Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 29 of 216
Found at i:8428743 original size:123 final size:123
Alignment explanation
Indices: 8428513--8428981 Score: 492
Period size: 123 Copynumber: 3.7 Consensus size: 123
8428503 CGTCGCAGTA
*
8428513 GATTAAAGTTGAAGGCAGCGAATCTTATTT-CTCTGGCGTTGCAGTGGAACAGATTAAAGCTAAA
1 GATTAAAGTTGAAGGCAGCGAATCTTATTTCCT-TGGCGTTACAGTGGAACAGATTAAAGCTAAA
* * ** * ** *
8428577 GGTAGCGACTCTT-ATTCTTTTGGCGTTGCAATTGAATATATTAAAGCTGAAGTAGAGCG
65 GGTAGCGAATCTTGTTTC-CCTAGCGTTGCAACGGAATAGATTAAAGCTGAAGTAGAGCG
* * *
8428636 GATTAAAGTTGAAGGCAGCGAATCATATTTCCTTGGCGTTACAGTGGAACATATTAAAGCTAAAT
1 GATTAAAGTTGAAGGCAGCGAATCTTATTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAG
** * *
8428701 GTAGCGAATCTTGTTTCCCTAGCGTTGCAACGGAGCAGATTAAAGCTGAAGGTAGCGAATCT
66 GTAGCGAATCTTGTTTCCCTAGCGTTGCAACGGAATAGATTAAAGCTGAA-GTA--G-AGCG
* ** * * *
8428763 TATCTCACTGTGCTGAATGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCT
1 GAT-T-AAAGT--TGAAGGCAGCGAATCTTATTTCCTTGGCGTTACAGTGGAACAGATTAAAGCT
* * * * * * *
8428828 AAAGGTAGCAAATATTATTTCCCTGGCGTTACAACGGAATAGATTAAAGTTGAAGCAGAGCG
62 AAAGGTAGCGAATCTTGTTTCCCTAGCGTTGCAACGGAATAGATTAAAGCTGAAGTAGAGCG
* ** * * * * * *
8428890 GATTAAAGTCGTGGGCAGCGAATCCTATCTCTTTGGCATTAAAGTGGAACAGATTAAAGCTTAAG
1 GATTAAAGTTGAAGGCAGCGAATCTTATTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAG
8428955 GTAGCGAATCTTGTTTCCCTAGCGTTG
66 GTAGCGAATCTTGTTTCCCTAGCGTTG
8428982 TAGCTGTAAT
Statistics
Matches: 280, Mismatches: 56, Indels: 20
0.79 0.16 0.06
Matches are distributed among these distances:
123 160 0.57
124 8 0.03
125 3 0.01
126 2 0.01
127 8 0.03
128 2 0.01
129 3 0.01
130 2 0.01
131 92 0.33
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (123 bp):
GATTAAAGTTGAAGGCAGCGAATCTTATTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAG
GTAGCGAATCTTGTTTCCCTAGCGTTGCAACGGAATAGATTAAAGCTGAAGTAGAGCG
Found at i:8428762 original size:51 final size:51
Alignment explanation
Indices: 8428631--8428765 Score: 144
Period size: 51 Copynumber: 2.6 Consensus size: 51
8428621 AGCTGAAGTA
* * * * * * **
8428631 GAGCGGATTAAAGTTGAAGGCAGCGAATCATATTTCCTTGGCGTTACAGTG
1 GAGCAGATTAAAGCTGAAGGTAGCGAATCTTATTTCCCTAGCGTTACAACG
* * * * * *
8428682 GAACATATTAAAGCTAAATGTAGCGAATCTTGTTTCCCTAGCGTTGCAACG
1 GAGCAGATTAAAGCTGAAGGTAGCGAATCTTATTTCCCTAGCGTTACAACG
8428733 GAGCAGATTAAAGCTGAAGGTAGCGAATCTTAT
1 GAGCAGATTAAAGCTGAAGGTAGCGAATCTTAT
8428766 CTCACTGTGC
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (51 bp):
GAGCAGATTAAAGCTGAAGGTAGCGAATCTTATTTCCCTAGCGTTACAACG
Found at i:8428836 original size:80 final size:80
Alignment explanation
Indices: 8428698--8428845 Score: 215
Period size: 80 Copynumber: 1.9 Consensus size: 80
8428688 ATTAAAGCTA
* * * * * *
8428698 AATGTAGCGAATCTTGTTTCCCTAGCGTTGCAACGGAGCAGATTAAAGCTGAAGGTAGCGAATCT
1 AATGCAGCGAATCTTATTTCCCTAGCGTTGCAACGGAACAGATTAAAGCTAAAGGTAGCAAATAT
8428763 TATCTCACTGTGCTG
66 TATCTCACTGTGCTG
* **
8428778 AATGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCAAATAT
1 AATGCAGCGAATCTTATTTCCCTAGCGTTGCAACGGAACAGATTAAAGCTAAAGGTAGCAAATAT
8428843 TAT
66 TAT
8428846 TTCCCTGGCG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 59 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (80 bp):
AATGCAGCGAATCTTATTTCCCTAGCGTTGCAACGGAACAGATTAAAGCTAAAGGTAGCAAATAT
TATCTCACTGTGCTG
Found at i:8428976 original size:254 final size:254
Alignment explanation
Indices: 8428522--8428981 Score: 688
Period size: 254 Copynumber: 1.8 Consensus size: 254
8428512 AGATTAAAGT
* * *
8428522 TGAAGGCAGCGAATCTTATTTCTCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGACT
1 TGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCAAAT
* ** * ** * * *
8428587 CTTATTCTTTTGGCGTTGCAATTGAATATATTAAAGCTGAAGTAGAGCGGATTAAAGTTGAAGGC
66 ATTATTCTCCTGGCGTTACAACGGAATAGATTAAAGCTGAAGCAGAGCGGATTAAAGTCGAAGGC
* * * * *
8428652 AGCGAATCATATTTCCTTGGCGTTACAGTGGAACATATTAAAGCTAAATGTAGCGAATCTTGTTT
131 AGCGAATCATATCTCCTTGGCATTAAAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTT
8428717 CCCTAGCGTTGCAACGGAGCAGATTAAAGCTGAAGGTAGCGAATCTTATCTCACTGTGC
196 CCCTAGCGTTGCAACGGAGCAGATTAAAGCTGAAGGTAGCGAATCTTATCTCACTGTGC
*
8428776 TGAATGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCAAAT
1 TGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCAAAT
* **
8428841 ATTATT-TCCCTGGCGTTACAACGGAATAGATTAAAGTTGAAGCAGAGCGGATTAAAGTCGTGGG
66 ATTATTCT-CCTGGCGTTACAACGGAATAGATTAAAGCTGAAGCAGAGCGGATTAAAGTCGAAGG
* * *
8428905 CAGCGAATCCTATCTCTTTGGCATTAAAGTGGAACAGATTAAAGCTTAAGGTAGCGAATCTTGTT
130 CAGCGAATCATATCTCCTTGGCATTAAAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTT
8428970 TCCCTAGCGTTG
195 TCCCTAGCGTTG
8428982 TAGCTGTAAT
Statistics
Matches: 181, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
253 1 0.01
254 180 0.99
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (254 bp):
TGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCAAAT
ATTATTCTCCTGGCGTTACAACGGAATAGATTAAAGCTGAAGCAGAGCGGATTAAAGTCGAAGGC
AGCGAATCATATCTCCTTGGCATTAAAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTT
CCCTAGCGTTGCAACGGAGCAGATTAAAGCTGAAGGTAGCGAATCTTATCTCACTGTGC
Found at i:8430384 original size:37 final size:37
Alignment explanation
Indices: 8430343--8430490 Score: 260
Period size: 37 Copynumber: 4.0 Consensus size: 37
8430333 TAGTTTTAGC
8430343 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
8430380 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
8430417 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
** *
8430454 TACACTTATCTGATCAAGTGATAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
8430491 AGCTTCAGCT
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:8430561 original size:45 final size:46
Alignment explanation
Indices: 8430452--8430575 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
8430442 GTGATAAGTG
*
8430452 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCCTCA
*
8430498 GCTACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCCTCA
*
8430543 GCTACACTTATCTGATCAAG-GA-CAAGTGATAAG
1 GCTACACTTATCTGATCAAGTGATAAAGTGATAAG
8430576 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 1 0.01
45 21 0.28
46 42 0.57
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCCTCA
Found at i:8438056 original size:46 final size:43
Alignment explanation
Indices: 8438004--8438237 Score: 235
Period size: 46 Copynumber: 5.6 Consensus size: 43
8437994 TTTGAGTACT
8438004 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG---TAGCTACACTTA
**
8438050 TCTGATCAAGAAACAAAGTGATAAGT-G--GT---TACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTAGCTACACTTA
**
8438087 TCTGATCAAGAAACAAAGTGATAA---GT-G--GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTAGCTACACTTA
*
8438124 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG--T-AGCTACACTTA
**
8438170 TCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG--TAGCTACACTTA
8438215 TCTGATCAAG-GAC-AAGTGATAAG
1 TCTGATCAAGTGACAAAGTGATAAG
8438238 AGGTCATATG
Statistics
Matches: 167, Mismatches: 9, Indels: 27
0.82 0.04 0.13
Matches are distributed among these distances:
35 1 0.01
36 1 0.01
37 61 0.37
40 3 0.02
41 1 0.01
43 11 0.07
44 1 0.01
45 22 0.13
46 66 0.40
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (43 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTAGCTACACTTA
Found at i:8438083 original size:37 final size:37
Alignment explanation
Indices: 8438042--8438152 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
8438032 TAGTTTTAGC
8438042 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
8438079 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
** *
8438116 TACACTTATCTGATCAAGTGATAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
8438153 AGCTTCAGCT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:8439803 original size:169 final size:169
Alignment explanation
Indices: 8439524--8439902 Score: 541
Period size: 169 Copynumber: 2.2 Consensus size: 169
8439514 GTGTTACAGT
* *
8439524 AGCGGAGCAGATTAAAGCTGAGGGCAGCGACTCTAATCTCCCTGACGTTAAGACTTGAAATGGCT
1 AGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTAATCTCCCTGACGTTAAGACTTGAAATAGCT
8439589 GAAGTGGAACGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGT-GAAACAGA
66 GAAGTGGAACGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTAG-AACAGA
* * *
8439653 TTAAAGCTAAAGGTAGCGAATTTTATTTCCCGGGCGTTGA
130 TTAAAGCTAAAGGTAGCGAATCTGATTTCCCGGGCATTGA
* * *
8439693 AGCGGAGCAGATTAAAGCTGAGGGCAACGAATC-ATTTCTCCCTAGA-GTTAATACTT-AGAATA
1 AGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTA-ATCTCCCT-GACGTTAAGACTTGA-AATA
*
8439755 GCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTAGAACA
63 GCTGAAGTGGAACGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTAGAACA
* * * *
8439820 GATTAAAGCTAAAGGTAGCGAGTCTGGTTTCCCTGGCATTGT
128 GATTAAAGCTAAAGGTAGCGAATCTGATTTCCCGGGCATTGA
* * * *
8439862 AGCGGAGTAGATTAAAGTTGAAGGCAGCGAATCTCATCTCC
1 AGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTAATCTCC
8439903 TTGGTGTTAA
Statistics
Matches: 186, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
168 2 0.01
169 181 0.97
170 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (169 bp):
AGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTAATCTCCCTGACGTTAAGACTTGAAATAGCT
GAAGTGGAACGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTAGAACAGAT
TAAAGCTAAAGGTAGCGAATCTGATTTCCCGGGCATTGA
Found at i:8440220 original size:89 final size:89
Alignment explanation
Indices: 8440069--8440241 Score: 240
Period size: 89 Copynumber: 1.9 Consensus size: 89
8440059 TCTTATCTCC
* * * *
8440069 CTGAGTTTACAGCGGAACAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGACAACGAAGCAA
1 CTGAGTTTACAGCGGAACAGACTGAAAACAACAAATCTTGTCTTCCTGTATAGACAACGAAGCAA
*
8440134 ATCGAAGACACCAGCCTTGACTCT
66 ATCGAAAACACCAGCCTTGACTCT
* * **
8440158 CTGAGTTTACAGCGGAGCAGACTGAAAACAACAAATCTTGTCTTCTTGTACTAG-CAGTGAAGCA
1 CTGAGTTTACAGCGGAACAGACTGAAAACAACAAATCTTGTCTTCCTGTA-TAGACAACGAAGCA
*
8440222 GATCGAAAACACCAGCCTTG
65 AATCGAAAACACCAGCCTTG
8440242 TCTCCTTGAG
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 71 0.97
90 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (89 bp):
CTGAGTTTACAGCGGAACAGACTGAAAACAACAAATCTTGTCTTCCTGTATAGACAACGAAGCAA
ATCGAAAACACCAGCCTTGACTCT
Found at i:8442477 original size:20 final size:21
Alignment explanation
Indices: 8442454--8442493 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8442444 GTCGATCCCA
*
8442454 TTTTT-CAAAATAAAAATAAT
1 TTTTTACAAAAAAAAAATAAT
8442474 TTTTTACAAAAAAAAAATAA
1 TTTTTACAAAAAAAAAATAA
8442494 AATAAAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TTTTTACAAAAAAAAAATAAT
Found at i:8444183 original size:21 final size:21
Alignment explanation
Indices: 8444157--8444200 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
8444147 TCTGGGGATA
8444157 AAAAATGGGTTAAATAATGTC
1 AAAAATGGGTTAAATAATGTC
8444178 AAAAATGGGTTAAATAATGTC
1 AAAAATGGGTTAAATAATGTC
8444199 AA
1 AA
8444201 TGTGAAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.05, G:0.18, T:0.27
Consensus pattern (21 bp):
AAAAATGGGTTAAATAATGTC
Found at i:8448531 original size:18 final size:20
Alignment explanation
Indices: 8448508--8448549 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
8448498 CTCATTATTG
*
8448508 TAATTATTTT-T-ATATTAA
1 TAATTATTTTATAATAGTAA
8448526 TAATTATTTTATAATAGTAA
1 TAATTATTTTATAATAGTAA
8448546 TAAT
1 TAAT
8448550 AAGCTTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 1 0.05
20 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TAATTATTTTATAATAGTAA
Found at i:8448546 original size:17 final size:18
Alignment explanation
Indices: 8448507--8448546 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
8448497 TCTCATTATT
*
8448507 GTAATTATTTTTATATTA
1 GTAATTATTTTTATAATA
*
8448525 ATAATTA-TTTTATAATA
1 GTAATTATTTTTATAATA
8448542 GTAAT
1 GTAAT
8448547 AATAAGCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
GTAATTATTTTTATAATA
Found at i:8460690 original size:28 final size:29
Alignment explanation
Indices: 8460631--8460688 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
8460621 AAATATTTTT
* * *
8460631 AATTAATAATTTTGTTATTTATATAAATA
1 AATTAATAATTATGATAGTTATATAAATA
8460660 AATTAATAATTAT-ATAGTTATAT-AATA
1 AATTAATAATTATGATAGTTATATAAATA
8460687 AA
1 AA
8460689 ATATATCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 6 0.23
28 8 0.31
29 12 0.46
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (29 bp):
AATTAATAATTATGATAGTTATATAAATA
Found at i:8460743 original size:17 final size:18
Alignment explanation
Indices: 8460717--8460755 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
8460707 TATCATTGTG
*
8460717 ATAAATATATTTATTT-T
1 ATAAAAATATTTATTTAT
8460734 ATAAAAATATTTATTTAT
1 ATAAAAATATTTATTTAT
8460752 ATAA
1 ATAA
8460756 TAAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAAAAATATTTATTTAT
Found at i:8461844 original size:20 final size:21
Alignment explanation
Indices: 8461800--8461844 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
8461790 AACCCTGCTA
* * *
8461800 TTTTGCTGTGGTTTTTTCATG
1 TTTTGATGTGGTTTTTCCATC
8461821 TTTTGATGTGGTTTTTCCA-C
1 TTTTGATGTGGTTTTTCCATC
8461841 TTTT
1 TTTT
8461845 TGCCATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.07, C:0.11, G:0.20, T:0.62
Consensus pattern (21 bp):
TTTTGATGTGGTTTTTCCATC
Found at i:8461846 original size:21 final size:21
Alignment explanation
Indices: 8461800--8461839 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8461790 AACCCTGCTA
* *
8461800 TTTTGCTGTGGTTTTTTCATG
1 TTTTGATGTGGTTTTTCCATG
8461821 TTTTGATGTGGTTTTTCCA
1 TTTTGATGTGGTTTTTCCA
8461840 CTTTTTGCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.10, G:0.23, T:0.60
Consensus pattern (21 bp):
TTTTGATGTGGTTTTTCCATG
Found at i:8463056 original size:7 final size:7
Alignment explanation
Indices: 8463044--8463073 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
8463034 GTAAGCAATT
8463044 AATTAAA
1 AATTAAA
8463051 AATTAAA
1 AATTAAA
8463058 AATTAAA
1 AATTAAA
8463065 AATTAAA
1 AATTAAA
8463072 AA
1 AA
8463074 ATACAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AATTAAA
Found at i:8463091 original size:10 final size:10
Alignment explanation
Indices: 8463068--8463105 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
8463058 AATTAAAAAT
8463068 TAAAAA-ATA
1 TAAAAATATA
*
8463077 CAAAAATATA
1 TAAAAATATA
*
8463087 TAAAAACATA
1 TAAAAATATA
8463097 TAAAAATAT
1 TAAAAATAT
8463106 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 5 0.21
10 19 0.79
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (10 bp):
TAAAAATATA
Found at i:8463112 original size:20 final size:20
Alignment explanation
Indices: 8463066--8463112 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
8463056 AAAATTAAAA
8463066 ATTAAAAAATACAAAAATAT
1 ATTAAAAAATACAAAAATAT
*
8463086 A-TAAAAACATATAAAAATAT
1 ATTAAAAA-ATACAAAAATAT
*
8463106 TTTAAAA
1 ATTAAAA
8463113 TTTTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 6 0.26
20 12 0.52
21 5 0.22
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (20 bp):
ATTAAAAAATACAAAAATAT
Found at i:8468521 original size:17 final size:19
Alignment explanation
Indices: 8468480--8468523 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
8468470 TATTGCTACT
8468480 ATTTTGTTATTATTGTATA
1 ATTTTGTTATTATTGTATA
*
8468499 A-CTTGTT-TTATTGT-TA
1 ATTTTGTTATTATTGTATA
8468515 ATTTTGTTA
1 ATTTTGTTA
8468524 CATTTTATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
16 3 0.14
17 12 0.57
18 5 0.24
19 1 0.05
ACGTcount: A:0.23, C:0.02, G:0.11, T:0.64
Consensus pattern (19 bp):
ATTTTGTTATTATTGTATA
Found at i:8469066 original size:31 final size:31
Alignment explanation
Indices: 8469008--8469066 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
8468998 AAACCCTAAA
* * *
8469008 GCCTTAATGTAAGAATAATTGCAAAGTTTAG
1 GCCTCAATGTAAGAACAACTGCAAAGTTTAG
* *
8469039 GCCTCAATGTGAGAACAACTGCCAAGTT
1 GCCTCAATGTAAGAACAACTGCAAAGTT
8469067 CAGGGACTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (31 bp):
GCCTCAATGTAAGAACAACTGCAAAGTTTAG
Found at i:8470087 original size:16 final size:15
Alignment explanation
Indices: 8470060--8470089 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8470050 TGGTAAAGTA
8470060 AATAAAAAAGTAAAT
1 AATAAAAAAGTAAAT
8470075 AATAAATAAAGTAAA
1 AATAAA-AAAGTAAA
8470090 ATATATAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (15 bp):
AATAAAAAAGTAAAT
Found at i:8474623 original size:28 final size:28
Alignment explanation
Indices: 8474583--8474638 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
8474573 GGCCAACTAG
8474583 TGTGGATCGATAGCTTGTGAAACGGCTT
1 TGTGGATCGATAGCTTGTGAAACGGCTT
8474611 TGTGGATCGATAGCTTGTGAAACGGCTT
1 TGTGGATCGATAGCTTGTGAAACGGCTT
8474639 ACACCTTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.14, G:0.32, T:0.32
Consensus pattern (28 bp):
TGTGGATCGATAGCTTGTGAAACGGCTT
Found at i:8474732 original size:12 final size:13
Alignment explanation
Indices: 8474708--8474736 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
8474698 GAGCTATAAC
8474708 TATTGCATTTATT
1 TATTGCATTTATT
8474721 TATTGC-TTTATT
1 TATTGCATTTATT
8474733 TATT
1 TATT
8474737 CATATATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:8487765 original size:30 final size:32
Alignment explanation
Indices: 8487729--8487787 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
8487719 TTATAGAGGG
* *
8487729 AAGCCC-TTTT-TTATCTAATAGTTACAAGGC
1 AAGCCCTTTTTCTTATCCAATAGTCACAAGGC
8487759 AAGCCCTTTTTCTTATCCAATAGTCACAA
1 AAGCCCTTTTTCTTATCCAATAGTCACAA
8487788 TTAATCTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.24
31 4 0.16
32 15 0.60
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.36
Consensus pattern (32 bp):
AAGCCCTTTTTCTTATCCAATAGTCACAAGGC
Found at i:8488936 original size:63 final size:62
Alignment explanation
Indices: 8488833--8488993 Score: 225
Period size: 63 Copynumber: 2.5 Consensus size: 62
8488823 TGCACCAGGT
* * *
8488833 GAATCAAATGCCTGCTTTGCAACATCCTTCTGCTCTAAGTTCTGTTTGTTGGAAGGAGGAGGA
1 GAATCAAATGCC-GCTTTGCAACATCCTTCTGCTCTAAGTTATGTTCGTTGGAAGCAGGAGGA
* *
8488896 GAATCAAATGCTCGCTTCGCAACATCCTTCTGTTGC-AAGTTATGTTCGTTGGAAGCAGGAGGA
1 GAATCAAATGC-CGCTTTGCAACATCCTTCTGCT-CTAAGTTATGTTCGTTGGAAGCAGGAGGA
*
8488959 GAATCAAATGCCCGCTTTGCAACATCCTTCCGCTC
1 GAATCAAATG-CCGCTTTGCAACATCCTTCTGCTC
8488994 ATAGCTGTGA
Statistics
Matches: 87, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
62 1 0.01
63 83 0.95
64 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (62 bp):
GAATCAAATGCCGCTTTGCAACATCCTTCTGCTCTAAGTTATGTTCGTTGGAAGCAGGAGGA
Found at i:8492191 original size:215 final size:217
Alignment explanation
Indices: 8491818--8492252 Score: 802
Period size: 215 Copynumber: 2.0 Consensus size: 217
8491808 ATCTTCAAAT
*
8491818 CTTATGAATGGTGCTGGAACGTTGTCTCCCTATGCAATTTAATAAACAATCAAAGTCATGAATAA
1 CTTATGAATGGTGCTGAAACGTTGTCTCCCTATGCAATTTAATAAACAATCAAAGTCATGAATAA
* * *
8491883 TCTTGAATTGGCAAAATGAATCATTTCTTCACCATTAAAACAAAGACAGCTCTTCAAATATTGTA
66 TCTTAAATTGGCAAAATGAATCATTTCTTCACCATTAAAACAAAAACAACTCTTCAAATATTGTA
8491948 ATGGAAGAACAATTAAGTGAGAATTAAAAAGAACAAGGCACAAAGCAAGAGATTTTCAAAAAATG
131 ATGGAAGAACAATTAAGTGAGAATTAAAAAGAACAAGGCACAAAGCAAGAGATTTTCAAAAAATG
8492013 ATATTTATCCAACCCCCTTCCC
196 ATATTTATCCAACCCCCTTCCC
*
8492035 CTTATGAATGGTGCTGAAACGTTGTCTCCCTATGCAATTTAATAAA-AGTCAAAGTCATGAATAA
1 CTTATGAATGGTGCTGAAACGTTGTCTCCCTATGCAATTTAATAAACAATCAAAGTCATGAATAA
8492099 TCTTAAATTGGCAAAATGAA-CATTTCTTCACCATTAAAACAAAAACAACTCTTCAAATATTGTA
66 TCTTAAATTGGCAAAATGAATCATTTCTTCACCATTAAAACAAAAACAACTCTTCAAATATTGTA
*
8492163 ATGGAAGAACAATTAAGTGAGAATTAAAAAGAACAAGGCGCAAAGCAAGAGATTTTCAAAAAATG
131 ATGGAAGAACAATTAAGTGAGAATTAAAAAGAACAAGGCACAAAGCAAGAGATTTTCAAAAAATG
8492228 ATATTTATCCAACCCCCTTCCC
196 ATATTTATCCAACCCCCTTCCC
8492250 CTT
1 CTT
8492253 CAGCAGTTTC
Statistics
Matches: 212, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
215 131 0.62
216 36 0.17
217 45 0.21
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (217 bp):
CTTATGAATGGTGCTGAAACGTTGTCTCCCTATGCAATTTAATAAACAATCAAAGTCATGAATAA
TCTTAAATTGGCAAAATGAATCATTTCTTCACCATTAAAACAAAAACAACTCTTCAAATATTGTA
ATGGAAGAACAATTAAGTGAGAATTAAAAAGAACAAGGCACAAAGCAAGAGATTTTCAAAAAATG
ATATTTATCCAACCCCCTTCCC
Found at i:8495608 original size:392 final size:392
Alignment explanation
Indices: 8494673--8495846 Score: 2212
Period size: 390 Copynumber: 3.0 Consensus size: 392
8494663 ATTTTTCAAT
8494673 CAGTAGCAATTCAGACTACTAGTCATATATCAATTAATAAGACCCTAAAACAAGAATTACATAAA
1 CAGTAGCAATTCAGACTACTAGTCATATATCAATTAATAAGACCCTAAAACAAGAATTACATAAA
8494738 CAAAGAAACAAGATAATTGAATCTGACATCCAATACACCAAATAGCATTGGTAATACAATTATAC
66 CAAAGAAACAAGATAATTGAATCTGACATCCAATACACCAAATAGCATTGGTAATACAATTATAC
*
8494803 ATACAAGAGAAAGTGAAAATGGACAATCCTATTATTGAACAACAAATCTCAAGTAAAACCTTTTT
131 ATACAAGAGAAAGTGAAAATGGACAAGCCTATTATTGAACAACAAATCTCAAGTAAAACCTTTTT
* * *
8494868 TTCCCTTACCATACATA-ATGGGAGGGTAGAAAACAACAGAACAGCAATTCCTTAATTAAAAGAG
196 TTCCCTTCCCATACTTACATGGGAGGGGAGAAAACAACAGAACAGCAATTCCTTAATTAAAAGAG
* * *
8494932 CCAATCAAAACAGACGATAAGATAATCCAAAAAGGGAATCCTATAAGCAAACCACATGGTCAAGA
261 TCAATCAAAAGAGATGATAAGATAATCCAAAAAGGGAATCCTATAAGCAAACCACATGGTCAAGA
*
8494997 AAGAGGCTTCTATCTTCGTTGCTCAAAACCAAAA-CCCCATGAAATAAACAAAAAGGAACAAGAA
326 AAGAGGCTTCTATCTTTGTTGCTCAAAACCAAAACCCCCATGAAATAAACAAAAAGGAACAAGAA
8495061 AA
391 AA
8495063 CAGTAGCAATTCAGACTACTAGTCATATATCAATTAATAAGACCCTAAAACAAGAATTACATAAA
1 CAGTAGCAATTCAGACTACTAGTCATATATCAATTAATAAGACCCTAAAACAAGAATTACATAAA
8495128 CAAAGAAACAAGATAATTGAATCTGACATCCAATACACCAAATAGCATTGGTAATACAATTATAC
66 CAAAGAAACAAGATAATTGAATCTGACATCCAATACACCAAATAGCATTGGTAATACAATTATAC
8495193 ATACAAGAGAAAGTGAAAATGGACAAGCCTATTATTGAACAACAAATCTCAAGTAAAACCTTTTT
131 ATACAAGAGAAAGTGAAAATGGACAAGCCTATTATTGAACAACAAATCTCAAGTAAAACCTTTTT
*
8495258 TTCCCTTCCCATACTTACATGGGAGGGGAGAAAGCAACAGAACAGCAATTCCTTAATTAAAAGAG
196 TTCCCTTCCCATACTTACATGGGAGGGGAGAAAACAACAGAACAGCAATTCCTTAATTAAAAGAG
8495323 TCAATCAAAAGAGATGATAAGATAATCCAAAAAGGGAATCCTATAAGCAAACCACATGGTCAAGA
261 TCAATCAAAAGAGATGATAAGATAATCCAAAAAGGGAATCCTATAAGCAAACCACATGGTCAAGA
8495388 AAGAGGCTTCTATCTTTGTTGCTCAAAACCAAAACCCCCATGAAATAAACAAAAAGGAACAAGAA
326 AAGAGGCTTCTATCTTTGTTGCTCAAAACCAAAACCCCCATGAAATAAACAAAAAGGAACAAGAA
8495453 AA
391 AA
8495455 CAGTAGCAATTCAGACTACTAGTCATATATCAATTAATAAGACCCTAAAACAAGAATTACATAAA
1 CAGTAGCAATTCAGACTACTAGTCATATATCAATTAATAAGACCCTAAAACAAGAATTACATAAA
*
8495520 CAAAGAAACAAGATAATTGAATCTGACATCCAATACACCAAATGGCATTGGTAATACAATTATAC
66 CAAAGAAACAAGATAATTGAATCTGACATCCAATACACCAAATAGCATTGGTAATACAATTATAC
*
8495585 ATACAAGAGAAAGTGAAAATGGACAAGCCTATTATTGAACAACAAATCTCAAGTAAAACCTTCTT
131 ATACAAGAGAAAGTGAAAATGGACAAGCCTATTATTGAACAACAAATCTCAAGTAAAACCTTTTT
*
8495650 TTCCCTTCCCATACTTACATGGGATGGGAGAAAACAACAGAACAGCAATTCCTTAATT-AAA-AG
196 TTCCCTTCCCATACTTACATGGGAGGGGAGAAAACAACAGAACAGCAATTCCTTAATTAAAAGAG
8495713 TCAATCAAAAGAGATGATAAGATAATCCAAAAAGGGAATCCTATAAGCAAACCACATGGTCAAGA
261 TCAATCAAAAGAGATGATAAGATAATCCAAAAAGGGAATCCTATAAGCAAACCACATGGTCAAGA
8495778 AAGAGGCTTCTATCTTTGTTGCTCAAAACCAAAACCCCCATGAAATAAACAAAAAGGAACAAGAA
326 AAGAGGCTTCTATCTTTGTTGCTCAAAACCAAAACCCCCATGAAATAAACAAAAAGGAACAAGAA
8495843 AA
391 AA
8495845 CA
1 CA
8495847 ATAGAGAAAA
Statistics
Matches: 769, Mismatches: 13, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
390 345 0.45
391 143 0.19
392 281 0.37
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.21
Consensus pattern (392 bp):
CAGTAGCAATTCAGACTACTAGTCATATATCAATTAATAAGACCCTAAAACAAGAATTACATAAA
CAAAGAAACAAGATAATTGAATCTGACATCCAATACACCAAATAGCATTGGTAATACAATTATAC
ATACAAGAGAAAGTGAAAATGGACAAGCCTATTATTGAACAACAAATCTCAAGTAAAACCTTTTT
TTCCCTTCCCATACTTACATGGGAGGGGAGAAAACAACAGAACAGCAATTCCTTAATTAAAAGAG
TCAATCAAAAGAGATGATAAGATAATCCAAAAAGGGAATCCTATAAGCAAACCACATGGTCAAGA
AAGAGGCTTCTATCTTTGTTGCTCAAAACCAAAACCCCCATGAAATAAACAAAAAGGAACAAGAA
AA
Found at i:8497806 original size:17 final size:18
Alignment explanation
Indices: 8497767--8497805 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
8497757 ATTACTTCTC
*
8497767 AAAAGCACTTTTGGGACA
1 AAAAGCACTTTTGAGACA
*
8497785 AAAAGCACTTTTGAGATA
1 AAAAGCACTTTTGAGACA
8497803 AAA
1 AAA
8497806 GTATTGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (18 bp):
AAAAGCACTTTTGAGACA
Found at i:8497925 original size:18 final size:19
Alignment explanation
Indices: 8497899--8497938 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
8497889 GCTTTTACTT
* *
8497899 AAAAGTACTTTTTGG-CCA
1 AAAAATACTTTCTGGCCCA
8497917 AAAAATACTTTCTGGCCCA
1 AAAAATACTTTCTGGCCCA
8497936 AAA
1 AAA
8497939 GTGCTTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (19 bp):
AAAAATACTTTCTGGCCCA
Found at i:8500692 original size:15 final size:15
Alignment explanation
Indices: 8500674--8500716 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8500664 ACCCTATGGC
8500674 GAACTCCCTTATGAT
1 GAACTCCCTTATGAT
* *
8500689 GAACTCTCC-TACGGT
1 GAACTC-CCTTATGAT
8500704 GAACTCCCTTATG
1 GAACTCCCTTATG
8500717 GCAAACTCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 2 0.09
15 19 0.83
16 2 0.09
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.30
Consensus pattern (15 bp):
GAACTCCCTTATGAT
Found at i:8500710 original size:30 final size:30
Alignment explanation
Indices: 8500666--8500803 Score: 111
Period size: 30 Copynumber: 4.7 Consensus size: 30
8500656 TGTGCATAAC
* * *
8500666 CCTATGGCGAACTCCCTTATGATGAACTCT
1 CCTACGGCGAACTCCCTTATGGTGAACTCA
* **
8500696 CCTACGGTGAACTCCCTTATGGCAAACTCA
1 CCTACGGCGAACTCCCTTATGGTGAACTCA
*
8500726 CCTATGGCGAACTCCC-TATGGTGAACTCA
1 CCTACGGCGAACTCCCTTATGGTGAACTCA
* ** * * *
8500755 CATGTGGCAAACT-ACTCTATGGAGAACTC-
1 CCTACGGCGAACTCCCT-TATGGTGAACTCA
* *
8500784 CCTATGGCGAACTCACTTAT
1 CCTACGGCGAACTCCCTTAT
8500804 CGTTGATCTG
Statistics
Matches: 87, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
28 1 0.01
29 34 0.39
30 52 0.60
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (30 bp):
CCTACGGCGAACTCCCTTATGGTGAACTCA
Found at i:8500723 original size:15 final size:14
Alignment explanation
Indices: 8500705--8500797 Score: 71
Period size: 15 Copynumber: 6.4 Consensus size: 14
8500695 TCCTACGGTG
8500705 AACTCCCTTATGGCA
1 AACTCCC-TATGGCA
*
8500720 AACTCACCTATGGCG
1 AACTC-CCTATGGCA
**
8500735 AACTCCCTATGGTG
1 AACTCCCTATGGCA
* *
8500749 AACTCACATGTGGCA
1 AACTC-CCTATGGCA
*
8500764 AACTACTCTATGG-A
1 AACT-CCCTATGGCA
*
8500778 GAACTCCCTATGGCG
1 -AACTCCCTATGGCA
8500793 AACTC
1 AACTC
8500798 ACTTATCGTT
Statistics
Matches: 62, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
14 26 0.42
15 33 0.53
16 3 0.05
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (14 bp):
AACTCCCTATGGCA
Found at i:8500763 original size:44 final size:44
Alignment explanation
Indices: 8500689--8500799 Score: 143
Period size: 44 Copynumber: 2.5 Consensus size: 44
8500679 CCCTTATGAT
* * * *
8500689 GAACTCTCCTACGGTGAACTCCCTTATGGCAAACTCAC-CTATGGC
1 GAACTC-CCTATGGTGAACTCACATATGGCAAACT-ACTCTATGGA
*
8500734 GAACTCCCTATGGTGAACTCACATGTGGCAAACTACTCTATGGA
1 GAACTCCCTATGGTGAACTCACATATGGCAAACTACTCTATGGA
*
8500778 GAACTCCCTATGGCGAACTCAC
1 GAACTCCCTATGGTGAACTCAC
8500800 TTATCGTTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
43 2 0.03
44 51 0.86
45 6 0.10
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (44 bp):
GAACTCCCTATGGTGAACTCACATATGGCAAACTACTCTATGGA
Found at i:8509731 original size:81 final size:81
Alignment explanation
Indices: 8509626--8509783 Score: 221
Period size: 81 Copynumber: 2.0 Consensus size: 81
8509616 ATCGAGTAAA
* * * *
8509626 TCTACTTATTTTTTTCTACAAAACAGCATATAACCAAACCGCTCGGGAAGTAATTACT-TTAGAA
1 TCTACCTATTTTTTTCTACAAAACAACATATAACAAAACCGCTCGGAAAGTAATTA-TGTTAGAA
8509690 ACAACTTAAAACAAAACC
65 AC-ACTTAAAACAAAACC
* *
8509708 TCTACCTA-TTTTTTCTACAAAACAACATATAACAAAACCGCTCGGAAAGTATTTATGTTAGACA
1 TCTACCTATTTTTTTCTACAAAACAACATATAACAAAACCGCTCGGAAAGTAATTATGTTAGAAA
*
8509772 CATTTAAAACAA
66 CACTTAAAACAA
8509784 GAGCAATTCA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 11 0.16
81 50 0.74
82 7 0.10
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
TCTACCTATTTTTTTCTACAAAACAACATATAACAAAACCGCTCGGAAAGTAATTATGTTAGAAA
CACTTAAAACAAAACC
Found at i:8521028 original size:17 final size:17
Alignment explanation
Indices: 8521006--8521039 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8520996 ATAAATGGAA
8521006 AGAGTGAAATTTGAACC
1 AGAGTGAAATTTGAACC
8521023 AGAGTGAAATTTGAACC
1 AGAGTGAAATTTGAACC
8521040 TATGCTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (17 bp):
AGAGTGAAATTTGAACC
Found at i:8521710 original size:29 final size:29
Alignment explanation
Indices: 8521667--8521763 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 29
8521657 GTACATAGTA
*
8521667 CCTGATAAATATAACATTGGCACAGAGTG
1 CCTGATAAATATAACATTGGCACAAAGTG
* * * * *
8521696 CCTGATAATTGTAACATCGGTACAAAGTA
1 CCTGATAAATATAACATTGGCACAAAGTG
* * * *
8521725 TCTGATAAATCTAACCATTGACACATAGTG
1 CCTGATAAATATAA-CATTGGCACAAAGTG
*
8521755 CCTAATAAA
1 CCTGATAAA
8521764 CACTAATGAC
Statistics
Matches: 51, Mismatches: 16, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
29 34 0.67
30 17 0.33
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (29 bp):
CCTGATAAATATAACATTGGCACAAAGTG
Found at i:8525699 original size:144 final size:144
Alignment explanation
Indices: 8525439--8525726 Score: 567
Period size: 144 Copynumber: 2.0 Consensus size: 144
8525429 ATAAAAAAAC
*
8525439 ACCAAGGAAGATTGCATTCAACCAAGCTAATAATTAAGGTAATTTAAACATTTTTCTTGTAATTT
1 ACCAAGGAAGATTGCATTCAACCAAGCTAATAATTAAGGTAATTTAAACATTTGTCTTGTAATTT
8525504 TTATAGATTTATGGTTATGGGAGCTTGATTTAGCTAGCTCATGTATCAATTTGATCAATTTTTAA
66 TTATAGATTTATGGTTATGGGAGCTTGATTTAGCTAGCTCATGTATCAATTTGATCAATTTTTAA
8525569 AGTTTTAGCAAGTT
131 AGTTTTAGCAAGTT
8525583 ACCAAGGAAGATTGCATTCAACCAAGCTAATAATTAAGGTAATTTAAACATTTGTCTTGTAATTT
1 ACCAAGGAAGATTGCATTCAACCAAGCTAATAATTAAGGTAATTTAAACATTTGTCTTGTAATTT
8525648 TTATAGATTTATGGTTATGGGAGCTTGATTTAGCTAGCTCATGTATCAATTTGATCAATTTTTAA
66 TTATAGATTTATGGTTATGGGAGCTTGATTTAGCTAGCTCATGTATCAATTTGATCAATTTTTAA
8525713 AGTTTTAGCAAGTT
131 AGTTTTAGCAAGTT
8525727 GCCATTATTT
Statistics
Matches: 143, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 143 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (144 bp):
ACCAAGGAAGATTGCATTCAACCAAGCTAATAATTAAGGTAATTTAAACATTTGTCTTGTAATTT
TTATAGATTTATGGTTATGGGAGCTTGATTTAGCTAGCTCATGTATCAATTTGATCAATTTTTAA
AGTTTTAGCAAGTT
Found at i:8534184 original size:57 final size:56
Alignment explanation
Indices: 8534123--8534241 Score: 150
Period size: 57 Copynumber: 2.1 Consensus size: 56
8534113 GGTGAAATGG
**
8534123 TGAAATGG-GAAAATAGGAAACATTTGGAAATGATTATAGTTTTCTCCAAAATGAAAA
1 TGAAATGGAG-AAAT-GGAAACATTTCAAAATGATTATAGTTTTCTCCAAAATGAAAA
** * *
8534180 TGAAAATGGAGAAATGGAGTCATTTCAAAATTATTATAGTTTTCTTCAAAATGAAAA
1 TG-AAATGGAGAAATGGAAACATTTCAAAATGATTATAGTTTTCTCCAAAATGAAAA
8534237 TGAAA
1 TGAAA
8534242 ATGAAAATGA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
56 3 0.06
57 40 0.74
58 10 0.19
59 1 0.02
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.30
Consensus pattern (56 bp):
TGAAATGGAGAAATGGAAACATTTCAAAATGATTATAGTTTTCTCCAAAATGAAAA
Found at i:8534238 original size:6 final size:6
Alignment explanation
Indices: 8534227--8534251 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8534217 AGTTTTCTTC
8534227 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
8534252 CCTGAAAAAT
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:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:8536154 original size:44 final size:45
Alignment explanation
Indices: 8536073--8536157 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 45
8536063 TTCGCTGTAT
* *
8536073 TGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAATATAA
1 TGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATATAA
***
8536118 TGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAAT
1 TGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAAT
8536158 GGAATAGAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 18 0.51
45 17 0.49
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.36
Consensus pattern (45 bp):
TGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATATAA
Found at i:8536340 original size:16 final size:16
Alignment explanation
Indices: 8536303--8536357 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
8536293 TTAATCATAT
*
8536303 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
8536319 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
8536334 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
8536352 -TAAAAT
1 TTAAAAT
8536358 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:8536350 original size:18 final size:18
Alignment explanation
Indices: 8536309--8536357 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
8536299 ATATTTAAAC
8536309 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
8536327 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
8536343 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
8536358 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:8536494 original size:156 final size:156
Alignment explanation
Indices: 8536217--8536693 Score: 909
Period size: 156 Copynumber: 3.1 Consensus size: 156
8536207 CCCTTAGCGT
*
8536217 AAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAG
1 AAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAG
8536282 TAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAA
8536347 TTTAATAAAATTCTTATAATTAGCAG
131 TTTAATAAAATTCTTATAATTAGCAG
*
8536373 AAAATTGTTTTGGTAAATGATTACTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAG
1 AAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAG
8536438 TAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAA
8536503 TTTAATAAAATTCTTATAATTAGCAG
131 TTTAATAAAATTCTTATAATTAGCAG
*
8536529 AAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATTAG
1 AAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAG
*
8536594 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAA
8536659 TTTAATAAAATTCTTATAATTAGCAG
131 TTTAATAAAATTCTTATAATTAGCAG
*
8536685 AAATTTGTT
1 AAAATTGTT
8536694 ATTGTTATTT
Statistics
Matches: 315, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 315 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (156 bp):
AAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAG
TAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAA
TTTAATAAAATTCTTATAATTAGCAG
Found at i:8536496 original size:16 final size:16
Alignment explanation
Indices: 8536459--8536513 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
8536449 TTAATCATAT
*
8536459 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
8536475 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
8536490 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
8536508 -TAAAAT
1 TTAAAAT
8536514 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:8536504 original size:137 final size:146
Alignment explanation
Indices: 8536243--8536811 Score: 728
Period size: 156 Copynumber: 3.8 Consensus size: 146
8536233 ATGATTATTG
8536243 TTATTGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAA
8536308 CATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAG
66 CATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAT-ATTAG-AG
*
8536373 AAAATTGTTTTGGTAAATGA
129 AAAATTG-TAT-GTAAATGA
8536393 TTACTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATA
1 TTA----T--TGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATA
8536458 TTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAAT
60 TTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAT-AT
*
8536523 TAGCAGAAAATTGTTTTGGTAAATGA
124 TAG-AGAAAATTG-TAT-GTAAATGA
*
8536549 TTATTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATTAGTAATAAATATTTTAATCATA
1 TTA----T--TGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATA
*
8536614 TTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAAT
60 TTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAT-AT
8536679 TAGCAG--AA----AT-T---TG-
124 TAG-AGAAAATTGTATGTAAATGA
* * *
8536692 TTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAA
* * * * ****
8536757 CAAAATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTCTTA
66 CATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
8536812 ATAATTCATA
Statistics
Matches: 398, Mismatches: 15, Indels: 25
0.91 0.03 0.06
Matches are distributed among these distances:
137 105 0.26
139 1 0.00
143 3 0.01
144 2 0.01
147 1 0.00
149 1 0.00
150 3 0.01
154 3 0.01
156 279 0.70
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (146 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAA
CATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATATTAGAGAA
AATTGTATGTAAATGA
Found at i:8536506 original size:18 final size:18
Alignment explanation
Indices: 8536465--8536513 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
8536455 ATATTTAAAC
8536465 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
8536483 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
8536499 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
8536514 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:8536609 original size:50 final size:52
Alignment explanation
Indices: 8536249--8536619 Score: 136
Period size: 51 Copynumber: 7.2 Consensus size: 52
8536239 ATTGTTATTG
*
8536249 TTATTTAAAT-TT-TAA-TAAGATTATTATTATCAGTAATAAATATTTTAATC
1 TTATTTAAATATTATAATTAAGATTATTATT-TTAGTAATAAATATTTTAATC
* * * *
8536299 ATATTTAAACATAATTATAATTAA-A-TA-TATTTTAATTA-AAATA-TATAAT-
1 TTATTT-AA-AT-ATTATAATTAAGATTATTATTTTAGTAATAAATATTTTAATC
* * * ** * * * * * *
8536348 TTAATAAAATTCTTATAATTAGCAGAAAATTGTTTTGGTAAATGATTACTGTTAATG
1 TTATTTAAA-TATTATAATTA--AGATTATTATTTTAGT-AATAAATA-TTTTAATC
*
8536405 TTATTTAAAT-TT-TAA-TAAGATTATTATTATCAGTAATAAATATTTTAATC
1 TTATTTAAATATTATAATTAAGATTATTATT-TTAGTAATAAATATTTTAATC
* * * *
8536455 ATATTTAAACATAATTATAATTAA-A-TA-TATTTTAATTA-AAATA-TATAAT-
1 TTATTT-AA-AT-ATTATAATTAAGATTATTATTTTAGTAATAAATATTTTAATC
* * * ** * * * * *
8536504 TTAATAAAATTCTTATAATTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATG
1 TTATTTAAA-TATTATAATTA--AGATTATTATTTTAGT-AATAAATATT-TTAATC
8536561 TTATTTAAAT-TT-TAA-TAAGATTATTATTATTAGTAATAAATATTTTAATC
1 TTATTTAAATATTATAATTAAGATTATTATT-TTAGTAATAAATATTTTAATC
*
8536611 ATATTTAAA
1 TTATTTAAA
8536620 CATAATTATT
Statistics
Matches: 229, Mismatches: 56, Indels: 72
0.64 0.16 0.20
Matches are distributed among these distances:
47 20 0.09
48 6 0.03
49 8 0.03
50 41 0.18
51 46 0.20
52 31 0.14
53 14 0.06
54 20 0.09
55 13 0.06
56 16 0.07
57 14 0.06
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (52 bp):
TTATTTAAATATTATAATTAAGATTATTATTTTAGTAATAAATATTTTAATC
Found at i:8536656 original size:18 final size:17
Alignment explanation
Indices: 8536635--8536669 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8536625 TTATTATTAA
*
8536635 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8536653 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8536670 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8536851 original size:137 final size:135
Alignment explanation
Indices: 8536573--8536851 Score: 312
Period size: 137 Copynumber: 2.0 Consensus size: 135
8536563 ATTTAAATTT
* * * * *
8536573 TAATAAGATTATTATTATTAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACAAAATTATTATTAAATA
* * * * *
8536638 TATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAGAAATTTGTTATTGTTATT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTA-CA-AAATTTGTAAATGTTACT
* **
8536703 TAAATTT
129 CAAATCA
8536710 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACAAAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACAAAATTATTATTAAATA
**** *
8536775 CATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT-C-ATATTCT-TAAATGAATTT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTT-ATAATTACAAAATT-TGTAAATG---TT
8536837 ACTCAAATCA
126 ACTCAAATCA
8536847 TAATA
1 TAATA
8536852 TATGATACTA
Statistics
Matches: 119, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
134 8 0.07
135 1 0.01
136 1 0.01
137 103 0.87
138 6 0.05
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (135 bp):
TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACAAAATTATTATTAAATA
CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTACAAAATTTGTAAATGTTACTCA
AATCA
Found at i:8547832 original size:32 final size:32
Alignment explanation
Indices: 8547791--8547852 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
8547781 CATCTATTTG
8547791 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
8547823 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
8547853 ACCAAGAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:8550895 original size:3 final size:3
Alignment explanation
Indices: 8550887--8550938 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
8550877 GTATATATGT
* *
8550887 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATCC ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
8550932 ATA ATA A
1 ATA ATA A
8550939 CAAAAATAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8554766 original size:8 final size:8
Alignment explanation
Indices: 8554753--8554785 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
8554743 GATTTTTAAA
8554753 TATTATTT
1 TATTATTT
8554761 TATTATTT
1 TATTATTT
8554769 TATTATTT
1 TATTATTT
8554777 TATT-TTT
1 TATTATTT
8554784 TA
1 TA
8554786 GTATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.20
8 20 0.80
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTATTT
Found at i:8558549 original size:14 final size:15
Alignment explanation
Indices: 8558526--8558562 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
8558516 ATAAAAACAT
8558526 AAAA-AAAATT-TAA
1 AAAATAAAATTATAA
*
8558539 AAAATAAAATTATGA
1 AAAATAAAATTATAA
8558554 AAAATAAAA
1 AAAATAAAA
8558563 ACTAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.19
14 6 0.29
15 11 0.52
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (15 bp):
AAAATAAAATTATAA
Found at i:8561729 original size:2 final size:2
Alignment explanation
Indices: 8561724--8561756 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8561714 TTTAAGGATT
8561724 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8561757 TACATATCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8562590 original size:96 final size:96
Alignment explanation
Indices: 8562480--8562710 Score: 304
Period size: 96 Copynumber: 2.4 Consensus size: 96
8562470 TGTTTATTAT
*
8562480 TTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGT-AATTGAATTAAAAATTAT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATT-AATTAAAAATT-T
*
8562544 TTA-AAAATCAGATAATGGTTTAGAGTTAAGGG
64 TTATAAAATCAGATAAGGGTTTAGAGTTAAGGG
** * *
8562576 TTTTTAAGGGAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAATTTTT
* * * * *
8562641 ATAAAATTATATTAGGGTTTAGTGTTTAGGG
66 ATAAAATCAGATAAGGGTTTAGAGTTAAGGG
* *
8562672 TTTTTAAGTAAAAACTCAAATAAATTAGGGTTTGGGGTT
1 TTTTTAAG-AAAAAATCAAATAAATTAGGGTTTAGGGTT
8562711 TAGGATTACT
Statistics
Matches: 116, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
95 4 0.03
96 83 0.72
97 29 0.25
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (96 bp):
TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAATTTTT
ATAAAATCAGATAAGGGTTTAGAGTTAAGGG
Found at i:8562973 original size:126 final size:126
Alignment explanation
Indices: 8562743--8563033 Score: 519
Period size: 126 Copynumber: 2.3 Consensus size: 126
8562733 TTGTTAATTT
*
8562743 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAAAAATTTCAAGTAGAC
* *
8562808 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGTTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
*
8562869 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAAAAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAAAAATTTCAAGTAGAC
8562934 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * *
8562995 AAAGAAGCTTCCTCGTGGACGCGCTTTTGCTACAGTAGC
1 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGC
8563034 GCATGTTTGG
Statistics
Matches: 158, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 158 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAAAAATTTCAAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:8568325 original size:22 final size:21
Alignment explanation
Indices: 8568300--8568348 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
8568290 TCTTTTAAAT
* *
8568300 AGAAATTTGAGAGGAATTTGAG
1 AGAAATTAGAGA-GAAATTGAG
8568322 AGAATATTAGAGAGAAATTGAG
1 AGAA-ATTAGAGAGAAATTGAG
8568344 AGAAA
1 AGAAA
8568349 GGATTTAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 16 0.67
23 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (21 bp):
AGAAATTAGAGAGAAATTGAG
Found at i:8568344 original size:10 final size:10
Alignment explanation
Indices: 8568300--8568348 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 10
8568290 TCTTTTAAAT
8568300 AGAAATTTGAG
1 AGAAA-TTGAG
*
8568311 AGGAATTTGAG
1 A-GAAATTGAG
8568322 AGAATATTAGAG
1 AGAA-ATT-GAG
8568334 AGAAATTGAG
1 AGAAATTGAG
8568344 AGAAA
1 AGAAA
8568349 GGATTTAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 11 0.33
11 12 0.36
12 10 0.30
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (10 bp):
AGAAATTGAG
Found at i:8570872 original size:10 final size:10
Alignment explanation
Indices: 8570857--8570889 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
8570847 AAGAAAGAAA
8570857 GAAAGGGAAG
1 GAAAGGGAAG
*
8570867 GAAAGGAAAG
1 GAAAGGGAAG
8570877 GAAAGGG-AG
1 GAAAGGGAAG
8570886 GAAA
1 GAAA
8570890 AATTATGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (10 bp):
GAAAGGGAAG
Found at i:8572188 original size:12 final size:12
Alignment explanation
Indices: 8572171--8572196 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8572161 CTAGGTCAAG
8572171 TTTAAGTAAAAT
1 TTTAAGTAAAAT
8572183 TTTAAGTAAAAT
1 TTTAAGTAAAAT
8572195 TT
1 TT
8572197 AAACTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (12 bp):
TTTAAGTAAAAT
Found at i:8582188 original size:12 final size:12
Alignment explanation
Indices: 8582149--8582182 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
8582139 AATTTCGATT
8582149 TCATCATCATCC
1 TCATCATCATCC
*
8582161 TCATCCTCATCC
1 TCATCATCATCC
8582173 TCATCATCAT
1 TCATCATCAT
8582183 TATCATAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.41, G:0.00, T:0.35
Consensus pattern (12 bp):
TCATCATCATCC
Found at i:8593911 original size:21 final size:22
Alignment explanation
Indices: 8593867--8593911 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
8593857 CTGTTGAGGA
*
8593867 TGTTGCGACACCCAAGCTTTGT
1 TGTTGCGACACCAAAGCTTTGT
*
8593889 TGTTGCGACACTAAAGC-TTGT
1 TGTTGCGACACCAAAGCTTTGT
8593910 TG
1 TG
8593912 AGGTGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.33
Consensus pattern (22 bp):
TGTTGCGACACCAAAGCTTTGT
Found at i:8595669 original size:21 final size:21
Alignment explanation
Indices: 8595630--8595669 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8595620 TTGTAGGTTA
*
8595630 CTGGAATTAAACCGTATATTT
1 CTGGAATTAAACCGGATATTT
* *
8595651 CTGGGATTAAAGCGGATAT
1 CTGGAATTAAACCGGATAT
8595670 GAATTGTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (21 bp):
CTGGAATTAAACCGGATATTT
Found at i:8600813 original size:44 final size:42
Alignment explanation
Indices: 8600705--8600819 Score: 112
Period size: 42 Copynumber: 2.7 Consensus size: 42
8600695 AGCTCGTACA
* *
8600705 ATGCCAAC-TCTCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCACAGACGTGGTCTTACACGTAATCAAATA-CG
**
8600747 ATGCCATTGT-ACAGACAG-GGTCTTACACGTAAATCTCAAATA-G
1 ATGCCAACGTCACAGAC-GTGGTCTTACACGT-AA--TCAAATACG
*
8600790 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCACAGACGTGGTCTTACACG
8600820 ATAACTCATA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
42 22 0.37
43 14 0.24
44 16 0.27
45 7 0.12
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCACAGACGTGGTCTTACACGTAATCAAATACG
Found at i:8602371 original size:43 final size:43
Alignment explanation
Indices: 8602302--8602465 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 43
8602292 TACCATAACA
* * * * *
8602302 ATGCC-ATATCCCAGATATGGTATTACATGTAATCTCGTATCG
1 ATGCCAATAGCCCAGACATGGTCTTACATGAAATCTCATATCG
* * * *
8602344 ATGCCAATAGCTCAGCCATGGTCTTACATGAAATCACATATTG
1 ATGCCAATAGCCCAGACATGGTCTTACATGAAATCTCATATCG
* *
8602387 ATGCAAAT-GTCCCAGACATGGTCTTACA-CAAATTCTCATATCG
1 ATGCCAATAG-CCCAGACATGGTCTTACATGAAA-TCTCATATCG
* * * * *
8602430 ATGTC-ATATCCCAGATATGGTCTTACACGTAATCTC
1 ATGCCAATAGCCCAGACATGGTCTTACATGAAATCTC
8602466 GGTAACCCTA
Statistics
Matches: 96, Mismatches: 21, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
42 32 0.33
43 64 0.67
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (43 bp):
ATGCCAATAGCCCAGACATGGTCTTACATGAAATCTCATATCG
Found at i:8619423 original size:21 final size:21
Alignment explanation
Indices: 8619389--8619429 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8619379 GGGGGAAAGT
*
8619389 GGGAAGAAGTAAAAGTTTTGA
1 GGGAAGAAGTAAAAGGTTTGA
8619410 GGGAA-AAGTAAAAAGGTTTG
1 GGGAAGAAGT-AAAAGGTTTG
8619430 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAGAAGTAAAAGGTTTGA
Found at i:8619484 original size:9 final size:9
Alignment explanation
Indices: 8619467--8619503 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
8619457 TATAGTTTGA
*
8619467 TATTTGAAT
1 TATTCGAAT
8619476 TATTCGAAT
1 TATTCGAAT
*
8619485 TATTCGAGT
1 TATTCGAAT
8619494 TATTCGAAT
1 TATTCGAAT
8619503 T
1 T
8619504 TGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:8619720 original size:14 final size:14
Alignment explanation
Indices: 8619701--8619740 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
8619691 TTGATTGCCA
8619701 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
8619715 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
8619729 GGAAAATGTTTT
1 GTAAAATGTTTT
8619741 ACTTTTTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:8623364 original size:4 final size:4
Alignment explanation
Indices: 8623355--8623420 Score: 69
Period size: 4 Copynumber: 15.2 Consensus size: 4
8623345 CAGCAGAGGG
*
8623355 AGAA AGAA AGAA AGAA AGAA AAAA AGAAA AGAA AGAAA AGAAA AGAA AGGAGA
1 AGAA AGAA AGAA AGAA AGAA AGAA AG-AA AGAA AG-AA AG-AA AGAA A-GA-A
*
8623408 AGAA AGAG AGAA A
1 AGAA AGAA AGAA A
8623421 AAATGTATGT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
4 35 0.65
5 17 0.31
6 2 0.04
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:8623386 original size:5 final size:5
Alignment explanation
Indices: 8623357--8623412 Score: 52
Period size: 5 Copynumber: 12.4 Consensus size: 5
8623347 GCAGAGGGAG
8623357 AAAG- AAAG- AAAG- AAAG- AAA-A AAAGA AAAG- AAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
* *
8623401 AAGGA GAAGA AA
1 AAAGA AAAGA AA
8623413 GAGAGAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
4 22 0.49
5 23 0.51
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:8623387 original size:21 final size:21
Alignment explanation
Indices: 8623357--8623423 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
8623347 GCAGAGGGAG
8623357 AAAG-AAAGAAAGAAAGAAAA
1 AAAGAAAAGAAAGAAAGAAAA
8623377 AAAGAAAAGAAAGAAAAGAAAA
1 AAAGAAAAGAAAG-AAAGAAAA
* *
8623399 GAAAGGAGAAGAAAGAGAGAAAA
1 -AAA-GAAAAGAAAGAAAGAAAA
8623422 AA
1 AA
8623424 TGTATGTTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.10
21 8 0.20
22 10 0.24
23 10 0.24
24 9 0.22
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
AAAGAAAAGAAAGAAAGAAAA
Found at i:8623391 original size:9 final size:9
Alignment explanation
Indices: 8623357--8623421 Score: 73
Period size: 9 Copynumber: 7.3 Consensus size: 9
8623347 GCAGAGGGAG
8623357 AAAGAAAG-
1 AAAGAAAGA
8623365 AAAGAAAGA
1 AAAGAAAGA
8623374 AAA-AAAGA
1 AAAGAAAGA
8623382 AAAGAAAGA
1 AAAGAAAGA
8623391 AAAGAAAAGA
1 AAAG-AAAGA
*
8623401 AAGGAGAAG-
1 AAAGA-AAGA
*
8623410 AAAGAGAGA
1 AAAGAAAGA
8623419 AAA
1 AAA
8623422 AATGTATGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
8 18 0.37
9 20 0.41
10 11 0.22
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:8623737 original size:100 final size:101
Alignment explanation
Indices: 8623550--8624023 Score: 533
Period size: 100 Copynumber: 4.6 Consensus size: 101
8623540 CTAATAATTA
8623550 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTATTGTGATTTTTTATGAATGTAAATTTTTTGTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTG-TTTATTGTGATTTTTTATGAATGT-AA-------TT
*** * *
8623615 TTTTTAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGA
57 TTAAAAATTATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
* ****
8623660 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAAATTT-CTTGTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTAAAAATT
* * *
8623724 TTTTTAAAATTATTTTGTTAGTAATTTTTTATTAGG
66 ATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
*
8623760 TTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTAAAAAAA
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTT--AAAAA
** * * * *
8623825 ACATTTTAAAGTTCTTTTGTTAGTATTTTATGATTATG
64 TTATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
* * * *
8623863 TTATAAATTGTTTCTGTTTATTTTAGTGTTTATTGTGATTTTGTATGAATTTAATTTTAAAAAAA
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTT---AAAA
8623928 ATTATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
63 ATTATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
* * * * *
8623967 GTATAAATT-ATT-TGTTTAGTTTAATGTGTATTGTGATTTGTTAT-AATGTAATTTTAA
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTAA
8624024 TTGTTTTTGA
Statistics
Matches: 317, Mismatches: 43, Indels: 20
0.83 0.11 0.05
Matches are distributed among these distances:
98 2 0.01
100 90 0.28
101 13 0.04
102 27 0.09
103 84 0.26
104 47 0.15
108 2 0.01
109 24 0.08
110 28 0.09
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.57
Consensus pattern (101 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTAAAAATT
ATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
Found at i:8623801 original size:50 final size:49
Alignment explanation
Indices: 8623654--8623805 Score: 141
Period size: 50 Copynumber: 3.0 Consensus size: 49
8623644 GTAATTTATG
8623654 ATTAGATTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTT
1 ATTAGATTATAAATT-TTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTT
* * * ** * *
8623704 A-T-GAATGTAAATTTCTTGTTTTTTTAAAATTA-T-TTTGTTAGTAATTTTTT
1 ATTAGATTATAAATTT-TTG--TGTTT-AGTTTAGTGTTTATT-GTGATTTTTT
*
8623754 ATTAGGTTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTT
1 ATTAGATTATAAATT-TTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTT
8623804 AT
1 AT
8623806 GAATGTAATT
Statistics
Matches: 77, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
47 1 0.01
48 12 0.16
49 10 0.13
50 32 0.42
51 10 0.13
52 11 0.14
53 1 0.01
ACGTcount: A:0.24, C:0.01, G:0.15, T:0.60
Consensus pattern (49 bp):
ATTAGATTATAAATTTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTT
Found at i:8623858 original size:203 final size:204
Alignment explanation
Indices: 8623550--8624023 Score: 580
Period size: 203 Copynumber: 2.3 Consensus size: 204
8623540 CTAATAATTA
*
8623550 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTATTGTGATTTTTTATGAATGTAAATTTTTTGTT
1 TTATAAATTATTTGTGTTTAGTTTAGTG-TTTATTGTGATTTTTTATGAATGT-AA----TT-TT
***** ** *
8623615 TTTTTAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTA-GATTATAAATTGTTTGTGTTT
59 AAAAAAAACATTTTAAAGTTATTTTGTTAGTAATTTATGATTATG-TTATAAATTGTTTCTGTTT
* **** *
8623679 AGTTTAGTGTTTATTGTGATTTTTTATGAATGTAAATTT-CTTGTTTTTTTAAAATTATTTTGTT
123 AGTTTAGTGTTTATTGTGATTTTGTATGAATGTAAATTTAAAAATTATTTTAAAATTATTTTGTT
* *
8623743 AGTAATTTTTTATTAGG
188 AGTAATTTATGATTAGG
8623760 TTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTAAAAAAA
1 TTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTAAAAAAA
* * *
8623825 ACATTTTAAAGTTCTTTTGTTAGTATTTTATGATTATGTTATAAATTGTTTCTGTTTATTTTAGT
66 ACATTTTAAAGTTATTTTGTTAGTAATTTATGATTATGTTATAAATTGTTTCTGTTTAGTTTAGT
* *
8623890 GTTTATTGTGATTTTGTATGAATTTAATTTTAAAAAAAATTATTTTAAAATTATTTTGTTAGTAA
131 GTTTATTGTGATTTTGTATGAATGTAAATTT---AAAAATTATTTTAAAATTATTTTGTTAGTAA
8623955 TTTATGATTAGG
193 TTTATGATTAGG
* * * *
8623967 GTATAAATTA-TT-TGTTTAGTTTAATGTGTATTGTGATTTGTTAT-AATGTAATTTTAA
1 TTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTAA
8624024 TTGTTTTTGA
Statistics
Matches: 233, Mismatches: 26, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
203 89 0.38
204 16 0.07
205 29 0.12
206 2 0.01
207 44 0.19
208 2 0.01
209 24 0.10
210 27 0.12
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.57
Consensus pattern (204 bp):
TTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTAAAAAAA
ACATTTTAAAGTTATTTTGTTAGTAATTTATGATTATGTTATAAATTGTTTCTGTTTAGTTTAGT
GTTTATTGTGATTTTGTATGAATGTAAATTTAAAAATTATTTTAAAATTATTTTGTTAGTAATTT
ATGATTAGG
Found at i:8623899 original size:103 final size:103
Alignment explanation
Indices: 8623550--8624023 Score: 546
Period size: 103 Copynumber: 4.6 Consensus size: 103
8623540 CTAATAATTA
8623550 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTATTGTGATTTTTTATGAATGTAAATTTTTTGTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTG-TTTATTGTGATTTTTTATGAATGT-AA----TT-TT
***** * * *
8623615 TTTTTAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGA
59 AAAAAAAATATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
* ****
8623660 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAAATTT---CTTG
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTAAAAAAA
* * * *
8623722 TTTTTTTAAAATTATTTTGTTAGTAATTTTTTATTAGG
66 ATATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
*
8623760 TTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTAAAAAAA
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTAAAAAAA
* * * * *
8623825 ACATTTTAAAGTTCTTTTGTTAGTATTTTATGATTATG
66 ATATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
* * * *
8623863 TTATAAATTGTTTCTGTTTATTTTAGTGTTTATTGTGATTTTGTATGAATTTAATTTTAAAAAAA
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTAAAAAAA
8623928 ATTATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
66 A-TATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
* * * * *
8623967 GTATAAATT-ATT-TGTTTAGTTTAATGTGTATTGTGATTTGTTAT-AATGTAATTTTAA
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTAA
8624024 TTGTTTTTGA
Statistics
Matches: 318, Mismatches: 42, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
100 90 0.28
101 12 0.04
102 27 0.08
103 94 0.30
104 41 0.13
108 2 0.01
109 24 0.08
110 28 0.09
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.57
Consensus pattern (103 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTAAAAAAA
ATATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
Found at i:8624318 original size:21 final size:20
Alignment explanation
Indices: 8624245--8624319 Score: 51
Period size: 21 Copynumber: 3.5 Consensus size: 20
8624235 AATATGAGGT
* * *
8624245 TTATTATATTTTTTATTGTAA
1 TTATAATATTATTTACTGT-A
* *
8624266 TTATATTATTATTCTACTATA
1 TTATAATATTATT-TACTGTA
**
8624287 TTTATTGTATTATTTACTGTA
1 -TTATAATATTATTTACTGTA
8624308 TGTATAATATTA
1 T-TATAATATTA
8624320 ATATGTTTGA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
20 1 0.02
21 25 0.61
22 15 0.37
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (20 bp):
TTATAATATTATTTACTGTA
Found at i:8626089 original size:6 final size:6
Alignment explanation
Indices: 8626078--8626117 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
8626068 TCTTGCACCC
* *
8626078 GAGCCA GAGCCA GAGCCA GAGCCA GATCCA GAGGCA GAGC
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGC
8626118 TACACTTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.30, G:0.35, T:0.03
Consensus pattern (6 bp):
GAGCCA
Found at i:8626616 original size:48 final size:48
Alignment explanation
Indices: 8626484--8626651 Score: 159
Period size: 48 Copynumber: 3.5 Consensus size: 48
8626474 ATGCAAAAAT
* *
8626484 ACAAATTTTGTAATTCAAATTAGATTAATTGCAAC----AAACTT-GA
1 ACAAACTTTGTAATTTAAATTAGATTAATTGCAACATTAAAACTTGGA
* * *
8626527 GACAAACTTTGT-ATTTATTTAATTGAGATTCATTGTAACATTAAAAATTGGA
1 -ACAAACTTTGTAATTTA---AATT-AGATTAATTGCAACATTAAAACTTGGA
* ** *
8626579 ACAAACTTTGTAATTTAAATTAAATTAATTGCAACATTAAAACGAGAA
1 ACAAACTTTGTAATTTAAATTAGATTAATTGCAACATTAAAACTTGGA
*
8626627 ACAAACTTTGTAATATAAATTAGAT
1 ACAAACTTTGTAATTTAAATTAGAT
8626652 ACATTGGAGT
Statistics
Matches: 100, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 4 0.04
44 10 0.10
46 4 0.04
47 12 0.12
48 43 0.43
49 4 0.04
51 16 0.16
52 7 0.07
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (48 bp):
ACAAACTTTGTAATTTAAATTAGATTAATTGCAACATTAAAACTTGGA
Found at i:8630470 original size:111 final size:114
Alignment explanation
Indices: 8630270--8630478 Score: 370
Period size: 111 Copynumber: 1.9 Consensus size: 114
8630260 TTTATAATAG
8630270 TTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAGATTACATTCATAACCTAACA
1 TTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAGATTACATTCATAACCTAACA
*
8630335 AATCACAATAAATATTAAACTAAACAAACAATTAACCTCATCATAAAAA
66 AATCACAATAAACATTAAACTAAACAAACAATTAACCTCATCATAAAAA
8630384 TTACTAACAAAATAACTTTAAAATAAATTAAAAAAT-A-AAAAA-ATTACATTCATAACCTAACA
1 TTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAGATTACATTCATAACCTAACA
* *
8630446 AATCACAATAAACATTAAATTAAACAAATAATT
66 AATCACAATAAACATTAAACTAAACAAACAATT
8630479 TATAATAGTT
Statistics
Matches: 92, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
111 50 0.54
112 5 0.05
113 1 0.01
114 36 0.39
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.26
Consensus pattern (114 bp):
TTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAGATTACATTCATAACCTAACA
AATCACAATAAACATTAAACTAAACAAACAATTAACCTCATCATAAAAA
Found at i:8641435 original size:2 final size:2
Alignment explanation
Indices: 8641428--8641462 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8641418 TCACACTCAT
8641428 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
8641463 TAAACACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8641763 original size:3 final size:3
Alignment explanation
Indices: 8641755--8641791 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
8641745 CCTTTTACCC
*
8641755 CAT CAT CAT CAT CAT CAT CAT TAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
8641792 GAGAACAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:8646164 original size:29 final size:27
Alignment explanation
Indices: 8646131--8646185 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
8646121 GTGATTAAAT
8646131 AAAATCGACA-CAAGCAGAATTTAAAAGAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAA
*
8646160 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
8646186 TAAGTCTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 10 0.42
30 4 0.17
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.15
Consensus pattern (27 bp):
AAAATCGACAGCAAGAAATTAAAAGAA
Found at i:8649656 original size:30 final size:28
Alignment explanation
Indices: 8649622--8649677 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
8649612 GTGATTAAAT
8649622 AAAATCGACA-CAAGCAGAATTTAAAAGAAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAAA
*
8649652 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
8649678 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 10 0.42
31 4 0.17
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (28 bp):
AAAATCGACAGCAAGAAATTAAAAGAAA
Found at i:8654082 original size:24 final size:24
Alignment explanation
Indices: 8654055--8654103 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8654045 GCAAGAAGAT
8654055 GATGTTATTCAAATATGCATAATA
1 GATGTTATTCAAATATGCATAATA
8654079 GATGTTATTCAAATATGCATAATA
1 GATGTTATTCAAATATGCATAATA
8654103 G
1 G
8654104 TCTTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (24 bp):
GATGTTATTCAAATATGCATAATA
Found at i:8675093 original size:21 final size:23
Alignment explanation
Indices: 8675051--8675093 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
8675041 TAATTAATTA
*
8675051 TAAACAGAAGCAAATCTCTTTTC
1 TAAACAGAAGCAAATATCTTTTC
*
8675074 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGCAAATATCTTTT
8675094 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATCTTTTC
Found at i:8675153 original size:20 final size:21
Alignment explanation
Indices: 8675130--8675169 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
8675120 AAGAGAAATA
8675130 CAAAAAAAAAATAG-ATCAAT
1 CAAAAAAAAAATAGAATCAAT
*
8675150 CAAAAAAGAAATAGAATCAA
1 CAAAAAAAAAATAGAATCAA
8675170 CAATTTGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.70, C:0.10, G:0.07, T:0.12
Consensus pattern (21 bp):
CAAAAAAAAAATAGAATCAAT
Found at i:8677966 original size:34 final size:34
Alignment explanation
Indices: 8677910--8678054 Score: 175
Period size: 34 Copynumber: 4.3 Consensus size: 34
8677900 GAAGAAATTA
* ** * *
8677910 TGCAAGAAAAGATGTGTTAACAGGAAAGATTTTC
1 TGCAAGAAATGATGCATGAACAGGAAAGATTTCC
* * *
8677944 TGTAAGAAATGATGCGTGAACAGGAAAGATTCCC
1 TGCAAGAAATGATGCATGAACAGGAAAGATTTCC
*
8677978 TGCAAGAAATGATGCATGAACATGAAAGA-TTCC
1 TGCAAGAAATGATGCATGAACAGGAAAGATTTCC
* *
8678011 TTGCAAGAAATGATGCATGAACATGAAAGATTCCC
1 -TGCAAGAAATGATGCATGAACAGGAAAGATTTCC
8678046 TGCAAGAAA
1 TGCAAGAAA
8678055 AGACAAGAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
33 3 0.03
34 92 0.94
35 3 0.03
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (34 bp):
TGCAAGAAATGATGCATGAACAGGAAAGATTTCC
Found at i:8678334 original size:14 final size:13
Alignment explanation
Indices: 8678307--8678344 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
8678297 GTTTTCCAAA
8678307 TTTTCAAATTAAG
1 TTTTCAAATTAAG
8678320 TTTTCAAACTTAAG
1 TTTTCAAA-TTAAG
8678334 TTTTCAAATTA
1 TTTTCAAATTA
8678345 CAAATATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:8680290 original size:17 final size:17
Alignment explanation
Indices: 8680268--8680311 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
8680258 AGTTGTCTTA
8680268 CTTGCAATGCAAACGTT
1 CTTGCAATGCAAACGTT
* *
8680285 CTTGCAATGTAAATGTT
1 CTTGCAATGCAAACGTT
*
8680302 CTTACAATGC
1 CTTGCAATGC
8680312 CACTTATCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (17 bp):
CTTGCAATGCAAACGTT
Found at i:8683045 original size:18 final size:18
Alignment explanation
Indices: 8683012--8683046 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8683002 AGATGTAACC
*
8683012 GAGAAAGAAGATGCAGTT
1 GAGAAAGAAGAGGCAGTT
*
8683030 GAGAAAGAAGGGGCAGT
1 GAGAAAGAAGAGGCAGT
8683047 GAATGTGGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.06, G:0.40, T:0.11
Consensus pattern (18 bp):
GAGAAAGAAGAGGCAGTT
Found at i:8687961 original size:16 final size:18
Alignment explanation
Indices: 8687922--8687965 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
8687912 ACTTGAGAAA
8687922 AATTGAGAGAATTAAGAG
1 AATTGAGAGAATTAAGAG
* *
8687940 AGTTGAGAG-TTTAA-AG
1 AATTGAGAGAATTAAGAG
8687956 AATTGAGAGA
1 AATTGAGAGA
8687966 GTTGGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 10 0.45
17 4 0.18
18 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (18 bp):
AATTGAGAGAATTAAGAG
Found at i:8690072 original size:20 final size:20
Alignment explanation
Indices: 8690047--8690084 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
8690037 AGTTGATACA
8690047 TGGTACTCTCTTCCGTTTTT
1 TGGTACTCTCTTCCGTTTTT
8690067 TGGTACTCTCTTCCGTTT
1 TGGTACTCTCTTCCGTTT
8690085 ATGTATGCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.26, G:0.16, T:0.53
Consensus pattern (20 bp):
TGGTACTCTCTTCCGTTTTT
Found at i:8692729 original size:30 final size:31
Alignment explanation
Indices: 8692693--8692776 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 31
8692683 TTTAAAAGTC
* **
8692693 AATTTTTTTTGCCAAATTTTAAGGGGTC-AA
1 AATTTTTTTTACCAAATTTTAAGGGACCTAA
*
8692723 AA-TTTTTTTACCACATTTTAAGGGACCTAA
1 AATTTTTTTTACCAAATTTTAAGGGACCTAA
* *
8692753 AATTTTTTTTCTCCAACTTTTAAG
1 AATTTTTTTT-ACCAAATTTTAAG
8692777 AATCTAAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 21 0.48
30 6 0.14
31 7 0.16
32 10 0.23
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (31 bp):
AATTTTTTTTACCAAATTTTAAGGGACCTAA
Found at i:8694269 original size:205 final size:203
Alignment explanation
Indices: 8693888--8694296 Score: 719
Period size: 203 Copynumber: 2.0 Consensus size: 203
8693878 AGTGTAATCC
* *
8693888 TTTTAGGAAGTGTAAGTATTTAGACTTTGAAAAAAAATTTAAGGACATTTTAGGAGTTCAATAGT
1 TTTTAGGAAGTGTAAGTATTTAGACTTAGAAAAAAAAATTAAGGACATTTTAGGAGTTCAATAGT
*
8693953 TTGAAAACATTTGAAACTTGAGATAAATGTTAATTTAATGAATATAGTTTAAGGCAGGACATGCT
66 TTGAAAACATTTGAAACTTGAGATAAATGTTAATTTAATGAATATAGTTTAAGCCAGGACATGCT
8694018 CTATAGTTGGCATAATTGATGTGAGAGCTGATTGTTATAGGATGATGGGCCACGTGTCACTCTCA
131 CTATAGTTGGCATAATTGATGTGAGAGCTGATTGTTATAGGATGATGGGCCACGTGTCACTCTCA
8694083 TATTAGCT
196 TATTAGCT
*
8694091 TTTTAGGGAGTGTAAGTATTTAGACTTAGAAAAAAAAATTAAGGACATTTTAGGAGTTCAATAGT
1 TTTTAGGAAGTGTAAGTATTTAGACTTAGAAAAAAAAATTAAGGACATTTTAGGAGTTCAATAGT
* *
8694156 TTGAAAACATTTGAAACTTGAGATAAATGTTAATTTGATGGAAATATAGTTTAAGCCGGGACATG
66 TTGAAAACATTTGAAACTTGAGATAAATGTTAATTTAAT-G-AATATAGTTTAAGCCAGGACATG
* *
8694221 CTCTATAGTTGGCGTAATTGATGTGAGAGCTGATTGTTATTGGATGATGGGCCACGTGTCACTCT
129 CTCTATAGTTGGCATAATTGATGTGAGAGCTGATTGTTATAGGATGATGGGCCACGTGTCACTCT
*
8694286 CGTATTAGCT
194 CATATTAGCT
8694296 T
1 T
8694297 GAGGAGCGGC
Statistics
Matches: 195, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
203 100 0.51
204 1 0.01
205 94 0.48
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (203 bp):
TTTTAGGAAGTGTAAGTATTTAGACTTAGAAAAAAAAATTAAGGACATTTTAGGAGTTCAATAGT
TTGAAAACATTTGAAACTTGAGATAAATGTTAATTTAATGAATATAGTTTAAGCCAGGACATGCT
CTATAGTTGGCATAATTGATGTGAGAGCTGATTGTTATAGGATGATGGGCCACGTGTCACTCTCA
TATTAGCT
Found at i:8696799 original size:41 final size:41
Alignment explanation
Indices: 8696748--8696975 Score: 368
Period size: 41 Copynumber: 5.6 Consensus size: 41
8696738 TAGGCTTAGC
* *
8696748 GCCTAACAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
* *
8696789 GCCTAGCAGGCTAAGTGTCGGTGAACTGAATCAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
*
8696830 GCCTAGCAGGCTAAGTGCC-GTGATCTGAATCAGGCTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
* * *
8696870 GCCTAGCAGACTAAGTGCCGATGAGCTGAATCAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
*
8696911 GCCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
8696952 GCCTAGCAGGCTAAGTGCCGGTGA
1 GCCTAGCAGGCTAAGTGCCGGTGA
8696976 ATTTGTTTAA
Statistics
Matches: 170, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 37 0.22
41 133 0.78
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (41 bp):
GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
Found at i:8696884 original size:81 final size:81
Alignment explanation
Indices: 8696748--8696976 Score: 377
Period size: 81 Copynumber: 2.8 Consensus size: 81
8696738 TAGGCTTAGC
* *
8696748 GCCTAACAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGTCGGTGA
1 GCCTAGCAGGCTAAGTGCC-GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGA
8696813 ACTGAATCAGGTTATAA
65 ACTGAATCAGGTTATAA
* * *
8696830 GCCTAGCAGGCTAAGTGCCGTGATCTGAATCAGGCTATAAGCCTAGCAGACTAAGTGCCGATGAG
1 GCCTAGCAGGCTAAGTGCCGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAA
8696895 CTGAATCAGGTTATAA
66 CTGAATCAGGTTATAA
* *
8696911 GCCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGA
1 GCCTAGCAGGCTAAGTG-CCGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGA
8696976 A
65 A
8696977 TTTGTTTAAA
Statistics
Matches: 136, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
81 75 0.55
82 61 0.45
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (81 bp):
GCCTAGCAGGCTAAGTGCCGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAA
CTGAATCAGGTTATAA
Found at i:8696956 original size:122 final size:122
Alignment explanation
Indices: 8696748--8696971 Score: 394
Period size: 122 Copynumber: 1.8 Consensus size: 122
8696738 TAGGCTTAGC
* * *
8696748 GCCTAACAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGTCGGTGA
1 GCCTAACAGACTAAGTGCCGATGAGCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGTCGGTGA
8696813 ACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGTGATCTGAATCAGGCTATAA
66 ACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGTGATCTGAATCAGGCTATAA
* *
8696870 GCCTAGCAGACTAAGTGCCGATGAGCTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGTCGGTGA
1 GCCTAACAGACTAAGTGCCGATGAGCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGTCGGTGA
*
8696935 TCTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCG
66 ACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCG
8696972 GTGAATTTGT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
122 96 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (122 bp):
GCCTAACAGACTAAGTGCCGATGAGCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGTCGGTGA
ACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGTGATCTGAATCAGGCTATAA
Found at i:8697218 original size:34 final size:35
Alignment explanation
Indices: 8697150--8697218 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
8697140 TGTTGGATAT
* *
8697150 ATATATGTATGCATTCGGCATATGTGGATTATAAGA
1 ATATATG-ATGCATTCGGCACATGTAGATTATAAGA
8697186 ATATATG-TGCATTCGGCACATGTAG-TTGATAAG
1 ATATATGATGCATTCGGCACATGTAGATT-ATAAG
8697219 TATAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 2 0.07
34 21 0.70
36 7 0.23
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (35 bp):
ATATATGATGCATTCGGCACATGTAGATTATAAGA
Found at i:8706307 original size:30 final size:30
Alignment explanation
Indices: 8706272--8706348 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
8706262 TAATTGAATA
8706272 AATTCGGCAATGTATAACCAAATACAAATC
1 AATTCGGCAATGTATAACCAAATACAAATC
* * *
8706302 AATTCGGCAATGTATATCCATATACGAATC
1 AATTCGGCAATGTATAACCAAATACAAATC
*
8706332 AATTCAGCAATGTATAA
1 AATTCGGCAATGTATAA
8706349 AACATATACA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (30 bp):
AATTCGGCAATGTATAACCAAATACAAATC
Found at i:8711960 original size:25 final size:25
Alignment explanation
Indices: 8711926--8711975 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
8711916 GAAATGAGAA
8711926 GAAAAGCATAAGGATACCCATTGTT
1 GAAAAGCATAAGGATACCCATTGTT
8711951 GAAAAGCATAAGGATACCCATTGTT
1 GAAAAGCATAAGGATACCCATTGTT
8711976 AGGGTAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (25 bp):
GAAAAGCATAAGGATACCCATTGTT
Found at i:8716104 original size:8 final size:7
Alignment explanation
Indices: 8716075--8716104 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
8716065 TTGATGTTAT
8716075 GATTTTG
1 GATTTTG
8716082 GATTTTG
1 GATTTTG
8716089 GATTTTG
1 GATTTTG
8716096 GAGTTTTG
1 GA-TTTTG
8716104 G
1 G
8716105 TATTACTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.73
8 6 0.27
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.53
Consensus pattern (7 bp):
GATTTTG
Found at i:8719774 original size:6 final size:6
Alignment explanation
Indices: 8719757--8719791 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
8719747 TTTGGACTCA
8719757 GTTTTCG GTTTTG GTTTT- GTTTTG GTTTTG GTTTT
1 GTTTT-G GTTTTG GTTTTG GTTTTG GTTTTG GTTTT
8719792 TGTGTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.00, C:0.03, G:0.29, T:0.69
Consensus pattern (6 bp):
GTTTTG
Found at i:8719780 original size:11 final size:12
Alignment explanation
Indices: 8719757--8719791 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
8719747 TTTGGACTCA
8719757 GTTTTCGGTTTTG
1 GTTTT-GGTTTTG
8719770 GTTTT-GTTTTG
1 GTTTTGGTTTTG
8719781 GTTTTGGTTTT
1 GTTTTGGTTTT
8719792 TGTGTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.52
12 5 0.24
13 5 0.24
ACGTcount: A:0.00, C:0.03, G:0.29, T:0.69
Consensus pattern (12 bp):
GTTTTGGTTTTG
Found at i:8719785 original size:17 final size:18
Alignment explanation
Indices: 8719757--8719791 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
8719747 TTTGGACTCA
8719757 GTTTTCGGTTTTGGTTTT
1 GTTTTCGGTTTTGGTTTT
8719775 GTTTT-GGTTTTGGTTTT
1 GTTTTCGGTTTTGGTTTT
8719792 TGTGTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.00, C:0.03, G:0.29, T:0.69
Consensus pattern (18 bp):
GTTTTCGGTTTTGGTTTT
Found at i:8725341 original size:39 final size:39
Alignment explanation
Indices: 8725266--8725343 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
8725256 CATATTACAT
* * *
8725266 ATATAATCACCTAACATACAAGTATATATCACAATACTC
1 ATATAATCACATAACATACAAGCATATATCAAAATACTC
** *
8725305 ATATAATCACATAACATTTAAGCATATGTCAAAATACTC
1 ATATAATCACATAACATACAAGCATATATCAAAATACTC
8725344 GAAAACATCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (39 bp):
ATATAATCACATAACATACAAGCATATATCAAAATACTC
Found at i:8728084 original size:7 final size:7
Alignment explanation
Indices: 8728072--8728105 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
8728062 TGTACATATA
8728072 GGTTTAG
1 GGTTTAG
8728079 GGTTTAG
1 GGTTTAG
8728086 GGTTTAG
1 GGTTTAG
8728093 GGTTTAG
1 GGTTTAG
8728100 GGTTTA
1 GGTTTA
8728106 AGGTACTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:8729471 original size:21 final size:22
Alignment explanation
Indices: 8729445--8729504 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
8729435 ATAGCAGATT
*
8729445 CAGATCATGCTTAACA-AATAA
1 CAGATCATACTTAACATAATAA
*
8729466 CAGATCGTACTTAACATAAT-A
1 CAGATCATACTTAACATAATAA
* * *
8729487 CAAATTATACTTAGCATA
1 CAGATCATACTTAACATA
8729505 CAACTTATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 29 0.91
22 3 0.09
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.28
Consensus pattern (22 bp):
CAGATCATACTTAACATAATAA
Found at i:8759825 original size:60 final size:60
Alignment explanation
Indices: 8759757--8759878 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 60
8759747 AGCATTACTT
*
8759757 ATGATATCTGAATGTATGTACTATTAATTGCATAATTGCATGACTTATTTTGTATGTTGC
1 ATGATATCTGAATGTATGTACTATTAATTGCATAATTGCATGACATATTTTGTATGTTGC
*
8759817 ATGATATCTGAATGTATGTACTATTAATTGCATAATTGCGTGACATATTTTGTATGTTGC
1 ATGATATCTGAATGTATGTACTATTAATTGCATAATTGCATGACATATTTTGTATGTTGC
8759877 AT
1 AT
8759879 TGCGTTGAGG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (60 bp):
ATGATATCTGAATGTATGTACTATTAATTGCATAATTGCATGACATATTTTGTATGTTGC
Found at i:8768569 original size:19 final size:20
Alignment explanation
Indices: 8768535--8768574 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8768525 TTTTTTTCTC
8768535 TTTTTGAAGTTGTATGGAAAA
1 TTTTTGAAG-TGTATGGAAAA
*
8768556 TTTTTGAA-TGTATGTAAAA
1 TTTTTGAAGTGTATGGAAAA
8768575 AAAATTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (20 bp):
TTTTTGAAGTGTATGGAAAA
Found at i:8769725 original size:3 final size:3
Alignment explanation
Indices: 8769717--8769803 Score: 174
Period size: 3 Copynumber: 29.0 Consensus size: 3
8769707 CGATGTTCCC
8769717 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
8769765 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
8769804 AAAATTGAGG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:8773139 original size:28 final size:28
Alignment explanation
Indices: 8773108--8773161 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
8773098 ACTAAAAATT
* *
8773108 TTACTTTTTTGTTTCTCTCCTCTACTCC
1 TTACGTTTTTGTTTCCCTCCTCTACTCC
8773136 TTACGTTTTTGTTTCCCTCCTCTACT
1 TTACGTTTTTGTTTCCCTCCTCTACT
8773162 TCTTCTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.07, C:0.31, G:0.06, T:0.56
Consensus pattern (28 bp):
TTACGTTTTTGTTTCCCTCCTCTACTCC
Found at i:8777512 original size:28 final size:28
Alignment explanation
Indices: 8777418--8777520 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
8777408 GTGTTATATG
*
8777418 TATAATATATTTGTGTGGGTCTGTTATATACA
1 TATAATATATATGTGT-GGT-T-TTAT-TACA
* * ** *
8777450 TAGTACAAATATATGTGTGGTTCTGCTATA
1 TA-TA-ATATATATGTGTGGTTTTATTACA
*
8777480 CATAATATATATGTGTGGTTTTATTACA
1 TATAATATATATGTGTGGTTTTATTACA
8777508 TATAATATATATG
1 TATAATATATATG
8777521 CAGTTATAAG
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
28 31 0.55
29 2 0.04
30 4 0.07
31 1 0.02
32 3 0.05
33 5 0.09
34 10 0.18
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.45
Consensus pattern (28 bp):
TATAATATATATGTGTGGTTTTATTACA
Found at i:8790647 original size:27 final size:26
Alignment explanation
Indices: 8790591--8790663 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 26
8790581 AAAAACGTAC
* *
8790591 AAAATATATACATGTACATATATAAA
1 AAAATATATACATATACATAGATAAA
*
8790617 AAAATTATATACATATATATAGATTATAA
1 AAAA-TATATACATATACATAGA-TA-AA
*
8790646 AAAAGATAATTACATATA
1 AAAATAT-A-TACATATA
8790664 TATATAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 4 0.11
27 15 0.39
28 4 0.11
29 7 0.18
30 8 0.21
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAATATATACATATACATAGATAAA
Found at i:8790647 original size:30 final size:30
Alignment explanation
Indices: 8790611--8790667 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8790601 CATGTACATA
*
8790611 TATAAAAAA-ATTATATACATATATATAGAT
1 TATAAAAAAGATAAT-TACATATATATAGAT
8790641 TATAAAAAAGATAATTACATATATATA
1 TATAAAAAAGATAATTACATATATATA
8790668 TAAAAACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (30 bp):
TATAAAAAAGATAATTACATATATATAGAT
Found at i:8790853 original size:17 final size:17
Alignment explanation
Indices: 8790831--8790874 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
8790821 TAGGGAATAA
8790831 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
8790848 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
8790865 -ATATGTATAT
1 AAAATGTATAT
8790875 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:8791936 original size:44 final size:44
Alignment explanation
Indices: 8791888--8791975 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
8791878 TGGAGAGAGT
* *
8791888 ATTTGCCATCTTTAATCTGC-CCCCTGCAACTTCAGGGGGATAAG
1 ATTTGCCATC-TCAATCTGCTCCCCTGCAACTTCAGGGAGATAAG
** * *
8791932 ATTTGCTTTCTCAGTCTGCTCCTCTGCAACTTCAGGGAGATAAG
1 ATTTGCCATCTCAATCTGCTCCCCTGCAACTTCAGGGAGATAAG
8791976 GCTATATGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
43 7 0.19
44 30 0.81
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (44 bp):
ATTTGCCATCTCAATCTGCTCCCCTGCAACTTCAGGGAGATAAG
Done.