Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 362 of 373
Found at i:119937343 original size:41 final size:41
Alignment explanation
Indices: 119937293--119937863 Score: 200
Period size: 41 Copynumber: 13.5 Consensus size: 41
119937283 ACCTTAGATA
* *
119937293 TGTTCCCCTACTACTTAGGGTGAAGATCTATAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
* * ** * *** * *
119937334 TGTTACCCTACTCCTTAGGGGTTTAAGGCCCATTGCCTT-TGATC
1 TGTTACCCTACTGCTTA-GGG-TGAAGATCTA-TAAATTCAG-CC
*
119937378 TGTT-CCCTTACTGCTTAGGGTGAAGATCTATAAATTCGGCC
1 TGTTACCC-TACTGCTTAGGGTGAAGATCTATAAATTCAGCC
* * ** * *** *
119937419 AGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCGCCTTC-GATC
1 TGTTACCCTACTGCTT-AGGG-TGAAGATCTAT-AAATTCAG-CC
* *
119937463 TGTTTCCCTACTGCTTAGGGTGAAGATCTGTAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
* ** * *** **
119937504 TGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCAATC
1 TGTTACCCTACTGCTTA-GGG-TGAAGATCTAT-AAATTCAGCC
* *
119937548 TGTTTCCCTATTGCTTAGGGTGAAGATCTATAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
* * * ** * *** *
119937589 TGTTACCCTATTACTTAGGGGTTTAAGGCCCATCGCCTTC-GATC
1 TGTTACCCTACTGCTTA-GGG-TGAAGATCTAT-AAATTCAG-CC
* * * *
119937633 TGTTTCCTTATTGCTTAGGGTGAAGATCTGTAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
* * ** * *** *
119937674 TGCTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTC-GATC
1 TGTTACCCTACTGCTTA-GGG-TGAAGATCTAT-AAATTCAG-CC
* * * * *
119937718 TATTTCCCTACTGCTTAGGGTAAAGATCTGTAAATTCGGCC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
* * ** * *** * *
119937759 TGTTACCTTACTGCTTAGGGGTTTAAGGCCCATCGCCTT-TGATC
1 TGTTACCCTACTGCTTA-GGG-TGAAGATCTAT-AAATTCAG-CC
* *
119937803 TGTTTCCCTACTGCTTAGGGTGAGGATCTATAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
*
119937844 TGTTAACCTACTGCTTAGGG
1 TGTTACCCTACTGCTTAGGG
119937864 AGTTAAGGCT
Statistics
Matches: 363, Mismatches: 137, Indels: 60
0.65 0.24 0.11
Matches are distributed among these distances:
41 126 0.35
42 64 0.18
43 65 0.18
44 108 0.30
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (41 bp):
TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
Found at i:119939771 original size:16 final size:18
Alignment explanation
Indices: 119939750--119939790 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
119939740 TCCTTTTTTG
119939750 TTTTTGTTTTTACTT-T-
1 TTTTTGTTTTTACTTCTC
*
119939766 TTTTTGTTTTTTCTTCTC
1 TTTTTGTTTTTACTTCTC
119939784 TTTTTGT
1 TTTTTGT
119939791 GTGTGTGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.64
17 1 0.05
18 7 0.32
ACGTcount: A:0.02, C:0.10, G:0.07, T:0.80
Consensus pattern (18 bp):
TTTTTGTTTTTACTTCTC
Found at i:119939786 original size:21 final size:22
Alignment explanation
Indices: 119939743--119939788 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
119939733 TCCACGATCC
*
119939743 TTTTTTGTTTTTGTTTTTACTT
1 TTTTTTGTTTTTGTTTCTACTT
119939765 TTTTTTGTTTTT-TCTTCT-CTT
1 TTTTTTGTTTTTGT-TTCTACTT
119939786 TTT
1 TTT
119939789 GTGTGTGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.02, C:0.09, G:0.07, T:0.83
Consensus pattern (22 bp):
TTTTTTGTTTTTGTTTCTACTT
Found at i:119943663 original size:14 final size:16
Alignment explanation
Indices: 119943637--119943670 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
119943627 AAATAAAAAT
119943637 ATAAAATATGACAA-A
1 ATAAAATATGACAATA
119943652 ATAAAA-ATGACAATA
1 ATAAAATATGACAATA
119943667 ATAA
1 ATAA
119943671 TGAAAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (16 bp):
ATAAAATATGACAATA
Found at i:119943671 original size:3 final size:3
Alignment explanation
Indices: 119943663--119943847 Score: 112
Period size: 3 Copynumber: 62.0 Consensus size: 3
119943653 TAAAAATGAC
* * *
119943663 AAT AAT AAT GAA- AAT AGT AAT AAT AAT AAT ACT AAT AGT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*** *
119943708 AAT AAT AAT AAT AAT AAT AAT AAT AAT GGC AAT AAT AGT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * ** * * *
119943755 GCT AAAT AAT AAT AAG AA- AA- AAC AAT AGC AAT AGT AAT TAC AA-
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
119943798 AAGT GAT AAT AAT AA- AAT AGGAT GAT AAT AAT AAT ACT AAT AAT AAT
1 AA-T AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT
119943845 AAT
1 AAT
119943848 TGTCGAAACC
Statistics
Matches: 138, Mismatches: 34, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
2 12 0.09
3 120 0.87
4 4 0.03
5 2 0.01
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:119944787 original size:18 final size:18
Alignment explanation
Indices: 119944753--119944894 Score: 207
Period size: 18 Copynumber: 7.8 Consensus size: 18
119944743 TCATATCTTT
*
119944753 TAAGATTGTATATCATATC
1 TAAGATTGCA-ATCATATC
119944772 TAAGATTGCAATCATATC
1 TAAGATTGCAATCATATC
*
119944790 TAAGATTG-TATCATATC
1 TAAGATTGCAATCATATC
119944807 TAAGATTGCAATCATATC
1 TAAGATTGCAATCATATC
119944825 TAAGATTGCAATCATATC
1 TAAGATTGCAATCATATC
*
119944843 TAAGATTG-TATCATATC
1 TAAGATTGCAATCATATC
*
119944860 TAAGATTGCATATCACATC
1 TAAGATTGCA-ATCATATC
119944879 TAAGATTGCACATCAT
1 TAAGATTGCA-ATCAT
119944895 TGAAGATTAT
Statistics
Matches: 112, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
17 32 0.29
18 50 0.45
19 30 0.27
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TAAGATTGCAATCATATC
Found at i:119944808 original size:35 final size:36
Alignment explanation
Indices: 119944753--119944894 Score: 209
Period size: 35 Copynumber: 3.9 Consensus size: 36
119944743 TCATATCTTT
119944753 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCAATCATATC
119944790 TAAGATTG-TATCATATCTAAGATTGCAATCATATC
1 TAAGATTGATATCATATCTAAGATTGCAATCATATC
*
119944825 TAAGATTGCA-ATCATATCTAAGATTG-TATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCAATCATATC
*
119944860 TAAGATTGCATATCACATCTAAGATTGCACATCAT
1 TAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
119944895 TGAAGATTAT
Statistics
Matches: 97, Mismatches: 3, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
35 53 0.55
36 31 0.32
37 8 0.08
38 5 0.05
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (36 bp):
TAAGATTGATATCATATCTAAGATTGCAATCATATC
Found at i:119944902 original size:53 final size:54
Alignment explanation
Indices: 119944753--119944894 Score: 250
Period size: 53 Copynumber: 2.6 Consensus size: 54
119944743 TCATATCTTT
*
119944753 TAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATC
1 TAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATC
119944807 TAAGATTGCA-ATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATC
1 TAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATC
*
119944860 TAAGATTGCATATCACATCTAAGATTGCACATCAT
1 TAAGATTGCATATCATATCTAAGATTGCA-ATCAT
119944895 TGAAGATTAT
Statistics
Matches: 84, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
53 53 0.63
54 26 0.31
55 5 0.06
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (54 bp):
TAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATC
Found at i:119945951 original size:206 final size:207
Alignment explanation
Indices: 119945292--119946217 Score: 1496
Period size: 207 Copynumber: 4.5 Consensus size: 207
119945282 AAATCTGCTT
* * * *
119945292 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * *
119945357 GCGAAAGCTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACTAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * ** * * *
119945422 GGATC-TACTTCAGTCTAATCATCTGAAGGTTAGATCTGCTCTATGTCTGTCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
119945486 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
119945498 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAATGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
119945563 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
119945628 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCAGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
119945693 GGAGACGCAAAA
196 GGAGACGCCAAA
*
119945705 CTTCGATTTGTTCTCTGACAATACAGAGATGCCGAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
119945770 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTTTCCTTGTAAGCACAAGGATGCCAAACCA-CTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
119945834 GGATCTTTCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
119945899 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * *
119945911 CTTCAATTTGTTCTCTAACAATATAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAAAAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
119945976 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * *
119946041 GGATCTTGCTTAAGTATAAACATCTGAAGACTAGATTTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
119946106 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * * *
119946118 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATTTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
119946183 GTGAAAGCCAAATCAGCTATGTCTTCGATCTGTTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTC
119946218 TCCGTCGAAT
Statistics
Matches: 669, Mismatches: 49, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
206 321 0.48
207 348 0.52
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:119946064 original size:413 final size:413
Alignment explanation
Indices: 119945292--119946217 Score: 1512
Period size: 413 Copynumber: 2.2 Consensus size: 413
119945282 AAATCTGCTT
* * *
119945292 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
* * *
119945357 GCGAAAGCTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACTAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
* * ** * *
119945422 GGATCTACTTCAGTCTAATCATCTGAAGGTTAGATCTGCTCTATGTCTGTCCTCCGTCGAATATG
131 GGATCTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATATG
** *
119945487 GAGACGCCAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
196 GAGACGCCAAACTTCAATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
* * *
119945552 AATGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGC
261 AACGTAAAAACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGGATGC
* *
119945617 CAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCAGCCCT
326 CAAACCATCTTGGATCTTGCTTAAGTATAAACATCTGAAGACCAGATCTGCTATGTGTCAGCCCT
119945682 CCGTCGAATATGGAGACGCAAAA
391 CCGTCGAATATGGAGACGCAAAA
* *
119945705 CTTCGATTTGTTCTCTGACAATACAGAGATGCCGAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
* *
119945770 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTTTCCTTGTAAGCACAAGGATGCCAAACCA-CTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
* *
119945834 GGATCTTTCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATC-TACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
*
119945899 GGAGACGCCAAACTTCAATTTGTTCTCTAACAATATAGAGATGCCAAATCATCTTAGACTTGCTT
195 GGAGACGCCAAACTTCAATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTT
119945964 CAACGTAAAAACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGGATG
260 CAACGTAAAAACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGGATG
* * *
119946029 CCAAACCATCTTGGATCTTGCTTAAGTATAAACATCTGAAGACTAGATTTGCTATGTGTCTGCCC
325 CCAAACCATCTTGGATCTTGCTTAAGTATAAACATCTGAAGACCAGATCTGCTATGTGTCAGCCC
*
119946094 TCCGTCGAATATGGAGACGCCAAA
390 TCCGTCGAATATGGAGACGCAAAA
* * * *
119946118 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATTTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
*
119946183 GTGAAAGCCAAATCAGCTATGTCTTCGATCTGTTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTC
119946218 TCCGTCGAAT
Statistics
Matches: 473, Mismatches: 39, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
412 8 0.02
413 465 0.98
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (413 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATATG
GAGACGCCAAACTTCAATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
AACGTAAAAACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGGATGC
CAAACCATCTTGGATCTTGCTTAAGTATAAACATCTGAAGACCAGATCTGCTATGTGTCAGCCCT
CCGTCGAATATGGAGACGCAAAA
Found at i:119946438 original size:84 final size:86
Alignment explanation
Indices: 119946340--119946500 Score: 211
Period size: 84 Copynumber: 1.9 Consensus size: 86
119946330 CTATACTTTA
* * * *
119946340 ACCTGTTACCCTACTGCTCAGGGGGTTAAGGCGCA-TC-T-TCGATCTGCTCCACTGCTGTTTAG
1 ACCTGTTACCCTACTGCTCAAGGGATTAAGGCG-AGTCGTCTCGATCTGCTCCACTACTGCTTAG
119946402 AGAGATAAGATCCGTAATTTTG
65 AGAGATAAGATCCGTAATTTTG
* * *
119946424 ACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTCGTCGTTGATCTGTTCCACTACTGCTTAG
1 ACCTGTTACCCTACTGCTCAAGGGATTAAGGCGAGTCGTC-TCGATCTGCTCCACTACTGCTTAG
*
119946489 GGAGATAAGATC
65 AGAGATAAGATC
119946501 TGTGAACCTG
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
83 1 0.02
84 32 0.49
85 1 0.02
87 31 0.48
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.30
Consensus pattern (86 bp):
ACCTGTTACCCTACTGCTCAAGGGATTAAGGCGAGTCGTCTCGATCTGCTCCACTACTGCTTAGA
GAGATAAGATCCGTAATTTTG
Found at i:119946531 original size:82 final size:79
Alignment explanation
Indices: 119946339--119946539 Score: 215
Period size: 87 Copynumber: 2.4 Consensus size: 79
119946329 GCTATACTTT
* * * *
119946339 AACCTGTTACCCTACTGCTCAGGGGGTTAAGGCGCATCTTCGATCTGCTCCACTGCTGTTTAGAG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTAGAG
119946404 AGATAAGATCCGTA
66 AGATAAGATCCGTA
* * *
119946418 ATTTTGACCTGTTACCCTACTGCTTAAGGGATTAAGGCG-AGTCGTCGTTGATCTGTTCCACTAC
1 A-----ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCA-TC-T--TCGATCTGCTCCACTAC
* * *
119946482 TGCTTAGGGAGATAAGATCTGTG
57 TGCTTAGAGAGATAAGATCCGTA
*
119946505 AACCTGTTACCCTACTGCTTAGGGGATGAAGGCGC
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
119946540 TGAATTTTGT
Statistics
Matches: 100, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
79 1 0.01
82 31 0.31
83 1 0.01
84 32 0.32
85 1 0.01
87 34 0.34
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.29
Consensus pattern (79 bp):
AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTAGAG
AGATAAGATCCGTA
Found at i:119947478 original size:1 final size:1
Alignment explanation
Indices: 119947468--119947563 Score: 57
Period size: 1 Copynumber: 96.0 Consensus size: 1
119947458 GGCCTCTCCA
* * * * * * * * * * *
119947468 TTTTTCTTTTTTTCTTTTTTCTTTTATCTTTTATCTTTTTTATTTTTTTATTTTTTTCTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
119947533 TTTTTCTTCTTCTTTTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
119947564 GAAATAGAAG
Statistics
Matches: 65, Mismatches: 30, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.84
Consensus pattern (1 bp):
T
Found at i:119947481 original size:8 final size:8
Alignment explanation
Indices: 119947468--119947560 Score: 77
Period size: 8 Copynumber: 11.6 Consensus size: 8
119947458 GGCCTCTCCA
119947468 TTTTTCTT
1 TTTTTCTT
119947476 TTTTTC-T
1 TTTTTCTT
119947483 TTTTTC-T
1 TTTTTCTT
*
119947490 TTTATC-T
1 TTTTTCTT
*
119947497 TTTATC-T
1 TTTTTCTT
*
119947504 TTTTTATT
1 TTTTTCTT
*
119947512 TTTTTATT
1 TTTTTCTT
119947520 TTTTTCTT
1 TTTTTCTT
*
119947528 TTCTTTTTT
1 TT-TTTCTT
119947537 TCTTCTTCTTT
1 T-TT-TTC-TT
119947548 TTTTTCTT
1 TTTTTCTT
119947556 TTTTT
1 TTTTT
119947561 TTTGAAATAG
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
7 25 0.34
8 31 0.42
9 10 0.14
10 5 0.07
11 3 0.04
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:119947485 original size:7 final size:7
Alignment explanation
Indices: 119947468--119947563 Score: 83
Period size: 7 Copynumber: 13.4 Consensus size: 7
119947458 GGCCTCTCCA
119947468 TTTTTCTT
1 TTTTTC-T
119947476 TTTTTCT
1 TTTTTCT
119947483 TTTTTCT
1 TTTTTCT
*
119947490 TTTATCT
1 TTTTTCT
*
119947497 TTTATCT
1 TTTTTCT
*
119947504 TTTTTAT
1 TTTTTCT
119947511 TTTTT-T
1 TTTTTCT
119947517 ATTTTT-T
1 -TTTTTCT
119947524 TCTTTTCTT
1 T-TTTTC-T
119947533 TTTTTCT
1 TTTTTCT
119947540 TCTTCTT-T
1 T-TT-TTCT
119947548 TTTTTCT
1 TTTTTCT
119947555 TTTTT-T
1 TTTTTCT
119947561 TTT
1 TTT
119947564 GAAATAGAAG
Statistics
Matches: 78, Mismatches: 3, Indels: 16
0.80 0.03 0.16
Matches are distributed among these distances:
6 8 0.10
7 51 0.65
8 15 0.19
9 4 0.05
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:119947508 original size:36 final size:34
Alignment explanation
Indices: 119947468--119947563 Score: 104
Period size: 36 Copynumber: 2.7 Consensus size: 34
119947458 GGCCTCTCCA
119947468 TTTTTCTTTTTTTCTTTTTTCTTTTATCTTTTATC
1 TTTTTCTTTTTTTCTTTTTTCTTTTAT-TTTTATC
* * * *
119947503 TTTTTTATTTTTTTATTTTTTTCTTTTCTTTTTTTC
1 -TTTTTCTTTTTTT-CTTTTTTCTTTTATTTTTATC
*
119947539 TTCTTCTTTTTTTTCTTTTTT-TTTT
1 TTTTTC-TTTTTTTCTTTTTTCTTTT
119947564 GAAATAGAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
34 4 0.08
35 10 0.20
36 25 0.49
37 12 0.24
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.84
Consensus pattern (34 bp):
TTTTTCTTTTTTTCTTTTTTCTTTTATTTTTATC
Found at i:119953321 original size:18 final size:19
Alignment explanation
Indices: 119953287--119953428 Score: 208
Period size: 18 Copynumber: 7.8 Consensus size: 19
119953277 TCATATCTTT
*
119953287 TAAGATTGTATATCATATC
1 TAAGATTGCATATCATATC
119953306 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
119953324 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
*
119953341 TAAGATTGCA-ACCATATC
1 TAAGATTGCATATCATATC
119953359 TAAGATT--ATATCATATC
1 TAAGATTGCATATCATATC
119953376 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
*
119953394 TAAGATTGCATATCACATC
1 TAAGATTGCATATCATATC
119953413 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
119953429 TGAAGATTAT
Statistics
Matches: 111, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.01
17 30 0.27
18 48 0.43
19 32 0.29
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:119953342 original size:35 final size:36
Alignment explanation
Indices: 119953287--119953428 Score: 225
Period size: 35 Copynumber: 3.9 Consensus size: 36
119953277 TCATATCTTT
119953287 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCAATCATATC
*
119953324 TAAGATTG-TATCATATCTAAGATTGCAACCATATC
1 TAAGATTGATATCATATCTAAGATTGCAATCATATC
119953359 TAAGATT-ATATCATATCTAAGATTGCAATCATATC
1 TAAGATTGATATCATATCTAAGATTGCAATCATATC
*
119953394 TAAGATTGCATATCACATCTAAGATTGCATATCAT
1 TAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
119953429 TGAAGATTAT
Statistics
Matches: 98, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
35 66 0.67
37 27 0.28
38 5 0.05
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (36 bp):
TAAGATTGATATCATATCTAAGATTGCAATCATATC
Found at i:119953752 original size:3 final size:3
Alignment explanation
Indices: 119953746--119953895 Score: 55
Period size: 3 Copynumber: 50.3 Consensus size: 3
119953736 ATATAAATGG
* * *
119953746 TAA TAA TAA T-A TAT TAA TAA GAA -AA TAA TAA T-C TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * ** **
119953791 TAGA -AA TGGAA TAA -AA CACA TAA TGA TAA TAG TGG TGG TAA TAA -AA
1 TA-A TAA T--AA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** *
119953837 GTAA TAA TAC TAA TAA TAGCA GCA -AA TA- TAA TAG TAA TAA TAA TAA
1 -TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA TAA TAA TAA
119953883 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
119953896 TTTGATGATA
Statistics
Matches: 113, Mismatches: 19, Indels: 30
0.70 0.12 0.19
Matches are distributed among these distances:
2 13 0.12
3 91 0.81
4 5 0.04
5 4 0.04
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:119953765 original size:11 final size:11
Alignment explanation
Indices: 119953746--119953789 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
119953736 ATATAAATGG
119953746 TAATAATAATA
1 TAATAATAATA
* *
119953757 TATTAATAAGA
1 TAATAATAATA
* *
119953768 AAATAATAATC
1 TAATAATAATA
119953779 TAATAATAATA
1 TAATAATAATA
119953790 ATAGAAATGG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (11 bp):
TAATAATAATA
Found at i:119956703 original size:21 final size:21
Alignment explanation
Indices: 119956679--119956721 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
119956669 TTACCTTTTC
119956679 TAAAGTTAAAA-GTCAAAACTA
1 TAAAGTTAAAAGGT-AAAACTA
119956700 TAAAGTTAAAAGGTAAAACTA
1 TAAAGTTAAAAGGTAAAACTA
119956721 T
1 T
119956722 GTTGTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.26
Consensus pattern (21 bp):
TAAAGTTAAAAGGTAAAACTA
Found at i:119961641 original size:6 final size:6
Alignment explanation
Indices: 119961630--119961659 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
119961620 TTTGTGGTAT
119961630 AATATA AATATA AATATA AATATA TAATAT
1 AATATA AATATA AATATA AATATA -AATAT
119961660 TAGTAGAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
AATATA
Found at i:119961647 original size:12 final size:13
Alignment explanation
Indices: 119961627--119961659 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
119961617 GCTTTTGTGG
119961627 TATAATATAAATA
1 TATAATATAAATA
119961640 TA-AATATAAATA
1 TATAATATAAATA
119961652 TATAATAT
1 TATAATAT
119961660 TAGTAGAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATAATATAAATA
Found at i:119963019 original size:15 final size:15
Alignment explanation
Indices: 119962977--119963023 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
119962967 TCCCATCATC
119962977 AAGCGAGGAAAAAGA
1 AAGCGAGGAAAAAGA
* **
119962992 AATACGTTG-AAAAGA
1 AA-GCGAGGAAAAAGA
119963007 AAGCGAGGAAAAAGA
1 AAGCGAGGAAAAAGA
119963022 AA
1 AA
119963024 AAGAAAGCTG
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.60, C:0.06, G:0.28, T:0.06
Consensus pattern (15 bp):
AAGCGAGGAAAAAGA
Found at i:119965794 original size:28 final size:27
Alignment explanation
Indices: 119965749--119965804 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
119965739 TTGTCAATAT
*
119965749 TTATAAACTGTTTGCTAACCAACCTATC
1 TTATAAACTGGTTGCTAACCAACC-ATC
*
119965777 TTATACAACTGGTT-CTAACTAACCATC
1 TTATA-AACTGGTTGCTAACCAACCATC
119965804 T
1 T
119965805 AACTACTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 14 0.56
29 7 0.28
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (27 bp):
TTATAAACTGGTTGCTAACCAACCATC
Found at i:119966804 original size:30 final size:30
Alignment explanation
Indices: 119966768--119966825 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
119966758 CTGGGCATTT
* *
119966768 CCACACGGGTTGGCCATACGCCCATGTGAG
1 CCACACGGGCTGGCCACACGCCCATGTGAG
119966798 CCACACGGGCTGGCCACACGCCCATGTG
1 CCACACGGGCTGGCCACACGCCCATGTG
119966826 CCAGTCCGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.38, G:0.29, T:0.14
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACGCCCATGTGAG
Found at i:119968406 original size:22 final size:22
Alignment explanation
Indices: 119968371--119968413 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
119968361 CTGTGATATT
119968371 TACGGCCTTTAGCCATTCTGTC
1 TACGGCCTTTAGCCATTCTGTC
*
119968393 TACGG-CTTTGAGCCGTTCTGT
1 TACGGCCTTT-AGCCATTCTGT
119968414 TGACTTAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.12, C:0.28, G:0.23, T:0.37
Consensus pattern (22 bp):
TACGGCCTTTAGCCATTCTGTC
Found at i:119968602 original size:26 final size:26
Alignment explanation
Indices: 119968573--119968623 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
119968563 TTCTAATACG
119968573 GGCTAGGCCCAACTGTTACTGATATA
1 GGCTAGGCCCAACTGTTACTGATATA
*
119968599 GGCTAGGCCCAATTGTTACTGATAT
1 GGCTAGGCCCAACTGTTACTGATAT
119968624 TGAGAATGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (26 bp):
GGCTAGGCCCAACTGTTACTGATATA
Found at i:119973281 original size:21 final size:22
Alignment explanation
Indices: 119973255--119973299 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
119973245 CCCCAATTTT
*
119973255 TTTTATTTTATTTATT-ATTAA
1 TTTTATTTTATTAATTAATTAA
119973276 TTTTATTTTATTAATTAATTAA
1 TTTTATTTTATTAATTAATTAA
119973298 TT
1 TT
119973300 AATTAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTATTTTATTAATTAATTAA
Found at i:119973286 original size:14 final size:16
Alignment explanation
Indices: 119973259--119973295 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
119973249 AATTTTTTTT
119973259 ATTTTATTTATTATTA
1 ATTTTATTTATTATTA
119973275 ATTTTATTTTATTAATTA
1 ATTTTA-TTTATT-ATTA
119973293 ATT
1 ATT
119973296 AATTAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 6 0.32
18 7 0.37
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTATTTATTATTA
Found at i:119973287 original size:17 final size:17
Alignment explanation
Indices: 119973259--119973311 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
119973249 AATTTTTTTT
119973259 ATTTTATTTATT-ATTA
1 ATTTTATTTATTAATTA
119973275 ATTTTATTTTATTAATTA
1 ATTTTA-TTTATTAATTA
* *
119973293 A-TTAATTAATTAATTA
1 ATTTTATTTATTAATTA
119973309 ATT
1 ATT
119973312 AATCTTATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 17 0.53
17 10 0.31
18 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTATTTATTAATTA
Found at i:119973294 original size:4 final size:4
Alignment explanation
Indices: 119973285--119973314 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
119973275 ATTTTATTTT
119973285 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
119973315 CTTATTCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:119973344 original size:17 final size:17
Alignment explanation
Indices: 119973322--119973376 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
119973312 AATCTTATTC
119973322 TTATATTTTTAATTTTT
1 TTATATTTTTAATTTTT
*
119973339 TTATA-TTTTAGTTTTT
1 TTATATTTTTAATTTTT
*
119973355 TATATATTTCT-ATTATTT
1 T-TATATTTTTAATT-TTT
119973373 TTAT
1 TTAT
119973377 TTTGCTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 11 0.34
17 14 0.44
18 7 0.22
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (17 bp):
TTATATTTTTAATTTTT
Found at i:119973400 original size:23 final size:23
Alignment explanation
Indices: 119973359--119973402 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
119973349 GTTTTTTATA
*
119973359 TATTTCTATTATTTTTATTTTGC
1 TATTTCTATTATTTGTATTTTGC
119973382 TATTTCTATT-TTTCGTATTTT
1 TATTTCTATTATTT-GTATTTT
119973403 TTTTACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (23 bp):
TATTTCTATTATTTGTATTTTGC
Found at i:119973546 original size:9 final size:8
Alignment explanation
Indices: 119973452--119973530 Score: 68
Period size: 8 Copynumber: 8.9 Consensus size: 8
119973442 TATCATTGAG
119973452 TTTTTTAT
1 TTTTTTAT
119973460 TTTTTTAT
1 TTTTTTAT
119973468 TTTTTTAT
1 TTTTTTAT
*
119973476 TTTTTATCTT
1 TTTTT-T-AT
119973486 TCTTTTTAATT
1 T-TTTTT-A-T
119973497 TTGTTTTAGT
1 TT-TTTTA-T
*
119973507 TGTTTTAT
1 TTTTTTAT
119973515 TTTTTTAT
1 TTTTTTAT
119973523 TTTCTTTA
1 TTT-TTTA
119973531 ACTTATTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
8 32 0.54
9 10 0.17
10 7 0.12
11 10 0.17
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.80
Consensus pattern (8 bp):
TTTTTTAT
Found at i:119973561 original size:24 final size:22
Alignment explanation
Indices: 119973512--119973562 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
119973502 TTAGTTGTTT
* **
119973512 TATTTTTTTATTTTCTTTAACT
1 TATTTTTTTATTATCTTTAAAA
119973534 TATTTTTATTATTATCTTTTAAAA
1 TATTTTT-TTATTATC-TTTAAAA
119973558 TATTT
1 TATTT
119973563 ATGGTTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 7 0.29
23 7 0.29
24 10 0.42
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTTTTTATTATCTTTAAAA
Found at i:119974507 original size:12 final size:13
Alignment explanation
Indices: 119974490--119974519 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
119974480 CATTGTTCTC
119974490 AAAAAAA-TGAAA
1 AAAAAAAGTGAAA
119974502 AAAAAAAGTGAAA
1 AAAAAAAGTGAAA
119974515 AAAAA
1 AAAAA
119974520 TACATTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (13 bp):
AAAAAAAGTGAAA
Found at i:119976045 original size:24 final size:24
Alignment explanation
Indices: 119976018--119976064 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
119976008 AGGTTTCAAT
119976018 TAATCAACCTAGAGTCAGTTATTG
1 TAATCAACCTAGAGTCAGTTATTG
119976042 TAATCAACCTAGAGTCAGTTATT
1 TAATCAACCTAGAGTCAGTTATT
119976065 TTTACTCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (24 bp):
TAATCAACCTAGAGTCAGTTATTG
Found at i:119983300 original size:28 final size:27
Alignment explanation
Indices: 119983246--119983297 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
119983236 TAAAATTTTC
119983246 AAAGAGATTTTATTTTTATTTTTTTAA
1 AAAGAGATTTTATTTTTATTTTTTTAA
*
119983273 AAAGAGGTTTTATTTTTATTTTTTT
1 AAAGAGATTTTATTTTTATTTTTTT
119983298 TAACTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.62
Consensus pattern (27 bp):
AAAGAGATTTTATTTTTATTTTTTTAA
Found at i:119989612 original size:3 final size:3
Alignment explanation
Indices: 119989604--119989642 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
119989594 TATATTTCTA
119989604 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
119989643 ATAGTAGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:119992026 original size:4 final size:4
Alignment explanation
Indices: 119991992--119992016 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
119991982 ACATGTATGC
119991992 AATG AATG AATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG A
119992017 CAAATGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:119992037 original size:22 final size:22
Alignment explanation
Indices: 119991996--119992050 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
119991986 GTATGCAATG
* *
119991996 AATGAATGAATGAATGAATGACA
1 AATGAATG-TTGAATAAATGACA
**
119992019 AATGAATGTTGAATAAATGGTA
1 AATGAATGTTGAATAAATGACA
119992041 AATGAATGTT
1 AATGAATGTT
119992051 AATCGTGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.29
Consensus pattern (22 bp):
AATGAATGTTGAATAAATGACA
Found at i:119996166 original size:22 final size:20
Alignment explanation
Indices: 119996111--119996167 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
119996101 AACAATAGTA
119996111 ATAAAGATAAAAAT-ATATAC
1 ATAAA-ATAAAAATAATATAC
** *
119996131 ATAAAATAGTAATAATATAT
1 ATAAAATAAAAATAATATAC
119996151 ATAACTAATAAAAATAA
1 ATAA--AATAAAAATAA
119996168 AAATAAGGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 6 0.21
20 14 0.48
22 9 0.31
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
ATAAAATAAAAATAATATAC
Found at i:119996350 original size:24 final size:22
Alignment explanation
Indices: 119996305--119996370 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
119996295 TAGATAATGG
* *
119996305 TATTAGAA-ATATGCAT-ACAA
1 TATTAAAATATATACATAACAA
119996325 TATTACAAAATATATATC-TAACAA
1 TATT--AAAATATATA-CATAACAA
119996349 TATTAAAATATATACATAACAA
1 TATTAAAATATATACATAACAA
119996371 CAAAAGTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
20 4 0.11
21 1 0.03
22 19 0.50
23 5 0.13
24 9 0.24
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (22 bp):
TATTAAAATATATACATAACAA
Found at i:119996359 original size:22 final size:23
Alignment explanation
Indices: 119996313--119996370 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
119996303 GGTATTAGAA
*
119996313 ATATGCAT-ACAATATTACAAAAT
1 ATATACATAACAATATTA-AAAAT
119996336 ATATATC-TAACAATATT-AAAAT
1 ATATA-CATAACAATATTAAAAAT
119996358 ATATACATAACAA
1 ATATACATAACAA
119996371 CAAAAGTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.03
22 16 0.52
23 5 0.16
24 9 0.29
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (23 bp):
ATATACATAACAATATTAAAAAT
Found at i:119997100 original size:5 final size:5
Alignment explanation
Indices: 119997092--119997131 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
119997082 CAAATCAGAA
*
119997092 AAAAA AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
119997132 GGAGAGAGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:119998268 original size:20 final size:20
Alignment explanation
Indices: 119998238--119998311 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
119998228 AGTGACACAC
*
119998238 GCCCCTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
*
119998258 GCCTGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
*
119998278 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGGACAT
119998298 GCCCGTGTGGCCTG
1 GCCCGTGTGGCCTG
119998312 CCCATGGGCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.09, C:0.31, G:0.38, T:0.22
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGGACAT
Found at i:119999181 original size:53 final size:53
Alignment explanation
Indices: 119999124--119999259 Score: 231
Period size: 53 Copynumber: 2.6 Consensus size: 53
119999114 ATATCTCAGA
119999124 TATGGTCTTATACGGAATCACATTATCACATTGTACCGATGCCATAGCCCAGC
1 TATGGTCTTATACGGAATCACATTATCACATTGTACCGATGCCATAGCCCAGC
*
119999177 TATGGTCTTATACGGGATCACATTATCACATTGTACCGATGCCATAGCCCAGC
1 TATGGTCTTATACGGAATCACATTATCACATTGTACCGATGCCATAGCCCAGC
*
119999230 TATGGTCTTATACAGAAGT-ACA-TATCACAT
1 TATGGTCTTATACGGAA-TCACATTATCACAT
119999260 CTTTTCCGTC
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
52 8 0.10
53 70 0.89
54 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (53 bp):
TATGGTCTTATACGGAATCACATTATCACATTGTACCGATGCCATAGCCCAGC
Found at i:120005022 original size:30 final size:30
Alignment explanation
Indices: 120004965--120005045 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 30
120004955 ACCTATTACC
* *
120004965 AAGTTTTCATTTAAGTAGTGAATTATTC-AA
1 AAGTTTT-ATTTAAGTATTGAACTATTCGAA
120004995 AAGTTTTATTTAAGTCATTGAACTATTCGAA
1 AAGTTTTATTTAAGT-ATTGAACTATTCGAA
***
120005026 TTTTTTTATTTAAGTTATTG
1 AAGTTTTATTTAAG-TATTG
120005046 GGCTGTTATG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 8 0.19
30 17 0.40
31 17 0.40
32 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.49
Consensus pattern (30 bp):
AAGTTTTATTTAAGTATTGAACTATTCGAA
Found at i:120005761 original size:31 final size:31
Alignment explanation
Indices: 120005723--120005798 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
120005713 AATCTTTTGC
** *
120005723 AAAAAAGTTTAATTTGACCATCAACCTTTAA
1 AAAAAAGTCGAATTTAACCATCAACCTTTAA
* *
120005754 AAAAAAGTCGAATTTAACCATCAATCTTTCA
1 AAAAAAGTCGAATTTAACCATCAACCTTTAA
* *
120005785 AAAAGAGTCAAATT
1 AAAAAAGTCGAATT
120005799 GTTGTTTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (31 bp):
AAAAAAGTCGAATTTAACCATCAACCTTTAA
Found at i:120007089 original size:3 final size:3
Alignment explanation
Indices: 120007081--120007259 Score: 86
Period size: 3 Copynumber: 59.3 Consensus size: 3
120007071 TAGTACAATG
* * * * * *
120007081 ATA ATA ATA AGA TTA ATA ATA A-A ATA ATA AAA ATA ACA AT- ATG TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
120007127 CTA ATA ATA ATAA ATAA ATAA ATA ATG GTA ATA A-A TATA TATA A-A
1 ATA ATA ATA AT-A AT-A AT-A ATA ATA ATA ATA ATA -ATA -ATA ATA
* * *
120007172 ATA ATA GTA ACA GTA ATA A-A ATA A-A TATA AT- ATA ATA A-A TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA
* * *
120007215 ATA ATA AGTA ATA ATA TATA ATA ATA ATA ACA ATA TTA AAA ATA A
1 ATA ATA A-TA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
120007260 CACTCTCCCC
Statistics
Matches: 134, Mismatches: 28, Indels: 28
0.71 0.15 0.15
Matches are distributed among these distances:
2 13 0.10
3 97 0.72
4 24 0.18
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:120007121 original size:20 final size:20
Alignment explanation
Indices: 120007083--120007121 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
120007073 GTACAATGAT
* * *
120007083 AATAATAAGATTAATAATAA
1 AATAATAAAAATAACAATAA
120007103 AATAATAAAAATAACAATA
1 AATAATAAAAATAACAATA
120007122 TGTTACTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (20 bp):
AATAATAAAAATAACAATAA
Found at i:120007171 original size:31 final size:30
Alignment explanation
Indices: 120007136--120007234 Score: 76
Period size: 32 Copynumber: 3.0 Consensus size: 30
120007126 ACTAATAATA
120007136 ATAAATAAATAAATAATGGTAATAAATATAT
1 ATAAATAAATAAATAAT-GTAATAAATATAT
**
120007167 ATAAAATAATAGTAACAGTAATAAAATAAATATA-
1 AT-AAATAA-A-TAA-A-TAATGTAATAAATATAT
120007201 ATATAATAAATATAATAATAAGTAAT-AATATAT
1 ATA-AATAAATA-AATAAT--GTAATAAATATAT
120007234 A
1 A
120007235 ATAATAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
31 6 0.11
32 15 0.28
33 8 0.15
34 10 0.19
35 11 0.20
36 4 0.07
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (30 bp):
ATAAATAAATAAATAATGTAATAAATATAT
Found at i:120007221 original size:20 final size:20
Alignment explanation
Indices: 120007130--120007243 Score: 85
Period size: 20 Copynumber: 5.6 Consensus size: 20
120007120 TATGTTACTA
120007130 ATAATAATAA-ATAAATAAAT
1 ATAATAATAATAT-AATAAAT
**
120007150 AATGGTAATAAATATATATAAA-
1 -ATAATAAT-AATATA-ATAAAT
* *
120007172 ATAATAGTAACAGTAATAAA-
1 ATAATAATAATA-TAATAAAT
120007192 ATAA-ATATAATATAATAAAT
1 ATAATA-ATAATATAATAAAT
*
120007212 ATAATAATAA-GTAATAATAT
1 ATAATAATAATATAATAA-AT
120007232 ATAATAATAATA
1 ATAATAATAATA
120007244 ACAATATTAA
Statistics
Matches: 74, Mismatches: 10, Indels: 18
0.73 0.10 0.18
Matches are distributed among these distances:
19 14 0.19
20 36 0.49
21 14 0.19
22 3 0.04
23 7 0.09
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (20 bp):
ATAATAATAATATAATAAAT
Found at i:120008036 original size:23 final size:25
Alignment explanation
Indices: 120007984--120008037 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
120007974 AAATTAATAT
*
120007984 TTTAATTCATATTTTTGTTAAAAGA
1 TTTAATTCAAATTTTTGTTAAAAGA
* *
120008009 -ATAATTTAAATTTTT-TTAAAA-A
1 TTTAATTCAAATTTTTGTTAAAAGA
120008031 TTTAATT
1 TTTAATT
120008038 ATCATATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 1 0.04
23 11 0.46
24 12 0.50
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTAATTCAAATTTTTGTTAAAAGA
Found at i:120008942 original size:25 final size:24
Alignment explanation
Indices: 120008909--120008957 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
120008899 TATTAAGTTG
120008909 CTTTTA-TTTTAAAAAATAAATTAT
1 CTTTTATTTTTAAAAAAT-AATTAT
*
120008933 CTTTTAATTTTTATAAAATAATTAT
1 CTTTT-ATTTTTAAAAAATAATTAT
120008958 ACAAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 7 0.32
26 10 0.45
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
CTTTTATTTTTAAAAAATAATTAT
Found at i:120009065 original size:17 final size:15
Alignment explanation
Indices: 120009032--120009060 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
120009022 TAATATTAAT
120009032 TTTATCAAACAATAA
1 TTTATCAAACAATAA
120009047 TTTATCAAACAATA
1 TTTATCAAACAATA
120009061 TAATTACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (15 bp):
TTTATCAAACAATAA
Found at i:120009186 original size:18 final size:18
Alignment explanation
Indices: 120009163--120009198 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
120009153 CTTAATTTTT
120009163 AAATTTATCAAACAACAG
1 AAATTTATCAAACAACAG
120009181 AAATTTATCAAACAACAG
1 AAATTTATCAAACAACAG
120009199 CTTAATTATT
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:0.56, C:0.17, G:0.06, T:0.22
Consensus pattern (18 bp):
AAATTTATCAAACAACAG
Found at i:120012149 original size:3 final size:3
Alignment explanation
Indices: 120012141--120012170 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
120012131 GCCAACAAAA
120012141 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
120012171 CACCTTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:120015606 original size:27 final size:25
Alignment explanation
Indices: 120015557--120015606 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
120015547 TTAATCATAA
*
120015557 ATTTTTAATAAAAATAATTAATTTT
1 ATTTTTAATAAAAATAATAAATTTT
*
120015582 ATTTTTAATATAACATATATAAATT
1 ATTTTTAATA-AAAATA-ATAAATT
120015607 AATTTACCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 5 0.24
27 6 0.29
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTTTTAATAAAAATAATAAATTTT
Found at i:120015611 original size:26 final size:25
Alignment explanation
Indices: 120015556--120015611 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
120015546 ATTAATCATA
*
120015556 AATTTTTAATAAAAATAATTAATTT
1 AATTTTTAATAAAAATAATTAAATT
* *
120015581 TATTTTTAATATAACAT-ATATAAATT
1 AATTTTTAATA-AAAATAAT-TAAATT
120015607 AATTT
1 AATTT
120015612 ACCTATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
AATTTTTAATAAAAATAATTAAATT
Found at i:120016300 original size:30 final size:30
Alignment explanation
Indices: 120016244--120016300 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
120016234 TACACCAAAT
* *
120016244 CAAAAATCTTGTATCAAAGTACATATTGGA
1 CAAAAATCATGTATAAAAGTACATATTGGA
*
120016274 CAAAAATTCATGTATAAAATTA-ATATT
1 CAAAAA-TCATGTATAAAAGTACATATT
120016301 TATCACTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 11 0.48
31 12 0.52
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (30 bp):
CAAAAATCATGTATAAAAGTACATATTGGA
Found at i:120017062 original size:27 final size:28
Alignment explanation
Indices: 120017009--120017062 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
120016999 CACTCGTTCA
120017009 TATTTAATATATATTCTCTAATCCAATC
1 TATTTAATATATATTCTCTAATCCAATC
*
120017037 TATTTAATATAT-TTCTCTAATTCAAT
1 TATTTAATATATATTCTCTAATCCAAT
120017063 TTAGTTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (28 bp):
TATTTAATATATATTCTCTAATCCAATC
Found at i:120023723 original size:12 final size:12
Alignment explanation
Indices: 120023706--120023740 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
120023696 GCCATTCATG
120023706 TACATATATACA
1 TACATATATACA
*
120023718 TACATAAATACA
1 TACATATATACA
*
120023730 TACATGTATAC
1 TACATATATAC
120023741 TCCTAGTAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (12 bp):
TACATATATACA
Found at i:120034820 original size:31 final size:31
Alignment explanation
Indices: 120034782--120034846 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
120034772 TTATTAAATA
* *
120034782 ATTT-AAAATTTTTCATTTAAGTCATTGAACT
1 ATTTAAAAAATTTT-ATTCAAGTCATTGAACT
120034813 ATTTAAAAAATTTTATTCAAGTCATTGAACT
1 ATTTAAAAAATTTTATTCAAGTCATTGAACT
120034844 ATT
1 ATT
120034847 AAACCTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 23 0.74
32 8 0.26
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.46
Consensus pattern (31 bp):
ATTTAAAAAATTTTATTCAAGTCATTGAACT
Found at i:120036640 original size:22 final size:22
Alignment explanation
Indices: 120036615--120036685 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 22
120036605 CCGAATTATA
120036615 TATTAATATATATTTTTTATTT
1 TATTAATATATATTTTTTATTT
*
120036637 TATT--TTTA-ATTATTTTAATTT
1 TATTAATATATATT-TTTT-ATTT
*
120036658 T-TTAATATAACTATTTTTTATTA
1 TATTAATAT-A-TATTTTTTATTT
120036681 TATTA
1 TATTA
120036686 TTAATTTGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
19 3 0.08
20 9 0.24
21 5 0.13
22 6 0.16
23 5 0.13
24 7 0.18
25 3 0.08
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTAATATATATTTTTTATTT
Found at i:120036736 original size:21 final size:21
Alignment explanation
Indices: 120036710--120036768 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
120036700 GTTTTAAGAA
120036710 TTGTTTTAATATTATTTTTAT
1 TTGTTTTAATATTATTTTTAT
*
120036731 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATA-TTATTTTTAT
*
120036753 GT-TTTTAA-ATATATTT
1 TTGTTTTAATAT-TATTT
120036769 GATTTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 1 0.03
20 5 0.15
21 17 0.52
22 10 0.30
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (21 bp):
TTGTTTTAATATTATTTTTAT
Found at i:120036743 original size:12 final size:12
Alignment explanation
Indices: 120036698--120036749 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
120036688 AATTTGTGTA
* *
120036698 TTGTTTTAAGAA
1 TTGTTTTAATAT
120036710 TTGTTTTAATA-
1 TTGTTTTAATAT
*
120036721 TTATTTT--TAT
1 TTGTTTTAATAT
120036731 TTGTTTTAATAT
1 TTGTTTTAATAT
120036743 TTGTTTT
1 TTGTTTT
120036750 TATGTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 6 0.18
11 6 0.18
12 20 0.59
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:120036783 original size:26 final size:24
Alignment explanation
Indices: 120036739--120036788 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
120036729 ATTTGTTTTA
*
120036739 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
120036763 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
120036789 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:120038215 original size:17 final size:17
Alignment explanation
Indices: 120038195--120038242 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
120038185 TCCTTTTTCT
120038195 TTCTTTCTTTCTTTCCC
1 TTCTTTCTTTCTTTCCC
* * * *
120038212 TTCTATGTTTCGTCCCC
1 TTCTTTCTTTCTTTCCC
120038229 TTCTTTCTTTCTTT
1 TTCTTTCTTTCTTT
120038243 TCTATTCTTT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.02, C:0.31, G:0.04, T:0.62
Consensus pattern (17 bp):
TTCTTTCTTTCTTTCCC
Found at i:120038321 original size:15 final size:14
Alignment explanation
Indices: 120038301--120038333 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
120038291 TATTATACGA
120038301 ATATAATATAATATT
1 ATATAATAT-ATATT
120038316 ATATAATATATATT
1 ATATAATATATATT
120038330 -TATA
1 ATATA
120038334 CTTAAATACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 5 0.28
15 9 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATAATATATATT
Found at i:120039488 original size:60 final size:60
Alignment explanation
Indices: 120039415--120039536 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
120039405 GAGTCAACGA
120039415 GTCAGTGGAATGACTTAAAACTTTCATTTTTCTTTTTCATTTTTTCCTTTCCCCTTTTAT
1 GTCAGTGGAATGACTTAAAACTTTCATTTTTCTTTTTCATTTTTTCCTTTCCCCTTTTAT
120039475 GTCAGTGGAATGACTTAAAACTTTCATTTTTCTTTTTCATTTTTTCCTTTCCCCTTTTAT
1 GTCAGTGGAATGACTTAAAACTTTCATTTTTCTTTTTCATTTTTTCCTTTCCCCTTTTAT
120039535 GT
1 GT
120039537 TCTTTCGAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.18, C:0.20, G:0.09, T:0.53
Consensus pattern (60 bp):
GTCAGTGGAATGACTTAAAACTTTCATTTTTCTTTTTCATTTTTTCCTTTCCCCTTTTAT
Found at i:120040296 original size:31 final size:29
Alignment explanation
Indices: 120040261--120040332 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
120040251 ATCCCAAAAC
*
120040261 TATACATGAAATATGGTTTGATGTATAATGG
1 TATACATGAAATATGATTT--TGTATAATGG
* * **
120040292 TATACATGAATTTTGATTTTGTATAATTT
1 TATACATGAAATATGATTTTGTATAATGG
120040321 TATACATGAAAT
1 TATACATGAAAT
120040333 TTTGATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 19 0.54
31 16 0.46
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.44
Consensus pattern (29 bp):
TATACATGAAATATGATTTTGTATAATGG
Found at i:120040324 original size:29 final size:30
Alignment explanation
Indices: 120040282--120040340 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
120040272 TATGGTTTGA
120040282 TGTATAATGGTATACATG-AATTTTGATTT
1 TGTATAATGGTATACATGAAATTTTGATTT
**
120040311 TGTATAATTTTATACATGAAATTTTGATTT
1 TGTATAATGGTATACATGAAATTTTGATTT
120040341 GATCAAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (30 bp):
TGTATAATGGTATACATGAAATTTTGATTT
Found at i:120047896 original size:30 final size:30
Alignment explanation
Indices: 120047860--120047916 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
120047850 GTAAGACCAT
120047860 GGTTGAAAGATACCATGGCAACGTGATTTC
1 GGTTGAAAGATACCATGGCAACGTGATTTC
120047890 GGTTGAAAGATACCATGGCAACGTGAT
1 GGTTGAAAGATACCATGGCAACGTGAT
120047917 ATGAAATGAA
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:0.32, C:0.16, G:0.28, T:0.25
Consensus pattern (30 bp):
GGTTGAAAGATACCATGGCAACGTGATTTC
Found at i:120047989 original size:47 final size:46
Alignment explanation
Indices: 120047890--120048041 Score: 207
Period size: 46 Copynumber: 3.3 Consensus size: 46
120047880 ACGTGATTTC
* *
120047890 GGTTGAAAGATACCATGGCAACGTGATATG-AAATGAATAAGACCAT
1 GGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATAAGACCAT
* *
120047936 GGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACAAT
1 GGTTGAAAGATACCATGGCAACATGAC-AGAAAATGAATAAGACCAT
* * *
120047983 GGTTGAAAGATACCATGGCAACATGACAGAAAACGAGTAAAACCAT
1 GGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGACCAT
*
120048029 AGTTGAAAGATAC
1 GGTTGAAAGATAC
120048042 TATGACATCA
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
46 52 0.55
47 42 0.45
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (46 bp):
GGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGACCAT
Found at i:120048149 original size:13 final size:13
Alignment explanation
Indices: 120048131--120048164 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
120048121 TATGTATCAG
120048131 ATGAAATGGTTAT
1 ATGAAATGGTTAT
*
120048144 ATGAAATGGTTGT
1 ATGAAATGGTTAT
*
120048157 GTGAAATG
1 ATGAAATG
120048165 TTTACAGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:120049259 original size:13 final size:13
Alignment explanation
Indices: 120049241--120049265 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
120049231 TGTCTGTCAT
120049241 ATTGTGTCTATTG
1 ATTGTGTCTATTG
120049254 ATTGTGTCTATT
1 ATTGTGTCTATT
120049266 CCTAGGATCC
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:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (13 bp):
ATTGTGTCTATTG
Found at i:120049381 original size:21 final size:21
Alignment explanation
Indices: 120049357--120049400 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
120049347 TTTGCCGCCC
120049357 AAATGCTCTTCCAGGTAAGGG
1 AAATGCTCTTCCAGGTAAGGG
120049378 AAATGCTCTTCCAGGTAAGGG
1 AAATGCTCTTCCAGGTAAGGG
120049399 AA
1 AA
120049401 GGTAATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (21 bp):
AAATGCTCTTCCAGGTAAGGG
Found at i:120052056 original size:3 final size:3
Alignment explanation
Indices: 120052048--120052414 Score: 145
Period size: 3 Copynumber: 123.7 Consensus size: 3
120052038 AAACATACAC
* **
120052048 TAA TAA TAA TAA TAA TAA TAA TAA T-A TGAA TTA -AA TGG TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * * * * * *
120052091 GAA TAA TAG TAA CAA TAA -AT TAA -AA AAA TGA TAA TAG TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * *
120052136 TAA AAA TAA TAA CGA TAA TAA TAA TAG TAAA TAG TAA TAA TAA TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA-A
** * *
120052183 TTAA TAA TAA TAA T-A TGT TAA TAA CAA TAA -AT TAA TGAA TTAA TAA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA -TAA TAA
* * * * * * * *
120052229 CAA -AA CAG TAA GTAAA TAA -ACA CAA AAA TAA GATA TAA TTA TAA TAG
1 TAA TAA TAA TAA -T-AA TAA TA-A TAA TAA TAA TA-A TAA TAA TAA TAA
* *
120052276 TAA TAT TAA CAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * **
120052322 TAT TAA TAA -AA -AA TAA TAA TAA -AA GGAA TAA AAA CAA TGT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
* * * ** *
120052365 TAA CAA GAA TAT TAA TAA TGG TAA TAA TAA CAA TAA T-A TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
120052410 TAA TA
1 TAA TA
120052415 TATACATGAG
Statistics
Matches: 266, Mismatches: 71, Indels: 54
0.68 0.18 0.14
Matches are distributed among these distances:
2 28 0.11
3 214 0.80
4 19 0.07
5 5 0.02
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:120054446 original size:77 final size:76
Alignment explanation
Indices: 120054284--120054564 Score: 370
Period size: 75 Copynumber: 3.7 Consensus size: 76
120054274 AGAGACTAAA
* * * * *
120054284 AGGCTCGACTCACTTCTTGCAATATGAGTCGATTTTTTTGAAAAAACATAAATTGAAAATATCTC
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTTTG-AAAAACAGAAATTGAAAATACCTC
* * * *
120054349 AGTGCGTGATTTG
64 AGCGTGTGACTCG
*
120054362 AGGCTCAACTCACCTCTCT-CAATATGAGTTGATTTTTTTGAAAAACAGGAATT-AAAGATACCT
1 AGGCTCAACTCACCTCT-TGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAA-ATACCT
120054425 CAGCGTGTGACTCG
63 CAGCGTGTGACTCG
* * *
120054439 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAATACTTCGG
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAG
*
120054503 CGTGTGACCCG
66 CGTGTGACTCG
120054514 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGAAAAACAGAAAT
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGAAAAACAGAAAT
120054565 AAAAGTATCA
Statistics
Matches: 182, Mismatches: 16, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
75 66 0.36
76 24 0.13
77 56 0.31
78 35 0.19
79 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (76 bp):
AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAG
CGTGTGACTCG
Found at i:120057067 original size:39 final size:39
Alignment explanation
Indices: 120057052--120057167 Score: 205
Period size: 39 Copynumber: 3.0 Consensus size: 39
120057042 CCGGACAAAT
*
120057052 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
*
120057091 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
*
120057130 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATA
120057168 CATCAATATC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
Found at i:120069222 original size:8 final size:8
Alignment explanation
Indices: 120069209--120069234 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
120069199 TGAGGCGATT
120069209 ATTTGAAA
1 ATTTGAAA
120069217 ATTTGAAA
1 ATTTGAAA
120069225 ATTTGAAA
1 ATTTGAAA
120069233 AT
1 AT
120069235 GAAATTTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (8 bp):
ATTTGAAA
Found at i:120070078 original size:3 final size:3
Alignment explanation
Indices: 120070064--120070458 Score: 107
Period size: 3 Copynumber: 131.3 Consensus size: 3
120070054 AAACATACAC
* * * * **
120070064 TAA TAT TAA TAA TAA TAA TAA TAG TAA TAA TATG TAT TAAA TGG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA TAA
* * * * * * *
120070111 -AA GAA TAA TAG TAA CAA TAA -AT TAA -AA AAA TGA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * ** *
120070156 AAA TAA AAA TAA TAG CGA TAA TAA TAA TAA TAA TAA TAAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
** * *
120070202 TAA TAA TACA TTAA TAA TAA TAA T-A TGT TAA TAA CAA TAA -AT TAA
1 TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
120070247 TGAA TTAA TAA CAA -AA CAG TAA GTAAA TAA -ACA CAA AAA TAA GATA
1 T-AA -TAA TAA TAA TAA TAA TAA -T-AA TAA TA-A TAA TAA TAA TA-A
* * * * *
120070293 TAA TTA TAA TAG TAA TAT TAA CAA -AA TAA TAA TAA TAA T-A TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * ** *
120070339 TAA -AA -AA TAA TAA TAA -AA GGAA TAA AAA CAA TGT TAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
* * ** * *
120070382 GAA TAT TAA TAA TGG TAA CAA TAA CAA TAA T-A TAAA TAA TAA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A
* * * *
120070428 TACA TGA GAA AAA AAA T-A TAA TAA TAA TAA T
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA T
120070459 GATAGAAGTA
Statistics
Matches: 279, Mismatches: 86, Indels: 54
0.67 0.21 0.13
Matches are distributed among these distances:
2 25 0.09
3 222 0.80
4 27 0.10
5 5 0.02
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:120070221 original size:17 final size:16
Alignment explanation
Indices: 120070173--120070241 Score: 77
Period size: 17 Copynumber: 4.2 Consensus size: 16
120070163 AATAATAGCG
120070173 ATAATAA-TAATAATA
1 ATAATAATTAATAATA
* *
120070188 ATAATAAATAGTAATA
1 ATAATAATTAATAATA
120070204 ATAATACATTAATAATA
1 ATAATA-ATTAATAATA
* *
120070221 ATAATATGTTAATAACA
1 ATAATA-ATTAATAATA
120070238 ATAA
1 ATAA
120070242 ATTAATGAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
15 7 0.15
16 13 0.28
17 26 0.57
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (16 bp):
ATAATAATTAATAATA
Found at i:120070246 original size:14 final size:14
Alignment explanation
Indices: 120070173--120070257 Score: 75
Period size: 16 Copynumber: 5.7 Consensus size: 14
120070163 AATAATAGCG
120070173 ATAATAAT-AA-TA
1 ATAATAATAAATTA
120070185 ATAATAATAAATAGTA
1 ATAATAATAAAT--TA
*
120070201 ATAATAATACATTA
1 ATAATAATAAATTA
120070215 ATAATAATAATATGTTA
1 ATAATAATAA-A--TTA
*
120070232 ATAACAATAAATTA
1 ATAATAATAAATTA
120070246 ATGAATTAATAA
1 AT-AA-TAATAA
120070258 CAAAACAGTA
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
12 8 0.13
13 2 0.03
14 16 0.27
15 3 0.05
16 19 0.32
17 12 0.20
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (14 bp):
ATAATAATAAATTA
Found at i:120070322 original size:14 final size:13
Alignment explanation
Indices: 120070305--120070356 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
120070295 ATTATAATAG
*
120070305 TAATATTAACAAAA
1 TAATAATAA-AAAA
*
120070319 TAATAATAATAATA
1 TAATAATAA-AAAA
*
120070333 TATTAATAAAAAA
1 TAATAATAAAAAA
120070346 TAATAATAAAA
1 TAATAATAAAA
120070357 GGAATAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 13 0.41
14 19 0.59
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATAATAAAAAA
Found at i:120076641 original size:11 final size:11
Alignment explanation
Indices: 120076607--120076696 Score: 50
Period size: 10 Copynumber: 8.5 Consensus size: 11
120076597 TAAATGCACA
120076607 TTTTTATTAATT
1 TTTTTA-TAATT
*
120076619 TTTTT-TATTT
1 TTTTTATAATT
120076629 TTTTTATAA--
1 TTTTTATAATT
120076638 TTTTTA-AA-T
1 TTTTTATAATT
* *
120076647 TATTT-TGATT
1 TTTTTATAATT
*
120076657 TTTTTATATTTT
1 TTTTTATA-ATT
120076669 ATTTTTATAA-T
1 -TTTTTATAATT
* *
120076680 ATTTTAGAATT
1 TTTTTATAATT
120076691 TTTTTA
1 TTTTTA
120076697 ATAACTACAA
Statistics
Matches: 59, Mismatches: 11, Indels: 17
0.68 0.13 0.20
Matches are distributed among these distances:
8 2 0.03
9 11 0.19
10 21 0.36
11 10 0.17
12 7 0.12
13 8 0.14
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:120076666 original size:16 final size:16
Alignment explanation
Indices: 120076647--120076696 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
120076637 ATTTTTAAAT
120076647 TATTTTGATTTTTTTA
1 TATTTTGATTTTTTTA
*
120076663 TATTTT-ATTTTTATAA
1 TATTTTGATTTTT-TTA
120076679 TATTTTAGAATTTTTTTA
1 TATTTT-G-ATTTTTTTA
120076697 ATAACTACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 6 0.21
16 14 0.50
18 2 0.07
19 6 0.21
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (16 bp):
TATTTTGATTTTTTTA
Found at i:120077157 original size:35 final size:35
Alignment explanation
Indices: 120077099--120077193 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 35
120077089 ATAAATTTAG
* **
120077099 TATAAATACAATTTAATTTATATTTT-ATTATTTGAT
1 TATAAATATAATTTAA-AAATATTTTGA-TATTTGAT
* *
120077135 T-TAAATATAATTTGTAAAATATTTTGATATTTTAT
1 TATAAATATAATTT-AAAAATATTTTGATATTTGAT
*
120077170 TATGAATATAATTTAAAAATATTT
1 TATAAATATAATTTAAAAATATTT
120077194 AAATTTTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
35 35 0.71
36 14 0.29
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (35 bp):
TATAAATATAATTTAAAAATATTTTGATATTTGAT
Found at i:120077414 original size:21 final size:21
Alignment explanation
Indices: 120077390--120077462 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
120077380 CATTATTTCT
120077390 AATCTCACCGCTATAGTATCC
1 AATCTCACCGCTATAGTATCC
**
120077411 AATCTCATTGCTATAGTATCC
1 AATCTCACCGCTATAGTATCC
* * *
120077432 AATCTCATCGCTACAGTAAT-T
1 AATCTCACCGCTATAGT-ATCC
120077453 AATCTCACCG
1 AATCTCACCG
120077463 TTACAGCTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 43 0.96
22 2 0.04
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.32
Consensus pattern (21 bp):
AATCTCACCGCTATAGTATCC
Found at i:120079003 original size:55 final size:55
Alignment explanation
Indices: 120078917--120079027 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
120078907 AAGAAACAAC
120078917 TAGCTTAATATAAAGAATTTAAATAACATTTTTTTTATAATTTATGTAATTTATT
1 TAGCTTAATATAAAGAATTTAAATAACATTTTTTTTATAATTTATGTAATTTATT
* *
120078972 TAGCTTAATATTAAGAATTTAAATAATATTTTTTTTATAATTTATGTAATTTATT
1 TAGCTTAATATAAAGAATTTAAATAACATTTTTTTTATAATTTATGTAATTTATT
120079027 T
1 T
120079028 GGTGCTTGGC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (55 bp):
TAGCTTAATATAAAGAATTTAAATAACATTTTTTTTATAATTTATGTAATTTATT
Found at i:120080372 original size:23 final size:23
Alignment explanation
Indices: 120080346--120080391 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
120080336 TCATTGCCAC
120080346 AAAATTTTAAAAAATATATTTTT
1 AAAATTTTAAAAAATATATTTTT
**
120080369 AAAATTTTAAATTATATATTTTT
1 AAAATTTTAAAAAATATATTTTT
120080392 TATTTACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AAAATTTTAAAAAATATATTTTT
Found at i:120081637 original size:17 final size:16
Alignment explanation
Indices: 120081605--120081673 Score: 59
Period size: 17 Copynumber: 4.1 Consensus size: 16
120081595 TTAAATGCAC
*
120081605 ATTTTTATTTATTTTTT
1 ATTTTT-TTTAATTTTT
120081622 ATTTTTTTATAATTTTT
1 ATTTTTTT-TAATTTTT
**
120081639 AAAATTTTTTAATTTTT
1 -ATTTTTTTTAATTTTT
*
120081656 -TCTATTTTTAATTTTT
1 AT-TTTTTTTAATTTTT
120081672 AT
1 AT
120081674 GATATTTTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
16 14 0.33
17 22 0.52
18 6 0.14
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTTTTAATTTTT
Found at i:120081719 original size:9 final size:9
Alignment explanation
Indices: 120081625--120081719 Score: 56
Period size: 9 Copynumber: 10.6 Consensus size: 9
120081615 ATTTTTTATT
120081625 TTTTTATAA
1 TTTTTATAA
*
120081634 TTTTTAAAA
1 TTTTTATAA
120081643 TTTTT-TAA
1 TTTTTATAA
*
120081651 TTTTT-T-C
1 TTTTTATAA
120081658 TATTTT-TAA
1 T-TTTTATAA
*
120081667 TTTTTATGA
1 TTTTTATAA
*
120081676 TATTTTAGAA
1 T-TTTTATAA
120081686 TTTTT-TAA
1 TTTTTATAA
* *
120081694 TAATTATAAACA
1 T--TTTTATA-A
120081706 TTTTTATAA
1 TTTTTATAA
120081715 TTTTT
1 TTTTT
120081720 TTTTAGTTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
7 1 0.02
8 20 0.30
9 27 0.41
10 15 0.23
11 1 0.02
12 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:120082213 original size:18 final size:18
Alignment explanation
Indices: 120082190--120082225 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
120082180 GGTTCTTAGT
120082190 GATGTCCATAGTAATAAC
1 GATGTCCATAGTAATAAC
120082208 GATGTCCATAGTAATAAC
1 GATGTCCATAGTAATAAC
120082226 CACTTGGCTT
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:0.17, G:0.17, T:0.28
Consensus pattern (18 bp):
GATGTCCATAGTAATAAC
Found at i:120087505 original size:16 final size:16
Alignment explanation
Indices: 120087484--120087515 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
120087474 AGTACTTGGC
120087484 CCTTCTGATGATGTAA
1 CCTTCTGATGATGTAA
120087500 CCTTCTGATGATGTAA
1 CCTTCTGATGATGTAA
120087516 AAGCCGTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (16 bp):
CCTTCTGATGATGTAA
Found at i:120096784 original size:17 final size:17
Alignment explanation
Indices: 120096762--120096796 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
120096752 AAGAAAGTGG
*
120096762 AGTGTAAAATCTAAAGC
1 AGTGTAAAATATAAAGC
120096779 AGTGTAAAATATAAAGC
1 AGTGTAAAATATAAAGC
120096796 A
1 A
120096797 CATAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.09, G:0.17, T:0.23
Consensus pattern (17 bp):
AGTGTAAAATATAAAGC
Found at i:120098077 original size:17 final size:17
Alignment explanation
Indices: 120098055--120098090 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
120098045 CCAGTAGAAA
120098055 ATACACCTTCAATAGTG
1 ATACACCTTCAATAGTG
120098072 ATACACCTTCAATAGTG
1 ATACACCTTCAATAGTG
120098089 AT
1 AT
120098091 CATTACCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (17 bp):
ATACACCTTCAATAGTG
Found at i:120107958 original size:23 final size:23
Alignment explanation
Indices: 120107928--120107975 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
120107918 AATAGTTTTA
120107928 ATTGTTTATTTGAGTGGTTGTTC
1 ATTGTTTATTTGAGTGGTTGTTC
120107951 ATTGTTTATTTGAGTGGTTGTTC
1 ATTGTTTATTTGAGTGGTTGTTC
120107974 AT
1 AT
120107976 CTACTTAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.15, C:0.04, G:0.25, T:0.56
Consensus pattern (23 bp):
ATTGTTTATTTGAGTGGTTGTTC
Found at i:120132017 original size:21 final size:21
Alignment explanation
Indices: 120131991--120132040 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
120131981 AATAGAAGTT
120131991 GTGAATGATAGGAAATTGACA
1 GTGAATGATAGGAAATTGACA
* *
120132012 GTGAATGACAGGGAATTGACA
1 GTGAATGATAGGAAATTGACA
120132033 -TGAATGAT
1 GTGAATGAT
120132041 TTTATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.40, C:0.06, G:0.30, T:0.24
Consensus pattern (21 bp):
GTGAATGATAGGAAATTGACA
Found at i:120132350 original size:4 final size:4
Alignment explanation
Indices: 120132341--120132407 Score: 125
Period size: 4 Copynumber: 16.8 Consensus size: 4
120132331 TGAAATTAAG
120132341 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
120132389 GTAT GAAT GTAT GTAT GTA
1 GTAT GTAT GTAT GTAT GTA
120132408 ATTGAGTTAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:120138607 original size:17 final size:17
Alignment explanation
Indices: 120138569--120138607 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
120138559 TCGAAATCGG
* *
120138569 ATAATTAACTGAATTAA
1 ATAATTAACCGAAATAA
*
120138586 CTAATTAACCGAAATAA
1 ATAATTAACCGAAATAA
120138603 ATAAT
1 ATAAT
120138608 AATTATTATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (17 bp):
ATAATTAACCGAAATAA
Found at i:120139410 original size:33 final size:33
Alignment explanation
Indices: 120139363--120139431 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
120139353 CTGCCAGGTG
*
120139363 AATGACAAATTTACCCCATTTTTCAATATTTGT
1 AATGACAAACTTACCCCATTTTTCAATATTTGT
120139396 AATGACAAACTTACCCCATTTTTCAATATTTGT
1 AATGACAAACTTACCCCATTTTTCAATATTTGT
120139429 AAT
1 AAT
120139432 TTAGTGCTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.41
Consensus pattern (33 bp):
AATGACAAACTTACCCCATTTTTCAATATTTGT
Found at i:120145332 original size:8 final size:8
Alignment explanation
Indices: 120145309--120145385 Score: 57
Period size: 8 Copynumber: 8.9 Consensus size: 8
120145299 TGTCACATCA
120145309 ATAAATAAT
1 ATAAA-AAT
*
120145318 TTAAAAATT
1 ATAAAAA-T
120145327 ATAAAAAT
1 ATAAAAAT
120145335 AGTAAAAAGT
1 A-TAAAAA-T
120145345 A-AAAAATT
1 ATAAAAA-T
120145353 ATTAAAAAAT
1 A-T-AAAAAT
120145363 ATAAAAAT
1 ATAAAAAT
* *
120145371 ATATAATT
1 ATAAAAAT
120145379 ATAAAAA
1 ATAAAAA
120145386 AATTAGTGTG
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
8 28 0.51
9 18 0.33
10 4 0.07
11 5 0.09
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (8 bp):
ATAAAAAT
Found at i:120145340 original size:18 final size:17
Alignment explanation
Indices: 120145309--120145385 Score: 68
Period size: 18 Copynumber: 4.4 Consensus size: 17
120145299 TGTCACATCA
*
120145309 ATAAATAATTTAAAAATT
1 ATAAA-AATATAAAAATT
*
120145327 ATAAAAATAGTAAAAAGT
1 ATAAAAATA-TAAAAATT
*
120145345 A-AAAAATTATTAAAAAAT
1 ATAAAAA-TA-TAAAAATT
*
120145363 ATAAAAATAT-ATAATT
1 ATAAAAATATAAAAATT
120145379 ATAAAAA
1 ATAAAAA
120145386 AATTAGTGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
16 11 0.22
17 9 0.18
18 25 0.50
19 5 0.10
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
ATAAAAATATAAAAATT
Found at i:120145353 original size:26 final size:24
Alignment explanation
Indices: 120145320--120145385 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 24
120145310 TAAATAATTT
120145320 AAAAATTATAAAAATAGTAAAAAGTA
1 AAAAATTATAAAAATA-TAAAAA-TA
120145346 AAAAATTATTAAAAAATATAAAAATA
1 AAAAATTA-T-AAAAATATAAAAATA
* *
120145372 TATAATTATAAAAA
1 AAAAATTATAAAAA
120145386 AATTAGTGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 5 0.14
25 1 0.03
26 16 0.44
27 7 0.19
28 7 0.19
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (24 bp):
AAAAATTATAAAAATATAAAAATA
Found at i:120146502 original size:7 final size:7
Alignment explanation
Indices: 120146492--120146517 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
120146482 AATTAATGAT
120146492 AAATTTA
1 AAATTTA
120146499 AAATTTA
1 AAATTTA
120146506 AAATTTA
1 AAATTTA
120146513 AAATT
1 AAATT
120146518 ACAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:120152262 original size:19 final size:19
Alignment explanation
Indices: 120152240--120152292 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
120152230 TAGTTTAATC
120152240 ATTAATTTTATTAAAAATT
1 ATTAATTTTATTAAAAATT
120152259 ATTATTATTTT-TTAAAAATT
1 ATTA--ATTTTATTAAAAATT
*
120152279 AGT-ATTTTAATTAA
1 ATTAATTTT-ATTAA
120152293 GTTATCCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 5 0.17
19 8 0.28
20 11 0.38
21 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
ATTAATTTTATTAAAAATT
Found at i:120152275 original size:20 final size:21
Alignment explanation
Indices: 120152244--120152284 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
120152234 TTAATCATTA
*
120152244 ATTTTATTAAAAATTATTATT
1 ATTTTATTAAAAATTAGTATT
120152265 ATTTT-TTAAAAATTAGTATT
1 ATTTTATTAAAAATTAGTATT
120152285 TTAATTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTATTAAAAATTAGTATT
Found at i:120160157 original size:28 final size:29
Alignment explanation
Indices: 120160092--120160159 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 29
120160082 CATTTCAATT
* *
120160092 CAAAAATCAATCCATTCAATATATATATA
1 CAAATATCAATTCATTCAATATATATATA
* *
120160121 CTAAT-TCAATTCATTCAATCA-AT-TATC
1 CAAATATCAATTCATTCAAT-ATATATATA
120160148 CAAATATCAATT
1 CAAATATCAATT
120160160 ACTCACCTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
27 7 0.22
28 21 0.66
29 4 0.12
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (29 bp):
CAAATATCAATTCATTCAATATATATATA
Found at i:120160934 original size:8 final size:8
Alignment explanation
Indices: 120160882--120160944 Score: 55
Period size: 7 Copynumber: 8.2 Consensus size: 8
120160872 TTATTTTATC
120160882 ATTATAAT
1 ATTATAAT
120160890 ATAATATAAT
1 AT--TATAAT
120160900 A-TAT-AT
1 ATTATAAT
*
120160906 ACT-TAAT
1 ATTATAAT
*
120160913 AAT-TAAT
1 ATTATAAT
120160920 A-TATAAT
1 ATTATAAT
120160927 ATTATAAT
1 ATTATAAT
120160935 ATTATAAT
1 ATTATAAT
120160943 AT
1 AT
120160945 ATATTTTAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
6 5 0.10
7 18 0.38
8 18 0.38
10 7 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (8 bp):
ATTATAAT
Found at i:120167688 original size:26 final size:26
Alignment explanation
Indices: 120167652--120167735 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
120167642 CATGAAATTC
120167652 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
120167678 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
120167704 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
120167730 TTATCA
1 TTATCA
120167736 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:120168754 original size:47 final size:47
Alignment explanation
Indices: 120168646--120168755 Score: 125
Period size: 47 Copynumber: 2.3 Consensus size: 47
120168636 CGGGATAAGT
* * * *
120168646 ACATAGTGCTTCATCAGAATAAATCCGGAACTTTAACATTATAGTAC
1 ACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTAC
* * *
120168693 ACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-AC
1 ACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTAC
120168740 ACATAGTG-TCTCATCG
1 ACATAGTGCT-TCATCG
120168756 ACTCAATGTC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 49 0.94
48 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (47 bp):
ACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTAC
Found at i:120169574 original size:4 final size:4
Alignment explanation
Indices: 120169557--120169587 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
120169547 TCTCTGTTAG
*
120169557 TCTT TCTA TCTT TCTT TCTT TCTT TCTT TCT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCT
120169588 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (4 bp):
TCTT
Found at i:120169619 original size:50 final size:50
Alignment explanation
Indices: 120169517--120169619 Score: 154
Period size: 50 Copynumber: 2.1 Consensus size: 50
120169507 TATTTATTTA
* *
120169517 TTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTTAGTCTTTCTATC
1 TTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTAACTCTTTCTATC
* *
120169567 TTTCTTTCTTTCTTTCTTTCTCACGTTTGCTCTTTGTAACT-TTTCTATTC
1 TTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTAACTCTTTCTA-TC
120169617 TTT
1 TTT
120169620 ACTCATTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 6 0.12
50 42 0.88
ACGTcount: A:0.07, C:0.25, G:0.07, T:0.61
Consensus pattern (50 bp):
TTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTAACTCTTTCTATC
Found at i:120169631 original size:14 final size:14
Alignment explanation
Indices: 120169612--120169642 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
120169602 GTAACTTTTC
120169612 TATTCTTTACTCAT
1 TATTCTTTACTCAT
*
120169626 TATTCTTTATTCAT
1 TATTCTTTACTCAT
120169640 TAT
1 TAT
120169643 ACTATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTCTTTACTCAT
Found at i:120169940 original size:13 final size:14
Alignment explanation
Indices: 120169922--120169954 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
120169912 ACTATAATTC
*
120169922 ATAAATATTTCT-A
1 ATAAATATTTATGA
120169935 ATAAATATTTATGA
1 ATAAATATTTATGA
120169949 ATAAAT
1 ATAAAT
120169955 TTCACAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (14 bp):
ATAAATATTTATGA
Found at i:120174604 original size:40 final size:38
Alignment explanation
Indices: 120174492--120174612 Score: 161
Period size: 38 Copynumber: 3.1 Consensus size: 38
120174482 TTGTGTTGAG
*
120174492 ATTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGT
1 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* *
120174530 ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* * *
120174568 ATTATATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGGT
1 ATTATATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
*
120174608 GTTAT
1 ATTAT
120174613 GTTTGGGTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 44 0.61
39 6 0.08
40 22 0.31
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (38 bp):
ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:120176973 original size:46 final size:46
Alignment explanation
Indices: 120176838--120176973 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
120176828 TTTGACATGA
* * * * * * *
120176838 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
120176884 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
120176930 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
120176974 AGAGCACATT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 4 0.05
46 78 0.95
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Done.