Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 38
Found at i:5442238 original size:63 final size:63
Alignment explanation
Indices: 5442137--5442329 Score: 269
Period size: 63 Copynumber: 3.0 Consensus size: 63
5442127 CCTTGCAAAA
* * * *
5442137 AAAAAAACCATGGTTAGTTTACATTAAATACTTCTGACAATATTTCATTTACATCAACAAAAAT
1 AAAAAAA-CAGGGTTAGTTTACATTAAATGCTTCTGACAATATATCATTTACATCAACAACAAT
* ** * *
5442201 AAAAAAATAGGGTTAGTTTACACGAAATGCTTATGACAATATATCATTTACATCAACAGCAAT
1 AAAAAAACAGGGTTAGTTTACATTAAATGCTTCTGACAATATATCATTTACATCAACAACAAT
* * *
5442264 AAAAAACCAGGGTTAGTTTACATTAAATGCTTCTGATAGTATATCATTTACATCAACAACAAT
1 AAAAAAACAGGGTTAGTTTACATTAAATGCTTCTGACAATATATCATTTACATCAACAACAAT
5442327 AAA
1 AAA
5442330 CCCGTATATA
Statistics
Matches: 112, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
63 105 0.94
64 7 0.06
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.31
Consensus pattern (63 bp):
AAAAAAACAGGGTTAGTTTACATTAAATGCTTCTGACAATATATCATTTACATCAACAACAAT
Found at i:5442341 original size:2 final size:2
Alignment explanation
Indices: 5442334--5442380 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
5442324 AATAAACCCG
5442334 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5442376 TA TA T
1 TA TA T
5442381 CAAGCATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5442624 original size:18 final size:18
Alignment explanation
Indices: 5442601--5442724 Score: 81
Period size: 18 Copynumber: 6.9 Consensus size: 18
5442591 TTTCGAATAT
5442601 TTTGGGTTTAGGTTAGGG
1 TTTGGGTTTAGGTTAGGG
**
5442619 TTTGGGTTTAGGTTTTGG
1 TTTGGGTTTAGGTTAGGG
* * **
5442637 TTTAGGTTTGGGTCCGGG
1 TTTGGGTTTAGGTTAGGG
* * * *
5442655 TTCGAG-TTCGGTTTGGG
1 TTTGGGTTTAGGTTAGGG
* *
5442672 TTTGGGATCAGGTTCA-GG
1 TTTGGGTTTAGGTT-AGGG
* *
5442690 TTTGTGTTTGGGTTAGGG
1 TTTGGGTTTAGGTTAGGG
*
5442708 TTTGAGTTTAGGGTTAG
1 TTTGGGTTTA-GGTTAG
5442725 AAAAGATAAA
Statistics
Matches: 78, Mismatches: 24, Indels: 7
0.72 0.22 0.06
Matches are distributed among these distances:
17 13 0.17
18 59 0.76
19 6 0.08
ACGTcount: A:0.10, C:0.05, G:0.41, T:0.44
Consensus pattern (18 bp):
TTTGGGTTTAGGTTAGGG
Found at i:5442627 original size:6 final size:6
Alignment explanation
Indices: 5442601--5442722 Score: 66
Period size: 6 Copynumber: 20.3 Consensus size: 6
5442591 TTTCGAATAT
* * * * *
5442601 TTTGGG TTTAGG TTAGGG TTTGGG TTTAGG TTTTGG TTTAGG TTTGGG
1 TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG
** * * * * ** ** *
5442649 TCCGGG TTCGAG -TTCGG TTTGGG TTTGGG ATCAGG TTCAGG TTTGTG
1 TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG
* *
5442696 TTTGGG TTAGGG TTTGAG TTTAGGG TT
1 TTTGGG TTTGGG TTTGGG TTT-GGG TT
5442723 AGAAAAGATA
Statistics
Matches: 86, Mismatches: 28, Indels: 3
0.74 0.24 0.03
Matches are distributed among these distances:
5 2 0.02
6 80 0.93
7 4 0.05
ACGTcount: A:0.09, C:0.05, G:0.41, T:0.45
Consensus pattern (6 bp):
TTTGGG
Found at i:5442685 original size:29 final size:29
Alignment explanation
Indices: 5442635--5442708 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 29
5442625 TTTAGGTTTT
* *
5442635 GGTTTAGGTTTGGGTCCGGGTTC-GAGTTC
1 GGTTTGGGTTTGGGTCCAGGTTCAG-GTTC
*
5442664 GGTTTGGGTTTGGGAT-CAGGTTCAGGTTT
1 GGTTTGGGTTTGGG-TCCAGGTTCAGGTTC
*
5442693 GTGTTTGGGTTAGGGT
1 G-GTTTGGGTTTGGGT
5442709 TTGAGTTTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
29 24 0.63
30 14 0.37
ACGTcount: A:0.08, C:0.08, G:0.43, T:0.41
Consensus pattern (29 bp):
GGTTTGGGTTTGGGTCCAGGTTCAGGTTC
Found at i:5442999 original size:113 final size:113
Alignment explanation
Indices: 5442857--5443215 Score: 434
Period size: 113 Copynumber: 3.1 Consensus size: 113
5442847 ATGAACAATG
5442857 GATGAAT-TTGTGGGTGTTTGATCGAAAAAAACACGAAATTGTTTGGGTTTCAGTGTTTTTGAAG
1 GATGAATATT-TGGGTGTTTGATCGAAAAAAACACGAAATTGTTTGGGTTTC-GTGTTTTTGAAG
* **
5442921 ATCAAAGGAGGGTTTTGGGGAAGAACTGGGATGAAC-AAGGATTAACACA
64 ATCAAATGAGGGTTTTGGGGAAGAACTGGGATGAACAAAGGAAGAACACA
* * * * ** *
5442970 GATGAATATTTGGGTGTTTGATAGTAAAAAACACGAAATGGTATATGTTTCGATGTTTTTGAATA
1 GATGAATATTTGGGTGTTTGATCGAAAAAAACACGAAATTGTTTGGGTTTCG-TGTTTTTGAAGA
* *
5443035 TCAAATGAGGGTTTTGGGGAAGAACTGAGATGAACAAAAGAAGAACACGAAAGAAAACA
65 TCAAATGAGGGTTTTGGGGAAGAACTGGGATGAAC---A-AAG-----G-AAGAACACA
* *
5443094 GATGAATATTTGGGTGTTTGATCGAAAAAAAATACGAAATTGTTTGGGTTTTTGTGTTTTTGAAG
1 GATGAATATTTGGGTGTTTGATCG-AAAAAAACACGAAATTGTTTGGG-TTTCGTGTTTTTGAAG
*
5443159 ATCAAATGAGGGTTTTGGGGAAGAACTGGGATGAACAAATGAAGAACACA
64 ATCAAATGAGGGTTTTGGGGAAGAACTGGGATGAACAAAGGAAGAACACA
5443209 GATGAAT
1 GATGAAT
5443216 TTCTAGAGAG
Statistics
Matches: 207, Mismatches: 24, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
112 1 0.00
113 86 0.42
114 2 0.01
115 15 0.07
116 1 0.00
118 3 0.01
121 2 0.01
122 1 0.00
123 1 0.00
124 29 0.14
125 62 0.30
126 4 0.02
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.29
Consensus pattern (113 bp):
GATGAATATTTGGGTGTTTGATCGAAAAAAACACGAAATTGTTTGGGTTTCGTGTTTTTGAAGAT
CAAATGAGGGTTTTGGGGAAGAACTGGGATGAACAAAGGAAGAACACA
Found at i:5443123 original size:124 final size:125
Alignment explanation
Indices: 5442967--5443207 Score: 360
Period size: 125 Copynumber: 1.9 Consensus size: 125
5442957 AAGGATTAAC
* *
5442967 ACAGATGAATATTTGGGTGTTTGATAG-TAAAAAACACGAAATGGTATATG-TTTCGATGTTTTT
1 ACAGATGAATATTTGGGTGTTTGATAGAAAAAAAACACGAAATGGTATAGGTTTTCG-TGTTTTT
*
5443030 GAATATCAAATGAGGGTTTTGGGGAAGAACTGAGATGAACAAAAGAAGAACACGAAAGAAA
65 GAAGATCAAATGAGGGTTTTGGGGAAGAACTGAGATGAACAAAAGAAGAACACGAAAGAAA
* * * * * *
5443091 ACAGATGAATATTTGGGTGTTTGATCGAAAAAAAATACGAAATTGTTTGGGTTTTTGTGTTTTTG
1 ACAGATGAATATTTGGGTGTTTGATAGAAAAAAAACACGAAATGGTATAGGTTTTCGTGTTTTTG
* *
5443156 AAGATCAAATGAGGGTTTTGGGGAAGAACTGGGATGAACAAATGAAGAACAC
66 AAGATCAAATGAGGGTTTTGGGGAAGAACTGAGATGAACAAAAGAAGAACAC
5443208 AGATGAATTT
Statistics
Matches: 104, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
124 26 0.25
125 74 0.71
126 4 0.04
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (125 bp):
ACAGATGAATATTTGGGTGTTTGATAGAAAAAAAACACGAAATGGTATAGGTTTTCGTGTTTTTG
AAGATCAAATGAGGGTTTTGGGGAAGAACTGAGATGAACAAAAGAAGAACACGAAAGAAA
Found at i:5443491 original size:61 final size:61
Alignment explanation
Indices: 5443408--5443544 Score: 186
Period size: 61 Copynumber: 2.2 Consensus size: 61
5443398 TCCTAGTTTT
* * *
5443408 AAATTTGTTCAATTTAGTCCAAATTTAATGA-TGCAATATATTAATTTAAGCTTAATATTTC
1 AAATTTGTTCAATTTACTCCAAATTTAAT-ATTACAATATATTAATTTAAGCTTAATATTTA
* * * * *
5443469 AACTTTTTTCAATTTACTCCAAATTTAATATTACAGTTTATTAATTTAAGCTTCATATTTA
1 AAATTTGTTCAATTTACTCCAAATTTAATATTACAATATATTAATTTAAGCTTAATATTTA
5443530 AAATTTGTTCAATTT
1 AAATTTGTTCAATTT
5443545 GATCCTTATA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 1 0.02
61 64 0.98
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (61 bp):
AAATTTGTTCAATTTACTCCAAATTTAATATTACAATATATTAATTTAAGCTTAATATTTA
Found at i:5443639 original size:33 final size:33
Alignment explanation
Indices: 5443601--5443747 Score: 159
Period size: 33 Copynumber: 4.7 Consensus size: 33
5443591 ATTAATAAAT
* *
5443601 TAATATATAGGTTATATATACTAATGAACT-TT
1 TAATATATAGTTTATATATACTAATGAACTATA
*
5443633 TCAATATATAGTTTATATATACTAATGCACTATA
1 T-AATATATAGTTTATATATACTAATGAACTATA
*
5443667 TAATATATAGTTTGTATATAC-------C-ATA
1 TAATATATAGTTTATATATACTAATGAACTATA
* *
5443692 TACTATATAGGTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
*
5443725 TAATATATAGTTTACATATACTA
1 TAATATATAGTTTATATATACTA
5443748 TATAGTTTAT
Statistics
Matches: 95, Mismatches: 10, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
25 21 0.22
26 1 0.01
32 2 0.02
33 69 0.73
34 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.42
Consensus pattern (33 bp):
TAATATATAGTTTATATATACTAATGAACTATA
Found at i:5443710 original size:18 final size:18
Alignment explanation
Indices: 5443689--5443975 Score: 189
Period size: 18 Copynumber: 16.6 Consensus size: 18
5443679 TGTATATACC
*
5443689 ATATACTATATAGGTTAT
1 ATATACTATATAGTTTAT
*
5443707 ATATACTA-AT-G--AACT
1 ATATACTATATAGTTTA-T
* *
5443722 ATATAATATATAGTTTAC
1 ATATACTATATAGTTTAT
5443740 ATATACTATATAGTTTAT
1 ATATACTATATAGTTTAT
*
5443758 ATATACTA-AT-G--AACT
1 ATATACTATATAGTTTA-T
*
5443773 ATATAATATATAGTTTAT
1 ATATACTATATAGTTTAT
* *
5443791 ATATACTA-ATGAAATATAT
1 ATATACTATAT--AGTTTAT
* *
5443810 ATATAATGTATAGTTTAT
1 ATATACTATATAGTTTAT
5443828 ATATA-TCATATAGTTTAT
1 ATATACT-ATATAGTTTAT
*
5443846 ATATATTATATAGTTTAT
1 ATATACTATATAGTTTAT
***
5443864 ATATACTA-ATAAACTAT
1 ATATACTATATAGTTTAT
*
5443881 ATA-A-TGTATAGTTTTAT
1 ATATACTATATAG-TTTAT
*
5443898 ATATA-TCACATAGTTTAT
1 ATATACT-ATATAGTTTAT
*
5443916 ATATACTA-AT-G--AACT
1 ATATACTATATAGTTTA-T
* *
5443931 ATATAATGTATAGTTT-T
1 ATATACTATATAGTTTAT
*
5443948 ATATATTATATAGTTTAT
1 ATATACTATATAGTTTAT
5443966 ATATACTATA
1 ATATACTATA
5443976 GTATAAATTA
Statistics
Matches: 209, Mismatches: 34, Indels: 52
0.71 0.12 0.18
Matches are distributed among these distances:
14 3 0.01
15 24 0.11
16 13 0.06
17 42 0.20
18 106 0.51
19 19 0.09
20 2 0.01
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.45
Consensus pattern (18 bp):
ATATACTATATAGTTTAT
Found at i:5443725 original size:51 final size:51
Alignment explanation
Indices: 5443683--5443973 Score: 259
Period size: 51 Copynumber: 5.6 Consensus size: 51
5443673 ATAGTTTGTA
5443683 TATACCATATACTATATAGGTTATATATACTAATGAACTATATAATATATAG
1 TATA-CATATACTATATAGGTTATATATACTAATGAACTATATAATATATAG
* *
5443735 TTTACATATACTATATAGTTTATATATACTAATGAACTATATAATATATAG
1 TATACATATACTATATAGGTTATATATACTAATGAACTATATAATATATAG
* * ** *
5443786 TTTATATATACTA-AT-GAAATATATATA-TAATGTATAGTTTATATATATCATATAG
1 TATACATATACTATATAG-GTTATATATACTAATG-A-A--CTATATA-AT-ATATAG
* * * * * *
5443841 TTTATATATATTATATAGTTTATATATACTAATAAACTATATAATGTATAG
1 TATACATATACTATATAGGTTATATATACTAATGAACTATATAATATATAG
* * * * *
5443892 TTTTATATATA-TCACATAGTTTATATATACTAATGAACTATATAATGTATAG
1 -TATACATATACT-ATATAGGTTATATATACTAATGAACTATATAATATATAG
** * *
5443944 T-TTTATATATTATATAGTTTATATATACTA
1 TATACATATACTATATAGGTTATATATACTA
5443974 TAGTATAAAT
Statistics
Matches: 210, Mismatches: 16, Indels: 28
0.83 0.06 0.11
Matches are distributed among these distances:
49 6 0.03
50 36 0.17
51 67 0.32
52 52 0.25
53 12 0.06
54 2 0.01
55 19 0.09
56 11 0.05
57 5 0.02
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (51 bp):
TATACATATACTATATAGGTTATATATACTAATGAACTATATAATATATAG
Found at i:5443777 original size:2 final size:2
Alignment explanation
Indices: 5443772--5444172 Score: 72
Period size: 2 Copynumber: 195.0 Consensus size: 2
5443762 ACTAATGAAC
* *
5443772 TA TA TA -A TA TA TA GTT TA TA TA TA CTA -A TGA AA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA T-A TA TA TA TA TA
* * *
5443813 TA -A TG TA TA GTT TA TA TA TA TCA TA TA GTT TA TA TA TA T- TA
1 TA TA TA TA TA -TA TA TA TA TA T-A TA TA -TA TA TA TA TA TA TA
* * * *
5443854 TA TA GTT TA TA TA TA CTA -A TA AA CTA TA TA -A TG TA TA GT- TT
1 TA TA -TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA
* *
5443895 TA TA TA TA TCA CA TA GTT TA TA TA TA CTA -A TGA -A CTA TA TA -A
1 TA TA TA TA T-A TA TA -TA TA TA TA TA -TA TA T-A TA -TA TA TA TA
* * *
5443937 TG TA TA GT- TT TA TA TA T- TA TA TA GTT TA TA TA TA CTA TA GTA
1 TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA -TA
* *
5443979 TA AA T- TA TA T- TA TA TA GTA TA TA AA TA TCA -A CTA TA -A TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA T-A TA -TA TA TA TA
* * * * * *
5444018 TA TA GTT TA TA TGG TT TT TA TA TA TA GT- TCA TA TG TA AA T- TA
1 TA TA -TA TA TA T-A TA TA TA TA TA TA -TA T-A TA TA TA TA TA TA
* *
5444060 TA CTA TT TA -A TA TA TA TA GTT TA TA TA TA TA TA -A TA TA TA GTA
1 TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * *
5444103 TA TA AA TA TA AA T- TA TA GTA TG TA GTA TA TA AA TA TA AA CTA
1 TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA -TA
* *
5444145 TA -A TT TA TA TA TA TG TA TA TA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
5444173 AATAGTTTAT
Statistics
Matches: 287, Mismatches: 57, Indels: 110
0.63 0.13 0.24
Matches are distributed among these distances:
1 22 0.08
2 220 0.77
3 45 0.16
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.46
Consensus pattern (2 bp):
TA
Found at i:5443777 original size:33 final size:33
Alignment explanation
Indices: 5443740--5443902 Score: 175
Period size: 33 Copynumber: 4.7 Consensus size: 33
5443730 TATAGTTTAC
*
5443740 ATATACTATATAGTTTATATATACTAATGAACT
1 ATATAATATATAGTTTATATATACTAATGAACT
*
5443773 ATATAATATATAGTTTATATATACTAATGAAAT
1 ATATAATATATAGTTTATATATACTAATGAACT
**
5443806 ATATATATAATGTATAGTTTATATATATCATATAGTTTA-T
1 ATATA-AT-A--TATAGTTTATATATA-C-TA-A-TGAACT
* *
5443846 ATATATTATATAGTTTATATATACTAATAAACT
1 ATATAATATATAGTTTATATATACTAATGAACT
*
5443879 ATATAATGTATAGTTTTATATATA
1 ATATAATATATAG-TTTATATATA
5443903 TCACATAGTT
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
32 2 0.02
33 49 0.44
34 14 0.13
35 2 0.02
36 15 0.14
37 15 0.14
38 2 0.02
39 3 0.03
40 7 0.06
41 2 0.02
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (33 bp):
ATATAATATATAGTTTATATATACTAATGAACT
Found at i:5443830 original size:9 final size:9
Alignment explanation
Indices: 5443818--5443866 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
5443808 ATATATAATG
5443818 TATAGTTTA
1 TATAGTTTA
*
5443827 TATA-TATCA
1 TATAGT-TTA
5443836 TATAGTTTA
1 TATAGTTTA
5443845 TATA-TATTA
1 TATAGT-TTA
5443854 TATAGTTTA
1 TATAGTTTA
5443863 TATA
1 TATA
5443867 TACTAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
8 2 0.06
9 30 0.88
10 2 0.06
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (9 bp):
TATAGTTTA
Found at i:5444096 original size:7 final size:7
Alignment explanation
Indices: 5444071--5444173 Score: 56
Period size: 7 Copynumber: 15.1 Consensus size: 7
5444061 ACTATTTAAT
5444071 ATATATA
1 ATATATA
* *
5444078 GTTTATA
1 ATATATA
5444085 TATATATA
1 -ATATATA
5444093 ATATATA
1 ATATATA
*
5444100 GTATATA
1 ATATATA
5444107 A-ATATA
1 ATATATA
5444113 A-ATTATA
1 ATA-TATA
* *
5444120 GTATGTA
1 ATATATA
*
5444127 GTATATA
1 ATATATA
5444134 A-ATATA
1 ATATATA
5444140 A-ACTATA
1 ATA-TATA
*
5444147 ATTTAT-
1 ATATATA
5444153 ATATAT-
1 ATATATA
*
5444159 GTATATA
1 ATATATA
*
5444166 CTATATA
1 ATATATA
5444173 A
1 A
5444174 ATAGTTTATA
Statistics
Matches: 75, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
6 24 0.32
7 45 0.60
8 6 0.08
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.44
Consensus pattern (7 bp):
ATATATA
Found at i:5444238 original size:31 final size:31
Alignment explanation
Indices: 5444200--5444266 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 31
5444190 ACTAATAAAC
5444200 TATATATAGGTCATATGTAAACCATATAGTTTA
1 TATATATAGGTCATATGTAAA-C-TATAGTTTA
* *
5444233 TATATATAGTTCATATGTAAACTATAGTTCA
1 TATATATAGGTCATATGTAAACTATAGTTTA
5444264 TAT
1 TAT
5444267 GCAAATATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 11 0.34
32 1 0.03
33 20 0.62
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (31 bp):
TATATATAGGTCATATGTAAACTATAGTTTA
Found at i:5444260 original size:18 final size:18
Alignment explanation
Indices: 5444237--5444419 Score: 115
Period size: 18 Copynumber: 9.7 Consensus size: 18
5444227 AGTTTATATA
5444237 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
5444255 TATAGTTCATATGCAAATATAAAC
1 TATAGTTCATATG------TAAAC
*
5444279 TATAGTTTATATGTAAAC
1 TATAGTTCATATGTAAAC
**
5444297 TATAGTT-AGTATAAAAAC
1 TATAGTTCA-TATGTAAAC
*
5444315 TATATAGTTTATATGTAAAC
1 --TATAGTTCATATGTAAAC
*
5444335 TATAGTTCATATATAAA-
1 TATAGTTCATATGTAAAC
**
5444352 TATCAACT-ATAT-TATATA-
1 TAT-AGTTCATATGTA-A-AC
5444370 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
* *
5444388 TATATAGTTCAAATGAAAAC
1 --TATAGTTCATATGTAAAC
*
5444408 TATAGTTAATAT
1 TATAGTTCATAT
5444420 ATATAGTATA
Statistics
Matches: 132, Mismatches: 15, Indels: 36
0.72 0.08 0.20
Matches are distributed among these distances:
16 2 0.02
17 12 0.09
18 68 0.52
19 2 0.02
20 30 0.23
21 1 0.01
24 17 0.13
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:5444277 original size:24 final size:25
Alignment explanation
Indices: 5444250--5444300 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
5444240 AGTTCATATG
5444250 TAAACTATAGTTCATATGCAAA-TA
1 TAAACTATAGTTCATATGCAAACTA
* *
5444274 TAAACTATAGTTTATATGTAAACTA
1 TAAACTATAGTTCATATGCAAACTA
5444299 TA
1 TA
5444301 GTTAGTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (25 bp):
TAAACTATAGTTCATATGCAAACTA
Found at i:5444283 original size:42 final size:40
Alignment explanation
Indices: 5444237--5444370 Score: 143
Period size: 42 Copynumber: 3.3 Consensus size: 40
5444227 AGTTTATATA
*
5444237 TATAGTTCATATGTAAACTATAGTTCATATGCAAATATAAAC
1 TATAGTTTATATGTAAACTATAGTTCATAT--AAATATAAAC
*
5444279 TATAGTTTATATGTAAACTATAGTT-AGTATAAA-A-ACTA-
1 TATAGTTTATATGTAAACTATAGTTCA-TATAAATATA-AAC
*
5444317 TATAGTTTATATGTAAACTATAGTTCATATATAAATATCAAC
1 TATAGTTTATATGTAAACTATAGTTC--ATATAAATATAAAC
5444359 TATA-TTATATAT
1 TATAGTT-TATAT
5444371 ATAGTTCATA
Statistics
Matches: 79, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
38 26 0.33
39 2 0.03
40 9 0.11
41 6 0.08
42 36 0.46
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.40
Consensus pattern (40 bp):
TATAGTTTATATGTAAACTATAGTTCATATAAATATAAAC
Found at i:5444391 original size:22 final size:22
Alignment explanation
Indices: 5444366--5444411 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
5444356 AACTATATTA
* *
5444366 TATATATAGTTCATATGTAAAC
1 TATATATAGTTCAAATGAAAAC
5444388 --TATATAGTTCAAATGAAAAC
1 TATATATAGTTCAAATGAAAAC
5444408 TATA
1 TATA
5444412 GTTAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
20 18 0.90
22 2 0.10
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (22 bp):
TATATATAGTTCAAATGAAAAC
Found at i:5444444 original size:20 final size:20
Alignment explanation
Indices: 5444421--5444493 Score: 92
Period size: 20 Copynumber: 3.4 Consensus size: 20
5444411 AGTTAATATA
5444421 TATAGTATATAAATATAAAC
1 TATAGTATATAAATATAAAC
*
5444441 TATAGTTTATATAAATAGTATAAAA
1 TATAG--TATAT-AA-A-TATAAAC
5444466 TATAGTATATAAATATAAAC
1 TATAGTATATAAATATAAAC
5444486 TATAGTAT
1 TATAGTAT
5444494 GTTGTATATA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
20 19 0.41
21 1 0.02
22 7 0.15
23 7 0.15
24 1 0.02
25 11 0.24
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (20 bp):
TATAGTATATAAATATAAAC
Found at i:5444444 original size:33 final size:32
Alignment explanation
Indices: 5444404--5444469 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 32
5444394 GTTCAAATGA
*
5444404 AAACTATAGTTAATATATATAGTATATAAATAT
1 AAACTATAGTTAATATAAATAGTATA-AAATAT
*
5444437 AAACTATAGTTTATATAAATAGTATAAAATAT
1 AAACTATAGTTAATATAAATAGTATAAAATAT
5444469 A
1 A
5444470 GTATATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 7 0.23
33 24 0.77
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (32 bp):
AAACTATAGTTAATATAAATAGTATAAAATAT
Found at i:5444451 original size:27 final size:27
Alignment explanation
Indices: 5444421--5444523 Score: 89
Period size: 27 Copynumber: 4.1 Consensus size: 27
5444411 AGTTAATATA
5444421 TATAGTATATAAATATAAACTATAGTT
1 TATAGTATATAAATATAAACTATAGTT
* *
5444448 TATA-TAAAT-AGTAT-AA--A-A---
1 TATAGTATATAAATATAAACTATAGTT
*
5444466 TATAGTATATAAATATAAACTATAGTA
1 TATAGTATATAAATATAAACTATAGTT
* * *
5444493 TGTTGTATATAAATATAAACTATAATT
1 TATAGTATATAAATATAAACTATAGTT
5444520 TATA
1 TATA
5444524 TATTATATAT
Statistics
Matches: 57, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
18 4 0.07
19 4 0.07
20 4 0.07
21 3 0.05
22 1 0.02
23 1 0.02
24 3 0.05
25 4 0.07
26 4 0.07
27 29 0.51
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (27 bp):
TATAGTATATAAATATAAACTATAGTT
Found at i:5444469 original size:25 final size:23
Alignment explanation
Indices: 5444420--5444480 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
5444410 TAGTTAATAT
5444420 ATATAGTATAT-AA-A-TATAAA
1 ATATAGTATATAAATAGTATAAA
*
5444440 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATATAAATAGTATAAA
5444465 ATATAGTATATAAATA
1 ATATAGTATATAAATA
5444481 TAAACTATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 5 0.15
22 5 0.15
23 12 0.35
24 1 0.03
25 11 0.32
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
ATATAGTATATAAATAGTATAAA
Found at i:5444472 original size:12 final size:13
Alignment explanation
Indices: 5444433--5444482 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
5444423 TAGTATATAA
5444433 ATATAAACTATAGT
1 ATATAAA-TATAGT
*
5444447 TTATATAA-ATAGT
1 ATATA-AATATAGT
5444460 ATA-AAATATAGT
1 ATATAAATATAGT
5444472 ATATAAATATA
1 ATATAAATATA
5444483 AACTATAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 9 0.29
13 14 0.45
14 4 0.13
15 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (13 bp):
ATATAAATATAGT
Found at i:5444534 original size:18 final size:17
Alignment explanation
Indices: 5444513--5444561 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
5444503 AAATATAAAC
*
5444513 TATAATTTATATATTATA
1 TATAGTTTATATA-TATA
*
5444531 TATAGTATATACTATATA
1 TATAGTTTATA-TATATA
*
5444549 AATAGTTTATATA
1 TATAGTTTATATA
5444562 GTTCACTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (17 bp):
TATAGTTTATATATATA
Found at i:5444614 original size:22 final size:22
Alignment explanation
Indices: 5444589--5444671 Score: 68
Period size: 22 Copynumber: 3.9 Consensus size: 22
5444579 ATACATAGGT
5444589 CATATGTAAACTATATAGTTTA
1 CATATGTAAACTATATAGTTTA
* *
5444611 CATAGTTTATA-TATATAGTTTA
1 CATA-TGTAAACTATATAGTTTA
* *
5444633 TATA-GCTTATAC-ATATAG-TT-
1 CATATG--TAAACTATATAGTTTA
5444653 CATATGTAAACTATATAGT
1 CATATGTAAACTATATAGT
5444672 ATATATAGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
19 4 0.08
20 9 0.19
21 3 0.06
22 28 0.58
23 4 0.08
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (22 bp):
CATATGTAAACTATATAGTTTA
Found at i:5444625 original size:64 final size:63
Alignment explanation
Indices: 5444556--5444690 Score: 164
Period size: 64 Copynumber: 2.1 Consensus size: 63
5444546 ATAAATAGTT
*
5444556 TATATAGTTCACTAATAAACTATATAC-ATAGGTCATATGTAAACTATATAGTTTACATAGTTTA
1 TATATAGTTCA-T-AT-AACT-TATACAATAGGTCATATGTAAACTATATAGTATACATAGTTTA
5444620 TA
62 TA
* * * * *
5444622 TATATAGTTTATATAGCTTATACATATAGTTCATATGTAAACTATATAGTATATATAGTTTACA
1 TATATAGTTCATATAACTTATACA-ATAGGTCATATGTAAACTATATAGTATACATAGTTTATA
5444686 TATAT
1 TATAT
5444691 TATAAGTTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
62 5 0.08
63 3 0.05
64 42 0.69
65 1 0.02
66 10 0.16
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (63 bp):
TATATAGTTCATATAACTTATACAATAGGTCATATGTAAACTATATAGTATACATAGTTTATA
Found at i:5444630 original size:13 final size:13
Alignment explanation
Indices: 5444612--5444636 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5444602 TATAGTTTAC
5444612 ATAGTTTATATAT
1 ATAGTTTATATAT
5444625 ATAGTTTATATA
1 ATAGTTTATATA
5444637 GCTTATACAT
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
ATAGTTTATATAT
Found at i:5444805 original size:2 final size:2
Alignment explanation
Indices: 5444798--5445028 Score: 71
Period size: 2 Copynumber: 116.5 Consensus size: 2
5444788 ACCCTTAAAC
* *
5444798 TA TA TA TA TA TA TA TA TA TA TA TA TA AA CTA TA TA GTT TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * *
5444841 TA -A TA AA CTA TA TA -A TT TA TA TA -A TA TA TA T- TA TT TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
5444880 -A T- TA TA CA TA -A TT TA TA AA TA TA AA T- TGA -A TA GTT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA -TA TA TA
* * * * *
5444919 TA TA -A T- TCA TA TA TA -A TT TA TA TA TA AA CTA TG TA GTT TC
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* *
5444959 TA TA TA GTT TA -A TA GT- TCA TA TA TA AA CTA TA TA GTA T- TA TA
1 TA TA TA -TA TA TA TA -TA T-A TA TA TA TA -TA TA TA -TA TA TA TA
5445001 GTA TA TA TA TA TA TA TA TA TA TA TA TA T
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA T
5445029 TAGTTGTTTT
Statistics
Matches: 166, Mismatches: 33, Indels: 60
0.64 0.13 0.23
Matches are distributed among these distances:
1 16 0.10
2 135 0.81
3 15 0.09
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:5444839 original size:22 final size:21
Alignment explanation
Indices: 5444798--5445027 Score: 96
Period size: 20 Copynumber: 11.3 Consensus size: 21
5444788 ACCCTTAAAC
* *
5444798 TATATATA-TATATATATATA
1 TATATAAACTATATATTTATA
5444818 TATATAAACTATATAGTTTATA
1 TATATAAACTATATA-TTTATA
5444840 T-TAATAAACTATATAATTTATA
1 TAT-ATAAACTATAT-ATTTATA
*
5444862 TA-ATATA-TAT-TATTTATA
1 TATATAAACTATATATTTATA
*
5444880 -AT-TATAC-ATA-ATTTATA
1 TATATAAACTATATATTTATA
* *
5444897 AATATAAATTGA-ATAGTTTATA
1 TATATAAACT-ATATA-TTTATA
** *
5444919 TATA-ATTCATATATAATT-TA
1 TATATAAAC-TATATATTTATA
* * *
5444939 TATATAAACTATGTAGTT-TC
1 TATATAAACTATATATTTATA
*** * *
5444959 TATATAGTTTA-ATAGTT-CA
1 TATATAAACTATATATTTATA
5444978 TATATAAACTATATAGTATTATA
1 TATATAAACTATATA-T-TTATA
* *
5445001 GTATATATA-TATATATATATA
1 -TATATAAACTATATATTTATA
5445022 TATATA
1 TATATA
5445028 TTAGTTGTTT
Statistics
Matches: 160, Mismatches: 28, Indels: 44
0.69 0.12 0.19
Matches are distributed among these distances:
17 14 0.09
18 9 0.06
19 17 0.11
20 42 0.26
21 23 0.14
22 40 0.25
23 8 0.05
24 7 0.04
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (21 bp):
TATATAAACTATATATTTATA
Found at i:5444893 original size:17 final size:17
Alignment explanation
Indices: 5444852--5444902 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
5444842 AATAAACTAT
*
5444852 ATAATTTATATAATATAT
1 ATAATTTATA-AATATAC
* *
5444870 ATTATTTATAATTATAC
1 ATAATTTATAAATATAC
5444887 ATAATTTATAAATATA
1 ATAATTTATAAATATA
5444903 AATTGAATAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 19 0.68
18 9 0.32
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
ATAATTTATAAATATAC
Found at i:5444943 original size:13 final size:11
Alignment explanation
Indices: 5444827--5444945 Score: 75
Period size: 11 Copynumber: 10.6 Consensus size: 11
5444817 ATATATAAAC
*
5444827 TATATAGTTTA
1 TATATAATTTA
**
5444838 TAT-TAATAAA
1 TATATAATTTA
5444848 CTATATAATTTA
1 -TATATAATTTA
5444860 TATAATATATATTA
1 TAT-ATA-AT-TTA
*
5444874 TTTATAA-TTA
1 TATATAATTTA
*
5444884 TACATAATTTA
1 TATATAATTTA
*
5444895 TAAATATAAATT-
1 T--ATATAATTTA
* *
5444907 GA-ATAGTTTA
1 TATATAATTTA
*
5444917 TATATAATTCA
1 TATATAATTTA
5444928 TATATAATTTA
1 TATATAATTTA
5444939 TATATAA
1 TATATAA
5444946 ACTATGTAGT
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
9 5 0.06
10 14 0.17
11 36 0.44
12 9 0.11
13 12 0.15
14 5 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (11 bp):
TATATAATTTA
Found at i:5445516 original size:217 final size:216
Alignment explanation
Indices: 5445110--5445599 Score: 827
Period size: 217 Copynumber: 2.3 Consensus size: 216
5445100 TTGAGCTCTT
* *
5445110 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTAAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAATCCTCCAAA
* * *
5445175 TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATTAC
66 TTTTATTTGCATCTAAAATTGACCCATACTTACTACTTATTTCTATTTTTTAATTGGCCCATAAC
*
5445240 TTTTTAAATGGGTATAATTTAATACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTT
131 TTTTTAAATGAGTATAATTTAATACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTT
*
5445305 CGATTTGATCCATCATCAATG
196 CGATTTGATCCATCATCAATA
*
5445326 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTTTTCAATTTAATCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAATCCTCCAAA
* *
5445391 TTTTATTTGTATCTAAAATTGACCCGTACTTACTACTTATTTTCTATTTTTTAATTGGCCCATAA
66 TTTTATTTGCATCTAAAATTGACCCATACTTACTACTTA-TTTCTATTTTTTAATTGGCCCATAA
* *
5445456 CTTTTTAAATGAGTATAATTTAATATTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATT
130 CTTTTTAAATGAGTATAATTTAATACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATT
* *
5445521 TCGATTTGTTCCCTCATCAATA
195 TCGATTTGATCCATCATCAATA
* *
5445543 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTGATTCCATATTTGTTCAATTTAAT
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAAT
5445600 TATTAAATTT
Statistics
Matches: 256, Mismatches: 17, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
216 97 0.38
217 159 0.62
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.52
Consensus pattern (216 bp):
TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAATCCTCCAAA
TTTTATTTGCATCTAAAATTGACCCATACTTACTACTTATTTCTATTTTTTAATTGGCCCATAAC
TTTTTAAATGAGTATAATTTAATACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTT
CGATTTGATCCATCATCAATA
Found at i:5447943 original size:24 final size:25
Alignment explanation
Indices: 5447895--5447945 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 25
5447885 TATATCTACA
5447895 ATTTTATAAAATATTAAGATTATTAT
1 ATTTTATAAAATA-TAAGATTATTAT
5447921 ATTTTATTAAAATA-AA-ATTATTAT
1 ATTTTA-TAAAATATAAGATTATTAT
5447945 A
1 A
5447946 AATTATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 9 0.38
25 2 0.08
26 6 0.25
27 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
ATTTTATAAAATATAAGATTATTAT
Found at i:5448034 original size:8 final size:8
Alignment explanation
Indices: 5448021--5448054 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
5448011 ACAATAATAT
5448021 TATTAAAA
1 TATTAAAA
5448029 TATTAAAA
1 TATTAAAA
*
5448037 -AATAAAA
1 TATTAAAA
5448044 TATTAAAA
1 TATTAAAA
5448052 TAT
1 TAT
5448055 ATTATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
TATTAAAA
Found at i:5448058 original size:25 final size:25
Alignment explanation
Indices: 5448004--5448054 Score: 79
Period size: 23 Copynumber: 2.1 Consensus size: 25
5447994 ATTAATTACT
*
5448004 TATTAAAACAATAATATTATTAAAA
1 TATTAAAACAATAATAATATTAAAA
5448029 TATTAAAA-AATAA-AATATTAAAA
1 TATTAAAACAATAATAATATTAAAA
5448052 TAT
1 TAT
5448055 ATTATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 12 0.48
24 5 0.20
25 8 0.32
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TATTAAAACAATAATAATATTAAAA
Found at i:5448178 original size:29 final size:28
Alignment explanation
Indices: 5448144--5448217 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 28
5448134 ATTAATAAGT
* *
5448144 TATTATATATTATTAAACTAAAAGTATAA
1 TATTATATATTATTAAAATAAAA-AATAA
5448173 TATTATATATTA-TAATAATAAAAAATAA
1 TATTATATATTATTAA-AATAAAAAATAA
5448201 TA-TA-ATATTATTAAAAT
1 TATTATATATTATTAAAAT
5448218 TATCAATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 9 0.22
27 5 0.12
28 9 0.22
29 18 0.44
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (28 bp):
TATTATATATTATTAAAATAAAAAATAA
Found at i:5455359 original size:23 final size:23
Alignment explanation
Indices: 5455329--5455383 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
5455319 TACGAGAGAT
5455329 TCTAGAAGAAGGTGGAGTCATAA
1 TCTAGAAGAAGGTGGAGTCATAA
5455352 TCTAGAAGAAGGTGGAGTCATAA
1 TCTAGAAGAAGGTGGAGTCATAA
*
5455375 TCCAGAAGA
1 TCTAGAAGA
5455384 TTTGGACCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.11, G:0.29, T:0.20
Consensus pattern (23 bp):
TCTAGAAGAAGGTGGAGTCATAA
Found at i:5460084 original size:303 final size:303
Alignment explanation
Indices: 5459492--5462818 Score: 5577
Period size: 303 Copynumber: 11.0 Consensus size: 303
5459482 AACCCATTAT
* * * * * **
5459492 TTTTTTTATATGCTGACACAAAATGGACAAATTCATGGCTAAGTCCCTGAATTTTCTGGACATTC
1 TTTTTTTATCTGCTGACACAAAATGGA-TAATTCAGGGTTAGGTCCCTGAATTTTCTGGAGTTTC
* *
5459557 TAAAACATGCTGCAAACTTCAAAATTTTGCAATATAGACCCTACATTTCATTAAATTAATTCTTT
65 TAAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTT
5459622 TAGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTC
130 TAGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTC
*
5459687 TTCCTGCTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGA
195 TTCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGA
*
5459752 GCATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCAATTTTTA
260 GCATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
* * * * *
5459796 ATTTTTTATCTACTGATACAAAATGGATAATTCAGGGTTAGGTCCCTGAATTATCTAGAGTTTCT
1 TTTTTTTATCTGCTGACACAAAATGGATAATTCAGGGTTAGGTCCCTGAATTTTCTGGAGTTTCT
* *
5459861 AAAACAGGCTACAAACTTCAAAATTTTGCAATATAGACCCTACATTTCATTAAATTAATTCTTTT
66 AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
*
5459926 AGATTTTAATTTATTATTTTATTTATTTAGGGATGTGACATTTCATCTTTGAAAATTCTACCTCT
131 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
*
5459991 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTTCTTTTTGTTTAGTTATCTAGATGAG
196 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
*
5460056 CATATTTTTTTCTTTTTAAAAAGTCTTTTTTAACCCATTTTTA
261 CATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
* * * * * * * *
5460099 TTTTTTTATCTGTTGACATAAAATGAATAATTTAGGATTAGGTTCTTGAATTTTTTGGAGTTTCT
1 TTTTTTTATCTGCTGACACAAAATGGATAATTCAGGGTTAGGTCCCTGAATTTTCTGGAGTTTCT
*
5460164 AAAACTGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
66 AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
* *
5460229 AGATTTTAATTTATTATTTTATTTATTTAGGGTTGTGGCATTTCATCTTT-AAAATTCTACCTCT
131 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
* *
5460293 TCCTACTCAAATTTCTAAATATTAAAA-ATTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGTG
196 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
5460357 CATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
261 CATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
* * * * * *
5460400 TTTTTTTATCTGCTGATACAAAGTGGATAATTTAGGGTTAGGTCCCTAAATTTTTTGGAATTTCT
1 TTTTTTTATCTGCTGACACAAAATGGATAATTCAGGGTTAGGTCCCTGAATTTTCTGGAGTTTCT
* * *
5460465 AAAACATGCTACAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTATTTCTTTT
66 AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
5460530 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
131 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
*
5460595 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATATAGATGAG
196 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
5460660 CATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
261 CATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
* * * * * * * * * *
5460703 TTTTTTTATCTGTTCACATAAAATGAATAATTTAGGATTAGGTTCTTGAATTTTATGAAGTTTCT
1 TTTTTTTATCTGCTGACACAAAATGGATAATTCAGGGTTAGGTCCCTGAATTTTCTGGAGTTTCT
* * *
5460768 AAAATAGACTACAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
66 AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
* *
5460833 AGATTTTAATTTATTATTTTATTTATTTAGGGATCTGACATTTCATCTTTGAAAATTCTACCTCT
131 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
5460898 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
196 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
*
5460963 CATATTATTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
261 CATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
* * * *
5461006 TTTTTTTATCTGCTGACATAAAGTGGATAATTCAGGGTTAGGTCCCTAAATTTTTTGGAGTTTCT
1 TTTTTTTATCTGCTGACACAAAATGGATAATTCAGGGTTAGGTCCCTGAATTTTCTGGAGTTTCT
* *
5461071 AAAACAGGCTACAAACTTCAAAATTTTACAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
66 AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
* * *
5461136 AGATTTTAATTTATTATTTTATTTATTTAGGACTCTGACATTTCATCTTTGAAAATTTTACCTCT
131 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
5461201 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
196 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
5461266 CATA-TTTTTTCTTTTTAAAATGTC-TTTTTAACCCATTTTTA
261 CATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
* *
5461307 TTTTTTTATCTGTTGACACAAAATGGATAATTCAGGGTTAGGTCCCTGAATTTTCTAGAGTTTCT
1 TTTTTTTATCTGCTGACACAAAATGGATAATTCAGGGTTAGGTCCCTGAATTTTCTGGAGTTTCT
5461372 AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
66 AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
5461437 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
131 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
*
5461502 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAT
196 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
5461567 CATATTTTTTTCTTTTTAAAATGTC-TTTTTAACCCATTTTTA
261 CATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
* * * * * * *
5461609 TTTTTTTATCTGCTGGCACAAAGTGGATAATTCAAGGTTAGATCCTTGAAATTTCTAGAGTTTCT
1 TTTTTTTATCTGCTGACACAAAATGGATAATTCAGGGTTAGGTCCCTGAATTTTCTGGAGTTTCT
* *
5461674 AAAACAGGCTGTAAACTTCAAAATTTTACAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
66 AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
* *
5461739 AGATTTTAATTTATTATTTTATTTATTTAGGGCTTTGACATTTCGTCTTTGAAAATTCTACCTCT
131 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
*
5461804 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGGTTTTTGTTTAGTTATCTAGATGAG
196 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
*
5461869 CATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATATTTA
261 CATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
* * * * *
5461912 TTTTTTTATCTGTTGACACAAAATGGATAATTCAGGGTTAGGTTCCTGAATTTTCTGTAATTTTT
1 TTTTTTTATCTGCTGACACAAAATGGATAATTCAGGGTTAGGTCCCTGAATTTTCTGGAGTTTCT
*
5461977 AAAACAAGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
66 AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
*
5462042 AGATTTTAGTTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
131 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
5462107 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTT-TTTAGTTATCTAGATGAG
196 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
5462171 CATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
261 CATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
* * * *
5462214 TTTTTTTATCTGTTGACACAAAATGGATAATTCAGGGTTAGGTCCCTAAATTTTTTTGAGTTTCT
1 TTTTTTTATCTGCTGACACAAAATGGATAATTCAGGGTTAGGTCCCTGAATTTTCTGGAGTTTCT
5462279 AAAACAGGCTGCAAACTTCAAAATTTTGCAA-TT------TACATTTCATTAAATTAATTCTTTT
66 AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
5462337 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
131 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
5462402 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
196 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
* *
5462467 CATATTTTTTTTCTTTTTAAAATGTC-TTTTTAACTCATTATTA
261 CATA-TTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
* * *
5462510 -TTTTTTATCTGCTGACACAAAATGGATAATTTAGGGTTAGGTCCCTAAATTTTTTGGAGTTTCT
1 TTTTTTTATCTGCTGACACAAAATGGATAATTCAGGGTTAGGTCCCTGAATTTTCTGGAGTTTCT
* *
5462574 AAAACAAGCTACAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
66 AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
*
5462639 AGATTTTAATTTATTATTTTATTTATTTAGGGCTTTGACATTTCATCTTTGAAAATTCTACCTCT
131 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
5462704 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
196 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
*
5462769 CATATTTTTTTTCTTTTTAAAATTTCTTTTTTAACCCATTTTTA
261 CATA-TTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
5462813 TTTTTT
1 TTTTTT
5462819 CAAAGAAAAA
Statistics
Matches: 2843, Mismatches: 165, Indels: 30
0.94 0.05 0.01
Matches are distributed among these distances:
295 225 0.08
296 39 0.01
297 21 0.01
301 511 0.18
302 737 0.26
303 1282 0.45
304 28 0.01
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (303 bp):
TTTTTTTATCTGCTGACACAAAATGGATAATTCAGGGTTAGGTCCCTGAATTTTCTGGAGTTTCT
AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
CATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
Found at i:5461307 original size:907 final size:907
Alignment explanation
Indices: 5459492--5462818 Score: 5606
Period size: 907 Copynumber: 3.7 Consensus size: 907
5459482 AACCCATTAT
* * * * * *
5459492 TTTTTTTATATGCTGACACAAAATGGACAAATTCATGGCTAAGTCCCTGAATTTTCTGGACA-TT
1 TTTTTTTATCTGCTGACACAAAATGGA-TAATTCAGGGTTAGGTCCCTAAATTTTCTGGA-ATTT
* *
5459556 CTAAAACATGCTGCAAACTTCAAAATTTTGCAATATAGACCCTACATTTCATTAAATTAATTCTT
64 CTAAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTT
5459621 TTAGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCT
129 TTAGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCT
*
5459686 CTTCCTGCTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATG
194 CTTCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATG
* * * *
5459751 AGCATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCAATTTTTAATTTTTTATCTACTGATACA
259 AGCATATTTTTTTCTTTTTAAAATGTC-TTTTTAACCCATTTTTATTTTTTTATCTGCTGACACA
* *
5459816 AAATGGATAATTCAGGGTTAGGTCCCTGAATTATCTAGAGTTTCTAAAACAGGCTACAAACTTCA
323 AAATGGATAATTTAGGGTTAGGTCCCTGAATT-TCTAGAGTTTCTAAAACAGACTACAAACTTCA
*
5459881 AAATTTTGCAATATAGACCCTACATTTCATTAAATTAATTCTTTTAGATTTTAATTTATTATTTT
387 AAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTTAGATTTTAATTTATTATTTT
*
5459946 ATTTATTTAGGGATGTGACATTTCATCTTTGAAAATTCTACCTCTTCCTACTCAAATTTCTAAAT
452 ATTTATTTAGGGATTTGACATTTCATCTTTGAAAATTCTACCTCTTCCTACTCAAATTTCTAAAT
*
5460011 ATTAAAAGTTTTTAACTTTTCTTTTTGTTTAGTTATCTAGATGAGCATATTTTTTTCTTTTTAAA
517 ATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAGCATATTTTTTTCTTTTTAAA
* * * *
5460076 AAGTCTTTTTTAACCCATTTTTATTTTTTTATCTGTTGACATAAAATGAATAATTTAGGATTAGG
582 ATGTCTTTTTTAACCCATTTTTATTTTTTTATCTGTTGACATAAAATGGATAATTCAGGGTTAGG
* *
5460141 TTCTTGAATTTTTTGGAGTTTCTAAAACTGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTA
647 TTCCTGAATTTTTTGGAGTTTCTAAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTA
* *
5460206 CATTTCATTAAATTAATTCTTTTAGATTTTAATTTATTATTTTATTTATTTAGGGTTGTGGCATT
712 CATTTCATTAAATTAATTCTTTTAGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATT
*
5460271 TCATCTTT-AAAATTCTACCTCTTCCTACTCAAATTTCTAAATATTAAAA-ATTTTAACTTTGCT
777 TCATCTTTGAAAATTCTACCTCTTCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCT
*
5460334 TTTTGTTTAGTTATCTAGATGTGCATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTT
842 TTTTGTTTAGTTATCTAGATGAGCATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTT
5460399 A
907 A
* * * *
5460400 TTTTTTTATCTGCTGATACAAAGTGGATAATTTAGGGTTAGGTCCCTAAATTTTTTGGAATTTCT
1 TTTTTTTATCTGCTGACACAAAATGGATAATTCAGGGTTAGGTCCCTAAATTTTCTGGAATTTCT
* * *
5460465 AAAACATGCTACAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTATTTCTTTT
66 AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
5460530 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
131 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
*
5460595 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATATAGATGAG
196 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
* * *
5460660 CATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTATTTTTTTATCTGTTCACATAAA
261 CATATTTTTTTCTTTTTAAAATGTC-TTTTTAACCCATTTTTATTTTTTTATCTGCTGACACAAA
* * * * *
5460725 ATGAATAATTTAGGATTAGGTTCTTGAATTT-TATGAAGTTTCTAAAATAGACTACAAACTTCAA
325 ATGGATAATTTAGGGTTAGGTCCCTGAATTTCTA-G-AGTTTCTAAAACAGACTACAAACTTCAA
5460789 AATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTTAGATTTTAATTTATTATTTTA
388 AATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTTAGATTTTAATTTATTATTTTA
*
5460854 TTTATTTAGGGATCTGACATTTCATCTTTGAAAATTCTACCTCTTCCTACTCAAATTTCTAAATA
453 TTTATTTAGGGATTTGACATTTCATCTTTGAAAATTCTACCTCTTCCTACTCAAATTTCTAAATA
*
5460919 TTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAGCATATTATTTTCTTTTTAAAA
518 TTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAGCATATTTTTTTCTTTTTAAAA
* *
5460984 TGTCTTTTTTAACCCATTTTTATTTTTTTATCTGCTGACATAAAGTGGATAATTCAGGGTTAGGT
583 TGTCTTTTTTAACCCATTTTTATTTTTTTATCTGTTGACATAAAATGGATAATTCAGGGTTAGGT
* * * *
5461049 CCCTAAATTTTTTGGAGTTTCTAAAACAGGCTACAAACTTCAAAATTTTACAATTTAGACCCTAC
648 TCCTGAATTTTTTGGAGTTTCTAAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTAC
* *
5461114 ATTTCATTAAATTAATTCTTTTAGATTTTAATTTATTATTTTATTTATTTAGGACTCTGACATTT
713 ATTTCATTAAATTAATTCTTTTAGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTT
*
5461179 CATCTTTGAAAATTTTACCTCTTCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTT
778 CATCTTTGAAAATTCTACCTCTTCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTT
5461244 TTTGTTTAGTTATCTAGATGAGCATA-TTTTTTCTTTTTAAAATGTC-TTTTTAACCCATTTTTA
843 TTTGTTTAGTTATCTAGATGAGCATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
* * * *
5461307 TTTTTTTATCTGTTGACACAAAATGGATAATTCAGGGTTAGGTCCCTGAATTTTCTAGAGTTTCT
1 TTTTTTTATCTGCTGACACAAAATGGATAATTCAGGGTTAGGTCCCTAAATTTTCTGGAATTTCT
5461372 AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
66 AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
5461437 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
131 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
*
5461502 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAT
196 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
* *
5461567 CATATTTTTTTCTTTTTAAAATGTCTTTTTAACCCATTTTTATTTTTTTATCTGCTGGCACAAAG
261 CATATTTTTTTCTTTTTAAAATGTCTTTTTAACCCATTTTTATTTTTTTATCTGCTGACACAAAA
* * * * * **
5461632 TGGATAATTCAAGGTTAGATCCTTGAAATTTCTAGAGTTTCTAAAACAGGCTGTAAACTTCAAAA
326 TGGATAATTTAGGGTTAGGTCCCTG-AATTTCTAGAGTTTCTAAAACAGACTACAAACTTCAAAA
*
5461697 TTTTACAATTTAGACCCTACATTTCATTAAATTAATTCTTTTAGATTTTAATTTATTATTTTATT
390 TTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTTAGATTTTAATTTATTATTTTATT
* *
5461762 TATTTAGGGCTTTGACATTTCGTCTTTGAAAATTCTACCTCTTCCTACTCAAATTTCTAAATATT
455 TATTTAGGGATTTGACATTTCATCTTTGAAAATTCTACCTCTTCCTACTCAAATTTCTAAATATT
*
5461827 AAAAGTTTTTAACTTTGGTTTTTGTTTAGTTATCTAGATGAGCATATTTTTTTCTTTTTAAAATG
520 AAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAGCATATTTTTTTCTTTTTAAAATG
* *
5461892 TCTTTTTTAACCCATATTTATTTTTTTATCTGTTGACACAAAATGGATAATTCAGGGTTAGGTTC
585 TCTTTTTTAACCCATTTTTATTTTTTTATCTGTTGACATAAAATGGATAATTCAGGGTTAGGTTC
* * * * *
5461957 CTGAATTTTCTGTAATTTTTAAAACAAGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACAT
650 CTGAATTTTTTGGAGTTTCTAAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACAT
*
5462022 TTCATTAAATTAATTCTTTTAGATTTTAGTTTATTATTTTATTTATTTAGGGCTGTGACATTTCA
715 TTCATTAAATTAATTCTTTTAGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCA
5462087 TCTTTGAAAATTCTACCTCTTCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTT
780 TCTTTGAAAATTCTACCTCTTCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTT
5462152 T-TTTAGTTATCTAGATGAGCATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
845 TGTTTAGTTATCTAGATGAGCATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
* * * *
5462214 TTTTTTTATCTGTTGACACAAAATGGATAATTCAGGGTTAGGTCCCTAAATTTTTTTGAGTTTCT
1 TTTTTTTATCTGCTGACACAAAATGGATAATTCAGGGTTAGGTCCCTAAATTTTCTGGAATTTCT
5462279 AAAACAGGCTGCAAACTTCAAAATTTTGCAA-TT------TACATTTCATTAAATTAATTCTTTT
66 AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
5462337 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
131 AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
5462402 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
196 TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
* *
5462467 CATATTTTTTTTCTTTTTAAAATGTCTTTTTAACTCATTATTA-TTTTTTATCTGCTGACACAAA
261 CATA-TTTTTTTCTTTTTAAAATGTCTTTTTAACCCATTTTTATTTTTTTATCTGCTGACACAAA
* * *
5462531 ATGGATAATTTAGGGTTAGGTCCCTAAATTTTTTGGAGTTTCTAAAACA-AGCTACAAACTTCAA
325 ATGGATAATTTAGGGTTAGGTCCCTGAA-TTTCTAGAGTTTCTAAAACAGA-CTACAAACTTCAA
5462595 AATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTTAGATTTTAATTTATTATTTTA
388 AATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTTAGATTTTAATTTATTATTTTA
*
5462660 TTTATTTAGGGCTTTGACATTTCATCTTTGAAAATTCTACCTCTTCCTACTCAAATTTCTAAATA
453 TTTATTTAGGGATTTGACATTTCATCTTTGAAAATTCTACCTCTTCCTACTCAAATTTCTAAATA
5462725 TTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAGCATATTTTTTTTCTTTTTAAA
518 TTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAGCATA-TTTTTTTCTTTTTAAA
*
5462790 ATTTCTTTTTTAACCCATTTTTATTTTTT
582 ATGTCTTTTTTAACCCATTTTTATTTTTT
5462819 CAAAGAAAAA
Statistics
Matches: 2280, Mismatches: 126, Indels: 33
0.93 0.05 0.01
Matches are distributed among these distances:
899 2 0.00
900 402 0.18
901 79 0.03
905 24 0.01
906 538 0.24
907 1110 0.49
908 86 0.04
909 39 0.02
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (907 bp):
TTTTTTTATCTGCTGACACAAAATGGATAATTCAGGGTTAGGTCCCTAAATTTTCTGGAATTTCT
AAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTT
AGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCATCTTTGAAAATTCTACCTCT
TCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAG
CATATTTTTTTCTTTTTAAAATGTCTTTTTAACCCATTTTTATTTTTTTATCTGCTGACACAAAA
TGGATAATTTAGGGTTAGGTCCCTGAATTTCTAGAGTTTCTAAAACAGACTACAAACTTCAAAAT
TTTGCAATTTAGACCCTACATTTCATTAAATTAATTCTTTTAGATTTTAATTTATTATTTTATTT
ATTTAGGGATTTGACATTTCATCTTTGAAAATTCTACCTCTTCCTACTCAAATTTCTAAATATTA
AAAGTTTTTAACTTTGCTTTTTGTTTAGTTATCTAGATGAGCATATTTTTTTCTTTTTAAAATGT
CTTTTTTAACCCATTTTTATTTTTTTATCTGTTGACATAAAATGGATAATTCAGGGTTAGGTTCC
TGAATTTTTTGGAGTTTCTAAAACAGGCTGCAAACTTCAAAATTTTGCAATTTAGACCCTACATT
TCATTAAATTAATTCTTTTAGATTTTAATTTATTATTTTATTTATTTAGGGCTGTGACATTTCAT
CTTTGAAAATTCTACCTCTTCCTACTCAAATTTCTAAATATTAAAAGTTTTTAACTTTGCTTTTT
GTTTAGTTATCTAGATGAGCATATTTTTTTCTTTTTAAAATGTCTTTTTTAACCCATTTTTA
Found at i:5466539 original size:15 final size:15
Alignment explanation
Indices: 5466519--5466553 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
5466509 AAATTCGAAT
5466519 AATTCGA-TAAGACTC
1 AATTCGACT-AGACTC
5466534 AATTCGACTAGACTC
1 AATTCGACTAGACTC
5466549 AATTC
1 AATTC
5466554 AACTTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 18 0.95
16 1 0.05
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (15 bp):
AATTCGACTAGACTC
Found at i:5468613 original size:15 final size:14
Alignment explanation
Indices: 5468589--5468631 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
5468579 AAAAACGTCC
5468589 TTTTAAAAAAACAA
1 TTTTAAAAAAACAA
*
5468603 TTTTAACAAAAACCA
1 TTTTAA-AAAAACAA
* *
5468618 TTTTTAAAAGACAA
1 TTTTAAAAAAACAA
5468632 AATGGGCATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (14 bp):
TTTTAAAAAAACAA
Found at i:5469477 original size:23 final size:22
Alignment explanation
Indices: 5469413--5469478 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
5469403 AAAAGGGTTG
* *
5469413 AAATGTAAATATTAAAAAATTA
1 AAATGCAAATAATAAAAAATTA
**
5469435 AAGGGCATAATAA-ATAAAAATTA
1 AAATGCA-AATAATA-AAAAATTA
5469458 AAATGCAAATAATAAGAAAAT
1 AAATGCAAATAATAA-AAAAT
5469479 AAAGTTAGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
22 11 0.32
23 23 0.68
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (22 bp):
AAATGCAAATAATAAAAAATTA
Found at i:5472980 original size:45 final size:45
Alignment explanation
Indices: 5472916--5473017 Score: 141
Period size: 45 Copynumber: 2.3 Consensus size: 45
5472906 GTGATAACCT
* * *
5472916 TGGGACCACACCGCTTGGAGCTATGCGAGACAATGCTCATGACCA
1 TGGGACCACACCGCCTGGAGCTATGCGAGACAATGCGCATGAACA
* * *
5472961 TGGGACTACACCGCCTGGAGCTATGCGAGATATTGCGCATGAACA
1 TGGGACCACACCGCCTGGAGCTATGCGAGACAATGCGCATGAACA
*
5473006 TGGGGCCACACC
1 TGGGACCACACC
5473018 ATTTGAATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.18
Consensus pattern (45 bp):
TGGGACCACACCGCCTGGAGCTATGCGAGACAATGCGCATGAACA
Found at i:5475224 original size:71 final size:71
Alignment explanation
Indices: 5475103--5475236 Score: 241
Period size: 71 Copynumber: 1.9 Consensus size: 71
5475093 TAAAAATAGA
*
5475103 TCAACTTGAGTTTTCAAGGAGGTTTGAAGTTGAAGGTTGCAAGGGGAATGTTAGTGTAAATGAGC
1 TCAACTTGAGTTTTCAAGGAAGTTTGAAGTTGAAGGTTGCAAGGGGAATGTTAGTGTAAATGAGC
5475168 ATTAGT
66 ATTAGT
* *
5475174 TCAATTTGAGTTTTGAAGGAAGTTTGAAGTTGAAGGTTGCAAGGGGAATGTTAGTGTAAATGA
1 TCAACTTGAGTTTTCAAGGAAGTTTGAAGTTGAAGGTTGCAAGGGGAATGTTAGTGTAAATGA
5475237 ATGAATGAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.31, C:0.05, G:0.31, T:0.33
Consensus pattern (71 bp):
TCAACTTGAGTTTTCAAGGAAGTTTGAAGTTGAAGGTTGCAAGGGGAATGTTAGTGTAAATGAGC
ATTAGT
Found at i:5476102 original size:82 final size:82
Alignment explanation
Indices: 5476009--5476172 Score: 319
Period size: 82 Copynumber: 2.0 Consensus size: 82
5475999 ACTAAATTAA
5476009 ATAAAATCTAAAGTTTATATTCTAAACTAAATATTAAATTATAAAATTTAAAGATGGGACTAAAT
1 ATAAAATCTAAAGTTTATATTCTAAACTAAATATTAAATTATAAAATTTAAAGATGGGACTAAAT
5476074 TATAGATTTTAAAAGAT
66 TATAGATTTTAAAAGAT
*
5476091 ATAAAATCTAAAGTTTATATTCTAAACTAAATATTAAATTATAAATTTTAAAGATGGGACTAAAT
1 ATAAAATCTAAAGTTTATATTCTAAACTAAATATTAAATTATAAAATTTAAAGATGGGACTAAAT
5476156 TATAGATTTTAAAAGAT
66 TATAGATTTTAAAAGAT
5476173 TGAAAAGAGT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (82 bp):
ATAAAATCTAAAGTTTATATTCTAAACTAAATATTAAATTATAAAATTTAAAGATGGGACTAAAT
TATAGATTTTAAAAGAT
Found at i:5476348 original size:16 final size:16
Alignment explanation
Indices: 5476327--5476364 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
5476317 TCTTTTATTT
*
5476327 TCTCAACTCTCATCTC
1 TCTCAACTCTCAACTC
5476343 TCTCAACTCTCAACTC
1 TCTCAACTCTCAACTC
5476359 TCTCAA
1 TCTCAA
5476365 ATTCCATCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.42, G:0.00, T:0.34
Consensus pattern (16 bp):
TCTCAACTCTCAACTC
Found at i:5477221 original size:157 final size:156
Alignment explanation
Indices: 5477048--5477340 Score: 426
Period size: 156 Copynumber: 1.9 Consensus size: 156
5477038 TTGATGCGTG
* * *
5477048 TTCTTCTGTGATGAAATTGAGCAAA-GTATGAACAAGTTTTTCTCATTTTGAACTTCATCTCTTG
1 TTCTTCTATGATGAAATTGAGCAAACG-ATGAACAAGTTCTTCTCATTATGAACTTCATCTCTT-
* *
5477112 GAAATGTTGATCCAACTATTTATGTGATGGAATCGAGCAAAGGCTGAACAAATTCTTCTCAATAT
64 GAAATGTTGATCCAACTAATTATGTGATGGAATCGAGAAAAGGCTGAACAAATTCTTCTCAATAT
5477177 AAACTTCTCTTAGAAATATTGATTCATC
129 AAACTTCTCTTAGAAATATTGATTCATC
* * *
5477205 TTCTTCTATGATGAAATTGAGTAAACGCTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTTGA
1 TTCTTCTATGATGAAATTGAGCAAACGATGAACAAGTTCTTCTCATTATGAACTTCATCTCTTGA
* * * * * * *
5477270 AATGTTGATCCATCTAATTCTTTGATGGAATCGAGAAAATGTTGAACAAATTCTTCTCATTATGA
66 AATGTTGATCCAACTAATTATGTGATGGAATCGAGAAAAGGCTGAACAAATTCTTCTCAATATAA
5477335 ACTTCT
131 ACTTCT
5477341 TCTCCCTCAT
Statistics
Matches: 120, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
156 64 0.53
157 55 0.46
158 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (156 bp):
TTCTTCTATGATGAAATTGAGCAAACGATGAACAAGTTCTTCTCATTATGAACTTCATCTCTTGA
AATGTTGATCCAACTAATTATGTGATGGAATCGAGAAAAGGCTGAACAAATTCTTCTCAATATAA
ACTTCTCTTAGAAATATTGATTCATC
Found at i:5477235 original size:77 final size:78
Alignment explanation
Indices: 5477076--5477340 Score: 271
Period size: 79 Copynumber: 3.4 Consensus size: 78
5477066 GAGCAAAGTA
* * * * * * * * *
5477076 TGAACAAGTTTTTCTCATTTTGAACTTCATCTCTTGGAAATGTTGATCCAACTATTTATGTGATG
1 TGAACAAATTCTTCTCATTATGAACTTC-TCTC-TAGAAATATTGATCCATCTAATTCTATGATG
* *
5477141 GAATCGAGCAAAGGC
64 GAATCGAGAAAACGC
* * * ** *
5477156 TGAACAAATTCTTCTCAATATAAACTTCTCT-TAGAAATATTGATTCATCTTCTTCTATGATGAA
1 TGAACAAATTCTTCTCATTATGAACTTCTCTCTAGAAATATTGATCCATCTAATTCTATGATGGA
* *
5477220 ATTGAGTAAACGC
66 ATCGAGAAAACGC
* * * *
5477233 TGAACAAGTTCTTCTCATTATGAACTTCTTCTCTTGAAATGTTGATCCATCTAATTCTTTGATGG
1 TGAACAAATTCTTCTCATTATGAACTTC-TCTCTAGAAATATTGATCCATCTAATTCTATGATGG
* *
5477298 AATCGAGAAAATGT
65 AATCGAGAAAACGC
5477312 TGAACAAATTCTTCTCATTATGAACTTCT
1 TGAACAAATTCTTCTCATTATGAACTTCT
5477341 TCTCCCTCAT
Statistics
Matches: 151, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
77 59 0.39
78 4 0.03
79 65 0.43
80 23 0.15
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (78 bp):
TGAACAAATTCTTCTCATTATGAACTTCTCTCTAGAAATATTGATCCATCTAATTCTATGATGGA
ATCGAGAAAACGC
Found at i:5477316 original size:79 final size:79
Alignment explanation
Indices: 5476921--5477344 Score: 358
Period size: 77 Copynumber: 5.4 Consensus size: 79
5476911 TTCTTCAGCT
* * * * *
5476921 ACAAGTTTTTCTCATTATGAGCTT-TTATC--GAAAATGTTGATCCA-CCACTTTCTGTGAAGGA
1 ACAAGTTCTTCTCATTATGAACTTCTTCTCTTG-AAATGTTGATCCATCTAC-TTCTGTGATGGA
* * *
5476982 ATCAAGCACATGATGA
64 ATCGAGCAAATGCTGA
* * * * * * * * *
5476998 ACAAGTTTTTCTCATTATGAATTTTTTTATCTTGGAAATGTTGATGCGTGTTCTTCTGTGATGAA
1 ACAAGTTCTTCTCATTATGAA-CTTCTTCTCTT-GAAATGTTGATCCATCTACTTCTGTGATGGA
* *
5477063 ATTGAGCAAA-GTATGA
64 ATCGAGCAAATG-CTGA
* * * * * *
5477079 ACAAGTTTTTCTCATTTTGAACTTCATCTCTTGGAAATGTTGATCCAACTATTTATGTGATGGAA
1 ACAAGTTCTTCTCATTATGAACTTCTTCTCTT-GAAATGTTGATCCATCTACTTCTGTGATGGAA
*
5477144 TCGAGCAAAGGCTGA
65 TCGAGCAAATGCTGA
* * * * * * * * *
5477159 ACAAATTCTTCTCAATATAAACTTC-TCT-TAGAAATATTGATTCATCTTCTTCTATGATGAAAT
1 ACAAGTTCTTCTCATTATGAACTTCTTCTCTTGAAATGTTGATCCATCTACTTCTGTGATGGAAT
* * *
5477222 TGAGTAAACGCTGA
66 CGAGCAAATGCTGA
* *
5477236 ACAAGTTCTTCTCATTATGAACTTCTTCTCTTGAAATGTTGATCCATCTAATTCTTTGATGGAAT
1 ACAAGTTCTTCTCATTATGAACTTCTTCTCTTGAAATGTTGATCCATCTACTTCTGTGATGGAAT
* *
5477301 CGAGAAAATGTTGA
66 CGAGCAAATGCTGA
*
5477315 ACAAATTCTTCTCATTATGAACTTCTTCTC
1 ACAAGTTCTTCTCATTATGAACTTCTTCTC
5477345 CCTCATCAAA
Statistics
Matches: 278, Mismatches: 59, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
77 78 0.28
78 6 0.02
79 75 0.27
80 64 0.23
81 53 0.19
82 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (79 bp):
ACAAGTTCTTCTCATTATGAACTTCTTCTCTTGAAATGTTGATCCATCTACTTCTGTGATGGAAT
CGAGCAAATGCTGA
Found at i:5477658 original size:2 final size:2
Alignment explanation
Indices: 5477651--5477690 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
5477641 GTGTATGCTC
5477651 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5477691 TCAAATGCCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5479397 original size:225 final size:223
Alignment explanation
Indices: 5478996--5479446 Score: 712
Period size: 225 Copynumber: 2.0 Consensus size: 223
5478986 TGGTAGACTC
5478996 ACTTTTCAAAAATGCGATAGAAAATAACTTTCAAAAGTGTTGGCAAGTACAGTAAAAAAAAGAAC
1 ACTTTTCAAAAATGCGATAGAAAATAACTTTCAAAAGTGTTGGCAAGTACAGT-AAAAAAAGAAC
5479061 TTTCAAAACTGTTGTTTAGAAGTGTAGTTTAAAATTTAACTGTTCAGAATTATTGTTAAAAAGTA
65 TTTCAAAACTGTTGTTTAGAAGTGTAGTTTAAAATTTAACTGTTCAGAATTATTGTTAAAAAGTA
* *
5479126 AGTTTAAAGTAAAAATGCTTATTATAGACATTATATTGTAAATTAAAAATATGAAATTTAAATTA
130 AGTTTAAAGTAAAAAT-CTCATTATAGACATTATATTGTAAATTAAAAATATAAAATTTAAATTA
*
5479191 TATTTACACTCATTAATACTATGATATATA
194 TATTCACACTCATTAATACTATGATATATA
* * *
5479221 ACTTTTCAAAAATGC-AGTAGAAAATAACTTTCAAAAGTGTTGGTAAGTACGGT-AGAAAAGAAC
1 ACTTTTCAAAAATGCGA-TAGAAAATAACTTTCAAAAGTGTTGGCAAGTACAGTAAAAAAAGAAC
* *
5479284 TTTCAAAACTGTTGTTTAGAAGTGTAGTTTAAAATTTAACTATT-TGAAATTATTGTTAAAAAGT
65 TTTCAAAACTGTTGTTTAGAAGTGTAGTTTAAAATTTAACTGTTCAG-AATTATTGTTAAAAAGT
*
5479348 AAGTTTGAAAAGATAAAATAT-TCATTATAGACATTATGTTGTAAATTAAAAATATAAAATTTAA
129 AAGTTT--AAAG-TAAAA-ATCTCATTATAGACATTATATTGTAAATTAAAAATATAAAATTTAA
*
5479412 ATTATATTCACACTTATTAATACTATGATATATA
190 ATTATATTCACACTCATTAATACTATGATATATA
5479446 A
1 A
5479447 AATATATCAC
Statistics
Matches: 210, Mismatches: 10, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
222 1 0.00
223 75 0.36
224 1 0.00
225 126 0.60
226 5 0.02
227 2 0.01
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (223 bp):
ACTTTTCAAAAATGCGATAGAAAATAACTTTCAAAAGTGTTGGCAAGTACAGTAAAAAAAGAACT
TTCAAAACTGTTGTTTAGAAGTGTAGTTTAAAATTTAACTGTTCAGAATTATTGTTAAAAAGTAA
GTTTAAAGTAAAAATCTCATTATAGACATTATATTGTAAATTAAAAATATAAAATTTAAATTATA
TTCACACTCATTAATACTATGATATATA
Found at i:5479608 original size:23 final size:25
Alignment explanation
Indices: 5479557--5479609 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
5479547 AATGATTTTA
*
5479557 ATATTAAATTATTAAATAATAAATT
1 ATATTAAATTATAAAATAATAAATT
*
5479582 ATATTAAA-TATAAAAT-TTAAATT
1 ATATTAAATTATAAAATAATAAATT
5479605 ATATT
1 ATATT
5479610 TATTTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 11 0.42
24 7 0.27
25 8 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATTAAATTATAAAATAATAAATT
Found at i:5480511 original size:2 final size:2
Alignment explanation
Indices: 5480504--5480550 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
5480494 ATATTTAATT
5480504 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5480546 TA TA T
1 TA TA T
5480551 TCACCCTAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5481172 original size:2 final size:2
Alignment explanation
Indices: 5481167--5481207 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
5481157 TATATCAAAC
5481167 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5481208 AATCAAAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5483925 original size:22 final size:22
Alignment explanation
Indices: 5483900--5483949 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
5483890 TCAGGAGTTA
** *
5483900 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTACATGATATAATTC
* *
5483922 CAGGGGTTACATGATATAATTT
1 CAGGAGTTACATGATATAATTC
5483944 CAGGAG
1 CAGGAG
5483950 ATATAACAGC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.36
Consensus pattern (22 bp):
CAGGAGTTACATGATATAATTC
Found at i:5489136 original size:6 final size:6
Alignment explanation
Indices: 5489125--5489149 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5489115 TCGGCTCGGC
5489125 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
5489150 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:5503894 original size:173 final size:172
Alignment explanation
Indices: 5503586--5503930 Score: 609
Period size: 173 Copynumber: 2.0 Consensus size: 172
5503576 TTTATTATTA
5503586 TTTTTTAATAAAATCGGTAAAAATTTACAGGAAATATTATTTTTATCGTTTTGTTATTAATAGGC
1 TTTTTTAATAAAATCGGTAAAAATTTACAGGAAATATTATTTTTATCGTTTTGTTATTAATAGGC
*
5503651 GCTTTACCGGGTTTGGTAATATATCCAATAGAAAAAATAATATTTTAGATAGCGTTTTACCAGGT
66 GCTTTACCGGGTTTGGTAATATATCCAATAGAAAAAATAATATTTTAGATAGCGTTTTACCAGAT
*
5503716 ATATTACCAAGCTCGGTAAAGCGCTCATTAATAACAAAATCG
131 ATATTACCAAGCTCGATAAAGCGCTCATTAATAACAAAATCG
* * *
5503758 TTTTGTTATTAAAATCTGTAAAAATTTACAGGAAATATTATTTTTATCGTTTTGTTATTATTAGG
1 TTTT-TTAATAAAATCGGTAAAAATTTACAGGAAATATTATTTTTATCGTTTTGTTATTAATAGG
* *
5503823 CGCTTTACCGGGTTTGGTAATATATCCAATAGAAAAAATAATATTTTAGATAGTGTTTTATCAGA
65 CGCTTTACCGGGTTTGGTAATATATCCAATAGAAAAAATAATATTTTAGATAGCGTTTTACCAGA
*
5503888 TATATTACCAAGTTCGATAAAGCGCTCATTAATAACAAAATCG
130 TATATTACCAAGCTCGATAAAGCGCTCATTAATAACAAAATCG
5503931 GTATAAATAA
Statistics
Matches: 164, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
172 4 0.02
173 160 0.98
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (172 bp):
TTTTTTAATAAAATCGGTAAAAATTTACAGGAAATATTATTTTTATCGTTTTGTTATTAATAGGC
GCTTTACCGGGTTTGGTAATATATCCAATAGAAAAAATAATATTTTAGATAGCGTTTTACCAGAT
ATATTACCAAGCTCGATAAAGCGCTCATTAATAACAAAATCG
Found at i:5504578 original size:15 final size:15
Alignment explanation
Indices: 5504550--5504595 Score: 69
Period size: 14 Copynumber: 3.2 Consensus size: 15
5504540 AAAATTATTT
5504550 TTTATTTTAT-TATA
1 TTTATTTTATATATA
5504564 TTTATTTTATATATA
1 TTTATTTTATATATA
*
5504579 TTTATTTGA-ATATA
1 TTTATTTTATATATA
5504593 TTT
1 TTT
5504596 TATTGCACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTATTTTATATATA
Found at i:5504597 original size:15 final size:14
Alignment explanation
Indices: 5504549--5504599 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
5504539 TAAAATTATT
*
5504549 TTTTATTTTAT-TA
1 TTTTATTTAATATA
*
5504562 TATTTATTTTATATA
1 T-TTTATTTAATATA
5504577 TATTTATTTGAATATA
1 T-TTTATTT-AATATA
5504593 TTTTATT
1 TTTTATT
5504600 GCACTAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
13 1 0.03
14 10 0.29
15 17 0.50
16 6 0.18
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TTTTATTTAATATA
Found at i:5507721 original size:21 final size:21
Alignment explanation
Indices: 5507679--5507721 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5507669 TGAATATTCC
* **
5507679 TATGTGATATGAATAAGTGAA
1 TATGTGATAAGAATAAAAGAA
5507700 TATGTGATAAGAATAAAAGAA
1 TATGTGATAAGAATAAAAGAA
5507721 T
1 T
5507722 GCCCATGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.30
Consensus pattern (21 bp):
TATGTGATAAGAATAAAAGAA
Found at i:5509949 original size:21 final size:21
Alignment explanation
Indices: 5509907--5509949 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5509897 TGAAAATTCC
* **
5509907 TATGTGATATGAATAAGTGAA
1 TATGTGATAAGAATAAAAGAA
5509928 TATGTGATAAGAATAAAAGAA
1 TATGTGATAAGAATAAAAGAA
5509949 T
1 T
5509950 GCACATGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.30
Consensus pattern (21 bp):
TATGTGATAAGAATAAAAGAA
Found at i:5512600 original size:19 final size:19
Alignment explanation
Indices: 5512576--5512614 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
5512566 AGAAAAAAAA
*
5512576 TAAATAAAAAGTTCATAAT
1 TAAATAAAAACTTCATAAT
*
5512595 TAAATAAAAACTTTATAAT
1 TAAATAAAAACTTCATAAT
5512614 T
1 T
5512615 GCTGGTAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (19 bp):
TAAATAAAAACTTCATAAT
Found at i:5517341 original size:31 final size:33
Alignment explanation
Indices: 5517280--5517359 Score: 101
Period size: 32 Copynumber: 2.4 Consensus size: 33
5517270 TTTTCTAGCA
* *
5517280 ATTTTCATATTTTATAATTTTTAATAATTT-AAAC
1 ATTTTTATATTTT-T-ACTTTTAATAATTTAAAAC
*
5517314 ATTTTTATCTTTTTACTTTT-ATAATTTAAAAC
1 ATTTTTATATTTTTACTTTTAATAATTTAAAAC
5517346 ATTTTTATATTTTT
1 ATTTTTATATTTTT
5517360 TACGCAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 7 0.17
32 22 0.54
33 1 0.02
34 11 0.27
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (33 bp):
ATTTTTATATTTTTACTTTTAATAATTTAAAAC
Found at i:5517536 original size:3 final size:3
Alignment explanation
Indices: 5517523--5517574 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
5517513 TCTACAAAAA
*
5517523 TAT TAT T-T TAT TAT T-T ATAT TAT TAT TAT TAT TAT TATT TAA TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA-T TAT TAT
5517568 TAT TAT T
1 TAT TAT T
5517575 GAATAATTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 3 0.07
3 36 0.84
4 4 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5517962 original size:20 final size:20
Alignment explanation
Indices: 5517932--5517979 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
5517922 ATTTCTGCAC
*
5517932 CAAATCAAACCATGTCAGAA
1 CAAATCTAACCATGTCAGAA
*
5517952 CCAATCTAACCATGTCAGAA
1 CAAATCTAACCATGTCAGAA
5517972 CAAATCTA
1 CAAATCTA
5517980 CATCAAATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.27, G:0.08, T:0.19
Consensus pattern (20 bp):
CAAATCTAACCATGTCAGAA
Found at i:5518966 original size:18 final size:20
Alignment explanation
Indices: 5518943--5518987 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
5518933 CAATGTGTTG
5518943 TATATTGAT-GTATAA-TAT
1 TATATTGATGGTATAATTAT
*
5518961 TATATT-ATGGTTTAATTAT
1 TATATTGATGGTATAATTAT
5518980 TAT-TTGAT
1 TATATTGAT
5518988 CCTCCATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 2 0.09
18 13 0.57
19 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (20 bp):
TATATTGATGGTATAATTAT
Found at i:5519181 original size:29 final size:29
Alignment explanation
Indices: 5519110--5519200 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 29
5519100 ATATTTGTGG
* * * *
5519110 TTTAGCCCTTCAAATTTCTATTTTTACTA
1 TTTAGTCCTTTAAGTTTCTATTTTTGCTA
* * *
5519139 TTTTAATTCGTTAAGTTTCTATTTTTGCTA
1 -TTTAGTCCTTTAAGTTTCTATTTTTGCTA
* *
5519169 TTTAGTCCTTTAAGTTTTTGTTTTTGCTA
1 TTTAGTCCTTTAAGTTTCTATTTTTGCTA
5519198 TTT
1 TTT
5519201 TGGTCATTTA
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
29 27 0.55
30 22 0.45
ACGTcount: A:0.19, C:0.13, G:0.09, T:0.59
Consensus pattern (29 bp):
TTTAGTCCTTTAAGTTTCTATTTTTGCTA
Found at i:5532347 original size:26 final size:26
Alignment explanation
Indices: 5532317--5532368 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
5532307 ATCTTGCTTG
*
5532317 TACTAACTCGTTTTTCTCTTTTGTTT
1 TACTAACTCGGTTTTCTCTTTTGTTT
5532343 TACTAACTCGGTTTTCTCTTTTGTTT
1 TACTAACTCGGTTTTCTCTTTTGTTT
5532369 GTGTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.12, C:0.19, G:0.10, T:0.60
Consensus pattern (26 bp):
TACTAACTCGGTTTTCTCTTTTGTTT
Found at i:5534245 original size:19 final size:19
Alignment explanation
Indices: 5534221--5534284 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
5534211 AAATAAAGAG
5534221 AAAAGAAAGAGCAAAGAAA
1 AAAAGAAAGAGCAAAGAAA
*
5534240 AAAAGAAAGCGCAAAGAAA
1 AAAAGAAAGAGCAAAGAAA
*
5534259 AAAA-AAACA--AAAGAAA
1 AAAAGAAAGAGCAAAGAAA
*
5534275 AAAACAAAGA
1 AAAAGAAAGA
5534285 AAAAGGGACA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
16 11 0.28
17 4 0.10
18 3 0.08
19 22 0.55
ACGTcount: A:0.77, C:0.08, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAGAAAGAGCAAAGAAA
Found at i:5534277 original size:13 final size:12
Alignment explanation
Indices: 5534259--5534288 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
5534249 CGCAAAGAAA
5534259 AAAAAAACAAAAG
1 AAAAAAAC-AAAG
5534272 AAAAAAACAAAG
1 AAAAAAACAAAG
5534284 AAAAA
1 AAAAA
5534289 GGGACATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.87, C:0.07, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAG
Found at i:5535592 original size:36 final size:37
Alignment explanation
Indices: 5535538--5535660 Score: 115
Period size: 36 Copynumber: 3.6 Consensus size: 37
5535528 TAAGAAAACT
5535538 TTGAGATCA-TTTCCCTTGAAACGAATTTTGTCTCTC
1 TTGAGATCAGTTTCCCTTGAAACGAATTTTGTCTCTC
* **
5535574 TTGAGA-CAGTTTCTCTTGAAA--AA---TG-AACT-
1 TTGAGATCAGTTTCCCTTGAAACGAATTTTGTCTCTC
*
5535603 TTGAGATC-GTTTCCCTTGAAACGAATTTTATCTCTC
1 TTGAGATCAGTTTCCCTTGAAACGAATTTTGTCTCTC
* *
5535639 TTGAGA-CAATTTCTCTTGAAAC
1 TTGAGATCAGTTTCCCTTGAAAC
5535661 ATAATCTTTG
Statistics
Matches: 68, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
29 18 0.26
30 3 0.04
31 4 0.06
34 3 0.04
35 5 0.07
36 35 0.51
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (37 bp):
TTGAGATCAGTTTCCCTTGAAACGAATTTTGTCTCTC
Found at i:5535616 original size:65 final size:63
Alignment explanation
Indices: 5535494--5535887 Score: 350
Period size: 65 Copynumber: 6.1 Consensus size: 63
5535484 TGTTTTCTCA
* * * * * *
5535494 AAACAAACTTTGTCTCACTTAAGACAGTATTC-CTTAAGAA-AACTTTGAGATCATTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAAT-TTCTCTTAAAAATAACTTTGAGATCGTTTCCCTTG
* *
5535556 AAACGAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAAATGAACTTTGAGATCGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAATTTCTCTT-AAAAAT-AACTTTGAGATCGTTTCCCTTG
* * * * * *
5535621 AAACGAATTTTATCTCTCTTGAGACAATTTCTCTTGAAACATAATCTTTGAG-CCTTTTTCTCTT
1 AAACAAATTTTGTCTCTCTTGAGACAATTTCTCTT-AAAAATAA-CTTTGAGATC-GTTTCCCTT
*
5535685 AA
63 -G
* * * * * *
5535687 AAAAAAATTTTGTCTCTCTTGAAATAGTTTCACTTGAAACAAAACCATCTTTGAGATCGTTTCCC
1 AAACAAATTTTGTCTCTCTTGAGACAATTTCTCTT-AAA-AATA--A-CTTTGAGATCGTTTCCC
5535752 TTG
61 TTG
*
5535755 AAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTAAAATACCTATCTTTGAG-TCGTTTCCCTT
1 AAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTAAAA-A--TAACTTTGAGATCGTTTCCCTT
5535819 G
63 G
* * * * *
5535820 AAACAAA-TTT-TCTCTCTTGAGACAACTTCTCTTAAAGCATCATCTTTGAGTTTGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTAAA-AAT-AACTTTGAGATCGTTTCCCTTG
5535883 AAACA
1 AAACA
5535888 TTATCCCTAA
Statistics
Matches: 279, Mismatches: 36, Indels: 33
0.80 0.10 0.09
Matches are distributed among these distances:
61 4 0.01
62 36 0.13
63 46 0.16
64 6 0.02
65 93 0.33
66 40 0.14
67 6 0.02
68 30 0.11
69 17 0.06
70 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (63 bp):
AAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTAAAAATAACTTTGAGATCGTTTCCCTTG
Found at i:5536121 original size:131 final size:131
Alignment explanation
Indices: 5535887--5536242 Score: 401
Period size: 131 Copynumber: 2.7 Consensus size: 131
5535877 CCCTTGAAAC
* * * * *
5535887 ATTATCCCTAAAGATAGCCTA-CAATCCTCATCATGTAGGAATCGTGTCATCCACTGACCAAACC
1 ATTATCCCTAAAGATAGACTATC-ATCCTCATCACGTAGGAACCGTGTCATCCACTAACCAGACC
* * * * * * *
5535951 TCCTCATCACGTAGGAGCCATGTCACCCCTAGATAACCAGTCGTCCTTATCACGTAGGAATCGTG
65 TCCTTATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGCCATCCTCATCACGTAAGAACCGTG
5536016 TT
130 TT
* *
5536018 ATTATCCCTAAAGATAGACTATCATCCTCATCACGTAGGAACCATGTTATCCACTAACCAGACCT
1 ATTATCCCTAAAGATAGACTATCATCCTCATCACGTAGGAACCGTGTCATCCACTAACCAGACCT
* * **
5536083 TCTTATCATGTAGGAGCCGTGTCACCCCTAGATAACCAGCCATCCTCATTGCGTAAGAACCGTGT
66 CCTTATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGCCATCCTCATCACGTAAGAACCGTGT
5536148 T
131 T
* * * * * *
5536149 ATCAACCTCCCTACAGAT-GGCATGTCATCCTCATCACGTAGGAACCGTGTCATCCACCAACAAG
1 AT-TA--TCCCTAAAGATAGAC-TATCATCCTCATCACGTAGGAACCGTGTCATCCACTAACCAG
* * **
5536213 ATCTCCTTATCACATAGGAGTTGTGTCACC
62 ACCTCCTTATCACGTAGGAGCCGTGTCACC
5536243 ATTAGACAAC
Statistics
Matches: 188, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
131 113 0.60
132 2 0.01
133 2 0.01
134 71 0.38
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (131 bp):
ATTATCCCTAAAGATAGACTATCATCCTCATCACGTAGGAACCGTGTCATCCACTAACCAGACCT
CCTTATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGCCATCCTCATCACGTAAGAACCGTGT
T
Found at i:5538681 original size:64 final size:63
Alignment explanation
Indices: 5538595--5538736 Score: 169
Period size: 64 Copynumber: 2.2 Consensus size: 63
5538585 ATTGTTTAAG
* * * *
5538595 ATGCATCGATGCACATGCAGTGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTT
1 ATGCATCGATGCATAAGCAGTGCATCGATGCATCCAA-TTAAAAA-AAAACATAGAATAGGATTT
* * * *
5538659 ATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATAGAATAGGATTT
1 ATGCATCGATGCATAAGCAGTGCATCGATGCAT-CCAATTAAAAAAAAACATAGAATAGGATTT
*
5538723 ATACATCGATGCAT
1 ATGCATCGATGCAT
5538737 GGTGTAGTGC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
64 60 0.90
65 6 0.09
66 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (63 bp):
ATGCATCGATGCATAAGCAGTGCATCGATGCATCCAATTAAAAAAAAACATAGAATAGGATTT
Found at i:5539442 original size:103 final size:102
Alignment explanation
Indices: 5539217--5539434 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 102
5539207 GTAGAGGGTC
5539217 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTC-GGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
*
5539282 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
65 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
5539320 TATGTAGTCATTCGTGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCG-GACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
5539385 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
65 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
5539423 TATGTGGTCCTT
1 TATGTGGTCCTT
5539435 ATGGACATTA
Statistics
Matches: 109, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
102 1 0.01
103 108 0.99
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (102 bp):
TATGTGGTCCTTCGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACT
TGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:5539509 original size:23 final size:24
Alignment explanation
Indices: 5539459--5539513 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
5539449 ATAGCACTAC
5539459 GGTGCAATTCTACGCGGCACTCCA
1 GGTGCAATTCTACGCGGCACTCCA
* *
5539483 -GTGCAATTCTACGTGGCACT-TA
1 GGTGCAATTCTACGCGGCACTCCA
5539505 GGTGCAATT
1 GGTGCAATT
5539514 ATATGAGCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.27
Consensus pattern (24 bp):
GGTGCAATTCTACGCGGCACTCCA
Found at i:5546408 original size:103 final size:103
Alignment explanation
Indices: 5546182--5546400 Score: 420
Period size: 103 Copynumber: 2.1 Consensus size: 103
5546172 GTTAGAGGGT
*
5546182 ATATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATA
1 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATA
*
5546247 CTTGATCTTTGGCATATGTATATGATTCTTAAGGAATG
66 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
5546285 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATA
1 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATA
5546350 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
66 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
5546388 ATATGTGGTCCTT
1 ATATGTGGTCCTT
5546401 ATGGACATTA
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (103 bp):
ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATA
CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
Found at i:5546451 original size:23 final size:23
Alignment explanation
Indices: 5546417--5546479 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
5546407 ATTATTATAT
5546417 GGCACTAC-GGTGCAATTCTAAGC
1 GGCACT-CTGGTGCAATTCTAAGC
* *
5546440 GGCACTCTGGTGCAATTCTACGT
1 GGCACTCTGGTGCAATTCTAAGC
5546463 GGCACT-TAGGTGCAATT
1 GGCACTCT-GGTGCAATT
5546480 ATATGAGTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
22 2 0.06
23 34 0.94
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTCTGGTGCAATTCTAAGC
Found at i:5547209 original size:29 final size:30
Alignment explanation
Indices: 5547189--5547251 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
5547179 AAGTTTTTGT
5547189 TTTTACT-ATTTAGTCCTTTAAGTTTCTAA
1 TTTTACTGATTTAGTCCTTTAAGTTTCTAA
* *
5547218 TTTTACTGTTTTAGTCCTTTAAGTTTCTAT
1 TTTTACTGATTTAGTCCTTTAAGTTTCTAA
5547248 TTTT
1 TTTT
5547252 GTTATTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.19, C:0.13, G:0.08, T:0.60
Consensus pattern (30 bp):
TTTTACTGATTTAGTCCTTTAAGTTTCTAA
Found at i:5547233 original size:30 final size:29
Alignment explanation
Indices: 5547189--5547269 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
5547179 AAGTTTTTGT
*
5547189 TTTTACTATTTAGTCCTTTAAGTTTCTAA
1 TTTTACTTTTTAGTCCTTTAAGTTTCTAA
*
5547218 TTTTACTGTTTTAGTCCTTTAAGTTTCTAT
1 TTTTACT-TTTTAGTCCTTTAAGTTTCTAA
** *
5547248 TTTTGTTATTTTTGTCCTTTAA
1 TTTTACT-TTTTAGTCCTTTAA
5547270 ATCGAATATG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
29 7 0.16
30 38 0.84
ACGTcount: A:0.19, C:0.12, G:0.09, T:0.60
Consensus pattern (29 bp):
TTTTACTTTTTAGTCCTTTAAGTTTCTAA
Found at i:5550090 original size:21 final size:20
Alignment explanation
Indices: 5550036--5550082 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
5550026 TAACGGGGAA
*
5550036 ATCGCAACGCAAAAATGGCT
1 ATCGCAATGCAAAAATGGCT
*
5550056 ATCGTAATGCAAAAATGGCT
1 ATCGCAATGCAAAAATGGCT
5550076 ATCGCAA
1 ATCGCAA
5550083 CTAGAAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAATGCAAAAATGGCT
Found at i:5550121 original size:14 final size:14
Alignment explanation
Indices: 5550102--5550154 Score: 61
Period size: 14 Copynumber: 3.4 Consensus size: 14
5550092 CGCAATGCGA
5550102 TGCGATTTTCTCGT
1 TGCGATTTTCTCGT
5550116 TGCGATTTTCATTTCGCAT
1 TGCGATTTTC---TCG--T
5550135 TGCGATTTTCTCGT
1 TGCGATTTTCTCGT
5550149 TGCGAT
1 TGCGAT
5550155 AGTCAGTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
14 17 0.50
16 3 0.09
17 3 0.09
19 11 0.32
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (14 bp):
TGCGATTTTCTCGT
Found at i:5551782 original size:41 final size:42
Alignment explanation
Indices: 5551737--5551815 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
5551727 CGATAACAGT
* *
5551737 GGCCTCTTGAATG-GTGGGGGGGACTCTTGAGGGATGATAGG
1 GGCCTCTTGAACGAGTGGAGGGGACTCTTGAGGGATGATAGG
*
5551778 GGCCTCTTGAACGATTGGAGGGGACTCTTGAGGGATGA
1 GGCCTCTTGAACGAGTGGAGGGGACTCTTGAGGGATGA
5551816 CAGGTGAGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 12 0.35
42 22 0.65
ACGTcount: A:0.19, C:0.14, G:0.43, T:0.24
Consensus pattern (42 bp):
GGCCTCTTGAACGAGTGGAGGGGACTCTTGAGGGATGATAGG
Found at i:5551784 original size:21 final size:21
Alignment explanation
Indices: 5551755--5551815 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
5551745 GAATGGTGGG
*
5551755 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
5551776 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
5551797 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
5551816 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:5552205 original size:20 final size:20
Alignment explanation
Indices: 5552182--5552249 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
5552172 AAACTTACTT
5552182 TCGCAACGCGGAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
5552202 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
5552222 TCGCAACGTGGAAATGAAAA
1 TCGCAACGCGGAAATGACTA
5552242 TCGCAACG
1 TCGCAACG
5552250 ACAAAATCGC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.24, G:0.26, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:5552206 original size:40 final size:40
Alignment explanation
Indices: 5552162--5552248 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 40
5552152 TAGTTTACTT
* * **
5552162 TCGCAACAC-GAAACTTACTTTCGCAACGCGGAAATGACTA
1 TCGCAACACGGAAA-TGACTATCGCAACGCGGAAATGAAAA
* * *
5552202 TCGCAACGCGGAAATGGCTATCGCAACGTGGAAATGAAAA
1 TCGCAACACGGAAATGACTATCGCAACGCGGAAATGAAAA
5552242 TCGCAAC
1 TCGCAAC
5552249 GACAAAATCG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 35 0.90
41 4 0.10
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (40 bp):
TCGCAACACGGAAATGACTATCGCAACGCGGAAATGAAAA
Found at i:5552257 original size:14 final size:14
Alignment explanation
Indices: 5552238--5552296 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
5552228 CGTGGAAATG
5552238 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
5552252 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
5552268 ATGAAAGTCGCAACGAC
1 A--AAA-TCGCAACGAC
5552285 AAAATCGCAACG
1 AAAATCGCAACG
5552297 CGAAACGCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:5552271 original size:33 final size:33
Alignment explanation
Indices: 5552221--5552312 Score: 130
Period size: 33 Copynumber: 2.8 Consensus size: 33
5552211 GGAAATGGCT
*
5552221 ATCGCAACGTGGAAATGAAAATCGCAACGACAAA
1 ATCGCAACG-CGAAATGAAAATCGCAACGACAAA
* *
5552255 ATCGCAATGCGAAATGAAAGTCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
* *
5552288 ATCGCAACGCGAAACGCAAATCGCA
1 ATCGCAACGCGAAATGAAAATCGCA
5552313 TTGCGATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 43 0.84
34 8 0.16
ACGTcount: A:0.45, C:0.24, G:0.21, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:5552330 original size:19 final size:18
Alignment explanation
Indices: 5552308--5552404 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 18
5552298 GAAACGCAAA
5552308 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTT-ATT
*
5552327 TCGCGTTGCGATTTTA--
1 TCGCATTGCGATTTTATT
5552343 TCG--TTGCGATTTTTATT
1 TCGCATTGCGA-TTTTATT
*
5552360 TCGCATTGCGA-TTT-TG
1 TCGCATTGCGATTTTATT
5552376 T--CATTGCGATTTTCATT
1 TCGCATTGCGATTTT-ATT
*
5552393 TAGCATTGCGAT
1 TCGCATTGCGAT
5552405 AGCCATTTCC
Statistics
Matches: 65, Mismatches: 3, Indels: 20
0.74 0.03 0.23
Matches are distributed among these distances:
14 14 0.22
15 8 0.12
16 5 0.08
17 8 0.12
18 1 0.02
19 29 0.45
ACGTcount: A:0.15, C:0.18, G:0.20, T:0.47
Consensus pattern (18 bp):
TCGCATTGCGATTTTATT
Found at i:5552355 original size:33 final size:33
Alignment explanation
Indices: 5552311--5552404 Score: 143
Period size: 33 Copynumber: 2.8 Consensus size: 33
5552301 ACGCAAATCG
*
5552311 CATTGCGATTTTCATTTCGCGTTGCGATTTTAT
1 CATTGCGATTTTCATTTCGCATTGCGATTTTAT
* * *
5552344 CGTTGCGATTTTTATTTCGCATTGCGATTTTGT
1 CATTGCGATTTTCATTTCGCATTGCGATTTTAT
*
5552377 CATTGCGATTTTCATTTAGCATTGCGAT
1 CATTGCGATTTTCATTTCGCATTGCGAT
5552405 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.16, C:0.17, G:0.19, T:0.48
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCATTGCGATTTTAT
Found at i:5552358 original size:15 final size:14
Alignment explanation
Indices: 5552330--5552388 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
5552320 TTTCATTTCG
5552330 CGTTGCGATTTTAT
1 CGTTGCGATTTTAT
5552344 CGTTGCGATTTTTATTT
1 CGTTGCGA-TTTTA--T
*
5552361 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTAT
*
5552377 CATTGCGATTTT
1 CGTTGCGATTTT
5552389 CATTTAGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 5 0.13
16 2 0.05
17 3 0.08
18 4 0.11
19 6 0.16
ACGTcount: A:0.14, C:0.15, G:0.20, T:0.51
Consensus pattern (14 bp):
CGTTGCGATTTTAT
Found at i:5552423 original size:20 final size:20
Alignment explanation
Indices: 5552398--5552443 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
5552388 TCATTTAGCA
5552398 TTGCGATAGCCATTTCCACG
1 TTGCGATAGCCATTTCCACG
* *
5552418 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGCCATTTCCACG
5552438 TTGCGA
1 TTGCGA
5552444 AAGTAAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCACG
Found at i:5553013 original size:18 final size:18
Alignment explanation
Indices: 5552990--5553037 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
5552980 CGGGTCGATC
5552990 AGGTGATGGCTCTAGGTG
1 AGGTGATGGCTCTAGGTG
* *
5553008 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTAGGTG
5553026 AGGTGATGGCTC
1 AGGTGATGGCTC
5553038 CCGAAGTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.12, G:0.44, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTAGGTG
Found at i:5554429 original size:14 final size:14
Alignment explanation
Indices: 5554410--5554449 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
5554400 AATAAAATCG
5554410 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
5554424 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
5554438 CGTTGCGATTTT
1 CGTTGCGATTTT
5554450 CATTTCGCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.07, C:0.15, G:0.28, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:5554932 original size:20 final size:20
Alignment explanation
Indices: 5554902--5554974 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
5554892 GATTATGTAT
*
5554902 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* * *
5554922 TATTGCGTTGCGAAATTAAG
1 TATCGCGTTGCGAAAGTCAG
*
5554942 TATCGAGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
5554962 TATCGCGTTGCGA
1 TATCGCGTTGCGA
5554975 TTTTGTATTA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:5564575 original size:121 final size:121
Alignment explanation
Indices: 5564361--5564671 Score: 516
Period size: 121 Copynumber: 2.6 Consensus size: 121
5564351 TAGGTAAACT
* * * * **
5564361 ACACATTTAATACTTGAACTATCAGTTTTGGTCTATTTTAGTATTTAAACTTTCAATTTTTCTAA
1 ACACATTTAATATTTAAACTATCAATTTTGATCTATTTTAGTACATAAACTTTCAATTTTTCTAA
* *
5564426 AATTGTATCTAACGTTTAGTTTTTATTTCACTTTAGTATCTGTCGTTAAAAATTTA
66 AATTGTATCTAACGTTTAGTTTTCATTTCACTTTAGTATCCGTCGTTAAAAATTTA
*
5564482 ACACATTTAGTATTTAAACTATCAATTTTGATCTATTTTAGTACATAAACTTTCAATTTTTCTAA
1 ACACATTTAATATTTAAACTATCAATTTTGATCTATTTTAGTACATAAACTTTCAATTTTTCTAA
5564547 AATTGTATCTAACGTTTAGTTTTCATTTCACTTTAGTATCCGTCGTTAAAAATTTA
66 AATTGTATCTAACGTTTAGTTTTCATTTCACTTTAGTATCCGTCGTTAAAAATTTA
*
5564603 ACACATTTAATATTTAAACTATCAATTTTGATCTATTTTAATACATAAACTTTCAATTTTT-TCA
1 ACACATTTAATATTTAAACTATCAATTTTGATCTATTTTAGTACATAAACTTTCAATTTTTCT-A
5564667 AAATT
65 AAATT
5564672 TAACATATTT
Statistics
Matches: 178, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
120 1 0.01
121 177 0.99
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (121 bp):
ACACATTTAATATTTAAACTATCAATTTTGATCTATTTTAGTACATAAACTTTCAATTTTTCTAA
AATTGTATCTAACGTTTAGTTTTCATTTCACTTTAGTATCCGTCGTTAAAAATTTA
Found at i:5570386 original size:18 final size:18
Alignment explanation
Indices: 5570344--5570398 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
5570334 AAATATGGAG
* *
5570344 GCACTTGTTCTTCGAGCT
1 GCACTTGTTCTTCGTGTT
5570362 GCACTTGTTCTTCGTGTT
1 GCACTTGTTCTTCGTGTT
*
5570380 G-AGCTTGTTCCTCGTGTT
1 GCA-CTTGTTCTTCGTGTT
5570398 G
1 G
5570399 TTCCGGCTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.07, C:0.24, G:0.25, T:0.44
Consensus pattern (18 bp):
GCACTTGTTCTTCGTGTT
Found at i:5572051 original size:19 final size:18
Alignment explanation
Indices: 5572024--5572085 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 18
5572014 AAAACCATAA
*
5572024 CCCCAAGGGGTTATCGATT
1 CCCCTAGGGG-TATCGATT
* *
5572043 CCCCTAGGGGGAATCGGTT
1 CCCCTA-GGGGTATCGATT
5572062 CCCCTTCAAGGGGTATCGATT
1 CCCC-T--AGGGGTATCGATT
5572083 CCC
1 CCC
5572086 TATGCCTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 15 0.44
20 5 0.15
21 13 0.38
22 1 0.03
ACGTcount: A:0.18, C:0.31, G:0.27, T:0.24
Consensus pattern (18 bp):
CCCCTAGGGGTATCGATT
Found at i:5572079 original size:21 final size:20
Alignment explanation
Indices: 5572027--5572085 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
5572017 ACCATAACCC
5572027 CAAGGGGTTATCGATTCCCCT
1 CAAGGGG-TATCGATTCCCCT
* * *
5572048 -AGGGGGAATCGGTTCCCCTT
1 CAAGGGGTATCGATTCCCC-T
5572068 CAAGGGGTATCGATTCCC
1 CAAGGGGTATCGATTCCC
5572086 TATGCCTTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 10 0.33
20 6 0.20
21 14 0.47
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.25
Consensus pattern (20 bp):
CAAGGGGTATCGATTCCCCT
Found at i:5575941 original size:22 final size:21
Alignment explanation
Indices: 5575899--5575938 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5575889 GAGTTTATTT
*
5575899 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
5575920 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
5575939 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:5581607 original size:10 final size:11
Alignment explanation
Indices: 5581582--5581606 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5581572 CTATCGACGA
5581582 TTTTATTTATT
1 TTTTATTTATT
5581593 TTTTATTTATT
1 TTTTATTTATT
5581604 TTT
1 TTT
5581607 AGATGCAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:5584469 original size:5 final size:5
Alignment explanation
Indices: 5584430--5584483 Score: 63
Period size: 5 Copynumber: 10.8 Consensus size: 5
5584420 AGGGGCATGA
* * * * *
5584430 GTTGA GTTGG GTTGG GTTGA GTTGG GTTGA GTTGG GTTGG ATTGG ATTGG
1 GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG
5584480 GTTG
1 GTTG
5584484 AGTTAGATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.09, C:0.00, G:0.50, T:0.41
Consensus pattern (5 bp):
GTTGG
Found at i:5584626 original size:17 final size:18
Alignment explanation
Indices: 5584595--5584636 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
5584585 ATCTGATTTG
5584595 AAATAATTATATTT-ATAA
1 AAAT-ATTATATTTAATAA
*
5584613 AAATATTATTTTTAAATAA
1 AAATATTATATTT-AATAA
5584632 AAATA
1 AAATA
5584637 GGATCTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATTATATTTAATAA
Found at i:5586540 original size:10 final size:9
Alignment explanation
Indices: 5586526--5586555 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
5586516 TTATTTTGGG
5586526 ATTTTTTTT
1 ATTTTTTTT
5586535 ATTTTTTTT
1 ATTTTTTTT
*
5586544 ATTTTGTTT
1 ATTTTTTTT
5586553 ATT
1 ATT
5586556 CCTAAATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:5591730 original size:15 final size:16
Alignment explanation
Indices: 5591695--5591737 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
5591685 AATGGGTGAG
5591695 ATTATTTTGATTTATT
1 ATTATTTTGATTTATT
* *
5591711 TTTATTTTTA-TTATT
1 ATTATTTTGATTTATT
5591726 ATTATTTT-ATTT
1 ATTATTTTGATTT
5591738 TCTTCCCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 1 0.04
15 14 0.61
16 8 0.35
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (16 bp):
ATTATTTTGATTTATT
Found at i:5592448 original size:60 final size:59
Alignment explanation
Indices: 5592322--5592435 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
5592312 ATAGTTGGAT
* * ** * *
5592322 GATCATTTTGTAACTTTTAATAGTTGAGGACTCAACAAAGTAACATTTTATAATCGAAA
1 GATCATTTTATAACTTTTAATAGTCGAAAACTCAACAAAATAACATTCTATAATCGAAA
* *
5592381 GAACATTTTATAACTTTTAATAGTCGAAAAACTCAACAAAATAATATTCTATAAT
1 GATCATTTTATAACTTTTAATAGTCG-AAAACTCAACAAAATAACATTCTATAAT
5592436 TGAGGGATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
59 23 0.50
60 23 0.50
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (59 bp):
GATCATTTTATAACTTTTAATAGTCGAAAACTCAACAAAATAACATTCTATAATCGAAA
Found at i:5592457 original size:60 final size:59
Alignment explanation
Indices: 5592322--5592457 Score: 148
Period size: 60 Copynumber: 2.3 Consensus size: 59
5592312 ATAGTTGGAT
* ** * *
5592322 GATCATTTTGTAACTTTTAATAGTTGAGGACTCAACAAAGTAACATTTTATAATCGAAA
1 GATCATTTTGTAACTTTTAATAGTCGAAAACTCAACAAAATAACATTCTATAATCGAAA
* * * * **
5592381 GAACATTTTATAACTTTTAATAGTCGAAAAACTCAACAAAATAATATTCTATAATTGAGG
1 GATCATTTTGTAACTTTTAATAGTCG-AAAACTCAACAAAATAACATTCTATAATCGAAA
5592441 GATCATTTCTGT-ACTTT
1 GATCATTT-TGTAACTTT
5592458 ACCATCATTA
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
59 23 0.37
60 37 0.60
61 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (59 bp):
GATCATTTTGTAACTTTTAATAGTCGAAAACTCAACAAAATAACATTCTATAATCGAAA
Found at i:5596143 original size:21 final size:21
Alignment explanation
Indices: 5596127--5596344 Score: 192
Period size: 21 Copynumber: 10.6 Consensus size: 21
5596117 GTGTTGCATT
5596127 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
5596148 TCGTGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
5596169 TCGTGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
5596190 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
5596210 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
5596231 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
5596251 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
5596272 TCGCGTTGAGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
* ** **
5596292 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
*
5596312 TCGCGTTGCAATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
5596333 TCGCGTTGCGAT
1 TCGCGTTGCGAT
5596345 TTTCTATTTC
Statistics
Matches: 158, Mismatches: 36, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
20 63 0.40
21 95 0.60
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:5596230 original size:41 final size:41
Alignment explanation
Indices: 5596123--5596303 Score: 281
Period size: 41 Copynumber: 4.4 Consensus size: 41
5596113 ATTCGTGTTG
* * *
5596123 CATTTCGCGTTGCGATAGTTGAAAATCGTGTTGCGATAGTTG
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTC
* ** *
5596165 AAAATCGTGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
5596206 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
5596247 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGAGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
5596288 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
5596304 TTTCCATTTC
Statistics
Matches: 127, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
41 95 0.75
42 32 0.25
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:5596291 original size:82 final size:83
Alignment explanation
Indices: 5596123--5596344 Score: 295
Period size: 82 Copynumber: 2.7 Consensus size: 83
5596113 ATTCGTGTTG
* * *
5596123 CATTTCGCGTTGCGATAGTTGAAAATCGTGTTGCGATAGTTGAAAATCGTGTTGCGATAGTTGAA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTCAAAATCGCGTTGCGATAGTTGAA
*
5596188 AATCGCGTTGCGATTTTC
66 AATCGCGTTGAGATTTTC
* * **
5596206 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTTGAA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTCAAAATCGCGTTGCGATAGTTGAA
5596270 AATCGCGTTGAGATTTTC
66 AATCGCGTTGAGATTTTC
* ** ** * *
5596288 CATTTCGCGTTGCGAT-TTTCCATTTCGCGTTGCAATAGTTGAAAATCGCGTTGCGAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTCAAAATCGCGTTGCGAT
5596345 TTTCTATTTC
Statistics
Matches: 119, Mismatches: 19, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
81 14 0.12
82 69 0.58
83 36 0.30
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.36
Consensus pattern (83 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTCAAAATCGCGTTGCGATAGTTGAA
AATCGCGTTGAGATTTTC
Found at i:5596296 original size:61 final size:61
Alignment explanation
Indices: 5596231--5596364 Score: 241
Period size: 61 Copynumber: 2.2 Consensus size: 61
5596221 TAGTTGAAAA
*
5596231 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGAGATTTTCCATT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCAATAGTTGAAAATCGCGTTGAGATTTTCCATT
* *
5596292 TCGCGTTGCGATTTTCCATTTCGCGTTGCAATAGTTGAAAATCGCGTTGCGATTTTCTATT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCAATAGTTGAAAATCGCGTTGAGATTTTCCATT
5596353 TCGCGTTGCGAT
1 TCGCGTTGCGAT
5596365 AGTCTACAGT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 70 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (61 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCAATAGTTGAAAATCGCGTTGAGATTTTCCATT
Found at i:5596311 original size:102 final size:103
Alignment explanation
Indices: 5596152--5596367 Score: 344
Period size: 102 Copynumber: 2.1 Consensus size: 103
5596142 TGAAAATCGT
* * *
5596152 GTTGCGATAGTTGAAAATCGTGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTT
1 GTTGCGATAGTTGAAAATCGCGTTGAGATAGTTCAAAATCGCGTTGCGATTTTCCATTTCGCGTT
*
5596217 GCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGC
66 GCAATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGC
* * **
5596255 GTTGCGATAGTTGAAAATCGCGTTGAGAT-TTTCCATTTCGCGTTGCGATTTTCCATTTCGCGTT
1 GTTGCGATAGTTGAAAATCGCGTTGAGATAGTTCAAAATCGCGTTGCGATTTTCCATTTCGCGTT
*
5596319 GCAATAGTTGAAAATCGCGTTGCGATTTTCTATTTCGC
66 GCAATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGC
5596357 GTTGCGATAGT
1 GTTGCGATAGT
5596368 CTACAGTTGT
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
102 77 0.74
103 27 0.26
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (103 bp):
GTTGCGATAGTTGAAAATCGCGTTGAGATAGTTCAAAATCGCGTTGCGATTTTCCATTTCGCGTT
GCAATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGC
Found at i:5596384 original size:22 final size:22
Alignment explanation
Indices: 5596356--5596468 Score: 112
Period size: 22 Copynumber: 5.4 Consensus size: 22
5596346 TTCTATTTCG
5596356 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
** * *
5596378 CGTTGCGATTTTCCA-AATT-T
1 CGTTGCGATAGTCTACAGTTGT
5596398 -GTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
** * *
5596419 CGTTGCGATTTTCCA-AATT-T
1 CGTTGCGATAGTCTACAGTTGT
5596439 -GTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
5596460 CGTTGCGAT
1 CGTTGCGAT
5596469 TTTCCAAATT
Statistics
Matches: 69, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
19 22 0.32
20 8 0.12
21 8 0.12
22 31 0.45
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.40
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:5596402 original size:41 final size:41
Alignment explanation
Indices: 5596357--5596490 Score: 259
Period size: 41 Copynumber: 3.3 Consensus size: 41
5596347 TCTATTTCGC
5596357 GTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTT
1 GTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTT
5596398 GTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTT
1 GTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTT
*
5596439 GTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTC
1 GTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTT
5596480 GTTGCGATAGT
1 GTTGCGATAGT
5596491 TAAAAAAAAG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 92 1.00
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.40
Consensus pattern (41 bp):
GTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTT
Found at i:5596402 original size:82 final size:81
Alignment explanation
Indices: 5596295--5596495 Score: 241
Period size: 82 Copynumber: 2.4 Consensus size: 81
5596285 TTCCATTTCG
* *
5596295 CGTTGCGATTTTCC--ATTTCGCGTTGCAATAGTTGAAAATCG-CGTTGCGATTTT-C-TATTTC
1 CGTTGCGATTTTCCAAATTT---GTTGCGATAGTT-AAAATCGTCGTTGCGATTTTCCAAATTT-
5596355 GCGTTGCGATAGTCTACAGTTGT
61 --GTTGCGATAGTCTACAGTTGT
* * *
5596378 CGTTGCGATTTTCCAAATTTGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTTGTTG
1 CGTTGCGATTTTCCAAATTTGTTGCGATAGT-TAAAATCGTCGTTGCGATTTTCCAAATTTGTTG
5596443 CGATAGTCTACAGTTGT
65 CGATAGTCTACAGTTGT
*
5596460 CGTTGCGATTTTCCAAATTCGTTGCGATAGTTAAAA
1 CGTTGCGATTTTCCAAATTTGTTGCGATAGTTAAAA
5596496 AAAAGATTTT
Statistics
Matches: 104, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
81 3 0.03
82 65 0.62
83 27 0.26
84 1 0.01
85 8 0.08
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (81 bp):
CGTTGCGATTTTCCAAATTTGTTGCGATAGTTAAAATCGTCGTTGCGATTTTCCAAATTTGTTGC
GATAGTCTACAGTTGT
Found at i:5596403 original size:19 final size:19
Alignment explanation
Indices: 5596379--5596487 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 19
5596369 TACAGTTGTC
5596379 GTTGCGATTTTCCAAATTT
1 GTTGCGATTTTCCAAATTT
** * *
5596398 GTTGCGATAGTCTACAGTTGT
1 GTTGCGATTTTCCA-AATT-T
5596419 CGTTGCGATTTTCCAAATTT
1 -GTTGCGATTTTCCAAATTT
** * *
5596439 GTTGCGATAGTCTACAGTTGT
1 GTTGCGATTTTCCA-AATT-T
*
5596460 CGTTGCGATTTTCCAAATTC
1 -GTTGCGATTTTCCAAATTT
5596480 GTTGCGAT
1 GTTGCGAT
5596488 AGTTAAAAAA
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
19 30 0.45
20 7 0.10
21 8 0.12
22 22 0.33
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.41
Consensus pattern (19 bp):
GTTGCGATTTTCCAAATTT
Found at i:5597162 original size:6 final size:6
Alignment explanation
Indices: 5597151--5597177 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5597141 TCTCGTCTCG
5597151 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
5597178 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:5597281 original size:22 final size:22
Alignment explanation
Indices: 5597253--5597327 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
5597243 TCTTTTTTTA
5597253 ACTATCGCAACGACAACTGTAG
1 ACTATCGCAACGACAACTGTAG
* *
5597275 ACTATCGCAAC-A-AA-TTTGG
1 ACTATCGCAACGACAACTGTAG
**
5597294 AAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGACAACTGTAG
5597316 ACTATCGCAACG
1 ACTATCGCAACG
5597328 CGAAATGGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 12 0.29
20 3 0.07
21 3 0.07
22 24 0.57
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (22 bp):
ACTATCGCAACGACAACTGTAG
Done.