Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 46 of 126
Found at i:13798468 original size:10 final size:10
Alignment explanation
Indices: 13798449--13798483 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
13798439 GAATTAACTT
13798449 AAATGCAATA
1 AAATGCAATA
*
13798459 AAATGAAATA
1 AAATGCAATA
*
13798469 AAATGCAATG
1 AAATGCAATA
13798479 AAATG
1 AAATG
13798484 GTTTTAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.60, C:0.06, G:0.14, T:0.20
Consensus pattern (10 bp):
AAATGCAATA
Found at i:13803827 original size:40 final size:40
Alignment explanation
Indices: 13803773--13803854 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 40
13803763 CTCATTTGAC
13803773 TTTTGATTTAATTTATTGATTA-AAAGTTTCATGATAAGG
1 TTTTGATTTAATTTATTGATTACAAAGTTTCATGATAAGG
*
13803812 TTTTGGATTTAATTTATTTATTACAAAGTTTCATGATAAGG
1 TTTT-GATTTAATTTATTGATTACAAAGTTTCATGATAAGG
13803853 TT
1 TT
13803855 GACAGGCACT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 4 0.10
40 17 0.43
41 19 0.47
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.50
Consensus pattern (40 bp):
TTTTGATTTAATTTATTGATTACAAAGTTTCATGATAAGG
Found at i:13809073 original size:23 final size:21
Alignment explanation
Indices: 13809043--13809146 Score: 73
Period size: 23 Copynumber: 4.5 Consensus size: 21
13809033 ACACTAGCGC
13809043 GCTCTCTGTTTAGCACGTCTCGT
1 GCTCTCTGTTTAGCACGT-T-GT
* * *
13809066 GCTCTCTGATTAGTACTTTGT
1 GCTCTCTGTTTAGCACGTTGT
*
13809087 GTACTCTTTGTTTAGCACTGTGTGT
1 G--CTCTCTGTTTAGCAC-GT-TGT
*
13809112 GCTCTCTGTTTCCCAGCACTTATGT
1 GCTCTCTGTTT---AGCACGT-TGT
13809137 GCTCTCTGTT
1 GCTCTCTGTT
13809147 AGTGCTTTGG
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
21 3 0.05
22 1 0.02
23 36 0.56
24 1 0.02
25 18 0.28
26 5 0.08
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.44
Consensus pattern (21 bp):
GCTCTCTGTTTAGCACGTTGT
Found at i:13815259 original size:17 final size:17
Alignment explanation
Indices: 13815237--13815282 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
13815227 TGGGTTTACA
*
13815237 TTTTAATGGGT-TTAAG
1 TTTTAATGGATATTAAG
13815253 CTTTTAA-GGATATTAAG
1 -TTTTAATGGATATTAAG
13815270 TTTTAATGG-TATT
1 TTTTAATGGATATT
13815283 TTGGTTTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (17 bp):
TTTTAATGGATATTAAG
Found at i:13815282 original size:16 final size:17
Alignment explanation
Indices: 13815237--13815282 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
13815227 TGGGTTTACA
13815237 TTTTAATGGGT-TTAAGC
1 TTTTAAT-GGTATTAAGC
13815254 TTTTAA-GGATATTAAG-
1 TTTTAATGG-TATTAAGC
13815270 TTTTAATGGTATT
1 TTTTAATGGTATT
13815283 TTGGTTTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.08
16 11 0.42
17 13 0.50
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (17 bp):
TTTTAATGGTATTAAGC
Found at i:13817478 original size:27 final size:27
Alignment explanation
Indices: 13817420--13817478 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
13817410 TACAATTTAT
* *
13817420 TCAATTGAAACAGATAAATCAATTAAA
1 TCAATTGAAAAAGATAAATCAATCAAA
* *
13817447 CCAATTGAAAAAGATAAA-CTGATCAAA
1 TCAATTGAAAAAGATAAATC-AATCAAA
13817474 TCAAT
1 TCAAT
13817479 AAAACCGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.24
Consensus pattern (27 bp):
TCAATTGAAAAAGATAAATCAATCAAA
Found at i:13818090 original size:13 final size:14
Alignment explanation
Indices: 13818071--13818109 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
13818061 ATCCATTTAC
13818071 AAAGGCCCAAATT-
1 AAAGGCCCAAATTA
* *
13818084 GAAGGCCCAATTTA
1 AAAGGCCCAAATTA
13818098 AAAGGCCCAAAT
1 AAAGGCCCAAAT
13818110 AGGCCCAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.44, C:0.23, G:0.18, T:0.15
Consensus pattern (14 bp):
AAAGGCCCAAATTA
Found at i:13818104 original size:14 final size:14
Alignment explanation
Indices: 13818065--13818107 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
13818055 AGTCAAATCC
13818065 ATTTACAAAGGCCCA
1 ATTTA-AAAGGCCCA
* *
13818080 AATT-GAAGGCCCA
1 ATTTAAAAGGCCCA
13818093 ATTTAAAAGGCCCA
1 ATTTAAAAGGCCCA
13818107 A
1 A
13818108 ATAGGCCCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 11 0.48
14 9 0.39
15 3 0.13
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (14 bp):
ATTTAAAAGGCCCA
Found at i:13819926 original size:28 final size:29
Alignment explanation
Indices: 13819878--13819957 Score: 101
Period size: 28 Copynumber: 2.8 Consensus size: 29
13819868 ATGGGTTCCT
* *
13819878 AAACTGTCCAGAAATCACATTTTGACCTCA
1 AAACT-TCCAAAAATTACATTTTGACCTCA
*
13819908 AAA-TT-TAGAAAATTACATTTTGACCTCA
1 AAACTTCCA-AAAATTACATTTTGACCTCA
13819936 AAACTTCCAAAAATTACATTTT
1 AAACTTCCAAAAATTACATTTT
13819958 TACCCCTGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 1 0.02
28 22 0.51
29 16 0.37
30 4 0.09
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTGACCTCA
Found at i:13819975 original size:29 final size:28
Alignment explanation
Indices: 13819916--13820137 Score: 107
Period size: 29 Copynumber: 7.7 Consensus size: 28
13819906 CAAAATTTAG
* ** * *
13819916 AAAATTACATTTTGACCTCAAAACTTCCA
1 AAAATTACATTTT-ACCCCTGAATTTTCA
13819945 AAAATTACATTTTTACCCCTGAATTTTCA
1 AAAATTACA-TTTTACCCCTGAATTTTCA
* * *
13819974 AAAATTCCATTTTTAACCC-G-ATTTCACCA
1 AAAATTACA-TTTTACCCCTGAATTT--TCA
* *
13820003 AAAATTACCATTTTACCCCCGAATTTTCC
1 AAAATTA-CATTTTACCCCTGAATTTTCA
* * ** *
13820032 TAAATTCCATTTTAAGCCTG-ATTTTGCCC
1 AAAATTACATTTTACCCCTGAATTTT--CA
* *
13820061 AAAATTACCATTTTA-CCCTCGAATCTTCC
1 AAAATTA-CATTTTACCCCT-GAATTTTCA
*
13820090 AAAATTCCATTTTGA-CCCT-AA-TTTCA
1 AAAATTACATTTT-ACCCCTGAATTTTCA
13820116 CTAAAATTACCATTTTACCCCT
1 --AAAATTA-CATTTTACCCCT
13820138 AAACTTTCCA
Statistics
Matches: 152, Mismatches: 25, Indels: 32
0.73 0.12 0.15
Matches are distributed among these distances:
26 3 0.02
27 11 0.07
28 24 0.16
29 91 0.60
30 15 0.10
31 8 0.05
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (28 bp):
AAAATTACATTTTACCCCTGAATTTTCA
Found at i:13820004 original size:58 final size:58
Alignment explanation
Indices: 13819942--13820195 Score: 277
Period size: 58 Copynumber: 4.4 Consensus size: 58
13819932 CTCAAAACTT
*
13819942 CCAAAAATTA-CATTTTTACCCCTGAATTTTCAAAAATTCCATTTTTAACCCGATTTCA
1 CCAAAAATTACCA-TTTTACCCCTGAATTTTCCAAAATTCCATTTTTAACCCGATTTCA
* * * **
13820000 CCAAAAATTACCATTTTACCCCCGAATTTTCCTAAATTCCA-TTTTAAGCCTGATTTTG
1 CCAAAAATTACCATTTTACCCCTGAATTTTCCAAAATTCCATTTTTAA-CCCGATTTCA
* * * *
13820058 CCCAAAATTACCATTTTA-CCCTCGAATCTTCCAAAATTCCA-TTTTGACCCTAATTTCA
1 CCAAAAATTACCATTTTACCCCT-GAATTTTCCAAAATTCCATTTTTAACCC-GATTTCA
* * * *
13820116 -CTAAAATTACCATTTTACCCCTAAACTTTCCAAAA-CCCTATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCTGAATTTTCCAAAATTCC-ATTTTTAACC-CGATTTCA
*
13820174 CTAAAAATTACCATTTTACCCC
1 CCAAAAATTACCATTTTACCCC
13820196 CGAACCTTCA
Statistics
Matches: 163, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
56 2 0.01
57 38 0.23
58 101 0.62
59 22 0.13
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCTGAATTTTCCAAAATTCCATTTTTAACCCGATTTCA
Found at i:13820016 original size:30 final size:30
Alignment explanation
Indices: 13819940--13820190 Score: 137
Period size: 29 Copynumber: 8.6 Consensus size: 30
13819930 ACCTCAAAAC
*
13819940 TTCCAAAAATTA-CATTTTTACCCCTGAAT
1 TTCCAAAAATTACCATTTTTAACCCTGAAT
*
13819969 TTTCAAAAATT-CCATTTTTAACCC-G-AT
1 TTCCAAAAATTACCATTTTTAACCCTGAAT
* *
13819996 TTCACCAAAAATTACCA-TTTTACCCCCGAATT
1 TT--CCAAAAATTACCATTTTTAACCCTGAA-T
* * *
13820028 TTCC-TAAATT-CCA-TTTTAAGCCTGATT
1 TTCCAAAAATTACCATTTTTAACCCTGAAT
*
13820055 TTGCCCAAAATTACCA-TTTT-ACCCTCGAAT
1 TT-CCAAAAATTACCATTTTTAACCCT-GAAT
*
13820085 CTTCC-AAAATT-CCA-TTTTGACCCT-AAT
1 -TTCCAAAAATTACCATTTTTAACCCTGAAT
* * *
13820112 TTCACTAAAATTACCA-TTTTACCCCTAAACT
1 TTC-CAAAAATTACCATTTTTAACCCTGAA-T
*
13820143 TTCC-AAAA--CCCTATTTTTAA-CCTCG-AT
1 TTCCAAAAATTACC-ATTTTTAACCCT-GAAT
13820170 TTCACTAAAAATTACCATTTT
1 TTC-C-AAAAATTACCATTTT
13820191 ACCCCCGAAC
Statistics
Matches: 178, Mismatches: 18, Indels: 50
0.72 0.07 0.20
Matches are distributed among these distances:
26 3 0.02
27 17 0.10
28 34 0.19
29 82 0.46
30 25 0.14
31 12 0.07
32 5 0.03
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (30 bp):
TTCCAAAAATTACCATTTTTAACCCTGAAT
Found at i:13820219 original size:58 final size:57
Alignment explanation
Indices: 13819942--13820226 Score: 265
Period size: 58 Copynumber: 4.9 Consensus size: 57
13819932 CTCAAAACTT
*
13819942 CCAAAAATTA-CATTTTTACCCCTGAATTTTCAAAAATTCCATTTTTAACC-CGATTTCA
1 CCAAAAATTACCA-TTTTACCCCCGAATTTTCAAAAA-TCCA-TTTTAACCTCGATTTCA
* * **
13820000 CCAAAAATTACCATTTTACCCCCGAATTTTCCTAAATTCCATTTTAAGCCT-GATTTTG
1 CCAAAAATTACCATTTTACCCCCGAATTTT-CAAAAATCCATTTTAA-CCTCGATTTCA
* * * * * *
13820058 CCCAAAATTACCATTTTACCCTCGAATCTTCCAAAATTCCATTTTGACC-CTAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAAT-TTTCAAAAATCCATTTTAACCTC-GATTTCA
* ** * * *
13820116 -CTAAAATTACCATTTTACCCCTAAACTTTCCAAAACCCTATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATTTTCAAAAATCC-A-TTTTAACCTCGATTTCA
* **
13820174 CTAAAAATTACCATTTTACCCCCGAACCTTCAAAAATCCTATTTTAACCTCGA
1 CCAAAAATTACCATTTTACCCCCGAATTTTCAAAAATCC-ATTTTAACCTCGA
13820227 ATTTTCCCAA
Statistics
Matches: 185, Mismatches: 31, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
56 8 0.04
57 30 0.16
58 105 0.57
59 42 0.23
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (57 bp):
CCAAAAATTACCATTTTACCCCCGAATTTTCAAAAATCCATTTTAACCTCGATTTCA
Found at i:13832777 original size:200 final size:200
Alignment explanation
Indices: 13832335--13833051 Score: 1163
Period size: 200 Copynumber: 3.6 Consensus size: 200
13832325 TAGTTCAACA
*
13832335 AAAC-AACTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATGCCAACTCAACGCTCAACG
1 AAACAAAC-GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACG
13832399 CGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAAT-AAAAGG
65 CGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGG
* *
13832463 TTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTTGTCTTCCTGAGGAGATCCAGAGAAGC
130 TTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGC
13832528 -AACTT-
195 GAA-TTG
* * *
13832533 AAAGTAATCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTTAACGCTCAACG
1 AAA-CAAACGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACG
* *
13832598 CGAGCAAATCTTCGAACCCAGCTTCCTGATAAGACACTAAGAAGCAGGTCGAAGCAATAAAAAGG
65 CGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGG
*
13832663 TTAGTTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGC
130 TTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGC
13832728 GAATTG
195 GAATTG
* * * *
13832734 AAACAAACGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGAATGCCAACTTAACGCTCAATGC
1 AAACAAACGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGC
* ** * *
13832799 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACCGAGAAGCAAATGGAAACAATAAAAAGGT
66 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGT
*
13832864 TAGCTTCCTGATTAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
131 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
13832929 AATTG
196 AATTG
* **
13832934 AAACAAACGAGGCGGTCATCTTCCTGATGAGACACAGAGAAGAATACCAACTCAACGCTCAAAAC
1 AAACAAACGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGC
* *
13832999 GAGTAAATCTTCGAACCCAGCTTCCTGGTGAGACACTGAGAAGCAGGTCGAAG
66 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAG
13833052 TCAGCAAACT
Statistics
Matches: 478, Mismatches: 36, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
198 3 0.01
199 110 0.23
200 360 0.75
201 5 0.01
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (200 bp):
AAACAAACGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGC
GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGT
TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
AATTG
Found at i:13833517 original size:13 final size:12
Alignment explanation
Indices: 13833499--13833546 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 12
13833489 TCCATTTACA
13833499 AAGGCCCAAATT
1 AAGGCCCAAATT
*
13833511 GAAGGCCCAATTT
1 -AAGGCCCAAATT
13833524 AAAAGGCCCAAATT
1 --AAGGCCCAAATT
13833538 AAGGGCCCA
1 AA-GGCCCA
13833547 TTTACAATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 2 0.07
13 17 0.57
14 11 0.37
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (12 bp):
AAGGCCCAAATT
Found at i:13833531 original size:14 final size:14
Alignment explanation
Indices: 13833498--13833539 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
13833488 GTCCATTTAC
13833498 AAAGGCCCAAATT-
1 AAAGGCCCAAATTA
* *
13833511 GAAGGCCCAATTTA
1 AAAGGCCCAAATTA
13833525 AAAGGCCCAAATTA
1 AAAGGCCCAAATTA
13833539 A
1 A
13833540 GGGCCCATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (14 bp):
AAAGGCCCAAATTA
Found at i:13833535 original size:27 final size:27
Alignment explanation
Indices: 13833490--13833563 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
13833480 ATAGCCAAGT
13833490 CCATTTACAAAGGCCCAAATTGAA-GGC
1 CCATTTACAAAGGCCCAAATT-AAGGGC
13833517 CCAATTTA-AAAGGCCCAAATTAAGGGC
1 CC-ATTTACAAAGGCCCAAATTAAGGGC
* *
13833544 CCATTTACAATGGCCTAAAT
1 CCATTTACAAAGGCCCAAAT
13833564 AGGACCAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 7 0.17
27 30 0.71
28 5 0.12
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (27 bp):
CCATTTACAAAGGCCCAAATTAAGGGC
Found at i:13835385 original size:29 final size:30
Alignment explanation
Indices: 13835339--13835433 Score: 106
Period size: 29 Copynumber: 3.2 Consensus size: 30
13835329 CCTTAATTTG
*
13835339 TCCAAAAATCACATTTTGA-CCCTAAAACT
1 TCCAAAAATTACATTTTGACCCCTAAAACT
* *
13835368 T-TAGAAAATTACATTTTGATCCC-AAAACT
1 TCCA-AAAATTACATTTTGACCCCTAAAACT
* **
13835397 TCCAAAAATTACATTTTTACCCCTAAATTT
1 TCCAAAAATTACATTTTGACCCCTAAAACT
13835427 TCCAAAA
1 TCCAAAA
13835434 TACCATTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.02
29 39 0.71
30 15 0.27
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.33
Consensus pattern (30 bp):
TCCAAAAATTACATTTTGACCCCTAAAACT
Found at i:13835434 original size:29 final size:29
Alignment explanation
Indices: 13835372--13835713 Score: 86
Period size: 29 Copynumber: 11.7 Consensus size: 29
13835362 AAAACTTTAG
* * **
13835372 AAAATTACATTTTGATCCC-AAAACTTCC
1 AAAATTACATTTTTACCCCTAAATTTTCC
13835400 AAAAATTACATTTTTACCCCTAAATTTTCC
1 -AAAATTACATTTTTACCCCTAAATTTTCC
* ** *
13835430 AAAA-TACCATTTTTA-ACCTCGATTTCACACC
1 AAAATTA-CATTTTTACCCCTAAATTT---TCC
* * *
13835461 AAAAATTACCA-TTTCACCCC-GAACTTTCC
1 -AAAATTA-CATTTTTACCCCTAAATTTTCC
* * * *
13835490 TAAATTCCA-TTTTAACCCT-TATTTTACCC
1 AAAATTACATTTTTACCCCTAAATTTT--CC
** *
13835519 AAAATTACCA-TTTTACCCCCGAATCTTCC
1 AAAATTA-CATTTTTACCCCTAAATTTTCC
* * ** *
13835548 AAAATTCCATTTTTA-ACCTCGATTTCACC
1 AAAATTACATTTTTACCCCTAAATTT-TCC
*
13835577 AAAATTACCA-TTTTA-CCCTCAAACTTTCC
1 AAAATTA-CATTTTTACCCCT-AAATTTTCC
* * * *
13835606 AAAACCCTA-A-TTTTAACACTCAA-TTTCAC
1 AAAA--TTACATTTTTACCCCTAAATTTTC-C
* * *
13835635 TAAAATTACCATTTTTACCGCGAACCTTTT--
1 -AAAATTA-CATTTTTACCCCTAA-ATTTTCC
** *
13835665 AAAATCCCATTTTTAACCCTAAATTTTCC
1 AAAATTACATTTTTACCCCTAAATTTTCC
13835694 TAAAATTACATTTTTACCCC
1 -AAAATTACATTTTTACCCC
13835714 CCTCGAGAGT
Statistics
Matches: 226, Mismatches: 57, Indels: 59
0.66 0.17 0.17
Matches are distributed among these distances:
27 17 0.08
28 39 0.17
29 87 0.38
30 46 0.20
31 16 0.07
32 11 0.05
33 10 0.04
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAATTACATTTTTACCCCTAAATTTTCC
Found at i:13835507 original size:28 final size:28
Alignment explanation
Indices: 13835396--13835609 Score: 111
Period size: 29 Copynumber: 7.3 Consensus size: 28
13835386 ATCCCAAAAC
* *
13835396 TTCCAAAAATTA-CATTTTTACCCCTAAATT
1 TTCC-AAAATTACCATTTTAACCCC-GAA-T
*
13835426 TTCCAAAA-TACCATTTTTAACCTCG-AT
1 TTCCAAAATTACCA-TTTTAACCCCGAAT
*
13835453 TTCACACCAAAAATTACCA-TTTCACCCCGAACT
1 TT----CC-AAAATTACCATTTTAACCCCGAA-T
* ** *
13835486 TTCCTAAATT-CCATTTTAACCCTTATT
1 TTCCAAAATTACCATTTTAACCCCGAAT
*
13835513 TTACCCAAAATTACCATTTTACCCCCGAAT
1 TT--CCAAAATTACCATTTTAACCCCGAAT
*
13835543 CTTCCAAAATT-CCATTTTTAACCTCG-AT
1 -TTCCAAAATTACCA-TTTTAACCCCGAAT
*
13835571 TTCACCAAAATTACCATTTT-ACCCTCAAACT
1 TT--CCAAAATTACCATTTTAACCC-CGAA-T
13835602 TTCCAAAA
1 TTCCAAAA
13835610 CCCTAATTTT
Statistics
Matches: 143, Mismatches: 19, Indels: 45
0.69 0.09 0.22
Matches are distributed among these distances:
27 11 0.08
28 24 0.17
29 51 0.36
30 29 0.20
31 15 0.10
32 5 0.03
33 8 0.06
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (28 bp):
TTCCAAAATTACCATTTTAACCCCGAAT
Found at i:13835530 original size:57 final size:57
Alignment explanation
Indices: 13835401--13835682 Score: 261
Period size: 59 Copynumber: 4.8 Consensus size: 57
13835391 AAAACTTCCA
* * *
13835401 AAAATTA-CATTTTTACCCCTAAATTTTCCAAAATACCATTTTTAACCTCGATTTCACACC
1 AAAATTACCA-TTTTACCCC-GAACTTTCCAAAATTCCATTTTTAACCTCGATTT--CACC
* * * *
13835461 AAAAATTACCATTTCACCCCGAACTTTCCTAAATTCCA-TTTTAACC-CTTATTTTACCC
1 -AAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCTC-GATTTCA-CC
13835519 AAAATTACCATTTTACCCCCGAA-TCTTCCAAAATTCCATTTTTAACCTCGATTTCACC
1 AAAATTACCATTTTA-CCCCGAACT-TTCCAAAATTCCATTTTTAACCTCGATTTCACC
* * * * *
13835577 AAAATTACCATTTTACCCTCAAACTTTCCAAAA-CCCTAATTTTAACACTCAATTTCACT
1 AAAATTACCATTTTACCC-CGAACTTTCCAAAATTCC-ATTTTTAAC-CTCGATTTCACC
* * *
13835636 AAAATTACCATTTTTACCGCGAACCTTT-TAAAATCCCATTTTTAACC
1 AAAATTACCA-TTTTACCCCGAA-CTTTCCAAAATTCCATTTTTAACC
13835683 CTAAATTTTC
Statistics
Matches: 187, Mismatches: 20, Indels: 31
0.79 0.08 0.13
Matches are distributed among these distances:
57 21 0.11
58 59 0.32
59 61 0.33
60 29 0.16
61 15 0.08
62 2 0.01
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (57 bp):
AAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACC
Found at i:13835553 original size:58 final size:61
Alignment explanation
Indices: 13835401--13835714 Score: 239
Period size: 59 Copynumber: 5.3 Consensus size: 61
13835391 AAAACTTCCA
** * * *
13835401 AAAATTA-CATTTTTACCCCTAAATTTTCCAAAATACCATTTTTAA-CCTCGATTTCACACC
1 AAAATTACCATTTTTACCCCCGAATCTTCCAAAATCCCATTTTTAACCCTCGATTTTAC-CC
* * * *
13835461 AAAAATTACCA-TTTCA-CCCCGAA-CTTTCCTAAATTCCA-TTTTAACCCT-TATTTTACCC
1 -AAAATTACCATTTTTACCCCCGAATC-TTCCAAAATCCCATTTTTAACCCTCGATTTTACCC
* *
13835519 AAAATTACCA-TTTTACCCCCGAATCTTCCAAAATTCCATTTTTAA-CCTCGATTTCA-CC
1 AAAATTACCATTTTTACCCCCGAATCTTCCAAAATCCCATTTTTAACCCTCGATTTTACCC
* * * * * * *
13835577 AAAATTACCA-TTTTACCCTC-AAACTTTCCAAAA-CCCTAATTTTAACACTCAATTTCA-CT
1 AAAATTACCATTTTTACCCCCGAATC-TTCCAAAATCCC-ATTTTTAACCCTCGATTTTACCC
* * ** ** *
13835636 AAAATTACCATTTTTA-CCGCGAACCTTTTAAAATCCCATTTTTAACCCTAAATTTT-CCT
1 AAAATTACCATTTTTACCCCCGAATCTTCCAAAATCCCATTTTTAACCCTCGATTTTACCC
13835695 AAAATTA-CATTTTTACCCCC
1 AAAATTACCATTTTTACCCCC
13835715 CTCGAGAGTC
Statistics
Matches: 210, Mismatches: 28, Indels: 32
0.78 0.10 0.12
Matches are distributed among these distances:
57 19 0.09
58 68 0.32
59 80 0.38
60 30 0.14
61 11 0.05
62 2 0.01
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.36
Consensus pattern (61 bp):
AAAATTACCATTTTTACCCCCGAATCTTCCAAAATCCCATTTTTAACCCTCGATTTTACCC
Found at i:13837144 original size:54 final size:54
Alignment explanation
Indices: 13837035--13837149 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
13837025 AAAAATCAAA
* * *
13837035 TTAAATAATTAAGCTTTATTAAAATCTGAAATAGAATAGAAGAATAAAATACAC
1 TTAAACAATTAAGCTCTATTAAAATATGAAATAGAATAGAAGAATAAAATACAC
* *
13837089 TTGAACAATTAAGCTCTATTAAAATATGAAATAGAATAGGAGAATAAAA-AGCAC
1 TTAAACAATTAAGCTCTATTAAAATATGAAATAGAATAGAAGAATAAAATA-CAC
13837143 TTAAACA
1 TTAAACA
13837150 TGATTAAACT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.02
54 53 0.98
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.27
Consensus pattern (54 bp):
TTAAACAATTAAGCTCTATTAAAATATGAAATAGAATAGAAGAATAAAATACAC
Found at i:13843044 original size:15 final size:16
Alignment explanation
Indices: 13843017--13843046 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13843007 ATTAAATATT
13843017 TATATAGAATTAACAA
1 TATATAGAATTAACAA
13843033 TATATA-AATTAACA
1 TATATAGAATTAACA
13843047 TGCATCTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (16 bp):
TATATAGAATTAACAA
Found at i:13843775 original size:16 final size:16
Alignment explanation
Indices: 13843756--13843786 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13843746 TCTCAATTAA
13843756 TTAAAATATCAAAACC
1 TTAAAATATCAAAACC
*
13843772 TTAAAATTTCAAAAC
1 TTAAAATATCAAAAC
13843787 AATCAAGATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAAAATATCAAAACC
Found at i:13844356 original size:14 final size:14
Alignment explanation
Indices: 13844337--13844364 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13844327 TATCTCATAC
13844337 TTTATTTAATAATT
1 TTTATTTAATAATT
13844351 TTTATTTAATAATT
1 TTTATTTAATAATT
13844365 AAAACCCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTATTTAATAATT
Found at i:13845666 original size:2 final size:2
Alignment explanation
Indices: 13845661--13845692 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13845651 TACACACGTG
13845661 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13845693 TATATATCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:13852141 original size:20 final size:18
Alignment explanation
Indices: 13852116--13852162 Score: 76
Period size: 20 Copynumber: 2.5 Consensus size: 18
13852106 AATTTAAAGC
13852116 AAATTTAAATTTAAAAAGAT
1 AAATTTAAATTT-AAAA-AT
13852136 AAATTTAAATTTAAAAAT
1 AAATTTAAATTTAAAAAT
13852154 AAATTTAAA
1 AAATTTAAA
13852163 CCTAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 11 0.41
19 4 0.15
20 12 0.44
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AAATTTAAATTTAAAAAT
Found at i:13852849 original size:201 final size:201
Alignment explanation
Indices: 13852497--13853049 Score: 829
Period size: 201 Copynumber: 2.8 Consensus size: 201
13852487 TACTTCTTAG
* * * ** * * *
13852497 TATCTTATCAGGAAGATGATCGCATCGTTTGTTTCAATCCGCTTTTCTGTACCTTATCA-AGAAG
1 TATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAGTCCGCTTCTCTGTACCTCATCAGA-AAG
* *
13852561 ACGAATTTGGTTTACTTCTCAGTATTTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTT
65 ACGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTT
*
13852626 CTCAGTATCTTATCAGGAAGCTGGGATTCGAAGATTTGCTCACATCGAGCCCTGAGTTGGTAAAC
130 CTCAGTATCTCATCAGGAAGCTGGGATTCGAAGATTTGCTCACATCGAGCCCTGAGTTGGTAAAC
13852691 TCCTCTA
195 TCCTCTA
13852698 TATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAGTCCGCTTCTCTGTACCTCATCAGAAAGA
1 TATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAGTCCGCTTCTCTGTACCTCATCAGAAAGA
* * *
13852763 CGAATTTGGTCTAGTTCTCAGTATCTCATTAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
66 CGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTC
* * * * * * * ** *
13852828 TAAGTATCTCATCAAGAAGCTGGGGTTTGAAGATTTGTTCGCATTGAGTTCTGAGTTGGTATACT
131 TCAGTATCTCATCAGGAAGCTGGGATTCGAAGATTTGCTCACATCGAGCCCTGAGTTGGTAAACT
*
13852893 TCTCTA
196 CCTCTA
13852899 TATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAGTCCGCTTCTCTGTACCTCATCAGAAAGA
1 TATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAGTCCGCTTCTCTGTACCTCATCAGAAAGA
* * *
13852964 CGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTTCTTCGCCCTGCTTC
66 CGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTC
*
13853029 TCAGCATCTCATCAGGAAGCT
131 TCAGTATCTCATCAGGAAGCT
13853050 AACCTTTTTA
Statistics
Matches: 318, Mismatches: 33, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
201 317 1.00
202 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (201 bp):
TATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAGTCCGCTTCTCTGTACCTCATCAGAAAGA
CGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTC
TCAGTATCTCATCAGGAAGCTGGGATTCGAAGATTTGCTCACATCGAGCCCTGAGTTGGTAAACT
CCTCTA
Found at i:13853048 original size:48 final size:48
Alignment explanation
Indices: 13852974--13853095 Score: 226
Period size: 48 Copynumber: 2.5 Consensus size: 48
13852964 CGAATTTGGT
*
13852974 CTACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTTCTTCGCC
1 CTACTTCTCAGCATCTCATCAGGAAGCTAACCTTTTTATTTCTTCGCC
*
13853022 CTGCTTCTCAGCATCTCATCAGGAAGCTAACCTTTTTATTTCTTCGCC
1 CTACTTCTCAGCATCTCATCAGGAAGCTAACCTTTTTATTTCTTCGCC
13853070 CTACTTCTCAGCATCTCATCAGGAAG
1 CTACTTCTCAGCATCTCATCAGGAAG
13853096 TTGGGGTTCA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.36
Consensus pattern (48 bp):
CTACTTCTCAGCATCTCATCAGGAAGCTAACCTTTTTATTTCTTCGCC
Found at i:13853209 original size:242 final size:245
Alignment explanation
Indices: 13852777--13853285 Score: 747
Period size: 242 Copynumber: 2.1 Consensus size: 245
13852767 TTTGGTCTAG
* * *
13852777 TTCTCAGTATCTCATTAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTAAGTATCTCATCA
1 TTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTAAGCATCTCATCA
**
13852842 AGAAGCTGGGGTTTGAAGATTTGTTCGCATTGAGTTCTGAGTTGGTATACTTCTCTATATCTCAT
66 AGAAGCTGGGGTTCAAAGATTTGTTCGC--T-AG-TCTGAGTTGGTATACTTCTCTATATCTCAT
*
13852907 CAGGAAGATGACCGCCTCACTTGTTTCAGTCCGCTTCTCTGTACCTCATCAGAAAGACGAATTTG
127 CAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATCAGAAAGACGAATTTG
* * * *
13852972 GTCTACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTTCTTCGCCCTGC
192 GTCCACTTCCCAGTATCTCATCAGGAAGATAACCTTTTTATTGCTTCGCCCTGC
* * * * *
13853026 TTCTCAGCATCTCATCAGGAAGCTAACCTTTTTATTTCTTCGCCCTACTTCTCAGCATCTCATCA
1 TTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTAAGCATCTCATCA
* * * *
13853091 GGAAGTTGGGGTTCAAAGATTTGTTTGC-A-T-TGAGTTGGTATACTTCTCTGTATCTCATCTA-
66 AGAAGCTGGGGTTCAAAGATTTGTTCGCTAGTCTGAGTTGGTATACTTCTCTATATCTCATC-AG
* *
13853152 GAAGATGACCGCCTCACTTGTTTCAATCCTCTTCTCTGTACCTCATCAGGAAGACGAATTTGGTC
130 GAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATCAGAAAGACGAATTTGGTC
13853217 CACTTCCCAGTATCTCATCAGGAAGATAACCTTTTTATTGCTTCGCCCTGC
195 CACTTCCCAGTATCTCATCAGGAAGATAACCTTTTTATTGCTTCGCCCTGC
*
13853268 TTCTCAATATCTCATCAG
1 TTCTCAGTATCTCATCAG
13853286 AAAGTTGGGG
Statistics
Matches: 236, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
242 153 0.65
243 2 0.01
245 1 0.00
249 80 0.34
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (245 bp):
TTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTAAGCATCTCATCA
AGAAGCTGGGGTTCAAAGATTTGTTCGCTAGTCTGAGTTGGTATACTTCTCTATATCTCATCAGG
AAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATCAGAAAGACGAATTTGGTCC
ACTTCCCAGTATCTCATCAGGAAGATAACCTTTTTATTGCTTCGCCCTGC
Found at i:13853514 original size:39 final size:39
Alignment explanation
Indices: 13853410--13853800 Score: 147
Period size: 39 Copynumber: 10.0 Consensus size: 39
13853400 TAGGAGTTTG
* * ** *
13853410 ATTGATGATGATCTGCCCCAAGCTCAAGGTAAGAGATCGA
1 ATTGATGATAATCTACCCCAAGCTCGGGGTAAGAGAT-TA
* * *
13853450 ATGGCT-ATAATCTACCCC-TGACTCGGGGTAAGAGATTA
1 ATTGATGATAATCTACCCCAAG-CTCGGGGTAAGAGATTA
* * * * *
13853488 GTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCA
1 ATTGATGATAATCTACCCCAAGCTCGGGGTAAGAGATTA
* * *
13853527 AATG--GCTTCAATCTACCCC-AGACTCGGGGTAAGAGATTG
1 ATTGATG-AT-AATCTACCCCAAG-CTCGGGGTAAGAGATTA
* * * * * *
13853566 GTTTATGATGATTTACCCTCAAGCTCGGGGTAAAAGATCAA
1 ATTGATGATAATCTACCC-CAAGCTCGGGGTAAGAGAT-TA
* * * * * * *
13853607 ATGGCTG-TAATCTGCCCC-TGACTCAGGATAAGAGATTG
1 ATTGATGATAATCTACCCCAAG-CTCGGGGTAAGAGATTA
* * ** * * *
13853645 GTTGATGATAATCTGCCTTAGGCTCGGGGTAAAAGATCA
1 ATTGATGATAATCTACCCCAAGCTCGGGGTAAGAGATTA
* * * * *
13853684 AATG--GCTTCAATCCACCCCAAGCTCAGGGTAAGAGATTG
1 ATTGATG-AT-AATCTACCCCAAGCTCGGGGTAAGAGATTA
* * * *
13853723 GTTGATGATGATCTACCCCCAAGCTCGGGGTAAAAGATCA
1 ATTGATGATAATCTA-CCCCAAGCTCGGGGTAAGAGATTA
* * * *
13853763 AATG--GCTTCAATCTGCCCCAGGCTCGGGGTAAGAGATT
1 ATTGATG-AT-AATCTACCCCAAGCTCGGGGTAAGAGATT
13853801 GGTTGACGAT
Statistics
Matches: 244, Mismatches: 86, Indels: 43
0.65 0.23 0.12
Matches are distributed among these distances:
37 2 0.01
38 15 0.06
39 164 0.67
40 56 0.23
41 7 0.03
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.25
Consensus pattern (39 bp):
ATTGATGATAATCTACCCCAAGCTCGGGGTAAGAGATTA
Found at i:13853531 original size:78 final size:78
Alignment explanation
Indices: 13853397--13853811 Score: 530
Period size: 78 Copynumber: 5.3 Consensus size: 78
13853387 CCCGTGATCA
* * * ** * *
13853397 GGGTAGGAGTTTGATTGATGATGATCTGCCCCAAGCTCAAGGTAAGAGATCGAATGGCTAT-AAT
1 GGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGCT-TCAAT
*
13853461 CTACCCCTGACTCG
65 CTACCCCAGACTCG
*
13853475 GGGTAAGAGATTAGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAATC
1 GGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAATC
13853540 TACCCCAGACTCG
66 TACCCCAGACTCG
* * *
13853553 GGGTAAGAGATTGGTTTATGATGATTTACCCTCAAGCTCGGGGTAAAAGATCAAATGGCTGT-AA
1 GGGTAAGAGATTGGTTGATGATGATCTGCCC-CAAGCTCGGGGTAAAAGATCAAATGGCT-TCAA
* * *
13853617 TCTGCCCCTGACTCA
64 TCTACCCCAGACTCG
* * ** *
13853632 GGATAAGAGATTGGTTGATGATAATCTGCCTTAGGCTCGGGGTAAAAGATCAAATGGCTTCAATC
1 GGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAATC
* *
13853697 CACCCCA-AGCTCA
66 TACCCCAGA-CTCG
*
13853710 GGGTAAGAGATTGGTTGATGATGATCTACCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAAT
1 GGGTAAGAGATTGGTTGATGATGATCT-GCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAAT
* *
13853775 CTGCCCCAGGCTCG
65 CTACCCCAGACTCG
*
13853789 GGGTAAGAGATTGGTTGACGATG
1 GGGTAAGAGATTGGTTGATGATG
13853812 TAACTTCACT
Statistics
Matches: 292, Mismatches: 38, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
77 3 0.01
78 157 0.54
79 131 0.45
80 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (78 bp):
GGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAATC
TACCCCAGACTCG
Found at i:13853714 original size:157 final size:155
Alignment explanation
Indices: 13853394--13853806 Score: 567
Period size: 157 Copynumber: 2.6 Consensus size: 155
13853384 AGCCCCGTGA
* * * * ** * *
13853394 TCAGGGTAGGAGTTTGATTGATGATGATCTGCCCCAAGCTCAAGGTAAGAGATCGAATGGCTATA
1 TCAGGGTAAGAGATTGGTTGATGATGATCTACCCCAAGCTCGGGGTAAAAGATCAAATGGCT-TA
* * *
13853459 ATCTACCCCTGACTCGGGGTAAGAGATTAGTTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGA
65 ATCTGCCCCTGACTCGGGGTAAGAGATTGGTTGATGATAATCTGCCCCAAGCTCGGGGTAAAAGA
*
13853524 TCAAATGGCTTCAATCTACCCCAGAC
130 TCAAATGGCTTCAATCCACCCCAGAC
* * *
13853550 TCGGGGTAAGAGATTGGTTTATGATGATTTACCCTCAAGCTCGGGGTAAAAGATCAAATGGCTGT
1 TCAGGGTAAGAGATTGGTTGATGATGATCTACCC-CAAGCTCGGGGTAAAAGATCAAATGGCT-T
* * ** *
13853615 AATCTGCCCCTGACTCAGGATAAGAGATTGGTTGATGATAATCTGCCTTAGGCTCGGGGTAAAAG
64 AATCTGCCCCTGACTCGGGGTAAGAGATTGGTTGATGATAATCTGCCCCAAGCTCGGGGTAAAAG
13853680 ATCAAATGGCTTCAATCCACCCCA-AGC
129 ATCAAATGGCTTCAATCCACCCCAGA-C
13853707 TCAGGGTAAGAGATTGGTTGATGATGATCTACCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTC
1 TCAGGGTAAGAGATTGGTTGATGATGATCTA-CCCCAAGCTCGGGGTAAAAGATCAAATGGCTT-
* *
13853772 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGTTGA
64 AATCTGCCCCTGACTCGGGGTAAGAGATTGGTTGA
13853807 CGATGTAACT
Statistics
Matches: 225, Mismatches: 28, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
156 29 0.13
157 193 0.86
158 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (155 bp):
TCAGGGTAAGAGATTGGTTGATGATGATCTACCCCAAGCTCGGGGTAAAAGATCAAATGGCTTAA
TCTGCCCCTGACTCGGGGTAAGAGATTGGTTGATGATAATCTGCCCCAAGCTCGGGGTAAAAGAT
CAAATGGCTTCAATCCACCCCAGAC
Found at i:13854211 original size:50 final size:49
Alignment explanation
Indices: 13854044--13854213 Score: 137
Period size: 50 Copynumber: 3.4 Consensus size: 49
13854034 ATGTTTCTAA
* * * **
13854044 GGTACTGGGTTCGCCATTGCAACTTAAACCTTTCCCTTTCAAATCTTTGT
1 GGTACTGGATCCGCCGTTGCAACTTAAACCTTTCCCTTT-TGATCTTTGT
* ** ** **
13854094 GGTACTGGATTCGCCGTTGCGGCTTAAATATTTCCCTTCTTG-TCTTCTAA
1 GGTACTGGATCCGCCGTTGCAACTTAAACCTTTCCCTT-TTGATCTT-TGT
* ** *
13854144 GGTACACGG-TCTACCGTTACAACTTAAACCTTTCCCTTTTGTATCTTTGT
1 GGTAC-TGGATCCGCCGTTGCAACTTAAACCTTTCCCTTTTG-ATCTTTGT
13854194 GGTACTGGATCCGCCGTTGC
1 GGTACTGGATCCGCCGTTGC
13854214 GGTCTTAGAT
Statistics
Matches: 89, Mismatches: 25, Indels: 12
0.71 0.20 0.10
Matches are distributed among these distances:
49 9 0.10
50 73 0.82
51 7 0.08
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.38
Consensus pattern (49 bp):
GGTACTGGATCCGCCGTTGCAACTTAAACCTTTCCCTTTTGATCTTTGT
Found at i:13855549 original size:13 final size:13
Alignment explanation
Indices: 13855531--13855579 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
13855521 CGACCTCTTC
*
13855531 TTTTCTTTTTCAT
1 TTTTCTTTTTCCT
13855544 TTTTCTATTTTCCT
1 TTTTCT-TTTTCCT
* *
13855558 TTTCCTTTTCCCT
1 TTTTCTTTTTCCT
13855571 TTTTCTTTT
1 TTTTCTTTT
13855580 CTTTTTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 20 0.65
14 11 0.35
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCTTTTTCCT
Found at i:13861353 original size:6 final size:6
Alignment explanation
Indices: 13861342--13861387 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
13861332 TCAAATTTGA
* * *
13861342 TTAAAT TTAAAT TTAAA- GTAAAT TTAAAT TTAAAA ATAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
13861388 CCAATTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:13861365 original size:17 final size:18
Alignment explanation
Indices: 13861343--13861387 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
13861333 CAAATTTGAT
*
13861343 TAAATTTAAATTT-AAAG
1 TAAATTTAAATTTAAAAA
13861360 TAAATTTAAATTTAAAAA
1 TAAATTTAAATTTAAAAA
13861378 TAAATTTAAA
1 TAAATTTAAA
13861388 CCAATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAATTTAAATTTAAAAA
Found at i:13880685 original size:22 final size:22
Alignment explanation
Indices: 13880641--13880686 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
13880631 ATGCTATGTA
* *
13880641 TTATAAAAAATAATATCTTTAT
1 TTATAAAAAATAATATATATAT
*
13880663 TTATAAAAAATATTATATATAT
1 TTATAAAAAATAATATATATAT
13880685 TT
1 TT
13880687 TCCCATATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TTATAAAAAATAATATATATAT
Found at i:13882037 original size:30 final size:30
Alignment explanation
Indices: 13882003--13882059 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
13881993 TGAAACAAAG
13882003 GAATGCTATTGCGGTCACTACGGATATAAC
1 GAATGCTATTGCGGTCACTACGGATATAAC
13882033 GAATGCTATTGCGGTCACTACGGATAT
1 GAATGCTATTGCGGTCACTACGGATAT
13882060 CGCGATCGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (30 bp):
GAATGCTATTGCGGTCACTACGGATATAAC
Found at i:13887641 original size:14 final size:15
Alignment explanation
Indices: 13887622--13887659 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
13887612 TGAACTAATT
*
13887622 TTTTTTATTT-TTAA
1 TTTTTTATTTATGAA
13887636 TTTTTTATTTGATGAA
1 TTTTTTATTT-ATGAA
13887652 TTTTTTAT
1 TTTTTTAT
13887660 AATTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
16 11 0.52
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (15 bp):
TTTTTTATTTATGAA
Found at i:13902475 original size:10 final size:9
Alignment explanation
Indices: 13902450--13902476 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
13902440 CCATTTTCTC
13902450 TCTTTTTTT
1 TCTTTTTTT
13902459 TCTTTTTTT
1 TCTTTTTTT
13902468 TCTTTTTTT
1 TCTTTTTTT
13902477 AATCTTGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:13903567 original size:23 final size:23
Alignment explanation
Indices: 13903536--13903608 Score: 92
Period size: 23 Copynumber: 3.1 Consensus size: 23
13903526 CCATGAATTG
* *
13903536 TTTATGGTTGTCAAATTTGGAGAT
1 TTTA-GGTTGTCGAATTTGGGGAT
*
13903560 TTTAGGTTGTTGAATTTGGGGAT
1 TTTAGGTTGTCGAATTTGGGGAT
* *
13903583 TTTGGGTGGTCGAATTTGGGGAT
1 TTTAGGTTGTCGAATTTGGGGAT
13903606 TTT
1 TTT
13903609 GGATAAGAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 39 0.91
24 4 0.09
ACGTcount: A:0.18, C:0.03, G:0.33, T:0.47
Consensus pattern (23 bp):
TTTAGGTTGTCGAATTTGGGGAT
Found at i:13904221 original size:20 final size:20
Alignment explanation
Indices: 13904198--13904235 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13904188 GATAATGATT
13904198 ATAATTTAAAAATAATTTTA
1 ATAATTTAAAAATAATTTTA
* *
13904218 ATAATTTTAAAATCATTT
1 ATAATTTAAAAATAATTT
13904236 GCTGACGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAATTTAAAAATAATTTTA
Found at i:13912521 original size:15 final size:17
Alignment explanation
Indices: 13912492--13912527 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
13912482 TGGTGTTTTG
13912492 TTTTCTATTTCTTAATT
1 TTTTCTATTTCTTAATT
13912509 TTTTC-ATTT-TTAATT
1 TTTTCTATTTCTTAATT
13912524 TTTT
1 TTTT
13912528 TCTTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
16 4 0.21
17 5 0.26
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTCTATTTCTTAATT
Found at i:13912535 original size:16 final size:15
Alignment explanation
Indices: 13912492--13912535 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
13912482 TGGTGTTTTG
13912492 TTTTCTATTTCTTAATT
1 TTTTCT-TTT-TTAATT
*
13912509 TTTTCATTTTTAATTT
1 TTTTCTTTTTTAA-TT
13912525 TTTTCTTTTTT
1 TTTTCTTTTTT
13912536 TTAATCTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.17
16 15 0.62
17 5 0.21
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTCTTTTTTAATT
Found at i:13912800 original size:19 final size:19
Alignment explanation
Indices: 13912772--13912824 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
13912762 AAGAAAATGA
**
13912772 TAAATTTAATTTTTTCTCT
1 TAAATTTAATTTTTTCAAT
*
13912791 TAATTTTAATTTTTT-AAT
1 TAAATTTAATTTTTTCAAT
13912809 TAAATTTAATTTTTTC
1 TAAATTTAATTTTTTC
13912825 GAGAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (19 bp):
TAAATTTAATTTTTTCAAT
Found at i:13916051 original size:19 final size:17
Alignment explanation
Indices: 13916006--13916051 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
13915996 TATATAAAAA
*
13916006 AAAAGTAAAATTATTAT
1 AAAAGTAATATTATTAT
13916023 AAAAGTAATATTATTGAT
1 AAAAGTAATATTATT-AT
13916041 AAAATGTAATA
1 AAAA-GTAATA
13916052 GACAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 14 0.54
18 6 0.23
19 6 0.23
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.35
Consensus pattern (17 bp):
AAAAGTAATATTATTAT
Found at i:13916494 original size:98 final size:98
Alignment explanation
Indices: 13916321--13916498 Score: 234
Period size: 98 Copynumber: 1.8 Consensus size: 98
13916311 AAATCTTCAT
* * *
13916321 TAGGAATGTGAGATTACAATGTTTGAAATCCAAACATAAGAATCCTATGCCTGAAACTCATATCA
1 TAGGAATGTGAGATTACAATGTTTAAAATCCAAACATAAGAATCCTATGCCGGAAACTCACATCA
*
13916386 CCTCAGGAATGTTACATTATTTGAATCAAAATA
66 CCTCAAGAATGTTACATTATTTGAATCAAAATA
* * * * *
13916419 TAGGAATGTGAGATTATAATGTTTAAAATCGAAACATACA-AA-CCTTGTGTCGGAATCTCACAT
1 TAGGAATGTGAGATTACAATGTTTAAAATCCAAACATA-AGAATCC-TATGCCGGAAACTCACAT
*
13916482 TACCTCAAGAATGTTAC
64 CACCTCAAGAATGTTAC
13916499 TTTCCATAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
97 2 0.03
98 65 0.96
99 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (98 bp):
TAGGAATGTGAGATTACAATGTTTAAAATCCAAACATAAGAATCCTATGCCGGAAACTCACATCA
CCTCAAGAATGTTACATTATTTGAATCAAAATA
Found at i:13917711 original size:18 final size:16
Alignment explanation
Indices: 13917677--13917716 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
13917667 CGGTACTAGG
*
13917677 AAAAAAGTGGCTGAGA
1 AAAAAAGTGGCTCAGA
13917693 AAAAAAGTGGCATTCAGA
1 AAAAAAGTGGC--TCAGA
13917711 AAAAAA
1 AAAAAA
13917717 TAGTGGTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.57, C:0.07, G:0.23, T:0.12
Consensus pattern (16 bp):
AAAAAAGTGGCTCAGA
Found at i:13919284 original size:25 final size:24
Alignment explanation
Indices: 13919256--13919302 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
13919246 ATTTATTCTT
* *
13919256 TGTTCTCAATTTTTTTTCTTTTTAG
1 TGTTCTC-ATTTTCTTTATTTTTAG
*
13919281 TGTTTTCATTTTCTTTATTTTT
1 TGTTCTCATTTTCTTTATTTTT
13919303 CCTCTACCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.72
Consensus pattern (24 bp):
TGTTCTCATTTTCTTTATTTTTAG
Found at i:13924594 original size:31 final size:31
Alignment explanation
Indices: 13924538--13924596 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
13924528 TTAATATCTG
*
13924538 AACTTGACACTTTTTCTTAATTTGGTACCTA
1 AACTTGACACTTTTTCTTAAGTTGGTACCTA
* * *
13924569 AACTTTACACTTTTTTTTAGGTTGGTAC
1 AACTTGACACTTTTTCTTAAGTTGGTAC
13924597 TTCAATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.47
Consensus pattern (31 bp):
AACTTGACACTTTTTCTTAAGTTGGTACCTA
Found at i:13924892 original size:62 final size:62
Alignment explanation
Indices: 13924810--13924931 Score: 163
Period size: 62 Copynumber: 2.0 Consensus size: 62
13924800 TAAATTTAAG
* * * * * *
13924810 TACCAAATTAAATCTAAAAAAAAACTTAGGTATCAAATTAGGATAAAAATATCAAGTTCAGC
1 TACCAAATTAAATCCAAAAAAAAACTTAAGTACCAAATTAGAAAAAAAATATCAAATTCAGC
** *
13924872 TACCAAATTGGATCCAAAAAAAAACTTAAGTACCAAATTAGAAAAAAAATGTCAAATTCA
1 TACCAAATTAAATCCAAAAAAAAACTTAAGTACCAAATTAGAAAAAAAATATCAAATTCA
13924932 TATATCAAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.24
Consensus pattern (62 bp):
TACCAAATTAAATCCAAAAAAAAACTTAAGTACCAAATTAGAAAAAAAATATCAAATTCAGC
Found at i:13924907 original size:30 final size:29
Alignment explanation
Indices: 13924805--13924910 Score: 88
Period size: 30 Copynumber: 3.5 Consensus size: 29
13924795 TTTAATAAAT
**
13924805 TTAAGTACCAAATTAAATCTAAAAAAAAAC
1 TTAAGTACCAAATTGGATC-AAAAAAAAAC
* * * *
13924835 TTAGGTATCAAATTAGGAT-AAAAATATCAAG
1 TTAAGTACCAAATT-GGATCAAAAA-A-AAAC
*
13924866 TTCAGCTACCAAATTGGATCCAAAAAAAAAC
1 TTAAG-TACCAAATTGGAT-CAAAAAAAAAC
13924897 TTAAGTACCAAATT
1 TTAAGTACCAAATT
13924911 AGAAAAAAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
29 5 0.09
30 22 0.38
31 17 0.29
32 9 0.16
33 5 0.09
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.25
Consensus pattern (29 bp):
TTAAGTACCAAATTGGATCAAAAAAAAAC
Found at i:13924954 original size:62 final size:62
Alignment explanation
Indices: 13924825--13924943 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 62
13924815 AATTAAATCT
* * * * * * *
13924825 AAAAAAAAACTTAGGTATCAAATTAGGATAAAAATATCAAGTTCAGCTACCAAATTGGATCC
1 AAAAAAAAACTTAAGTACCAAATTAGAAAAAAAATATCAAATTCAGATACCAAATTGGATAC
* * *
13924887 AAAAAAAAACTTAAGTACCAAATTAGAAAAAAAATGTCAAATTCATATATCAAATTG
1 AAAAAAAAACTTAAGTACCAAATTAGAAAAAAAATATCAAATTCAGATACCAAATTG
13924944 AGTAGAAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 48 1.00
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.24
Consensus pattern (62 bp):
AAAAAAAAACTTAAGTACCAAATTAGAAAAAAAATATCAAATTCAGATACCAAATTGGATAC
Found at i:13934771 original size:42 final size:41
Alignment explanation
Indices: 13934682--13934772 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 41
13934672 ACTAAATGGC
* * *
13934682 GGTTTAATTTAGGGGTTTTTTAGGATGAAAATTTTGATTTT
1 GGTTTAATTTAGGGATTTTTTAGAATGAAAATTATGATTTT
13934723 GAGTTTAATTTATGGGTATTTTTTAAGAAT-AAAATTAT-ATTTT
1 G-GTTTAATTTA-GGG-ATTTTTT-AGAATGAAAATTATGATTTT
13934766 GGTTTAA
1 GGTTTAA
13934773 AATAATTGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
41 1 0.02
42 16 0.37
43 9 0.21
44 13 0.30
45 4 0.09
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.51
Consensus pattern (41 bp):
GGTTTAATTTAGGGATTTTTTAGAATGAAAATTATGATTTT
Found at i:13934846 original size:58 final size:58
Alignment explanation
Indices: 13934718--13934850 Score: 173
Period size: 57 Copynumber: 2.3 Consensus size: 58
13934708 GAAAATTTTG
* **
13934718 ATTTTGAGTTTAATTTATGGGTATTTTTTAAGAATAAAATTATATTTTGGTTTAAAAT
1 ATTTTGAGTTTAGTTTATGAATATTTTTTAAGAATAAAATTATATTTTGGTTTAAAAT
* * *
13934776 A-ATTGAGTTTAGTTTATGAATGTTTTTTAAGAATGAAATTATA-TTTGGATTTAAAAAT
1 ATTTTGAGTTTAGTTTATGAATATTTTTTAAGAATAAAATTATATTTTGG-TTT-AAAAT
13934834 ATTTTG-GTTTAGTTTAT
1 ATTTTGAGTTTAGTTTAT
13934851 TGATGAGTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
56 5 0.08
57 39 0.60
58 18 0.28
59 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (58 bp):
ATTTTGAGTTTAGTTTATGAATATTTTTTAAGAATAAAATTATATTTTGGTTTAAAAT
Found at i:13934862 original size:58 final size:57
Alignment explanation
Indices: 13934743--13934863 Score: 149
Period size: 58 Copynumber: 2.1 Consensus size: 57
13934733 TATGGGTATT
**
13934743 TTTTAAGAATAAAATTATATTTTGGTTTAAAATAATTGAGTTTAGTTTATGAATGTT
1 TTTTAAGAATAAAATTATATTTTGGTTTAAAATAATTGAGTTTAGTTTATGAATGAG
* *
13934800 TTTTAAGAATGAAATTATA-TTTGGATTTAAAAATATTTTG-GTTTAGTTTATTG-ATGAG
1 TTTTAAGAATAAAATTATATTTTGG-TTT-AAAATA-ATTGAGTTTAGTTTA-TGAATGAG
13934858 TTTTAA
1 TTTTAA
13934864 ATATTATGAG
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
56 5 0.09
57 21 0.38
58 25 0.45
59 5 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.50
Consensus pattern (57 bp):
TTTTAAGAATAAAATTATATTTTGGTTTAAAATAATTGAGTTTAGTTTATGAATGAG
Found at i:13936577 original size:22 final size:24
Alignment explanation
Indices: 13936552--13936604 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 24
13936542 ACTATAACTA
*
13936552 TAATTATATTTTATTGT-GTTA-T
1 TAATTATATTTGATTGTCGTTATT
*
13936574 TAATTATATTTGATTGTCTTTATT
1 TAATTATATTTGATTGTCGTTATT
13936598 TAATTAT
1 TAATTAT
13936605 TTATATTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 16 0.59
23 3 0.11
24 8 0.30
ACGTcount: A:0.28, C:0.02, G:0.08, T:0.62
Consensus pattern (24 bp):
TAATTATATTTGATTGTCGTTATT
Found at i:13939264 original size:11 final size:11
Alignment explanation
Indices: 13939248--13939323 Score: 64
Period size: 11 Copynumber: 7.0 Consensus size: 11
13939238 ACCAAGTCAA
*
13939248 ACCGTTGATCG
1 ACCGTTGACCG
13939259 ACCGTTGACCG
1 ACCGTTGACCG
** **
13939270 GTCGTTG-TTG
1 ACCGTTGACCG
13939280 ACCGTTGACCG
1 ACCGTTGACCG
* *
13939291 GCGGTTGACCG
1 ACCGTTGACCG
*
13939302 ACCATTGACCG
1 ACCGTTGACCG
*
13939313 ACAGTTGACCG
1 ACCGTTGACCG
13939324 GTCGTTGACT
Statistics
Matches: 48, Mismatches: 16, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
10 6 0.12
11 42 0.88
ACGTcount: A:0.17, C:0.29, G:0.30, T:0.24
Consensus pattern (11 bp):
ACCGTTGACCG
Found at i:13939331 original size:22 final size:22
Alignment explanation
Indices: 13939279--13939332 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
13939269 GGTCGTTGTT
* *
13939279 GACCGTTGACCGGCGGTTGACC
1 GACCGTTGACCGACAGTTGACC
*
13939301 GACCATTGACCGACAGTTGACC
1 GACCGTTGACCGACAGTTGACC
**
13939323 GGTCGTTGAC
1 GACCGTTGAC
13939333 TGTTGACCGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.19, C:0.30, G:0.31, T:0.20
Consensus pattern (22 bp):
GACCGTTGACCGACAGTTGACC
Found at i:13941295 original size:36 final size:37
Alignment explanation
Indices: 13941248--13941351 Score: 158
Period size: 36 Copynumber: 2.9 Consensus size: 37
13941238 CATTCGTTAT
*
13941248 TCGTTTTACTCCCTGTTGAACC-AAAGGTCATAATGC
1 TCGTTTTACTCCCTATTGAACCTAAAGGTCATAATGC
* *
13941284 TCGTTTTACTCCCTATTG-ACCTAGAGGTCATGATGC
1 TCGTTTTACTCCCTATTGAACCTAAAGGTCATAATGC
*
13941320 TCGTTTTACTCCCTATTGACCCTAAAGGTCAT
1 TCGTTTTACTCCCTATTGAACCTAAAGGTCAT
13941352 GTCTATTACC
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
35 3 0.05
36 47 0.77
37 11 0.18
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (37 bp):
TCGTTTTACTCCCTATTGAACCTAAAGGTCATAATGC
Found at i:13944113 original size:29 final size:29
Alignment explanation
Indices: 13944078--13944160 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 29
13944068 TAATAAAAAC
* **
13944078 ATAAAAATTATTAAAAATTATAATTTTTT
1 ATAAAAATTATAAAAAATTATAAACTTTT
* * *
13944107 AATAAAAATTGTAAAAAACTGTAAACTTTT
1 -ATAAAAATTATAAAAAATTATAAACTTTT
13944137 AT-AAAATTATAAAAAAATTATAAA
1 ATAAAAATTAT-AAAAAATTATAAA
13944161 ATGCATAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
28 7 0.16
29 13 0.30
30 23 0.53
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (29 bp):
ATAAAAATTATAAAAAATTATAAACTTTT
Found at i:13944157 original size:19 final size:20
Alignment explanation
Indices: 13944135--13944173 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
13944125 CTGTAAACTT
*
13944135 TTATAAAAT-TATAAAAAAA
1 TTATAAAATGCATAAAAAAA
13944154 TTATAAAATGCATAAAAAAA
1 TTATAAAATGCATAAAAAAA
13944174 GCTTTTTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
TTATAAAATGCATAAAAAAA
Found at i:13944397 original size:20 final size:20
Alignment explanation
Indices: 13944372--13944453 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
13944362 CGAATTTATA
13944372 TTTCTTTAC-ATTTTTATAAT
1 TTTC-TTACGATTTTTATAAT
*
13944392 TTTCTTACGA-TTTTATAAA
1 TTTCTTACGATTTTTATAAT
* *
13944411 ATT-TTACAAATTTTTATAATT
1 TTTCTTAC-GATTTTTATAA-T
*
13944432 TTTTTTACGA-TTTTATAAT
1 TTTCTTACGATTTTTATAAT
13944451 TTT
1 TTT
13944454 TTCTAATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
18 4 0.08
19 19 0.37
20 21 0.41
21 3 0.06
22 4 0.08
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTCTTACGATTTTTATAAT
Found at i:13944455 original size:19 final size:19
Alignment explanation
Indices: 13944353--13944455 Score: 95
Period size: 19 Copynumber: 5.4 Consensus size: 19
13944343 ATAAGTTTAG
*
13944353 ATTTTTTTACGAATTTAT-
1 ATTTTTTTACGATTTTATA
*
13944371 ATTTCTTTAC-ATTTTTATA
1 ATTTTTTTACGA-TTTTATA
*
13944390 ATTTTCTTACGATTTTATA
1 ATTTTTTTACGATTTTATA
** *
13944409 A-AATTTTACAAATTTTTATA
1 ATTTTTTTAC-GA-TTTTATA
13944429 ATTTTTTTTACGATTTTATA
1 A-TTTTTTTACGATTTTATA
13944449 ATTTTTT
1 ATTTTTT
13944456 CTAATTTTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
17 1 0.01
18 19 0.28
19 23 0.34
20 17 0.25
21 1 0.01
22 6 0.09
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (19 bp):
ATTTTTTTACGATTTTATA
Found at i:13944462 original size:18 final size:19
Alignment explanation
Indices: 13944353--13944464 Score: 65
Period size: 20 Copynumber: 5.9 Consensus size: 19
13944343 ATAAGTTTAG
*
13944353 ATTTTTT-TACGAATTTAT-
1 ATTTTTTCTAC-ATTTTATA
*
13944371 ATTTCTT-TACATTTTTATA
1 ATTTTTTCTACA-TTTTATA
*
13944390 ATTTTCT-TACGATTTTATAA
1 ATTTTTTCTAC-ATTTTAT-A
* * *
13944410 AATTTTAC-AAATTTTTATA
1 ATTTTTTCTACA-TTTTATA
*
13944429 ATTTTTTTTACGATTTTATA
1 ATTTTTTCTAC-ATTTTATA
13944449 ATTTTTTCTA-ATTTTA
1 ATTTTTTCTACATTTTA
13944465 ATTGGAAAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 16
0.72 0.13 0.16
Matches are distributed among these distances:
17 1 0.01
18 20 0.27
19 21 0.29
20 30 0.41
21 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (19 bp):
ATTTTTTCTACATTTTATA
Found at i:13944633 original size:90 final size:92
Alignment explanation
Indices: 13944505--13944688 Score: 230
Period size: 92 Copynumber: 2.0 Consensus size: 92
13944495 TAATTGAGTG
* *** * *
13944505 AAAAAAAAGGGACTTAGTTACTTTTTTTTTTAAAGTTTGAGGGTC-TTTTT-TATGCATTTTAAA
1 AAAAAAAAGGGACTTAGTTACTTTATTTGAAAAAGTTTGAGGGCCTTTTTTCTATACATTTTAAA
*
13944568 AGTTCAAATATCTAATTGAGTGTAAAAA
66 AGTTCAAATACCTAATTGAGTG-AAAAA
* * *
13944596 AAAAAAAAGGGA-TTAGTTGCTTTATTTGAAAAAGTTTGAGGGCCTTTTTTCTATACATTTTTAC
1 AAAAAAAAGGGACTTAGTTACTTTATTTGAAAAAGTTTGAGGGCCTTTTTTCTATACATTTTAAA
* *
13944660 AGTTTAAGTACCTAATTGAGTGAAAAA
66 AGTTCAAATACCTAATTGAGTGAAAAA
13944687 AA
1 AA
13944689 TATGGGTTTA
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
90 26 0.33
91 24 0.30
92 29 0.37
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (92 bp):
AAAAAAAAGGGACTTAGTTACTTTATTTGAAAAAGTTTGAGGGCCTTTTTTCTATACATTTTAAA
AGTTCAAATACCTAATTGAGTGAAAAA
Found at i:13945348 original size:19 final size:18
Alignment explanation
Indices: 13945324--13945360 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
13945314 ATCTTATATA
*
13945324 TTTTTATAATTAAATTTAT
1 TTTTTA-AAATAAATTTAT
13945343 TTTTTAAAATAAATTTAT
1 TTTTTAAAATAAATTTAT
13945361 CATTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTAAAATAAATTTAT
Found at i:13945375 original size:18 final size:18
Alignment explanation
Indices: 13945326--13945375 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
13945316 CTTATATATT
**
13945326 TTTATAATTAAATTTATTT
1 TTTA-AATTAAATTTATCA
*
13945345 TTTAAAATAAATTTATCA
1 TTTAAATTAAATTTATCA
*
13945363 TTTAAATTGAATT
1 TTTAAATTAAATT
13945376 CAGGTTGAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
TTTAAATTAAATTTATCA
Found at i:13948063 original size:25 final size:25
Alignment explanation
Indices: 13948018--13948066 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
13948008 CAAAAAGTTT
*
13948018 TAATCTTTTATATATTTGTTTACTG
1 TAATCTTTTATATATTCGTTTACTG
*
13948043 TAATTTTTTATA-ATTACGTTTACT
1 TAATCTTTTATATATT-CGTTTACT
13948067 AAAAAAGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.59
Consensus pattern (25 bp):
TAATCTTTTATATATTCGTTTACTG
Found at i:13955227 original size:26 final size:25
Alignment explanation
Indices: 13955193--13955252 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
13955183 ATTATTATTA
*
13955193 TTTTATTTTCCCTCCTTATTTTCCCT
1 TTTTCTTTTCCCTCCTTATTTT-CCT
** *
13955219 TTTTCTTTTCTTTCCTTATTTTTCT
1 TTTTCTTTTCCCTCCTTATTTTCCT
13955244 TTTTCTTTT
1 TTTTCTTTT
13955253 TTCTGAGCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 11 0.37
26 19 0.63
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTTCTTTTCCCTCCTTATTTTCCT
Found at i:13962108 original size:12 final size:12
Alignment explanation
Indices: 13962091--13962116 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13962081 CTACTTGTGT
13962091 AACGCCCTAAAA
1 AACGCCCTAAAA
13962103 AACGCCCTAAAA
1 AACGCCCTAAAA
13962115 AA
1 AA
13962117 TTTTGAGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.31, G:0.08, T:0.08
Consensus pattern (12 bp):
AACGCCCTAAAA
Found at i:13965464 original size:30 final size:30
Alignment explanation
Indices: 13965398--13965465 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
13965388 AATTAATAAC
* *
13965398 ACAATAAAAAATATAATTATAGTATTAAAT
1 ACAATAAAAAATATAATCATAGTAATAAAT
* *
13965428 AAAATAAACAATATAATCATAGTAAT-AAT
1 ACAATAAAAAATATAATCATAGTAATAAAT
13965457 GACAATAAA
1 -ACAATAAA
13965466 TATTAATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 3 0.09
30 29 0.91
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (30 bp):
ACAATAAAAAATATAATCATAGTAATAAAT
Found at i:13966375 original size:47 final size:47
Alignment explanation
Indices: 13966306--13966397 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
13966296 TTAGAAATCC
*
13966306 AGTATGCCCCTCAGATAATGAATGAGGCCGCCCATACATTTGCAGCG
1 AGTATGCCCCTCAGATAATGAATGAGGCCGCCCATACACTTGCAGCG
*
13966353 AGTATGCCCCTCGGATAATGAATGAGGCCGCCCATACACTTGCAG
1 AGTATGCCCCTCAGATAATGAATGAGGCCGCCCATACACTTGCAG
13966398 TGAGAGGGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (47 bp):
AGTATGCCCCTCAGATAATGAATGAGGCCGCCCATACACTTGCAGCG
Found at i:13966963 original size:25 final size:25
Alignment explanation
Indices: 13966918--13966972 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
13966908 ACAAGATAAT
*
13966918 AATAATAAATGTAAATTAAATAAAA
1 AATAATAAATGTAAATAAAATAAAA
* *
13966943 AATAATAAATG-ACATCAAAATAAAT
1 AATAATAAATGTAAAT-AAAATAAAA
13966968 AATAA
1 AATAA
13966973 CAAGATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (25 bp):
AATAATAAATGTAAATAAAATAAAA
Found at i:13966995 original size:13 final size:13
Alignment explanation
Indices: 13966961--13967048 Score: 56
Period size: 13 Copynumber: 6.8 Consensus size: 13
13966951 ATGACATCAA
13966961 AATAAATAAT-AAC
1 AATAAA-AATAAAC
* *
13966974 AAGATAAATAAAC
1 AATAAAAATAAAC
* *
13966987 AAAAAAAATGAA-
1 AATAAAAATAAAC
* *
13966999 AATAAAATTAAAT
1 AATAAAAATAAAC
**
13967012 GCT-AAAATAAAC
1 AATAAAAATAAAC
*
13967024 AAATAAATATAAAC
1 -AATAAAAATAAAC
13967038 AATAAAAATAA
1 AATAAAAATAA
13967049 TTGAGATTAG
Statistics
Matches: 55, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
12 19 0.35
13 28 0.51
14 8 0.15
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (13 bp):
AATAAAAATAAAC
Found at i:13967400 original size:27 final size:26
Alignment explanation
Indices: 13967349--13967399 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
13967339 TTGCTTTGAA
* *
13967349 TTTTTTTTGAATGTATGTCTCAAAAT
1 TTTTTTTTGAATGTATGTATAAAAAT
13967375 TTTTTTTCTGAATGT-TGTATAAAAA
1 TTTTTTT-TGAATGTATGTATAAAAA
13967400 AAATCTCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (26 bp):
TTTTTTTTGAATGTATGTATAAAAAT
Found at i:13967459 original size:23 final size:23
Alignment explanation
Indices: 13967429--13967472 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
13967419 CAAAAAATTT
* *
13967429 CTCTCTGAACAAAATAAATCCTC
1 CTCTCTGAAAAAAAAAAATCCTC
13967452 CTCTCTGAAAAAAAAAAATCC
1 CTCTCTGAAAAAAAAAAATCC
13967473 CCTTTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.27, G:0.05, T:0.23
Consensus pattern (23 bp):
CTCTCTGAAAAAAAAAAATCCTC
Found at i:13967698 original size:23 final size:22
Alignment explanation
Indices: 13967665--13967715 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
13967655 TTTTATTTGA
13967665 TAAAATA-TTTTGATATAACAAAT
1 TAAAATATTTTTGA-AT-ACAAAT
* *
13967688 TAAAATGTTTTTGAATACAAGT
1 TAAAATATTTTTGAATACAAAT
13967710 TAAAAT
1 TAAAAT
13967716 TGATAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.44
23 8 0.32
24 6 0.24
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (22 bp):
TAAAATATTTTTGAATACAAAT
Found at i:13967712 original size:22 final size:24
Alignment explanation
Indices: 13967672--13967715 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
13967662 TGATAAAATA
13967672 TTTTGATATAACAAATTAAAATGT
1 TTTTGATATAACAAATTAAAATGT
*
13967696 TTTTGA-AT-ACAAGTTAAAAT
1 TTTTGATATAACAAATTAAAAT
13967716 TGATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAATGT
Found at i:13977985 original size:36 final size:36
Alignment explanation
Indices: 13977879--13978096 Score: 139
Period size: 36 Copynumber: 6.1 Consensus size: 36
13977869 TAATAAAAAA
* *
13977879 AAAT-TTGCTTTAGAC-GTGTCTATCCCAACCTTTTT
1 AAATGTTGCTTTAGACAG-GTTTATCTCAACCTTTTT
* * * * *
13977914 -AAGGTTGCCTTAGACGGGTTTATCCCAATCTTTTTT
1 AAATGTTGCTTTAGACAGGTTTATCTCAA-CCTTTTT
*
13977950 AAATGTTGCTTTAGACAATGTTTATCTCAA-CTTTTT
1 AAATGTTGCTTTAGAC-AGGTTTATCTCAACCTTTTT
* * * *
13977986 TAATGTTGTTTTAGAC--GTTCTATTTCAACATTTTTT
1 AAATGTTGCTTTAGACAGGTT-TATCTCAAC-CTTTTT
*
13978022 AAAGGTTG-TCTTAGACAAGGTTTATCTCAACCTTTTT
1 AAATGTTGCT-TTAGAC-AGGTTTATCTCAACCTTTTT
* * * * *
13978059 -AAGGTTG-TCTTAGACGGGTCTATCCCAACCTATTT
1 AAATGTTGCT-TTAGACAGGTTTATCTCAACCTTTTT
13978094 AAA
1 AAA
13978097 GTTCGGCTTA
Statistics
Matches: 148, Mismatches: 22, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
33 3 0.02
34 9 0.06
35 37 0.25
36 60 0.41
37 18 0.12
38 18 0.12
39 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (36 bp):
AAATGTTGCTTTAGACAGGTTTATCTCAACCTTTTT
Found at i:13978095 original size:72 final size:72
Alignment explanation
Indices: 13977883--13978097 Score: 240
Period size: 72 Copynumber: 3.0 Consensus size: 72
13977873 AAAAAAAAAT
* * * *
13977883 TTGCTTTAGAC--GTGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTTTATCCCAATCTT
1 TTGCTTTAGACAAG-GTTTATCTCAACCTTTTTAAGGTTGTCTTAGACGGGTCTATCCCAA-CTT
*
13977946 TTTTAAATG
64 TTTTAAAGG
* * * * * **
13977955 TTGCTTTAGACAATGTTTATCTCAACTTTTTTAATGTTGTTTTAGAC-GTTCTATTTCAACATTT
1 TTGCTTTAGACAAGGTTTATCTCAACCTTTTTAAGGTTGTCTTAGACGGGTCTATCCCAAC-TTT
13978019 TTTAAAGG
65 TTTAAAGG
* *
13978027 TTG-TCTTAGACAAGGTTTATCTCAACCTTTTTAAGGTTGTCTTAGACGGGTCTATCCCAACCTA
1 TTGCT-TTAGACAAGGTTTATCTCAACCTTTTTAAGGTTGTCTTAGACGGGTCTATCCCAACTTT
13978091 TTTAAAG
65 TTTAAAG
13978098 TTCGGCTTAT
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
71 2 0.02
72 78 0.67
73 37 0.32
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.43
Consensus pattern (72 bp):
TTGCTTTAGACAAGGTTTATCTCAACCTTTTTAAGGTTGTCTTAGACGGGTCTATCCCAACTTTT
TTAAAGG
Found at i:13980135 original size:165 final size:165
Alignment explanation
Indices: 13979863--13980193 Score: 662
Period size: 165 Copynumber: 2.0 Consensus size: 165
13979853 ACGTTAGGGC
13979863 ATGGTTTTTTCGAGGTTTCCACACAAAAAGAGCATTGCCTCGGTTTTAAAGGTTTATTTGTATGT
1 ATGGTTTTTTCGAGGTTTCCACACAAAAAGAGCATTGCCTCGGTTTTAAAGGTTTATTTGTATGT
13979928 AAAAGTAATTTTAAAAATGAACATGCAAATTAAATATGGATAATTAATAACGGAGATAAAAAAAT
66 AAAAGTAATTTTAAAAATGAACATGCAAATTAAATATGGATAATTAATAACGGAGATAAAAAAAT
13979993 AGCACGAAATAAATTAACTAAGCAGATAAATAAAT
131 AGCACGAAATAAATTAACTAAGCAGATAAATAAAT
13980028 ATGGTTTTTTCGAGGTTTCCACACAAAAAGAGCATTGCCTCGGTTTTAAAGGTTTATTTGTATGT
1 ATGGTTTTTTCGAGGTTTCCACACAAAAAGAGCATTGCCTCGGTTTTAAAGGTTTATTTGTATGT
13980093 AAAAGTAATTTTAAAAATGAACATGCAAATTAAATATGGATAATTAATAACGGAGATAAAAAAAT
66 AAAAGTAATTTTAAAAATGAACATGCAAATTAAATATGGATAATTAATAACGGAGATAAAAAAAT
13980158 AGCACGAAATAAATTAACTAAGCAGATAAATAAAT
131 AGCACGAAATAAATTAACTAAGCAGATAAATAAAT
13980193 A
1 A
13980194 CGCAAAAATA
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
165 166 1.00
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (165 bp):
ATGGTTTTTTCGAGGTTTCCACACAAAAAGAGCATTGCCTCGGTTTTAAAGGTTTATTTGTATGT
AAAAGTAATTTTAAAAATGAACATGCAAATTAAATATGGATAATTAATAACGGAGATAAAAAAAT
AGCACGAAATAAATTAACTAAGCAGATAAATAAAT
Found at i:13980416 original size:33 final size:30
Alignment explanation
Indices: 13980376--13980523 Score: 110
Period size: 29 Copynumber: 4.8 Consensus size: 30
13980366 TCAGATGTTC
13980376 GGGGTAAAAATGTAATTTTTGGAAGCTGAA
1 GGGGTAAAAATGTAATTTTTGGAAGCTGAA
* * *
13980406 GGGGGGGT-AAAATGGTAATTTTTGAAAGTTTAA
1 ---GGGGTAAAAAT-GTAATTTTTGGAAGCTGAA
**
13980439 -GGGTAAAAATGTAATTTTTGGAAAG-TTCA
1 GGGGTAAAAATGTAATTTTTGG-AAGCTGAA
* *
13980468 GGGGCAAAAAATGTAATTTTTAGGAAGTTTG-A
1 GGGG-TAAAAATGTAATTTTT-GGAAG-CTGAA
13980500 GGGG--AAAATGTAATTTTTGTGAAG
1 GGGGTAAAAATGTAATTTTTG-GAAG
13980524 TTTAGAGGTT
Statistics
Matches: 99, Mismatches: 7, Indels: 22
0.77 0.05 0.17
Matches are distributed among these distances:
28 1 0.01
29 35 0.35
30 11 0.11
31 18 0.18
32 12 0.12
33 22 0.22
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.32
Consensus pattern (30 bp):
GGGGTAAAAATGTAATTTTTGGAAGCTGAA
Found at i:13980479 original size:61 final size:60
Alignment explanation
Indices: 13980377--13980651 Score: 218
Period size: 61 Copynumber: 4.5 Consensus size: 60
13980367 CAGATGTTCG
** *
13980377 GGGTAAAAATGTAATTTTTGG-AAGCTGAAGGGGGGGTAAAATGGTAATTTTT-GAAAGTTTAA
1 GGGTAAAAATGTAATTTTTGGAAAG-TTCA--GGGGTTAAAAT-GTAATTTTTAGAAAGTTTAA
** * *
13980439 GGGTAAAAATGTAATTTTTGGAAAGTTCAGGGGCAAAAAATGTAATTTTTAGGAAGTTTGA
1 GGGTAAAAATGTAATTTTTGGAAAGTTCAGGGG-TTAAAATGTAATTTTTAGAAAGTTTAA
* * * * * *
13980500 GGG-GAAAATGTAATTTTTGTG-AAGTTTAGAGGTTAAAATGTGA-TTTTGGAAAAGTTTAG
1 GGGTAAAAATGTAATTTTTG-GAAAGTTCAGGGGTTAAAATGTAATTTTTAG-AAAGTTTAA
* * * * * * * *
13980559 GGGTTAAAATATGATTTTTGGAAAATTTAGAGGGTTAAAATATAATTTTTGGAAAGTTTGA
1 GGGTAAAAATGTAATTTTTGGAAAGTTCAG-GGGTTAAAATGTAATTTTTAGAAAGTTTAA
* * * *
13980620 GGGTCAAAACGTGATTTTTGGAAAATTCAGGG
1 GGGTAAAAATGTAATTTTTGGAAAGTTCAGGG
13980652 ACCTTTTGGA
Statistics
Matches: 175, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
58 5 0.03
59 18 0.10
60 59 0.34
61 61 0.35
62 29 0.17
63 3 0.02
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.35
Consensus pattern (60 bp):
GGGTAAAAATGTAATTTTTGGAAAGTTCAGGGGTTAAAATGTAATTTTTAGAAAGTTTAA
Found at i:13980481 original size:31 final size:30
Alignment explanation
Indices: 13980376--13980643 Score: 212
Period size: 30 Copynumber: 8.8 Consensus size: 30
13980366 TCAGATGTTC
**
13980376 GGGGTAAAAATGTAATTTTTGG-AAGCTGAA
1 GGGGTAAAAATGTAATTTTTGGAAAG-TTTA
13980406 GGGGGGGT-AAAATGGTAATTTTT-GAAAGTTTA
1 ---GGGGTAAAAAT-GTAATTTTTGGAAAGTTTA
* *
13980438 AGGGTAAAAATGTAATTTTTGGAAAGTTCA
1 GGGGTAAAAATGTAATTTTTGGAAAGTTTA
*
13980468 GGGGCAAAAAATGTAATTTTTAGG-AAGTTTGA
1 GGGG-TAAAAATGTAATTTTT-GGAAAGTTT-A
13980500 GGGG--AAAATGTAATTTTTGTG-AAGTTTA
1 GGGGTAAAAATGTAATTTTTG-GAAAGTTTA
* * *
13980528 GAGGTTAAAATGTGA-TTTTGGAAAAGTTTA
1 GGGGTAAAAATGTAATTTTTGG-AAAGTTTA
* * * *
13980558 GGGGTTAAAATATGATTTTTGGAAAATTTA
1 GGGGTAAAAATGTAATTTTTGGAAAGTTTA
* *
13980588 GAGGGTTAAAATATAATTTTTGGAAAGTTT-
1 G-GGGTAAAAATGTAATTTTTGGAAAGTTTA
* * *
13980618 GAGGGTCAAAACGTGATTTTTGGAAA
1 G-GGGTAAAAATGTAATTTTTGGAAA
13980644 ATTCAGGGAC
Statistics
Matches: 203, Mismatches: 18, Indels: 31
0.81 0.07 0.12
Matches are distributed among these distances:
28 6 0.03
29 39 0.19
30 74 0.36
31 52 0.26
32 15 0.07
33 17 0.08
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.35
Consensus pattern (30 bp):
GGGGTAAAAATGTAATTTTTGGAAAGTTTA
Found at i:13982477 original size:10 final size:10
Alignment explanation
Indices: 13982464--13982494 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
13982454 TAAATAGATT
13982464 TAAATTCAAA
1 TAAATTCAAA
13982474 TAAATTCAAA
1 TAAATTCAAA
*
13982484 TAAATTTAAA
1 TAAATTCAAA
13982494 T
1 T
13982495 TTAAAATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (10 bp):
TAAATTCAAA
Found at i:13982503 original size:17 final size:17
Alignment explanation
Indices: 13982481--13982594 Score: 138
Period size: 17 Copynumber: 6.6 Consensus size: 17
13982471 AAATAAATTC
13982481 AAATAAATTTAAATTTA
1 AAATAAATTTAAATTTA
* *
13982498 AAATAACTTTTGAATTTA
1 AAATAA-ATTTAAATTTA
* *
13982516 AAATAAATTTAAACTTG
1 AAATAAATTTAAATTTA
**
13982533 ATTTAAATTTAAATTTTA
1 AAATAAATTTAAA-TTTA
*
13982551 AAATAAATTTAAACTTA
1 AAATAAATTTAAATTTA
*
13982568 AAACAAATTTAAATTTA
1 AAATAAATTTAAATTTA
13982585 AAATAAATTT
1 AAATAAATTT
13982595 CAAAATGAGT
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
17 51 0.65
18 28 0.35
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (17 bp):
AAATAAATTTAAATTTA
Found at i:13982526 original size:11 final size:11
Alignment explanation
Indices: 13982510--13982600 Score: 58
Period size: 11 Copynumber: 7.9 Consensus size: 11
13982500 ATAACTTTTG
13982510 AATTTAAAATA
1 AATTTAAAATA
* *
13982521 AATTTAAACTT
1 AATTTAAAATA
* *
13982532 GATTTAAATTTA
1 AATTTAAA-ATA
13982544 AATTTTAAAATA
1 AA-TTTAAAATA
*
13982556 AATTTAAACTTA
1 AATTTAAA-ATA
** *
13982568 AA-ACAAATTTA
1 AATTTAAA-ATA
13982579 AATTTAAAATA
1 AATTTAAAATA
13982590 AATTTCAAAAT
1 AATTT-AAAAT
13982601 GAGTTTAGCT
Statistics
Matches: 61, Mismatches: 14, Indels: 9
0.73 0.17 0.11
Matches are distributed among these distances:
11 37 0.61
12 18 0.30
13 6 0.10
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (11 bp):
AATTTAAAATA
Found at i:13982526 original size:35 final size:34
Alignment explanation
Indices: 13982481--13982594 Score: 147
Period size: 35 Copynumber: 3.3 Consensus size: 34
13982471 AAATAAATTC
* * *
13982481 AAATAAATTTAAATTTAAAATAACTTTTGAATTTA
1 AAATAAATTTAAACTTAAAATAA-ATTTAAATTTA
* **
13982516 AAATAAATTTAAACTTGATTTAAATTTAAATTTTA
1 AAATAAATTTAAACTTAAAATAAATTTAAA-TTTA
*
13982551 AAATAAATTTAAACTTAAAACAAATTTAAATTTA
1 AAATAAATTTAAACTTAAAATAAATTTAAATTTA
13982585 AAATAAATTT
1 AAATAAATTT
13982595 CAAAATGAGT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
34 19 0.28
35 49 0.72
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (34 bp):
AAATAAATTTAAACTTAAAATAAATTTAAATTTA
Found at i:13982588 original size:7 final size:6
Alignment explanation
Indices: 13982446--13982586 Score: 70
Period size: 6 Copynumber: 25.0 Consensus size: 6
13982436 ACTTATTTAT
* * *
13982446 TTTAAA TTTAAA --TAGA TTTAAA TTCAAA --TAAA TTCAAA --TAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * * *
13982488 TTTAAA TTTAAA -ATAACT TTTGAA TTTAAA -ATAAA TTTAAA CTT-GA
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * **
13982534 TTTAAA TTTAAA TTTTAAA -ATAAA TTTAAA CTTAAA -ACAAA TTTAAA
1 TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
13982581 TTTAAA
1 TTTAAA
13982587 ATAAATTTCA
Statistics
Matches: 97, Mismatches: 25, Indels: 26
0.66 0.17 0.18
Matches are distributed among these distances:
4 9 0.09
5 17 0.18
6 63 0.65
7 8 0.08
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:13982592 original size:52 final size:52
Alignment explanation
Indices: 13982481--13982594 Score: 140
Period size: 52 Copynumber: 2.2 Consensus size: 52
13982471 AAATAAATTC
* * * * *
13982481 AAATAAATTTAAATTTAAAATAACTTTTGAATTTAAAATAAATTTAAACTTG
1 AAATAAATTTAAATTTAAAATAACATTTAAACTTAAAACAAATTTAAACTTA
** *
13982533 ATTTAAATTTAAATTTTAAAATAA-ATTTAAACTTAAAACAAATTTAAATTTA
1 AAATAAATTTAAA-TTTAAAATAACATTTAAACTTAAAACAAATTTAAACTTA
13982585 AAATAAATTT
1 AAATAAATTT
13982595 CAAAATGAGT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
52 41 0.80
53 10 0.20
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (52 bp):
AAATAAATTTAAATTTAAAATAACATTTAAACTTAAAACAAATTTAAACTTA
Found at i:13983422 original size:209 final size:209
Alignment explanation
Indices: 13982967--13983740 Score: 1028
Period size: 209 Copynumber: 3.7 Consensus size: 209
13982957 TCTTGATCTT
* * *
13982967 CTTCTCTGTATCTCATCAGGAAGATGACAATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGACGACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATC
** * * *
13983032 AGGAAGCTGGGGTTCGAAGTTTCACTCACATCGAGTGTTGGTTTCATTGATTTAGTCTTCTTCTC
66 AGGAAGCTGGGGTTCGAAGTTTTGCTCACATTGAG-CTTGGTTTCATTGATTTAGTCTACTTCTC
* * * *
13983097 AGTATCTCATCAGGAAGATTATCGTATCACCTATTCCGATCTGCTTCTCTGTATCTTATCAGGAA
130 AGTATCTCATCAGGAAGATTACCGCATCACCTATTTCGATCCGCTTCTCTGTATCTTATCAGGAA
*
13983162 GATGGATTTGG-TCTA
195 GACGGATTTGGTTC-A
* * *
13983177 CTTCTCTGTATCTCATTAGGAAGACGACCATTTTATTGCTTCAACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGACGACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATC
* * * * *
13983242 AGGAAGTTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTTATTGATTTAGTCTACTTCTCA
66 AGGAAGCTGGGGTTCGAAGTTTTGCTCACATTGAGCTTGGTTTCATTGATTTAGTCTACTTCTCA
* * * * * * * * * *
13983307 GTATCTCATCAGAAAGATAACCGCATCACTTCTTTTGATCCACATCTCTGTGTCTCATCAAGAAG
131 GTATCTCATCAGGAAGATTACCGCATCACCTATTTCGATCCGCTTCTCTGTATCTTATCAGGAAG
*
13983372 ACGGATCTGGTTCA
196 ACGGATTTGGTTCA
*** * * *
13983386 CTTCTCTGTATCTCATCAGGAAGGTAACCGTTTTATTACTTCGACCTACTTCTCAGTATCTTATC
1 CTTCTCTGTATCTCATCAGGAAGACGACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATC
* * * * *
13983451 AGGAAGCTGGGGCTAGAAGTTTTGCTCACATTGAGCTTTGTTTCATTGATTTGGTCTTCTTCTCA
66 AGGAAGCTGGGGTTCGAAGTTTTGCTCACATTGAGCTTGGTTTCATTGATTTAGTCTACTTCTCA
13983516 GTATCTCATCAGGAAGATTACCGCATCACCTATTTCGATCCGCTTCTCTGTATCTTATCAGGAAG
131 GTATCTCATCAGGAAGATTACCGCATCACCTATTTCGATCCGCTTCTCTGTATCTTATCAGGAAG
*
13983581 ACGGATTTGGTCCA
196 ACGGATTTGGTTCA
* * * *
13983595 CTTCTTTATATCTCATCAGGAAGACGACCATTGTATTACTTTGACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGACGACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATC
* * * * * * *
13983660 AGGAAGCTTGGGTTCGTAGTTTTGCTCACATTGAGCTTTGTTTCATTGAGTTGGTATACTTCTCT
66 AGGAAGCTGGGGTTCGAAGTTTTGCTCACATTGAGCTTGGTTTCATTGATTTAGTCTACTTCTCA
13983725 GTATCTCATCAGGAAG
131 GTATCTCATCAGGAAG
13983741 CTTGGGTTCG
Statistics
Matches: 484, Mismatches: 79, Indels: 3
0.86 0.14 0.01
Matches are distributed among these distances:
209 392 0.81
210 92 0.19
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (209 bp):
CTTCTCTGTATCTCATCAGGAAGACGACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATC
AGGAAGCTGGGGTTCGAAGTTTTGCTCACATTGAGCTTGGTTTCATTGATTTAGTCTACTTCTCA
GTATCTCATCAGGAAGATTACCGCATCACCTATTTCGATCCGCTTCTCTGTATCTTATCAGGAAG
ACGGATTTGGTTCA
Found at i:13983766 original size:75 final size:75
Alignment explanation
Indices: 13983643--13983815 Score: 337
Period size: 75 Copynumber: 2.3 Consensus size: 75
13983633 CTTTGACCTG
*
13983643 CTTCTCAGTATCTCATCAGGAAGCTTGGGTTCGTAGTTTTGCTCACATTGAGCTTTGTTTCATTG
1 CTTCTCTGTATCTCATCAGGAAGCTTGGGTTCGTAGTTTTGCTCACATTGAGCTTTGTTTCATTG
13983708 AGTTGGTATA
66 AGTTGGTATA
13983718 CTTCTCTGTATCTCATCAGGAAGCTTGGGTTCGTAGTTTTGCTCACATTGAGCTTTGTTTCATTG
1 CTTCTCTGTATCTCATCAGGAAGCTTGGGTTCGTAGTTTTGCTCACATTGAGCTTTGTTTCATTG
13983783 AGTTGGTATA
66 AGTTGGTATA
13983793 CTTCTCTGTATCTCATCAGGAAG
1 CTTCTCTGTATCTCATCAGGAAG
13983816 ATGGCCGCCT
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 97 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (75 bp):
CTTCTCTGTATCTCATCAGGAAGCTTGGGTTCGTAGTTTTGCTCACATTGAGCTTTGTTTCATTG
AGTTGGTATA
Found at i:13984063 original size:39 final size:39
Alignment explanation
Indices: 13983980--13984068 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
13983970 CCCAGGTTTG
* * *
13983980 GGGTAAAAGATCAGATGGCTGCAACCTGCCTCATGCTCA
1 GGGTAAAAGATCAGATGACTGCAACCTACCTCAAGCTCA
* *
13984019 GGGTAAAAGATCGGATGACTGCAATCTA-CTCCAAGCTCTA
1 GGGTAAAAGATCAGATGACTGCAACCTACCT-CAAGCTC-A
13984059 -GGTAAAAGAT
1 GGGTAAAAGAT
13984069 TGGCTAATGG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
38 2 0.05
39 40 0.93
40 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (39 bp):
GGGTAAAAGATCAGATGACTGCAACCTACCTCAAGCTCA
Found at i:13984472 original size:98 final size:100
Alignment explanation
Indices: 13984354--13984549 Score: 270
Period size: 100 Copynumber: 2.0 Consensus size: 100
13984344 TTGTTTCCTA
* * * *
13984354 AGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACAT-TTC-ATGGTACTGGATTCGC
1 AGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCAC
* * * *
13984417 CGTTGCGGCCTCAATCTTTCCCATCACATCTTTTG
66 CGTCGCGACCTCAATCCTTCCCATCAAATCTTTTG
* **
13984452 AGGTACCAGGTTCGTCGTTGCGGCCTCAACCTTTCCTGTCACATCTTCTAAGGTACCGGATTCAC
1 AGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCAC
*
13984517 CGTCGCGACCTCAATCCTTCCCTTCAAATCTTT
66 CGTCGCGACCTCAATCCTTCCCATCAAATCTTT
13984550 ATGCGGTAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 40 0.48
99 3 0.04
100 41 0.49
ACGTcount: A:0.17, C:0.33, G:0.19, T:0.31
Consensus pattern (100 bp):
AGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCAC
CGTCGCGACCTCAATCCTTCCCATCAAATCTTTTG
Found at i:13984478 original size:50 final size:50
Alignment explanation
Indices: 13984352--13984549 Score: 215
Period size: 50 Copynumber: 4.0 Consensus size: 50
13984342 TCTTGTTTCC
*
13984352 TAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACA--TTT
1 TAAGGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTT
* * * *
13984400 CATGGTACTGGATTCGCCGTTGCGGCCTCAATCTTTCCCATCACATCTTT
1 TAAGGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTT
* * ** *
13984450 TGAGGTACCAGG-TTCGTCGTTGCGGCCTCAACCTTTCCTGTCACATCTTC
1 TAAGGTACC-GGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTT
* * * * *
13984500 TAAGGTACCGGATTCACCGTCGCGACCTCAATCC-TTCCCTTCAAATCTTT
1 TAAGGTACCGGATTCGCCGTTGCGGCCTCAA-CCTTTCCCATCACATCTTT
13984550 ATGCGGTAAT
Statistics
Matches: 122, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
48 40 0.33
49 2 0.02
50 76 0.62
51 4 0.03
ACGTcount: A:0.17, C:0.33, G:0.19, T:0.31
Consensus pattern (50 bp):
TAAGGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTT
Found at i:13985464 original size:7 final size:7
Alignment explanation
Indices: 13985452--13985494 Score: 59
Period size: 7 Copynumber: 5.9 Consensus size: 7
13985442 TTCCCCCCTT
13985452 TTTTTTC
1 TTTTTTC
13985459 TTTTTTC
1 TTTTTTC
*
13985466 TTTTTCC
1 TTTTTTC
13985473 TTTTTTC
1 TTTTTTC
13985480 TTTCTTTTC
1 -TT-TTTTC
13985489 TTTTTT
1 TTTTTT
13985495 ATTTATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 23 0.72
8 4 0.12
9 5 0.16
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:13985506 original size:23 final size:22
Alignment explanation
Indices: 13985450--13985508 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
13985440 TCTTCCCCCC
* *
13985450 TTTTTTTTCTTTTTTCTTTTTCC
1 TTTTTTTT-TCTTTTCTTTTTCA
*
13985473 TTTTTTCTTTCTTTTCTTTTTTA
1 TTTTTT-TTTCTTTTCTTTTTCA
13985496 TTTATTTTTTCTT
1 TTT-TTTTTTCTT
13985509 CATTGAATCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 26 0.84
24 5 0.16
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTTTTTCTTTTCTTTTTCA
Found at i:13990492 original size:29 final size:29
Alignment explanation
Indices: 13990459--13990578 Score: 104
Period size: 28 Copynumber: 4.2 Consensus size: 29
13990449 TCAAAAATGC
*
13990459 AATTTTTGAATGCTTGGGGGCAAAATGGT
1 AATTTTTGAATGCTCGGGGGCAAAATGGT
* **
13990488 AATTTTTG-GTG-TACGGGGATAAAATGGT
1 AATTTTTGAATGCT-CGGGGGCAAAATGGT
*
13990516 AATTTTTGACA--CTCGGGAGCAAAATGGT
1 AATTTTTGA-ATGCTCGGGGGCAAAATGGT
* ** * *
13990544 AATTTTTGGACACTCGAGGGTAAAATGGT
1 AATTTTTGAATGCTCGGGGGCAAAATGGT
13990573 AATTTT
1 AATTTT
13990579 CAGATGTTCG
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
27 2 0.03
28 42 0.58
29 29 0.40
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (29 bp):
AATTTTTGAATGCTCGGGGGCAAAATGGT
Found at i:13990597 original size:29 final size:28
Alignment explanation
Indices: 13990474--13990578 Score: 113
Period size: 28 Copynumber: 3.7 Consensus size: 28
13990464 TTGAATGCTT
* ***
13990474 GGGGGCAAAATGGTAATTTTTG-GTGTAC
1 GGGGGTAAAATGGTAATTTTTGACACT-C
*
13990502 GGGGATAAAATGGTAATTTTTGACACTC
1 GGGGGTAAAATGGTAATTTTTGACACTC
* *
13990530 GGGAGCAAAATGGTAATTTTTGGACACTC
1 GGGGGTAAAATGGTAATTTTT-GACACTC
*
13990559 GAGGGTAAAATGGTAATTTT
1 GGGGGTAAAATGGTAATTTT
13990579 CAGATGTTCG
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
28 39 0.61
29 25 0.39
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.31
Consensus pattern (28 bp):
GGGGGTAAAATGGTAATTTTTGACACTC
Found at i:13990646 original size:58 final size:55
Alignment explanation
Indices: 13990507--13990934 Score: 236
Period size: 58 Copynumber: 7.3 Consensus size: 55
13990497 TGTACGGGGA
* * * * * *
13990507 TAAAATGGTAATTTTTGACA-CTCGGGAGCAAAATGGTAATTTTTGGACACTCGAGGG
1 TAAAATGGTAATTTTGGA-AGTTCGGGGGAAAAAT-GTAATTTTTGGA-AGTTGAGGG
* * *
13990564 TAAAATGGTAATTTTCAGATGTTCGGGGGTAAAAATGTATTTTTTGGAAGCTTGAGAGG
1 TAAAATGGTAATTTT-GGAAGTTCGGGGG-AAAAATGTAATTTTTGGAAG-TTGAG-GG
* * ** * * *
13990623 -AAAATTGGTAATTTTGTAAGTTCGGGAGCAAAACGGTAATTTTTAGAAAATTCAGGG
1 TAAAA-TGGTAATTTTGGAAGTTCGGG-GGAAAAATGTAATTTTT-GGAAGTTGAGGG
* * * *
13990680 TCAAAAATGATATTTTTGGAAGTTC-GGAGACAAAATGTGATTTTTTGGAAGTTCGAGGG
1 T--AAAATGGTAATTTTGGAAGTTCGGGGGA-AAAATGT-AATTTTTGGAAGTT-GAGGG
* * *
13990739 TAAAATGGTAATTTTCGGAAGTTTGGGGGCAAAATGTGATTTTTGGAAGTTTGAGGG
1 TAAAATGGTAATTTT-GGAAGTTCGGGGGAAAAATGTAATTTTTGGAAG-TTGAGGG
** * * * * *
13990796 TAAAATGGTAATTTTTAAAAGTTTGAGGGTAAAAATGCAATTTTTGAAAAGTTTAGGGG
1 TAAAATGGTAA-TTTTGGAAGTTCG-GGGGAAAAATGTAATTTTTG-GAAGTTGA-GGG
** * * *
13990855 TAAAAAT-GTAATTTTTTGTGAAGTTCTAAGGCAAAAATATAATTTTTGTGAAGTTTAGAGGT
1 T-AAAATGGTAA--TTTTG-GAAGTTC-GGGGGAAAAATGTAATTTTTG-GAAG-TT-GAGGG
*
13990917 TAAAAT-GTGATTTTGGAA
1 TAAAATGGTAATTTTGGAA
13990935 AAATTTAGGG
Statistics
Matches: 287, Mismatches: 57, Indels: 53
0.72 0.14 0.13
Matches are distributed among these distances:
57 64 0.22
58 105 0.37
59 66 0.23
60 14 0.05
61 32 0.11
62 5 0.02
63 1 0.00
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (55 bp):
TAAAATGGTAATTTTGGAAGTTCGGGGGAAAAATGTAATTTTTGGAAGTTGAGGG
Found at i:13990743 original size:29 final size:29
Alignment explanation
Indices: 13990536--13990934 Score: 131
Period size: 29 Copynumber: 13.7 Consensus size: 29
13990526 ACTCGGGAGC
*
13990536 AAAATG-GTAATTTTTGGACA-CTCGAGGGT
1 AAAATGTG-AATTTTTGGA-AGTTCGAGGGT
** * *
13990565 AAAATG-GTAATTTTCAGATGTTCGGGGGT
1 AAAATGTG-AATTTTTGGAAGTTCGAGGGT
*
13990594 AAAAATGT-ATTTTTTGGAAGCTT-GAGAGG-
1 -AAAATGTGAATTTTTGGAAG-TTCGAG-GGT
* *
13990623 AAAAT-TGGTAA-TTTTGTAAGTTCG-GGAGC
1 AAAATGT-G-AATTTTTGGAAGTTCGAGG-GT
* * *
13990652 AAAACG-GTAATTTTTAGAAAATTC-AGGGT
1 AAAATGTG-AATTTTT-GGAAGTTCGAGGGT
* **
13990681 CAAAA-ATGATATTTTTGGAAGTTCG-GAGAC
1 -AAAATGTGA-ATTTTTGGAAGTTCGAG-GGT
*
13990711 AAAATGTGATTTTTTGGAAGTTCGAGGGT
1 AAAATGTGAATTTTTGGAAGTTCGAGGGT
* * * *
13990740 AAAATG-GTAATTTTCGGAAGTTTGGGGGC
1 AAAATGTG-AATTTTTGGAAGTTCGAGGGT
*
13990769 AAAATGTG-ATTTTTGGAAGTTTGAGGGT
1 AAAATGTGAATTTTTGGAAGTTCGAGGGT
** *
13990797 AAAATG-GTAATTTTTAAAAGTTTGAGGGT
1 AAAATGTG-AATTTTTGGAAGTTCGAGGGT
* * *
13990826 AAAAATG-CAATTTTTGAAAAGTT-TAGGGGT
1 -AAAATGTGAATTTTTG-GAAGTTCGA-GGGT
* **
13990856 AAAAATGT-AATTTTTTGTGAAGTTCTAAGGCA
1 -AAAATGTGAA-TTTTTG-GAAGTTC-GAGGGT
* * *
13990888 AAAATAT-AATTTTTGTGAAGTTTAGAGGTT
1 AAAATGTGAATTTTTG-GAAG-TTCGAGGGT
13990918 AAAATGTG-A-TTTTGGAA
1 AAAATGTGAATTTTTGGAA
13990935 AAATTTAGGG
Statistics
Matches: 286, Mismatches: 49, Indels: 71
0.70 0.12 0.17
Matches are distributed among these distances:
27 3 0.01
28 40 0.14
29 137 0.48
30 82 0.29
31 21 0.07
32 2 0.01
33 1 0.00
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (29 bp):
AAAATGTGAATTTTTGGAAGTTCGAGGGT
Found at i:13990922 original size:91 final size:91
Alignment explanation
Indices: 13990777--13991012 Score: 220
Period size: 91 Copynumber: 2.6 Consensus size: 91
13990767 GCAAAATGTG
* * *
13990777 ATTTTTGG-AAGTTTG-AGGGT-AAAATGGTAATTTTT-AAAAGTTT-GAGGGTAAAAATGCAAT
1 ATTTTTGGAAAATTTGAAGGGTCAAAAT-ATAATTTTTGTAAAGTTTAGA-GGTAAAAATGCAAT
* * *
13990837 TTTTGAAAAGTTTAGGGGTAAAAATGTA
64 TTTGGAAAAATTTAGGGGTAAAAATATA
* * * **
13990865 ATTTTTTGTG-AAGTTCT-AA-GG-CAAAAATATAATTTTTGTGAAGTTTAGAGGTTAAAATGTG
1 A-TTTTTG-GAAAATT-TGAAGGGTC-AAAATATAATTTTTGTAAAGTTTAGAGGTAAAAATGCA
* *
13990926 ATTTTGGAAAAATTTAGGGGTTAAAATATG
62 ATTTTGGAAAAATTTAGGGGTAAAAATATA
* *
13990956 ATTTTTGGAAAATTTGAAGGGTCAAAATATAATTTTTGTAAAGTTTAGGGGTCAAAA
1 ATTTTTGGAAAATTTGAAGGGTCAAAATATAATTTTTGTAAAGTTTAGAGGTAAAAA
13991013 CGTGATTTCT
Statistics
Matches: 121, Mismatches: 15, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
88 1 0.01
89 8 0.07
90 28 0.23
91 81 0.67
92 3 0.02
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (91 bp):
ATTTTTGGAAAATTTGAAGGGTCAAAATATAATTTTTGTAAAGTTTAGAGGTAAAAATGCAATTT
TGGAAAAATTTAGGGGTAAAAATATA
Found at i:13991010 original size:30 final size:30
Alignment explanation
Indices: 13990736--13991012 Score: 171
Period size: 30 Copynumber: 9.3 Consensus size: 30
13990726 GGAAGTTCGA
* *
13990736 GGGT-AAAATGGTAATTTTCG-GAAGTTT-G
1 GGGTCAAAAT-GTAATTTTTGAAAAGTTTAG
* * *
13990764 GGGGCAAAATGTGATTTTTG-GAAGTTT-G
1 GGGTCAAAATGTAATTTTTGAAAAGTTTAG
13990792 AGGGT-AAAATGGTAATTTTT-AAAAGTTT-G
1 -GGGTCAAAAT-GTAATTTTTGAAAAGTTTAG
* *
13990821 AGGGTAAAAATGCAATTTTTGAAAAGTTTAG
1 -GGGTCAAAATGTAATTTTTGAAAAGTTTAG
* **
13990852 GGGTAAAAATGTAATTTTTTGTGAAGTTCTA-
1 GGGTCAAAATGTAA-TTTTTGAAAAGTT-TAG
* * **
13990883 AGG-CAAAAATATAATTTTTGTGAAGTTTAG
1 GGGTC-AAAATGTAATTTTTGAAAAGTTTAG
* * * * *
13990913 AGGTTAAAATGTGATTTTGGAAAAATTTAG
1 GGGTCAAAATGTAATTTTTGAAAAGTTTAG
* * * *
13990943 GGGTTAAAATATGATTTTTGGAAAA-TTTGAA
1 GGGTCAAAATGTAATTTTT-GAAAAGTTT-AG
* *
13990974 GGGTCAAAATATAATTTTTGTAAAGTTTAG
1 GGGTCAAAATGTAATTTTTGAAAAGTTTAG
13991004 GGGTCAAAA
1 GGGTCAAAA
13991013 CGTGATTTCT
Statistics
Matches: 206, Mismatches: 28, Indels: 28
0.79 0.11 0.11
Matches are distributed among these distances:
28 24 0.12
29 38 0.18
30 94 0.46
31 48 0.23
32 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (30 bp):
GGGTCAAAATGTAATTTTTGAAAAGTTTAG
Found at i:13992150 original size:15 final size:16
Alignment explanation
Indices: 13992132--13992204 Score: 51
Period size: 16 Copynumber: 4.6 Consensus size: 16
13992122 TCCCTTTTTT
13992132 TTATT-TTATTAATTA
1 TTATTATTATTAATTA
*
13992147 TTATTAATATT-ATTA
1 TTATTATTATTAATTA
* * *
13992162 ATATTGTTATTATTTA
1 TTATTATTATTAATTA
** * *
13992178 TTAAGAATATTTATTA
1 TTATTATTATTAATTA
13992194 TTATTCATTAT
1 TTATT-ATTAT
13992205 GCATTTAATA
Statistics
Matches: 40, Mismatches: 15, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
15 17 0.43
16 19 0.47
17 4 0.10
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (16 bp):
TTATTATTATTAATTA
Found at i:13992157 original size:9 final size:9
Alignment explanation
Indices: 13992137--13992181 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
13992127 TTTTTTTATT
13992137 TTATTAATTA
1 TTATTAA-TA
13992147 TTATTAATA
1 TTATTAATA
13992156 TTATTAATA
1 TTATTAATA
* *
13992165 TTGTTATTA
1 TTATTAATA
13992174 TTTATTAA
1 -TTATTAA
13992182 GAATATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 18 0.60
10 12 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (9 bp):
TTATTAATA
Found at i:13992161 original size:19 final size:19
Alignment explanation
Indices: 13992136--13992181 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
13992126 TTTTTTTTAT
13992136 TTTATTAATTATTATTAATA
1 TTTATTAA-TATTATTAATA
* *
13992156 -TTATTAATATTGTTATTA
1 TTTATTAATATTATTAATA
13992174 TTTATTAA
1 TTTATTAA
13992182 GAATATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTATTAATATTATTAATA
Found at i:13992697 original size:23 final size:23
Alignment explanation
Indices: 13992671--13992714 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13992661 GGCTTGGATT
*
13992671 TTTGGACTTGTAGTTTTGGGCCA
1 TTTGGACTTATAGTTTTGGGCCA
* *
13992694 TTTGGTCTTATATTTTTGGGC
1 TTTGGACTTATAGTTTTGGGC
13992715 TTGTATTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.27, T:0.50
Consensus pattern (23 bp):
TTTGGACTTATAGTTTTGGGCCA
Found at i:13992757 original size:16 final size:16
Alignment explanation
Indices: 13992736--13992883 Score: 90
Period size: 16 Copynumber: 9.2 Consensus size: 16
13992726 ACACTTATTT
* *
13992736 ATTTAAATTGAAATAG
1 ATTTAAATTCAAATAA
13992752 ATTTAAATTCAAATAA
1 ATTTAAATTCAAATAA
* *
13992768 ATTCAAATT-AATTTAA
1 ATTTAAATTCAA-ATAA
* *
13992784 ATTTAAAAT-AACT--
1 ATTTAAATTCAAATAA
* *
13992797 -TTTGAATTTAAAATAA
1 ATTT-AAATTCAAATAA
**
13992813 ATTTAAACTTCATTTAA
1 ATTTAAA-TTCAAATAA
*
13992830 ATTTAAATTTAAAATAA
1 ATTTAAA-TTCAAATAA
* *
13992847 ATTTAAACTTAAAACAA
1 ATTTAAA-TTCAAATAA
*
13992864 ATTTAAATTTAAATAA
1 ATTTAAATTCAAATAA
13992880 ATTT
1 ATTT
13992884 CAAAATGAGT
Statistics
Matches: 103, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
12 3 0.03
13 3 0.03
14 3 0.03
15 3 0.03
16 47 0.46
17 44 0.43
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTTAAATTCAAATAA
Found at i:13992786 original size:6 final size:6
Alignment explanation
Indices: 13992752--13992877 Score: 72
Period size: 6 Copynumber: 22.3 Consensus size: 6
13992742 ATTGAAATAG
* * *
13992752 ATTTAA ATTCAA A--TAA ATTCAA A-TT-A ATTTAA ATTTAA A-ATAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* * * * *
13992795 CTTTTGA ATTTAA A-ATAA ATTTAA ACTT-C ATTTAA ATTTAA ATTTAA
1 -ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* * **
13992842 A-ATAA ATTTAA ACTTAA A-ACAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT
13992878 AAATTTCAAA
Statistics
Matches: 87, Mismatches: 23, Indels: 20
0.67 0.18 0.15
Matches are distributed among these distances:
4 5 0.06
5 20 0.23
6 60 0.69
7 2 0.02
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (6 bp):
ATTTAA
Found at i:13992817 original size:11 final size:11
Alignment explanation
Indices: 13992801--13992853 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
13992791 ATAACTTTTG
13992801 AATTTAAAATA
1 AATTTAAAATA
* *
13992812 AATTTAAACTT
1 AATTTAAAATA
* *
13992823 CATTTAAATTTA
1 AATTTAAA-ATA
13992835 AATTTAAAATA
1 AATTTAAAATA
13992846 AATTTAAA
1 AATTTAAA
13992854 CTTAAAACAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
11 26 0.76
12 8 0.24
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (11 bp):
AATTTAAAATA
Found at i:13992832 original size:17 final size:17
Alignment explanation
Indices: 13992772--13992883 Score: 109
Period size: 17 Copynumber: 6.6 Consensus size: 17
13992762 AAATAAATTC
* *
13992772 AAATTAATTTAAATTTA
1 AAATAAATTTAAACTTA
* * *
13992789 AAATAACTTTTGAATTTA
1 AAATAA-ATTTAAACTTA
*
13992807 AAATAAATTTAAACTTC
1 AAATAAATTTAAACTTA
** *
13992824 ATTTAAATTTAAATTTA
1 AAATAAATTTAAACTTA
13992841 AAATAAATTTAAACTTA
1 AAATAAATTTAAACTTA
* *
13992858 AAACAAATTTAAA-TTT
1 AAATAAATTTAAACTTA
13992874 AAATAAATTT
1 AAATAAATTT
13992884 CAAAATGAGT
Statistics
Matches: 77, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
16 11 0.14
17 51 0.66
18 15 0.19
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (17 bp):
AAATAAATTTAAACTTA
Found at i:13992842 original size:34 final size:34
Alignment explanation
Indices: 13992772--13992883 Score: 127
Period size: 34 Copynumber: 3.3 Consensus size: 34
13992762 AAATAAATTC
* * * * *
13992772 AAATTAATTTAAATTTAAAATAACTTTTGAATTTA
1 AAATAAATTTAAACTTAAAACAA-ATTTAAATTTA
* ***
13992807 AAATAAATTTAAACTTCATTTAAATTTAAATTTA
1 AAATAAATTTAAACTTAAAACAAATTTAAATTTA
13992841 AAATAAATTTAAACTTAAAACAAATTTAAATTT-
1 AAATAAATTTAAACTTAAAACAAATTTAAATTTA
13992874 AAATAAATTT
1 AAATAAATTT
13992884 CAAAATGAGT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
33 10 0.15
34 38 0.58
35 18 0.27
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (34 bp):
AAATAAATTTAAACTTAAAACAAATTTAAATTTA
Found at i:13999450 original size:31 final size:31
Alignment explanation
Indices: 13999415--13999504 Score: 126
Period size: 31 Copynumber: 2.9 Consensus size: 31
13999405 TTTATTAACA
* *
13999415 ATGATTTGGAAATTTAAGTTTTACTTTTTTG
1 ATGATTTGGGAATTTAGGTTTTACTTTTTTG
*
13999446 ATGATTTGGGAATGTAGGTTTTACTTTTTTG
1 ATGATTTGGGAATTTAGGTTTTACTTTTTTG
* * *
13999477 ATAATTTGGGGATTTAGGTTGTACTTTT
1 ATGATTTGGGAATTTAGGTTTTACTTTT
13999505 AAATTTTCTG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.22, C:0.03, G:0.22, T:0.52
Consensus pattern (31 bp):
ATGATTTGGGAATTTAGGTTTTACTTTTTTG
Found at i:14001192 original size:45 final size:45
Alignment explanation
Indices: 14001135--14001505 Score: 404
Period size: 45 Copynumber: 8.4 Consensus size: 45
14001125 ATGTGTGTCG
* * *
14001135 TATAGTATAATCAATCAAATAATATTTACCATGTCATGCATATCA
1 TATAGAATAATCAATCAAATAATATTTACCATATCATACATATCA
* *
14001180 TACAGAATAATCAATCAAATAATATTTACCATATCATGCATATCA
1 TATAGAATAATCAATCAAATAATATTTACCATATCATACATATCA
* * * *
14001225 TATAGCATAATCAATCCAATAATATTTACCATATCATATATATCT
1 TATAGAATAATCAATCAAATAATATTTACCATATCATACATATCA
* * * * *
14001270 TTTAGCATAATCAATCAACTAATATTTACCATGTCATGCATATCA
1 TATAGAATAATCAATCAAATAATATTTACCATATCATACATATCA
* *
14001315 TATA-ATATAATCAAT-AAAAAATATTTACCATATCATACATATCG
1 TATAGA-ATAATCAATCAAATAATATTTACCATATCATACATATCA
* **
14001359 TATAGCATAATCAATCAAATAATATTTACCATATCATACATATTG
1 TATAGAATAATCAATCAAATAATATTTACCATATCATACATATCA
* * **
14001404 TATA-ACATAATTAATCAAATAATATTTACCATGTCAGGCATA-C-
1 TATAGA-ATAATCAATCAAATAATATTTACCATATCATACATATCA
*
14001447 ------ATAATCAATCAAATAATATTTACCATATCATACATATCG
1 TATAGAATAATCAATCAAATAATATTTACCATATCATACATATCA
* * *
14001486 TACAGAATACTTAATCAAAT
1 TATAGAATAATCAATCAAAT
14001506 TCTAACTAAC
Statistics
Matches: 276, Mismatches: 38, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
37 32 0.12
38 1 0.00
44 37 0.13
45 206 0.75
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (45 bp):
TATAGAATAATCAATCAAATAATATTTACCATATCATACATATCA
Found at i:14001392 original size:134 final size:134
Alignment explanation
Indices: 14001141--14001505 Score: 496
Period size: 134 Copynumber: 2.8 Consensus size: 134
14001131 GTCGTATAGT
*
14001141 ATAATCAATCAAATAATATTTACCATGTCATGCATATCATACAGA-ATAATCAATCAAATAATAT
1 ATAATCAATCAAATAATATTTACCATGTCATGCATATCATATA-ATATAATCAAT-AAATAATAT
* * * *
14001205 TTACCATATCATGCATATCATATAGCATAATCAATCCAATAATATTTACCATATCATATATATCT
64 TTACCATATCATACATATCGTATAGCATAATCAATCAAATAATATTTACCATATCATACATAT-T
* *
14001270 -TTTAGC
128 GTATAAC
* *
14001276 ATAATCAATCAACTAATATTTACCATGTCATGCATATCATATAATATAATCAATAAAAAATATTT
1 ATAATCAATCAAATAATATTTACCATGTCATGCATATCATATAATATAATCAATAAATAATATTT
14001341 ACCATATCATACATATCGTATAGCATAATCAATCAAATAATATTTACCATATCATACATATTGTA
66 ACCATATCATACATATCGTATAGCATAATCAATCAAATAATATTTACCATATCATACATATTGTA
14001406 TAAC
131 TAAC
* * *
14001410 ATAATTAATCAAATAATATTTACCATGTCAGGCATA-C--ATAAT-CAATC---AAATAATATTT
1 ATAATCAATCAAATAATATTTACCATGTCATGCATATCATATAATATAATCAATAAATAATATTT
* * * *
14001468 ACCATATCATACATATCGTACAGAATACTTAATCAAAT
66 ACCATATCATACATATCGTATAGCATAATCAATCAAAT
14001506 TCTAACTAAC
Statistics
Matches: 210, Mismatches: 18, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
127 44 0.21
130 4 0.02
131 5 0.02
133 2 0.01
134 105 0.50
135 50 0.24
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (134 bp):
ATAATCAATCAAATAATATTTACCATGTCATGCATATCATATAATATAATCAATAAATAATATTT
ACCATATCATACATATCGTATAGCATAATCAATCAAATAATATTTACCATATCATACATATTGTA
TAAC
Found at i:14001550 original size:127 final size:126
Alignment explanation
Indices: 14001186--14001554 Score: 306
Period size: 134 Copynumber: 2.8 Consensus size: 126
14001176 ATCATACAGA
* * * * * * **
14001186 ATAATCAATCAAATAATATTTACCATATCATGCATATCATATAGCATAATCAATCCAATAATATT
1 ATAATCAAT-AAAAAATATTTACCATATCATACATATCGTACAGAATAATCAATCAAATAATAAC
* * * * * * * * *
14001251 TACCATATCATATATATCTTTTAGCATAATCAATCAACTAATATTTACCATGTCATGCATATC
65 TAACATATCATACATATCATATAACATAAGCAACCAAATAATATTTACCATGTCAGGCATA-C
* *
14001314 ATATAATATAATCAATAAAAAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAAT
1 -------ATAATCAATAAAAAATATTTACCATATCATACATATCGTACAGAATAATCAATCAAAT
** * ** ** *
14001379 AATATTTACCATATCATACATATTGTATAACATAATTAATCAAATAATATTTACCATGTCAGGCA
59 AATAACTAACATATCATACATATCATATAACATAAGCAACCAAATAATATTTACCATGTCAGGCA
14001444 TAC
124 TAC
* * * **
14001447 ATAATCAATCAAATAATATTTACCATATCATACATATCGTACAGAATACTTAATCAAATTCTAAC
1 ATAATCAAT-AAAAAATATTTACCATATCATACATATCGTACAGAATAATCAATCAAATAATAAC
* * * * **
14001512 TAACTTATCTTTCATATCATATAGCATGCGCAACCAAATAATA
65 TAACATATCATACATATCATATAACATAAGCAACCAAATAATA
14001555 ATCATCTTAT
Statistics
Matches: 200, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
126 9 0.05
127 77 0.38
133 1 0.00
134 104 0.52
135 9 0.05
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.34
Consensus pattern (126 bp):
ATAATCAATAAAAAATATTTACCATATCATACATATCGTACAGAATAATCAATCAAATAATAACT
AACATATCATACATATCATATAACATAAGCAACCAAATAATATTTACCATGTCAGGCATAC
Found at i:14002033 original size:29 final size:28
Alignment explanation
Indices: 14001999--14002514 Score: 368
Period size: 28 Copynumber: 18.0 Consensus size: 28
14001989 ATAATTTTTT
* *
14001999 TGAAAAATAATGGCAAAATTGTAAAATC
1 TGAAAAATAGTGGCAAAACTGTAAAATC
*
14002027 T-AGAAAATAGTGACAAAACTGTAAAATC
1 TGA-AAAATAGTGGCAAAACTGTAAAATC
*
14002055 TG-GAAATCAGTGGC-AAACTGTAAAATC
1 TGAAAAAT-AGTGGCAAAACTGTAAAATC
* * * *
14002082 T-AGAAATCAATGGCAAAAATGTAAAATA
1 TGAAAAAT-AGTGGCAAAACTGTAAAATC
* *
14002110 TGAAAAACCAGTGGCAAAACTATAAAATC
1 TGAAAAA-TAGTGGCAAAACTGTAAAATC
* * *
14002139 T-AAAAATTAGGGGTAAAACTGTAAAATT
1 TGAAAAA-TAGTGGCAAAACTGTAAAATC
* * * * *
14002167 TAAAAAACCAATGGCAAAATTTTAAAATC
1 TGAAAAA-TAGTGGCAAAACTGTAAAATC
* * *
14002196 TGGAAAACAGTGCCAAAACTGTAAAATC
1 TGAAAAATAGTGGCAAAACTGTAAAATC
*
14002224 TGGAAAAACTAATGGCAAAACTGTAAAATC
1 T-GAAAAA-TAGTGGCAAAACTGTAAAATC
* *
14002254 T-AGAAAATAGTGGTAAAACTATAAAATC
1 TGA-AAAATAGTGGCAAAACTGTAAAATC
* * *
14002282 TGAAAAACCAATGGCAAAACTATAAAATC
1 TGAAAAA-TAGTGGCAAAACTGTAAAATC
14002311 TAGAAAATATGGAGAACCAGTGGCAAAAC--TAAAATC
1 T-GAAAA-AT--------AGTGGCAAAACTGTAAAATC
*
14002347 TGGAAAACTAGTGGCAAAACTGTAAAATC
1 T-GAAAAATAGTGGCAAAACTGTAAAATC
** * *
14002376 TGGAAAACCAATGGCAAAACTATAAAATC
1 T-GAAAAATAGTGGCAAAACTGTAAAATC
* * *
14002405 TGGAAAATAATGGCAAAATTGTAAAATC
1 TGAAAAATAGTGGCAAAACTGTAAAATC
* * *
14002433 TGGAAAACAGTGGC-AAACTGTAAAACC
1 TGAAAAATAGTGGCAAAACTGTAAAATC
** *
14002460 TGGAAAACCAGTGGCAAAATTGTAAAATC
1 T-GAAAAATAGTGGCAAAACTGTAAAATC
* *
14002489 T-AAAACTAGTGGCAAAATTGTAAAAT
1 TGAAAAATAGTGGCAAAACTGTAAAAT
14002515 AGTGACAATT
Statistics
Matches: 396, Mismatches: 65, Indels: 55
0.77 0.13 0.11
Matches are distributed among these distances:
27 77 0.19
28 150 0.38
29 120 0.30
30 24 0.06
31 1 0.00
35 1 0.00
36 13 0.03
38 10 0.03
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.21
Consensus pattern (28 bp):
TGAAAAATAGTGGCAAAACTGTAAAATC
Done.