Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007725.1 Hibiscus syriacus cultivar Beakdansim tig00109972_pilon, 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: 3026330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 14
Found at i:1041553 original size:209 final size:206
Alignment explanation
Indices: 1041027--1041556 Score: 483
Period size: 210 Copynumber: 2.5 Consensus size: 206
1041017 AAATTCATAA
* * * *
1041027 TTTG-AAAAATTGTCTCAAGTGAGACAACATTTGTTTTTAGAGAAATTGTCTTAAATGAGACAAA
1 TTTGAAAAAATTGTCTCAAGTGAGACAAAATTTGTTTTTAGA-AAACTGTC-TCAA-GAGTC-AA
* * ** * *
1041091 AATTGTTTTTAGAGAAATTGTCTCAAGCGAGACAACGTTTGTTTT-TGAGAAAACGATCTCAAGT
62 AATT-TTTTTAGAAAAATTGTCTCAAGCGACA-AAAATTTGTTTTAAGAGAAAACGATCTCAAAT
1041155 GAGATCAACTTTGTTTAATGTGAAAACAAATTCGAAATTTGTATTCTCAAAGGAAAAATGTCTCA
125 GAGATCAACTTTGTTTAATGTGAAAACAAATTCGAAATTTGTATTCTCAAAGGAAAAATGTCTCA
* *
1041220 AACGAGACGGATTTTGT
190 AACGAGACGAAATTTGT
** ** * * ** *
1041237 TTTGAAAAAATAACAATCTCAAGTGAGA-TTAATTT-TTGTTT---CAAGTGAATCAA-ATTCAA
1 TTTGAAAAAAT---TGTCTCAAGTGAGACAAAATTTGTT-TTTAGAAAACTGTCTCAAGAGTCAA
* * * * *
1041296 AATTTGTATATCAAAGGAAAAAATGTCTCAAGCAAGAC-GAACTTTGTTTTAAGAGAAAGCGATC
62 AATTT-T-T-T--TA-GAAAAATTGTCTCAAGC--GACAAAAATTTGTTTTAAGAGAAAACGATC
1041360 TCAAATGAGATCAACTTTGTTTAATGTG-AAACAAATTC-AAATTTTGTA-TCTCAAAGGAAAAA
119 TCAAATGAGATCAACTTTGTTTAATGTGAAAACAAATTCGAAA-TTTGTATTCTCAAAGGAAAAA
*
1041422 TGTCT-AAAGTGAGACGAAATTTGT
183 TGTCTCAAA-CGAGACGAAATTTGT
*
1041446 TTTGAAAGAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGAAAACTGTCTCAAGCGAGTCAAA
1 TTTGAAA-AAATTGTCTCAAGTGAGACAAAATTTGTTTTTAGAAAACTGTCTCAA--GAGTCAAA
*
1041511 ATTTTCTTTGAGAAAAATTATCTCAAGCGACAAAAATTTGTTTTAA
63 ATTTT-TTT-AGAAAAATTGTCTCAAGCGACAAAAATTTGTTTTAA
1041557 AAATCTCAAA
Statistics
Matches: 252, Mismatches: 41, Indels: 55
0.72 0.12 0.16
Matches are distributed among these distances:
204 1 0.00
205 7 0.03
206 3 0.01
207 12 0.05
208 17 0.07
209 60 0.24
210 63 0.25
211 53 0.21
212 5 0.02
213 9 0.04
214 22 0.09
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.33
Consensus pattern (206 bp):
TTTGAAAAAATTGTCTCAAGTGAGACAAAATTTGTTTTTAGAAAACTGTCTCAAGAGTCAAAATT
TTTTTAGAAAAATTGTCTCAAGCGACAAAAATTTGTTTTAAGAGAAAACGATCTCAAATGAGATC
AACTTTGTTTAATGTGAAAACAAATTCGAAATTTGTATTCTCAAAGGAAAAATGTCTCAAACGAG
ACGAAATTTGT
Found at i:1045773 original size:11 final size:11
Alignment explanation
Indices: 1045743--1045773 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1045733 AAGAATGATG
*
1045743 AAAAATGACAA
1 AAAAATGAGAA
1045754 AAAAATGAGAA
1 AAAAATGAGAA
1045765 AAAAATGAG
1 AAAAATGAG
1045774 TTAGTATACA
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:0.71, C:0.03, G:0.16, T:0.10
Consensus pattern (11 bp):
AAAAATGAGAA
Found at i:1048100 original size:19 final size:18
Alignment explanation
Indices: 1048073--1048123 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
1048063 ATTTAAAAAT
* *
1048073 TAAATTAATATGAATGAGA
1 TAAAATAATAT-AATGAAA
1048092 TAAAATAATATAATGAAA
1 TAAAATAATATAATGAAA
*
1048110 TAAACATTATATAA
1 TAAA-ATAATATAA
1048124 ACATACAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 10 0.36
19 18 0.64
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (18 bp):
TAAAATAATATAATGAAA
Found at i:1048173 original size:2 final size:2
Alignment explanation
Indices: 1048168--1048192 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1048158 ACACACACAC
1048168 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1048193 ATAAACATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1048290 original size:16 final size:16
Alignment explanation
Indices: 1048247--1048303 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
1048237 TTGAACTAGG
*
1048247 ATAATAAAATGACATTAA
1 ATAATAAAAGGACA--AA
* *
1048265 A-AACAAAAGGACTAA
1 ATAATAAAAGGACAAA
*
1048280 ATTATAAAAGGACAAA
1 ATAATAAAAGGACAAA
1048296 ATAATAAA
1 ATAATAAA
1048304 GCATAAATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
15 3 0.10
16 18 0.58
17 9 0.29
18 1 0.03
ACGTcount: A:0.65, C:0.07, G:0.09, T:0.19
Consensus pattern (16 bp):
ATAATAAAAGGACAAA
Found at i:1050032 original size:3 final size:3
Alignment explanation
Indices: 1050024--1050105 Score: 94
Period size: 3 Copynumber: 27.0 Consensus size: 3
1050014 AATATGTAAT
* * *
1050024 TAA TAA TAA TAA TAA TAA TAA TTAA TAA -ACA AAA TAA TAA CAT TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TA-A TAA TAA TAA TAA TAA
* *
1050070 TAA TAA TAA TAA CAT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1050106 GATTAAAATT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
2 1 0.01
3 62 0.93
4 4 0.06
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1050653 original size:30 final size:30
Alignment explanation
Indices: 1050617--1050679 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
1050607 GGGCAATATG
*
1050617 TAAATTTCTATATAAATTTCAATTGAGACT
1 TAAATTTCTATATAAATCTCAATTGAGACT
*
1050647 TAAATTTCTATATAAATCTCAATTGAGTCT
1 TAAATTTCTATATAAATCTCAATTGAGACT
1050677 TAA
1 TAA
1050680 GTACGTCCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (30 bp):
TAAATTTCTATATAAATCTCAATTGAGACT
Found at i:1051507 original size:22 final size:23
Alignment explanation
Indices: 1051476--1051524 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
1051466 TCACAATCTG
*
1051476 ATAATTTTAAAATTTATT-T-TTT
1 ATAATATTAAAA-TTATTATATTT
1051498 ATAATATTAAAATTATTATATTT
1 ATAATATTAAAATTATTATATTT
1051521 ATAA
1 ATAA
1051525 AAAACCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 12 0.50
23 7 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATAATATTAAAATTATTATATTT
Found at i:1053986 original size:20 final size:20
Alignment explanation
Indices: 1053958--1053998 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1053948 TCTTCAACCT
1053958 CATTACGTGCTCTCCATAAA
1 CATTACGTGCTCTCCATAAA
* *
1053978 CATTTCGTGCTCTTCATAAA
1 CATTACGTGCTCTCCATAAA
1053998 C
1 C
1053999 CGTAAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (20 bp):
CATTACGTGCTCTCCATAAA
Found at i:1056357 original size:35 final size:36
Alignment explanation
Indices: 1056311--1056380 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
1056301 TCAATTAATA
*
1056311 TTTAATAAG-AAAATACTCAAATTTCTTATGAAATC
1 TTTAATAAGAAAAATACACAAATTTCTTATGAAATC
*
1056346 TTTAATAAGAAAAAATACACCAATTTCTTATGAAA
1 TTTAATAAG-AAAAATACACAAATTTCTTATGAAA
1056381 CCTAAATTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 9 0.29
37 22 0.71
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (36 bp):
TTTAATAAGAAAAATACACAAATTTCTTATGAAATC
Found at i:1057067 original size:4 final size:4
Alignment explanation
Indices: 1057043--1057991 Score: 1821
Period size: 4 Copynumber: 237.8 Consensus size: 4
1057033 ATCTGACTCG
* *
1057043 ATAC ATAT ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057091 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057139 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057187 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057235 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057283 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1057331 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057379 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1057427 ATAC ATAC ATAC ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1057475 ATAC ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057523 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057571 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057619 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057667 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057715 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057763 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057811 ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057857 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057905 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057953 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1057992 TATATATATA
Statistics
Matches: 933, Mismatches: 10, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
2 2 0.00
4 931 1.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:1060694 original size:23 final size:23
Alignment explanation
Indices: 1060664--1060713 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
1060654 AAAAAAAATT
1060664 ATATAAATATTTTACAATTTGTA
1 ATATAAATATTTTACAATTTGTA
1060687 ATATAAATATTTTACAATTTGTA
1 ATATAAATATTTTACAATTTGTA
1060710 ATAT
1 ATAT
1060714 TATATAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (23 bp):
ATATAAATATTTTACAATTTGTA
Found at i:1060718 original size:28 final size:25
Alignment explanation
Indices: 1060661--1060724 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 25
1060651 TGTAAAAAAA
1060661 ATTATATAAATATTTTACAATTTGT
1 ATTATATAAATATTTTACAATTTGT
1060686 A--ATATAAATATTTTACAATTTGTAAT
1 ATTATATAAATATTTTACAATTTG---T
1060712 ATTATATAAATAT
1 ATTATATAAATAT
1060725 ATAATAAGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
23 21 0.62
25 1 0.03
26 2 0.06
28 10 0.29
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (25 bp):
ATTATATAAATATTTTACAATTTGT
Found at i:1062006 original size:3 final size:3
Alignment explanation
Indices: 1061998--1062023 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1061988 TTTAAATTAA
1061998 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
1062024 AAAACTCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1062784 original size:31 final size:32
Alignment explanation
Indices: 1062713--1062784 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
1062703 ATATATAATT
* *
1062713 AAAAAATTTGAAAGTTAGAGTGATTAAATTAG
1 AAAAAATTTGAAAGTCAGAGTAATTAAATTAG
* *
1062745 GAATAATTTGAAAGTCA-AGTAATTAAATTTA-
1 AAAAAATTTGAAAGTCAGAGTAATTAAA-TTAG
1062776 AAAAAATTT
1 AAAAAATTT
1062785 AAACTTTAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
31 16 0.48
32 17 0.52
ACGTcount: A:0.51, C:0.01, G:0.14, T:0.33
Consensus pattern (32 bp):
AAAAAATTTGAAAGTCAGAGTAATTAAATTAG
Found at i:1063570 original size:21 final size:22
Alignment explanation
Indices: 1063544--1063589 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
1063534 GATAAAAAAA
1063544 TTATTTAAAATATT-ATTATTT
1 TTATTTAAAATATTAATTATTT
*
1063565 TTATTTAAAATATTAATTTTTT
1 TTATTTAAAATATTAATTATTT
1063587 TTA
1 TTA
1063590 ACATTTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATTTAAAATATTAATTATTT
Found at i:1064337 original size:60 final size:60
Alignment explanation
Indices: 1064267--1064381 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 60
1064257 TACGATCCTT
** *
1064267 ATTTTAAATTGATTTTTAAAATTTTAAATATTCCAATTTCATCCATAAACTATGATTCAC
1 ATTTTAAATTGATCCTTAAAATTTTAAAGATTCCAATTTCATCCATAAACTATGATTCAC
* * * * * * *
1064327 ATTTTGAATTGGTCCTTAAACTTTTGAAGATTTCAATTTCATCCTTAAGCTATGA
1 ATTTTAAATTGATCCTTAAAATTTTAAAGATTCCAATTTCATCCATAAACTATGA
1064382 CTCTTCTTCC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (60 bp):
ATTTTAAATTGATCCTTAAAATTTTAAAGATTCCAATTTCATCCATAAACTATGATTCAC
Found at i:1064663 original size:60 final size:60
Alignment explanation
Indices: 1064565--1064699 Score: 182
Period size: 60 Copynumber: 2.2 Consensus size: 60
1064555 GTATAATATT
* * *
1064565 GGATAAAATTGAATGTTCAAAAAGTTTGGGGACCAATTTAGAATGAAAATCATAGTTTGG
1 GGATGAAATTGAATGTTCAAAAAGTTTGAGGACCAATTTAGAATGAAAATCATAGTTTAG
** * *
1064625 GGATGAAATTGAAATGTTC-AAAAGTTTGAGGATTAATTTAGAATGATAGTCATAGTTTAG
1 GGATGAAATTG-AATGTTCAAAAAGTTTGAGGACCAATTTAGAATGAAAATCATAGTTTAG
1064685 GGATGAAATTAGAAT
1 GGATGAAATT-GAAT
1064700 ATTTAAAAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
60 58 0.88
61 8 0.12
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.32
Consensus pattern (60 bp):
GGATGAAATTGAATGTTCAAAAAGTTTGAGGACCAATTTAGAATGAAAATCATAGTTTAG
Found at i:1064697 original size:31 final size:30
Alignment explanation
Indices: 1064602--1064699 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 30
1064592 GGGGACCAAT
* *
1064602 TTAGAATGAAAATCATAGTTTGGGGATGAAA
1 TTAGAATGATAGTCATAGTTT-GGGATGAAA
* * *
1064633 TT-GAA--AT-GTTCAAAAGTTTGAGGATTAAT
1 TTAGAATGATAG-TC-ATAGTTTG-GGATGAAA
1064662 TTAGAATGATAGTCATAGTTTAGGGATGAAA
1 TTAGAATGATAGTCATAGTTT-GGGATGAAA
1064693 TTAGAAT
1 TTAGAAT
1064700 ATTTAAAAGC
Statistics
Matches: 51, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
28 4 0.08
29 14 0.27
30 6 0.12
31 21 0.41
32 5 0.10
33 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (30 bp):
TTAGAATGATAGTCATAGTTTGGGATGAAA
Found at i:1064708 original size:60 final size:60
Alignment explanation
Indices: 1064565--1064719 Score: 181
Period size: 60 Copynumber: 2.6 Consensus size: 60
1064555 GTATAATATT
* * *
1064565 GGATAAAATTG-AATGTTCAAAAAGTTTGGGGACCAATTTAGAATGAAAATCATAGTTTGG
1 GGATGAAATTGAAATGTTC-AAAAGTTTGAGGACCAATTTAGAATGAAAATCATAGTTTAG
** * *
1064625 GGATGAAATTGAAATGTTCAAAAGTTTGAGGATTAATTTAGAATGATAGTCATAGTTTAG
1 GGATGAAATTGAAATGTTCAAAAGTTTGAGGACCAATTTAGAATGAAAATCATAGTTTAG
* *
1064685 GGATGAAATTAGAATAT-TT-AAAAGCTTAAGGACCA
1 GGATGAAATT-GAA-ATGTTCAAAAGTTTGAGGACCA
1064720 TTTCAAAATA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
60 67 0.83
61 12 0.15
62 2 0.02
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.31
Consensus pattern (60 bp):
GGATGAAATTGAAATGTTCAAAAGTTTGAGGACCAATTTAGAATGAAAATCATAGTTTAG
Found at i:1069059 original size:15 final size:14
Alignment explanation
Indices: 1069031--1069064 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
1069021 ATAAAAATAT
1069031 TAAAT-TTAAAAAA
1 TAAATATTAAAAAA
1069044 TAAATATTAAATAAA
1 TAAATATTAAA-AAA
1069059 TAAATA
1 TAAATA
1069065 ACAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 5 0.26
15 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAATATTAAAAAA
Found at i:1070434 original size:2 final size:2
Alignment explanation
Indices: 1070429--1070459 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1070419 ATGTGTTTAT
1070429 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1070460 GTAACGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1070866 original size:36 final size:36
Alignment explanation
Indices: 1070818--1071142 Score: 146
Period size: 36 Copynumber: 9.3 Consensus size: 36
1070808 AATGTTTATG
*
1070818 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTT
* * * **
1070854 TTTCAAGGGAAACTATCTCAAGAGAGGCAAAATTCA
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTT
* *
1070890 TTTCAAGGGAAA-TGTTTTCAA---TG------TTTAT
1 TTTCAAGGGAAACTG-TCTCAAGGGAGACAAAATTT-T
* *
1070918 GTTTCAAGAGAAACTGTATCAAGGGAGACAAAATTTTCT
1 -TTTCAAGGGAAACTGTCTCAAGGGAGACAAAA-TTT-T
* * * * **
1070957 GTTTCGAGGGAAACTATCTCAAGAGAGAAAAAATTCA
1 -TTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTT
* * *** *
1070994 TTTCAAGGGAAA-TGTTTTCAA---TG--TTTA-TGT
1 TTTCAAGGGAAACTG-TCTCAAGGGAGACAAAATTTT
* * * * *
1071024 TTT-AAGAGAAATTGTTTCAAGGGAGACAAAATCTG
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTT
* *
1071059 TTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTG
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTT
* ** * **
1071095 TTTCAAGGGAAACTATCTCAAAAGAGAGAAAATTCA
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTT
1071131 TTTCAAGGGAAA
1 TTTCAAGGGAAA
1071143 TGTTTTAAAT
Statistics
Matches: 216, Mismatches: 50, Indels: 46
0.69 0.16 0.15
Matches are distributed among these distances:
27 2 0.01
29 29 0.13
30 8 0.04
31 1 0.00
32 2 0.01
33 2 0.01
34 1 0.00
35 5 0.02
36 133 0.62
38 2 0.01
39 31 0.14
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (36 bp):
TTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTT
Found at i:1070892 original size:101 final size:102
Alignment explanation
Indices: 1070748--1071106 Score: 560
Period size: 101 Copynumber: 3.5 Consensus size: 102
1070738 ATTTCAAAGG
* * *
1070748 TTTTGTTTCAAGGGAAATTATCTCAAGAGAGAGAAAATACATTTCAAGGGAAATGTTTTCAATGT
1 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGT
*
1070813 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
66 TTATGTTTCAAGAGAAACTGTATCAAGGGAGACAAAA
*
1070850 TTTT-TTTCAAGGGAAACTATCTCAAGAGAGGCAAAATTCATTTCAAGGGAAATGTTTTCAATGT
1 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGT
1070914 TTATGTTTCAAGAGAAACTGTATCAAGGGAGACAAAA
66 TTATGTTTCAAGAGAAACTGTATCAAGGGAGACAAAA
* *
1070951 TTTTCTGTTTCGAGGGAAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAATGTTTTCAAT
1 -TTT-TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAAT
* * *
1071016 GTTTATGTTTTAAGAGAAATTGTTTCAAGGGAGACAAAA
64 GTTTATGTTTCAAGAGAAACTGTATCAAGGGAGACAAAA
* * **
1071055 -TCTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAA
1 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
1071107 CTATCTCAAA
Statistics
Matches: 237, Mismatches: 17, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
101 137 0.58
102 8 0.03
103 1 0.00
104 91 0.38
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (102 bp):
TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGT
TTATGTTTCAAGAGAAACTGTATCAAGGGAGACAAAA
Found at i:1070971 original size:39 final size:39
Alignment explanation
Indices: 1070917--1070991 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
1070907 TCAATGTTTA
* * *
1070917 TGTTTCAAGAGAAACTGTATCAAGGGAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATATCAAGAGAGAAAAAATTTTC
* * *
1070956 TGTTTCGAGGGAAACTATCTCAAGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATATCAAGAGAGAAAAAATT
1070992 CATTTCAAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATATCAAGAGAGAAAAAATTTTC
Found at i:1071060 original size:21 final size:21
Alignment explanation
Indices: 1071032--1071104 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 21
1071022 GTTTTAAGAG
1071032 AAAT-TGTTTCAAGGGAGACA
1 AAATCTGTTTCAAGGGAGACA
1071052 AAATCTGTTTCAA-GG-G---
1 AAATCTGTTTCAAGGGAGACA
* *
1071068 AAA-CTATCTCAAGGGAGACA
1 AAATCTGTTTCAAGGGAGACA
*
1071088 AAATTTGTTTCAAGGGA
1 AAATCTGTTTCAAGGGA
1071105 AACTATCTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 13
0.69 0.08 0.22
Matches are distributed among these distances:
15 7 0.17
16 5 0.12
17 1 0.02
19 1 0.02
20 9 0.22
21 18 0.44
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.26
Consensus pattern (21 bp):
AAATCTGTTTCAAGGGAGACA
Found at i:1071140 original size:137 final size:138
Alignment explanation
Indices: 1070917--1071238 Score: 466
Period size: 137 Copynumber: 2.3 Consensus size: 138
1070907 TCAATGTTTA
* * * * *
1070917 TGTTTCAAGAGAAACTGTATCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAAGAG
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAA--TT-TGTTTCAAGGGAAACTATCTCAAAAG
* * * *
1070982 AGAAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTTAAGAGAAATTGTTTCAAGGG
63 AGAAAAAATTCATTTCAAGGGAAATGTTTTAAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGG
1071047 AGACAAAA-TC
128 AGACAAAATTC
1071057 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAAAGAGA
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAAAGAGA
*
1071122 GAAAATTCATTTCAAGGGAAATGTTTTAAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA
66 AAAAATTCATTTCAAGGGAAATGTTTTAAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA
1071187 CAAAATTTTC
131 CAAAA--TTC
* * *
1071197 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTGTTT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAAT-TTGTTT
1071239 TAAAAAACAA
Statistics
Matches: 165, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
137 92 0.56
138 2 0.01
140 65 0.39
141 6 0.04
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (138 bp):
TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAAAGAGA
AAAAATTCATTTCAAGGGAAATGTTTTAAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA
CAAAATTC
Found at i:1071212 original size:39 final size:40
Alignment explanation
Indices: 1071149--1071231 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 40
1071139 GAAATGTTTT
* *
1071149 AAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACA
1 AAATGTTTATGTTTCAAGAGAAACTATCTCAAGCGAGACA
* * * *
1071189 AAAT-TTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
1 AAATGTTTATGTTTCAAGAGAAACTATCTCAAGCGAGACA
1071228 AAAT
1 AAAT
1071232 CTTGTTTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 33 0.89
40 4 0.11
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (40 bp):
AAATGTTTATGTTTCAAGAGAAACTATCTCAAGCGAGACA
Found at i:1071361 original size:36 final size:35
Alignment explanation
Indices: 1071208--1071363 Score: 109
Period size: 36 Copynumber: 4.4 Consensus size: 35
1071198 GTTTCGAGGG
* * * *
1071208 AAACTATCTCAAGCGAGATAAAATCTTGTTTTAA-A
1 AAACAATCTCAAGGGAAAT-AAATCTTCTTTTAAGA
** *
1071243 AAACAATCTTGAGGGAAATAAATCTTCTTTCAAGTA
1 AAACAATCTCAAGGGAAATAAATCTTCTTTTAAG-A
* * * * * *
1071279 AAACAGTCTCAAGTGAGACAAGGTC-TGTTTTAAGA
1 AAACAATCTCAAGGGAAATAA-ATCTTCTTTTAAGA
* *
1071314 ATGATAATCTCAAGGGAAATAAATCTTCTTTTAAGTA
1 A-AACAATCTCAAGGGAAATAAATCTTCTTTTAAG-A
*
1071351 AAACAGTCTCAAG
1 AAACAATCTCAAG
1071364 TGAGACAAAT
Statistics
Matches: 88, Mismatches: 27, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
34 12 0.14
35 18 0.20
36 54 0.61
37 4 0.05
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (35 bp):
AAACAATCTCAAGGGAAATAAATCTTCTTTTAAGA
Found at i:1071374 original size:36 final size:36
Alignment explanation
Indices: 1071262--1071374 Score: 113
Period size: 36 Copynumber: 3.1 Consensus size: 36
1071252 TGAGGGAAAT
*
1071262 AAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGAC
1 AAATCTTCTTTTAAGTAAAACAGTCTCAAGTGAGAC
* * * * * * * *
1071298 AAGGTC-TGTTTTAAG-AATGATAATCTCAAGGGAAAT
1 AA-ATCTTCTTTTAAGTAA-AACAGTCTCAAGTGAGAC
1071334 AAATCTTCTTTTAAGTAAAACAGTCTCAAGTGAGAC
1 AAATCTTCTTTTAAGTAAAACAGTCTCAAGTGAGAC
1071370 AAATC
1 AAATC
1071375 ATCTGCATTA
Statistics
Matches: 56, Mismatches: 17, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
35 4 0.07
36 48 0.86
37 4 0.07
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (36 bp):
AAATCTTCTTTTAAGTAAAACAGTCTCAAGTGAGAC
Found at i:1074461 original size:21 final size:21
Alignment explanation
Indices: 1074411--1074462 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
1074401 ACTACCTTCG
1074411 TTTGCTCCTCCAACTGCTTGAT
1 TTTG-TCCTCCAACTGCTTGAT
* * *
1074433 TTTCTCCTCCATCTTCTTTGA-
1 TTTGTCCTCCAACTGC-TTGAT
1074454 TTTGTCCTC
1 TTTGTCCTC
1074463 TTTTTCCGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.10, C:0.33, G:0.10, T:0.48
Consensus pattern (21 bp):
TTTGTCCTCCAACTGCTTGAT
Found at i:1077041 original size:43 final size:43
Alignment explanation
Indices: 1076989--1077070 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
1076979 ATATTAACAT
1076989 AAAAAATGAGAATAAACATGTGTATTACAATTTACAAATAGTA
1 AAAAAATGAGAATAAACATGTGTATTACAATTTACAAATAGTA
*
1077032 AAAAAATGAGAATAGACATGTGTATTACAATTTACAAAT
1 AAAAAATGAGAATAAACATGTGTATTACAATTTACAAAT
1077071 GAGTCCTAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.28
Consensus pattern (43 bp):
AAAAAATGAGAATAAACATGTGTATTACAATTTACAAATAGTA
Found at i:1080490 original size:71 final size:71
Alignment explanation
Indices: 1080374--1080516 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
1080364 GGTACAAAAT
1080374 AAGAGATATAATTGTTAGAAAAGTTGATCAAGTGACGTTACTACAGACCCTGTATCCCATACCCA
1 AAGAGATATAATTGTTAGAAAAGTTGATCAAGTGACGTTACTACAGACCCTGTATCCCATACCCA
1080439 TGTTGG
66 TGTTGG
1080445 AAGAGATATAATTGTTAGAAAAGTTGATCAAGTGACGTTACTACAGACCCTGTATCCCATACCCA
1 AAGAGATATAATTGTTAGAAAAGTTGATCAAGTGACGTTACTACAGACCCTGTATCCCATACCCA
1080510 TGTTGG
66 TGTTGG
1080516 A
1 A
1080517 TTTATTCTAC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (71 bp):
AAGAGATATAATTGTTAGAAAAGTTGATCAAGTGACGTTACTACAGACCCTGTATCCCATACCCA
TGTTGG
Found at i:1091826 original size:13 final size:13
Alignment explanation
Indices: 1091810--1091834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1091800 AGGTAAATTC
1091810 GGTAAAAAAATAT
1 GGTAAAAAAATAT
1091823 GGTAAAAAAATA
1 GGTAAAAAAATA
1091835 AGGTTTTAGG
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:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (13 bp):
GGTAAAAAAATAT
Found at i:1093671 original size:31 final size:31
Alignment explanation
Indices: 1093646--1093706 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
1093636 TCTCCATCTT
1093646 CTTAT-TTTCTCCCTTCTAATCTCTCCACCAC
1 CTTATCTTTC-CCCTTCTAATCTCTCCACCAC
* *
1093677 CTTCTCTTTCCCCTTCTAATCTCTTCACCA
1 CTTATCTTTCCCCTTCTAATCTCTCCACCA
1093707 TCCAACGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.15, C:0.43, G:0.00, T:0.43
Consensus pattern (31 bp):
CTTATCTTTCCCCTTCTAATCTCTCCACCAC
Found at i:1094321 original size:17 final size:17
Alignment explanation
Indices: 1094299--1094352 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
1094289 ACTGAGAAAA
1094299 TGGAGAAGAGAAGACGG
1 TGGAGAAGAGAAGACGG
** *
1094316 TGGAG-AGATTAGA-AG
1 TGGAGAAGAGAAGACGG
*
1094331 -GGAAAAGAGAAGACGG
1 TGGAGAAGAGAAGACGG
1094347 TGGAGA
1 TGGAGA
1094353 GAAGATTGGG
Statistics
Matches: 26, Mismatches: 8, Indels: 6
0.65 0.20 0.15
Matches are distributed among these distances:
14 3 0.12
15 7 0.27
16 7 0.27
17 9 0.35
ACGTcount: A:0.43, C:0.04, G:0.44, T:0.09
Consensus pattern (17 bp):
TGGAGAAGAGAAGACGG
Found at i:1104471 original size:23 final size:23
Alignment explanation
Indices: 1104445--1104497 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
1104435 GGGTCTATGA
*
1104445 GGTCCTTTGGGATAATTCTACGC
1 GGTCCTTTGGGACAATTCTACGC
* *
1104468 GGTCTTTTGGGACAATTCTACGT
1 GGTCCTTTGGGACAATTCTACGC
1104491 GGTCCTT
1 GGTCCTT
1104498 CGAGACATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (23 bp):
GGTCCTTTGGGACAATTCTACGC
Found at i:1104504 original size:23 final size:23
Alignment explanation
Indices: 1104458--1104504 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1104448 CCTTTGGGAT
* * *
1104458 AATTCTACGCGGTCTTTTGGGAC
1 AATTCTACGCGGTCCTTCGAGAC
*
1104481 AATTCTACGTGGTCCTTCGAGAC
1 AATTCTACGCGGTCCTTCGAGAC
1104504 A
1 A
1104505 TATATGTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (23 bp):
AATTCTACGCGGTCCTTCGAGAC
Found at i:1105543 original size:17 final size:18
Alignment explanation
Indices: 1105504--1105545 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
1105494 AAATGGTGTT
*
1105504 CTTGAAAGAAAAATGAAT
1 CTTGAAAGAAAAATGAAG
* *
1105522 ATTGAATGAAAAAT-AAG
1 CTTGAAAGAAAAATGAAG
1105539 CTTGAAA
1 CTTGAAA
1105546 TGCTCAAACT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.24
Consensus pattern (18 bp):
CTTGAAAGAAAAATGAAG
Found at i:1108491 original size:22 final size:22
Alignment explanation
Indices: 1108423--1108502 Score: 74
Period size: 22 Copynumber: 3.7 Consensus size: 22
1108413 AAAACCCTTG
* *
1108423 GGGGGTATCGATTCCCC-T-AA
1 GGGGGAATCGGTTCCCCTTCAA
*
1108443 GGGGGAGTCGGTTCCCCTTCAA
1 GGGGGAATCGGTTCCCCTTCAA
* * *
1108465 AGGGGAATCTGTTCCCCTTCAT
1 GGGGGAATCGGTTCCCCTTCAA
* *
1108487 GGGGGTATCGATTCCC
1 GGGGGAATCGGTTCCC
1108503 TTTGCCCTAT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
20 14 0.30
21 1 0.02
22 32 0.68
ACGTcount: A:0.16, C:0.26, G:0.31, T:0.26
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCTTCAA
Found at i:1120461 original size:20 final size:21
Alignment explanation
Indices: 1120426--1120467 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
1120416 AAAAAATATA
1120426 AATATACATATGATTAAAAAT
1 AATATACATATGATTAAAAAT
* *
1120447 AATATATAT-TGATTATAAAT
1 AATATACATATGATTAAAAAT
1120467 A
1 A
1120468 TACATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (21 bp):
AATATACATATGATTAAAAAT
Found at i:1120474 original size:19 final size:19
Alignment explanation
Indices: 1120422--1120475 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
1120412 TGTAAAAAAA
1120422 TATAAATATACATA-TGAT
1 TATAAATATACATATTGAT
* *
1120440 TAAAAATAATATATATTGAT
1 TATAAAT-ATACATATTGAT
1120460 TATAAATATACATATT
1 TATAAATATACATATT
1120476 TTTATATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 6 0.20
19 14 0.47
20 10 0.33
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (19 bp):
TATAAATATACATATTGAT
Found at i:1127039 original size:21 final size:22
Alignment explanation
Indices: 1126994--1127039 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1126984 TGCTTCATCC
*
1126994 ATCGAAAGACGGAGTAGTACTG
1 ATCGAAAGACGGAGTAATACTG
* *
1127016 ATCGAAAGGCGG-GTAATGCTG
1 ATCGAAAGACGGAGTAATACTG
1127037 ATC
1 ATC
1127040 ATTCTAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.20
Consensus pattern (22 bp):
ATCGAAAGACGGAGTAATACTG
Found at i:1135728 original size:28 final size:25
Alignment explanation
Indices: 1135661--1135728 Score: 64
Period size: 28 Copynumber: 2.5 Consensus size: 25
1135651 GCCATATAAC
*
1135661 TTTTTTTTCATTGCACAATCTCTCT
1 TTTTTTTTCTTTGCACAATCTCTCT
*
1135686 TTCTTTATTTCCTTTGCACAATTTTGCTTCT
1 TT-TTT-TTT-CTTTGCACAA-TCT-C-TCT
1135717 TTTTTTTTCTTT
1 TTTTTTTTCTTT
1135729 TTTTTTAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
25 2 0.06
26 3 0.09
27 3 0.09
28 13 0.37
29 5 0.14
30 4 0.11
31 5 0.14
ACGTcount: A:0.12, C:0.21, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTTTTTCTTTGCACAATCTCTCT
Found at i:1141067 original size:18 final size:18
Alignment explanation
Indices: 1141044--1141082 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1141034 ACCTAATCCA
1141044 CAAAATACAAAATATAAT
1 CAAAATACAAAATATAAT
* * *
1141062 CAAAATCCATAATTTAAT
1 CAAAATACAAAATATAAT
1141080 CAA
1 CAA
1141083 TTTTAGTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (18 bp):
CAAAATACAAAATATAAT
Found at i:1143478 original size:22 final size:22
Alignment explanation
Indices: 1143448--1143494 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1143438 GGCGACATCT
* *
1143448 GTCCTCATCTCTGACAAAATCC
1 GTCCCCATCTCCGACAAAATCC
* *
1143470 GTCCCCATCTCCGGCGAAATCC
1 GTCCCCATCTCCGACAAAATCC
1143492 GTC
1 GTC
1143495 TATCTCCATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.40, G:0.15, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACAAAATCC
Found at i:1143858 original size:15 final size:15
Alignment explanation
Indices: 1143840--1143870 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1143830 ATTCGCAACA
1143840 CGAAAATGAAAATCG
1 CGAAAATGAAAATCG
1143855 CGAAAATGAAAATCG
1 CGAAAATGAAAATCG
1143870 C
1 C
1143871 AACGCGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.16, G:0.19, T:0.13
Consensus pattern (15 bp):
CGAAAATGAAAATCG
Found at i:1143909 original size:20 final size:19
Alignment explanation
Indices: 1143874--1143928 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
1143864 AAATCGCAAC
*
1143874 GCGATTTTAGTTTCACGTT
1 GCGATTTTAGTTTCACATT
*
1143893 GCGATTTTCATTTTCACATT
1 GCGATTTT-AGTTTCACATT
1143913 GCGATTTTAAGTTTCA
1 GCGATTTT-AGTTTCA
1143929 GAAACTATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 8 0.26
20 23 0.74
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.47
Consensus pattern (19 bp):
GCGATTTTAGTTTCACATT
Found at i:1146078 original size:21 final size:21
Alignment explanation
Indices: 1146054--1146150 Score: 99
Period size: 21 Copynumber: 4.6 Consensus size: 21
1146044 AGCACCTGTC
*
1146054 ATCGTTCAAGAGGCATCTCAT
1 ATCGTTCAAGAGGCCTCTCAT
*
1146075 ATCGTTCAAGAGGCCCCT-AT
1 ATCGTTCAAGAGGCCTCTCAT
* *
1146095 CATCCTTCAAGAGGCCTCTCCT
1 -ATCGTTCAAGAGGCCTCTCAT
* * *
1146117 ACCGTTCAAGAGGCCCCT-GT
1 ATCGTTCAAGAGGCCTCTCAT
1146137 CATCGTTCAAGAGG
1 -ATCGTTCAAGAGG
1146151 TCACTCCCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCTCTCAT
Found at i:1146163 original size:42 final size:41
Alignment explanation
Indices: 1146048--1146165 Score: 155
Period size: 42 Copynumber: 2.8 Consensus size: 41
1146038 GCCCGAAGCA
* *
1146048 CCTGTCATCGTTCAAGAGGCATCTCATATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCA-CTCCTACCGTTCAAGAGGCC
* * *
1146090 CCTATCATCCTTCAAGAGGCCTCTCCTACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGG-CACTCCTACCGTTCAAGAGGCC
*
1146132 CCTGTCATCGTTCAAGAGGTCACTCCCACCGTTC
1 CCTGTCATCGTTCAAGAGG-CACTCCTACCGTTC
1146166 GAGATCCCGA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 64 0.98
43 1 0.02
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (41 bp):
CCTGTCATCGTTCAAGAGGCACTCCTACCGTTCAAGAGGCC
Found at i:1146164 original size:21 final size:21
Alignment explanation
Indices: 1146077--1146165 Score: 72
Period size: 21 Copynumber: 4.2 Consensus size: 21
1146067 CATCTCATAT
* **
1146077 CGTTCAAGAGGCCCCTATCATC
1 CGTTCAAGAGGCCACTCCCA-C
* *
1146099 C-TTCAAGAGGCCTCTCCTAC
1 CGTTCAAGAGGCCACTCCCAC
* ** *
1146119 CGTTCAAGAGGCCCCTGTCAT
1 CGTTCAAGAGGCCACTCCCAC
*
1146140 CGTTCAAGAGGTCACTCCCAC
1 CGTTCAAGAGGCCACTCCCAC
1146161 CGTTC
1 CGTTC
1146166 GAGATCCCGA
Statistics
Matches: 52, Mismatches: 14, Indels: 3
0.75 0.20 0.04
Matches are distributed among these distances:
20 2 0.04
21 49 0.94
22 1 0.02
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.24
Consensus pattern (21 bp):
CGTTCAAGAGGCCACTCCCAC
Found at i:1147592 original size:64 final size:64
Alignment explanation
Indices: 1147517--1147665 Score: 244
Period size: 64 Copynumber: 2.3 Consensus size: 64
1147507 AAATTGATGT
1147517 ATTTGTAAAAGTTGATTTGTTTAAATGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAAATGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
* * * ***
1147581 ATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAAATGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
1147645 ATTTGTAAAAGTTGATTTGTT
1 ATTTGTAAAAGTTGATTTGTT
1147666 GTTTTAAATT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 79 1.00
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.51
Consensus pattern (64 bp):
ATTTGTAAAAGTTGATTTGTTTAAATGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
Found at i:1148020 original size:18 final size:18
Alignment explanation
Indices: 1147994--1148034 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
1147984 AGGTGAAGCC
* *
1147994 GATTATGATTGGGATTTT
1 GATTTTGATTGCGATTTT
1148012 GATTTTGATTGCGATTTT
1 GATTTTGATTGCGATTTT
1148030 GATTT
1 GATTT
1148035 CATTTTGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.54
Consensus pattern (18 bp):
GATTTTGATTGCGATTTT
Found at i:1149225 original size:18 final size:18
Alignment explanation
Indices: 1149202--1149238 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1149192 CAAAATTTGT
1149202 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1149220 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1149238 A
1 A
1149239 CTCCAAGTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1149652 original size:25 final size:25
Alignment explanation
Indices: 1149624--1149673 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
1149614 CATTATTTTC
*
1149624 CAAATAATATACCCATAACAATGTT
1 CAAATAATATACCCACAACAATGTT
*
1149649 CAAATAATGTACCCACAACAATGTT
1 CAAATAATATACCCACAACAATGTT
1149674 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.26
Consensus pattern (25 bp):
CAAATAATATACCCACAACAATGTT
Found at i:1152457 original size:24 final size:24
Alignment explanation
Indices: 1152430--1152476 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1152420 TAAAATCTGA
1152430 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
1152454 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
1152477 AATACTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:1152485 original size:24 final size:24
Alignment explanation
Indices: 1152434--1152485 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
1152424 ATCTGAGTAT
** *
1152434 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
1152458 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
1152482 TGAC
1 TGAC
1152486 TAGTACTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:1153442 original size:20 final size:19
Alignment explanation
Indices: 1153398--1153485 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 19
1153388 CAAAACATTT
*
1153398 GTGTTGCGAAAATAAAA-C
1 GTGTTGCGAAATTAAAATC
*
1153416 CTGTTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAA-TC
1153436 GTGTTGCG-AATTCGAAAATC
1 GTGTTGCGAAATT--AAAATC
*
1153456 GAGTTGCG-AATTCAGAAATC
1 GTGTTGCGAAATT-A-AAATC
*
1153476 GAGTTGCGAA
1 GTGTTGCGAA
1153486 TTTGAAATTC
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
18 15 0.25
19 5 0.08
20 34 0.58
21 5 0.08
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (19 bp):
GTGTTGCGAAATTAAAATC
Found at i:1153486 original size:20 final size:20
Alignment explanation
Indices: 1153438--1153492 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
1153428 TAAAATTCGT
1153438 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTCGAAAATCGA
1153458 GTTGCGAATTC-AGAAATCGA
1 GTTGCGAATTCGA-AAATCGA
*
1153478 GTTGCGAATTTGAAA
1 GTTGCGAATTCGAAA
1153493 TTCAGTGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (20 bp):
GTTGCGAATTCGAAAATCGA
Found at i:1153516 original size:61 final size:60
Alignment explanation
Indices: 1153418--1153551 Score: 148
Period size: 61 Copynumber: 2.2 Consensus size: 60
1153408 AATAAAACCT
* * * *
1153418 GTTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCG-AGTTGCGAATTCAG-AAATCGA-
1 GTTGCGAATTTGAAATTCGTGTTACGAATTCGAAAATCGCAG-CGCGAATT-AGTAAATC-AC
* * *
1153478 GTTGCGAATTTGAAATTCAGTGTTACGAATTTGTAAATCGCAGCGCGAATTTGTAAATCAC
1 GTTGCGAATTTGAAATTC-GTGTTACGAATTCGAAAATCGCAGCGCGAATTAGTAAATCAC
1153539 GTTGCGAATTTGA
1 GTTGCGAATTTGA
1153552 CTTATGTGTT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
60 18 0.29
61 43 0.68
62 2 0.03
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.31
Consensus pattern (60 bp):
GTTGCGAATTTGAAATTCGTGTTACGAATTCGAAAATCGCAGCGCGAATTAGTAAATCAC
Found at i:1153545 original size:20 final size:18
Alignment explanation
Indices: 1153438--1153551 Score: 77
Period size: 20 Copynumber: 5.7 Consensus size: 18
1153428 TAAAATTCGT
*
1153438 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTTG-AAATC-A
*
1153458 GTTGCGAATTCAGAAATCGA
1 GTTGCGAATT-TGAAATC-A
1153478 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAA-TCA
*
1153497 GTGTTACGAATTTGTAAATCGCA
1 --GTTGCGAATTTG-AAAT--CA
*
1153520 G-CGCGAATTTGTAAATCA
1 GTTGCGAATTTG-AAATCA
1153538 CGTTGCGAATTTGA
1 -GTTGCGAATTTGA
1153552 CTTATGTGTT
Statistics
Matches: 79, Mismatches: 6, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
18 2 0.03
19 7 0.09
20 51 0.65
21 14 0.18
22 3 0.04
23 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.31
Consensus pattern (18 bp):
GTTGCGAATTTGAAATCA
Found at i:1159656 original size:3 final size:3
Alignment explanation
Indices: 1159648--1159742 Score: 172
Period size: 3 Copynumber: 31.7 Consensus size: 3
1159638 TTTTTATCCA
*
1159648 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1159696 TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1159743 AATATATATT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1159754 original size:11 final size:11
Alignment explanation
Indices: 1159738--1159769 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
1159728 TTATTATTAT
1159738 TATTAAATATA
1 TATTAAATATA
1159749 TATTAAATATA
1 TATTAAATATA
1159760 TATATAAATA
1 TAT-TAAATA
1159770 ATTAATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTAAATATA
Found at i:1160009 original size:14 final size:14
Alignment explanation
Indices: 1159990--1160026 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
1159980 GACACGCGGC
1159990 CGCCGCTGCTATCT
1 CGCCGCTGCTATCT
1160004 CGCCGCTGCTATCT
1 CGCCGCTGCTATCT
1160018 CGCCGCTGC
1 CGCCGCTGC
1160027 CACGTCCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.05, C:0.46, G:0.24, T:0.24
Consensus pattern (14 bp):
CGCCGCTGCTATCT
Found at i:1160258 original size:15 final size:15
Alignment explanation
Indices: 1160238--1160267 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1160228 ACACAGAGAG
1160238 ACAGAGAAAAAAAAA
1 ACAGAGAAAAAAAAA
1160253 ACAGAGAAAAAAAAA
1 ACAGAGAAAAAAAAA
1160268 GATATACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (15 bp):
ACAGAGAAAAAAAAA
Found at i:1161914 original size:18 final size:17
Alignment explanation
Indices: 1161891--1161941 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
1161881 TTCTTTTCAA
1161891 ATTTTTTATTTATTTAT
1 ATTTTTTATTTATTTAT
*
1161908 -TATTTTTATAATATTTAT
1 AT-TTTTTAT-TTATTTAT
*
1161926 ATGTTTTATTTTATTT
1 ATTTTTTA-TTTATTT
1161942 GCAAGTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 17 0.63
19 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
ATTTTTTATTTATTTAT
Found at i:1171731 original size:16 final size:16
Alignment explanation
Indices: 1171705--1171749 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
1171695 TTTGAATACA
*
1171705 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
1171722 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
1171737 ATTCAATTTATTT
1 ATTCAATTTATTT
1171750 TTGGAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:1172926 original size:248 final size:248
Alignment explanation
Indices: 1172488--1173291 Score: 1306
Period size: 248 Copynumber: 3.2 Consensus size: 248
1172478 CATTAACTGA
*
1172488 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
* *
1172553 ACCAATCATTGAATTTACAGGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
66 ACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
*
1172618 CTGACCTGGTTGGACAGAACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGA
131 CTGATCTGGTTGGACAGAACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGA
* *
1172683 AGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAATCAATAATTGAATTTAG
196 AGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATTTAG
* * *
1172736 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGACCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
** * * *
1172801 ACCAATCATTGAATTGGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
66 ACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1172866 CTGATCTGGTTGGACAGAACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGA
131 CTGATCTGGTTGGACAGAACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGA
1172931 AGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATTTAG
196 AGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATTTAG
* * * *
1172984 AGGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAG-CAG
1173048 AACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
65 AACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
* * ** * * *
1173113 TCTGATCTGGTT-TAGCATAACCAATCATTGAATTGGGAAGATGAATATGCTCATAGCATCTTCT
130 TCTGATCTGGTTGGA-CAGAA-CAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCT
* *
1173177 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTGG
193 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATTTAG
* *
1173233 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1173292 GGTAAGAACT
Statistics
Matches: 515, Mismatches: 37, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
247 4 0.01
248 363 0.70
249 146 0.28
250 2 0.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (248 bp):
AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
ACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
CTGATCTGGTTGGACAGAACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGA
AGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATTTAG
Found at i:1173293 original size:83 final size:83
Alignment explanation
Indices: 1172488--1173291 Score: 1258
Period size: 83 Copynumber: 9.7 Consensus size: 83
1172478 CATTAACTGA
*
1172488 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
*
1172553 ACCAATCATTGAATTTAC
66 ACCAATCATTGAATTTAG
* * * *
1172571 AGGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGG-TTGGACAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAG-CAG
1172635 AA-CAATCATTGAATTTAG
65 AACCAATCATTGAATTTAG
*
1172653 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
* *
1172718 ATCAATAATTGAATTTAG
66 ACCAATCATTGAATTTAG
* * *
1172736 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGACCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
**
1172801 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATTTAG
* * *
1172819 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAG-CAG
1172883 AA-CAATCATTGAATTTAG
65 AACCAATCATTGAATTTAG
*
1172901 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
1172966 ACCAATCATTGAATTTAG
66 ACCAATCATTGAATTTAG
* * * *
1172984 AGGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAG-CAG
1173048 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTTAG
* *
1173067 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCATA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
**
1173132 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATTTAG
* * *
1173150 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
*
1173215 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTAG
* *
1173233 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1173292 GGTAAGAACT
Statistics
Matches: 665, Mismatches: 48, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
82 155 0.23
83 507 0.76
84 3 0.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (83 bp):
AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
ACCAATCATTGAATTTAG
Found at i:1174565 original size:230 final size:229
Alignment explanation
Indices: 1173968--1174801 Score: 1220
Period size: 227 Copynumber: 3.6 Consensus size: 229
1173958 ATAGATTAGC
* *
1173968 TTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAG
1 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
*
1174033 AAGAATTTGTTCAACCTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTT
66 AAGAACTTGTTCAACCTTTT-GTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTT
1174098 CATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
130 CATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
1174163 ACCTTTTATCTGAATTCATCACTGGATGGATTATT
195 ACCTTTTATCTGAATTCATCACTGGATGGATTATT
*
1174198 TTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-A--AAGAAGAAGTTCATAATGAG
1 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
1174260 AAGAACTTGTTCAACCTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTT
66 AAGAACTTGTTCAACCTTTT-GTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTT
1174325 CATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
130 CATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
1174390 ACCTTTTATCTGAATTCATCACTGGATGGATTATT
195 ACCTTTTATCTGAATTCATCACTGGATGGATTATT
*
1174425 TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
1 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
* * * * * *
1174490 AAGAATTTGTTCAACCTTTT-TTCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAG-G
66 AAGAACTTGTTCAACCTTTTGTT-TGAATTCATC-ATTTGATGGATCAACATTGCCAG-GAAGAG
*
1174553 TTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
128 TTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * * * * **
1174615 CAATCTTTT-GCTTGAATTCATCATTTGATGGATCAAC
193 CAACCTTTTATC-TGAATTCATCACTGGATGGATTATT
* * * *
1174652 ATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCACCTGAAGAAGGAAGAAGAAGTTCATAA
1 TTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAA
* * * ** * *
1174716 TGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGATCATCATCCCCAGCAAAA
62 TGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAG-GAAG
*
1174781 AGTTCATAATAAGAAGAACTC
126 AGTTCATAATGAGAAGAACTC
1174802 ATCTGGAGAG
Statistics
Matches: 552, Mismatches: 37, Indels: 28
0.89 0.06 0.05
Matches are distributed among these distances:
226 2 0.00
227 318 0.58
228 4 0.01
229 32 0.06
230 190 0.34
231 5 0.01
232 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (229 bp):
TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTTC
ATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
CCTTTTATCTGAATTCATCACTGGATGGATTATT
Found at i:1174668 original size:343 final size:339
Alignment explanation
Indices: 1173980--1174820 Score: 1260
Period size: 343 Copynumber: 2.5 Consensus size: 339
1173970 TTCCAGAAAA
*
1173980 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTG
1 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
* * *
1174042 TTCAACCTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAG-GAAGAGTTCATAATGA
66 TTCAACCTTTT--TCTGAATTCATCATTTGATGGATCATCATTCCCAGAGAAG-GTTCATAATGA
1174106 GAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTA
128 GAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTA
* * *
1174171 TCTGAATTCATCACTGGATGGATTATTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
190 TCTGAATTCATCAATGGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
*
1174236 AAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGTTTGAATTCATCATTTGAT
255 AAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGCTTGAATTCATCATTTGAT
1174301 GGATCAACATTGCCAGGAAG
320 GGATCAACATTGCCAGGAAG
1174321 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
* * * ** *
1174386 TTCAACCTTTTATCTGAATTCATCACTGGATGGATTATTTTTTCCAGAGAAGGTTCATAATGAGA
66 TTCAACCTTTT-TCTGAATTCATCATTTGATGGATCATCATTCCCAGAGAAGGTTCATAATGAGA
*
1174451 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTTCTGA
130 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGA
* *
1174516 ATTCATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
195 ATTCATC-AATGGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-
*
1174581 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTT-GCTTGAATTCATCATTTGATG
258 A--AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGCTTGAATTCATCATTTGATG
*
1174645 GATCAACATTGCCAGGTAG
321 GATCAACATTGCCAGGAAG
* *
1174664 AGTTCATAATGAGAAGAACTCGTCACCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
1 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
* * * * * *
1174729 TTCAATCTTTTGCTTGAATTCATCATTTGATGGATCATCATCCCCAGCAAAAAGTTCATAATAAG
66 TTCAACCTTTTTC-TGAATTCATCATTTGATGGATCATCATTCCCAG-AGAAGGTTCATAATGAG
*
1174794 AAGAACTCATCTGGAGAGAGAGAAGAA
129 AAGAACTCATCTGAAGA-AG-GAAGAA
1174821 TTTATTCAAT
Statistics
Matches: 454, Mismatches: 34, Indels: 19
0.90 0.07 0.04
Matches are distributed among these distances:
340 66 0.15
341 70 0.15
342 2 0.00
343 182 0.40
344 126 0.28
345 2 0.00
346 6 0.01
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (339 bp):
AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
TTCAACCTTTTTCTGAATTCATCATTTGATGGATCATCATTCCCAGAGAAGGTTCATAATGAGAA
GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAA
TTCATCAATGGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGCTTGAATTCATCATTTGATGGATCA
ACATTGCCAGGAAG
Found at i:1174965 original size:3 final size:3
Alignment explanation
Indices: 1174957--1175033 Score: 145
Period size: 3 Copynumber: 25.7 Consensus size: 3
1174947 TTTTTATCCA
1174957 TAT TAT TAT 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 TAT TAT TAT
*
1175005 TAT TAT CAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1175034 AATATATATT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1175045 original size:11 final size:11
Alignment explanation
Indices: 1175029--1175060 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
1175019 TTATTATTAT
1175029 TATTAAATATA
1 TATTAAATATA
1175040 TATTAAATATA
1 TATTAAATATA
1175051 TATATAAATA
1 TAT-TAAATA
1175061 ATTAATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTAAATATA
Found at i:1183366 original size:15 final size:15
Alignment explanation
Indices: 1183346--1183380 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
1183336 AATGGAGGCT
1183346 TTCATTCTTGGAGTG
1 TTCATTCTTGGAGTG
1183361 TTCATTCTTGGAGTG
1 TTCATTCTTGGAGTG
1183376 TTCAT
1 TTCAT
1183381 AGTTGATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.49
Consensus pattern (15 bp):
TTCATTCTTGGAGTG
Found at i:1206032 original size:2 final size:2
Alignment explanation
Indices: 1206025--1206057 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1206015 ACATTGCCAC
1206025 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1206058 TTGCTCTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1212317 original size:96 final size:96
Alignment explanation
Indices: 1212151--1212337 Score: 268
Period size: 96 Copynumber: 1.9 Consensus size: 96
1212141 ACAAGATTAT
* * * *
1212151 TCAAGCCAGGAGATGAAACTCTTCCTAATTCAGACCTAAACTGTCTTTCTTCAGCACCCAGTGAA
1 TCAAGCCAGGAGATGAAACCCTTCCTAATTCAGACCTAAACAGTCTTTCTTCAGCACCAAGCGAA
**
1212216 GGAAAATCACGTTCAAAAGCAGATTTGTTAA
66 GGAAAATCACACTCAAAAGCAGATTTGTTAA
* *
1212247 TCAAGCCAGGAGATGAAACCCTTCCTATTTCAGACCCT-ACCAGTCTTTCTTCAGCACCAAGCGA
1 TCAAGCCAGGAGATGAAACCCTTCCTAATTCAGA-CCTAAACAGTCTTTCTTCAGCACCAAGCGA
* *
1212311 ATGAAAATCACACTCAAATGCAGATTT
65 AGGAAAATCACACTCAAAAGCAGATTT
1212338 ATCACGGAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 77 0.96
97 3 0.04
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.25
Consensus pattern (96 bp):
TCAAGCCAGGAGATGAAACCCTTCCTAATTCAGACCTAAACAGTCTTTCTTCAGCACCAAGCGAA
GGAAAATCACACTCAAAAGCAGATTTGTTAA
Found at i:1216194 original size:19 final size:19
Alignment explanation
Indices: 1216170--1216219 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1216160 AGGAGCCGTT
1216170 TGAGCCGAGCCGCTTGAGC
1 TGAGCCGAGCCGCTTGAGC
*
1216189 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGCTTGAGC
*
1216208 TGAGCCAAGCCG
1 TGAGCCGAGCCG
1216220 AGCCGCCTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.18, C:0.30, G:0.36, T:0.16
Consensus pattern (19 bp):
TGAGCCGAGCCGCTTGAGC
Found at i:1216213 original size:14 final size:14
Alignment explanation
Indices: 1216162--1216195 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1216152 GAAGCCTGAG
*
1216162 GAGCCGTTTGAGCC
1 GAGCCGCTTGAGCC
*
1216176 GAGCCGCTTGAGCT
1 GAGCCGCTTGAGCC
1216190 GAGCCG
1 GAGCCG
1216196 AGCCGTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.29, G:0.38, T:0.18
Consensus pattern (14 bp):
GAGCCGCTTGAGCC
Found at i:1221177 original size:19 final size:19
Alignment explanation
Indices: 1221153--1221202 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1221143 AGGAGCCGTT
1221153 TGAGCCGAGCCGCTTGAGC
1 TGAGCCGAGCCGCTTGAGC
*
1221172 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGCTTGAGC
*
1221191 TGAGCCAAGCCG
1 TGAGCCGAGCCG
1221203 AGCCGCCTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.18, C:0.30, G:0.36, T:0.16
Consensus pattern (19 bp):
TGAGCCGAGCCGCTTGAGC
Found at i:1221196 original size:14 final size:14
Alignment explanation
Indices: 1221145--1221178 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1221135 GAAGCCTGAG
*
1221145 GAGCCGTTTGAGCC
1 GAGCCGCTTGAGCC
*
1221159 GAGCCGCTTGAGCT
1 GAGCCGCTTGAGCC
1221173 GAGCCG
1 GAGCCG
1221179 AGCCGTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.29, G:0.38, T:0.18
Consensus pattern (14 bp):
GAGCCGCTTGAGCC
Found at i:1222382 original size:18 final size:18
Alignment explanation
Indices: 1222356--1222390 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1222346 TCGAAAGGAC
*
1222356 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1222374 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
1222391 CCGGATGGAA
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:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1233727 original size:13 final size:13
Alignment explanation
Indices: 1233709--1233733 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1233699 TTCTCCAGAA
1233709 CTTCTTCTTCCTT
1 CTTCTTCTTCCTT
1233722 CTTCTTCTTCCT
1 CTTCTTCTTCCT
1233734 CTCCTCCCGT
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:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (13 bp):
CTTCTTCTTCCTT
Found at i:1235085 original size:18 final size:18
Alignment explanation
Indices: 1235057--1235129 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
1235047 AGGGATTATC
1235057 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* * *
1235075 ATTGGTTCTTCGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
1235094 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
1235113 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
1235130 AATATTCAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 30 0.64
19 4 0.09
20 13 0.28
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1235105 original size:38 final size:38
Alignment explanation
Indices: 1235054--1235130 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
1235044 TCGAGGGATT
* *
1235054 ATCAGTGGTCCTTCGGGACATATTGGTTCTTCGGAACA
1 ATCAGTGGTCCTTCGGGACATAGTGGTCCTTCGGAACA
*
1235092 ATCAGTGGTCCTTCGGGACATAGTGGTCCTTCGGGACA
1 ATCAGTGGTCCTTCGGGACATAGTGGTCCTTCGGAACA
1235130 A
1 A
1235131 ATATTCAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (38 bp):
ATCAGTGGTCCTTCGGGACATAGTGGTCCTTCGGAACA
Found at i:1239549 original size:20 final size:20
Alignment explanation
Indices: 1239523--1239618 Score: 110
Period size: 20 Copynumber: 5.0 Consensus size: 20
1239513 GAGGGATTAT
1239523 CAGTGGTCCTTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
*
1239543 CAATGGTCCTTCGGGAC--A
1 CAGTGGTCCTTCGGGACAAA
* * * *
1239561 TAGTGGTTCTTCGGAACAAT
1 CAGTGGTCCTTCGGGACAAA
1239581 CAGTGGTCCTTCGGGAC--A
1 CAGTGGTCCTTCGGGACAAA
*
1239599 TAGTGGTCCTTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
1239619 TATTTAGTGC
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
18 30 0.49
20 31 0.51
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (20 bp):
CAGTGGTCCTTCGGGACAAA
Found at i:1239572 original size:18 final size:18
Alignment explanation
Indices: 1239524--1239616 Score: 114
Period size: 18 Copynumber: 4.9 Consensus size: 18
1239514 AGGGATTATC
*
1239524 AGTGGTCCTTCGGGACAAAC
1 AGTGGTCCTTCGGGAC--AT
*
1239544 AATGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
1239562 AGTGGTTCTTCGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
1239581 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
1239600 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
1239617 AATATTTAGT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
18 31 0.48
19 4 0.06
20 29 0.45
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1239588 original size:38 final size:38
Alignment explanation
Indices: 1239524--1239618 Score: 154
Period size: 38 Copynumber: 2.5 Consensus size: 38
1239514 AGGGATTATC
1239524 AGTGGTCCTTCGGGACAAACAATGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAAACAATGGTCCTTCGGGACAT
* * * *
1239562 AGTGGTTCTTCGGAACAATCAGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAAACAATGGTCCTTCGGGACAT
1239600 AGTGGTCCTTCGGGACAAA
1 AGTGGTCCTTCGGGACAAA
1239619 TATTTAGTGC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
AGTGGTCCTTCGGGACAAACAATGGTCCTTCGGGACAT
Found at i:1241090 original size:21 final size:23
Alignment explanation
Indices: 1241056--1241097 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1241046 TGATTATAAA
*
1241056 CTTTCATT-ATTAAATTTTTACT
1 CTTTCATTAATAAAATTTTTACT
1241078 CTTT-ATTAATAAAATTTTTA
1 CTTTCATTAATAAAATTTTTA
1241098 TATTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (23 bp):
CTTTCATTAATAAAATTTTTACT
Found at i:1243065 original size:15 final size:15
Alignment explanation
Indices: 1243045--1243119 Score: 87
Period size: 15 Copynumber: 4.9 Consensus size: 15
1243035 AAAAACCGGG
1243045 TATCGGGTACCCGAT
1 TATCGGGTACCCGAT
1243060 TATCGGGTACCCGAT
1 TATCGGGTACCCGAT
* *
1243075 TACCGGGTACCCGCAA
1 TATCGGGTACCCG-AT
* *
1243091 AATCCGGATACCCGAT
1 TAT-CGGGTACCCGAT
*
1243107 TACCGGGTACCCG
1 TATCGGGTACCCG
1243120 TAACATCCGG
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
15 36 0.73
16 4 0.08
17 9 0.18
ACGTcount: A:0.23, C:0.32, G:0.25, T:0.20
Consensus pattern (15 bp):
TATCGGGTACCCGAT
Found at i:1243108 original size:32 final size:32
Alignment explanation
Indices: 1243067--1243131 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
1243057 GATTATCGGG
1243067 TACCCGATTACCGGGTACCCGCAAAATCCGGA
1 TACCCGATTACCGGGTACCCGCAAAATCCGGA
* *
1243099 TACCCGATTACCGGGTACCCGTAACATCCGGA
1 TACCCGATTACCGGGTACCCGCAAAATCCGGA
1243131 T
1 T
1243132 CGGGACACGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.26, C:0.34, G:0.22, T:0.18
Consensus pattern (32 bp):
TACCCGATTACCGGGTACCCGCAAAATCCGGA
Found at i:1247352 original size:2 final size:2
Alignment explanation
Indices: 1247345--1247376 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1247335 CATTTAGCCA
1247345 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1247377 TAAGCTGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1247598 original size:17 final size:17
Alignment explanation
Indices: 1247565--1247609 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1247555 CAAACAAATT
*
1247565 CAAATTCAATCAATCCA
1 CAAATTCAAACAATCCA
*
1247582 CAAATTCAAACATTCCA
1 CAAATTCAAACAATCCA
*
1247599 AAATATTCAAA
1 CAA-ATTCAAA
1247610 ATGTTAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (17 bp):
CAAATTCAAACAATCCA
Found at i:1247923 original size:18 final size:18
Alignment explanation
Indices: 1247900--1247955 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
1247890 AGGCATTTGA
1247900 TCCTCTGGCTGTTCTTGT
1 TCCTCTGGCTGTTCTTGT
*
1247918 TCCTCT-GCTTGTGCTTGT
1 TCCTCTGGC-TGTTCTTGT
*
1247936 TCCTC-GTGCTGTTCTGGT
1 TCCTCTG-GCTGTTCTTGT
1247954 TC
1 TC
1247956 ATCGTCAGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 2 0.06
18 28 0.88
19 2 0.06
ACGTcount: A:0.00, C:0.29, G:0.23, T:0.48
Consensus pattern (18 bp):
TCCTCTGGCTGTTCTTGT
Found at i:1247960 original size:18 final size:18
Alignment explanation
Indices: 1247907--1247960 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
1247897 TGATCCTCTG
1247907 GCTGTTCTTGTTCCTC-T
1 GCTGTTCTTGTTCCTCGT
*
1247924 GCTTGTGCTTGTTCCTCGT
1 GC-TGTTCTTGTTCCTCGT
* *
1247943 GCTGTTCTGGTTCATCGT
1 GCTGTTCTTGTTCCTCGT
1247961 CAGAGTCGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 2 0.06
18 26 0.84
19 3 0.10
ACGTcount: A:0.02, C:0.26, G:0.24, T:0.48
Consensus pattern (18 bp):
GCTGTTCTTGTTCCTCGT
Found at i:1249590 original size:22 final size:23
Alignment explanation
Indices: 1249544--1249593 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
1249534 TTCCCCTGTG
1249544 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTCAAA
1249567 GGGGGAATCGGTTCCCCTTC-AA
1 GGGGGAATCGGTTCCCCTTCAAA
1249589 GGGGG
1 GGGGG
1249594 TATCAATTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.18, C:0.24, G:0.38, T:0.20
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTCAAA
Found at i:1249603 original size:22 final size:23
Alignment explanation
Indices: 1249544--1249604 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
1249534 TTCCCCTGTG
**
1249544 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCAATTCCCCTTCAAA
**
1249567 GGGGGAATCGGTTCCCCTTC-AA
1 GGGGGAATCAATTCCCCTTCAAA
*
1249589 GGGGGTATCAATTCCC
1 GGGGGAATCAATTCCC
1249605 TCTGCCCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (23 bp):
GGGGGAATCAATTCCCCTTCAAA
Found at i:1255543 original size:11 final size:11
Alignment explanation
Indices: 1255525--1255554 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1255515 AAATACTTTG
1255525 TAAAATTATTT
1 TAAAATTATTT
*
1255536 TGAAATTATTT
1 TAAAATTATTT
1255547 TAAAATTA
1 TAAAATTA
1255555 AAACTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:1256814 original size:6 final size:6
Alignment explanation
Indices: 1256806--1256851 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
1256796 AGGCTTGTAA
* *
1256806 TAATAA TAACAT TAATA- TAATAT TAATAT TAATAT TAATAT TAATA
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATA
1256852 ATGAGAACTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
5 5 0.14
6 31 0.86
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (6 bp):
TAATAT
Found at i:1256827 original size:17 final size:17
Alignment explanation
Indices: 1256805--1256845 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1256795 TAGGCTTGTA
1256805 ATAATAATAACATTAAT
1 ATAATAATAACATTAAT
* *
1256822 ATAATATTAATATTAAT
1 ATAATAATAACATTAAT
1256839 ATTAATA
1 A-TAATA
1256846 TTAATAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATAATAACATTAAT
Found at i:1257888 original size:22 final size:21
Alignment explanation
Indices: 1257842--1257890 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
1257832 TATCCTAACG
1257842 TTTTTGGACGTCCTGAATCCA
1 TTTTTGGACGTCCTGAATCCA
* *
1257863 TTTTTGGATGTCCTGAATCCG
1 TTTTTGGACGTCCTGAATCCA
1257884 TTTTTGG
1 TTTTTGG
1257891 GGTCTATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.45
Consensus pattern (21 bp):
TTTTTGGACGTCCTGAATCCA
Found at i:1259942 original size:24 final size:24
Alignment explanation
Indices: 1259910--1260009 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
1259900 ATGTTTTACC
* *
1259910 TGATTTCTGACCTGGATTCTGATA
1 TGATATCTGACCTGGATTCTGTTA
*
1259934 TGATATCTGACCTGGATTCTGTTT
1 TGATATCTGACCTGGATTCTGTTA
* * *
1259958 TAATA-CTTGACCTGAATTCTGTTC
1 TGATATC-TGACCTGGATTCTGTTA
* * * *
1259982 TGATATCTGAACTGAATTATGTTT
1 TGATATCTGACCTGGATTCTGTTA
1260006 TGAT
1 TGAT
1260010 TTTTGATATA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
23 1 0.02
24 62 0.97
25 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (24 bp):
TGATATCTGACCTGGATTCTGTTA
Found at i:1260147 original size:31 final size:32
Alignment explanation
Indices: 1260080--1260147 Score: 93
Period size: 35 Copynumber: 2.1 Consensus size: 32
1260070 TATACCTGGA
1260080 GGCTCCTCGGCTTTGTGCTCAGGGCATTACTTACT
1 GGCTCCTCGGCTTTGTGCTCAGGGC---ACTTACT
*
1260115 GGCTTCTCGGCTTTGTGCTCAGGGC-CTTACT
1 GGCTCCTCGGCTTTGTGCTCAGGGCACTTACT
1260146 GG
1 GG
1260148 ACTTGACGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 8 0.25
35 24 0.75
ACGTcount: A:0.09, C:0.28, G:0.29, T:0.34
Consensus pattern (32 bp):
GGCTCCTCGGCTTTGTGCTCAGGGCACTTACT
Found at i:1261551 original size:36 final size:36
Alignment explanation
Indices: 1261504--1261576 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
1261494 TTTTTATAAG
*
1261504 AAAGTAATCAAAGTATCGTGCAGTTAAATCCCAGCA
1 AAAGTAATCAAAGTATCGTGCAGGTAAATCCCAGCA
1261540 AAAGTAATCAAAGTATCGTGCAGGTAAATCCCAGCA
1 AAAGTAATCAAAGTATCGTGCAGGTAAATCCCAGCA
1261576 A
1 A
1261577 TGGCAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (36 bp):
AAAGTAATCAAAGTATCGTGCAGGTAAATCCCAGCA
Found at i:1269281 original size:21 final size:21
Alignment explanation
Indices: 1269255--1269299 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
1269245 CAGTAGCTTG
1269255 CCCTCTAGAAGGCCTAGAACT
1 CCCTCTAGAAGGCCTAGAACT
1269276 CCCTCTAGAAGGCCTAGAACT
1 CCCTCTAGAAGGCCTAGAACT
1269297 CCC
1 CCC
1269300 CCCTTAGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.38, G:0.18, T:0.18
Consensus pattern (21 bp):
CCCTCTAGAAGGCCTAGAACT
Found at i:1272764 original size:52 final size:54
Alignment explanation
Indices: 1272685--1272793 Score: 168
Period size: 52 Copynumber: 2.1 Consensus size: 54
1272675 ATTATAATAT
* *
1272685 CCTTGTGATTAGTTGTAATCCCCTAACTCTATGCTAGTCTCTTA-TT-TATGTG
1 CCTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCTTATTTCTATGTG
* *
1272737 CCTTGTAATTAGTTGTAATCCCTTAACTCTAGGCTAGTTTCTTATTTCTATGTG
1 CCTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCTTATTTCTATGTG
1272791 CCT
1 CCT
1272794 CATCTTGTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 40 0.78
53 2 0.04
54 9 0.18
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (54 bp):
CCTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCTTATTTCTATGTG
Found at i:1280294 original size:34 final size:34
Alignment explanation
Indices: 1280192--1280299 Score: 110
Period size: 34 Copynumber: 3.1 Consensus size: 34
1280182 TGAAAATGTG
1280192 ATTATTTGATAATAATAAATTAGTTAATAAGATC
1 ATTATTTGATAATAATAAATTAGTTAATAAGATC
* * * ** ** *
1280226 ATTAATTGTATGCATATGTAAAGAAAAT-ATAAGATA
1 ATTATTTG-AT-AATA-ATAAATTAGTTAATAAGATC
1280262 ATTATTTGATAATAATAAATTAGTTAATAAGATC
1 ATTATTTGATAATAATAAATTAGTTAATAAGATC
1280296 ATTA
1 ATTA
1280300 GCAAATATAA
Statistics
Matches: 54, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
33 6 0.11
34 21 0.39
35 4 0.07
36 17 0.31
37 6 0.11
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (34 bp):
ATTATTTGATAATAATAAATTAGTTAATAAGATC
Found at i:1281106 original size:20 final size:20
Alignment explanation
Indices: 1281081--1281121 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1281071 AGAATAATTA
*
1281081 TGTCTTTGTGATATGTCCTC
1 TGTCTTTGTGACATGTCCTC
*
1281101 TGTCTTTGTGACATGTTCTC
1 TGTCTTTGTGACATGTCCTC
1281121 T
1 T
1281122 ACCTTTATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.20, G:0.20, T:0.51
Consensus pattern (20 bp):
TGTCTTTGTGACATGTCCTC
Found at i:1281127 original size:20 final size:20
Alignment explanation
Indices: 1281084--1281133 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1281074 ATAATTATGT
* **
1281084 CTTTGTGATATGTCCTCTGT
1 CTTTGTGACATGTCCTCTAC
*
1281104 CTTTGTGACATGTTCTCTAC
1 CTTTGTGACATGTCCTCTAC
*
1281124 CTTTATGACA
1 CTTTGTGACA
1281134 CGTTTATCTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (20 bp):
CTTTGTGACATGTCCTCTAC
Found at i:1281640 original size:2 final size:2
Alignment explanation
Indices: 1281633--1281677 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1281623 GTTTCTGTCA
1281633 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1281675 AT A
1 AT A
1281678 ATGAGATAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1281744 original size:14 final size:14
Alignment explanation
Indices: 1281727--1281753 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1281717 ATTAATAGCG
1281727 ATTTGAGAATAGAC
1 ATTTGAGAATAGAC
1281741 ATTTGAGAATAGA
1 ATTTGAGAATAGA
1281754 ACGGTAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (14 bp):
ATTTGAGAATAGAC
Found at i:1284018 original size:22 final size:24
Alignment explanation
Indices: 1283993--1284037 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
1283983 AAATACATGT
1283993 TTAAAAGAT-TATAT-T-TAAATAC
1 TTAAAA-ATATATATGTCTAAATAC
1284015 TTAAAAATATATATGTCTAAATA
1 TTAAAAATATATATGTCTAAATA
1284038 ATGTAAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.10
22 11 0.55
23 1 0.05
24 6 0.30
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (24 bp):
TTAAAAATATATATGTCTAAATAC
Found at i:1286965 original size:390 final size:390
Alignment explanation
Indices: 1286261--1287015 Score: 1179
Period size: 390 Copynumber: 1.9 Consensus size: 390
1286251 AGTCTGAGTT
* * *
1286261 ATATAGCATCGAAAACTCACTCGGCTAGTCTACTCCTATAGAGTACTCGGGATATAGTCGGGTTA
1 ATATAGCATCGAAAACTCACTCGGCTAGTCTACTCCTATAGAGTACTCGGGATATAGACAGGTCA
* ** * * * * *
1286326 TTTAGTATCGGCACCTCGTCCAACTAACATTCATAGTGCTCAAGCACTTACTTGGATTTATCCGA
66 CTTAACATCGGCACATCATCCAACTAACATTCATAGTGCTCAAACACTGACTTGGATATATCCGA
* * * *
1286391 GTAATCTCTTACTCAACTAGACCAACATCGTACACAAGTAACTCGGGTGTCCTCAACGTTTTCCC
131 ATAATCTCTTACTCAACTAGACCAACATCATACACAAGTAACTCGGGTGTCCTCAACATTTCCCC
* * *
1286456 GGACGAGCATTAAGCAAGGCATAAGTCTTATGTAATCTTATCTCATAAAGATCTTATGTTATCAC
196 GGACGAGCATCAAGCAAGGCATAAGTCTTATGGAATCTTACCTCATAAAGATCTTATGTTATCAC
* * **
1286521 ACAATTATTAAGGGTTTCACTTGAAATCAATTTAGAACGTTTCTCTCATCAAAACCCTTGGTTTC
261 ACAATTATTAAGGGTTTCACTTGAAATCAAGTTAGAACGTCTCTCTCATCAAAACCCTTAATTTC
* * *
1286586 GTCATTCTATTCTAAGCTAGGTTTATAGCCTAAAATTCTACTATAACACAAGCTGAGTTCGGGTC
326 GTCATTATATTCCAAGCTAGGCTTATAGCCTAAAATTCTACTATAACACAAGCTGAGTTCGGGTC
*
1286651 ATATAGCATCGAAAACTCACTCGGCTAGTCTACTCCTCTAGAGTACTCGGGATATAGACAGGTCA
1 ATATAGCATCGAAAACTCACTCGGCTAGTCTACTCCTATAGAGTACTCGGGATATAGACAGGTCA
* * *
1286716 CTTAACATCGGTACATCATCCAACTAGCATTCATAGTGCTCAAACACTGACTTGGATATATCTGA
66 CTTAACATCGGCACATCATCCAACTAACATTCATAGTGCTCAAACACTGACTTGGATATATCCGA
* *
1286781 ATAATCTCTTACTCAACTAGACCAACGTCATACACAAGTAACTCGGGTGTCCTTAACATTTCCCC
131 ATAATCTCTTACTCAACTAGACCAACATCATACACAAGTAACTCGGGTGTCCTCAACATTTCCCC
*
1286846 -GAGCGAGCATCAAGTAAGGCATAAGTCTTATGGAATCTTACCTCATAAAGATCTTATGTTATCA
196 GGA-CGAGCATCAAGCAAGGCATAAGTCTTATGGAATCTTACCTCATAAAGATCTTATGTTATCA
* * *
1286910 CACAATTATTAAGGTTTTCACTTGAAATCAAGTTAGAATGTCTCTCTTATCAAAACCCTTAATTT
260 CACAATTATTAAGGGTTTCACTTGAAATCAAGTTAGAACGTCTCTCTCATCAAAACCCTTAATTT
1286975 CGTCATTATATTCCAAGCTAGGCTTATAGCCTAAAATTCTA
325 CGTCATTATATTCCAAGCTAGGCTTATAGCCTAAAATTCTA
1287016 TGAGGGTATC
Statistics
Matches: 329, Mismatches: 35, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
389 2 0.01
390 327 0.99
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (390 bp):
ATATAGCATCGAAAACTCACTCGGCTAGTCTACTCCTATAGAGTACTCGGGATATAGACAGGTCA
CTTAACATCGGCACATCATCCAACTAACATTCATAGTGCTCAAACACTGACTTGGATATATCCGA
ATAATCTCTTACTCAACTAGACCAACATCATACACAAGTAACTCGGGTGTCCTCAACATTTCCCC
GGACGAGCATCAAGCAAGGCATAAGTCTTATGGAATCTTACCTCATAAAGATCTTATGTTATCAC
ACAATTATTAAGGGTTTCACTTGAAATCAAGTTAGAACGTCTCTCTCATCAAAACCCTTAATTTC
GTCATTATATTCCAAGCTAGGCTTATAGCCTAAAATTCTACTATAACACAAGCTGAGTTCGGGTC
Found at i:1288350 original size:25 final size:25
Alignment explanation
Indices: 1288322--1288375 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
1288312 TCGATCTTCT
*
1288322 AGAAGTCAATTGAGGATTACGAGGA
1 AGAAGTCAATTGAGGATTACGAAGA
1288347 AGAAGTCAATTGAGGATTACGAAGA
1 AGAAGTCAATTGAGGATTACGAAGA
1288372 AGAA
1 AGAA
1288376 ACCAAAGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.44, C:0.07, G:0.30, T:0.19
Consensus pattern (25 bp):
AGAAGTCAATTGAGGATTACGAAGA
Found at i:1288499 original size:39 final size:39
Alignment explanation
Indices: 1288423--1288644 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 39
1288413 TTCCTAATGT
** * * * *
1288423 GTTTTGACAAGGCTAG-TAATGGGTTGTCATCCTAAGGA
1 GTTTTGACAAGATTAGATATTGAGTTGTCTTCCCAAGGA
* * *
1288461 ATTTTGACAAGATTAAATATTGGGTTGTCTTCCCAAGGA
1 GTTTTGACAAGATTAGATATTGAGTTGTCTTCCCAAGGA
* * * * *
1288500 GTTTTAACAAGACTAGATATTGAGTTGACTTCTCAAGAA
1 GTTTTGACAAGATTAGATATTGAGTTGTCTTCCCAAGGA
* * *
1288539 GTTTTGACAAGATTAGATATTAAGTTGACTTCTCAAGGA
1 GTTTTGACAAGATTAGATATTGAGTTGTCTTCCCAAGGA
* *
1288578 GTTTTGACAAGATTAGATATTGAGTTATCTTCCCATGGA
1 GTTTTGACAAGATTAGATATTGAGTTGTCTTCCCAAGGA
* *
1288617 GTTTTGACAAGATTATATATTGATTTGT
1 GTTTTGACAAGATTAGATATTGAGTTGT
1288645 AATGGTTTTT
Statistics
Matches: 156, Mismatches: 27, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
38 12 0.08
39 144 0.92
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (39 bp):
GTTTTGACAAGATTAGATATTGAGTTGTCTTCCCAAGGA
Found at i:1292418 original size:60 final size:60
Alignment explanation
Indices: 1292306--1292418 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
1292296 TAATGAATAA
* * *
1292306 TCATGTGAATATTTTATAACTTTTAATTATCAAATGACTTAATAAAATAATATTTTATAG
1 TCATATGAATATTTTATAACTTTTAATTATCAAATAACTTAATAAAACAATATTTTATAG
* *
1292366 TCATATGACTATTTTATAACTTTTAA-TAGTCAAATAACTTAATAAAGCAATAT
1 TCATATGAATATTTTATAACTTTTAATTA-TCAAATAACTTAATAAAACAATAT
1292419 CATAAAGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 2 0.04
60 45 0.96
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (60 bp):
TCATATGAATATTTTATAACTTTTAATTATCAAATAACTTAATAAAACAATATTTTATAG
Found at i:1297440 original size:27 final size:27
Alignment explanation
Indices: 1297405--1297466 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
1297395 TATTTATCTG
1297405 TTTTATCTTTTTATTATAT-TAATATTT
1 TTTTATCTTTTTATTATATAT-ATATTT
* *
1297432 TTTTTTCTTTTTTTTATATATATATTT
1 TTTTATCTTTTTATTATATATATATTT
*
1297459 TTTAATCT
1 TTTTATCT
1297467 AACAATATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTTATCTTTTTATTATATATATATTT
Found at i:1301241 original size:63 final size:63
Alignment explanation
Indices: 1301139--1301282 Score: 209
Period size: 63 Copynumber: 2.3 Consensus size: 63
1301129 CAACACAAGC
* * * * *
1301139 TCAACTTCATGACGAAGGGGCGGCTGATTGTCAACAAACAACTTCTCAATTTCAGAGCTAATT
1 TCAACTTCACGACGAAGGGACCGCTGATTGTCAACAAACAACTTCCCAATTTCAGAGCCAATT
* *
1301202 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATT
1 TCAACTTCACGACGAAGGGACCGCTGATTGTCAACAAACAACTTCCCAATTTCAGAGCCAATT
1301265 TCAACTTCAC-ATCGAAGG
1 TCAACTTCACGA-CGAAGG
1301283 ATATTGGACT
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
62 1 0.01
63 72 0.99
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (63 bp):
TCAACTTCACGACGAAGGGACCGCTGATTGTCAACAAACAACTTCCCAATTTCAGAGCCAATT
Found at i:1301385 original size:104 final size:105
Alignment explanation
Indices: 1301201--1301707 Score: 729
Period size: 104 Copynumber: 4.9 Consensus size: 105
1301191 CAGAGCTAAT
* *
1301201 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAATTTCCCAATTTCAGAGCCAATTT
* * *
1301266 CAACTTCACATCGAAGGATATTGGACTCCAGACAACGTATG
65 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
1301307 TTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAA-ATTTTCCCGATTTCAGAGCCAATTTC
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTC
*
1301371 AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
66 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
1301411 TTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTC
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTC
1301476 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
66 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* **
1301516 TTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AATTT--C-A-TTCAGAATCAATTTC
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTC
* * *
1301576 AACTTCACAACGAAGGATGTTGGACTCGAGACAACACAAG
66 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * ** *
1301616 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACCAATTTCCCGGTTCCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA-CAATTTCCCAATTTCAGAGCCAATTT
* *
1301681 CAACTTCACGACGGAGGATATTGGACT
65 CAACTTCACAACGAAGGATATTGGACT
1301708 TGGAACAATG
Statistics
Matches: 362, Mismatches: 32, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
100 84 0.23
101 1 0.00
102 6 0.02
104 101 0.28
105 101 0.28
106 69 0.19
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (105 bp):
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTC
AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:1301510 original size:105 final size:104
Alignment explanation
Indices: 1301201--1301707 Score: 709
Period size: 105 Copynumber: 4.9 Consensus size: 104
1301191 CAGAGCTAAT
*
1301201 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCCAA-TTCAGAGCCAATTT
* * *
1301266 CAACTTCACATCGAAGGATATTGGACTCCAGACAACGTATG
64 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* ** *
1301307 TTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAA-ATTTTCCCGATTTCAGAGCCAATTTC
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCC-AATTCAGAGCCAATTTC
*
1301371 AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
65 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
1301411 TTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTC
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAAT-TCAGAGCCAATTTC
1301476 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
65 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * **
1301516 TTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAATCAATTTCA
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTCAGAGCCAATTTCA
* * *
1301577 ACTTCACAACGAAGGATGTTGGACTCGAGACAACACAAG
66 ACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * * **
1301616 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACCAATTTCCCGGTTCCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA-CAACTTCCCAATT-CAGAGCCAATTT
* *
1301681 CAACTTCACGACGGAGGATATTGGACT
64 CAACTTCACAACGAAGGATATTGGACT
1301708 TGGAACAATG
Statistics
Matches: 362, Mismatches: 30, Indels: 18
0.88 0.07 0.04
Matches are distributed among these distances:
100 84 0.23
101 2 0.01
102 3 0.01
103 4 0.01
104 99 0.27
105 102 0.28
106 68 0.19
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (104 bp):
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTCAGAGCCAATTTCA
ACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:1304711 original size:13 final size:13
Alignment explanation
Indices: 1304677--1304712 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1304667 TTACTCATTA
1304677 TTTATTATT-TAT
1 TTTATTATTATAT
1304689 TTTATATATTATAT
1 TTTAT-TATTATAT
1304703 TTTATTATTA
1 TTTATTATTA
1304713 CTATAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 9 0.41
14 8 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTATTATAT
Done.