444 TTTGGTTAAA
* * *
13855454 AATTACCCGAATTACCCGAATTACCCGAATTACCG
1 AATTAACCGAATTAACCGAATTAACCGAATTACCG
13855489 AATTAACCGAATTAACCGAATTAACCGAATTACCG
1 AATTAACCGAATTAACCGAATTAACCGAATTACCG
13855524 AA
1 AA
13855526 AAATACCCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.22
Consensus pattern (35 bp):
AATTAACCGAATTAACCGAATTAACCGAATTACCG
Found at i:13858173 original size:23 final size:23
Alignment explanation
Indices: 13858131--13858178 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
13858121 AAATACTAGT
** *
13858131 TAAAAAATAAATATGTACATGTA
1 TAAAAAATAAATATACACATATA
13858154 TAAAAAATAAATATACACATATA
1 TAAAAAATAAATATACACATATA
13858177 TA
1 TA
13858179 TAGATTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (23 bp):
TAAAAAATAAATATACACATATA
Found at i:13859775 original size:44 final size:43
Alignment explanation
Indices: 13859731--13860288 Score: 255
Period size: 44 Copynumber: 13.0 Consensus size: 43
13859721 AGGGAAATAG
* * *
13859731 GATCATTGAATTTAATCTGCTCCACTGCAACTTCAAGAAGATAG
1 GATC-TTGGATTTAATCTGCTCCACTGCAACTTCAAGGAGATAA
** *** * *
13859775 GA-C-TAAATGCGATCTGCT-CTCTGCAACTTC-AGAGAGATAC
1 GATCTTGGATTTAATCTGCTCCACTGCAACTTCAAG-GAGATAA
* ** * *
13859815 GATCTGTGGTTTTAATCCACTCC-CTGCAACTTCAGGGAGATAG
1 GATCT-TGGATTTAATCTGCTCCACTGCAACTTCAAGGAGATAA
* * *
13859858 GATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 GA-TCTTGGATTTAATCTGCTCCACTGCAACTTCAAGGAGATAA
* *
13859902 GAT-TTGCCATCTTCAGTCTGC-CTCACTGCAACTTC-AGGAGGATAA
1 GATCTTG-GAT-TT-AATCTGCTC-CACTGCAACTTCAAGGA-GATAA
** * *
13859947 GA-CTTGCTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAA
1 GATCTTGGAT--TTAATCTGCTCCACTGCAACTTCAAGGAGATAA
* *** *
13859991 GA-C-TAGATGCGATCTGCT-CTCTGCAACTTC-AGAGAGATAA
1 GATCTTGGATTTAATCTGCTCCACTGCAACTTCAAG-GAGATAA
** * *
13860031 GATC-TGTGATTTAATCCACTCCACTACAACTTCAAGGAGATAG
1 GATCTTG-GATTTAATCTGCTCCACTGCAACTTCAAGGAGATAA
* * *
13860074 GAT-TATCGGCTCTAATCCGCTCCACTGCAACTTCAAGGAGATAA
1 GATCT-T-GGATTTAATCTGCTCCACTGCAACTTCAAGGAGATAA
* * *
13860118 GAT-TTGCCATCTTCAGTCTGC-CTCACTGCAACTTCAA-AAGGATAA
1 GATCTTG-GAT-TT-AATCTGCTC-CACTGCAACTTCAAGGA-GATAA
** * *
13860163 GA-CTTGCTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAA
1 GATCTTGGAT--TTAATCTGCTCCACTGCAACTTCAAGGAGATAA
* *** * *
13860207 GA-C-TAGATGCGATCTGCT-CTCTGCAACTT-TAGAGAGATAA
1 GATCTTGGATTTAATCTGCTCCACTGCAACTTCAAG-GAGATAA
*** *
13860247 GATC-TGTGATTTAATCCATTCCGCTGCAACTTCAAGGAGATA
1 GATCTTG-GATTTAATCTGCTCCACTGCAACTTCAAGGAGATA
13860289 GGATTACTGG
Statistics
Matches: 396, Mismatches: 79, Indels: 79
0.71 0.14 0.14
Matches are distributed among these distances:
39 4 0.01
40 57 0.14
41 28 0.07
42 19 0.05
43 83 0.21
44 135 0.34
45 70 0.18
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
GATCTTGGATTTAATCTGCTCCACTGCAACTTCAAGGAGATAA
Found at i:13860006 original size:216 final size:216
Alignment explanation
Indices: 13859746--13860300 Score: 932
Period size: 216 Copynumber: 2.6 Consensus size: 216
13859736 TTGAATTTAA
* * * *
13859746 TCTGCTCCACTGCAACTTCAAGAAGATAGGACTAAATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* * * *
13859811 ATACGATCTGTGGTTTTAATCCACTCC-CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATC
66 ATAAGATCTGT-GATTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTCTAATC
* * **
13859875 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGG
130 CGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAA
13859940 AGGATAAGACTTGCTTGCTTAG
195 AGGATAAGACTTGCTTGCTTAG
13859962 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* *
13860027 ATAAGATCTGTGATTTAATCCACTCCACTACAACTTCAAGGAGATAGGATTATCGGCTCTAATCC
66 ATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTCTAATCC
13860092 GCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAAA
131 GCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAAA
13860157 GGATAAGACTTGCTTGCTTAG
196 GGATAAGACTTGCTTGCTTAG
*
13860178 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* * *
13860243 ATAAGATCTGTGATTTAATCCATTCCGCTGCAACTTCAAGGAGATAGGATTACTGGCT
66 ATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTGGCT
13860301 ACCGATCTGT
Statistics
Matches: 318, Mismatches: 20, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
215 14 0.04
216 304 0.96
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (216 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTCTAATCC
GCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAAA
GGATAAGACTTGCTTGCTTAG
Found at i:13872260 original size:20 final size:20
Alignment explanation
Indices: 13872205--13872260 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
13872195 GCAAAGTATC
*
13872205 AAATAAATAAAAATATGAAA
1 AAATAAATAAAAAAATGAAA
* *
13872225 ACATAAATCAACAAAAT-AAA
1 AAATAAAT-AAAAAAATGAAA
13872245 AAATAAATAAAGAAAA
1 AAATAAATAAA-AAAA
13872261 GAGAGCGCGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.07
20 21 0.72
21 6 0.21
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.16
Consensus pattern (20 bp):
AAATAAATAAAAAAATGAAA
Found at i:13872505 original size:19 final size:21
Alignment explanation
Indices: 13872462--13872505 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
13872452 AAATACTAGT
13872462 TAAAAAATAAATATGTACATGCA
1 TAAAAAATAAATA-GTACA-GCA
13872485 TAAAAAATAAATA-TACA-CA
1 TAAAAAATAAATAGTACAGCA
13872504 TA
1 TA
13872506 TATATAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.19
21 4 0.19
23 13 0.62
ACGTcount: A:0.61, C:0.09, G:0.05, T:0.25
Consensus pattern (21 bp):
TAAAAAATAAATAGTACAGCA
Found at i:13880956 original size:21 final size:22
Alignment explanation
Indices: 13880926--13880966 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13880916 GCTCCAAGAC
* *
13880926 AAAAGGTATCGATACTTTTTGT
1 AAAAGGTATCAATACCTTTTGT
13880948 AAAA-GTATCAATACCTTTT
1 AAAAGGTATCAATACCTTTT
13880967 ACCAGGTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (22 bp):
AAAAGGTATCAATACCTTTTGT
Found at i:13883742 original size:24 final size:25
Alignment explanation
Indices: 13883715--13883763 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
13883705 ATCCAATCAC
**
13883715 ATATTATTTTTGTAAAT-ATTTTTT
1 ATATTATTTTAATAAATAATTTTTT
13883739 ATATTATTTTAATAAATAATTTTTT
1 ATATTATTTTAATAAATAATTTTTT
13883764 TCTATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
ATATTATTTTAATAAATAATTTTTT
Found at i:13892986 original size:56 final size:56
Alignment explanation
Indices: 13892920--13893033 Score: 149
Period size: 56 Copynumber: 2.0 Consensus size: 56
13892910 CTAGACTATG
* * **
13892920 ATCCATGTTCAATGATACTATATCG-AGATTTCAAACATTAAGTGGTGGGAAAATAA
1 ATCCATGTTCAATGATACTATAT-GTAGATTGCAAACATAAAGTGGCAGGAAAATAA
* * *
13892976 ATCCATGTTCAATTATACTATATGTAGATTGCATACCTAAAGTGGCAGGAAAATAA
1 ATCCATGTTCAATGATACTATATGTAGATTGCAAACATAAAGTGGCAGGAAAATAA
13893032 AT
1 AT
13893034 AGTGGAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 1 0.02
56 49 0.98
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (56 bp):
ATCCATGTTCAATGATACTATATGTAGATTGCAAACATAAAGTGGCAGGAAAATAA
Found at i:13897040 original size:26 final size:27
Alignment explanation
Indices: 13897011--13897065 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
13897001 ATTAAGGTTC
*
13897011 TTTATAATTAA-ACCATTTATATTTTT
1 TTTATAATTAAGACCATTTATAATTTT
**
13897037 TTTATAATTAAGATTATTTATAATTTT
1 TTTATAATTAAGACCATTTATAATTTT
13897064 TT
1 TT
13897066 ATATTTTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTATAATTAAGACCATTTATAATTTT
Found at i:13897066 original size:26 final size:26
Alignment explanation
Indices: 13897011--13897068 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
13897001 ATTAAGGTTC
*
13897011 TTTATAATTAAACCATTTATATTTTT
1 TTTATAATTAAACCATTTATATATTT
**
13897037 TTTATAATTAAGATTATTTATA-ATTT
1 TTTATAATTAA-ACCATTTATATATTT
13897063 TTTATA
1 TTTATA
13897069 TTTTCATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTATAATTAAACCATTTATATATTT
Found at i:13897370 original size:28 final size:30
Alignment explanation
Indices: 13897346--13897402 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
13897336 AACATAATTC
13897346 TAAAATAGTTTTTT-AA-AATTAATAATACA
1 TAAAAT-GTTTTTTCAATAATTAATAATACA
* *
13897375 TTAAATGTTTTTTCAATAATTAAAAATA
1 TAAAATGTTTTTTCAATAATTAATAATA
13897403 GTTTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.29
29 7 0.29
30 10 0.42
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (30 bp):
TAAAATGTTTTTTCAATAATTAATAATACA
Found at i:13903858 original size:88 final size:88
Alignment explanation
Indices: 13903705--13903883 Score: 331
Period size: 88 Copynumber: 2.0 Consensus size: 88
13903695 ACCTTTAAAT
13903705 AGATGTAGTCGAAACTCCTCTTGTATCATTTGATTTTCAACATTAGTGAATTTTCTTCTCATTTG
1 AGATGTAGTCGAAACTCCTCTTGTATCATTTGATTTTCAACATTAGTGAATTTTCTTCTCATTTG
*
13903770 CTTGTTTGCTCGTGGTTTTTTCC
66 CTCGTTTGCTCGTGGTTTTTTCC
*
13903793 AGATGTAGTCGAAACTCCTCTTGTATCATTTGATTTTCAACATTAGTGAATTTTCTTCTCCTTTG
1 AGATGTAGTCGAAACTCCTCTTGTATCATTTGATTTTCAACATTAGTGAATTTTCTTCTCATTTG
*
13903858 CTCGTTTGCTCGTGTTTTTTTCC
66 CTCGTTTGCTCGTGGTTTTTTCC
13903881 AGA
1 AGA
13903884 AAGAGTTTTC
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (88 bp):
AGATGTAGTCGAAACTCCTCTTGTATCATTTGATTTTCAACATTAGTGAATTTTCTTCTCATTTG
CTCGTTTGCTCGTGGTTTTTTCC
Found at i:13919629 original size:21 final size:21
Alignment explanation
Indices: 13919603--13919644 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13919593 CATGGTGGCC
13919603 GAAATTGGGGCTGAATTTAAA
1 GAAATTGGGGCTGAATTTAAA
13919624 GAAATTGGGGCTGAATTTAAA
1 GAAATTGGGGCTGAATTTAAA
13919645 AATAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.29, T:0.29
Consensus pattern (21 bp):
GAAATTGGGGCTGAATTTAAA
Found at i:13922118 original size:20 final size:20
Alignment explanation
Indices: 13922095--13922143 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
13922085 TGCATTTTGG
13922095 TGCCTCTGTTTA-CACTTCGA
1 TGCCTCTG-TTAGCACTTCGA
*
13922115 TGCCTCTGTTAGCATTTCGA
1 TGCCTCTGTTAGCACTTCGA
13922135 TGCTCTCTG
1 TGC-CTCTG
13922144 GTGTGTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.69
21 5 0.19
ACGTcount: A:0.12, C:0.29, G:0.18, T:0.41
Consensus pattern (20 bp):
TGCCTCTGTTAGCACTTCGA
Found at i:13924682 original size:110 final size:111
Alignment explanation
Indices: 13924551--13924772 Score: 403
Period size: 110 Copynumber: 2.0 Consensus size: 111
13924541 AATTTTTTAA
13924551 AAAAAAAATCTTTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAA
1 AAAAAAAA-CTTTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAA
*
13924616 ATTCCTGACAACAAGCTTTTCATTTTATTTTTGATTACAA-AGCATTC
65 ATTCCCGACAACAAGCTTTTCATTTTATTTTTGATTA-AAGAGCATTC
13924663 AAAAAAAA-TTTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAA
1 AAAAAAAACTTTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAA
13924727 TTCCCGACAACAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTC
66 TTCCCGACAACAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTC
13924773 TCGATTATTA
Statistics
Matches: 108, Mismatches: 1, Indels: 4
0.96 0.01 0.04
Matches are distributed among these distances:
109 2 0.02
110 98 0.91
112 8 0.07
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (111 bp):
AAAAAAAACTTTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAA
TTCCCGACAACAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTC
Found at i:13925269 original size:20 final size:20
Alignment explanation
Indices: 13925224--13925272 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
13925214 TAAAGAAAAT
* *
13925224 ATATATATATAGAAATTTTA
1 ATATATATATAGAAAGTATA
* *
13925244 AAATATGTATAGAAAGTATA
1 ATATATATATAGAAAGTATA
13925264 ATATATATA
1 ATATATATA
13925273 CGTACATATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (20 bp):
ATATATATATAGAAAGTATA
Found at i:13927121 original size:44 final size:44
Alignment explanation
Indices: 13927067--13927185 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 44
13927057 CGATGTGATC
* * *
13927067 TACTCCACTGCAACTTTAGAGAGATAAGATCT-GTGGTTTTAATA
1 TACTCCACTGCAACTTCAGGGAGATAAGAT-TAGTGGCTTTAATA
* * * *
13927111 TGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATT
1 TACTCCACTGCAACTTCAGGGAGATAAGATTAGTGGCTTTAATA
*
13927155 TACTCCATTGCAACTTCAGGGAGATAAGATT
1 TACTCCACTGCAACTTCAGGGAGATAAGATT
13927186 CGCCATCTTC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 1 0.02
44 63 0.98
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (44 bp):
TACTCCACTGCAACTTCAGGGAGATAAGATTAGTGGCTTTAATA
Found at i:13927227 original size:45 final size:44
Alignment explanation
Indices: 13926978--13927265 Score: 143
Period size: 44 Copynumber: 6.6 Consensus size: 44
13926968 TTGTTTATTC
* * * * * *
13926978 AGTCTGCCCCACTGCAATTTCAGGGGGATAAAAC-TGCTTTCTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTT
* * * ** * *
13927021 GAGTTTGTTCCACTGCAACATCAGGGAGATAAGACCCG-AT-GTG
1 -AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTT
* * * * *
13927064 A-TCTACTCCACTGCAACTTTAGAGAGATAAGATCTGTG-GT-TTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATACTT
* * * *
13927107 AATATGCTCCACTGCAACTTCAGGGAGATAGGA-TT--ATTGGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCA-T-AC-TT
* * * *
13927151 AATTTACTCCATTGCAACTTCAGGGAGATAAGA-TTCGCCAT-CTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-CATACTT
*
13927195 CAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTT
1 -AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCATACTT
13927240 AGTCTGCTCCACTGCAACTTCAGGGA
1 AGTCTGCTCCACTGCAACTTCAGGGA
13927266 TATCTTCAAT
Statistics
Matches: 187, Mismatches: 38, Indels: 37
0.71 0.15 0.14
Matches are distributed among these distances:
41 27 0.14
42 3 0.02
43 5 0.03
44 115 0.61
45 33 0.18
46 2 0.01
47 1 0.01
48 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTT
Found at i:13927259 original size:44 final size:45
Alignment explanation
Indices: 13927157--13927265 Score: 129
Period size: 45 Copynumber: 2.4 Consensus size: 45
13927147 CTTTAATTTA
*
13927157 CTCCATTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTG
*
13927202 C-CTCACTGCAACTTCA-GGAGGATAAGACTT-G-CTTACTT-AGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTCGCCAT-CTTCAGTCTG
13927246 CTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGA
13927266 TATCTTCAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
44 26 0.46
45 28 0.50
46 2 0.04
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTG
Found at i:13939499 original size:111 final size:111
Alignment explanation
Indices: 13939380--13939591 Score: 424
Period size: 111 Copynumber: 1.9 Consensus size: 111
13939370 AAAAAAATCT
13939380 TTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAATTCCCGACAA
1 TTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAATTCCCGACAA
13939445 CAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTCAAAAAAAAAA
66 CAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTCAAAAAAAAAA
13939491 TTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAATTCCCGACAA
1 TTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAATTCCCGACAA
13939556 CAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTC
66 CAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTC
13939592 TCGATTATTA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 101 1.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (111 bp):
TTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAATTCCCGACAA
CAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTCAAAAAAAAAA
Found at i:13939803 original size:13 final size:14
Alignment explanation
Indices: 13939784--13939823 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
13939774 CAATGATATA
13939784 GAAATAATATAAAC
1 GAAATAATATAAAC
13939798 -AAATAA-ATAAAC
1 GAAATAATATAAAC
13939810 GAAATTAATATAAA
1 GAAA-TAATATAAA
13939824 TAATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 6 0.26
13 9 0.39
14 3 0.13
15 5 0.22
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:13940079 original size:20 final size:20
Alignment explanation
Indices: 13940033--13940082 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
13940023 AAAATAAAGA
* *
13940033 AATATATATATAGAAATTTT
1 AATATATATATAGAAAGTAT
* *
13940053 AAAATATGTATAGAAAGTAT
1 AATATATATATAGAAAGTAT
13940073 AATATATATA
1 AATATATATA
13940083 CTTACATATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (20 bp):
AATATATATATAGAAAGTAT
Found at i:13941799 original size:41 final size:41
Alignment explanation
Indices: 13941749--13941829 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
13941739 GTTTTAGTGG
**
13941749 CGTTGTTGAAAAAGCGCCGCTAATGTTCAGGGCTTTAGCGA
1 CGTTGTTGAAAAAGCGCCGCTAATCCTCAGGGCTTTAGCGA
* * *
13941790 CGTTTTTGAAAAAGCGCTGCTAATCCTCGGGGCTTTAGCG
1 CGTTGTTGAAAAAGCGCCGCTAATCCTCAGGGCTTTAGCG
13941830 GCGCATTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (41 bp):
CGTTGTTGAAAAAGCGCCGCTAATCCTCAGGGCTTTAGCGA
Found at i:13944877 original size:55 final size:55
Alignment explanation
Indices: 13944813--13944921 Score: 218
Period size: 55 Copynumber: 2.0 Consensus size: 55
13944803 GTAATTTTGA
13944813 AGACTGTATCTTTTAAAGAAATTATCTTTTTATGTATGATCTCATAAATCTGGTC
1 AGACTGTATCTTTTAAAGAAATTATCTTTTTATGTATGATCTCATAAATCTGGTC
13944868 AGACTGTATCTTTTAAAGAAATTATCTTTTTATGTATGATCTCATAAATCTGGT
1 AGACTGTATCTTTTAAAGAAATTATCTTTTTATGTATGATCTCATAAATCTGGT
13944922 AATATTTGTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (55 bp):
AGACTGTATCTTTTAAAGAAATTATCTTTTTATGTATGATCTCATAAATCTGGTC
Found at i:13945320 original size:23 final size:23
Alignment explanation
Indices: 13945291--13945565 Score: 226
Period size: 23 Copynumber: 12.0 Consensus size: 23
13945281 ATGGTGGATT
* *
13945291 TGTAAATTTAAGTGTTTAAGTGT
1 TGTAAATTGAAGTGTTTAAGTGC
* *
13945314 TGCAAATTGAAGTATTT-AGTTGC
1 TGTAAATTGAAGTGTTTAAG-TGC
* * *
13945337 TGGAAATTGAAATGTTTTA-TCGC
1 TGTAAATTGAAGTGTTTAAGT-GC
* * * *
13945360 TGT-AATTGAGGTGTATAAATGT
1 TGTAAATTGAAGTGTTTAAGTGC
*
13945382 TGTTAATTGATA-TGTTTAAGTGC
1 TGTAAATTGA-AGTGTTTAAGTGC
* *
13945405 TGTAAATTTAAGTGTTTAAATGC
1 TGTAAATTGAAGTGTTTAAGTGC
13945428 TGTAAATTGAAGTGTTTAAGTGC
1 TGTAAATTGAAGTGTTTAAGTGC
*
13945451 TGCAAATTGAAGTGTTT-AGTTGC
1 TGTAAATTGAAGTGTTTAAG-TGC
* *
13945474 TGGAAATTG-AGATGTTTTA-TCGC
1 TGTAAATTGAAG-TGTTTAAGT-GC
* *
13945497 TGT-AATTGATA-TGTTAAAGTGT
1 TGTAAATTGA-AGTGTTTAAGTGC
* *
13945519 TGCAAATTGAAGTGTTTAAATGC
1 TGTAAATTGAAGTGTTTAAGTGC
*
13945542 TGTAAATTGAAGTGTTAAAGTGC
1 TGTAAATTGAAGTGTTTAAGTGC
13945565 T
1 T
13945566 ACTTTCCATT
Statistics
Matches: 201, Mismatches: 35, Indels: 32
0.75 0.13 0.12
Matches are distributed among these distances:
22 38 0.19
23 160 0.80
24 3 0.01
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (23 bp):
TGTAAATTGAAGTGTTTAAGTGC
Found at i:13945436 original size:114 final size:114
Alignment explanation
Indices: 13945291--13945565 Score: 324
Period size: 114 Copynumber: 2.4 Consensus size: 114
13945281 ATGGTGGATT
* * * *
13945291 TGTAAATTTAAGTGTTTAAGTGTTGCAAATTGAAGTATTT-AGTTGCTGGAAATTGAAATGTTTT
1 TGTAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTATTTAAG-TGCTGCAAATTGAAATG-TTT
* * * *
13945355 A-TCGCT-GTAATTGAGGTGTATAAAT-GTTGTTAATTGATATGTTTAAGTGC
64 AGTCGCTGGAAATTGAGATGT-TAAATCGCTG-TAATTGATATGTTAAAGTGC
* *
13945405 TGTAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAG
1 TGTAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTATTTAAGTGCTGCAAATTGAAATGTTTAG
* ** *
13945470 TTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGATATGTTAAAGTGT
66 TCGCTGGAAATTGAGATGTTAAATCGCTGTAATTGATATGTTAAAGTGC
* * * *
13945519 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCT
1 TGTAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTATTTAAGTGCT
13945566 ACTTTCCATT
Statistics
Matches: 140, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
113 4 0.03
114 120 0.86
115 16 0.11
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (114 bp):
TGTAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTATTTAAGTGCTGCAAATTGAAATGTTTAG
TCGCTGGAAATTGAGATGTTAAATCGCTGTAATTGATATGTTAAAGTGC
Found at i:13945537 original size:137 final size:137
Alignment explanation
Indices: 13945291--13945565 Score: 412
Period size: 137 Copynumber: 2.0 Consensus size: 137
13945281 ATGGTGGATT
* *
13945291 TGTAAATTTAAGTGTTTAAGTGTTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAAATGTTTTA
1 TGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAAATGTTTTA
* ** * *
13945356 TCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGTAAATTTAAGTGTT
66 TCGCTGTAATTGAGATGTATAAATGTTGCAAATTGATATGTTTAAATGCTGTAAATTGAAGTG-T
13945421 TAAA-TGC
130 TAAAGTGC
* *
13945428 TGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTA
1 TGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAAATGTTTTA
*
13945493 TCGCTGTAATTGATATGT-TAAAGTGTTGCAAATTGA-AGTGTTTAAATGCTGTAAATTGAAGTG
66 TCGCTGTAATTGAGATGTATAAA-TGTTGCAAATTGATA-TGTTTAAATGCTGTAAATTGAAGTG
13945556 TTAAAGTGC
129 TTAAAGTGC
13945565 T
1 T
13945566 ACTTTCCATT
Statistics
Matches: 125, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
136 10 0.08
137 115 0.92
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (137 bp):
TGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAAATGTTTTA
TCGCTGTAATTGAGATGTATAAATGTTGCAAATTGATATGTTTAAATGCTGTAAATTGAAGTGTT
AAAGTGC
Found at i:13946538 original size:43 final size:44
Alignment explanation
Indices: 13946424--13946542 Score: 149
Period size: 42 Copynumber: 2.8 Consensus size: 44
13946414 TTTTCGTGAC
*
13946424 CTTTAGCGATGTTTTT-AGAGAAAGCG-CTGCTAAAGGTCATGTT
1 CTTTAGCGACGTTTTTGAGAGAAAGCGTC-GCTAAAGGTCATGTT
* * *
13946467 -TTTAGCGGCATTTTTG-GAGAAAGCGTCGCTAAAGGTCTTGTT
1 CTTTAGCGACGTTTTTGAGAGAAAGCGTCGCTAAAGGTCATGTT
*
13946509 CTTTAGCGACGTTTTTGAGA-AAAGTGTCGCTAAA
1 CTTTAGCGACGTTTTTGAGAGAAAGCGTCGCTAAA
13946543 ACGTCGCTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
42 35 0.54
43 28 0.43
44 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.34
Consensus pattern (44 bp):
CTTTAGCGACGTTTTTGAGAGAAAGCGTCGCTAAAGGTCATGTT
Found at i:13946853 original size:50 final size:50
Alignment explanation
Indices: 13946729--13947061 Score: 398
Period size: 50 Copynumber: 6.7 Consensus size: 50
13946719 GAATATAACA
* * * ** * * * **
13946729 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGT-AT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * ** * *
13946778 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *** *
13946828 TGCCCATGCCATGTCCCAAACATGGTCTTATGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
13946878 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
13946928 TGTCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
13946978 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
13947028 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
13947062 AGATCTCATC
Statistics
Matches: 243, Mismatches: 40, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
49 36 0.15
50 207 0.85
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:13947001 original size:150 final size:149
Alignment explanation
Indices: 13946729--13947061 Score: 441
Period size: 150 Copynumber: 2.2 Consensus size: 149
13946719 GAATATAACA
* * ** * * * *
13946729 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTATTGCCAATGCCATATCC
1 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTAGTGCCAATGCCATATCC
* * * * *
13946794 CAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTCCCAAACATGGTCTTAT
66 CAGACATGGTCTTACATGAGACTTCTCATATAGGTGCCAACGCCATGTCCCAAACATGGTCTTAC
* *
13946859 GGGGGACCTCTCATCTTGG
131 AGGGGACCTCTCATCTCGG
* * *
13946878 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTCGGTGTCAATGCCATGTC
1 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCT-AGTGCCAATGCCATATC
* * * *
13946943 CCAGACATGGTCTTACATGGGACTTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTA
65 CCAGACATGGTCTTACATGAGACTTCTCATATAGGTGCCAACGCCATGTCCCAAACATGGTCTTA
*
13947008 CATGGGACCTCTCATCTCGG
130 CAGGGGACCTCTCATCTCGG
*
13947028 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATAGTCTTACATG
13947062 AGATCTCATC
Statistics
Matches: 159, Mismatches: 24, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
149 40 0.25
150 119 0.75
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (149 bp):
TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTAGTGCCAATGCCATATCC
CAGACATGGTCTTACATGAGACTTCTCATATAGGTGCCAACGCCATGTCCCAAACATGGTCTTAC
AGGGGACCTCTCATCTCGG
Found at i:13953926 original size:35 final size:35
Alignment explanation
Indices: 13953887--13953956 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
13953877 GCTCCATATA
*
13953887 TATAAATTTAACAACCGCATATCACC-ATGTACATT
1 TATAAATTCAACAACCGCATAT-ACCAATGTACATT
*
13953922 TATAAATTCAATAACCGCATATACCTAATGTACAT
1 TATAAATTCAACAACCGCATATACC-AATGTACAT
13953957 ATGCCTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 3 0.10
35 20 0.65
36 8 0.26
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.31
Consensus pattern (35 bp):
TATAAATTCAACAACCGCATATACCAATGTACATT
Found at i:13954294 original size:41 final size:41
Alignment explanation
Indices: 13954216--13954295 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
13954206 GTCCGAAATG
* ** *
13954216 TTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTA
1 TTTCACCAGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
* *
13954257 TTTCACCAGCATTAAGCCTGCTAGGCACATAGCCTGAAT
1 TTTCACCAGCATTAAGCCTGCTAGACACAAAGCCTGAAT
13954296 AACTGAGATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
TTTCACCAGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
Found at i:13954561 original size:2 final size:2
Alignment explanation
Indices: 13954554--13954587 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
13954544 TCTAACCTCT
*
13954554 TA TA TA TA TA TA TA TA TT TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
13954588 CTTTTCATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:13954942 original size:21 final size:21
Alignment explanation
Indices: 13954909--13954952 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
13954899 TAAAATCAAC
*
13954909 TTCAACTTGTAGAACATAAAA
1 TTCAACTTATAGAACATAAAA
*
13954930 TTCAGCTTATAGAACATAAAA
1 TTCAACTTATAGAACATAAAA
13954951 TT
1 TT
13954953 TGCTATTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (21 bp):
TTCAACTTATAGAACATAAAA
Found at i:13957677 original size:414 final size:414
Alignment explanation
Indices: 13956902--13957732 Score: 1599
Period size: 414 Copynumber: 2.0 Consensus size: 414
13956892 CGAAATAATA
*
13956902 GAAATAGGCACTCCGTGCAATCTCACAATCTGAGAAATGTACAATTCAGCAAGTTTATCAAGTGA
1 GAAATAGGCACTCCGTGCAATCTCACAATCTGAGAAATATACAATTCAGCAAGTTTATCAAGTGA
*
13956967 ATAATCAATACGAACCGGAACAAAGTGAGCTGATTTTGTCAATCTATCAACAACAACCCAAATTG
66 ATAATCAATACGAACCGGAACAAAGTGAGCCGATTTTGTCAATCTATCAACAACAACCCAAATTG
13957032 CATCTTTCTTGCTGGGTGTCAATGGTAAACCGGATACAAAATCCATCGTAACTCTGTCCCATTTC
131 CATCTTTCTTGCTGGGTGTCAATGGTAAACCGGATACAAAATCCATCGTAACTCTGTCCCATTTC
13957097 CACTCAGGTATCATGATCGGCTGAAGCAACCCAGATGGTACCTGATGCTCGACTTTAACTTGCTG
196 CACTCAGGTATCATGATCGGCTGAAGCAACCCAGATGGTACCTGATGCTCGACTTTAACTTGCTG
13957162 ACAAATTAAACATTTCGAAACAAAGTCAGAAATGTCTCGTTTCATACCATGCCACCAATAGTGCT
261 ACAAATTAAACATTTCGAAACAAAGTCAGAAATGTCTCGTTTCATACCATGCCACCAATAGTGCT
13957227 GTTTCAGATCGTTATACATTTTCGTACTTCCCGGATGAACCGAAAATCGGCTATTATGAGCTTCA
326 GTTTCAGATCGTTATACATTTTCGTACTTCCCGGATGAACCGAAAATCGGCTATTATGAGCTTCA
13957292 TTCAAAATCACCTGTATTAACTTT
391 TTCAAAATCACCTGTATTAACTTT
*
13957316 GAAATAGGCACTTCGTGCAATCTCACAATCTGAGAAATATACAATTCAGCAAGTTTATCAAGTGA
1 GAAATAGGCACTCCGTGCAATCTCACAATCTGAGAAATATACAATTCAGCAAGTTTATCAAGTGA
13957381 ATAATCAATACGAACCGGAACAAAGTGAGCCGATTTTGTCAATCTATCAACAACAACCCAAATTG
66 ATAATCAATACGAACCGGAACAAAGTGAGCCGATTTTGTCAATCTATCAACAACAACCCAAATTG
*
13957446 CATCTTTCTTGCTGGGTGTCAATGGTAAACCGGATACAAAATCCATCGTAACTCTGTCCTATTTC
131 CATCTTTCTTGCTGGGTGTCAATGGTAAACCGGATACAAAATCCATCGTAACTCTGTCCCATTTC
*
13957511 CACTCAGGTATCATGATCGGCTGAAGCAACCCAGATGGTACCTGATGCTCGGCTTTAACTTGCTG
196 CACTCAGGTATCATGATCGGCTGAAGCAACCCAGATGGTACCTGATGCTCGACTTTAACTTGCTG
*
13957576 ACAAATTAAACATTTCGAAACAAATTCAGAAATGTCTCGTTTCATACCATGCCACCAATAGTGCT
261 ACAAATTAAACATTTCGAAACAAAGTCAGAAATGTCTCGTTTCATACCATGCCACCAATAGTGCT
*
13957641 GTTTCAGATCGTTATACATTTTCGTACTTTCCGGATGAACCGAAAATCGGCTATTATGAGCTTCA
326 GTTTCAGATCGTTATACATTTTCGTACTTCCCGGATGAACCGAAAATCGGCTATTATGAGCTTCA
13957706 TTCAAAATCACCTGTATTAACTTT
391 TTCAAAATCACCTGTATTAACTTT
13957730 GAA
1 GAA
13957733 TTTATCGGAA
Statistics
Matches: 410, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
414 410 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (414 bp):
GAAATAGGCACTCCGTGCAATCTCACAATCTGAGAAATATACAATTCAGCAAGTTTATCAAGTGA
ATAATCAATACGAACCGGAACAAAGTGAGCCGATTTTGTCAATCTATCAACAACAACCCAAATTG
CATCTTTCTTGCTGGGTGTCAATGGTAAACCGGATACAAAATCCATCGTAACTCTGTCCCATTTC
CACTCAGGTATCATGATCGGCTGAAGCAACCCAGATGGTACCTGATGCTCGACTTTAACTTGCTG
ACAAATTAAACATTTCGAAACAAAGTCAGAAATGTCTCGTTTCATACCATGCCACCAATAGTGCT
GTTTCAGATCGTTATACATTTTCGTACTTCCCGGATGAACCGAAAATCGGCTATTATGAGCTTCA
TTCAAAATCACCTGTATTAACTTT
Found at i:13961924 original size:35 final size:35
Alignment explanation
Indices: 13961885--13961954 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
13961875 GCTCCATATA
*
13961885 TATAAATTTAACAACCGCATATCACC-ATGTACATT
1 TATAAATTCAACAACCGCATAT-ACCAATGTACATT
*
13961920 TATAAATTCAATAACCGCATATACCTAATGTACAT
1 TATAAATTCAACAACCGCATATACC-AATGTACAT
13961955 ATGCCTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 3 0.10
35 20 0.65
36 8 0.26
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.31
Consensus pattern (35 bp):
TATAAATTCAACAACCGCATATACCAATGTACATT
Found at i:13962238 original size:41 final size:41
Alignment explanation
Indices: 13962193--13962278 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
13962183 TTTTAGTCTA
* * *
13962193 CTAGACCTATAGTCCGAAATGTTTCACCGGCATTAAGCCTG
1 CTAGACCTAAAGTCCGAAATATTTCACCAGCATTAAGCCTG
* * *
13962234 CTAGACGTAAAGTCTGAATTATTTCACCAGCATTAAGCCTG
1 CTAGACCTAAAGTCCGAAATATTTCACCAGCATTAAGCCTG
13962275 CTAG
1 CTAG
13962279 GCACATAGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (41 bp):
CTAGACCTAAAGTCCGAAATATTTCACCAGCATTAAGCCTG
Found at i:13962292 original size:41 final size:41
Alignment explanation
Indices: 13962214--13962293 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
13962204 GTCCGAAATG
* ** *
13962214 TTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTA
1 TTTCACCAGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
* *
13962255 TTTCACCAGCATTAAGCCTGCTAGGCACATAGCCTGAAT
1 TTTCACCAGCATTAAGCCTGCTAGACACAAAGCCTGAAT
13962294 AACTGAGATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
TTTCACCAGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
Found at i:13962938 original size:21 final size:21
Alignment explanation
Indices: 13962905--13962948 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
13962895 TAAAATCAAC
*
13962905 TTCAACTTGTAGAACATAAAA
1 TTCAACTTATAGAACATAAAA
*
13962926 TTCAGCTTATAGAACATAAAA
1 TTCAACTTATAGAACATAAAA
13962947 TT
1 TT
13962949 TGCTATTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (21 bp):
TTCAACTTATAGAACATAAAA
Found at i:13967024 original size:16 final size:16
Alignment explanation
Indices: 13966999--13967032 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
13966989 AATATACTAG
13966999 TTTAAGTTTTTTATGT
1 TTTAAGTTTTTTATGT
*
13967015 TTTAATTTTTTTATGT
1 TTTAAGTTTTTTATGT
13967031 TT
1 TT
13967033 AAAAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTAAGTTTTTTATGT
Found at i:13967263 original size:16 final size:16
Alignment explanation
Indices: 13967242--13967283 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
13967232 AATAATTTGA
*
13967242 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
13967258 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
13967274 TAGTTTTAAT
1 TAATTTTAAT
13967284 TTTATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:13968984 original size:5 final size:5
Alignment explanation
Indices: 13968937--13968966 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
13968927 TATTAAATAA
13968937 TAATT TAATT TAATT TAATT TATATT TAAT
1 TAATT TAATT TAATT TAATT TA-ATT TAAT
13968967 ATTTAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:13971128 original size:3 final size:3
Alignment explanation
Indices: 13971120--13971164 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
13971110 TTTGTTATGC
*
13971120 ATT ATT ATT ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13971165 TTCTTCAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:13976729 original size:21 final size:21
Alignment explanation
Indices: 13976699--13976745 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
13976689 TGTTCATTAT
* *
13976699 TTGACTCCATTGTTCAT-GGA
1 TTGACCCCATTATTCATAGGA
13976719 CTTGACCCCATTATTCATAGGA
1 -TTGACCCCATTATTCATAGGA
13976741 TTGAC
1 TTGAC
13976746 ATTTTGAACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (21 bp):
TTGACCCCATTATTCATAGGA
Found at i:13979279 original size:21 final size:21
Alignment explanation
Indices: 13979232--13979280 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
13979222 ACCATTGTTT
* *
13979232 CTAATCTCACTGCTACAGTAT
1 CTAATCTCACCGCTACAGTAA
*
13979253 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
13979274 CTAATCT
1 CTAATCT
13979281 TACCACCACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.29
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:13980951 original size:16 final size:16
Alignment explanation
Indices: 13980930--13980961 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13980920 TTATTTTCTC
*
13980930 TTTATGTATGTATGTA
1 TTTATGAATGTATGTA
13980946 TTTATGAATGTATGTA
1 TTTATGAATGTATGTA
13980962 GGTATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (16 bp):
TTTATGAATGTATGTA
Found at i:13980958 original size:20 final size:20
Alignment explanation
Indices: 13980933--13980970 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13980923 TTTTCTCTTT
*
13980933 ATGTATGTATGTATTTATGA
1 ATGTATGTAGGTATTTATGA
13980953 ATGTATGTAGGTATTTAT
1 ATGTATGTAGGTATTTAT
13980971 TCTTTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (20 bp):
ATGTATGTAGGTATTTATGA
Found at i:13983552 original size:45 final size:45
Alignment explanation
Indices: 13983503--13983599 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 45
13983493 TACGGGCCTT
* *
13983503 GAGCAGGAGCGGGCTTT-ATCTGCTGGACCTGGAGCTGCAGGATTG
1 GAGCAGGAGCAGGCTTTAAT-TGCTGGACCTGGAGATGCAGGATTG
* * * * *
13983548 GAGCAGGGGCAGGCTTTAATTGCTGGACTTGTAGATGCGGGTTTG
1 GAGCAGGAGCAGGCTTTAATTGCTGGACCTGGAGATGCAGGATTG
13983593 GAGCAGG
1 GAGCAGG
13983600 CTTGGTCGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 42 0.95
46 2 0.05
ACGTcount: A:0.19, C:0.16, G:0.41, T:0.24
Consensus pattern (45 bp):
GAGCAGGAGCAGGCTTTAATTGCTGGACCTGGAGATGCAGGATTG
Found at i:13988674 original size:3 final size:3
Alignment explanation
Indices: 13988668--13988696 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13988658 TGCATTAACT
13988668 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
13988697 GTGAACCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13989933 original size:26 final size:26
Alignment explanation
Indices: 13989904--13989956 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
13989894 CAAGTTAGTA
13989904 ACCATCTCTAGAATCTGAACTATGTG
1 ACCATCTCTAGAATCTGAACTATGTG
13989930 ACCATCTCTAGAATCTGAACTATGTG
1 ACCATCTCTAGAATCTGAACTATGTG
13989956 A
1 A
13989957 TTGACAACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (26 bp):
ACCATCTCTAGAATCTGAACTATGTG
Found at i:13993776 original size:6 final size:6
Alignment explanation
Indices: 13993765--13993807 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
13993755 TATGCGGCTC
*
13993765 CCTAAT CCTAAT CCTAAT CCTAAT CCTAAT CCTAAT CCGAAT C
1 CCTAAT CCTAAT CCTAAT CCTAAT CCTAAT CCTAAT CCTAAT C
13993808 TCACCTCCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.35, G:0.02, T:0.30
Consensus pattern (6 bp):
CCTAAT
Found at i:13995026 original size:23 final size:23
Alignment explanation
Indices: 13994981--13995040 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
13994971 TTTAGATTAT
*
13994981 TTATTTTAATTTTTAAAATTTAA
1 TTATTTTAATTTTAAAAATTTAA
*
13995004 TTATTTTGA-TTTAAAAATGTTAAA
1 TTATTTTAATTTTAAAAAT-TT-AA
*
13995028 TT-TTTTTATTTTA
1 TTATTTTAATTTTA
13995041 TATAATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 8 0.26
23 15 0.48
24 8 0.26
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (23 bp):
TTATTTTAATTTTAAAAATTTAA
Found at i:13998431 original size:98 final size:98
Alignment explanation
Indices: 13998262--13998458 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
13998252 GTGCAATAAA
**
13998262 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGAACACGATT
13998327 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
13998360 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGAACACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGAACACGATT
* *
13998425 CCTCTAAAATCCCAAATTCGGAATATTTCTTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
13998458 A
1 A
13998459 TTATTTTTAG
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGAACACGATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:13999006 original size:107 final size:108
Alignment explanation
Indices: 13998886--13999101 Score: 398
Period size: 107 Copynumber: 2.0 Consensus size: 108
13998876 AAATGTATAC
*
13998886 ATGTACCCATAAAAATATATAAATTTAAAATAATATCAAAATTAATTAAATAAAATATGTGTCTA
1 ATGTACCCATAAAAATATATAAATTTAAAATAATATCAAAATTAATTAAATAAAACATGTGTCTA
*
13998951 TAAATATATGAAAAATATTAG-TTTTTAAGGTATAAATACCTA
66 TAAATATACGAAAAATATTAGTTTTTTAAGGTATAAATACCTA
13998993 ATGTACCCATAAAAATATATAAATTTAAAATAATATCAAAATTAATTAAATAAAACATGTGTCTA
1 ATGTACCCATAAAAATATATAAATTTAAAATAATATCAAAATTAATTAAATAAAACATGTGTCTA
13999058 TAAATATACGAAAAATATTAGTTTTTTTAAGGTATAAATACCTA
66 TAAATATACGAAAAATATTAG-TTTTTTAAGGTATAAATACCTA
13999102 CAAAAGAAAC
Statistics
Matches: 105, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
107 84 0.80
109 21 0.20
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.35
Consensus pattern (108 bp):
ATGTACCCATAAAAATATATAAATTTAAAATAATATCAAAATTAATTAAATAAAACATGTGTCTA
TAAATATACGAAAAATATTAGTTTTTTAAGGTATAAATACCTA
Found at i:13999148 original size:27 final size:29
Alignment explanation
Indices: 13999118--13999177 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
13999108 AAACATATTT
*
13999118 ATATAT-ATAAATAATAATTTCAA-AAAA
1 ATATATCAGAAATAATAATTTCAAGAAAA
* * *
13999145 ATATATCAGAAATACTGATTTTAAGAAAA
1 ATATATCAGAAATAATAATTTCAAGAAAA
13999174 ATAT
1 ATAT
13999178 GGAAAAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 6 0.22
28 13 0.48
29 8 0.30
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (29 bp):
ATATATCAGAAATAATAATTTCAAGAAAA
Found at i:14000743 original size:132 final size:132
Alignment explanation
Indices: 14000575--14001095 Score: 853
Period size: 132 Copynumber: 3.9 Consensus size: 132
14000565 AGACTTGTAG
* *
14000575 CTTCAACCTTCTCCACTACTGCTCAGGGAGACAAGGCTTGGTGGCTTTAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* * * * *
14000640 CTTGGAAAGATAAGATTCACTGTATTTGATCTGCTCCACTGCAACTTAGGGAGATAAGATCTATA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACAACTTAGGGAGATAAGATCTATA
14000705 AT
131 AT
* *
14000707 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
**
14000772 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACAACTTAGGGAGATAAGATCTATA
14000837 AT
131 AT
* * * *
14000839 CTTCAACCTTTTCCGCTACTACTCGGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCTCACTAT
1 CTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
**
14000904 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACAACTTAGGGAGATAAGATCTATA
14000969 AT
131 AT
*
14000971 CTTCAACCTTCTCTGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* *
14001036 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTTAGAGAGATAAGA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACAAC-TTAGGGAGATAAGA
14001096 CTACTGGTTA
Statistics
Matches: 362, Mismatches: 26, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
132 349 0.96
133 13 0.04
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
CTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACAACTTAGGGAGATAAGATCTATA
AT
Found at i:14000827 original size:44 final size:44
Alignment explanation
Indices: 14000779--14000963 Score: 110
Period size: 44 Copynumber: 4.2 Consensus size: 44
14000769 TATCTTGGAA
*
14000779 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
**** * ** * * **
14000823 AGATAAGA-TCTATAATCTTCAACCTTTTCCGCTACTACTCGGGG
1 AGATAAGATTC-GCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
14000867 AGACAAGGCTT-GGTGGCTTAAATCTGCTTCTCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCCGTCTTCAATCTGC-TC-CACTACTGCTTAGG-G
*
14000911 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
14000955 AGATAAGAT
1 AGATAAGAT
14000964 CTATAATCTT
Statistics
Matches: 97, Mismatches: 34, Indels: 20
0.64 0.23 0.13
Matches are distributed among these distances:
42 5 0.05
43 10 0.10
44 71 0.73
45 6 0.06
46 5 0.05
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (44 bp):
AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:14017531 original size:17 final size:16
Alignment explanation
Indices: 14017500--14017532 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14017490 ATTGGGCTTT
14017500 TGTTTTTTAAAAAAAA
1 TGTTTTTTAAAAAAAA
*
14017516 TGTTTTTTAAATAAAA
1 TGTTTTTTAAAAAAAA
14017532 T
1 T
14017533 AATTTTGTAT
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:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
TGTTTTTTAAAAAAAA
Found at i:14021996 original size:13 final size:13
Alignment explanation
Indices: 14021978--14022004 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14021968 TCAGCTTCTT
14021978 ACTTCCAAACTGA
1 ACTTCCAAACTGA
14021991 ACTTCCAAACTGA
1 ACTTCCAAACTGA
14022004 A
1 A
14022005 TTACCTAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.30, G:0.07, T:0.22
Consensus pattern (13 bp):
ACTTCCAAACTGA
Found at i:14025007 original size:41 final size:41
Alignment explanation
Indices: 14024952--14025202 Score: 421
Period size: 41 Copynumber: 6.1 Consensus size: 41
14024942 ATTGGTGAAT
*
14024952 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
* *
14024993 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATA
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
*
14025034 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
* *
14025075 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATA
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
*
14025116 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
*
14025157 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
*
14025198 CGAAT
1 TGAAT
14025203 ATGATGAATT
Statistics
Matches: 195, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 195 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
Found at i:14025045 original size:82 final size:82
Alignment explanation
Indices: 14024952--14025196 Score: 490
Period size: 82 Copynumber: 3.0 Consensus size: 82
14024942 ATTGGTGAAT
14024952 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
1 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
14025017 GCTAAGTGCCGGTGATA
66 GCTAAGTGCCGGTGATA
14025034 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
1 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
14025099 GCTAAGTGCCGGTGATA
66 GCTAAGTGCCGGTGATA
14025116 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
1 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
14025181 GCTAAGTGCCGGTGAT
66 GCTAAGTGCCGGTGAT
14025197 CCGAATATGA
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 163 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (82 bp):
TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
GCTAAGTGCCGGTGATA
Found at i:14025428 original size:31 final size:34
Alignment explanation
Indices: 14025385--14025482 Score: 112
Period size: 31 Copynumber: 2.9 Consensus size: 34
14025375 TTATGTGTGC
*
14025385 ATATGTAGGCATTCGGCATAGGTGGATATA-TA-
1 ATATGTATGCATTCGGCATAGGTGGATATAGTAT
* *
14025417 AT-TGTATGCATTTGGCATAGGTAGATATAAGTGTAT
1 ATATGTATGCATTCGGCATAGGTGGATAT-A--GTAT
*
14025453 ATATGTATGCATTCGGCATAGGTGGGTATA
1 ATATGTATGCATTCGGCATAGGTGGATATA
14025483 AGTGAAAATG
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
31 23 0.43
32 3 0.06
35 2 0.04
36 3 0.06
37 23 0.43
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.35
Consensus pattern (34 bp):
ATATGTATGCATTCGGCATAGGTGGATATAGTAT
Found at i:14025471 original size:37 final size:36
Alignment explanation
Indices: 14025385--14025502 Score: 126
Period size: 37 Copynumber: 3.5 Consensus size: 36
14025375 TTATGTGTGC
*
14025385 ATATGTAGGCATTCGGCATAGGTGGATAT-A---TA
1 ATATGTATGCATTCGGCATAGGTGGATATAAGTGTA
* *
14025417 AT-TGTATGCATTTGGCATAGGTAGATATAAGTGTA
1 ATATGTATGCATTCGGCATAGGTGGATATAAGTGTA
*
14025452 TATATGTATGCATTCGGCATAGGTGGGTATAAGTG-A
1 -ATATGTATGCATTCGGCATAGGTGGATATAAGTGTA
*
14025488 AAATG--TGCATTCGGC
1 ATATGTATGCATTCGGC
14025503 CTTTATAGTT
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
31 23 0.32
32 3 0.04
33 10 0.14
35 6 0.08
36 3 0.04
37 28 0.38
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (36 bp):
ATATGTATGCATTCGGCATAGGTGGATATAAGTGTA
Found at i:14033145 original size:63 final size:63
Alignment explanation
Indices: 14033043--14033166 Score: 203
Period size: 63 Copynumber: 2.0 Consensus size: 63
14033033 TTAACACACG
* *
14033043 GGCATGTGTCCAGGCTGTGTAACTCACTGACTTCGGATTTGGGTCATACGGGCAAGCCACAAA
1 GGCATGTGTCCAGGCCGTGTAACTCACTGACTTCAGATTTGGGTCATACGGGCAAGCCACAAA
* * *
14033106 GGCATGTGTCCTGGCCGTGTAACTCATTGACTTCAGATTTGGGTCATACGGGCAAGTCACA
1 GGCATGTGTCCAGGCCGTGTAACTCACTGACTTCAGATTTGGGTCATACGGGCAAGCCACA
14033167 CGGCCGTGTG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (63 bp):
GGCATGTGTCCAGGCCGTGTAACTCACTGACTTCAGATTTGGGTCATACGGGCAAGCCACAAA
Found at i:14035479 original size:14 final size:15
Alignment explanation
Indices: 14035457--14035533 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
14035447 CAATCAAACA
14035457 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
14035471 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
14035486 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
14035506 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
14035520 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
14035534 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:14035498 original size:20 final size:20
Alignment explanation
Indices: 14035473--14035512 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14035463 AATATTTTCC
*
14035473 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
14035493 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
14035513 TCATTTTACG
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:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:14035518 original size:34 final size:35
Alignment explanation
Indices: 14035461--14035527 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
14035451 CAAACACCAG
*
14035461 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
14035496 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
14035528 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:14037685 original size:62 final size:61
Alignment explanation
Indices: 14037619--14037738 Score: 143
Period size: 61 Copynumber: 2.0 Consensus size: 61
14037609 AAAATTCAAC
** * * * *
14037619 AAATTTAGCCCTCAATGTTTACAAAAT-TTTCCATTTTAGTTCTAATTCTAAAAAATAATAAT
1 AAATTTAGCCCTCAACATTTA-AAAATCTGT-CAATTTAGTCCTAACTCTAAAAAATAATAAT
* *
14037681 AAATTTGGCTCTCAACATTTAAAAATCTGTCAATTTAGTCCTAACTCTAAAAAATAAT
1 AAATTTAGCCCTCAACATTTAAAAATCTGTCAATTTAGTCCTAACTCTAAAAAATAAT
14037739 TTTAAAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
61 30 0.61
62 19 0.39
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (61 bp):
AAATTTAGCCCTCAACATTTAAAAATCTGTCAATTTAGTCCTAACTCTAAAAAATAATAAT
Found at i:14038555 original size:13 final size:14
Alignment explanation
Indices: 14038539--14038570 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
14038529 TTAATTAATC
14038539 AAAAT-AAAAAAAT
1 AAAATAAAAAAAAT
14038552 AAAATAAAAAAAAT
1 AAAATAAAAAAAAT
14038566 AAAAT
1 AAAAT
14038571 CTGGTCGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATAAAAAAAAT
Found at i:14041571 original size:21 final size:21
Alignment explanation
Indices: 14041532--14041571 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14041522 ATATATAATT
* * *
14041532 ATTTCAAAGATCCACATTGTA
1 ATTTAAAAGATACAAATTGTA
14041553 ATTTAAAAGATACAAATTG
1 ATTTAAAAGATACAAATTG
14041572 ACATGTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (21 bp):
ATTTAAAAGATACAAATTGTA
Found at i:14043352 original size:37 final size:37
Alignment explanation
Indices: 14043302--14043376 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
14043292 CAGAGTGAAA
14043302 GTACCTTTTCAGATGCCTATAGAGCAAGTTATGCAGT
1 GTACCTTTTCAGATGCCTATAGAGCAAGTTATGCAGT
14043339 GTACCTTTTCAGATGCCTATAGAGCAAGTTATGCAGT
1 GTACCTTTTCAGATGCCTATAGAGCAAGTTATGCAGT
14043376 G
1 G
14043377 CAAAATCTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (37 bp):
GTACCTTTTCAGATGCCTATAGAGCAAGTTATGCAGT
Found at i:14045307 original size:17 final size:18
Alignment explanation
Indices: 14045275--14045311 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14045265 ATGAATGAAC
*
14045275 AAAAATATTTTATATTAA
1 AAAAATATATTATATTAA
14045293 AAAAATATATT-TATTAA
1 AAAAATATATTATATTAA
14045310 AA
1 AA
14045312 TATATCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAAATATATTATATTAA
Found at i:14065150 original size:25 final size:25
Alignment explanation
Indices: 14065116--14065163 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
14065106 ATTTTACTAG
14065116 GGGAAAAATCATCAAAACTTTACCA
1 GGGAAAAATCATCAAAACTTTACCA
* *
14065141 GGGAAAAATCGTCAAAATTTTAC
1 GGGAAAAATCATCAAAACTTTAC
14065164 TAAGAGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.23
Consensus pattern (25 bp):
GGGAAAAATCATCAAAACTTTACCA
Found at i:14067959 original size:20 final size:18
Alignment explanation
Indices: 14067914--14067962 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
14067904 GTTTTATGTG
14067914 TTTTTATTTTCTTGTTTT
1 TTTTTATTTTCTTGTTTT
* *
14067932 TATGTTATTTTGTGTGTTTAT
1 T-TTTTATTTTCT-TGTTT-T
14067953 TTTTTATTTT
1 TTTTTATTTT
14067963 TCACTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 9 0.36
20 13 0.52
21 2 0.08
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTCTTGTTTT
Found at i:14070028 original size:15 final size:16
Alignment explanation
Indices: 14070008--14070040 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14069998 CCAACAACTT
*
14070008 TTGTTCTT-GTTTTAG
1 TTGTTCTTAGTGTTAG
14070023 TTGTTCTTAGTGTTAG
1 TTGTTCTTAGTGTTAG
14070039 TT
1 TT
14070041 AAGTTAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.09, C:0.06, G:0.21, T:0.64
Consensus pattern (16 bp):
TTGTTCTTAGTGTTAG
Found at i:14075600 original size:31 final size:34
Alignment explanation
Indices: 14075526--14075602 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 34
14075516 ATAACTTTAA
**
14075526 TATTAAATTAATGTAATACTTATCAAGATAAATAG
1 TATTAAATTAATCAAATACTTATCAAGAT-AATAG
*
14075561 AATTAAATTAATCAAATA-TTATCAAGAT-A-AG
1 TATTAAATTAATCAAATACTTATCAAGATAATAG
14075592 TATTAAATTAA
1 TATTAAATTAA
14075603 ATATAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 12 0.32
32 1 0.03
34 10 0.26
35 15 0.39
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.36
Consensus pattern (34 bp):
TATTAAATTAATCAAATACTTATCAAGATAATAG
Found at i:14078811 original size:15 final size:15
Alignment explanation
Indices: 14078790--14078830 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
14078780 AAAGATATTT
*
14078790 ATAAATATTAATTAA
1 ATAAATATAAATTAA
*
14078805 TTAAATATAAATTAA
1 ATAAATATAAATTAA
14078820 ATAAAT-TAAAT
1 ATAAATATAAAT
14078831 GGTGCCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAAATATAAATTAA
Found at i:14079691 original size:24 final size:25
Alignment explanation
Indices: 14079663--14079709 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
14079653 AAAATATTGC
14079663 ATTGAATAAAAGTGAA-TGAAATGA
1 ATTGAATAAAAGTGAAGTGAAATGA
**
14079687 ATTGAATCGAAGTGAAGTGAAAT
1 ATTGAATAAAAGTGAAGTGAAAT
14079710 TATCTACACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.49, C:0.02, G:0.23, T:0.26
Consensus pattern (25 bp):
ATTGAATAAAAGTGAAGTGAAATGA
Found at i:14085122 original size:6 final size:6
Alignment explanation
Indices: 14085107--14085137 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
14085097 TCGATTCCAT
*
14085107 TTCTTC TTCTTA TTCTTA TTCTTA TTCTTA T
1 TTCTTA TTCTTA TTCTTA TTCTTA TTCTTA T
14085138 ATTTCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCTTA
Found at i:14105560 original size:14 final size:14
Alignment explanation
Indices: 14105538--14105567 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14105528 TTTTGATTTT
*
14105538 TATTGGATTAAAAC
1 TATTAGATTAAAAC
14105552 TATTAGATTAAAAC
1 TATTAGATTAAAAC
14105566 TA
1 TA
14105568 CTCTCTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (14 bp):
TATTAGATTAAAAC
Found at i:14105960 original size:86 final size:88
Alignment explanation
Indices: 14105824--14106007 Score: 275
Period size: 86 Copynumber: 2.1 Consensus size: 88
14105814 TAAAGCATTT
* *
14105824 CAAAAAACAAACAAAATATGTTATACTAAAAAAATGATCCTATAGTAGTAAGATGTTAGCCAACC
1 CAAAAAACAAACAAAATATGTTATACTAAAAAAATGATCCTATAGCAGTAAGATGTTAACCAACC
14105889 ATTGCAACAAATCATTTCAAAAA
66 ATTGCAACAAATCATTTCAAAAA
* * * *
14105912 CAAAAAA-AAA-AAAATATGTTATGCTAACAAAATTATCCTATAGCAGTAAGATGTTAACCAACT
1 CAAAAAACAAACAAAATATGTTATACTAAAAAAATGATCCTATAGCAGTAAGATGTTAACCAACC
*
14105975 ATTTCAACAAATCATTTCAAAAA
66 ATTGCAACAAATCATTTCAAAAA
*
14105998 -AACAAACAAA
1 CAAAAAACAAA
14106008 ATATGTTAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
85 5 0.06
86 72 0.83
87 3 0.03
88 7 0.08
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.24
Consensus pattern (88 bp):
CAAAAAACAAACAAAATATGTTATACTAAAAAAATGATCCTATAGCAGTAAGATGTTAACCAACC
ATTGCAACAAATCATTTCAAAAA
Found at i:14106381 original size:159 final size:157
Alignment explanation
Indices: 14106104--14106551 Score: 499
Period size: 159 Copynumber: 2.8 Consensus size: 157
14106094 TTTTGGCTAT
* * * * * * *
14106104 TAGTT-CTCATACTCATACCAGACTGAGA-AAAAAAATTAGAACCCCAAATTAGATTTAAATAAT
1 TAGTTCCT-ATACTCGTACCAGACTAAAACAAAAAAAATAGGACCCTAAATTAGATTTAAATATT
* * * * *
14106167 TTGGAATTGACATTAAAAAAGTTTTTACGATATACCGGTGATCCAATTGTGTTAGGCTAAATGCA
65 TTGGAATTGACATTAAAATAGTGTTTACGATATACCTGTGATCCAGTTGTGTTAGGTTAAATGCA
* * *
14106232 TGGTGTTCTGTTATTCTTTTTTTGGCTTC
130 TGGTGTTATGTTATT-ATTTTTGGGCTTC
** * *
14106261 TAGTTTGTATACTCGTACTAGACTAAGAAC-AAAAAAATCAGGACCCTAAATTAGATTAAAATAT
1 TAGTTCCTATACTCGTACCAGACTAA-AACAAAAAAAAT-AGGACCCTAAATTAGATTTAAATAT
* * * *
14106325 TTTTGAATTGACATTAAAATAGTGTATACGATATACCTATGATCCAGTTGTATTAGGTTAAATGC
64 TTTGGAATTGACATTAAAATAGTGTTTACGATATACCTGTGATCCAGTTGTGTTAGGTTAAATGC
* *
14106390 ATAGTGTTATGTTGTTATTTTTGGGCTTC
129 ATGGTGTTATGTTATTATTTTTGGGCTTC
* * * *
14106419 TAGTTCCTGTACTCGTACCAGACTAAAACAAAAAAAAATTGAGAACCTAAATTAGATTTTAATAT
1 TAGTTCCTATACTCGTACCAGACTAAAAC-AAAAAAAATAG-GACCCTAAATTAGATTTAAATAT
* * * * *
14106484 TTTGGAATTAACAATGAAAAT-GTGTTTACGATATACCTGTGTTCCCGTTGTGTTAGGTTGAATG
64 TTTGGAATTGAC-ATTAAAATAGTGTTTACGATATACCTGTGATCCAGTTGTGTTAGGTTAAATG
14106548 CATG
128 CATG
14106552 ATCTTTTGTT
Statistics
Matches: 241, Mismatches: 42, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
157 23 0.10
158 43 0.18
159 168 0.70
160 7 0.03
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (157 bp):
TAGTTCCTATACTCGTACCAGACTAAAACAAAAAAAATAGGACCCTAAATTAGATTTAAATATTT
TGGAATTGACATTAAAATAGTGTTTACGATATACCTGTGATCCAGTTGTGTTAGGTTAAATGCAT
GGTGTTATGTTATTATTTTTGGGCTTC
Found at i:14115489 original size:25 final size:25
Alignment explanation
Indices: 14115432--14115536 Score: 99
Period size: 25 Copynumber: 4.2 Consensus size: 25
14115422 TTCATATTCA
14115432 GGAATGCTCATGTGAG-CATATAAACG
1 GGAA-GCTCATGTGAGCCATAT-AACG
* * *
14115458 GGTAGCTC-TTTCGAGCCATATAACT
1 GGAAGCTCATGT-GAGCCATATAACG
*
14115483 GGAAGCTCATGTGAGCCATGTAACG
1 GGAAGCTCATGTGAGCCATATAACG
** *
14115508 GGAAGCTCATAAGAGCCATA-ATCG
1 GGAAGCTCATGTGAGCCATATAACG
14115532 GGAAG
1 GGAAG
14115537 TTTATATGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
24 10 0.15
25 45 0.69
26 10 0.15
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (25 bp):
GGAAGCTCATGTGAGCCATATAACG
Found at i:14115524 original size:50 final size:51
Alignment explanation
Indices: 14115432--14115527 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 51
14115422 TTCATATTCA
* * **
14115432 GGAATGCTCATGTGAGCATATAAACGGGTAGCTCTTTCGAGCCATATAACT
1 GGAATGCTCATGTGAGCATATAAACGGGAAGCTCATAAGAGCCATATAACT
*
14115483 GGAA-GCTCATGTGAGCCATGT-AACGGGAAGCTCATAAGAGCCATA
1 GGAATGCTCATGTGAG-CATATAAACGGGAAGCTCATAAGAGCCATA
14115528 ATCGGGAAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
50 31 0.79
51 8 0.21
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (51 bp):
GGAATGCTCATGTGAGCATATAAACGGGAAGCTCATAAGAGCCATATAACT
Found at i:14115632 original size:25 final size:25
Alignment explanation
Indices: 14115561--14115640 Score: 90
Period size: 25 Copynumber: 3.1 Consensus size: 25
14115551 TATCGGGTAA
*
14115561 CTCTGGAGAGCCATTAATCGAGAAG
1 CTCTGGAGAGCCATTAATCGAAAAG
* *
14115586 CTCATGAAAGAGCCTTTAATCGAAAAG
1 CTC-TG-GAGAGCCATTAATCGAAAAG
*
14115613 CTCTGGAGAGCCAATT-ATCGAAATG
1 CTCTGGAGAGCC-ATTAATCGAAAAG
14115638 CTC
1 CTC
14115641 ATAAGAGTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
25 20 0.43
26 6 0.13
27 20 0.43
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (25 bp):
CTCTGGAGAGCCATTAATCGAAAAG
Found at i:14118151 original size:16 final size:13
Alignment explanation
Indices: 14118103--14118141 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
14118093 AGATTTATTT
14118103 AACAACAAAAG-A
1 AACAACAAAAGAA
*
14118115 AA-TACAAAAGAA
1 AACAACAAAAGAA
14118127 AACAACAAAAGAA
1 AACAACAAAAGAA
14118140 AA
1 AA
14118142 TCCCAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 7 0.30
12 5 0.22
13 11 0.48
ACGTcount: A:0.77, C:0.13, G:0.08, T:0.03
Consensus pattern (13 bp):
AACAACAAAAGAA
Found at i:14118399 original size:131 final size:131
Alignment explanation
Indices: 14118228--14118479 Score: 432
Period size: 131 Copynumber: 1.9 Consensus size: 131
14118218 TTCTTCTTTC
* * *
14118228 TGATTTGGAGCATAAACCTTTACCAATCTTCACTATAAAAGAGCCAAGAGAAAAGACGTTATAAA
1 TGATTTGGAGCATAAACCCTCACCAATCTTCACTACAAAAGAGCCAAGAGAAAAGACGTTATAAA
* *
14118293 TGAACCCTAAACTTGAAATTCCCTAAAATCAACAATTCCATAACCCAAAAATCCCTTACCAATCT
66 TGAACCCTAAACCTGAAATTCCCTAAAATCAACAATCCCATAACCCAAAAATCCCTTACCAATCT
14118358 G
131 G
* *
14118359 TGATTTGGAGCATGAACCCTCACCAATCTTCACTGCAAAAGAGCCAAGAGAAAAGACGTTATAAA
1 TGATTTGGAGCATAAACCCTCACCAATCTTCACTACAAAAGAGCCAAGAGAAAAGACGTTATAAA
*
14118424 TGAACCCTAAACCTGAAATTTCCTAAAATCAACAATCCCATAACCCAAAAATCCCT
66 TGAACCCTAAACCTGAAATTCCCTAAAATCAACAATCCCATAACCCAAAAATCCCT
14118480 AAAAATCCCT
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
131 113 1.00
ACGTcount: A:0.42, C:0.25, G:0.11, T:0.23
Consensus pattern (131 bp):
TGATTTGGAGCATAAACCCTCACCAATCTTCACTACAAAAGAGCCAAGAGAAAAGACGTTATAAA
TGAACCCTAAACCTGAAATTCCCTAAAATCAACAATCCCATAACCCAAAAATCCCTTACCAATCT
G
Found at i:14118800 original size:19 final size:19
Alignment explanation
Indices: 14118759--14118805 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 19
14118749 AAAAATTTTC
14118759 TAAA-TATTTTTTTAATTT
1 TAAATTATTTTTTTAATTT
14118777 T-AATTATTTTTTTAATTT
1 TAAATTATTTTTTTAATTT
14118795 TAAATTCATTT
1 TAAATT-ATTT
14118806 GCTGATGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.08
18 16 0.62
19 4 0.15
20 4 0.15
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TAAATTATTTTTTTAATTT
Found at i:14120357 original size:25 final size:26
Alignment explanation
Indices: 14120328--14120403 Score: 111
Period size: 25 Copynumber: 3.0 Consensus size: 26
14120318 ACGAATTTTT
14120328 TCAAAATTTTACCGGG-GTAAAATTG
1 TCAAAATTTTACCGGGAGTAAAATTG
*
14120353 TCAAAATTTTATCGGGAGTAAAATTG
1 TCAAAATTTTACCGGGAGTAAAATTG
* *
14120379 TCAAAATTTTACTGAGA-TAAAATTG
1 TCAAAATTTTACCGGGAGTAAAATTG
14120404 GGGTGAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 23 0.50
26 23 0.50
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACCGGGAGTAAAATTG
Found at i:14120380 original size:26 final size:25
Alignment explanation
Indices: 14120328--14120390 Score: 108
Period size: 26 Copynumber: 2.5 Consensus size: 25
14120318 ACGAATTTTT
14120328 TCAAAATTTTACCGGGGTAAAATTG
1 TCAAAATTTTACCGGGGTAAAATTG
*
14120353 TCAAAATTTTATCGGGAGTAAAATTG
1 TCAAAATTTTACCGGG-GTAAAATTG
14120379 TCAAAATTTTAC
1 TCAAAATTTTAC
14120391 TGAGATAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (25 bp):
TCAAAATTTTACCGGGGTAAAATTG
Found at i:14121417 original size:35 final size:36
Alignment explanation
Indices: 14121371--14121470 Score: 148
Period size: 35 Copynumber: 2.8 Consensus size: 36
14121361 TCGGGTTTAG
14121371 AAAAAAATTTCAGCCCGCTTCTTAGGCCCAGGCCC-
1 AAAAAAATTTCAGCCCGCTTCTTAGGCCCAGGCCCA
* * **
14121406 AAAAAAATTTCATCCCGCTTTTTAGGCCTGGGCCCA
1 AAAAAAATTTCAGCCCGCTTCTTAGGCCCAGGCCCA
14121442 GAAAAAAATTTCAGCCCGCTTCTTAGGCC
1 -AAAAAAATTTCAGCCCGCTTCTTAGGCC
14121471 TGGGCCCATC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 31 0.54
37 26 0.46
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (36 bp):
AAAAAAATTTCAGCCCGCTTCTTAGGCCCAGGCCCA
Found at i:14121447 original size:37 final size:37
Alignment explanation
Indices: 14121369--14121478 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
14121359 GTTCGGGTTT
**
14121369 AGAAAAAAATTTCAGCCCGCTTCTTAGGCCCAGGCCC
1 AGAAAAAAATTTCAGCCCGCTTCTTAGGCCTGGGCCC
* *
14121406 --AAAAAAATTTCATCCCGCTTTTTAGGCCTGGGCCC
1 AGAAAAAAATTTCAGCCCGCTTCTTAGGCCTGGGCCC
14121441 AGAAAAAAATTTCAGCCCGCTTCTTAGGCCTGGGCCC
1 AGAAAAAAATTTCAGCCCGCTTCTTAGGCCTGGGCCC
14121478 A
1 A
14121479 TCCCAAAATA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
35 31 0.48
37 34 0.52
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (37 bp):
AGAAAAAAATTTCAGCCCGCTTCTTAGGCCTGGGCCC
Found at i:14121830 original size:21 final size:20
Alignment explanation
Indices: 14121806--14121852 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
14121796 AAATTAAATT
14121806 TTAAAATTTGAAATATAAAAA
1 TTAAAATTTGAAA-ATAAAAA
*
14121827 TTAAAAATTTTAAAATAAAAA
1 TT-AAAATTTGAAAATAAAAA
14121848 -TAAAA
1 TTAAAA
14121853 AAATGGAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
21 9 0.38
22 10 0.42
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
TTAAAATTTGAAAATAAAAA
Found at i:14121856 original size:22 final size:22
Alignment explanation
Indices: 14121808--14121854 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
14121798 ATTAAATTTT
*
14121808 AAAATTTGAAATATAAAAATTA
1 AAAATTTGAAATATAAAAATAA
*
14121830 AAAATTTTAAA-ATAAAAATAA
1 AAAATTTGAAATATAAAAATAA
14121851 AAAA
1 AAAA
14121855 ATGGAGGAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
AAAATTTGAAATATAAAAATAA
Found at i:14125696 original size:13 final size:14
Alignment explanation
Indices: 14125677--14125714 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
14125667 CAATGGCATA
14125677 GAAATAATATAAAC
1 GAAATAATATAAAC
14125691 -AAATAA-ATAAAC
1 GAAATAATATAAAC
14125703 GAAATTAATATA
1 GAAA-TAATATA
14125715 CAAAAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:14126429 original size:16 final size:16
Alignment explanation
Indices: 14126404--14126447 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
14126394 CTCTCCATTT
14126404 TCTTTCTTTTTTT-CTC
1 TCTTT-TTTTTTTGCTC
14126420 TC-TTTTTTTTTGCTC
1 TCTTTTTTTTTTGCTC
*
14126435 TCCTTTTTTTTTG
1 TCTTTTTTTTTTG
14126448 AAATATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.27
15 7 0.27
16 12 0.46
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.75
Consensus pattern (16 bp):
TCTTTTTTTTTTGCTC
Found at i:14126430 original size:15 final size:15
Alignment explanation
Indices: 14126404--14126446 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
14126394 CTCTCCATTT
14126404 TCTTTCTTTTTTTCTC
1 TCTTT-TTTTTTTCTC
*
14126420 TCTTTTTTTTTGCTC
1 TCTTTTTTTTTTCTC
*
14126435 TCCTTTTTTTTT
1 TCTTTTTTTTTT
14126447 GAAATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (15 bp):
TCTTTTTTTTTTCTC
Found at i:14131123 original size:13 final size:14
Alignment explanation
Indices: 14131104--14131141 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
14131094 CAATGGCATA
14131104 GAAATAATATAAAC
1 GAAATAATATAAAC
14131118 -AAATAA-ATAAAC
1 GAAATAATATAAAC
14131130 GAAATTAATATA
1 GAAA-TAATATA
14131142 CAAAAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:14131752 original size:17 final size:17
Alignment explanation
Indices: 14131730--14131764 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14131720 TAGGAAATAA
* *
14131730 AAAATGTATATGTATAT
1 AAAATGTAAATATATAT
14131747 AAAATGTAAATATATAT
1 AAAATGTAAATATATAT
14131764 A
1 A
14131765 TGTATATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (17 bp):
AAAATGTAAATATATAT
Found at i:14132251 original size:23 final size:24
Alignment explanation
Indices: 14132221--14132267 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
14132211 AAATTAAATC
14132221 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTACATAAATCATATCT
* *
14132244 TCTAAGATTGCATATATCATATCT
1 TCTAAGATTACATAAATCATATCT
14132268 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (24 bp):
TCTAAGATTACATAAATCATATCT
Done.