Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 46 of 145
Found at i:14874604 original size:147 final size:148
Alignment explanation
Indices: 14874382--14874678 Score: 587
Period size: 147 Copynumber: 2.0 Consensus size: 148
14874372 TATTTCATTC
14874382 ATATAGTTTGCATACTTAGGATAATTTGCATTAGGGATCATTGCATTTAGTTTAATATATTTTAA
1 ATATAGTTTGCATACTTAGGATAATTTGCATTAGGGATCATTGCATTTAGTTTAATATATTTTAA
14874447 TCACCACTTCTCAACTATATTGTCTTTTGATTTACCAAATTGTTAATATAATTTTACAAATTAAG
66 TCACCACTTCTCAACTATATTGTCTTTTGATTTACCAAATTGTTAATATAATTTTACAAATTAAG
14874512 TGACTTAGCACAAATACA
131 TGACTTAGCACAAATACA
14874530 ATATAGTTTG-ATACTTAGGATAATTTGCATTAGGGATCATTGCATTTAGTTTAATATATTTTAA
1 ATATAGTTTGCATACTTAGGATAATTTGCATTAGGGATCATTGCATTTAGTTTAATATATTTTAA
14874594 TCACCACTTCTCAACTATATTGTCTTTTGATTTACCAAATTGTTAATATAATTTTACAAATTAAG
66 TCACCACTTCTCAACTATATTGTCTTTTGATTTACCAAATTGTTAATATAATTTTACAAATTAAG
14874659 TGACTTAGCACAAATACA
131 TGACTTAGCACAAATACA
14874677 AT
1 AT
14874679 CCCTGTGGAG
Statistics
Matches: 149, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
147 139 0.93
148 10 0.07
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (148 bp):
ATATAGTTTGCATACTTAGGATAATTTGCATTAGGGATCATTGCATTTAGTTTAATATATTTTAA
TCACCACTTCTCAACTATATTGTCTTTTGATTTACCAAATTGTTAATATAATTTTACAAATTAAG
TGACTTAGCACAAATACA
Found at i:14877799 original size:27 final size:27
Alignment explanation
Indices: 14877757--14877810 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
14877747 ATTGTAAAGA
* *
14877757 AAGGAAAACTTTTTTCTTTTCCTCTCT
1 AAGGAAAAATTCTTTCTTTTCCTCTCT
14877784 AAGGAAAAATTCTTTCTTTTCCTCTCT
1 AAGGAAAAATTCTTTCTTTTCCTCTCT
14877811 TCTCACATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.46
Consensus pattern (27 bp):
AAGGAAAAATTCTTTCTTTTCCTCTCT
Found at i:14879003 original size:13 final size:14
Alignment explanation
Indices: 14878985--14879013 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14878975 AAAATTGCTT
14878985 AAAAATCAAG-CAA
1 AAAAATCAAGTCAA
14878998 AAAAATCAAGTCAA
1 AAAAATCAAGTCAA
14879012 AA
1 AA
14879014 GCCACTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATCAAGTCAA
Found at i:14879432 original size:12 final size:12
Alignment explanation
Indices: 14879415--14879442 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
14879405 TCTTTTTTCT
14879415 TGTTTACAACAA
1 TGTTTACAACAA
14879427 TGTTTACAACAA
1 TGTTTACAACAA
14879439 TGTT
1 TGTT
14879443 AGCTTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (12 bp):
TGTTTACAACAA
Found at i:14881402 original size:20 final size:20
Alignment explanation
Indices: 14881373--14881411 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14881363 ATTAAAATGC
*
14881373 TAACAGAGGCACCGAAGTGT
1 TAACAGAGGCACCAAAGTGT
*
14881393 TAACATAGGCACCAAAGTG
1 TAACAGAGGCACCAAAGTG
14881412 CAATCCCGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (20 bp):
TAACAGAGGCACCAAAGTGT
Found at i:14886472 original size:17 final size:15
Alignment explanation
Indices: 14886430--14886496 Score: 64
Period size: 14 Copynumber: 4.3 Consensus size: 15
14886420 GTAAGTAATC
14886430 TAGATGTGAAAA-TA
1 TAGATGTGAAAACTA
*
14886444 TAGATTTGAAAACTA
1 TAGATGTGAAAACTA
*
14886459 TAGAACTGTGAAAAACTC
1 TAG-A-TGTG-AAAACTA
*
14886477 TAGATTGTGAAAACAA
1 TAGA-TGTGAAAACTA
14886493 TAGA
1 TAGA
14886497 AACTTTAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
14 11 0.26
15 5 0.12
16 10 0.23
17 8 0.19
18 9 0.21
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (15 bp):
TAGATGTGAAAACTA
Found at i:14890251 original size:126 final size:126
Alignment explanation
Indices: 14890026--14890279 Score: 472
Period size: 126 Copynumber: 2.0 Consensus size: 126
14890016 GCCGGGATTG
*
14890026 AAACGTGATGTGACAGAGTTTGTGGCAAGATGCTTGATGTGCCAACAAGTCAAGGCTGGACATCA
1 AAACGTGATGTGACAGAGTTTGTGGCAAGATGCTTGATGTGCCAACAAGTCAAGGCTGAACATCA
*
14890091 ATTTCCTTTAGGTTTGCTTTAGCAAATTCAAGTTCTTTAGTGGAAATGGGAACATATCACC
66 ATTTCCTTCAGGTTTGCTTTAGCAAATTCAAGTTCTTTAGTGGAAATGGGAACATATCACC
14890152 AAACGTGATGTGACAGAGTTTGTGGCAAGATGCTTGATGTGCCAACAAGTCAAGGCTGAACATCA
1 AAACGTGATGTGACAGAGTTTGTGGCAAGATGCTTGATGTGCCAACAAGTCAAGGCTGAACATCA
**
14890217 ATTTCCTTCAGGTTTGCTTTAGCCTATTCAAGTTCTTTAGTGGAAATGGGAACATATCACC
66 ATTTCCTTCAGGTTTGCTTTAGCAAATTCAAGTTCTTTAGTGGAAATGGGAACATATCACC
14890278 AA
1 AA
14890280 GGATTTTGTT
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 124 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (126 bp):
AAACGTGATGTGACAGAGTTTGTGGCAAGATGCTTGATGTGCCAACAAGTCAAGGCTGAACATCA
ATTTCCTTCAGGTTTGCTTTAGCAAATTCAAGTTCTTTAGTGGAAATGGGAACATATCACC
Found at i:14901486 original size:23 final size:22
Alignment explanation
Indices: 14901434--14901487 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
14901424 GATTTATCAG
*
14901434 TATGGATATGTGTGGTATTGAAT
1 TATGG-TATGTCTGGTATTGAAT
*
14901457 TAAGGTATGTCTGAGTA-TGAATT
1 TATGGTATGTCTG-GTATTGAA-T
14901480 TATGGTAT
1 TATGGTAT
14901488 TATATTCTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.43
Consensus pattern (22 bp):
TATGGTATGTCTGGTATTGAAT
Found at i:14903177 original size:50 final size:50
Alignment explanation
Indices: 14903074--14903266 Score: 206
Period size: 50 Copynumber: 3.7 Consensus size: 50
14903064 GGGAATGAGA
* *
14903074 TCCCATGTAAGACCAAGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
* *
14903130 TCCCATGTAAGACCATGCCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
*** * * **
14903180 TCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
14903230 TCCCATGTAAGACCATATCTGGGATATGACATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
14903267 GTACAGAAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 79 0.68
53 3 0.03
55 1 0.01
56 34 0.29
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:14903532 original size:12 final size:12
Alignment explanation
Indices: 14903515--14903553 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14903505 ATGAGTTATT
14903515 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
14903527 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
14903539 TAAGTGAGTAAG
1 TAAGTAAGCAAG
14903551 TAA
1 TAA
14903554 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:14909873 original size:25 final size:25
Alignment explanation
Indices: 14909845--14909935 Score: 82
Period size: 25 Copynumber: 3.7 Consensus size: 25
14909835 TCATGTACAT
*
14909845 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTCATACGAGCTATGAATCG
* *
14909870 GTATGCTCACT-CAAGCTAT-AGATCA
1 GTATGCTCA-TACGAGCTATGA-ATCG
*
14909895 GTATGCTC-TCACGAGCTATAAATCG
1 GTATGCTCAT-ACGAGCTATGAATCG
*
14909920 GTATGCT-ACACGAGCT
1 GTATGCTCATACGAGCT
14909936 GTGGGTCAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
23 1 0.02
24 8 0.15
25 43 0.80
26 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATGAATCG
Found at i:14936736 original size:13 final size:13
Alignment explanation
Indices: 14936718--14936742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14936708 GTCATTATAT
14936718 CAATTCACTCTCA
1 CAATTCACTCTCA
14936731 CAATTCACTCTC
1 CAATTCACTCTC
14936743 CCAGTGTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.40, G:0.00, T:0.32
Consensus pattern (13 bp):
CAATTCACTCTCA
Found at i:14951173 original size:7 final size:7
Alignment explanation
Indices: 14951161--14951194 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
14951151 ATCAAATCAA
14951161 ATATTTT
1 ATATTTT
14951168 ATATTTT
1 ATATTTT
14951175 ATATTTT
1 ATATTTT
14951182 ATATTTT
1 ATATTTT
14951189 ATATTT
1 ATATTT
14951195 GGATGAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATATTTT
Found at i:14951413 original size:22 final size:24
Alignment explanation
Indices: 14951379--14951430 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
14951369 GAGCTAAGCA
*
14951379 TTATTTAAATAAA-TACTCATA-T
1 TTATATAAATAAAGTACTCATATT
* *
14951401 TTATATAATTAAAGTATTCATATT
1 TTATATAAATAAAGTACTCATATT
14951425 TTATAT
1 TTATAT
14951431 CAAGCTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 11 0.44
23 7 0.28
24 7 0.28
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (24 bp):
TTATATAAATAAAGTACTCATATT
Found at i:14951951 original size:18 final size:18
Alignment explanation
Indices: 14951913--14951948 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14951903 AATTATTTTT
*
14951913 TAAAATTTAGTATTAAAA
1 TAAAATTTAATATTAAAA
14951931 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
14951949 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:14953088 original size:22 final size:22
Alignment explanation
Indices: 14953063--14953106 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
14953053 GTCACAACAT
14953063 TATGCACAGTTTATCAACTAAG
1 TATGCACAGTTTATCAACTAAG
14953085 TATGCACAGTTTATCAACTAAG
1 TATGCACAGTTTATCAACTAAG
14953107 GAGCGAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (22 bp):
TATGCACAGTTTATCAACTAAG
Found at i:14953694 original size:30 final size:31
Alignment explanation
Indices: 14953649--14953712 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
14953639 GATGAAAAAT
* * *
14953649 TAAAATATAAACTAAT-TAAATTAATTATCC
1 TAAAAAATAAACTAATGGAAATTAATTAACC
* *
14953679 TAAAAAATAACCTAATGGAATTTAATTAACC
1 TAAAAAATAAACTAATGGAAATTAATTAACC
14953710 TAA
1 TAA
14953713 GATATCCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.33
Consensus pattern (31 bp):
TAAAAAATAAACTAATGGAAATTAATTAACC
Found at i:14961444 original size:35 final size:35
Alignment explanation
Indices: 14961405--14961473 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
14961395 TTAAAGGTTG
14961405 TTGTTCCCTTTCTCTCTAAAGATATATCATATTTT
1 TTGTTCCCTTTCTCTCTAAAGATATATCATATTTT
*
14961440 TTGTTCCTTTTCTCTCTAAAGATATATCATATTT
1 TTGTTCCCTTTCTCTCTAAAGATATATCATATTT
14961474 ATTTATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.23, C:0.19, G:0.06, T:0.52
Consensus pattern (35 bp):
TTGTTCCCTTTCTCTCTAAAGATATATCATATTTT
Found at i:14961618 original size:18 final size:18
Alignment explanation
Indices: 14961592--14961626 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14961582 GCAAAAAATC
* *
14961592 ATTATAATTAGGATAATG
1 ATTAAAATTAAGATAATG
14961610 ATTAAAATTAAGATAAT
1 ATTAAAATTAAGATAAT
14961627 CCGCCAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (18 bp):
ATTAAAATTAAGATAATG
Found at i:14970793 original size:17 final size:17
Alignment explanation
Indices: 14970771--14970806 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
14970761 TATCTAACAT
*
14970771 CCTTCTTTTACGAATAC
1 CCTTCTTTTACGAAAAC
14970788 CCTTCTTTTACGAAAAC
1 CCTTCTTTTACGAAAAC
14970805 CC
1 CC
14970807 ATTTACTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.33, G:0.06, T:0.36
Consensus pattern (17 bp):
CCTTCTTTTACGAAAAC
Found at i:14971713 original size:35 final size:35
Alignment explanation
Indices: 14971674--14971743 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
14971664 AACTTGCAAG
* *
14971674 CCATTTACATGGTGTCATTCCGAAGAGCCTGTAGA
1 CCATTTACATGGTGCCACTCCGAAGAGCCTGTAGA
* *
14971709 CCATTTACATGGTGCCGCTCCGAAGAGCTTGTAGA
1 CCATTTACATGGTGCCACTCCGAAGAGCCTGTAGA
14971744 TAACATTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (35 bp):
CCATTTACATGGTGCCACTCCGAAGAGCCTGTAGA
Found at i:14974545 original size:50 final size:49
Alignment explanation
Indices: 14974470--14974571 Score: 150
Period size: 50 Copynumber: 2.1 Consensus size: 49
14974460 AAACTTGGTA
* * *
14974470 GTTATCATTCTTTTTGGAAAGAATATAACGTTTTTTAATACTTTCCATAT
1 GTTATAATTATTTTTGGAAAGAATATAACG-TGTTTAATACTTTCCATAT
* *
14974520 GTTATAATTATTTTTGGAAAGAATATAACGTGTTTAATACTTTTCATGT
1 GTTATAATTATTTTTGGAAAGAATATAACGTGTTTAATACTTTCCATAT
14974569 GTT
1 GTT
14974572 CTCTATAAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 19 0.40
50 28 0.60
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (49 bp):
GTTATAATTATTTTTGGAAAGAATATAACGTGTTTAATACTTTCCATAT
Found at i:14975864 original size:71 final size:71
Alignment explanation
Indices: 14975731--14975865 Score: 162
Period size: 71 Copynumber: 1.9 Consensus size: 71
14975721 TCATGACTTT
* ** * *
14975731 GATGGCAATATGCTCCCCCTTTGGACTCAAAGTTGGATGTTGCGAATTTAGCTTATGGATGTCGT
1 GATGGCAATATGCTCCCCCTTTGGAATCAAAGTTGGATGTCACGAATTTAGCTTAAGAATGTCGT
14975796 GACATC
66 GACATC
* ** ** * *
14975802 GATGGCAGTATGCTCTTCCTTTGGAATCAAAGTTGGATGTCACGGCTTTGGTTTAAGAATGTCG
1 GATGGCAATATGCTCCCCCTTTGGAATCAAAGTTGGATGTCACGAATTTAGCTTAAGAATGTCG
14975866 CAACATTATC
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
71 52 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (71 bp):
GATGGCAATATGCTCCCCCTTTGGAATCAAAGTTGGATGTCACGAATTTAGCTTAAGAATGTCGT
GACATC
Found at i:14978566 original size:18 final size:18
Alignment explanation
Indices: 14978545--14978580 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14978535 TCTTCTCTTT
14978545 CTTTCTCTTCTTCAACAA
1 CTTTCTCTTCTTCAACAA
*
14978563 CTTTTTCTTCTTCAACAA
1 CTTTCTCTTCTTCAACAA
14978581 TGATTTCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (18 bp):
CTTTCTCTTCTTCAACAA
Found at i:14978587 original size:18 final size:18
Alignment explanation
Indices: 14978550--14978593 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
14978540 TCTTTCTTTC
*
14978550 TCTTCTTCAACAACTTTT
1 TCTTCTTCAACAACTATT
14978568 TCTTCTTCAACAA-TGATT
1 TCTTCTTCAACAACT-ATT
*
14978586 TCCTCTTC
1 TCTTCTTC
14978594 TATAGCAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.20, C:0.30, G:0.02, T:0.48
Consensus pattern (18 bp):
TCTTCTTCAACAACTATT
Found at i:14991662 original size:50 final size:53
Alignment explanation
Indices: 14991584--14991722 Score: 167
Period size: 56 Copynumber: 2.6 Consensus size: 53
14991574 TCATGTACTA
** *
14991584 CATGTCCCAGACATGGTCTTACGGGGGACCTCTC-ATCTC-GG-TGCCAACAC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCAATCTCAGGATACCAACAC
***
14991634 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGATACCAATGT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCA--ATCTC-AGGATACCAACAC
*
14991690 CATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCT
14991723 TTACCCAAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
50 32 0.42
53 5 0.07
55 2 0.03
56 37 0.49
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (53 bp):
CATGTCCCAGACATGGTCTTACATGGGACCTCTCAATCTCAGGATACCAACAC
Found at i:14999838 original size:2 final size:2
Alignment explanation
Indices: 14999833--14999858 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14999823 CATATATATC
14999833 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
14999859 CAAAGAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:15002588 original size:278 final size:279
Alignment explanation
Indices: 15002054--15002606 Score: 779
Period size: 278 Copynumber: 2.0 Consensus size: 279
15002044 AAAAATCTCA
* *
15002054 GTTTGAAAATAGTTTTCTTACACAACGAAAAATTAAAATTTTGAAAATCGACCCGGTTTGTAATA
1 GTTTGAAAATAGTTTTCTTACACAACGAAAAATTAAAATTTTGAAAACCAACCCGGTTTGTAATA
** * ** * *
15002119 TTTATAGCAATAAACCTTAATTGAATTCGTACATGTGTTTTTGACTTAGTGGACGTTCGTTGTTC
66 TTTATAGCAATAAACCTTAACCGAATTCGTACATATGTTTTCAACTTAGTGGACATTCATTGTTC
* * * * * *
15002184 TTGACTTTCAACCAAACGATCTTCTCCGCTTTTCTCGTACCACGAACTGCTTCGAGTGTAGGCTC
131 TCGAATTTCAACCAAACGATCTTCTCCGCTATTCTCATACCACGAACTACTTCGAGTGTAGGCCC
* * *
15002249 GAACCAATTAAACCAAAACACAAAACTAGAAAAAGTTTTCTCTCTATTTTGGGTGAAAACGAAAA
196 AAACCAATTAAACCAAAACACAAAACTAGAAAAAGTTTTCTCCCTATTTGGGGTGAAAACGAAAA
15002314 TT-TTGTCTTTTTAATCCCG
261 TTCTT-TCTTTTTAATCCCG
* * * * * *
15002333 GTTTGAAAATGGTTTTCTTGCACAGCGAAAATTTAAAATTTTGAAAACCAACCTGGTTTGTGATA
1 GTTTGAAAATAGTTTTCTTACACAACGAAAAATTAAAATTTTGAAAACCAACCCGGTTTGTAATA
*
15002398 TTTATAGCAATAAACCTTAACCGAATTCGTACTTATGTTTTCAACTTAGTGGACATTCATTGTTC
66 TTTATAGCAATAAACCTTAACCGAATTCGTACATATGTTTTCAACTTAGTGGACATTCATTGTTC
* * *
15002463 -CGAATTTCAACCAAACGATCTTCTCTGCTATTCTCATACTACGAACTACTTCGAGTGTGGGCCC
131 TCGAATTTCAACCAAACGATCTTCTCCGCTATTCTCATACCACGAACTACTTCGAGTGTAGGCCC
* * * *
15002527 AAACCAATTGAATCGAAACACAGAACTAGAAAAAGTTTTCTCCCCT-TTTGGGGTGAAAACGAAA
196 AAACCAATTAAACCAAAACACAAAACTAGAAAAAGTTTTCT-CCCTATTTGGGGTGAAAACGAAA
15002591 ATTCTTTCTTTTTAAT
260 ATTCTTTCTTTTTAAT
15002607 AGAAATCGAT
Statistics
Matches: 240, Mismatches: 32, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
278 121 0.50
279 119 0.50
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (279 bp):
GTTTGAAAATAGTTTTCTTACACAACGAAAAATTAAAATTTTGAAAACCAACCCGGTTTGTAATA
TTTATAGCAATAAACCTTAACCGAATTCGTACATATGTTTTCAACTTAGTGGACATTCATTGTTC
TCGAATTTCAACCAAACGATCTTCTCCGCTATTCTCATACCACGAACTACTTCGAGTGTAGGCCC
AAACCAATTAAACCAAAACACAAAACTAGAAAAAGTTTTCTCCCTATTTGGGGTGAAAACGAAAA
TTCTTTCTTTTTAATCCCG
Found at i:15004580 original size:75 final size:75
Alignment explanation
Indices: 15004499--15004639 Score: 185
Period size: 75 Copynumber: 1.9 Consensus size: 75
15004489 GCTTACATAT
* * * * * *
15004499 ATGTATATGTTCTTTTATTGAATTTAGGAAGGACATTTATATAAGTTTATGTG-AGATTCGATTA
1 ATGTATATGTTCTTGTAATAAATTTAAGAAGGAAATTTATATAAGTATATG-GAAGATTCGATTA
15004563 TGCAGGTATAC
65 TGCAGGTATAC
* * *
15004574 ATGTATATGTTCTTGTAATAAATTTAAGTATGAAATTTATATATGTATATGGAAGATTCGATTAT
1 ATGTATATGTTCTTGTAATAAATTTAAGAAGGAAATTTATATAAGTATATGGAAGATTCGATTAT
15004639 G
66 G
15004640 TATATATATT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
74 1 0.02
75 55 0.98
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.43
Consensus pattern (75 bp):
ATGTATATGTTCTTGTAATAAATTTAAGAAGGAAATTTATATAAGTATATGGAAGATTCGATTAT
GCAGGTATAC
Found at i:15004798 original size:41 final size:41
Alignment explanation
Indices: 15004721--15004800 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
15004711 TGATCGAATG
* * * **
15004721 TTTCAGACTTTATGTCTAGCAGGTTTGATATTGGTGAAATA
1 TTTCAGACTTTATATCTAGCAGGCTTAATACCGGTGAAATA
*
15004762 TTTCAGACTTTATATCTAGCAGGCTTAATGCCGGTGAAA
1 TTTCAGACTTTATATCTAGCAGGCTTAATACCGGTGAAA
15004801 CAATTCGGAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (41 bp):
TTTCAGACTTTATATCTAGCAGGCTTAATACCGGTGAAATA
Found at i:15005035 original size:33 final size:34
Alignment explanation
Indices: 15004988--15005061 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
15004978 GATAGGCATA
** *
15004988 TGTATATATGCATTCAGCTATTCGTG-TTTAAAG
1 TGTATATACACATTCAGCTATTCATGTTTTAAAG
* *
15005021 TGTATATACACATTCGGCTATTCATGTTTTAAAT
1 TGTATATACACATTCAGCTATTCATGTTTTAAAG
15005055 TGTATAT
1 TGTATAT
15005062 GCATTCGGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 22 0.63
34 13 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATATACACATTCAGCTATTCATGTTTTAAAG
Found at i:15011806 original size:10 final size:10
Alignment explanation
Indices: 15011791--15011815 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15011781 TCAAATAAGC
15011791 ATGTATATAT
1 ATGTATATAT
15011801 ATGTATATAT
1 ATGTATATAT
15011811 ATGTA
1 ATGTA
15011816 AATTTCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (10 bp):
ATGTATATAT
Found at i:15011930 original size:6 final size:6
Alignment explanation
Indices: 15011919--15011982 Score: 128
Period size: 6 Copynumber: 10.7 Consensus size: 6
15011909 AAAGTTATGA
15011919 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
15011967 GTATAT GTATAT GTAT
1 GTATAT GTATAT GTAT
15011983 TTAACGCTCG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:15012392 original size:75 final size:75
Alignment explanation
Indices: 15012260--15012400 Score: 169
Period size: 75 Copynumber: 1.9 Consensus size: 75
15012250 TCTTACATAT
* * * * * *
15012260 ATGTATATGTTCTTTTATTGAATTTAGGAAGGACATTTATATAAGTTTATATGAGATTCAATTAT
1 ATGTATATGTTCTTGTAATGAATTTAAGAAGAAAATTTATATAAGTGTATATGAGATTCAATTAT
15012325 GCAGGTATAC
66 GCAGGTATAC
* * *
15012335 ATGTATATGTTCTTGTAATGAATTTAAGTATAAAATTTATAT-A-TGTATATGGAAGATTCGATT
1 ATGTATATGTTCTTGTAATGAATTTAAGAAGAAAATTTATATAAGTGTATAT-G-AGATTCAATT
15012398 ATG
64 ATG
15012401 TATATATATT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
73 6 0.11
74 2 0.04
75 47 0.85
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (75 bp):
ATGTATATGTTCTTGTAATGAATTTAAGAAGAAAATTTATATAAGTGTATATGAGATTCAATTAT
GCAGGTATAC
Found at i:15012792 original size:69 final size:71
Alignment explanation
Indices: 15012712--15012865 Score: 206
Period size: 69 Copynumber: 2.2 Consensus size: 71
15012702 TTGAAGAACA
* * * *
15012712 TGTATATACATTCGGTGATAATACTTGTTAGGC-ATATGTATATA-AGCATTCGGTTGTTCATG-
1 TGTATATACATTCGATGATAATACTTGTTAAGCAATATGTATATACA-CATTCGGCTATTCATGT
15012774 TTTAAAG
65 TTTAAAG
*
15012781 TGTATATACATTCGATGATAATATTTGTTAAGCATATATGTATATACACATTCGGCTATTCATGT
1 TGTATATACATTCGATGATAATACTTGTTAAGCA-ATATGTATATACACATTCGGCTATTCATGT
*
15012846 TTTAAAT
65 TTTAAAG
*
15012853 TGTATATGCATTC
1 TGTATATACATTC
15012866 AATTTTAAGT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
69 30 0.41
71 25 0.34
72 19 0.26
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (71 bp):
TGTATATACATTCGATGATAATACTTGTTAAGCAATATGTATATACACATTCGGCTATTCATGTT
TTAAAG
Found at i:15016078 original size:16 final size:16
Alignment explanation
Indices: 15016036--15016081 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
15016026 ATCATCTCAT
* *
15016036 ATATATATATATATCAC
1 ATAT-TATAAATATTAC
15016053 A-ATTAT-AATATTAC
1 ATATTATAAATATTAC
15016067 ATATTATAAATATTA
1 ATATTATAAATATTA
15016082 TAAACAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 7 0.28
15 8 0.32
16 9 0.36
17 1 0.04
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATTATAAATATTAC
Found at i:15017581 original size:21 final size:21
Alignment explanation
Indices: 15017557--15017599 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
15017547 TCTCACAATG
*
15017557 TAAACGTTCTTACAGTGTCAC
1 TAAACGTTCTTACAGTGCCAC
15017578 TAAACGTTCTTACAGTGCCAC
1 TAAACGTTCTTACAGTGCCAC
15017599 T
1 T
15017600 TATCATCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (21 bp):
TAAACGTTCTTACAGTGCCAC
Found at i:15019424 original size:13 final size:14
Alignment explanation
Indices: 15019391--15019431 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
15019381 AGCTCGATCG
*
15019391 TATTAATTTTTTTA
1 TATTAATTTTTTAA
*
15019405 TATTAATATTTTAA
1 TATTAATTTTTTAA
15019419 TA-TAATTTTTTAA
1 TATTAATTTTTTAA
15019432 AAAATATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TATTAATTTTTTAA
Found at i:15020304 original size:6 final size:6
Alignment explanation
Indices: 15020283--15020318 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
15020273 ATCATGCATT
*
15020283 AAATTA TAATTAA AAATTA AAATTA AAATTA AAATT
1 AAATTA AAATT-A AAATTA AAATTA AAATTA AAATT
15020319 TCAATAGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AAATTA
Found at i:15020991 original size:31 final size:30
Alignment explanation
Indices: 15020946--15021034 Score: 99
Period size: 31 Copynumber: 2.9 Consensus size: 30
15020936 TTAACCCATT
*
15020946 ATTAACTTT-ATTTAATTACATCATATAATA
1 ATTAA-TTTAATTTAATTACATAATATAATA
* * **
15020976 TTTTAATTTAATTTAATCACATTTTATAATA
1 -ATTAATTTAATTTAATTACATAATATAATA
15021007 ATTAATTTAATTTAATTACCATAATATA
1 ATTAATTTAATTTAATTA-CATAATATA
15021035 CACCTCACTA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
30 19 0.40
31 29 0.60
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (30 bp):
ATTAATTTAATTTAATTACATAATATAATA
Found at i:15021207 original size:5 final size:5
Alignment explanation
Indices: 15021197--15021235 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
15021187 CATATATACA
*
15021197 CATAT CATAT CATAT CATAT TATAT CATAT CATAT -ATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
15021236 AATAAAATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (5 bp):
CATAT
Found at i:15027008 original size:30 final size:30
Alignment explanation
Indices: 15026970--15027245 Score: 176
Period size: 30 Copynumber: 9.3 Consensus size: 30
15026960 CCATTGACAG
15026970 TGAAAAGGGATAGCTTCAGCTATCGAAATAA
1 TGAAAAGGGATAGCTTCAGCTATCGAAAT-A
* * * *
15027001 T-AAAAGGGAT-G-GTGACGACCATCGAATTA
1 TGAAAAGGGATAGCTTCA-G-CTATCGAAATA
* * * *
15027030 TGAAAAGGGATAACTTCGGCTATTGAACTA
1 TGAAAAGGGATAGCTTCAGCTATCGAAATA
*
15027060 TGAAAAGGGATAGATTCAGCTATCGAAATA
1 TGAAAAGGGATAGCTTCAGCTATCGAAATA
* *
15027090 TGAAAAGGGATAGCTTTAGCTATCGAATTA
1 TGAAAAGGGATAGCTTCAGCTATCGAAATA
* * * * *
15027120 TGAAAAGGGAT-GGTGACAACCATC-AACTA
1 TGAAAAGGGATAGCT-TCAGCTATCGAAATA
* * * * *
15027149 TGAAAAAGGAT-G-GTGACGACAATCGAATTA
1 TGAAAAGGGATAGCTTCA-G-CTATCGAAATA
* **
15027179 TGAAAAGGAATAGCTTTGGCTATC-AAATTA
1 TGAAAAGGGATAGCTTCAGCTATCGAAA-TA
* *
15027209 TGAAAAGGGATACCTTC-GACTATCG-ATTA
1 TGAAAAGGGATAGCTTCAG-CTATCGAAATA
15027238 TGAAAAGG
1 TGAAAAGG
15027246 AATGGCGACG
Statistics
Matches: 188, Mismatches: 43, Indels: 30
0.72 0.16 0.11
Matches are distributed among these distances:
27 1 0.01
28 2 0.01
29 38 0.20
30 141 0.75
31 4 0.02
32 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (30 bp):
TGAAAAGGGATAGCTTCAGCTATCGAAATA
Found at i:15027052 original size:60 final size:59
Alignment explanation
Indices: 15026970--15027159 Score: 206
Period size: 60 Copynumber: 3.2 Consensus size: 59
15026960 CCATTGACAG
*
15026970 TGAAAAGGGATAGCTTCAGCTATCGAAATAAT-AAAAGGGATGGTGACGACCATCGAATTA
1 TGAAAAGGGATAGCTTCAGCTATCGAAAT-ATGAAAAGGGATGGTGAC-ACCATCGAAATA
* * * * * * *
15027030 TGAAAAGGGATAACTTCGGCTATTGAACTATGAAAAGGGATAGAT-TCAGCTATCGAAATA
1 TGAAAAGGGATAGCTTCAGCTATCGAAATATGAAAAGGGAT-GGTGACA-CCATCGAAATA
* * *
15027090 TGAAAAGGGATAGCTTTAGCTATCGAATTATGAAAAGGGATGGTGACAACCATC-AACTA
1 TGAAAAGGGATAGCTTCAGCTATCGAAATATGAAAAGGGATGGTGAC-ACCATCGAAATA
*
15027149 TGAAAAAGGAT
1 TGAAAAGGGAT
15027160 GGTGACGACA
Statistics
Matches: 107, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
59 19 0.18
60 85 0.79
61 3 0.03
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (59 bp):
TGAAAAGGGATAGCTTCAGCTATCGAAATATGAAAAGGGATGGTGACACCATCGAAATA
Found at i:15027160 original size:29 final size:30
Alignment explanation
Indices: 15027111--15027184 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
15027101 AGCTTTAGCT
* * *
15027111 ATCGAATTATGAAAAGGGATGGTGACAACC
1 ATCGAACTATGAAAAAGGATGGTGACAACA
*
15027141 ATC-AACTATGAAAAAGGATGGTGACGACA
1 ATCGAACTATGAAAAAGGATGGTGACAACA
*
15027170 ATCGAATTATGAAAA
1 ATCGAACTATGAAAA
15027185 GGAATAGCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 25 0.66
30 13 0.34
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.20
Consensus pattern (30 bp):
ATCGAACTATGAAAAAGGATGGTGACAACA
Found at i:15027185 original size:29 final size:30
Alignment explanation
Indices: 15027002--15027290 Score: 157
Period size: 30 Copynumber: 9.7 Consensus size: 30
15026992 TCGAAATAAT
15027002 AAAAGGGATGGTGACGACCATCGAATTATG
1 AAAAGGGATGGTGACGACCATCGAATTATG
** * * * * *
15027032 AAAAGGGATAACT-TCGGCTATTGAACTATG
1 AAAAGGGAT-GGTGACGACCATCGAATTATG
* * * *
15027062 AAAAGGGATAGAT-TC-AGCTATCGAAATATG
1 AAAAGGGAT-GGTGACGA-CCATCGAATTATG
* * *
15027092 AAAAGGGATAGCTTTA-G-CTATCGAATTATG
1 AAAAGGGAT-G-GTGACGACCATCGAATTATG
* *
15027122 AAAAGGGATGGTGACAACCATC-AACTATG
1 AAAAGGGATGGTGACGACCATCGAATTATG
* *
15027151 AAAAAGGATGGTGACGACAATCGAATTATG
1 AAAAGGGATGGTGACGACCATCGAATTATG
* * ** * * *
15027181 AAAAGGAATAGCT-TTGGCTATCAAATTATG
1 AAAAGGGAT-GGTGACGACCATCGAATTATG
** * *
15027211 AAAAGGGATACCT-TCGACTATCG-ATTATG
1 AAAAGGGAT-GGTGACGACCATCGAATTATG
* *
15027240 AAAAGGAATGGCGACGACCATC-AATTATG
1 AAAAGGGATGGTGACGACCATCGAATTATG
*
15027269 AAAATGGATGGTGACGACCATC
1 AAAAGGGATGGTGACGACCATC
15027291 TTGATACCAC
Statistics
Matches: 202, Mismatches: 46, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
28 2 0.01
29 72 0.36
30 124 0.61
31 4 0.02
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.23
Consensus pattern (30 bp):
AAAAGGGATGGTGACGACCATCGAATTATG
Found at i:15027204 original size:59 final size:58
Alignment explanation
Indices: 15027111--15027286 Score: 156
Period size: 59 Copynumber: 3.0 Consensus size: 58
15027101 AGCTTTAGCT
* * * * *
15027111 ATCGAATTATGAAAAGGGATGGTGACAACCATCAACTATGAAAAAGGATGGTGACGACA
1 ATCG-ATTATGAAAAGGAATAGCGACGACCATCAATTATGAAAAAGGATGGTGACGACA
*** * * * ** * *
15027170 ATCGAATTATGAAAAGGAATAGCTTTGGCTATCAAATTATGAAAAGGGATACCT-TCGACT
1 ATCG-ATTATGAAAAGGAATAGCGACGACCATC-AATTATGAAAAAGGAT-GGTGACGACA
* *
15027230 ATCGATTATGAAAAGGAATGGCGACGACCATCAATTATGAAAATGGATGGTGACGAC
1 ATCGATTATGAAAAGGAATAGCGACGACCATCAATTATGAAAAAGGATGGTGACGAC
15027287 CATCTTGATA
Statistics
Matches: 89, Mismatches: 25, Indels: 7
0.74 0.21 0.06
Matches are distributed among these distances:
57 1 0.01
58 19 0.21
59 46 0.52
60 22 0.25
61 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.23
Consensus pattern (58 bp):
ATCGATTATGAAAAGGAATAGCGACGACCATCAATTATGAAAAAGGATGGTGACGACA
Found at i:15027240 original size:89 final size:89
Alignment explanation
Indices: 15027081--15027272 Score: 228
Period size: 89 Copynumber: 2.2 Consensus size: 89
15027071 AGATTCAGCT
* * * **
15027081 ATCGAAATATGAAAAGGGATAGCTTTAGCTATCGAATTATGAAAAGGGATGGTGACAACCATCAA
1 ATCGAATTATGAAAAGGAATAGCTTTAGCTATCAAATTATGAAAAGGGATCCTGACAACCATCAA
*
15027146 CTATGAAAAAGG-ATGGTGACGACA
66 CTATG-AAAAGGAATGGCGACGACA
* * * * *
15027170 ATCGAATTATGAAAAGGAATAGCTTTGGCTATCAAATTATGAAAAGGGATACCT-TCGACTATCG
1 ATCGAATTATGAAAAGGAATAGCTTTAGCTATCAAATTATGAAAAGGGAT-CCTGACAACCATCA
* *
15027234 ATTATGAAAAGGAATGGCGACGACC
65 ACTATGAAAAGGAATGGCGACGACA
15027259 ATC-AATTATGAAAA
1 ATCGAATTATGAAAA
15027273 TGGATGGTGA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
88 17 0.19
89 70 0.80
90 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.23
Consensus pattern (89 bp):
ATCGAATTATGAAAAGGAATAGCTTTAGCTATCAAATTATGAAAAGGGATCCTGACAACCATCAA
CTATGAAAAGGAATGGCGACGACA
Found at i:15033501 original size:30 final size:30
Alignment explanation
Indices: 15033463--15033738 Score: 176
Period size: 30 Copynumber: 9.3 Consensus size: 30
15033453 CCATTGACAG
15033463 TGAAAAGGGATAGCTTCAGCTATCGAAATAA
1 TGAAAAGGGATAGCTTCAGCTATCGAAAT-A
* * * *
15033494 T-AAAAGGGAT-G-GTGACGACCATCGAATTA
1 TGAAAAGGGATAGCTTCA-G-CTATCGAAATA
* * * *
15033523 TGAAAAGGGATAACTTCGGCTATTGAACTA
1 TGAAAAGGGATAGCTTCAGCTATCGAAATA
*
15033553 TGAAAAGGGATAGATTCAGCTATCGAAATA
1 TGAAAAGGGATAGCTTCAGCTATCGAAATA
* *
15033583 TGAAAAGGGATAGCTTTAGCTATCGAATTA
1 TGAAAAGGGATAGCTTCAGCTATCGAAATA
* * * * *
15033613 TGAAAAGGGAT-GGTGACAACCATC-AACTA
1 TGAAAAGGGATAGCT-TCAGCTATCGAAATA
* * * * *
15033642 TGAAAAAGGAT-G-GTGACGACAATCGAATTA
1 TGAAAAGGGATAGCTTCA-G-CTATCGAAATA
* **
15033672 TGAAAAGGAATAGCTTTGGCTATC-AAATTA
1 TGAAAAGGGATAGCTTCAGCTATCGAAA-TA
* *
15033702 TGAAAAGGGATACCTTC-GACTATCG-ATTA
1 TGAAAAGGGATAGCTTCAG-CTATCGAAATA
15033731 TGAAAAGG
1 TGAAAAGG
15033739 AATGGCGACG
Statistics
Matches: 188, Mismatches: 43, Indels: 30
0.72 0.16 0.11
Matches are distributed among these distances:
27 1 0.01
28 2 0.01
29 38 0.20
30 141 0.75
31 4 0.02
32 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (30 bp):
TGAAAAGGGATAGCTTCAGCTATCGAAATA
Found at i:15033545 original size:60 final size:59
Alignment explanation
Indices: 15033463--15033652 Score: 206
Period size: 60 Copynumber: 3.2 Consensus size: 59
15033453 CCATTGACAG
*
15033463 TGAAAAGGGATAGCTTCAGCTATCGAAATAAT-AAAAGGGATGGTGACGACCATCGAATTA
1 TGAAAAGGGATAGCTTCAGCTATCGAAAT-ATGAAAAGGGATGGTGAC-ACCATCGAAATA
* * * * * * *
15033523 TGAAAAGGGATAACTTCGGCTATTGAACTATGAAAAGGGATAGAT-TCAGCTATCGAAATA
1 TGAAAAGGGATAGCTTCAGCTATCGAAATATGAAAAGGGAT-GGTGACA-CCATCGAAATA
* * *
15033583 TGAAAAGGGATAGCTTTAGCTATCGAATTATGAAAAGGGATGGTGACAACCATC-AACTA
1 TGAAAAGGGATAGCTTCAGCTATCGAAATATGAAAAGGGATGGTGAC-ACCATCGAAATA
*
15033642 TGAAAAAGGAT
1 TGAAAAGGGAT
15033653 GGTGACGACA
Statistics
Matches: 107, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
59 19 0.18
60 85 0.79
61 3 0.03
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (59 bp):
TGAAAAGGGATAGCTTCAGCTATCGAAATATGAAAAGGGATGGTGACACCATCGAAATA
Found at i:15033653 original size:29 final size:30
Alignment explanation
Indices: 15033604--15033677 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
15033594 AGCTTTAGCT
* * *
15033604 ATCGAATTATGAAAAGGGATGGTGACAACC
1 ATCGAACTATGAAAAAGGATGGTGACAACA
*
15033634 ATC-AACTATGAAAAAGGATGGTGACGACA
1 ATCGAACTATGAAAAAGGATGGTGACAACA
*
15033663 ATCGAATTATGAAAA
1 ATCGAACTATGAAAA
15033678 GGAATAGCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 25 0.66
30 13 0.34
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.20
Consensus pattern (30 bp):
ATCGAACTATGAAAAAGGATGGTGACAACA
Found at i:15033678 original size:29 final size:30
Alignment explanation
Indices: 15033495--15033783 Score: 157
Period size: 30 Copynumber: 9.7 Consensus size: 30
15033485 TCGAAATAAT
15033495 AAAAGGGATGGTGACGACCATCGAATTATG
1 AAAAGGGATGGTGACGACCATCGAATTATG
** * * * * *
15033525 AAAAGGGATAACT-TCGGCTATTGAACTATG
1 AAAAGGGAT-GGTGACGACCATCGAATTATG
* * * *
15033555 AAAAGGGATAGAT-TC-AGCTATCGAAATATG
1 AAAAGGGAT-GGTGACGA-CCATCGAATTATG
* * *
15033585 AAAAGGGATAGCTTTA-G-CTATCGAATTATG
1 AAAAGGGAT-G-GTGACGACCATCGAATTATG
* *
15033615 AAAAGGGATGGTGACAACCATC-AACTATG
1 AAAAGGGATGGTGACGACCATCGAATTATG
* *
15033644 AAAAAGGATGGTGACGACAATCGAATTATG
1 AAAAGGGATGGTGACGACCATCGAATTATG
* * ** * * *
15033674 AAAAGGAATAGCT-TTGGCTATCAAATTATG
1 AAAAGGGAT-GGTGACGACCATCGAATTATG
** * *
15033704 AAAAGGGATACCT-TCGACTATCG-ATTATG
1 AAAAGGGAT-GGTGACGACCATCGAATTATG
* *
15033733 AAAAGGAATGGCGACGACCATC-AATTATG
1 AAAAGGGATGGTGACGACCATCGAATTATG
*
15033762 AAAATGGATGGTGACGACCATC
1 AAAAGGGATGGTGACGACCATC
15033784 TTGATACCAC
Statistics
Matches: 202, Mismatches: 46, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
28 2 0.01
29 72 0.36
30 124 0.61
31 4 0.02
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.23
Consensus pattern (30 bp):
AAAAGGGATGGTGACGACCATCGAATTATG
Found at i:15033697 original size:59 final size:58
Alignment explanation
Indices: 15033604--15033779 Score: 156
Period size: 59 Copynumber: 3.0 Consensus size: 58
15033594 AGCTTTAGCT
* * * * *
15033604 ATCGAATTATGAAAAGGGATGGTGACAACCATCAACTATGAAAAAGGATGGTGACGACA
1 ATCG-ATTATGAAAAGGAATAGCGACGACCATCAATTATGAAAAAGGATGGTGACGACA
*** * * * ** * *
15033663 ATCGAATTATGAAAAGGAATAGCTTTGGCTATCAAATTATGAAAAGGGATACCT-TCGACT
1 ATCG-ATTATGAAAAGGAATAGCGACGACCATC-AATTATGAAAAAGGAT-GGTGACGACA
* *
15033723 ATCGATTATGAAAAGGAATGGCGACGACCATCAATTATGAAAATGGATGGTGACGAC
1 ATCGATTATGAAAAGGAATAGCGACGACCATCAATTATGAAAAAGGATGGTGACGAC
15033780 CATCTTGATA
Statistics
Matches: 89, Mismatches: 25, Indels: 7
0.74 0.21 0.06
Matches are distributed among these distances:
57 1 0.01
58 19 0.21
59 46 0.52
60 22 0.25
61 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.23
Consensus pattern (58 bp):
ATCGATTATGAAAAGGAATAGCGACGACCATCAATTATGAAAAAGGATGGTGACGACA
Found at i:15033733 original size:89 final size:89
Alignment explanation
Indices: 15033574--15033765 Score: 228
Period size: 89 Copynumber: 2.2 Consensus size: 89
15033564 AGATTCAGCT
* * * **
15033574 ATCGAAATATGAAAAGGGATAGCTTTAGCTATCGAATTATGAAAAGGGATGGTGACAACCATCAA
1 ATCGAATTATGAAAAGGAATAGCTTTAGCTATCAAATTATGAAAAGGGATCCTGACAACCATCAA
*
15033639 CTATGAAAAAGG-ATGGTGACGACA
66 CTATG-AAAAGGAATGGCGACGACA
* * * * *
15033663 ATCGAATTATGAAAAGGAATAGCTTTGGCTATCAAATTATGAAAAGGGATACCT-TCGACTATCG
1 ATCGAATTATGAAAAGGAATAGCTTTAGCTATCAAATTATGAAAAGGGAT-CCTGACAACCATCA
* *
15033727 ATTATGAAAAGGAATGGCGACGACC
65 ACTATGAAAAGGAATGGCGACGACA
15033752 ATC-AATTATGAAAA
1 ATCGAATTATGAAAA
15033766 TGGATGGTGA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
88 17 0.19
89 70 0.80
90 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.23
Consensus pattern (89 bp):
ATCGAATTATGAAAAGGAATAGCTTTAGCTATCAAATTATGAAAAGGGATCCTGACAACCATCAA
CTATGAAAAGGAATGGCGACGACA
Found at i:15039998 original size:16 final size:16
Alignment explanation
Indices: 15039979--15040015 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
15039969 TGTTAATTTT
15039979 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
15039995 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
15040011 AATGT
1 AATGT
15040016 AGGGACTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.49, C:0.03, G:0.19, T:0.30
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:15040810 original size:36 final size:36
Alignment explanation
Indices: 15040731--15040817 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 36
15040721 AGTAAAAGAC
* **
15040731 TCTACTGATATACTGAATAAATCTCATGGAATGTTA
1 TCTACTGATATACTGAAGAAATCTCATGGAATGAAA
* * *
15040767 TCCACTGATATACTGAAGAAA-CTCAATTGAGTGAAA
1 TCTACTGATATACTGAAGAAATCTC-ATGGAATGAAA
15040803 TCTACTGATATACTG
1 TCTACTGATATACTG
15040818 GGTAAAGCTC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 3 0.07
36 40 0.93
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (36 bp):
TCTACTGATATACTGAAGAAATCTCATGGAATGAAA
Found at i:15042024 original size:18 final size:18
Alignment explanation
Indices: 15041986--15042030 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
15041976 TGAATATTAC
15041986 TTGTAATTATGGAATTGAA
1 TTGT-ATTATGGAATTGAA
*
15042005 TTG-ATTATTGAATGTGAA
1 TTGTATTATGGAAT-TGAA
15042023 TTGTATTA
1 TTGTATTA
15042031 ACTGTTCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 9 0.39
18 7 0.30
19 7 0.30
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (18 bp):
TTGTATTATGGAATTGAA
Found at i:15045724 original size:19 final size:19
Alignment explanation
Indices: 15045702--15045739 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15045692 TCAATCATTC
15045702 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
15045721 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
15045740 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:15047688 original size:21 final size:22
Alignment explanation
Indices: 15047664--15047707 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
15047654 GTAAGTTATC
15047664 ATGAAGAATT-T-ATAGAATTTT
1 ATGAAGAATTATCATAG-ATTTT
*
15047685 ATGATGAATTATCATAGATTTT
1 ATGAAGAATTATCATAGATTTT
15047707 A
1 A
15047708 AGCTTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 7 0.35
23 4 0.20
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (22 bp):
ATGAAGAATTATCATAGATTTT
Found at i:15048389 original size:46 final size:46
Alignment explanation
Indices: 15048318--15048456 Score: 217
Period size: 46 Copynumber: 3.0 Consensus size: 46
15048308 CATGGCAAAG
*
15048318 TGTGGAACA-TAGGTATGGTAATTCAGTAAAGAAAACCATACTGAGT
1 TGTGGAA-AGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
* *
15048364 TGTGGAATGTAGGTATGGTATTTCAGTAACGAAAACCATACTGAGT
1 TGTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
* *
15048410 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
15048456 T
1 T
15048457 ATAGCATTGT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
Found at i:15051359 original size:27 final size:26
Alignment explanation
Indices: 15051329--15051381 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
15051319 TGGTTTCAGT
*
15051329 AAAATTATTT-TTAATTTAATTTTAATA
1 AAAATAATTTATTAATTT--TTTTAATA
15051356 AAAATAATTTAATTAATTTTTTTAAT
1 AAAATAATTT-ATTAATTTTTTTAAT
15051382 TTCTAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 16 0.70
29 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AAAATAATTTATTAATTTTTTTAATA
Found at i:15051627 original size:81 final size:85
Alignment explanation
Indices: 15051541--15051710 Score: 195
Period size: 91 Copynumber: 2.0 Consensus size: 85
15051531 GTGTAAAAAA
*
15051541 CCCTCAAAC-TTAAAAAAA-AATTAAGCCCCTA-TT-TTATTTCACCCAATTGGGTACTTGAACT
1 CCCTCAAACTTTAAAAAAACAACTAAGCCCCTACTTATTATTTCACCCAATTGGGTACTTGAACT
** *
15051602 TTCAAAATGTATCAAAAATG
66 GCCAAAATGCATCAAAAATG
* * *
15051622 CCCTCAAACTTTTTTTAAAAAAAGCAACTAATCCCCTACCTTATTTTTTCACTCAATTGGGTACT
1 CCCTCAAAC----TTTAAAAAAA-CAACTAAGCCCCTA-CTTATTATTTCACCCAATTGGGTACT
15051687 TGAACTGCCAAAATGCATCAAAAA
60 TGAACTGCCAAAATGCATCAAAAA
15051711 GGTTCTTTGA
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
81 9 0.12
86 9 0.12
88 11 0.15
90 2 0.03
91 41 0.57
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (85 bp):
CCCTCAAACTTTAAAAAAACAACTAAGCCCCTACTTATTATTTCACCCAATTGGGTACTTGAACT
GCCAAAATGCATCAAAAATG
Found at i:15051901 original size:28 final size:26
Alignment explanation
Indices: 15051853--15051904 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
15051843 AAAGATTATA
15051853 AAAATTATTAAATTTTAATAAAAAAT
1 AAAATTATTAAATTTTAATAAAAAAT
*
15051879 AAAATTATTGAAAATTTTTATAAAAA
1 AAAATTATT--AAATTTTAATAAAAA
15051905 TTACAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
28 14 0.61
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
AAAATTATTAAATTTTAATAAAAAAT
Found at i:15052218 original size:19 final size:19
Alignment explanation
Indices: 15052196--15052251 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
15052186 TTATAAAGTC
15052196 GTAAGAAAATTATAAAAAT-
1 GTAA-AAAATTATAAAAATA
*
15052215 GTAAAGAAA-TATAAAATTA
1 GTAAA-AAATTATAAAAATA
*
15052234 GTAACAAATTATAAAAAT
1 GTAAAAAATTATAAAAAT
15052252 TATCGTACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 12 0.39
19 19 0.61
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (19 bp):
GTAAAAAATTATAAAAATA
Found at i:15052253 original size:9 final size:9
Alignment explanation
Indices: 15052201--15052254 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
15052191 AAGTCGTAAG
15052201 AAAATTATA
1 AAAATTATA
15052210 AAAATGTA-A
1 AAAAT-TATA
15052219 AGAAA-TAT-
1 A-AAATTATA
15052227 AAAATTAGTA
1 AAAATTA-TA
15052237 ACAAATTATA
1 A-AAATTATA
15052247 AAAATTAT
1 AAAATTAT
15052255 CGTACCAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
7 3 0.08
8 5 0.13
9 15 0.39
10 9 0.24
11 6 0.16
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.30
Consensus pattern (9 bp):
AAAATTATA
Found at i:15052311 original size:16 final size:15
Alignment explanation
Indices: 15052290--15052319 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15052280 TTTTCTATAT
15052290 TTTTTATTGATTTTTA
1 TTTTTATT-ATTTTTA
15052306 TTTTTATTATTTTT
1 TTTTTATTATTTTT
15052320 CACCACATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTTATTATTTTTA
Found at i:15052451 original size:20 final size:20
Alignment explanation
Indices: 15052426--15052487 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
15052416 TTAAAGGGTC
15052426 TTTTTTATGCA-TTTTATAAT
1 TTTTTTATG-ATTTTTATAAT
15052446 TTTTTTATGATTTTTATAA-
1 TTTTTTATGATTTTTATAAT
** *
15052465 AATTTTAT-ATTTTTACAAT
1 TTTTTTATGATTTTTATAAT
15052484 TTTT
1 TTTT
15052488 ATAAAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 9 0.26
19 9 0.26
20 17 0.49
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTTTATGATTTTTATAAT
Found at i:15052494 original size:28 final size:27
Alignment explanation
Indices: 15052455--15052507 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
15052445 TTTTTTTATG
*
15052455 ATTTTTAT-AAAATTTTATATTTTTACA
1 ATTTTTATAAAAAATTTA-ATTTTTACA
15052482 ATTTTTATAAAAAAATTTAATTTTTA
1 ATTTTTAT-AAAAAATTTAATTTTTA
15052508 ATAAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 8 0.35
28 7 0.30
29 8 0.35
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTTTTATAAAAAATTTAATTTTTACA
Found at i:15052505 original size:19 final size:19
Alignment explanation
Indices: 15052481--15052538 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 19
15052471 ATATTTTTAC
*
15052481 AATTTTTATAAAAAAATTT
1 AATTTTTATATAAAAATTT
**
15052500 AATTTTTA-ATAAATTTTT
1 AATTTTTATATAAAAATTT
*
15052518 AATTTTT-TATTAAAATTT
1 AATTTTTATATAAAAATTT
15052536 AAT
1 AAT
15052539 AATTTTTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 24 0.75
19 8 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTTTATATAAAAATTT
Found at i:15052870 original size:89 final size:87
Alignment explanation
Indices: 15052691--15052960 Score: 353
Period size: 89 Copynumber: 3.0 Consensus size: 87
15052681 AAGGACATTG
* * * *
15052691 TTGATGCATTTTGACAGTCCAAGTACCCAATTGAGTGGAAAAAAAAAGCAGGGCCTTAATTGTTT
1 TTGATGCATTTTGAAAGTTCAAGTACCCAATTAAGT-GAAAAAAAAAGCAGGGGCTTAA-TGTTT
* *
15052756 TTTCTGAAAAAGTTTGAGGGTCTTT
64 TTTTTGAAAAAATTTGAGGG-CTTT
15052781 TTGATGCATTTTGAAAGTTCAAGTACCCAATTAAGTGAAAAAAAAAGCAGGGGCTTAATGATTTT
1 TTGATGCATTTTGAAAGTTCAAGTACCCAATTAAGTGAAAAAAAAAGCAGGGGCTTAATG-TTTT
*
15052846 TTTTGAAAAAAATTGAGGGCCTTT
65 TTTTGAAAAAATTTGAGGG-CTTT
* * * *
15052870 TTGATGCATTTTGAAAGTTTAAGTACCCAATTAAGTGTAACAAAAAGC-GGGGACTTAATTTTTT
1 TTGATGCATTTTGAAAGTTCAAGTACCCAATTAAGTGAAAAAAAAAGCAGGGG-CTTAA-TGTTT
*
15052934 TTTTTCAAAAAAGTTTGAGGGCTTT
64 TTTTTGAAAAAA-TTTGAGGGCTTT
15052959 TT
1 TT
15052961 ACACTATTAA
Statistics
Matches: 162, Mismatches: 14, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
88 6 0.04
89 115 0.71
90 41 0.25
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.35
Consensus pattern (87 bp):
TTGATGCATTTTGAAAGTTCAAGTACCCAATTAAGTGAAAAAAAAAGCAGGGGCTTAATGTTTTT
TTTGAAAAAATTTGAGGGCTTT
Found at i:15054232 original size:31 final size:31
Alignment explanation
Indices: 15054157--15054220 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
15054147 TCATTCAATT
15054157 TTTAAAATTTACATAATGATTATTAATATTA
1 TTTAAAATTTACATAATGATTATTAATATTA
*
15054188 TTTAAAATTTACATAATGATTATTTATATTA
1 TTTAAAATTTACATAATGATTATTAATATTA
15054219 TT
1 TT
15054221 GAATTCTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (31 bp):
TTTAAAATTTACATAATGATTATTAATATTA
Found at i:15057978 original size:31 final size:31
Alignment explanation
Indices: 15057943--15058271 Score: 310
Period size: 31 Copynumber: 10.6 Consensus size: 31
15057933 CATTGTCAAA
**
15057943 TTGATTTGTATAGAGATATACATTTTCGAAT
1 TTGATTTGTATAGAGATATACATTGCCGAAT
* * * *
15057974 TTGATTTGTTTATAGATATACATTGCCCAAA
1 TTGATTTGTATAGAGATATACATTGCCGAAT
* * * * * *
15058005 TTAAATTGTTTATAGATATACATTGTCTAAT
1 TTGATTTGTATAGAGATATACATTGCCGAAT
* * *
15058036 TTGAATTGTTTATAGATATACATTGCCGAAT
1 TTGATTTGTATAGAGATATACATTGCCGAAT
*
15058067 TTGATTTGTATATG-GTTATACATTGCCGAAT
1 TTGATTTGTATA-GAGATATACATTGCCGAAT
* * *
15058098 TTGATTTGTATATG-GTTATACATTACCGATT
1 TTGATTTGTATA-GAGATATACATTGCCGAAT
* **
15058129 TTGATTTGTATATAGATATACATTGTTGAAT
1 TTGATTTGTATAGAGATATACATTGCCGAAT
* * *
15058160 TTGATTTATATATG-GTTATACATTACCGAAT
1 TTGATTTGTATA-GAGATATACATTGCCGAAT
* *
15058191 TTGATTTGTATATG-GATATTCATTGCCGGA-
1 TTGATTTGTATA-GAGATATACATTGCCGAAT
*
15058221 TTGATTTGTATATAGATATACATTGCCGAAT
1 TTGATTTGTATAGAGATATACATTGCCGAAT
*
15058252 TTGATTCGTATATG-GATATA
1 TTGATTTGTATA-GAGATATA
15058272 TATATTACCG
Statistics
Matches: 250, Mismatches: 42, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
30 26 0.10
31 224 0.90
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (31 bp):
TTGATTTGTATAGAGATATACATTGCCGAAT
Found at i:15058024 original size:62 final size:62
Alignment explanation
Indices: 15057943--15058271 Score: 390
Period size: 62 Copynumber: 5.3 Consensus size: 62
15057933 CATTGTCAAA
* * * * *
15057943 TTGATTTGTATAGAGATATACATTTTCGAATTTGATTTGTTTATAGATATACATTGCCCAAA
1 TTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATAGATATACATTGCCGAAT
* * * * * *
15058005 TTAAATTGTTTATAGATATACATTGTCTAATTTGAATTGTTTATAGATATACATTGCCGAAT
1 TTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATAGATATACATTGCCGAAT
* * * * * * *
15058067 TTGATTTGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGTTATACATTACCGATT
1 TTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATAGATATACATTGCCGAAT
* * * * *
15058129 TTGATTTGTATATAGATATACATTGTTGAATTTGATTTATATATGGTTATACATTACCGAAT
1 TTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATAGATATACATTGCCGAAT
* * * *
15058191 TTGATTTGTATATGGATATTCATTGCCGGA-TTGATTTGTATATAGATATACATTGCCGAAT
1 TTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATAGATATACATTGCCGAAT
* *
15058252 TTGATTCGTATATGGATATA
1 TTGATTTGTATATAGATATA
15058272 TATATTACCG
Statistics
Matches: 228, Mismatches: 39, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
61 45 0.20
62 183 0.80
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (62 bp):
TTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATAGATATACATTGCCGAAT
Found at i:15058071 original size:93 final size:93
Alignment explanation
Indices: 15057943--15058271 Score: 408
Period size: 93 Copynumber: 3.5 Consensus size: 93
15057933 CATTGTCAAA
* ** * * * * *
15057943 TTGATTTGTATAGAGATATACATTTTCGAATTTGATTTGTTTATAGATATACATTGCCCAAATTA
1 TTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTTG
* * * * *
15058008 AATTGTTTATAGATATACATTGTCTAAT
66 ATTTGTATATGGATATACATTGCCGAAT
* * *
15058036 TTGAATTGTTTATAGATATACATTGCCGAATTTGATTTGTATATGGTTATACATTGCCGAATTTG
1 TTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTTG
* * *
15058101 ATTTGTATATGGTTATACATTACCGATT
66 ATTTGTATATGGATATACATTGCCGAAT
** * * *
15058129 TTGATTTGTATATAGATATACATTGTTGAATTTGATTTATATATGGTTATACATTACCGAATTTG
1 TTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTTG
* *
15058194 ATTTGTATATGGATATTCATTGCCGGA-
66 ATTTGTATATGGATATACATTGCCGAAT
*
15058221 TTGATTTGTATATAGATATACATTGCCGAATTTGATTCGTATATGGATATA
1 TTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGATATA
15058272 TATATTACCG
Statistics
Matches: 201, Mismatches: 35, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
92 46 0.23
93 155 0.77
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (93 bp):
TTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTTG
ATTTGTATATGGATATACATTGCCGAAT
Found at i:15058525 original size:41 final size:40
Alignment explanation
Indices: 15058407--15058533 Score: 139
Period size: 43 Copynumber: 3.0 Consensus size: 40
15058397 TTCCGAGGTG
15058407 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGA-A
1 TGATTT-GTGTAAGACCATGTCTGGGACATTGGCATCGATA
** *
15058447 GTGAGAAAATGTGTAAGACCATGTCTGGGGCATTGGCATCGTATA
1 -T--G-ATTTGTGTAAGACCATGTCTGGGACATTGGCATCG-ATA
* * *
15058492 TGATTTGTATAAGACCCTGTCTGGGACAATGGCATCGATA
1 TGATTTGTGTAAGACCATGTCTGGGACATTGGCATCGATA
15058532 TG
1 TG
15058534 CGTTAACATG
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
40 5 0.07
41 30 0.42
42 1 0.01
43 31 0.43
44 4 0.06
45 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (40 bp):
TGATTTGTGTAAGACCATGTCTGGGACATTGGCATCGATA
Found at i:15068231 original size:33 final size:34
Alignment explanation
Indices: 15068194--15068328 Score: 123
Period size: 33 Copynumber: 3.8 Consensus size: 34
15068184 TCCTCCAAGG
15068194 GGTTGCTAAGTGCTGATTCC-CCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGATTCATTGGT
15068227 GGTTGCTAAGTGCTGATTCCACCG-TATCATTGAATGT
1 GGTTGCTAAGTGCTGATTCCACCGAT-TCATTG---GT
* * *
15068264 GAAAGGGGTTGCTAAGTGCTGATTCC-CTGAATCACTGGT
1 ------GGTTGCTAAGTGCTGATTCCACCGATTCATTGGT
*
15068303 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCCACCGAT
15068329 AACGGATAAC
Statistics
Matches: 83, Mismatches: 6, Indels: 25
0.73 0.05 0.22
Matches are distributed among these distances:
33 40 0.48
34 12 0.14
37 2 0.02
39 2 0.02
42 7 0.08
43 20 0.24
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (34 bp):
GGTTGCTAAGTGCTGATTCCACCGATTCATTGGT
Found at i:15071612 original size:19 final size:19
Alignment explanation
Indices: 15071570--15071626 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
15071560 TGTAATGAAA
15071570 GAAAGAAAGAAAAAGA-AAT
1 GAAA-AAAGAAAAAGAGAAT
*
15071589 CAAAAAAGAAAAAGAGAAT
1 GAAAAAAGAAAAAGAGAAT
15071608 GAAAAAGAGCAAAAAGAGA
1 GAAAAA-AG-AAAAAGAGA
15071627 TTGAGAGTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 11 0.33
19 11 0.33
20 2 0.06
21 9 0.27
ACGTcount: A:0.72, C:0.04, G:0.21, T:0.04
Consensus pattern (19 bp):
GAAAAAAGAAAAAGAGAAT
Found at i:15083370 original size:19 final size:19
Alignment explanation
Indices: 15083343--15083382 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15083333 GTATTGAGAG
*
15083343 GAATTTGAGAGAGAATTGA
1 GAATGTGAGAGAGAATTGA
*
15083362 GAATGTGAGAGAGAGTTGA
1 GAATGTGAGAGAGAATTGA
15083381 GA
1 GA
15083383 TTGAATTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.23
Consensus pattern (19 bp):
GAATGTGAGAGAGAATTGA
Found at i:15084036 original size:1 final size:1
Alignment explanation
Indices: 15084032--15084066 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
15084022 AGAACAGAGC
15084032 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15084067 GAAAGAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15090439 original size:18 final size:18
Alignment explanation
Indices: 15090416--15090451 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15090406 TCAATCTAAA
15090416 GTGAAAGCAAGCAACCCT
1 GTGAAAGCAAGCAACCCT
15090434 GTGAAAGCAAGCAACCCT
1 GTGAAAGCAAGCAACCCT
15090452 AATCACAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.22, T:0.11
Consensus pattern (18 bp):
GTGAAAGCAAGCAACCCT
Found at i:15091228 original size:22 final size:22
Alignment explanation
Indices: 15091203--15091249 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
15091193 GAGCCGTGGA
*
15091203 GGACCGAAGATGGATCGTTGCC
1 GGACCGAAGATGGATCGGTGCC
* * *
15091225 GGACCGGAGGTGGATTGGTGCC
1 GGACCGAAGATGGATCGGTGCC
15091247 GGA
1 GGA
15091250 GGTGAATGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.45, T:0.17
Consensus pattern (22 bp):
GGACCGAAGATGGATCGGTGCC
Found at i:15091382 original size:22 final size:22
Alignment explanation
Indices: 15091357--15091398 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15091347 GTGGAGGGCC
*
15091357 GGAGGTGGATTGGTGCCGGACT
1 GGAGGTGGATCGGTGCCGGACT
15091379 GGAGGTGGATCGGTGCCGGA
1 GGAGGTGGATCGGTGCCGGA
15091399 GGTGAAGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.52, T:0.19
Consensus pattern (22 bp):
GGAGGTGGATCGGTGCCGGACT
Found at i:15092250 original size:16 final size:16
Alignment explanation
Indices: 15092217--15092246 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15092207 CGTATAAACT
15092217 TATAAAAAATATATAG
1 TATAAAAAATATATAG
15092233 TATAAAAAAT-TATA
1 TATAAAAAATATATA
15092247 AGTAGATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
TATAAAAAATATATAG
Found at i:15095154 original size:35 final size:35
Alignment explanation
Indices: 15095108--15095233 Score: 180
Period size: 35 Copynumber: 3.6 Consensus size: 35
15095098 GTTGATATTC
*
15095108 TGATTTGCATGTTAAGCATGCTATTATTCTGATTT
1 TGATTCGCATGTTAAGCATGCTATTATTCTGATTT
*
15095143 TGATTCACATGTTAAGCATGCTATTATTCTGATTT
1 TGATTCGCATGTTAAGCATGCTATTATTCTGATTT
* ** *
15095178 TGATTTGCATGTTAAGCATGCTGCTATACTGATTT
1 TGATTCGCATGTTAAGCATGCTATTATTCTGATTT
* *
15095213 TGATTCGCATGTAAAGTATGC
1 TGATTCGCATGTTAAGCATGC
15095234 CTACTAAAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 81 1.00
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (35 bp):
TGATTCGCATGTTAAGCATGCTATTATTCTGATTT
Found at i:15095419 original size:49 final size:49
Alignment explanation
Indices: 15095331--15095430 Score: 130
Period size: 49 Copynumber: 2.0 Consensus size: 49
15095321 AGTATACCCG
* *
15095331 CAATATTCTGTATTTGGCAGCTTGACGACAATATATGGTGGCTTGACCA
1 CAATATTCTGTATCTGGCAGCTTGACGACAATATATGGTGACTTGACCA
* * * *
15095380 CAATATTCTGTATCTGGCAGCTTTACTG-CATTATCTGGTGACTTGTCCA
1 CAATATTCTGTATCTGGCAGCTTGAC-GACAATATATGGTGACTTGACCA
15095429 CA
1 CA
15095431 TAATTGGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
49 43 0.98
50 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (49 bp):
CAATATTCTGTATCTGGCAGCTTGACGACAATATATGGTGACTTGACCA
Found at i:15101029 original size:3 final size:3
Alignment explanation
Indices: 15101021--15101058 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
15101011 TGAATCTAAT
15101021 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA AC
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA AC
15101059 TAGATAGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:15101068 original size:4 final size:4
Alignment explanation
Indices: 15101059--15101217 Score: 318
Period size: 4 Copynumber: 39.8 Consensus size: 4
15101049 CAACAACAAC
15101059 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
15101107 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
15101155 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
15101203 TAGA TAGA TAGA TAG
1 TAGA TAGA TAGA TAG
15101218 TGCTTTAAAA
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 155 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
TAGA
Found at i:15101801 original size:18 final size:18
Alignment explanation
Indices: 15101778--15101812 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15101768 AATTATTTTA
15101778 TTCTGTAGCAAACGTCGT
1 TTCTGTAGCAAACGTCGT
*
15101796 TTCTGTAGCAAAGGTCG
1 TTCTGTAGCAAACGTCG
15101813 ACGTTAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (18 bp):
TTCTGTAGCAAACGTCGT
Found at i:15106329 original size:25 final size:25
Alignment explanation
Indices: 15106265--15106330 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
15106255 GTGCTTGGAT
15106265 TGTAATTAAGTAATAAGTTAGTAGA
1 TGTAATTAAGTAATAAGTTAGTAGA
* *
15106290 TGTACATATCA--AATAAGTTAGTAGG
1 TGTA-AT-TAAGTAATAAGTTAGTAGA
15106315 TGTAATTAAGTAATAA
1 TGTAATTAAGTAATAA
15106331 TTAATTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 2 0.06
24 2 0.06
25 26 0.76
26 2 0.06
27 2 0.06
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (25 bp):
TGTAATTAAGTAATAAGTTAGTAGA
Found at i:15109900 original size:32 final size:30
Alignment explanation
Indices: 15109836--15109900 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
15109826 TTTTCTTTTC
* *
15109836 TTCTTTTTTCTTCTTATTTTTGAGTTAGTT
1 TTCTTTTTTCTTCTTATTTTTGAGTAAATT
* *
15109866 TTCTTTTTTTTTCTTTTTCTTTAGAGTAAATT
1 TTCTTTTTTCTTCTTATT-TTT-GAGTAAATT
15109898 TTC
1 TTC
15109901 ACTGTTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 16 0.55
31 3 0.10
32 10 0.34
ACGTcount: A:0.12, C:0.11, G:0.08, T:0.69
Consensus pattern (30 bp):
TTCTTTTTTCTTCTTATTTTTGAGTAAATT
Found at i:15114967 original size:19 final size:19
Alignment explanation
Indices: 15114943--15114980 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15114933 CTTTGAATGG
15114943 AAAACTAATGAACTAGCAA
1 AAAACTAATGAACTAGCAA
15114962 AAAACTAATGAACTAGCAA
1 AAAACTAATGAACTAGCAA
15114981 GCAAAGTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.16, G:0.11, T:0.16
Consensus pattern (19 bp):
AAAACTAATGAACTAGCAA
Found at i:15116365 original size:43 final size:43
Alignment explanation
Indices: 15116315--15116586 Score: 275
Period size: 43 Copynumber: 6.3 Consensus size: 43
15116305 CGCTTTTTTC
15116315 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCT
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCT
* * * *
15116358 ACGAACGCCGCTAAAGACTATGACCTTTAGCGGCGC-TTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCT
** * * * *
15116400 ACAATTGCCGCTAAAGACTAGGACCTTTAGTGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCT
* *
15116443 ACAAACACCGCTAAAGA-CAATGACCTTTAGCGACGCTTTT-CT
1 ACAAACGCCGCTAAAGACCAA-GACCTTTAGCGGCGCTTTTCCT
* * **
15116485 CACAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTAT
1 -ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCT
* * * * *
15116529 CACAAATGCCGCTATAGATCAA-ATCTTTAGCGGCGCTTCTCGC-
1 -ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTC-CT
*
15116572 AAAAACGCCGCTAAA
1 ACAAACGCCGCTAAA
15116587 AACATAACCT
Statistics
Matches: 189, Mismatches: 34, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
42 50 0.26
43 118 0.62
44 21 0.11
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCT
Found at i:15116457 original size:85 final size:86
Alignment explanation
Indices: 15116305--15116586 Score: 300
Period size: 85 Copynumber: 3.3 Consensus size: 86
15116295 AATGTAGTGG
** * * *
15116305 CGCTTTTTTCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCTACGAACGCCGCT
1 CGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACACCGCT
* *
15116370 AAAGACTATGACCTTTAGCGG
66 AAAGACAATGACCTTTAGCGA
** * * *
15116391 CGC-TTTCCCACAATTGCCGCTAAAGACTAGGACCTTTAGTGGCGCTTTTCCCACAAACACCGCT
1 CGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACACCGCT
15116455 AAAGACAATGACCTTTAGCGA
66 AAAGACAATGACCTTTAGCGA
* * * ** **
15116476 CGCTTTTCTCACAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTATCACAAATGCCGC
1 CGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTTCCCACAAACACCGC
* * *
15116541 TATAGATCAA--ATCTTTAGCGG
65 TAAAGA-CAATGACCTTTAGCGA
* * *
15116562 CGCTTCTCGCAAAAACGCCGCTAAA
1 CGCTTTTCCCACAAACGCCGCTAAA
15116587 AACATAACCT
Statistics
Matches: 164, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
85 73 0.45
86 69 0.42
87 19 0.12
88 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (86 bp):
CGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACACCGCT
AAAGACAATGACCTTTAGCGA
Found at i:15116597 original size:128 final size:127
Alignment explanation
Indices: 15116317--15116598 Score: 311
Period size: 128 Copynumber: 2.2 Consensus size: 127
15116307 CTTTTTTCAC
* * * *
15116317 AAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTTCCTACGAACGCCGCTAAAGACTATGA
1 AAACGCCGCTAAA-AACATA-ACCTTTAGCGACGCTTTTCCTACAAACGCCGCTAAAGACCATGA
* * * * * *
15116381 CCTTTAGCGGCGCTTTCCCACAATTGCCGCTAAAGACTAGGACCTTTAGTGGCGCTTTTCCCAC
64 CCTTTAGCGGCGCTTTACCACAAATGCCGCTAAAGACTAGAACCTTTAGCGGCGCTTCTCCCAA
* * *
15116445 AAACACCGCTAAAGACAATGACCTTTAGCGACGCTTTT-CTCACAAACGCCGCTAAAGACCATGA
1 AAACGCCGCTAAAAAC-ATAACCTTTAGCGACGCTTTTCCT-ACAAACGCCGCTAAAGACCATGA
* * * * *
15116509 CTTTTAGCGGCGCTTTTTATCACAAATGCCGCTATAGA-TCA-AATCTTTAGCGGCGCTTCTCGC
64 CCTTTAGCGGCGC--TTTACCACAAATGCCGCTAAAGACT-AGAACCTTTAGCGGCGCTTCTCCC
15116572 AA
126 AA
15116574 AAACGCCGCTAAAAACATAACCTTT
1 AAACGCCGCTAAAAACATAACCTTT
15116599 TAAAAAAAAT
Statistics
Matches: 127, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
127 3 0.02
128 71 0.56
129 33 0.26
130 20 0.16
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (127 bp):
AAACGCCGCTAAAAACATAACCTTTAGCGACGCTTTTCCTACAAACGCCGCTAAAGACCATGACC
TTTAGCGGCGCTTTACCACAAATGCCGCTAAAGACTAGAACCTTTAGCGGCGCTTCTCCCAA
Found at i:15117354 original size:60 final size:60
Alignment explanation
Indices: 15117274--15117393 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
15117264 TACAAGTTGA
* *
15117274 AGAACAAGCAAAGTATTTAAAGCAGTGAAATTTCAAACTTAGGATGGAAATTTGCAATAT
1 AGAACAAGCAAAATACTTAAAGCAGTGAAATTTCAAACTTAGGATGGAAATTTGCAATAT
15117334 AGAACAAGCAAAATACTTAAAGCAGTGAAATTTCAAACTTAGGATGGAAATTTGCAATAT
1 AGAACAAGCAAAATACTTAAAGCAGTGAAATTTCAAACTTAGGATGGAAATTTGCAATAT
15117394 CAGTGAAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (60 bp):
AGAACAAGCAAAATACTTAAAGCAGTGAAATTTCAAACTTAGGATGGAAATTTGCAATAT
Found at i:15120915 original size:12 final size:13
Alignment explanation
Indices: 15120896--15120925 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
15120886 GATCGATTTT
15120896 GGGAAAAAGAAGG
1 GGGAAAAAGAAGG
15120909 GGGAAAAAGAAGG
1 GGGAAAAAGAAGG
15120922 GGGA
1 GGGA
15120926 TCGATTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (13 bp):
GGGAAAAAGAAGG
Found at i:15121146 original size:41 final size:41
Alignment explanation
Indices: 15121026--15121188 Score: 127
Period size: 41 Copynumber: 4.0 Consensus size: 41
15121016 CCACTATTGA
* * *
15121026 CCTGAGCATTAGCGGCG-TTTCATTAAAAACGCCGCTAAAG-C
1 CCTGAGCATTAGTGGCGCTTT--TTAAAAACACCACTAAAGAC
* ** * ** *
15121067 CCCGAGTTTTAGTGGCGCTTTTTCAGAAACGTCGCTAAAGAC
1 CCTGAGCATTAGTGGCGCTTTTT-AAAAACACCACTAAAGAC
* *
15121109 CC-GATCATTAGTGGCGCTTTTTAAAAAGCACCTCTAAA-AC
1 CCTGAGCATTAGTGGCGCTTTTTAAAAA-CACCACTAAAGAC
* *
15121149 CCTGAGCATTAGCGGCGCTTCTTAAAAAACACCACTAAAG
1 CCTGAGCATTAGTGGCGCTT-TTTAAAAACACCACTAAAG
15121189 TTATGAAATA
Statistics
Matches: 98, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
40 10 0.10
41 75 0.77
42 13 0.13
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (41 bp):
CCTGAGCATTAGTGGCGCTTTTTAAAAACACCACTAAAGAC
Found at i:15121361 original size:40 final size:40
Alignment explanation
Indices: 15121226--15121364 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 40
15121216 TCGGCTTAGG
* * * *
15121226 TTTTTTGCGGCGCTTTTTGAAAATCGCCGCTAATGC-TAA
1 TTTTTAGCGGCGTTTTTTTAAAAGCGCCGCTAATGCTTAA
* *** * * *
15121265 TTTTTAGTGGCGTTTTCCAAAAAGCGTCGCTAATACTCAA
1 TTTTTAGCGGCGTTTTTTTAAAAGCGCCGCTAATGCTTAA
* * *
15121305 TCTTTAGTGGCATTTTTTTAAAAGCGCCGCTAATGCTTAA
1 TTTTTAGCGGCGTTTTTTTAAAAGCGCCGCTAATGCTTAA
15121345 TTTTTAGCGGCGTTTTTTTA
1 TTTTTAGCGGCGTTTTTTTA
15121365 TCCAAACGCC
Statistics
Matches: 78, Mismatches: 21, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
39 27 0.35
40 51 0.65
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTTAAAAGCGCCGCTAATGCTTAA
Found at i:15152417 original size:10 final size:10
Alignment explanation
Indices: 15152394--15152441 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
15152384 GAATCTGTCG
*
15152394 AAAATAAATT
1 AAAATTAATT
*
15152404 AAAATTAATC
1 AAAATTAATT
*
15152414 AAAATTTATTAT
1 AAAA-TTAAT-T
15152426 AAAATTAATT
1 AAAATTAATT
15152436 AAAATT
1 AAAATT
15152442 CAAAATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 19 0.61
11 8 0.26
12 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATTAATT
Found at i:15169734 original size:20 final size:20
Alignment explanation
Indices: 15169709--15169756 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
15169699 TTAACATAGT
15169709 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCACTCGAGCTCAAG
* * *
15169729 TCAGCTTATTCGAGCTCAAT
1 TCAGCTCACTCGAGCTCAAG
15169749 TCAGCTCA
1 TCAGCTCA
15169757 ACCTTAACCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (20 bp):
TCAGCTCACTCGAGCTCAAG
Found at i:15171693 original size:21 final size:20
Alignment explanation
Indices: 15171652--15171694 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
15171642 ACAAGAAACC
*
15171652 GAAAAAGAAAATGAGAGTGA
1 GAAAAAGAAAATGAAAGTGA
*
15171672 GAAAAAGAAAAATGAAATTGA
1 GAAAAAG-AAAATGAAAGTGA
15171693 GA
1 GA
15171695 TTGAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.63, C:0.00, G:0.26, T:0.12
Consensus pattern (20 bp):
GAAAAAGAAAATGAAAGTGA
Found at i:15171693 original size:27 final size:25
Alignment explanation
Indices: 15171652--15171703 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
15171642 ACAAGAAACC
15171652 GAAAAAGAAAATGAGAGTGAGAAAAA
1 GAAAAAGAAAATGAGAGTGA-AAAAA
* *
15171678 GAAAAATGAAATTGAGATTGAAAAAA
1 GAAAAA-GAAAATGAGAGTGAAAAAA
15171704 TAAGTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.13
Consensus pattern (25 bp):
GAAAAAGAAAATGAGAGTGAAAAAA
Found at i:15171737 original size:39 final size:37
Alignment explanation
Indices: 15171670--15171752 Score: 94
Period size: 39 Copynumber: 2.2 Consensus size: 37
15171660 AAATGAGAGT
** * *
15171670 GAGAAAAAGAAAAATGAAATTGAGATTGAAAAAATAA
1 GAGAAAAAGAAAAATGAAAAAGAAATTGAAAAAAGAA
* *
15171707 GTGAAAAAGATAAAATCGAAAAAGAAATTGAAGAAAGAA
1 GAGAAAAAGA-AAAAT-GAAAAAGAAATTGAAAAAAGAA
15171746 GAGAAAA
1 GAGAAAA
15171753 TGAGTTAGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
37 9 0.24
38 5 0.14
39 23 0.62
ACGTcount: A:0.65, C:0.01, G:0.20, T:0.13
Consensus pattern (37 bp):
GAGAAAAAGAAAAATGAAAAAGAAATTGAAAAAAGAA
Found at i:15172609 original size:33 final size:33
Alignment explanation
Indices: 15172572--15172643 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
15172562 TGATCGAGCC
* * *
15172572 AGGTAAAATCGAACTTTGTTTCCCTGCTCCAAA
1 AGGTAAAACCGAACATTATTTCCCTGCTCCAAA
* *
15172605 AGGTAAAACCGAACATTATTTTCCTGCTCCTAA
1 AGGTAAAACCGAACATTATTTCCCTGCTCCAAA
15172638 AGGTAA
1 AGGTAA
15172644 GCCTCCTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (33 bp):
AGGTAAAACCGAACATTATTTCCCTGCTCCAAA
Found at i:15173537 original size:20 final size:20
Alignment explanation
Indices: 15173512--15173555 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
15173502 CTTAGTTCAA
*
15173512 CTCATTCGAGCTCAAGTCAG
1 CTCATTCGAGCTCAACTCAG
15173532 CTCATTCGAGCTCAACTCAG
1 CTCATTCGAGCTCAACTCAG
15173552 CTCA
1 CTCA
15173556 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (20 bp):
CTCATTCGAGCTCAACTCAG
Found at i:15174276 original size:22 final size:21
Alignment explanation
Indices: 15174247--15174294 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
15174237 AAGCATGAAC
*
15174247 TGAA-ATTTTAATGATTTAGTG
1 TGAACATTTTAATGAATT-GTG
* *
15174268 TGAACATTTTTATTAATTGTG
1 TGAACATTTTAATGAATTGTG
15174289 TGAACA
1 TGAACA
15174295 CATAGATGCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (21 bp):
TGAACATTTTAATGAATTGTG
Found at i:15183187 original size:2 final size:2
Alignment explanation
Indices: 15183180--15183209 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15183170 TTTATCCCTC
15183180 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15183210 CGTGCAGCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15183347 original size:8 final size:8
Alignment explanation
Indices: 15183334--15183362 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
15183324 TTATTTTTGG
15183334 ATTAAATT
1 ATTAAATT
15183342 ATTAAATT
1 ATTAAATT
15183350 ATTAAATT
1 ATTAAATT
15183358 -TTAAA
1 ATTAAA
15183363 GGTTACGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTAAATT
Found at i:15183456 original size:30 final size:30
Alignment explanation
Indices: 15183389--15183471 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
15183379 AAGTTTATGT
*
15183389 ATTTTTTTTATATTTAAAATTTAATCTCTA
1 ATTTTTTTTATATTTAAAATTTAAGCTCTA
*
15183419 ATTTTTTTTATTTTTAAGAATTT-AGCTC-A
1 ATTTTTTTTATATTTAA-AATTTAAGCTCTA
* *
15183448 TTTATTTTTTCATA-TAAAAATTTA
1 ATT-TTTTTT-ATATTTAAAATTTA
15183472 GGTTCAATTG
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
29 8 0.18
30 29 0.66
31 7 0.16
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (30 bp):
ATTTTTTTTATATTTAAAATTTAAGCTCTA
Found at i:15184616 original size:125 final size:124
Alignment explanation
Indices: 15184215--15184613 Score: 645
Period size: 124 Copynumber: 3.2 Consensus size: 124
15184205 ACCCACGTTT
* *
15184215 ACGCGCTTTCGCTACAGTAGGTCCTGAAAAAACAATTTCGAGTTGACGTTTCTGAGCAAATAGTA
1 ACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTA
15184280 TAAAATCGCTTCTAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCGTGG
66 TAAAATCGCTTCTAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCGTGG
15184339 ACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTA
1 ACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTA
* *
15184404 TAAAATCCCTTCCAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCGTGG
66 TAAAATCGCTTCTAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCGTGG
* * *
15184463 ACGCACTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACATTTCTGAGCAAATAGT
1 ACGCGCTTTTGCTACAGTAGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT
* ** * * * *
15184528 ATACAATCGCTTCTAGCATAATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGG
65 ATAAAATCGCTTCTAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCGTGG
* *
15184588 ACACGCTTTTGCTATAGTAGGTCCTG
1 ACGCGCTTTTGCTACAGTAGGTCCTG
15184614 GAAATTGAGA
Statistics
Matches: 255, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
124 145 0.57
125 110 0.43
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (124 bp):
ACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTA
TAAAATCGCTTCTAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGCGGCCTCGTGG
Found at i:15184885 original size:15 final size:16
Alignment explanation
Indices: 15184867--15184908 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
15184857 TTTTCCCACG
15184867 TTAGGTTTTTGGA-TT
1 TTAGGTTTTTGGATTT
* *
15184882 TTAGGGTTTAGGATTT
1 TTAGGTTTTTGGATTT
15184898 TTAGGGTTTTT
1 TTA-GGTTTTT
15184909 AGGGTTTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 11 0.52
16 5 0.24
17 5 0.24
ACGTcount: A:0.14, C:0.00, G:0.29, T:0.57
Consensus pattern (16 bp):
TTAGGTTTTTGGATTT
Found at i:15184889 original size:16 final size:17
Alignment explanation
Indices: 15184870--15184908 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
15184860 TCCCACGTTA
15184870 GGTTTTTGGA-TTTTAG
1 GGTTTTTGGATTTTTAG
*
15184886 GG-TTTAGGATTTTTAG
1 GGTTTTTGGATTTTTAG
15184902 GGTTTTT
1 GGTTTTT
15184909 AGGGTTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
15 6 0.32
16 10 0.53
17 3 0.16
ACGTcount: A:0.13, C:0.00, G:0.31, T:0.56
Consensus pattern (17 bp):
GGTTTTTGGATTTTTAG
Found at i:15184902 original size:9 final size:9
Alignment explanation
Indices: 15184880--15184916 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
15184870 GGTTTTTGGA
15184880 TTTTAGGG-
1 TTTTAGGGT
*
15184888 -TTTAGGAT
1 TTTTAGGGT
15184896 TTTTAGGGT
1 TTTTAGGGT
15184905 TTTTAGGGT
1 TTTTAGGGT
15184914 TTT
1 TTT
15184917 GTAGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
7 6 0.24
9 19 0.76
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:15185180 original size:125 final size:125
Alignment explanation
Indices: 15184969--15185233 Score: 467
Period size: 125 Copynumber: 2.1 Consensus size: 125
15184959 CTTTCGCTAT
* *
15184969 AGTAGGTCTTGAAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA
1 AGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA
* * * *
15185034 GCAGGATGTTGTTTGATAAGAATTTGTGAAATTTTGCCCTCGTGGACGTGCTTTTTCTAC
66 GCAGAATGCTATTTGAGAAGAATTTGTGAAATTTTGCCCTCGTGGACGTGCTTTTTCTAC
*
15185094 AGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA
1 AGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA
15185159 GCAGAATGCTATTTGAGAAGAATTTGTGAAATTTTGCCCTCGTGGACGTGCTTTTTCTAC
66 GCAGAATGCTATTTGAGAAGAATTTGTGAAATTTTGCCCTCGTGGACGTGCTTTTTCTAC
15185219 AGTAGGTCCTGGAAA
1 AGTAGGTCCTGGAAA
15185234 TTGAGAGGAA
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 132 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (125 bp):
AGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA
GCAGAATGCTATTTGAGAAGAATTTGTGAAATTTTGCCCTCGTGGACGTGCTTTTTCTAC
Found at i:15186492 original size:25 final size:25
Alignment explanation
Indices: 15186464--15186532 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
15186454 AAATATCTTT
15186464 TAAAATTAAATATTTTAATTAATAA
1 TAAAATTAAATATTTTAATTAATAA
* **
15186489 TAAAATTGAATATAATAATTAATAA
1 TAAAATTAAATATTTTAATTAATAA
**
15186514 TAATTTTAAATATGTTTAA
1 TAAAATTAAATAT-TTTAA
15186533 AAATATTATT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 32 0.91
26 3 0.09
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (25 bp):
TAAAATTAAATATTTTAATTAATAA
Found at i:15194563 original size:17 final size:17
Alignment explanation
Indices: 15194541--15194574 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15194531 ATTCTTATAA
15194541 AAATATCTTTTAAATAT
1 AAATATCTTTTAAATAT
* *
15194558 AAATATTTTTTATATAT
1 AAATATCTTTTAAATAT
15194575 TTAAACCACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATATCTTTTAAATAT
Found at i:15197580 original size:17 final size:17
Alignment explanation
Indices: 15197555--15197587 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15197545 TATTACATTA
*
15197555 ATTATAAATTCTAAATT
1 ATTAAAAATTCTAAATT
15197572 ATTAAAAATTCTAAAT
1 ATTAAAAATTCTAAAT
15197588 AGCTTCTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTAAAAATTCTAAATT
Found at i:15200564 original size:22 final size:21
Alignment explanation
Indices: 15200532--15200574 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
15200522 TGTTGATATA
*
15200532 TTGATGAATTAGGCTT-GAAT
1 TTGATGAATTAAGCTTAGAAT
15200552 TTGATAGATATTAAGCTTAGAAT
1 TTGAT-GA-ATTAAGCTTAGAAT
15200575 ATGAAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 8 0.42
23 4 0.21
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.40
Consensus pattern (21 bp):
TTGATGAATTAAGCTTAGAAT
Found at i:15202059 original size:20 final size:20
Alignment explanation
Indices: 15202004--15202059 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
15201994 AGCTTATGCT
* * *
15202004 AAGTAAATAAAATGGAAAGT
1 AAGTAAATAGAATGGTAAGA
* *
15202024 AAGTAAATGGAGTGGTAAGA
1 AAGTAAATAGAATGGTAAGA
15202044 AAGTAAATAGAATGGT
1 AAGTAAATAGAATGGT
15202060 TCATAGTCTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.27, T:0.21
Consensus pattern (20 bp):
AAGTAAATAGAATGGTAAGA
Found at i:15215636 original size:20 final size:20
Alignment explanation
Indices: 15215610--15215716 Score: 85
Period size: 20 Copynumber: 5.5 Consensus size: 20
15215600 TTGTACTTCG
15215610 GTACCCCTGATTGCACTTAC
1 GTACCCCTGATTGCACTTAC
* * **
15215630 GTTCCCCT-ATTGTACTTTG
1 GTACCCCTGATTGCACTTAC
* *
15215649 GTACCCCTGATTACACTTAT
1 GTACCCCTGATTGCACTTAC
* *
15215669 GTGCCCCT-ATTGTACTT-C
1 GTACCCCTGATTGCACTTAC
* *
15215687 GATACCCCTAATTACACTTAC
1 G-TACCCCTGATTGCACTTAC
*
15215708 GTGCCCCTG
1 GTACCCCTG
15215717 TTGTACTTCG
Statistics
Matches: 65, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
18 1 0.02
19 28 0.43
20 34 0.52
21 2 0.03
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.35
Consensus pattern (20 bp):
GTACCCCTGATTGCACTTAC
Found at i:15215653 original size:39 final size:39
Alignment explanation
Indices: 15215600--15215726 Score: 191
Period size: 39 Copynumber: 3.3 Consensus size: 39
15215590 TAGATAATTG
* *
15215600 TTGTACTTCGGTACCCCTGATTGCACTTACGTTCCCCTA
1 TTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTA
* *
15215639 TTGTACTTTGGTACCCCTGATTACACTTATGTGCCCCTA
1 TTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTA
* * *
15215678 TTGTACTTCGATACCCCTAATTACACTTACGTGCCCCTG
1 TTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTA
15215717 TTGTACTTCG
1 TTGTACTTCG
15215727 ATACACACAA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.17, C:0.31, G:0.15, T:0.37
Consensus pattern (39 bp):
TTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTA
Done.