Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 38 of 105
Found at i:7212440 original size:36 final size:35
Alignment explanation
Indices: 7212379--7212841 Score: 162
Period size: 36 Copynumber: 12.8 Consensus size: 35
7212369 GTCTTGATCG
*
7212379 ATTTTTTATCTTTTGACTT--GTGTGTTGTCCCAATC
1 ATTTTTT-TTTTTTGACTTACG-GTGTTGTCCCAATC
*
7212414 ATTTTTTTTTATTTGACTTACGGTGTTGT-CCAAGTTG
1 ATTTTTTTTT-TTTGACTTACGGTGTTGTCCCAA--TC
* * * * ** *
7212451 ATTTTCTATTTTTGAGTTACGGTGTTGTCTCGGTT
1 ATTTTTTTTTTTTGACTTACGGTGTTGTCCCAATC
* * ** * * **
7212486 GTTCTTTTTTATTCAACTCACGGTGTTATCCTGATC
1 ATT-TTTTTTTTTTGACTTACGGTGTTGTCCCAATC
* * * **
7212522 GATTCTTTATTTTTAACTTGA-GGTGTTGTCCCGGTC
1 -ATTTTTTTTTTTTGACTT-ACGGTGTTGTCCCAATC
* * * *
7212558 ATTTGTTTATTTCTAACTTACGGTGTTGTCCCGATC
1 ATTT-TTTTTTTTTGACTTACGGTGTTGTCCCAATC
* * * ** * * * *
7212594 ATTCTTCTTTATTCGACTTGTGATGTTGTTCTAATTA
1 ATT-TTTTTTTTTTGACTTACGGTGTTGTCCCAA-TC
* * * *
7212631 ATTCTTTATTTTTGATTTATGGTGTTGTCCCAA-C
1 ATTTTTTTTTTTTGACTTACGGTGTTGTCCCAATC
*** * * * *
7212665 ATTCACTTTATTTGACTTACAGTGTTATCCCAGTC
1 ATTTTTTTTTTTTGACTTACGGTGTTGTCCCAATC
** **
7212700 GATTCTTCATTTTTTGACTTACGGTGTTGTCCTGATC
1 -ATT-TTTTTTTTTTGACTTACGGTGTTGTCCCAATC
* * **
7212737 ATTTTTCTTTATTTGATTTGTGGTGTTGTTCCCAATC
1 ATTTTT-TTTTTTTGACTTACGGTGTTG-TCCCAATC
* * * ** *
7212774 GATTCTTTATTATTTGACTTACGGTATTGTGTCAATTA
1 -ATT-TTTTTTTTTTGACTTACGGTGTTGTCCCAA-TC
* *
7212812 ATTTTTTATCTTTTAACTTACGGTGTTGTC
1 ATTTTTT-TTTTTTGACTTACGGTGTTGTC
7212842 TCGGTCAATT
Statistics
Matches: 308, Mismatches: 98, Indels: 42
0.69 0.22 0.09
Matches are distributed among these distances:
34 26 0.08
35 29 0.09
36 158 0.51
37 72 0.23
38 20 0.06
39 3 0.01
ACGTcount: A:0.17, C:0.16, G:0.16, T:0.51
Consensus pattern (35 bp):
ATTTTTTTTTTTTGACTTACGGTGTTGTCCCAATC
Found at i:7212621 original size:144 final size:144
Alignment explanation
Indices: 7212342--7212622 Score: 300
Period size: 144 Copynumber: 2.0 Consensus size: 144
7212332 TATCCCAATC
** * * * * *
7212342 GTTCTTCTTTATTCAACTTGCGATGTTGTCTTGATCGATTTTTTATCTTTTGACTTGTGTGTTGT
1 GTTCTTCTTTATTCAACTCACGATGTTATCCTGATCGATTCTTTATCTTTTAACTTGGGTGTTGT
* * * * * * *
7212407 CCCAATCATTTTTTTTTATTTGACTTACGGTGTTGTCCAAGTTGATTTTCTATTTTTGAGTTACG
66 CCCAATCATTTTTTATTATCTAACTTACGGTGTTGTCCAAGATCATTTTCTATTTTCGACTTACG
*
7212472 GTGTTGTCTCGGTT
131 ATGTTGTCTCGGTT
* *
7212486 GTTCTTTTTTATTCAACTCACGGTGTTATCCTGATCGATTCTTTAT-TTTTAACTTGAGGTGTTG
1 GTTCTTCTTTATTCAACTCACGATGTTATCCTGATCGATTCTTTATCTTTTAACTTG-GGTGTTG
** *
7212550 TCCCGGTCATTTGTTTATT-TCTAACTTACGGTGTTGTCC-CGATCATTCTTCT-TTATTCGACT
65 TCCCAATCATTT-TTTATTATCTAACTTACGGTGTTGTCCAAGATCATT-TTCTATT-TTCGACT
**
7212612 TGTGATGTTGT
127 TACGATGTTGT
7212623 TCTAATTAAT
Statistics
Matches: 111, Mismatches: 22, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
143 16 0.14
144 90 0.81
145 5 0.05
ACGTcount: A:0.15, C:0.16, G:0.18, T:0.51
Consensus pattern (144 bp):
GTTCTTCTTTATTCAACTCACGATGTTATCCTGATCGATTCTTTATCTTTTAACTTGGGTGTTGT
CCCAATCATTTTTTATTATCTAACTTACGGTGTTGTCCAAGATCATTTTCTATTTTCGACTTACG
ATGTTGTCTCGGTT
Found at i:7212690 original size:34 final size:37
Alignment explanation
Indices: 7212652--7212731 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 37
7212642 TTGATTTATG
7212652 GTGTTGTCCCA-AC-ATTC-AC-TTTATTTGACTTACA
1 GTGTTGTCCCAGACGATTCTACATTT-TTTGACTTACA
* * * *
7212686 GTGTTATCCCAGTCGATTCTTCATTTTTTGACTTACG
1 GTGTTGTCCCAGACGATTCTACATTTTTTGACTTACA
7212723 GTGTTGTCC
1 GTGTTGTCC
7212732 TGATCATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
34 10 0.27
35 1 0.03
36 4 0.11
37 19 0.51
38 3 0.08
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.44
Consensus pattern (37 bp):
GTGTTGTCCCAGACGATTCTACATTTTTTGACTTACA
Found at i:7212790 original size:74 final size:72
Alignment explanation
Indices: 7212563--7212803 Score: 227
Period size: 74 Copynumber: 3.3 Consensus size: 72
7212553 CGGTCATTTG
* * * * * *
7212563 TTTATTTCTAACTTACGGTGTTGTCCCGATCATTCTTCTTTATTCGACTTGTGATGTTGTT-CTA
1 TTTATTTTTGACTTACGGTGTTGT-CCGATCATTTTTCTTTATTTGACTTGTGGTGTTGTTCCCA
**
7212627 ATTAATTC
65 ATCGATTC
* * * * ** *** * *
7212635 TTTATTTTTGATTTATGGTGTTGTCCCAACA-TTCACTTTATTTGACTTACAGTGTT-ATCCCAG
1 TTTATTTTTGACTTACGGTGTTGTCCGATCATTTTTCTTTATTTGACTTGTGGTGTTGTTCCCAA
7212698 TCGATTC
66 TCGATTC
* *
7212705 TTCATTTTTTGACTTACGGTGTTGTCCTGATCATTTTTCTTTATTTGATTTGTGGTGTTGTTCCC
1 TTTA-TTTTTGACTTACGGTGTTGTCC-GATCATTTTTCTTTATTTGACTTGTGGTGTTGTTCCC
7212770 AATCGATTC
64 AATCGATTC
*
7212779 TTTATTATTTGACTTACGGTATTGT
1 TTTATT-TTTGACTTACGGTGTTGT
7212804 GTCAATTAAT
Statistics
Matches: 129, Mismatches: 34, Indels: 10
0.75 0.20 0.06
Matches are distributed among these distances:
69 1 0.01
70 27 0.21
71 25 0.19
72 23 0.18
73 21 0.16
74 32 0.25
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.51
Consensus pattern (72 bp):
TTTATTTTTGACTTACGGTGTTGTCCGATCATTTTTCTTTATTTGACTTGTGGTGTTGTTCCCAA
TCGATTC
Found at i:7212831 original size:37 final size:37
Alignment explanation
Indices: 7212769--7212872 Score: 104
Period size: 37 Copynumber: 2.8 Consensus size: 37
7212759 GTGTTGTTCC
* * *
7212769 CAATCGATTCTTTATTATTT-GACTTACGGTATTGTGT
1 CAATCAATTCTTTATT-TTTCAACTTACGGTATTGTCT
* * *
7212806 CAATTAATTTTTTATCTTTT-AACTTACGGTGTTGTCT
1 CAATCAATTCTTTAT-TTTTCAACTTACGGTATTGTCT
**
7212843 CGGTCAATTCTTTATTTTTCAACTTACGGT
1 CAATCAATTCTTTATTTTTCAACTTACGGT
7212873 GTGGTCTCGA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
36 4 0.07
37 50 0.91
38 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.50
Consensus pattern (37 bp):
CAATCAATTCTTTATTTTTCAACTTACGGTATTGTCT
Found at i:7213161 original size:73 final size:71
Alignment explanation
Indices: 7212969--7213161 Score: 190
Period size: 73 Copynumber: 2.6 Consensus size: 71
7212959 TTTATTTCCT
* * * **
7212969 ACTTATGGTATTA-TCTTCGTCGATTTTTTATTTTTGACTTGTGATGTTATCTTGATTGTTCTTC
1 ACTTATGGTGTTATTC-TCGTCGA-TTTTTGTTTTTGACTTGTGGTGTTATCCCGATTGTTCTTC
*
7213033 TTTATTCG
64 TTTATTCA
* * * * * * *
7213041 ACTTTTGGTGTTGTTTTCATCAATTCTTTGTCTTTTGACTTGCGGTGTTGTCCCGATTGTTCTTC
1 ACTTATGGTGTTATTCTCGTCGATT-TTTGT-TTTTGACTTGTGGTGTTATCCCGATTGTTCTTC
7213106 TTTATTCA
64 TTTATTCA
* *
7213114 ACTTATGGTGTTATTCTGGTCGATCTTTTGTTTTTCGATTTGTGGTGT
1 ACTTATGGTGTTATTCTCGTCGAT-TTTTGTTTTT-GACTTGTGGTGT
7213162 CACCTGATCG
Statistics
Matches: 95, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
71 2 0.02
72 23 0.24
73 69 0.73
74 1 0.01
ACGTcount: A:0.12, C:0.14, G:0.19, T:0.55
Consensus pattern (71 bp):
ACTTATGGTGTTATTCTCGTCGATTTTTGTTTTTGACTTGTGGTGTTATCCCGATTGTTCTTCTT
TATTCA
Found at i:7213221 original size:10 final size:11
Alignment explanation
Indices: 7213207--7213238 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
7213197 AATCCCAAAG
7213207 CAAAACAAAAA
1 CAAAACAAAAA
7213218 -AAAACAAAAA
1 CAAAACAAAAA
7213228 CAAAA-AAAAA
1 CAAAACAAAAA
7213238 C
1 C
7213239 TTTTAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAACAAAAA
Found at i:7213229 original size:16 final size:16
Alignment explanation
Indices: 7213208--7213238 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7213198 ATCCCAAAGC
7213208 AAAACAAAAAAAAACA
1 AAAACAAAAAAAAACA
7213224 AAAACAAAAAAAAAC
1 AAAACAAAAAAAAAC
7213239 TTTTAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAACAAAAAAAAACA
Found at i:7216528 original size:21 final size:21
Alignment explanation
Indices: 7216503--7216545 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
7216493 TCCAGTTCCT
7216503 CTTTCATGAAGCTTTCTTTAC
1 CTTTCATGAAGCTTTCTTTAC
7216524 CTTTCATGAAGCTTTCTTTAC
1 CTTTCATGAAGCTTTCTTTAC
7216545 C
1 C
7216546 CTCCTACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (21 bp):
CTTTCATGAAGCTTTCTTTAC
Found at i:7220899 original size:356 final size:356
Alignment explanation
Indices: 7220232--7220876 Score: 891
Period size: 356 Copynumber: 1.8 Consensus size: 356
7220222 TTATTATCTA
* **
7220232 CAAATGCTTTCACTAATTATCTACAAAATATAATAGGAATTATTAAAGGTGTTTTTCTTAAATAT
1 CAAATGCCTTCACTAATTATCTACAAAATATAATAGGAATTATTAAAGGCATTTTTCTTAAATAT
*** **
7220297 ACGCCTTCAATAATTGTGTTAAAATCTGTGTGGTGGTATATTGAAGGTATTTTACAGTAGAAGAC
66 ACGCCTTCAATAACCATGTTAAAATCTGTGTGGCAGTATATTGAAGGTATTTTACAGTAGAAGAC
* * * *
7220362 ACCTTTAATAATTCTCAAAATTTTTTGAGAAAAAATATTGAAGGCATCTATTATTAACAAATGCA
131 ACCTTTAACAATGCCCAAAATTTTTAGAGAAAAAATATTGAAGGCATCTATTATTAACAAATGCA
* * *
7220427 TTCAGTAATGGATTACTAAATTTAAAGGTGTATTGAAAGTGCTTTCTCGAATAAACACCTTCAAT
196 TTCAGTAATGGATTACTAAATTTAAAAGTATATTGAAAGTGATTTCTCGAATAAACACCTTCAAT
* * * * *
7220492 ATCTACCGTGGTATATTGAAGGCGTTTTATAATAAAAGACACCTTTAATAATCCCAAAATTTTTT
261 AACCACCATGGTATATTGAAGGCATTTTATAATAAAAGACACCATTAATAATCCCAAAATTTTTT
7220557 TTAAAGAAATTATTGAAGGTGTTGTTATTTG
326 TTAAAGAAATTATTGAAGGTGTTGTTATTTG
* * * *
7220588 CAAATGCCTTCACTAATTATCTATAAAATCTAATATGAATTATTAAAGGCATTTTTCTTGAATAT
1 CAAATGCCTTCACTAATTATCTACAAAATATAATAGGAATTATTAAAGGCATTTTTCTTAAATAT
* * *
7220653 ACGCCTTTAATAACCATGTTAAAATTTGTGTGGCAGTATATTGAAGGTATTTTATAGTAGAAGAC
66 ACGCCTTCAATAACCATGTTAAAATCTGTGTGGCAGTATATTGAAGGTATTTTACAGTAGAAGAC
* * * *
7220718 GCCTTTAACAATGCCCAAAATTTTTAGAGAAAAAATATTGAAGGCGTCTGTTTTTAACAAACAT-
131 ACCTTTAACAATGCCCAAAATTTTTAGAGAAAAAATATTGAAGGCATCTATTATTAAC-AA-ATG
* * * * * * *
7220782 CTTTC-GTTATGGATTACTAAGTTTAAAAGTATATTGAAGGTGATTTTTTGAATAAACACCTTCT
194 CATTCAGTAATGGATTACTAAATTTAAAAGTATATTGAAAGTGATTTCTCGAATAAACACCTTCA
*
7220846 ATAACCATCATGG-AGTATTGAAGGCATTTTA
259 ATAACCACCATGGTA-TATTGAAGGCATTTTA
7220877 CTGTAGAAGA
Statistics
Matches: 248, Mismatches: 38, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
355 1 0.00
356 239 0.96
357 6 0.02
358 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (356 bp):
CAAATGCCTTCACTAATTATCTACAAAATATAATAGGAATTATTAAAGGCATTTTTCTTAAATAT
ACGCCTTCAATAACCATGTTAAAATCTGTGTGGCAGTATATTGAAGGTATTTTACAGTAGAAGAC
ACCTTTAACAATGCCCAAAATTTTTAGAGAAAAAATATTGAAGGCATCTATTATTAACAAATGCA
TTCAGTAATGGATTACTAAATTTAAAAGTATATTGAAAGTGATTTCTCGAATAAACACCTTCAAT
AACCACCATGGTATATTGAAGGCATTTTATAATAAAAGACACCATTAATAATCCCAAAATTTTTT
TTAAAGAAATTATTGAAGGTGTTGTTATTTG
Found at i:7231796 original size:178 final size:181
Alignment explanation
Indices: 7231464--7231844 Score: 554
Period size: 178 Copynumber: 2.1 Consensus size: 181
7231454 TAGAAATTAA
* * * * ** * * *
7231464 ACTCGATAAACTTTTTAACCATATATGGCCCACCTTGTAATTTTTTGTAGATTAATTGTAGTACT
1 ACTCAATAAACTTTTCAAACATATAAGGCCCACCTCATAATTTCTTGTAGATTAATTGTAATAAT
*
7231529 TTTTGCAATCCATGTCATATGCTGCTGCCAGACAACATGTATATTTTCTAACAAAAATTATATAT
66 TTTTGCAATCCATGTCATATGCTGCTGCCAGACAACATGTATATGTTCTAACAAAAATTATATAT
7231594 TTATTCATAAAAGACTCCAAATTCAATTTCGCTTATTTCATTGGAAAGTAG
131 TTATTCATAAAAGACTCCAAATTCAATTTCGCTTATTTCATTGGAAAGTAG
*
7231645 ACTCAATAACCTTTTCAAACATATAAGGCCCACCTCATAATTTCTTGTAGATTAATT-TAATAAT
1 ACTCAATAAACTTTTCAAACATATAAGGCCCACCTCATAATTTCTTGTAGATTAATTGTAATAAT
* * * * *
7231709 TTTTGCAATTCATGTCATATGCT-C-GACTAGACATCATGTATATGTTGTAA-TAAAATTATATA
66 TTTTGCAATCCATGTCATATGCTGCTG-CCAGACAACATGTATATGTTCTAACAAAAATTATATA
* *
7231771 TTTATTCATAAAAGACTCTAAATTCAATTTCGCTTGTTTCATTGGAAAGTAG
130 TTTATTCATAAAAGACTCCAAATTCAATTTCGCTTATTTCATTGGAAAGTAG
*
7231823 ACTCAATAAACGTTTCAAACAT
1 ACTCAATAAACTTTTCAAACAT
7231845 GTTTAGCTCA
Statistics
Matches: 179, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
178 82 0.46
179 21 0.12
180 27 0.15
181 49 0.27
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (181 bp):
ACTCAATAAACTTTTCAAACATATAAGGCCCACCTCATAATTTCTTGTAGATTAATTGTAATAAT
TTTTGCAATCCATGTCATATGCTGCTGCCAGACAACATGTATATGTTCTAACAAAAATTATATAT
TTATTCATAAAAGACTCCAAATTCAATTTCGCTTATTTCATTGGAAAGTAG
Found at i:7236934 original size:122 final size:122
Alignment explanation
Indices: 7236708--7236947 Score: 331
Period size: 122 Copynumber: 2.0 Consensus size: 122
7236698 AATTCAAATG
* * * * *
7236708 TTGTTGGTGAATTTAAACTAATTGGCAATTTATATAAACTATGCTTGGCCTACAATAATTAATAT
1 TTGTTGATGAATTTAAACTAATTGACAAATTATATAAACCAGGCTTGGCCTACAATAATTAATAT
* * * *
7236773 AGTTGCAATAATGTTGAAAAGATAGTGACTAAAACATATTTGACTAAAGAAAATTCA
66 AGTTGCAATAATGTTGAAAACACAATGACTAAAACATATTTAACTAAAGAAAATTCA
* * *
7236830 TTGTTGATGAATTTAAACTAATTTACAAATTATATAAACCGGGCTTGGCCTATAATAATTAATAT
1 TTGTTGATGAATTTAAACTAATTGACAAATTATATAAACCAGGCTTGGCCTACAATAATTAATAT
*
7236895 AGTTGCAATAATG-TGAAAAACACAATGTCTTAAAA-ATATTTAACTAAAGAAAA
66 AGTTGCAATAATGTTG-AAAACACAATGAC-TAAAACATATTTAACTAAAGAAAA
7236948 CTTTTTTTTG
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
121 2 0.02
122 96 0.93
123 5 0.05
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (122 bp):
TTGTTGATGAATTTAAACTAATTGACAAATTATATAAACCAGGCTTGGCCTACAATAATTAATAT
AGTTGCAATAATGTTGAAAACACAATGACTAAAACATATTTAACTAAAGAAAATTCA
Found at i:7248235 original size:20 final size:23
Alignment explanation
Indices: 7248187--7248235 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 23
7248177 GGTTAGACAA
*
7248187 TTTTTAAATGATAATTTTTTTTC
1 TTTTTAAATGATAATTTTGTTTC
*
7248210 TTTTTAAAT-AT-A-TTTGTTTG
1 TTTTTAAATGATAATTTTGTTTC
7248230 TTTTTA
1 TTTTTA
7248236 TTTTCATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.50
21 1 0.04
22 2 0.08
23 9 0.38
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.67
Consensus pattern (23 bp):
TTTTTAAATGATAATTTTGTTTC
Found at i:7248361 original size:18 final size:16
Alignment explanation
Indices: 7248325--7248357 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7248315 TGTTTTAGTT
7248325 TTATATAAAAATTAAA
1 TTATATAAAAATTAAA
7248341 TTATATAAAAATTAAA
1 TTATATAAAAATTAAA
7248357 T
1 T
7248358 ATTAGTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TTATATAAAAATTAAA
Found at i:7252391 original size:161 final size:161
Alignment explanation
Indices: 7252204--7252527 Score: 576
Period size: 161 Copynumber: 2.0 Consensus size: 161
7252194 TTGTTTCTGC
*
7252204 TGGCTAATCATCTGAGAGATGACAAACTAAAATGGGCAATTATCACTGCGGTCTTATCTTTCCTT
1 TGGCTAATCATCTGAGAGATGACAAACTAAAATGGGCAATTATCACTGCGGTCTTATCTTTCATT
** *
7252269 TTACGTTGAAAAAGTTTTACTTTACCACAGTCATATTGGTTTCTTTAGGATATTTGCAAATATGT
66 TTACGTTGAAAAAGTTTTACGATACCACAGTCATATTGGTTTCTTGAGGATATTTGCAAATATGT
7252334 AGAATGTAATCATACATTGTCATTTGATATA
131 AGAATGTAATCATACATTGTCATTTGATATA
*
7252365 TGGCTAATCATCTGAGAGATGACAAACTAAAATGGGCAATTATCACTGTGGTCTTATCTTTCATT
1 TGGCTAATCATCTGAGAGATGACAAACTAAAATGGGCAATTATCACTGCGGTCTTATCTTTCATT
* *
7252430 TTAGGTTGAAAAAGTTTTACGATACCACAGTCATATTGGTTTCTTGAGGATATTTGCAAATATTT
66 TTACGTTGAAAAAGTTTTACGATACCACAGTCATATTGGTTTCTTGAGGATATTTGCAAATATGT
*
7252495 AGAATGTAATCATACATTTTCATTTGATATA
131 AGAATGTAATCATACATTGTCATTTGATATA
7252526 TG
1 TG
7252528 AGCCACTAGA
Statistics
Matches: 155, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
161 155 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (161 bp):
TGGCTAATCATCTGAGAGATGACAAACTAAAATGGGCAATTATCACTGCGGTCTTATCTTTCATT
TTACGTTGAAAAAGTTTTACGATACCACAGTCATATTGGTTTCTTGAGGATATTTGCAAATATGT
AGAATGTAATCATACATTGTCATTTGATATA
Found at i:7254864 original size:15 final size:15
Alignment explanation
Indices: 7254840--7254869 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7254830 GACTAAAATA
7254840 TTTTTAGTAAATTTT
1 TTTTTAGTAAATTTT
*
7254855 TTTTTTGTAAATTTT
1 TTTTTAGTAAATTTT
7254870 AATTTAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (15 bp):
TTTTTAGTAAATTTT
Found at i:7258418 original size:22 final size:22
Alignment explanation
Indices: 7258384--7258454 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
7258374 TGTAATTAGT
* * *
7258384 ATAACTTAATAGTAAATGAA-TG
1 ATAATTTATTAGTAAAT-AATTA
*
7258406 ATAATTTATTAGTCAATAATTA
1 ATAATTTATTAGTAAATAATTA
* * *
7258428 ATAATTTTTTAGTAAATCAGTA
1 ATAATTTATTAGTAAATAATTA
7258450 ATAAT
1 ATAAT
7258455 ATAATAATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 2 0.05
22 38 0.95
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.41
Consensus pattern (22 bp):
ATAATTTATTAGTAAATAATTA
Found at i:7258688 original size:22 final size:22
Alignment explanation
Indices: 7258663--7258985 Score: 99
Period size: 22 Copynumber: 14.8 Consensus size: 22
7258653 TAAATTATAA
7258663 ATAACTTAGTAGTAAATCAATG
1 ATAACTTAGTAGTAAATCAATG
* * * *
7258685 ATAAATTTGTAATAAAT-AATTA
1 ATAACTTAGTAGTAAATCAA-TG
* * *
7258707 ATAA-TCTAATATGT-AATCATTA
1 ATAACT-TAGTA-GTAAATCAATG
* * ** *
7258729 AAAATTTAAAAGTAAATAAAT-
1 ATAACTTAGTAGTAAATCAATG
* *
7258750 ATAACTTAGTAGTAAATTATTG
1 ATAACTTAGTAGTAAATCAATG
** * * * *
7258772 ATAAAATAATATTTAATCAGTG
1 ATAACTTAGTAGTAAATCAATG
* *
7258794 ATAACTTAATAGTAAAT-TATG
1 ATAACTTAGTAGTAAATCAATG
* * * *
7258815 CATAATTTACTA-TAAGTCAATA
1 -ATAACTTAGTAGTAAATCAATG
* * *
7258837 ATAACTTGGTATTGAAT-AATAG
1 ATAACTTAGTAGTAAATCAAT-G
* ***
7258859 ATAATTTAGTAGTAAATTGGTG
1 ATAACTTAGTAGTAAATCAATG
7258881 ATAACTTTA-TAGTAAAT-AATTG
1 ATAAC-TTAGTAGTAAATCAA-TG
* * *
7258903 A-AAATTAAGTAGTAAATCACTA
1 ATAACTT-AGTAGTAAATCAATG
* * * * *
7258925 ATAACATAATAGTAAATTACTA
1 ATAACTTAGTAGTAAATCAATG
* * *
7258947 ATAACGTAGTTGTAAATCAATA
1 ATAACTTAGTAGTAAATCAATG
*
7258969 ATAATTTAGTAGTAAAT
1 ATAACTTAGTAGTAAAT
7258986 TAGTTAATCA
Statistics
Matches: 217, Mismatches: 66, Indels: 36
0.68 0.21 0.11
Matches are distributed among these distances:
20 2 0.01
21 40 0.18
22 164 0.76
23 11 0.05
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATCAATG
Found at i:7258808 original size:65 final size:66
Alignment explanation
Indices: 7258662--7258810 Score: 156
Period size: 65 Copynumber: 2.3 Consensus size: 66
7258652 ATAAATTATA
* * * ** *
7258662 AATAACTTAGTAGTAAATCAATGATAAATTTGTAATAAATAATTAATAATCTAATATGTAATCAT
1 AATAACTTAATAGTAAATAAATGATAAATTAGTAATAAATAATTAATAAAATAATATGTAATCAG
7258727 T
66 T
* * * * * * * *
7258728 AAAAATTTAAAAGTAAATAAAT-ATAACTTAGTAGTAAATTATTGATAAAATAATATTTAATCAG
1 AATAACTTAATAGTAAATAAATGATAAATTAGTAATAAATAATTAATAAAATAATATGTAATCAG
7258792 T
66 T
*
7258793 GATAACTTAATAGTAAAT
1 AATAACTTAATAGTAAAT
7258811 TATGCATAAT
Statistics
Matches: 65, Mismatches: 18, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
65 48 0.74
66 17 0.26
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (66 bp):
AATAACTTAATAGTAAATAAATGATAAATTAGTAATAAATAATTAATAAAATAATATGTAATCAG
T
Found at i:7259166 original size:43 final size:44
Alignment explanation
Indices: 7259099--7259205 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 44
7259089 AATTTGATGA
* * *
7259099 TAAATTATTCATAACTTAATAGCAAAACATTCATA-ATTAGTAG
1 TAAATAATTGATAACTTAATAGCAAAACATTAATAGATTAGTAG
* * * * *
7259142 TAAATCATTGATAATTTAGTAGCAAACCATTAATAGCTTAGTAG
1 TAAATAATTGATAACTTAATAGCAAAACATTAATAGATTAGTAG
*
7259186 TAAATAACTGATAACTTAAT
1 TAAATAATTGATAACTTAAT
7259206 TGTGAATCAT
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
43 29 0.56
44 23 0.44
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (44 bp):
TAAATAATTGATAACTTAATAGCAAAACATTAATAGATTAGTAG
Found at i:7259203 original size:22 final size:22
Alignment explanation
Indices: 7259099--7259224 Score: 101
Period size: 22 Copynumber: 5.8 Consensus size: 22
7259089 AATTTGATGA
* * *
7259099 TAAATTATTCATAACTTAATAG
1 TAAATCATTGATAACTTAGTAG
* * *
7259121 CAAAACATTCATAA-TTAGTAG
1 TAAATCATTGATAACTTAGTAG
*
7259142 TAAATCATTGATAATTTAGTAG
1 TAAATCATTGATAACTTAGTAG
* * * *
7259164 CAAACCATTAATAGCTTAGTAG
1 TAAATCATTGATAACTTAGTAG
* * * *
7259186 TAAATAACTGATAACTTAATTG
1 TAAATCATTGATAACTTAGTAG
*
7259208 TGAATCATTGATAACTT
1 TAAATCATTGATAACTT
7259225 TTTTTATATT
Statistics
Matches: 80, Mismatches: 23, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
21 17 0.21
22 63 0.79
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (22 bp):
TAAATCATTGATAACTTAGTAG
Found at i:7261253 original size:20 final size:20
Alignment explanation
Indices: 7261198--7261253 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
7261188 TTTTTCTAAC
7261198 TTTTTTTCTCTTGTT-TTTA
1 TTTTTTTCTCTTGTTCTTTA
* *
7261217 TTTTTTTTTATTGTTCTTTA
1 TTTTTTTCTCTTGTTCTTTA
7261237 TTTTTCTTCTCTT-TTCT
1 TTTTT-TTCTCTTGTTCT
7261254 CCTTTCTGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 13 0.42
20 13 0.42
21 5 0.16
ACGTcount: A:0.05, C:0.12, G:0.04, T:0.79
Consensus pattern (20 bp):
TTTTTTTCTCTTGTTCTTTA
Found at i:7261339 original size:11 final size:11
Alignment explanation
Indices: 7261306--7261347 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
7261296 TTGAATAGGC
7261306 CTCTTTTTTTT
1 CTCTTTTTTTT
7261317 -TCTTCTTCTTTT
1 CTCTT-TT-TTTT
7261329 CTCTTTTTTTT
1 CTCTTTTTTTT
*
7261340 CCCTTTTT
1 CTCTTTTT
7261348 CCCTACTGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 4 0.15
11 13 0.48
12 6 0.22
13 4 0.15
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
CTCTTTTTTTT
Found at i:7261412 original size:23 final size:22
Alignment explanation
Indices: 7261383--7261443 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
7261373 TGAATCAACC
7261383 TCTTCTTTTTTATTCCTTC-TTTT
1 TCTTCTTTTTT-TT-CTTCATTTT
7261406 TCTTCTTTCTTTTTCTTCATTTT
1 TCTTCTTT-TTTTTCTTCATTTT
*
7261429 TC-CCTTTTTTTTCTT
1 TCTTCTTTTTTTTCTT
7261444 TGTTTCAGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
21 8 0.23
22 8 0.23
23 16 0.46
24 3 0.09
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (22 bp):
TCTTCTTTTTTTTCTTCATTTT
Found at i:7261415 original size:13 final size:13
Alignment explanation
Indices: 7261384--7261423 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
7261374 GAATCAACCT
*
7261384 CTTCTTTTTTATTC
1 CTTC-TTTTTCTTC
7261398 CTTCTTTTTCTTC
1 CTTCTTTTTCTTC
*
7261411 TTTCTTTTTCTTC
1 CTTCTTTTTCTTC
7261424 ATTTTTCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (13 bp):
CTTCTTTTTCTTC
Found at i:7262671 original size:18 final size:19
Alignment explanation
Indices: 7262650--7262704 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 19
7262640 TTTTTTGGAA
7262650 TTTTTTAATTTTT-TTTGT
1 TTTTTTAATTTTTATTTGT
* * *
7262668 TTTTATGATTTTTACTT-T
1 TTTTTTAATTTTTATTTGT
*
7262686 TTTTTTAGATTTTTCTTTG
1 TTTTTTA-ATTTTTATTTG
7262705 AATTTTTTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.13, C:0.04, G:0.07, T:0.76
Consensus pattern (19 bp):
TTTTTTAATTTTTATTTGT
Found at i:7262692 original size:20 final size:19
Alignment explanation
Indices: 7262658--7262703 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
7262648 AATTTTTTAA
7262658 TTTT-TTTTGTTTTTATGAT
1 TTTTCTTTTGTTTTTA-GAT
7262677 TTTTACTTTT-TTTTTAGAT
1 TTTT-CTTTTGTTTTTAGAT
7262696 TTTTCTTT
1 TTTTCTTT
7262704 GAATTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.16
19 11 0.44
20 6 0.24
21 4 0.16
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (19 bp):
TTTTCTTTTGTTTTTAGAT
Found at i:7262711 original size:13 final size:14
Alignment explanation
Indices: 7262695--7262730 Score: 65
Period size: 13 Copynumber: 2.6 Consensus size: 14
7262685 TTTTTTTAGA
7262695 TTTTTCTTTGAATT
1 TTTTTCTTTGAATT
7262709 TTTTT-TTTGAATT
1 TTTTTCTTTGAATT
7262722 TTTTTCTTT
1 TTTTTCTTT
7262731 TTTTGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.78
Consensus pattern (14 bp):
TTTTTCTTTGAATT
Found at i:7263063 original size:45 final size:43
Alignment explanation
Indices: 7262964--7263109 Score: 134
Period size: 45 Copynumber: 3.3 Consensus size: 43
7262954 AAACTTTATC
* *
7262964 ACTTTGAAAATAAATTAAAAACTCTTCTTATCAGAGGC-TCTACA
1 ACTTTTAAAAAAAATTAAAAACTCTT-TTATCAGAGGCTTC-ACA
* ** *
7263008 AGTTGAAAAAAAAATCTAAAAACTCTTTTCGTCAGAGGCTTCACA
1 ACTTTTAAAAAAAAT-TAAAAACTCTTTT-ATCAGAGGCTTCACA
* *
7263053 ACTTTTAAAAATAAATTTAAAAAGCTTCTCTTATAAGAGGCTTCACA
1 ACTTTTAAAAA-AAA-TTAAAAA-C-TCTTTTATCAGAGGCTTCACA
7263100 A-TTTTAAAAA
1 ACTTTTAAAAA
7263110 TCTTACCATG
Statistics
Matches: 84, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
44 13 0.15
45 30 0.36
46 20 0.24
47 16 0.19
48 5 0.06
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (43 bp):
ACTTTTAAAAAAAATTAAAAACTCTTTTATCAGAGGCTTCACA
Found at i:7263105 original size:46 final size:44
Alignment explanation
Indices: 7262805--7263110 Score: 161
Period size: 47 Copynumber: 6.7 Consensus size: 44
7262795 TTTGATGACT
* * ** * *
7262805 TCTCTTATCAAAGGCTTTACCTTTTTGAAAATAAATTTAAAATC
1 TCTCTTATCAGAGGCTTCACAATTTTAAAAATAAATTTAAAAAC
* * ** *
7262849 TCTTTTATCAGACGCTTCACAACTTAGAAAAAATAAATCTAAAAAC
1 TCTCTTATCAGAGGCTTCACAA-TT-TTAAAAATAAATTTAAAAAC
* * *** * * *
7262895 TCTTCTCATTAGATATTGTCA-ATTTTTGAAAATAAATCTAAAAAAAC
1 TC-TCTTATCAGAGGCT-TCACAATTTTAAAAATAAAT-T-TAAAAAC
* * ** * * *
7262942 TCTTCTCATTAGAAACTTTATC-ACTTTGAAAATAAA-TTAAAAAC
1 TC-TCTTATCAGAGGCTTCA-CAATTTTAAAAATAAATTTAAAAAC
* * * *
7262986 TCTTCTTATCAGAGGC-TCTACAAGTTGAAAAAAAAATCTAAAAAC
1 TC-TCTTATCAGAGGCTTC-ACAATTTTAAAAATAAATTTAAAAAC
* *
7263031 TCTTTTCGTCAGAGGCTTCACAACTTTTAAAAATAAATTTAAAAAGC
1 TCTCTT-ATCAGAGGCTTCACAA-TTTTAAAAATAAATTTAAAAA-C
*
7263078 TTCTCTTATAAGAGGCTTCACAATTTTAAAAAT
1 -TCTCTTATCAGAGGCTTCACAATTTTAAAAAT
7263111 CTTACCATGA
Statistics
Matches: 198, Mismatches: 48, Indels: 30
0.72 0.17 0.11
Matches are distributed among these distances:
43 2 0.01
44 48 0.24
45 33 0.17
46 50 0.25
47 57 0.29
48 8 0.04
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (44 bp):
TCTCTTATCAGAGGCTTCACAATTTTAAAAATAAATTTAAAAAC
Found at i:7267626 original size:18 final size:17
Alignment explanation
Indices: 7267598--7267667 Score: 56
Period size: 16 Copynumber: 4.2 Consensus size: 17
7267588 TTAAAATTAC
7267598 AAATAATTAAAATGCATG
1 AAAT-ATTAAAATGCATG
*
7267616 AAAATATTAAATTGCAT-
1 -AAATATTAAAATGCATG
*
7267633 AAAT-TTAAAGTGCATG
1 AAATATTAAAATGCATG
* * *
7267649 GAACA-TAAATTGCATG
1 AAATATTAAAATGCATG
7267665 AAA
1 AAA
7267668 AGTAAATAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
15 10 0.23
16 18 0.42
18 11 0.26
19 4 0.09
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.29
Consensus pattern (17 bp):
AAATATTAAAATGCATG
Found at i:7269392 original size:12 final size:12
Alignment explanation
Indices: 7269375--7269399 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7269365 ACAAGACATG
7269375 ATAAAAAGGAAC
1 ATAAAAAGGAAC
7269387 ATAAAAAGGAAC
1 ATAAAAAGGAAC
7269399 A
1 A
7269400 AATGAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.16, T:0.08
Consensus pattern (12 bp):
ATAAAAAGGAAC
Found at i:7269921 original size:12 final size:12
Alignment explanation
Indices: 7269904--7269929 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7269894 CATAACTCTA
7269904 CCCTATGCTGGC
1 CCCTATGCTGGC
7269916 CCCTATGCTGGC
1 CCCTATGCTGGC
7269928 CC
1 CC
7269930 TCTAAGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.46, G:0.23, T:0.23
Consensus pattern (12 bp):
CCCTATGCTGGC
Found at i:7281690 original size:25 final size:26
Alignment explanation
Indices: 7281642--7281692 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
7281632 AAATGGTTCA
7281642 TTCACATTCAACCTAAAAAGAACTAT
1 TTCACATTCAACCTAAAAAGAACTAT
*
7281668 TTCACATTCATCC-AAAAAGAACTAT
1 TTCACATTCAACCTAAAAAGAACTAT
7281693 ACCAACAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (26 bp):
TTCACATTCAACCTAAAAAGAACTAT
Found at i:7282616 original size:16 final size:17
Alignment explanation
Indices: 7282581--7282627 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
7282571 GTAGGCTCAT
* *
7282581 AAAATAACATGAAATTA
1 AAAATAGCATGAAATCA
7282598 AAAATAGCATGAAA-CA
1 AAAATAGCATGAAATCA
*
7282614 AAAACAGCATGAAA
1 AAAATAGCATGAAA
7282628 AATAGCATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.64, C:0.11, G:0.11, T:0.15
Consensus pattern (17 bp):
AAAATAGCATGAAATCA
Found at i:7283714 original size:3 final size:3
Alignment explanation
Indices: 7283706--7283749 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
7283696 GTAATTTACC
7283706 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7283750 TGTTAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7284653 original size:19 final size:19
Alignment explanation
Indices: 7284613--7284654 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
7284603 CACTTTAATG
*
7284613 AAAATTATTTTTTAATTAT
1 AAAATTATTTATTAATTAT
*
7284632 AAAATTA-TTATTATTTATT
1 AAAATTATTTATTAATTA-T
7284651 AAAA
1 AAAA
7284655 ATCTATCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AAAATTATTTATTAATTAT
Found at i:7284668 original size:21 final size:21
Alignment explanation
Indices: 7284627--7284668 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7284617 TTATTTTTTA
* *
7284627 ATTATAAAATTATTATTATTT
1 ATTATAAAATTATCATCATTT
7284648 ATTA-AAAATCTATCATCATTT
1 ATTATAAAAT-TATCATCATTT
7284669 TTCATTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTATAAAATTATCATCATTT
Found at i:7285041 original size:22 final size:23
Alignment explanation
Indices: 7285002--7285044 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
7284992 CTTTTTTTAC
7285002 TTTTTTTTAATTCTTCTTTCTCA
1 TTTTTTTTAATTCTTCTTTCTCA
*
7285025 TTTTTTTTTATTC-TCTTTCT
1 TTTTTTTTAATTCTTCTTTCT
7285045 TTCTTTGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTTTTTAATTCTTCTTTCTCA
Found at i:7286383 original size:22 final size:22
Alignment explanation
Indices: 7286356--7286415 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
7286346 AAAAAACAAG
* * *
7286356 TGATAACTTAATAGTTAATCAC
1 TGATAACTTAATAGTAAATAAA
*
7286378 TGATAACTTAATAATAAATAAA
1 TGATAACTTAATAGTAAATAAA
*
7286400 TGATAACTCAATAGTA
1 TGATAACTTAATAGTA
7286416 CTTCAATGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.33
Consensus pattern (22 bp):
TGATAACTTAATAGTAAATAAA
Found at i:7286509 original size:44 final size:41
Alignment explanation
Indices: 7286441--7286587 Score: 120
Period size: 41 Copynumber: 3.5 Consensus size: 41
7286431 AATAGTAATT
* * *
7286441 AATTAATA-AACTTAGTTGTAAATCA-TAAATAACTTAGCAATA
1 AATTAATATAATTTAGTAGTTAATCATTAAA-AACTTA--AATA
**
7286483 AATTAATGATAATTTAGTAGTTAATCATTTGAAACTT-AATA
1 AATTAAT-ATAATTTAGTAGTTAATCATTAAAAACTTAAATA
* * *
7286524 AATTATTAATAATTAAGTAGTTAATCATTGAAAACTTAAAAGTA
1 AATTAAT-ATAATTTAGTAGTTAATCATTAAAAACTT-AAA-TA
* *
7286568 AATCAATATAACTTAGTAGT
1 AATTAATATAATTTAGTAGT
7286588 AGTTCATCAT
Statistics
Matches: 85, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
41 36 0.42
42 7 0.08
43 14 0.16
44 26 0.31
45 2 0.02
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.37
Consensus pattern (41 bp):
AATTAATATAATTTAGTAGTTAATCATTAAAAACTTAAATA
Found at i:7286536 original size:41 final size:41
Alignment explanation
Indices: 7286479--7286562 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 41
7286469 ATAACTTAGC
* *
7286479 AATAAATTAATGATAATTTAGTAGTTAATCATTTG-AAACTT
1 AATAAATTAATAATAATTAAGTAGTTAATCA-TTGAAAACTT
*
7286520 AATAAATTATTAATAATTAAGTAGTTAATCATTGAAAACTT
1 AATAAATTAATAATAATTAAGTAGTTAATCATTGAAAACTT
7286561 AA
1 AA
7286563 AAGTAAATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
40 3 0.08
41 36 0.92
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (41 bp):
AATAAATTAATAATAATTAAGTAGTTAATCATTGAAAACTT
Found at i:7286625 original size:22 final size:22
Alignment explanation
Indices: 7286600--7286682 Score: 71
Period size: 22 Copynumber: 3.8 Consensus size: 22
7286590 TTCATCATCA
*
7286600 ATAACTTAATAGTAAATTATGG
1 ATAACTTAATAGTAAATCATGG
* *
7286622 ATAATTTGATA-TAAATCA-GTG
1 ATAACTTAATAGTAAATCATG-G
* *
7286643 ATAACTTGATAATAAATCATGG
1 ATAACTTAATAGTAAATCATGG
* * *
7286665 TTAATTTAGTAGTAAATC
1 ATAACTTAATAGTAAATC
7286683 CATAATGATT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
20 1 0.02
21 17 0.35
22 30 0.61
23 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.37
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCATGG
Found at i:7286636 original size:21 final size:22
Alignment explanation
Indices: 7286612--7286671 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
7286602 AACTTAATAG
*
7286612 TAAATTATGGATAATTTGAT-A
1 TAAATCATGGATAATTTGATAA
*
7286633 TAAATCA-GTGATAACTTGATAA
1 TAAATCATG-GATAATTTGATAA
*
7286655 TAAATCATGGTTAATTT
1 TAAATCATGGATAATTT
7286672 AGTAGTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 1 0.03
21 16 0.50
22 14 0.44
23 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.40
Consensus pattern (22 bp):
TAAATCATGGATAATTTGATAA
Found at i:7286772 original size:22 final size:21
Alignment explanation
Indices: 7286739--7286793 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 21
7286729 GATAACATAG
7286739 TAATAATAAATTATTGATAATT
1 TAAT-ATAAATTATTGATAATT
7286761 TATATATAAATTATTGATAATT
1 TA-ATATAAATTATTGATAATT
7286783 TAATAGTAAAT
1 TAATA-TAAAT
7286794 AACTGCTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 3 0.10
22 26 0.84
23 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (21 bp):
TAATATAAATTATTGATAATT
Found at i:7286803 original size:22 final size:22
Alignment explanation
Indices: 7286756--7286837 Score: 60
Period size: 22 Copynumber: 3.7 Consensus size: 22
7286746 AAATTATTGA
* * *
7286756 TAATTTATATA-TAAATTATTGA
1 TAATTTA-ATAGTAAATAACTGC
7286778 TAATTTAATAGTAAATAACTGC
1 TAATTTAATAGTAAATAACTGC
* * *
7286800 TAATTTAGTTGTAAATCACTGAC
1 TAATTTAATAGTAAATAACTG-C
* *
7286823 -AATTTAGTAGCAAAT
1 TAATTTAATAGTAAAT
7286838 TAATTAATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
21 3 0.06
22 46 0.92
23 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (22 bp):
TAATTTAATAGTAAATAACTGC
Found at i:7289693 original size:20 final size:21
Alignment explanation
Indices: 7289640--7289695 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
7289630 AATACTGGAG
* *
7289640 GTTACCAAAATTGTATCGAAA
1 GTTACCAAAATTTTATCAAAA
7289661 GTTACCAAAATTTTATCAAAA
1 GTTACCAAAATTTTATCAAAA
*
7289682 GTTATC-AAATTTTA
1 GTTACCAAAATTTTA
7289696 CTTATATTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 8 0.25
21 24 0.75
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (21 bp):
GTTACCAAAATTTTATCAAAA
Found at i:7296047 original size:151 final size:153
Alignment explanation
Indices: 7295761--7296067 Score: 424
Period size: 151 Copynumber: 2.0 Consensus size: 153
7295751 TCCAAGTTTT
* * * *
7295761 TGAAAAACCTATTTCCTTTGGATAAATAGATTTCTAAATTGATAAACCTCAACCATGATGCTTTA
1 TGAAAAACCTATCTCCTTTGGACAAATAAATTTCTAAATAGATAAACCTCAACCATGATGCTTTA
* * *
7295826 AGTTCAAAAACAAATTACCTTACACATTAACCCCTTTTAGGTAGGTAATTGTATAAAATAATTTA
66 AGTTCAAAAACAAATTACCCTACACATTAACCCCTATTAGGCAGGTAATTGTATAAAATAATTTA
**
7295891 GTAACCATCCTGTAATTATAGAA
131 GTAACCATCCTACAATTATAGAA
* * *
7295914 TGAAAAACTTATCTCCTTTGGACAAATAAATTTTCTAGACTAG-TACACCTCAACCATGATGCTT
1 TGAAAAACCTATCTCCTTTGGACAAATAAA-TTTCTA-AATAGATAAACCTCAACCATGATGCTT
* * *
7295978 TATGTT-AAAAA-AAATTACCCTAGACATTAACCCC-ATTAGGCAGGTAATTGTATAAGATAATT
64 TAAGTTCAAAAACAAATTACCCTACACATTAACCCCTATTAGGCAGGTAATTGTATAAAATAATT
*
7296040 TATTAACCATCCTACAATTATAGAA
129 TAGTAACCATCCTACAATTATAGAA
7296065 TGA
1 TGA
7296068 TAATATATTC
Statistics
Matches: 136, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
151 50 0.37
152 21 0.15
153 31 0.23
154 31 0.23
155 3 0.02
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (153 bp):
TGAAAAACCTATCTCCTTTGGACAAATAAATTTCTAAATAGATAAACCTCAACCATGATGCTTTA
AGTTCAAAAACAAATTACCCTACACATTAACCCCTATTAGGCAGGTAATTGTATAAAATAATTTA
GTAACCATCCTACAATTATAGAA
Found at i:7301256 original size:82 final size:82
Alignment explanation
Indices: 7301166--7301332 Score: 298
Period size: 82 Copynumber: 2.0 Consensus size: 82
7301156 TTCAAAATAT
*
7301166 TAAAAGTTTAAACTAAAATGTGCTATTATTAAAGCTTGCTAGGTTAATTAGCTTAAATGTTTTTG
1 TAAAAGTTTAAACTAAAATGTGCTATTATTAAAGCTTGCTAGATTAATTAGCTTAAATGTTTTTG
*
7301231 TCATAACTCATATTTAG
66 TCACAACTCATATTTAG
* *
7301248 TAAAAGTTTAAACTAAAATGTGCTATTATTAAGGCTTGCTAGATTAATTAGCTTTAATGTTTTTG
1 TAAAAGTTTAAACTAAAATGTGCTATTATTAAAGCTTGCTAGATTAATTAGCTTAAATGTTTTTG
7301313 TCACAACTCATATTTAG
66 TCACAACTCATATTTAG
7301330 TAA
1 TAA
7301333 TATTGAAAAT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.41
Consensus pattern (82 bp):
TAAAAGTTTAAACTAAAATGTGCTATTATTAAAGCTTGCTAGATTAATTAGCTTAAATGTTTTTG
TCACAACTCATATTTAG
Found at i:7302865 original size:3 final size:3
Alignment explanation
Indices: 7302857--7302897 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
7302847 TAATATAAAG
7302857 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7302898 ATGTCAAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7303105 original size:76 final size:76
Alignment explanation
Indices: 7302979--7303135 Score: 305
Period size: 76 Copynumber: 2.1 Consensus size: 76
7302969 GAACTCATAA
7302979 ATGTTATAAAAGTTATTGTTTTGGGGATATCATATATGTTAAGATCTGTGAGAGTTAATAGGCTA
1 ATGTTATAAAAGTTATTGTTTTGGGGATATCATATATGTTAAGATCTGTGAGAGTTAATAGGCTA
7303044 TTGGTATAGGT
66 TTGGTATAGGT
*
7303055 ATGTTATAAAAGTTATTGTTTTGGGGATATCATATATGTTAAGGTCTGTGAGAGTTAATAGGCTA
1 ATGTTATAAAAGTTATTGTTTTGGGGATATCATATATGTTAAGATCTGTGAGAGTTAATAGGCTA
7303120 TTGGTATAGGT
66 TTGGTATAGGT
7303131 ATGTT
1 ATGTT
7303136 TAAGACATAA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 80 1.00
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.41
Consensus pattern (76 bp):
ATGTTATAAAAGTTATTGTTTTGGGGATATCATATATGTTAAGATCTGTGAGAGTTAATAGGCTA
TTGGTATAGGT
Found at i:7308543 original size:26 final size:27
Alignment explanation
Indices: 7308514--7308569 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
7308504 TTTTTGATAA
7308514 ACATTCAGTTTTA-CTCTTAG-TTTTTC
1 ACATT-AGTTTTATCTCTTAGCTTTTTC
*
7308540 ACA-TAGTTTTATTTCTTAGCTTTTTC
1 ACATTAGTTTTATCTCTTAGCTTTTTC
7308566 ACAT
1 ACAT
7308570 GGTATTAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 7 0.27
25 7 0.27
26 12 0.46
ACGTcount: A:0.21, C:0.18, G:0.07, T:0.54
Consensus pattern (27 bp):
ACATTAGTTTTATCTCTTAGCTTTTTC
Found at i:7308563 original size:25 final size:25
Alignment explanation
Indices: 7308520--7308569 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
7308510 ATAAACATTC
7308520 AGTTTTACTCTTAG-TTTTTCACAT
1 AGTTTTACTCTTAGCTTTTTCACAT
*
7308544 AGTTTTATTTCTTAGCTTTTTCACAT
1 AGTTTTA-CTCTTAGCTTTTTCACAT
7308570 GGTATTAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 6 0.26
26 10 0.43
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (25 bp):
AGTTTTACTCTTAGCTTTTTCACAT
Found at i:7312331 original size:24 final size:24
Alignment explanation
Indices: 7312304--7312356 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
7312294 CAACATTTCA
7312304 AGAAATTATTTCCAAGCTGGGAAT
1 AGAAATTATTTCCAAGCTGGGAAT
7312328 AGAAATTATTTCCAAGCTGGGAAT
1 AGAAATTATTTCCAAGCTGGGAAT
*
7312352 GGAAA
1 AGAAA
7312357 ACACCTATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (24 bp):
AGAAATTATTTCCAAGCTGGGAAT
Found at i:7312462 original size:22 final size:22
Alignment explanation
Indices: 7312437--7312479 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7312427 TGTATATTTA
**
7312437 TATTTGTATCTTTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7312459 TATTTGTATCCCTAGAATTAA
1 TATTTGTATCCCTAGAATTAA
7312480 TGATAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.47
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:7315545 original size:20 final size:20
Alignment explanation
Indices: 7315520--7315557 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7315510 TTTATTATCA
*
7315520 ATTAATTTTAAATTAAATGG
1 ATTAATTTAAAATTAAATGG
7315540 ATTAATTTAAAATTAAAT
1 ATTAATTTAAAATTAAAT
7315558 ATCCATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
ATTAATTTAAAATTAAATGG
Found at i:7318551 original size:38 final size:37
Alignment explanation
Indices: 7318470--7318551 Score: 87
Period size: 38 Copynumber: 2.2 Consensus size: 37
7318460 ATAAATCGTA
* *
7318470 AATTTAATCAAAATTTTATATTTTATATATTTTTATT
1 AATTTAATCAAAATTTAATATTTTATATATTTTTATC
* *
7318507 ATTTTAATGAAAATATTAATATTTTAT-T-TTTATATATC
1 AATTTAATCAAAAT-TTAATATTTTATATATTT-T-TATC
7318545 AATTTAA
1 AATTTAA
7318552 ATTTAAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
36 3 0.08
37 14 0.38
38 20 0.54
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.56
Consensus pattern (37 bp):
AATTTAATCAAAATTTAATATTTTATATATTTTTATC
Found at i:7318565 original size:45 final size:45
Alignment explanation
Indices: 7318482--7318572 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 45
7318472 TTTAATCAAA
* * * *
7318482 ATTTTATATTTTATATATTTTTATTATTTTAATGAAAATATTAAT
1 ATTTTATATTTTATATATATTTATAATTTAAATGAAAATATAAAT
*
7318527 ATTTTAT-TTTTATATATCAATTTA-AATTTAAATTAAAATATAAAT
1 ATTTTATATTTTATATAT--ATTTATAATTTAAATGAAAATATAAAT
7318572 A
1 A
7318573 ATTAAATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
44 10 0.26
45 25 0.64
46 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (45 bp):
ATTTTATATTTTATATATATTTATAATTTAAATGAAAATATAAAT
Found at i:7318567 original size:26 final size:25
Alignment explanation
Indices: 7318540--7318590 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
7318530 TTATTTTTAT
* *
7318540 ATATCAAT-TTAAATTTAAATTAAA
1 ATATAAATATTAAATTTAAAATAAA
7318564 ATATAAATAATTAAATTTAAAATAAA
1 ATATAAAT-ATTAAATTTAAAATAAA
7318590 A
1 A
7318591 CATGAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
26 16 0.70
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
ATATAAATATTAAATTTAAAATAAA
Found at i:7321066 original size:18 final size:17
Alignment explanation
Indices: 7321043--7321076 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7321033 AATTAAATAA
7321043 TTGATTGAAAAAAATTAT
1 TTGATT-AAAAAAATTAT
*
7321061 TTGATTAAAACAATTA
1 TTGATTAAAAAAATTA
7321077 AAATTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (17 bp):
TTGATTAAAAAAATTAT
Found at i:7323243 original size:9 final size:9
Alignment explanation
Indices: 7323229--7323258 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
7323219 CATTAACTAA
7323229 ATATTTAAT
1 ATATTTAAT
7323238 ATATTTAAT
1 ATATTTAAT
7323247 ATATATTAAT
1 ATAT-TTAAT
7323257 AT
1 AT
7323259 TTAATTATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
ATATTTAAT
Found at i:7324245 original size:61 final size:62
Alignment explanation
Indices: 7324190--7324312 Score: 194
Period size: 61 Copynumber: 2.0 Consensus size: 62
7324180 AAAATTTATC
* *
7324190 ATTTAATTGTTTGTATTTTGATAATTTGAATTTTTGGT-AAAATTAATTTTAAAAATGCCAT
1 ATTTAATTGTTTGGATTTTGATAATTTGAATTTTTGGTAAAAACTAATTTTAAAAATGCCAT
* * *
7324251 GTTTAATTGTTTGGATTTTGATGATTTGGATTTTTGGTAAAAACTAATTTTAAAAATGCCAT
1 ATTTAATTGTTTGGATTTTGATAATTTGAATTTTTGGTAAAAACTAATTTTAAAAATGCCAT
7324313 GTAAGTTTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
61 34 0.61
62 22 0.39
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.49
Consensus pattern (62 bp):
ATTTAATTGTTTGGATTTTGATAATTTGAATTTTTGGTAAAAACTAATTTTAAAAATGCCAT
Found at i:7326037 original size:23 final size:25
Alignment explanation
Indices: 7326010--7326058 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
7326000 GTTCAATTAC
7326010 TTAAA-TA-ACATAAATAATCTTTT
1 TTAAACTATACATAAATAATCTTTT
* *
7326033 TTAAACTATATATAAATGATCTTTT
1 TTAAACTATACATAAATAATCTTTT
7326058 T
1 T
7326059 ACTCAATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 2 0.09
25 15 0.68
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (25 bp):
TTAAACTATACATAAATAATCTTTT
Found at i:7326552 original size:31 final size:31
Alignment explanation
Indices: 7326494--7326553 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
7326484 TACTTTTTAT
* * *
7326494 AAAAAAAATTCATGAAAACTATATTATTAGA
1 AAAAAAAACTCATAAAAAATATATTATTAGA
7326525 AAAAAAAACTCATAAAAAATA-AGTTATTA
1 AAAAAAAACTCATAAAAAATATA-TTATTA
7326554 CGGCAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.27
Consensus pattern (31 bp):
AAAAAAAACTCATAAAAAATATATTATTAGA
Found at i:7326648 original size:17 final size:19
Alignment explanation
Indices: 7326618--7326656 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
7326608 GAAAGAAAAA
7326618 AAAAGTGTGAATATTA-TT
1 AAAAGTGTGAATATTACTT
*
7326636 AAAA-TGTGCATATTACTT
1 AAAAGTGTGAATATTACTT
7326654 AAA
1 AAA
7326657 GATTTGTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (19 bp):
AAAAGTGTGAATATTACTT
Found at i:7327259 original size:8 final size:8
Alignment explanation
Indices: 7327248--7327289 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
7327238 TTTTTATTTC
7327248 TATATATT
1 TATATATT
* *
7327256 TATAAAAT
1 TATATATT
7327264 TATATATTT
1 TATATA-TT
7327273 TATATATT
1 TATATATT
7327281 TATAT-TT
1 TATATATT
7327288 TA
1 TA
7327290 AAAAATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 4 0.14
8 18 0.62
9 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATATATT
Found at i:7327299 original size:18 final size:20
Alignment explanation
Indices: 7327276--7327324 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
7327266 TATATTTTAT
7327276 ATATTTATATTT-TAAAA-A
1 ATATTTATATTTATAAAATA
7327294 ATATTTTATATTTATAAAATA
1 ATA-TTTATATTTATAAAATA
7327315 ATATTT-TATT
1 ATATTTATATT
7327325 AATTTTGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.11
19 13 0.46
20 8 0.29
21 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATTTATATTTATAAAATA
Found at i:7327303 original size:19 final size:21
Alignment explanation
Indices: 7327274--7327323 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
7327264 TATATATTTT
7327274 ATATATTTATATTT-TAAAA-A
1 ATAT-TTTATATTTATAAAATA
7327294 ATATTTTATATTTATAAAATA
1 ATATTTTATATTTATAAAATA
7327315 ATATTTTAT
1 ATATTTTAT
7327324 TAATTTTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.32
20 9 0.32
21 10 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTTTATATTTATAAAATA
Found at i:7328371 original size:58 final size:59
Alignment explanation
Indices: 7328154--7328452 Score: 290
Period size: 58 Copynumber: 5.1 Consensus size: 59
7328144 TGCTTTTGTA
* * * * *
7328154 CAAGAAAAACTGATA-TCTTCAACTTTTT-TCCAAAAT-GTTTTTCT-AAAACTTTAATTT
1 CAAGAAAAATTGATACT-TTCAACTTTTTCTCAAAAATACTTTTTTTGAAAA-TTTATTTT
* * * * * *
7328211 CGAGTAAAATTGATACTTTCAATTTTTTCTCAAAAAAACCTTTTTTAGAAAATCCT-TTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATA-CTTTTTTTGAAAAT-TTATTTT
* * ** *
7328271 AAAG-AAAATTGATACTTTCAGCTTTTTCTTGAAAATATTTTTTTTGAAAATTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATACTTTTTTTGAAAATTTATTTT
* *
7328329 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTAGAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATACTTTTTTTGAAAATTTATTTT
* * * * *
7328387 CAAGGAAAATTGATACTTTCAACTTTTTATTAAAAATATTTTTTTTGAAATTTTA-TTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATACTTTTTTTGAAAATTTATTTT
*
7328445 AAAGAAAA
1 CAAGAAAA
7328453 TAAATAAATA
Statistics
Matches: 198, Mismatches: 35, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
57 23 0.12
58 88 0.44
59 71 0.36
60 11 0.06
61 5 0.03
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (59 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATACTTTTTTTGAAAATTTATTTT
Found at i:7328405 original size:117 final size:116
Alignment explanation
Indices: 7328198--7328452 Score: 343
Period size: 117 Copynumber: 2.2 Consensus size: 116
7328188 ATGTTTTTCT
* * *
7328198 AAAACTTTAATTTCGAGTAAAATTGATACTTTCAATTTTTTCTCAAAAAAACCTTTTTTAGAAAA
1 AAAA-TTT-ATTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAAA-CTTTTTTAGAAAA
* * *
7328263 TCCTTTTTAAAGAAAATTGATACTTTCAGCTTTTTCTTGAAAATATTTTTTTTG
63 TCCTTTTTAAAGAAAATTGATACTTTCAACTTTTTATTAAAAATATTTTTTTTG
*
7328317 AAAATTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTAGAAAA-C
1 AAAATTTA-TTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAAACTTTTTTAGAAAATC
* *
7328380 TTATTTTCAAGGAAAATTGATACTTTCAACTTTTTATTAAAAATATTTTTTTTG
65 CT-TTTT-AAAGAAAATTGATACTTTCAACTTTTTATTAAAAATATTTTTTTTG
* *
7328434 AAATTTTATTTAAAGAAAA
1 AAAATTTATTTCAAGAAAA
7328453 TAAATAAATA
Statistics
Matches: 122, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
115 2 0.02
116 26 0.21
117 50 0.41
118 40 0.33
119 4 0.03
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (116 bp):
AAAATTTATTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAAACTTTTTTAGAAAATCC
TTTTTAAAGAAAATTGATACTTTCAACTTTTTATTAAAAATATTTTTTTTG
Found at i:7328457 original size:4 final size:4
Alignment explanation
Indices: 7328450--7328558 Score: 66
Period size: 4 Copynumber: 26.8 Consensus size: 4
7328440 TATTTAAAGA
* *
7328450 AAAT AAAT AAAT AAAT AAAAT AAAAT AAAAT AAA- ATAAG AAAT -ACT
1 AAAT AAAT AAAT AAAT -AAAT -AAAT -AAAT AAAT A-AAT AAAT AAAT
* * *
7328496 AAAT AATT CTAAT CTAAT AAAT AAAT -AAT -AAT -AAT AAAAT AAAT AAAT
1 AAAT AAAT -AAAT -AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
*
7328544 AAAT ATAT AAAT AAA
1 AAAT AAAT AAAT AAA
7328559 AAAAACCTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 14
0.79 0.08 0.12
Matches are distributed among these distances:
3 12 0.13
4 52 0.58
5 25 0.28
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:7328472 original size:5 final size:5
Alignment explanation
Indices: 7328449--7328487 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
7328439 TTATTTAAAG
7328449 AAAAT -AAAT -AAAT -AAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
7328488 GAAATACTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 12 0.36
5 21 0.64
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:7328474 original size:22 final size:22
Alignment explanation
Indices: 7328449--7328559 Score: 65
Period size: 22 Copynumber: 5.2 Consensus size: 22
7328439 TTATTTAAAG
7328449 AAAATAAATAAATAAATAAAAT
1 AAAATAAATAAATAAATAAAAT
*
7328471 AAAATAAA-ATA-AAATAAGAA-
1 AAAATAAATAAATAAATAA-AAT
* * * * **
7328491 ATACTAAATAATTCTAATCTAAT
1 AAAATAAATAAAT-AAATAAAAT
7328514 -AAATAAAT-AATAATAATAAAAT
1 AAAATAAATAAAT-A-AATAAAAT
*
7328536 -AAATAAATAAATATAT-AAAT
1 AAAATAAATAAATAAATAAAAT
7328556 AAAA
1 AAAA
7328560 AAAACCTTTT
Statistics
Matches: 65, Mismatches: 16, Indels: 17
0.66 0.16 0.17
Matches are distributed among these distances:
20 16 0.25
21 12 0.18
22 31 0.48
23 6 0.09
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (22 bp):
AAAATAAATAAATAAATAAAAT
Found at i:7328477 original size:10 final size:9
Alignment explanation
Indices: 7328444--7328559 Score: 73
Period size: 8 Copynumber: 13.0 Consensus size: 9
7328434 AAATTTTATT
*
7328444 TAAAGAAAA
1 TAAATAAAA
7328453 TAAAT-AAA
1 TAAATAAAA
7328461 TAAATAAAA
1 TAAATAAAA
7328470 TAAAATAAAA
1 T-AAATAAAA
*
7328480 TAAA-ATAA
1 TAAATAAAA
*
7328488 GAAATACTAAA
1 TAAATA--AAA
* **
7328499 TAATTCTAA
1 TAAATAAAA
*
7328508 TCTAAT-AAA
1 T-AAATAAAA
7328517 TAAATAATAA
1 TAAATAA-AA
7328527 T-AATAAAA
1 TAAATAAAA
7328535 TAAAT-AAA
1 TAAATAAAA
*
7328543 TAAAT-ATA
1 TAAATAAAA
7328551 TAAATAAAA
1 TAAATAAAA
7328560 AAAACCTTTT
Statistics
Matches: 83, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
8 35 0.42
9 29 0.35
10 14 0.17
11 5 0.06
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.26
Consensus pattern (9 bp):
TAAATAAAA
Found at i:7330919 original size:18 final size:18
Alignment explanation
Indices: 7330896--7330930 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7330886 ATGTTCTTTG
*
7330896 GGTAAAGTTTCTAGTTCA
1 GGTAAAGCTTCTAGTTCA
*
7330914 GGTAAAGCTTCTGGTTC
1 GGTAAAGCTTCTAGTTC
7330931 TCATGGATTA
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:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (18 bp):
GGTAAAGCTTCTAGTTCA
Found at i:7344621 original size:19 final size:19
Alignment explanation
Indices: 7344593--7344631 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
7344583 CTTCACAGCT
*
7344593 AAATTGAAATTATTTGCTC
1 AAATTAAAATTATTTGCTC
7344612 AAATTAAAATTATTTGCTC
1 AAATTAAAATTATTTGCTC
7344631 A
1 A
7344632 TATACAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (19 bp):
AAATTAAAATTATTTGCTC
Found at i:7345620 original size:8 final size:8
Alignment explanation
Indices: 7345607--7345639 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
7345597 TCTTCTCCAT
7345607 ATTCTACC
1 ATTCTACC
7345615 ATTCTACC
1 ATTCTACC
7345623 ATTCTACC
1 ATTCTACC
7345631 ATTCTACC
1 ATTCTACC
7345639 A
1 A
7345640 GCCACCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.27, C:0.36, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTCTACC
Found at i:7347805 original size:20 final size:20
Alignment explanation
Indices: 7347780--7347823 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
7347770 AGTTGCTCAT
7347780 AGTCAACTGAACTGCTATTG
1 AGTCAACTGAACTGCTATTG
7347800 AGTCAACTGAACTGCTATTG
1 AGTCAACTGAACTGCTATTG
7347820 AGTC
1 AGTC
7347824 CCATTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
AGTCAACTGAACTGCTATTG
Found at i:7352148 original size:1 final size:1
Alignment explanation
Indices: 7352142--7352166 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
7352132 TTAAATAGTG
7352142 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
7352167 CTCACATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7354082 original size:22 final size:22
Alignment explanation
Indices: 7354056--7354097 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7354046 TGTATATTTA
* *
7354056 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
7354078 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
7354098 TGATAGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:7354362 original size:25 final size:23
Alignment explanation
Indices: 7354310--7354369 Score: 84
Period size: 25 Copynumber: 2.5 Consensus size: 23
7354300 AAAATTTTCA
* *
7354310 GCCTTCATTGCCGACTTTTTTAG
1 GCCTTCATTGCCGACCTGTTTAG
7354333 GCCTTCATTGCCGAATCCTGTTTAG
1 GCCTTCATTGCCG-A-CCTGTTTAG
7354358 GCCTTCATTGCC
1 GCCTTCATTGCC
7354370 AAACACTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 13 0.39
24 1 0.03
25 19 0.58
ACGTcount: A:0.13, C:0.30, G:0.18, T:0.38
Consensus pattern (23 bp):
GCCTTCATTGCCGACCTGTTTAG
Found at i:7358672 original size:58 final size:59
Alignment explanation
Indices: 7358553--7358889 Score: 418
Period size: 59 Copynumber: 5.7 Consensus size: 59
7358543 TTTTATATAG
* ** * *
7358553 GGAAAATTGATACTTTCAACTTTTC-CTCAAAAAAACCATTTTATAAAACTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCTCTCAAAAATA-TTTTTTAGAAAACTTATTTTCAA
* * *
7358612 GGAAAACTGATACTTTCAACTTTTCTC-CAAAAATATTTTTTAGAGAGCTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
*
7358670 GGAAAATTGATACTTTCAACTTTTC-CTCAAAAAATATTTTTTAGAAAGCTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCTCTC-AAAAATATTTTTTAGAAAACTTATTTTCAA
*
7358729 GGAAAATTGATATTTTCAACTTTTC-CTCAAAAATAGTTTTTT-GAAAAACTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCTCTCAAAAATA-TTTTTTAG-AAAACTTATTTTCAA
* * *
7358788 GAAAAATTGATACTTTCAACCTTTC-CTCAAAAATATTTTTTTTTGAAAAACTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCTCTCAAAAATA--TTTTTTAG-AAAACTTATTTTCAA
* * *
7358849 GGAAAATTGATACTTTCAACTTTT-TCTTAAAATTTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTT
7358890 GAATTTTATT
Statistics
Matches: 249, Mismatches: 21, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
57 1 0.00
58 50 0.20
59 145 0.58
60 7 0.03
61 46 0.18
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.42
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
Found at i:7358712 original size:117 final size:119
Alignment explanation
Indices: 7358553--7358872 Score: 445
Period size: 117 Copynumber: 2.7 Consensus size: 119
7358543 TTTTATATAG
** *
7358553 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAA-ACCATTTTATAAAACTTATTTTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATACTTTTTTATAAAACTTATTTTCAAGGAAA
* * *
7358617 ACTGATACTTTCAACTTTT-CTCCAAAAATA-TTTTTT-AGAGAGCTTATTTTCAA
66 ATTGATACTTTCAACTTTTCCT-CAAAAATAGTTTTTTGA-AAAACTTATTTTCAA
* *
7358670 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATA-TTTTTTAGAAAGCTTATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATACTTTTTTATAAAACTTATTTTCAAGGAAA
*
7358734 ATTGATATTTTCAACTTTTCCTCAAAAATAGTTTTTTGAAAAACTTATTTTCAA
66 ATTGATACTTTCAACTTTTCCTCAAAAATAGTTTTTTGAAAAACTTATTTTCAA
* * * *
7358788 GAAAAATTGATACTTTCAACCTTTCCTC-AAAAATATTTTTTTTTGAAAAACTTATTTTCAAGGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATACTTTTTTAT--AAAACTTATTTTCAAGGA
7358852 AAATTGATACTTTCAACTTTT
64 AAATTGATACTTTCAACTTTT
7358873 TCTTAAAATT
Statistics
Matches: 181, Mismatches: 15, Indels: 11
0.87 0.07 0.05
Matches are distributed among these distances:
117 89 0.49
118 54 0.30
119 1 0.01
120 37 0.20
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (119 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATACTTTTTTATAAAACTTATTTTCAAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAATAGTTTTTTGAAAAACTTATTTTCAA
Found at i:7358922 original size:14 final size:14
Alignment explanation
Indices: 7358900--7358931 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
7358890 GAATTTTATT
7358900 TAAAGAAAATAAAA
1 TAAAGAAAATAAAA
*
7358914 TAAATAAAATAAAA
1 TAAAGAAAATAAAA
7358928 TAAA
1 TAAA
7358932 AAGTATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (14 bp):
TAAAGAAAATAAAA
Found at i:7359091 original size:13 final size:13
Alignment explanation
Indices: 7359073--7359101 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7359063 GGAAGAAAGG
7359073 GCGGCTCGAAGAT
1 GCGGCTCGAAGAT
7359086 GCGGCTCGAAGAT
1 GCGGCTCGAAGAT
7359099 GCG
1 GCG
7359102 ACTCAGGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.24, G:0.41, T:0.14
Consensus pattern (13 bp):
GCGGCTCGAAGAT
Found at i:7359910 original size:42 final size:42
Alignment explanation
Indices: 7359836--7359936 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
7359826 AATAAAAAGA
* * *
7359836 AAAAGAAAATCAA-AT-TAAATAAAAAATTTTAATAGGTAATT
1 AAAAGAAAAT-AATATATAAATAAAAAATCTTAATAGATAAAT
7359877 AAAAGAAAATAATTATATAAAT-AAAAATCTTAATAGATAAAT
1 AAAAGAAAATAA-TATATAAATAAAAAATCTTAATAGATAAAT
*
7359919 AAAA-ATAATAATATATAA
1 AAAAGAAAATAATATATAA
7359937 TAGATATATA
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
40 9 0.17
41 16 0.30
42 23 0.43
43 5 0.09
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (42 bp):
AAAAGAAAATAATATATAAATAAAAAATCTTAATAGATAAAT
Found at i:7359939 original size:27 final size:29
Alignment explanation
Indices: 7359907--7360010 Score: 85
Period size: 27 Copynumber: 3.8 Consensus size: 29
7359897 ATAAAAATCT
7359907 TAATAGATAAATAAA-A-ATAA-TAATATA
1 TAATAGATAAATAAATAGATAAGTAATA-A
*
7359934 TAATAGATATATAAATAGATAAGTAATAA
1 TAATAGATAAATAAATAGATAAGTAATAA
* * * * *
7359963 TAAAAGATATAT-ATTA-ATAAATAGTAA
1 TAATAGATAAATAAATAGATAAGTAATAA
* *
7359990 TAAAAGATAAGTAAATA-ATAA
1 TAATAGATAAATAAATAGATAA
7360011 ATAAATAAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
27 33 0.51
28 11 0.17
29 16 0.25
30 5 0.08
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (29 bp):
TAATAGATAAATAAATAGATAAGTAATAA
Found at i:7360011 original size:7 final size:7
Alignment explanation
Indices: 7359916--7360068 Score: 58
Period size: 7 Copynumber: 21.9 Consensus size: 7
7359906 TTAATAGATA
7359916 AATAAA-
1 AATAAAT
7359922 AAT-AAT
1 AATAAAT
*
7359928 AATATAT
1 AATAAAT
*
7359935 AATAGAT
1 AATAAAT
7359942 ATATAAAT
1 A-ATAAAT
*
7359950 AGATAAGT
1 A-ATAAAT
7359958 AAT-AAT
1 AATAAAT
7359964 AA-AAGAT
1 AATAA-AT
*
7359971 -ATATATT
1 AATA-AAT
7359978 AATAAAT
1 AATAAAT
*
7359985 AGT-AAT
1 AATAAAT
7359991 AA-AAGAT
1 AATAA-AT
7359998 AAGTAAAT
1 AA-TAAAT
7360006 AATAAAT
1 AATAAAT
7360013 AAATAAAT
1 -AATAAAT
*
7360021 AAAATACAAA
1 --AATA-AAT
7360031 AATACAA-
1 AATA-AAT
* *
7360038 AATACAG
1 AATAAAT
7360045 AATAAAT
1 AATAAAT
7360052 AA-AAA-
1 AATAAAT
7360057 AATAAA-
1 AATAAAT
7360063 AATAAA
1 AATAAA
7360069 ATAAAATAAA
Statistics
Matches: 116, Mismatches: 14, Indels: 34
0.71 0.09 0.21
Matches are distributed among these distances:
5 4 0.03
6 30 0.26
7 39 0.34
8 34 0.29
9 7 0.06
10 2 0.02
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (7 bp):
AATAAAT
Found at i:7360014 original size:15 final size:15
Alignment explanation
Indices: 7359977--7360022 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
7359967 AGATATATAT
7359977 TAATAAAT-AGT-AA
1 TAATAAATAAGTAAA
7359990 TAA-AAGATAAGTAAA
1 TAATAA-ATAAGTAAA
*
7360005 TAATAAATAAATAAA
1 TAATAAATAAGTAAA
7360020 TAA
1 TAA
7360023 AATACAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 2 0.07
13 5 0.18
14 3 0.11
15 16 0.57
16 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
TAATAAATAAGTAAA
Found at i:7360069 original size:5 final size:5
Alignment explanation
Indices: 7360009--7360089 Score: 66
Period size: 5 Copynumber: 16.6 Consensus size: 5
7359999 AGTAAATAAT
* *
7360009 AAAT- AAAT- AAATA AAATA CAAA-A ATACA AAATA CAGAAT- AAAT-
1 AAATA AAATA AAATA AAATA -AAATA AAATA AAATA -A-AATA AAATA
7360052 AAA-A AAATAA AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAAT-A AAATA AAATA AAATA AAATA AAATA AAA
7360090 CAAATTGAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 15
0.79 0.04 0.18
Matches are distributed among these distances:
4 19 0.29
5 35 0.53
6 9 0.14
7 3 0.05
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.17
Consensus pattern (5 bp):
AAATA
Found at i:7360075 original size:35 final size:32
Alignment explanation
Indices: 7360009--7360094 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 32
7359999 AGTAAATAAT
* *
7360009 AAATAAATAAATAAAATACAAAAATACAAAATA
1 AAATAAATAAA-AAAATAAAAAAAAACAAAATA
*
7360042 CAGAATAAATAAAAAAATAAAAATAAAATAAAATA
1 -A-AATAAATAAAAAAATAAAAA-AAAACAAAATA
7360077 AAATAAAATAAAACAAAT
1 AAAT-AAATAAAA-AAAT
7360095 TGAAATGAGC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
33 3 0.07
34 19 0.42
35 23 0.51
ACGTcount: A:0.77, C:0.05, G:0.01, T:0.17
Consensus pattern (32 bp):
AAATAAATAAAAAAATAAAAAAAAACAAAATA
Found at i:7369867 original size:45 final size:45
Alignment explanation
Indices: 7369779--7369868 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
7369769 AGAGTTTCTA
* *
7369779 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAACGTTTTT
1 TTTTAAGGAAAATTGATACTTCCAACTTTTCCTCAAAACGTTTTT
*
7369824 TTTTAA-GAAACATTGATACTTCCAACTTGTTCC-CAAAATGTTTTT
1 TTTTAAGGAAA-ATTGATACTTCCAACTT-TTCCTCAAAACGTTTTT
7369869 CTGAAACTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
44 4 0.10
45 32 0.80
46 4 0.10
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (45 bp):
TTTTAAGGAAAATTGATACTTCCAACTTTTCCTCAAAACGTTTTT
Found at i:7370072 original size:115 final size:112
Alignment explanation
Indices: 7369889--7370120 Score: 277
Period size: 115 Copynumber: 2.0 Consensus size: 112
7369879 AATTTCGAGA
* ** * * *
7369889 AAAATTGATACTTTCAACTTTTCCTCAAAAACATTTTTTTTAAATTTATTTTTAAGGAAAATTAA
1 AAAATTGATACTTTCAACTTTTCCGCAAAAACATTTTTTGAAAACTTATTTTCAAGAAAAATTAA
*
7369954 TACTTT-TACGTTTTCCTCAAAAATATTTTTTAGAAAATTATTTTCAAGG
66 TACTTTCAAC-TTTTCCTCAAAAATATTTTTTAGAAAATTATTTT-AA-G
* * * * * *
7370003 AAAATTTATTCTTTCAATTTTTCCGCGAAAATATTTTTTAGAAAACTTATTTTCAAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTCCGCAAAAACATTTTTT-GAAAACTTATTTTCAAGAAAAATTA
* **
7370068 ATACTTTCAACTTTTGCTCAAAAATATTTTTTAGAATTTTATTTTAAG
65 ATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTATTTTAAG
7370116 AAAAT
1 AAAAT
7370121 CATTAAAAAA
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
113 6 0.06
114 35 0.35
115 57 0.57
116 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (112 bp):
AAAATTGATACTTTCAACTTTTCCGCAAAAACATTTTTTGAAAACTTATTTTCAAGAAAAATTAA
TACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTATTTTAAG
Found at i:7370075 original size:58 final size:57
Alignment explanation
Indices: 7369823--7370119 Score: 298
Period size: 57 Copynumber: 5.2 Consensus size: 57
7369813 AAAACGTTTT
* * * *
7369823 TTTTTAAGAAACATTGATACTTCCAACTTGTTCC-C-AAAATGTTTTTCT-GAAACTTTA
1 TTTTCAAGAAAAATTGATACTTTCAACTT-TTCCTCAAAAATATTTTT-TAGAAAC-TTA
* * * ** *
7369880 ATTTCGAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACATTTTTTTTAAATTTA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTA
* * * * *
7369937 TTTTTAAGGAAAATTAATACTTT-TACGTTTTCCTCAAAAATATTTTTTAGAAAATTA
1 TTTTCAAGAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTAGAAACTTA
* * * * * *
7369994 TTTTCAAGGAAAATTTATTCTTTCAATTTTTCCGCGAAAATATTTTTTAGAAAACTTA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG-AAACTTA
* **
7370052 TTTTCAAGAAAAATTGATACTTTCAACTTTTGCTCAAAAATATTTTTTAGAATTTTA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTA
7370109 TTTT-AAGAAAA
1 TTTTCAAGAAAA
7370120 TCATTAAAAA
Statistics
Matches: 198, Mismatches: 36, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
56 13 0.07
57 123 0.62
58 62 0.31
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (57 bp):
TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTA
Found at i:7371019 original size:35 final size:33
Alignment explanation
Indices: 7370950--7371031 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 33
7370940 AAATCAATCA
*
7370950 AGATAAAATAAAAAAATACATATTAATAATTAAT
1 AGAT-AAATAAAAAAATACATATTAATAAATAAT
*
7370984 AGATAAATAATAAAATATATATATTAATAAATAAT
1 AGATAAATAA-AAAA-ATACATATTAATAAATAAT
7371019 A-ATAAAATAAAAA
1 AGAT-AAATAAAAA
7371032 TAAAATAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 6 0.14
34 13 0.30
35 24 0.56
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.29
Consensus pattern (33 bp):
AGATAAATAAAAAAATACATATTAATAAATAAT
Found at i:7371040 original size:11 final size:11
Alignment explanation
Indices: 7371012--7371042 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
7371002 ATATATTAAT
*
7371012 AAATAATAATA
1 AAATAAAAATA
7371023 AAATAAAAATA
1 AAATAAAAATA
7371034 AAATAAAAA
1 AAATAAAAA
7371043 AACAAAAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:7372031 original size:16 final size:16
Alignment explanation
Indices: 7371995--7372027 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7371985 ACTAATGATA
*
7371995 ATGATGATTTATAATG
1 ATGATGATTTATAAAG
7372011 ATGATGATTT-TAAAG
1 ATGATGATTTATAAAG
7372026 AT
1 AT
7372028 TGATTCATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (16 bp):
ATGATGATTTATAAAG
Found at i:7377127 original size:10 final size:11
Alignment explanation
Indices: 7377103--7377131 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
7377093 ATTACATCCG
7377103 AATTTAAAGAA
1 AATTTAAAGAA
7377114 AATTTAAA-AA
1 AATTTAAAGAA
7377124 AATTTAAA
1 AATTTAAA
7377132 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (11 bp):
AATTTAAAGAA
Found at i:7377158 original size:22 final size:21
Alignment explanation
Indices: 7377116--7377159 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
7377106 TTAAAGAAAA
*
7377116 TTTAAAAAAATTTAAATATTT
1 TTTAAAAAAATTTAAACATTT
*
7377137 TTTAAAAAATATTTAAGCATTT
1 TTTAAAAAA-ATTTAAACATTT
7377159 T
1 T
7377160 AAAAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTAAAAAAATTTAAACATTT
Found at i:7377648 original size:17 final size:17
Alignment explanation
Indices: 7377626--7377664 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7377616 TTTTGAAAAT
*
7377626 ATTTT-ATAAAATTTTAG
1 ATTTTAATAAAA-ATTAG
7377643 ATTTTAATAAAAATTAG
1 ATTTTAATAAAAATTAG
7377660 ATTTT
1 ATTTT
7377665 TTGTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
ATTTTAATAAAAATTAG
Found at i:7377803 original size:19 final size:18
Alignment explanation
Indices: 7377780--7377824 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
7377770 AAAATTTGAG
7377780 ATTTTATGAATTTTTTAA
1 ATTTTATGAATTTTTTAA
*
7377798 AGTTTTGAT-ATTTTTTTAA
1 A-TTTT-ATGAATTTTTTAA
7377817 ATTTTATG
1 ATTTTATG
7377825 TTCAAATAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 2 0.09
18 5 0.22
19 14 0.61
20 2 0.09
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (18 bp):
ATTTTATGAATTTTTTAA
Found at i:7391494 original size:44 final size:43
Alignment explanation
Indices: 7391435--7391523 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 43
7391425 AGAGTTTCTA
* *
7391435 TTTTTAAAAAAATTGATACTTTCAACTTTTTCTTAAAACGTTT
1 TTTTTAAAAAAATTGATACTTTCAACTTTTCCTCAAAACGTTT
*
7391478 TTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGTTT
1 TTTTTAA-AAAAATTGATACTTTCAACTTTTCCTCAAAACGTTT
7391522 TT
1 TT
7391524 CAGAAACTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 7 0.17
44 35 0.83
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (43 bp):
TTTTTAAAAAAATTGATACTTTCAACTTTTCCTCAAAACGTTT
Found at i:7391563 original size:57 final size:56
Alignment explanation
Indices: 7391478--7391775 Score: 314
Period size: 57 Copynumber: 5.2 Consensus size: 56
7391468 TAAAACGTTT
* * * *
7391478 TTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTCAGAAACTTTA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAGAAA-TTTA
* * * * * **
7391535 ATTTCGAGGAAAATTGATATTTTTAACTTTTTCTCAAAAATATTTTTT-TTAATTTA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTAGAAATTTA
* * * * * *
7391591 TTTTTAAGGAAAATTAATACTTTTACCTTTTCCTTTAAAATATTTTTTAGAAAATTA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCC-TCAAAATATTTTTTAGAAATTTA
* *
7391648 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCGTGAAAATATTTTTTAAAAAATTTA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCC-TCAAAATATTTTTT-AGAAATTTA
* * *
7391706 TTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAATTTTA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAATA-TTTTTTAGAAATTTA
7391764 TTTT-AA-GAAAAT
1 TTTTCAAGGAAAAT
7391776 CATTAAAAAT
Statistics
Matches: 199, Mismatches: 36, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
56 47 0.24
57 81 0.41
58 65 0.33
59 6 0.03
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (56 bp):
TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAGAAATTTA
Found at i:7391611 original size:113 final size:113
Alignment explanation
Indices: 7391478--7391752 Score: 347
Period size: 113 Copynumber: 2.4 Consensus size: 113
7391468 TAAAACGTTT
* * *
7391478 TTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTCAGAAACTTTAATTTCGAG
1 TTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTCAGAAA-ATTAATTTCAAG
* * * **
7391543 GAAAATTGATATTTTTAACTTTTTC-TCAAAAATATTTTTT-TTAATTTA
65 GAAAATTGATACTTTCAACTTTTCCGT-AAAAATATTTTTTAAAAATTTA
* * * * * * *
7391591 TTTTTAAGGAAAATTAATACTTTTACCTTTTCCTTTAAAATATTTTTTAGAAAATTATTTTCAAG
1 TTTTTAAGAAAAATTGATACTTTCAACTTTTCC-TCAAAATATTTTTCAGAAAATTAATTTCAAG
*
7391656 GAAAATTGATACTTTCAACTTTTCCGTGAAAATATTTTTTAAAAAATTTA
65 GAAAATTGATACTTTCAACTTTTCCGTAAAAATATTTTTT-AAAAATTTA
7391706 TTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT
1 TTTTTAAGAAAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTT
7391753 TTAGAATTTT
Statistics
Matches: 136, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
113 72 0.53
114 18 0.13
115 46 0.34
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (113 bp):
TTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTCAGAAAATTAATTTCAAGG
AAAATTGATACTTTCAACTTTTCCGTAAAAATATTTTTTAAAAATTTA
Found at i:7391707 original size:16 final size:17
Alignment explanation
Indices: 7391688--7391720 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7391678 TCCGTGAAAA
*
7391688 TATTTTTTA-AAAAATT
1 TATTTTTAAGAAAAATT
7391704 TATTTTTAAGAAAAATT
1 TATTTTTAAGAAAAATT
7391721 GATACTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATTTTTAAGAAAAATT
Found at i:7391825 original size:18 final size:18
Alignment explanation
Indices: 7391779--7391826 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
7391769 AGAAAATCAT
7391779 TAAAAATAA-AAT-AAAA
1 TAAAAATAAGAATAAAAA
*
7391795 TAAAAATCAGAATAAAAA
1 TAAAAATAAGAATAAAAA
7391813 T-AAAATAAGGAATA
1 TAAAAATAA-GAATA
7391827 CCAAATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 8 0.30
17 9 0.33
18 10 0.37
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (18 bp):
TAAAAATAAGAATAAAAA
Found at i:7391860 original size:3 final size:3
Alignment explanation
Indices: 7391852--7391933 Score: 114
Period size: 3 Copynumber: 27.7 Consensus size: 3
7391842 CTAATCAATA
*
7391852 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
7391899 AAT AAT ACT AAT AA- AAGA AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AA
7391934 ATAAGAAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
2 4 0.06
3 65 0.92
4 2 0.03
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:7392708 original size:34 final size:34
Alignment explanation
Indices: 7392658--7392742 Score: 104
Period size: 34 Copynumber: 2.5 Consensus size: 34
7392648 AAATCAATCA
**
7392658 AGATAAAATAA-AAAAAACACATATTAATAGTTAAT
1 AGAT-AAATAATAAAAAA-ACATATTAATAAATAAT
*
7392693 AGATAAATAATAAAAAAATATATTAATAAATAAT
1 AGATAAATAATAAAAAAACATATTAATAAATAAT
7392727 A-AT-AATAATAAAAAAA
1 AGATAAATAATAAAAAAA
7392743 TAAAATACCC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
32 13 0.28
33 2 0.04
34 21 0.46
35 10 0.22
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (34 bp):
AGATAAATAATAAAAAAACATATTAATAAATAAT
Found at i:7392721 original size:16 final size:14
Alignment explanation
Indices: 7392698--7392749 Score: 61
Period size: 16 Copynumber: 3.5 Consensus size: 14
7392688 TTAATAGATA
7392698 AATAATAAAAAAAT
1 AATAATAAAAAAAT
7392712 ATATTAATAAATAATAAT
1 A-A-TAATAAA-AA-AAT
7392730 AATAATAAAAAAAT
1 AATAATAAAAAAAT
7392744 AA-AATA
1 AATAATA
7392750 CCCATTTGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.12
14 6 0.18
15 3 0.09
16 14 0.41
17 3 0.09
18 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAATAAAAAAAT
Found at i:7392891 original size:21 final size:21
Alignment explanation
Indices: 7392866--7392905 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7392856 ATTTGGAGTC
7392866 TTTTATGAATAA-ATATATAAT
1 TTTTATGAA-AAGATATATAAT
*
7392887 TTTTATTAAAAGATATATA
1 TTTTATGAAAAGATATATA
7392906 TACTATCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
TTTTATGAAAAGATATATAAT
Found at i:7393712 original size:16 final size:16
Alignment explanation
Indices: 7393687--7393718 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7393677 TGATAAAGTA
7393687 ATGATAATGATGATTT
1 ATGATAATGATGATTT
*
7393703 ATGATGATGATGATTT
1 ATGATAATGATGATTT
7393719 TAAAGATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (16 bp):
ATGATAATGATGATTT
Found at i:7399364 original size:19 final size:17
Alignment explanation
Indices: 7399323--7399365 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
7399313 ATTTTTGAAA
*
7399323 ATATTTTATAAAATTTT
1 ATATTTTATAAAATTTG
*
7399340 AGATTTTAATAAAAATTTG
1 ATATTTT-AT-AAAATTTG
7399359 ATATTTT
1 ATATTTT
7399366 TTTAATTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 2 0.10
19 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (17 bp):
ATATTTTATAAAATTTG
Found at i:7402775 original size:44 final size:44
Alignment explanation
Indices: 7402688--7402776 Score: 101
Period size: 44 Copynumber: 2.0 Consensus size: 44
7402678 AGAGTTTCTA
* * *
7402688 TTTTAAGGACAATTGATACTTTCAACTTTTCCTTAAAACATTTT
1 TTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAACATTTT
* *
7402732 TTTTAAGAAAAATTGGTAC-TTCTAACTTTTTCC-CAAAATATTTT
1 TTTTAAGAAAAATTGATACTTTC-AAC-TTTTCCTCAAAACATTTT
7402776 T
1 T
7402777 CTGAAACTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
43 3 0.08
44 29 0.76
45 6 0.16
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.46
Consensus pattern (44 bp):
TTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAACATTTT
Found at i:7402859 original size:114 final size:113
Alignment explanation
Indices: 7402727--7402970 Score: 320
Period size: 114 Copynumber: 2.1 Consensus size: 113
7402717 TCCTTAAAAC
* * * *
7402727 ATTTTTTTTAAGAAAAATTGGTACTTCTAACTTTTTCC-C-AAAAT-ATTTTTCTGAAACTTTAA
1 ATTTTTTTTAAGAAAAATTGATACTT-TAACCTTTTCCTCAAAAATAATTTTT-AGAAA-ATT-A
*
7402789 TTTT-GAGGAAAATTGATACTTTCAAC-TTTTCTTCAAAAATATTTTTTTTA-A
62 TTTTCAAGGAAAATTGATACTTTCAACTTTTTC-TCAAAAATA-TTTTTTTAGA
*
7402840 ATTTATTTTTAAGAAAAATTGATACTTTTACCTTTTCCTCAAAAATAATTTTTAGAAAATTATTT
1 ATTT-TTTTTAAGAAAAATTGATACTTTAACCTTTTCCTCAAAAATAATTTTTAGAAAATTATTT
7402905 TCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGA
65 TCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGA
7402954 ATTTTATTTTAAGAAAA
1 ATTTT-TTTTAAGAAAA
7402971 TCATTAAAAA
Statistics
Matches: 117, Mismatches: 6, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
113 27 0.23
114 70 0.60
115 14 0.12
116 6 0.05
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (113 bp):
ATTTTTTTTAAGAAAAATTGATACTTTAACCTTTTCCTCAAAAATAATTTTTAGAAAATTATTTT
CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGA
Found at i:7402934 original size:58 final size:57
Alignment explanation
Indices: 7402727--7402971 Score: 236
Period size: 57 Copynumber: 4.3 Consensus size: 57
7402717 TCCTTAAAAC
* * * *
7402727 ATTTTTTTTAAGAAAAATTGGTAC-TTCTAACTTTTTCC-C-AAAAT-ATTTTTCTGAA
1 ATTTATTTTAAGGAAAATTGATACTTTC-AACTTTTTCCTCAAAAATAATTTTT-AGAA
* * * **
7402782 ACTTTAATTTTGAGGAAAATTGATACTTTCAAC-TTTTCTTCAAAAATATTTTTTTTAA
1 A-TTT-ATTTTAAGGAAAATTGATACTTTCAACTTTTTCCTCAAAAATAATTTTTAGAA
* * *
7402840 ATTTATTTTTAAGAAAAATTGATACTTT-TACCTTTTCCTCAAAAATAATTTTTAGAA
1 ATTTA-TTTTAAGGAAAATTGATACTTTCAACTTTTTCCTCAAAAATAATTTTTAGAA
* *
7402897 AATTATTTTCAAGGAAAATTGATACTTTCAACTTTTT-CTCAAAAATATTTTTTTAGAA
1 ATTTATTTT-AAGGAAAATTGATACTTTCAACTTTTTCCTCAAAAATA-ATTTTTAGAA
*
7402955 TTTTATTTTAA-GAAAAT
1 ATTTATTTTAAGGAAAAT
7402972 CATTAAAAAA
Statistics
Matches: 158, Mismatches: 21, Indels: 21
0.79 0.10 0.10
Matches are distributed among these distances:
55 1 0.01
56 21 0.13
57 97 0.61
58 34 0.22
59 5 0.03
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (57 bp):
ATTTATTTTAAGGAAAATTGATACTTTCAACTTTTTCCTCAAAAATAATTTTTAGAA
Found at i:7403828 original size:34 final size:34
Alignment explanation
Indices: 7403781--7403866 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 34
7403771 ATCAATCAAG
*
7403781 ATAAAACAA-AAAAAACA-CATA-TAATAATTAATA
1 ATAAAA-AATAAAAAA-ATCATATTAATAAATAATA
* *
7403814 GATAAATAATAAAAAAATTATATTAATAAATAATA
1 -ATAAAAAATAAAAAAATCATATTAATAAATAATA
7403849 ATAAAAAATAAATAAAAT
1 ATAAAAAATAAA-AAAAT
7403867 GGGCTTACCC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
33 3 0.07
34 25 0.57
35 16 0.36
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (34 bp):
ATAAAAAATAAAAAAATCATATTAATAAATAATA
Found at i:7404832 original size:16 final size:16
Alignment explanation
Indices: 7404811--7404842 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7404801 TGATAAACTA
7404811 ATGATAATGATGATTT
1 ATGATAATGATGATTT
7404827 ATGATAATGATGATTT
1 ATGATAATGATGATTT
7404843 TAAAGATTGA
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:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (16 bp):
ATGATAATGATGATTT
Found at i:7409986 original size:20 final size:20
Alignment explanation
Indices: 7409941--7409992 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
7409931 AAGAAAATTC
*
7409941 TAAAAAA-ATTTAAATATTT
1 TAAAAAATATTTAAACATTT
** *
7409960 TTTAAAATATTTAAGCATTT
1 TAAAAAATATTTAAACATTT
7409980 TAAAAAATTATTT
1 TAAAAAA-TATTT
7409993 TAAAAACAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 5 0.20
20 15 0.60
21 5 0.20
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
TAAAAAATATTTAAACATTT
Found at i:7410492 original size:19 final size:17
Alignment explanation
Indices: 7410451--7410493 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
7410441 ATTTTTGAAA
*
7410451 ATATTTTATAAAATTTT
1 ATATTTTATAAAATTTG
*
7410468 AGATTTTAATAAAAATTTG
1 ATATTTT-AT-AAAATTTG
7410487 ATATTTT
1 ATATTTT
7410494 TTGAATTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 2 0.10
19 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (17 bp):
ATATTTTATAAAATTTG
Found at i:7419437 original size:37 final size:37
Alignment explanation
Indices: 7419396--7419466 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
7419386 TACAGAATGG
7419396 TGGTGTAGCACAATGATTTTATGTTGTTTTACAAAGC
1 TGGTGTAGCACAATGATTTTATGTTGTTTTACAAAGC
7419433 TGGTGTAGCACAATGATTTTATGTTGTTTTACAA
1 TGGTGTAGCACAATGATTTTATGTTGTTTTACAA
7419467 CAATTATTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (37 bp):
TGGTGTAGCACAATGATTTTATGTTGTTTTACAAAGC
Done.