Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 134 of 208
Found at i:43909400 original size:44 final size:44
Alignment explanation
Indices: 43909352--43909631 Score: 252
Period size: 44 Copynumber: 6.5 Consensus size: 44
43909342 TCCAATCTTC
* *
43909352 CTGAAGTTACAGTGGAGTGGATTAAAAACACAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGTAGATTAAAAACACAGATCTTATCTCT
* *** *
43909396 CTGAAGTTGCAGTAGAGTAGA-TCGCAAC-CA-ATCTTATCTCC
1 CTGAAGTTGCAGTGGAGTAGATTAAAAACACAGATCTTATCTCT
**
43909437 CTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGTAGATTAAAAACACAGATCTTATCTCT
* *** * *
43909481 CTGAAGTTGCAGTAGAGTAGA-TCGCAAC-CA-ATCTTATGTCC
1 CTGAAGTTGCAGTGGAGTAGATTAAAAACACAGATCTTATCTCT
* * * **** **
43909522 CTAAAGTTGCAGTGGAGCAGATTGAAGTTGCTAG-TCCAATCT-T
1 CTGAAGTTGCAGTGGAGTAGATTAAAAACAC-AGATCTTATCTCT
*
43909565 CTTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCT
1 C-TGAAGTTGCAGTGGAGTAGATTAAAAACACAGATCTTATCTCT
*
43909610 CTGAAGTTGCAGTTGAGTAGAT
1 CTGAAGTTGCAGTGGAGTAGAT
43909632 CGTAACCAAT
Statistics
Matches: 181, Mismatches: 45, Indels: 20
0.74 0.18 0.08
Matches are distributed among these distances:
41 55 0.30
42 9 0.05
43 14 0.08
44 101 0.56
45 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAGTAGATTAAAAACACAGATCTTATCTCT
Found at i:43909453 original size:85 final size:85
Alignment explanation
Indices: 43909346--43909544 Score: 344
Period size: 85 Copynumber: 2.3 Consensus size: 85
43909336 TACTAGTCCA
* * *
43909346 ATCTTCCTGAAGTTACAGTGGAGTGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAG
1 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAG
43909411 AGTAGATCGCAACCAATCTT
66 AGTAGATCGCAACCAATCTT
43909431 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAG
1 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAG
43909496 AGTAGATCGCAACCAATCTT
66 AGTAGATCGCAACCAATCTT
* * *
43909516 ATGTCCCTAAAGTTGCAGTGGAGCAGATT
1 ATCTCCCTGAAGTTGCAGTGGAGCGGATT
43909545 GAAGTTGCTA
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 108 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (85 bp):
ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAG
AGTAGATCGCAACCAATCTT
Found at i:43909660 original size:67 final size:67
Alignment explanation
Indices: 43909579--43909712 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 67
43909569 AAGTTGCAGT
* * *
43909579 GGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTTGAGTAGATCGTAACCAATCT
1 GGAGCAGAATAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGTAACCAATCT
43909644 TA
66 TA
43909646 GGAGCAGAATAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGTAACCAATCT
1 GGAGCAGAATAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGTAACCAATCT
43909711 TA
66 TA
43909713 TCTCCCTGAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (67 bp):
GGAGCAGAATAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGTAACCAATCT
TA
Found at i:43909796 original size:196 final size:196
Alignment explanation
Indices: 43909450--43909841 Score: 581
Period size: 196 Copynumber: 2.0 Consensus size: 196
43909440 AAGTTGCAGT
* * *
43909450 GGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCAACCAATCT
1 GGAGCAGAATAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCAACCAATCT
* * ** * * *
43909515 TATGTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTGCTAGTCCAATCTTCTTGAAGTTGCAGTG
66 TATCTCCCTAAAGTTACAGCAGAGCAGATTGAAGCTACTAATCCAATCTTCTTGAAGTTGCAGTG
* * *
43909580 GAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTTGAGTAGATCGTAACCAATCTT
131 GAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCAACCAATCTT
43909645 A
196 A
*
43909646 GGAGCAGAATAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGTAACCAATCT
1 GGAGCAGAATAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCAACCAATCT
* * *
43909711 TATCTCCCTGAAGTTACAGCAGAGTAGATTGAAGCTATTAAT-CATATC-TCTCTGAAGTTGCAG
66 TATCTCCCTAAAGTTACAGCAGAGCAGATTGAAGCTACTAATCCA-ATCTTCT-TGAAGTTGCAG
* *
43909774 TGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCAACCAATC
129 TGGAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCAACCAATC
43909839 TTA
194 TTA
43909842 TCTCCCTGAA
Statistics
Matches: 175, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
195 5 0.03
196 170 0.97
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (196 bp):
GGAGCAGAATAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCAACCAATCT
TATCTCCCTAAAGTTACAGCAGAGCAGATTGAAGCTACTAATCCAATCTTCTTGAAGTTGCAGTG
GAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCAACCAATCTT
A
Found at i:43909803 original size:44 final size:43
Alignment explanation
Indices: 43909646--43910174 Score: 228
Period size: 44 Copynumber: 12.3 Consensus size: 43
43909636 ACCAATCTTA
* * *
43909646 GGAGCAGAATAAAAACACAGATCTTATCTCTCTAAAGTTGCAGT
1 GGAGCAGATTAAAATCACA-ATCTTATCTCTCTGAAGTTGCAGT
* * *** * * *
43909690 AGAGTAGATCGTAA-C-CAATCTTATCTCCCTGAAGTTACAGC
1 GGAGCAGATTAAAATCACAATCTTATCTCTCTGAAGTTGCAGT
* * * * * *
43909731 AGAGTAGATT-GAAGCTATTAATCATATCTCTCTGAAGTTGCAGT
1 GGAGCAGATTAAAATC-A-CAATCTTATCTCTCTGAAGTTGCAGT
* *
43909775 GGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGT
1 GGAGCAGATTAAAATCACA-ATCTTATCTCTCTGAAGTTGCAGT
* * *** * * *
43909819 AGAGTAGATCGCAA-C-CAATCTTATCTCCCTGAATTTGCAGC
1 GGAGCAGATTAAAATCACAATCTTATCTCTCTGAAGTTGCAGT
* * * *
43909860 GGAGTAGATT-GAAGCTATTAAT-TCTATCT-TCCTGAAGTTGCAGT
1 GGAGCAGATTAAAATC-A-CAATCT-TATCTCT-CTGAAGTTGCAGT
* * *
43909904 GGAGCGGATTAAAATCACAAATCTTATCTTTCTGAAGTTGCAAT
1 GGAGCAGATTAAAATCAC-AATCTTATCTCTCTGAAGTTGCAGT
* * * * * ** *
43909948 AGAGCAGA-TCACATC-CAGTCTTATCTCCCT-AAGCAGTAGT
1 GGAGCAGATTAAAATCACAATCTTATCTCTCTGAAGTTGCAGT
* * * * * *
43909988 GGAGCACA-CAGAAGA-AATCAATCCTATCTCCCTGAAGTAGCAGT
1 GGAGCAGATTA-AA-ATCA-CAATCTTATCTCTCTGAAGTTGCAGT
* * *
43910032 GGATCCGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGT
1 GGAGCAGATTAAAATCACA-ATCTTATCTCTCTGAAGTTGCAGT
* * *** * *
43910076 AGAGTAGATCGCAAT--CAATCTTATCTCCCTGAAGTTGCAGC
1 GGAGCAGATTAAAATCACAATCTTATCTCTCTGAAGTTGCAGT
* * * * *
43910117 GGAGTAGATT-GAAGCTATTAAT-TCTATCTCCCTGAAGTTGCAGT
1 GGAGCAGATTAAAATC-A-CAATCT-TATCTCTCTGAAGTTGCAGT
43910161 GGAGCAGATTAAAA
1 GGAGCAGATTAAAA
43910175 CGATGAATCC
Statistics
Matches: 360, Mismatches: 95, Indels: 59
0.70 0.18 0.11
Matches are distributed among these distances:
40 18 0.05
41 101 0.28
42 8 0.02
43 26 0.07
44 196 0.54
45 11 0.03
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (43 bp):
GGAGCAGATTAAAATCACAATCTTATCTCTCTGAAGTTGCAGT
Found at i:43910145 original size:85 final size:85
Alignment explanation
Indices: 43909666--43910169 Score: 232
Period size: 85 Copynumber: 5.9 Consensus size: 85
43909656 AAAAACACAG
* * ** * * *
43909666 ATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGTAA-C--CAA-TCTTATCTCCCTGAAGTTA
1 ATCTTATCTCCCTGAAGTTGCAGCGGAGTAGATTG-AAGCATCAATTCTTATCTCTCTGAAGTTG
* * * *
43909727 CAGCAGAGTAGATTGAAGCTATTA
65 CAGTAGAGCAGATCGAA---ATCA
* * * ** * * *
43909751 ATCATATCTCTCTGAAGTTGCAGTGGAGCGGATT-AA-AATCACAGATCTTATCTCTCTAAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGCATCA-A-TTCTTATCTCTCTGAAGTT
* * *
43909814 GCAGTAGAGTAGATCGCAACCA
64 GCAGTAGAGCAGATCGAAATCA
* *
43909836 ATCTTATCTCCCTGAATTTGCAGCGGAGTAGATTGAAGCTATTAATTC-TATCT-TCCTGAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGC-ATCAATTCTTATCTCT-CTGAAGTT
* * **
43909899 GCAGTGGAGCGGATTAAAATCACAA
64 GCAGTAGAGCAGATCGAAAT--C-A
** *** * * * * * ** *
43909924 ATCTTATCTTTCTGAAGTTGCAATAGAGCAGA-T-CA-CATCCAGTCTTATCTCCCT-AAGCAGT
1 ATCTTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGCATCAATTCTTATCTCTCTGAAGTTGC
* *
43909985 AGTGGAGCACACAGA-AGAAATCA
66 AGT--AG-A-GCAGATCGAAATCA
* * * * * *
43910008 ATCCTATCTCCCTGAAGTAGCAGTGGA-TCCGATTAAAAACA-CAGA-TCTTATCTCTCTGAAGT
1 ATCTTATCTCCCTGAAGTTGCAGCGGAGT-AGATT-GAAGCATCA-ATTCTTATCTCTCTGAAGT
* *
43910070 TGCAGTAGAGTAGATCGCAATCA
63 TGCAGTAGAGCAGATCGAAATCA
* *
43910093 ATCTTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGCTATTAATTC-TATCTCCCTGAAGTTG
1 ATCTTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGC-ATCAATTCTTATCTCTCTGAAGTTG
*
43910157 CAGTGGAGCAGAT
65 CAGTAGAGCAGAT
43910170 TAAAACGATG
Statistics
Matches: 309, Mismatches: 80, Indels: 60
0.69 0.18 0.13
Matches are distributed among these distances:
83 2 0.01
84 43 0.14
85 158 0.51
86 13 0.04
87 21 0.07
88 72 0.23
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (85 bp):
ATCTTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGCATCAATTCTTATCTCTCTGAAGTTGC
AGTAGAGCAGATCGAAATCA
Found at i:43910200 original size:129 final size:129
Alignment explanation
Indices: 43909646--43910213 Score: 642
Period size: 129 Copynumber: 4.4 Consensus size: 129
43909636 ACCAATCTTA
* * * * * * *
43909646 GGAGCAGAATAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGTAACCAATCT
1 GGAGCGGATTAAAATCACAGATCTTATCCCTATGAAGTTGCAGTAGAGTAGATCGCAACCAATCT
* * *
43909711 TATCTCCCTGAAGTTACAGCAGAGTAGATTGAAGCTATTAA-TCATATCTCTCTGAAGTTGCAGT
66 TATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGCTATTAATTC-TATCTCCCTGAAGTTGCAGT
* * *
43909775 GGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCAACCAATCT
1 GGAGCGGATTAAAATCACAGATCTTATCCCTATGAAGTTGCAGTAGAGTAGATCGCAACCAATCT
* *
43909840 TATCTCCCTGAATTTGCAGCGGAGTAGATTGAAGCTATTAATTCTATCTTCCTGAAGTTGCAGT
66 TATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGCTATTAATTCTATCTCCCTGAAGTTGCAGT
* ** * * * * * *
43909904 GGAGCGGATTAAAATCACAAATCTTATCTTTCTGAAGTTGCAATAGAGCAGATCACATCCAGTCT
1 GGAGCGGATTAAAATCACAGATCTTATCCCTATGAAGTTGCAGTAGAGTAGATCGCAACCAATCT
** * * * * ** ** * * *
43909969 TATCTCCCT-AAGCAGTAGTGGAGCACACAGAAGAAATCAATCCTATCTCCCTGAAGTAGCAGT
66 TATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGCTATTAATTCTATCTCCCTGAAGTTGCAGT
* * * * * *
43910032 GGATCCGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCAATCAATCT
1 GGAGCGGATTAAAATCACAGATCTTATCCCTATGAAGTTGCAGTAGAGTAGATCGCAACCAATCT
43910097 TATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGCTATTAATTCTATCTCCCTGAAGTTGCAGT
66 TATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGCTATTAATTCTATCTCCCTGAAGTTGCAGT
* * * *
43910161 GGAGCAGATTAAAA-CGA-TGAATCCTA-CACCTATGAAGTTGCAGTAGAGAAGAT
1 GGAGCGGATTAAAATC-ACAG-ATCTTATC-CCTATGAAGTTGCAGTAGAGTAGAT
43910214 TGAAGCTACA
Statistics
Matches: 371, Mismatches: 63, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
128 105 0.28
129 264 0.71
130 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (129 bp):
GGAGCGGATTAAAATCACAGATCTTATCCCTATGAAGTTGCAGTAGAGTAGATCGCAACCAATCT
TATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGCTATTAATTCTATCTCCCTGAAGTTGCAGT
Found at i:43913752 original size:21 final size:20
Alignment explanation
Indices: 43913719--43913758 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
43913709 AAATTATGTT
*
43913719 AAAAGAAATTGAGGAAGGAGG
1 AAAAGAAAATGAGG-AGGAGG
*
43913740 AAAATAAAATGAGGAGGAG
1 AAAAGAAAATGAGGAGGAG
43913759 AAGAGAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.55, C:0.00, G:0.35, T:0.10
Consensus pattern (20 bp):
AAAAGAAAATGAGGAGGAGG
Found at i:43914499 original size:16 final size:16
Alignment explanation
Indices: 43914481--43914511 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
43914471 GACAAGTGTT
43914481 TTTTTTTAAT-ATTTA
1 TTTTTTTAATAATTTA
43914496 TTTTTTTAATAATTTA
1 TTTTTTTAATAATTTA
43914512 CTATATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTTAATAATTTA
Found at i:43915516 original size:29 final size:27
Alignment explanation
Indices: 43915471--43915532 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
43915461 TCGTTTTAAT
43915471 AAATTAAAGTTTATTTACATTATTTAAAA
1 AAATTAAAGTTTATTTA-ATT-TTTAAAA
*
43915500 AAATTATAA-TTTTTTTAATTTTT-AAA
1 AAATTA-AAGTTTATTTAATTTTTAAAA
43915526 AAATTAA
1 AAATTAA
43915533 TTAATTGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 1 0.03
26 9 0.29
27 3 0.10
28 3 0.10
29 13 0.42
30 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
AAATTAAAGTTTATTTAATTTTTAAAA
Found at i:43919195 original size:9 final size:9
Alignment explanation
Indices: 43919181--43919214 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
43919171 TGCATGCTTA
43919181 TACCATCTC
1 TACCATCTC
*
43919190 TACCATACTA
1 TACCAT-CTC
43919200 TACCATCTC
1 TACCATCTC
43919209 TACCAT
1 TACCAT
43919215 ACTATCTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.29, C:0.38, G:0.00, T:0.32
Consensus pattern (9 bp):
TACCATCTC
Found at i:43919203 original size:19 final size:19
Alignment explanation
Indices: 43919179--43919219 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
43919169 TTTGCATGCT
43919179 TATACCATCTCTACCATAC
1 TATACCATCTCTACCATAC
43919198 TATACCATCTCTACCATAC
1 TATACCATCTCTACCATAC
43919217 TAT
1 TAT
43919220 CTCATTCACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (19 bp):
TATACCATCTCTACCATAC
Found at i:43919792 original size:21 final size:21
Alignment explanation
Indices: 43919754--43919823 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
43919744 ACATCATTAT
43919754 CAGAAGCTCG-AA-GGCTGAA
1 CAGAAGCTCGTAAGGGCTGAA
43919773 CAGAAGCTCGTAAGGGCTGAA
1 CAGAAGCTCGTAAGGGCTGAA
* * * * * *
43919794 CGGAAACCCATAAGGGTTAAA
1 CAGAAGCTCGTAAGGGCTGAA
43919815 CAGAAGCTC
1 CAGAAGCTC
43919824 AATAGAGCTG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 10 0.25
20 2 0.05
21 28 0.70
ACGTcount: A:0.37, C:0.21, G:0.29, T:0.13
Consensus pattern (21 bp):
CAGAAGCTCGTAAGGGCTGAA
Found at i:43919834 original size:42 final size:42
Alignment explanation
Indices: 43919771--43919883 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
43919761 TCGAAGGCTG
* * *
43919771 AACAGAAGCTCGTAAGGGCTGAACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGAGTTA
* * *
43919813 AACAGAAGCTCA-ATAGAGCTGAACGAAAACTCATATGAGTTA
1 AACAGAAGCTCATA-AGAGCTGAACGGAAACCCATAAGAGTTA
* *
43919855 AACAGAAGCTCATGAGAGCTAAACGGAAA
1 AACAGAAGCTCATAAGAGCTGAACGGAAA
43919884 GTAAACACGA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
41 1 0.02
42 59 0.98
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.15
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGAGTTA
Found at i:43919877 original size:21 final size:20
Alignment explanation
Indices: 43919811--43919878 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
43919801 CCATAAGGGT
43919811 TAAACAGAAGCTCAATAGAGC
1 TAAACAGAAGCTC-ATAGAGC
* * *
43919832 TGAAC-GAAAACTCATATGAGT
1 TAAACAG-AAGCTCATA-GAGC
43919853 TAAACAGAAGCTCATGAGAGC
1 TAAACAGAAGCTCAT-AGAGC
43919874 TAAAC
1 TAAAC
43919879 GGAAAGTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
20 4 0.11
21 31 0.84
22 2 0.05
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.18
Consensus pattern (20 bp):
TAAACAGAAGCTCATAGAGC
Found at i:43922032 original size:20 final size:20
Alignment explanation
Indices: 43922007--43922055 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
43921997 AGTATACAAC
*
43922007 ATCTCAACATATCTTCCAGA
1 ATCTCAACATATCCTCCAGA
*
43922027 ATCTCAACATATCCTCTAGA
1 ATCTCAACATATCCTCCAGA
43922047 ATCTCAACA
1 ATCTCAACA
43922056 AAGTTGAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.29
Consensus pattern (20 bp):
ATCTCAACATATCCTCCAGA
Found at i:43924107 original size:6 final size:6
Alignment explanation
Indices: 43924082--43924118 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
43924072 CCAAACACAC
43924082 CAGTATA CAGTAA TCAGTAA CAGTAA CAGTAA CAGTA
1 CAGTA-A CAGTAA -CAGTAA CAGTAA CAGTAA CAGTA
43924119 TTCAACACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (6 bp):
CAGTAA
Found at i:43924149 original size:45 final size:45
Alignment explanation
Indices: 43924093--43924247 Score: 231
Period size: 45 Copynumber: 3.4 Consensus size: 45
43924083 AGTATACAGT
*
43924093 AATCAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTG
* * * * *
43924138 AACCTGTAACAGTAACGGTAACTGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTG
*
43924183 AGTCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTG-TCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCT-G
43924228 AATCAGTAACAGTAACAGTA
1 AATCAGTAACAGTAACAGTA
43924248 GTCGGCACAT
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 96 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (45 bp):
AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTG
Found at i:43924190 original size:39 final size:39
Alignment explanation
Indices: 43924102--43924274 Score: 134
Period size: 45 Copynumber: 4.2 Consensus size: 39
43924092 TAATCAGTAA
* *
43924102 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCG-A---GT
* *
43924145 AACAGTAACGGTAACTGTATTCGACACACAAAGTGCCGAGTCAGT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCC--G--AGT
* *
43924190 AACAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAAT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
* * *
43924231 CAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTGA-T
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCC-GAGT
43924269 CAGTAA
1 CAGTAA
43924275 GCCGGCAAAT
Statistics
Matches: 111, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
38 13 0.12
39 26 0.23
41 2 0.02
43 1 0.01
45 67 0.60
47 1 0.01
48 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
Found at i:43925272 original size:11 final size:11
Alignment explanation
Indices: 43925258--43925283 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43925248 CTTTTTCTTC
43925258 TTTCTCCCCTG
1 TTTCTCCCCTG
43925269 TTTCTCCCCTG
1 TTTCTCCCCTG
43925280 TTTC
1 TTTC
43925284 GTCTCTTCTA
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:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:43931615 original size:6 final size:6
Alignment explanation
Indices: 43931591--43931626 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
43931581 CAAACACACT
43931591 AGTATAC AGTAATC AGTAAC AGTAAC AGTAAC AGTA
1 AGTA-AC AGTAA-C AGTAAC AGTAAC AGTAAC AGTA
43931627 TTCAACACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 18 0.64
7 10 0.36
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.22
Consensus pattern (6 bp):
AGTAAC
Found at i:43931657 original size:45 final size:45
Alignment explanation
Indices: 43931601--43931755 Score: 247
Period size: 45 Copynumber: 3.4 Consensus size: 45
43931591 AGTATACAGT
* *
43931601 AATCAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * * *
43931646 AACCTGTAACAGTAACGGTAACTGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
43931691 AGTCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
43931736 AATCAGTAACAGTAACAGTA
1 AATCAGTAACAGTAACAGTA
43931756 GTCGGCACAT
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 98 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (45 bp):
AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:43931698 original size:39 final size:39
Alignment explanation
Indices: 43931610--43931782 Score: 143
Period size: 45 Copynumber: 4.2 Consensus size: 39
43931600 TAATCAGTAA
* *
43931610 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCG-A---GT
* *
43931653 AACAGTAACGGTAACTGTATTCGACACACAAAGTGCCGAGTCAGT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCC--G--AGT
*
43931698 AACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
* * *
43931739 CAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTGA-T
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCC-GAGT
43931777 CAGTAA
1 CAGTAA
43931783 GCCGGCAAAT
Statistics
Matches: 113, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
38 14 0.12
39 26 0.23
41 2 0.02
43 1 0.01
45 68 0.60
47 1 0.01
48 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
Found at i:43932043 original size:39 final size:40
Alignment explanation
Indices: 43931959--43932043 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
43931949 TTCTTTACTT
* * * *
43931959 CAGTAATTTCACAATTCAATGCATTATACATAACAATATT
1 CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
*
43931999 CAGTATTTTCACAATTCACT-CAGTAAT-CAAAACAATATC
1 CAGTATTTTCACAATTCAATGCA-TAATACAAAACAATATC
43932038 CAGTAT
1 CAGTAT
43932044 CTCATAATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 18 0.46
40 21 0.54
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (40 bp):
CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
Found at i:43932780 original size:11 final size:11
Alignment explanation
Indices: 43932764--43932789 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43932754 CTTTTTCTTC
43932764 TTTCTCCCCTG
1 TTTCTCCCCTG
43932775 TTTCTCCCCTG
1 TTTCTCCCCTG
43932786 TTTC
1 TTTC
43932790 GTCTCTTCTA
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:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:43935286 original size:4 final size:4
Alignment explanation
Indices: 43935277--43935304 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
43935267 CTAAAATATA
43935277 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
43935305 TTATTCAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:43936659 original size:23 final size:23
Alignment explanation
Indices: 43936633--43936677 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
43936623 CTTTGAAGGG
43936633 CTGAGGGGTAACCCTAACACAAA
1 CTGAGGGGTAACCCTAACACAAA
43936656 CTGAGGGGTAACCCTAACACAA
1 CTGAGGGGTAACCCTAACACAA
43936678 CTTACCCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.27, G:0.22, T:0.13
Consensus pattern (23 bp):
CTGAGGGGTAACCCTAACACAAA
Found at i:43938521 original size:36 final size:36
Alignment explanation
Indices: 43938472--43938545 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
43938462 GGAGGAGCAT
* *
43938472 ATCAGTCAGAATAGATCTAAAAAGCTGCTGAACTGA
1 ATCAGTCAAAATAGATCCAAAAAGCTGCTGAACTGA
* *
43938508 ATCAGTCAAAATAGATCCGAAAGGCTGCTGAACTGA
1 ATCAGTCAAAATAGATCCAAAAAGCTGCTGAACTGA
43938544 AT
1 AT
43938546 AGAGTTTACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.22
Consensus pattern (36 bp):
ATCAGTCAAAATAGATCCAAAAAGCTGCTGAACTGA
Found at i:43950240 original size:18 final size:18
Alignment explanation
Indices: 43950217--43950256 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
43950207 AGATGACAAT
43950217 GAAGATGCAG-CTGAGGAA
1 GAAGATGCAGTC-GAGGAA
*
43950235 GAAGATGCTGTCGAGGAA
1 GAAGATGCAGTCGAGGAA
43950253 GAAG
1 GAAG
43950257 GGGCAGTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.38, C:0.10, G:0.40, T:0.12
Consensus pattern (18 bp):
GAAGATGCAGTCGAGGAA
Found at i:43951269 original size:207 final size:207
Alignment explanation
Indices: 43950937--43951527 Score: 630
Period size: 207 Copynumber: 2.9 Consensus size: 207
43950927 CCTATCCTAG
* * **
43950937 TGTTGATTGCCAACA-TCAGTAACCAGTACGATTACTCGCCATCGTACTACAAGGCATGGGTCAC
1 TGTTGATTGCCAACATTCA-TAGCCAGTACAATTACAAGCCATCGTACTACAAGGCATGGGTCAC
* * * * *
43951001 AAAATAAAAGGTTATGAATAAGTTGCATCACGATTGGGATAGGTTGTATAATGACTTGTGGCAAT
65 AAAATAAAAGGCTATGGATAAGTTGCATCACGATTGGGATAGGTCGTAAAATGATTTGTGGCAAT
* * * * *
43951066 GGTTTTAGGTACTGGATCGATACGTACCAGGTTCCATAATCGATCTGGTGAAAGTGAGTCCTAAG
130 GGTGTCAGGTACTGGATCGATACGTACCAGGTTCCGTAATCGATCTGGTGAAAGTGAATCCCAAG
***
43951131 ATTCTTGT-TCCGA
195 ATTCCCCTCT-CGA
* ** * ** * * *
43951144 TGTTGATTGCCAACCTTTGTAGTCAGTATGATTACACA-TCATTGTACTACAAGGCATGGGTCAT
1 TGTTGATTGCCAACATTCATAGCCAGTACAATTACA-AGCCATCGTACTACAAGGCATGGGTCAC
* ** * * *
43951208 AAAATAAAAGGCTATGGATAAGTTGCATCATGGCTGAGATAGGTCGTAGAATGATTTGTGGCAAA
65 AAAATAAAAGGCTATGGATAAGTTGCATCACGATTGGGATAGGTCGTAAAATGATTTGTGGCAAT
* * * * * * ** *
43951273 GGTGTCGGGTACTAGATTGGTAAGTACCAAGTTTTGTAATCGATCTGGTGAAAGTGAATCCCAGG
130 GGTGTCAGGTACTGGATCGATACGTACCAGGTTCCGTAATCGATCTGGTGAAAGTGAATCCCAAG
*
43951338 ATTCCCCTCTCGG
195 ATTCCCCTCTCGA
* * * *
43951351 TGTTGATTGCCAATATTCATAGCCAGTACAATTACAAGCCATCATACTACAAGACATAGGTCACA
1 TGTTGATTGCCAACATTCATAGCCAGTACAATTACAAGCCATCGTACTACAAGGCATGGGTCACA
* * * *
43951416 AAATAAAAGGCTATGGATAAGTTGCATCACGATTGGGACAGTTCGTAAAATGATTCGTGGAAATG
66 AAATAAAAGGCTATGGATAAGTTGCATCACGATTGGGATAGGTCGTAAAATGATTTGTGGCAATG
* * * * * *
43951481 GTGTGAAGTACCGGATCAATACGTACTAGGTCCCGTAATCGATCTGG
131 GTGTCAGGTACTGGATCGATACGTACCAGGTTCCGTAATCGATCTGG
43951528 AAACACACCC
Statistics
Matches: 304, Mismatches: 76, Indels: 8
0.78 0.20 0.02
Matches are distributed among these distances:
206 1 0.00
207 301 0.99
208 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (207 bp):
TGTTGATTGCCAACATTCATAGCCAGTACAATTACAAGCCATCGTACTACAAGGCATGGGTCACA
AAATAAAAGGCTATGGATAAGTTGCATCACGATTGGGATAGGTCGTAAAATGATTTGTGGCAATG
GTGTCAGGTACTGGATCGATACGTACCAGGTTCCGTAATCGATCTGGTGAAAGTGAATCCCAAGA
TTCCCCTCTCGA
Found at i:43959058 original size:26 final size:26
Alignment explanation
Indices: 43959029--43959078 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
43959019 TTCGGTTTTA
*
43959029 TTTAAAAT-ATTTATTTCGATTTTAAT
1 TTTAAAATGATTT-CTTCGATTTTAAT
*
43959055 TTTAAATTGATTTCTTCGATTTTA
1 TTTAAAATGATTTCTTCGATTTTA
43959079 CCTTAGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTAAAATGATTTCTTCGATTTTAAT
Found at i:43959894 original size:27 final size:28
Alignment explanation
Indices: 43959835--43959905 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 28
43959825 ATAAAATTTG
*
43959835 TTATAATTA-TA-A-ATTTAACAAATAT
1 TTATAATTATTACATATTTAACAAATAC
43959860 TGTGATAATTATTACATATTTAA-AAATAC
1 T-T-ATAATTATTACATATTTAACAAATAC
43959889 TTATAATTTAATTACAT
1 TTATAA-TT-ATTACAT
43959906 TTATTATTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 1 0.03
26 1 0.03
27 11 0.29
28 5 0.13
29 14 0.37
30 6 0.16
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (28 bp):
TTATAATTATTACATATTTAACAAATAC
Found at i:43962090 original size:49 final size:49
Alignment explanation
Indices: 43962033--43962136 Score: 165
Period size: 49 Copynumber: 2.1 Consensus size: 49
43962023 TCATGTGTTA
* * *
43962033 TAATTTTATACAGTGTTGAGC-TTTTGATTCATGATATTTAACTTAATTT
1 TAATTTTATAAAGTGTTCA-CATTTTGATTCATGATATTAAACTTAATTT
43962082 TAATTTTATAAAGTGTTCACATTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACATTTTGATTCATGATATTAAACTTAATTT
43962131 TAATTT
1 TAATTT
43962137 GTATTTTTCT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
48 1 0.02
49 50 0.98
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACATTTTGATTCATGATATTAAACTTAATTT
Found at i:43963558 original size:21 final size:21
Alignment explanation
Indices: 43963517--43963559 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
43963507 AATAATGTAG
*
43963517 ATTATACATTATTTTTATAGT
1 ATTATACATTATATTTATAGT
*
43963538 ATTATATATTATGATTT-TAGT
1 ATTATACATTAT-ATTTATAGT
43963559 A
1 A
43963560 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTATACATTATATTTATAGT
Found at i:43963645 original size:103 final size:101
Alignment explanation
Indices: 43963525--43963710 Score: 284
Period size: 103 Copynumber: 1.8 Consensus size: 101
43963515 AGATTATACA
* * *
43963525 TTATTTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATT-ATAGTAGATA
1 TTATATTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATAATTAATAGTA-AGA
43963589 TATTTTTATTAAATTATATTTAATAATAATTATGTTAAT
65 -A-TTTTATTAAATTATATTTAATAATAATTATGTTAAT
* * *
43963628 TTATATTTATAGCATTATATATTATGATTTTAGTAAATTCATATGAGAATATTTAATATTAAGAA
1 TTATATTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATAATTAATAGTAAGAA
43963693 TTTTATTAAATTATATTT
66 TTTTATTAAATTATATTT
43963711 TCTAGTATTA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
101 18 0.24
102 1 0.01
103 52 0.68
104 5 0.07
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (101 bp):
TTATATTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATAATTAATAGTAAGAA
TTTTATTAAATTATATTTAATAATAATTATGTTAAT
Found at i:43963697 original size:38 final size:35
Alignment explanation
Indices: 43963646--43963784 Score: 116
Period size: 38 Copynumber: 3.7 Consensus size: 35
43963636 ATAGCATTAT
*
43963646 ATATTATGATTTTAGTAAATTCATATGAGAATATTTA
1 ATATTAAGATTTTAGTAAATT-ATAT-AGAATATTTA
* ****
43963683 ATATTAAGAATTTTATTAAATTATATTTTCTAGTATTA
1 ATATTAAG-ATTTTAGTAAATTATATAGAATA-T-TTA
* *
43963721 TATAGTATGATTTTAGTAAATTCATATAAGAATATTTA
1 -ATATTAAGATTTTAGTAAATT-ATAT-AGAATATTTA
*
43963759 ATATTAAGAATTTTATTAAATTATAT
1 ATATTAAG-ATTTTAGTAAATTATAT
43963785 TTTTTTATTA
Statistics
Matches: 79, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
36 2 0.03
37 22 0.28
38 42 0.53
39 11 0.14
40 2 0.03
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (35 bp):
ATATTAAGATTTTAGTAAATTATATAGAATATTTA
Found at i:43963730 original size:76 final size:76
Alignment explanation
Indices: 43963623--43963787 Score: 278
Period size: 76 Copynumber: 2.2 Consensus size: 76
43963613 AATAATTATG
* * *
43963623 TTAATTTATA-TTTATAGCATTATATATTATGATTTTAGTAAATTCATATGAGAATATTTAATAT
1 TTAAATTATATTTTATAGCATTATATAGTATGATTTTAGTAAATTCATATAAGAATATTTAATAT
43963687 TAAGAATTTTA
66 TAAGAATTTTA
* *
43963698 TTAAATTATATTTTCTAGTATTATATAGTATGATTTTAGTAAATTCATATAAGAATATTTAATAT
1 TTAAATTATATTTTATAGCATTATATAGTATGATTTTAGTAAATTCATATAAGAATATTTAATAT
43963763 TAAGAATTTTA
66 TAAGAATTTTA
43963774 TTAAATTATATTTT
1 TTAAATTATATTTT
43963788 TTTATTAAAT
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 9 0.11
76 75 0.89
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (76 bp):
TTAAATTATATTTTATAGCATTATATAGTATGATTTTAGTAAATTCATATAAGAATATTTAATAT
TAAGAATTTTA
Found at i:43963790 original size:18 final size:18
Alignment explanation
Indices: 43963769--43963804 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
43963759 ATATTAAGAA
43963769 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
43963787 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
43963805 AATAATAATT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:43964014 original size:102 final size:102
Alignment explanation
Indices: 43963906--43964251 Score: 656
Period size: 102 Copynumber: 3.4 Consensus size: 102
43963896 AAATTATATT
*
43963906 TTTTATTAAATTATACTTAATAATAATTATGTTAAATTATATTTTATAGCATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGCATTATATATTATGAT
43963971 TTTCGTAAATTCATATAAGAATATTTAATATTAAGAA
66 TTTCGTAAATTCATATAAGAATATTTAATATTAAGAA
43964008 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGCATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGCATTATATATTATGAT
* *
43964073 TTTAGTAAATTCATATGAGAATATTTAATATTAAGAA
66 TTTCGTAAATTCATATAAGAATATTTAATATTAAGAA
*
43964110 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGCATTATATATTATGAT
43964175 TTTCGTAAATTCATATAAGAATATTTAATATTAAGAA
66 TTTCGTAAATTCATATAAGAATATTTAATATTAAGAA
43964212 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTAT
43964252 TATTAAATTA
Statistics
Matches: 238, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 238 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (102 bp):
TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGCATTATATATTATGAT
TTTCGTAAATTCATATAAGAATATTTAATATTAAGAA
Found at i:43964066 original size:119 final size:117
Alignment explanation
Indices: 43963701--43964127 Score: 632
Period size: 119 Copynumber: 3.7 Consensus size: 117
43963691 AATTTTATTA
* * * *
43963701 AATTATATTTTCTAGTATTATATAGTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAA
1 AATTATATTTTATAGCATTATATATTATGATTTTCGTAAATTCATATAAGAATATTTAATATTAA
43963766 GAATTTTATTAAATTATATTTTTTTATTAAATTATATTTAATAATAATTATGTT
66 GAATTTTATTAAATTATA-TTTTTTATTAAATTATA-TTAATAATAATTATGTT
43963820 AAATTATATTTTATAGCATTATATATTATGATTTTCGTAAATTCATATAAGAATATTTAATATTA
1 -AATTATATTTTATAGCATTATATATTATGATTTTCGTAAATTCATATAAGAATATTTAATATTA
43963885 AGAATTTTATTAAATTATATTTTTTATTAAATTATACTTAATAATAATTATGTT
65 AGAATTTTATTAAATTATATTTTTTATTAAATTATA-TTAATAATAATTATGTT
43963939 AAATTATATTTTATAGCATTATATATTATGATTTTCGTAAATTCATATAAGAATATTTAATATTA
1 -AATTATATTTTATAGCATTATATATTATGATTTTCGTAAATTCATATAAGAATATTTAATATTA
* *
43964004 AGAATTTTATTAAATTATA-----T-TT-AA-TA-A-TAAT--T-A-TGT-TA
65 AGAATTTTATTAAATTATATTTTTTATTAAATTATATTAATAATAATTATGTT
* *
43964042 AATTATATTTTATAGCATTATATATTATGATTTTAGTAAATTCATATGAGAATATTTAATATTAA
1 AATTATATTTTATAGCATTATATATTATGATTTTCGTAAATTCATATAAGAATATTTAATATTAA
43964107 GAATTTTATTAAATTATATTT
66 GAATTTTATTAAATTATATTT
43964128 AATAATAATT
Statistics
Matches: 295, Mismatches: 9, Indels: 21
0.91 0.03 0.06
Matches are distributed among these distances:
102 81 0.27
103 1 0.00
104 2 0.01
105 1 0.00
106 1 0.00
108 4 0.01
110 1 0.00
111 2 0.01
112 2 0.01
113 2 0.01
114 1 0.00
119 118 0.40
120 79 0.27
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (117 bp):
AATTATATTTTATAGCATTATATATTATGATTTTCGTAAATTCATATAAGAATATTTAATATTAA
GAATTTTATTAAATTATATTTTTTATTAAATTATATTAATAATAATTATGTT
Found at i:43964472 original size:45 final size:44
Alignment explanation
Indices: 43964383--43964475 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
43964373 ATTACAACAT
*
43964383 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGATCTATTC
*
43964427 CATTCCATTCAACCAAACA-ATTGAATTACTATTAC-GCATCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAG-ATCTATTC
43964472 CATT
1 CATT
43964476 ACACCTCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 20 0.45
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGATCTATTC
Found at i:43964754 original size:21 final size:21
Alignment explanation
Indices: 43964730--43964772 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
43964720 TTTTTCCTAA
*
43964730 AATGTGAATTGGATGAAATTG
1 AATGCGAATTGGATGAAATTG
* *
43964751 AATGCGAATTGTATTAAATTG
1 AATGCGAATTGGATGAAATTG
43964772 A
1 A
43964773 GTTAAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (21 bp):
AATGCGAATTGGATGAAATTG
Found at i:43965246 original size:26 final size:26
Alignment explanation
Indices: 43965209--43965334 Score: 139
Period size: 26 Copynumber: 4.9 Consensus size: 26
43965199 ACACACCGTA
* * *
43965209 GCTCTT-ATGAGCGTCCCGATAAATG
1 GCTCTTCATGAGCTTCCCGTTAAAGG
*
43965234 GCTCTTCATGAGCTTCCCGTTTAAGG
1 GCTCTTCATGAGCTTCCCGTTAAAGG
* * *
43965260 GCTCTTCGTGAGCTTCCCTTTTAAGG
1 GCTCTTCATGAGCTTCCCGTTAAAGG
**
43965286 GCTCTTCATGAGCTTCCCGTTTAATTG
1 GCTCTTCATGAGCTTCCCG-TTAAAGG
*
43965313 GCTCTCCAT-AGCTTCCCGTTAA
1 GCTCTTCATGAGCTTCCCGTTAA
43965335 TAGCTTTCTG
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.11
26 65 0.75
27 12 0.14
ACGTcount: A:0.17, C:0.28, G:0.21, T:0.35
Consensus pattern (26 bp):
GCTCTTCATGAGCTTCCCGTTAAAGG
Found at i:43965488 original size:24 final size:25
Alignment explanation
Indices: 43965455--43965514 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
43965445 ATTGGCTCGT
* *
43965455 ATGAGCTTCCCGTTA-ATGGCTCTC
1 ATGAGTTTCCCGTTACATGGCTCAC
*
43965479 -TGGAGTTTCCTGTTACATGGCTCAC
1 AT-GAGTTTCCCGTTACATGGCTCAC
43965504 ATGAGTTTCCC
1 ATGAGTTTCCC
43965515 ATTTATGTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
23 1 0.03
24 11 0.38
25 16 0.55
26 1 0.03
ACGTcount: A:0.17, C:0.27, G:0.22, T:0.35
Consensus pattern (25 bp):
ATGAGTTTCCCGTTACATGGCTCAC
Found at i:43968361 original size:25 final size:26
Alignment explanation
Indices: 43968333--43968383 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
43968323 AATTGTTCTG
*
43968333 TTCCTTTTTTTCTTTT-TA-TTTGTTT
1 TTCC-TTTTTCCTTTTCTATTTTGTTT
43968358 TTCCTTTTTCCTTTTCTATTTTGTTT
1 TTCCTTTTTCCTTTTCTATTTTGTTT
43968384 ATTAAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 10 0.43
25 6 0.26
26 7 0.30
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.76
Consensus pattern (26 bp):
TTCCTTTTTCCTTTTCTATTTTGTTT
Found at i:43969117 original size:7 final size:7
Alignment explanation
Indices: 43969105--43969131 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
43969095 CATACTATTC
43969105 TTTTATA
1 TTTTATA
43969112 TTTTATA
1 TTTTATA
43969119 TTTTATA
1 TTTTATA
43969126 TTTTAT
1 TTTTAT
43969132 TTTATTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTATA
Found at i:43973700 original size:8 final size:8
Alignment explanation
Indices: 43973689--43973726 Score: 53
Period size: 7 Copynumber: 5.0 Consensus size: 8
43973679 AAATAATAAT
43973689 AAAATGGA
1 AAAATGGA
43973697 AAAAT-GA
1 AAAATGGA
43973704 AAAATGGA
1 AAAATGGA
*
43973712 AAAA-GTA
1 AAAATGGA
43973719 AAAATGGA
1 AAAATGGA
43973727 GAGGCTAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 13 0.50
8 13 0.50
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.13
Consensus pattern (8 bp):
AAAATGGA
Found at i:43973709 original size:15 final size:15
Alignment explanation
Indices: 43973689--43973726 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
43973679 AAATAATAAT
43973689 AAAATGGAAAAA-TGA
1 AAAATGGAAAAAGT-A
43973704 AAAATGGAAAAAGTA
1 AAAATGGAAAAAGTA
43973719 AAAATGGA
1 AAAATGGA
43973727 GAGGCTAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 21 0.95
16 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.13
Consensus pattern (15 bp):
AAAATGGAAAAAGTA
Found at i:43975340 original size:49 final size:49
Alignment explanation
Indices: 43975217--43975370 Score: 168
Period size: 49 Copynumber: 3.1 Consensus size: 49
43975207 CGAATTTGGT
*
43975217 TTCCCCGACAGCGCAATTAAAAGATTGAAGCCACAACGGTGGATCTTAC
1 TTCCCTGACAGCGCAATTAAAAGATTGAAGCCACAACGGTGGATCTTAC
* * * * * ** * **
43975266 TTCCTTGGC-GATG-AGTGGAGCAGATTGAAGTCACAACGGTGGATCTTGT
1 TTCCCTGACAG-CGCAAT-TAAAAGATTGAAGCCACAACGGTGGATCTTAC
*
43975315 TTCCCTGACAGCGCAATTAAAAGATTGAAGCCACAACGGTAGATCTTAC
1 TTCCCTGACAGCGCAATTAAAAGATTGAAGCCACAACGGTGGATCTTAC
43975364 TTCCCTG
1 TTCCCTG
43975371 GCAGTGCAGC
Statistics
Matches: 79, Mismatches: 22, Indels: 8
0.72 0.20 0.07
Matches are distributed among these distances:
48 3 0.04
49 73 0.92
50 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (49 bp):
TTCCCTGACAGCGCAATTAAAAGATTGAAGCCACAACGGTGGATCTTAC
Found at i:43975350 original size:98 final size:94
Alignment explanation
Indices: 43975171--43975575 Score: 417
Period size: 98 Copynumber: 4.3 Consensus size: 94
43975161 GCATCATATT
*
43975171 CTGGCGATGCAGTGGAGCAGATTGAAGTCACAACGGCGAAT-TTGGTTTCCCCGACAGCGCAATT
1 CTGGCGATGCAGTGGAGCAGATTGAAGTCACAACGGCGGATCTT-GTTTCCCCGACAGCGC----
*
43975235 AAAAGATTGAAGCCACAACGGTGGATCTTACTTCC
61 -AAAGATTGAAGCCACAACGGTAGATCTTACTTCC
* * *
43975270 TTGGCGATG-AGTGGAGCAGATTGAAGTCACAACGGTGGATCTTGTTTCCCTGACAGCGCAATTA
1 CTGGCGATGCAGTGGAGCAGATTGAAGTCACAACGGCGGATCTTGTTTCCCCGACAGCGC-----
43975334 AAAGATTGAAGCCACAACGGTAGATCTTACTTCC
61 AAAGATTGAAGCCACAACGGTAGATCTTACTTCC
** * * *
43975368 CTGGC-AGTGCAGCAGAGCAGA-TGAAGTCACAA-GGCAGATC-TGGTTCCCCGACAGTGCAAAG
1 CTGGCGA-TGCAGTGGAGCAGATTGAAGTCACAACGGCGGATCTTGTTTCCCCGACAGCGCAAAG
* *
43975429 ATTGAAGCCA-AACGGCAGATC-TACTTTC
65 ATTGAAGCCACAACGGTAGATCTTACTTCC
* * * * * *
43975457 CTGGCGGTG--GCGGAGCAGATTGAAGTCACAACGAC-GATCTGGTTTCCCCG-CAACGCAAGGA
1 CTGGCGATGCAGTGGAGCAGATTGAAGTCACAACGGCGGATCTTGTTTCCCCGACAGCGCAAAGA
* *
43975518 TT-AAGCCACAGCGG-GGATCTTACTTCC
66 TTGAAGCCACAACGGTAGATCTTACTTCC
43975545 CTGGCG-TGCAGTGGAGCAGATTGAAGTCACA
1 CTGGCGATGCAGTGGAGCAGATTGAAGTCACA
43975576 GATTGTTTCC
Statistics
Matches: 268, Mismatches: 27, Indels: 32
0.82 0.08 0.10
Matches are distributed among these distances:
87 21 0.08
88 41 0.15
89 43 0.16
90 10 0.04
91 14 0.05
96 14 0.05
97 7 0.03
98 99 0.37
99 19 0.07
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (94 bp):
CTGGCGATGCAGTGGAGCAGATTGAAGTCACAACGGCGGATCTTGTTTCCCCGACAGCGCAAAGA
TTGAAGCCACAACGGTAGATCTTACTTCC
Found at i:43975393 original size:49 final size:49
Alignment explanation
Indices: 43975238--43975489 Score: 156
Period size: 49 Copynumber: 5.3 Consensus size: 49
43975228 CGCAATTAAA
* * *
43975238 AGATTGAAGCCACAACGGTGGATCTTACTTCCTTGGC-GATG-AGTGGAGC
1 AGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCAG-TGCAG-AGAGC
* * ** * * * **
43975287 AGATTGAAGTCACAACGGTGGATCTTGTTTCCCTGACAGCGCA-ATTAAA
1 AGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCAGTGCAGA-GAGC
43975336 AGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCAGTGCAGCAGAGC
1 AGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCAGTGCAG-AGAGC
* * ** * *
43975386 AGA-TGAAGTCACAA-GGCAGATC-TGGTTCCCCGACAGTGC--A-A--
1 AGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCAGTGCAGAGAGC
* * *
43975427 AGATTGAAGCCA-AACGGCAGATC-TACTTTCCTGGCGGTGGC-G-GAGC
1 AGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCAGT-GCAGAGAGC
*
43975473 AGATTGAAGTCACAACG
1 AGATTGAAGCCACAACG
43975490 ACGATCTGGT
Statistics
Matches: 157, Mismatches: 33, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
41 5 0.03
42 24 0.15
43 3 0.02
44 2 0.01
46 11 0.07
47 17 0.11
48 7 0.04
49 81 0.52
50 6 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (49 bp):
AGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCAGTGCAGAGAGC
Found at i:43989973 original size:8 final size:8
Alignment explanation
Indices: 43989962--43990000 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
43989952 AAATAATAAT
43989962 AAAAATGG
1 AAAAATGG
43989970 AAAAAT-G
1 AAAAATGG
43989977 AAAAATGG
1 AAAAATGG
*
43989985 AAAAA-GT
1 AAAAATGG
43989992 AAAAATGG
1 AAAAATGG
43990000 A
1 A
43990001 GAGGCTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.13
Consensus pattern (8 bp):
AAAAATGG
Found at i:43989982 original size:15 final size:15
Alignment explanation
Indices: 43989961--43990000 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
43989951 AAAATAATAA
43989961 TAAAAATGGAAAAA-
1 TAAAAATGGAAAAAG
43989975 TGAAAAATGGAAAAAG
1 T-AAAAATGGAAAAAG
43989991 TAAAAATGGA
1 TAAAAATGGA
43990001 GAGGCTAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.20, T:0.15
Consensus pattern (15 bp):
TAAAAATGGAAAAAG
Found at i:43991467 original size:99 final size:99
Alignment explanation
Indices: 43991313--43992108 Score: 1098
Period size: 99 Copynumber: 8.1 Consensus size: 99
43991303 GCGTTGTAGC
*
43991313 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
43991378 ACAACGGCGGATCTTACTTCCTTGGCGATGCAGT
66 ACAACGGCGGATCTTACTTCCTTGGCGATGCAGT
*
43991412 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGATAGCGCAATTAAAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
*
43991477 ACAACGGCGGATCATACTTCCTTGGCGATGCAGT
66 ACAACGGCGGATCTTACTTCCTTGGCGATGCAGT
* *
43991511 GGAGCAGATTGAAGTCACAACGGCGAATTTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
*
43991576 ACAACGGTGGATCTTACTTCCTTGGCGATG-AGT
66 ACAACGGCGGATCTTACTTCCTTGGCGATGCAGT
* * *
43991609 GGAGCAGATTGAAGTCACAACGGTGGATCTTGTTTCCCTGACAGCGCAATTAAAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
** * *
43991674 ACAACGGTAGATCTTACTTCCCTGGC-AGTGCAGC
66 ACAACGGCGGATCTTACTTCCTTGGCGA-TGCAGT
* * *
43991708 AGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGTGC-----AAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
* * * *
43991768 AAAACGGCAGATCTTACTTTCC-TGGCGGTGCAGC
66 ACAACGGCGGATCTTAC-TTCCTTGGCGATGCAGT
* * * * *
43991802 GGAGCAGATTGAAGTCACAACGACAGATCTGGTTTCCCCGACAACGC-----AAGGATTAAAGCC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
* *
43991862 ACAGCGGCGGATCTTACTTCCCTGGCGATGCAGT
66 ACAACGGCGGATCTTACTTCCTTGGCGATGCAGT
*
43991896 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
* * *
43991961 ACAACAGCGGATCTTACTTCCCTGGCGGTGCAGT
66 ACAACGGCGGATCTTACTTCCTTGGCGATGCAGT
* * * * *
43991995 GGAGTAGATTGAAGTCACAGCGGCAGATCTAGTTTCCTCGACAGCGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATT-AAAAGATTGAAGC
* *
43992060 CACAACGGCGGATCTTACCTCCTTAGC-AGTGCAGT
65 CACAACGGCGGATCTTACTTCCTTGGCGA-TGCAGT
* *
43992095 TGAACAGATTGAAG
1 GGAGCAGATTGAAG
43992109 CTACGACAGC
Statistics
Matches: 626, Mismatches: 59, Indels: 23
0.88 0.08 0.03
Matches are distributed among these distances:
93 4 0.01
94 159 0.25
95 4 0.01
97 1 0.00
98 89 0.14
99 316 0.50
100 53 0.08
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.22
Consensus pattern (99 bp):
GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
ACAACGGCGGATCTTACTTCCTTGGCGATGCAGT
Found at i:43991799 original size:44 final size:44
Alignment explanation
Indices: 43991661--43991799 Score: 118
Period size: 44 Copynumber: 3.0 Consensus size: 44
43991651 AGCGCAATTA
* * *
43991661 AAAGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCAGTGCAGC
1 AAAGATTGAAGCCACAACGGCAGATCTTACTTTCCTGGC-G-G-TGC
* ** * * *
43991708 AGAGCAGATTGAAGTCACAACGGCAGATC-TGGTTTCCCCGACAGTGC
1 A-A--AGATTGAAGCCACAACGGCAGATCTTACTTT-CCTGGCGGTGC
*
43991755 AAAGATTGAAGCCAAAACGGCAGATCTTACTTTCCTGGCGGTGC
1 AAAGATTGAAGCCACAACGGCAGATCTTACTTTCCTGGCGGTGC
43991799 A
1 A
43991800 GCGGAGCAGA
Statistics
Matches: 71, Mismatches: 16, Indels: 13
0.71 0.16 0.13
Matches are distributed among these distances:
44 31 0.44
45 4 0.06
46 1 0.01
47 4 0.06
48 2 0.03
49 3 0.04
50 26 0.37
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.21
Consensus pattern (44 bp):
AAAGATTGAAGCCACAACGGCAGATCTTACTTTCCTGGCGGTGC
Found at i:43992054 original size:50 final size:49
Alignment explanation
Indices: 43991318--43992074 Score: 302
Period size: 50 Copynumber: 15.5 Consensus size: 49
43991308 GTAGCGGAGC
* * *
43991318 AGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAA
1 AGATTGAAGCCACAACGGCGGATCTAGTTTCCTCGACAGTGCAATTAAA
* * * * * **
43991367 AGATTGAAGCCACAACGGCGGATCTTA-CTTCCTTGGC-GATGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATC-TAGTTTCCTCGACAG-TGCAAT-TAAA
* * * * *
43991417 AGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGATAGCGCAATTAAA
1 AGATTGAAGCCACAACGGCGGATCTAGTTTCCTCGACAGTGCAATTAAA
* * * * * **
43991466 AGATTGAAGCCACAACGGCGGATCATA-CTTCCTTGGC-GATGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATC-TAGTTTCCTCGACAG-TGCAAT-TAAA
* * * * * *
43991516 AGATTGAAGTCACAACGGCGAATTTGGTTTCCCCGACAGCGCAATTAAA
1 AGATTGAAGCCACAACGGCGGATCTAGTTTCCTCGACAGTGCAATTAAA
* * * * * * **
43991565 AGATTGAAGCCACAACGGTGGATCTTA-CTTCCTTGGC-GATG-AGTGGAGC
1 AGATTGAAGCCACAACGGCGGATC-TAGTTTCCTCGACAG-TGCAAT-TAAA
* * * *
43991614 AGATTGAAGTCACAACGGTGGATCTTGTTTCC-CTGACAGCGCAATTAAA
1 AGATTGAAGCCACAACGGCGGATCTAGTTTCCTC-GACAGTGCAATTAAA
** * * * * **
43991663 AGATTGAAGCCACAACGGTAGATCTTACTTCCCT-GGCAGTGCAGCA-GAGC
1 AGATTGAAGCCACAACGGCGGATC-TAGTTTCCTCGACAGTGCA--ATTAAA
* * * *
43991713 AGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGTGC-----AA
1 AGATTGAAGCCACAACGGCGGATCTAGTTTCCTCGACAGTGCAATTAAA
* * * * * *** **
43991757 AGATTGAAGCCAAAACGGCAGATCTTACTTTCCT-GGCGGTGCAGCGGAGC
1 AGATTGAAGCCACAACGGCGGATC-TAGTTTCCTCGACAGTGCA-ATTAAA
* * * * * **
43991807 AGATTGAAGTCACAACGACAGATCTGGTTTCCCCGACAACGC-----AA
1 AGATTGAAGCCACAACGGCGGATCTAGTTTCCTCGACAGTGCAATTAAA
* * * * * * * * **
43991851 GGATTAAAGCCACAGCGGCGGATCTTACTTCCCT-GGC-GATGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATC-TAGTTTCCTCGACAG-TGCAAT-TAAA
* * *
43991901 AGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAA
1 AGATTGAAGCCACAACGGCGGATCTAGTTTCCTCGACAGTGCAATTAAA
* * * * * * * **
43991950 AGATTGAAGCCACAACAGCGGATCTTACTTCCCT-GGCGGTGCAGTGGAGT
1 AGATTGAAGCCACAACGGCGGATC-TAGTTTCCTCGACAGTGCAAT-TAAA
* * * *
43992000 AGATTGAAGTCACAGCGGCAGATCTAGTTTCCTCGACAGCGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTAGTTTCCTCGACAGTGCAATT-AAA
43992050 AGATTGAAGCCACAACGGCGGATCT
1 AGATTGAAGCCACAACGGCGGATCT
43992075 TACCTCCTTA
Statistics
Matches: 497, Mismatches: 167, Indels: 87
0.66 0.22 0.12
Matches are distributed among these distances:
44 50 0.10
45 11 0.02
48 6 0.01
49 212 0.43
50 214 0.43
51 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (49 bp):
AGATTGAAGCCACAACGGCGGATCTAGTTTCCTCGACAGTGCAATTAAA
Found at i:43993040 original size:24 final size:26
Alignment explanation
Indices: 43993013--43993062 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
43993003 AATTGTTCTG
43993013 TTCCTTTTTTC-TTTT-TA-TTTGTTT
1 TTCC-TTTTTCATTTTCTATTTTGTTT
43993037 TTCCTTTTTCATTTTCTATTTTGTTT
1 TTCCTTTTTCATTTTCTATTTTGTTT
43993063 ATTAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 6 0.26
24 8 0.35
25 2 0.09
26 7 0.30
ACGTcount: A:0.06, C:0.14, G:0.04, T:0.76
Consensus pattern (26 bp):
TTCCTTTTTCATTTTCTATTTTGTTT
Found at i:43993043 original size:17 final size:18
Alignment explanation
Indices: 43993017--43993050 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
43993007 GTTCTGTTCC
*
43993017 TTTTTTCTTTTT-ATTTG
1 TTTTTCCTTTTTCATTTG
43993034 TTTTTCCTTTTTCATTT
1 TTTTTCCTTTTTCATTT
43993051 TCTATTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTCCTTTTTCATTTG
Found at i:43993559 original size:21 final size:21
Alignment explanation
Indices: 43993521--43993564 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
43993511 TTTTTTACTA
*
43993521 TATTGTATTATTCGTTATTAT
1 TATTGTATTATTCATTATTAT
43993542 TATTGTATTATAT-ATTATTAT
1 TATTGTATTAT-TCATTATTAT
43993563 TA
1 TA
43993565 CATTTATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (21 bp):
TATTGTATTATTCATTATTAT
Found at i:43993719 original size:7 final size:7
Alignment explanation
Indices: 43993707--43993822 Score: 79
Period size: 7 Copynumber: 15.1 Consensus size: 7
43993697 CGTATATCTA
43993707 TTTATAT
1 TTTATAT
43993714 TTTATACT
1 TTTATA-T
*
43993722 ATTCATACTT
1 -TTTATA--T
43993732 TTTTATAT
1 TT-TATAT
*
43993740 TTTACAT
1 TTTATAT
43993747 TTTATACGT
1 TTTATA--T
43993756 TTGTATAT
1 TT-TATAT
*
43993764 ATATATAT
1 -TTTATAT
*
43993772 TTTACAT
1 TTTATAT
** *
43993779 ACTATTCT
1 TTTA-TAT
43993787 TTTATAT
1 TTTATAT
43993794 TTTATAT
1 TTTATAT
43993801 TTTATAT
1 TTTATAT
43993808 TTTATAT
1 TTTATAT
43993815 TTTATAT
1 TTTATAT
43993822 T
1 T
43993823 ATTTATATAA
Statistics
Matches: 85, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
7 53 0.62
8 13 0.15
9 11 0.13
10 8 0.09
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (7 bp):
TTTATAT
Found at i:43993835 original size:21 final size:21
Alignment explanation
Indices: 43993790--43993835 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
43993780 CTATTCTTTT
* *
43993790 ATATTTTATATTTTATATTTT
1 ATATTTTATATTTTATATATA
43993811 ATATTTTATATTATT-TATATA
1 ATATTTTATATT-TTATATATA
43993832 ATAT
1 ATAT
43993836 ATATATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATATTTTATATTTTATATATA
Found at i:43998314 original size:52 final size:52
Alignment explanation
Indices: 43998236--43998340 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
43998226 GGCAGCGACA
43998236 CAGAATAAAAGAAGCTACCTGGGAACCAGAGGAAGCTATGAGAAACCAATAT
1 CAGAATAAAAGAAGCTACCTGGGAACCAGAGGAAGCTATGAGAAACCAATAT
* * *
43998288 CAGAATCAAAGAAGCTACCTGGGAACCCGAGGAAGCTATGAGAAATCAATAT
1 CAGAATAAAAGAAGCTACCTGGGAACCAGAGGAAGCTATGAGAAACCAATAT
43998340 C
1 C
43998341 TGAACCTCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (52 bp):
CAGAATAAAAGAAGCTACCTGGGAACCAGAGGAAGCTATGAGAAACCAATAT
Found at i:43999666 original size:25 final size:25
Alignment explanation
Indices: 43999638--43999686 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
43999628 CGATACTCAG
* **
43999638 CTCGCATGAGCTTATTGTTATTCAT
1 CTCGCAAGAGCTTATCATTATTCAT
*
43999663 CTCGGAAGAGCTTATCATTATTCA
1 CTCGCAAGAGCTTATCATTATTCA
43999687 ACTTGGAGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (25 bp):
CTCGCAAGAGCTTATCATTATTCAT
Found at i:43999698 original size:25 final size:25
Alignment explanation
Indices: 43999645--43999706 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
43999635 CAGCTCGCAT
** *
43999645 GAGCTTATTGTTATTCATCTCGGAA
1 GAGCTTATCATTATTCAACTCGGAA
* *
43999670 GAGCTTATCATTATTCAACTTGGAG
1 GAGCTTATCATTATTCAACTCGGAA
*
43999695 GAGCTTACCATT
1 GAGCTTATCATT
43999707 TACAGCCAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (25 bp):
GAGCTTATCATTATTCAACTCGGAA
Found at i:44001250 original size:11 final size:13
Alignment explanation
Indices: 44001234--44001267 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
44001224 AATTTTACGG
44001234 AAAAATTTCG-T-
1 AAAAATTTCGTTC
44001245 AAAAATTTCGTTC
1 AAAAATTTCGTTC
44001258 AAAAATTTCG
1 AAAAATTTCG
44001268 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 1 0.05
13 10 0.48
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:44002495 original size:103 final size:103
Alignment explanation
Indices: 44002313--44002517 Score: 365
Period size: 103 Copynumber: 2.0 Consensus size: 103
44002303 ATTGAATATG
*
44002313 AAGGGGTTGCTAAGTGCTGATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
44002378 TTTAAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TTTAAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCC
* *
44002416 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACTGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
* *
44002481 TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCC
66 TTTAAATATAAAGGGGGTTGCTAAGTGCTGATTCCCC
44002518 GATTCATTGG
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 97 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTTAAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:44002509 original size:76 final size:76
Alignment explanation
Indices: 44002418--44002593 Score: 343
Period size: 76 Copynumber: 2.3 Consensus size: 76
44002408 ATTCCCCCAA
*
44002418 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACTGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATCTT
44002483 TAAATGTGAAG
66 TAAATGTGAAG
44002494 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATCTT
44002559 TAAATGTGAAG
66 TAAATGTGAAG
44002570 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
44002594 CAAGGGGTTG
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 99 1.00
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.35
Consensus pattern (76 bp):
GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATCTT
TAAATGTGAAG
Found at i:44002514 original size:43 final size:43
Alignment explanation
Indices: 44002453--44002591 Score: 163
Period size: 43 Copynumber: 3.5 Consensus size: 43
44002443 ATTCATTGGT
* *
44002453 GGTTGCTAAGTGTTGATTCCACTGTATCTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTTAAATGTGAAGGG
* *
44002496 GGTTGCTAAGTGCTGATTCC-CCG-A---TT-CAT-T---GGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTTAAATGTGAAGGG
*
44002529 GGTTGCTAAGTGTTGATTCCACCGTATCTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTTAAATGTGAAGGG
44002572 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
44002592 CCCAAGGGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 20
0.74 0.08 0.19
Matches are distributed among these distances:
33 21 0.27
34 3 0.04
35 1 0.01
36 1 0.01
37 2 0.03
38 4 0.05
39 2 0.03
40 1 0.01
41 1 0.01
42 2 0.03
43 40 0.51
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTTAAATGTGAAGGG
Found at i:44002524 original size:179 final size:178
Alignment explanation
Indices: 44002311--44002731 Score: 716
Period size: 179 Copynumber: 2.4 Consensus size: 178
44002301 ACATTGAATA
*
44002311 TGAAGGGGTTGCTAAGTGCTGATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTA
1 TGAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTA
44002376 TCTTTAAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCC
66 TCTTTAAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCC
* **
44002441 CGATTCATTGGTGGTTGCTAAGTGTTGATTCCACTGTATCTTTAAATG
131 CGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCTTTAAATG
*
44002489 TGAAGGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGT
1 TGAA-GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGT
* *
44002554 ATCTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCC
65 ATCTTTAAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCC
*
44002619 CCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCTTTGAATG
130 CCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCTTTAAATG
* * * *
44002668 TGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTTCTGAATCCACCG
1 TG-AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
44002732 ATAACGGTTA
Statistics
Matches: 228, Mismatches: 13, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
178 4 0.02
179 222 0.97
180 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.33
Consensus pattern (178 bp):
TGAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTA
TCTTTAAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCC
CGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCTTTAAATG
Found at i:44002601 original size:103 final size:103
Alignment explanation
Indices: 44002494--44002696 Score: 370
Period size: 103 Copynumber: 2.0 Consensus size: 103
44002484 AAATGTGAAG
* *
44002494 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCTT
*
44002559 TAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
66 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAA
44002597 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCTT
*
44002662 TGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
44002697 GAATCACTGG
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (103 bp):
GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCTT
TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAA
Found at i:44007865 original size:17 final size:17
Alignment explanation
Indices: 44007845--44007907 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
44007835 TAATTTCAAG
44007845 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* **
44007862 AATTATATAATGATTCAAAT
1 AATTATGTAATG-TT--TTT
*
44007882 ACTTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
44007899 AATTATGTA
1 AATTATGTA
44007908 GTGATTCAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
17 20 0.57
18 2 0.06
19 2 0.06
20 11 0.31
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.51
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:44007935 original size:9 final size:9
Alignment explanation
Indices: 44007923--44007990 Score: 91
Period size: 9 Copynumber: 7.6 Consensus size: 9
44007913 TCAATTTGGG
44007923 TAATTCAGT
1 TAATTCAGT
* *
44007932 TAATTCGGG
1 TAATTCAGT
*
44007941 TAATTTAGT
1 TAATTCAGT
*
44007950 TAATTCGGT
1 TAATTCAGT
*
44007959 TAATTCGGT
1 TAATTCAGT
44007968 TAATTCAGT
1 TAATTCAGT
44007977 TAATTCAGT
1 TAATTCAGT
44007986 TAATT
1 TAATT
44007991 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (9 bp):
TAATTCAGT
Found at i:44007941 original size:18 final size:18
Alignment explanation
Indices: 44007915--44007990 Score: 98
Period size: 18 Copynumber: 4.2 Consensus size: 18
44007905 GTAGTGATTC
*
44007915 AATTTGGGTAATTCAGTT
1 AATTCGGGTAATTCAGTT
*
44007933 AATTCGGGTAATTTAGTT
1 AATTCGGGTAATTCAGTT
* *
44007951 AATTCGGTTAATTCGGTT
1 AATTCGGGTAATTCAGTT
* *
44007969 AATTCAGTTAATTCAGTT
1 AATTCGGGTAATTCAGTT
44007987 AATT
1 AATT
44007991 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (18 bp):
AATTCGGGTAATTCAGTT
Found at i:44007946 original size:27 final size:27
Alignment explanation
Indices: 44007923--44007990 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
44007913 TCAATTTGGG
44007923 TAATTCAGTTAATTCGGGTAATTTAGT
1 TAATTCAGTTAATTCGGGTAATTTAGT
* * *
44007950 TAATTCGGTTAATTCGGTTAATTCAGT
1 TAATTCAGTTAATTCGGGTAATTTAGT
44007977 TAATTCAGTTAATT
1 TAATTCAGTTAATT
44007991 TTTAACCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (27 bp):
TAATTCAGTTAATTCGGGTAATTTAGT
Found at i:44009850 original size:18 final size:17
Alignment explanation
Indices: 44009824--44009859 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
44009814 TTTGGTTATA
44009824 TTTAATTTTTGATATGTT
1 TTTAATTTTT-ATATGTT
*
44009842 TTTATTTTTTATATGTT
1 TTTAATTTTTATATGTT
44009859 T
1 T
44009860 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.72
Consensus pattern (17 bp):
TTTAATTTTTATATGTT
Found at i:44010572 original size:18 final size:17
Alignment explanation
Indices: 44010539--44010576 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
44010529 AAACACATAC
44010539 TTTTCTTTTCTTTCTTCT
1 TTTTCTTTTCTTTCTT-T
44010557 TTTTCTTTT-TTGTCTTT
1 TTTTCTTTTCTT-TCTTT
44010574 TTT
1 TTT
44010577 GAGTGATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTCTTTTCTTTCTTT
Found at i:44013777 original size:36 final size:35
Alignment explanation
Indices: 44013715--44013782 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
44013705 TACAGTATTA
* *
44013715 TATATTATGATTTTTTTAATTCATATAATAATAAT
1 TATATTAAGATTTTTTAAATTCATATAATAATAAT
*
44013750 TATATTAAGAATTTTATTAAATT-ATATATTAAT
1 TATATTAAG-ATTTT-TTAAATTCATATAATAAT
44013783 TTATTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 8 0.29
36 14 0.50
37 6 0.21
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (35 bp):
TATATTAAGATTTTTTAAATTCATATAATAATAAT
Found at i:44013787 original size:20 final size:19
Alignment explanation
Indices: 44013762--44013801 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
44013752 TATTAAGAAT
44013762 TTTATTAAATTATATATTAA
1 TTTATTAAATTATAT-TTAA
44013782 TTTATTAAATTATATTTAA
1 TTTATTAAATTATATTTAA
44013801 T
1 T
44013802 AATAATTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATTAAATTATATTTAA
Found at i:44013806 original size:58 final size:58
Alignment explanation
Indices: 44013711--44013878 Score: 157
Period size: 58 Copynumber: 2.9 Consensus size: 58
44013701 TTTTTACAGT
* * * *
44013711 ATTATATATTATGATTTTTTTAATTCA-TATAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT-ATTTATTAAATT-ATTTTAATAATAATTATATTAAGAATTTGATTAA
* * *
44013770 ATTATATATTA-ATTTATTAAATTATATTTAATAATAATTATGTT-AGAATATGGTTAA
1 ATTATATATTATATTTATTAAATTAT-TTTAATAATAATTATATTAAGAATTTGATTAA
* * * *
44013827 ATTATTTATTATTTTTATTACATTATTTTAAATCATAATCT-TATTAA-AATTT
1 ATTATATATTATATTTATTAAATTATTTT-AATAATAAT-TATATTAAGAATTT
44013879 AATAAAAATA
Statistics
Matches: 90, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
56 1 0.01
57 33 0.37
58 43 0.48
59 13 0.14
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (58 bp):
ATTATATATTATATTTATTAAATTATTTTAATAATAATTATATTAAGAATTTGATTAA
Found at i:44013827 original size:57 final size:58
Alignment explanation
Indices: 44013711--44013857 Score: 156
Period size: 57 Copynumber: 2.5 Consensus size: 58
44013701 TTTTTACAGT
* * * * *
44013711 ATTATATATTATGATTTTTTTAATTCA-TATAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT-ATTTATTAAATT-ATTTTAATAATAATTATATTAAGAATATGATTAA
* *
44013770 ATTATATATTA-ATTTATTAAATTATATTTAATAATAATTATGTT-AGAATATGGTTAA
1 ATTATATATTATATTTATTAAATTAT-TTTAATAATAATTATATTAAGAATATGATTAA
* * *
44013827 ATTATTTATTATTTTTATTACATTATTTTAA
1 ATTATATATTATATTTATTAAATTATTTTAA
44013858 ATCATAATCT
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
56 1 0.01
57 35 0.47
58 28 0.37
59 11 0.15
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (58 bp):
ATTATATATTATATTTATTAAATTATTTTAATAATAATTATATTAAGAATATGATTAA
Found at i:44022735 original size:41 final size:41
Alignment explanation
Indices: 44022654--44022764 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
44022644 AACCGGCACA
** *
44022654 AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCAGCATC
1 AAGCCTGCTAGACATAAAGTCTGAAACATTTCACCAGCATC
* *
44022695 AAGCCTGCTAGACATAAAGTCTGAAACATTTCATCGGCATC
1 AAGCCTGCTAGACATAAAGTCTGAAACATTTCACCAGCATC
* * *
44022736 AAGTCT-CTTGGACGTAAAGTCTGAAACAT
1 AAGCCTGC-TAGACATAAAGTCTGAAACAT
44022765 CTTATTTTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.02
41 60 0.98
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (41 bp):
AAGCCTGCTAGACATAAAGTCTGAAACATTTCACCAGCATC
Found at i:44026583 original size:69 final size:69
Alignment explanation
Indices: 44026467--44026719 Score: 247
Period size: 69 Copynumber: 3.7 Consensus size: 69
44026457 ATAAGCGAAG
* * * * * *
44026467 CTTGGTTTTACAGCTAGGAGCTTTGCTCTTGCTAATTGTGTTAGAGGTCGCGACTCTTCACCTAC
1 CTTGATTTTACAGTTAGGAGCTTTGCTCTTGCTAACTATATTGGAGGTCGCGACTCTTCACCTAC
44026532 AAAC
66 AAAC
* * *
44026536 CTTGATTTTACAGTTAGGAGCTTTGCT-TTCGCTAACTACATTGGAGGTCGCGACTCTTCGCCTG
1 CTTGATTTTACAGTTAGGAGCTTTGCTCTT-GCTAACTATATTGGAGGTCGCGACTCTTCACCTA
** *
44026600 TGAAT
65 CAAAC
* * * * **
44026605 CTTGATTTTACAGTTGGGAGCTTTGCTCTTGCTAACTATTTTGGAGGTCGCGGCTCTTCGCCTGT
1 CTTGATTTTACAGTTAGGAGCTTTGCTCTTGCTAACTATATTGGAGGTCGCGACTCTTCACCTAC
*
44026670 GAAC
66 AAAC
* * * * * * * *
44026674 CTCGATTTTATAGCTGGGAACTTTGTTCTCGCTAACTGTATTGGAG
1 CTTGATTTTACAGTTAGGAGCTTTGCTCTTGCTAACTATATTGGAG
44026720 ACCGAGGCGC
Statistics
Matches: 157, Mismatches: 25, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
68 2 0.01
69 153 0.97
70 2 0.01
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (69 bp):
CTTGATTTTACAGTTAGGAGCTTTGCTCTTGCTAACTATATTGGAGGTCGCGACTCTTCACCTAC
AAAC
Found at i:44026737 original size:138 final size:135
Alignment explanation
Indices: 44026467--44026892 Score: 361
Period size: 138 Copynumber: 3.1 Consensus size: 135
44026457 ATAAGCGAAG
* * * * * * *
44026467 CTTGGTTTTACAGCTAGGAGCTTTGCTCTTGCTAATTGTGTTAGAGGTCGCGACTCTTCACCTAC
1 CTTGATTTTACAGCTGGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGTCGCGGCTCTTCGCCTGC
* * * * * * * * *
44026532 AAACCTTGATTTTACAGTTAGGAGCTTTGCTT-TCGCTAACTACATTGGAGGTCGCGACTCTTCG
66 GAACCTTGATTTTATAGAT-GGAACTTTG-TTCTCGCTAACTATATTGGA-GCCGAGGCTCTTTG
44026596 CCTGTGAA
128 CCTGTGAA
* * *
44026604 TCTTGATTTTACAGTTGGGAGCTTTGCTCTTGCTAACTATTTTGGAGGTCGCGGCTCTTCGCCTG
1 -CTTGATTTTACAGCTGGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGTCGCGGCTCTTCGCCTG
* * * * *
44026669 TGAACCTCGATTTTATAGCTGGGAACTTTGTTCTCGCTAACTGTATTGGAGACCGAGGCGCTTTG
65 CGAACCTTGATTTTATAGAT-GGAACTTTGTTCTCGCTAACTATATTGGAG-CCGAGGCTCTTTG
*
44026734 CCTGCGAA
128 CCTGTGAA
* * * * * ** * * *
44026742 CATCGATTTTACAACTGAGAGTTTTACTCTCACTAACTGTGTTGGAGATCGTGGCTCTTTGCC-G
1 C-TTGATTTTACAGCTGGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGTCGCGGCTCTTCGCCTG
* * * * ***
44026806 ACGAACTTTGATTTTATAGATGGAAGTTTTGCTCTCGCTAACTATGTTGGAGGTTACGGCTCTTT
65 -CGAACCTTGATTTTATAGATGGAA-CTTTGTTCTCGCTAACTATATTGGAGCCGA-GGCTCTTT
44026871 GCCTGTGAA
127 GCCTGTGAA
44026880 CCTTGATTTTACA
1 -CTTGATTTTACA
44026893 AATGATAATT
Statistics
Matches: 229, Mismatches: 52, Indels: 14
0.78 0.18 0.05
Matches are distributed among these distances:
137 10 0.04
138 218 0.95
139 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (135 bp):
CTTGATTTTACAGCTGGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGTCGCGGCTCTTCGCCTGC
GAACCTTGATTTTATAGATGGAACTTTGTTCTCGCTAACTATATTGGAGCCGAGGCTCTTTGCCT
GTGAA
Found at i:44026905 original size:69 final size:69
Alignment explanation
Indices: 44026533--44026897 Score: 297
Period size: 69 Copynumber: 5.3 Consensus size: 69
44026523 TTCACCTACA
* * * * * *
44026533 AACCTTGATTTTACAG-TTAGGAGCTTTGCTTTCGCTAACTACATTGGAGGTCGCGACTCTTCGC
1 AACCTTGATTTTACAGATGA-GAGTTTTGCTCTCGCTAACTATATTGGAGGTCGCGGCTCTTTGC
44026597 CTGTG
65 CTGTG
* * * * * * *
44026602 AATCTTGATTTTACAGTTGGGAGCTTTGCTCTTGCTAACTATTTTGGAGGTCGCGGCTCTTCGCC
1 AACCTTGATTTTACAGATGAGAGTTTTGCTCTCGCTAACTATATTGGAGGTCGCGGCTCTTTGCC
44026667 TGTG
66 TGTG
* * * * ** * * ** * *
44026671 AACCTCGATTTTATAGCTGGGAACTTTGTTCTCGCTAACTGTATTGGAGACCGAGGCGCTTTGCC
1 AACCTTGATTTTACAGATGAGAGTTTTGCTCTCGCTAACTATATTGGAGGTCGCGGCTCTTTGCC
*
44026736 TGCG
66 TGTG
* * * * * * * *
44026740 AACATCGATTTTACA-ACTGAGAGTTTTACTCTCACTAACTGTGTTGGAGATCGTGGCTCTTTGC
1 AACCTTGATTTTACAGA-TGAGAGTTTTGCTCTCGCTAACTATATTGGAGGTCGCGGCTCTTTGC
*
44026804 C-GACG
65 CTG-TG
* * * **
44026809 AACTTTGATTTTATAGATG-GAAGTTTTGCTCTCGCTAACTATGTTGGAGGTTACGGCTCTTTGC
1 AACCTTGATTTTACAGATGAG-AGTTTTGCTCTCGCTAACTATATTGGAGGTCGCGGCTCTTTGC
44026873 CTGTG
65 CTGTG
*
44026878 AACCTTGATTTTACAAATGA
1 AACCTTGATTTTACAGATGA
44026898 TAATTTTGTG
Statistics
Matches: 239, Mismatches: 50, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
68 2 0.01
69 234 0.98
70 3 0.01
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (69 bp):
AACCTTGATTTTACAGATGAGAGTTTTGCTCTCGCTAACTATATTGGAGGTCGCGGCTCTTTGCC
TGTG
Found at i:44027309 original size:22 final size:21
Alignment explanation
Indices: 44027273--44027328 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 21
44027263 GGCCCGGCCC
44027273 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA-CAAAA
*
44027295 ATTTATTTTAAAAAT-TAAAA
1 ATTTATTTTAAAAATACAAAA
44027315 A--TATTTTAAAAATA
1 ATTTATTTTAAAAATA
44027329 TTTTAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 12 0.39
20 5 0.16
22 8 0.26
23 6 0.19
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTTATTTTAAAAATACAAAA
Found at i:44027325 original size:11 final size:11
Alignment explanation
Indices: 44027309--44027394 Score: 64
Period size: 11 Copynumber: 8.5 Consensus size: 11
44027299 ATTTTAAAAA
44027309 TTAAAAATATT
1 TTAAAAATATT
44027320 TTAAAAATATT
1 TTAAAAATATT
44027331 TT---AA-A-T
1 TTAAAAATATT
44027337 TTAAAAATATT
1 TTAAAAATATT
44027348 TT--AAA-A-T
1 TTAAAAATATT
* *
44027355 TAAAAAATAAT
1 TTAAAAATATT
**
44027366 AAAAAAAGTATT
1 TTAAAAA-TATT
44027378 TTAAAAATATT
1 TTAAAAATATT
44027389 TTAAAA
1 TTAAAA
44027395 TTTAAAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
6 3 0.05
7 3 0.05
8 3 0.05
9 8 0.13
10 2 0.03
11 33 0.55
12 8 0.13
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:44027339 original size:17 final size:17
Alignment explanation
Indices: 44027319--44027360 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
44027309 TTAAAAATAT
44027319 TTTAAAAATATTTTAAA
1 TTTAAAAATATTTTAAA
44027336 TTTAAAAATATTTTAAA
1 TTTAAAAATATTTTAAA
*
44027353 ATTAAAAA
1 TTTAAAAA
44027361 ATAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTAAAAATATTTTAAA
Found at i:44027392 original size:41 final size:41
Alignment explanation
Indices: 44027336--44027413 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
44027326 ATATTTTAAA
44027336 TTTAAAAATATTTTAAAA-TTAAAAAATAATAAAAAAAGTAT
1 TTTAAAAATATTTTAAAATTTAAAAAAT-ATAAAAAAAGTAT
*
44027377 TTTAAAAATATTTTAAAATTTAAAAAATTTAAAAAAA
1 TTTAAAAATATTTTAAAATTTAAAAAATATAAAAAAA
44027414 TAAATATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
41 26 0.74
42 9 0.26
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (41 bp):
TTTAAAAATATTTTAAAATTTAAAAAATATAAAAAAAGTAT
Found at i:44034518 original size:12 final size:12
Alignment explanation
Indices: 44034488--44034544 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
44034478 CTATATAGTT
44034488 TATTATAATATA
1 TATTATAATATA
*
44034500 TAATATAATA-A
1 TATTATAATATA
44034511 TAGTTATATATATTA
1 TA-TTATA-ATA-TA
*
44034526 TATTCATAAAATA
1 TATT-ATAATATA
44034539 TATTAT
1 TATTAT
44034545 TTCATCATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
11 3 0.08
12 15 0.41
13 9 0.24
14 4 0.11
15 6 0.16
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (12 bp):
TATTATAATATA
Found at i:44035022 original size:27 final size:29
Alignment explanation
Indices: 44034948--44035036 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 29
44034938 GAAAGTAGTA
44034948 TATTATAATATATTAATCATTTATATATATGT
1 TATTATAATATA-TAAT-A-TTATATATATGT
* *
44034980 TATAAT-ATAATGTAATATTATATAT-T-T
1 TATTATAAT-ATATAATATTATATATATGT
*
44035007 TATTATAATATATAATATAATA-ATA-GT
1 TATTATAATATATAATATTATATATATGT
44035034 TAT
1 TAT
44035037 ATAGAATAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
26 2 0.04
27 21 0.44
28 3 0.06
29 8 0.17
30 1 0.02
31 6 0.12
32 7 0.15
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
TATTATAATATATAATATTATATATATGT
Found at i:44035159 original size:197 final size:199
Alignment explanation
Indices: 44034778--44035140 Score: 500
Period size: 197 Copynumber: 1.8 Consensus size: 199
44034768 TGATTGAACA
* * * * *
44034778 TTATAAAATCATGTAGTACTATATTTTTTAATTATAATCTATAATATAATAATAGTTATATATAA
1 TTATAAAATAATGTAATACTATATATTTTAATTATAATATATAATATAATAATAGTTATATAGAA
* * * * * *
44034843 TAGTAGTACATTATATAGTACTTATTGTTATATATTATTGTTTATTATTATACTATTTGAAATGT
66 TAATAGTACATTATATAGTA-TAATTATCATATATTATTGTTTATTATTATACTAATTGAAATAT
* * *
44034908 GCCCCAAGTCTCTATACTTTTTGTACATTTGAAAGTAGTATATTATAATATATTAATCATTTATA
130 ACACCAAGTCTCTATACTTTTTGTACATTTGAAAGTA-TATATCATAATATATTAATCATTTATA
44034973 TATATG
194 TATATG
* *
44034979 TTATAATATAATGTAATATTATATATTTT-ATTATAATATATAATATAATAATAGTTATATAGAA
1 TTATAAAATAATGTAATACTATATATTTTAATTATAATATATAATATAATAATAGTTATATAGAA
*
44035043 TAATAGTACATTATATA-T-TAATTATCATGTATTATTGTTTATTATTATACTAATTGAAATATA
66 TAATAGTACATTATATAGTATAATTATCATATATTATTGTTTATTATTATACTAATTGAAATATA
**
44035106 CATTAAGTC-CTTATACTTTTTGTACATTTGAAAGT
131 CACCAAGTCTC-TATACTTTTTGTACATTTGAAAGT
44035141 TAAGCCTCAT
Statistics
Matches: 143, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
196 1 0.01
197 68 0.48
199 1 0.01
200 49 0.34
201 24 0.17
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (199 bp):
TTATAAAATAATGTAATACTATATATTTTAATTATAATATATAATATAATAATAGTTATATAGAA
TAATAGTACATTATATAGTATAATTATCATATATTATTGTTTATTATTATACTAATTGAAATATA
CACCAAGTCTCTATACTTTTTGTACATTTGAAAGTATATATCATAATATATTAATCATTTATATA
TATG
Found at i:44035185 original size:163 final size:156
Alignment explanation
Indices: 44035016--44035330 Score: 386
Period size: 156 Copynumber: 2.0 Consensus size: 156
44035006 TTATTATAAT
44035016 ATATAATATAATAATAGTTATATAGAATA-ATAGTACATTATATATTAATTATCATGTATTATTG
1 ATATAATATAATAATAGTTATATAGAATAGA-AGTACA-T-TATA-T-ATTA-CA--TATTATTG
* * *
44035080 TTTATTATTATACTAATTGAAATATACAT-TAAGTCCTTATACTTTTTGTACATTTGAAAGTTAA
58 TTTATTATTATACTAATTGAAATATAC-TCTAAGCCCCTATACTTTTCGTACATTTGAAAGTT-A
44035144 G-CCT-CATACTATATTATATAATACTATATCATATC
121 GTCCTCCA-ACTATATTATATAATACTATATCATATC
** * * *
44035179 ATATAATATGTTAATAGTTATATATAGTAGAAGTACATTATATGTTACATATTATTGTTTATTAT
1 ATATAATATAATAATAGTTATATAGAATAGAAGTACATTATATATTACATATTATTGTTTATTAT
* * *
44035244 TATACTAGTTGAAATATGCTCTAAGCCCCTATACTTTTCGTACATTTGAAAGTTAGTCTTCCAAC
66 TATACTAATTGAAATATACTCTAAGCCCCTATACTTTTCGTACATTTGAAAGTTAGTCCTCCAAC
**
44035309 TATATTATATAATGTTATATCA
131 TATATTATATAATACTATATCA
44035331 CATTGTATAA
Statistics
Matches: 135, Mismatches: 13, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
155 3 0.02
156 87 0.64
157 2 0.01
158 2 0.01
159 3 0.02
160 1 0.01
161 4 0.03
162 1 0.01
163 31 0.23
164 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (156 bp):
ATATAATATAATAATAGTTATATAGAATAGAAGTACATTATATATTACATATTATTGTTTATTAT
TATACTAATTGAAATATACTCTAAGCCCCTATACTTTTCGTACATTTGAAAGTTAGTCCTCCAAC
TATATTATATAATACTATATCATATC
Found at i:44035186 original size:200 final size:199
Alignment explanation
Indices: 44034779--44035203 Score: 488
Period size: 197 Copynumber: 2.1 Consensus size: 199
44034769 GATTGAACAT
* * * * * *
44034779 TATAAAATCATGTAGTACTATATTTTTTAATTATAATCTATAATATAATAATAGTTATATATAAT
1 TATAATAT-ATGTAATATTATATATTTTAATTATAATATATAATATAATAATAGTTATATAGAAT
* * * * * * *
44034844 AGTAGTACATTATATAGTACTTATTGTTATATATTATTGTTTATTATTATACTATTTGAAATGTG
65 AATAGTACATTATATAGTA-TAATTATCATATATTATTGTTTATTATTATACTAATTGAAATATA
* * *
44034909 CCCCAAGTCTCTATACTTTTTGTACATTTGAAAGTAGTATATTATAATATATTAATCATTTATAT
129 CACCAAGTCTCTATACTTTTTGTACATTTGAAAGTAGTATACTATAATATATTAATCATCTATAT
**
44034974 ATATGT
194 ATATCA
44034980 TATAATATAATGTAATATTATATATTTT-ATTATAATATATAATATAATAATAGTTATATAGAAT
1 TATAATAT-ATGTAATATTATATATTTTAATTATAATATATAATATAATAATAGTTATATAGAAT
*
44035044 AATAGTACATTATATA-T-TAATTATCATGTATTATTGTTTATTATTATACTAATTGAAATATAC
65 AATAGTACATTATATAGTATAATTATCATATATTATTGTTTATTATTATACTAATTGAAATATAC
** *
44035107 ATTAAGTC-CTTATACTTTTTGTACATTTGAAAGTTAAGCCTCATACTATATTATA-TAAT-A-C
130 ACCAAGTCTC-TATACTTTTTGTACATTTGAAAG-T-AG--T-ATACTATAATATATTAATCATC
44035168 TATATCATATCA
189 TATAT-ATATCA
*
44035180 TATAATATGT-TAATAGTTATATAT
1 TATAATATATGTAATA-TTATATAT
44035204 AGTAGAAGTA
Statistics
Matches: 192, Mismatches: 24, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
196 1 0.01
197 67 0.35
198 6 0.03
199 17 0.09
200 62 0.32
201 28 0.15
202 11 0.06
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (199 bp):
TATAATATATGTAATATTATATATTTTAATTATAATATATAATATAATAATAGTTATATAGAATA
ATAGTACATTATATAGTATAATTATCATATATTATTGTTTATTATTATACTAATTGAAATATACA
CCAAGTCTCTATACTTTTTGTACATTTGAAAGTAGTATACTATAATATATTAATCATCTATATAT
ATCA
Found at i:44035449 original size:20 final size:18
Alignment explanation
Indices: 44035424--44035461 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
44035414 TTATAATCTA
44035424 TATTATAGTAGTTATATATT
1 TATTATAGTA-TTA-ATATT
44035444 TATTATAGTATTAATATT
1 TATTATAGTATTAATATT
44035462 AAATTAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 3 0.17
20 10 0.56
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
TATTATAGTATTAATATT
Found at i:44051549 original size:40 final size:40
Alignment explanation
Indices: 44051490--44051606 Score: 155
Period size: 40 Copynumber: 2.9 Consensus size: 40
44051480 ATCAAAATAA
* * * * *
44051490 AAATAGGGGCACGTGTGTGCATTTAGGGGTACCGGAGTAC
1 AAATAGGGGCACGTATGTGCATTCAAGGGTACCGAAGCAC
*
44051530 AAATAGGGGCACGTATGTGCATTCAAGGGTATCGAAGCAC
1 AAATAGGGGCACGTATGTGCATTCAAGGGTACCGAAGCAC
*
44051570 AAACAGGGGCACGTATGTGCAATTCAA-GGTACCGAAG
1 AAATAGGGGCACGTATGTGC-ATTCAAGGGTACCGAAG
44051607 TAAATTCATA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 62 0.91
41 6 0.09
ACGTcount: A:0.31, C:0.17, G:0.32, T:0.20
Consensus pattern (40 bp):
AAATAGGGGCACGTATGTGCATTCAAGGGTACCGAAGCAC
Found at i:44064000 original size:43 final size:43
Alignment explanation
Indices: 44063953--44064158 Score: 200
Period size: 43 Copynumber: 4.8 Consensus size: 43
44063943 AAAAGTCATG
*
44063953 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACA
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCACA
* * * *
44063996 ACCTTTAGCGGCGCTTTTGTTACAAACGCTGCTAAAGACCACG
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCACA
* ** **
44064039 ACCTTTAGCGGCGCTTTTGTGGCAAACGCCGCTAAAGACCATG
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCACA
* * * * *
44064082 ACCTTTAGCAGTGCTTTTTATCACAAATGCCGCTATAA-AACA-A
1 ACCTTTAGCGGCGC-TTTTCTCACAAACGCCGCTA-AAGACCACA
* * * * *
44064125 ACCTTTAGTGACGCTTCTCGCAAAAACGCCGCTA
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTA
44064159 GAAACATATC
Statistics
Matches: 135, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
42 15 0.11
43 99 0.73
44 19 0.14
45 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCACA
Found at i:44064205 original size:20 final size:20
Alignment explanation
Indices: 44064179--44064223 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
44064169 GTGCAAAAAA
44064179 ATATTTTAATGAAATAATATT
1 ATATTTTAATGAAA-AATATT
* *
44064200 -TATTTTTATGATAAATATT
1 ATATTTTAATGAAAAATATT
44064219 ATATT
1 ATATT
44064224 ATGTTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (20 bp):
ATATTTTAATGAAAAATATT
Found at i:44068453 original size:21 final size:21
Alignment explanation
Indices: 44068429--44068510 Score: 92
Period size: 21 Copynumber: 3.9 Consensus size: 21
44068419 CCAACCTTTG
**
44068429 AATCCCAAATCTTAAACCCTA
1 AATCCCAACCCTTAAACCCTA
* *
44068450 AATCCCTAACTCTTAACCCCTA
1 AATCCC-AACCCTTAAACCCTA
* * *
44068472 ACTCCTAACCCTTAAACCTTA
1 AATCCCAACCCTTAAACCCTA
44068493 AATCCCAACCCTTAAACC
1 AATCCCAACCCTTAAACC
44068511 ATAATCCATA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 34 0.67
22 17 0.33
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (21 bp):
AATCCCAACCCTTAAACCCTA
Found at i:44068470 original size:14 final size:14
Alignment explanation
Indices: 44068453--44068482 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44068443 AACCCTAAAT
*
44068453 CCCTAACTCTTAAC
1 CCCTAACTCCTAAC
44068467 CCCTAACTCCTAAC
1 CCCTAACTCCTAAC
44068481 CC
1 CC
44068483 TTAAACCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.50, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAACTCCTAAC
Found at i:44068521 original size:7 final size:7
Alignment explanation
Indices: 44068509--44068542 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
44068499 AACCCTTAAA
44068509 CCATAAT
1 CCATAAT
44068516 CCATAAT
1 CCATAAT
44068523 CCATAAT
1 CCATAAT
*
44068530 CCCTAAAT
1 CCAT-AAT
44068538 CCATA
1 CCATA
44068543 TATAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.26
Consensus pattern (7 bp):
CCATAAT
Found at i:44068526 original size:14 final size:15
Alignment explanation
Indices: 44068505--44068542 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
44068495 TCCCAACCCT
44068505 TAAA-CCATAATCCA
1 TAAATCCATAATCCA
*
44068519 T-AATCCATAATCCC
1 TAAATCCATAATCCA
44068533 TAAATCCATA
1 TAAATCCATA
44068543 TATAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCA
Found at i:44068788 original size:7 final size:7
Alignment explanation
Indices: 44068776--44068930 Score: 57
Period size: 7 Copynumber: 21.9 Consensus size: 7
44068766 ACTAGTTAAT
44068776 CTAAACC
1 CTAAACC
44068783 CTAAACC
1 CTAAACC
*
44068790 ATAAA-C
1 CTAAACC
*
44068796 TTAAACC
1 CTAAACC
44068803 CTAAAACC
1 CT-AAACC
*
44068811 ATAAACC
1 CTAAACC
* *
44068818 CTTAACA
1 CTAAACC
44068825 C-ATAACC
1 CTA-AACC
44068832 TCTAAACC
1 -CTAAACC
*
44068840 TTAAACTC
1 CTAAAC-C
*
44068848 C--AGCC
1 CTAAACC
*
44068853 TTTAAACC
1 -CTAAACC
*
44068861 ATAAACC
1 CTAAACC
*
44068868 ATAAACC
1 CTAAACC
* *
44068875 ATAACCC
1 CTAAACC
44068882 CTAAACC
1 CTAAACC
* *
44068889 CATGATCC
1 C-TAAACC
*
44068897 ATAAACC
1 CTAAACC
* *
44068904 ATAAACT
1 CTAAACC
44068911 CTAAACC
1 CTAAACC
* *
44068918 ATATACC
1 CTAAACC
44068925 CTAAAC
1 CTAAAC
44068931 TATAGTGATA
Statistics
Matches: 108, Mismatches: 30, Indels: 20
0.68 0.19 0.13
Matches are distributed among these distances:
5 1 0.01
6 7 0.06
7 80 0.74
8 19 0.18
9 1 0.01
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:44068802 original size:20 final size:21
Alignment explanation
Indices: 44068777--44068816 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
44068767 CTAGTTAATC
44068777 TAAACCCT-AAACCATAAACT
1 TAAACCCTAAAACCATAAACT
44068797 TAAACCCTAAAACCATAAAC
1 TAAACCCTAAAACCATAAAC
44068817 CCTTAACACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAACCCTAAAACCATAAACT
Found at i:44068872 original size:14 final size:14
Alignment explanation
Indices: 44068855--44068930 Score: 73
Period size: 14 Copynumber: 5.4 Consensus size: 14
44068845 CTCCAGCCTT
44068855 TAAACCATAAACCA
1 TAAACCATAAACCA
* *
44068869 TAAACCATAACCCC
1 TAAACCATAAACCA
* *
44068883 TAAACCCATGATCCA
1 TAAA-CCATAAACCA
44068898 TAAACCATAAACTC-
1 TAAACCATAAAC-CA
* *
44068912 TAAACCATATACCC
1 TAAACCATAAACCA
44068926 TAAAC
1 TAAAC
44068931 TATAGTGATA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
13 1 0.02
14 38 0.75
15 12 0.24
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.18
Consensus pattern (14 bp):
TAAACCATAAACCA
Found at i:44069198 original size:41 final size:40
Alignment explanation
Indices: 44069152--44069268 Score: 101
Period size: 40 Copynumber: 2.9 Consensus size: 40
44069142 GTTAAAAATA
* * * * *
44069152 GAGCATTCGCGGCGTTTTATCAAAAATACTGCTAAAGCCCT
1 GAGCATTAGCGGCGCTTTACCAAAAACACCGCTAAAG-CCT
* * *
44069193 GAGCATTAGCGTCGCTTTCCCAAAAACGCCGCTAAAGCCT
1 GAGCATTAGCGGCGCTTTACCAAAAACACCGCTAAAGCCT
* ** *
44069233 GAGCATTAACTACGCTTT-CTCAAAAACGCCGCTAAA
1 GAGCATTAGCGGCGCTTTAC-CAAAAACACCGCTAAA
44069269 TCCCCGAAAG
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.02
40 34 0.53
41 29 0.45
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTTACCAAAAACACCGCTAAAGCCT
Found at i:44069249 original size:40 final size:41
Alignment explanation
Indices: 44069182--44069268 Score: 133
Period size: 40 Copynumber: 2.1 Consensus size: 41
44069172 CAAAAATACT
*
44069182 GCTAAAGCCCTGAGCATTAGCGTCGCTTTCCCAAAAACGCC
1 GCTAAAGCCCTGAGCATTAACGTCGCTTTCCCAAAAACGCC
*
44069223 GCTAAAG-CCTGAGCATTAAC-TACGCTTTCTCAAAAACGCC
1 GCTAAAGCCCTGAGCATTAACGT-CGCTTTCCCAAAAACGCC
44069263 GCTAAA
1 GCTAAA
44069269 TCCCCGAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 1 0.02
40 35 0.81
41 7 0.16
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (41 bp):
GCTAAAGCCCTGAGCATTAACGTCGCTTTCCCAAAAACGCC
Found at i:44069415 original size:40 final size:40
Alignment explanation
Indices: 44069371--44069449 Score: 115
Period size: 40 Copynumber: 1.9 Consensus size: 40
44069361 TCCATAAATA
*
44069371 CTCGATCTTTAGCGGCGTTTTCTAT-AAAGCGCCGCTAATG
1 CTCGATCTTTAGCGACGTTTTCTATCAAA-CGCCGCTAATG
*
44069411 CTCGATCTTTAGCGACGTTTTTTATCCAAACGCCGCTAA
1 CTCGATCTTTAGCGACGTTTTCTAT-CAAACGCCGCTAA
44069450 AAACGCCGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
40 23 0.66
41 9 0.26
42 3 0.09
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (40 bp):
CTCGATCTTTAGCGACGTTTTCTATCAAACGCCGCTAATG
Found at i:44069455 original size:12 final size:12
Alignment explanation
Indices: 44069438--44069462 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44069428 TTTTTTATCC
44069438 AAACGCCGCTAA
1 AAACGCCGCTAA
44069450 AAACGCCGCTAA
1 AAACGCCGCTAA
44069462 A
1 A
44069463 GGCCTGTTTT
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:0.32, G:0.16, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:44072456 original size:13 final size:13
Alignment explanation
Indices: 44072435--44072470 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
44072425 TATTTGAGAC
*
44072435 CTTTATTTTTCTT
1 CTTTCTTTTTCTT
*
44072448 TTTTCTTTTTCTT
1 CTTTCTTTTTCTT
44072461 CTTTCTTTTT
1 CTTTCTTTTT
44072471 TGGGTCTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (13 bp):
CTTTCTTTTTCTT
Found at i:44072870 original size:21 final size:21
Alignment explanation
Indices: 44072831--44072870 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
44072821 ATCCCCTTGC
*
44072831 TAAAATAAAAGTTTCTTTTAA
1 TAAAATAAAAGTTTATTTTAA
44072852 TAAAA-AAAAGTTTAATTTT
1 TAAAATAAAAGTTT-ATTTT
44072871 GGGAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATAAAAGTTTATTTTAA
Found at i:44073105 original size:152 final size:148
Alignment explanation
Indices: 44072853--44073309 Score: 548
Period size: 152 Copynumber: 3.0 Consensus size: 148
44072843 TTCTTTTAAT
** * * *
44072853 AAAA-AAAAGTTTAAT-TTTGGGAAAAATAGTGTTTTTTTT---AATGGATAAAGTTTAGATTTT
1 AAAATAAAAGTTTAATCTTTAAGAAAAATAGTATTTTTTTTAAAAAAGGAGAAAGTTTAGATTTT
*
44072913 GAAAAAAACTAAAAATCTGTTTTTTTAGTTATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAGT
66 G--AAAAA-TAAAAATATGTTTTTTTAGTTATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAGT
*
44072978 TTTAATTTGTTTTCAACTATTTC
128 TTTGATTT-TTTT-AACTATTTC
*
44073001 AAAGTAAAAGTTTTAATCTTTAAGAAAAATAGTATTTTTTTTAAAAAAGGAGAAAGTTTAGATTT
1 AAAATAAAAG-TTTAATCTTTAAGAAAAATAGTATTTTTTTTAAAAAAGGAGAAAGTTTAGATTT
* * * *
44073066 TGAAAAATAAAAATATATATTTTTTATTTATTTTAAAGGAAA-TTTTAATTTTTAAAACAAAATT
65 TGAAAAATAAAAATATGT-TTTTTTAGTTATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAGTT
* * *
44073130 TTGATTTTTTTTAATTACTCC
129 TTGA-TTTTTTTAACTATTTC
* * *
44073151 AAAATAAAAACTTTAATCTTTAAGAAAATTAATATTTTTTTTTCAAAAAAGGAGAAAGTTTAGAT
1 AAAAT-AAAAGTTTAATCTTTAAGAAAAATAGTA-TTTTTTTT-AAAAAAGGAGAAAGTTTAGAT
* * * *
44073216 TTTGAAAAATAAAAATATGTTTTTTTAAGTCATTTTAAAAGAAAGTTGAAATTTTTAAAATAAAG
63 TTTGAAAAATAAAAATATGTTTTTTT-AGTTATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAG
*
44073281 TTTTGATTCTTTTAACTATTTC
127 TTTTGATTTTTTTAACTATTTC
*
44073303 GAAATAA
1 AAAATAA
44073310 GGTTCTGATT
Statistics
Matches: 264, Mismatches: 32, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
148 3 0.01
149 5 0.02
150 37 0.14
151 77 0.29
152 100 0.38
153 22 0.08
154 20 0.08
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (148 bp):
AAAATAAAAGTTTAATCTTTAAGAAAAATAGTATTTTTTTTAAAAAAGGAGAAAGTTTAGATTTT
GAAAAATAAAAATATGTTTTTTTAGTTATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAGTTTT
GATTTTTTTAACTATTTC
Found at i:44073112 original size:21 final size:20
Alignment explanation
Indices: 44073087--44073140 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
44073077 AATATATATT
**
44073087 TTTTATTTATTTTAAAGGAAA
1 TTTTATTT-TTTTAAACAAAA
* *
44073108 TTTTAATTTTTAAAACAAAA
1 TTTTATTTTTTTAAACAAAA
44073128 TTTTGATTTTTTT
1 TTTT-ATTTTTTT
44073141 TAATTACTCC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (20 bp):
TTTTATTTTTTTAAACAAAA
Found at i:44073824 original size:15 final size:16
Alignment explanation
Indices: 44073806--44073836 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44073796 TTTATTCTTA
44073806 TTTCAT-TTTATTTAT
1 TTTCATGTTTATTTAT
44073821 TTTCATGTTTATTTAT
1 TTTCATGTTTATTTAT
44073837 ATATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTCATGTTTATTTAT
Found at i:44074516 original size:13 final size:14
Alignment explanation
Indices: 44074497--44074531 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
44074487 ATGTCAGATA
44074497 AAAATAATTAAAAT
1 AAAATAATTAAAAT
*
44074511 -AAATAACTAAAAT
1 AAAATAATTAAAAT
44074524 AAAATAAT
1 AAAATAAT
44074532 AAATCAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAATAATTAAAAT
Found at i:44085435 original size:30 final size:30
Alignment explanation
Indices: 44085331--44085439 Score: 82
Period size: 31 Copynumber: 3.6 Consensus size: 30
44085321 AACGTTATAT
* *
44085331 TTTATCAGGTACTATGTACCAATG---ACTT
1 TTTATCAAGTACTATGTACCAATGTTCAC-A
* * *
44085359 TATTATCAAGTACTTTGTACCGATGTTCATA
1 T-TTATCAAGTACTATGTACCAATGTTCACA
* * *
44085390 TTATATCAGGCACTATGT-CTCAATGTTTACA
1 TT-TATCAAGTACTATGTAC-CAATGTTCACA
44085421 TTTATCAAGTACTATGTAC
1 TTTATCAAGTACTATGTAC
44085440 TAGTGGTGGA
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
28 1 0.02
29 20 0.33
30 15 0.25
31 24 0.39
32 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (30 bp):
TTTATCAAGTACTATGTACCAATGTTCACA
Found at i:44087884 original size:20 final size:21
Alignment explanation
Indices: 44087856--44087902 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
44087846 CTTGTACGGG
*
44087856 TTTGCACTTAGGTGCCTCTGT
1 TTTGCACTTAGATGCCTCTGT
*
44087877 TTTG-ACTTTGATGCCTCTGT
1 TTTGCACTTAGATGCCTCTGT
*
44087897 TATGCA
1 TTTGCA
44087903 TCATCGATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (21 bp):
TTTGCACTTAGATGCCTCTGT
Found at i:44091559 original size:21 final size:20
Alignment explanation
Indices: 44091530--44091593 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 20
44091520 TGAACACAAC
*
44091530 AACAGAAGCTCATAAGAGGTG
1 AACAGAAGCTCA-AAGAGCTG
*
44091551 AACAAAAGCTCGAAAGAGCTG
1 AACAGAAGCTC-AAAGAGCTG
44091572 AACAGAAGCTCAAAAGAGCTG
1 AACAGAAGCTC-AAAGAGCTG
44091593 A
1 A
44091594 TCCAACCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 37 0.97
22 1 0.03
ACGTcount: A:0.47, C:0.17, G:0.25, T:0.11
Consensus pattern (20 bp):
AACAGAAGCTCAAAGAGCTG
Found at i:44097745 original size:25 final size:21
Alignment explanation
Indices: 44097717--44097761 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
44097707 GATTAAGAAG
44097717 ATAAATTAAATAACTAAAATAAATA
1 ATAAA-TAAA-AA-TAAAA-AAATA
44097742 ATAAATAAAAATAAAAAAAT
1 ATAAATAAAAATAAAAAAAT
44097762 GATTAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
22 5 0.25
23 2 0.10
24 4 0.20
25 5 0.25
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
ATAAATAAAAATAAAAAAATA
Found at i:44099560 original size:168 final size:162
Alignment explanation
Indices: 44099091--44099582 Score: 840
Period size: 162 Copynumber: 3.0 Consensus size: 162
44099081 TATTTATATG
*
44099091 TTTTCAATTGAATTATACATGTGATGGAAATTTCCATATATATATACCTATCGCATATCCAACAA
1 TTTTCAATTGAATTATACATGTGATGGAAATTGCCATATATATATACCTATCGCATATCCAACAA
* *
44099156 CGTACAATGATTACCGAGCCTGTTTTGAACCTTAGGAAGTCATAGGATACAAATGACACGTCATT
66 CGTACAATGATTACCGAGCCCGTTTTGAACCTTAGGAAATCATAGGATACAAATGACACGTCATT
*
44099221 TGGGTTTACATAATTCTGGTGTTGGTCCTGAA
131 TGGGTTTACATAATTCAGGTGTTGGTCCTGAA
*
44099253 TTTTCAATTGAATTATACATGTGATGAAAATTGCCATATATATATACCTATCGCATATCCAACAA
1 TTTTCAATTGAATTATACATGTGATGGAAATTGCCATATATATATACCTATCGCATATCCAACAA
44099318 CGTACAATGATTACCGAGCCCGTTTTGAACCTTAGGAAATCATAGGATACAAATGACACGTCATT
66 CGTACAATGATTACCGAGCCCGTTTTGAACCTTAGGAAATCATAGGATACAAATGACACGTCATT
*
44099383 TGGGTTTACATAATTCGGGTGTTGGTCCTGAA
131 TGGGTTTACATAATTCAGGTGTTGGTCCTGAA
*
44099415 TTTTCAATTGAATTATACATGTGATGGAAATTGCCATATATATATATATATACCTACCGCATATC
1 TTTTCAATTGAATTATACATGTGATGGAAATTGCC------ATATATATATACCTATCGCATATC
* *
44099480 CAACAACGTACAATGATTACCGAGCCCGTTTTGAACATTAGGAAATCATAGGATACAAAAGACAC
60 CAACAACGTACAATGATTACCGAGCCCGTTTTGAACCTTAGGAAATCATAGGATACAAATGACAC
*
44099545 GTCATTTGGGTTTACATAATTCAGGTGTTGATCCTGAA
125 GTCATTTGGGTTTACATAATTCAGGTGTTGGTCCTGAA
44099583 CGTCCTACTG
Statistics
Matches: 313, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
162 191 0.61
168 122 0.39
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (162 bp):
TTTTCAATTGAATTATACATGTGATGGAAATTGCCATATATATATACCTATCGCATATCCAACAA
CGTACAATGATTACCGAGCCCGTTTTGAACCTTAGGAAATCATAGGATACAAATGACACGTCATT
TGGGTTTACATAATTCAGGTGTTGGTCCTGAA
Found at i:44105604 original size:16 final size:14
Alignment explanation
Indices: 44105569--44105595 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44105559 TGCAAACGAT
44105569 AAAATTTTCACACG
1 AAAATTTTCACACG
44105583 AAAATTTTCACAC
1 AAAATTTTCACAC
44105596 ATATAAATTA
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:0.22, G:0.04, T:0.30
Consensus pattern (14 bp):
AAAATTTTCACACG
Done.