Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007749.1 Hibiscus syriacus cultivar Beakdansim tig00110015_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: 1787532
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:866189 original size:71 final size:74
Alignment explanation
Indices: 865848--866199 Score: 244
Period size: 73 Copynumber: 4.6 Consensus size: 74
865838 TGTTTTTTTT
** * * * * * **
865848 AAACTATATAATATACGAATGTTTTC-AACATGTTTTCAAAAA-TATTATATAAGTTTTCAAAAA
1 AAACTATATAATATATAAATGTTTTCAAAAATATTTT-AAAAACTATAATATATGTGTTTCAAAA
865911 A-CGTTTTAA
65 AACGTTTTAA
*
865920 AAACTATATAATATATAAATGTTTTCAAAAATATTTTCAAAACTATAATATATGTGTTTC-AAAA
1 AAACTATATAATATATAAATGTTTTCAAAAATATTTTAAAAACTATAATATATGTGTTTCAAAAA
*
865984 ATGTTTTCAA
66 ACGTTTT-AA
* * *
865994 AAATTATAT-ATATAT-AA-GTTTTC-AAAATGATTTTAAAAATTATATATTATATATAGTTTTA
1 AAACTATATAATATATAAATGTTTTCAAAAAT-ATTTTAAAAA--CTATA--ATATAT-GTGTT-
*
866055 AAAATAAGTTTTCAAAAAACGTTTTAA
59 ----TCA------AAAA-ACGTTTTAA
*
866082 AAACTATATAATATATAAATGTTTTCAAAAATATTTTCAAAACTATAATATATGTGTTTC-AAAA
1 AAACTATATAATATATAAATGTTTTCAAAAATATTTTAAAAACTATAATATATGTGTTTCAAAAA
*
866146 ATGTTTTCAA
66 ACGTTTT-AA
* *
866156 AAATTATAT-ATATAT-AA-GTTTTC-AAAATGATTTTAAAAATTATA
1 AAACTATATAATATATAAATGTTTTCAAAAAT-ATTTTAAAAACTATA
866200 TATTATATAT
Statistics
Matches: 225, Mismatches: 26, Indels: 59
0.73 0.08 0.19
Matches are distributed among these distances:
70 10 0.04
71 34 0.15
72 36 0.16
73 47 0.21
74 24 0.11
75 6 0.03
76 4 0.02
81 2 0.01
86 4 0.02
87 6 0.03
88 14 0.06
89 16 0.07
90 2 0.01
91 15 0.07
92 5 0.02
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.41
Consensus pattern (74 bp):
AAACTATATAATATATAAATGTTTTCAAAAATATTTTAAAAACTATAATATATGTGTTTCAAAAA
ACGTTTTAA
Found at i:866207 original size:73 final size:73
Alignment explanation
Indices: 866064--866224 Score: 179
Period size: 73 Copynumber: 2.2 Consensus size: 73
866054 AAAAATAAGT
* *
866064 TTTCAAAAAACGTTTTAAAAACTATATAATATATAAATGTTTTCAAAAATATTTTCAAAACTATA
1 TTTC-AAAAATGTTTTAAAAACTATATAATATATAAATGTTTTCAAAAATATTTTAAAAACTATA
* *
866129 ATATATGTG
65 ATATATATA
* *
866138 TTTCAAAAATGTTTTCAAAAATTATAT-ATATAT-AA-GTTTTC-AAAATGATTTTAAAAATTAT
1 TTTCAAAAATGTTTT-AAAAACTATATAATATATAAATGTTTTCAAAAAT-ATTTTAAAAACTAT
866199 ATATTATATATA
64 A-A-TATATATA
*
866211 TTT-TAAAATGTTTT
1 TTTCAAAAATGTTTT
866225 TTTTTAAAAC
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
70 5 0.07
71 19 0.25
72 13 0.17
73 25 0.33
74 14 0.18
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (73 bp):
TTTCAAAAATGTTTTAAAAACTATATAATATATAAATGTTTTCAAAAATATTTTAAAAACTATAA
TATATATA
Found at i:866267 original size:11 final size:11
Alignment explanation
Indices: 866251--866276 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
866241 TTATATAGTT
866251 TATAAAAACTA
1 TATAAAAACTA
866262 TATAAAAACTA
1 TATAAAAACTA
866273 TATA
1 TATA
866277 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (11 bp):
TATAAAAACTA
Found at i:866276 original size:2 final size:2
Alignment explanation
Indices: 866271--866327 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
866261 ATATAAAAAC
*
866271 TA TA TA TA TA TA TA TA TA TA TA -A AA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
866312 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
866328 GTTAGTATCT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:866290 original size:27 final size:27
Alignment explanation
Indices: 866260--866327 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
866250 TTATAAAAAC
866260 TATATAAAA-ACTATATATATATATATA
1 TATATAAAATA-TATATATATATATATA
866287 TATATAAAATATATATATATATATATA
1 TATATAAAATATATATATATATATATA
*
866314 TATAT-ATATATATA
1 TATATAAAATATATA
866328 GTTAGTATCT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 8 0.21
27 30 0.77
28 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (27 bp):
TATATAAAATATATATATATATATATA
Found at i:880717 original size:101 final size:101
Alignment explanation
Indices: 880542--880743 Score: 395
Period size: 101 Copynumber: 2.0 Consensus size: 101
880532 TTATATTACT
*
880542 TTAGATTATGAGTTCTAGACTTACTATGAATTCTTTCTTTCTGAAAATCTTTTTTTTCTTTGTTT
1 TTAGATTATGAGTTCTAGACTTACTATGAATTCTTCCTTTCTGAAAATCTTTTTTTTCTTTGTTT
880607 AAGTAAAATTAAAATTAGATTTAGAATTAAAAAATG
66 AAGTAAAATTAAAATTAGATTTAGAATTAAAAAATG
880643 TTAGATTATGAGTTCTAGACTTACTATGAATTCTTCCTTTCTGAAAATCTTTTTTTTCTTTGTTT
1 TTAGATTATGAGTTCTAGACTTACTATGAATTCTTCCTTTCTGAAAATCTTTTTTTTCTTTGTTT
880708 AAGTAAAATTAAAATTAGATTTAGAATTAAAAAATG
66 AAGTAAAATTAAAATTAGATTTAGAATTAAAAAATG
880744 AGAAGGTGAA
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (101 bp):
TTAGATTATGAGTTCTAGACTTACTATGAATTCTTCCTTTCTGAAAATCTTTTTTTTCTTTGTTT
AAGTAAAATTAAAATTAGATTTAGAATTAAAAAATG
Found at i:883203 original size:2 final size:2
Alignment explanation
Indices: 883198--883224 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
883188 AAAAAAAAAA
883198 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
883225 GCATCACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:883920 original size:11 final size:11
Alignment explanation
Indices: 883904--883932 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
883894 ATATACACGT
883904 AGTTACAAACC
1 AGTTACAAACC
883915 AGTTACAAACC
1 AGTTACAAACC
883926 AGTTACA
1 AGTTACA
883933 TGATTCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.24, G:0.10, T:0.21
Consensus pattern (11 bp):
AGTTACAAACC
Found at i:886034 original size:31 final size:29
Alignment explanation
Indices: 885992--886069 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 29
885982 TTTTTCAATC
* **
885992 AAAATATATATTTAAAGTTTTATTTATAGTT
1 AAAATAGATATTTAAAGTAGTATTT-TA-TT
*
886023 AAAATAGATATTTAAAATAGTATTTTATT
1 AAAATAGATATTTAAAGTAGTATTTTATT
* *
886052 GAAATAGATACTTAAAGT
1 AAAATAGATATTTAAAGT
886070 CACTGTTCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 17 0.43
30 2 0.05
31 21 0.52
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.44
Consensus pattern (29 bp):
AAAATAGATATTTAAAGTAGTATTTTATT
Found at i:887581 original size:12 final size:12
Alignment explanation
Indices: 887564--887588 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
887554 CTTTTTTTAA
887564 AAAAATTTAGAT
1 AAAAATTTAGAT
887576 AAAAATTTAGAT
1 AAAAATTTAGAT
887588 A
1 A
887589 CTTTAAAGTT
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
AAAAATTTAGAT
Found at i:891653 original size:31 final size:31
Alignment explanation
Indices: 891618--891751 Score: 223
Period size: 31 Copynumber: 4.3 Consensus size: 31
891608 TCAAGTCACT
891618 AATTTGTTACAAATCGATAATATTAATGATC
1 AATTTGTTACAAATCGATAATATTAATGATC
*
891649 AATTTGTTACAAATCGATAATATTAATGATT
1 AATTTGTTACAAATCGATAATATTAATGATC
*
891680 AATTTGTTACAAATCGATAATATTAATGATT
1 AATTTGTTACAAATCGATAATATTAATGATC
* *
891711 AATTTGTTACAAATCGATAATATTAATAACC
1 AATTTGTTACAAATCGATAATATTAATGATC
*
891742 AATTTATTAC
1 AATTTGTTAC
891752 TTTTTAAAAC
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 98 1.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (31 bp):
AATTTGTTACAAATCGATAATATTAATGATC
Found at i:898384 original size:24 final size:24
Alignment explanation
Indices: 898357--898402 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
898347 ATTTTCGATT
898357 TGGATTTTGATATGATACTTGACC
1 TGGATTTTGATATGATACTTGACC
898381 TGGATTTTGATATGATACTTGA
1 TGGATTTTGATATGATACTTGA
898403 TGTAACACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (24 bp):
TGGATTTTGATATGATACTTGACC
Found at i:899167 original size:22 final size:18
Alignment explanation
Indices: 899124--899193 Score: 79
Period size: 18 Copynumber: 3.7 Consensus size: 18
899114 TTCAGTATTA
*
899124 GTCCCGTAGGACCACTAT
1 GTCCCGAAGGACCACTAT
899142 GTCCCGAAGGACCACTGTATAT
1 GTCCCGAAGGACCAC----TAT
899164 GTCCCGTAA-GACCACTAT
1 GTCCCG-AAGGACCACTAT
899182 GTCCCGAAGGAC
1 GTCCCGAAGGAC
899194 TACTCCTTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
17 2 0.04
18 26 0.58
22 15 0.33
23 2 0.04
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (18 bp):
GTCCCGAAGGACCACTAT
Found at i:900836 original size:64 final size:63
Alignment explanation
Indices: 900703--900863 Score: 184
Period size: 64 Copynumber: 2.5 Consensus size: 63
900693 TAATAAAGGT
* *
900703 ATGCATCGATGCACTACAC-CATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGG
1 ATGCATCGATGCACT-C-CTTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GG
*
900767 G
63 A
* *
900768 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TA
1 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGA
* *
900832 ATGCATCGATGCACT-GTATGTGCATCGATGCA
1 ATGCATCGATGCACTCCT-TATGCATCGATGCA
900864 CCTTAAACAA
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
63 2 0.02
64 58 0.68
65 22 0.26
66 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
Found at i:901668 original size:24 final size:24
Alignment explanation
Indices: 901636--901693 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
901626 CGGATGTTAC
*
901636 ACTTGACCTGGATTTTGATATGAT
1 ACTTGACCTGGATTCTGATATGAT
* *
901660 ACTTGACCTGGATTCTGATCTGCT
1 ACTTGACCTGGATTCTGATATGAT
901684 ACTTGACCTG
1 ACTTGACCTG
901694 AATTATGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (24 bp):
ACTTGACCTGGATTCTGATATGAT
Found at i:902709 original size:2 final size:2
Alignment explanation
Indices: 902704--902728 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
902694 TTTTAATGAT
902704 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 T
902729 GAAATCATCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:903975 original size:19 final size:20
Alignment explanation
Indices: 903950--904001 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
903940 AAAAAAGTGT
*
903950 TTATTTTATTTTTAATATAA
1 TTATTTTATTTTTAATAAAA
903970 -TATTTT-TATTTTAATAAAA
1 TTATTTTAT-TTTTAATAAAA
903989 TTACTTTTATTTT
1 TTA-TTTTATTTT
904002 GTTATACGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 1 0.04
19 16 0.59
20 2 0.07
21 7 0.26
22 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTTATTTTTAATAAAA
Found at i:903978 original size:20 final size:21
Alignment explanation
Indices: 903953--904001 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
903943 AAAGTGTTTA
* *
903953 TTTTATTTTTAATATAA-TAT
1 TTTTATTTTTAATAAAATTAC
903973 TTTTA-TTTTAATAAAATTAC
1 TTTTATTTTTAATAAAATTAC
903993 TTTTATTTT
1 TTTTATTTT
904002 GTTATACGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.40
20 12 0.48
21 3 0.12
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTATTTTTAATAAAATTAC
Found at i:907660 original size:28 final size:30
Alignment explanation
Indices: 907594--907660 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
907584 TTTTGATATG
907594 TTTTAGTACCTAAATTTTGAAAATTTTCAA
1 TTTTAGTACCTAAATTTTGAAAATTTTCAA
** * *
907624 AATCA-TACCTAAATTTT-AATATTTTC-A
1 TTTTAGTACCTAAATTTTGAAAATTTTCAA
907651 TTTTAGTACC
1 TTTTAGTACC
907661 CCTGTTCAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
27 3 0.10
28 12 0.41
29 12 0.41
30 2 0.07
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.46
Consensus pattern (30 bp):
TTTTAGTACCTAAATTTTGAAAATTTTCAA
Found at i:907916 original size:12 final size:12
Alignment explanation
Indices: 907901--907925 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
907891 ATACTATATT
907901 AACATCTTTTAA
1 AACATCTTTTAA
907913 AACATCTTTTAA
1 AACATCTTTTAA
907925 A
1 A
907926 TTGAATTTCA
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:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (12 bp):
AACATCTTTTAA
Found at i:912216 original size:20 final size:20
Alignment explanation
Indices: 912191--912231 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
912181 TTTATGATCA
*
912191 TATATAATATATATATATTT
1 TATATAATATATACATATTT
*
912211 TATATATTATATACATATTT
1 TATATAATATATACATATTT
912231 T
1 T
912232 TTTTTTCAAA
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:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TATATAATATATACATATTT
Found at i:912217 original size:22 final size:22
Alignment explanation
Indices: 912190--912233 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
912180 TTTTATGATC
*
912190 ATATATAATATATATATATTTT
1 ATATATAATATACATATATTTT
* *
912212 ATATATTATATACATATTTTTT
1 ATATATAATATACATATATTTT
912234 TTTTCAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATATAATATACATATATTTT
Found at i:913741 original size:3 final size:3
Alignment explanation
Indices: 913733--913820 Score: 162
Period size: 3 Copynumber: 30.0 Consensus size: 3
913723 AACCCTCCAC
913733 ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
913779 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
913821 GCGTTGCCAT
Statistics
Matches: 83, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 4 0.05
3 79 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:915108 original size:74 final size:75
Alignment explanation
Indices: 915009--915158 Score: 187
Period size: 74 Copynumber: 2.0 Consensus size: 75
914999 ACCTGAATAA
* * *
915009 TAGTCGTCATAATATTAAGTTTTCATGTGTTTTTTCCGACTAT-A-CACTTGGTCATTAACTAAA
1 TAGTCGTCATAATATTAAGTGTTCATGTGTTTCTT-CGACTATCAGCACTTGGTCATTAACCAAA
915072 ATAAAGCATGT
65 ATAAAGCATGT
* * * * *
915083 TAGTGGTCATAATATTAGGTGTTCATGTGTTTCTTCGATTGTGCAGTACTTGGTCATTAACCAAA
1 TAGTCGTCATAATATTAAGTGTTCATGTGTTTCTTCGACTAT-CAGCACTTGGTCATTAACCAAA
*
915148 ATAGAGCATGT
65 ATAAAGCATGT
915159 GTATTACGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
73 5 0.08
74 31 0.48
75 1 0.02
76 27 0.42
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (75 bp):
TAGTCGTCATAATATTAAGTGTTCATGTGTTTCTTCGACTATCAGCACTTGGTCATTAACCAAAA
TAAAGCATGT
Found at i:923767 original size:25 final size:24
Alignment explanation
Indices: 923730--923789 Score: 93
Period size: 25 Copynumber: 2.5 Consensus size: 24
923720 AATATACTTA
*
923730 ATAATATATTATTTTTATTTTAAT
1 ATAATATAATATTTTTATTTTAAT
923754 ATAATTATAATATTTTTATTTTAAT
1 ATAA-TATAATATTTTTATTTTAAT
*
923779 AAAATATAATA
1 ATAATATAATA
923790 ATATGAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 11 0.33
25 22 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATAATATAATATTTTTATTTTAAT
Found at i:924926 original size:22 final size:22
Alignment explanation
Indices: 924901--924944 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
924891 TATATAGACT
*
924901 AATGCTAAGAAAATACAAAAGA
1 AATGATAAGAAAATACAAAAGA
**
924923 AATGATCTGAAAATACAAAAGA
1 AATGATAAGAAAATACAAAAGA
924945 GTGTGCGACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.61, C:0.09, G:0.14, T:0.16
Consensus pattern (22 bp):
AATGATAAGAAAATACAAAAGA
Found at i:928869 original size:15 final size:15
Alignment explanation
Indices: 928849--928890 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
928839 ACTGTCACCC
*
928849 AAAATCCCTAA-ATCT
1 AAAATCCCTAATAT-A
*
928864 AAAATCCCCAATATA
1 AAAATCCCTAATATA
928879 AAAATCCCTAAT
1 AAAATCCCTAAT
928891 TCCTAATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAATCCCTAATATA
Found at i:930052 original size:30 final size:30
Alignment explanation
Indices: 930013--930125 Score: 111
Period size: 30 Copynumber: 3.7 Consensus size: 30
930003 AGAAATGATT
* * *
930013 AAATTTTAATTTAACCCCTAAATTTAGACA
1 AAATATTAATTTAACCCCTAAATTTACATA
* **
930043 AAATATTAATTTGA-CTTTAAAATTTACATA
1 AAATATTAATTTAACCCCT-AAATTTACATA
* *
930073 AAATACTAATTTAACCCCTAAACTTTATATA
1 AAATATTAATTTAACCCCTAAA-TTTACATA
* *
930104 AAATATCAATTTAACCTCTAAA
1 AAATATTAATTTAACCCCTAAA
930126 CCCACCATCA
Statistics
Matches: 66, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
29 2 0.03
30 36 0.55
31 28 0.42
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (30 bp):
AAATATTAATTTAACCCCTAAATTTACATA
Found at i:930107 original size:31 final size:30
Alignment explanation
Indices: 930019--930126 Score: 103
Period size: 31 Copynumber: 3.6 Consensus size: 30
930009 GATTAAATTT
* *
930019 TAATTTAACCCCTAAA-TTTAGACAAAATA
1 TAATTTAACCCCTAAACTTTACATAAAATA
* ** *
930048 TTAATTTGA-CTTTAAAATTTACATAAAATA
1 -TAATTTAACCCCTAAACTTTACATAAAATA
*
930078 CTAATTTAACCCCTAAACTTTATATAAAATA
1 -TAATTTAACCCCTAAACTTTACATAAAATA
*
930109 TCAATTTAACCTCTAAAC
1 T-AATTTAACCCCTAAAC
930127 CCACCATCAA
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
29 5 0.08
30 26 0.41
31 32 0.51
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (30 bp):
TAATTTAACCCCTAAACTTTACATAAAATA
Found at i:933477 original size:25 final size:25
Alignment explanation
Indices: 933431--933478 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
933421 ATGGGAAAAT
* * *
933431 TACAATAATGGGTGCGTGTGAAAGG
1 TACAATAACGGGTGCATATGAAAGG
*
933456 TACAATAACGGTTGCATATGAAA
1 TACAATAACGGGTGCATATGAAA
933479 AGGTCAGTCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (25 bp):
TACAATAACGGGTGCATATGAAAGG
Found at i:941872 original size:19 final size:20
Alignment explanation
Indices: 941845--941889 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
941835 ATTAGCAACA
*
941845 TAAT-AAAAATGATTCTATC
1 TAATAAAAAATGATCCTATC
*
941864 TAATTAAAAATGATCCTATC
1 TAATAAAAAATGATCCTATC
941884 TAATAA
1 TAATAA
941890 CTAATAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (20 bp):
TAATAAAAAATGATCCTATC
Found at i:941873 original size:20 final size:20
Alignment explanation
Indices: 941848--941887 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
941838 AGCAACATAA
*
941848 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
941868 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
941888 AACTAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:941930 original size:20 final size:21
Alignment explanation
Indices: 941901--941940 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
941891 TAATAGAATA
*
941901 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
941922 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
941941 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:941979 original size:20 final size:20
Alignment explanation
Indices: 941954--941992 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
941944 TAATAGAATA
*
941954 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
941974 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
941993 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:941983 original size:52 final size:52
Alignment explanation
Indices: 941846--941993 Score: 271
Period size: 53 Copynumber: 2.8 Consensus size: 52
941836 TTAGCAACAT
941846 AATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
941897 AATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
*
941950 AATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
941994 TTTAATTTAG
Statistics
Matches: 94, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 3 0.03
52 45 0.48
53 46 0.49
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (52 bp):
AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
Found at i:946537 original size:19 final size:20
Alignment explanation
Indices: 946510--946554 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
946500 ATTAGCAACA
*
946510 TAAT-AAAAATGATTCTATC
1 TAATAAAAAATGATCCTATC
*
946529 TAATTAAAAATGATCCTATC
1 TAATAAAAAATGATCCTATC
946549 TAATAA
1 TAATAA
946555 CTAATAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (20 bp):
TAATAAAAAATGATCCTATC
Found at i:946538 original size:20 final size:20
Alignment explanation
Indices: 946513--946552 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
946503 AGCAACATAA
*
946513 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
946533 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
946553 AACTAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:946595 original size:20 final size:21
Alignment explanation
Indices: 946566--946605 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
946556 TAATAGAATA
*
946566 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
946587 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
946606 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:946644 original size:20 final size:20
Alignment explanation
Indices: 946619--946657 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
946609 TAATAGAATA
*
946619 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
946639 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
946658 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:946648 original size:52 final size:52
Alignment explanation
Indices: 946511--946658 Score: 271
Period size: 53 Copynumber: 2.8 Consensus size: 52
946501 TTAGCAACAT
946511 AATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
946562 AATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
*
946615 AATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
946659 TTTAATTTAG
Statistics
Matches: 94, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 3 0.03
52 45 0.48
53 46 0.49
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (52 bp):
AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
Found at i:948733 original size:52 final size:52
Alignment explanation
Indices: 948676--948781 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
948666 GGATTGTAGA
948676 AACGCTAAGAGATAATACCAAGGTGTCCTATCTGTTCTTAAAACCAGTGTCC
1 AACGCTAAGAGATAATACCAAGGTGTCCTATCTGTTCTTAAAACCAGTGTCC
*
948728 AACGCTAAGAGATAATACCAAGGTGTCCTATCTGTTCTTAAAACTAGTGTCC
1 AACGCTAAGAGATAATACCAAGGTGTCCTATCTGTTCTTAAAACCAGTGTCC
948780 AA
1 AA
948782 GAAGGAGGCG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (52 bp):
AACGCTAAGAGATAATACCAAGGTGTCCTATCTGTTCTTAAAACCAGTGTCC
Found at i:958010 original size:29 final size:29
Alignment explanation
Indices: 957968--958044 Score: 136
Period size: 29 Copynumber: 2.7 Consensus size: 29
957958 CAAACTATAT
*
957968 ATTTAGTCACCCAACTATTCACATGATAC
1 ATTTTGTCACCCAACTATTCACATGATAC
957997 ATTTTGTCACCCAACTATTCACATGATAC
1 ATTTTGTCACCCAACTATTCACATGATAC
*
958026 GTTTTGTCACCCAACTATT
1 ATTTTGTCACCCAACTATT
958045 TTTTTCTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (29 bp):
ATTTTGTCACCCAACTATTCACATGATAC
Found at i:960493 original size:20 final size:20
Alignment explanation
Indices: 960468--960510 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
960458 TCTAAAGGCT
960468 CATTTAGGACCATATAGATG
1 CATTTAGGACCATATAGATG
* *
960488 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
960508 CAT
1 CAT
960511 GTGGTGGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:966313 original size:20 final size:20
Alignment explanation
Indices: 966288--966330 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
966278 TCTAAAGGCT
*
966288 CATTTATGACCATATAGATG
1 CATTTAGGACCATATAGATG
* *
966308 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
966328 CAT
1 CAT
966331 GTGGTAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:973423 original size:23 final size:23
Alignment explanation
Indices: 973381--973443 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
973371 TTTCACTCGG
973381 AAGTTTAATTTGTTTTAGGAGATA
1 AAGTTTAATTT-TTTTAGGAGATA
973405 AAGTTTAATTTTTTTAGGAGATA
1 AAGTTTAATTTTTTTAGGAGATA
*
973428 AAGTTTAATTTATTTA
1 AAGTTTAATTTTTTTA
973444 TAATTTATCT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 27 0.71
24 11 0.29
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (23 bp):
AAGTTTAATTTTTTTAGGAGATA
Found at i:982803 original size:18 final size:20
Alignment explanation
Indices: 982782--982828 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
982772 AATCCGACCT
*
982782 AAAATAATA-TATTTATT-A
1 AAAAAAATACTATTTATTCA
982800 AAAAAAATACT-TTTATTCA
1 AAAAAAATACTATTTATTCA
982819 ATAAAAAATA
1 A-AAAAAATA
982829 AGAATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 14 0.56
19 3 0.12
20 8 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAAAATACTATTTATTCA
Found at i:988956 original size:51 final size:50
Alignment explanation
Indices: 988866--988970 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 50
988856 AATAAGATGC
988866 TTATACCGTTGTTTCGATGTTGGTATAATGATAACTTTAATCCATAATGT
1 TTATACCGTTGTTTCGATGTTGGTATAATGATAACTTTAATCCATAATGT
988916 TTATACCGTTGTTTCGATGTTTGGTATAATGATAACTTTAATCCATAATGT
1 TTATACCGTTGTTTCGATG-TTGGTATAATGATAACTTTAATCCATAATGT
988967 TTAT
1 TTAT
988971 TATATTTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 19 0.35
51 35 0.65
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (50 bp):
TTATACCGTTGTTTCGATGTTGGTATAATGATAACTTTAATCCATAATGT
Found at i:989454 original size:20 final size:22
Alignment explanation
Indices: 989429--989479 Score: 79
Period size: 20 Copynumber: 2.4 Consensus size: 22
989419 TCTAAATTTA
989429 AAATAATTTAAA-ATTAAA-AG
1 AAATAATTTAAATATTAAAGAG
*
989449 AAATAATTTAAATATTAAAGTG
1 AAATAATTTAAATATTAAAGAG
989471 AAATAATTT
1 AAATAATTT
989480 GAAGAAATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 12 0.43
21 6 0.21
22 10 0.36
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (22 bp):
AAATAATTTAAATATTAAAGAG
Found at i:997790 original size:25 final size:25
Alignment explanation
Indices: 997756--997803 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
997746 AAGTTTTTAT
997756 GCTTTTCAAGCTTAATCGAGCTCAC
1 GCTTTTCAAGCTTAATCGAGCTCAC
997781 GCTTTTCAAGCTTAATCGAGCTC
1 GCTTTTCAAGCTTAATCGAGCTC
997804 CAAATTTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (25 bp):
GCTTTTCAAGCTTAATCGAGCTCAC
Found at i:1000816 original size:2 final size:2
Alignment explanation
Indices: 1000809--1000840 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1000799 TAACAACAGA
1000809 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
1000841 TATCATTTTA
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:1002245 original size:21 final size:21
Alignment explanation
Indices: 1002203--1002250 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1002193 AAGGCGGTGA
* * *
1002203 CAACGGTGACAGAGGCAGTGG
1 CAACGGTGAAAGAGACAATGG
*
1002224 CGACGGTGAAAGAGACAATGG
1 CAACGGTGAAAGAGACAATGG
1002245 CAACGG
1 CAACGG
1002251 CAGTAGTGGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.40, T:0.08
Consensus pattern (21 bp):
CAACGGTGAAAGAGACAATGG
Found at i:1016731 original size:17 final size:19
Alignment explanation
Indices: 1016698--1016732 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1016688 TCAACATCTC
1016698 GATTGCCCTCTTCAAACTA
1 GATTGCCCTCTTCAAACTA
1016717 GATT-CCCTC-TCAAACT
1 GATTGCCCTCTTCAAACT
1016733 GAACAAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (19 bp):
GATTGCCCTCTTCAAACTA
Found at i:1019628 original size:29 final size:29
Alignment explanation
Indices: 1019586--1019685 Score: 200
Period size: 29 Copynumber: 3.4 Consensus size: 29
1019576 ACTCGGGGGT
1019586 TTTGGCCCAATACTAAAGTGGGTAAATTA
1 TTTGGCCCAATACTAAAGTGGGTAAATTA
1019615 TTTGGCCCAATACTAAAGTGGGTAAATTA
1 TTTGGCCCAATACTAAAGTGGGTAAATTA
1019644 TTTGGCCCAATACTAAAGTGGGTAAATTA
1 TTTGGCCCAATACTAAAGTGGGTAAATTA
1019673 TTTGGCCCAATAC
1 TTTGGCCCAATAC
1019686 ACCAATAGGG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (29 bp):
TTTGGCCCAATACTAAAGTGGGTAAATTA
Found at i:1024746 original size:2 final size:2
Alignment explanation
Indices: 1024741--1024765 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1024731 AATATAGCAA
1024741 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
1024766 ACAGAAAGAA
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:1031808 original size:13 final size:15
Alignment explanation
Indices: 1031792--1031824 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
1031782 TAAATATTTT
1031792 TTTTAT-TATCTA-A
1 TTTTATATATCTATA
1031805 TTTTATATATCTATA
1 TTTTATATATCTATA
1031820 TTTTA
1 TTTTA
1031825 CAACTCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 6 0.33
15 6 0.33
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTATATATCTATA
Found at i:1032470 original size:21 final size:21
Alignment explanation
Indices: 1032445--1032484 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1032435 AAATTTTTTA
* *
1032445 ATTCATTTTATTTTTTATCAG
1 ATTCATTTAATATTTTATCAG
1032466 ATTCATTTAATATTTTATC
1 ATTCATTTAATATTTTATC
1032485 TAAAATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTCATTTAATATTTTATCAG
Found at i:1032525 original size:31 final size:31
Alignment explanation
Indices: 1032472--1032566 Score: 118
Period size: 31 Copynumber: 3.1 Consensus size: 31
1032462 TCAGATTCAT
* * * *
1032472 TTAATATTTTATCTAAAATTTAAGAATTAAA
1 TTAATATTTTATCTGAAGTTTAAGGATCAAA
*
1032503 TTAATATTTTATTTGAAGTTTAAGGATCAAA
1 TTAATATTTTATCTGAAGTTTAAGGATCAAA
** *
1032534 AAAACATTTTATCTGAAGTTTAAGGATCAAA
1 TTAATATTTTATCTGAAGTTTAAGGATCAAA
1032565 TT
1 TT
1032567 TTTTTTAATT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.42
Consensus pattern (31 bp):
TTAATATTTTATCTGAAGTTTAAGGATCAAA
Found at i:1043588 original size:15 final size:17
Alignment explanation
Indices: 1043564--1043623 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 17
1043554 TATAACTTCT
*
1043564 ATAATCTTTAAT-AAA-
1 ATAATATTTAATGAAAC
*
1043579 ATAATATTTATTGAAAC
1 ATAATATTTAATGAAAC
** *
1043596 ATAATATTTTTTG-TAC
1 ATAATATTTAATGAAAC
1043612 ATAATATTTAAT
1 ATAATATTTAAT
1043624 AAATTCTATA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
15 10 0.27
16 15 0.41
17 12 0.32
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (17 bp):
ATAATATTTAATGAAAC
Found at i:1043615 original size:16 final size:17
Alignment explanation
Indices: 1043579--1043621 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
1043569 CTTTAATAAA
1043579 ATAATATTTATTGAAAC
1 ATAATATTTATTGAAAC
* *
1043596 ATAATATTTTTTG-TAC
1 ATAATATTTATTGAAAC
1043612 ATAATATTTA
1 ATAATATTTA
1043622 ATAAATTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (17 bp):
ATAATATTTATTGAAAC
Found at i:1045360 original size:22 final size:22
Alignment explanation
Indices: 1045335--1045389 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
1045325 TTGTTAATAT
* *
1045335 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
1045357 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
1045379 CGGGAGTTATA
1 CAGGAGTTATA
1045390 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:1050434 original size:2 final size:2
Alignment explanation
Indices: 1050429--1050455 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1050419 TATACTTTTG
1050429 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 T
1050456 CTTACACATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1053842 original size:3 final size:3
Alignment explanation
Indices: 1053834--1053877 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
1053824 TTTTATTTAT
*
1053834 TTA TTA TTA TTA TT- TTG TT- TTA TTA TTA -TA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1053878 AATAATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 8 0.22
3 29 0.78
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1053851 original size:27 final size:26
Alignment explanation
Indices: 1053820--1053873 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 26
1053810 TTTTATTTCA
1053820 TTTGTTTTATTTATT-TATTATTATTAT
1 TTTGTTTTA-TTATTATATTA-TATTAT
1053847 TTTGTTTTATTATTATATTATATTAT
1 TTTGTTTTATTATTATATTATATTAT
1053873 T
1 T
1053874 ATTAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (26 bp):
TTTGTTTTATTATTATATTATATTAT
Found at i:1053858 original size:16 final size:16
Alignment explanation
Indices: 1053826--1053877 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
1053816 TTCATTTGTT
1053826 TTATT-TATT-TATTA
1 TTATTATATTATATTA
* * *
1053840 TTATTATTTTGTTTTA
1 TTATTATATTATATTA
1053856 TTATTATATTATATTA
1 TTATTATATTATATTA
1053872 TTATTA
1 TTATTA
1053878 AATAATTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 5 0.16
15 3 0.10
16 23 0.74
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TTATTATATTATATTA
Found at i:1055284 original size:29 final size:30
Alignment explanation
Indices: 1055251--1055309 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
1055241 AGGGCTGTAA
1055251 ATTTTAATATTT-TATATTTTAATC-CTATT
1 ATTTTAAT-TTTATATATTTTAATCACTATT
* *
1055280 ATTTTAATTTTATATGTTTTAGTCACTATT
1 ATTTTAATTTTATATATTTTAATCACTATT
1055310 TAATTGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (30 bp):
ATTTTAATTTTATATATTTTAATCACTATT
Found at i:1056311 original size:27 final size:26
Alignment explanation
Indices: 1056281--1056335 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
1056271 TAATTCTTTC
*
1056281 TTTTCAAAATTTTTATATATACTTATT
1 TTTTCAAAATATTTATATATA-TTATT
* *
1056308 TTTTCATAGTATTTATATATATTATT
1 TTTTCAAAATATTTATATATATTATT
1056334 TT
1 TT
1056336 ATTAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTCAAAATATTTATATATATTATT
Found at i:1057989 original size:27 final size:26
Alignment explanation
Indices: 1057958--1058017 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
1057948 CATTCACATA
*
1057958 TTTACATTTGCATTTACCTTTGCATTT
1 TTTACATTTGCATTTACATTTGCA-TT
* * *
1057985 TTTACGTTTGTATTTACATTTTCATT
1 TTTACATTTGCATTTACATTTGCATT
1058011 TTTACAT
1 TTTACAT
1058018 AATTACATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.58
Consensus pattern (26 bp):
TTTACATTTGCATTTACATTTGCATT
Found at i:1060105 original size:2 final size:2
Alignment explanation
Indices: 1060098--1060143 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1060088 TTATCCTTTA
1060098 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
1060140 AT AT
1 AT AT
1060144 CCTTTGTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1060439 original size:1 final size:1
Alignment explanation
Indices: 1060433--1060505 Score: 74
Period size: 1 Copynumber: 73.0 Consensus size: 1
1060423 CTATACTCAT
** * * * * *
1060433 AAAAAAAAGGAAAAAAGAAAAAAAAAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
1060498 GAAAAAAA
1 AAAAAAAA
1060506 GGAAAATTGA
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (1 bp):
A
Found at i:1060448 original size:8 final size:8
Alignment explanation
Indices: 1060434--1060511 Score: 120
Period size: 8 Copynumber: 9.5 Consensus size: 8
1060424 TATACTCATA
1060434 AAAAAAAG
1 AAAAAAAG
*
1060442 GAAAAAAG
1 AAAAAAAG
*
1060450 AAAAAAAA
1 AAAAAAAG
1060458 AAAAAAAG
1 AAAAAAAG
1060466 AAAAAAAG
1 AAAAAAAG
1060474 AAAAAAAG
1 AAAAAAAG
1060482 AAAAAAAAG
1 -AAAAAAAG
1060491 AAAAAAAG
1 AAAAAAAG
1060499 AAAAAAAGG
1 AAAAAAA-G
1060508 AAAA
1 AAAA
1060512 TTGAATCAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
8 51 0.80
9 13 0.20
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:1060455 original size:17 final size:17
Alignment explanation
Indices: 1060433--1060511 Score: 126
Period size: 17 Copynumber: 4.8 Consensus size: 17
1060423 CTATACTCAT
*
1060433 AAAAAAAAGGAAAAAAG
1 AAAAAAAAGAAAAAAAG
1060450 AAAAAAAA-AAAAAAAG
1 AAAAAAAAGAAAAAAAG
1060466 -AAAAAAAGAAAAAAAG
1 AAAAAAAAGAAAAAAAG
1060482 AAAAAAAAGAAAAAAAG
1 AAAAAAAAGAAAAAAAG
*
1060499 AAAAAAAGGAAAA
1 AAAAAAAAGAAAA
1060512 TTGAATCAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
15 7 0.12
16 15 0.26
17 36 0.62
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAG
Found at i:1063061 original size:114 final size:114
Alignment explanation
Indices: 1062861--1063080 Score: 377
Period size: 114 Copynumber: 1.9 Consensus size: 114
1062851 CATGTTCTCG
* *
1062861 TAGTAGAAATAAGGAGGCCCAATAGCATTTTCTAGAAGTGTTCTTTGAGTTATCTGATTTGGTTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATTTGGTTT
**
1062926 GGTAAGAACCCTTAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
66 GGTAAGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
* *
1062975 TAGTAGAGATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATTTGGTTT
*
1063040 GGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAA
66 GGTAAGAACCCCAAAACCAATCATTAGATTTGAAAGATGAA
1063081 CATGATCATC
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 99 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATTTGGTTT
GGTAAGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
Found at i:1065730 original size:22 final size:22
Alignment explanation
Indices: 1065702--1065780 Score: 131
Period size: 22 Copynumber: 3.6 Consensus size: 22
1065692 ACATCTACAT
1065702 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
1065724 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
1065746 TTTTTAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
1065768 TTTTCAAAGATGA
1 TCTTCAAAGATGA
1065781 AAGCTTTATT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:1066544 original size:36 final size:36
Alignment explanation
Indices: 1066489--1066601 Score: 154
Period size: 36 Copynumber: 3.1 Consensus size: 36
1066479 GGATGTTTTC
1066489 ACAAAAATTATCTCACTTGAGATTGTTTTTCTTAAA
1 ACAAAAATTATCTCACTTGAGATTGTTTTTCTTAAA
* * * ** ** *
1066525 ACAAAATTTGTCTCGCTTGAGACAGTTTCACTTGAA
1 ACAAAAATTATCTCACTTGAGATTGTTTTTCTTAAA
1066561 ACAAAAATTATCTCACTTGAGATTGTTTTTCTTAAA
1 ACAAAAATTATCTCACTTGAGATTGTTTTTCTTAAA
1066597 ACAAA
1 ACAAA
1066602 GATTTGTCTT
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (36 bp):
ACAAAAATTATCTCACTTGAGATTGTTTTTCTTAAA
Found at i:1066880 original size:36 final size:36
Alignment explanation
Indices: 1066840--1066955 Score: 117
Period size: 36 Copynumber: 3.2 Consensus size: 36
1066830 AATTATCACA
1066840 CTTGAGATTGTTTTTCTTAGAACAAAATTTGTCTCG
1 CTTGAGATTGTTTTTCTTAGAACAAAATTTGTCTCG
*** ** * * *
1066876 CTTGAGGCAGTTTCACTT-GAAACAAAAATTATCTCA
1 CTTGAGATTGTTTTTCTTAG-AACAAAATTTGTCTCG
* *
1066912 CTTGAGATTGTTTTTCTTAAAACAAAGATTTGTTTCG
1 CTTGAGATTGTTTTTCTTAGAACAAA-ATTTGTCTCG
1066949 CTTGAGA
1 CTTGAGA
1066956 CAGTTATTTC
Statistics
Matches: 59, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
35 1 0.02
36 45 0.76
37 13 0.22
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (36 bp):
CTTGAGATTGTTTTTCTTAGAACAAAATTTGTCTCG
Found at i:1066923 original size:336 final size:335
Alignment explanation
Indices: 1066311--1067154 Score: 1474
Period size: 336 Copynumber: 2.5 Consensus size: 335
1066301 CTTGAGATTA
* * * *
1066311 GGGCATGTTACCCAATCAACATGTTATTTTGAAAAATAATTAGAAAACGATTTTCATAGTTTCTC
1 GGGCATGTTACCCAATCAACAAGTTATTTTGAAGAAGAATGAGAAAACGATTTTCATAGTTTCTC
* *
1066376 ATTCAATCTTTTCTGAAAATGAAATTGTTGAATAGTAAGAAAACGATTTCCATGGTATCTTACTT
66 ATTCAATCTTTTCTGAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCCATAGTATCTTACTT
* * *
1066441 AGTAAACTATTTCCCACATCCATAAGACCTACAGTGCAGGATGTTTTCACAAAAATTATCTCACT
131 AGTAAACTATTTCCCACATCCATAAGACCTACAGTGCATGATATTTTCACAAAAATTATCACACT
1066506 TGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTTGAAACAAAAATTA
196 TGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTTGAAACAAAAATTA
1066571 TCTCACTTGAGATTGTTTTTCTTAAAACAAAGATTTGTCTT-GCTTGAGACAGTTATTTCGAGTT
261 TCTCACTTGAGATTGTTTTTCTTAAAACAAAGATTTGT-TTCGCTTGAGACAGTTATTTCGAGTT
*
1066635 ATTTTGAAATG
325 ATTTCGAAATG
1066646 GGGCATGTTACCCAATCAACAAGTTATTTTGAAGAAGAATGAGAAAACGATTTTCCATAGTTTCT
1 GGGCATGTTACCCAATCAACAAGTTATTTTGAAGAAGAATGAGAAAACGATTTT-CATAGTTTCT
* * *
1066711 CATTCAATCTTTTTTGCAAATGAAATTCTTGAAAAGTAAGAAAACGATTTCCATAGTATCTTACT
65 CATTCAATCTTTTCTGAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCCATAGTATCTTACT
1066776 TAGTAAACTATTTCCCACATCCATAAGACCTACAGTGCATGATATTTTCACAAAAATTATCACAC
130 TAGTAAACTATTTCCCACATCCATAAGACCTACAGTGCATGATATTTTCACAAAAATTATCACAC
* *
1066841 TTGAGATTGTTTTTCTTAGAACAAAATTTGTCTCGCTTGAGGCAGTTTCACTTGAAACAAAAATT
195 TTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTTGAAACAAAAATT
1066906 ATCTCACTTGAGATTGTTTTTCTTAAAACAAAGATTTGTTTCGCTTGAGACAGTTATTTCGAGTT
260 ATCTCACTTGAGATTGTTTTTCTTAAAACAAAGATTTGTTTCGCTTGAGACAGTTATTTCGAGTT
1066971 ATTTCGAAATG
325 ATTTCGAAATG
1066982 GGGCATGTTACCCAATCAACAAGTTATTTTGAAGAAGAATGAGAAAACGATTTTTCATAGTTTCT
1 GGGCATGTTACCCAATCAACAAGTTATTTTGAAGAAGAATGAGAAAACGA-TTTTCATAGTTTCT
*
1067047 CATTCAATCTTTTCTGAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCCATAGTTTCTTACT
65 CATTCAATCTTTTCTGAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCCATAGTATCTTACT
* ** *
1067112 TAGTAAACTATTTCCCATATCTGTAAGTCCTACAGTGCATGAT
130 TAGTAAACTATTTCCCACATCCATAAGACCTACAGTGCATGAT
1067155 GCTTCCAAAA
Statistics
Matches: 483, Mismatches: 23, Indels: 5
0.95 0.05 0.01
Matches are distributed among these distances:
335 52 0.11
336 427 0.88
337 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (335 bp):
GGGCATGTTACCCAATCAACAAGTTATTTTGAAGAAGAATGAGAAAACGATTTTCATAGTTTCTC
ATTCAATCTTTTCTGAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCCATAGTATCTTACTT
AGTAAACTATTTCCCACATCCATAAGACCTACAGTGCATGATATTTTCACAAAAATTATCACACT
TGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTTGAAACAAAAATTA
TCTCACTTGAGATTGTTTTTCTTAAAACAAAGATTTGTTTCGCTTGAGACAGTTATTTCGAGTTA
TTTCGAAATG
Found at i:1067259 original size:76 final size:77
Alignment explanation
Indices: 1067130--1067438 Score: 509
Period size: 77 Copynumber: 4.0 Consensus size: 77
1067120 TATTTCCCAT
* *
1067130 ATCTGTAAGTCCTACAGTGCATGATGCTTCC-AAAAAGCATTCGGGAGCTTTTTGATGTTTTCAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1067194 AGCCTTAGGGTC
66 AGCCTTAGGGTC
* *
1067206 ATATGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGATTTTTGATGTTTTCAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1067270 AGCCTTAGGGTC
66 AGCCTTAGGGTC
1067282 ATCTGTAAGTCCTACAGTG-AGTGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 ATCTGTAAGTCCTACAGTGCA-TGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
1067346 AAGTCTTAGGGTC
65 AAGCCTTAGGGTC
*
1067359 ATCTGTAAGTCCTACAGTGCGTGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCGA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
1067424 AA-CCTTCGGGTC
65 AAGCCTTAGGGTC
1067436 ATC
1 ATC
1067439 AGCATTTCCA
Statistics
Matches: 219, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
75 1 0.00
76 100 0.46
77 115 0.53
78 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (77 bp):
ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTC
Found at i:1067743 original size:113 final size:113
Alignment explanation
Indices: 1067436--1068088 Score: 883
Period size: 113 Copynumber: 5.8 Consensus size: 113
1067426 CCTTCGGGTC
* *
1067436 ATCAGCATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
* *
1067500 AATGAGAAGAACTTATTCAACCTTTCGCTTGAATTCATCATTCGATGG
66 AATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGG
* * * *
1067548 ATCAGCATTACC--AGAAAGCTCATAATGAGAAGAATTTATCTGAAGAAGGGAGAAGAAGTTCAT
1 ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
* ** * *
1067611 AATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGG
66 AATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGG
*
1067659 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
* * * * *
1067724 AATGAAAAGAACTTATTCAACCATTCGCTTGAATTCGTCATTCGATGG
66 AATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGG
*
1067772 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
* * * *
1067837 AATGAGAAGAGCTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGG
66 AATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGG
* * * *
1067885 ATCAACATTGCCAG-GTAGATTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAG-A-AA-T
1 ATCAGCATTTCCAGAG-AAAGTTCATAATGAGAAGAACT--T-ATCTGAAGAAGGAAGAAGAAGT
* * * *
1067945 TCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCGATGG
62 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGG
* * *
1067997 ATCAACTTTTCTAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAA-GAAGAAGAAGTTCAT
1 ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
*
1068061 AATGAGAAGAGCTTGTTCAACCTTTTGC
66 AATGAGAAGAACTTGTTCAACCTTTTGC
1068089 ATAACTCTAT
Statistics
Matches: 473, Mismatches: 57, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
109 14 0.03
110 3 0.01
111 97 0.21
112 119 0.25
113 224 0.47
114 1 0.00
115 5 0.01
116 10 0.02
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGG
Found at i:1068082 original size:337 final size:334
Alignment explanation
Indices: 1067436--1068082 Score: 949
Period size: 337 Copynumber: 1.9 Consensus size: 334
1067426 CCTTCGGGTC
*
1067436 ATCAGCATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
1 ATCAGCATTTCCAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
* *
1067501 ATGAGAAGAACTTATTCAACCTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGAAAG
66 ATGAGAAGAACTTATTCAACCTTTCGCTTAAATTCATCATTCGATGGATCAACATTACCAGAAAG
* * *
1067566 CTCATAATGAGAAGAATTTATCTGAAGAAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAA
131 CTCATAATGAGAAGAATTCATCTGAAGAA--GAGAAGAAATTCATAATGAGAAGAACTTGTTCAA
*
1067631 CCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAAC
194 CCTTTTGCTCAAATCCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAAC
1067696 TTATCTGAAGAAGGAAGAAGAAGTTCATAATGAAAAGAACTTATTCAACCATTCGCTTGAATTCG
259 TTATCTGAAGAAGGAAGAAGAAGTTCATAATGAAAAGAACTTATTCAACCATTCGCTTGAATTCG
1067761 TCATTCGATGG
324 TCATTCGATGG
* *
1067772 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAGCATTTCCAGA-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * * * * *
1067837 AATGAGAAGAGCTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAGGTA
65 AATGAGAAGAACTTATTCAACCTTTCGCTTAAATTCATCATTCGATGGATCAACATTACCA-G-A
* ** *
1067902 GATTTCATAATGAGAAGAACTCGTCATCTGAAG-A-AGAAGAAATTCATAATGAGAAGAATTTGT
128 AAGCTCATAATGAGAAGAA-T--TCATCTGAAGAAGAGAAGAAATTCATAATGAGAAGAACTTGT
* * ** * *
1067965 TCAACTTTTTGTTTGAATTCATCACTCGATGGATCAACTTTTCTAGAGAAAGTTCATAATGAGAA
190 TCAACCTTTTGCTCAAATCCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAA
* * *
1068030 GAACTTATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACC
255 GAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAAAAGAACTTATTCAACC
1068083 TTTTGCATAA
Statistics
Matches: 277, Mismatches: 28, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
336 14 0.05
337 134 0.48
338 101 0.36
339 17 0.06
340 1 0.00
341 1 0.00
342 9 0.03
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (334 bp):
ATCAGCATTTCCAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTATTCAACCTTTCGCTTAAATTCATCATTCGATGGATCAACATTACCAGAAAG
CTCATAATGAGAAGAATTCATCTGAAGAAGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACC
TTTTGCTCAAATCCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTT
ATCTGAAGAAGGAAGAAGAAGTTCATAATGAAAAGAACTTATTCAACCATTCGCTTGAATTCGTC
ATTCGATGG
Found at i:1068287 original size:120 final size:119
Alignment explanation
Indices: 1068006--1068291 Score: 280
Period size: 120 Copynumber: 2.4 Consensus size: 119
1067996 GATCAACTTT
* * *
1068006 TCTAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGA
1 TCTAGA-AAAGTTCATAATGAGAAGAACTAATC-CAAGAAGAAGAAGAAGTTCATAAGGAGAAGA
* * * *
1068071 GCTTGTTCAACCTTTTGCATAACTCTATCATAGAAGGAGATATATCATCATCAGCA
64 ACTTGTTCAACCTTTTGCATAACTCTATCACAAAAGGAGATAAATCATCATCAGCA
* * * *
1068127 TTTCTAGAAGGAGTTCATAATGAGAAGAACTCAT-C-TGAAGAAGAAGAAGTTCATAAGGAGGAG
1 --TCTAGAA-AAGTTCATAATGAGAAGAACTAATCCAAGAAGAAGAAGAAGTTCATAAGGAGAAG
* * * **
1068190 AATTTGTTCAACTTTTTGC-TAGATTAC-ATCACAAAAGGAGATAAATTGTCATCCA-CA
63 AACTTGTTCAACCTTTTGCATA-ACT-CTATCACAAAAGGAGATAAATCATCAT-CAGCA
* * *
1068247 -GTGGAAAAGTTCATAATGAGAAGAACTAATCCCA-AAGAAGAAGAA
1 TCTAGAAAAGTTCATAATGAGAAGAACTAATCCAAGAAGAAGAAGAA
1068292 CTTGTTCAAC
Statistics
Matches: 137, Mismatches: 20, Indels: 18
0.78 0.11 0.10
Matches are distributed among these distances:
116 22 0.16
117 16 0.12
119 2 0.01
120 65 0.47
121 3 0.02
122 1 0.01
123 28 0.20
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (119 bp):
TCTAGAAAAGTTCATAATGAGAAGAACTAATCCAAGAAGAAGAAGAAGTTCATAAGGAGAAGAAC
TTGTTCAACCTTTTGCATAACTCTATCACAAAAGGAGATAAATCATCATCAGCA
Found at i:1068446 original size:3 final size:3
Alignment explanation
Indices: 1068438--1068481 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
1068428 TTTGTTTTAT
*
1068438 TTA TTA TTA TTA TT- TTG TT- TTA TTA TTA -TA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1068482 AATAATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 8 0.22
3 29 0.78
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1068462 original size:16 final size:16
Alignment explanation
Indices: 1068435--1068481 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
1068425 TCATTTGTTT
1068435 TATT-TATTATTATTA
1 TATTATATTATTATTA
* * *
1068450 TTTTGTTTTATTATTA
1 TATTATATTATTATTA
1068466 TATTATATTATTATTA
1 TATTATATTATTATTA
1068482 AATAATTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 3 0.12
16 23 0.88
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
TATTATATTATTATTA
Found at i:1068474 original size:23 final size:23
Alignment explanation
Indices: 1068428--1068471 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1068418 TTTTATTTCA
1068428 TTTGTTTTATTTATTATTATTAT
1 TTTGTTTTATTTATTATTATTAT
1068451 TTTGTTTTA-TTATTA-TATTAT
1 TTTGTTTTATTTATTATTATTAT
1068472 ATTATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 6 0.29
23 9 0.43
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (23 bp):
TTTGTTTTATTTATTATTATTAT
Found at i:1069890 original size:29 final size:30
Alignment explanation
Indices: 1069857--1069915 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
1069847 AGGGCTATAA
1069857 ATTTTAATATTT-TATATTTTAATC-CTATT
1 ATTTTAAT-TTTATATATTTTAATCACTATT
* *
1069886 ATTTTAATTTTATATGTTTTAGTCACTATT
1 ATTTTAATTTTATATATTTTAATCACTATT
1069916 TAATTGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (30 bp):
ATTTTAATTTTATATATTTTAATCACTATT
Found at i:1075467 original size:16 final size:17
Alignment explanation
Indices: 1075436--1075471 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1075426 CGTATCGCCG
*
1075436 ACAAAATTTTACTATTC
1 ACAAAATTTCACTATTC
1075453 ACAAAA-TTCACTATTC
1 ACAAAATTTCACTATTC
1075469 ACA
1 ACA
1075472 TGAGTAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (17 bp):
ACAAAATTTCACTATTC
Found at i:1086335 original size:24 final size:24
Alignment explanation
Indices: 1086281--1086338 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
1086271 GGTTGTATGT
* *
1086281 TTTCTTATTCATTGGCAATTAGCA
1 TTTCTTCTTTATTGGCAATTAGCA
1086305 TTTCTTCTTTATTGGCAATTAGCA
1 TTTCTTCTTTATTGGCAATTAGCA
1086329 TTTCTTCTTT
1 TTTCTTCTTT
1086339 GGCATGCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.19, C:0.17, G:0.10, T:0.53
Consensus pattern (24 bp):
TTTCTTCTTTATTGGCAATTAGCA
Found at i:1098661 original size:13 final size:13
Alignment explanation
Indices: 1098643--1098668 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1098633 TTAAGGTTTA
1098643 GTGATTATATGTT
1 GTGATTATATGTT
1098656 GTGATTATATGTT
1 GTGATTATATGTT
1098669 ATTACATTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (13 bp):
GTGATTATATGTT
Found at i:1101172 original size:14 final size:13
Alignment explanation
Indices: 1101153--1101400 Score: 184
Period size: 14 Copynumber: 18.5 Consensus size: 13
1101143 TTATTATATA
1101153 ATTAAATATAAATC
1 ATTAAAT-TAAATC
* * *
1101167 ATTAAAGTCAAGTA
1 ATTAAA-TTAAATC
*
1101181 ATTATTATTAAATC
1 ATTA-AATTAAATC
1101195 ATTAAAGTTAAATC
1 ATTAAA-TTAAATC
* *
1101209 ATTAAAGTTAAGTA
1 ATTAAA-TTAAATC
**
1101223 ATTATTTTTAAATC
1 ATTA-AATTAAATC
*
1101237 ATTAAAGTTAAATA
1 ATTAAA-TTAAATC
*
1101251 ATTATTATTAAATC
1 ATTA-AATTAAATC
1101265 ATTAAAGTTAAATC
1 ATTAAA-TTAAATC
* *
1101279 ATTAAAGT-AATT
1 ATTAAATTAAATC
1101291 ATT--ATTAAATC
1 ATTAAATTAAATC
1101302 ATTAAAATTAAATC
1 ATT-AAATTAAATC
*
1101316 ATTAAAGTTAAATA
1 ATTAAA-TTAAATC
*
1101330 ATTATTATTAAATC
1 ATTA-AATTAAATC
1101344 ATTAAAGTTAAATC
1 ATTAAA-TTAAATC
* *
1101358 ATTAAAGT-AATT
1 ATTAAATTAAATC
1101370 ATT--ATTAAATC
1 ATTAAATTAAATC
1101381 ATTAAAATTAAATC
1 ATT-AAATTAAATC
1101395 ATTAAA
1 ATTAAA
1101401 GTAATTATTA
Statistics
Matches: 184, Mismatches: 32, Indels: 37
0.73 0.13 0.15
Matches are distributed among these distances:
10 4 0.02
11 12 0.07
12 12 0.07
13 11 0.06
14 141 0.77
15 4 0.02
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.40
Consensus pattern (13 bp):
ATTAAATTAAATC
Found at i:1101190 original size:42 final size:42
Alignment explanation
Indices: 1101141--1101254 Score: 167
Period size: 42 Copynumber: 2.7 Consensus size: 42
1101131 ATATATTTAC
* *
1101141 TATTATTATATAATTAAA-TATAAATCATTAAAGTCAAGTAAT
1 TATTATTAAATCATTAAAGT-TAAATCATTAAAGTCAAGTAAT
*
1101183 TATTATTAAATCATTAAAGTTAAATCATTAAAGTTAAGTAAT
1 TATTATTAAATCATTAAAGTTAAATCATTAAAGTCAAGTAAT
* *
1101225 TATTTTTAAATCATTAAAGTTAAATAATTA
1 TATTATTAAATCATTAAAGTTAAATCATTA
1101255 TTATTAAATC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 65 0.98
43 1 0.02
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.42
Consensus pattern (42 bp):
TATTATTAAATCATTAAAGTTAAATCATTAAAGTCAAGTAAT
Found at i:1101212 original size:28 final size:28
Alignment explanation
Indices: 1101153--1101402 Score: 213
Period size: 28 Copynumber: 9.3 Consensus size: 28
1101143 TTATTATATA
* * *
1101153 ATTAAA-TATAAATCATTAAAGTCAAGTA
1 ATTAAAGT-TAAATCATTAAAGTTAAATC
*
1101181 ATTATTA-TTAAATCATTAAAGTTAAATC
1 ATTA-AAGTTAAATCATTAAAGTTAAATC
* * ***
1101209 ATTAAAGTTAAGTAATTATTTTTAAATC
1 ATTAAAGTTAAATCATTAAAGTTAAATC
* *
1101237 ATTAAAGTTAAATAATTATTA-TTAAATC
1 ATTAAAGTTAAATCATTA-AAGTTAAATC
*
1101265 ATTAAAGTTAAATCATTAAAG-T-AATT
1 ATTAAAGTTAAATCATTAAAGTTAAATC
*
1101291 ATT--A-TTAAATCATTAAAATTAAATC
1 ATTAAAGTTAAATCATTAAAGTTAAATC
* *
1101316 ATTAAAGTTAAATAATTATTA-TTAAATC
1 ATTAAAGTTAAATCATTA-AAGTTAAATC
*
1101344 ATTAAAGTTAAATCATTAAAG-T-AATT
1 ATTAAAGTTAAATCATTAAAGTTAAATC
*
1101370 ATT--A-TTAAATCATTAAAATTAAATC
1 ATTAAAGTTAAATCATTAAAGTTAAATC
1101395 ATTAAAGT
1 ATTAAAGT
1101403 AATTATTATT
Statistics
Matches: 182, Mismatches: 24, Indels: 32
0.76 0.10 0.13
Matches are distributed among these distances:
23 26 0.14
24 4 0.02
25 12 0.07
26 12 0.07
27 7 0.04
28 117 0.64
29 4 0.02
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (28 bp):
ATTAAAGTTAAATCATTAAAGTTAAATC
Found at i:1101297 original size:37 final size:37
Alignment explanation
Indices: 1101244--1101418 Score: 280
Period size: 37 Copynumber: 4.6 Consensus size: 37
1101234 ATCATTAAAG
*
1101244 TTAAA-TAATTATTATTAAATCATTAAAGTTAAATCA
1 TTAAAGTAATTATTATTAAATCATTAAAATTAAATCA
1101280 TTAAAGTAATTATTATTAAATCATTAAAATTAAATCA
1 TTAAAGTAATTATTATTAAATCATTAAAATTAAATCA
*
1101317 TTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATCA
1 TTAAAG-----TAATTATTATTAAATCATTAAAATTAAATCA
1101359 TTAAAGTAATTATTATTAAATCATTAAAATTAAATCA
1 TTAAAGTAATTATTATTAAATCATTAAAATTAAATCA
1101396 TTAAAGTAATTATTATTAAATCA
1 TTAAAGTAATTATTATTAAATCA
1101419 ATAATATATG
Statistics
Matches: 130, Mismatches: 3, Indels: 11
0.90 0.02 0.08
Matches are distributed among these distances:
36 5 0.04
37 89 0.68
42 36 0.28
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (37 bp):
TTAAAGTAATTATTATTAAATCATTAAAATTAAATCA
Found at i:1101328 original size:79 final size:79
Alignment explanation
Indices: 1101230--1101402 Score: 346
Period size: 79 Copynumber: 2.2 Consensus size: 79
1101220 GTAATTATTT
1101230 TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTA
1 TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTA
1101295 TTAAATCATTAAAA
66 TTAAATCATTAAAA
1101309 TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTA
1 TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTA
1101374 TTAAATCATTAAAA
66 TTAAATCATTAAAA
1101388 TTAAATCATTAAAGT
1 TTAAATCATTAAAGT
1101403 AATTATTATT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 94 1.00
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.40
Consensus pattern (79 bp):
TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTA
TTAAATCATTAAAA
Found at i:1103483 original size:51 final size:47
Alignment explanation
Indices: 1103424--1103531 Score: 153
Period size: 51 Copynumber: 2.2 Consensus size: 47
1103414 CTAATAACAA
1103424 CAAACTTTTCTTTTATAAAACATGTGCTTGCTTTCGTTTATTGCCAGGGAC
1 CAAACTTTTCTTTTATAAAACATGTGC-T--TTT-GTTTATTGCCAGGGAC
* *
1103475 CAAACTTTTCTTTTATAAAACATGTGCTTTTGTTTATTGCTAGGGCC
1 CAAACTTTTCTTTTATAAAACATGTGCTTTTGTTTATTGCCAGGGAC
1103522 CAATACTTTT
1 CAA-ACTTTT
1103532 GCAACATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
47 17 0.31
48 9 0.17
50 1 0.02
51 27 0.50
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.44
Consensus pattern (47 bp):
CAAACTTTTCTTTTATAAAACATGTGCTTTTGTTTATTGCCAGGGAC
Found at i:1103709 original size:32 final size:32
Alignment explanation
Indices: 1103670--1103755 Score: 154
Period size: 32 Copynumber: 2.7 Consensus size: 32
1103660 ATGATGCTGA
1103670 TGAAGAAGACGCCGAGAACTCCACCCCAAGGC
1 TGAAGAAGACGCCGAGAACTCCACCCCAAGGC
*
1103702 TGAAGAAGACGCCAAGAACTCCACCCCAAGGC
1 TGAAGAAGACGCCGAGAACTCCACCCCAAGGC
*
1103734 TGAAGAAGACGCCGAGAGCTCC
1 TGAAGAAGACGCCGAGAACTCC
1103756 CATGAACATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.35, C:0.33, G:0.26, T:0.07
Consensus pattern (32 bp):
TGAAGAAGACGCCGAGAACTCCACCCCAAGGC
Found at i:1103806 original size:47 final size:47
Alignment explanation
Indices: 1103737--1103844 Score: 189
Period size: 47 Copynumber: 2.3 Consensus size: 47
1103727 CCAAGGCTGA
* *
1103737 AGAAGACGCCGAGAGCTCCCATGAACATTTTTTGAACGAACATATAT
1 AGAAGACGCCGAGAACTCCCATGAACATCTTTTGAACGAACATATAT
*
1103784 AGAAGACGCCGAGAACTCCCATGAACATCTTTTGAACTAACATATAT
1 AGAAGACGCCGAGAACTCCCATGAACATCTTTTGAACGAACATATAT
1103831 AGAAGACGCCGAGA
1 AGAAGACGCCGAGA
1103845 TATCCGATAG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.20
Consensus pattern (47 bp):
AGAAGACGCCGAGAACTCCCATGAACATCTTTTGAACGAACATATAT
Found at i:1105430 original size:73 final size:74
Alignment explanation
Indices: 1105342--1105505 Score: 242
Period size: 73 Copynumber: 2.2 Consensus size: 74
1105332 GTCATTCGAA
* *
1105342 CAACTAGATTGTATGCAATGAGGAG-GAAAAATGGGAAACAAAAAGTGCAC-AAAAGAGATGCAA
1 CAACTAGATTATATGCAACGAGGAGTG-AAAATGGGAAACAAAAAGTGCACAAAAAGAGATGCAA
*
1105405 GGAATTAGTC
65 GGAATTACTC
1105415 CAACTAGATTATATGCAACGAGGAGTGAAAATGGGAAACAAAAAGTGCACAAAAAGAGATGCAAG
1 CAACTAGATTATATGCAACGAGGAGTGAAAATGGGAAACAAAAAGTGCACAAAAAGAGATGCAAG
**
1105480 GCCTTACTC
66 GAATTACTC
* *
1105489 CAACTAAATAATATGCA
1 CAACTAGATTATATGCA
1105506 TAACCAGAGA
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
73 46 0.56
74 36 0.44
ACGTcount: A:0.46, C:0.14, G:0.23, T:0.17
Consensus pattern (74 bp):
CAACTAGATTATATGCAACGAGGAGTGAAAATGGGAAACAAAAAGTGCACAAAAAGAGATGCAAG
GAATTACTC
Found at i:1113524 original size:22 final size:22
Alignment explanation
Indices: 1113485--1113526 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1113475 TTTAGTAGTA
*
1113485 AAATAAAAACATATTAAATGCT
1 AAATAAAAACATAGTAAATGCT
1113507 AAATAAAAA-ATAAGTAAATG
1 AAATAAAAACAT-AGTAAATG
1113527 AGTAAAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (22 bp):
AAATAAAAACATAGTAAATGCT
Found at i:1116153 original size:32 final size:32
Alignment explanation
Indices: 1116117--1116192 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
1116107 GGTGCCTGAG
1116117 AGCCTACCCAAGAAAGTTTCTCGGGGCCTCGA
1 AGCCTACCCAAGAAAGTTTCTCGGGGCCTCGA
* *
1116149 AGCCTACCTAAGAAAGTTTCTCGGGGCCTCGG
1 AGCCTACCCAAGAAAGTTTCTCGGGGCCTCGA
1116181 AGCCTACCCAAG
1 AGCCTACCCAAG
1116193 GGTCACCTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.18
Consensus pattern (32 bp):
AGCCTACCCAAGAAAGTTTCTCGGGGCCTCGA
Found at i:1118740 original size:175 final size:176
Alignment explanation
Indices: 1118531--1118884 Score: 701
Period size: 175 Copynumber: 2.0 Consensus size: 176
1118521 CGAAATATTT
1118531 GAATTTTACACTTAGGGAACCGATTCCCTATAAGGAGGAACCGATTCCCCCCACGCTCCAAGCTG
1 GAATTTTACACTTAGGGAACCGATTCCCTATAAGGAGGAACCGATTCCCCCCACGCTCCAAGCTG
1118596 TTTTATTAATTGTTTTCACACACGTCTTCATTAATTATCCCCAACGTTCAGAAGTAATTCAATGT
66 TTTTATTAATTGTTTTCACACACGTCTTCATTAATTATCCCCAACGTTCAGAAGTAATTCAATGT
1118661 GTATTT-AACAAGTTCTAAAGCCCTTGATCAGCAAGAAATCATAGA
131 GTATTTAAACAAGTTCTAAAGCCCTTGATCAGCAAGAAATCATAGA
1118706 GAATTTTACACTTAGGGAACCGATTCCCTATAAGGAGGAACCGATTCCCCCCACGCTCCAAGCTG
1 GAATTTTACACTTAGGGAACCGATTCCCTATAAGGAGGAACCGATTCCCCCCACGCTCCAAGCTG
1118771 TTTTATTAATTGTTTTCACACACGTCTTCATTAATTATCCCCAACGTTCAGAAGTAATTCAATGT
66 TTTTATTAATTGTTTTCACACACGTCTTCATTAATTATCCCCAACGTTCAGAAGTAATTCAATGT
1118836 GTATTTAAACAAGTTCTAAAGCCCTTGATCAGCAAGAAATCATAGA
131 GTATTTAAACAAGTTCTAAAGCCCTTGATCAGCAAGAAATCATAGA
1118882 GAA
1 GAA
1118885 ACAAGAGAGA
Statistics
Matches: 178, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
175 136 0.76
176 42 0.24
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (176 bp):
GAATTTTACACTTAGGGAACCGATTCCCTATAAGGAGGAACCGATTCCCCCCACGCTCCAAGCTG
TTTTATTAATTGTTTTCACACACGTCTTCATTAATTATCCCCAACGTTCAGAAGTAATTCAATGT
GTATTTAAACAAGTTCTAAAGCCCTTGATCAGCAAGAAATCATAGA
Found at i:1120464 original size:22 final size:22
Alignment explanation
Indices: 1120439--1120482 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1120429 TATGAGAAAT
*
1120439 TGTTTTTAAAATAT-AAAAATGA
1 TGTTTTCAAAAT-TGAAAAATGA
1120461 TGTTTTCAAAATTGAAAAATGA
1 TGTTTTCAAAATTGAAAAATGA
1120483 AAACAAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (22 bp):
TGTTTTCAAAATTGAAAAATGA
Found at i:1129510 original size:29 final size:29
Alignment explanation
Indices: 1129474--1129602 Score: 111
Period size: 29 Copynumber: 4.4 Consensus size: 29
1129464 TCATAAATTG
*
1129474 ATCCTCAAATTTTTGAACATTTCAATTTC
1 ATCCTCAAACTTTTGAACATTTCAATTTC
* * * *
1129503 ATCCTCAAACTTTTAAATATTTTATTTTC
1 ATCCTCAAACTTTTGAACATTTCAATTTC
* * *
1129532 ATTCCT-AAA-TTATGAGCATCATTCTAAATT-
1 A-TCCTCAAACTTTTGAACAT--TTC-AATTTC
1129562 AGTCCTCAAACTTTTGAACATTTCAATTTC
1 A-TCCTCAAACTTTTGAACATTTCAATTTC
*
1129592 ATCCCCAAACT
1 ATCCTCAAACT
1129603 ATGACCTTCA
Statistics
Matches: 76, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
28 6 0.08
29 41 0.54
30 15 0.20
31 6 0.08
32 8 0.11
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.42
Consensus pattern (29 bp):
ATCCTCAAACTTTTGAACATTTCAATTTC
Found at i:1129606 original size:60 final size:60
Alignment explanation
Indices: 1129504--1129636 Score: 151
Period size: 60 Copynumber: 2.2 Consensus size: 60
1129494 TTCAATTTCA
* * * * * * *
1129504 TCCTCAAACTTTTAAATATTTTATTTTCATTCCTAAATTATGAGCATCATTCTAAATTAG
1 TCCTCAAACTTTTAAACATTTCAATTTCATCCCCAAACTATGACCATCATTCTAAATTAG
* * * *
1129564 TCCTCAAACTTTTGAACATTTCAATTTCATCCCCAAACTATGACCTTCATTTTAAATTGG
1 TCCTCAAACTTTTAAACATTTCAATTTCATCCCCAAACTATGACCATCATTCTAAATTAG
1129624 TCC-CTAAACTTTT
1 TCCTC-AAACTTTT
1129637 TTAGCATTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 1 0.02
60 60 0.98
ACGTcount: A:0.31, C:0.22, G:0.05, T:0.42
Consensus pattern (60 bp):
TCCTCAAACTTTTAAACATTTCAATTTCATCCCCAAACTATGACCATCATTCTAAATTAG
Found at i:1132898 original size:2 final size:2
Alignment explanation
Indices: 1132891--1132918 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1132881 TTTTTCGTAC
1132891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1132919 GAATCGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1138324 original size:187 final size:191
Alignment explanation
Indices: 1137993--1138397 Score: 505
Period size: 187 Copynumber: 2.1 Consensus size: 191
1137983 TTAATTGTTC
* * *
1137993 TTTTGACTATTACAAATTAAAAGATAATTTTTAATTTGAATATTAGTAGGATAAATACTCTTTTA
1 TTTTGACCATTACAAATTAAAAGATAATTTTTAATTTGAATATTAGTAGGATAAATACTATTTGA
** * * * *
1138058 ATAAGTTAATTAAAAAATATATTTGTTATCTTTTAAATTTTGAATATTAAAAGATAATTATATGT
66 ATAAGCCAATTAAAAAAGACATTTGTTATCTTTTAAACTTTGAATATTAAAAGATAATTATATAT
* *
1138123 TTTTGTATATTTCAAATTAAAATAATATATGTTTAAGTTTAAATAGTAAAAGGAGTTTACA
131 TTTTGTATATTTCAAATTAAAATAATACATATTTAAGTTTAAATAGTAAAAGGAGTTTACA
* * *
1138184 TTTTGACCATTGCAAATT-AAATAT-ATTATTTAATTTGAATATTA-TAGGATAATTACTATTTG
1 TTTTGACCATTACAAATTAAAAGATAATT-TTTAATTTGAATATTAGTAGGATAAATACTATTTG
* * * * *
1138246 AATATGCCAATTTAAAAAGGCATTTGTTAT-TTTTTAACTTTGAATATT-AAAGATACTTATATA
65 AATAAGCCAATTAAAAAAGACATTTGTTATCTTTTAAACTTTGAATATTAAAAGATAATTATATA
* * * * *
1138309 TTTTTGTATATTTCAAATTAAAATAATACCTATTTAAGTTTGAATGGTAAAATGAGTTTTATA
130 TTTTTGTATATTTCAAATTAAAATAATACATATTTAAGTTTAAATAGTAAAAGGAG-TTTACA
* ** *
1138372 TTTTAAATATTTCAAATTAAAAGATA
1 TTTTGACCATTACAAATTAAAAGATA
1138398 TTATTATCTA
Statistics
Matches: 181, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
187 63 0.35
188 35 0.19
189 46 0.25
190 21 0.12
191 16 0.09
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (191 bp):
TTTTGACCATTACAAATTAAAAGATAATTTTTAATTTGAATATTAGTAGGATAAATACTATTTGA
ATAAGCCAATTAAAAAAGACATTTGTTATCTTTTAAACTTTGAATATTAAAAGATAATTATATAT
TTTTGTATATTTCAAATTAAAATAATACATATTTAAGTTTAAATAGTAAAAGGAGTTTACA
Found at i:1141246 original size:2 final size:2
Alignment explanation
Indices: 1141241--1141268 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1141231 GCACATTGTC
1141241 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
1141269 TTAGCACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1143970 original size:31 final size:31
Alignment explanation
Indices: 1143893--1143961 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
1143883 TAAATGAAAA
* * ** * *
1143893 TAAGATCTGGTCACTTTCGTTTTTGTTTAGT
1 TAAGATGTAGTCACTTTCAATTTTATTTAAT
1143924 TAAGATGTAGTCACTTTCAATTTTATTTAAT
1 TAAGATGTAGTCACTTTCAATTTTATTTAAT
1143955 TAAGATG
1 TAAGATG
1143962 CGTTCACTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (31 bp):
TAAGATGTAGTCACTTTCAATTTTATTTAAT
Found at i:1145906 original size:19 final size:19
Alignment explanation
Indices: 1145882--1145920 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1145872 GAAAACCGAT
*
1145882 TTTGACCGGTCTGAATCGG
1 TTTGACCGGTCTGAACCGG
*
1145901 TTTGACTGGTCTGAACCGG
1 TTTGACCGGTCTGAACCGG
1145920 T
1 T
1145921 CTTTCCCGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.15, C:0.21, G:0.31, T:0.33
Consensus pattern (19 bp):
TTTGACCGGTCTGAACCGG
Found at i:1153066 original size:22 final size:22
Alignment explanation
Indices: 1153040--1153089 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
1153030 CCCGACCCGA
*
1153040 CCGACCCGACCCAACCGTTGAC
1 CCGACCCGACCCAACCGTTAAC
**
1153062 CCGACCCGACCTGACCGTTAAC
1 CCGACCCGACCCAACCGTTAAC
1153084 CCGACC
1 CCGACC
1153090 TGACTGTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.50, G:0.18, T:0.10
Consensus pattern (22 bp):
CCGACCCGACCCAACCGTTAAC
Found at i:1157079 original size:33 final size:32
Alignment explanation
Indices: 1157014--1157104 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 32
1157004 ATTGCAAATT
*
1157014 TTATCTTGGTTGGTGGTCAACTATTTGAAAAA
1 TTATCTTGGTTGGTGGCCAACTATTTGAAAAA
*
1157046 TTAATCTTGGTTGGTGGCCAACTCA-TTGGAAAA
1 TT-ATCTTGGTTGGTGGCCAACT-ATTTGAAAAA
* *
1157079 TTCT-TTGGTAGGTGGCCAACTTATTT
1 TTATCTTGGTTGGTGGCCAAC-TATTT
1157105 TTCATGTTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
31 16 0.31
32 6 0.12
33 28 0.55
34 1 0.02
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.40
Consensus pattern (32 bp):
TTATCTTGGTTGGTGGCCAACTATTTGAAAAA
Found at i:1161795 original size:33 final size:33
Alignment explanation
Indices: 1161758--1161822 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1161748 TGGAAATTTC
* *
1161758 ATCTTGGTTGGTGGCCAACTAATTGAAAAATTA
1 ATCTTGGTTAGAGGCCAACTAATTGAAAAATTA
* *
1161791 ATCTTGGTTAGAGGCCAACTCATTGGAAAATT
1 ATCTTGGTTAGAGGCCAACTAATTGAAAAATT
1161823 CTTTAGTAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (33 bp):
ATCTTGGTTAGAGGCCAACTAATTGAAAAATTA
Found at i:1163482 original size:6 final size:6
Alignment explanation
Indices: 1163464--1163506 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
1163454 TCGGCTCGGC
* * *
1163464 TCGTGG TCATGG TCGTGG TTGTGG TTGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1163507 AATACGTGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.02, C:0.12, G:0.47, T:0.40
Consensus pattern (6 bp):
TCGTGG
Found at i:1166777 original size:18 final size:18
Alignment explanation
Indices: 1166754--1166798 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1166744 TCACGAAATG
*
1166754 TAAGATTACCAGTGGGAA
1 TAAGATTACCAGCGGGAA
* *
1166772 TAAGATTATCGGCGGGAA
1 TAAGATTACCAGCGGGAA
1166790 TAAGATTAC
1 TAAGATTAC
1166799 TGGAATGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (18 bp):
TAAGATTACCAGCGGGAA
Found at i:1170905 original size:36 final size:36
Alignment explanation
Indices: 1170855--1170968 Score: 169
Period size: 36 Copynumber: 3.2 Consensus size: 36
1170845 AGGGGAGCGT
*
1170855 TATA-AATATCGACAATAACTT-ATTCTTAAATCAGC
1 TATATAATATAGACAATAA-TTGATTCTTAAATCAGC
*
1170890 TATATAATATAGACAATAATTGATTTTTAAATCAGC
1 TATATAATATAGACAATAATTGATTCTTAAATCAGC
* *
1170926 TATATAGTATAGACAATAATTGATTCTTAAATCAAC
1 TATATAATATAGACAATAATTGATTCTTAAATCAGC
1170962 TATATAA
1 TATATAA
1170969 AGGGGTTATG
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
35 6 0.08
36 65 0.92
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.37
Consensus pattern (36 bp):
TATATAATATAGACAATAATTGATTCTTAAATCAGC
Found at i:1180428 original size:18 final size:18
Alignment explanation
Indices: 1180405--1180440 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1180395 GTAGTTTTTT
1180405 CTATGTTTTAAAAAACTA
1 CTATGTTTTAAAAAACTA
1180423 CTATGTTTTAAAAAACTA
1 CTATGTTTTAAAAAACTA
1180441 TCAAGTAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (18 bp):
CTATGTTTTAAAAAACTA
Found at i:1180804 original size:20 final size:20
Alignment explanation
Indices: 1180779--1180848 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
1180769 CTATCGCAAA
1180779 TTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATTTTCCAT
* ** *
1180799 TTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGAT-TTTCCAT
* *
1180820 ATCGCGTTGCGATTTTTCAT
1 TTCGCGTTGCGATTTTCCAT
1180840 TTCGCGTTG
1 TTCGCGTTG
1180849 TGATAGTCTA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 24 0.62
21 15 0.38
ACGTcount: A:0.14, C:0.20, G:0.24, T:0.41
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCCAT
Found at i:1180900 original size:41 final size:42
Alignment explanation
Indices: 1180783--1180933 Score: 157
Period size: 41 Copynumber: 3.7 Consensus size: 42
1180773 CGCAAATTCG
** * *
1180783 CGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAATCG-
1 CGTTGCGATTTTCCAAATCGCGTTGCGATAGTCT-ACAATTGT
* ** *
1180824 CGTTGCGATTTTTCATTTCGCGTTGTGATAGTCTACAATTGT
1 CGTTGCGATTTTCCAAATCGCGTTGCGATAGTCTACAATTGT
* *
1180866 CGTTGCGATTTTCCAAATC-CGTTACGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATCGCGTTGCGATAGTCTACAATTGT
* *
1180907 TGTTGCGATTTTCCAAAT-TCGTTGCGA
1 CGTTGCGATTTTCCAAATCGCGTTGCGA
1180934 AAATTCATTG
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
41 78 0.82
42 17 0.18
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (42 bp):
CGTTGCGATTTTCCAAATCGCGTTGCGATAGTCTACAATTGT
Found at i:1181516 original size:5 final size:5
Alignment explanation
Indices: 1181506--1181542 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
1181496 CCGCCGCCGC
1181506 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CG
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CG
1181543 GGTCATGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.41, G:0.22, T:0.38
Consensus pattern (5 bp):
CGTCT
Found at i:1181557 original size:6 final size:6
Alignment explanation
Indices: 1181543--1181577 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
1181533 TCTCGTCTCG
*
1181543 GGTCAT GGTCGT GGTCGT GGTCGT GGTCGT GGTCG
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCG
1181578 GTCGTGTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.03, C:0.17, G:0.49, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:1181702 original size:22 final size:22
Alignment explanation
Indices: 1181677--1181746 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
1181667 TTGAAAAATT
1181677 GCAACGCCAATTGTAGACTATC
1 GCAACGCCAATTGTAGACTATC
**
1181699 GCAACG--AATT-TAGAAAATC
1 GCAACGCCAATTGTAGACTATC
* *
1181718 GCAACGACAACTGTAGACTATC
1 GCAACGCCAATTGTAGACTATC
1181740 GCAACGC
1 GCAACGC
1181747 GAAATGGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 13 0.33
20 4 0.10
21 3 0.08
22 19 0.49
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (22 bp):
GCAACGCCAATTGTAGACTATC
Found at i:1181709 original size:41 final size:41
Alignment explanation
Indices: 1181652--1181745 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 41
1181642 CTTTTTTTTT
* * * *
1181652 ACTATCACAACGAATTT-GAAAAATTGCAACGCCAATTGTAG
1 ACTATCGCAACGAATTTAG-AAAATCGCAACGACAACTGTAG
1181693 ACTATCGCAACGAATTTAGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTAGAAAATCGCAACGACAACTGTAG
1181734 ACTATCGCAACG
1 ACTATCGCAACG
1181746 CGAAATGGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 47 0.98
42 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.21
Consensus pattern (41 bp):
ACTATCGCAACGAATTTAGAAAATCGCAACGACAACTGTAG
Done.