Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008194.1 Hibiscus syriacus cultivar Beakdansim tig00110813_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2426039
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 13
Found at i:2116514 original size:29 final size:29
Alignment explanation
Indices: 2116472--2116528 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
2116462 GAGCAAGGGT
*
2116472 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCCCCCGGAGTGCATGGCGACCTACA
2116501 AGGTCCCCCGGAGTGCATGGCGACCTAC
1 AGGTCCCCCGGAGTGCATGGCGACCTAC
2116529 GGCTAACGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.19, C:0.33, G:0.33, T:0.14
Consensus pattern (29 bp):
AGGTCCCCCGGAGTGCATGGCGACCTACA
Found at i:2121565 original size:210 final size:211
Alignment explanation
Indices: 2120972--2121785 Score: 1141
Period size: 210 Copynumber: 3.8 Consensus size: 211
2120962 ATTTAAGAAT
* *
2120972 TAAATTGAACAAATATGAAATTACAAATAAAAAATT-AATATATTAAAACAACACATTGATGAGG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATT-AAACAACACA-T-ATAAGG
*
2121036 GATCAAATCGAAATAATTTTAAA-TGTGAGGTTGAAA-TAATACAAAAAAGTACT-AATTATACT
63 GATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACC
*
2121098 CATTTAAAAAGTTATGGGCCAATTAAAATATAGAATTAAGTAATAAGTATG-GATCAATTTCAT-
128 CATTTAAAAAGTTATGGGCCAATTAAAA-ATAGAAATAAGTAATAAGTATGAG-TCAATTT-ATG
2121161 ATGCAAATAAAATTTGGAGGAC
190 ATGCAAATAAAATTTGGAGGAC
* * *
2121183 TAAATTGAACAAATATGAAATTACAAATAAAAAGTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAAC-A-ACACA-T-ATAAG
* * * *
2121248 GGATCAAATCGAAATAATTTTATATTGTGATGTTGAAATTAATACAAAGAAGTACCAAATTATAC
62 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * * *
2121313 CCATTTTAAAAGTTATGTGCCAATTTAAAAATAGAAATAAGTAATAAGTATGAGTAAATTTTTGA
127 CCATTTAAAAAGTTATGGGCCAA-TTAAAAATAGAAATAAGTAATAAGTATGAGTCAATTTATGA
2121378 TGCAAATAAAATTTGGAGGAC
191 TGCAAATAAAATTTGGAGGAC
2121399 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A-AAGGGAT
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACATATAAGGGAT
*
2121462 CAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCAT
66 CAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCAT
* * *
2121527 TTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCA-GGTGC
131 TTAAAAAGTTATGGGCCAA-TTAAAAATAGAAATAAGTAATAAGTATGAGTCAATTT-ATGATGC
*
2121591 AAATAAAATTTTGAGGAC
194 AAATAAAATTTGGAGGAC
* * * *
2121609 TAAATTAAACAAATATGAAATTAAAAATAAAATTTTAAATATATTAAACAACACA-A-AAGGGGT
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACATATAAGGGAT
* * * *
2121672 CAAATCAAAATAATTTAAAATTTTGAGGTTGAAATTAATA-AAAAAATGTACTAAATTATACTCA
66 CAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAA-GTACTAAATTATACCCA
*
2121736 TTTAAAAAGTTATGGGTCAATTAATAAATAGAAATAAGTAATAAGT-TGAG
130 TTTAAAAAGTTATGGGCCAATTAA-AAATAGAAATAAGTAATAAGTATGAG
2121786 AAAAAAAATT
Statistics
Matches: 553, Mismatches: 38, Indels: 26
0.90 0.06 0.04
Matches are distributed among these distances:
209 13 0.02
210 291 0.53
211 40 0.07
212 8 0.01
213 36 0.07
214 17 0.03
215 17 0.03
216 124 0.22
217 7 0.01
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.30
Consensus pattern (211 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACATATAAGGGAT
CAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCAT
TTAAAAAGTTATGGGCCAATTAAAAATAGAAATAAGTAATAAGTATGAGTCAATTTATGATGCAA
ATAAAATTTGGAGGAC
Found at i:2121808 original size:2 final size:2
Alignment explanation
Indices: 2121803--2121859 Score: 62
Period size: 2 Copynumber: 28.0 Consensus size: 2
2121793 ATTAAAATAG
* *
2121803 AT AT AT AT AT AT AG AT AT AT AT AT AT AT A- AT AT AA ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
*
2121845 AGT TT AT AT AT AT AT
1 A-T AT AT AT AT AT AT
2121860 TATGTATAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
1 1 0.02
2 43 0.93
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2121843 original size:18 final size:19
Alignment explanation
Indices: 2121803--2121901 Score: 69
Period size: 20 Copynumber: 5.2 Consensus size: 19
2121793 ATTAAAATAG
* *
2121803 ATATATATATATAGATA-T
1 ATATATATATATATAAACT
2121821 ATATATATATAATATAAACT
1 ATATATATAT-ATATAAACT
* *
2121841 ATATAGTTTATATATATA-T
1 ATATA-TATATATATAAACT
* *
2121860 -TATGTATAAAGTATAAACT
1 ATATATATATA-TATAAACT
* *
2121879 ATATATACCATGTATAAACT
1 ATATATA-TATATATAAACT
2121899 ATA
1 ATA
2121902 ATACTACATA
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
17 4 0.06
18 18 0.29
19 7 0.11
20 28 0.45
21 5 0.08
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
ATATATATATATATAAACT
Found at i:2121881 original size:27 final size:28
Alignment explanation
Indices: 2121851--2121907 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
2121841 ATATAGTTTA
** *
2121851 TATATATATTATGTATAAAGTATAA-AC
1 TATATATACCATGTATAAACTATAATAC
2121878 TATATATACCATGTATAAACTATAATAC
1 TATATATACCATGTATAAACTATAATAC
2121906 TA
1 TA
2121908 CATAGTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (28 bp):
TATATATACCATGTATAAACTATAATAC
Found at i:2121967 original size:11 final size:11
Alignment explanation
Indices: 2121953--2122071 Score: 66
Period size: 11 Copynumber: 10.6 Consensus size: 11
2121943 ACTACATAGT
2121953 TTATATATAAA
1 TTATATATAAA
*
2121964 TTATATATGAA
1 TTATATATAAA
2121975 TTATATATAAA
1 TTATATATAAA
* * *
2121986 --CTATACAAT
1 TTATATATAAA
*
2121995 TTATATTTATATA
1 TTATA--TATAAA
*
2122008 TTATGTAT-AA
1 TTATATATAAA
*
2122018 TTATAAATAATA
1 TTATATATAA-A
*
2122030 TATATTGTATAAA
1 T-TA-TATATAAA
**
2122043 TTATATAGTTTA
1 TTATATA-TAAA
2122055 TTA-ATATAAA
1 TTATATATAAA
2122065 TTATATA
1 TTATATA
2122072 GTTTTTTTTA
Statistics
Matches: 78, Mismatches: 20, Indels: 20
0.66 0.17 0.17
Matches are distributed among these distances:
9 6 0.08
10 12 0.15
11 35 0.45
12 9 0.12
13 11 0.14
14 5 0.06
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (11 bp):
TTATATATAAA
Found at i:2121998 original size:42 final size:43
Alignment explanation
Indices: 2121929--2122027 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 43
2121919 TATGAACTAT
* * * *
2121929 TGAACTATATAGAAACTACATAGTTTATA-TATAAATTATATA
1 TGAATTATATATAAACTACACAATTTATATTATAAATTATATA
* * *
2121971 TGAATTATATATAAACTATACAATTTATATTTATATATTATGTA
1 TGAATTATATATAAACTACACAATTTATA-TTATAAATTATATA
*
2122015 T-AATTATAAATAA
1 TGAATTATATATAA
2122028 TATATATTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 24 0.51
43 11 0.23
44 12 0.26
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (43 bp):
TGAATTATATATAAACTACACAATTTATATTATAAATTATATA
Found at i:2122016 original size:17 final size:17
Alignment explanation
Indices: 2121996--2122049 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
2121986 CTATACAATT
* *
2121996 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
2122013 TATAATTATAAATAATA
1 TATATTTATAAATTATA
2122030 TATATTGTATAAATTATA
1 TATATT-TATAAATTATA
2122048 TA
1 TA
2122050 GTTTATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:2122160 original size:20 final size:20
Alignment explanation
Indices: 2122135--2122207 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 20
2122125 TATAAACTAC
2122135 ATACTATAATTTATATTTAT
1 ATACTATAATTTATATTTAT
*
2122155 ATACTATATTGTATACTATTTAT
1 ATACTATAAT-T-TA-TATTTAT
*
2122178 ATAAACTATAGTTTATATTTAT
1 AT--ACTATAATTTATATTTAT
*
2122200 ATAATATA
1 ATACTATA
2122208 TATTAACTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 14 0.31
21 1 0.02
22 11 0.24
23 11 0.24
24 1 0.02
25 7 0.16
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (20 bp):
ATACTATAATTTATATTTAT
Found at i:2122175 original size:29 final size:29
Alignment explanation
Indices: 2122111--2122179 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
2122101 GTTTAGGGTT
2122111 TATATTTATATTTATATAAACTACATACTA
1 TATATTTATATTTATAT-AACTACATACTA
* **
2122141 TA-ATTTATATTTATAT-ACTATATTGTA
1 TATATTTATATTTATATAACTACATACTA
2122168 TACTATTTATAT
1 TA-TATTTATAT
2122180 AAACTATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 10 0.29
29 22 0.65
30 2 0.06
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.52
Consensus pattern (29 bp):
TATATTTATATTTATATAACTACATACTA
Found at i:2122309 original size:38 final size:38
Alignment explanation
Indices: 2122267--2122413 Score: 172
Period size: 38 Copynumber: 3.8 Consensus size: 38
2122257 AAGGTTGATA
* * *
2122267 TTTATATA-TGAACTATAATTTATATATAAAGTATAAAG
1 TTTATATACT-AACTATAGTTTACATATAAACTATAAAG
*
2122305 TTTATATACTAACTATAGTTTACATATAAACTATATAG
1 TTTATATACTAACTATAGTTTACATATAAACTATAAAG
*
2122343 TTTATATACTAACTATAGTTTACATATAAACTATAGTTAATA
1 TTTATATACTAACTATAGTTTACATATAAACTATA---AA-G
*
2122385 TTTACATA-TGAACTATAGTTTACATATAA
1 TTTATATACT-AACTATAGTTTACATATAA
2122414 TATATATATA
Statistics
Matches: 96, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
38 67 0.70
39 1 0.01
41 2 0.02
42 26 0.27
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (38 bp):
TTTATATACTAACTATAGTTTACATATAAACTATAAAG
Found at i:2122420 original size:2 final size:2
Alignment explanation
Indices: 2122408--2122563 Score: 72
Period size: 2 Copynumber: 75.5 Consensus size: 2
2122398 TATAGTTTAC
* * * *
2122408 AT AT A- AT AT AT AT AT AT AT AT AA ACT AT AT AGT TT AC AT AT GAC
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT -AT
* *
2122452 CT AT AT AT AT A- AT AT AGT -T GAT AT TT AT AT ACT AT AT AGT -T
1 AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT AT A-T AT AT A-T AT
* * * *
2122493 AC AT AT GAC CT AT AT AT AT AT ACT AT AGT AT AT AT TT AT AT A-
1 AT AT AT -AT AT AT AT AT AT AT A-T AT A-T AT AT AT AT AT AT AT
*
2122535 AT AT AT AT -T AT AT AT AT AA ACT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT A
2122564 CTATTAGTAT
Statistics
Matches: 115, Mismatches: 22, Indels: 34
0.67 0.13 0.20
Matches are distributed among these distances:
1 6 0.05
2 95 0.83
3 14 0.12
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:2122455 original size:20 final size:20
Alignment explanation
Indices: 2122267--2122458 Score: 122
Period size: 18 Copynumber: 9.9 Consensus size: 20
2122257 AAGGTTGATA
* *
2122267 TTTATATATGAACTATA-A-
1 TTTACATATAAACTATATAG
* * *
2122285 TTTATATATAAAGTATAAAG
1 TTTACATATAAACTATATAG
*
2122305 TTTATATACT-AAC--TATAG
1 TTTACATA-TAAACTATATAG
2122323 TTTACATATAAACTATATAG
1 TTTACATATAAACTATATAG
*
2122343 TTTATATACT-AAC--TATAG
1 TTTACATA-TAAACTATATAG
*
2122361 TTTACATATAAACTATAGTTAATA
1 TTTACATATAAACTATA--T-A-G
*
2122385 TTTACATATGAAC--TATAG
1 TTTACATATAAACTATATAG
2122403 TTTACATAT-AA-TATATA-
1 TTTACATATAAACTATATAG
* *
2122420 TATATATATAAACTATATAG
1 TTTACATATAAACTATATAG
* *
2122440 TTTACATATGACCTATATA
1 TTTACATATAAACTATATA
2122459 TATAATATAG
Statistics
Matches: 139, Mismatches: 16, Indels: 36
0.73 0.08 0.19
Matches are distributed among these distances:
17 11 0.08
18 59 0.42
19 8 0.06
20 43 0.31
21 2 0.01
22 3 0.02
23 1 0.01
24 12 0.09
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (20 bp):
TTTACATATAAACTATATAG
Found at i:2122489 original size:9 final size:9
Alignment explanation
Indices: 2122477--2122567 Score: 50
Period size: 9 Copynumber: 10.1 Consensus size: 9
2122467 AGTTGATATT
2122477 TATATACTA
1 TATATACTA
2122486 TATAGTTAC-A
1 TATA--TACTA
*
2122496 TAT-GACCTA
1 TATATAC-TA
2122505 TATATA-TA
1 TATATACTA
*
2122513 TACTATAGTA
1 TA-TATACTA
*
2122523 TATAT-TTA
1 TATATACTA
2122531 TATAATA-TA
1 TAT-ATACTA
2122540 TATTATA-TA
1 TA-TATACTA
*
2122549 TATAAACTA
1 TATATACTA
2122558 TATATACTA
1 TATATACTA
2122567 T
1 T
2122568 TAGTATAATT
Statistics
Matches: 66, Mismatches: 5, Indels: 22
0.71 0.05 0.24
Matches are distributed among these distances:
7 2 0.03
8 12 0.18
9 39 0.59
10 10 0.15
11 3 0.05
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (9 bp):
TATATACTA
Found at i:2122495 original size:50 final size:50
Alignment explanation
Indices: 2122408--2122579 Score: 192
Period size: 50 Copynumber: 3.4 Consensus size: 50
2122398 TATAGTTTAC
* *
2122408 ATATAATATA-TATATATATATAAACTATATAGTTTACATATGACCTATAT
1 ATATAATATAGTATATATTTATATACTATATAG-TTACATATGACCTATAT
2122458 ATATAATATAGT-TGATATTTATATACTATATAGTTACATATGACCTATAT
1 ATATAATATAGTAT-ATATTTATATACTATATAGTTACATATGACCTATAT
* * * * *
2122508 ATATATACTATAGTATATATTTATATAATATATATTATATATATAAACTATAT
1 ATATA-A-TATAGTATATATTTATATACTATATAGT-TACATATGACCTATAT
2122561 ATACT-AT-TAGTATA-ATTTA
1 ATA-TAATATAGTATATATTTA
2122580 CATATGAACT
Statistics
Matches: 108, Mismatches: 7, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
49 5 0.05
50 40 0.37
51 20 0.19
52 25 0.23
53 17 0.16
54 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (50 bp):
ATATAATATAGTATATATTTATATACTATATAGTTACATATGACCTATAT
Found at i:2122526 original size:18 final size:18
Alignment explanation
Indices: 2122503--2122983 Score: 79
Period size: 18 Copynumber: 27.6 Consensus size: 18
2122493 ACATATGACC
2122503 TATATATATATACTATAG
1 TATATATATATACTATAG
*
2122521 TATATAT-T-TA-TATAA
1 TATATATATATACTATAG
2122536 TATATAT-TATA-TATA-
1 TATATATATATACTATAG
*
2122551 TAAACTATATATACTATTAG
1 TATA-TATATATACTA-TAG
*
2122571 TATA-AT-T-TACATATGAAC
1 TATATATATATAC-TAT--AG
* * *
2122589 TATATATAAAAACCATA-
1 TATATATATATACTATAG
2122606 TA-A-ACTATATACTATAG
1 TATATA-TATATACTATAG
*
2122623 TTGATATTTATATACTATA-
1 -T-ATATATATATACTATAG
* *
2122642 TAAAATAATTTATACTATAG
1 T-ATAT-ATATATACTATAG
2122662 TATATATA-A-ACTATA-
1 TATATATATATACTATAG
* *
2122677 TAATATATACAAACTATA-
1 T-ATATATATATACTATAG
* *
2122695 TAT-TATAT-T-GT-TCAT
1 TATATATATATACTAT-AG
2122710 TACTATATATA-ACCTATA-
1 TA-TATATATATA-CTATAG
*
2122728 TAATATATATAAACTATATGG
1 T-ATATATATATACTATA--G
* *
2122749 TATATATA-A-ACTACAT
1 TATATATATATACTATAG
*
2122765 TATATATAT-TTC-ATTAG
1 TATATATATATACTA-TAG
2122782 TATATA-A-ACTA-TATAG
1 TATATATATA-TACTATAG
*
2122798 TATATGTA-A-ACTATA-
1 TATATATATATACTATAG
*
2122813 TAT-TATATAGTTC-ATTAG
1 TATATATATA-TACTA-TAG
2122831 TATATATA-ACCTA-TATAG
1 TATATATATA--TACTATAG
* * *
2122849 TATATGGTATATAC-AAAC
1 TATAT-ATATATACTATAG
* *
2122867 TATATATTATATAGT-TCAT
1 TATATA-TATATACTAT-AG
2122886 TACTATATATA-ACCTATA-
1 TA-TATATATATA-CTATAG
*
2122904 TAGTATATATAAACTATATGG
1 TA-TATATATATACTATA--G
2122925 TATATATA-A-ACTATA-
1 TATATATATATACTATAG
*
2122940 TAT-TATATATATTTCATTAG
1 TATATATATATA-CT-A-TAG
2122960 TATATATA-A-ACTATA-
1 TATATATATATACTATAG
2122975 TAT-TATATA
1 TATATATATA
2122984 GTTCATTAGT
Statistics
Matches: 347, Mismatches: 43, Indels: 149
0.64 0.08 0.28
Matches are distributed among these distances:
13 1 0.00
14 13 0.04
15 32 0.09
16 68 0.20
17 36 0.10
18 101 0.29
19 45 0.13
20 42 0.12
21 9 0.03
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.43
Consensus pattern (18 bp):
TATATATATATACTATAG
Found at i:2122532 original size:20 final size:19
Alignment explanation
Indices: 2122408--2123347 Score: 124
Period size: 20 Copynumber: 48.7 Consensus size: 19
2122398 TATAGTTTAC
*
2122408 ATATAATATATATATATAT
1 ATATACTATATATATATAT
* *
2122427 ATAAACTATATAGT-T-TAC
1 ATATACTATATA-TATATAT
2122445 ATATGACCTATATATATA-AT
1 ATAT-A-CTATATATATATAT
*
2122465 ATAGTTGA-TATTTATATACTAT
1 ATA--T-ACTATATATATA-TAT
2122487 ATAGTTAC-ATATGACCTATATAT
1 ATA--TACTATAT-A--TATATAT
*
2122510 ATATACTATAGTATATATTT
1 ATATACTATA-TATATATAT
*
2122530 ATATAATATATATTATATAT
1 ATATACTATATA-TATATAT
*
2122550 ATAAACTATATATACTAT-T
1 ATATACTATATATA-TATAT
* * *
2122569 AGTATAATTTACATATGAACTAT
1 A-TATACTATATATAT--A-TAT
* * * *
2122592 ATATA-AAAACCATATAAACT
1 ATATACTATA-TATATATA-T
*
2122612 ATATACTATAGT-TGATATTT
1 ATATACTATA-TAT-ATATAT
*
2122632 ATATACTATATA-AAATAAT
1 ATATACTATATATATAT-AT
* *
2122651 TTATACTATA-GTATATAT
1 ATATACTATATATATATAT
2122669 A-A-ACTATATA-ATATAT
1 ATATACTATATATATATAT
* *
2122685 ACAAACTATATAT-TATAT
1 ATATACTATATATATATAT
* *
2122703 -TGTTC-AT-TACTATATAT
1 ATATACTATATA-TATATAT
*
2122720 A-A-CCTATATA-ATATAT
1 ATATACTATATATATATAT
* *
2122736 ATAAACTATATGGTATATAT
1 ATATACTATAT-ATATATAT
*
2122756 A-A-ACTACATTATATATAT
1 ATATACTATA-TATATATAT
* * *
2122774 TTCATTAGTATATAAACTATAT
1 AT-A-TACTATATATA-TATAT
* *
2122796 AGTATA-TGTAAACTATATATT
1 A-TATACTATATA-TATATA-T
*
2122817 ATATAGT-TCAT-TAGTATAT
1 ATATACTAT-ATATA-TATAT
*
2122836 ATA-ACCTATATAGTATATGGT
1 ATATA-CTATATA-TATAT-AT
*
2122857 ATATAC-AAACTATATAT-T
1 ATATACTATA-TATATATAT
*
2122875 ATATAGT-TCAT-TACTATAT
1 ATATACTAT-ATATA-TATAT
2122894 ATA-ACCTATATAGTATATAT
1 ATATA-CTATATA-TATATAT
*
2122914 A-A-ACTATATGGTATATAT
1 ATATACTATAT-ATATATAT
2122932 A-A-ACTATATATTATATAT
1 ATATACTATATA-TATATAT
* * *
2122950 ATTTCATTAGTATATATAAACT
1 ATAT-ACTA-TATATATATA-T
*
2122972 ATATATTATATAGTTCATTAGTAT
1 ATATACTATATA--T-A-TA-TAT
*
2122996 ATATAACCTATATAGTATATGGT
1 ATAT-A-CTATATA-TATAT-AT
* *
2123019 ATATAC-AAACTATATGT-T
1 ATATACTATA-TATATATAT
*
2123037 ATATAGT-TCAT-TACTATAT
1 ATATACTAT-ATATA-TATAT
2123056 ATA-ACCTATATA-ATATAT
1 ATATA-CTATATATATATAT
* *
2123074 ATAAACTATATGGTATATAT
1 ATATACTATAT-ATATATAT
*
2123094 A-A-ACTATACAT-TATAT
1 ATATACTATATATATATAT
2123110 ATAT--T-TCAT-TAGTATAT
1 ATATACTAT-ATATA-TATAT
*
2123127 ATAAACTATATAT-TATAGT
1 ATATACTATATATATATA-T
*
2123146 -TCAT--TAGTATATATAAACT
1 AT-ATACTA-TATATATATA-T
* ** *
2123165 ATATAGTATATGCAAACTAT
1 ATATACTATATATATA-TAT
* *
2123185 ATATAGT-TCAT-TAGTGTAT
1 ATATACTAT-ATATA-TATAT
*
2123204 ATA-ACCTATATAGTATATGGT
1 ATATA-CTATATA-TATAT-AT
*
2123225 ATATAC-AAACTATATAT-T
1 ATATACTATA-TATATATAT
*
2123243 ATATAGT-TCAT-TACTATAT
1 ATATACTAT-ATATA-TATAT
2123262 ATA-ACCTATATAGTATATAT
1 ATATA-CTATATA-TATATAT
*
2123282 A-A-ACTATATGGTATATAT
1 ATATACTATAT-ATATATAT
2123300 A-A-ACTATATAT-TATAT
1 ATATACTATATATATATAT
*
2123316 ATAT-TTCAT-TAATATATAT
1 ATATACT-ATAT-ATATATAT
*
2123335 ATAAACTATATAT
1 ATATACTATATAT
2123348 TTTCATTAGT
Statistics
Matches: 683, Mismatches: 101, Indels: 274
0.65 0.10 0.26
Matches are distributed among these distances:
15 4 0.01
16 38 0.06
17 33 0.05
18 163 0.24
19 111 0.16
20 182 0.27
21 64 0.09
22 49 0.07
23 18 0.03
24 12 0.02
25 3 0.00
26 6 0.01
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.43
Consensus pattern (19 bp):
ATATACTATATATATATAT
Found at i:2122541 original size:22 final size:24
Alignment explanation
Indices: 2122505--2122596 Score: 77
Period size: 24 Copynumber: 3.8 Consensus size: 24
2122495 ATATGACCTA
2122505 TATATATATACTATAGTATATATT
1 TATATATATACTATAGTATATATT
*
2122529 TATATAATATA-TATTA-TATATATA
1 TATAT-ATATACTA-TAGTATATATT
*
2122553 AACTATATATACTATTAGTATA-ATT
1 TA-TATATATACTA-TAGTATATATT
*
2122578 TACATATGA-ACTATA-TATA
1 TATATAT-ATACTATAGTATA
2122597 AAAACCATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
22 4 0.07
23 2 0.04
24 28 0.49
25 19 0.33
26 4 0.07
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (24 bp):
TATATATATACTATAGTATATATT
Found at i:2122746 original size:69 final size:67
Alignment explanation
Indices: 2122657--2123557 Score: 225
Period size: 69 Copynumber: 13.1 Consensus size: 67
2122647 TAATTTATAC
*
2122657 TATAGTATATATAAACTATATAATATATACAAACTATA-TAT-TATATTGTTCATTACTATATAT
1 TATAGTATATATAAACTATATAATATATACAAACTACATTATATATA-T-TTCATTACTATATA-
2122720 AACCTA
63 AA-CTA
* ** * *
2122726 TATAATATATATAAACTATATGGTATATATAAACTACATTATATATATTTCATTAGTATATAAAC
1 TATAGTATATATAAACTATATAATATATACAAACTACATTATATATATTTCATTACTATATAAAC
2122791 TA
66 TA
* * * *
2122793 TATAGTATATGTAAACTATAT-AT-TAT--ATAGTTCATTAGTATATA--T-A--ACCTATAT--
1 TATAGTATATATAAACTATATAATATATACAAACTACATTA-TATATATTTCATTA-CTATATAA
*
2122847 AGTA
64 ACTA
* * * * * * *
2122851 TATGGTATATACAAACTATATATTATATAGTTCATTACTATA-TATA-ACCTATAT-AGTA-TAT
1 TATAGTATATATAAACTATATA--ATATA-TACA-AACTACATTATATA--TATTTCATTACTAT
2122912 ATAAACTA
60 ATAAACTA
* * * * * ** *
2122920 TATGGTATATATAAACTATAT-AT-TATATATATTTCATTAGTATATATAAACTATATATTATAT
1 TATAGTATATATAAACTATATAATATATACAAACTACATTA-TATATAT-TTC-AT-TACTATAT
**
2122983 -AGTTCA
62 AAACT-A
* * *
2122989 T-TAGTATATATAACCTATATAGTATATGGTATATACAAACTATATGT-TATATAGTTCATTACT
1 TATAGTATATATAAAC--TATA-TA-A---TATATACAAACTACAT-TATATATATTTCATTACT
2123052 ATATATAACCTA
58 ATATA-AA-CTA
* ** * *
2123064 TATAATATATATAAACTATATGGTATATATAAACTATACATTATATATATTTCATTAGTATATAT
1 TATAGTATATATAAACTATATAATATATACAAAC--TACATTATATATATTTCATTA--CTATAT
2123129 AAACTA
62 AAACTA
* * * * * *
2123135 TATA-T-TATAGT--TC-AT-TAGTATATATAAACT--A-TATAGTATA-TGCA-AACTATATAT
1 TATAGTATATA-TAAACTATATAATATATACAAACTACATTATA-TATATTTCATTACTATATAA
*
2123189 AGT-
64 ACTA
* * * *
2123192 TCATTAGTGTATATAACCTATATAGTATATGGTATATACAAACTATA-TATTATATAGTTCATTA
1 T-A-TAGTATATATAAAC--TATA-TA-A---TATATACAAACTACATTA-TATATATTTCATTA
2123256 CTATATATAACCTA
56 CTATATA-AA-CTA
** * * *
2123270 TATAGTATATATAAACTATATGGTATATATAAACTATATATTATATATATTTCATTA--ATATAT
1 TATAGTATATATAAACTATATAATATATACAAAC--TACATTATATATATTTCATTACTATATAA
2123333 A-TA
64 ACTA
* * *** * * * * *
2123336 TAAACTATATATTTTC-AT-TAGTATATATAAACTATAGTATATGTAAACTATAT-ATTA-TATG
1 TATAGTATATATAAACTATATAATATATACAAACTACA-T-TA--TATA-TATTTCATTACTAT-
* * *
2123397 GTTAATTA
60 ATAAACTA
* * ** * *
2123405 GTATA-TATAACCTATATAGTATATGGTATATACAAACTATA-TATTATATAGTTCATTACTATA
1 -TATAGTAT-A--TATAAACTATATAATATATACAAACTACATTA-TATATATTTCATTACTATA
2123468 TATAACCTA
61 TA-AA-CTA
* ** * *
2123477 TATAATATATATAAACTATATGGTATATATAAACTATACATTATATATATTTCATTAGTATATAT
1 TATAGTATATATAAACTATATAATATATACAAAC--TACATTATATATATTTCATTA--CTATAT
2123542 AAACTA
62 AAACTA
*
2123548 TATATTATAT
1 TATAGTATAT
2123558 TGTTCATTAG
Statistics
Matches: 628, Mismatches: 104, Indels: 198
0.68 0.11 0.21
Matches are distributed among these distances:
57 1 0.00
58 30 0.05
59 3 0.00
60 8 0.01
61 14 0.02
62 13 0.02
63 15 0.02
64 31 0.05
65 17 0.03
66 41 0.07
67 40 0.06
68 22 0.04
69 136 0.22
70 23 0.04
71 97 0.15
72 17 0.03
73 31 0.05
74 31 0.05
75 12 0.02
76 33 0.05
77 11 0.02
78 2 0.00
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (67 bp):
TATAGTATATATAAACTATATAATATATACAAACTACATTATATATATTTCATTACTATATAAAC
TA
Found at i:2122786 original size:58 final size:58
Alignment explanation
Indices: 2122724--2123056 Score: 157
Period size: 58 Copynumber: 6.1 Consensus size: 58
2122714 ATATATAACC
*
2122724 TATATAATATATATAAACTATATGGTATATATAAACTACATTATATATATTTCATTAG
1 TATATAATATATATAAACTATATGGTATATATAAACTATATTATATATATTTCATTAG
* * *
2122782 ---------TATATAAACTATATAGTATATGTAAACTATA-TATTATATAGTTCATTAG
1 TATATAATATATATAAACTATATGGTATATATAAACTATATTA-TATATATTTCATTAG
* * *
2122831 TATAT-ATA-ACCTATATAGTATATGGTATATACAAACTATA-TAT-TATA--T-AGTT--
1 TATATAATATA--TATAAACTATATGGTATATATAAACTATATTATATATATTTCA-TTAG
* * * * ** ** *
2122883 CAT-TACTATATATAACCTATATAGTATATATAAACTATATGGTATATA-TAAACTA-
1 TATATAATATATATAAACTATATGGTATATATAAACTATATTATATATATTTCATTAG
* ** * *
2122938 TATATTATATATAT-TTC-AT-TAGTATATATAAACTATA-TATTATATAGTTCATTAG
1 TATATAATATATATAAACTATATGGTATATATAAACTATATTA-TATATATTTCATTAG
* * * * *
2122993 TATAT-ATA-ACCTATATAGTATATGGTATATACAAACTATATGT-TATATAGTTCATTAC
1 TATATAATATA--TATAAACTATATGGTATATATAAACTATAT-TATATATATTTCATTAG
2123051 TATATA
1 TATATA
2123057 TAACCTATAT
Statistics
Matches: 209, Mismatches: 35, Indels: 61
0.69 0.11 0.20
Matches are distributed among these distances:
48 2 0.01
49 42 0.20
51 25 0.12
52 5 0.02
53 31 0.15
54 13 0.06
55 12 0.06
56 14 0.07
57 3 0.01
58 61 0.29
60 1 0.00
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.43
Consensus pattern (58 bp):
TATATAATATATATAAACTATATGGTATATATAAACTATATTATATATATTTCATTAG
Found at i:2123003 original size:162 final size:161
Alignment explanation
Indices: 2122904--2123711 Score: 634
Period size: 162 Copynumber: 5.1 Consensus size: 161
2122894 ATAACCTATA
* *
2122904 TAGTATATATAAACTATATGGTATATATAAACTATATATTATATATATTTCAT-TAGTATATATA
1 TAGTATATATAAACTATATAGTATATATAAACTATATATTATATATATATCATATAGTATATATA
2122968 AACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATATGGTATATACAAACTATA
66 AACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATAT-GTATATACAAACTATA
*
2123033 TGTTATATAGTTCATTACTATATATAACCTATA
130 T-ATATATAGTTCATTACTATATATAACCTATA
* * * *
2123066 TAATATATATAAACTATATGGTATATATAAACTATACATTATATATATTTCAT-TAGTATATATA
1 TAGTATATATAAACTATATAGTATATATAAACTATATATTATATATATATCATATAGTATATATA
*
2123130 AACTATATA-T-TATAGTTCATTAGTATATATAAACTATATAGTATATG------CAAAC----T
66 AACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATATGTATATACAAACTATAT
* *
2123183 ATATATAGTTCATTAGTGTATATAACCTATA
131 ATATATAGTTCATTACTATATATAACCTATA
* * * * * * *
2123214 TAGTATATGGTATA-TACAAACTATATAT-TA-TATAGTTCATTACTATATATAACCTATATAGT
1 TAGTATAT-ATAAACTATATAGTATATATAAACTATA--T-ATTA-TATATAT-ATC-ATATAGT
** ** * * * *
2123276 ATATATAAACTATATGGTATATA-TAAACTA-TATATTATATA--TATTTCATTA-ATATATATA
59 ATATATAAACTATATATTATATAGTTCATTAGTATA-TATA-ACCTATAT-AGTATATGTATATA
* * *
2123336 TAAAC--TATATAT-T--TTCATTAGTATATATAAAC--TA
121 CAAACTATATATATATAGTTCATTACTATATATAACCTATA
* * * * * *
2123370 TAGTATATGTAAACTATATATTATATGGTTAATTAGTATA-TATAACCTATATAGT-ATATGGTA
1 TAGTATATATAAACTATATAGTATAT-ATAAACTA-TATATTAT-A--TATATA-TCATATAGTA
* * * * * * *
2123433 TATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAATATATATAAACTATAT
60 TATATAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATATGTATA-TACAA
** * * **
2123498 GGTATATATAAACTA-TACATTA-TATATAT-TTC-AT-
124 ACTATATATATA-TAGTTCATTACTATATATAACCTATA
* *** * * **
2123532 TAGTATATATAAACTATATATTATAT-TGTTC-AT-TAGTATATATA-AACTATATAGTATATGC
1 TAGTATATATAAACTATATAGTATATATAAACTATATATTATATATATATC-ATATAGTATATAT
2123593 AAACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATATGGTATATACAAACTAT
65 AAACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATAT-GTATATACAAACTAT
2123658 ATATTATATAGTTCATTACTATATATAACCTATA
129 ATA-TATATAGTTCATTACTATATATAACCTATA
2123692 TAGTATATATAAACTATATA
1 TAGTATATATAAACTATATA
2123712 TTGAAAAGTT
Statistics
Matches: 523, Mismatches: 71, Indels: 106
0.75 0.10 0.15
Matches are distributed among these distances:
146 4 0.01
147 1 0.00
148 45 0.09
149 8 0.02
150 7 0.01
151 1 0.00
152 2 0.00
153 34 0.07
154 13 0.02
155 83 0.16
156 61 0.12
157 24 0.05
158 43 0.08
159 14 0.03
160 59 0.11
161 12 0.02
162 97 0.19
163 9 0.02
164 6 0.01
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (161 bp):
TAGTATATATAAACTATATAGTATATATAAACTATATATTATATATATATCATATAGTATATATA
AACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATATGTATATACAAACTATAT
ATATATAGTTCATTACTATATATAACCTATA
Found at i:2123013 original size:18 final size:18
Alignment explanation
Indices: 2122657--2123711 Score: 388
Period size: 18 Copynumber: 60.2 Consensus size: 18
2122647 TAATTTATAC
2122657 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
* *
2122675 TATAATATATACAAACTA
1 TATAGTATATATAAACTA
* ***
2122693 TATATTATAT-TGTTC-A
1 TATAGTATATATAAACTA
* *
2122709 T-TACTATATATAACCTA
1 TATAGTATATATAAACTA
*
2122726 TATAATATATATAAACTA
1 TATAGTATATATAAACTA
*
2122744 TATGGTATATATAAACTA
1 TATAGTATATATAAACTA
* **
2122762 CAT--TATATAT-ATTTCA
1 TATAGTATATATAAACT-A
2122778 T-TAG--TATATAAACTA
1 TATAGTATATATAAACTA
*
2122793 TATAGTATATGTAAACTA
1 TATAGTATATATAAACTA
* ** *
2122811 TATATTATATAGTTCATTA
1 TATAGTATATA-TAAACTA
* *
2122830 GTATA-TATAACCTATATAGTA
1 -TATAGTAT-A--TATAAACTA
* *
2122851 TATGGTATATACAAACTA
1 TATAGTATATATAAACTA
**
2122869 TATA-T-TATAT-AGTTCA
1 TATAGTATATATAAACT-A
* *
2122885 T-TACTATATATAACCTA
1 TATAGTATATATAAACTA
2122902 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
*
2122920 TATGGTATATATAAACTA
1 TATAGTATATATAAACTA
* **
2122938 TATATTATATAT-ATTTCA
1 TATAGTATATATAAACT-A
2122956 T-TAGTATATATAAACTA
1 TATAGTATATATAAACTA
* ** *
2122973 TATATTATATAGTTCATTA
1 TATAGTATATA-TAAACTA
* *
2122992 GTATA-TATAACCTATATAGTA
1 -TATAGTAT-A--TATAAACTA
* *
2123013 TATGGTATATACAAACTA
1 TATAGTATATATAAACTA
**
2123031 TAT-GT-TATAT-AGTTCA
1 TATAGTATATATAAACT-A
* *
2123047 T-TACTATATATAACCTA
1 TATAGTATATATAAACTA
*
2123064 TATAATATATATAAACTA
1 TATAGTATATATAAACTA
*
2123082 TATGGTATATATAAACTA
1 TATAGTATATATAAACTA
* * **
2123100 TACATTATATAT-ATTTCA
1 TATAGTATATATAAACT-A
2123118 T-TAGTATATATAAACTA
1 TATAGTATATATAAACTA
*
2123135 TATA-T-TATAGT--TC-A
1 TATAGTATATA-TAAACTA
2123149 T-TAGTATATATAAACTA
1 TATAGTATATATAAACTA
**
2123166 TATAGTATATGCAAACTA
1 TATAGTATATATAAACTA
* * *
2123184 TATA-TAGT-TCAT-TAGTG
1 TATAGTA-TAT-ATAAACTA
* *
2123201 TATA-TA-ACCTATATAGTA
1 TATAGTATA--TATAAACTA
* *
2123219 TATGGTATATACAAACTA
1 TATAGTATATATAAACTA
**
2123237 TATA-T-TATAT-AGTTCA
1 TATAGTATATATAAACT-A
* *
2123253 T-TACTATATATAACCTA
1 TATAGTATATATAAACTA
2123270 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
*
2123288 TATGGTATATATAAACTA
1 TATAGTATATATAAACTA
* **
2123306 TATATTATATAT-ATTTCA
1 TATAGTATATATAAACT-A
2123324 TTAATA-TATATATAAACTA
1 -T-ATAGTATATATAAACTA
2123343 TATA-T-T-T-T---C-A
1 TATAGTATATATAAACTA
2123353 T-TAGTATATATAAAC--
1 TATAGTATATATAAACTA
*
2123368 TATAGTATATGTAAACTA
1 TATAGTATATATAAACTA
* * * *
2123386 TATATTATATGGTTAATTA
1 TATAGTATAT-ATAAACTA
* *
2123405 GTATA-TATAACCTATATAGTA
1 -TATAGTAT-A--TATAAACTA
* *
2123426 TATGGTATATACAAACTA
1 TATAGTATATATAAACTA
**
2123444 TATA-T-TATAT-AGTTCA
1 TATAGTATATATAAACT-A
* *
2123460 T-TACTATATATAACCTA
1 TATAGTATATATAAACTA
*
2123477 TATAATATATATAAACTA
1 TATAGTATATATAAACTA
*
2123495 TATGGTATATATAAACTA
1 TATAGTATATATAAACTA
* * **
2123513 TACATTATATAT-ATTTCA
1 TATAGTATATATAAACT-A
2123531 T-TAGTATATATAAACTA
1 TATAGTATATATAAACTA
* ***
2123548 TATATTATAT-TGTTC-A
1 TATAGTATATATAAACTA
2123564 T-TAGTATATATAAACTA
1 TATAGTATATATAAACTA
**
2123581 TATAGTATATGCAAACTA
1 TATAGTATATATAAACTA
* ** *
2123599 TATATTATATAGTTCATTA
1 TATAGTATATA-TAAACTA
* *
2123618 GTATA-TATAACCTATATAGTA
1 -TATAGTAT-A--TATAAACTA
* *
2123639 TATGGTATATACAAACTA
1 TATAGTATATATAAACTA
**
2123657 TATA-T-TATAT-AGTTCA
1 TATAGTATATATAAACT-A
* *
2123673 T-TACTATATATAACCTA
1 TATAGTATATATAAACTA
2123690 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
2123708 TATA
1 TATA
2123712 TTGAAAAGTT
Statistics
Matches: 766, Mismatches: 171, Indels: 200
0.67 0.15 0.18
Matches are distributed among these distances:
9 2 0.00
10 3 0.00
11 2 0.00
12 1 0.00
13 3 0.00
14 5 0.01
15 50 0.07
16 76 0.10
17 108 0.14
18 399 0.52
19 40 0.05
20 42 0.05
21 28 0.04
22 7 0.01
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (18 bp):
TATAGTATATATAAACTA
Found at i:2123057 original size:58 final size:57
Alignment explanation
Indices: 2122959--2123745 Score: 533
Period size: 58 Copynumber: 14.9 Consensus size: 57
2122949 TATTTCATTA
* *
2122959 GTATATATAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATAT
1 GTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTATAT
*
2123016 GGTATATACAAACTATATGTTATATAGTTCATTACTATATATAACCTATATA--ATA-
1 -GTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTATAT
** * * * *
2123071 -TATAT--AAACTATATGGTATATA--T-A-AACTATACATTA--TATATA-TTTCATT
1 GTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTAT-A-T
* * *
2123120 AGTATATATAAACTATATA-T-TATAGTTCATTAGTATATATAAACTATATAGTATAT
1 -GTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTATAT
* *
2123176 G------CAAAC----TA-TATATAGTTCATTAGTGTATATAACCTATATAGTATAT
1 GTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTATAT
2123222 GGTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAG--TA-
1 -GTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTATAT
** * * *
2123277 -TATAT--AAACTATATGGTATATA--T-A-AACTATATATTA--TATATATTTCATTAAT
1 GTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATA-GT-A-T-AT
* * * *
2123329 ATATATATAAAC--TATA-TAT-T--TTCATTAGTATATATAAAC--TATAGTATAT
1 GTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTATAT
* * *
2123378 G----T--AAACTATATATTATATGGTTAATTAGTATATATAACCTATATAGTATAT
1 GTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTATAT
2123429 GGTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATA--ATA-
1 -GTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTATAT
** * * * *
2123484 -TATAT--AAACTATATGGTATATA--T-A-AACTATACATTA--TATATA-TTTCATT
1 GTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTAT-A-T
* * * *
2123533 AGTATATATAAACTATATATTATATTGTTCATTAGTATATATAAACTATATAGTATAT
1 -GTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTATAT
*
2123591 G------CAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATAT
1 GTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTATAT
2123642 GGTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAG--TA-
1 -GTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTATAT
* *
2123697 -TATAT--AAACTATATATTGA-AAAGTTCATTAATATATTATAACCTATATA
1 GTATATACAAACTATATATT-ATATAGTTCATTACTATA-TATAACCTATATA
2123746 TTAATTTATT
Statistics
Matches: 592, Mismatches: 55, Indels: 170
0.72 0.07 0.21
Matches are distributed among these distances:
43 4 0.01
45 26 0.04
46 39 0.07
47 32 0.05
48 3 0.01
49 26 0.04
50 2 0.00
51 147 0.25
52 22 0.04
53 70 0.12
54 1 0.00
55 14 0.02
56 13 0.02
57 18 0.03
58 166 0.28
59 7 0.01
60 2 0.00
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.42
Consensus pattern (57 bp):
GTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTATAT
Found at i:2123189 original size:31 final size:31
Alignment explanation
Indices: 2123119--2123178 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
2123109 TATATTTCAT
* * *
2123119 TAGTATATATAAACTATATATTATAGTTCAT
1 TAGTATATATAAACTATATAGTATAGTGCAC
2123150 TAGTATATATAAACTATATAGTATA-TGCA
1 TAGTATATATAAACTATATAGTATAGTGCA
2123179 AACTATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (31 bp):
TAGTATATATAAACTATATAGTATAGTGCAC
Found at i:2123289 original size:16 final size:16
Alignment explanation
Indices: 2123270--2123387 Score: 70
Period size: 16 Copynumber: 7.2 Consensus size: 16
2123260 ATATAACCTA
2123270 TATAGTATATATAAAC
1 TATAGTATATATAAAC
2123286 TATATGGTATATATAAAC
1 TATA--GTATATATAAAC
*
2123304 TATA-TATTATATATATTTCAT
1 TATAGTA-TATATA-A----AC
2123325 TAATA-TATATATAAAC
1 T-ATAGTATATATAAAC
**
2123341 TATA-TAT-T-TTCA-
1 TATAGTATATATAAAC
2123353 T-TAGTATATATAAAC
1 TATAGTATATATAAAC
*
2123368 TATAGTATATGTAAAC
1 TATAGTATATATAAAC
2123384 TATA
1 TATA
2123388 TATTATATGG
Statistics
Matches: 81, Mismatches: 7, Indels: 28
0.70 0.06 0.24
Matches are distributed among these distances:
11 2 0.02
12 4 0.05
13 3 0.04
14 3 0.04
15 9 0.11
16 29 0.36
17 1 0.01
18 16 0.20
20 1 0.01
21 8 0.10
22 5 0.06
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (16 bp):
TATAGTATATATAAAC
Found at i:2123506 original size:413 final size:416
Alignment explanation
Indices: 2122957--2123710 Score: 1406
Period size: 413 Copynumber: 1.8 Consensus size: 416
2122947 TATATTTCAT
*
2122957 TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATATGGTATA
1 TAGTATATATAAACTATATATTATATAGTTAATTAGTATATATAACCTATATAGTATATGGTATA
*
2123022 TACAAACTATATGTTATATAGTTCATTACTATATATAACCTATATAATATATATAAACTATATGG
66 TACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAATATATATAAACTATATGG
2123087 TATATATAAACTATACATTATATATATTTCATTAGTATATATAAACTATATATTATA-GTTCATT
131 TATATATAAACTATACATTATATATATTTCATTAGTATATATAAACTATATATTATATGTTCATT
*
2123151 AGTATATATAAACTATATAGTATATGCAAAC-TA-TATATAGTTCATTAGTGTATATAACCTATA
196 AGTATATATAAACTATATAGTATATGCAAACATATTATATAGTTCATTAGTATATATAACCTATA
2123214 TAGTATATGGTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTATA
261 TAGTATATGGTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTATA
2123279 TATAAACTATATGGTATATATAAACTATATATTATATATATTTCATTAATATATATATAAACTAT
326 TATAAACTATATGGTATATATAAACTATATATTATATATATTTCATTAATATATATATAAACTAT
2123344 ATATTTTCATTAGTATATATAAACTA
391 ATATTTTCATTAGTATATATAAACTA
* *
2123370 TAGTATATGTAAACTATATATTATATGGTTAATTAGTATATATAACCTATATAGTATATGGTATA
1 TAGTATATATAAACTATATATTATATAGTTAATTAGTATATATAACCTATATAGTATATGGTATA
2123435 TACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAATATATATAAACTATATGG
66 TACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAATATATATAAACTATATGG
2123500 TATATATAAACTATACATTATATATATTTCATTAGTATATATAAACTATATATTATATTGTTCAT
131 TATATATAAACTATACATTATATATATTTCATTAGTATATATAAACTATATATTATA-TGTTCAT
2123565 TAGTATATATAAACTATATAGTATATGCAAACTATATATTATATAGTTCATTAGTATATATAACC
195 TAGTATATATAAACTATATAGTATATGCAAAC---ATATTATATAGTTCATTAGTATATATAACC
2123630 TATATAGTATATGGTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAG
257 TATATAGTATATGGTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAG
2123695 TATATATAAACTATAT
322 TATATATAAACTATAT
2123711 ATTGAAAAGT
Statistics
Matches: 329, Mismatches: 5, Indels: 7
0.96 0.01 0.02
Matches are distributed among these distances:
413 183 0.56
415 38 0.12
419 2 0.01
420 106 0.32
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (416 bp):
TAGTATATATAAACTATATATTATATAGTTAATTAGTATATATAACCTATATAGTATATGGTATA
TACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAATATATATAAACTATATGG
TATATATAAACTATACATTATATATATTTCATTAGTATATATAAACTATATATTATATGTTCATT
AGTATATATAAACTATATAGTATATGCAAACATATTATATAGTTCATTAGTATATATAACCTATA
TAGTATATGGTATATACAAACTATATATTATATAGTTCATTACTATATATAACCTATATAGTATA
TATAAACTATATGGTATATATAAACTATATATTATATATATTTCATTAATATATATATAAACTAT
ATATTTTCATTAGTATATATAAACTA
Found at i:2123657 original size:25 final size:25
Alignment explanation
Indices: 2123618--2123666 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
2123608 TAGTTCATTA
* *
2123618 GTATATATAACCTATATAGTATATG
1 GTATATACAAACTATATAGTATATG
*
2123643 GTATATACAAACTATATATTATAT
1 GTATATACAAACTATATAGTATAT
2123667 AGTTCATTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (25 bp):
GTATATACAAACTATATAGTATATG
Found at i:2123708 original size:51 final size:52
Alignment explanation
Indices: 2123532--2123745 Score: 197
Period size: 51 Copynumber: 4.0 Consensus size: 52
2123522 TATATTTCAT
* ** * *
2123532 TAGTATATATAAACTATATATT-ATATTGTTCATTAGTATA-TATAAACTATA
1 TAGTATATACAAACTATATATTGA-AAAGTTCATTAATATATTATAACCTATA
* * *
2123583 TAGTATATGCAAACTATATATT-ATATAGTTCATTAGTATA-TATAACCTATATAGTA
1 TAGTATATACAAACTATATATTGA-AAAGTTCATTAATATATTATAACC----TA-TA
* *
2123639 TATGGTATATACAAACTATATATT-ATATAGTTCATTACTATA-TATAACCTATA
1 TA--GTATATACAAACTATATATTGA-AAAGTTCATTAATATATTATAACCTATA
*
2123692 TAGTATATATAAACTATATATTGAAAAGTTCATTAATATATTATAACCTATA
1 TAGTATATACAAACTATATATTGAAAAGTTCATTAATATATTATAACCTATA
2123744 TA
1 TA
2123746 TTAATTTATT
Statistics
Matches: 145, Mismatches: 9, Indels: 17
0.85 0.05 0.10
Matches are distributed among these distances:
51 76 0.52
52 14 0.10
53 4 0.03
54 2 0.01
55 2 0.01
56 4 0.03
58 43 0.30
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (52 bp):
TAGTATATACAAACTATATATTGAAAAGTTCATTAATATATTATAACCTATA
Found at i:2123880 original size:61 final size:62
Alignment explanation
Indices: 2123805--2123934 Score: 183
Period size: 61 Copynumber: 2.1 Consensus size: 62
2123795 TATAAGGATC
* * *
2123805 AAATTG-AACAAATTTTAAATATGAAGCTTAAATTAATAAACTGTAATATTAAATTTGGACT
1 AAATTGAAACAAATTTGAAATATGAAGCTTAAATTAATAAACTGCAATATTAAAGTTGGACT
* * * *
2123866 AAATTGAAAC-AATTTGAAATTTGAAGCTTAAATTAATATATTGCATTATTAAAGTTGGACT
1 AAATTGAAACAAATTTGAAATATGAAGCTTAAATTAATAAACTGCAATATTAAAGTTGGACT
2123927 AAATTGAA
1 AAATTGAA
2123935 CTAATGTAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
61 58 0.95
62 3 0.05
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (62 bp):
AAATTGAAACAAATTTGAAATATGAAGCTTAAATTAATAAACTGCAATATTAAAGTTGGACT
Found at i:2124349 original size:111 final size:110
Alignment explanation
Indices: 2124155--2124486 Score: 459
Period size: 113 Copynumber: 3.0 Consensus size: 110
2124145 AAATCAAACA
* * * *
2124155 TGTTCTTCATTTGTTCATCCAGTTCATCCCCAAAAGCCTTCTTTGATCTTCAAAAACACTTCAAC
1 TGTTCTTCATTTGTTCATCCAGTTCTTCCCCAAAA-CCCTCTTTGATCTTCAAAAACACCTAAAC
*
2124220 CAAAACATTTTCGTGTTTTTTCTATCAAACACCCAAAATTCTTCCG
65 CAAAACATTTTCGTGTTTTTTCGATCAAACACCCAAAATTCTTCCG
* * *
2124266 TGTTCTTCATTTGTTCTTCTAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAATACCTAAAC
1 TGTTCTTCATTTGTTCATCCAGTTCTTCCCCAAAACCCTC-TTTGATCTTCAAAAACACCTAAAC
* * *
2124331 CAAAATATTTTCGTGTTTTCTTCGATCAAACACCAAAATATTCTTCTG
65 CAAAACATTTTCGTGTTTT-TTCGATCAAACACCCAAA-ATTCTTCCG
* *
2124379 TGTTCTTCATTTGTTAATCCAGTTCTTCGCCAAAACCCTGCTTTGATCTTCAAAAACACCTAAAC
1 TGTTCTTCATTTGTTCATCCAGTTCTTCCCCAAAACCCT-CTTTGATCTTCAAAAACACCTAAAC
*
2124444 ACAAACCA-TTTCGTGTTTATTTCGATCAAACACCCACAAATTC
65 -CAAAACATTTTCGTGTTT-TTTCGATCAAACACCCA-AAATTC
2124487 ATCCATTTTC
Statistics
Matches: 195, Mismatches: 19, Indels: 12
0.86 0.08 0.05
Matches are distributed among these distances:
110 4 0.02
111 71 0.36
112 16 0.08
113 95 0.49
114 9 0.05
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.37
Consensus pattern (110 bp):
TGTTCTTCATTTGTTCATCCAGTTCTTCCCCAAAACCCTCTTTGATCTTCAAAAACACCTAAACC
AAAACATTTTCGTGTTTTTTCGATCAAACACCCAAAATTCTTCCG
Found at i:2124736 original size:17 final size:17
Alignment explanation
Indices: 2124716--2124749 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2124706 TAACCTAGAG
2124716 CCTAACCAAACCCTAAC
1 CCTAACCAAACCCTAAC
* *
2124733 CCTAACTAGACCCTAAC
1 CCTAACCAAACCCTAAC
2124750 TTAGACCCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.44, G:0.03, T:0.15
Consensus pattern (17 bp):
CCTAACCAAACCCTAAC
Found at i:2124736 original size:40 final size:40
Alignment explanation
Indices: 2124691--2124773 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
2124681 CCCTAACTAG
* *
2124691 ACCCTAACTAAACCTTAACCTAGAGCCTAACCAAACCCTA
1 ACCCTAACTAAACCCTAACCTAGACCCTAACCAAACCCTA
* *
2124731 ACCCTAACTAGACCCTAACTTAGACCCTAACCAAACCCTA
1 ACCCTAACTAAACCCTAACCTAGACCCTAACCAAACCCTA
2124771 ACC
1 ACC
2124774 TAGACTTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.39, C:0.40, G:0.05, T:0.17
Consensus pattern (40 bp):
ACCCTAACTAAACCCTAACCTAGACCCTAACCAAACCCTA
Found at i:2124756 original size:12 final size:11
Alignment explanation
Indices: 2124630--2124778 Score: 119
Period size: 11 Copynumber: 13.5 Consensus size: 11
2124620 CTATCTTAAC
2124630 CTAGACCCTAA
1 CTAGACCCTAA
*
2124641 CTAGATCCTAA
1 CTAGACCCTAA
*
2124652 CTAAACCCTAA
1 CTAGACCCTAA
* *
2124663 CTCAGATCCTAGC
1 CT-AGACCCTA-A
2124676 CTAGACCCTAA
1 CTAGACCCTAA
2124687 CTAGACCCTAA
1 CTAGACCCTAA
* *
2124698 CTAAACCTTAA
1 CTAGACCCTAA
*
2124709 CCTAGAGCCTAA
1 -CTAGACCCTAA
* *
2124721 CCA-AACC---
1 CTAGACCCTAA
2124728 CTA-ACCCTAA
1 CTAGACCCTAA
2124738 CTAGACCCTAA
1 CTAGACCCTAA
2124749 CTTAGACCCTAA
1 C-TAGACCCTAA
* *
2124761 CCAAACCCTAA
1 CTAGACCCTAA
2124772 CCTAGAC
1 -CTAGAC
2124779 TTTAAAATAT
Statistics
Matches: 108, Mismatches: 21, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
7 5 0.05
10 6 0.06
11 59 0.55
12 36 0.33
13 2 0.02
ACGTcount: A:0.37, C:0.37, G:0.07, T:0.19
Consensus pattern (11 bp):
CTAGACCCTAA
Found at i:2124778 original size:23 final size:22
Alignment explanation
Indices: 2124634--2124777 Score: 118
Period size: 23 Copynumber: 6.5 Consensus size: 22
2124624 CTTAACCTAG
*
2124634 ACCCTAACTAGATCCTAACTAA
1 ACCCTAACTAGATCCTAACCAA
* *
2124656 ACCCTAACTCAGATCCTAGCCTAG
1 ACCCTAACT-AGATCCTAACC-AA
* *
2124680 ACCCTAACTAGACCCTAACTAA
1 ACCCTAACTAGATCCTAACCAA
* *
2124702 ACCTTAACCTAGAGCCTAACCAA
1 ACCCTAA-CTAGATCCTAACCAA
* *
2124725 ACCCTAAC-----CCTAACTAG
1 ACCCTAACTAGATCCTAACCAA
*
2124742 ACCCTAACTTAGACCCTAACCAA
1 ACCCTAAC-TAGATCCTAACCAA
2124765 ACCCTAACCTAGA
1 ACCCTAA-CTAGA
2124778 CTTTAAAATA
Statistics
Matches: 97, Mismatches: 15, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
17 15 0.15
22 17 0.18
23 54 0.56
24 11 0.11
ACGTcount: A:0.38, C:0.37, G:0.07, T:0.19
Consensus pattern (22 bp):
ACCCTAACTAGATCCTAACCAA
Found at i:2124795 original size:29 final size:29
Alignment explanation
Indices: 2124763--2124913 Score: 185
Period size: 29 Copynumber: 5.2 Consensus size: 29
2124753 GACCCTAACC
* * ** *
2124763 AAACCCTAACCTAGACTTTAAAATATTTA
1 AAACCCTAAACTAAACCCTAAAATATTCA
* *
2124792 AAACCCTAAACCAAACCCTAAACTATTCA
1 AAACCCTAAACTAAACCCTAAAATATTCA
*
2124821 AAACCCTAAACTAACCCCTAAAATATTCA
1 AAACCCTAAACTAAACCCTAAAATATTCA
*
2124850 GAACCCTAAACTAAACCCTAAAATATTCA
1 AAACCCTAAACTAAACCCTAAAATATTCA
* * *
2124879 AAACCCTAAACCCAAACCATAAACTATTCA
1 AAACCCTAAA-CTAAACCCTAAAATATTCA
2124909 AAACC
1 AAACC
2124914 TTTATTTTTT
Statistics
Matches: 105, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
29 84 0.80
30 21 0.20
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.21
Consensus pattern (29 bp):
AAACCCTAAACTAAACCCTAAAATATTCA
Found at i:2124826 original size:17 final size:17
Alignment explanation
Indices: 2124804--2124913 Score: 68
Period size: 17 Copynumber: 7.3 Consensus size: 17
2124794 ACCCTAAACC
2124804 AAACCCTAAACTATTCA
1 AAACCCTAAACTATTCA
2124821 AAACCCTAAAC---T--
1 AAACCCTAAACTATTCA
* *
2124833 AACCCCTAAAATATTCA
1 AAACCCTAAACTATTCA
*
2124850 GAACCCTAAAC---T--
1 AAACCCTAAACTATTCA
*
2124862 AAACCCTAAAATATTCA
1 AAACCCTAAACTATTCA
*
2124879 AAACCCTAAAC----CC
1 AAACCCTAAACTATTCA
*
2124892 AAACCATAAACTATTCA
1 AAACCCTAAACTATTCA
2124909 AAACC
1 AAACC
2124914 TTTATTTTTT
Statistics
Matches: 68, Mismatches: 11, Indels: 28
0.64 0.10 0.26
Matches are distributed among these distances:
12 18 0.26
13 11 0.16
14 2 0.03
15 2 0.03
17 35 0.51
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (17 bp):
AAACCCTAAACTATTCA
Found at i:2125286 original size:31 final size:31
Alignment explanation
Indices: 2125146--2125282 Score: 211
Period size: 31 Copynumber: 4.4 Consensus size: 31
2125136 TATATATATA
*
2125146 TACTGGTTTATTACTGTTGATGTAAATGATG
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
*
2125177 TACTGGCTTATTGCTGTTGATGTAAATGATG
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
* *
2125208 TACTAGTTTATTACTGTTGATGTAAATGATG
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
* * *
2125239 TACTGGTTAATTGTTGTTTATGTAAATGATG
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
2125270 TACTGGTTTATTG
1 TACTGGTTTATTG
2125283 TTGTAATGTA
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 95 1.00
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.46
Consensus pattern (31 bp):
TACTGGTTTATTGCTGTTGATGTAAATGATG
Found at i:2127425 original size:13 final size:13
Alignment explanation
Indices: 2127409--2127433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2127399 TTATTAATTA
2127409 TTTTTAATTTTTC
1 TTTTTAATTTTTC
2127422 TTTTTAATTTTT
1 TTTTTAATTTTT
2127434 AGGGTGTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTAATTTTTC
Found at i:2127664 original size:20 final size:20
Alignment explanation
Indices: 2127635--2127673 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2127625 TGCTTTATTC
* *
2127635 TGTTTTATATTGTTTGCTTA
1 TGTTTGATATTGCTTGCTTA
2127655 TGTTTGATATTGCTTGCTT
1 TGTTTGATATTGCTTGCTT
2127674 CTACTTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.08, G:0.18, T:0.62
Consensus pattern (20 bp):
TGTTTGATATTGCTTGCTTA
Found at i:2128593 original size:17 final size:17
Alignment explanation
Indices: 2128571--2128611 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
2128561 TTAAAAAGTA
*
2128571 ATCATATTAATTTAATT
1 ATCATAATAATTTAATT
2128588 ATCATAATAATTTAATT
1 ATCATAATAATTTAATT
*
2128605 ATTATAA
1 ATCATAA
2128612 GTTTATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (17 bp):
ATCATAATAATTTAATT
Found at i:2129723 original size:22 final size:22
Alignment explanation
Indices: 2129698--2129742 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
2129688 AACTTATTAT
2129698 AGGAATGGAAGAATAAATAAGG
1 AGGAATGGAAGAATAAATAAGG
*
2129720 AGGAATGGTAGAATAAATAAGG
1 AGGAATGGAAGAATAAATAAGG
2129742 A
1 A
2129743 AGGAGGAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.31, T:0.16
Consensus pattern (22 bp):
AGGAATGGAAGAATAAATAAGG
Found at i:2130104 original size:37 final size:36
Alignment explanation
Indices: 2130029--2130104 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
2130019 TTTTTATATT
*
2130029 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
2130065 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
2130102 TTT
1 TTT
2130105 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:2130286 original size:20 final size:20
Alignment explanation
Indices: 2130250--2130287 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2130240 ATCCTATTCC
**
2130250 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
2130270 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
2130288 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:2131511 original size:15 final size:15
Alignment explanation
Indices: 2131473--2131519 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
2131463 TTTTCTTCGA
*
2131473 TATTGAAAAATAAA-
1 TATTAAAAAATAAAT
*
2131487 TATT--AAAATAATT
1 TATTAAAAAATAAAT
2131500 TATTAAAAAATAAAT
1 TATTAAAAAATAAAT
2131515 TATTA
1 TATTA
2131520 TTTATTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 7 0.25
13 4 0.14
14 4 0.14
15 13 0.46
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
TATTAAAAAATAAAT
Found at i:2133169 original size:95 final size:95
Alignment explanation
Indices: 2132987--2133170 Score: 214
Period size: 95 Copynumber: 1.9 Consensus size: 95
2132977 TCTTCTTCTA
* * *
2132987 TGATGTAATTGAGCAAAAAGTTGAACAAATTCTTCTTCTTTTTCATATGAGTTCTTCTCATTATG
1 TGATGTAATTGAGCAAAAAGTTGAACAAATTCTTCTTCTTCTTCAGATGAGTTATTCTCATTATG
** *
2133052 AACTTTCTCTGGCAACGCTGATCCATCGGG
66 AACTTTCTCTGAAAACACTGATCCATCGGG
*
2133082 TGATG-AATTTGAGC-AAAAGATTGAACAAGTTCTTC-TCATTCTTCAGATGAGTTATTCTCATT
1 TGATGTAA-TTGAGCAAAAAG-TTGAACAAATTCTTCTTC-TTCTTCAGATGAGTTATTCTCATT
* * *
2133144 ATGAA-TTTCCTTTGAAAATATTGATCC
63 ATGAACTTT-CTCTGAAAACACTGATCC
2133171 TCAAATGAGG
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
94 12 0.16
95 63 0.84
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (95 bp):
TGATGTAATTGAGCAAAAAGTTGAACAAATTCTTCTTCTTCTTCAGATGAGTTATTCTCATTATG
AACTTTCTCTGAAAACACTGATCCATCGGG
Found at i:2133463 original size:111 final size:111
Alignment explanation
Indices: 2133339--2133601 Score: 413
Period size: 111 Copynumber: 2.4 Consensus size: 111
2133329 ATAGAGTTAT
2133339 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTC
* * ***
2133403 ATTATGAACACTTCTGGCAACGCTGATCCATCGGGTGAT-GAATTTGA
66 ATTATGAACACTTCTGGAAACACTGATCC-TCAAATGATAG-ATTTGA
* *
2133450 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCATTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTC
* *
2133515 ATTATGAACACTTCTGGAAATATTGATCCTCAAATGATAGATTTGA
66 ATTATGAACACTTCTGGAAACACTGATCCTCAAATGATAGATTTGA
2133561 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCT
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCT
2133602 GGAAATGCTG
Statistics
Matches: 139, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
111 92 0.66
112 47 0.34
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.37
Consensus pattern (111 bp):
GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTC
ATTATGAACACTTCTGGAAACACTGATCCTCAAATGATAGATTTGA
Found at i:2133698 original size:24 final size:23
Alignment explanation
Indices: 2133663--2133707 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
2133653 TGAATAAGCT
2133663 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
2133687 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
2133708 CATGTTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:2134525 original size:113 final size:113
Alignment explanation
Indices: 2133738--2134525 Score: 1133
Period size: 113 Copynumber: 7.0 Consensus size: 113
2133728 TGAATTCAGG
* * *
2133738 CAAAAGGTTAAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATAAGTTCCTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
2133802 TTATGAACTTTCTCTGGAAATGCTGATCCATC-GAGTGATGAATTTGAG
66 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGA-TGATGGATTTGAA
* * *
2133850 CAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** * * * * * *
2133915 TTATGAACTCGACCTGGCAATGTTGATTCATC-GAATGAT-GAATTCAA
66 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAG-ATGATGGATTTGAA
* * * *
2133962 GCGAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCT
1 -C-AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
** * * * *
2134026 CATTATGAAC-ACTTCTGG-AAAGATTGATCC-TCAAATGATAGATTTGAG
64 CATTATGAACTTTTTCTGGAAAAG-CTGATCCATCAGATGATGGATTTGAA
*
2134074 CAAAATGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
2134139 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAG
66 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
** * *
2134187 CAAAATATTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
2134252 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
66 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
*
2134300 CAAAAGGTTGAACAAATTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
2134365 TTATGAACTTTTTCTGGAAAAGCTGATCTATCAGATGATGGATTTGAA
66 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
2134413 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
2134478 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
66 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
2134526 TCTTTGCTAA
Statistics
Matches: 614, Mismatches: 51, Indels: 21
0.90 0.07 0.03
Matches are distributed among these distances:
110 4 0.01
111 74 0.12
112 70 0.11
113 461 0.75
114 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
Found at i:2134951 original size:22 final size:22
Alignment explanation
Indices: 2134926--2134983 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
2134916 GATAAAGCTT
*
2134926 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
2134948 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
2134970 TCATCTTTGAAAAG
1 TCATCTTTGAAAAG
2134984 TGTAGATGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:2145397 original size:16 final size:16
Alignment explanation
Indices: 2145357--2145398 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 16
2145347 TTCGATATTG
2145357 AAAAATAAA-TATTAA
1 AAAAATAAATTATTAA
2145372 AAAAAT---TTATTAA
1 AAAAATAAATTATTAA
2145385 AAAAATAAATTATT
1 AAAAATAAATTATT
2145399 TATTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 12 0.52
15 6 0.26
16 5 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAATAAATTATTAA
Found at i:2150176 original size:186 final size:189
Alignment explanation
Indices: 2149840--2150235 Score: 619
Period size: 186 Copynumber: 2.1 Consensus size: 189
2149830 ATTTTGAATT
* * *
2149840 TATATAA-AAATTAAATA-TTTTTTAATTAAAAAAACAGTTTATAATTAATTTAAATAATATAAA
1 TATATAATATATTTAATATTTTTTTAATTAAAAAAACAGTTTACAATTAATTTAAATAATATAAA
2149903 ATTATAAAATAAAAAATTTTATATAAAATTTTTAATTAATTAATTAATATTGATTTAGATTTAAA
66 ATTATAAAATAAAAAATTTTATAT-AAATTTTT-ATTAATTAATTAATATTGATTTAGATTTAAA
* * *
2149968 AGTTATTATATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGTTGAG-CTCATATGTTA
129 AGTTATTAGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTAAGTC-CATATGTTA
*
2150029 TATATAATATATTTAATATTTTTTTAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATAT
1 TATATAATATATTTAATATTTTTTTAATT-AAAAAAACAGTTTACAATTAATTTAAATAATATAA
2150094 AATTATAAAAT-AAAAATTTTATAT-AA-TTTT-TTAATTAATTAATATTGATTTA-AGTTTAAA
65 AATTATAAAATAAAAAATTTTATATAAATTTTTATTAATTAATTAATATTGATTTAGA-TTTAAA
*
2150154 AGTTATTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTAAGTCCATATGTTA
129 AGTTATTAGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTAAGTCCATATGTTA
2150215 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
2150236 AAAATTAATT
Statistics
Matches: 194, Mismatches: 8, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
185 1 0.01
186 104 0.54
187 1 0.01
188 4 0.02
189 9 0.05
190 8 0.04
191 23 0.12
192 44 0.23
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (189 bp):
TATATAATATATTTAATATTTTTTTAATTAAAAAAACAGTTTACAATTAATTTAAATAATATAAA
ATTATAAAATAAAAAATTTTATATAAATTTTTATTAATTAATTAATATTGATTTAGATTTAAAAG
TTATTAGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTAAGTCCATATGTTA
Found at i:2151620 original size:21 final size:21
Alignment explanation
Indices: 2151596--2151641 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2151586 AGTAACAGGG
2151596 TCATTAAGCA-CTTCAGAAGAA
1 TCATTAAG-ATCTTCAGAAGAA
* *
2151617 TCATTAAGATTTTCAGAAGGA
1 TCATTAAGATCTTCAGAAGAA
2151638 TCAT
1 TCAT
2151642 GACAAATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (21 bp):
TCATTAAGATCTTCAGAAGAA
Found at i:2159351 original size:14 final size:14
Alignment explanation
Indices: 2159332--2159359 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2159322 CGATAACCTA
2159332 TAACTATGATTACT
1 TAACTATGATTACT
2159346 TAACTATGATTACT
1 TAACTATGATTACT
2159360 AGTTTGGACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TAACTATGATTACT
Found at i:2164537 original size:20 final size:19
Alignment explanation
Indices: 2164512--2164559 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
2164502 TTTTTTTACC
2164512 TTTAATATTTTTATTATATT
1 TTTAATATTTTTATT-TATT
*
2164532 TTTAATCA-GTTTATTTATT
1 TTTAAT-ATTTTTATTTATT
2164551 TTTAA-ATTT
1 TTTAATATTT
2164560 AAGTCAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 1 0.04
18 1 0.04
19 9 0.38
20 12 0.50
21 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTAATATTTTTATTTATT
Found at i:2165497 original size:20 final size:20
Alignment explanation
Indices: 2165474--2165540 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
2165464 ATTTCCAAAT
2165474 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATTTGTAAA
** *
2165494 TCGCAACATGAATCTGTAAA
1 TCGCAACGCGAATTTGTAAA
*
2165514 TCGCAACGCGAATTTGTAAT
1 TCGCAACGCGAATTTGTAAA
2165534 TCGCAAC
1 TCGCAAC
2165541 ACAGAAGTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGAATTTGTAAA
Found at i:2165498 original size:40 final size:40
Alignment explanation
Indices: 2165454--2165541 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
2165444 AACTCCAATT
*
2165454 TCGCAAC-TCAATTTCCAAATTCGCAACGCGAATTTGTAAA
1 TCGCAACATCAATCTCCAAA-TCGCAACGCGAATTTGTAAA
* ** *
2165494 TCGCAACATGAATCTGTAAATCGCAACGCGAATTTGTAAT
1 TCGCAACATCAATCTCCAAATCGCAACGCGAATTTGTAAA
2165534 TCGCAACA
1 TCGCAACA
2165542 CAGAAGTCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 34 0.81
41 8 0.19
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (40 bp):
TCGCAACATCAATCTCCAAATCGCAACGCGAATTTGTAAA
Found at i:2165558 original size:40 final size:38
Alignment explanation
Indices: 2165469--2165559 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 38
2165459 ACTCAATTTC
*
2165469 CAAATTCGCAACGCGAATTTGTAAATCGCAACATGAAT
1 CAAATTCGCAACGCGAATTTGTAAATCGCAACAAGAAT
*
2165507 CTGTAAA-TCGCAACGCGAATTTGTAATTCGCAACACAGAAGT
1 C---AAATTCGCAACGCGAATTTGTAAATCGCAACA-AGAA-T
2165549 CAAATTCGCAA
1 CAAATTCGCAA
2165560 AGCGCGTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
38 1 0.02
39 3 0.07
40 33 0.73
41 6 0.13
42 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.23
Consensus pattern (38 bp):
CAAATTCGCAACGCGAATTTGTAAATCGCAACAAGAAT
Found at i:2165672 original size:20 final size:20
Alignment explanation
Indices: 2165647--2165697 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
2165637 AGTATAATCG
*
2165647 TAAATCATAACCTAAAACCC
1 TAAATCACAACCTAAAACCC
2165667 TAAATCACAACCTAAAACCC
1 TAAATCACAACCTAAAACCC
2165687 TAAATCACAAC
1 TAAATCACAAC
2165698 TCAATCCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAATCACAACCTAAAACCC
Found at i:2165815 original size:22 final size:22
Alignment explanation
Indices: 2165727--2165821 Score: 127
Period size: 22 Copynumber: 4.3 Consensus size: 22
2165717 TCACTCTCTA
* *
2165727 CGGCGACATCCGTCTCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
*
2165749 CGACGAAATCCGTCCCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
*
2165771 CGACGAAATCCGTCCCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
* *
2165793 TGGCGAAATCTGTCCCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
*
2165815 TGGCGAA
1 CGGCGAA
2165822 TCTGTTTATC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 67 1.00
ACGTcount: A:0.20, C:0.41, G:0.18, T:0.21
Consensus pattern (22 bp):
CGGCGAAATCCGTCCCCATCTC
Found at i:2166222 original size:19 final size:20
Alignment explanation
Indices: 2166200--2166251 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
2166190 AATCGCAACG
2166200 CGATTTT-AGTTTCGCGTTA
1 CGATTTTAAGTTTCGCGTTA
* *
2166219 CGATTTTCA-TTTCGCGTTG
1 CGATTTTAAGTTTCGCGTTA
2166238 CGATTTTAAGTTTC
1 CGATTTTAAGTTTC
2166252 AAAAACTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 24 0.83
20 5 0.17
ACGTcount: A:0.15, C:0.17, G:0.19, T:0.48
Consensus pattern (20 bp):
CGATTTTAAGTTTCGCGTTA
Found at i:2168176 original size:12 final size:12
Alignment explanation
Indices: 2168159--2168200 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
2168149 TTTTTCAGCA
2168159 TTATTTAGTTG-T
1 TTATTTA-TTGAT
2168171 TTATTTATTGAT
1 TTATTTATTGAT
* *
2168183 TTATGTATTAAT
1 TTATTTATTGAT
2168195 TTATTT
1 TTATTT
2168201 TTAGCGGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 3 0.12
12 23 0.88
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.67
Consensus pattern (12 bp):
TTATTTATTGAT
Found at i:2168376 original size:21 final size:22
Alignment explanation
Indices: 2168344--2168449 Score: 103
Period size: 21 Copynumber: 5.0 Consensus size: 22
2168334 GATTCACCTA
*
2168344 TCATCATTCAAGAGGCCTCTCC
1 TCATCGTTCAAGAGGCCTCTCC
**
2168366 T-ATCGTTCAAGAGGCC-CTTA
1 TCATCGTTCAAGAGGCCTCTCC
* *
2168386 TCATCCTTCAAGAGGCCCCTCC
1 TCATCGTTCAAGAGGCCTCTCC
* * *
2168408 -CACCGTTCAAGAGGCCACT-G
1 TCATCGTTCAAGAGGCCTCTCC
*
2168428 TCATCGTTCAAGAGGTCTCTCC
1 TCATCGTTCAAGAGGCCTCTCC
2168450 CACCTTTCGA
Statistics
Matches: 66, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
20 3 0.05
21 60 0.91
22 3 0.05
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.25
Consensus pattern (22 bp):
TCATCGTTCAAGAGGCCTCTCC
Found at i:2168389 original size:42 final size:42
Alignment explanation
Indices: 2168341--2168462 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
2168331 TCTGATTCAC
* *
2168341 CTATCATCATTCAAGAGGCCTCTCCTATCGTTCAAGAGGCC-
1 CTATCATCATTCAAGAGGCCTCTCCCACCGTTCAAGAGGCCA
* *
2168382 CTTATCATCCTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCA
1 C-TATCATCATTCAAGAGGCCTCTCCCACCGTTCAAGAGGCCA
* * * * *
2168425 CTGTCATCGTTCAAGAGGTCTCTCCCACCTTTCGAGAG
1 CTATCATCATTCAAGAGGCCTCTCCCACCGTTCAAGAG
2168463 CTCGATTCAC
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 67 0.97
43 1 0.01
ACGTcount: A:0.22, C:0.34, G:0.18, T:0.25
Consensus pattern (42 bp):
CTATCATCATTCAAGAGGCCTCTCCCACCGTTCAAGAGGCCA
Found at i:2169824 original size:14 final size:14
Alignment explanation
Indices: 2169805--2169836 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
2169795 AAATTGATGT
2169805 ATTTGTAAAAGTTG
1 ATTTGTAAAAGTTG
2169819 ATTTGTAAAAGTTG
1 ATTTGTAAAAGTTG
2169833 ATTT
1 ATTT
2169837 ATTTAATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (14 bp):
ATTTGTAAAAGTTG
Found at i:2169888 original size:64 final size:64
Alignment explanation
Indices: 2169816--2170031 Score: 369
Period size: 64 Copynumber: 3.4 Consensus size: 64
2169806 TTTGTAAAAG
* *
2169816 TTGATTTGTAAAAGTTGATTTATTTAATTGATGAGGAAATAATAATTATTTTTTTCTTGTTTAG
1 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAATAATTATTTTTTTCTTGTTTAA
2169880 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAATAATTATTTTTTTCTTGTTTAA
1 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAATAATTATTTTTTTCTTGTTTAA
* * ** *
2169944 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTTTTGCTTGTTTAA
1 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAATAATTATTTTTTTCTTGTTTAA
2170008 TTGATTTGTAAAAGTTGATTTGTT
1 TTGATTTGTAAAAGTTGATTTGTT
2170032 GTTTTAAATT
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 145 1.00
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (64 bp):
TTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAATAATTATTTTTTTCTTGTTTAA
Found at i:2170145 original size:40 final size:40
Alignment explanation
Indices: 2170086--2170202 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 40
2170076 GTTGAAGGTA
** * *
2170086 CAAATTCGTAACGCGAAAGTCAATTTCGCGTTGCGATAGT
1 CAAATTCACAACGCAAAAGTCAAATTCGCGTTGCGATAGT
* * *** * *
2170126 CAAATTCACAACGTAAAAGTTAAATTCGCAACGTGAAAGT
1 CAAATTCACAACGCAAAAGTCAAATTCGCGTTGCGATAGT
* *
2170166 CAAATTCACAATGCGAAAGTCAAATTCGCGTTGCGAT
1 CAAATTCACAACGCAAAAGTCAAATTCGCGTTGCGAT
2170203 TTCACGTTTC
Statistics
Matches: 57, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.25
Consensus pattern (40 bp):
CAAATTCACAACGCAAAAGTCAAATTCGCGTTGCGATAGT
Found at i:2170201 original size:20 final size:20
Alignment explanation
Indices: 2170086--2170194 Score: 92
Period size: 20 Copynumber: 5.5 Consensus size: 20
2170076 GTTGAAGGTA
* *
2170086 CAAATTCGTAACGCGAAAGT
1 CAAATTCGCAATGCGAAAGT
* ** *
2170106 CAATTTCGCGTTGCGATAGT
1 CAAATTCGCAATGCGAAAGT
* * **
2170126 CAAATTCACAACGTAAAAGT
1 CAAATTCGCAATGCGAAAGT
* * *
2170146 TAAATTCGCAACGTGAAAGT
1 CAAATTCGCAATGCGAAAGT
*
2170166 CAAATTCACAATGCGAAAGT
1 CAAATTCGCAATGCGAAAGT
2170186 CAAATTCGC
1 CAAATTCGC
2170195 GTTGCGATTT
Statistics
Matches: 67, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (20 bp):
CAAATTCGCAATGCGAAAGT
Found at i:2170254 original size:29 final size:29
Alignment explanation
Indices: 2170212--2170268 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
2170202 TTTCACGTTT
2170212 CGAATTTGACTTTCGCAACAATCGCAACG
1 CGAATTTGACTTTCGCAACAATCGCAACG
*
2170241 CGAATTTGACTTTCGCAATAATCGCAAC
1 CGAATTTGACTTTCGCAACAATCGCAAC
2170269 AAAAAATCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (29 bp):
CGAATTTGACTTTCGCAACAATCGCAACG
Found at i:2171668 original size:18 final size:18
Alignment explanation
Indices: 2171645--2171681 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2171635 CGAAATTTAT
2171645 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
2171663 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
2171681 A
1 A
2171682 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:2172095 original size:25 final size:25
Alignment explanation
Indices: 2172067--2172116 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
2172057 CATTATTTTC
*
2172067 CAAATAATATACCCATAACAATGTT
1 CAAATAATATACCCACAACAATGTT
* *
2172092 CAAATAATGTATCCACAACAATGTT
1 CAAATAATATACCCACAACAATGTT
2172117 TAATTGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (25 bp):
CAAATAATATACCCACAACAATGTT
Found at i:2172527 original size:18 final size:18
Alignment explanation
Indices: 2172504--2172539 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2172494 AAGCCGGTTG
2172504 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
2172522 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
2172540 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:2174842 original size:24 final size:24
Alignment explanation
Indices: 2174815--2174861 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
2174805 ATCATTAAAA
2174815 TCCGAGTATTGACCAAGATCAAAG
1 TCCGAGTATTGACCAAGATCAAAG
*
2174839 TCCGGGTATTGACCAAGATCAAA
1 TCCGAGTATTGACCAAGATCAAA
2174862 TTTTGAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (24 bp):
TCCGAGTATTGACCAAGATCAAAG
Found at i:2175008 original size:12 final size:12
Alignment explanation
Indices: 2174987--2175020 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2174977 GGTTGTGGGT
*
2174987 TTTGAGATTGTG
1 TTTGATATTGTG
2174999 TTTGATATTGTG
1 TTTGATATTGTG
*
2175011 TTTGGTATTG
1 TTTGATATTG
2175021 AAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:2175263 original size:180 final size:183
Alignment explanation
Indices: 2174950--2175322 Score: 639
Period size: 180 Copynumber: 2.0 Consensus size: 183
2174940 TGGTGCTGAA
*
2174950 AGTTGATTGGGATTTGGATTAGGAAAAGGTTGTGGGTTTTGAGATTGTGTTTGATATTGTGTTTG
1 AGTTGATTGGGATTTGGATTAGGAAAAGATTGTGGGTTTTGAGATTGTG-TTGA-ATTGTGTTTG
*
2175015 GTATTGAAAATGTGGTGAAAAAAATTTTCTTGGTGATGAAATTGTGGTGGAACCATTAAATTTTG
64 GTATTGAAAATGTGGTGAAAAAAATTTTCTTGGTGATGAAATTGTGGTGAAACCATTAAATTTTG
*
2175080 AGGTTGATAATAACGTTGTACATTGTGAGCACCATAAATTAGGGTTGAAGAACTT
129 AGGTTAATAATAACGTTGTACATTGTGAGCACCATAAATTAGGGTTGAAGAACTT
2175135 AGTTGATTGGGATTTGGATTAGGAAAAGATTGTGGGTTTTGAGA-T-TG-TG-ATTG-GTATTGG
1 AGTTGATTGGGATTTGGATTAGGAAAAGATTGTGGGTTTTGAGATTGTGTTGAATTGTGT-TTGG
*
2175195 TATTGGAAATGTGGTGAAACAAAATTTTCTTGGTGATGAAATTGTGGTGAAACCATTAAATTTTG
65 TATTGAAAATGTGGTGAAA-AAAATTTTCTTGGTGATGAAATTGTGGTGAAACCATTAAATTTTG
2175260 AGGTTAATAATAACGTTGTACATTGTGAGCACCATAAATTAGGGTTGAAGAACTT
129 AGGTTAATAATAACGTTGTACATTGTGAGCACCATAAATTAGGGTTGAAGAACTT
2175315 AGTTGATT
1 AGTTGATT
2175323 ACTACCCGCT
Statistics
Matches: 182, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
178 2 0.01
179 26 0.14
180 106 0.58
181 2 0.01
183 2 0.01
184 1 0.01
185 43 0.24
ACGTcount: A:0.30, C:0.05, G:0.28, T:0.37
Consensus pattern (183 bp):
AGTTGATTGGGATTTGGATTAGGAAAAGATTGTGGGTTTTGAGATTGTGTTGAATTGTGTTTGGT
ATTGAAAATGTGGTGAAAAAAATTTTCTTGGTGATGAAATTGTGGTGAAACCATTAAATTTTGAG
GTTAATAATAACGTTGTACATTGTGAGCACCATAAATTAGGGTTGAAGAACTT
Found at i:2175830 original size:14 final size:15
Alignment explanation
Indices: 2175794--2175831 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2175784 GAAATAATTG
2175794 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
2175809 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
2175824 AAAAATTA
1 AAAAATTA
2175832 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:2176009 original size:20 final size:20
Alignment explanation
Indices: 2175965--2176064 Score: 73
Period size: 20 Copynumber: 5.0 Consensus size: 20
2175955 AAAAACATTT
*
2175965 GTGTTGCGAAAAT-AAAA-C
1 GTGTTGCGAAATTGAAAATC
*
2175983 ATGTTGCGAAATT-AAAATTC
1 GTGTTGCGAAATTGAAAA-TC
2176003 GTGTTGCG-AATTCGAAAATC
1 GTGTTGCGAAATT-GAAAATC
* * * *
2176023 GAGTTGCGAATTTGAAATTTA
1 GTGTTGCGAAATTGAAA-ATC
* *
2176044 GTGTTGCGAATTTGTAAATC
1 GTGTTGCGAAATTGAAAATC
2176064 G
1 G
2176065 CAACGCGAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
18 15 0.23
19 4 0.06
20 23 0.35
21 23 0.35
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
GTGTTGCGAAATTGAAAATC
Found at i:2176051 original size:21 final size:21
Alignment explanation
Indices: 2175984--2176062 Score: 81
Period size: 20 Copynumber: 3.8 Consensus size: 21
2175974 AAATAAAACA
* *
2175984 TGTTGCGAAATT-AAAATTCG
1 TGTTGCGAATTTGAAATTTCG
* *
2176004 TGTTGCGAATTCGAAA-ATCG
1 TGTTGCGAATTTGAAATTTCG
* *
2176024 AGTTGCGAATTTGAAATTTAG
1 TGTTGCGAATTTGAAATTTCG
2176045 TGTTGCGAATTTGTAAAT
1 TGTTGCGAATTTG-AAAT
2176063 CGCAACGCGA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 27 0.56
21 17 0.35
22 4 0.08
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.37
Consensus pattern (21 bp):
TGTTGCGAATTTGAAATTTCG
Found at i:2176063 original size:41 final size:40
Alignment explanation
Indices: 2175985--2176064 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 40
2175975 AATAAAACAT
*
2175985 GTTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGA
1 GTTGCGAAATTAAAATTAGTGTTGCGAATTCGAAAATCGA
* * * *
2176025 GTTGCGAATTTGAAATTTAGTGTTGCGAATTTGTAAATCG
1 GTTGCGAAATT-AAAATTAGTGTTGCGAATTCGAAAATCG
2176065 CAACGCGAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
40 10 0.29
41 24 0.71
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (40 bp):
GTTGCGAAATTAAAATTAGTGTTGCGAATTCGAAAATCGA
Found at i:2176074 original size:20 final size:20
Alignment explanation
Indices: 2176049--2176103 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
2176039 ATTTAGTGTT
2176049 GCGAATTTGTAAATCGCAAC
1 GCGAATTTGTAAATCGCAAC
2176069 GCGAATTTGTAAATCGCAAC
1 GCGAATTTGTAAATCGCAAC
2176089 GCGAATTTGTAAATC
1 GCGAATTTGTAAATC
2176104 ACGTTGCGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (20 bp):
GCGAATTTGTAAATCGCAAC
Found at i:2176112 original size:20 final size:20
Alignment explanation
Indices: 2176005--2176137 Score: 99
Period size: 20 Copynumber: 6.6 Consensus size: 20
2175995 TAAAATTCGT
* *
2176005 GTTGCGAATTCGAAAATCGA-
1 GTTGCGAATTTGTAAATC-AC
* *
2176025 GTTGCGAATTTG-AAATTTAGT
1 GTTGCGAATTTGTAAA-TCA-C
*
2176046 GTTGCGAATTTGTAAATCGC
1 GTTGCGAATTTGTAAATCAC
*** *
2176066 AACGCGAATTTGTAAATCGC
1 GTTGCGAATTTGTAAATCAC
***
2176086 AACGCGAATTTGTAAATCAC
1 GTTGCGAATTTGTAAATCAC
* *
2176106 GTTGCGAATTTGGAAATCGC
1 GTTGCGAATTTGTAAATCAC
2176126 GTTGCGAATTTG
1 GTTGCGAATTTG
2176138 ACTTATGTGT
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
19 4 0.04
20 75 0.79
21 13 0.14
22 3 0.03
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (20 bp):
GTTGCGAATTTGTAAATCAC
Found at i:2176133 original size:40 final size:40
Alignment explanation
Indices: 2176005--2176137 Score: 117
Period size: 40 Copynumber: 3.3 Consensus size: 40
2175995 TAAAATTCGT
* * * *
2176005 GTTGCGAATTCGAAAATCGA-GTTGCGAATTT-GAAATTTAGT
1 GTTGCGAATTTGTAAATC-ACGTTGCGAATTTGGAAA--TCGC
* *** *
2176046 GTTGCGAATTTGTAAATCGCAACGCGAATTTGTAAATCGC
1 GTTGCGAATTTGTAAATCACGTTGCGAATTTGGAAATCGC
***
2176086 AACGCGAATTTGTAAATCACGTTGCGAATTTGGAAATCGC
1 GTTGCGAATTTGTAAATCACGTTGCGAATTTGGAAATCGC
2176126 GTTGCGAATTTG
1 GTTGCGAATTTG
2176138 ACTTATGTGT
Statistics
Matches: 70, Mismatches: 20, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
40 43 0.61
41 24 0.34
42 3 0.04
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (40 bp):
GTTGCGAATTTGTAAATCACGTTGCGAATTTGGAAATCGC
Found at i:2176169 original size:20 final size:20
Alignment explanation
Indices: 2176146--2176215 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
2176136 TGACTTATGT
*
2176146 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAAATTCGC
*
2176166 GTTGCGATTTCCAAATTCGC
1 GTTGCGATTTACAAATTCGC
*** *
2176186 AACGTGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
*
2176206 GTTGCAATTT
1 GTTGCGATTT
2176216 GGAAACTGAG
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:2176675 original size:37 final size:38
Alignment explanation
Indices: 2176597--2176675 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
2176587 AACAAGTTAG
* *
2176597 AAAATATTTATATATTTTATTTAAAAATTTAAATTCAT
1 AAAATATTTATATATTTTATTTAAAAATTAAAAATCAT
2176635 AAAAT-TTATATATATTTT-TTTACAAAATTAAAAAT-AT
1 AAAATATT-TATATATTTTATTTA-AAAATTAAAAATCAT
2176672 AAAA
1 AAAA
2176676 ATGTTTAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
37 12 0.32
38 25 0.68
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (38 bp):
AAAATATTTATATATTTTATTTAAAAATTAAAAATCAT
Found at i:2177818 original size:96 final size:100
Alignment explanation
Indices: 2177705--2177897 Score: 277
Period size: 96 Copynumber: 2.0 Consensus size: 100
2177695 ATTTTATTAG
2177705 ATAAACTGACAAATAAAATCCACCAATTTAACTAATTAG-AAAA-AAA-TAACTCAATCTAATAC
1 ATAAACTGACAAATAAAATCCACCAATTTAACTAATTAGTAAAAGAAATTAACTCAATCTAATAC
* *
2177767 TCACTTCTAGTTA-CAAGCTGATTAAAACCATAAT
66 TCACTTCTAATTACCAAGATGATTAAAACCATAAT
* * ** **
2177801 ATAAATTGATAAATAAAATCCATTAATTTAACTAATTAGTAAAAGAAATTAACTTGATCTAATAC
1 ATAAACTGACAAATAAAATCCACCAATTTAACTAATTAGTAAAAGAAATTAACTCAATCTAATAC
*
2177866 TCACTTCTAATTACCAATATGATTAAAACCAT
66 TCACTTCTAATTACCAAGATGATTAAAACCAT
2177898 TAAAAATCAT
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
96 35 0.42
97 4 0.05
98 3 0.04
99 26 0.31
100 16 0.19
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.31
Consensus pattern (100 bp):
ATAAACTGACAAATAAAATCCACCAATTTAACTAATTAGTAAAAGAAATTAACTCAATCTAATAC
TCACTTCTAATTACCAAGATGATTAAAACCATAAT
Found at i:2178315 original size:16 final size:16
Alignment explanation
Indices: 2178294--2178325 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2178284 GTCCTCCAAT
2178294 GGGACAACCTTAAACC
1 GGGACAACCTTAAACC
2178310 GGGACAACCTTAAACC
1 GGGACAACCTTAAACC
2178326 AAAATCAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.19, T:0.12
Consensus pattern (16 bp):
GGGACAACCTTAAACC
Found at i:2180013 original size:15 final size:17
Alignment explanation
Indices: 2179988--2180020 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2179978 TATTGTTATC
2179988 GTCTCATTTTA-CAACA
1 GTCTCATTTTACCAACA
2180004 GTCT-ATTTTACCAACA
1 GTCTCATTTTACCAACA
2180020 G
1 G
2180021 ACATAAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (17 bp):
GTCTCATTTTACCAACA
Found at i:2188719 original size:20 final size:20
Alignment explanation
Indices: 2188672--2188720 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
2188662 TCATCATTGA
*
2188672 ATTATTATT-ATTATTGTTAT
1 ATTATT-TTAATTATTATTAT
*
2188692 TTTATTTTAATTATTATTAT
1 ATTATTTTAATTATTATTAT
*
2188712 ATTCTTTTA
1 ATTATTTTA
2188721 CCCTGATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTATTTTAATTATTATTAT
Found at i:2190367 original size:60 final size:59
Alignment explanation
Indices: 2190244--2190386 Score: 157
Period size: 60 Copynumber: 2.4 Consensus size: 59
2190234 GTGTATACAT
* *
2190244 ATAGTTTGGGATGAAATTGGAAAGTTCAAAAAGTTTTGGGACCAATTTAGAATGAAGGCC
1 ATAGTTTGGGATGAAATT-GAAAGATCAAAAAGTTTTGGGACCAATTTAGAATCAAGGCC
* * * *
2190304 ATAGGTTGGAGATGAAATTGAAATGATC-AAAAG-TTTGAGGACTAATTTAGGATCATA-GTC
1 ATAGTTTGG-GATGAAATTGAAA-GATCAAAAAGTTTTG-GGACCAATTTAGAATCA-AGGCC
2190364 ATAGTTTAGGGATGAAATTGAAA
1 ATAGTTT-GGGATGAAATTGAAA
2190387 CATTTTAAAG
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
59 4 0.06
60 52 0.73
61 15 0.21
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.29
Consensus pattern (59 bp):
ATAGTTTGGGATGAAATTGAAAGATCAAAAAGTTTTGGGACCAATTTAGAATCAAGGCC
Found at i:2193329 original size:21 final size:20
Alignment explanation
Indices: 2193305--2193345 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
2193295 TTATTTAAAA
*
2193305 AATTAAAATAATAATATGAAT
1 AATTAAAAAAATAAT-TGAAT
2193326 AATTAAAAAAATAATTGAAT
1 AATTAAAAAAATAATTGAAT
2193346 TCGGAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
AATTAAAAAAATAATTGAAT
Found at i:2206932 original size:3 final size:3
Alignment explanation
Indices: 2206926--2206975 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
2206916 TTTTTTCATT
* *
2206926 TTA TTA TTA TTA TTA CTA TTA -TA TTA TTA TTA TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2206973 TTA
1 TTA
2206976 CAAACAGGCC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2208669 original size:19 final size:20
Alignment explanation
Indices: 2208630--2208683 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
2208620 TATTTATATT
*
2208630 TAAATTAATAAATTTTCAT-A
1 TAAATT-ATAAATTTTAATAA
2208650 -AAATTATAAATTTTAAATAA
1 TAAATTATAAATTTT-AATAA
2208670 TAATATTATAAATT
1 TAA-ATTATAAATT
2208684 AAATATGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 9 0.31
19 7 0.24
20 1 0.03
21 2 0.07
22 10 0.34
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAATTATAAATTTTAATAA
Found at i:2213481 original size:9 final size:9
Alignment explanation
Indices: 2213467--2213507 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
2213457 TTATACTTGA
2213467 AAAAAAAGG
1 AAAAAAAGG
2213476 AAAAAAAGG
1 AAAAAAAGG
*
2213485 -AAAAAGGG
1 AAAAAAAGG
2213493 AAAAAAAGG
1 AAAAAAAGG
2213502 AAAAAA
1 AAAAAA
2213508 TTAAACCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 7 0.24
9 22 0.76
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (9 bp):
AAAAAAAGG
Found at i:2213494 original size:17 final size:17
Alignment explanation
Indices: 2213468--2213507 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
2213458 TATACTTGAA
2213468 AAAAAAGGAAAAAAAGG
1 AAAAAAGGAAAAAAAGG
*
2213485 AAAAAGGGAAAAAAAGG
1 AAAAAAGGAAAAAAAGG
2213502 AAAAAA
1 AAAAAA
2213508 TTAAACCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAAAAGGAAAAAAAGG
Found at i:2214038 original size:32 final size:32
Alignment explanation
Indices: 2214001--2214062 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
2213991 GTCAGACACA
* *
2214001 AGAAGTATTTCTACGAGATGAGCATAACAACG
1 AGAAGTATCTCTACAAGATGAGCATAACAACG
2214033 AGAAGTATCTCTACAAGATGAGCATAACAA
1 AGAAGTATCTCTACAAGATGAGCATAACAA
2214063 TCATTTCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (32 bp):
AGAAGTATCTCTACAAGATGAGCATAACAACG
Found at i:2216742 original size:75 final size:75
Alignment explanation
Indices: 2216656--2216820 Score: 260
Period size: 75 Copynumber: 2.2 Consensus size: 75
2216646 GAAGCAAATG
* * *
2216656 TTGGGGTATGCTGAAAGCCCCTTTCAAACAGAATGAATAATG-TGCACGCATTTTGAACGCTTGT
1 TTGGGGCATGCTGAAAGCCCCTTTCAAACAGAATGAAGAATGTTG-ACACATTTTGAACGCTTGT
2216720 ATTAGCCAATA
65 ATTAGCCAATA
*
2216731 TTGGGGCATGCTGAAAGCCCCTTTCAATCAGAATGAAGAATGTTGACACATTTTGAACGCTTGTA
1 TTGGGGCATGCTGAAAGCCCCTTTCAAACAGAATGAAGAATGTTGACACATTTTGAACGCTTGTA
*
2216796 TTAGCCAATG
66 TTAGCCAATA
*
2216806 TTGGGGCATGTTGAA
1 TTGGGGCATGCTGAA
2216821 GGTCTGTATC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
75 81 0.98
76 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (75 bp):
TTGGGGCATGCTGAAAGCCCCTTTCAAACAGAATGAAGAATGTTGACACATTTTGAACGCTTGTA
TTAGCCAATA
Found at i:2218058 original size:22 final size:22
Alignment explanation
Indices: 2218032--2218086 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2218022 TACATCTACA
*
2218032 CTCTTCAAAGATGACAATTTCT
1 CTCTTCAAAGATGACAAATTCT
* *
2218054 CTCTTCAAATATGATAAATTCT
1 CTCTTCAAAGATGACAAATTCT
*
2218076 CTTTTCAAAGA
1 CTCTTCAAAGA
2218087 AGAAAGATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (22 bp):
CTCTTCAAAGATGACAAATTCT
Found at i:2218522 original size:113 final size:114
Alignment explanation
Indices: 2218284--2218670 Score: 394
Period size: 113 Copynumber: 3.4 Consensus size: 114
2218274 TGATCAAAGT
* * * **
2218284 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTCATCACTCGAT
1 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCACTCGAT
*
2218349 GGATCAACTTTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAA
66 GGATCAAATTTTCCAGAGAAGAGTTCATAATGAGAAGAACTCATCTGAA
* * *
2218397 GAATGAACAAGAAGTTCATAATGAGAAGAACTTGTTTAACTTTTTGTTTGAATTCATCACTCGAT
1 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCACTCGAT
* * * *
2218462 GGATCAAATTTTCCATAAAAGAGTTCATAATGA-ATATAACTTATCTGAA
66 GGATCAAATTTTCCAGAGAAGAGTTCATAATGAGA-AGAACTCATCTGAA
* * * * *
2218511 G-AGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAAC-CTTTGTTTG-ACTCTATCACACAA
1 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTC-ATCACTC--
* *
2218573 GGAGATAGATCAATATCAACATTTCC--AGAAGTGTTCATAATGAGAAGAACTCATCTGAA
63 ---GATGGATCAA-AT-----TTTCCAGAGAAGAGTTCATAATGAGAAGAACTCATCTGAA
* * *
2218632 GAAGG-AGAATAAATTCATAATGAGAAGAATTTGTTCAAC
1 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
2218671 CTTGCCTTAA
Statistics
Matches: 229, Mismatches: 29, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
111 3 0.01
112 14 0.06
113 108 0.47
114 25 0.11
117 9 0.04
118 2 0.01
121 59 0.26
122 4 0.02
123 5 0.02
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (114 bp):
GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCACTCGAT
GGATCAAATTTTCCAGAGAAGAGTTCATAATGAGAAGAACTCATCTGAA
Found at i:2219091 original size:114 final size:113
Alignment explanation
Indices: 2218735--2219114 Score: 543
Period size: 113 Copynumber: 3.4 Consensus size: 113
2218725 CAGCATTTCT
* * *
2218735 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTT-AATTCATCACCCGATGGATT
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTG-TTTGAATTCATCACTCGATGGATC
* * *
2218799 AGCATTGCCAGAGAA-AGTTCATAATGAGAAGGACTTATCTGAAGAAGGA
65 A-AATTACCAGAGAAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
* * *
2218848 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-TATTTTGTTTGAATTCATCATTTGATAGATC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACT-TTTTGTTTGAATTCATCACTCGATGGATC
* *
2218912 AACATTACCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
65 AA-ATTACCAGAGAAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
* *
2218961 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCACTCGATGGATCA
* *
2219026 AATTTTCCAGAGAAGAGTTCATAATGAGAAGAACTTATATGAAGAAGGA
66 AA-TTACCAGAGAAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
*
2219075 AGAAGAAGTTCATAATGAGAAGAACTTATTCAACTTTTTG
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTG
2219115 CTATATTGCA
Statistics
Matches: 237, Mismatches: 23, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
112 6 0.03
113 158 0.67
114 73 0.31
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (113 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCACTCGATGGATCA
AATTACCAGAGAAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
Found at i:2219181 original size:192 final size:192
Alignment explanation
Indices: 2218963--2219331 Score: 704
Period size: 192 Copynumber: 1.9 Consensus size: 192
2218953 AAGAAGGAAG
2218963 AAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCGATGGATCAAA
1 AAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCGATGGATCAAA
2219028 TTTTCCAGAGAAGAGTTCATAATGAGAAGAACTTATATGAAGAAGGAAGAAGAAGTTCATAATGA
66 TTTTCCAGAGAAGAGTTCATAATGAGAAGAACTTATATGAAGAAGGAAGAAGAAGTTCATAATGA
2219093 GAAGAACTTATTCAACTTTTTGCTATATTGCATCACAGA-ATGAGATAAATTGTCATCCCCAT
131 GAAGAACTTATTCAACTTTTTGCTATATTGCATCACAGAGA-GAGATAAATTGTCATCCCCAT
2219155 AAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCGATGGATCAAA
1 AAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCGATGGATCAAA
*
2219220 TTTTCCAGAGAAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGA
66 TTTTCCAGAGAAGAGTTCATAATGAGAAGAACTTATATGAAGAAGGAAGAAGAAGTTCATAATGA
*
2219285 GAATAACTTATTCAACTTTTTGCTATATTGCATCACAGAGAGAGATA
131 GAAGAACTTATTCAACTTTTTGCTATATTGCATCACAGAGAGAGATA
2219332 GTCAAATGAA
Statistics
Matches: 174, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
192 173 0.99
193 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (192 bp):
AAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCGATGGATCAAA
TTTTCCAGAGAAGAGTTCATAATGAGAAGAACTTATATGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAACTTATTCAACTTTTTGCTATATTGCATCACAGAGAGAGATAAATTGTCATCCCCAT
Found at i:2219439 original size:3 final size:3
Alignment explanation
Indices: 2219433--2219482 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
2219423 TTTTTTCATT
*
2219433 TTA TTA TTA TTA TTA CTT- TTA -TA TTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2219477 TTA TTA
1 TTA TTA
2219483 CAAACAGGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 36 0.86
4 2 0.05
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2222891 original size:22 final size:22
Alignment explanation
Indices: 2222827--2222891 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
2222817 ATTTAAATCT
* *
2222827 TAAATAAAATTTATATATCATTGA
1 TAAATTAAATTTATA-AT-TTTGA
* ** *
2222851 TAAATTAAATATACCATTTTTA
1 TAAATTAAATTTATAATTTTGA
2222873 TAAATTAAATTTATAATTT
1 TAAATTAAATTTATAATTT
2222892 GAGACATGTA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 19 0.59
23 2 0.06
24 11 0.34
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (22 bp):
TAAATTAAATTTATAATTTTGA
Found at i:2223097 original size:29 final size:26
Alignment explanation
Indices: 2223050--2223129 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 26
2223040 TTAGGTGGTA
2223050 TATTTTTTATATCATTAAAATTTTTAAT
1 TATTTTTTATATCATT-AAA-TTTTAAT
2223078 TATTTATTTATTAT-ATTAAATTTTAAT
1 TATTT-TTTA-TATCATTAAATTTTAAT
** *
2223105 T-TTAATTATATCATTGAATTATTAA
1 TATTTTTTATATCATTAAATT-TTAA
2223130 ATTTGAATGA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 3 0.07
25 10 0.22
26 6 0.13
27 8 0.18
28 8 0.18
29 7 0.16
30 3 0.07
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.59
Consensus pattern (26 bp):
TATTTTTTATATCATTAAATTTTAAT
Found at i:2227318 original size:85 final size:85
Alignment explanation
Indices: 2227140--2227307 Score: 221
Period size: 85 Copynumber: 2.0 Consensus size: 85
2227130 TAATATTTTA
* * *
2227140 AATATTATATTTTATCTTTGTTTTAGATATTTTAGTTTAAATAGAGATTATTATTTCAATTACGA
1 AATATTTTATTTTATATTTGTTTTAGATATTTTAGTTTAAATAGAGATTAGTATTTCAATTACGA
*
2227205 TTTAGGATATTATTTTAAAT
66 TTTAAGATATTATTTTAAAT
* ** * *
2227225 AATATTTTATTTTATATTTGTTTTAGGTATTTTAGTTTAAATAG-TTTTAAGTATTTTAATTAGG
1 AATATTTTATTTTATATTTGTTTTAGATATTTTAGTTTAAATAGAGATT-AGTATTTCAATTACG
*
2227289 ATTTAAGATTTTATCTTTA
65 ATTTAAGATATTAT-TTTA
2227308 GCTTGTTTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
84 2 0.03
85 65 0.92
86 4 0.06
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.55
Consensus pattern (85 bp):
AATATTTTATTTTATATTTGTTTTAGATATTTTAGTTTAAATAGAGATTAGTATTTCAATTACGA
TTTAAGATATTATTTTAAAT
Found at i:2228038 original size:32 final size:30
Alignment explanation
Indices: 2227987--2228072 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 30
2227977 TTTACTACTA
2227987 TTATTTATTATT-TTA--TTATTTTTCCCTT
1 TTATTTATTATTATTATTTTATTTTT-CCTT
*
2228015 TTATTTATTATTACTTATTTTATTTTTCTTT
1 TTATTTATTATTA-TTATTTTATTTTTCCTT
* *
2228046 TTAAATTATAATTATTTATTTTATTTT
1 TT-ATTTATTATTA-TTATTTTATTTT
2228073 ATGCCAAACT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 12 0.24
30 3 0.06
31 5 0.10
32 29 0.59
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (30 bp):
TTATTTATTATTATTATTTTATTTTTCCTT
Found at i:2230826 original size:166 final size:166
Alignment explanation
Indices: 2230552--2230883 Score: 664
Period size: 166 Copynumber: 2.0 Consensus size: 166
2230542 TTTCATTACA
2230552 TATGTGAATGATGTCAAAACCTTTCCTGCATTAATGACAAATAAGATTTATTTTAGAAAAGGAAA
1 TATGTGAATGATGTCAAAACCTTTCCTGCATTAATGACAAATAAGATTTATTTTAGAAAAGGAAA
2230617 AGAATAAAAAAACTTGAAAGACAATTTAAAAAAGAGAAAATAACCTCAGTGACTAAAAATCTCAT
66 AGAATAAAAAAACTTGAAAGACAATTTAAAAAAGAGAAAATAACCTCAGTGACTAAAAATCTCAT
2230682 ATAATATACGATTTTAACCAACTTTTTCCGGATTTG
131 ATAATATACGATTTTAACCAACTTTTTCCGGATTTG
2230718 TATGTGAATGATGTCAAAACCTTTCCTGCATTAATGACAAATAAGATTTATTTTAGAAAAGGAAA
1 TATGTGAATGATGTCAAAACCTTTCCTGCATTAATGACAAATAAGATTTATTTTAGAAAAGGAAA
2230783 AGAATAAAAAAACTTGAAAGACAATTTAAAAAAGAGAAAATAACCTCAGTGACTAAAAATCTCAT
66 AGAATAAAAAAACTTGAAAGACAATTTAAAAAAGAGAAAATAACCTCAGTGACTAAAAATCTCAT
2230848 ATAATATACGATTTTAACCAACTTTTTCCGGATTTG
131 ATAATATACGATTTTAACCAACTTTTTCCGGATTTG
2230884 CCAAAATGAC
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
166 166 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.30
Consensus pattern (166 bp):
TATGTGAATGATGTCAAAACCTTTCCTGCATTAATGACAAATAAGATTTATTTTAGAAAAGGAAA
AGAATAAAAAAACTTGAAAGACAATTTAAAAAAGAGAAAATAACCTCAGTGACTAAAAATCTCAT
ATAATATACGATTTTAACCAACTTTTTCCGGATTTG
Found at i:2231011 original size:21 final size:21
Alignment explanation
Indices: 2230981--2231054 Score: 114
Period size: 21 Copynumber: 3.5 Consensus size: 21
2230971 ATTATTACTA
2230981 TCGCAATGCGATTTT-CCAATT
1 TCGCAATGCGATTTTCCCAA-T
*
2231002 TCGCATTGCGATTTTCCCAAT
1 TCGCAATGCGATTTTCCCAAT
*
2231023 TCGCATTGCGATTTTCCCAAT
1 TCGCAATGCGATTTTCCCAAT
2231044 TCGCAATGCGA
1 TCGCAATGCGA
2231055 ATAAGTAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
21 46 0.92
22 4 0.08
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCCAAT
Found at i:2231108 original size:20 final size:21
Alignment explanation
Indices: 2230981--2231156 Score: 85
Period size: 21 Copynumber: 8.5 Consensus size: 21
2230971 ATTATTACTA
* *
2230981 TCGCAATGCGATTTTCCA-ATT
1 TCGCAATGCGA-TTTACATAAT
* * **
2231002 TCGCATTGCGATTTTCCCAAT
1 TCGCAATGCGATTTACATAAT
* * **
2231023 TCGCATTGCGATTTTCCCAAT
1 TCGCAATGCGATTTACATAAT
* *
2231044 TCGCAATGCGA-ATA-AGTAAA
1 TCGCAATGCGATTTACA-TAAT
* * *
2231064 TCGCAACGCGATAATACA-AAA
1 TCGCAATGCGAT-TTACATAAT
2231085 TCGCAATGCGATTTACAT-AT
1 TCGCAATGCGATTTACATAAT
** *
2231105 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTACATAAT
* * * *
2231126 TCGTAATGCGA-ATACGTAAA
1 TCGCAATGCGATTTACATAAT
2231146 TCGCAATGCGA
1 TCGCAATGCGA
2231157 ATTAGGAAAA
Statistics
Matches: 123, Mismatches: 25, Indels: 15
0.75 0.15 0.09
Matches are distributed among these distances:
20 52 0.42
21 67 0.54
22 3 0.02
23 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (21 bp):
TCGCAATGCGATTTACATAAT
Found at i:2231134 original size:82 final size:82
Alignment explanation
Indices: 2231021--2231174 Score: 220
Period size: 82 Copynumber: 1.9 Consensus size: 82
2231011 GATTTTCCCA
*
2231021 ATTCGCATTGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAACGCGATAATA-CAAAA
1 ATTCGCATTGCGATTTTCACAATTCGCAATGCGAATAAGTAAATCGCAACGCGA-AATAGCAAAA
2231085 TCGCAATGCGATTTACAT
65 TCGCAATGCGATTTACAT
* * * * * * *
2231103 ATTCGCGTTGCGATTTTCATAATTCGTAATGCGAATACGTAAATCGCAATGCGAATTAGGAAAAT
1 ATTCGCATTGCGATTTTCACAATTCGCAATGCGAATAAGTAAATCGCAACGCGAAATAGCAAAAT
2231168 CGCAATG
66 CGCAATG
2231175 AGAATCTGAC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 3 0.05
82 60 0.95
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (82 bp):
ATTCGCATTGCGATTTTCACAATTCGCAATGCGAATAAGTAAATCGCAACGCGAAATAGCAAAAT
CGCAATGCGATTTACAT
Found at i:2231156 original size:41 final size:40
Alignment explanation
Indices: 2230980--2231156 Score: 113
Period size: 41 Copynumber: 4.3 Consensus size: 40
2230970 GATTATTACT
* * * * **
2230980 ATCGCAATGCGATTTTCCAATTTCGCATTGCGATTTTCCCAA
1 ATCGCAATGCGATTTT-CAAATTCGCAATGCGA-ATACGTAA
* * * *
2231022 TTCGCATTGCGATTTTCCCAATTCGCAATGCGAATAAGTAA
1 ATCGCAATGCGATTTT-CAAATTCGCAATGCGAATACGTAA
* * * * * *
2231063 ATCGCAACGCGATAATACAAAATCGCAATGCGATTTACAT-A
1 ATCGCAATGCGAT-TTTCAAATTCGCAATGCGA-ATACGTAA
* ** *
2231104 TTCGCGTTGCGATTTTCATAATTCGTAATGCGAATACGTAA
1 ATCGCAATGCGATTTTCA-AATTCGCAATGCGAATACGTAA
2231145 ATCGCAATGCGA
1 ATCGCAATGCGA
2231157 ATTAGGAAAA
Statistics
Matches: 98, Mismatches: 33, Indels: 9
0.70 0.24 0.06
Matches are distributed among these distances:
40 7 0.07
41 59 0.60
42 32 0.33
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (40 bp):
ATCGCAATGCGATTTTCAAATTCGCAATGCGAATACGTAA
Found at i:2231169 original size:21 final size:21
Alignment explanation
Indices: 2231044--2231179 Score: 75
Period size: 20 Copynumber: 6.6 Consensus size: 21
2231034 TTTTCCCAAT
* *
2231044 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTACGAAAA
* *
2231064 TCGCAACGCGATAATAC-AAAA
1 TCGCAATGCGA-ATTACGAAAA
* * *
2231085 TCGCAATGCGATTTAC-ATAT
1 TCGCAATGCGAATTACGAAAA
** * * *
2231105 TCGCGTTGCGATTTTC-ATAAT
1 TCGCAATGCGAATTACGA-AAA
* *
2231126 TCGTAATGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
2231146 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
*
2231167 TCGCAATGAGAAT
1 TCGCAATGCGAAT
2231180 CTGACTATCG
Statistics
Matches: 88, Mismatches: 23, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
20 44 0.50
21 42 0.48
22 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.26
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:2231197 original size:82 final size:82
Alignment explanation
Indices: 2231021--2231205 Score: 214
Period size: 82 Copynumber: 2.3 Consensus size: 82
2231011 GATTTTCCCA
**
2231021 ATTCGCATTGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAACGCGATAATACAAAAT
1 ATTCGCATTGCGATTTTCATAATTCGCAATGCGAATAAGTAAATCGCAACGCGATAATACAAAAT
* *
2231086 CGCAATGCGATTTACAT
66 CGCAATGAGATTGACAT
* * * * * *
2231103 ATTCGCGTTGCGATTTTCATAATTCGTAATGCGAATACGTAAATCGCAATGCGA-ATTAGGAAAA
1 ATTCGCATTGCGATTTTCATAATTCGCAATGCGAATAAGTAAATCGCAACGCGATAATA-CAAAA
2231167 TCGCAATGAGAATCTGAC-T
65 TCGCAATGAG-AT-TGACAT
* *
2231186 A-TCGCAATGCGATTTACATA
1 ATTCGCATTGCGATTTTCATA
2231206 GCGCCATTCG
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
81 3 0.03
82 77 0.89
83 4 0.05
84 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (82 bp):
ATTCGCATTGCGATTTTCATAATTCGCAATGCGAATAAGTAAATCGCAACGCGATAATACAAAAT
CGCAATGAGATTGACAT
Found at i:2231785 original size:19 final size:19
Alignment explanation
Indices: 2231725--2231811 Score: 102
Period size: 19 Copynumber: 4.5 Consensus size: 19
2231715 TTCGAGAATA
*
2231725 AAAATCGCAACGCGGAAATG
1 AAAATCGCAACG-AGAAATG
**
2231745 ACTATCGCAACGAGAGAATG
1 AAAATCGCAACGAGA-AATG
*
2231765 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGAGAAATG
**
2231784 AAAATCGCAACGAGAAACC
1 AAAATCGCAACGAGAAATG
2231803 AAAATCGCA
1 AAAATCGCA
2231812 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
19 31 0.54
20 26 0.46
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGAGAAATG
Found at i:2231793 original size:39 final size:40
Alignment explanation
Indices: 2231718--2231811 Score: 129
Period size: 39 Copynumber: 2.4 Consensus size: 40
2231708 TAATAGTTTC
**
2231718 GAGAATAAAAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATAAAAATCGCAACGCGGAAATGAAAATCGCAACGA
*
2231758 GAGAATGAAAATCGCAACGC-GAAATGAAAATCGCAACGA
1 GAGAATAAAAATCGCAACGCGGAAATGAAAATCGCAACGA
**
2231797 GA-AACCAAAATCGCA
1 GAGAATAAAAATCGCA
2231812 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
38 11 0.22
39 19 0.39
40 19 0.39
ACGTcount: A:0.48, C:0.20, G:0.21, T:0.11
Consensus pattern (40 bp):
GAGAATAAAAATCGCAACGCGGAAATGAAAATCGCAACGA
Found at i:2232415 original size:21 final size:22
Alignment explanation
Indices: 2232391--2232433 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
2232381 AATTTCTATA
2232391 TAATGATTTCAA-AATTA-TAAT
1 TAATGATTT-AACAATTACTAAT
*
2232412 TAATTATTTAACAATTACTAAT
1 TAATGATTTAACAATTACTAAT
2232434 GTTTGTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 13 0.68
22 4 0.21
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (22 bp):
TAATGATTTAACAATTACTAAT
Found at i:2233395 original size:94 final size:94
Alignment explanation
Indices: 2233234--2233448 Score: 376
Period size: 94 Copynumber: 2.3 Consensus size: 94
2233224 TAGATTGCTT
* * * *
2233234 AGTAAATTTATTCGGTTGCTGCTAATTCTGCTAAACTGTGTGTTCTTTATCACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2233299 ATTTGTCTTTGATTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGATTTGTCTTTTGGTTGAA
2233328 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
2233393 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGATTTGTCTTTTGGTTGAA
*
2233422 AGTAAATTTGTTCGTTTGCTGCCAATT
1 AGTAAATTTGTTCGGTTGCTGCCAATT
2233449 GAAACTATTC
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 115 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.47
Consensus pattern (94 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGATTTGTCTTTTGGTTGAA
Found at i:2233810 original size:21 final size:21
Alignment explanation
Indices: 2233786--2233852 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2233776 TCATTCCTCG
2233786 AGAGTCCCTTCCCACCGTTCA
1 AGAGTCCCTTCCCACCGTTCA
* * ** * *
2233807 AGAGGCCATTGTCATCGTTGA
1 AGAGTCCCTTCCCACCGTTCA
*
2233828 AGAGGTCCC-TCCCACCATTCA
1 AGA-GTCCCTTCCCACCGTTCA
2233849 AGAG
1 AGAG
2233853 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.88
22 3 0.09
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (21 bp):
AGAGTCCCTTCCCACCGTTCA
Found at i:2235417 original size:33 final size:33
Alignment explanation
Indices: 2235378--2235506 Score: 181
Period size: 33 Copynumber: 3.9 Consensus size: 33
2235368 ATGCGAAATG
* *
2235378 AAAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AAAATCGCAACGCGAAATGAAAATCGCAACGAC
*
2235411 AGAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAATGAAAATCGCAACGAC
* *
2235444 AAAATTGCAACGCGAAATGAATATCGCAACGAC
1 AAAATCGCAACGCGAAATGAAAATCGCAACGAC
*
2235477 AAAATTGCAACGCGAAACT--AAATCGCAACG
1 AAAATCGCAACGCGAAA-TGAAAATCGCAACG
2235507 CGAAACTAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
32 10 0.11
33 77 0.88
34 1 0.01
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
AAAATCGCAACGCGAAATGAAAATCGCAACGAC
Found at i:2235440 original size:19 final size:19
Alignment explanation
Indices: 2235361--2235521 Score: 106
Period size: 19 Copynumber: 9.3 Consensus size: 19
2235351 GCAACGATAG
*
2235361 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
2235380 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
2235399 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
2235413 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
2235432 AATCGCAA--CG--A-CAA
1 AATCGCAACGCGAAATGAA
*
2235446 AATTGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
2235465 TATCGCAA--CG--A-CAA
1 AATCGCAACGCGAAATGAA
*
2235479 AATTGCAACGCGAAACT--A
1 AATCGCAACGCGAAA-TGAA
2235497 AATCGCAACGCGAAACT-AA
1 AATCGCAACGCGAAA-TGAA
2235516 AATCGC
1 AATCGC
2235522 GTTGCGATTT
Statistics
Matches: 114, Mismatches: 11, Indels: 34
0.72 0.07 0.21
Matches are distributed among these distances:
14 27 0.24
15 3 0.03
16 6 0.05
17 6 0.05
18 20 0.18
19 52 0.46
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:2235528 original size:19 final size:18
Alignment explanation
Indices: 2235478--2235521 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
2235468 CGCAACGACA
*
2235478 AAATTGCAACGCGAAACT
1 AAATCGCAACGCGAAACT
2235496 AAATCGCAACGCGAAACT
1 AAATCGCAACGCGAAACT
2235514 AAAATCGC
1 -AAATCGC
2235522 GTTGCGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.45, C:0.25, G:0.16, T:0.14
Consensus pattern (18 bp):
AAATCGCAACGCGAAACT
Found at i:2235540 original size:19 final size:19
Alignment explanation
Indices: 2235518--2235647 Score: 83
Period size: 19 Copynumber: 7.6 Consensus size: 19
2235508 GAAACTAAAA
2235518 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
2235537 TCGCTTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
2235551 CCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
2235570 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2235584 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
2235603 TCGCATTGCGA--TTC-TA
1 TCGCGTTGCGATTTTCATT
2235619 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
2235636 TCGCATTGCGAT
1 TCGCGTTGCGAT
2235648 GGTCAATGAT
Statistics
Matches: 81, Mismatches: 15, Indels: 30
0.64 0.12 0.24
Matches are distributed among these distances:
14 24 0.30
16 11 0.14
17 11 0.14
19 35 0.43
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Done.